Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008258.1 Hibiscus syriacus cultivar Beakdansim tig00110911_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1617810
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:9 original size:4 final size:4
Alignment explanation
Indices: 1--657 Score: 1111
Period size: 4 Copynumber: 169.0 Consensus size: 4
1 CATA CATA CATA CATA CATA CATA CATA CA-A CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
48 CATA CATA CATA CATA CATA CATA -ATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
95 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
143 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
191 CATA C--A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
237 C--A CACA CATA CATA CACA CATA CATA -ACA CACA CATA CATA C--A
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
280 CATA CATA CATA CATA CATA C--A CATA CA-A CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
325 CATA CATA CATA CATA CAT- CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
372 CATA CATA TATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
420 CATA CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA C-TA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
465 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
513 CATA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
559 CATA CATA CATA CATA CATA CATA CATA CATA TATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
607 CATA CATA TCATA CATA CATA CATA CATA CAT- -ATA CATA CATA CATA
1 CATA CATA -CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
654 CATA
1 CATA
658 GAAAACCATA
Statistics
Matches: 623, Mismatches: 9, Indels: 42
0.92 0.01 0.06
Matches are distributed among these distances:
2 14 0.02
3 17 0.03
4 588 0.94
5 4 0.01
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:1041 original size:39 final size:38
Alignment explanation
Indices: 998--1141 Score: 146
Period size: 39 Copynumber: 3.7 Consensus size: 38
988 ACCTGTATAC
*
998 CAGTAAGGGCTTACCCTATGCACAAAGCAGAGGAGCATG
1 CAGTAAGGACTTACCCTATGCACAAAGCAGAGGAG-ATG
** * * * *
1037 CAGTAAGGTTTTATCCTGTGCACAAACCAGAGGAGTTG
1 CAGTAAGGACTTACCCTATGCACAAAGCAGAGGAGATG
* * * *
1075 CAGTAAGGACTTACCTTGA-GCATAAAGCCGCGGAGATTG
1 CAGTAAGGACTTACCCT-ATGCACAAAGCAGAGGAGA-TG
*
1114 CAGTAAGGACTTACCCTAAGCACAAAGC
1 CAGTAAGGACTTACCCTATGCACAAAGC
1142 TGATGAGCGT
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
38 28 0.33
39 56 0.67
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (38 bp):
CAGTAAGGACTTACCCTATGCACAAAGCAGAGGAGATG
Found at i:2742 original size:29 final size:29
Alignment explanation
Indices: 2700--2777 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
2690 GGGTCTACGC
* *
2700 GGTCCTTCGGGACATATATAGTATACAGA
1 GGTCCTTCGGGACATATACAATATACAGA
* * *
2729 GGTCTTTCAGGACATATACAATATATAGA
1 GGTCCTTCGGGACATATACAATATACAGA
*
2758 GGTCCTTCGGGACAAATACA
1 GGTCCTTCGGGACATATACA
2778 TAGGTCCTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (29 bp):
GGTCCTTCGGGACATATACAATATACAGA
Found at i:2785 original size:22 final size:22
Alignment explanation
Indices: 2757--2818 Score: 124
Period size: 22 Copynumber: 2.8 Consensus size: 22
2747 CAATATATAG
2757 AGGTCCTTCGGGACAAATACAT
1 AGGTCCTTCGGGACAAATACAT
2779 AGGTCCTTCGGGACAAATACAT
1 AGGTCCTTCGGGACAAATACAT
2801 AGGTCCTTCGGGACAAAT
1 AGGTCCTTCGGGACAAAT
2819 TTCATATGCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (22 bp):
AGGTCCTTCGGGACAAATACAT
Found at i:3488 original size:21 final size:22
Alignment explanation
Indices: 3453--3505 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
3443 GACCAAAATT
* *
3453 ACTGTAGAAAGGGTATCGGTA-C
1 ACTGTAG-CAGGGTATCGATACC
3475 ACTGTAGCAGGGTATCGATACC
1 ACTGTAGCAGGGTATCGATACC
3497 ACTGTAGCA
1 ACTGTAGCA
3506 TTCTGGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (22 bp):
ACTGTAGCAGGGTATCGATACC
Found at i:5593 original size:3 final size:3
Alignment explanation
Indices: 5585--5645 Score: 68
Period size: 3 Copynumber: 19.7 Consensus size: 3
5575 TTTCATTTAT
** *
5585 TTA TTA TTA TTA TTA AAA TTA TCA TTA TTA TTA TATA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA TTA
*
5632 TTA TTA CTA TTA TT
1 TTA TTA TTA TTA TT
5646 TAATAAATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
3 42 0.88
4 6 0.12
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:5655 original size:26 final size:26
Alignment explanation
Indices: 5589--5657 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
5579 ATTTATTTAT
*
5589 TATTA-TTATTAAA-ATTATCATTAT
1 TATTATTTATTAAATATTATCATTAC
* * *
5613 TATTATATATTATATATTATTATTAC
1 TATTATTTATTAAATATTATCATTAC
*
5639 TATTATTTAATAAATATTA
1 TATTATTTATTAAATATTA
5658 CAAGGCCCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 5 0.14
25 6 0.17
26 25 0.69
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (26 bp):
TATTATTTATTAAATATTATCATTAC
Found at i:7319 original size:12 final size:11
Alignment explanation
Indices: 7302--7333 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
7292 ATATGTTTAA
7302 ATTATTATTTT
1 ATTATTATTTT
7313 CATTATTATTTT
1 -ATTATTATTTT
7325 ATTATTATT
1 ATTATTATT
7334 ATGTAGTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:7379 original size:36 final size:36
Alignment explanation
Indices: 7332--7410 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
7322 TTTATTATTA
*
7332 TTATGTAGTCATATAAATATATATAATAAATAATAT
1 TTATTTAGTCATATAAATATATATAATAAATAATAT
7368 TTATTTAGTCATATAAATATATATAATAAATAATAT
1 TTATTTAGTCATATAAATATATATAATAAATAATAT
*
7404 TTTTTTA
1 TTATTTA
7411 CTTATTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (36 bp):
TTATTTAGTCATATAAATATATATAATAAATAATAT
Found at i:7755 original size:12 final size:12
Alignment explanation
Indices: 7724--7793 Score: 77
Period size: 12 Copynumber: 5.7 Consensus size: 12
7714 TTCTAAGTAA
*
7724 ATAAATATCTTAT
1 ATAAATAT-ATAT
* *
7737 TTAAATATAAAT
1 ATAAATATATAT
7749 ATAAATATATAT
1 ATAAATATATAT
*
7761 ATATATATATAT
1 ATAAATATATAT
*
7773 ATATATATATAT
1 ATAAATATATAT
7785 ATATAATAT
1 ATA-AATAT
7794 CTTTCTAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
12 38 0.78
13 11 0.22
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (12 bp):
ATAAATATATAT
Found at i:7760 original size:2 final size:2
Alignment explanation
Indices: 7741--7793 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
7731 TCTTATTTAA
* *
7741 AT AT AA AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7783 AT AT AT A- AT AT
1 AT AT AT AT AT AT
7794 CTTTCTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8304 original size:28 final size:26
Alignment explanation
Indices: 8273--8343 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 26
8263 TAATTCTTTC
8273 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATTTTTATATATA--TATTA
* * *
8301 TTTTCATAATATTTATATGTATATTA
1 TTTTCAAAATTTTTATATATATATTA
*
8327 TTTTTAAATATTTTTAT
1 TTTTCAAA-ATTTTTAT
8344 TTTATTTTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 11 0.31
27 7 0.19
28 18 0.50
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (26 bp):
TTTTCAAAATTTTTATATATATATTA
Found at i:13718 original size:32 final size:32
Alignment explanation
Indices: 13675--13736 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
13665 TCTGGAAACA
* * *
13675 AGAAGTGTCTCTACGAGATGAGCATAACAACG
1 AGAAGTATCTCTACCAGATAAGCATAACAACG
13707 AGAAGTATCTCTACCAGATAAGCATAACAA
1 AGAAGTATCTCTACCAGATAAGCATAACAA
13737 TCATTTCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (32 bp):
AGAAGTATCTCTACCAGATAAGCATAACAACG
Found at i:16722 original size:149 final size:149
Alignment explanation
Indices: 16452--16934 Score: 785
Period size: 149 Copynumber: 3.2 Consensus size: 149
16442 AATTTTGAGC
* *
16452 ACACTTTTAACATCTGTATCAGCAAATGTTGGAGCATTTTAAAGTTTACTTCAGACAGATCCATG
1 ACACTTTTAACATCTGTATCAGCAAATGTTGGGGCATTTTAAAGGTTACTTCAGACAGATCCATG
* *
16517 TGGGGTATTTTGAAGGGTCAGATTAACAAGAAGCAAATGATGGAGCATGCTGAAAGCCCATTTCA
66 TGGGGCATTTTGAAGGATCAGATTAACAAGAAGCAAATGATGGAGCATGCTGAAAGCCCATTTCA
16582 ATCATAATCAGGAATATTG
131 ATCATAATCAGGAATATTG
* *
16601 ACACTTTTAACATTTGTATCAGCAAATGTTGGGGCATTTTAAAGGTTACTTCAGACAGATCCATT
1 ACACTTTTAACATCTGTATCAGCAAATGTTGGGGCATTTTAAAGGTTACTTCAGACAGATCCATG
* *
16666 TGGGGCATTTTTAAGGCTCAGATTAACAAGAAGCAAATGATGGAGCATGCTGAAAGCCCATTTCA
66 TGGGGCATTTTGAAGGATCAGATTAACAAGAAGCAAATGATGGAGCATGCTGAAAGCCCATTTCA
16731 ATCATAATCAGGAATATTG
131 ATCATAATCAGGAATATTG
*
16750 ACACTTTTAACATCTGTATCAGCAAATGTTGGGGTATTTTAAAGGTTACTTCAGACAGATCCATG
1 ACACTTTTAACATCTGTATCAGCAAATGTTGGGGCATTTTAAAGGTTACTTCAGACAGATCCATG
* * *
16815 TGGGACATTTTGAAGGATCAAATTAACAAGAAGCAAATGATGAAGCAT-C--AAAGCCCATTTCA
66 TGGGGCATTTTGAAGGATCAGATTAACAAGAAGCAAATGATGGAGCATGCTGAAAGCCCATTTCA
16877 ATCATAATCAGGAATATTG
131 ATCATAATCAGGAATATTG
* *
16896 ACACATTTTGAAC-GCTTGTATCAGCCAATGTTGGGGCAT
1 ACAC-TTTT-AACATC-TGTATCAGCAAATGTTGGGGCAT
16935 ATTGAAGGCC
Statistics
Matches: 313, Mismatches: 18, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
146 36 0.12
147 5 0.02
148 25 0.08
149 247 0.79
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (149 bp):
ACACTTTTAACATCTGTATCAGCAAATGTTGGGGCATTTTAAAGGTTACTTCAGACAGATCCATG
TGGGGCATTTTGAAGGATCAGATTAACAAGAAGCAAATGATGGAGCATGCTGAAAGCCCATTTCA
ATCATAATCAGGAATATTG
Found at i:19055 original size:73 final size:73
Alignment explanation
Indices: 18936--19548 Score: 874
Period size: 73 Copynumber: 8.4 Consensus size: 73
18926 CCAACATCCA
* * **
18936 TAAGACCTGCAGTGCAGGATGTTTTCAAAAAAACTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
19001 GTCATCTG
66 GTCATCTG
* *
19009 TAAGACCTACAGTGCATGATGTTTTTAAAAAGCCTTCGGGATCTTTTTGATCTTAAAGCCTCAGG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
19074 GTCATCTG
66 GTCATCTG
* * *
19082 TAAGACCTATAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTGATCTTAAAGCTTTAG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGC-TTTTTGATCTTAAAGCCTCAG
19147 GGTCATCTG
65 GGTCATCTG
*
19156 TAAGACCTACA--GCATTATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
19219 GTCATCTG
66 GTCATCTG
* * **
19227 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGTTTTTTTTATCTTAAAGATTCAG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAG-CTTTTTGATCTTAAAGCCTCAG
19292 GGTCATCTG
65 GGTCATCTG
* *
19301 TAAGA-CTACAGTGCATGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATCTTAAAGTCTCAGG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
19365 GTCATCTG
66 GTCATCTG
* *
19373 TAAGACCTACAGTGCATGATGTTTTCAAAAGGCCTTCGGGAGCTTTTTGATCTTAAAACCTCAGG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
*
19438 GCCATCTG
66 GTCATCTG
* * * * * * * *
19446 TAAGCCCTTCAGTGCATGATGTTTTTAAAAGGCCTTCGGGAGATTTTTGATGTTTTCAAAACCTT
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGA--TCTT-AAAGCCTC
* *
19511 TGGATCATCTG
63 AGGGTCATCTG
* *
19522 TAAGCCCTTCAGTGCATGAT-TTTTCAA
1 TAAGACCTACAGTGCATGATGTTTTCAA
19549 CATTTCCATC
Statistics
Matches: 492, Mismatches: 40, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
71 39 0.08
72 61 0.12
73 278 0.57
74 70 0.14
75 9 0.02
76 35 0.07
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (73 bp):
TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
GTCATCTG
Found at i:19683 original size:3 final size:3
Alignment explanation
Indices: 19677--19734 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
19667 TCATTTCATT
** *
19677 TTA TTA TTA TTA TTA AAA TTA TTG TTA TTA TTA TATA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA TTA
*
19724 TTA TTA CTA TT
1 TTA TTA TTA TT
19735 TAATAAAACC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:21379 original size:11 final size:11
Alignment explanation
Indices: 21353--21453 Score: 54
Period size: 11 Copynumber: 9.5 Consensus size: 11
21343 TTTAATCTTG
21353 TTATTTAATT-
1 TTATTTAATTA
21363 TTATTTAATTA
1 TTATTTAATTA
21374 TTATTT-ATT-
1 TTATTTAATTA
* *
21383 TGCATTTTATTA
1 T-TATTTAATTA
*
21395 TTATCTT--TTT
1 TTAT-TTAATTA
*
21405 TTATTCCAA-TA
1 TTATT-TAATTA
*
21416 TGT-TTAAATTA
1 T-TATTTAATTA
*
21427 TTATTTTATTA
1 TTATTTAATTA
*
21438 TTATTTTATTA
1 TTATTTAATTA
21449 TTATT
1 TTATT
21454 AAGTAGTCAT
Statistics
Matches: 72, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
9 2 0.03
10 26 0.36
11 40 0.56
12 4 0.06
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (11 bp):
TTATTTAATTA
Found at i:21431 original size:3 final size:3
Alignment explanation
Indices: 21423--21454 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
21413 ATATGTTTAA
21423 ATT ATT ATT -TT ATT ATT ATT -TT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
21455 AGTAGTCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:21437 original size:8 final size:9
Alignment explanation
Indices: 21423--21454 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
21413 ATATGTTTAA
21423 ATTATTATT
1 ATTATTATT
21432 -TTATTATT
1 ATTATTATT
21440 ATT-TTATT
1 ATTATTATT
21448 ATTATTA
1 ATTATTA
21455 AGTAGTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTATTATT
Found at i:26593 original size:2 final size:2
Alignment explanation
Indices: 26586--26619 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
26576 CATACGATAA
*
26586 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26620 CATAAAACCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:27112 original size:39 final size:38
Alignment explanation
Indices: 27052--27169 Score: 155
Period size: 39 Copynumber: 3.1 Consensus size: 38
27042 AAAAGCATAC
* *
27052 GAGCATGTAGTAATGCTTACCCTGAGCACAAAGTCGAG
1 GAGCATGTAATAATGATTACCCTGAGCACAAAGTCGAG
* *
27090 GAGCCTGTAATAATGATATACCCTGAGCATAAAGTCGAG
1 GAGCATGTAATAATGAT-TACCCTGAGCACAAAGTCGAG
* * *
27129 GAGCATGCACTAAGGACTTACCCTGAGCACAAAGTCGAG
1 GAGCATGTAATAATGA-TTACCCTGAGCACAAAGTCGAG
27168 GA
1 GA
27170 TCATACGGAG
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 14 0.20
39 54 0.78
40 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (38 bp):
GAGCATGTAATAATGATTACCCTGAGCACAAAGTCGAG
Found at i:31552 original size:17 final size:16
Alignment explanation
Indices: 31512--31591 Score: 74
Period size: 17 Copynumber: 5.0 Consensus size: 16
31502 ATACTACAAG
*
31512 AACAATATTGGTACT-
1 AACAATATTGATACTA
*
31527 AATAATATTGATACTA
1 AACAATATTGATACTA
*
31543 CAACAATATTGGTACT-
1 -AACAATATTGATACTA
* *
31559 AAGAGTATTGATACTA
1 AACAATATTGATACTA
*
31575 TAACAGTATTGATACTA
1 -AACAATATTGATACTA
31592 GTATCGATAT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
15 25 0.47
17 28 0.53
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.34
Consensus pattern (16 bp):
AACAATATTGATACTA
Found at i:31553 original size:32 final size:32
Alignment explanation
Indices: 31497--31591 Score: 118
Period size: 32 Copynumber: 2.9 Consensus size: 32
31487 TGTTGGGGAG
*
31497 TATTGATACTACAAGAACAATATTGGTACTAATAA
1 TATTGATACTAC---AACAATATTGGTACTAAGAA
*
31532 TATTGATACTACAACAATATTGGTACTAAGAG
1 TATTGATACTACAACAATATTGGTACTAAGAA
* * *
31564 TATTGATACTATAACAGTATTGATACTA
1 TATTGATACTACAACAATATTGGTACTA
31592 GTATCGATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
32 43 0.78
35 12 0.22
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (32 bp):
TATTGATACTACAACAATATTGGTACTAAGAA
Found at i:40484 original size:17 final size:17
Alignment explanation
Indices: 40462--40502 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
40452 TAGCAGTGTG
40462 TATTATCCGATATC-GAA
1 TATTATCCGATATCAG-A
*
40479 TATTATCGGATATCAGA
1 TATTATCCGATATCAGA
40496 TATTATC
1 TATTATC
40503 TGATCCGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (17 bp):
TATTATCCGATATCAGA
Found at i:41631 original size:13 final size:14
Alignment explanation
Indices: 41614--41648 Score: 63
Period size: 13 Copynumber: 2.6 Consensus size: 14
41604 ATCCGAATTT
41614 TCGGATCGAATCAA
1 TCGGATCGAATCAA
41628 -CGGATCGAATCAA
1 TCGGATCGAATCAA
41641 TCGGATCG
1 TCGGATCG
41649 GATTTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (14 bp):
TCGGATCGAATCAA
Found at i:42204 original size:23 final size:23
Alignment explanation
Indices: 42176--42231 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
42166 TTCATTTTAC
42176 TATTAGTGTCCACCCTGAAATTT
1 TATTAGTGTCCACCCTGAAATTT
42199 TATTAGTGTCCACCCTGAAATTT
1 TATTAGTGTCCACCCTGAAATTT
*
42222 TATTTGTGTC
1 TATTAGTGTC
42232 TATACCATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (23 bp):
TATTAGTGTCCACCCTGAAATTT
Found at i:48316 original size:28 final size:30
Alignment explanation
Indices: 48257--48321 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
48247 AATTTAATTT
48257 TATATTTCTTTATTATTATTATTATTACATA
1 TATATTTCTTTATTATTATTATTATTA-ATA
* *
48288 TATATTTTTTTTTTATTATTA-TATT-ATA
1 TATATTTCTTTATTATTATTATTATTAATA
*
48316 TTTATT
1 TATATT
48322 ATATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 8 0.26
30 4 0.13
31 19 0.61
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (30 bp):
TATATTTCTTTATTATTATTATTATTAATA
Found at i:48321 original size:17 final size:19
Alignment explanation
Indices: 48299--48335 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
48289 ATATTTTTTT
48299 TTTATTAT-TATAT-TATA
1 TTTATTATATATATATATA
48316 TTTATTATATATATATATA
1 TTTATTATATATATATATA
48335 T
1 T
48336 ATATATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 5 0.28
19 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATTATATATATATATA
Found at i:48328 original size:2 final size:2
Alignment explanation
Indices: 48307--48343 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
48297 TTTTTATTAT
*
48307 TA TA T- TA TA TT TA T- TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48344 TTTTGATGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:48400 original size:22 final size:23
Alignment explanation
Indices: 48370--48491 Score: 124
Period size: 22 Copynumber: 5.3 Consensus size: 23
48360 GATTTGATAA
48370 GTAGTGGTTGATTATTTTAATAT
1 GTAGTGGTTGATTATTTTAATAT
* *
48393 GTAG-GGTTTATTATTTTAACAT
1 GTAGTGGTTGATTATTTTAATAT
*
48415 GTAGT-GTTGATTATTTT-TTAT
1 GTAGTGGTTGATTATTTTAATAT
* *
48436 AGATAGTGGTTTGATTATTTTTATAG
1 -G-TAGTGG-TTGATTATTTTAATAT
* * *
48462 GTAGTAGTTTATTATTTTAATAG
1 GTAGTGGTTGATTATTTTAATAT
48485 GTAGTGG
1 GTAGTGG
48492 GGTAATTATT
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
21 2 0.02
22 32 0.39
23 28 0.34
24 6 0.07
25 12 0.15
26 2 0.02
ACGTcount: A:0.25, C:0.01, G:0.22, T:0.52
Consensus pattern (23 bp):
GTAGTGGTTGATTATTTTAATAT
Found at i:48449 original size:25 final size:25
Alignment explanation
Indices: 48415--48479 Score: 89
Period size: 24 Copynumber: 2.6 Consensus size: 25
48405 ATTTTAACAT
48415 GTAGTGTTGATTATTTTTTATAGATA
1 GTAGT-TTGATTATTTTTTATAGATA
* *
48441 GTGGTTTGATTA-TTTTTATAGGTA
1 GTAGTTTGATTATTTTTTATAGATA
48465 GTAGTTT-ATTATTTT
1 GTAGTTTGATTATTTT
48480 AATAGGTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.11
24 20 0.57
25 7 0.20
26 4 0.11
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (25 bp):
GTAGTTTGATTATTTTTTATAGATA
Found at i:48490 original size:47 final size:45
Alignment explanation
Indices: 48370--48491 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 45
48360 GATTTGATAA
* *
48370 GTAGTGGTTGATTATTTTAATATGTAG-GGTTTATTATTTTAACAT
1 GTAGT-GTTGATTATTTTAATAGGTAGTGGTTTATTATTTTAACAG
* * * *
48415 GTAGTGTTGATTATTTTTTATAGATAGTGGTTTGATTATTTTTATAG
1 GTAGTGTTGATTA-TTTTAATAGGTAGTGGTTT-ATTATTTTAACAG
*
48462 GTAGTAGTTTATTATTTTAATAGGTAGTGG
1 GTAGT-GTTGATTATTTTAATAGGTAGTGG
48492 GGTAATTATT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 8 0.12
45 15 0.23
46 5 0.08
47 29 0.45
48 7 0.11
ACGTcount: A:0.25, C:0.01, G:0.22, T:0.52
Consensus pattern (45 bp):
GTAGTGTTGATTATTTTAATAGGTAGTGGTTTATTATTTTAACAG
Found at i:48557 original size:23 final size:24
Alignment explanation
Indices: 48521--48571 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
48511 GTTAATTTCG
*
48521 TTTT-TCTTTCTTTT-ATTTCATT
1 TTTTATCTTTATTTTGATTTCATT
* *
48543 TTTTATCTTTATTTTGTTTTCCTT
1 TTTTATCTTTATTTTGATTTCATT
48567 TTTTA
1 TTTTA
48572 AATTGTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.17
23 9 0.38
24 11 0.46
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTATCTTTATTTTGATTTCATT
Found at i:48641 original size:2 final size:2
Alignment explanation
Indices: 48630--48666 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
48620 ATACTTTTTC
48630 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48667 GTAACCTAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:59574 original size:10 final size:10
Alignment explanation
Indices: 59559--59596 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
59549 AAAGACAAGG
59559 AAAAAAAAAC
1 AAAAAAAAAC
59569 AAAAAAAAAAC
1 -AAAAAAAAAC
*
59580 CAAAAAAAAC
1 AAAAAAAAAC
59590 AAAAAAA
1 AAAAAAA
59597 TGAAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:59596 original size:12 final size:12
Alignment explanation
Indices: 59559--59588 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
59549 AAAGACAAGG
59559 AAAAAAAAACAA
1 AAAAAAAAACAA
*
59571 AAAAAAAACCAA
1 AAAAAAAAACAA
59583 AAAAAA
1 AAAAAA
59589 CAAAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:60843 original size:65 final size:64
Alignment explanation
Indices: 60690--60934 Score: 418
Period size: 64 Copynumber: 3.8 Consensus size: 64
60680 CATTCCACTC
*
60690 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
1 AAGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
* *
60754 AAGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCGACAAAAATTTCCCAGTAT
1 AAGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAAC-AAAATTTCCCAGTTT
* *
60819 CAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
1 AAGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
* *
60883 AAGACAGCACAAGTTCGACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAA
1 AAGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAA
60935 CAACTTCCCA
Statistics
Matches: 169, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
64 109 0.64
65 60 0.36
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.20
Consensus pattern (64 bp):
AAGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
Found at i:60921 original size:129 final size:130
Alignment explanation
Indices: 60691--60977 Score: 465
Period size: 129 Copynumber: 2.2 Consensus size: 130
60681 ATTCCACTCA
60691 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTAA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTAA
* * * *
60756 GACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCGACAAA-AATTTCCCAGTATC
66 GACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATATC
60820 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTAA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTAA
* *
60885 GACAGCACAAGTTCGACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATGTC
66 GACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATATC
* * *
60950 AG--AGC-CAATTTCAACTTCACAGCGAAGG
1 AGACAACACAAGTTCAACTTCACAACGAAGG
60978 ATATTGGACT
Statistics
Matches: 148, Mismatches: 9, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
127 21 0.14
128 2 0.01
129 112 0.76
130 13 0.09
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (130 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTAA
GACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATATC
Found at i:62689 original size:11 final size:11
Alignment explanation
Indices: 62663--62700 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
62653 TTCAGTTCAT
62663 ATTTTAATTTA
1 ATTTTAATTTA
62674 A-TTTAATTTA
1 ATTTTAATTTA
62684 ATTTTATATTT-
1 ATTTTA-ATTTA
62695 ATTTTA
1 ATTTTA
62701 TTATTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 10 0.40
11 11 0.44
12 4 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
ATTTTAATTTA
Found at i:62707 original size:17 final size:17
Alignment explanation
Indices: 62662--62763 Score: 52
Period size: 17 Copynumber: 5.9 Consensus size: 17
62652 CTTCAGTTCA
*
62662 TATTTTAAT-TTA-ATT
1 TATTTTATTATTATATT
*
62677 TAATTTAATT-TTATATT
1 T-ATTTTATTATTATATT
62694 TATTTTATTATTAT-TAT
1 TATTTTATTATTATAT-T
* * * *
62711 TACATATATTTTTTTATT
1 TA-TTTTATTATTATATT
62729 TATTATTA-TATTATATT
1 TATT-TTATTATTATATT
*
62746 TATTATATATATATATAT
1 TATTTTAT-TAT-TATAT
62764 ATATATTTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
15 1 0.02
16 19 0.29
17 23 0.35
18 16 0.25
19 6 0.09
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTATTATTATATT
Found at i:62718 original size:27 final size:26
Alignment explanation
Indices: 62688--62771 Score: 86
Period size: 25 Copynumber: 3.3 Consensus size: 26
62678 AATTTAATTT
62688 TATATTTATTTTA-TTATTATTATTACA
1 TATATTTATTTTATTTATTATTA-TA-A
*
62715 TATATTT-TTTTATTTATTATTATAT
1 TATATTTATTTTATTTATTATTATAA
* *
62740 TATATTTATTATATATA-TA-TATATA
1 TATATTTATTTTATTTATTATTATA-A
62765 TATATTT
1 TATATTT
62772 TTGATGGTGG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
24 4 0.08
25 16 0.32
26 14 0.28
27 16 0.32
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (26 bp):
TATATTTATTTTATTTATTATTATAA
Found at i:62727 original size:20 final size:20
Alignment explanation
Indices: 62704--62767 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 20
62694 TATTTTATTA
*
62704 TTATTATTACATATATT-TTT
1 TTATTATTA-ATATATTATAT
*
62724 TTATTTATTATTATATTATAT
1 TTA-TTATTAATATATTATAT
62745 TTATTATATATATATATATATAT
1 TTATTAT-TA-ATATAT-TATAT
62768 ATTTTTGATG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
20 13 0.36
21 13 0.36
22 5 0.14
23 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTATTAATATATTATAT
Found at i:62749 original size:38 final size:37
Alignment explanation
Indices: 62685--62757 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 37
62675 TTTAATTTAA
*
62685 TTTTATATTTATTTTATTATTATTATTACATATATTT
1 TTTTATATTTATTATATTATTATTATTACATATATTT
* *
62722 TTTTATTTATTATTATATTA-TATTTATTATATATAT
1 TTTTATAT-TTATTATATTATTA-TTATTACATATAT
62758 ATATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 9 0.29
38 22 0.71
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (37 bp):
TTTTATATTTATTATATTATTATTATTACATATATTT
Found at i:62826 original size:22 final size:23
Alignment explanation
Indices: 62796--62917 Score: 124
Period size: 22 Copynumber: 5.3 Consensus size: 23
62786 GATTTGATAA
62796 GTAGTGGTTGATTATTTTAATAT
1 GTAGTGGTTGATTATTTTAATAT
* *
62819 GTAG-GGTTTATTATTTTAACAT
1 GTAGTGGTTGATTATTTTAATAT
*
62841 GTAGT-GTTGATTATTTT-TTAT
1 GTAGTGGTTGATTATTTTAATAT
* *
62862 AGATAGTGGTTTGATTATTTTTATAG
1 -G-TAGTGG-TTGATTATTTTAATAT
* * *
62888 GTAGTAGTTTATTATTTTAATAG
1 GTAGTGGTTGATTATTTTAATAT
62911 GTAGTGG
1 GTAGTGG
62918 GGTAATTATT
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
21 2 0.02
22 32 0.39
23 28 0.34
24 6 0.07
25 12 0.15
26 2 0.02
ACGTcount: A:0.25, C:0.01, G:0.22, T:0.52
Consensus pattern (23 bp):
GTAGTGGTTGATTATTTTAATAT
Found at i:62875 original size:25 final size:25
Alignment explanation
Indices: 62841--62905 Score: 89
Period size: 24 Copynumber: 2.6 Consensus size: 25
62831 ATTTTAACAT
62841 GTAGTGTTGATTATTTTTTATAGATA
1 GTAGT-TTGATTATTTTTTATAGATA
* *
62867 GTGGTTTGATTA-TTTTTATAGGTA
1 GTAGTTTGATTATTTTTTATAGATA
62891 GTAGTTT-ATTATTTT
1 GTAGTTTGATTATTTT
62906 AATAGGTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.11
24 20 0.57
25 7 0.20
26 4 0.11
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (25 bp):
GTAGTTTGATTATTTTTTATAGATA
Found at i:62916 original size:47 final size:45
Alignment explanation
Indices: 62796--62917 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 45
62786 GATTTGATAA
* *
62796 GTAGTGGTTGATTATTTTAATATGTAG-GGTTTATTATTTTAACAT
1 GTAGT-GTTGATTATTTTAATAGGTAGTGGTTTATTATTTTAACAG
* * * *
62841 GTAGTGTTGATTATTTTTTATAGATAGTGGTTTGATTATTTTTATAG
1 GTAGTGTTGATTA-TTTTAATAGGTAGTGGTTT-ATTATTTTAACAG
*
62888 GTAGTAGTTTATTATTTTAATAGGTAGTGG
1 GTAGT-GTTGATTATTTTAATAGGTAGTGG
62918 GGTAATTATT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 8 0.12
45 15 0.23
46 5 0.08
47 29 0.45
48 7 0.11
ACGTcount: A:0.25, C:0.01, G:0.22, T:0.52
Consensus pattern (45 bp):
GTAGTGTTGATTATTTTAATAGGTAGTGGTTTATTATTTTAACAG
Found at i:63065 original size:2 final size:2
Alignment explanation
Indices: 63058--63085 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
63048 ATACTTTTTC
63058 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63086 GTAACCTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69285 original size:90 final size:89
Alignment explanation
Indices: 69169--69333 Score: 294
Period size: 90 Copynumber: 1.8 Consensus size: 89
69159 TAATCCCGAA
* *
69169 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
*
69234 TAGGGTAACTTGGATATAAAAAGAT
65 TAGAGTAACTTGGATATAAAAAGAT
69259 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
69324 AGAGTAACTT
66 AGAGTAACTT
69334 AGCAGCTATA
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 22 0.31
90 50 0.69
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGAGTAACTTGGATATAAAAAGAT
Found at i:69743 original size:16 final size:16
Alignment explanation
Indices: 69722--69754 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
69712 TTGGTTGATA
69722 CGATATGTATGAGATG
1 CGATATGTATGAGATG
69738 CGATATGTATGAGATG
1 CGATATGTATGAGATG
69754 C
1 C
69755 ATGTTCTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.30
Consensus pattern (16 bp):
CGATATGTATGAGATG
Found at i:75980 original size:90 final size:89
Alignment explanation
Indices: 75866--76042 Score: 318
Period size: 90 Copynumber: 2.0 Consensus size: 89
75856 TAATCCCGAA
* *
75866 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
75931 TAGGGTAACTTGGATATAAAAGGAT
65 TAGGGTAACTTGGATATAAAAGGAT
75956 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
*
76021 AGGGTAACTTGGCTATAAAAGG
66 AGGGTAACTTGGATATAAAAGG
76043 GTGTTATAGG
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
89 34 0.40
90 50 0.60
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACTTGGATATAAAAGGAT
Found at i:77607 original size:86 final size:86
Alignment explanation
Indices: 77440--77783 Score: 475
Period size: 86 Copynumber: 4.0 Consensus size: 86
77430 GTTCAAAGTT
* * * * * *
77440 AATTCGATGTGCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTATTTTGTTGACAGATAACCTTT
1 AATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
77505 CTCGCCTTGAGCTATGCTGTA
66 CTCGCCTTGAGCTATGCTGTA
*
77526 AATTTGATATGCCTTTGAGCTAAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
1 AATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
* *
77591 CTCTCCTT-ACGTTATGCTGTA
66 CTCGCCTTGA-GCTATGCTGTA
* *
77612 AATTTGATATGCCTTTGAGTCT-AATGTAATCGAACTCGAAGGTC--TTGACTGACAG-TAGCCC
1 AATTTGATATGCCTTTGAG-CTGAATGTAATCGAACTCGAAGGTCTTTTG-TTGACAGATAACCC
*
77673 TTTTCGCCTTGAGCTATGCTGTA
64 TTCTCGCCTTGAGCTATGCTGTA
* *
77696 AAGTTGACATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGT-TTTTGTTGACAGATAACCCTT
1 AATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
* *
77760 CTCGCCTTGTGCTATGTTGTA
66 CTCGCCTTGAGCTATGCTGTA
77781 AAT
1 AAT
77784 AGTTCCTTTA
Statistics
Matches: 228, Mismatches: 22, Indels: 17
0.85 0.08 0.06
Matches are distributed among these distances:
83 2 0.01
84 70 0.31
85 38 0.17
86 116 0.51
87 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (86 bp):
AATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
CTCGCCTTGAGCTATGCTGTA
Found at i:77733 original size:170 final size:170
Alignment explanation
Indices: 77440--77767 Score: 493
Period size: 170 Copynumber: 1.9 Consensus size: 170
77430 GTTCAAAGTT
* * * *
77440 AATTCGATGTGCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTATTTTGTTGACAGATAACCTTT
1 AATTCGATATGCCTTTGAGTTGAATGTAATCGAACTCGAAGG-ATCTTGCTGACAGATAACCTTT
* *
77505 CTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTAAATGTAATCGAACTCGAAGGTC
65 CTCGCCTTGAGCTATGCTGTAAAGTTGACATGCCTTTGAGCTAAATGTAATCGAACTCGAAGGT-
*
77570 TTTTGTTGACAGATAACCCTTCTCTCCTTACGTTATGCTGTA
129 TTTTGTTGACAGATAACCCTTCTCGCCTTACGTTATGCTGTA
* *
77612 AATTTGATATGCCTTTGAGTCT-AATGTAATCGAACTCGAAGG-TCTTGACTGACAG-TAGCCCT
1 AATTCGATATGCCTTTGAGT-TGAATGTAATCGAACTCGAAGGATCTTG-CTGACAGATA-ACCT
*
77674 TT-TCGCCTTGAGCTATGCTGTAAAGTTGACATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
63 TTCTCGCCTTGAGCTATGCTGTAAAGTTGACATGCCTTTGAGCTAAATGTAATCGAACTCGAAGG
77738 TTTTTGTTGACAGATAACCCTTCTCGCCTT
128 TTTTTGTTGACAGATAACCCTTCTCGCCTT
77768 GTGCTATGTT
Statistics
Matches: 143, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
169 28 0.20
170 66 0.46
171 11 0.08
172 37 0.26
173 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (170 bp):
AATTCGATATGCCTTTGAGTTGAATGTAATCGAACTCGAAGGATCTTGCTGACAGATAACCTTTC
TCGCCTTGAGCTATGCTGTAAAGTTGACATGCCTTTGAGCTAAATGTAATCGAACTCGAAGGTTT
TTGTTGACAGATAACCCTTCTCGCCTTACGTTATGCTGTA
Found at i:81396 original size:15 final size:15
Alignment explanation
Indices: 81357--81399 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
81347 TTCTGTTAGT
*
81357 AAATGCGAATATAAAA
1 AAATGC-AAAATAAAA
*
81373 AAATG-AAAATAACA
1 AAATGCAAAATAAAA
81387 AAATGCAAAATAA
1 AAATGCAAAATAA
81400 GTCTAAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 12 0.50
15 7 0.29
16 5 0.21
ACGTcount: A:0.67, C:0.07, G:0.09, T:0.16
Consensus pattern (15 bp):
AAATGCAAAATAAAA
Found at i:83290 original size:6 final size:6
Alignment explanation
Indices: 83281--83315 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
83271 AATAAAAACA
83281 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
83316 AATAATAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:83712 original size:12 final size:12
Alignment explanation
Indices: 83697--83722 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
83687 AATAGAAAAA
83697 AATACAATAAAT
1 AATACAATAAAT
83709 AATACAATAAAT
1 AATACAATAAAT
83721 AA
1 AA
83723 ATAAAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AATACAATAAAT
Found at i:83745 original size:18 final size:17
Alignment explanation
Indices: 83717--83769 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
83707 ATAATACAAT
*
83717 AAATAAATAAAAGAAAAAG
1 AAAT-AATAAAA-AAAAAC
83736 AAATAATAAAAAACAAAC
1 AAATAATAAAAAA-AAAC
83754 AAAT-ATAAAATAAAAA
1 AAATAATAAAA-AAAAA
83770 TAGTACTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 11 0.35
18 16 0.52
19 4 0.13
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (17 bp):
AAATAATAAAAAAAAAC
Found at i:85574 original size:17 final size:17
Alignment explanation
Indices: 85547--85585 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
85537 AATTTACAAT
85547 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
85563 TAATTATAAATAATATC
1 TAATTATAAATAATATC
*
85580 TTATTA
1 TAATTA
85586 ATTTGATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:85703 original size:9 final size:9
Alignment explanation
Indices: 85689--85714 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
85679 TATATTTAAA
85689 GGTTAATTC
1 GGTTAATTC
85698 GGTTAATTC
1 GGTTAATTC
85707 GGTTAATT
1 GGTTAATT
85715 AACCGATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (9 bp):
GGTTAATTC
Found at i:85798 original size:21 final size:21
Alignment explanation
Indices: 85774--85813 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
85764 TAACTGTTCC
85774 CCGACCGAATTAATTCGGTGG
1 CCGACCGAATTAATTCGGTGG
85795 CCGACCGAATTAATTCGGT
1 CCGACCGAATTAATTCGGT
85814 TCGGTCGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (21 bp):
CCGACCGAATTAATTCGGTGG
Found at i:87853 original size:15 final size:13
Alignment explanation
Indices: 87823--87849 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
87813 GATCGATAAG
87823 TATGAATGGTTTT
1 TATGAATGGTTTT
87836 TATGAATGGTTTT
1 TATGAATGGTTTT
87849 T
1 T
87850 TTATATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (13 bp):
TATGAATGGTTTT
Found at i:88433 original size:20 final size:20
Alignment explanation
Indices: 88379--88475 Score: 76
Period size: 20 Copynumber: 4.8 Consensus size: 20
88369 AAAAAAATAT
* *
88379 GAAAATGAACAATAAATAAA
1 GAAAATAAATAATAAATAAA
*
88399 GTAAAA-AAACGAATAAATAAA
1 G-AAAATAAA-TAATAAATAAA
88420 GAAAATAAATAATAAATAAA
1 GAAAATAAATAATAAATAAA
*
88440 -AAACATAAA-ACAAAAATAAA
1 GAAA-ATAAATA-ATAAATAAA
*
88460 GTAAA-AAATGAATAAA
1 GAAAATAAAT-AATAAA
88476 ACAAATAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
19 7 0.11
20 35 0.56
21 21 0.33
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.15
Consensus pattern (20 bp):
GAAAATAAATAATAAATAAA
Found at i:88447 original size:13 final size:12
Alignment explanation
Indices: 88392--88484 Score: 59
Period size: 12 Copynumber: 7.6 Consensus size: 12
88382 AATGAACAAT
88392 AAATAAAGTAAAA
1 AAATAAA-TAAAA
**
88405 AAACGAATAAATA
1 AAATAAATAAA-A
88418 AAGA-AAAT-AAA
1 AA-ATAAATAAAA
*
88429 TAATAAATAAAA
1 AAATAAATAAAA
*
88441 AACATAAA-ACAA
1 AA-ATAAATAAAA
88453 AAATAAAGT-AAA
1 AAATAAA-TAAAA
*
88465 AAATGAATAAAA
1 AAATAAATAAAA
88477 CAAATAAA
1 -AAATAAA
88485 AAAGAAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
10 1 0.02
11 12 0.19
12 26 0.42
13 22 0.35
14 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.15
Consensus pattern (12 bp):
AAATAAATAAAA
Found at i:88467 original size:27 final size:27
Alignment explanation
Indices: 88402--88494 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 27
88392 AAATAAAGTA
* * *
88402 AAAAAACGAATAAATAAAGAAAATAAAT
1 AAAAAA-GAAAAAATAAATAAAACAAAT
* * *
88430 AATAAA-TAAAAA-ACATAAAACAAA-
1 AAAAAAGAAAAAATAAATAAAACAAAT
* *
88454 AATAAAGTAAAAAATGAATAAAACAAAT
1 AAAAAAG-AAAAAATAAATAAAACAAAT
88482 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
88495 GATAATAATA
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
24 6 0.12
25 9 0.18
26 9 0.18
27 16 0.31
28 11 0.22
ACGTcount: A:0.77, C:0.04, G:0.05, T:0.13
Consensus pattern (27 bp):
AAAAAAGAAAAAATAAATAAAACAAAT
Found at i:88501 original size:28 final size:27
Alignment explanation
Indices: 88444--88502 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
88434 AATAAAAAAC
* *
88444 ATAAAACAAAAATAAAGTAAAAAATGA
1 ATAAAACAAAAAAAAAGAAAAAAATGA
88471 ATAAAACAAATAAAAAAGAAAAAAGAT-A
1 ATAAAACAAA-AAAAAAGAAAAAA-ATGA
88499 ATAA
1 ATAA
88503 TAATAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 16 0.57
29 2 0.07
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (27 bp):
ATAAAACAAAAAAAAAGAAAAAAATGA
Found at i:88504 original size:3 final size:3
Alignment explanation
Indices: 88496--88537 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
88486 AAGAAAAAAG
88496 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
88538 TATACATAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:88664 original size:8 final size:7
Alignment explanation
Indices: 88613--88687 Score: 55
Period size: 7 Copynumber: 10.1 Consensus size: 7
88603 TATAAGGGAG
88613 ATAAAAA
1 ATAAAAA
88620 GAT-AAAA
1 -ATAAAAA
*
88627 ATAAAGA
1 ATAAAAA
88634 ATAAAAA
1 ATAAAAA
88641 A-AGAAAA
1 ATA-AAAA
*
88648 AGAAAAA
1 ATAAAAA
88655 ATATAAAA
1 ATA-AAAA
88663 ATAAATAA
1 ATAAA-AA
*
88671 ATTGGAAAA
1 A-T-AAAAA
88680 ATAAAAA
1 ATAAAAA
88687 A
1 A
88688 ATAGTTATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
6 3 0.05
7 32 0.58
8 14 0.25
9 4 0.07
10 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (7 bp):
ATAAAAA
Found at i:88713 original size:16 final size:16
Alignment explanation
Indices: 88694--88750 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
88684 AAAAATAGTT
88694 ATAATAAAA-AAGGGAA
1 ATAATAAAATAA-GGAA
*
88710 ATAAATAAAATAAGAAA
1 AT-AATAAAATAAGGAA
88727 ACTAA-AAAATAAGGAA
1 A-TAATAAAATAAGGAA
88743 AT-ATAAAA
1 ATAATAAAA
88751 AATAAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 1 0.03
15 5 0.14
16 13 0.37
17 13 0.37
18 3 0.09
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.16
Consensus pattern (16 bp):
ATAATAAAATAAGGAA
Found at i:88749 original size:17 final size:18
Alignment explanation
Indices: 88693--88755 Score: 66
Period size: 17 Copynumber: 3.7 Consensus size: 18
88683 AAAAAATAGT
88693 TATAATAAAA-AAGGGAAA
1 TATAATAAAATAA-GGAAA
88711 TA-AATAAAATAA-GAAA
1 TATAATAAAATAAGGAAA
88727 -ACTAA-AAAATAAGGAAA
1 TA-TAATAAAATAAGGAAA
88744 TATAA-AAAATAA
1 TATAATAAAATAA
88756 AATAAGAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
15 1 0.03
16 11 0.28
17 23 0.57
18 5 0.12
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (18 bp):
TATAATAAAATAAGGAAA
Found at i:88781 original size:2 final size:2
Alignment explanation
Indices: 88774--88802 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
88764 ATATAATTAA
88774 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
88803 AGTAGAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91002 original size:84 final size:84
Alignment explanation
Indices: 90871--91266 Score: 476
Period size: 84 Copynumber: 4.7 Consensus size: 84
90861 CTGAATGGAA
* * * * * * * *
90871 TCGAACTCGATGGT-TTTTATTGGTAGATAACCCTTCTTGCCTTAAGCTAAGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTAAGTTGCAAATGATGT
* *
90935 GCCTTTGAGCTGAGTGTAA
66 GCCTTTGAGCTGAGCGTAG
* * * * * * * *
90954 TTGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTCGCCTTAAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTAAGTTGCAAATGATGT
*
91019 GCCTTTAAGCTGAGCGTAG
66 GCCTTTGAGCTGAGCGTAG
* * *
91038 TCGAACTCGAAGGTCTTTTGTTTGCAAATAGCCCTTCTTGTCTTGAGCTATA-TTACAAATGATG
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTA-AGTTGCAAATGATG
*
91102 TGCCTTGGAGCTGAGCGTAG
65 TGCCTTTGAGCTGAGCGTAG
* * * *
91122 TCGAACTCGAA-GTTTTTTGTTGGCAAATAGCCCTTCTTACCTTGAGCTATGTTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTAAGTTGCAAATGATGT
* *
91186 GCCTTAGAGCTGAACGTAG
66 GCCTTTGAGCTGAGCGTAG
*
91205 TCGAACTCGAAGGTCTTTTTTTGGCAAATAGCCCTTCTTGCCTTGAGCTATA-TTGCAAATGA
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTA-AGTTGCAAATGA
91267 ACACAATATA
Statistics
Matches: 269, Mismatches: 39, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
83 85 0.32
84 184 0.68
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTAAGTTGCAAATGATGT
GCCTTTGAGCTGAGCGTAG
Found at i:91174 original size:167 final size:168
Alignment explanation
Indices: 90871--91266 Score: 514
Period size: 167 Copynumber: 2.4 Consensus size: 168
90861 CTGAATGGAA
* * * * * * * **
90871 TCGAACTCGATGGT-TTTTATTGGTAGATAACCCTTCTTGCCTTAAGCTA-AGCTGTAAATGATG
1 TCGAACTCGAAGGTCTTTTTTTGGCAAATAGCCCTTCTTGCCTTGAGCTATA-TTACAAATGATG
* * * * *
90934 TGCCTTTGAGCTGAGTGTAATTGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTCGCCTTA
65 TGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTATTTGGTTGGCAAATAACCCTTCTCACCTTA
*
90999 AGCTATGTTGCAAATGATGTGCCTTTA-AGCTGAGCGTAG
130 AGCTATGTTGCAAATGATGTGCC-TTAGAGCTGAACGTAG
*
91038 TCGAACTCGAAGGTCTTTTGTTT-GCAAATAGCCCTTCTTGTCTTGAGCTATATTACAAATGATG
1 TCGAACTCGAAGGTCTTTT-TTTGGCAAATAGCCCTTCTTGCCTTGAGCTATATTACAAATGATG
* * * * * *
91102 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAA-GTTTTTTGTTGGCAAATAGCCCTTCTTACCTTG
65 TGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTATTTGGTTGGCAAATAACCCTTCTCACCTTA
*
91166 AGCTATGTTGTAAATGATGTGCCTTAGAGCTGAACGTAG
130 AGCTATGTTGCAAATGATGTGCCTTAGAGCTGAACGTAG
*
91205 TCGAACTCGAAGGTCTTTTTTTGGCAAATAGCCCTTCTTGCCTTGAGCTATATTGCAAATGA
1 TCGAACTCGAAGGTCTTTTTTTGGCAAATAGCCCTTCTTGCCTTGAGCTATATTACAAATGA
91267 ACACAATATA
Statistics
Matches: 199, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
166 6 0.03
167 128 0.64
168 62 0.31
169 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (168 bp):
TCGAACTCGAAGGTCTTTTTTTGGCAAATAGCCCTTCTTGCCTTGAGCTATATTACAAATGATGT
GCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTATTTGGTTGGCAAATAACCCTTCTCACCTTAA
GCTATGTTGCAAATGATGTGCCTTAGAGCTGAACGTAG
Found at i:91530 original size:124 final size:124
Alignment explanation
Indices: 91310--91580 Score: 407
Period size: 124 Copynumber: 2.2 Consensus size: 124
91300 GGAGGGCCCA
* * * * *
91310 TTCGTTGTGAAGTTGAAAACTAATCTGAAGATGATTGTTGCTGGTGGGCACGATTCTCTTCGTCG
1 TTCGTTGTGAAGTTGAAATCCAATCTGAAGATGAATGTTGATGGTGGGCACGATTCCCTTCGTCG
* * * * *
91375 TGAAGTTGAAATTATGGAGGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGTATATTC
66 TGAAGTTGAAACTATGGAGGGACCCTTCGTTGTGAAGTTGAGCCTGGAATTGGATATCC
*
91434 TTCGTTGTGAAGTTGAAATCCAATCTGAAGATGAATGTTGATGGTGGGTACGATTCCCTTCGTCG
1 TTCGTTGTGAAGTTGAAATCCAATCTGAAGATGAATGTTGATGGTGGGCACGATTCCCTTCGTCG
* *
91499 TGAAGTTGAAACTGTGGATGGACCCTTCGTTGTGAAGTTGAGCCTGGAATTGGATATCC
66 TGAAGTTGAAACTATGGAGGGACCCTTCGTTGTGAAGTTGAGCCTGGAATTGGATATCC
* *
91558 TTTGTCGTGAAGTTGAAATCCAA
1 TTCGTTGTGAAGTTGAAATCCAA
91581 ATATTTCGAG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
124 132 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.34
Consensus pattern (124 bp):
TTCGTTGTGAAGTTGAAATCCAATCTGAAGATGAATGTTGATGGTGGGCACGATTCCCTTCGTCG
TGAAGTTGAAACTATGGAGGGACCCTTCGTTGTGAAGTTGAGCCTGGAATTGGATATCC
Found at i:91783 original size:43 final size:43
Alignment explanation
Indices: 91736--91838 Score: 170
Period size: 43 Copynumber: 2.4 Consensus size: 43
91726 TTCGTTGTGA
91736 AGTTGAAATCGTGGATGTGTGGGCACAATATCCTCCATCGTGG
1 AGTTGAAATCGTGGATGTGTGGGCACAATATCCTCCATCGTGG
* * *
91779 AGTTGAAATCGTGGATTTGTGGGTACGATATCCTCCATCGTGG
1 AGTTGAAATCGTGGATGTGTGGGCACAATATCCTCCATCGTGG
*
91822 AGTTAAAATCGTGGATG
1 AGTTGAAATCGTGGATG
91839 GCCCATTCGT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (43 bp):
AGTTGAAATCGTGGATGTGTGGGCACAATATCCTCCATCGTGG
Found at i:91952 original size:55 final size:58
Alignment explanation
Indices: 91884--92010 Score: 152
Period size: 59 Copynumber: 2.2 Consensus size: 58
91874 ATACTCCATC
* * * ** *
91884 GTGAAGTTGAAATCCAATCTTGAG-AAA-AT-TGGTTTTGAGTTGGATATCCTTCGTT
1 GTGAAGTTGAAATCCAATCTCGAGTAAATATATCGCTTTGAGTTCAATATCCTTCGCT
* *
91939 GTGAAGTTGAAATCTAATCTCGAGTAAATTATATCGCTTTGAGTTCAATATCTTTCGCT
1 GTGAAGTTGAAATCCAATCTCGAGTAAA-TATATCGCTTTGAGTTCAATATCCTTCGCT
91998 GTGAAGTTGAAAT
1 GTGAAGTTGAAAT
92011 TGACTCTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
55 22 0.37
56 3 0.05
58 2 0.03
59 33 0.55
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (58 bp):
GTGAAGTTGAAATCCAATCTCGAGTAAATATATCGCTTTGAGTTCAATATCCTTCGCT
Found at i:93166 original size:95 final size:94
Alignment explanation
Indices: 92951--93213 Score: 332
Period size: 95 Copynumber: 2.7 Consensus size: 94
92941 GGCTAGTTTA
* * * *
92951 ATCCATAAAGCCGGGGCATTTAACTAATTGCTCTAGAGGGACAACTTAATATCATTGTATAG-AT
1 ATCCATAAAGCCGAGGCATTTAAC-AATTGCTCTAGAGGGACAAC-TCA-AGC-TT-TATTGTAT
*
93015 ATTATAATCACCTTTATCAAGCTAGCTGAATATT
61 ATTATAATCACCTTTATCAAGCTAGCTAAATATT
* *
93049 ATCCATGAAGTC-AGGGCATTTAATCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATT
1 ATCCATAAAGCCGA-GGCATTTAA-CAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATT
* *
93113 ATAATCACCTTTATCAGGCTAGCTAAATCTT
64 ATAATCACCTTTATCAAGCTAGCTAAATATT
* *
93144 ATCCATAAAGCCGAGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCCGAGGCATTTAA-CAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT-T
93209 ATAAT
64 ATAAT
93214 ATTATAATCT
Statistics
Matches: 146, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
94 4 0.03
95 91 0.62
96 9 0.06
97 2 0.01
98 39 0.27
99 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (94 bp):
ATCCATAAAGCCGAGGCATTTAACAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTAT
AATCACCTTTATCAAGCTAGCTAAATATT
Found at i:96143 original size:17 final size:17
Alignment explanation
Indices: 96103--96236 Score: 91
Period size: 17 Copynumber: 7.8 Consensus size: 17
96093 AGATAAAAAG
*
96103 ATAAAAATGAAAAATAA
1 ATAAAAAAGAAAAATAA
96120 A-AAAAGAA-AAAGAA-AA
1 ATAAAA-AAGAAA-AATAA
*
96136 ATAAAAGAAAAATAAATAA
1 ATAAAA-AAGAA-AAATAA
*
96155 ATAAAATAGAAAAATAA
1 ATAAAAAAGAAAAATAA
*
96172 ATAAAATAG-AAAA-AA
1 ATAAAAAAGAAAAATAA
**
96187 ATAAAAAA-AATAGTTATA
1 ATAAAAAAGAA-AAATA-A
**
96205 ATAAAAAAGGGAAATAA
1 ATAAAAAAGAAAAATAA
96222 ATAAAATAAGAAAAA
1 ATAAAA-AAGAAAAA
96237 CAAAAATAAG
Statistics
Matches: 93, Mismatches: 12, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
15 10 0.11
16 15 0.16
17 34 0.37
18 25 0.27
19 9 0.10
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (17 bp):
ATAAAAAAGAAAAATAA
Found at i:96148 original size:38 final size:38
Alignment explanation
Indices: 96095--96196 Score: 97
Period size: 38 Copynumber: 2.7 Consensus size: 38
96085 TATAAGGGAG
* *
96095 ATAAAAAGATAAAAATGAA-AAATAAAAAAAGAAAAAGAA
1 ATAAAAA-AGAAAAATAAATAAAT-AAAAAAGAAAAAGAA
* *
96134 A-AATAAAAGAAAAATAAATAAATAAAATAGAAAAATAA
1 ATAA-AAAAGAAAAATAAATAAATAAAAAAGAAAAAGAA
*
96172 ATAAAATAG-AAAA-AAATAAA-AAAAA
1 ATAAAAAAGAAAAATAAATAAATAAAAA
96197 TAGTTATAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
35 4 0.07
36 7 0.13
37 4 0.07
38 29 0.54
39 10 0.19
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (38 bp):
ATAAAAAAGAAAAATAAATAAATAAAAAAGAAAAAGAA
Found at i:96149 original size:31 final size:33
Alignment explanation
Indices: 96106--96172 Score: 102
Period size: 31 Copynumber: 2.1 Consensus size: 33
96096 TAAAAAGATA
96106 AAAATGAAAAATAAAAAAAGAAAA-AGAAAAAT
1 AAAATGAAAAATAAAAAAAGAAAATAGAAAAAT
* *
96138 AAAA-GAAAAATAAATAAATAAAATAGAAAAAT
1 AAAATGAAAAATAAAAAAAGAAAATAGAAAAAT
96170 AAA
1 AAA
96173 TAAAATAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 17 0.53
32 15 0.47
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (33 bp):
AAAATGAAAAATAAAAAAAGAAAATAGAAAAAT
Found at i:96167 original size:26 final size:27
Alignment explanation
Indices: 96097--96196 Score: 62
Period size: 27 Copynumber: 3.6 Consensus size: 27
96087 TAAGGGAGAT
* *
96097 AAAAAGATAAAAATGAAAAATAAAA-A-
1 AAAAAAATAAAAA-AAAAAATAAAATAG
* * *
96123 AAGAAAAAGAAAAATAAAAGA-AAAATAA
1 AA-AAAAATAAAAA-AAAAAATAAAATAG
* *
96151 ATAAATAAAATAGAAAAATAAATAAAATAG
1 A-AA--AAAATAAAAAAAAAAATAAAATAG
96181 AAAAAAATAAAAAAAA
1 AAAAAAATAAAAAAAA
96197 TAGTTATAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
26 6 0.11
27 26 0.46
28 2 0.04
29 7 0.12
30 15 0.27
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (27 bp):
AAAAAAATAAAAAAAAAAATAAAATAG
Found at i:96171 original size:32 final size:32
Alignment explanation
Indices: 96106--96193 Score: 101
Period size: 31 Copynumber: 2.8 Consensus size: 32
96096 TAAAAAGATA
96106 AAAATGAAAAATAAAAAAAGAAAAAGAAAAAT
1 AAAATGAAAAATAAAAAAAGAAAAAGAAAAAT
* *
96138 AAAA-GAAAAATAAATAAATAAAATAGAAAAAT
1 AAAATGAAAAATAAAAAAAGAAAA-AGAAAAAT
* *
96170 -AAAT-AAAATAGAAAAAAATAAAAA
1 AAAATGAAAA-ATAAAAAAAGAAAAA
96194 AAATAGTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
31 25 0.51
32 24 0.49
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (32 bp):
AAAATGAAAAATAAAAAAAGAAAAAGAAAAAT
Found at i:96316 original size:13 final size:14
Alignment explanation
Indices: 96103--96365 Score: 58
Period size: 14 Copynumber: 17.7 Consensus size: 14
96093 AGATAAAAAG
*
96103 ATAAAAATGAA-AA
1 ATAAAAATAAATAA
*
96116 ATAAAAA-AAGAAAA
1 ATAAAAATAA-ATAA
*
96130 AGAAAAATAAA-AGA
1 ATAAAAATAAATA-A
*
96144 AAAATAAATAAATAAA
1 ATAA-AAATAAAT-AA
96160 ATAGAAAAATAAATAAA
1 AT--AAAAATAAAT-AA
96177 ATAGAAAA-AAATAA
1 ATA-AAAATAAATAA
**
96191 A-AAAAATAGTTATA
1 ATAAAAATAAATA-A
*
96205 ATAAAAAAGGGAAATAA
1 AT-AAAAA--TAAATAA
*
96222 AT-AAAATAAGAAAA
1 ATAAAAATAA-ATAA
* **
96236 ACAAAAATAAGGAA
1 ATAAAAATAAATAA
* *
96250 ATATAGA-AAATAAA
1 ATAAAAATAAAT-AA
96264 ATAAGAAAT--ATAA
1 ATAA-AAATAAATAA
* * * * *
96277 TTATATATATACAA
1 ATAAAAATAAATAA
*
96291 GTAAAAATAAATAA
1 ATAAAAATAAATAA
96305 ATAAAAATAATAATTATA
1 ATAAAAAT-A-AA-TA-A
*
96323 ATAAAAAGGGAAATAA
1 ATAAAAA--TAAATAA
*
96339 AAAAGGAAATAAATAAA
1 ATAA--AAATAAAT-AA
96356 ATAAAAATAA
1 ATAAAAATAA
96366 CAAAAATAAT
Statistics
Matches: 183, Mismatches: 35, Indels: 62
0.65 0.12 0.22
Matches are distributed among these distances:
12 8 0.04
13 21 0.11
14 54 0.30
15 34 0.19
16 21 0.11
17 26 0.14
18 18 0.10
19 1 0.01
ACGTcount: A:0.73, C:0.01, G:0.08, T:0.18
Consensus pattern (14 bp):
ATAAAAATAAATAA
Found at i:96337 original size:12 final size:12
Alignment explanation
Indices: 96322--96351 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
96312 TAATAATTAT
*
96322 AATAAAAAGGGA
1 AATAAAAAAGGA
96334 AATAAAAAAGGA
1 AATAAAAAAGGA
96346 AATAAA
1 AATAAA
96352 TAAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (12 bp):
AATAAAAAAGGA
Found at i:97269 original size:13 final size:13
Alignment explanation
Indices: 97251--97275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97241 CTAGTTTATC
97251 GGTTCGGGTTGCG
1 GGTTCGGGTTGCG
97264 GGTTCGGGTTGC
1 GGTTCGGGTTGC
97276 AGACGGGTCC
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:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (13 bp):
GGTTCGGGTTGCG
Found at i:98855 original size:21 final size:21
Alignment explanation
Indices: 98814--98866 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
98804 ACAAAGATAT
*
98814 AAGCAGGAG-CACTGCCACCA
1 AAGCAGGAGCCACTACCACCA
* *
98834 AAGCAGGTGCCACTACCGCCA
1 AAGCAGGAGCCACTACCACCA
*
98855 AAGCAGGGGCCA
1 AAGCAGGAGCCA
98867 TTGCCATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.32, C:0.34, G:0.28, T:0.06
Consensus pattern (21 bp):
AAGCAGGAGCCACTACCACCA
Found at i:101489 original size:13 final size:14
Alignment explanation
Indices: 101473--101504 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
101463 CAAAAAATGT
101473 ATAATAT-AATTAA
1 ATAATATAAATTAA
101486 ATAATATAAATTAA
1 ATAATATAAATTAA
101500 ATAAT
1 ATAAT
101505 CTAGTTAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAATATAAATTAA
Found at i:109187 original size:25 final size:20
Alignment explanation
Indices: 109126--109176 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
109116 TTTTTTTTCA
*
109126 GATTTTCTGACTGATGGTTT
1 GATTTTCTGTCTGATGGTTT
109146 GATTTTCTGTCTGATGGTTT
1 GATTTTCTGTCTGATGGTTT
109166 GATTTTCTGTC
1 GATTTTCTGTC
109177 ACCGGTGATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.53
Consensus pattern (20 bp):
GATTTTCTGTCTGATGGTTT
Found at i:109565 original size:3 final size:3
Alignment explanation
Indices: 109557--109612 Score: 87
Period size: 3 Copynumber: 18.7 Consensus size: 3
109547 AAATTGTTAA
*
109557 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
109604 AAGT AAT AA
1 AA-T AAT AA
109613 AAGTAGAACC
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:110217 original size:137 final size:138
Alignment explanation
Indices: 109874--110278 Score: 560
Period size: 137 Copynumber: 2.9 Consensus size: 138
109864 ATTTGGAGGC
* * * *
109874 AACAAGGTTCTTACGTGATGAGGAAATCTGGTTATCTAAGTGTGACACTACTCCTACGTGATGAG
1 AACACGGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTGACGCTACTCCTACGTGATGAG
* * * * *
109939 GATATCTGATCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTAGCCATCTTTAGGGATAA
66 GAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAAGGATAA
*
110004 GTGGAGTT
131 GTGGAGAT
* * * * * *
110012 AACACAGTTCCTACGTGATGAGGAATTTTGGTTATCTAAGGATGATGCAACTCCTACGTGATGAG
1 AACACGGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTGACGCTACTCCTACGTGATGAG
* * * *
110077 GAGATCTGGTCAGAGGATGACACGGTTCCTACGTGATGAGGATGTCTGGCCATCTTTAATGATAA
66 GAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAAGGATAA
110142 -TGGAGAT
131 GTGGAGAT
* * *
110149 AACACGGTTCCTACGTGATGAGGAAGTCTGGCTATCTAAGGGTGACGCTACTCCTACGTGATGTG
1 AACACGGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTGACGCTACTCCTACGTGATGAG
* * * *
110214 GAGATTTGGTCGGTGGATGACACGGTTCCTACATGATGAGGACATCTGGCCATCTTTAGGGATAA
66 GAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAAGGATAA
110279 CTTGTTTTAA
Statistics
Matches: 231, Mismatches: 36, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
137 120 0.52
138 111 0.48
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (138 bp):
AACACGGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTGACGCTACTCCTACGTGATGAG
GAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAAGGATAA
GTGGAGAT
Found at i:110385 original size:65 final size:65
Alignment explanation
Indices: 110281--110406 Score: 164
Period size: 65 Copynumber: 1.9 Consensus size: 65
110271 AGGGATAACT
* ** * *
110281 TGTTTTAAGAGAAACAGTCTCAAGCGAGATAAAATTTGTTTCAAGG-GAAACAATCTCAAAGATG
1 TGTTTCAAGAGAAACAGTCTCAAGAAAGACAAAACTTGTTT-AAGGAGAAACAATCTCAAAGATG
110345 A
65 A
** *
110346 TGTTTCAAGAGAAATTGTCTCAAGAAAGACAAAACTTGTTTAAGGAGAAACGATCTCAAAG
1 TGTTTCAAGAGAAACAGTCTCAAGAAAGACAAAACTTGTTTAAGGAGAAACAATCTCAAAG
110407 GTTTATCAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 4 0.08
65 48 0.92
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (65 bp):
TGTTTCAAGAGAAACAGTCTCAAGAAAGACAAAACTTGTTTAAGGAGAAACAATCTCAAAGATGA
Found at i:110734 original size:36 final size:37
Alignment explanation
Indices: 110694--110769 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
110684 GTTTCAAAAG
110694 AAAA-TGTCTCAAGCGAGACAAAATTTGTTTCTAAGA
1 AAAATTGTCTCAAGCGAGACAAAATTTGTTTCTAAGA
* *
110730 AAAATTGTCTCAAGCGAGACAAGATTTGTTTTTAAGA
1 AAAATTGTCTCAAGCGAGACAAAATTTGTTTCTAAGA
110767 AAA
1 AAA
110770 CAATCTCAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
36 4 0.11
37 33 0.89
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (37 bp):
AAAATTGTCTCAAGCGAGACAAAATTTGTTTCTAAGA
Found at i:110758 original size:21 final size:20
Alignment explanation
Indices: 110698--110758 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 20
110688 CAAAAGAAAA
110698 TGTCTCAAGCGAGACAAAATT
1 TGTCTCAAGCGAGAC-AAATT
*
110719 TGTTTCTAA--GA-A-AAA-T
1 TGTCTC-AAGCGAGACAAATT
110735 TGTCTCAAGCGAGACAAGATT
1 TGTCTCAAGCGAGACAA-ATT
110756 TGT
1 TGT
110759 TTTTAAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
15 2 0.06
16 6 0.19
17 5 0.16
18 1 0.03
19 3 0.10
20 3 0.10
21 9 0.29
22 2 0.06
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (20 bp):
TGTCTCAAGCGAGACAAATT
Found at i:120145 original size:59 final size:59
Alignment explanation
Indices: 120048--120164 Score: 164
Period size: 59 Copynumber: 2.0 Consensus size: 59
120038 AGTGTTGGTT
* * * * *
120048 AGAGTCATATTATCGAGTTTATCTTTTCATTGCGACTAGGAATGTTCGATAGGACACTC
1 AGAGCCATATTAGCGAGTTTAGCTTTTCATTGCAACTAGGAAGGTTCGATAGGACACTC
*
120107 AGAGCCATATTAGCGAGTTT-GCATTTTCATTGCAACTAGGAGGGTTCGATAGGACACT
1 AGAGCCATATTAGCGAGTTTAGC-TTTTCATTGCAACTAGGAAGGTTCGATAGGACACT
120165 TATCCATCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
58 1 0.02
59 50 0.98
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (59 bp):
AGAGCCATATTAGCGAGTTTAGCTTTTCATTGCAACTAGGAAGGTTCGATAGGACACTC
Found at i:121829 original size:24 final size:24
Alignment explanation
Indices: 121784--121829 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
121774 ACAATAGAAA
*
121784 ATTAATAATTTTTTCAACATTTTC
1 ATTAATAATTTTTTCAAAATTTTC
*
121808 ATTAA-AATTGTTTTGAAAATTT
1 ATTAATAATT-TTTTCAAAATTT
121830 AGAAAATAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (24 bp):
ATTAATAATTTTTTCAAAATTTTC
Found at i:123932 original size:19 final size:19
Alignment explanation
Indices: 123908--123960 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
123898 GGTGATCGAC
*
123908 GGTGAAGAGACGTTCGGCA
1 GGTGAAGAGGCGTTCGGCA
*
123927 GGTGAAGAGGCGTTTGGCA
1 GGTGAAGAGGCGTTCGGCA
123946 GGTGAAGAGGCGTTC
1 GGTGAAGAGGCGTTC
123961 ACTATTGCGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.23, C:0.13, G:0.45, T:0.19
Consensus pattern (19 bp):
GGTGAAGAGGCGTTCGGCA
Found at i:125000 original size:126 final size:126
Alignment explanation
Indices: 124623--125011 Score: 519
Period size: 126 Copynumber: 3.1 Consensus size: 126
124613 AAGAGTTCTA
* ** * * * * * * *
124623 GCCATCTAAGGGTAATAACATAGTTCCTATGTGATGGGGACGACTGATTATCTGGGGTGACACGA
1 GCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGAGTTGACACAA
* * * * * * *
124688 CTCCTACGTGATGAGGATATCTGGTCAGGCGATGACACTTCTCGTCTGTTCATGAGTCTTG
66 CTCCTACATAATGAGGAGATCTGGTCAAGTGATGACACTGCTCATCTGTTCATGAGTCTTG
* * * *
124749 GCCATCTAAGGGTGATAACACGGTTCATACGTGATGAGGACGGCT-GTTTTTTGAGTTGACACAG
1 GCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGAGTTGACACAA
* *
124813 CTCCTACATAATGAGGAGATCTGGTCACGTGATGACACTGGTCATCTGTTCATGAGTCTTG
66 CTCCTACATAATGAGGAGATCTGGTCAAGTGATGACACTGCTCATCTGTTCATGAGTCTTG
*
124874 GCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGTTGGTTATCTGAGTTGACACAA
1 GCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGAGTTGACACAA
* * * *
124939 CTCTTATATAATGAGGAGATTTGGTCAAGTGATGAAACTGCTCATCTGTTCATGAGTCTTG
66 CTCCTACATAATGAGGAGATCTGGTCAAGTGATGACACTGCTCATCTGTTCATGAGTCTTG
125000 GCCATCTAAGGG
1 GCCATCTAAGGG
125012 ATTTTGATTT
Statistics
Matches: 229, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
125 108 0.47
126 121 0.53
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (126 bp):
GCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGAGTTGACACAA
CTCCTACATAATGAGGAGATCTGGTCAAGTGATGACACTGCTCATCTGTTCATGAGTCTTG
Found at i:125160 original size:37 final size:38
Alignment explanation
Indices: 125116--125188 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
125106 ATTTTTTATA
* *
125116 TGTCTCAAATGAAACAA-AATTTGTTTTGAAAGAAAAT
1 TGTCTCAAACGAAACAACAATTTGTTTCGAAAGAAAAT
* * *
125153 TGTCTCAAGCGAAACAACATTTTGTTTCGAGAGAAA
1 TGTCTCAAACGAAACAACAATTTGTTTCGAAAGAAA
125189 CACCATCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 15 0.50
38 15 0.50
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (38 bp):
TGTCTCAAACGAAACAACAATTTGTTTCGAAAGAAAAT
Found at i:125315 original size:32 final size:32
Alignment explanation
Indices: 125268--125356 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
125258 TCGCATCAGA
* * *
125268 ATGTTAAATCCCCAAAGATTCCCCAACATTTG
1 ATGTTGAATCTCCAAAGATGCCCCAACATTTG
* * *
125300 ATTTTGAATCTCCAAAGGTGCCTCAACATTTG
1 ATGTTGAATCTCCAAAGATGCCCCAACATTTG
* *
125332 ATGTTGAATATTCAAAGATGCCCCA
1 ATGTTGAATCTCCAAAGATGCCCCA
125357 TTGTTCCTCA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (32 bp):
ATGTTGAATCTCCAAAGATGCCCCAACATTTG
Found at i:125544 original size:24 final size:25
Alignment explanation
Indices: 125498--125549 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
125488 TCAAAATCTG
*
125498 AAAATGTTAATTAGAAGAGTTTTGA
1 AAAATGTTAATCAGAAGAGTTTTGA
125523 AAAATGTTTAATCA-AAGA-TTTTGA
1 AAAATG-TTAATCAGAAGAGTTTTGA
125547 AAA
1 AAA
125550 TATTGCCCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 10 0.40
26 6 0.24
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (25 bp):
AAAATGTTAATCAGAAGAGTTTTGA
Found at i:128668 original size:6 final size:6
Alignment explanation
Indices: 128649--128690 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
128639 CATCATGTAG
128649 AATGCA AGATGCA AATGCA AATGC- -ATGCA AATGC- AATGCA AA
1 AATGCA A-ATGCA AATGCA AATGCA AATGCA AATGCA AATGCA AA
128691 AATGCAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
4 4 0.12
5 5 0.16
6 17 0.53
7 6 0.19
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.17
Consensus pattern (6 bp):
AATGCA
Found at i:128678 original size:10 final size:11
Alignment explanation
Indices: 128649--128690 Score: 59
Period size: 10 Copynumber: 3.7 Consensus size: 11
128639 CATCATGTAG
128649 AATGCAAGATGC
1 AATGCAA-ATGC
128661 AAATGCAAATGC
1 -AATGCAAATGC
128673 -ATGCAAATGC
1 AATGCAAATGC
128683 AATGCAAA
1 AATGCAAA
128691 AATGCAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.36
11 7 0.25
12 4 0.14
13 7 0.25
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.17
Consensus pattern (11 bp):
AATGCAAATGC
Found at i:128678 original size:16 final size:15
Alignment explanation
Indices: 128649--128688 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
128639 CATCATGTAG
128649 AATGCAA-G-ATGCA
1 AATGCAATGCATGCA
128662 AATGCAAATGCATGCA
1 AATGC-AATGCATGCA
128678 AATGCAATGCA
1 AATGCAATGCA
128689 AAAATGCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
14 2 0.08
15 7 0.29
16 10 0.42
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (15 bp):
AATGCAATGCATGCA
Found at i:130283 original size:64 final size:64
Alignment explanation
Indices: 130215--130394 Score: 170
Period size: 65 Copynumber: 2.8 Consensus size: 64
130205 TTCGGCTCTT
* * *
130215 AGTGCATCGGTGCACTAAG-AGTGCATCGATGCAT-GAAGTGCATTCGATG-TTTCA-AAATAGC
1 AGTGCATCGATGCA-T-AGCAGTGCATCGATGCATCCAA-TGCATTCGATGTTTTCATAAA-ACC
130276 CTG
62 CTG
* * *
130279 AGTGCATCGATGCATGGCTTGTGCTTCGATGCATCCAATGCATTCGATGTTTTCATAAAACCCTG
1 AGTGCATCGATGCATAGC-AGTGCATCGATGCATCCAATGCATTCGATGTTTTCATAAAACCCTG
* * * ** *
130344 AGTGCATCGATGCATGGTATATGCATCGATGCATAAAATGTATTCGATGTT
1 AGTGCATCGATGCATAGCA-GTGCATCGATGCATCCAATGCATTCGATGTT
130395 CAATTTATTC
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 37 0.38
65 55 0.57
66 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (64 bp):
AGTGCATCGATGCATAGCAGTGCATCGATGCATCCAATGCATTCGATGTTTTCATAAAACCCTG
Found at i:130357 original size:65 final size:64
Alignment explanation
Indices: 130235--130394 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 64
130225 TGCACTAAGA
* *
130235 GTGCATCGATGCATGAAGTGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGCT-
1 GTGCATCGATGCAT-AAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGG-TA
130298 T
64 T
* *
130299 GTGCTTCGATGCATCCAATGCATTCGATGTTTTCATAAA-ACCCTGAGTGCATCGATGCATGGTA
1 GTGCATCGATGCAT-AAATGCATTCGATGTTTTCA-AAATACCCTGAGTGCATCGATGCATGGTA
130363 T
64 T
* *
130364 ATGCATCGATGCATAAAATGTATTCGATGTT
1 GTGCATCGATGCAT-AAATGCATTCGATGTT
130395 CAATTTATTC
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 26 0.31
65 54 0.65
66 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGTAT
Found at i:133428 original size:3 final size:3
Alignment explanation
Indices: 133383--133420 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
133373 ACAAACATAT
*
133383 ATA ATA A-A ATTA ATA ATA ATA GTA ATA ATA ATA ATA AT
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA AT
133421 TTAATAATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:141878 original size:135 final size:134
Alignment explanation
Indices: 141578--141934 Score: 337
Period size: 135 Copynumber: 2.7 Consensus size: 134
141568 TCTAAAAAAA
* * * * * *
141578 TTGATTCACTTCGA-TGCTCTTCA-GGAAAGGTTGAACTGAACGTGATTTGCTTCACTGCACTTC
1 TTGATCCACTTC-ACTGCTCTTCAGGGAAA-ATTGAACAGAACTTGATTTGCTTCACTGCTCTTA
* * * * ** ** * * * * *
141641 AGGAATACAAAATCT-AAA-AGAGGGTGGGTCTACTCTACTACTCTTTAAGGGAGATCATACTCG
64 AGAAAGACCAAATCTGAAAGAGAAGAAGTATCTGCTCAAATACTCTTTAAGGGAGATCAGACTAG
*
141704 TAAATT
129 GAAATT
*** * * * *
141710 TTGATCCACTTTGTTGCTCTTCATGGAAAATTGAACCGAACTTGATTTGCTTCGCTGCTCTTCAG
1 TTGATCCACTTCACTGCTCTTCAGGGAAAATTGAACAGAACTTGATTTGCTTCACTGCTCTTAAG
* * *
141775 AAAGACCAAGTTTGAAAGA-AAGAAGTATCTGCTCAAATACTCTTTATGGGAGATCAGACTTGAG
66 AAAGACCAAATCTGAAAGAGAAGAAGTATCTGCTCAAATACTCTTTAAGGGAGATCAGAC-T-AG
141839 GAAATT
129 GAAATT
* * *
141845 TTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATAGAATTTGATTTGCTTCACTGCTCTTAAG
1 TTGATCCACTTCACTGCTCTTCAGGGAAAATTGAACAGAACTTGATTTGCTTCACTGCTCTTAAG
*
141910 GAAGACCAAATCTGAAAGAGAAGAA
66 AAAGACCAAATCTGAAAGAGAAGAA
141935 ATCTATTCCA
Statistics
Matches: 180, Mismatches: 38, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
132 58 0.32
133 38 0.21
134 2 0.01
135 77 0.43
136 5 0.03
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (134 bp):
TTGATCCACTTCACTGCTCTTCAGGGAAAATTGAACAGAACTTGATTTGCTTCACTGCTCTTAAG
AAAGACCAAATCTGAAAGAGAAGAAGTATCTGCTCAAATACTCTTTAAGGGAGATCAGACTAGGA
AATT
Found at i:142900 original size:42 final size:42
Alignment explanation
Indices: 142825--143521 Score: 635
Period size: 42 Copynumber: 16.7 Consensus size: 42
142815 CAATACTGAC
* ** *
142825 GATTAACTTCTCTTCACGAGAAAGTCAATAATAACATTGAAA
1 GATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATTGAAA
* *
142867 GATTGACTCCTCTTCACGAGGGAGACAAGAATAAC----AAA
1 GATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATTGAAA
* *
142905 GATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTACTAAA
1 GATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATT--GAAA
** *
142949 CGATTGACTTCTCTTCACGAGAAAGTCAAGAATGACATTGAAA
1 -GATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATTGAAA
* *
142992 GATTGACTCCTCTTCACGAGGGAGTCAAGAACAAC----AAA
1 GATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATTGAAA
* *
143030 GATTGACTTCTCTTCACGAGGAAGTCAATAATGAA-ATTGAAA
1 GATTGACTTCTCTTCACGAGGGAGTCAAGAAT-AACATTGAAA
* * * *
143072 GATTTACTTCTTTTCATGAGGGAGTTAAGAA-AGACAATACTGAAA
1 GATTGACTTCTCTTCACGAGGGAGTCAAGAATA-AC-AT--TGAAA
* ** *
143117 TG-TTAACTTCTCTTCACGAGAAAGTCAAGAATAACATTACTAAA
1 -GATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATT--GAAA
* * * ** *
143161 TGATTGATTTCTCTACATGAGAAAGTCAAGAATGACATTGAAA
1 -GATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATTGAAA
* * *
143204 GATTGAC-TCATCTCCATGAGGGAGTCAAGAACAAC----AAA
1 GATTGACTTC-TCTTCACGAGGGAGTCAAGAATAACATTGAAA
* * *
143242 TATTGACTTCTCTTCACGAGGAAGTCAATAATAACATTGAAA
1 GATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATTGAAA
* * * * *
143284 TATTGACTTCTCTTCATGAGAGAGTCAAGAAT---GTTAAAA
1 GATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATTGAAA
*
143323 GATTGACTCCTCTTCACGAGGGAGTCAAGAATAACATTGAAA
1 GATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATTGAAA
* *
143365 GATTGACTTCTGTTCACGAGGGAGTCAAGAATAACATTAAAA
1 GATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATTGAAA
* *
143407 GATTAACTCCTCTTCACGAGGGAGTCAAGAAATATA-ATACTGAAA
1 GATTGACTTCTCTTCACGAGGGAGTCAAG-AATA-ACAT--TGAAA
** * *
143452 GATTGACTTCTCTTCACGAGAAAGTCAATAATAACATCG-AA
1 GATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATTGAAA
* *
143493 TATTGACTCCTCTTCACGAGGGAGTCAAG
1 GATTGACTTCTCTTCACGAGGGAGTCAAG
143522 TTGAAGCACT
Statistics
Matches: 537, Mismatches: 82, Indels: 73
0.78 0.12 0.11
Matches are distributed among these distances:
38 95 0.18
39 37 0.07
40 1 0.00
41 29 0.05
42 216 0.40
43 15 0.03
44 17 0.03
45 125 0.23
46 2 0.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (42 bp):
GATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATTGAAA
Found at i:142968 original size:125 final size:123
Alignment explanation
Indices: 142825--143521 Score: 609
Period size: 125 Copynumber: 5.6 Consensus size: 123
142815 CAATACTGAC
* *
142825 GATTAACTTCTCTTCACGAGAAAGTCAATAATAACATTGAAAGATTGACTCCTCTTCACGAGGGA
1 GATTGACTTCTCTTCACGAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGGA
*
142890 GACAAGAATAAC-AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTACTAAA
66 GTCAAGAATAACTAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAA-ATTA-TAAA
*
142949 CGATTGACTTCTCTTCACGAGAAAGTCAAGAATGACATTGAAAGATTGACTCCTCTTCACGAGGG
1 -GATTGACTTCTCTTCACGAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGG
* * *
143014 AGTCAAGAACAAC-AAAGATTGACTTCTCTTCACGAGGAAGTCAATAATGAAATT-GAAA
65 AGTCAAGAATAACTAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-AAATTATAAA
* * * ** * * *
143072 GATTTACTTCTTTTCATGAGGGAGTTAAGAA-AGACAATACTGAAATG-TTAACTTCTCTTCACG
1 GATTGACTTCTCTTCACGAGAAAGTCAAGAATA-AC-AT--TGAAA-GATTGACTCCTCTTCACG
** * * * * *
143135 AGAAAGTCAAGAATAACATTACTAAATGATTGATTTCTCTACATGAGAAAGTCAAGAATGACATT
61 AGGGAGTCAAGAAT---A--ACTAAA-GATTGACTTCTCTTCACGAGGAAGTCAAGAAT-AAATT
*
143200 -GAAA
119 ATAAA
* * ** * * * *
143204 GATTGAC-TCATCTCCATGAGGGAGTCAAGAACAAC----AAATATTGACTTCTCTTCACGAGGA
1 GATTGACTTC-TCTTCACGAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGG
* * * *
143264 AGTCAATAATAACATTGAAATATTGACTTCTCTTCATGA-GAGAGTCAAGAAT--GTTA-AAA
65 AGTCAAGAATAAC--T-AAAGATTGACTTCTCTTCACGAGGA-AGTCAAGAATAAATTATAAA
* ** * *
143323 GATTGACTCCTCTTCACGAGGGAGTCAAGAATAACATTGAAAGATTGACTTCTGTTCACGAGGGA
1 GATTGACTTCTCTTCACGAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGGA
* * *
143388 GTCAAGAATAACATTAAAAGATTAACTCCTCTTCACGAGGGAGTCAAGAAATATAA-TACTGAAA
66 GTCAAGAATAAC--T-AAAGATTGACTTCTCTTCACGAGGAAGTCAAG-AATA-AATTA-T-AAA
* * *
143452 GATTGACTTCTCTTCACGAGAAAGTCAATAATAACATCG-AATATTGACTCCTCTTCACGAGGGA
1 GATTGACTTCTCTTCACGAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGGA
143516 GTCAAG
66 GTCAAG
143522 TTGAAGCACT
Statistics
Matches: 477, Mismatches: 61, Indels: 65
0.79 0.10 0.11
Matches are distributed among these distances:
119 34 0.07
120 3 0.01
121 1 0.00
122 55 0.12
123 70 0.15
124 4 0.01
125 169 0.35
126 5 0.01
128 29 0.06
129 37 0.08
130 2 0.00
131 5 0.01
132 62 0.13
133 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (123 bp):
GATTGACTTCTCTTCACGAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGGA
GTCAAGAATAACTAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAATTATAAA
Found at i:143190 original size:212 final size:209
Alignment explanation
Indices: 142825--143521 Score: 839
Period size: 212 Copynumber: 3.3 Consensus size: 209
142815 CAATACTGAC
* * *
142825 GATTAACTTCTCTTCACGAGAAAGTCAATAATAACATTGAAAGATTGACTCCTCTTCACGAGGGA
1 GATTGACTTCTCTTCACGAGAAAGTCAATAATAACATTGAAAGATTGACTTCTCTTCATGAGGGA
*
142890 GACAAGAATA-ACAA-A-G--A-TTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTACTAAA
66 GTCAAGAA-AGACAATATGAAAGTTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTACTAAA
142949 CGATTGACTTCTCTTCACGAGAAAGTCAAGAATGACATTGAAAGATTGACTCCTCTTCACGAGGG
130 -GATTGACTTCTCTTCACGAGAAAGTCAAGAATGACATTGAAAGATTGACTCCTCTTCACGAGGG
143014 AGTCAAGAACAACAAA
194 AGTCAAGAACAACAAA
* * *
143030 GATTGACTTCTCTTCACGAGGAAGTCAATAATGAA-ATTGAAAGATTTACTTCTTTTCATGAGGG
1 GATTGACTTCTCTTCACGAGAAAGTCAATAAT-AACATTGAAAGATTGACTTCTCTTCATGAGGG
* * *
143094 AGTTAAGAAAGACAATACTGAAATGTTAACTTCTCTTCACGAGAAAGTCAAGAATAACATTACTA
65 AGTCAAGAAAGACAATA-TGAAA-GTTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTACTA
* * * * * *
143159 AATGATTGATTTCTCTACATGAGAAAGTCAAGAATGACATTGAAAGATTGACTCATCTCCATGAG
128 AA-GATTGACTTCTCTTCACGAGAAAGTCAAGAATGACATTGAAAGATTGACTCCTCTTCACGAG
143224 GGAGTCAAGAACAACAAA
192 GGAGTCAAGAACAACAAA
* * * *
143242 TATTGACTTCTCTTCACGAGGAAGTCAATAATAACATTGAAATATTGACTTCTCTTCATGAGAGA
1 GATTGACTTCTCTTCACGAGAAAGTCAATAATAACATTGAAAGATTGACTTCTCTTCATGAGGGA
* * * * *
143307 GTCAAGAATG----T-TAAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAACATT--GAAA
66 GTCAAGAAAGACAATATGAAAG-TTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTACTAAA
* ** * * *
143365 GATTGACTTCTGTTCACGAGGGAGTCAAGAATAACATTAAAAGATTAACTCCTCTTCACGAGGGA
130 GATTGACTTCTCTTCACGAGAAAGTCAAGAATGACATTGAAAGATTGACTCCTCTTCACGAGGGA
*
143430 GTCAAGAAATATAATACTGAAA
195 GTCAAG--A-A-CA-AC--AAA
* * * *
143452 GATTGACTTCTCTTCACGAGAAAGTCAATAATAACATCG-AATATTGACTCCTCTTCACGAGGGA
1 GATTGACTTCTCTTCACGAGAAAGTCAATAATAACATTGAAAGATTGACTTCTCTTCATGAGGGA
143516 GTCAAG
66 GTCAAG
143522 TTGAAGCACT
Statistics
Matches: 425, Mismatches: 49, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
203 59 0.14
204 4 0.01
205 68 0.16
206 40 0.09
207 1 0.00
208 4 0.01
209 28 0.07
210 40 0.09
211 2 0.00
212 179 0.42
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (209 bp):
GATTGACTTCTCTTCACGAGAAAGTCAATAATAACATTGAAAGATTGACTTCTCTTCATGAGGGA
GTCAAGAAAGACAATATGAAAGTTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTACTAAAG
ATTGACTTCTCTTCACGAGAAAGTCAAGAATGACATTGAAAGATTGACTCCTCTTCACGAGGGAG
TCAAGAACAACAAA
Found at i:144752 original size:43 final size:44
Alignment explanation
Indices: 144670--144752 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
144660 ATGATATTGT
* * *
144670 ATTTCTGGATGATATGTGCCTTAAAATATGCTCCAACATTTATC
1 ATTTCTAGATAATATGTGCCTTAAAATATACTCCAACATTTATC
144714 ATTTCTAGATAATATG-GCCTTCAAAA-ATAC-CCTAACATT
1 ATTTCTAGATAATATGTGCCTT-AAAATATACTCC-AACATT
144753 CCAAGTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.06
43 14 0.41
44 18 0.53
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (44 bp):
ATTTCTAGATAATATGTGCCTTAAAATATACTCCAACATTTATC
Found at i:151664 original size:21 final size:21
Alignment explanation
Indices: 151638--151683 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
151628 ACTGTCGAGG
151638 CACGGGAGCATGGATCAGACT
1 CACGGGAGCATGGATCAGACT
* **
151659 CACGGGCGTGTGGATCAGACT
1 CACGGGAGCATGGATCAGACT
151680 CACG
1 CACG
151684 AGCGCGTGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.26, G:0.35, T:0.15
Consensus pattern (21 bp):
CACGGGAGCATGGATCAGACT
Found at i:151692 original size:21 final size:21
Alignment explanation
Indices: 151648--151693 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
151638 CACGGGAGCA
* *
151648 TGGATCAGACTCACGGGCGTG
1 TGGATCAGACTCACGAGCGCG
151669 TGGATCAGACTCACGAGCGCG
1 TGGATCAGACTCACGAGCGCG
151690 TGGA
1 TGGA
151694 GTATCTGGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.37, T:0.17
Consensus pattern (21 bp):
TGGATCAGACTCACGAGCGCG
Found at i:154192 original size:18 final size:17
Alignment explanation
Indices: 154169--154203 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
154159 TTTTATTATG
154169 TCAAAATTAAGGATCTAA
1 TCAAAATTAAGGA-CTAA
*
154187 TCAAAATTGAGGACTAA
1 TCAAAATTAAGGACTAA
154204 AATGTCAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (17 bp):
TCAAAATTAAGGACTAA
Found at i:154589 original size:21 final size:21
Alignment explanation
Indices: 154565--154608 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
154555 TAAGAAACAG
154565 TAAAATAAAAACAACATAAAA
1 TAAAATAAAAACAACATAAAA
* *
154586 TAAATTAAAATCAACATAAAA
1 TAAAATAAAAACAACATAAAA
154607 TA
1 TA
154609 CGAGGACCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAAATAAAAACAACATAAAA
Found at i:155930 original size:3 final size:3
Alignment explanation
Indices: 155922--155976 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
155912 ATTTGGGTTG
*
155922 TAA TAA TAA T-A TATA TAA GAA TAA TAA TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
155966 TAT TAA TAA TA
1 TAA TAA TAA TA
155977 TGGATGTTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 38 0.84
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:156432 original size:42 final size:41
Alignment explanation
Indices: 156319--156432 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 41
156309 ATCCGAAGGT
* * * *
156319 CTTATGGATGGCCTGAAGGACTTATCATCTTGCTTGAAAGA
1 CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
* * * *
156360 CTTATAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGA
156402 CTTACT-GATGGCCCGAAGGACTTACTCATCA
1 CTTA-TAGATGGCCCGAAGGACTTA-TCATCA
156433 AGAAACCCTT
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
41 19 0.33
42 38 0.66
43 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:156980 original size:269 final size:270
Alignment explanation
Indices: 156311--157099 Score: 1148
Period size: 270 Copynumber: 2.9 Consensus size: 270
156301 AACATCATAT
* *
156311 CCGAAGGTCTTATGGATGGCCTGAAGGACTTATCATCTTGCTTGAAAGACTTATAGATGACCCAA
1 CCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTTATAGATG---C-G
*
156376 AGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCATCAAGAAACCC
62 AGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACTTACTCATCAAGAAACCC
** *
156441 TTGAAAATCAAGCTTAGTTTCTTAGTTGTCAATAAACCCCT-AAAATTAGGCTTA-CTTTCTTTT
127 TTGAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTTT
156504 TAAAAACTCTTTGGAGATAATCATCAAGAAACCCTGAAAATCAGACTTAGTTT-T-AAAACTCAT
192 TAAAAACTCTTTGGAGATAATCATCAAGAAACCCTGAAAATCAGACTTAGTTTCTAAAAACTCAT
**
156567 TTGAAATTATCCTG
257 TTGAAAACATCCTG
* * *
156581 CCGAAGGTCTTATGGATGGTCCGAAGGACTTATTATCTTACTTGAAAGACTTATAGATGACCCGA
1 CCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTTATAGATG---CG-
* *
156646 AGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCTGAAGGACTTACTCATTAAGAAACCC
62 AGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACTTACTCATCAAGAAACCC
* *
156711 TTGAAAATCAAGCTTAGTTTCTTAGTTATCAAGGAATCCCTAAAAATTAGGCTTAGCTTCCTTTT
127 TTGAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTTT
156776 TAAAAACTCTTTGGAGATAATCATCAAGAAACCTCTGAAAATCAG-CTTAGTTTCTAAAAAC-CA
192 TAAAAACTCTTTGGAGATAATCATCAAGAAACC-CTGAAAATCAGACTTAGTTTCTAAAAACTCA
*
156839 TTTGAAAACATCTTG
256 TTTGAAAACATCCTG
* * *
156854 CCCGATGGTCTTATGGATGGCCCAAATGACTTATCATCTTGCTTGAAAGACTTATAGATG-GAGG
1 -CCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTTATAGATGCGAGG
* * * * * *
156918 ATTTAAGCATCAAGTTCGAAAGACTTACCGATGACCTGAAAGACTTACTCGTCAAGAAACCCTTG
65 ATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACTTACTCATCAAGAAACCCTTG
*
156983 AAAATCAACCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTTTTTA
130 AAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGGCTTAGCTTCC-TTTTTA
* *
157048 AAAACTCATT-GA-A-AATCATCAAGAAACCCTTAAAAATCAGACTTAGTTTCTA
194 AAAACTCTTTGGAGATAATCATCAAGAAACCC-TGAAAATCAGACTTAGTTTCTA
157100 TGTTGTCAAT
Statistics
Matches: 474, Mismatches: 35, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
266 1 0.00
267 24 0.05
268 12 0.03
269 117 0.25
270 174 0.37
271 13 0.03
272 49 0.10
273 26 0.05
274 58 0.12
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (270 bp):
CCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTTATAGATGCGAGGA
TTTAAGCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACTTACTCATCAAGAAACCCTTGA
AAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTTTTAAA
AACTCTTTGGAGATAATCATCAAGAAACCCTGAAAATCAGACTTAGTTTCTAAAAACTCATTTGA
AAACATCCTG
Found at i:157228 original size:91 final size:94
Alignment explanation
Indices: 156969--157285 Score: 376
Period size: 91 Copynumber: 3.3 Consensus size: 94
156959 GACTTACTCG
** * *
156969 TCAAGAAACCCTTGAAAATCAACCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGGCTT
1 TCAAGAAACCC-TGAAAATCAGGCTTAGTTTCTAAGTTGTCAAAGAACCCCTAAAAATTAGGCTT
*
157034 AGCTTCCTTTTTTAAAAACTCATTGAAAATCA
65 AGCTTCC--TTTTAAAAACTCATTGAAAATTA
* * *
157066 TCAAGAAACCCTTAAAAATCAGACTTAGTTTCTATGTTGTCAATA-AA-CCCT-AAAATTAGGCT
1 TCAAGAAACCC-TGAAAATCAGGCTTAGTTTCTAAGTTGTCAA-AGAACCCCTAAAAATTAGGCT
157128 TAGCTTCCTTTTAAAAACTCATTGAAAATTA
64 TAGCTTCCTTTTAAAAACTCATTGAAAATTA
* * *
157159 TCAA-AAACCCTGGAAATCAGGCTTA-TTT-TAAGTTGACAAAGAACCCCTAAAAATTAGACTTA
1 TCAAGAAACCCTGAAAATCAGGCTTAGTTTCTAAGTTGTCAAAGAACCCCTAAAAATTAGGCTTA
* * *
157221 GTTTCCTTTAAAAAATTCATTGAAAATCTTCA
66 GCTTCCTTTTAAAAACTCATTGAAAA--TT-A
*
157253 TCAAGAAACCCCTGAAAATCATGCTTAGTTTCT
1 TCAAGAAA-CCCTGAAAATCAGGCTTAGTTTCT
157286 TTAAAATCTT
Statistics
Matches: 191, Mismatches: 18, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
88 1 0.01
89 11 0.06
90 7 0.04
91 47 0.25
92 6 0.03
93 28 0.15
94 5 0.03
95 22 0.12
96 20 0.10
97 43 0.23
98 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (94 bp):
TCAAGAAACCCTGAAAATCAGGCTTAGTTTCTAAGTTGTCAAAGAACCCCTAAAAATTAGGCTTA
GCTTCCTTTTAAAAACTCATTGAAAATTA
Found at i:159248 original size:11 final size:11
Alignment explanation
Indices: 159232--159280 Score: 57
Period size: 10 Copynumber: 4.5 Consensus size: 11
159222 TTGATCGGTT
159232 TTTTTCTTTTC
1 TTTTTCTTTTC
159243 TTTTTCTCTTTTC
1 -TTTT-TCTTTTC
159256 TTTTTC-TTTC
1 TTTTTCTTTTC
*
159266 TTTTT-TTCTC
1 TTTTTCTTTTC
159276 TTTTT
1 TTTTT
159281 TATGTCCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
10 17 0.50
11 2 0.06
12 8 0.24
13 7 0.21
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:159252 original size:13 final size:13
Alignment explanation
Indices: 159230--159279 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
159220 GTTTGATCGG
*
159230 TTTTTTTCTTTTC
1 TTTTTCTCTTTTC
159243 TTTTTCTCTTTTC
1 TTTTTCTCTTTTC
159256 TTTTTCT-TTCTT-
1 TTTTTCTCTT-TTC
159268 TTTTTCTCTTTT
1 TTTTTCTCTTTT
159280 TTATGTCCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
12 11 0.32
13 23 0.68
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTCTCTTTTC
Found at i:159256 original size:18 final size:17
Alignment explanation
Indices: 159232--159280 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
159222 TTGATCGGTT
159232 TTTTTCTTTTCTTTTTC
1 TTTTTCTTTTCTTTTTC
*
159249 TCTTTTCTTTT-TCTTTC
1 T-TTTTCTTTTCTTTTTC
*
159266 TTTTT-TTCTCTTTTT
1 TTTTTCTTTTCTTTTT
159281 TATGTCCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 3 0.11
16 8 0.30
17 7 0.26
18 9 0.33
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTCTTTTCTTTTTC
Done.