Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 87 of 113
Found at i:18119712 original size:117 final size:117
Alignment explanation
Indices: 18119506--18119741 Score: 391
Period size: 117 Copynumber: 2.0 Consensus size: 117
18119496 TCCCAGACAA
* *
18119506 AATATTACTTATCTCATAAAAATCAGCCAAAAGTATACCACAAGAGATACCATCCACCGAATTAT
1 AATATTACTTATCTCATAAAAATCAGCCAAAAATATACCACAAAAGATACCATCCACCGAATTAT
* * *
18119571 GTACTTTAATTTAACGCCTTGATTCTTGAGTACTTCAGTCAAATTTAAGGCT
66 GTACTTCAATTTAACGCCTTGATTCTTGAGTACTTCAATCAAATATAAGGCT
* *
18119623 AATATTACTTATCTCATAAAAATCAGCCAAAAATATACCACAAAAGATACCATCCACTGAATTCT
1 AATATTACTTATCTCATAAAAATCAGCCAAAAATATACCACAAAAGATACCATCCACCGAATTAT
* *
18119688 GTACTTCCATTTAATGCCTTGATTCTTGAGTACTTCAATCAAATATAAGGCT
66 GTACTTCAATTTAACGCCTTGATTCTTGAGTACTTCAATCAAATATAAGGCT
18119740 AA
1 AA
18119742 CTTTCTTGGC
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 110 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (117 bp):
AATATTACTTATCTCATAAAAATCAGCCAAAAATATACCACAAAAGATACCATCCACCGAATTAT
GTACTTCAATTTAACGCCTTGATTCTTGAGTACTTCAATCAAATATAAGGCT
Found at i:18123018 original size:18 final size:18
Alignment explanation
Indices: 18122988--18123023 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
18122978 TGATCTTTGG
18122988 TTTTTTATATTATATTTA
1 TTTTTTATATTATATTTA
18123006 TTTTTGTAT-TTATATTTA
1 TTTTT-TATATTATATTTA
18123024 ACGGATATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTTATATTATATTTA
Found at i:18123186 original size:16 final size:17
Alignment explanation
Indices: 18123161--18123202 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
18123151 TTATATATTT
*
18123161 ATATAAATTTTT-ATAA
1 ATATATATTTTTAATAA
18123177 ATATATATTTTTAATAA
1 ATATATATTTTTAATAA
*
18123194 AAATATATT
1 ATATATATT
18123203 AGATCAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATATTTTTAATAA
Found at i:18123261 original size:19 final size:22
Alignment explanation
Indices: 18123218--18123262 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 22
18123208 AAATTAATCT
*
18123218 AATACAAAAGTTTATATTATTA
1 AATACAAAAGTTTATATTATCA
18123240 AATA-AAAA-TTTAT-TTATCA
1 AATACAAAAGTTTATATTATCA
18123259 AATA
1 AATA
18123263 TATAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
20 5 0.23
21 4 0.18
22 4 0.18
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (22 bp):
AATACAAAAGTTTATATTATCA
Found at i:18124150 original size:24 final size:24
Alignment explanation
Indices: 18124096--18124152 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
18124086 TTATATTTTT
*
18124096 ATATAAATATATTATAATTTAAAG
1 ATATAAATAAATTATAATTTAAAG
18124120 ATAATAAA-AAATTATAAATTTTAAA-
1 AT-ATAAATAAATTAT-AA-TTTAAAG
18124145 ATATAAAT
1 ATATAAAT
18124153 TTATTCAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 13 0.46
25 9 0.32
26 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
ATATAAATAAATTATAATTTAAAG
Found at i:18124310 original size:18 final size:18
Alignment explanation
Indices: 18124289--18124329 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
18124279 TTTTTATAAC
18124289 TTTAATTTTTTA-ATTTAT
1 TTTAATTTTTTATA-TTAT
18124307 TTTAA-TTTTTATATTAT
1 TTTAATTTTTTATATTAT
18124324 TTTAAT
1 TTTAAT
18124330 AAAAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTAATTTTTTATATTAT
Found at i:18124315 original size:17 final size:17
Alignment explanation
Indices: 18124289--18124329 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
18124279 TTTTTATAAC
18124289 TTTAATTTTT-TAATTTAT
1 TTTAATTTTTAT-A-TTAT
18124307 TTTAATTTTTATATTAT
1 TTTAATTTTTATATTAT
18124324 TTTAAT
1 TTTAAT
18124330 AAAAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
18 11 0.50
19 1 0.05
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTAATTTTTATATTAT
Found at i:18125787 original size:6 final size:6
Alignment explanation
Indices: 18125776--18125814 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
18125766 AAATGCAATG
* *
18125776 GAAAGT GAAAGT GAAAGA GAAAGA GAAAGA GAAAGA GAA
1 GAAAGA GAAAGA GAAAGA GAAAGA GAAAGA GAAAGA GAA
18125815 GGTAAGTACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.33, T:0.05
Consensus pattern (6 bp):
GAAAGA
Found at i:18129552 original size:24 final size:24
Alignment explanation
Indices: 18129520--18129566 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
18129510 ATTTTTTAAA
18129520 AATTATATTT-TCAATTATTAATATT
1 AATTATATTTAT-AATTA-TAATATT
18129545 AATT-TATTTATAATTATAATAT
1 AATTATATTTATAATTATAATAT
18129567 GATATGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 10 0.48
25 5 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTATATTTATAATTATAATATT
Found at i:18137166 original size:14 final size:14
Alignment explanation
Indices: 18137147--18137185 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
18137137 GGAGGATAAA
18137147 ATTATTTTTTTATT
1 ATTATTTTTTTATT
* *
18137161 ATTATTCTTTCATT
1 ATTATTTTTTTATT
18137175 ATTATTTTTTT
1 ATTATTTTTTT
18137186 TAAAAATGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTATTTTTTTATT
Found at i:18137312 original size:16 final size:18
Alignment explanation
Indices: 18137283--18137319 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
18137273 AATTCATGAA
*
18137283 TTTATTTTGTAAAA-ATT
1 TTTATTTTGAAAAAGATT
18137300 TTTA-TTTGAAAAAGATT
1 TTTATTTTGAAAAAGATT
18137317 TTT
1 TTT
18137320 TTATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (18 bp):
TTTATTTTGAAAAAGATT
Found at i:18137519 original size:18 final size:18
Alignment explanation
Indices: 18137488--18137527 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
18137478 ATGAAATAAA
*
18137488 AAAATAAAATTGGAAAAT
1 AAAATAAAATTGGAAAAG
18137506 AAAATGAAAA-TGGAAAAG
1 AAAAT-AAAATTGGAAAAG
18137524 AAAA
1 AAAA
18137528 ACCTGTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (18 bp):
AAAATAAAATTGGAAAAG
Found at i:18138415 original size:5 final size:5
Alignment explanation
Indices: 18138407--18138469 Score: 76
Period size: 5 Copynumber: 13.0 Consensus size: 5
18138397 ATATAATATG
* *
18138407 CTATA CTATA TTATA --ATA ATATA CTATA CTATA CTATA CTATA CTATA
1 CTATA CTATA CTATA CTATA CTATA CTATA CTATA CTATA CTATA CTATA
* *
18138455 CTCTA GTATA CTATA
1 CTATA CTATA CTATA
18138470 ATAATATAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
3 3 0.06
5 47 0.94
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (5 bp):
CTATA
Found at i:18138438 original size:28 final size:28
Alignment explanation
Indices: 18138395--18138449 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
18138385 ATCATAATAG
* *
18138395 TAATATAATATGCTATACTATATTATAA
1 TAATATAATATACTATACTATACTATAA
*
18138423 TAATATACTATACTATACTATACTATA
1 TAATATAATATACTATACTATACTATA
18138450 CTATACTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (28 bp):
TAATATAATATACTATACTATACTATAA
Found at i:18140143 original size:11 final size:11
Alignment explanation
Indices: 18140127--18140156 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
18140117 TAAGTCTTCC
18140127 TTTTTTTCTTT
1 TTTTTTTCTTT
18140138 TTTTTTTCTTT
1 TTTTTTTCTTT
18140149 TATTTTTT
1 T-TTTTTT
18140157 GCTTCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:18144660 original size:14 final size:14
Alignment explanation
Indices: 18144641--18144679 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
18144631 GGAGGATAAA
18144641 ATTATTTTTTTATT
1 ATTATTTTTTTATT
* * *
18144655 ATTATTCTCTCATT
1 ATTATTTTTTTATT
18144669 ATTATTTTTTT
1 ATTATTTTTTT
18144680 TTGAAAAAAA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTATTTTTTTATT
Found at i:18145820 original size:3 final size:3
Alignment explanation
Indices: 18145790--18145893 Score: 65
Period size: 3 Copynumber: 36.3 Consensus size: 3
18145780 AAGAAAGAAA
18145790 AAT AA- AAT AA- AAT AA- AAT AA- AA- AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * * * *
18145833 AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
18145881 AAT AGT AAT AAT A
1 AAT AAT AAT AAT A
18145894 GTATATTGTA
Statistics
Matches: 93, Mismatches: 4, Indels: 8
0.89 0.04 0.08
Matches are distributed among these distances:
2 10 0.11
3 83 0.89
ACGTcount: A:0.69, C:0.11, G:0.01, T:0.19
Consensus pattern (3 bp):
AAT
Found at i:18145894 original size:9 final size:9
Alignment explanation
Indices: 18145869--18145929 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
18145859 CAACAACAAC
*
18145869 AATAATAAT
1 AATAATAGT
18145878 AATAATAGT
1 AATAATAGT
18145887 AATAATAGT
1 AATAATAGT
*
18145896 -AT-ATTGT
1 AATAATAGT
* *
18145903 ACTATAGAGT
1 AATA-ATAGT
*
18145913 AATAATAAT
1 AATAATAGT
18145922 AATAATAG
1 AATAATAG
18145930 CAAAATAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 4 0.10
8 3 0.08
9 27 0.68
10 6 0.15
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (9 bp):
AATAATAGT
Found at i:18146715 original size:61 final size:62
Alignment explanation
Indices: 18146650--18146819 Score: 204
Period size: 61 Copynumber: 2.7 Consensus size: 62
18146640 AAATACCTAA
*
18146650 AATAATCCCCTTAGATTTTTTATGAGTGGATTATTG-AGGCATTTTTACCAAAAACA-CCTTC
1 AATAATCCCCTTAGATTTTTTATGA-TGGATTATTGAAGGCATTTTTACCAAAAAAAGCCTTC
* * **
18146711 AATAATCCCCTCAGTTTTTTTA-GATGGAATTATTGAAGGCATTTTTGGCAAAAAAATGCCTTC
1 AATAATCCCCTTAGATTTTTTATGATGG-ATTATTGAAGGCATTTTTACCAAAAAAA-GCCTTC
* **
18146774 AATAATCCTCTTTCA-TTTTTATGATGAGATTATTGAAGGCATTTTT
1 AATAATCCCCTTAGATTTTTTATGATG-GATTATTGAAGGCATTTTT
18146820 GCTAGAAAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
59 3 0.03
60 9 0.10
61 37 0.40
62 6 0.06
63 37 0.40
64 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (62 bp):
AATAATCCCCTTAGATTTTTTATGATGGATTATTGAAGGCATTTTTACCAAAAAAAGCCTTC
Found at i:18146793 original size:63 final size:61
Alignment explanation
Indices: 18146616--18146839 Score: 181
Period size: 63 Copynumber: 3.6 Consensus size: 61
18146606 TTTATGGGGG
* * * * ** **
18146616 ATTATTCAAGGTATTTTCTGTCAAAAATACCTAAAATAATCCCCTTAGATTTTTTATGAGTGG-
1 ATTATTGAAGGCATTTT-TGCCAAAAAAACCTTCAATAAT-CCCTTTCATTTTTTATGA-TGGA
* * *
18146679 ATTATTG-AGGCATTTTTACCAAAAACACCTTCAATAATCCC-CTCAGTTTTTT-TAGATGGA
1 ATTATTGAAGGCATTTTTGCCAAAAAAACCTTCAATAATCCCTTTCA-TTTTTTAT-GATGGA
*
18146739 ATTATTGAAGGCATTTTTGGCAAAAAAATGCCTTCAATAATCCTCTTTCA-TTTTTATGAT-GA
1 ATTATTGAAGGCATTTTTGCCAAAAAAA--CCTTCAATAATCC-CTTTCATTTTTTATGATGGA
* * *
18146801 GATTATTGAAGGCATTTTTGCTAGAAAATACCTTGAATA
1 -ATTATTGAAGGCATTTTTGCCA-AAAAAACCTTCAATA
18146840 GTCCTTTACA
Statistics
Matches: 132, Mismatches: 18, Indels: 23
0.76 0.10 0.13
Matches are distributed among these distances:
59 5 0.04
60 18 0.14
61 34 0.26
62 18 0.14
63 47 0.36
64 7 0.05
65 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (61 bp):
ATTATTGAAGGCATTTTTGCCAAAAAAACCTTCAATAATCCCTTTCATTTTTTATGATGGA
Found at i:18147643 original size:63 final size:61
Alignment explanation
Indices: 18147576--18147717 Score: 153
Period size: 63 Copynumber: 2.3 Consensus size: 61
18147566 TTTTGCTCAG
* *
18147576 AAAATGCCTTGAATAATCCCCTT-C-AATTTTTATGATGGGATTATTGAAAGTGTTTTTAGCCAA
1 AAAATGCCTTGAATAAT-CCCTTACAAATATTTA--ATGGGATTATTGAAAGCGTTTTTAG-CAA
* * * * *
18147639 AAAATGCCTTAAATAATCCTTTACAAAATATTTAATGGGTTTATTGAAGGCGTTTTTAGCTA
1 AAAATGCCTTGAATAATCCCTTAC-AAATATTTAATGGGATTATTGAAAGCGTTTTTAGCAA
*
18147701 AAAATGCTTTGAATAAT
1 AAAATGCCTTGAATAAT
18147718 TTGTGGATTA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
62 21 0.31
63 39 0.58
65 7 0.10
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (61 bp):
AAAATGCCTTGAATAATCCCTTACAAATATTTAATGGGATTATTGAAAGCGTTTTTAGCAA
Found at i:18148326 original size:561 final size:553
Alignment explanation
Indices: 18146901--18148293 Score: 1672
Period size: 559 Copynumber: 2.5 Consensus size: 553
18146891 ATACCTTGAA
*
18146901 TTATATAACCCATGAATTATTCATTCATTAGGGATTATT-AAAGGTGTTTTCTGTAAAAAATGCC
1 TTATATAACCCATGAATTATTCATTCATTAGGGATTATTGAAA-GTGTTTT-TGTTAAAAATG-C
** * * * * *
18146965 TTCAATAATCCTAGTATTTTTCTGTTTTTTAATATTTAAGGTGTTTTTGCTTAGAAAATGCATTA
63 TTCAATAATCC-AGTATTTTT-T-TTTTGAAATATTCAAGGCGTTTTTGCCTAGAAAATGCCTTG
* * *
18147030 AATAATCCTCTTCAATTTTTATGATAGGATTATTAAAAGCATTTTTAGTCAGAAAACACTG-TGA
125 AATAATCCTCTTCAATTTTTATGATGGGATTATTGAAAGCATTTTTAGCCA-AAAA-A-TGTTGA
* * *
18147094 ATAAGCTCTTACAAAATATTTAATGGGTTTATTAAAGGCATTTCTAGCTAAAAATGTCTTGAATA
187 ATAATCCCTTACAAAATATTTAATGGGTTTATTAAAGGCGTTTCTAGCTAAAAATGTCTTGAATA
*
18147159 ATTTATGGATTATT-AAAGGTATTTTGACCAAAAACGCCTTCTATAACCCATGAATTATTCATTC
252 ATTTATGGATTATTCAAAGGT-TTTTGACCAAAAACGCCTTCTATAATCCATGAATTATTCATTC
* * * *
18147223 AAAAGAGATTATTAAAGGTGTTTTCTGTTAAAAATGCCTTCAATAATCCCAACATTTTTTTTTGG
316 AAAAGAGATTATTAAAGGTGTTTTCTATCAAAAATACCTTCAATAATCCCAACATTTTTTTTAGG
18147288 AATATTTAAACCCCTTCAATTTTTATGATAGGATTATTGAACGCATTTTTAGCCAAAAAAATGCC
381 AATATTTAAACCCCTTCAATTTTTATGATAGGATTATTGAACGCATTTTTAGCCAAAAAAATGCC
*
18147353 TTGAATAATCCCTTACAAAATATTAAATGGCTTATTGAAGACATTTTTGGCTAAAAATATATTGA
446 TTGAATAATCCCTTACAAAATATTAAATGGCTTATTGAAGACATTTTTGGCTAAAAATACATTGA
* *
18147418 ATAATTCGTGAATTATTTAAGATATTTTTGACCAAAAATGCCT
511 ATAATTCGTGAATTATTCAAGATATTTTTGACAAAAAATGCCT
* * * *
18147461 TTATATAACCCATGAATTATTTATTCATTAGGGATTATTGAAGGCT-TTTTTTTTCAAAAATATC
1 TTATATAACCCATGAATTATTCATTCATTAGGGATTATTGAAAG-TGTTTTTGTT-AAAAAT-GC
* * * * * *
18147525 TTTAATAATCACAGCA-ATTTCTTTTGGAATATTCAAGGGGTTTTTG-CTCAGAAAATGCCTTGA
63 TTCAATAATC-CAGTATTTTTTTTTTGAAATATTCAAGGCGTTTTTGCCT-AGAAAATGCCTTGA
* ** *
18147588 ATAATCCCCTTCAATTTTTATGATGGGATTATTGAAAGTGTTTTTAGCCAAAAAATGCCTTAAAT
126 ATAATCCTCTTCAATTTTTATGATGGGATTATTGAAAGCATTTTTAGCCAAAAAATG--TTGAAT
* * *
18147653 AATCCTTTACAAAATATTTAATGGGTTTATTGAAGGCGTTTTTAGCTAAAAATG-CTTTGAATAA
189 AATCCCTTACAAAATATTTAATGGGTTTATTAAAGGCGTTTCTAGCTAAAAATGTC-TTGAATAA
*
18147717 TTTGTGGATTATTC-AAGGTATTTTTGACCAAAAACGCCTTCTATAATCCATGAATTATTCATTC
253 TTTATGGATTATTCAAAGG--TTTTTGACCAAAAACGCCTTCTATAATCCATGAATTATTCATTC
* * * * ***
18147781 AGAGGAGATTATTAAAGACGT-TTTTTTATCAAAAATACCTTCAATAATCTCAGTGTTTTTTTTA
316 AAAAGAGATTATTAAAG--GTGTTTTCTATCAAAAATACCTTCAATAATCCCAACATTTTTTTT-
* * * ** *
18147845 AGGAATATTTAAACCCTTTTAATTTTTATGAT-GAGATTATTGAAGGTGTTTTTAGCC-AGAAAA
378 AGGAATATTTAAACCCCTTCAATTTTTATGATAG-GATTATTGAACGCATTTTTAGCCAAAAAAA
* * * * * *
18147908 TGCCTTGAATAATCCTTTACAAAA-ATTGAATAGGGTTATTGAAGGA-GTTTTTTGCTAAAAATG
442 TGCCTTGAATAATCCCTTACAAAATATTAAAT-GGCTTATTGAA-GACATTTTTGGCTAAAAATA
* * * *
18147971 CCTTGAATAATTCGTGGATTATTCAAGGCT-TTTTTGGCAAAAAAATGCC-
505 CATTGAATAATTCGTGAATTATTCAA-GATATTTTTGAC-AAAAAATGCCT
*
18148020 TTATATAACCCATGAATTATTCATTCA-GAGGGGATTATTGAAAGTGATTTTTGTTAAAAATGCA
1 TTATATAACCCATGAATTATTCATTCATTA-GGGATTATTGAAAGTG-TTTTTGTTAAAAATGC-
* *
18148084 TTCAATAATCTCAGTGTTTTTTTTTTAGAAATATTCAAGACGTTTTTGCCTAGAAAATGCCTTGA
63 TTCAATAATC-CAGTATTTTTTTTTT-GAAATATTCAAGGCGTTTTTGCCTAGAAAATGCCTTGA
*
18148149 ATAATCCTTTTCAATTTTTATGATGGGATTATTG-AAGACATTTTTAG-CAAAAGAATGTATTGA
126 ATAATCCTCTTCAATTTTTATGATGGGATTATTGAAAG-CATTTTTAGCCAAAA-AATG--TTGA
* *
18148212 ATAATCCCTTACAAAATATTGAATTGGG-TTATTAAAGGCGTTTCTAGCTAAAAATGTCTTAAAT
187 ATAATCCCTTACAAAATATTTAA-TGGGTTTATTAAAGGCGTTTCTAGCTAAAAATGTCTTGAAT
* *
18148276 AATTCATAGATTATTCAA
251 AATTTATGGATTATTCAA
18148294 TGCGTTTATC
Statistics
Matches: 710, Mismatches: 90, Indels: 64
0.82 0.10 0.07
Matches are distributed among these distances:
554 2 0.00
555 1 0.00
556 6 0.01
557 153 0.22
558 66 0.09
559 179 0.25
560 148 0.21
561 147 0.21
562 8 0.01
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (553 bp):
TTATATAACCCATGAATTATTCATTCATTAGGGATTATTGAAAGTGTTTTTGTTAAAAATGCTTC
AATAATCCAGTATTTTTTTTTTGAAATATTCAAGGCGTTTTTGCCTAGAAAATGCCTTGAATAAT
CCTCTTCAATTTTTATGATGGGATTATTGAAAGCATTTTTAGCCAAAAAATGTTGAATAATCCCT
TACAAAATATTTAATGGGTTTATTAAAGGCGTTTCTAGCTAAAAATGTCTTGAATAATTTATGGA
TTATTCAAAGGTTTTTGACCAAAAACGCCTTCTATAATCCATGAATTATTCATTCAAAAGAGATT
ATTAAAGGTGTTTTCTATCAAAAATACCTTCAATAATCCCAACATTTTTTTTAGGAATATTTAAA
CCCCTTCAATTTTTATGATAGGATTATTGAACGCATTTTTAGCCAAAAAAATGCCTTGAATAATC
CCTTACAAAATATTAAATGGCTTATTGAAGACATTTTTGGCTAAAAATACATTGAATAATTCGTG
AATTATTCAAGATATTTTTGACAAAAAATGCCT
Found at i:18148496 original size:171 final size:171
Alignment explanation
Indices: 18148133--18148534 Score: 397
Period size: 171 Copynumber: 2.3 Consensus size: 171
18148123 ACGTTTTTGC
* * * * *
18148133 CTAGAAAATGCCTTGAATAATCCTTTTCAATTTTTATGATGGGATTATTGAAGACATTTTTAGCA
1 CTAGAAAATACCTTGAATAATCCTCTTCAATTTTTAT-AAGGGATTATTGAAGGCGTTTTTAGCA
* * * *
18148198 AAAGAATGTATTGAATAATCCCTTACAAAATATTGAATTGGGTTATTAAAGGCGTTTCTAGCTAA
65 AAAGAATCTATTGAATAATCCATAACAAAATATTGAATTGAGTTATTAAAGGCGTTTCTAGCTAA
* * *
18148263 AAATGTCTTAAATAATTCATAGATTATTCAATGCGTTTATCA
130 AAATGCCTTAAATAATTCATAGATTATTAAAAGCGTTTATCA
* * * *
18148305 CTAAAAACATA--TTCAATAATCCTCTTCAATTTTTATTAGGAGATTATTGAAGGTGTTTTT-GC
1 CTAGAAA-ATACCTTGAATAATCCTCTTCAATTTTTATAAGG-GATTATTGAAGGCGTTTTTAG-
* * * *
18148367 CTAGAA-AATACT-TTGAATAATCCATAACAAAATATTGAA-TGCATTTATTAAAGGTGTTTCTG
63 C-AAAAGAAT-CTATTGAATAATCCATAACAAAATATTGAATTG-AGTTATTAAAGGCGTTTCTA
** * * *
18148429 GCTAAAAATGCCTTCTATAATTCATGGATTA-TAAAAG-GTATTTTTA
125 GCTAAAAATGCCTTAAATAATTCATAGATTATTAAAAGCGT-TTATCA
* * * * *
18148475 GTCGAAAATACCTTGAATAATCCCCTTAAATTTTTTAAAAGGGATTATTGAAGGCGTTTT
1 CTAGAAAATACCTTGAATAATCCTCTTCAA-TTTTTATAAGGGATTATTGAAGGCGTTTT
18148535 CTATAAAAAA
Statistics
Matches: 186, Mismatches: 34, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
169 5 0.03
170 17 0.09
171 143 0.77
172 19 0.10
173 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (171 bp):
CTAGAAAATACCTTGAATAATCCTCTTCAATTTTTATAAGGGATTATTGAAGGCGTTTTTAGCAA
AAGAATCTATTGAATAATCCATAACAAAATATTGAATTGAGTTATTAAAGGCGTTTCTAGCTAAA
AATGCCTTAAATAATTCATAGATTATTAAAAGCGTTTATCA
Found at i:18152456 original size:14 final size:14
Alignment explanation
Indices: 18152437--18152463 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18152427 AAAAAATTGA
18152437 ATATTTATATGAAT
1 ATATTTATATGAAT
18152451 ATATTTATATGAA
1 ATATTTATATGAA
18152464 CATAGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATATTTATATGAAT
Found at i:18152803 original size:64 final size:62
Alignment explanation
Indices: 18152661--18153465 Score: 261
Period size: 64 Copynumber: 13.0 Consensus size: 62
18152651 GCATTTTTAG
* * * ** *
18152661 CAAAAACTACCTTCAATAAT-TCCTTACAAAATATTGAATG-GG-TTATTGAAGGCATTTTTAGC
1 CAAAAAC-ACCTTCAATAATCCCCTCAAAAAAT-TTTTATGAGGATTATTGAAGGCA-TTTTGGC
** * *
18152723 CAAAAATGCCTTCAATAATCCCCTCAACAAAATTTTT-TGGATGGATTATTGAAGGCATTATGGA
1 CAAAAACACCTTCAATAATCCCCTCAA-AAAATTTTTAT-GA-GGATTATTGAAGGCATTTTGGC
* * ** * * * *
18152787 CAAAACCACCTTCAATAATCCCTTTC-AAATTTTTTTCA-GGGGATTATTGAATGCGTTTTAGC
1 CAAAAACACCTTCAATAATCCC-CTCAAAAAATTTTT-ATGAGGATTATTGAAGGCATTTTGGC
* * * * *
18152849 CAAAAATACCTTCAACAATCCCTTCAATAAATTTTTATGAAGGATTATTGAAGGCGTTTTTGGC
1 CAAAAACACCTTCAATAATCCCCTCAAAAAATTTTTATG-AGGATTATTGAAGGC-ATTTTGGC
* * * *
18152913 CAAAAACTCCTTCAATAATCCCTTCAATAAATTTTTATGAGGGATTATTGAATGTG-TTTTTGGC
1 CAAAAACACCTTCAATAATCCCCTCAAAAAATTTTTATGA-GGATTATTGAA-G-GCATTTTGGC
** * ** *
18152977 CAAAAATGCCTTC---AA-----T----AAATTTTTATGAGAAATTATTGAAGGTGTTTTTGGT
1 CAAAAACACCTTCAATAATCCCCTCAAAAAATTTTTATGAG-GATTATTGAAGG-CATTTTGGC
* * * ** * * * ** *
18153029 TAAAAACGCCTTCAATAGTCCATTC-CAAAATTTTTCAGGA-GATTATTAAAGGTGTTTTTGGT
1 CAAAAACACCTTCAATAATCCCCTCAAAAAATTTTT-ATGAGGATTATTGAAGG-CATTTTGGC
** * ** * ** * *
18153091 CAAAAACGTCTTTAATAATCCTTTCTAAATTTTTTTA-GAGGATTATTGAAGGTATTTTTGTC
1 CAAAAACACCTTCAATAATCCCCTCAAAAAATTTTTATGAGGATTATTGAAGGCA-TTTTGGC
** * * * * * *
18153153 CAAAAATGCTTTTAATAATCCCCTCAACAAAATTTTT-TGTATGATTATTGAAGGTATGTTTAGA
1 CAAAAACACCTTCAATAATCCCCTCAA-AAAATTTTTATG-AGGATTATTGAAGGCAT-TTTGGC
** ** * ** * ** *
18153217 CAAAAATGCCTTCAATAATCTTCTTAAAAAA--TTTAAAATGGATTATTAAAGGTGTTTTTGAC
1 CAAAAACACCTTCAATAATCCCCTCAAAAAATTTTTATGA-GGATTATTGAAGG-CATTTTGGC
* **
18153279 CAAAAACACCATCAATAAT-TACTCATAAAAATTTATTGA-GAGGATTATTGAAGGTGC-TTTTG
1 CAAAAACACCTTCAATAATCCCCTCA-AAAAATTT-TT-ATGAGGATTATTGAA-G-GCATTTTG
*
18153341 AC
61 GC
** * ** * *
18153343 CAAAAATGCCTTCAATAATCTCCTCAACAAAATTTGAAATG-GG-TTATTGAAGGTATTTTTGAC
1 CAAAAACACCTTCAATAATCCCCTCAA-AAAATTT-TTATGAGGATTATTGAAGGCA-TTTTGGC
** * * * * *
18153406 TGAAAACGCCTTTAATAGT-CCCTCAAAAAA-ATTTATTGAAGGGATTGTTGAAGGCATTTT
1 CAAAAACACCTTCAATAATCCCCTCAAAAAATTTTTA-TG-A-GGATTATTGAAGGCATTTT
18153466 TGGCGTTTTT
Statistics
Matches: 574, Mismatches: 111, Indels: 115
0.72 0.14 0.14
Matches are distributed among these distances:
50 1 0.00
51 2 0.00
52 39 0.07
55 1 0.00
56 1 0.00
59 1 0.00
60 4 0.01
61 33 0.06
62 177 0.31
63 91 0.16
64 189 0.33
65 32 0.06
66 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (62 bp):
CAAAAACACCTTCAATAATCCCCTCAAAAAATTTTTATGAGGATTATTGAAGGCATTTTGGC
Found at i:18152846 original size:126 final size:128
Alignment explanation
Indices: 18152703--18152994 Score: 362
Period size: 126 Copynumber: 2.3 Consensus size: 128
18152693 ATTGAATGGG
* * *
18152703 TTATTGAAGGCATTTTTAGCCAAAAATGCCTTCAATAATCCCCTCAACAAAATTTTT-TGGATGG
1 TTATTGAATGCGTTTTTAGCCAAAAATGCCTTCAATAATCCCCTCAA-AAAATTTTTAT-GAAGG
* * *
18152767 ATTATTGAAGGC-ATTATGGACAAAACCACCTTCAATAATCCCTT---TCAAATTTTTTTCAGGG
64 ATTATTGAAGGCGATTATGGACAAAAACACCTTCAATAATCCCTTCAAT-AAATTTTTATGA-GG
18152828 GA
127 GA
* * * *
18152830 TTATTGAATGCG-TTTTAGCCAAAAATACCTTCAACAATCCCTTCAATAAATTTTTATGAAGGAT
1 TTATTGAATGCGTTTTTAGCCAAAAATGCCTTCAATAATCCCCTCAAAAAATTTTTATGAAGGAT
* * * *
18152894 TATTGAAGGCGTTTTTGGCCAAAAACTCCTTCAATAATCCCTTCAATAAATTTTTATGAGGGA
66 TATTGAAGGCGATTATGGACAAAAACACCTTCAATAATCCCTTCAATAAATTTTTATGAGGGA
* *
18152957 TTATTGAATGTGTTTTTGGCCAAAAATGCCTTCAATAA
1 TTATTGAATGCGTTTTTAGCCAAAAATGCCTTCAATAA
18152995 ATTTTTATGA
Statistics
Matches: 141, Mismatches: 18, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
125 24 0.17
126 59 0.42
127 25 0.18
128 32 0.23
129 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.35
Consensus pattern (128 bp):
TTATTGAATGCGTTTTTAGCCAAAAATGCCTTCAATAATCCCCTCAAAAAATTTTTATGAAGGAT
TATTGAAGGCGATTATGGACAAAAACACCTTCAATAATCCCTTCAATAAATTTTTATGAGGGA
Found at i:18153012 original size:52 final size:52
Alignment explanation
Indices: 18152933--18153045 Score: 172
Period size: 52 Copynumber: 2.2 Consensus size: 52
18152923 TTCAATAATC
** * *
18152933 CCTTCAATAAATTTTTATGAGGGATTATTGAATGTGTTTTTGGCCAAAAATG
1 CCTTCAATAAATTTTTATGAGAAATTATTGAAGGTGTTTTTGGCCAAAAACG
**
18152985 CCTTCAATAAATTTTTATGAGAAATTATTGAAGGTGTTTTTGGTTAAAAACG
1 CCTTCAATAAATTTTTATGAGAAATTATTGAAGGTGTTTTTGGCCAAAAACG
18153037 CCTTCAATA
1 CCTTCAATA
18153046 GTCCATTCCA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.40
Consensus pattern (52 bp):
CCTTCAATAAATTTTTATGAGAAATTATTGAAGGTGTTTTTGGCCAAAAACG
Found at i:18153096 original size:62 final size:62
Alignment explanation
Indices: 18153008--18153362 Score: 220
Period size: 62 Copynumber: 5.7 Consensus size: 62
18152998 TTTATGAGAA
* *
18153008 ATTATTGAAGGTGTTTTTGGTTAAAAACGCCTTCAATAGTCCATTCCAAAATTTTTCAG-GAG
1 ATTATTGAAGGTGTTTTTGGTCAAAAACGCCTTCAATAATCCATTCCAAAATTTTTCAGAG-G
* * * * * * *
18153070 ATTATTAAAGGTGTTTTTGGTCAAAAACGTCTTTAATAATCCTTTCTAAATTTTTTTAGAGG
1 ATTATTGAAGGTGTTTTTGGTCAAAAACGCCTTCAATAATCCATTCCAAAATTTTTCAGAGG
* * * * ** * *
18153132 ATTATTGAAGGTATTTTT-GTCCAAAAATGCTTTTAATAATCCCCTCAACAAAATTTTT-TGTAT
1 ATTATTGAAGGTGTTTTTGGT-CAAAAACGCCTTCAATAATCCATTC--CAAAATTTTTCAG-AG
18153195 G
62 G
* * * * * * ** * *
18153196 ATTATTGAAGGTATGTTTAGACAAAAATGCCTTCAATAAT-C-TTCTTAAAAAATTTAAAATGG
1 ATTATTGAAGGTGTTTTTGGTCAAAAACGCCTTCAATAATCCATTC-CAAAATTTTTCAGA-GG
* ** * * * *
18153258 ATTATTAAAGGTGTTTTTGACCAAAAACACCATCAATAATTACTCA-T-AAAAATTTATTGAGAG
1 ATTATTGAAGGTGTTTTTGGTCAAAAACGCCTTCAATAA-T-C-CATTCCAAAATTT-TTCAGAG
18153321 G
62 G
* ** *
18153322 ATTATTGAAGGTGCTTTTGACCAAAAATGCCTTCAATAATC
1 ATTATTGAAGGTGTTTTTGGTCAAAAACGCCTTCAATAATC
18153363 TCCTCAACAA
Statistics
Matches: 228, Mismatches: 51, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
61 10 0.04
62 121 0.53
63 5 0.02
64 85 0.37
65 5 0.02
66 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (62 bp):
ATTATTGAAGGTGTTTTTGGTCAAAAACGCCTTCAATAATCCATTCCAAAATTTTTCAGAGG
Found at i:18153436 original size:127 final size:124
Alignment explanation
Indices: 18153130--18153459 Score: 374
Period size: 126 Copynumber: 2.6 Consensus size: 124
18153120 TTTTTTTAGA
* * * * * * *
18153130 GGATTATTGAAGGTATTTTTGTCCAAAAATGCTTTTAATAATCCCCTCAACAAAATTTTTTGTAT
1 GGATTATTGAAGGTATTTTTGACCAAAAACGCCTTTAATAAT-CCCTCAAAAAAATTTATTGAAG
* *
18153195 GATTATTGAAGGTATGTTTAGACAAAAATGCCTTCAATAATCTTCTTAAAAAATTTAAAAT
65 GATTATTGAAGG-ATGTTTAGACAAAAATGCCTTCAATAATCTCCTCAAAAAATTTAAAAT
* * * * * ** *
18153256 GGATTATTAAAGGTGTTTTTGACCAAAAACACCATCAATAATTACTCATAAAAATTTATTGAGAG
1 GGATTATTGAAGGTATTTTTGACCAAAAACGCCTTTAATAATCCCTCAAAAAAATTTATTGA-AG
* *
18153321 GATTATTGAAGG-TGCTTTTGACCAAAAATGCCTTCAATAATCTCCTCAACAAAATTTGAAAT
65 GATTATTGAAGGATG-TTTAGA-CAAAAATGCCTTCAATAATCTCCTCAA-AAAATTTAAAAT
* ** *
18153383 GGGTTATTGAAGGTATTTTTGACTGAAAACGCCTTTAATAGTCCCTCAAAAAAATTTATTGAAGG
1 GGATTATTGAAGGTATTTTTGACCAAAAACGCCTTTAATAATCCCTCAAAAAAATTTATTGAA-G
*
18153448 GATTGTTGAAGG
65 GATTATTGAAGG
18153460 CATTTTTGGC
Statistics
Matches: 167, Mismatches: 32, Indels: 9
0.80 0.15 0.04
Matches are distributed among these distances:
124 2 0.01
125 19 0.11
126 73 0.44
127 73 0.44
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (124 bp):
GGATTATTGAAGGTATTTTTGACCAAAAACGCCTTTAATAATCCCTCAAAAAAATTTATTGAAGG
ATTATTGAAGGATGTTTAGACAAAAATGCCTTCAATAATCTCCTCAAAAAATTTAAAAT
Found at i:18153467 original size:127 final size:124
Alignment explanation
Indices: 18153130--18153467 Score: 372
Period size: 127 Copynumber: 2.7 Consensus size: 124
18153120 TTTTTTTAGA
* * * * *
18153130 GGATTATTGAAGGTATTTTTGTCCAAAAATGCTTTTAATAATCCCCTCAACAAAATTTTTTGTA-
1 GGATTATTGAAGGTATTTTTGACCAAAAACGCCTTTAATAAT-CCCTCAAAAAAATTTATTG-AG
* * * *
18153194 TGATTATTGAAGGTATGTTTAGACAAAAATGCCTTCAATAATCTTCTTAAAAAATTTAAAAT
64 GGATTATTGAAGGTAT-TTTTGACAAAAATGCCTTCAATAATCTCCTCAAAAAATTTAAAAT
* * * * * ** *
18153256 GGATTATTAAAGGTGTTTTTGACCAAAAACACCATCAATAATTACTCATAAAAATTTATTGAGAG
1 GGATTATTGAAGGTATTTTTGACCAAAAACGCCTTTAATAATCCCTCAAAAAAATTTATTGAG-G
** *
18153321 GATTATTGAAGGTGCTTTTGACCAAAAATGCCTTCAATAATCTCCTCAACAAAATTTGAAAT
65 GATTATTGAAGGTATTTTTGA-CAAAAATGCCTTCAATAATCTCCTCAA-AAAATTTAAAAT
* ** *
18153383 GGGTTATTGAAGGTATTTTTGACTGAAAACGCCTTTAATAGTCCCTCAAAAAAATTTATTGAAGG
1 GGATTATTGAAGGTATTTTTGACCAAAAACGCCTTTAATAATCCCTCAAAAAAATTTATTG-AGG
* *
18153448 GATTGTTGAAGGCATTTTTG
65 GATTATTGAAGGTATTTTTG
18153468 GCGTTTTTGG
Statistics
Matches: 171, Mismatches: 36, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
124 1 0.01
125 19 0.11
126 72 0.42
127 77 0.45
128 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (124 bp):
GGATTATTGAAGGTATTTTTGACCAAAAACGCCTTTAATAATCCCTCAAAAAAATTTATTGAGGG
ATTATTGAAGGTATTTTTGACAAAAATGCCTTCAATAATCTCCTCAAAAAATTTAAAAT
Found at i:18153554 original size:135 final size:137
Alignment explanation
Indices: 18153336--18153601 Score: 312
Period size: 136 Copynumber: 2.0 Consensus size: 137
18153326 TTGAAGGTGC
* **
18153336 TTTTGACCAAAAATGCCTTCAATAATCTCCTCAACAAAATTTGAAATGGGTTATTGAAGGTATTT
1 TTTTGACCAAAAATACCTTCAATAATCTCCTCAACAAAATTTGAAATGGGTTATTGAAGCCATTT
* * * *
18153401 TTGACTGAAAACGCCTTTAATAGTCCCTCA-AAAAAA-TTTATTGAAGGGATTGTTGAAGGCATT
66 TTGACTGAAAACGCCTTTAATAATCCAT-ATAAAAAATTTTATTGAAGGGATTATTAAAGGCATT
18153464 TTTGGCGT
130 TTTGGCGT
* * * *
18153472 TTTTGGCCAAAAATACCTTCAATAATC-CCTTGAA-AAAATTTGGAA-GGGATTATTGAAGCCGT
1 TTTTGACCAAAAATACCTTCAATAATCTCC-TCAACAAAATTTGAAATGGG-TTATTGAAGCCAT
* * *
18153534 TTTTGTA-T-ATAAATGCCTTTAATAATCCATATAAAAAATTTTGTTGAGGGGATTATTAAAGGC
64 TTTTG-ACTGA-AAACGCCTTTAATAATCCATATAAAAAATTTTATTGAAGGGATTATTAAAGGC
18153597 ATTTT
127 ATTTT
18153602 GACCAAAAAC
Statistics
Matches: 110, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
134 5 0.05
135 51 0.46
136 54 0.49
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (137 bp):
TTTTGACCAAAAATACCTTCAATAATCTCCTCAACAAAATTTGAAATGGGTTATTGAAGCCATTT
TTGACTGAAAACGCCTTTAATAATCCATATAAAAAATTTTATTGAAGGGATTATTAAAGGCATTT
TTGGCGT
Found at i:18153936 original size:12 final size:14
Alignment explanation
Indices: 18153907--18153933 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18153897 TTTTTCTATG
18153907 TTCATATAAATATA
1 TTCATATAAATATA
18153921 TTCATATAAATAT
1 TTCATATAAATAT
18153934 TCAAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
TTCATATAAATATA
Found at i:18155858 original size:29 final size:30
Alignment explanation
Indices: 18155815--18155886 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
18155805 ATGAATTGCC
**
18155815 AATTCTACTGAAACTCACCTAAAAATTCTT
1 AATTCTACCAAAACTCACCTAAAAATTCTT
* ** *
18155845 AGTTC-ACCAAAACTCTGCTAAAGATTCTT
1 AATTCTACCAAAACTCACCTAAAAATTCTT
18155874 AATTCTACCAAAA
1 AATTCTACCAAAA
18155887 TTCTATCTGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 23 0.68
30 11 0.32
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.31
Consensus pattern (30 bp):
AATTCTACCAAAACTCACCTAAAAATTCTT
Found at i:18158722 original size:20 final size:20
Alignment explanation
Indices: 18158697--18158803 Score: 85
Period size: 20 Copynumber: 5.3 Consensus size: 20
18158687 TTTGATTAGT
18158697 GTTTGGGGTTTTGGTTTTGG
1 GTTTGGGGTTTTGGTTTTGG
*
18158717 GTTTGGGG-TTT-GTTTTCGT
1 GTTTGGGGTTTTGGTTTT-GG
* *
18158736 GCTTGGGGTTTTAAAGTTTTAGG
1 GTTTGGGGTTTT--GGTTTT-GG
* * *
18158759 CTTTAGGG-TTTGGTTTGGG
1 GTTTGGGGTTTTGGTTTTGG
* *
18158778 GTTTGGAGTTTTGGTTTAGG
1 GTTTGGGGTTTTGGTTTTGG
18158798 GTTTGG
1 GTTTGG
18158804 CATGAATAAT
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
18 5 0.07
19 18 0.26
20 31 0.46
22 3 0.04
23 11 0.16
ACGTcount: A:0.07, C:0.03, G:0.40, T:0.50
Consensus pattern (20 bp):
GTTTGGGGTTTTGGTTTTGG
Found at i:18159855 original size:14 final size:14
Alignment explanation
Indices: 18159832--18159861 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18159822 TCAACCAAAA
*
18159832 TTTTCTTTTTTTTT
1 TTTTCCTTTTTTTT
18159846 TTTTCCTTTTTTTT
1 TTTTCCTTTTTTTT
18159860 TT
1 TT
18159862 GCCTCTCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTCCTTTTTTTT
Found at i:18159856 original size:15 final size:14
Alignment explanation
Indices: 18159832--18159861 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
18159822 TCAACCAAAA
18159832 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
18159846 TTTTCCTTTTTTTTT
1 TTTT-CTTTTTTTTT
18159861 T
1 T
18159862 GCCTCTCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTCTTTTTTTTT
Found at i:18161549 original size:14 final size:15
Alignment explanation
Indices: 18161529--18161572 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
18161519 CATAAATTTG
18161529 TAATTATTTTAAAAA
1 TAATTATTTTAAAAA
*
18161544 -AATTATTATAAAAA
1 TAATTATTTTAAAAA
*
18161558 TAATT-TTTCAAAAA
1 TAATTATTTTAAAAA
18161572 T
1 T
18161573 CTTTCAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 21 0.84
15 4 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATTATTTTAAAAA
Found at i:18161699 original size:24 final size:24
Alignment explanation
Indices: 18161658--18161730 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 24
18161648 AAAATATAAA
*
18161658 AAATATA-TAAAAA-TAAATAGAT
1 AAATATATTAAAAAGAAAATAGAT
*
18161680 AAATATATTAAAAAGAAAATAAAAT
1 AAATATATTAAAAAGAAAAT-AGAT
*
18161705 AGA-ATATTACAAAAGAAAAT-GAT
1 AAATATATTA-AAAAGAAAATAGAT
18161728 AAA
1 AAA
18161731 ACAGAATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
22 7 0.17
23 10 0.24
24 10 0.24
25 15 0.36
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.23
Consensus pattern (24 bp):
AAATATATTAAAAAGAAAATAGAT
Found at i:18161729 original size:28 final size:24
Alignment explanation
Indices: 18161684--18161738 Score: 65
Period size: 28 Copynumber: 2.1 Consensus size: 24
18161674 ATAGATAAAT
*
18161684 ATATTAAAAAGAAAATAAAATAGA
1 ATATTAAAAAGAAAATAAAACAGA
18161708 ATATTACAAAAGAAAATGATAAAACAGA
1 ATATTA-AAAAG-AAA--ATAAAACAGA
18161736 ATA
1 ATA
18161739 AAAATATAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 6 0.23
25 5 0.19
26 3 0.12
28 12 0.46
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (24 bp):
ATATTAAAAAGAAAATAAAACAGA
Found at i:18162668 original size:24 final size:24
Alignment explanation
Indices: 18162635--18162692 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
18162625 CATCAATCAA
*
18162635 TTTTAGTTTTTT-TTTTTTCAAAAT
1 TTTTAGTTTTTTAATTTTT-AAAAT
*
18162659 TTTTAATTTTTTAATTTTTAAAAT
1 TTTTAGTTTTTTAATTTTTAAAAT
18162683 TTTTAGTTTT
1 TTTTAGTTTT
18162693 GAATTTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (24 bp):
TTTTAGTTTTTTAATTTTTAAAAT
Found at i:18162674 original size:15 final size:15
Alignment explanation
Indices: 18162656--18162698 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
18162646 TTTTTTTCAA
18162656 AATTTTTAATTTTTT
1 AATTTTTAATTTTTT
*
18162671 AATTTTTAAAATTTTT
1 AATTTTT-AATTTTTT
* *
18162687 AGTTTTGAATTT
1 AATTTTTAATTT
18162699 GAATTTGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (15 bp):
AATTTTTAATTTTTT
Found at i:18163720 original size:18 final size:16
Alignment explanation
Indices: 18163699--18163813 Score: 64
Period size: 16 Copynumber: 7.2 Consensus size: 16
18163689 TCAATAATGG
18163699 ATGAAAAAAGAATGAAAA
1 ATGAAAAAAG--TGAAAA
18163717 ATGAAAAAAGTGAAAA
1 ATGAAAAAAGTGAAAA
**
18163733 AT-AAGGAA-TGAAAA
1 ATGAAAAAAGTGAAAA
*
18163747 TTGAAAAAA-TGAAAAAA
1 ATGAAAAAAGTG--AAAA
*
18163764 AGTGAAAAAA-T-AAGGA
1 A-TGAAAAAAGTGAA-AA
18163780 AT-AAAAAA-TGGAAAA
1 ATGAAAAAAGT-GAAAA
* *
18163795 ATGAAAAAAATGTAAA
1 ATGAAAAAAGTGAAAA
18163811 ATG
1 ATG
18163814 TGAGAAAAAG
Statistics
Matches: 79, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
14 14 0.18
15 16 0.20
16 25 0.32
17 5 0.06
18 19 0.24
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (16 bp):
ATGAAAAAAGTGAAAA
Found at i:18163725 original size:9 final size:9
Alignment explanation
Indices: 18163713--18163811 Score: 58
Period size: 9 Copynumber: 10.2 Consensus size: 9
18163703 AAAAAGAATG
18163713 AAAAATGAA
1 AAAAATGAA
*
18163722 AAAAGTGAA
1 AAAAATGAA
*
18163731 AAATAAGGAA
1 AAA-AATGAA
*
18163741 TGAAAATTG-A
1 --AAAAATGAA
18163751 AAAAATGAA
1 AAAAATGAA
18163760 AAAAAGTGAAA
1 AAAAA-TG-AA
*
18163771 AAATAAGGAATA
1 AAA-AATG-A-A
*
18163783 AAAAATG-G
1 AAAAATGAA
18163791 AAAAATGAA
1 AAAAATGAA
18163800 AAAAATGTAA
1 AAAAATG-AA
18163810 AA
1 AA
18163812 TGTGAGAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
8 13 0.19
9 24 0.34
10 11 0.16
11 13 0.19
12 9 0.13
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (9 bp):
AAAAATGAA
Found at i:18163743 original size:23 final size:22
Alignment explanation
Indices: 18163720--18163796 Score: 67
Period size: 21 Copynumber: 3.7 Consensus size: 22
18163710 ATGAAAAATG
18163720 AAAAAAGTGAAAAATAAGGAAT
1 AAAAAAGTGAAAAATAAGGAAT
* * *
18163742 -GAAAATTG-AAAA-AATG-A-
1 AAAAAAGTGAAAAATAAGGAAT
18163759 AAAAAAGTGAAAAAATAAGGAAT
1 AAAAAAGTG-AAAAATAAGGAAT
18163782 AAAAAA-TGGAAAAAT
1 AAAAAAGT-GAAAAAT
18163797 GAAAAAAATG
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
18 7 0.17
19 3 0.07
20 8 0.19
21 9 0.21
22 8 0.19
23 7 0.17
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (22 bp):
AAAAAAGTGAAAAATAAGGAAT
Found at i:18163775 original size:40 final size:39
Alignment explanation
Indices: 18163704--18163812 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 39
18163694 AATGGATGAA
18163704 AAAAGAATG-AAAAATG-AAAAAAGTGAAAAATAAGGAAT
1 AAAA-AATGAAAAAATGAAAAAAAGTGAAAAATAAGGAAT
* *
18163742 GAAAATTGAAAAAATGAAAAAAAGTGAAAAAATAAGGAAT
1 AAAAAATGAAAAAATGAAAAAAAGTG-AAAAATAAGGAAT
* *
18163782 AAAAAATGGAAAAATGAAAAAAA-TGTAAAAT
1 AAAAAATGAAAAAATGAAAAAAAGTGAAAAAT
18163813 GTGAGAAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
37 3 0.05
38 15 0.24
39 11 0.18
40 33 0.53
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (39 bp):
AAAAAATGAAAAAATGAAAAAAAGTGAAAAATAAGGAAT
Found at i:18163811 original size:8 final size:8
Alignment explanation
Indices: 18163704--18163803 Score: 68
Period size: 8 Copynumber: 12.8 Consensus size: 8
18163694 AATGGATGAA
18163704 AAAAGAATG
1 AAAA-AATG
18163713 -AAAAATG
1 AAAAAATG
18163720 AAAAAAGTG
1 AAAAAA-TG
18163729 -AAAAAT-
1 AAAAAATG
**
18163735 AAGGAATG
1 AAAAAATG
*
18163743 -AAAATTG
1 AAAAAATG
18163750 AAAAAATG
1 AAAAAATG
18163758 AAAAAAAGTG
1 -AAAAAA-TG
18163768 AAAAAAT-
1 AAAAAATG
**
18163775 AAGGAAT-
1 AAAAAATG
18163782 AAAAAATG
1 AAAAAATG
*
18163790 GAAAAATG
1 AAAAAATG
18163798 AAAAAA
1 AAAAAA
18163804 ATGTAAAATG
Statistics
Matches: 71, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
7 23 0.32
8 32 0.45
9 14 0.20
10 2 0.03
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (8 bp):
AAAAAATG
Found at i:18165080 original size:25 final size:24
Alignment explanation
Indices: 18165026--18165097 Score: 78
Period size: 25 Copynumber: 3.1 Consensus size: 24
18165016 GTTAAAAATG
*
18165026 ATAAGAATATTTAAG---TTTTAA
1 ATAAGAATCTTTAAGAACTTTTAA
* *
18165047 ATGATAATCTTTAAGAAACTTTTAA
1 ATAAGAATCTTTAAG-AACTTTTAA
*
18165072 ATAAGAATCTTTAAGAATTTTTAA
1 ATAAGAATCTTTAAGAACTTTTAA
18165096 AT
1 AT
18165098 GGGAGTTTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
21 12 0.29
24 10 0.24
25 19 0.46
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (24 bp):
ATAAGAATCTTTAAGAACTTTTAA
Found at i:18165124 original size:21 final size:21
Alignment explanation
Indices: 18165100--18165243 Score: 164
Period size: 21 Copynumber: 6.9 Consensus size: 21
18165090 TTTTAAATGG
*
18165100 GAGTTTTGAATGAGAAACTTT
1 GAGTTTTAAATGAGAAACTTT
18165121 GAGTTTTAAATGAGAAACTTT
1 GAGTTTTAAATGAGAAACTTT
* * *
18165142 GAGTATTAAGTGAGAATCTTT
1 GAGTTTTAAATGAGAAACTTT
* * *
18165163 AAGTTTTAAATCAGAAACTAT
1 GAGTTTTAAATGAGAAACTTT
* * *
18165184 GAGTTTTAGATAAGAATCTTT
1 GAGTTTTAAATGAGAAACTTT
*
18165205 GAGTTTTAAATGAGAACCTTT
1 GAGTTTTAAATGAGAAACTTT
* *
18165226 GA-ATTTAGATGAGAAACT
1 GAGTTTTAAATGAGAAACT
18165244 CTAAAATCAA
Statistics
Matches: 102, Mismatches: 21, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
20 13 0.13
21 89 0.87
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.37
Consensus pattern (21 bp):
GAGTTTTAAATGAGAAACTTT
Found at i:18165279 original size:20 final size:20
Alignment explanation
Indices: 18165254--18165294 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18165244 CTAAAATCAA
* * *
18165254 TCGAATGTGAATCTTTGAAC
1 TCGAATGAGAAGCTTTAAAC
18165274 TCGAATGAGAAGCTTTAAAC
1 TCGAATGAGAAGCTTTAAAC
18165294 T
1 T
18165295 TTTCAATGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (20 bp):
TCGAATGAGAAGCTTTAAAC
Found at i:18165411 original size:107 final size:108
Alignment explanation
Indices: 18165208--18165415 Score: 292
Period size: 107 Copynumber: 1.9 Consensus size: 108
18165198 AATCTTTGAG
* * * * *
18165208 TTTTAAATGAGAACCTTTGAATTTAGATGAGAAACTCTAAAATCAATCGAATGTGAATCTTTGAA
1 TTTTAAATGAAAACCTTTGAATTCAGATGAGAAACTCTAAAATCAATCAAATGTGAATCATTAAA
*
18165273 CTCGAATGAGAAGCTTTAAACTTTTCAATGTGAATCCCAAATT
66 CTCGAATGAGAAGCTTTAAACCTTTCAATGTGAATCCCAAATT
* * *
18165316 TTTTGAATGAAAACCTTTGAA-TCAGATGTGAAACTCTAAAATCTATCAAATGTGAATCATTAAA
1 TTTTAAATGAAAACCTTTGAATTCAGATGAGAAACTCTAAAATCAATCAAATGTGAATCATTAAA
* * **
18165380 CTCGAATGAGAAGCTTTGAGCCTTTGGATGTGAATC
66 CTCGAATGAGAAGCTTTAAACCTTTCAATGTGAATC
18165416 TCTAGAATTA
Statistics
Matches: 87, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
107 68 0.78
108 19 0.22
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (108 bp):
TTTTAAATGAAAACCTTTGAATTCAGATGAGAAACTCTAAAATCAATCAAATGTGAATCATTAAA
CTCGAATGAGAAGCTTTAAACCTTTCAATGTGAATCCCAAATT
Found at i:18165698 original size:18 final size:17
Alignment explanation
Indices: 18165623--18165700 Score: 54
Period size: 18 Copynumber: 4.5 Consensus size: 17
18165613 CTTTCTATCA
18165623 TGCGAA-CTGAAATTCT
1 TGCGAATCTGAAATTCT
** *
18165639 TATGAATTTGAAAATTCT
1 TGCGAATCTG-AAATTCT
*
18165657 TGC-AAGCTTGAAATT-T
1 TGCGAATC-TGAAATTCT
*
18165673 TTCTGAATCTGAAAATTCT
1 TGC-GAATCTG-AAATTCT
18165692 TGCGAATCT
1 TGCGAATCT
18165701 TTGAATTAGG
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
16 7 0.16
17 11 0.24
18 24 0.53
19 3 0.07
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (17 bp):
TGCGAATCTGAAATTCT
Found at i:18166035 original size:4 final size:4
Alignment explanation
Indices: 18166008--18166059 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
18165998 TATTTTAGAC
* * *
18166008 TTTA TTT- TGTA TTTA TCATA TTTA TTTA TTTA CTTA TTTA TTTTA TTTA
1 TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
18166057 TTT
1 TTT
18166060 TGTGGTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
3 2 0.05
4 30 0.77
5 7 0.18
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:18168024 original size:49 final size:47
Alignment explanation
Indices: 18167943--18168046 Score: 138
Period size: 49 Copynumber: 2.2 Consensus size: 47
18167933 AGATAAATGA
*
18167943 AAATAAAAAAAAAATTTCTAAATAGACCCAAATGGT-GAAAAATTTAG
1 AAATAAAAAAAAAATTTCTAAATAGACCCAAATGATAG-AAAATTTAG
* * *
18167990 AAATCAAAAAAGAAAATTTCTAAATTGGCTCAAATGATAGAAAATTTAG
1 AAAT-AAAAAA-AAAATTTCTAAATAGACCCAAATGATAGAAAATTTAG
18168039 AAATAAAA
1 AAATAAAA
18168047 CTTGTAAAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
47 4 0.08
48 10 0.20
49 35 0.70
50 1 0.02
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.24
Consensus pattern (47 bp):
AAATAAAAAAAAAATTTCTAAATAGACCCAAATGATAGAAAATTTAG
Found at i:18168933 original size:38 final size:38
Alignment explanation
Indices: 18168891--18168968 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
18168881 AAGAAAAAAG
18168891 GACCAAACTATTGTAGAAGCTACCCTTCTTCGACAAGA
1 GACCAAACTATTGTAGAAGCTACCCTTCTTCGACAAGA
18168929 GACCAAACTATTGTAGAAGCTACCCTTCTTCGACAAGA
1 GACCAAACTATTGTAGAAGCTACCCTTCTTCGACAAGA
18168967 GA
1 GA
18168969 AACCAAGTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (38 bp):
GACCAAACTATTGTAGAAGCTACCCTTCTTCGACAAGA
Found at i:18172068 original size:2 final size:2
Alignment explanation
Indices: 18172061--18172087 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18172051 ATAAAAAGCA
18172061 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
18172088 CACGTGTGTG
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:18172349 original size:75 final size:75
Alignment explanation
Indices: 18172188--18172337 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
18172178 CATGTTATAA
*
18172188 AACATCAAATTAGTAAAGTGTTAATTAAGCAGTAATCTGCATATGAGATGGAGAAATCAAACCTT
1 AACATCAAATTAGTAAAGTGCTAATTAAGCAGTAATCTGCATATGAGATGGAGAAATCAAACCTT
18172253 TGGGAGTATT
66 TGGGAGTATT
18172263 AACATCAAATTAGTAAAGTGCTAATTAAGCAGTAATCTGCATATGAGATGGAGAAATCAAACCTT
1 AACATCAAATTAGTAAAGTGCTAATTAAGCAGTAATCTGCATATGAGATGGAGAAATCAAACCTT
18172328 TGGGAGTATT
66 TGGGAGTATT
18172338 TGACTTCAAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (75 bp):
AACATCAAATTAGTAAAGTGCTAATTAAGCAGTAATCTGCATATGAGATGGAGAAATCAAACCTT
TGGGAGTATT
Found at i:18172386 original size:2 final size:2
Alignment explanation
Indices: 18172379--18172440 Score: 61
Period size: 2 Copynumber: 31.0 Consensus size: 2
18172369 CTTAGAAGTC
* * * *
18172379 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC AC AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
18172421 AC AT AT AC AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT
18172441 CAATATTTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (2 bp):
AT
Found at i:18172590 original size:12 final size:12
Alignment explanation
Indices: 18172573--18172603 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
18172563 AAAATTGAAG
18172573 AAAGCTTCTCCA
1 AAAGCTTCTCCA
*
18172585 AAAGCTTCTCCG
1 AAAGCTTCTCCA
18172597 AAAGCTT
1 AAAGCTT
18172604 AAAGCAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (12 bp):
AAAGCTTCTCCA
Found at i:18172621 original size:25 final size:26
Alignment explanation
Indices: 18172589--18172661 Score: 121
Period size: 26 Copynumber: 2.8 Consensus size: 26
18172579 TCTCCAAAAG
*
18172589 CTTCTCCGAAAGCTTAAAGCAA-GAA
1 CTTCTCCGAAAGCTTGAAGCAAGGAA
18172614 CTTCTCCGAAAGCTTGAAGCAAGGAA
1 CTTCTCCGAAAGCTTGAAGCAAGGAA
*
18172640 CTTCTCCAAAAGCTTGAAGCAA
1 CTTCTCCGAAAGCTTGAAGCAA
18172662 CAAGTTTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
25 21 0.47
26 24 0.53
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (26 bp):
CTTCTCCGAAAGCTTGAAGCAAGGAA
Found at i:18177970 original size:2 final size:2
Alignment explanation
Indices: 18177958--18177986 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18177948 ATATGTTGTA
18177958 AT AT A- 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
18177987 TAGATTAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18179436 original size:24 final size:22
Alignment explanation
Indices: 18179402--18179445 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
18179392 ATAATCCAAT
18179402 AAAAAAATATTATTAACTTAAA
1 AAAAAAATATTATTAACTTAAA
*
18179424 AAAAAAGATTATTATTACCTTA
1 AAAAAA-A-TATTATTAACTTA
18179446 GATAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 1 0.05
24 12 0.63
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAAAAATATTATTAACTTAAA
Found at i:18182263 original size:214 final size:216
Alignment explanation
Indices: 18181884--18182297 Score: 570
Period size: 214 Copynumber: 1.9 Consensus size: 216
18181874 AACGACTAAT
* * * *
18181884 ATTTCATTGCTAAAAGGTTAAAATCAATCAATTTTTTTTTTTTTTTCAAAATGAGAGAGGACCGA
1 ATTTCATTGCCAAAAGCTTAAAATCAATCAATTTTTTTTCTTTTTTCAAAATGAGAGAGGACCAA
* * * *
18181949 TAGAGGAGATTGATCCTTTCTTCTACATAATGCTTTTTGGTAGCCCCAAAGCATTTTATATAGAT
66 TAGAGGAGATTGATCCTCTCTTCCACATAATGCTTTTTGGCAGCCCAAAAGCATTTTATATAGAT
* *** *
18182014 GGGGATTGATTCCCTTAAGAAGGAATTGGTCCTTTTTCACTTAGAATGCTCTTTTTAGCTTAAA-
131 GGGGAGTGATTCCCTTAAGAAGGAATCCATCCTTTTTCACTCAGAATGCTCTTTTTAGCTTAAAG
18182078 AAAATTGTTTTGGCGACAAAA
196 AAAATTGTTTTGGCGACAAAA
* * * * *
18182099 ATTTCATTGCCATAAGCTTAAACTCCATCAA-TTTTTTTCTTTTTTCAAAATGAGCGAGGATCAA
1 ATTTCATTGCCAAAAGCTTAAAATCAATCAATTTTTTTTCTTTTTTCAAAATGAGAGAGGACCAA
18182163 TAGAGG-GTATTGATCCTCTC-TCGCACATAATGCCTTTTT-GCAGCCCAAAAGCATTTTATAT-
66 TAGAGGAG-ATTGATCCTCTCTTC-CACATAATG-CTTTTTGGCAGCCCAAAAGCATTTTATATA
* *
18182224 GAATGGGGAGTGATTCCCTTAAGAATGAATCCATCCTTTTTCACTCATAATGCTCTTTTTAGCTT
128 G-ATGGGGAGTGATTCCCTTAAGAAGGAATCCATCCTTTTTCACTCAGAATGCTCTTTTTAGCTT
18182289 AAAGAAAAT
192 AAAGAAAAT
18182298 ATATTTTTAA
Statistics
Matches: 174, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
213 4 0.02
214 133 0.76
215 37 0.21
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (216 bp):
ATTTCATTGCCAAAAGCTTAAAATCAATCAATTTTTTTTCTTTTTTCAAAATGAGAGAGGACCAA
TAGAGGAGATTGATCCTCTCTTCCACATAATGCTTTTTGGCAGCCCAAAAGCATTTTATATAGAT
GGGGAGTGATTCCCTTAAGAAGGAATCCATCCTTTTTCACTCAGAATGCTCTTTTTAGCTTAAAG
AAAATTGTTTTGGCGACAAAA
Found at i:18187397 original size:2 final size:2
Alignment explanation
Indices: 18187390--18187437 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
18187380 AAAAGAATTA
*
18187390 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
18187432 AT AG AG
1 AG AG AG
18187438 TATGTGCACT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.46, T:0.02
Consensus pattern (2 bp):
AG
Found at i:18189455 original size:31 final size:31
Alignment explanation
Indices: 18189418--18189497 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
18189408 TTTTTTATTT
*
18189418 CATTGCTAATTACTTTTAACAATAAAAATTC
1 CATTGCTAATTACTTTTAACAACAAAAATTC
* ** *
18189449 CTTTGCTAATTACTTTTAATGACGAAAATTC
1 CATTGCTAATTACTTTTAACAACAAAAATTC
*
18189480 CATCGCTAATTACTTTTA
1 CATTGCTAATTACTTTTA
18189498 TAAATTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.41
Consensus pattern (31 bp):
CATTGCTAATTACTTTTAACAACAAAAATTC
Found at i:18191810 original size:20 final size:20
Alignment explanation
Indices: 18191785--18191825 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
18191775 TTTGAAAGTA
18191785 TGTTTTATATGGCTTA-AATG
1 TGTTTTATAT-GCTTATAATG
*
18191805 TGTTTTGTATGCTTATAATG
1 TGTTTTATATGCTTATAATG
18191825 T
1 T
18191826 TATTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.22, C:0.05, G:0.20, T:0.54
Consensus pattern (20 bp):
TGTTTTATATGCTTATAATG
Found at i:18194034 original size:23 final size:25
Alignment explanation
Indices: 18194008--18194058 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
18193998 TATTTTTTTC
* *
18194008 TATA-AAAATT-TATTTTTTAAAGT
1 TATAGAAAATTATATATTTTAAAAT
*
18194031 TATAGAAACTTATATATTTTAAAAT
1 TATAGAAAATTATATATTTTAAAAT
18194056 TAT
1 TAT
18194059 TTTTTGAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 4 0.17
24 5 0.22
25 14 0.61
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (25 bp):
TATAGAAAATTATATATTTTAAAAT
Found at i:18195750 original size:154 final size:157
Alignment explanation
Indices: 18195558--18195848 Score: 360
Period size: 160 Copynumber: 1.9 Consensus size: 157
18195548 TCTTAAACAA
* * * *
18195558 ACATAAATCGTAATTTATTTACATATCAAATTGTGAAACTAAGTTCAATCATTCGGACAA-T-AT
1 ACATAAATCGTAATTTATTTACACATCAAATCGTGAAACTAAATTCAATCATTCGAACAATTAAT
* * * * *
18195621 CAT-ATGT-TTTAGCTATCTAAACTGTTAAAATATAAATATAACTGTAAAATTACATTTTGACCA
66 -ATCATGTATTAAGATATCTAAACTATTAAAATAGAAATATAACTGAAAAATTACATTTTGACCA
18195684 TTTAAAGGCATAAAAAAATGCTAATCAT
130 TTTAAAGGCATAAAAAAATGCTAATCAT
* *
18195712 ACATAAATGGTAACTTT-TTTACACATC-AATCGTGGAAACTAAATTCAATCATTTGAACAAGTT
1 ACATAAATCGTAA-TTTATTTACACATCAAATCGT-GAAACTAAATTCAATCATTCGAACAA--T
* *
18195775 TAATATCATGTAGTTAAGATATCTAAACTATTAAAATAGAAATATAATTGAAAAATTACATTTTT
62 TAATATCATGTA-TTAAGATATCTAAACTATTAAAATAGAAATATAACTGAAAAATTACATTTTG
*
18195840 ACCTTTTAA
126 ACCATTTAA
18195849 TGACAAAATA
Statistics
Matches: 114, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
153 5 0.04
154 44 0.39
155 3 0.03
157 3 0.03
158 6 0.05
160 53 0.46
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (157 bp):
ACATAAATCGTAATTTATTTACACATCAAATCGTGAAACTAAATTCAATCATTCGAACAATTAAT
ATCATGTATTAAGATATCTAAACTATTAAAATAGAAATATAACTGAAAAATTACATTTTGACCAT
TTAAAGGCATAAAAAAATGCTAATCAT
Found at i:18195967 original size:158 final size:160
Alignment explanation
Indices: 18195631--18196292 Score: 440
Period size: 158 Copynumber: 4.2 Consensus size: 160
18195621 CATATGTTTT
* *
18195631 AGCTATCTAAACTGTTAAAATATAAATATAACTGTAAAATTACATTTTGACCATTTAAAGGCATA
1 AGCTATCTAAACTGTTAAAATAGAAATATAACTGAAAAATTACATTTTGACCATTTAAAGGCATA
* * * *** ** *
18195696 AAAAAATGCTAATCATACATAAATGGTAACTTTTTTACACATCAATCGTGGAAACTAAATTCAAT
66 AAAAAATCCTAAACAAACATAAACAATAACTTTTTTACACATCAATCGTGGAAAAAAAAATCAAT
18195761 CATTTGAACAAGTTTAATATCATGTAGTTA
131 CATTTGAACAAGTTTAATATCATGTAGTTA
* * * * * * *
18195791 AGATATCTAAACTATTAAAATAGAAATATAATTGAAAAATTACATTTTTACC-TTTTAATG-A-C
1 AGCTATCTAAACTGTTAAAATAGAAATATAACTGAAAAATTACATTTTGACCATTTAAAGGCATA
* * * *
18195853 AAAATATCCTAAACAAACCTAAACAATAACTTTTTCATACATATCAATTGT-GAAAAAAAAATCA
66 AAAAAATCCTAAACAAACATAAACAATAACTTTTT--TACACATCAATCGTGGAAAAAAAAATCA
* *
18195917 ATCATTT-AGATAATTTTAATATCATGTA-TTGA
129 ATCATTTGA-ACAAGTTTAATATCATGTAGTT-A
* * * * * * * * *
18195949 AGCTATCCAAACTGTTAAAA-ATG--A-ATAA-TAGCAAATTTACTTTTTAAACTTTTAACGGGA
1 AGCTATCTAAACTGTTAAAATA-GAAATATAACT-GAAAAATTACATTTTGACCATTTAAAGGCA
* * * * * * ** **
18196009 T-AAAAAATCTTAAA-AAGATATAAACAGTAACTTTTTCACACATAAAAATCATGGAAACTAAGT
64 TAAAAAAATCCTAAACAA-ACATAAACAATAACTTTTTTACACAT--CAATCGTGGAAAAAAAAA
** * *
18196072 TCAATCATTCAAACAAGTTTAATATTATGTATTTA
126 TCAATCATTTGAACAAGTTTAATATCATGTAGTTA
* * * * * * * *
18196107 AGCTATGTAAATTGTTGAAACAGAAATATAAAT-ACAAAATTACCTTTTTG-CCCTTT-AACG-A
1 AGCTATCTAAACTGTTAAAATAGAAATATAACTGA-AAAATTA-CATTTTGACCATTTAAAGGCA
* * ** * ** * * *
18196168 TACAAAAATCCTAAACAAATATAAACGGTAACTTTTTCACACATTTTAGCTATGGAAACAAAAAT
64 TAAAAAAATCCTAAACAAACATAAACAATAACTTTTTTACACA-TCAATC-GTGGAAA-AAAAAA
* * * * *
18196233 TCAATAATTTGGACAAGTTTAATATAATCTATTTA
126 TCAATCATTTGAACAAGTTTAATATCATGTAGTTA
*
18196268 AGCTATCTAAACTGTTAAATTAGAA
1 AGCTATCTAAACTGTTAAAATAGAA
18196293 TAATAGTTGC
Statistics
Matches: 391, Mismatches: 84, Indels: 53
0.74 0.16 0.10
Matches are distributed among these distances:
154 1 0.00
155 23 0.06
156 8 0.02
157 63 0.16
158 103 0.26
159 26 0.07
160 91 0.23
161 69 0.18
162 7 0.02
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.34
Consensus pattern (160 bp):
AGCTATCTAAACTGTTAAAATAGAAATATAACTGAAAAATTACATTTTGACCATTTAAAGGCATA
AAAAAATCCTAAACAAACATAAACAATAACTTTTTTACACATCAATCGTGGAAAAAAAAATCAAT
CATTTGAACAAGTTTAATATCATGTAGTTA
Found at i:18196255 original size:161 final size:157
Alignment explanation
Indices: 18195616--18197733 Score: 692
Period size: 161 Copynumber: 13.2 Consensus size: 157
18195606 TCATTCGGAC
* * * * * ** * *
18195616 AATATCATATGTTTTAGCTATCTAAACTGTTAAAATATAAATATAACTGTAAAATTACATTTTGA
1 AATATCATGTATTTAAGCTATCTAAACTGTT-AAA-AGAAATATAAATACAAAATTACCTTTTTA
* * * * * * * ** * * *
18195681 CCATTTAAAGGCATAAAAAAATGCTAATCATACATAAATGGTAACTTTTTTACACA--TCAATCG
64 CC-TTTTAACG-ATACAAAAATCCTAAACAAATATAAACAGTAACTTTTTCACACATTTAAAT-A
* *
18195744 TGGAAACTAAATTCAATCATTTGAACAAGTTT
126 TGGAAACAAAATTCAATCATTTAAACAAGTTT
* * * * *
18195776 AATATCATGTAGTTAAGATATCTAAACTATTAAAATAGAAATATAATTGA-AAAATTACATTTTT
1 AATATCATGTATTTAAGCTATCTAAACTGTT-AAA-AGAAATATAAAT-ACAAAATTACCTTTTT
* ** * * * *
18195840 ACCTTTTAATG--ACAAAATATCCTAAACAAACCTAAACAATAACTTTTTCATACATATCAAT-T
63 ACCTTTTAACGATACAAAA-ATCCTAAACAAATATAAACAGTAACTTTTTCACACATTTAAATAT
* * * * *
18195902 GTGAAAAAAAAATCAATCATTTAGATAATTTT
127 G-GAAACAAAATTCAATCATTTAAACAAGTTT
* * * *
18195934 AATATCATGTATTGAAGCTATCCAAACTGTTAAAA-ATGA-AT-AATAGCAAATTTA-CTTTTTA
1 AATATCATGTATTTAAGCTATCTAAACTGTTAAAAGA-AATATAAATA-CAAAATTACCTTTTT-
* * **
18195995 AACTTTTAACGGGATA-AAAAATCTTAAA-AAGATATAAACAGTAACTTTTTCACACATAAAAAT
63 ACCTTTTAAC--GATACAAAAATCCTAAACAA-ATATAAACAGTAACTTTTTCACACATTTAAAT
* * *
18196058 CATGGAAACTAAGTTCAATCATTCAAACAAGTTT
125 -ATGGAAACAAAATTCAATCATTTAAACAAGTTT
* * * *
18196092 AATATTATGTATTTAAGCTATGTAAATTGTTGAAACAGAAATATAAATACAAAATTACCTTTTTG
1 AATATCATGTATTTAAGCTATCTAAACTGTT-AAA-AGAAATATAAATACAAAATTACCTTTTTA
* * **
18196157 CCCTTTAACGATACAAAAATCCTAAACAAATATAAACGGTAACTTTTTCACACATTTTAGCTATG
64 CCTTTTAACGATACAAAAATCCTAAACAAATATAAACAGTAACTTTTTCACACA-TTTAAATATG
* **
18196222 GAAACAAAAATTCAATAATTTGGACAAGTTT
128 GAAAC-AAAATTCAATCATTTAAACAAGTTT
* * ** * * *
18196253 AATATAATCTATTTAAGCTATCTAAACTGTTAAATTAG-AATAATAGTTGC-AAACT-CGCATTT
1 AATATCATGTATTTAAGCTATCTAAACTGTTAAA--AGAAAT-ATAAATACAAAATTAC-CTTTT
* * * * * * *
18196315 TAGCTTTTTAATAGCATA-AAAAGTCTTAAATAGATATAAATCA-TAACTTTTTCACACATATCA
62 TA-CCTTTTAA-CG-ATACAAAAATCCTAAACAAATATAAA-CAGTAACTTTTTCACACAT-TTA
* * * * *
18196378 ACTATGTAAACCAAGTTCAATCATTCAAACAAGTTT
122 AATATGGAAACAAAATTCAATCATTTAAACAAGTTT
* * * * * * * * * ** *
18196414 AATATTATATATTTAAACTATCTAAATTGTTAAAATAAAACAATAATTGTC-AACTCGCATTTTT
1 AATATCATGTATTTAAGCTATCTAAACTGTTAAAA-GAAA-TATAAAT-ACAAAATTACCTTTTT
* * * * * *
18196478 GCTTTTTAACGGCATA-AAAAGTCCTAAACAGATATAAACTA-TAACTTTTTCACACATATCAAT
63 ACCTTTTAAC-G-ATACAAAAATCCTAAACAAATATAAAC-AGTAACTTTTTCACACATTTAAAT
* * * ** *
18196541 CATGAAAACCAAGTTCAATCATTTGGACAAATTT
125 -ATGGAAACAAAATTCAATCATTTAAACAAGTTT
* * * * * * * * * ** *
18196575 AATATCATGCATTTAAACTATCTAAATTGTTAAAATATAACAATAACTGCAAACTCATATTTTTG
1 AATATCATGTATTTAAGCTATCTAAACTGTTAAAAGA-AA-TATAAATACAAAATTACCTTTTTA
* * * * **
18196640 CTTTTTAAC-AGCACAAAAAGTCCTAAACATATATAAATCA-TAACTTTTTCACACATATCAACC
64 CCTTTTAACGA-TACAAAAA-TCCTAAACAAATATAAA-CAGTAACTTTTTCACACAT-TTAAAT
** * * *** * *
18196703 ATAAAAACTAAGTTCAATCATTCGGATAATTTT
125 ATGGAAACAAAATTCAATCATTTAAACAAGTTT
* * * * * *** * * *
18196736 AATATCATATA-TTGAGTCTATATAAACTATTAAATCAGAACA-ATAACTATGTACTTGCATTTT
1 AATATCATGTATTTAAG-CTATCTAAACTGTTAAA--AGAA-ATATAAATACAAAATTACCTTTT
* * * * ** *
18196799 TGCTTTTTAACAGCATA-AAAAGT-CTAAACAGATATAAAGTGTAACTTTTTCACACATATTAAC
62 TACCTTTTAAC-G-ATACAAAAATCCTAAACAAATATAAACAGTAACTTTTTCACACAT-TTAAA
* * * ** * * *** *
18196862 CATGAAAACCAGGTTAAATTATTCGGATAAGTTT
124 TATGGAAACAAAATTCAATCATTTAAACAAGTTT
* * * * * * **
18196896 AATATCATGTATTTAAGCTATCTAAA-TGGTTAAAATAAAACAATAACTGCAAACTCATATTTTT
1 AATATCATGTATTTAAGCTATCTAAACT-GTTAAAA-GAAA-TATAAATACAAAATTACCTTTTT
* * * * * * * * *
18196960 A-CTTTTCAACGACATAAAAAGTCCAAAATAGATATAAACCA-CAACTTTTTCACATATATCAAC
63 ACCTTTT-AACGATACAAAAA-TCCTAAACAAATATAAA-CAGTAACTTTTTCACACAT-TTAAA
* * * *
18197023 CATGAAAACCAAATTCAATCATTTTAACAAGTTT
124 TATGGAAACAAAATTCAATCATTTAAACAAGTTT
* * * * * *
18197057 AATATTATGTATTTAAGCTATCTAAACTGTTAAAACAAAACAATAACTAC-AAACTCCCTTTTTT
1 AATATCATGTATTTAAGCTATCTAAACTGTTAAAA-GAAA-TATAAATACAAAATTACC-TTTTT
* * * * * * * * * * **
18197121 GCTTTTTAACGGCATA-AAAAGTCATAAACAGATACAGACTGTAACTTTTTCACATATATCAACC
63 ACCTTTTAAC-G-ATACAAAAATCCTAAACAAATATAAACAGTAACTTTTTCACACAT-TTAAAT
** * * * * * *
18197185 ATAAAAACCAAATTCAATTATTCAGATAATTTT
125 ATGGAAACAAAATTCAATCATTTAAACAAGTTT
* * * * * * *
18197218 AATATCATATATTGAAGCTATCTAAACTGTTAAATTAGAACA-ATAACTATAAACTCA-CATTTT
1 AATATCATGTATTTAAGCTATCTAAACTGTTAAA--AGAA-ATATAAATACAAAATTACCTTTTT
* * * * * *
18197281 A-TTTTTTA--ATAGCATTAAAAGCCTAAACATATATAAATCA-TAACTTTTTCACACATATCAA
63 ACCTTTTAACGATA-CA--AAAATCCTAAACAAATATAAA-CAGTAACTTTTTCACACATTTAAA
* * * *
18197342 TGGTGAAAATC-AAGTTCAATCATTTGAAA-AAATTT
124 T-ATGGAAA-CAAAATTCAATCATTT-AAACAAGTTT
* * * * ** * * * * *
18197377 AATATAATGTATTTAAACTATCTAAACTGTTAAAACAGATCAATAGCTATAAACTCACATTTTTG
1 AATATCATGTATTTAAGCTATCTAAACTGTTAAAAGAAAT--ATAAATACAAAATTACCTTTTTA
* * * * * **
18197442 TCTTTTAACAGCAT-TAAAAGTCCTAAACAAATATAAACCGTAACTTTTTCACACATAGTAACCA
64 CCTTTTAAC-G-ATACAAAAATCCTAAACAAATATAAACAGTAACTTTTTCACACAT-TTAAATA
* * **
18197506 TGAAAATC-AAGTTCAATCATTCGAACAAGTTT
126 TGGAAA-CAAAATTCAATCATTTAAACAAGTTT
* * * * *
18197538 AATATTATATATTTAAGCTGTCTAAACTGTTAAATTA-AAATAATAACTACAAACTCGTA--TTT
1 AATATCATGTATTTAAGCTATCTAAACTGTTAAA--AGAAAT-ATAAATACAAAAT--TACCTTT
* * * * ** *
18197600 TTACTTTTTAAC-AGCACAAAAATTTCTAAACAGATATAAATTGTAACTTTTTCACACATATCAA
61 TTACCTTTTAACGA-TACAAAAA-TCCTAAACAAATATAAACAGTAACTTTTTCACACAT-TTAA
* * * * * **
18197664 CTATGAAAAC-CAAGTCTATTCATTTGGACAAGTTT
123 ATATGGAAACAAAATTC-AATCATTTAAACAAGTTT
* * * *
18197699 AATATCATATATTTAAGTTGTCTAAACTATTAAAA
1 AATATCATGTATTTAAGCTATCTAAACTGTTAAAA
18197734 TAAAACAATA
Statistics
Matches: 1529, Mismatches: 324, Indels: 211
0.74 0.16 0.10
Matches are distributed among these distances:
153 1 0.00
154 7 0.00
155 20 0.01
156 10 0.01
157 69 0.05
158 108 0.07
159 138 0.09
160 259 0.17
161 810 0.53
162 88 0.06
163 16 0.01
164 1 0.00
165 2 0.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (157 bp):
AATATCATGTATTTAAGCTATCTAAACTGTTAAAAGAAATATAAATACAAAATTACCTTTTTACC
TTTTAACGATACAAAAATCCTAAACAAATATAAACAGTAACTTTTTCACACATTTAAATATGGAA
ACAAAATTCAATCATTTAAACAAGTTT
Found at i:18196396 original size:322 final size:320
Alignment explanation
Indices: 18195443--18197733 Score: 1751
Period size: 322 Copynumber: 7.2 Consensus size: 320
18195433 GGCAATAATG
* * * *
18195443 AAGTTCAAACAGTC-AACAAGTTTAATATCATGTA-TTAGAGCTATCTAAACTATTAAAATAGAA
1 AAGTTCAATCATTCAAACAAGTTTAATATCATGTATTTA-AGCTATCTAAACTGTTAAAACAGAA
* * * ** * * * * * *
18195506 TAATAATTGCAAATTTGTATGTTT-AC--TTAACATCACAAAAAGTCTTAAACAAACATAAATC-
65 -AATAACTACAAAATTACATTTTTGCCTTTTAACAGCATAAAAAGTCCTAAACAAATATAAA-CG
* * * *
18195567 GTAA-TTTATT--TACATATCAA--ATTGTGAAACTAAGTTCAATCATTCGGAC------AATAT
128 GTAACTTT-TTCACACATATCAACCA-TG-AAAACCAAATTCAATCATTCGGACAAGTTTAATAT
* * * * * * * **
18195621 CATATGTTTTAGCTATCTAAACTGTTAAAATATAA-ATATAACTGTAAAATTACATTTTGACCAT
190 CATATATTTAAGCTATCTAAACTGTTAAATTAGAACA-ATAACTGCAAACTCACATTTT-ACTTT
* * * * * ** * *
18195685 TTAA-AGGCATAAAAAAATGCTAATCATACATAAATGGTAACTTTTTTACAC--ATCAA-TCGTG
253 TTAACA-GCAT-AAAAAGTCCTAAACAGATATAAATCATAACTTTTTCACACATATCAACT-ATG
* *
18195746 GAAACT
315 AAAACC
* ** * * * *
18195752 AAATTCAATCATTTGAACAAGTTTAATATCATGTAGTTAAGATATCTAAACTATTAAAATAGAAA
1 AAGTTCAATCATTCAAACAAGTTTAATATCATGTATTTAAGCTATCTAAACTGTTAAAACAGAAA
* * * * ** *
18195817 TATAATTGA-AAAATTACATTTTTACCTTTTAA-TGACA-AAATA-TCCTAAACAAACCTAAACA
66 -ATAACT-ACAAAATTACATTTTTGCCTTTTAACAG-CATAAAAAGTCCTAAACAAATATAAACG
* * *** * * ** * *
18195878 ATAACTTTTTCATACATATCAATTGTGAAAA-AAAAATCAATCATTTAGATAATTTTAATATCAT
128 GTAACTTTTTCACACATATCAACCATGAAAACCAAATTCAATCATTCGGACAAGTTTAATATCAT
* * * ** * * *
18195942 GTATTGAAGCTATCCAAACTGTTAAA--A-ATGAATAA-TAGCAAATTTACTTTTTAAAC-TTTT
193 ATATTTAAGCTATCTAAACTGTTAAATTAGAACAATAACT-GCAAACTCACATTTT--ACTTTTT
* * * * * * * *
18196002 AACGGGATAAAAAATCTTAAAAAGATATAAA-CAGTAACTTTTTCACACATA-AAAATCATGGAA
255 AACAGCATAAAAAGTCCTAAACAGATATAAATCA-TAACTTTTTCACACATATCAACT-ATGAAA
*
18196065 ACT
318 ACC
* * * *
18196068 AAGTTCAATCATTCAAACAAGTTTAATATTATGTATTTAAGCTATGTAAATTGTTGAAACAGAAA
1 AAGTTCAATCATTCAAACAAGTTTAATATCATGTATTTAAGCTATCTAAACTGTTAAAACAGAAA
* * * *
18196133 TATAAATACAAAATTACCTTTTTGCCCTTTAAC-G-ATACAAAAATCCTAAACAAATATAAACGG
66 -ATAACTACAAAATTACATTTTTGCCTTTTAACAGCATA-AAAAGTCCTAAACAAATATAAACGG
* * * * * * * * *
18196196 TAACTTTTTCACACATTTTAGCTATGGAAACAAAAATTCAATAATTTGGACAAGTTTAATATAAT
129 TAACTTTTTCACACATATCAACCATGAAAAC-CAAATTCAATCATTCGGACAAGTTTAATATCAT
* * ** *
18196261 CTATTTAAGCTATCTAAACTGTTAAATTAGAATAATAGTTGCAAACTCGCATTTTAGCTTTTTAA
193 ATATTTAAGCTATCTAAACTGTTAAATTAGAACAATAACTGCAAACTCACATTTTA-CTTTTTAA
* * * *
18196326 TAGCATAAAAAGTCTTAAATAGATATAAATCATAACTTTTTCACACATATCAACTATGTAAACC
257 CAGCATAAAAAGTCCTAAACAGATATAAATCATAACTTTTTCACACATATCAACTATGAAAACC
* * * * * *
18196390 AAGTTCAATCATTCAAACAAGTTTAATATTATATATTTAAACTATCTAAATTGTTAAAATAAAAC
1 AAGTTCAATCATTCAAACAAGTTTAATATCATGTATTTAAGCTATCTAAACTGTTAAAACAGAA-
* * * ** * * * **
18196455 AATAATTGTC-AACTCGCATTTTTGCTTTTTAACGGCATAAAAAGTCCTAAACAGATATAAACTA
65 AATAACT-ACAAAATTACATTTTTGCCTTTTAACAGCATAAAAAGTCCTAAACAAATATAAACGG
* * * * *
18196519 TAACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGACAAATTTAATATCATG
129 TAACTTTTTCACACATATCAACCATGAAAACCAAATTCAATCATTCGGACAAGTTTAATATCATA
* * * * * * *
18196584 CATTTAAACTATCTAAATTGTTAAAATATAACAATAACTGCAAACTCATATTTTTGCTTTTTAAC
194 TATTTAAGCTATCTAAACTGTTAAATTAGAACAATAACTGCAAACTCACA-TTTTACTTTTTAAC
* * * * *
18196649 AGCACAAAAAGTCCTAAACATATATAAATCATAACTTTTTCACACATATCAACCATAAAAACT
258 AGCATAAAAAGTCCTAAACAGATATAAATCATAACTTTTTCACACATATCAACTATGAAAACC
** * * * * * * *
18196712 AAGTTCAATCATTCGGATAATTTTAATATCATATA-TTGAGTCTATATAAACTATTAAATCAGAA
1 AAGTTCAATCATTCAAACAAGTTTAATATCATGTATTTAAG-CTATCTAAACTGTTAAAACAGAA
*** * * * *
18196776 CAATAACTATGTACTTGCATTTTTGCTTTTTAACAGCATAAAAAGT-CTAAACAGATATAAA-GT
65 -AATAACTACAAAATTACATTTTTGCCTTTTAACAGCATAAAAAGTCCTAAACAAATATAAACG-
* ** * * *
18196839 GTAACTTTTTCACACATATTAACCATGAAAACCAGGTTAAATTATTCGGATAAGTTTAATATCAT
128 GTAACTTTTTCACACATATCAACCATGAAAACCAAATTCAATCATTCGGACAAGTTTAATATCAT
* * * * *
18196904 GTATTTAAGCTATCTAAA-TGGTTAAAATAAAACAATAACTGCAAACTCATATTTTTACTTTTCA
193 ATATTTAAGCTATCTAAACT-GTTAAATTAGAACAATAACTGCAAACTCACA-TTTTACTTTTTA
* * * * * *
18196968 AC-GACATAAAAAGTCCAAAATAGATATAAACCACAACTTTTTCACATATATCAACCATGAAAAC
256 ACAG-CATAAAAAGTCCTAAACAGATATAAATCATAACTTTTTCACACATATCAACTATGAAAAC
18197032 C
320 C
* ** * *
18197033 AAATTCAATCATTTTAACAAGTTTAATATTATGTATTTAAGCTATCTAAACTGTTAAAACAAAAC
1 AAGTTCAATCATTCAAACAAGTTTAATATCATGTATTTAAGCTATCTAAACTGTTAAAACAGAA-
* ** * * * * * * * *
18197098 AATAACTACAAACTCCCTTTTTTGCTTTTTAACGGCATAAAAAGTCATAAACAGATACAGACTGT
65 AATAACTACAAAATTACATTTTTGCCTTTTAACAGCATAAAAAGTCCTAAACAAATATAAACGGT
* * * * * *
18197163 AACTTTTTCACATATATCAACCATAAAAACCAAATTCAATTATTCAGATAATTTTAATATCATAT
130 AACTTTTTCACACATATCAACCATGAAAACCAAATTCAATCATTCGGACAAGTTTAATATCATAT
* ** * *
18197228 ATTGAAGCTATCTAAACTGTTAAATTAGAACAATAACTATAAACTCACATTTTATTTTTTAATAG
195 ATTTAAGCTATCTAAACTGTTAAATTAGAACAATAACTGCAAACTCACATTTTACTTTTTAACAG
* * * *
18197293 CATTAAAAG-CCTAAACATATATAAATCATAACTTTTTCACACATATCAA-TGGTGAAAATC
260 CATAAAAAGTCCTAAACAGATATAAATCATAACTTTTTCACACATATCAACT-ATGAAAACC
* * * *
18197353 AAGTTCAATCATTTGAAA-AAATTTAATATAATGTATTTAAACTATCTAAACTGTTAAAACAGAT
1 AAGTTCAATCA-TTCAAACAAGTTTAATATCATGTATTTAAGCTATCTAAACTGTTAAAACAGA-
* * * * * * * *
18197417 CAATAGCTATAAACTCACATTTTTGTCTTTTAACAGCATTAAAAGTCCTAAACAAATATAAACCG
64 AAATAACTACAAAATTACATTTTTGCCTTTTAACAGCATAAAAAGTCCTAAACAAATATAAACGG
* * * *
18197482 TAACTTTTTCACACATAGT-AACCATGAAAATCAAGTTCAATCATTCGAACAAGTTTAATATTAT
129 TAACTTTTTCACACATA-TCAACCATGAAAACCAAATTCAATCATTCGGACAAGTTTAATATCAT
* * * * **
18197546 ATATTTAAGCTGTCTAAACTGTTAAATTAAAATAATAACTACAAACTCGTATTTTTACTTTTTAA
193 ATATTTAAGCTATCTAAACTGTTAAATTAGAACAATAACTGCAAACTCACA-TTTTACTTTTTAA
* * * **
18197611 CAGCACAAAAATTTCTAAACAGATATAAATTGTAACTTTTTCACACATATCAACTATGAAAACC
257 CAGCATAAAAAGTCCTAAACAGATATAAATCATAACTTTTTCACACATATCAACTATGAAAACC
* *** * * * *
18197675 AAG-TCTATTCATTTGGACAAGTTTAATATCATATATTTAAGTTGTCTAAACTATTAAAA
1 AAGTTC-AATCATTCAAACAAGTTTAATATCATGTATTTAAGCTATCTAAACTGTTAAAA
18197734 TAAAACAATA
Statistics
Matches: 1609, Mismatches: 306, Indels: 121
0.79 0.15 0.06
Matches are distributed among these distances:
309 11 0.01
310 61 0.04
311 24 0.01
312 20 0.01
313 19 0.01
314 34 0.02
315 29 0.02
316 99 0.06
317 39 0.02
318 29 0.02
319 50 0.03
320 242 0.15
321 321 0.20
322 567 0.35
323 61 0.04
324 3 0.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (320 bp):
AAGTTCAATCATTCAAACAAGTTTAATATCATGTATTTAAGCTATCTAAACTGTTAAAACAGAAA
ATAACTACAAAATTACATTTTTGCCTTTTAACAGCATAAAAAGTCCTAAACAAATATAAACGGTA
ACTTTTTCACACATATCAACCATGAAAACCAAATTCAATCATTCGGACAAGTTTAATATCATATA
TTTAAGCTATCTAAACTGTTAAATTAGAACAATAACTGCAAACTCACATTTTACTTTTTAACAGC
ATAAAAAGTCCTAAACAGATATAAATCATAACTTTTTCACACATATCAACTATGAAAACC
Found at i:18197012 original size:482 final size:479
Alignment explanation
Indices: 18195996--18197744 Score: 1831
Period size: 482 Copynumber: 3.6 Consensus size: 479
18195986 TACTTTTTAA
** * * ** *
18195996 ACTTTTAACGGGATAAAAAATCTTAAAA-AGATATAAA-CAGTAACTTTTTCACACATAAAAATC
1 ACTTTTAACGACATAAAAAGTC-CAAAACAGATATAAACCA-TAACTTTTTCACACATATCAACC
* * * * * *
18196059 ATGGAAACTAAGTTCAATCATTCAAACAAGTTTAATATTATGTATTTAAGCTATGTAAATTGTTG
64 ATGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATTATGTATTTAAGCTATCTAAACTGTTA
* * * * ** ** * *
18196124 AAACAGAAA-TATAAATACAAAATTACCTTTTTGCCCTTTAAC-GATACAAAAA-TCCTAAACAA
129 AAACA-AAACAATAACTACAAACTCATATTTTTGCTTTTTAACAG-CACAAAAAGTCCTAAACAG
* * * * ** * * *
18196186 ATATAAACGGTAACTTTTTCACACATTTTAGCTATGGAAACAAAAATTCAATAATTTGGACAAGT
192 ATATAAACGGTAACTTTTTCACACATATCAACCATAAAAAC-CAAATTCAATCATTCGGACAAGT
* * * * *
18196251 TTAATATAATCTATTTAAGCTATCTAAACTGTTAAATTAGAATAAT-AGT-TGCAAACTCGCATT
256 TTAATATCATATA-TTGAGCTATCTAAACTGTTAAATTAGAACAATAACTATG--AACTCGCATT
* *
18196314 TTAGCTTTTTAATAGCATAAAAAGTCTTAAATAGATATAAATCATAACTTTTTCACACATATCAA
318 TTTGCTTTTTAATAGCATAAAAAGTC-TAAACAGATATAAATCATAACTTTTTCACACATATCAA
* * * *
18196379 CTATGTAAACCAAGTTCAATCATTC-AAACAAGTTTAATATTATATATTTAAACTATCTAAATTG
382 CCATGAAAACCAAGTTCAATCATTCGAAA-AAGTTTAATATAATGTATTTAAACTATCTAAA-TG
* *
18196443 TTAAAATAAAACAATAATTGTC-AACTCGCATTTTT
445 TTAAAATAAAACAATAACTG-CAAACTCACATTTTT
* * * * *
18196478 GCTTTTTAACGGCATAAAAAGTCCTAAACAGATATAAACTATAACTTTTTCACACATATCAATCA
1 AC-TTTTAACGACATAAAAAGTCCAAAACAGATATAAACCATAACTTTTTCACACATATCAACCA
* * * * * * *
18196543 TGAAAACCAAGTTCAATCATTTGGACAAATTTAATATCATGCATTTAAACTATCTAAATTGTTAA
65 TGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATTATGTATTTAAGCTATCTAAACTGTTAA
* * * *
18196608 AATATAACAATAACTGCAAACTCATATTTTTGCTTTTTAACAGCACAAAAAGTCCTAAACATATA
130 AACAAAACAATAACTACAAACTCATATTTTTGCTTTTTAACAGCACAAAAAGTCCTAAACAGATA
* * * * *
18196673 TAAATC-ATAACTTTTTCACACATATCAACCATAAAAACTAAGTTCAATCATTCGGATAATTTTA
195 TAAA-CGGTAACTTTTTCACACATATCAACCATAAAAACCAAATTCAATCATTCGGACAAGTTTA
* * * * *
18196737 ATATCATATATTGAGTCTATATAAACTATTAAATCAGAACAATAACTATGTACTTGCATTTTTGC
259 ATATCATATATTGAG-CTATCTAAACTGTTAAATTAGAACAATAACTATGAACTCGCATTTTTGC
* * *
18196802 TTTTTAACAGCATAAAAAGTCTAAACAGATATAAAGT-GTAACTTTTTCACACATATTAACCATG
323 TTTTTAATAGCATAAAAAGTCTAAACAGATATAAA-TCATAACTTTTTCACACATATCAACCATG
* * * * * * *
18196866 AAAACCAGGTTAAATTATTCGGATAAGTTTAATATCATGTATTTAAGCTATCTAAATGGTTAAAA
387 AAAACCAAGTTCAATCATTCGAAAAAGTTTAATATAATGTATTTAAACTATCTAAAT-GTTAAAA
*
18196931 TAAAACAATAACTGCAAACTCATATTTTT
451 TAAAACAATAACTGCAAACTCACATTTTT
* * *
18196960 ACTTTTCAACGACATAAAAAGTCCAAAATAGATATAAACCACAACTTTTTCACATATATCAACCA
1 ACTTTT-AACGACATAAAAAGTCCAAAACAGATATAAACCATAACTTTTTCACACATATCAACCA
* **
18197025 TGAAAACCAAATTCAATCATTTTAACAAGTTTAATATTATGTATTTAAGCTATCTAAACTGTTAA
65 TGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATTATGTATTTAAGCTATCTAAACTGTTAA
* * * *
18197090 AACAAAACAATAACTACAAACTCCCT-TTTTTGCTTTTTAACGGCATAAAAAGTCATAAACAGAT
130 AACAAAACAATAACTACAAACT-CATATTTTTGCTTTTTAACAGCACAAAAAGTCCTAAACAGAT
* * * * * * * *
18197154 ACAGACTGTAACTTTTTCACATATATCAACCATAAAAACCAAATTCAATTATTCAGATAATTTTA
194 ATAAACGGTAACTTTTTCACACATATCAACCATAAAAACCAAATTCAATCATTCGGACAAGTTTA
* *
18197219 ATATCATATATTGAAGCTATCTAAACTGTTAAATTAGAACAATAACTATAAACTCACATTTTAT-
259 ATATCATATATTG-AGCTATCTAAACTGTTAAATTAGAACAATAACTATGAACTCGCATTTT-TG
* * * ***
18197283 -TTTTTAATAGCATTAAAAGCCTAAACATATATAAATCATAACTTTTTCACACATATCAATGGTG
322 CTTTTTAATAGCATAAAAAGTCTAAACAGATATAAATCATAACTTTTTCACACATATCAACCATG
* * *
18197347 AAAATCAAGTTCAATCATTTGAAAAAATTTAATATAATGTATTTAAACTATCTAAACTGTTAAAA
387 AAAACCAAGTTCAATCATTCGAAAAAGTTTAATATAATGTATTTAAACTATCTAAA-TGTTAAAA
* * * * **
18197412 CAGATCAATAGCTATAAACTCACATTTTT
451 TAAAACAATAACTGCAAACTCACATTTTT
* * * * *
18197441 GTCTTTTAAC-AGCATTAAAAGTCCTAAACAAATATAAACCGTAACTTTTTCACACATAGT-AAC
1 -ACTTTTAACGA-CATAAAAAGTCCAAAACAGATATAAACCATAACTTTTTCACACATA-TCAAC
* * *
18197504 CATGAAAATCAAGTTCAATCATTCGAACAAGTTTAATATTATATATTTAAGCTGTCTAAACTGTT
63 CATGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATTATGTATTTAAGCTATCTAAACTGTT
** * * * * *
18197569 AAATTAAAATAATAACTACAAACTCGTATTTTTACTTTTTAACAGCACAAAAATTTCTAAACAGA
128 AAAACAAAACAATAACTACAAACTCATATTTTTGCTTTTTAACAGCACAAAAAGTCCTAAACAGA
** * * * * *
18197634 TATAAATTGTAACTTTTTCACACATATCAACTATGAAAACC-AAGTCTATTCATTTGGACAAGTT
193 TATAAACGGTAACTTTTTCACACATATCAACCATAAAAACCAAATTC-AATCATTCGGACAAGTT
* * * * * *
18197698 TAATATCATATATTTAAGTTGTCTAAACTATTAAAATAAAACAATAA
257 TAATATCATATA-TTGAGCTATCTAAACTGTTAAATTAGAACAATAA
18197745 TTGTAAATTT
Statistics
Matches: 1059, Mismatches: 181, Indels: 55
0.82 0.14 0.04
Matches are distributed among these distances:
480 8 0.01
481 375 0.35
482 401 0.38
483 227 0.21
484 45 0.04
485 3 0.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (479 bp):
ACTTTTAACGACATAAAAAGTCCAAAACAGATATAAACCATAACTTTTTCACACATATCAACCAT
GAAAACCAAGTTCAATCATTCGAACAAGTTTAATATTATGTATTTAAGCTATCTAAACTGTTAAA
ACAAAACAATAACTACAAACTCATATTTTTGCTTTTTAACAGCACAAAAAGTCCTAAACAGATAT
AAACGGTAACTTTTTCACACATATCAACCATAAAAACCAAATTCAATCATTCGGACAAGTTTAAT
ATCATATATTGAGCTATCTAAACTGTTAAATTAGAACAATAACTATGAACTCGCATTTTTGCTTT
TTAATAGCATAAAAAGTCTAAACAGATATAAATCATAACTTTTTCACACATATCAACCATGAAAA
CCAAGTTCAATCATTCGAAAAAGTTTAATATAATGTATTTAAACTATCTAAATGTTAAAATAAAA
CAATAACTGCAAACTCACATTTTT
Found at i:18197854 original size:122 final size:122
Alignment explanation
Indices: 18197635--18197863 Score: 307
Period size: 122 Copynumber: 1.9 Consensus size: 122
18197625 CTAAACAGAT
* * * * **
18197635 ATAAATTGTAACTTTTTCACACATATCAACTATGAAAACCAAGTCTATTCATTTGGACAAGTTTA
1 ATAAACTGTAACTTTTTCACACATATCAACCATAAAAACCAAGTCAATTCATTCAGACAAGTTTA
* * *
18197700 ATATCATATATTTAAGTTGTCTAAACTATTAAAATAAAACAATAATTGTAAATTTGC
66 ATATCATATATTTAAGCTATCTAAACTATTAAAACAAAACAATAATTGTAAATTTGC
* **
18197757 ATAAACTGTAACTTTTTTACACATATCAACCATAAAAATTAAGTTCAATT-ATTCAGACAAGTTT
1 ATAAACTGTAACTTTTTCACACATATCAACCATAAAAACCAAG-TCAATTCATTCAGACAAGTTT
* * *
18197821 AATGTTATATATTTAAGCTATCTAAACTGTTAAAACAAAACAA
65 AATATCATATATTTAAGCTATCTAAACTATTAAAACAAAACAA
18197864 AAACTACAAA
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
122 86 0.95
123 5 0.05
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (122 bp):
ATAAACTGTAACTTTTTCACACATATCAACCATAAAAACCAAGTCAATTCATTCAGACAAGTTTA
ATATCATATATTTAAGCTATCTAAACTATTAAAACAAAACAATAATTGTAAATTTGC
Found at i:18198435 original size:322 final size:321
Alignment explanation
Indices: 18197757--18198709 Score: 1173
Period size: 322 Copynumber: 3.0 Consensus size: 321
18197747 GTAAATTTGC
* * * *
18197757 ATAAACTG-TAACTTTTTTACACATATCAACCATAAAAATTAAGTTCAATTATTCAGACAAGTTT
1 ATAAACCGATAACTTTTTTACACATATCAACCATAAAAACTAAGTTCAATAATTCGGACAAGTTT
* * *
18197821 AATGTTATATATTTAAGCTATCTAAACTGTTAAAACAAAACAAAAACTACAAACTCCCATTTTTG
66 AATATTATGTATTTAAGCTATCTAAACTGTTAAAACAAATCAAAAACTACAAACTCCCATTTTTG
* * * * *
18197886 CTTTTTAATAGCACAAAAAGTCGT-AACAGATATAAACTGTAGCTTTTTCACACATATCAACCAC
131 CTTTTTAATAGCATAAAAAGTCCTAAACAGATATAAACCGTA-ATTTTTCA-ACATATCAACCAT
* * *
18197950 AAAAACCAAGTTAATCATTCGAACAATTTTAATATCATATGTTGAAGCTATCCAAATTGTTAAAT
194 AAAAACCAAGTTAATCATTTGAACAATTTTAATATCATATATTGAAGCTATCTAAATTGTTAAAT
* * * *
18198015 CAAAACAATAACTGCAAACTTGCATTTTTGCTTTTTAACGGCATAAAAAA-TCTTAAAAAGAT
259 CAGAATAATAACTGCAAACTTGCATTTTTGCTTTTTAATGACATAAAAAATTCTTAAAAAGAT
* *
18198077 ATAAACCGA-AACTTTTTTACCCATATCAACCATAAAAACTAAGTTCAATAATTTGGACAAGTTT
1 ATAAACCGATAACTTTTTTACACATATCAACCATAAAAACTAAGTTCAATAATTCGGACAAGTTT
* * * * * * *
18198141 AATATAATGTGTTTAAGCTATCTAAACTATTAAAACATATCAACAATTGCAAACTCCCATTTTTG
66 AATATTATGTATTTAAGCTATCTAAACTGTTAAAACAAATCAAAAACTACAAACTCCCATTTTTG
** * * *
18198206 CTTTTTAACGGCATAAAAAGTCCTAAATAAATATAAACCATAATTTTTTCATACATATCAACCAT
131 CTTTTTAATAGCATAAAAAGTCCTAAACAGATATAAACCGTAA-TTTTTCA-ACATATCAACCAT
* * * * * * *
18198271 GAAAACCAAGTTCAATCATTTGGATAATTTTATTATCATAAATTGAAGTTATCTAAATTGTTAAT
194 AAAAACCAAGTT-AATCATTTGAACAATTTTAATATCATATATTGAAGCTATCTAAATTGTTAAA
* * *
18198336 TCAGAATAATAACTGCAAACTCGCAATTTTGCTTTTTAATGACATAAAAAATTC-TAAACAGAT
258 TCAGAATAATAACTGCAAACTTGCATTTTTGCTTTTTAATGACATAAAAAATTCTTAAAAAGAT
* * * * * * *
18198399 ATAAACC-ATAACTTTTTCATACATATTAATCATAAAAACCAAGTTCAATCATTCGAACAAGTTT
1 ATAAACCGATAACTTTTTTACACATATCAACCATAAAAACTAAGTTCAATAATTCGGACAAGTTT
* * * *
18198463 AATATTATGTATTTAAGCTATCTAAACTGTTAAAATAAATCAATAACTACAAACTCACATTTTAG
66 AATATTATGTATTTAAGCTATCTAAACTGTTAAAACAAATCAAAAACTACAAACTCCCATTTTTG
* * * *
18198528 CTTTTTAATAGCATAAAAAGTTCTAAACAGGTATAAATCGTAACTTTTCAAGCATATCAACCATA
131 CTTTTTAATAGCATAAAAAGTCCTAAACAGATATAAACCGTAATTTTTCAA-CATATCAACCATA
* * * *
18198593 AAAACCAAGTTTAATCATTTGAACAAATTTAATATTATTTATTGAAACTATCTAAATTGTTAAAA
195 AAAACCAAG-TTAATCATTTGAACAATTTTAATATCATATATTGAAGCTATCTAAATTGTT-AAA
** * * *
18198658 T-AGAATAATAACTATAAATTTGTATTTTTGCTTTTTAATGACAATAAGAAAT
258 TCAGAATAATAACTGCAAACTTGCATTTTTGCTTTTTAATGAC-ATAAAAAAT
18198710 CATAAATAGA
Statistics
Matches: 533, Mismatches: 90, Indels: 18
0.83 0.14 0.03
Matches are distributed among these distances:
320 133 0.25
321 146 0.27
322 252 0.47
323 2 0.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (321 bp):
ATAAACCGATAACTTTTTTACACATATCAACCATAAAAACTAAGTTCAATAATTCGGACAAGTTT
AATATTATGTATTTAAGCTATCTAAACTGTTAAAACAAATCAAAAACTACAAACTCCCATTTTTG
CTTTTTAATAGCATAAAAAGTCCTAAACAGATATAAACCGTAATTTTTCAACATATCAACCATAA
AAACCAAGTTAATCATTTGAACAATTTTAATATCATATATTGAAGCTATCTAAATTGTTAAATCA
GAATAATAACTGCAAACTTGCATTTTTGCTTTTTAATGACATAAAAAATTCTTAAAAAGAT
Found at i:18198657 original size:160 final size:161
Alignment explanation
Indices: 18197757--18198696 Score: 914
Period size: 161 Copynumber: 5.9 Consensus size: 161
18197747 GTAAATTTGC
* * * ** * *
18197757 ATAAACTGTAACTTTTTTACACATATCAACCATAAAAATTAAGTTCAATTA-TTCAGACAAGTTT
1 ATAAACCGTAACTTTTTCATACATATCAACCATAAAAACCAAGTTCAATCATTTGA-ACAAGTTT
* * * * *
18197821 AATGTTATATATTTAAGCTATCTAAACTGTTAAAACAAAACAAAAACTACAAACTCCCATTTTTG
65 AATATTATATATTGAAGCTATCTAAACTGTTAAAATAAATCAATAACTACAAACTCCCATTTTTG
*
18197886 CTTTTTAATAGCACAAAAAG-TCGT-AACAGAT
130 CTTTTTAATAGCATAAAAAGTTC-TAAACAGAT
* * * * * *
18197917 ATAAACTGTAGCTTTTTCACACATATCAACCACAAAAACCAAGTT-AATCATTCGAACAATTTTA
1 ATAAACCGTAACTTTTTCATACATATCAACCATAAAAACCAAGTTCAATCATTTGAACAAGTTTA
* * * * * * **
18197981 ATATCATATGTTGAAGCTATCCAAATTGTT-AAATCAAAACAATAACTGCAAACTTGCATTTTTG
66 ATATTATATATTGAAGCTATCTAAACTGTTAAAAT-AAATCAATAACTACAAACTCCCATTTTTG
** * *
18198045 CTTTTTAACGGCATAAAAA-ATCTTAAAAAGAT
130 CTTTTTAATAGCATAAAAAGTTC-TAAACAGAT
* * ** * * *
18198077 ATAAACCGAAACTTTTTTACCCATATCAACCATAAAAACTAAGTTCAATAATTTGGACAAGTTTA
1 ATAAACCGTAACTTTTTCATACATATCAACCATAAAAACCAAGTTCAATCATTTGAACAAGTTTA
* * * * * * * * * *
18198142 ATATAATGTGTTTAAGCTATCTAAACTATTAAAACATATCAACAATTGCAAACTCCCATTTTTGC
66 ATATTATATATTGAAGCTATCTAAACTGTTAAAATAAATCAATAACTACAAACTCCCATTTTTGC
** * * *
18198207 TTTTTAACGGCATAAAAAGTCCTAAATAAAT
131 TTTTTAATAGCATAAAAAGTTCTAAACAGAT
* * * * * *
18198238 ATAAACCATAATTTTTTCATACATATCAACCATGAAAACCAAGTTCAATCATTTGGATAATTTTA
1 ATAAACCGTAACTTTTTCATACATATCAACCATAAAAACCAAGTTCAATCATTTGAACAAGTTTA
* * * * * * * * *
18198303 TTATCATAAATTGAAGTTATCTAAATTGTT-AATTCAGAAT-AATAACTGCAAACTCGCAATTTT
66 ATATTATATATTGAAGCTATCTAAACTGTTAAAAT-A-AATCAATAACTACAAACTCCCATTTTT
*
18198366 GCTTTTTAAT-GACATAAAAAATTCTAAACAGAT
129 GCTTTTTAATAG-CATAAAAAGTTCTAAACAGAT
* * * *
18198399 ATAAACCATAACTTTTTCATACATATTAATCATAAAAACCAAGTTCAATCATTCGAACAAGTTTA
1 ATAAACCGTAACTTTTTCATACATATCAACCATAAAAACCAAGTTCAATCATTTGAACAAGTTTA
* * * *
18198464 ATATTATGTATTTAAGCTATCTAAACTGTTAAAATAAATCAATAACTACAAACTCACATTTTAGC
66 ATATTATATATTGAAGCTATCTAAACTGTTAAAATAAATCAATAACTACAAACTCCCATTTTTGC
*
18198529 TTTTTAATAGCATAAAAAGTTCTAAACAGGT
131 TTTTTAATAGCATAAAAAGTTCTAAACAGAT
* * *
18198560 ATAAATCGTAAC-TTTTCA-AGCATATCAACCATAAAAACCAAGTTTAATCATTTGAACAAATTT
1 ATAAACCGTAACTTTTTCATA-CATATCAACCATAAAAACCAAGTTCAATCATTTGAACAAGTTT
* * * * * ***
18198623 AATATTATTTATTGAAACTATCTAAATTGTTAAAATAGAAT-AATAACTATAAATTTGTATTTTT
65 AATATTATATATTGAAGCTATCTAAACTGTTAAAATA-AATCAATAACTACAAACTCCCATTTTT
18198687 GCTTTTTAAT
129 GCTTTTTAAT
18198697 GACAATAAGA
Statistics
Matches: 641, Mismatches: 124, Indels: 30
0.81 0.16 0.04
Matches are distributed among these distances:
158 3 0.00
159 81 0.13
160 196 0.31
161 351 0.55
162 10 0.02
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (161 bp):
ATAAACCGTAACTTTTTCATACATATCAACCATAAAAACCAAGTTCAATCATTTGAACAAGTTTA
ATATTATATATTGAAGCTATCTAAACTGTTAAAATAAATCAATAACTACAAACTCCCATTTTTGC
TTTTTAATAGCATAAAAAGTTCTAAACAGAT
Found at i:18199228 original size:20 final size:20
Alignment explanation
Indices: 18199203--18199240 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18199193 AACTTTAAAA
18199203 TAATTAA-TATTTCTAATATG
1 TAATTAATTA-TTCTAATATG
18199223 TAATTAATTATTCTAATA
1 TAATTAATTATTCTAATA
18199241 CCTAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (20 bp):
TAATTAATTATTCTAATATG
Found at i:18202734 original size:12 final size:12
Alignment explanation
Indices: 18202717--18202747 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
18202707 ACAATTTGTC
18202717 AAGTACTATAAG
1 AAGTACTATAAG
18202729 AAGTACTATAAG
1 AAGTACTATAAG
18202741 AAGTACT
1 AAGTACT
18202748 TATCACTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (12 bp):
AAGTACTATAAG
Found at i:18204925 original size:94 final size:92
Alignment explanation
Indices: 18204796--18204974 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 92
18204786 GATCATTTAT
* * * * *
18204796 AAAAAAAATAAGAATATAAAAAAGGCAAACTAAAACTGCATAATTATTCTTTAATTGAACTAATT
1 AAAAAAAATAAGAATAAAAAAAAAGCAAACTAAAACTACATAATTATTCCTTAATTGAACCAATT
*
18204861 AAGTAAGAATTTCAAAATTCAATTGAA
66 AAATAAGAATTTCAAAATTCAATTGAA
* * *
18204888 AAAAAAAATAAGGATCTAAAAAAAAAGCAACCTAAAACTATATAATTATTCCTTAATTGAACCAA
1 AAAAAAAATAA-GA-ATAAAAAAAAAGCAAACTAAAACTACATAATTATTCCTTAATTGAACCAA
18204953 TTAAATAAGAATTTCAAAATTC
64 TTAAATAAGAATTTCAAAATTC
18204975 TAAAACATGT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
92 11 0.14
93 2 0.03
94 63 0.83
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.27
Consensus pattern (92 bp):
AAAAAAAATAAGAATAAAAAAAAAGCAAACTAAAACTACATAATTATTCCTTAATTGAACCAATT
AAATAAGAATTTCAAAATTCAATTGAA
Found at i:18206746 original size:106 final size:107
Alignment explanation
Indices: 18206560--18206756 Score: 315
Period size: 106 Copynumber: 1.9 Consensus size: 107
18206550 ATTGAGTGTG
* * **
18206560 GTTTACTTTCGCATTTGTTTGAATCCACTTAACACTGTTATCTGGTATACTAATGGTTTAAACCT
1 GTTTACTTTCGCATTTATTTGAATCCACTTAACACTGTTATATGGTATACTAACAGTTTAAACCT
18206625 TTCTACTACAATCTTAATGTTAAAATGAATTAAACAAAAGCA
66 TTCTACTACAATCTTAATGTTAAAATGAATTAAACAAAAGCA
* * * *
18206667 GTTTACTTTTGCATTTATTTGAA-CCATTTAACACTGTTATATGGTATATTAACAGTTTAAATCT
1 GTTTACTTTCGCATTTATTTGAATCCACTTAACACTGTTATATGGTATACTAACAGTTTAAACCT
18206731 TTCTACTACAATCTTAATGTTAAAAT
66 TTCTACTACAATCTTAATGTTAAAAT
18206757 ATATGTCGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
106 61 0.74
107 21 0.26
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (107 bp):
GTTTACTTTCGCATTTATTTGAATCCACTTAACACTGTTATATGGTATACTAACAGTTTAAACCT
TTCTACTACAATCTTAATGTTAAAATGAATTAAACAAAAGCA
Found at i:18208153 original size:13 final size:13
Alignment explanation
Indices: 18208135--18208162 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18208125 TTATTGCCTC
18208135 TTTCAAGACAAAT
1 TTTCAAGACAAAT
18208148 TTTCAAGACAAAT
1 TTTCAAGACAAAT
18208161 TT
1 TT
18208163 CTTAACAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (13 bp):
TTTCAAGACAAAT
Found at i:18208563 original size:28 final size:28
Alignment explanation
Indices: 18208528--18208594 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
18208518 GATACGGTTT
18208528 ATTTTAAAATATATTTTATAAAAAAAAC
1 ATTTTAAAATATATTTTATAAAAAAAAC
18208556 ATTTTAAAATATATTTTATAAAAAAAAC
1 ATTTTAAAATATATTTTATAAAAAAAAC
18208584 ATTTTAAAATA
1 ATTTTAAAATA
18208595 ATAAAATTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (28 bp):
ATTTTAAAATATATTTTATAAAAAAAAC
Found at i:18208836 original size:33 final size:33
Alignment explanation
Indices: 18208755--18208852 Score: 106
Period size: 33 Copynumber: 2.9 Consensus size: 33
18208745 TGTACTAATA
* * *
18208755 CTGCTAACTTTATACTAACATCGTTAACTTCAAATG
1 CTGCTAACTTTATACTAACA-CATCAA-AT-AAATG
* *
18208791 CTGTTAATTTTATACTAACACATCAAATAAATG
1 CTGCTAACTTTATACTAACACATCAAATAAATG
* *
18208824 TTGCTAACTTTATTCTAACACATCAAATA
1 CTGCTAACTTTATACTAACACATCAAATA
18208853 GTGGTGTTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
33 30 0.57
34 1 0.02
35 4 0.08
36 18 0.34
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (33 bp):
CTGCTAACTTTATACTAACACATCAAATAAATG
Found at i:18210735 original size:33 final size:32
Alignment explanation
Indices: 18210683--18210759 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 32
18210673 GTTTAATAAA
* **
18210683 ATATATATAAAATTTATTTTTA-ATTAATTTTC
1 ATATATATAAAATTAATTTTTATA-TAATTCAC
*
18210715 ATATATATGTAAATTAATTTTTATATAATTCAC
1 ATATATAT-AAAATTAATTTTTATATAATTCAC
18210748 ATATATATAAAA
1 ATATATATAAAA
18210760 ATAAAAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
32 11 0.29
33 26 0.68
34 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (32 bp):
ATATATATAAAATTAATTTTTATATAATTCAC
Found at i:18216545 original size:7 final size:7
Alignment explanation
Indices: 18216535--18216684 Score: 88
Period size: 7 Copynumber: 22.6 Consensus size: 7
18216525 TTCAAAGTTT
18216535 GTTTAGG
1 GTTTAGG
18216542 GTTTA-G
1 GTTTAGG
**
18216548 AATTAGG
1 GTTTAGG
* *
18216555 TTTTAGAA
1 GTTTAG-G
18216563 GT-TAGG
1 GTTTAGG
18216569 GTTTA-G
1 GTTTAGG
18216575 GTTTAGG
1 GTTTAGG
18216582 GTTT--G
1 GTTTAGG
*
18216587 GATTAGG
1 GTTTAGG
18216594 GTTT--G
1 GTTTAGG
*
18216599 ATTTAGG
1 GTTTAGG
18216606 GTTTAGG
1 GTTTAGG
18216613 GTTT-GAG
1 GTTTAG-G
*
18216620 ATTTAGG
1 GTTTAGG
**
18216627 GTTTATA
1 GTTTAGG
*
18216634 GTTTAAG
1 GTTTAGG
*
18216641 GTTTAAG
1 GTTTAGG
18216648 GTTTA-G
1 GTTTAGG
18216654 GTGTTAGG
1 GT-TTAGG
*
18216662 GCTTAGG
1 GTTTAGG
18216669 GTTT--G
1 GTTTAGG
18216674 GTTTAGG
1 GTTTAGG
18216681 GTTT
1 GTTT
18216685 GACTTGTATA
Statistics
Matches: 110, Mismatches: 19, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
5 13 0.12
6 16 0.15
7 77 0.70
8 4 0.04
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:18216559 original size:13 final size:14
Alignment explanation
Indices: 18216537--18216611 Score: 65
Period size: 13 Copynumber: 5.8 Consensus size: 14
18216527 CAAAGTTTGT
18216537 TTAGGGTTTAGAA-
1 TTAGGGTTTAGAAG
*
18216550 TTAGGTTTTAGAAG
1 TTAGGGTTTAGAAG
18216564 TTAGGGTTTAG--G
1 TTAGGGTTTAGAAG
*
18216576 TTTAGGGTTT-GGA-
1 -TTAGGGTTTAGAAG
*
18216589 TTAGGGTTT-G-AT
1 TTAGGGTTTAGAAG
18216601 TTAGGGTTTAG
1 TTAGGGTTTAG
18216612 GGTTTGAGAT
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
11 1 0.02
12 21 0.39
13 22 0.41
14 10 0.19
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (14 bp):
TTAGGGTTTAGAAG
Found at i:18216594 original size:12 final size:12
Alignment explanation
Indices: 18216564--18216609 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
18216554 GTTTTAGAAG
*
18216564 TTAGGGTTTAGGT
1 TTAGGGTTT-GGA
18216577 TTAGGGTTTGGA
1 TTAGGGTTTGGA
18216589 TTAGGGTTT-GA
1 TTAGGGTTTGGA
18216600 TTTAGGGTTT
1 -TTAGGGTTT
18216610 AGGGTTTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
11 2 0.06
12 20 0.65
13 9 0.29
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (12 bp):
TTAGGGTTTGGA
Found at i:18218388 original size:140 final size:144
Alignment explanation
Indices: 18218107--18218511 Score: 335
Period size: 143 Copynumber: 2.8 Consensus size: 144
18218097 CATTTTGTGA
*
18218107 TTTTAATGCACCAAAAATCATAAAAATAATATGAAATCATGATCTAAAAATTTTCATGAAAAACC
1 TTTTAATGCACCAAAAATCATAAAAATAATATAAAATCATGATCTAAAAATTTTCATGAAAAACC
* * * * * * *
18218172 AACCTCGGGAAGTTAAATTAGAAAAATACCTTTAAAGGGTACTTTAGTAATTTTACACCTATTGA
66 AACATCGGGAAGTCAAATTACAAAAATACCCTTAAAGGGCACTTTAATAATTTTACACATATTGA
* *
18218237 GTTGAGATCAAGGT
131 GGTAAGATCAAGGT
* * *
18218251 TTTTAATGCATCAAAAATCAT-AAAATAAT-TCAAAAT-ATGAT-TGGAACA-TTTCATGAAAAA
1 TTTTAATGCACCAAAAATCATAAAAATAATAT-AAAATCATGATCT-AAAAATTTTCATGAAAAA
* * * * *
18218311 CCAATATCTGTAAGGTCAAATTACAAAAA-CCCCTT-AAGGGCATTTTAATAATTTTACACAT-T
64 CCAACATCGGGAA-GTCAAATTACAAAAATACCCTTAAAGGGCACTTTAATAATTTTACACATAT
*
18218373 TCGAGGTAAGATCAAGTT
128 T-GAGGTAAGATCAAGGT
* ** ** * * * **
18218391 TTTTATTATACCAAAAAATCAT-CCAATAATGTTTAAAT-ATGATCTAAAAGTTTTCACAAAAAA
1 TTTTAATGCACC-AAAAATCATAAAAATAAT-ATAAAATCATGATCTAAAAATTTTCATGAAAAA
* * * ** * * * *
18218454 ACAACTTTGAAAAGGTCAAAATACAAAAATACCCTTAAAGGGTATTTTAGTAATTTTA
64 CCAACATCGGGAA-GTCAAATTACAAAAATACCCTTAAAGGGCACTTTAATAATTTTA
18218512 TTTTCTCGAA
Statistics
Matches: 208, Mismatches: 42, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
139 2 0.01
140 43 0.21
141 41 0.20
142 33 0.16
143 45 0.22
144 25 0.12
145 19 0.09
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (144 bp):
TTTTAATGCACCAAAAATCATAAAAATAATATAAAATCATGATCTAAAAATTTTCATGAAAAACC
AACATCGGGAAGTCAAATTACAAAAATACCCTTAAAGGGCACTTTAATAATTTTACACATATTGA
GGTAAGATCAAGGT
Found at i:18219088 original size:41 final size:41
Alignment explanation
Indices: 18218941--18219258 Score: 219
Period size: 41 Copynumber: 7.8 Consensus size: 41
18218931 TTAAAATCAA
* * * * * *
18218941 GATTCATAATGGAGTCAAA-GATTCAAAATTGAAAGACTATG
1 GATTCACAATAGAGT-AAATGATTCATAGTTGGAAGACTCTG
* * ** * * * *
18218982 GATTCACATTAGAGAAAACAATTCACAGTTGGATGATTCTA
1 GATTCACAATAGAGTAAATGATTCATAGTTGGAAGACTCTG
* * *
18219023 GATTCAC-ATAAGAGAAAATGATTCATATTTAGAAGACTCTG
1 GATTCACAAT-AGAGTAAATGATTCATAGTTGGAAGACTCTG
* * * *
18219064 GATTCACAATAGAGTAAATTATTCATAGTTGGAAAAATCTA
1 GATTCACAATAGAGTAAATGATTCATAGTTGGAAGACTCTG
* * * * * *
18219105 GATTCATAACAAAGTAAACGATTTATAGTTGGAGGACTCTG
1 GATTCACAATAGAGTAAATGATTCATAGTTGGAAGACTCTG
* * * *
18219146 GATTCAC-ATAAGAGAAAATGATTCATAATTAGAAGACTTTG
1 GATTCACAAT-AGAGTAAATGATTCATAGTTGGAAGACTCTG
* * * ** * * * *
18219187 GATTTACAACAAAGTAAACAATACACAGTTTGAAGACTTTG
1 GATTCACAATAGAGTAAATGATTCATAGTTGGAAGACTCTG
*
18219228 GATTTACAATAGAGTAAATGATTCATAGTTG
1 GATTCACAATAGAGTAAATGATTCATAGTTG
18219259 TCATAACGAA
Statistics
Matches: 207, Mismatches: 65, Indels: 10
0.73 0.23 0.04
Matches are distributed among these distances:
40 5 0.02
41 199 0.96
42 3 0.01
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.30
Consensus pattern (41 bp):
GATTCACAATAGAGTAAATGATTCATAGTTGGAAGACTCTG
Found at i:18219244 original size:123 final size:123
Alignment explanation
Indices: 18218973--18219258 Score: 320
Period size: 123 Copynumber: 2.3 Consensus size: 123
18218963 TCAAAATTGA
* * * * * *
18218973 AAGACTATGGATTCACATTAGAGAAAACAATTCACAGTTGGATGATTCTAGATTCACATAAGAGA
1 AAGACTATGGATTCACAATAGAGTAAACGATTCATAGTTGGAGGACTCTAGATTCACATAAGAGA
* * * ** * *
18219038 AAATGATTCATATTTAGAAGACTCTGGATTCACAATAGAGTAAATTATTCATAGTTGG
66 AAATGATTCATAATTAGAAGACTCTGGATTCACAACAAAGTAAACAATACACAGTTGG
* * * * * * * * *
18219096 AAAAATCTAGATTCATAACAAAGTAAACGATTTATAGTTGGAGGACTCTGGATTCACATAAGAGA
1 AAGACTATGGATTCACAATAGAGTAAACGATTCATAGTTGGAGGACTCTAGATTCACATAAGAGA
* * *
18219161 AAATGATTCATAATTAGAAGACTTTGGATTTACAACAAAGTAAACAATACACAGTTTG
66 AAATGATTCATAATTAGAAGACTCTGGATTCACAACAAAGTAAACAATACACAGTTGG
* * *
18219219 AAGACTTTGGATTTACAATAGAGTAAATGATTCATAGTTG
1 AAGACTATGGATTCACAATAGAGTAAACGATTCATAGTTG
18219259 TCATAACGAA
Statistics
Matches: 128, Mismatches: 35, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
123 128 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (123 bp):
AAGACTATGGATTCACAATAGAGTAAACGATTCATAGTTGGAGGACTCTAGATTCACATAAGAGA
AAATGATTCATAATTAGAAGACTCTGGATTCACAACAAAGTAAACAATACACAGTTGG
Found at i:18220019 original size:5 final size:5
Alignment explanation
Indices: 18220011--18220099 Score: 51
Period size: 5 Copynumber: 16.8 Consensus size: 5
18220001 AGAAAAGAAA
18220011 AAAAT AAAAAT AAAAAT AAAAT AATAAGGT -AAAT AAAAT -AAAT -AAAT
1 AAAAT -AAAAT -AAAAT AAAAT AA-AA--T AAAAT AAAAT AAAAT AAAAT
* *
18220058 AAAAT GAAAT GAAAT CGAGAAAT AAAAT GAAAA- AAAAT AAAA
1 AAAAT AAAAT AAAAT --A-AAAT AAAAT -AAAAT AAAAT AAAA
18220100 AGGAAACCTT
Statistics
Matches: 71, Mismatches: 2, Indels: 21
0.76 0.02 0.22
Matches are distributed among these distances:
4 13 0.18
5 32 0.45
6 20 0.28
7 1 0.01
8 5 0.07
ACGTcount: A:0.73, C:0.01, G:0.08, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:18220062 original size:18 final size:18
Alignment explanation
Indices: 18220018--18220072 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
18220008 AAAAAAATAA
18220018 AAATAAAAATAAAAT-AAT
1 AAAT-AAAATAAAATAAAT
*
18220036 AAGGT-AAATAAAATAAAT
1 AA-ATAAAATAAAATAAAT
*
18220054 AAATAAAATGAAATGAAAT
1 AAATAAAATAAAAT-AAAT
18220073 CGAGAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
17 10 0.33
18 15 0.50
19 5 0.17
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (18 bp):
AAATAAAATAAAATAAAT
Found at i:18220067 original size:23 final size:23
Alignment explanation
Indices: 18220041--18220098 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
18220031 ATAATAAGGT
*
18220041 AAATAAAATAAATAAATAAAATG
1 AAATAAAATAAAGAAATAAAATG
* **
18220064 AAATGAAATCGAGAAATAAAATG
1 AAATAAAATAAAGAAATAAAATG
*
18220087 AAAAAAAATAAA
1 AAATAAAATAAA
18220099 AAGGAAACCT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (23 bp):
AAATAAAATAAAGAAATAAAATG
Found at i:18220384 original size:51 final size:51
Alignment explanation
Indices: 18220303--18220406 Score: 138
Period size: 51 Copynumber: 2.0 Consensus size: 51
18220293 CAAGAACAAC
* * ** *
18220303 CATCGAAAACTTCAATCGAAAACTGGAAAACCTATCAATTTTTGGAAAAGT
1 CATCGAAAACTTCAACCAAAAACTAAAAAACCCATCAATTTTTGGAAAAGT
*
18220354 CATCG-AAACATTCAACCAAAAACTAAAAAACCCATCGATTTTTGGAAAAGT
1 CATCGAAAAC-TTCAACCAAAAACTAAAAAACCCATCAATTTTTGGAAAAGT
18220405 CA
1 CA
18220407 CTGGAATCCC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 4 0.09
51 42 0.91
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (51 bp):
CATCGAAAACTTCAACCAAAAACTAAAAAACCCATCAATTTTTGGAAAAGT
Found at i:18220953 original size:3 final size:3
Alignment explanation
Indices: 18220933--18221036 Score: 86
Period size: 3 Copynumber: 34.3 Consensus size: 3
18220923 AGAAAAGCAG
* * **
18220933 AAT AAT AAAG AAT AAAT AAT AAT AAT AAT AAT AAT GAT AAT GGT AAT
1 AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
18220980 AAT AAT AAT AGT AAT ATT ACT AAT -AT AAT ATAT TAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
*
18221024 AAT AAT GAT AAT A
1 AAT AAT AAT AAT A
18221037 CTACAATATG
Statistics
Matches: 79, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
2 4 0.05
3 68 0.86
4 7 0.09
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:18221835 original size:114 final size:113
Alignment explanation
Indices: 18221564--18221836 Score: 314
Period size: 113 Copynumber: 2.4 Consensus size: 113
18221554 ATGATGTCAT
* * * * * ** * **
18221564 GAGTCTGAAAGCAACCAAGATCGAGTTGAGGTTATATACGAATGATCGAGATGATGTCGTAAGTC
1 GAGTATGAAAGTAACCAAGATCGAGTTAAGGTCATAGATAAATGATCGAGATGATGCCAAAAGTC
* * * *
18221629 TAAAAATAATCTGGCCTGAGCCAAGATCAGATGATTGGATGATCTCGC
66 TAAAAATAATCTAGCCTGAGCCAAGATCAGATGATGGGATCATCTCAC
* * * *
18221677 GAGTTTGGAAGTAACCAAGATCGAGTTAAAGTCATAGATAAATGATGGAGATGATGCCAAAAGTC
1 GAGTATGAAAGTAACCAAGATCGAGTTAAGGTCATAGATAAATGATCGAGATGATGCCAAAAGTC
* * * *
18221742 TAAAAATGATCTAGCCTGAGTCGAGATTAGATGACTGGGATCATGC-CAC
66 TAAAAATAATCTAGCCTGAGCCAAGATCAGATGA-TGGGATCAT-CTCAC
*
18221791 GAGTATGAAAGTGACCAAGATCGAGTTAAGGTCATAGATAAATGAT
1 GAGTATGAAAGTAACCAAGATCGAGTTAAGGTCATAGATAAATGAT
18221837 TAGGATGATA
Statistics
Matches: 133, Mismatches: 25, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
113 81 0.61
114 51 0.38
115 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (113 bp):
GAGTATGAAAGTAACCAAGATCGAGTTAAGGTCATAGATAAATGATCGAGATGATGCCAAAAGTC
TAAAAATAATCTAGCCTGAGCCAAGATCAGATGATGGGATCATCTCAC
Found at i:18232604 original size:42 final size:43
Alignment explanation
Indices: 18232532--18232613 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 43
18232522 ATGAAAAATA
**
18232532 ATCTCAAATTTATTAAGCAAGGCTTAGATAATAAAGAATCGCT
1 ATCTCAAATTTATTAAGCAAGGCCCAGATAATAAAGAATCGCT
* *
18232575 ATCTTAAA-TTATTAAGCAAGGCCCGGATAATAAAGAATC
1 ATCTCAAATTTATTAAGCAAGGCCCAGATAATAAAGAATC
18232614 ATTTACTGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 28 0.80
43 7 0.20
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (43 bp):
ATCTCAAATTTATTAAGCAAGGCCCAGATAATAAAGAATCGCT
Found at i:18234354 original size:3 final size:3
Alignment explanation
Indices: 18234348--18234382 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
18234338 AATAATAATA
*
18234348 ATG ATG ATG ATG ATG ATG ATG ATG ATA ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
18234383 ACCAATAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:18234383 original size:9 final size:9
Alignment explanation
Indices: 18234345--18234383 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
18234335 AATAATAATA
18234345 ATAATGATG
1 ATAATGATG
*
18234354 ATGATGATG
1 ATAATGATG
*
18234363 ATGATGATG
1 ATAATGATG
18234372 ATAATGATG
1 ATAATGATG
18234381 ATA
1 ATA
18234384 CCAATAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.33
Consensus pattern (9 bp):
ATAATGATG
Found at i:18234430 original size:15 final size:15
Alignment explanation
Indices: 18234387--18234430 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18234377 GATGATACCA
* *
18234387 ATAACAATAATAACG
1 ATAATAATAATAATG
**
18234402 ATAATGGTAATAATG
1 ATAATAATAATAATG
18234417 ATAATAATAATAAT
1 ATAATAATAATAAT
18234431 TATAGTAATG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (15 bp):
ATAATAATAATAATG
Found at i:18234704 original size:41 final size:41
Alignment explanation
Indices: 18234643--18234897 Score: 248
Period size: 41 Copynumber: 6.2 Consensus size: 41
18234633 GTGTCTATTG
* * *
18234643 TAGTTGGAAGACTTTTGATTCACAATAGAGTAAATGACTCA
1 TAGTTGGAAGACTCTAGATTCACAATAGAGTAAATGATTCA
* * * *
18234684 TAGTTGGAGGTCTCTAGATTCATAGTAGAG-AAACTGATTCA
1 TAGTTGGAAGACTCTAGATTCACAATAGAGTAAA-TGATTCA
* * *
18234725 TGGTTGGAGGACTCTTGATTCAC-ATATGAG-AAATGATTCA
1 TAGTTGGAAGACTCTAGATTCACAATA-GAGTAAATGATTCA
* * * *
18234765 TAGTTGAAAGACTTTGGATTCACAATAGAATAAATGATTCA
1 TAGTTGGAAGACTCTAGATTCACAATAGAGTAAATGATTCA
* * * ** *
18234806 TAATTGTAAGACTCTAGATTTACAATAGAGTAAACAACTCA
1 TAGTTGGAAGACTCTAGATTCACAATAGAGTAAATGATTCA
* * *
18234847 CT-GTTGGAAGACTCTGGATTCACATTAGAGAAAATGATTCA
1 -TAGTTGGAAGACTCTAGATTCACAATAGAGTAAATGATTCA
18234888 TAGTTGGAAG
1 TAGTTGGAAG
18234898 GCTTTGGATT
Statistics
Matches: 172, Mismatches: 36, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
40 33 0.19
41 138 0.80
42 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (41 bp):
TAGTTGGAAGACTCTAGATTCACAATAGAGTAAATGATTCA
Found at i:18234860 original size:122 final size:123
Alignment explanation
Indices: 18234643--18234912 Score: 332
Period size: 122 Copynumber: 2.2 Consensus size: 123
18234633 GTGTCTATTG
* * * * * *
18234643 TAGTTGGAAGACTTTTGATTCACAATAGAGTAAATGACTCATAGTTGGAGGTCTCTAGATTCATA
1 TAGTTGGAAGACTTTGGATTCACAATAGAATAAATGACTCATAATTGGAAGACTCTAGATTCACA
* * * * *
18234708 GTAGAGAAACTGATTCATGGTTGGAGGACTCTTGATTCACA-TATGAG-AAATGATTCA
66 ATAGAGAAACTAACTCATGGTTGGAAGACTCTGGATTCACATTA-GAGAAAATGATTCA
* * * *
18234765 TAGTTGAAAGACTTTGGATTCACAATAGAATAAATGATTCATAATTGTAAGACTCTAGATTTACA
1 TAGTTGGAAGACTTTGGATTCACAATAGAATAAATGACTCATAATTGGAAGACTCTAGATTCACA
18234830 ATAGAGTAAAC-AACTCACT-GTTGGAAGACTCTGGATTCACATTAGAGAAAATGATTCA
66 ATAGAG-AAACTAACTCA-TGGTTGGAAGACTCTGGATTCACATTAGAGAAAATGATTCA
* *
18234888 TAGTTGGAAGGCTTTGGATTTACAA
1 TAGTTGGAAGACTTTGGATTCACAA
18234913 CAAAGTTTAA
Statistics
Matches: 126, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
122 87 0.69
123 39 0.31
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (123 bp):
TAGTTGGAAGACTTTGGATTCACAATAGAATAAATGACTCATAATTGGAAGACTCTAGATTCACA
ATAGAGAAACTAACTCATGGTTGGAAGACTCTGGATTCACATTAGAGAAAATGATTCA
Found at i:18237570 original size:13 final size:13
Alignment explanation
Indices: 18237552--18237576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18237542 AGCCAATTTT
18237552 TGGAAGCAAAATG
1 TGGAAGCAAAATG
18237565 TGGAAGCAAAAT
1 TGGAAGCAAAAT
18237577 TCAACTAAGG
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:0.48, C:0.08, G:0.28, T:0.16
Consensus pattern (13 bp):
TGGAAGCAAAATG
Found at i:18239877 original size:19 final size:18
Alignment explanation
Indices: 18239853--18239907 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
18239843 AATAAAAAAT
18239853 TTTCTTTCTATTTCTTTTG
1 TTTCTTTCT-TTTCTTTTG
18239872 TTTCTTT-TTTT-TTTT-
1 TTTCTTTCTTTTCTTTTG
*
18239887 TTACTTTCTTTTCATTTTG
1 TTTCTTTCTTTTC-TTTTG
18239906 TT
1 TT
18239908 CCCCCTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
15 6 0.19
16 8 0.26
17 3 0.10
18 5 0.16
19 9 0.29
ACGTcount: A:0.05, C:0.13, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTCTTTCTTTTCTTTTG
Found at i:18249856 original size:10 final size:10
Alignment explanation
Indices: 18249841--18249866 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18249831 TTTTCCAAAA
18249841 ATAAAAAATT
1 ATAAAAAATT
18249851 ATAAAAAATT
1 ATAAAAAATT
18249861 ATAAAA
1 ATAAAA
18249867 TAAGGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:18255364 original size:6 final size:6
Alignment explanation
Indices: 18255354--18255397 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
18255344 GTCCAGATAA
* * *
18255354 TGATGA TGATGA TGAAGG TGATGG TGATGG TGATGG TGATGG TG
1 TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG TG
18255398 TGAATTTTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.32
Consensus pattern (6 bp):
TGATGG
Found at i:18255825 original size:18 final size:18
Alignment explanation
Indices: 18255740--18255826 Score: 51
Period size: 18 Copynumber: 5.1 Consensus size: 18
18255730 TATGGTTATT
18255740 ATCCACCTCAAATGTATC
1 ATCCACCTCAAATGTATC
* ** *
18255758 TTTTACCACAAATGTATC
1 ATCCACCTCAAATGTATC
18255776 --CCTA-CTACAAATGTATC
1 ATCC-ACCT-CAAATGTATC
* * *
18255793 AT---CTTTAAATATATC
1 ATCCACCTCAAATGTATC
18255808 ATCCACCTCAAATGTATC
1 ATCCACCTCAAATGTATC
18255826 A
1 A
18255827 AGAACAATGG
Statistics
Matches: 48, Mismatches: 13, Indels: 16
0.62 0.17 0.21
Matches are distributed among these distances:
15 10 0.21
16 2 0.04
17 11 0.23
18 25 0.52
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (18 bp):
ATCCACCTCAAATGTATC
Found at i:18257734 original size:21 final size:21
Alignment explanation
Indices: 18257710--18257749 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
18257700 TGTAATTTTA
18257710 TTAA-ATATGGATGTTTGGTAT
1 TTAACATAT-GATGTTTGGTAT
*
18257731 TTAACATATTATGTTTGGT
1 TTAACATATGATGTTTGGT
18257750 TAATATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.50
Consensus pattern (21 bp):
TTAACATATGATGTTTGGTAT
Found at i:18264018 original size:30 final size:32
Alignment explanation
Indices: 18263983--18264043 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
18263973 TCCTATTGAT
*
18263983 TAATT-AAACAAAAGTTTTGTTT-AATGAATA
1 TAATTAAAACAAAAGTTTCGTTTAAATGAATA
18264013 TAATTAAAACAAAAGTTTCGTTTAAATGAAT
1 TAATTAAAACAAAAGTTTCGTTTAAATGAAT
18264044 GCATTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 5 0.18
31 16 0.57
32 7 0.25
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (32 bp):
TAATTAAAACAAAAGTTTCGTTTAAATGAATA
Found at i:18264052 original size:32 final size:31
Alignment explanation
Indices: 18263984--18264058 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
18263974 CCTATTGATT
* *
18263984 AATT-AAACAAAAGTTTTGTTTAATGAATAT
1 AATTAAAACAAAAGTTTCGTTTAATGAATAC
*
18264014 AATTAAAACAAAAGTTTCGTTTAAATGAATGC
1 AATTAAAACAAAAGTTTCGTTT-AATGAATAC
* *
18264046 ATTTAAAATAAAA
1 AATTAAAACAAAA
18264059 AGAGTTTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
30 4 0.11
31 16 0.42
32 18 0.47
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (31 bp):
AATTAAAACAAAAGTTTCGTTTAATGAATAC
Found at i:18264076 original size:22 final size:23
Alignment explanation
Indices: 18264047--18264099 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
18264037 AATGAATGCA
18264047 TTTA-AAAT-AAAAAGAGTTTTG
1 TTTATAAATGAAAAAGAGTTTTG
**
18264068 TTTATAAATGAATGAGAGTTTTG
1 TTTATAAATGAAAAAGAGTTTTG
*
18264091 TTAATAAAT
1 TTTATAAAT
18264100 CACACTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 4 0.15
22 4 0.15
23 19 0.70
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.42
Consensus pattern (23 bp):
TTTATAAATGAAAAAGAGTTTTG
Found at i:18265346 original size:14 final size:14
Alignment explanation
Indices: 18265327--18265356 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18265317 TAAAATTTAG
18265327 ATACTATATTACAT
1 ATACTATATTACAT
18265341 ATACTATATTACAT
1 ATACTATATTACAT
18265355 AT
1 AT
18265357 TTCATTATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
ATACTATATTACAT
Found at i:18265612 original size:29 final size:28
Alignment explanation
Indices: 18265563--18265621 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
18265553 TACCACTAGA
* * *
18265563 TTGCTTCTTTTGTTTTTATTTTGATTTCT
1 TTGCTTCTTTTGCTTTCA-TTTCATTTCT
18265592 TTGCTTCATTTT-CTTTCATTTCATTTCT
1 TTGCTTC-TTTTGCTTTCATTTCATTTCT
18265620 TT
1 TT
18265622 TCTCATGAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 11 0.42
29 11 0.42
30 4 0.15
ACGTcount: A:0.08, C:0.15, G:0.07, T:0.69
Consensus pattern (28 bp):
TTGCTTCTTTTGCTTTCATTTCATTTCT
Found at i:18276926 original size:11 final size:12
Alignment explanation
Indices: 18276892--18276926 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
18276882 TAATTCAAAG
18276892 AATATTTTATTA
1 AATATTTTATTA
18276904 AATATTTTATTA
1 AATATTTTATTA
*
18276916 AA-ATTTAATTA
1 AATATTTTATTA
18276927 TGAAAAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AATATTTTATTA
Found at i:18279830 original size:98 final size:98
Alignment explanation
Indices: 18279706--18279889 Score: 314
Period size: 98 Copynumber: 1.9 Consensus size: 98
18279696 CTAAGAAACT
*
18279706 AATCACCATCAGTGAGTTTTAACAAGATCATCATCGTTTCCTCTTGTGATTGATTATTAAGGCTT
1 AATCACCATCAGTGAGTTTTAACAAGATCATCATCATTTCCTCTTGTGATTGATTATTAAGGCTT
* *
18279771 GTGGTTGCCTTATTTCATTGATTTCGTTTTGTA
66 ATGGTTGCCTCATTTCATTGATTTCGTTTTGTA
* * *
18279804 AATCATCATCAGTGAGTTTTAACAAGATCATGATCATTTTCTCTTGTGATTGATTATTAAGGCTT
1 AATCACCATCAGTGAGTTTTAACAAGATCATCATCATTTCCTCTTGTGATTGATTATTAAGGCTT
18279869 ATGGTTGCCTCATTTCATTGA
66 ATGGTTGCCTCATTTCATTGA
18279890 CTTCCTCCTG
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 80 1.00
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (98 bp):
AATCACCATCAGTGAGTTTTAACAAGATCATCATCATTTCCTCTTGTGATTGATTATTAAGGCTT
ATGGTTGCCTCATTTCATTGATTTCGTTTTGTA
Found at i:18279925 original size:20 final size:20
Alignment explanation
Indices: 18279873--18279928 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
18279863 AGGCTTATGG
*
18279873 TTGCCTCATTTCATTGA--C
1 TTGCCTCATTTCATTGATTA
* * *
18279891 TT-CCTCCTGTGATTGATTA
1 TTGCCTCATTTCATTGATTA
18279910 TTGCCTCATTTCATTGATT
1 TTGCCTCATTTCATTGATT
18279929 TCATTTTGTA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
17 11 0.39
18 2 0.07
19 2 0.07
20 13 0.46
ACGTcount: A:0.16, C:0.23, G:0.12, T:0.48
Consensus pattern (20 bp):
TTGCCTCATTTCATTGATTA
Found at i:18282707 original size:70 final size:70
Alignment explanation
Indices: 18282525--18282748 Score: 245
Period size: 70 Copynumber: 3.2 Consensus size: 70
18282515 AGTAACAAAG
* * * * * * * *
18282525 ACTACAATTTTATCTTTAAAAGGTGATCTTTATTAAAATTTCA-AATTTTCAAAAATAATGTTTT
1 ACTAC-ATTTTTTCCTTAAAATGTGATATTTGTTAAAATTTTAGAATTTT-AAAAATAAAGTTTC
*
18282589 AACATCT
64 AACAACT
* * * *
18282596 ATTACGTTTTTAT-CTTAAAAATGCGATATTTGTTAAAATTTTAGAATTTTAAAAATAAAGTCTC
1 ACTACATTTTT-TCCTT-AAAATGTGATATTTGTTAAAATTTTAGAATTTTAAAAATAAAGTTTC
*
18282660 AACAACC
64 AACAACT
* *
18282667 ACTACATTTTTTCCTTAAAATGTGATTTTTGTTAAAATTTTAGAATTTTAAAAATATAGTTTCAA
1 ACTACATTTTTTCCTTAAAATGTGATATTTGTTAAAATTTTAGAATTTTAAAAATAAAGTTTCAA
18282732 CAACT
66 CAACT
*
18282737 ACTACTTTTTTT
1 ACTACATTTTTT
18282749 TAATCTTAAA
Statistics
Matches: 127, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
70 67 0.53
71 54 0.43
72 6 0.05
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (70 bp):
ACTACATTTTTTCCTTAAAATGTGATATTTGTTAAAATTTTAGAATTTTAAAAATAAAGTTTCAA
CAACT
Found at i:18282964 original size:119 final size:119
Alignment explanation
Indices: 18282765--18283001 Score: 255
Period size: 119 Copynumber: 2.0 Consensus size: 119
18282755 TAAAACATGA
* * *
18282765 TTTTTTTTAACATCCACTATGATTTTTAAATTTAAAATATGGTCTATGTTAAAATTCTAAATTTC
1 TTTTTTTTAACATCCACTACGATTTTTAAATTTAAAATATGGTATATGTTAAAATTCAAAATTTC
*** * *
18282830 AAAAATATTGTTTCAACATCCATTATA-TTTTTATCTTAAAAACATAGGTTTTTT
66 AAAAATATAACTTCAACATCCACTACATTTTTTATCTTAAAAACATA-GTTTTTT
* * ** * *
18282884 TTTTTTTTTACATCTACTACG-TTTTTATCTTTAAAATGA-GGTATTTGTTAAATTTTCAAAATT
1 TTTTTTTTAACATCCACTACGATTTTTAAATTTAAAAT-ATGGTATATGTTAAA-ATTCAAAATT
* * * * *
18282947 TTAAAAATATAACTTCAATATGCACTACATTTTTTGTTTTAAAAACATAGTTTTT
64 TCAAAAATATAACTTCAACATCCACTACATTTTTTATCTTAAAAACATAGTTTTT
18283002 GTTAAACTTT
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
118 25 0.26
119 54 0.56
120 17 0.18
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (119 bp):
TTTTTTTTAACATCCACTACGATTTTTAAATTTAAAATATGGTATATGTTAAAATTCAAAATTTC
AAAAATATAACTTCAACATCCACTACATTTTTTATCTTAAAAACATAGTTTTTT
Found at i:18283160 original size:73 final size:71
Alignment explanation
Indices: 18282905--18283273 Score: 279
Period size: 72 Copynumber: 5.1 Consensus size: 71
18282895 ATCTACTACG
* * * * * *
18282905 TTTTTATCTTTAAAATGAGGTATTTGTT-AAATTTTCAAAATTTTAAAAATATAA-CTTCAATAT
1 TTTTTATCTTAAAAAT-A-GTCTTTGTTAAAATTTT-AGAATTTTAAAAATA-AAGTTTCAACAA
* *
18282968 GCACTACATT
62 CCACTACGTT
* *
18282978 TTTTGT-T-TTAAAAACATAGTTTTTGTTAAACTTTTA-AATTTTCAAAAATATAA-TTTCAACA
1 TTTT-TATCTT-AAAA-ATAGTCTTTGTTAAAATTTTAGAATTTT-AAAAATA-AAGTTTCAACA
* *
18283039 TCCACTA--TG
61 ACCACTACGTT
* * * * * *
18283048 TTTTTATCTTAAAAATACGGTCTTTATTAAAATTATAGAATTTTGAAAATATAGTTTTAACAGCC
1 TTTTTATCTTAAAAATA--GTCTTTGTTAAAATTTTAGAATTTTAAAAATAAAGTTTCAACAACC
18283113 ACTACGTT
64 ACTACGTT
* * * *
18283121 TTTTTATCATTAAAACATAATTTTTGTTAAAATTTTAGAATTTTGAAAATAAAGTTTCAATAACC
1 TTTTTATC-TTAAAA-ATAGTCTTTGTTAAAATTTTAGAATTTTAAAAATAAAGTTTCAACAACC
18283186 ACTACG-T
64 ACTACGTT
* * * * *
18283193 TTTTTATTTTTAAAAAGTAGTCTTTGTTAAAATTTCATAATTTCAAAAATAAAGTTTTAACAACC
1 TTTTTA-TCTTAAAAA-TAGTCTTTGTTAAAATTTTAGAATTTTAAAAATAAAGTTTCAACAACC
**
18283258 ACTATATT
64 ACTACGTT
18283266 TTTTTATC
1 TTTTTATC
18283274 CTATAAACTT
Statistics
Matches: 242, Mismatches: 36, Indels: 37
0.77 0.11 0.12
Matches are distributed among these distances:
69 4 0.02
70 11 0.05
71 42 0.17
72 97 0.40
73 76 0.31
74 9 0.04
75 3 0.01
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (71 bp):
TTTTTATCTTAAAAATAGTCTTTGTTAAAATTTTAGAATTTTAAAAATAAAGTTTCAACAACCAC
TACGTT
Found at i:18283249 original size:145 final size:143
Alignment explanation
Indices: 18282988--18283273 Score: 346
Period size: 145 Copynumber: 2.0 Consensus size: 143
18282978 TTTTGTTTTA
* * * *
18282988 AAAACATAGTTTTTGTTAAACTTTTAAATTTTCAAAAATATAATTTCAACATCCACTATGTTTTT
1 AAAACATAATTTTTGTTAAAATTTTAAATTTTCAAAAATATAATTTCAACAACCACTACGTTTTT
** * *
18283053 ATCTTAAAAATACGGTCTTTATTAAAATTATAGAATTTTGAAAATATAGTTTTAACAGCCACTAC
66 ATCTTAAAAATAC-GTCTTTATTAAAATTATAGAATTTCAAAAATAAAGTTTTAACAACCACTAC
*
18283118 GTTTTTTTATCATT
130 ATTTTTTTATCATT
* *
18283132 AAAACATAATTTTTGTTAAAATTTTAGAATTTT-GAAAATA-AAGTTTCAATAACCACTACGTTT
1 AAAACATAATTTTTGTTAAAATTTTA-AATTTTCAAAAATATAA-TTTCAACAACCACTACG-TT
* * *
18283195 TTTATTTTTAAAAAGTA-GTCTTTGTTAAAATT-TCATAATTTCAAAAATAAAGTTTTAACAACC
63 TTTA-TCTTAAAAA-TACGTCTTTATTAAAATTAT-AGAATTTCAAAAATAAAGTTTTAACAACC
*
18283258 ACTATATTTTTTTATC
125 ACTACATTTTTTTATC
18283274 CTATAAACTT
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
143 2 0.02
144 45 0.37
145 64 0.53
146 8 0.07
147 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.44
Consensus pattern (143 bp):
AAAACATAATTTTTGTTAAAATTTTAAATTTTCAAAAATATAATTTCAACAACCACTACGTTTTT
ATCTTAAAAATACGTCTTTATTAAAATTATAGAATTTCAAAAATAAAGTTTTAACAACCACTACA
TTTTTTTATCATT
Found at i:18283293 original size:145 final size:143
Alignment explanation
Indices: 18283000--18283314 Score: 318
Period size: 145 Copynumber: 2.2 Consensus size: 143
18282990 AACATAGTTT
* * *
18283000 TTGTTAAACTTTTAAATTTTCAAAAATATAATTTCAACATCCACTATGTTTTTATCTTAAAAATA
1 TTGTTAAAATTTTAAATTTTCAAAAATATAATTTCAACAACCACTACGTTTTTATCTTAAAAATA
** * * *
18283065 CGGTCTTTATTAAAATTATAGAATTTTGAAAATATAGTTTTAACAGCCACTACGTTTTTTTATCA
66 C-GTCTTTATTAAAATTATAGAATTTCAAAAATAAAGTTTTAACAACCACTACATTTTTTTATCA
**
18283130 TTAAAACATAATTT
130 TTAAAACATAATAA
* * *
18283144 TTGTTAAAATTTTAGAATTTT-GAAAATA-AAGTTTCAATAACCACTACGTTTTTTATTTTTAAA
1 TTGTTAAAATTTTA-AATTTTCAAAAATATAA-TTTCAACAACCACTACG-TTTTTA-TCTTAAA
* * *
18283207 AAGTA-GTCTTTGTTAAAATT-TCATAATTTCAAAAATAAAGTTTTAACAACCACTATATTTTTT
62 AA-TACGTCTTTATTAAAATTAT-AGAATTTCAAAAATAAAGTTTTAACAACCACTACATTTTTT
* * *
18283270 TATC-CTATAAACTTAGTAA
125 TATCATTA-AAACATAATAA
* * *
18283289 TTGTTGAAATTATAAA-TATCAAAAAT
1 TTGTTAAAATTTTAAATTTTCAAAAAT
18283315 CACATTTGTT
Statistics
Matches: 140, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
143 4 0.03
144 43 0.31
145 83 0.59
146 8 0.06
147 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (143 bp):
TTGTTAAAATTTTAAATTTTCAAAAATATAATTTCAACAACCACTACGTTTTTATCTTAAAAATA
CGTCTTTATTAAAATTATAGAATTTCAAAAATAAAGTTTTAACAACCACTACATTTTTTTATCAT
TAAAACATAATAA
Found at i:18283936 original size:19 final size:19
Alignment explanation
Indices: 18283914--18283958 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
18283904 AAATTCAACA
*
18283914 AATTTCTAATTTTGATAAT
1 AATTTCCAATTTTGATAAT
*
18283933 AATTTCCCAATTTTGCTAAT
1 AATTT-CCAATTTTGATAAT
18283953 AATTTC
1 AATTTC
18283959 ATAAATTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.49
Consensus pattern (19 bp):
AATTTCCAATTTTGATAAT
Done.