Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008056.1 Hibiscus syriacus cultivar Beakdansim tig00110551_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: 2370532
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 13
Found at i:1348541 original size:34 final size:30
Alignment explanation
Indices: 1348498--1348586 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 30
1348488 AGATTGGATT
1348498 TCAACTTCACGACGAAGGATATCCAATTCGAGGC
1 TCAACTTCACGACGAAGGATATCC-A--CGA-GC
* * **
1348532 TCAACTTCACAACGAAGGGGTCATCCACGATT
1 TCAACTTCACGACGAA-GGAT-ATCCACGAGC
1348564 TCAACTTCACGACGAAGGATATC
1 TCAACTTCACGACGAAGGATATC
1348587 GTGTCTACCA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
30 3 0.06
31 3 0.06
32 15 0.32
33 3 0.06
34 15 0.32
35 4 0.09
36 4 0.09
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (30 bp):
TCAACTTCACGACGAAGGATATCCACGAGC
Found at i:1348560 original size:246 final size:247
Alignment explanation
Indices: 1348124--1348713 Score: 923
Period size: 246 Copynumber: 2.4 Consensus size: 247
1348114 AACCAATTTA
* * * *
1348124 GATTTCAACTTCTCGATGAAAGATATCCAATTCGAGGCTCAACTTCACGACGAATGGGCCATCTA
1 GATTTCAACTTCACGATGAAGGATATCCAATTCGAGGCTCAACTTCACGACGAAAGGGCCATCCA
* *
1348189 CGATTTCAACTTCACGACGAAGGATATCATGTCCACCAGAAACATTCATTCTTAGATTGGATTTC
66 CGATTTCAACTTCACGACGAAGGATATCGTGTCCACCAGAAACATTCATCCTTAGATTGGATTTC
* * *
1348254 AACTTCACGATGAAGGATATCTAATTCGAGGCTCAACTTCACGACGAAGGGGCTATCCACGATTT
131 AACTTCACGACGAAGGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGGCTATCCACGATTT
* *
1348319 CAACTTCACGACAAATGATAT-TGTCTACCAGCAACATTCATTCTTAGATTG
196 CAACTTCACGACAAAGGATATCTGTCTACCAGCAACATTCATCCTTAGATTG
* *
1348370 GATTTCAACTTCACGATGAAGGATATCCAATTCGAGGCTTAACTTCACGACGAAGGGGCCATCCA
1 GATTTCAACTTCACGATGAAGGATATCCAATTCGAGGCTCAACTTCACGACGAAAGGGCCATCCA
* * * * *
1348435 CTATTTCAACTCCACGAAGAAGGATATCGTGTCTACCAGCAACATTCATCCTTAGATTGGATTTC
66 CGATTTCAACTTCACGACGAAGGATATCGTGTCCACCAGAAACATTCATCCTTAGATTGGATTTC
1348500 AACTTCACGACGAAGGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGG-TCATCCACGATT
131 AACTTCACGACGAAGGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGGCT-ATCCACGATT
* **
1348564 TCAACTTCACGACGAAGGATATCGTGTCTACCAGCATTATTCATCCTTAGATTG
195 TCAACTTCACGACAAAGGATATC-TGTCTACCAGCAACATTCATCCTTAGATTG
* * * *
1348618 GATTTCAACTTCACGACGAAGGATATCTAATTCGAGGCTCAACTTCACAACGAAAGGGTCATCCA
1 GATTTCAACTTCACGATGAAGGATATCCAATTCGAGGCTCAACTTCACGACGAAAGGGCCATCCA
1348683 CGATTTCAACTTCACGACGAAGGATATCGTG
66 CGATTTCAACTTCACGACGAAGGATATCGTG
1348714 CCCATAAGTA
Statistics
Matches: 312, Mismatches: 29, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
245 1 0.00
246 197 0.63
248 114 0.37
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (247 bp):
GATTTCAACTTCACGATGAAGGATATCCAATTCGAGGCTCAACTTCACGACGAAAGGGCCATCCA
CGATTTCAACTTCACGACGAAGGATATCGTGTCCACCAGAAACATTCATCCTTAGATTGGATTTC
AACTTCACGACGAAGGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGGCTATCCACGATTT
CAACTTCACGACAAAGGATATCTGTCTACCAGCAACATTCATCCTTAGATTG
Found at i:1350457 original size:16 final size:16
Alignment explanation
Indices: 1350424--1350466 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
1350414 TTTCCATTAT
*
1350424 TTTTACTTATTTAAATA
1 TTTTA-TTATATAAATA
*
1350441 TTTTATTATATATATA
1 TTTTATTATATAAATA
1350457 TTTTAATTAT
1 TTTT-ATTAT
1350467 TTTTATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTATTATATAAATA
Found at i:1350513 original size:15 final size:15
Alignment explanation
Indices: 1350420--1350515 Score: 65
Period size: 15 Copynumber: 6.4 Consensus size: 15
1350410 TATTTTTCCA
1350420 TTAT-TTTTACTTATT
1 TTATATTTTA-TTATT
*
1350435 TAAATATTTTATTATAT
1 T-TATATTTTATTAT-T
*
1350452 ATATATTTTAATTATT
1 TTATATTTT-ATTATT
*
1350468 TT-TATTTGATTATT
1 TTATATTTTATTATT
* * *
1350482 TTTTA-TTTA-AATA
1 TTATATTTTATTATT
*
1350495 TTATATTTTATCATT
1 TTATATTTTATTATT
1350510 TTATAT
1 TTATAT
1350516 ATGTATATAT
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
13 6 0.10
14 15 0.24
15 16 0.25
16 15 0.24
17 11 0.17
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (15 bp):
TTATATTTTATTATT
Found at i:1350653 original size:6 final size:7
Alignment explanation
Indices: 1350642--1350748 Score: 57
Period size: 7 Copynumber: 15.1 Consensus size: 7
1350632 TTTATATGTC
1350642 TATTAT-
1 TATTATA
1350648 TATTATA
1 TATTATA
1350655 TATGTATA
1 TAT-TATA
1350663 TATTA-A
1 TATTATA
1350669 TTATT-TGA
1 -TATTAT-A
* *
1350677 TTATTTTT
1 -TATTATA
1350685 TATTGCATTA
1 TATT--AT-A
1350695 TATTATA
1 TATTATA
1350702 TA-TATA
1 TATTATA
1350708 TATGTATA
1 TAT-TATA
1350716 TA-TATA
1 TATTATA
*
1350722 TATTATT
1 TATTATA
1350729 TATT-TA
1 TATTATA
*
1350735 T-TTATT
1 TATTATA
1350741 TATTATA
1 TATTATA
1350748 T
1 T
1350749 TTTTTTTCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 27
0.70 0.06 0.24
Matches are distributed among these distances:
5 2 0.03
6 23 0.29
7 28 0.35
8 21 0.26
9 2 0.03
10 4 0.05
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.61
Consensus pattern (7 bp):
TATTATA
Found at i:1350658 original size:19 final size:19
Alignment explanation
Indices: 1350624--1350748 Score: 67
Period size: 19 Copynumber: 6.8 Consensus size: 19
1350614 TATACTCTTA
1350624 ATATT-TTATT-TATATGT
1 ATATTATTATTATATATGT
*
1350641 CTATTATTATTATATATGT
1 ATATTATTATTATATATGT
1350660 ATA-TATTAATTAT-T-TG-
1 ATATTATT-ATTATATATGT
1350676 ATTATT-TT-TTAT-TGCAT-T
1 A-TATTATTATTATAT--ATGT
1350694 ATATTA-TATATATATATGT
1 ATATTATTAT-TATATATGT
* *
1350713 ATATATATATATTATTTATTT
1 ATAT-TAT-TATTATATATGT
1350734 AT-TTATTTATTATAT
1 ATATTA-TTATTATAT
1350749 TTTTTTTCTT
Statistics
Matches: 85, Mismatches: 5, Indels: 34
0.69 0.04 0.27
Matches are distributed among these distances:
15 5 0.06
16 1 0.01
17 15 0.18
18 16 0.19
19 31 0.36
20 5 0.06
21 9 0.11
22 3 0.04
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (19 bp):
ATATTATTATTATATATGT
Found at i:1350739 original size:12 final size:13
Alignment explanation
Indices: 1350647--1350750 Score: 56
Period size: 12 Copynumber: 7.8 Consensus size: 13
1350637 ATGTCTATTA
1350647 TTATTATATATGTAT
1 TTATTATAT-T-TAT
*
1350662 ATATTA-A-TTAT
1 TTATTATATTTAT
*
1350673 TTGATTATTTTTTAT
1 TT-ATTA-TATTTAT
*
1350688 TGCATTATA-TTAT
1 T-TATTATATTTAT
* *
1350701 ATATATATATGTAT
1 TTAT-TATATTTAT
*
1350715 ATA-TATATATTAT
1 TTATTATAT-TTAT
1350728 TTATT-TATTTAT
1 TTATTATATTTAT
1350740 TTATTATATTT
1 TTATTATATTT
1350751 TTTTTCTTTC
Statistics
Matches: 69, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
11 4 0.06
12 21 0.30
13 21 0.30
14 9 0.13
15 14 0.20
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.62
Consensus pattern (13 bp):
TTATTATATTTAT
Found at i:1350895 original size:9 final size:9
Alignment explanation
Indices: 1350883--1350965 Score: 53
Period size: 9 Copynumber: 9.1 Consensus size: 9
1350873 TTATTCCTTT
1350883 TTTATTTTC
1 TTTATTTTC
*
1350892 TTTATCTT-
1 TTTATTTTC
*
1350900 TTTATCTTC
1 TTTATTTTC
1350909 ATGTTATTTTC
1 -T-TTATTTTC
*
1350920 TTTATTTCC
1 TTTATTTTC
*
1350929 TTTGTTTTTC
1 TTT-ATTTTC
* *
1350939 TCTATTTTA
1 TTTATTTTC
*
1350948 GTTATTTTC
1 TTTATTTTC
*
1350957 ATT-TTTTC
1 TTTATTTTC
1350965 T
1 T
1350966 CTAACACGTT
Statistics
Matches: 57, Mismatches: 13, Indels: 9
0.72 0.16 0.11
Matches are distributed among these distances:
8 13 0.23
9 29 0.51
10 8 0.14
11 7 0.12
ACGTcount: A:0.12, C:0.13, G:0.04, T:0.71
Consensus pattern (9 bp):
TTTATTTTC
Found at i:1350901 original size:17 final size:15
Alignment explanation
Indices: 1350831--1350904 Score: 60
Period size: 17 Copynumber: 4.7 Consensus size: 15
1350821 TGATTGTAAA
*
1350831 TATTTATTATTTTCTT
1 TATTTTTTATTTT-TT
* *
1350847 TATTTATTATATTTT
1 TATTTTTTATTTTTT
1350862 TA-TTTTTATTTTTAT
1 TATTTTTTATTTTT-T
*
1350877 TCCTTTTTTATTTTCTT
1 T-ATTTTTTATTTT-TT
1350894 TATCTTTTTAT
1 TAT-TTTTTAT
1350905 CTTCATGTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
14 9 0.19
15 6 0.12
16 13 0.27
17 19 0.40
18 1 0.02
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTTTTATTTTTT
Found at i:1352187 original size:21 final size:21
Alignment explanation
Indices: 1352163--1352205 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1352153 AGAAATCTTA
1352163 GTCAACGGTCGTTACCTTACC
1 GTCAACGGTCGTTACCTTACC
1352184 GTCAACGGTCGTTACCTTACC
1 GTCAACGGTCGTTACCTTACC
1352205 G
1 G
1352206 ACAATGGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.33, G:0.21, T:0.28
Consensus pattern (21 bp):
GTCAACGGTCGTTACCTTACC
Found at i:1353657 original size:20 final size:20
Alignment explanation
Indices: 1353632--1353689 Score: 100
Period size: 20 Copynumber: 2.9 Consensus size: 20
1353622 TTTTACAAAA
1353632 AAATCA-CCCCAAACGGCTCC
1 AAATCATCCCC-AACGGCTCC
1353652 AAATCATCCCCAACGGCTCC
1 AAATCATCCCCAACGGCTCC
1353672 AAATCATCCCCAACGGCT
1 AAATCATCCCCAACGGCT
1353690 AGAAACGACC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 33 0.89
21 4 0.11
ACGTcount: A:0.33, C:0.43, G:0.10, T:0.14
Consensus pattern (20 bp):
AAATCATCCCCAACGGCTCC
Found at i:1356997 original size:21 final size:22
Alignment explanation
Indices: 1356964--1357004 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
1356954 TTAAATATTA
1356964 TAAAGGAAGTACTGATACTCAT
1 TAAAGGAAGTACTGATACTCAT
1356986 TAAAGG-AGTACTGATACTC
1 TAAAGGAAGTACTGATACTC
1357005 TTTGTCCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (22 bp):
TAAAGGAAGTACTGATACTCAT
Found at i:1361424 original size:23 final size:22
Alignment explanation
Indices: 1361376--1361454 Score: 87
Period size: 23 Copynumber: 3.7 Consensus size: 22
1361366 AGAACCCCAG
*
1361376 GGGGGTATCGATTCCCC-T--A
1 GGGGGAATCGATTCCCCTTCAA
1361395 GGGGGAATCGATTCCCAC-TCAAA
1 GGGGGAATCGATTCCC-CTTC-AA
1361418 GGGGGAATCGATTCCCCTTCAA
1 GGGGGAATCGATTCCCCTTCAA
*
1361440 -GGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
1361455 TCTGCCCTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
19 15 0.28
20 2 0.04
21 14 0.26
22 3 0.06
23 19 0.36
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.23
Consensus pattern (22 bp):
GGGGGAATCGATTCCCCTTCAA
Found at i:1364880 original size:17 final size:17
Alignment explanation
Indices: 1364858--1364897 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
1364848 AATTTCTAAT
1364858 TTTTGGTACCCAAATTC
1 TTTTGGTACCCAAATTC
1364875 TTTTGGTACCCAAATTC
1 TTTTGGTACCCAAATTC
1364892 TTTTGG
1 TTTTGG
1364898 GTCCATATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (17 bp):
TTTTGGTACCCAAATTC
Found at i:1368397 original size:31 final size:31
Alignment explanation
Indices: 1368362--1368425 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
1368352 AGGACTAAAA
1368362 GGAGGTTATGGTAGAAGAGTTAAATAAGTTT
1 GGAGGTTATGGTAGAAGAGTTAAATAAGTTT
*
1368393 GGAGGTTATGGTAGAAGAGTTAAGTAAGTTT
1 GGAGGTTATGGTAGAAGAGTTAAATAAGTTT
1368424 GG
1 GG
1368426 TAAGATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (31 bp):
GGAGGTTATGGTAGAAGAGTTAAATAAGTTT
Found at i:1373854 original size:31 final size:31
Alignment explanation
Indices: 1373816--1373875 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
1373806 GACTAAAAGA
*
1373816 AGGTTATGGTAGAAGAGTTAAGTAAGTTTGG
1 AGGTTATGGTAGAAGAATTAAGTAAGTTTGG
1373847 AGGTTATGGTAGAAGAATTAAGTAAGTTT
1 AGGTTATGGTAGAAGAATTAAGTAAGTTT
1373876 AGTAAGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (31 bp):
AGGTTATGGTAGAAGAATTAAGTAAGTTTGG
Found at i:1374068 original size:20 final size:20
Alignment explanation
Indices: 1374043--1374098 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
1374033 TATTCATAGG
1374043 GTATCGATACCTAGAGGGTA
1 GTATCGATACCTAGAGGGTA
* *
1374063 GTATCGATACCTGGAGGGTC
1 GTATCGATACCTAGAGGGTA
*
1374083 GTATCGATACCAAGAG
1 GTATCGATACCTAGAG
1374099 TACCGATACC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (20 bp):
GTATCGATACCTAGAGGGTA
Found at i:1379166 original size:11 final size:13
Alignment explanation
Indices: 1379134--1379163 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1379124 TGGCCAAAGA
1379134 TGAAAAGGTATGT
1 TGAAAAGGTATGT
1379147 TGAAAAGGTATG-
1 TGAAAAGGTATGT
1379159 TGAAA
1 TGAAA
1379164 GGTGCTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:1385096 original size:21 final size:21
Alignment explanation
Indices: 1385070--1385150 Score: 126
Period size: 21 Copynumber: 3.9 Consensus size: 21
1385060 CAATTAAGAA
* *
1385070 TCAAGGAGCTTTACTTCATAG
1 TCAAGGCGCCTTACTTCATAG
1385091 TCAAGGCGCCTTACTTCATAG
1 TCAAGGCGCCTTACTTCATAG
*
1385112 TTAAGGCGCCTTACTTCATAG
1 TCAAGGCGCCTTACTTCATAG
*
1385133 TTAAGGCGCCTTACTTCA
1 TCAAGGCGCCTTACTTCA
1385151 AAGCCATGTC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (21 bp):
TCAAGGCGCCTTACTTCATAG
Found at i:1386044 original size:18 final size:18
Alignment explanation
Indices: 1386021--1386067 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
1386011 TAAACTTTAT
1386021 TATATTATTTTGTTAAAA
1 TATATTATTTTGTTAAAA
* **
1386039 TATATT-TTTTATTTGAA
1 TATATTATTTTGTTAAAA
*
1386056 TAAATTATTTTG
1 TATATTATTTTG
1386068 AGTTTTTCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TATATTATTTTGTTAAAA
Found at i:1387135 original size:155 final size:155
Alignment explanation
Indices: 1386853--1387171 Score: 584
Period size: 155 Copynumber: 2.1 Consensus size: 155
1386843 ACGACTCCAA
*
1386853 TTATTAAAATCTTCCGCATAATAATTAAGGTTTAATATAAAAATAAGTATTTAAATTATATCTTT
1 TTATTAAAATCTTCCACATAATAATTAAGGTTTAATATAAAAATAAGTATTTAAATTATATCTTT
*
1386918 ATTTTAAAATTAATGTTTAAATTATTTTATTCATTCAGGTGTATAATGTTACAAATGTTATTATT
66 ATTTTAAAATTAATGTTTAAATTATTTTATTCATTCAGGTATATAATGTTACAAATGTTATTATT
*
1386983 TTTGATGTCTCGACCGTAACCATCG
131 TTCGATGTCTCGACCGTAACCATCG
*
1387008 TTATTAACATCTTCCACATAATAATTAAGGTTTAATATAAAAATAAGTATTTAAATTATATCTTT
1 TTATTAAAATCTTCCACATAATAATTAAGGTTTAATATAAAAATAAGTATTTAAATTATATCTTT
*
1387073 ATTTTAAAATTAATGTTTAAATTATTTTATTTATTCAGGTATATAATGTTACAAATGTTATTATT
66 ATTTTAAAATTAATGTTTAAATTATTTTATTCATTCAGGTATATAATGTTACAAATGTTATTATT
1387138 TTCGATGTCTCGACCGTAACCATCG
131 TTCGATGTCTCGACCGTAACCATCG
*
1387163 TTATAAAAA
1 TTATTAAAA
1387172 CCCCACTTTC
Statistics
Matches: 157, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
155 157 1.00
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (155 bp):
TTATTAAAATCTTCCACATAATAATTAAGGTTTAATATAAAAATAAGTATTTAAATTATATCTTT
ATTTTAAAATTAATGTTTAAATTATTTTATTCATTCAGGTATATAATGTTACAAATGTTATTATT
TTCGATGTCTCGACCGTAACCATCG
Found at i:1389686 original size:12 final size:12
Alignment explanation
Indices: 1389669--1389693 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1389659 ATTTTTTTGA
1389669 TTTTTTGTATTT
1 TTTTTTGTATTT
1389681 TTTTTTGTATTT
1 TTTTTTGTATTT
1389693 T
1 T
1389694 CACAGTGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (12 bp):
TTTTTTGTATTT
Found at i:1394265 original size:36 final size:36
Alignment explanation
Indices: 1394191--1394293 Score: 143
Period size: 36 Copynumber: 2.8 Consensus size: 36
1394181 ATATGTTCCT
* * *
1394191 GCTTCACTACTTTTTTTGTGAAGGCTGGATGTGCATC
1 GCTTCACTAC-TCTTTTGTGAAGGCTAGATTTGCATC
* *
1394228 GCTTCACTACTCTTCTGTGAAGGCTAGATTTGTATC
1 GCTTCACTACTCTTTTGTGAAGGCTAGATTTGCATC
*
1394264 GCTTCACTACTCTTTTGTGAAGGCTTGATT
1 GCTTCACTACTCTTTTGTGAAGGCTAGATT
1394294 GACTTGATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
36 49 0.83
37 10 0.17
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.41
Consensus pattern (36 bp):
GCTTCACTACTCTTTTGTGAAGGCTAGATTTGCATC
Found at i:1394437 original size:89 final size:88
Alignment explanation
Indices: 1394290--1394465 Score: 248
Period size: 89 Copynumber: 2.0 Consensus size: 88
1394280 GTGAAGGCTT
** *
1394290 GATTGACTTGATAAGAATCTATTTCACTACTCTTCTGTGAAGATCAGATTCGAAGTTGATTTGAT
1 GATTGACTTGATAAGAATCTATTTCACTACTCTTCCATGAACATCAGATTCGAAGTTGATTTGAT
* *
1394355 TTCACTACTCTTCCATGGAGATCG
66 TCCACTACCCTT-CATGGAGATCG
*
1394379 GATTGACTTGGA-AAGAATCTATTTCACTACTCTTCCATGAACATCATATTC-AAGGTTGATTTG
1 GATTGACTT-GATAAGAATCTATTTCACTACTCTTCCATGAACATCAGATTCGAA-GTTGATTTG
*
1394442 CTTCCACTACCCTTCATGGAGATC
64 ATTCCACTACCCTTCATGGAGATC
1394466 AAATCTGTAA
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
88 12 0.15
89 64 0.82
90 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (88 bp):
GATTGACTTGATAAGAATCTATTTCACTACTCTTCCATGAACATCAGATTCGAAGTTGATTTGAT
TCCACTACCCTTCATGGAGATCG
Found at i:1407040 original size:18 final size:18
Alignment explanation
Indices: 1406999--1407040 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1406989 GGGTTATGCT
* *
1406999 TGTAATTGGGCCTCGGGT
1 TGTAATCGGGCCTCGGGC
1407017 TGTAATCGGGCCTCCGGGC
1 TGTAATCGGGCCT-CGGGC
1407036 T-TAAT
1 TGTAAT
1407041 GCATTTGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.31
Consensus pattern (18 bp):
TGTAATCGGGCCTCGGGC
Found at i:1419395 original size:37 final size:37
Alignment explanation
Indices: 1419345--1419418 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
1419335 TACTTTACAT
1419345 GTTTAAAAGTTACAAGTGCAAGCAAGAAGAAAGAAAC
1 GTTTAAAAGTTACAAGTGCAAGCAAGAAGAAAGAAAC
1419382 GTTTAAAAGTTACAAGTGCAAGCAAGAAGAAAGAAAC
1 GTTTAAAAGTTACAAGTGCAAGCAAGAAGAAAGAAAC
1419419 AAAATAGTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.51, C:0.11, G:0.22, T:0.16
Consensus pattern (37 bp):
GTTTAAAAGTTACAAGTGCAAGCAAGAAGAAAGAAAC
Found at i:1422874 original size:37 final size:37
Alignment explanation
Indices: 1422833--1422905 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
1422823 ACCCTCCTTA
* * *
1422833 TTCTTCTTCTTTAAGAGCTTAAGCCCATAGCTTCTTT
1 TTCTTCTTCTTCAAGAGCTAAAACCCATAGCTTCTTT
*
1422870 TTCTTCTTCTTCGAGAGCTAAAACCCATAGCTTCTT
1 TTCTTCTTCTTCAAGAGCTAAAACCCATAGCTTCTT
1422906 CTTCAAGAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (37 bp):
TTCTTCTTCTTCAAGAGCTAAAACCCATAGCTTCTTT
Found at i:1422904 original size:28 final size:28
Alignment explanation
Indices: 1422872--1422937 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
1422862 GCTTCTTTTT
*
1422872 CTTCTTCTTCGAGAGCTAAAACCCATAG
1 CTTCTTCTTCAAGAGCTAAAACCCATAG
* *
1422900 CTTCTTCTTCAAGAGCTTAAACTCATAG
1 CTTCTTCTTCAAGAGCTAAAACCCATAG
1422928 CTTCTTCTTC
1 CTTCTTCTTC
1422938 TTCTTCACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.36
Consensus pattern (28 bp):
CTTCTTCTTCAAGAGCTAAAACCCATAG
Found at i:1423555 original size:3 final size:3
Alignment explanation
Indices: 1423547--1423594 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
1423537 GTGAAGCGAA
1423547 AAG AAG AAG AATG -AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1423592 AAG
1 AAG
1423595 GAAGTGCCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 1 0.02
3 41 0.95
4 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:1425066 original size:69 final size:69
Alignment explanation
Indices: 1424941--1425079 Score: 163
Period size: 69 Copynumber: 2.0 Consensus size: 69
1424931 GGAGCTGAGG
* ** * * * * * *
1424941 ACCTCTAAAAATGGACCCAAAATAGGAAACATGATGGGGGCTTTGTCCTCCGAAGAGTAACCCGA
1 ACCTCTAAAAATGGACCCAAAATAGGAAACATGATGGGGACCCTATCATACAAAGAGGAACCCAA
1425006 GTTA
66 GTTA
* *
1425010 ACCTCTAAAAA-GGTACTCAAAATAGGAAACATGATGGGGACCCTATCATATAAAGAGGAACCCA
1 ACCTCTAAAAATGG-ACCCAAAATAGGAAACATGATGGGGACCCTATCATACAAAGAGGAACCCA
1425074 AGTTA
65 AGTTA
1425079 A
1 A
1425080 GAGGAACTCA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
68 2 0.03
69 56 0.97
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (69 bp):
ACCTCTAAAAATGGACCCAAAATAGGAAACATGATGGGGACCCTATCATACAAAGAGGAACCCAA
GTTA
Found at i:1431143 original size:14 final size:14
Alignment explanation
Indices: 1431124--1431150 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1431114 TTTGTTTTTG
1431124 CAGATGGTTGATTA
1 CAGATGGTTGATTA
1431138 CAGATGGTTGATT
1 CAGATGGTTGATT
1431151 TTTGTTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.07, G:0.30, T:0.37
Consensus pattern (14 bp):
CAGATGGTTGATTA
Found at i:1436109 original size:42 final size:42
Alignment explanation
Indices: 1436049--1436158 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 42
1436039 ATGGTTGCAG
* * * *
1436049 CATGAAGTTCTTTCTTTGATGCTTCTTCCATATCACCAATAG
1 CATGAAGATCTCTCTTTGATGCTTCTTCCATATCACCAACAA
* *
1436091 TATGAAGATCTCTCTTTGAAGCTTCTTCCATATCACCAACAA
1 CATGAAGATCTCTCTTTGATGCTTCTTCCATATCACCAACAA
* *
1436133 CATCAAAATCTCTCTTTGATGCTTCT
1 CATGAAGATCTCTCTTTGATGCTTCT
1436159 CCAACAGCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.38
Consensus pattern (42 bp):
CATGAAGATCTCTCTTTGATGCTTCTTCCATATCACCAACAA
Found at i:1439462 original size:73 final size:73
Alignment explanation
Indices: 1439337--1439544 Score: 260
Period size: 73 Copynumber: 2.8 Consensus size: 73
1439327 TATATATATA
* * * * *
1439337 TATATATATA-TATATATATA-TATATATATA-AACTATATAGTTTATATTTATATTATATATGA
1 TATATTTATATTAT-TATATACTATATATATACTA-TATATA-TATATATATATATTATATATAA
*
1439399 ACTATATAGTT
63 ACCATATAGTT
*
1439410 TATATTTATATTATTATATACTATATATATACTATATATATATATATATATATTATGTATAAACC
1 TATATTTATATTATTATATACTATATATATACTATATATATATATATATATATTATATATAAACC
1439475 ATATAGTT
66 ATATAGTT
* * * *
1439483 TATATTTATATTAGTATATACTATATATATACTATATACATATTATATATAAACTATATATA
1 TATATTTATATTATTATATACTATATATATACTATATATATA-TATATATATATTATATATA
1439545 GCATGTATAA
Statistics
Matches: 119, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
73 83 0.70
74 35 0.29
75 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (73 bp):
TATATTTATATTATTATATACTATATATATACTATATATATATATATATATATTATATATAAACC
ATATAGTT
Found at i:1439562 original size:2 final size:2
Alignment explanation
Indices: 1439316--1439544 Score: 177
Period size: 2 Copynumber: 112.0 Consensus size: 2
1439306 TTGAAACAAT
1439316 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1439357 TA TA TA TA TA AA CTA TA TA GTT TA TA TT TA TA T- TA TA TA TGA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA T-A
* *
1439399 -A CTA TA TA GTT TA TA TT TA TA T- TA T- TA TA TA CTA TA TA TA
1 TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * *
1439439 TA CTA TA TA TA TA TA TA TA TA TA T- TA TG TA TA AA CCA TA TA GTT
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* *
1439483 TA TA TT TA TA T- TA GTA TA TA CTA TA TA TA TA CTA TA TA CA TA
1 TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA -TA TA TA TA TA
*
1439525 T- TA TA TA TA AA CTA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA
1439545 GCATGTATAA
Statistics
Matches: 183, Mismatches: 23, Indels: 42
0.74 0.09 0.17
Matches are distributed among these distances:
1 8 0.04
2 157 0.86
3 18 0.10
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1439613 original size:20 final size:20
Alignment explanation
Indices: 1439316--1439695 Score: 172
Period size: 20 Copynumber: 19.1 Consensus size: 20
1439306 TTGAAACAAT
*
1439316 TATAATATATATATA-TATA
1 TATATTATATATATACTATA
1439335 TATA-TATATATATA-TATA
1 TATATTATATATATACTATA
*
1439353 TATATATATATATAAACTATA
1 TATAT-TATATATATACTATA
* *
1439374 TAGT-TTATATTTATATTATA
1 TA-TATTATATATATACTATA
* * *
1439394 TATGAACTATATAGTTTA-TATT
1 TAT--ATTATATA-TATACTATA
1439416 TATATTAT-TATATACTATA
1 TATATTATATATATACTATA
*
1439435 TATATACTATATATATATATATA
1 TATAT--TATATATATA-CTATA
* * *
1439458 TATATTATGTATAAACCATA
1 TATATTATATATATACTATA
* *
1439478 TAGT-TTATATTTATATTAGTA
1 TA-TATTATATATATACTA-TA
*
1439499 TATACTATATATATACTATA
1 TATATTATATATATACTATA
*
1439519 TACATATTATATATAAACTATA
1 T--ATATTATATATATACTATA
** * *
1439541 TATAGCATGTATAAACTATA
1 TATATTATATATATACTATA
* *
1439561 TAGT-TTATTAATATAAATTATA
1 TA-TATTA-T-ATATATACTATA
* *
1439583 TAGT-TTATATATAAATTATA
1 TA-TATTATATATATACTATA
* *
1439603 TATA-AACTATACA-ACT-TA
1 TATATTA-TATATATACTATA
*
1439621 TAT-TTATATAT-TAC-GTA
1 TATATTATATATATACTATA
1439638 TA-ATTATA-A-AT--TATA
1 TATATTATATATATACTATA
* * * *
1439653 CATACTATGTATAAACTATA
1 TATATTATATATATACTATA
*
1439673 TAGT-TTATATATATAGTATA
1 TA-TATTATATATATACTATA
1439693 TAT
1 TAT
1439696 GGTTTAGGGT
Statistics
Matches: 278, Mismatches: 48, Indels: 70
0.70 0.12 0.18
Matches are distributed among these distances:
15 3 0.01
16 6 0.02
17 16 0.06
18 28 0.10
19 20 0.07
20 102 0.37
21 38 0.14
22 53 0.19
23 12 0.04
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (20 bp):
TATATTATATATATACTATA
Found at i:1439843 original size:33 final size:33
Alignment explanation
Indices: 1439806--1439877 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
1439796 GTAAATTATA
* *
1439806 TATATAGTTTACATATGAACTATATGTATAAAC
1 TATATAGTTTACATATAAACTACATGTATAAAC
1439839 TATATAGTTTACATATAAACTACATGTATAAAC
1 TATATAGTTTACATATAAACTACATGTATAAAC
1439872 TATATA
1 TATATA
1439878 AACTATATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (33 bp):
TATATAGTTTACATATAAACTACATGTATAAAC
Found at i:1439857 original size:20 final size:20
Alignment explanation
Indices: 1439832--1439906 Score: 80
Period size: 20 Copynumber: 3.6 Consensus size: 20
1439822 GAACTATATG
1439832 TATAAACTATATAGTTTACA
1 TATAAACTATATAGTTTACA
* *
1439852 TATAAACTACAT-GTATAAACTA
1 TATAAACTATATAGT-T-TAC-A
1439874 TATAAACTATATAGTTTACA
1 TATAAACTATATAGTTTACA
* *
1439894 TATGAATTATATA
1 TATAAACTATATA
1439907 TATAGTTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.04
20 24 0.53
21 4 0.09
22 13 0.29
23 2 0.04
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (20 bp):
TATAAACTATATAGTTTACA
Found at i:1439922 original size:24 final size:24
Alignment explanation
Indices: 1439881--1439930 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1439871 CTATATAAAC
*
1439881 TATATAGTTTACATATGAATTATA
1 TATATAGTTTACATATGAACTATA
*
1439905 TATATAGTTTA-TTAATGAACTATA
1 TATATAGTTTACAT-ATGAACTATA
1439929 TA
1 TA
1439931 AACTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (24 bp):
TATATAGTTTACATATGAACTATA
Found at i:1439939 original size:24 final size:24
Alignment explanation
Indices: 1439895--1439940 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
1439885 TAGTTTACAT
* *
1439895 ATGAATTATATATATAGTTTATTA
1 ATGAACTATATAAATAGTTTATTA
1439919 ATGAACTATATAAACTA-TTTAT
1 ATGAACTATATAAA-TAGTTTAT
1439941 ATAGTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (24 bp):
ATGAACTATATAAATAGTTTATTA
Found at i:1440073 original size:20 final size:19
Alignment explanation
Indices: 1440048--1440101 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
1440038 GCGAAATAAA
1440048 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
1440068 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
1440088 AATCGCAACGCGAT
1 AATCGCAACGCGAT
1440102 TATGTAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:1440112 original size:21 final size:21
Alignment explanation
Indices: 1440086--1440205 Score: 68
Period size: 21 Copynumber: 5.8 Consensus size: 21
1440076 ATCAGTTCCC
1440086 AGAATCGCAACGCGATTATGT
1 AGAATCGCAACGCGATTATGT
*
1440107 AGAATCGCAATGCGA-TA-GT
1 AGAATCGCAACGCGATTATGT
* * ** * **
1440126 ACAAATTTGCATTGCGATTTTCC
1 A-GAA-TCGCAACGCGATTATGT
*
1440149 AGAATCGCAACGCGAATATG-
1 AGAATCGCAACGCGATTATGT
* * ** *
1440169 AAAATTGCAACGCGAACATAT
1 AGAATCGCAACGCGATTATGT
1440190 A-AATCGCAACGCGATT
1 AGAATCGCAACGCGATT
1440206 CTAACTATCG
Statistics
Matches: 73, Mismatches: 21, Indels: 11
0.70 0.20 0.10
Matches are distributed among these distances:
19 3 0.04
20 32 0.44
21 34 0.47
22 3 0.04
23 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (21 bp):
AGAATCGCAACGCGATTATGT
Found at i:1440180 original size:20 final size:20
Alignment explanation
Indices: 1440151--1440203 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1440141 GATTTTCCAG
*
1440151 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACAT-ATA
*
1440171 AATTGCAACGCGAACATATA
1 AATCGCAACGCGAACATATA
1440191 AATCGCAACGCGA
1 AATCGCAACGCGA
1440204 TTCTAACTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.43, C:0.23, G:0.19, T:0.15
Consensus pattern (20 bp):
AATCGCAACGCGAACATATA
Found at i:1440257 original size:41 final size:41
Alignment explanation
Indices: 1440190--1440405 Score: 176
Period size: 41 Copynumber: 5.3 Consensus size: 41
1440180 GCGAACATAT
* **
1440190 AAATCGCAACGCG-ATTC-TAACTATCGCAACGAGTGT-CAGTA
1 AAATCGCAACGCGTATCCGTAA--ATCGCAACGAGAATAC-GTA
* * *
1440231 AAATTGCAACGCGTATCCGTAAATCGCAATGACAATACGTA
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
1440272 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT-
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * * * * * *
1440312 AAATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGT-
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * * * *
1440352 AAATCGCAACGAC-AATACGTAAAATCGCAACGCGTATCCGT-
1 AAATCGCAACG-CGTATCCGT-AAATCGCAACGAGAATACGTA
1440393 AAATCGCAACGCG
1 AAATCGCAACGCG
1440406 ATTTTTAAAG
Statistics
Matches: 151, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
40 52 0.34
41 92 0.61
42 4 0.03
43 3 0.02
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (41 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
Found at i:1440259 original size:20 final size:20
Alignment explanation
Indices: 1440189--1440405 Score: 190
Period size: 20 Copynumber: 10.7 Consensus size: 20
1440179 CGCGAACATA
*
1440189 TAAATCGCAACGCG-ATTC-
1 TAAATCGCAACGCGTATCCG
* * *
1440207 TAACTATCGCAACGAGTGTCAG
1 TAA--ATCGCAACGCGTATCCG
*
1440229 TAAAATTGCAACGCGTATCCG
1 T-AAATCGCAACGCGTATCCG
* * *
1440250 TAAATCGCAATGAC-AATACG
1 TAAATCGCAACG-CGTATCCG
1440270 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCGTATCCG
* * *
1440291 TAAATCGCAACGAGAATACG
1 TAAATCGCAACGCGTATCCG
* * *
1440311 TAAATCGCAACGAGAATACG
1 TAAATCGCAACGCGTATCCG
*
1440331 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* *
1440351 TAAATCGCAACGAC-AATACG
1 TAAATCGCAACG-CGTATCCG
1440371 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCGTATCCG
1440392 TAAATCGCAACGCG
1 TAAATCGCAACGCG
1440406 ATTTTTAAAG
Statistics
Matches: 161, Mismatches: 27, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.02
20 107 0.66
21 48 0.30
22 1 0.01
23 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:1440986 original size:20 final size:19
Alignment explanation
Indices: 1440961--1441032 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
1440951 TTCTAAACTT
1440961 AAAATCGCAACATGAAAATG
1 AAAATCGCAACA-GAAAATG
*
1440981 AAAATCACAACACGAAAATG
1 AAAATCGCAACA-GAAAATG
**
1441001 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC-AGA-AAATG
1441022 AAAATCGCAAC
1 AAAATCGCAAC
1441033 GCGAAACCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.53, C:0.19, G:0.15, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACAGAAAATG
Found at i:1441048 original size:40 final size:40
Alignment explanation
Indices: 1440961--1441049 Score: 92
Period size: 40 Copynumber: 2.2 Consensus size: 40
1440951 TTCTAAACTT
**
1440961 AAAATCGCAACATGAAAATGAAAATCACAACACGAAAATG
1 AAAATCGCAACATGAAAATGAAAATCACAACACGAAAACC
** * *
1441001 ACTATCGCAACGA-GAGAAATGAAAATCGCAACGCG-AAACC
1 AAAATCGCAAC-ATGA-AAATGAAAATCACAACACGAAAACC
1441041 AAAATCGCA
1 AAAATCGCA
1441050 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
40 21 0.54
41 18 0.46
ACGTcount: A:0.52, C:0.21, G:0.16, T:0.11
Consensus pattern (40 bp):
AAAATCGCAACATGAAAATGAAAATCACAACACGAAAACC
Found at i:1441067 original size:19 final size:19
Alignment explanation
Indices: 1441045--1441171 Score: 85
Period size: 20 Copynumber: 7.1 Consensus size: 19
1441035 GAAACCAAAA
*
1441045 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1441064 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
1441078 TCTCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
1441097 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
1441111 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
1441130 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
*
1441150 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1441170 TC
1 TC
1441172 AACCAAAAGA
Statistics
Matches: 85, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
14 20 0.24
16 4 0.05
17 5 0.06
19 23 0.27
20 32 0.38
21 1 0.01
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1441092 original size:33 final size:33
Alignment explanation
Indices: 1441050--1441171 Score: 154
Period size: 33 Copynumber: 3.5 Consensus size: 33
1441040 CAAAATCGCA
1441050 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
1441083 TTGCGATTTTAATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
1441116 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATTCTCTCG
1 TTGCGATTTTCATTT-CGCGTTGC----G--ATTCTCTCG
1441156 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1441172 AACCAAAAGA
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
33 44 0.58
34 8 0.11
38 1 0.01
39 1 0.01
40 22 0.29
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.44
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1441169 original size:20 final size:20
Alignment explanation
Indices: 1441107--1441162 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
1441097 TCGCGTTGCG
1441107 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
*
1441127 ATT-TCCGCGTTGCGATAGTC
1 ATTCT-CTCGTTGCGATAGTC
1441147 ATTCTCTCGTTGCGAT
1 ATTCTCTCGTTGCGAT
1441163 TTTCATTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.39
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATAGTC
Found at i:1443004 original size:17 final size:17
Alignment explanation
Indices: 1442974--1443006 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1442964 GTTGCTGCCA
1442974 ATTCTGTTAAACTGTGT
1 ATTCTGTTAAACTGTGT
1442991 ATTCT-TTAACACTGTG
1 ATTCTGTTAA-ACTGTG
1443007 AAGTTAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.45
Consensus pattern (17 bp):
ATTCTGTTAAACTGTGT
Found at i:1443017 original size:94 final size:94
Alignment explanation
Indices: 1442856--1443235 Score: 647
Period size: 94 Copynumber: 4.1 Consensus size: 94
1442846 TAGATTGCTT
* * *
1442856 AGTAAATTTATTCGATTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1442921 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
*
1442950 AGTAAATTTATTCGGTTGCTGCCAATTCTGTTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
1443015 ATTTATCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1443044 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1443109 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
1443138 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
1443203 ATTTGTCTTTGTTTTGTCTTTTTGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1443231 AGTAA
1 AGTAA
1443236 TGCAATCCGT
Statistics
Matches: 274, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
93 26 0.09
94 248 0.91
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1443364 original size:19 final size:19
Alignment explanation
Indices: 1443336--1443384 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1443326 GCAATGAGAG
1443336 AATCGCAACGAGAAATGAA
1 AATCGCAACGAGAAATGAA
* *
1443355 AATTGCAACGCGAAATGAA
1 AATCGCAACGAGAAATGAA
1443374 AATCGCAACGA
1 AATCGCAACGA
1443385 CAAAATCGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.49, C:0.18, G:0.20, T:0.12
Consensus pattern (19 bp):
AATCGCAACGAGAAATGAA
Found at i:1443391 original size:14 final size:14
Alignment explanation
Indices: 1443372--1443402 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1443362 ACGCGAAATG
1443372 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1443386 AAAATCGCAACGCC
1 AAAATCGCAACGAC
1443400 AAA
1 AAA
1443403 CCAAAATCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.29, G:0.13, T:0.06
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1443396 original size:33 final size:32
Alignment explanation
Indices: 1443353--1443421 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
1443343 ACGAGAAATG
* * **
1443353 AAAATTGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCCAAACCAAAATCGCAACG-C
1443386 AAAATCGCAACGCCAAACCAAAATCGCAACGC
1 AAAATCGCAACGCCAAACCAAAATCGCAACGC
1443418 AAAA
1 AAAA
1443422 CTATAATCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 5 0.16
33 27 0.84
ACGTcount: A:0.51, C:0.26, G:0.14, T:0.09
Consensus pattern (32 bp):
AAAATCGCAACGCCAAACCAAAATCGCAACGC
Found at i:1443431 original size:19 final size:19
Alignment explanation
Indices: 1443385--1443422 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1443375 ATCGCAACGA
*
1443385 CAAAATCGCAACGCCAAAC
1 CAAAATCGCAACGCAAAAC
1443404 CAAAATCGCAACGCAAAAC
1 CAAAATCGCAACGCAAAAC
1443423 TATAATCGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.34, G:0.11, T:0.05
Consensus pattern (19 bp):
CAAAATCGCAACGCAAAAC
Found at i:1443491 original size:20 final size:20
Alignment explanation
Indices: 1443466--1443552 Score: 147
Period size: 20 Copynumber: 4.3 Consensus size: 20
1443456 GATTCTCTCG
**
1443466 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
1443486 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
1443506 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1443526 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
1443546 TTGCGAT
1 TTGCGAT
1443553 TTTAAGTTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:1444124 original size:21 final size:21
Alignment explanation
Indices: 1444033--1444137 Score: 68
Period size: 21 Copynumber: 5.0 Consensus size: 21
1444023 GACTCACCTG
*
1444033 TCATCGTTCAAGAGGCCTC-C
1 TCATCGTTCAAGAGGCCACTC
* * * *
1444053 CCTATCATTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCACTC
** * *
1444075 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCACTC
* * *
1444096 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCACTC
* *
1444117 TCATCGTTGAAGAGGTCACTC
1 TCATCGTTCAAGAGGCCACTC
1444138 CCAACATTCT
Statistics
Matches: 62, Mismatches: 21, Indels: 3
0.72 0.24 0.03
Matches are distributed among these distances:
20 1 0.02
21 60 0.97
22 1 0.02
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCACTC
Found at i:1445512 original size:14 final size:14
Alignment explanation
Indices: 1445493--1445528 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1445483 ATTGTTTAAT
1445493 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1445507 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1445521 TGATTTGT
1 TGATTTGT
1445529 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1445680 original size:33 final size:34
Alignment explanation
Indices: 1445630--1445698 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 34
1445620 AAAACAGGCT
**
1445630 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAACGCGGAAATGAAAATCGCAACGAGAGA
* *
1445664 ATCGCAATGC-GAAATGAAAATCGCAACGAGTGA
1 ATCGCAACGCGGAAATGAAAATCGCAACGAGAGA
1445697 AT
1 AT
1445699 TCTGCATTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 22 0.71
34 9 0.29
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (34 bp):
ATCGCAACGCGGAAATGAAAATCGCAACGAGAGA
Found at i:1445727 original size:19 final size:19
Alignment explanation
Indices: 1445702--1445837 Score: 174
Period size: 19 Copynumber: 7.4 Consensus size: 19
1445692 AGTGAATTCT
1445702 GCATTGCAATTTTCATTTC
1 GCATTGCAATTTTCATTTC
*
1445721 ACATTGCAATTTTCATTTC
1 GCATTGCAATTTTCATTTC
*
1445740 GCATTGCTATTTTCATTTTC
1 GCATTGCAATTTTCA-TTTC
* *
1445760 ACATTGCAA--TTCA-CTC
1 GCATTGCAATTTTCATTTC
*
1445776 G--TTGCGATTTTCATTTC
1 GCATTGCAATTTTCATTTC
1445793 GCATTGCAATTTTCATTTC
1 GCATTGCAATTTTCATTTC
*
1445812 GCATTGTAATTTTCATTTC
1 GCATTGCAATTTTCATTTC
1445831 GCATTGC
1 GCATTGC
1445838 GATTCTCTCG
Statistics
Matches: 99, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
14 5 0.05
16 6 0.06
17 3 0.03
18 4 0.04
19 70 0.71
20 11 0.11
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (19 bp):
GCATTGCAATTTTCATTTC
Found at i:1445791 original size:72 final size:71
Alignment explanation
Indices: 1445705--1445863 Score: 230
Period size: 72 Copynumber: 2.2 Consensus size: 71
1445695 GAATTCTGCA
*
1445705 TTGCAATTTTCATTTCACATTGCAATTTTCATTTCGCATTGCT-ATTTTCATTTTCACATTGCAA
1 TTGCGATTTTCATTTCACATTGCAATTTTCATTTCGCATTG-TAATTTTCA-TTTCACATTGCAA
1445769 TTCACTCG
64 TTCACTCG
* * *
1445777 TTGCGATTTTCATTTCGCATTGCAATTTTCATTTCGCATTGTAATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCACATTGCAATTTTCATTTCGCATTGTAATTTTCATTTCACATTGCAATT
*
1445842 CTCTCG
66 CACTCG
**
1445848 TTGCGATAGTCATTTC
1 TTGCGATTTTCATTTC
1445864 CGCGTTGCGA
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
71 33 0.42
72 46 0.58
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCACATTGCAATTTTCATTTCGCATTGTAATTTTCATTTCACATTGCAATT
CACTCG
Found at i:1445870 original size:91 final size:91
Alignment explanation
Indices: 1445702--1445874 Score: 217
Period size: 91 Copynumber: 1.9 Consensus size: 91
1445692 AGTGAATTCT
* * * *
1445702 GCATTGCAATTTTCATTTCACATTGCAATTTTCATTTCGCATTGCTATTTTCATTTTCACATTGC
1 GCATTGCAATTTTCATTTCACATTGCAATTTTCATTTCGCATTGCGATTTTCAGTTGCACAGTGC
*
1445767 AATTCACTCGTTGCGATTTTCATTTC
66 AATTCACGCGTTGCGATTTTCATTTC
* * *
1445793 GCATTGCAATTTTCATTTCGCATTGTAATTTTCATTTCGCATTGCGATTCTCTC-GTTGCGATAG
1 GCATTGCAATTTTCATTTCACATTGCAATTTTCATTTCGCATTGCGATT-T-TCAGTTGC-ACAG
*
1445857 T-CATTTC-CGCGTTGCGAT
63 TGCAATTCACGCGTTGCGAT
1445875 AGTCAATTCC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
91 56 0.80
92 9 0.13
93 5 0.07
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (91 bp):
GCATTGCAATTTTCATTTCACATTGCAATTTTCATTTCGCATTGCGATTTTCAGTTGCACAGTGC
AATTCACGCGTTGCGATTTTCATTTC
Found at i:1445871 original size:20 final size:20
Alignment explanation
Indices: 1445846--1445934 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
1445836 GCGATTCTCT
1445846 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
1445866 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
* *
1445886 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
*
1445906 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
*
1445926 CATTGCGAT
1 CGTTGCGAT
1445935 TTCCGCGTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:1445911 original size:40 final size:40
Alignment explanation
Indices: 1445848--1445934 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
1445838 GATTCTCTCG
1445848 TTGCGATAGTCATTTCCGCGTTGCGATAGTCA-ATTCCGCA
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATT-CGCA
* *
1445888 TTGCGATAGTCATTTTCGTGTTGCGATAGTCATATTCGCA
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCGCA
1445928 TTGCGAT
1 TTGCGAT
1445935 TTCCGCGTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 41 0.93
41 3 0.07
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.37
Consensus pattern (40 bp):
TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCGCA
Found at i:1448422 original size:24 final size:24
Alignment explanation
Indices: 1448371--1448422 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1448361 ATCCAAGTAT
** *
1448371 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
1448395 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
1448419 TGAC
1 TGAC
1448423 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:1449298 original size:20 final size:20
Alignment explanation
Indices: 1449273--1449311 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1449263 AATCTCGTTG
*
1449273 CGATTTACGTATTCGCATTA
1 CGATTTACGTAATCGCATTA
1449293 CGATTTACGTAATCGCATT
1 CGATTTACGTAATCGCATT
1449312 GCGAATTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (20 bp):
CGATTTACGTAATCGCATTA
Found at i:1449329 original size:21 final size:21
Alignment explanation
Indices: 1449303--1449357 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
1449293 CGATTTACGT
*
1449303 AATCGCATTGCGAATTAGGAA
1 AATCGCAATGCGAATTAGGAA
* * *
1449324 AATCGCAACGCGAATTTGGGA
1 AATCGCAATGCGAATTAGGAA
1449345 AATCGCAATGCGA
1 AATCGCAATGCGA
1449358 TAGTCATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.20
Consensus pattern (21 bp):
AATCGCAATGCGAATTAGGAA
Found at i:1449456 original size:20 final size:20
Alignment explanation
Indices: 1449408--1449636 Score: 205
Period size: 20 Copynumber: 11.3 Consensus size: 20
1449398 TACCGGAGAT
*
1449408 CGCGTTGCGAATTATC-GAT-
1 CGCGTTGCGATTTA-CGGATA
*
1449427 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1449447 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
1449467 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * *
1449488 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* * **
1449508 CTCGTTGCGACTTACAAATA
1 CGCGTTGCGATTTACGGATA
* *
1449528 CGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
1449548 CTCGTTGCGATTTATGGATA
1 CGCGTTGCGATTTACGGATA
*
1449568 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* *
1449588 TGTCGTTTCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
1449609 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
1449630 CTCGTTG
1 CGCGTTG
1449637 TGATAGTCAG
Statistics
Matches: 167, Mismatches: 34, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
18 1 0.01
19 15 0.09
20 103 0.62
21 48 0.29
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1449574 original size:60 final size:61
Alignment explanation
Indices: 1449406--1449663 Score: 224
Period size: 61 Copynumber: 4.3 Consensus size: 61
1449396 GATACCGGAG
* * **
1449406 ATCG-CGTTGCGAATTATC-GAT-CGCATTGCGATTTACGGATACGCGTTGCGATTTTACGT
1 ATCGTCGTTGCGATTTA-CGGATACGCATTGCGATTTACGGATACGCGTTGCGATCTTACAA
* * * *
1449465 ATTGTCGTTGCGATTTACGGATACGCATTGCGATTTACGTATTCTCGTTGCGA-CTTACAA
1 ATCGTCGTTGCGATTTACGGATACGCATTGCGATTTACGGATACGCGTTGCGATCTTACAA
* * * * * * **
1449525 ATACG-CGTTGCGATTTACGTATTCTCGTTGCGATTTATGGATACGCGTTGCGATTTTACGT
1 AT-CGTCGTTGCGATTTACGGATACGCATTGCGATTTACGGATACGCGTTGCGATCTTACAA
* * * * * **
1449586 ATTGTCGTTTCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGTGATAGT-CAGA
1 ATCGTCGTTGCGATTTACGGATACGCATTGCGA-TTTACGGATACGCGTTGCGATCTTACA-A
1449648 ATCG-CGTTGCGATTTA
1 ATCGTCGTTGCGATTTA
1449664 TATGTTCGCG
Statistics
Matches: 157, Mismatches: 34, Indels: 14
0.77 0.17 0.07
Matches are distributed among these distances:
59 4 0.03
60 61 0.39
61 70 0.45
62 22 0.14
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (61 bp):
ATCGTCGTTGCGATTTACGGATACGCATTGCGATTTACGGATACGCGTTGCGATCTTACAA
Found at i:1449635 original size:41 final size:41
Alignment explanation
Indices: 1449431--1449636 Score: 308
Period size: 41 Copynumber: 5.1 Consensus size: 41
1449421 ATCGATCGCA
*
1449431 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
*
1449472 TTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
* **
1449512 TTGCGACTTACAAATACGCGTTGCGA-TTTACGTATTCTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
* *
1449552 TTGCGATTTATGGATACGCGTTGCGATTTTACGTATTGTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
* * *
1449593 TTTCGATTTACGGATACGCGTTGCGATTTTACGGATACTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
1449634 TTG
1 TTG
1449637 TGATAGTCAG
Statistics
Matches: 147, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 71 0.48
41 76 0.52
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (41 bp):
TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
Found at i:1449672 original size:20 final size:20
Alignment explanation
Indices: 1449649--1449701 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1449639 ATAGTCAGAA
*
1449649 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
1449669 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
1449689 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1449702 CTGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:1450044 original size:7 final size:6
Alignment explanation
Indices: 1450032--1450206 Score: 67
Period size: 7 Copynumber: 28.0 Consensus size: 6
1450022 ATAAATTAAT
* * *
1450032 TATATA GTATATA CTATATA TATAAA CTATATA TTTATA AACTATA GT-TATA
1 TATATA -TATATA -TATATA TATATA -TATATA TATATA TA-TATA -TATATA
* *
1450084 TTTATA TACTATA TACTATA GT-TGATA TTTATA TACTATA TAT-TA TATATA
1 TATATA TA-TATA TA-TATA -TAT-ATA TATATA TA-TATA TATATA TATATA
* * * * *
1450135 TAAACTA TGTACTA TAT-TA GATATT TATATA CTATATA -ATATA -ATTTA
1 TATA-TA TATA-TA TATATA TATATA TATATA -TATATA TATATA TATATA
* *
1450183 TATTTA TATA-A TTTATA GTATATA
1 TATATA TATATA TATATA -TATATA
1450207 AATTCAAAGT
Statistics
Matches: 131, Mismatches: 21, Indels: 32
0.71 0.11 0.17
Matches are distributed among these distances:
5 23 0.18
6 45 0.34
7 62 0.47
8 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (6 bp):
TATATA
Found at i:1450070 original size:15 final size:15
Alignment explanation
Indices: 1450046--1450077 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1450036 TAGTATATAC
1450046 TATATATATAAACTA
1 TATATATATAAACTA
*
1450061 TATATTTATAAACTA
1 TATATATATAAACTA
1450076 TA
1 TA
1450078 GTTATATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
TATATATATAAACTA
Found at i:1450111 original size:27 final size:25
Alignment explanation
Indices: 1450031--1450192 Score: 127
Period size: 27 Copynumber: 6.3 Consensus size: 25
1450021 TATAAATTAA
* *
1450031 TTATATAGTATATACTATATATATAAA
1 TTATATACTATATACTATAT-TAT-AT
* * *
1450058 CTATATATTTATAAACTATAGTTATAT
1 TTATATA-CTATATACTATA-TTATAT
1450085 TTATATACTATATACTATAGTTGATAT
1 TTATATACTATATACTATA-TT-ATAT
1450112 TTATATACTATATA-T-TA-TATA-
1 TTATATACTATATACTATATTATAT
* *
1450133 -TATAAACTATGTACTATATTAGATAT
1 TTATATACTATATACTATATT--ATAT
*
1450159 TTATATACTATATAATATAATTTATAT
1 TTATATACTATATACTAT-A-TTATAT
1450186 TTATATA
1 TTATATA
1450193 ATTTATAGTA
Statistics
Matches: 111, Mismatches: 12, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
20 11 0.10
21 1 0.01
22 5 0.05
23 2 0.02
25 5 0.05
26 14 0.13
27 56 0.50
28 14 0.13
29 3 0.03
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.48
Consensus pattern (25 bp):
TTATATACTATATACTATATTATAT
Found at i:1450130 original size:47 final size:47
Alignment explanation
Indices: 1450093--1450192 Score: 55
Period size: 47 Copynumber: 2.1 Consensus size: 47
1450083 ATTTATATAC
* * * **
1450093 TATATACTATAGT-TGATATTTATATACTATATATTATA-TATATAAAC
1 TATATACTATA-TATTATATTTATATACTATATACTATATTAGAT-ATT
* * * *
1450140 TATGTACTATAT-TAGATATTTATATACTATATAATATAATT-TATATT
1 TATATACTATATAT-TATATTTATATACTATATACTAT-ATTAGATATT
1450187 TATATA
1 TATATA
1450193 ATTTATAGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
46 2 0.04
47 38 0.84
48 4 0.09
49 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (47 bp):
TATATACTATATATTATATTTATATACTATATACTATATTAGATATT
Found at i:1450171 original size:81 final size:78
Alignment explanation
Indices: 1449917--1450177 Score: 212
Period size: 81 Copynumber: 3.3 Consensus size: 78
1449907 ATAAACTATA
* *
1449917 ATTTATATATA-A-ACTATATACTATAGTTGATATTTATATACTATATAATATATATAGTTTACA
1 ATTTATATATATATACTATATACTATAGTTGATATTTATATACTATAT-AT-TATATA-TATAAA
* *
1449980 TTATTACTTATGAACT
63 CTATTACTTATTAACT
* * ** * * *
1449996 A--TATATATAGTGTATTA-ATGAACTATA-TAAATTAATTATATAGTATATACTATATATATAA
1 ATTTATATATA-TATACTATAT--ACTATAGTTGA-TATTTATATACTATATATTATATATATAA
* *
1450057 ACTATATATTTATAAACT
62 ACTAT-TACTTATTAACT
*
1450075 ATAGTTATATTTATATACTATATACTATAGTTGATATTTATATACTATATATTATATATATAAAC
1 AT--TTATATATATATACTATATACTATAGTTGATATTTATATACTATATATTATATATATAAAC
1450140 TATGTACTATATTAGA-T
64 TAT-TACT-TATTA-ACT
*
1450157 ATTTATATACTATATAATATA
1 ATTTATATA-TATATACTATA
1450178 ATTTATATTT
Statistics
Matches: 141, Mismatches: 25, Indels: 30
0.72 0.13 0.15
Matches are distributed among these distances:
77 8 0.06
78 7 0.05
79 20 0.14
80 12 0.09
81 70 0.50
82 14 0.10
83 10 0.07
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (78 bp):
ATTTATATATATATACTATATACTATAGTTGATATTTATATACTATATATTATATATATAAACTA
TTACTTATTAACT
Found at i:1450313 original size:18 final size:20
Alignment explanation
Indices: 1450278--1450317 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
1450268 GTTTATATAG
1450278 TATATACTACATACATAGTT
1 TATATACTACATACATAGTT
*
1450298 TATATA-TAC-TATATAGTT
1 TATATACTACATACATAGTT
1450316 TA
1 TA
1450318 CATGTGAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 3 0.16
20 6 0.32
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (20 bp):
TATATACTACATACATAGTT
Found at i:1450374 original size:13 final size:13
Alignment explanation
Indices: 1450327--1450355 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1450317 ACATGTGAAC
1450327 TATATATAAACTA
1 TATATATAAACTA
1450340 TATATATAAACTA
1 TATATATAAACTA
1450353 TAT
1 TAT
1450356 GGTATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:1450394 original size:33 final size:33
Alignment explanation
Indices: 1450327--1450442 Score: 166
Period size: 33 Copynumber: 3.6 Consensus size: 33
1450317 ACATGTGAAC
* * *
1450327 TATATATAAACTATATA-TATAAAC-T-ATATGG
1 TATATATAAACTATATATTTTATACTTCAT-TAG
*
1450358 TATATATAAACTATATATTTTATAGTTCATTAG
1 TATATATAAACTATATATTTTATACTTCATTAG
1450391 TATATATAAACTATATATTTTATACTTCATTAG
1 TATATATAAACTATATATTTTATACTTCATTAG
1450424 TATATATAAACTATATATT
1 TATATATAAACTATATATT
1450443 AATTTATTAA
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
31 17 0.22
32 4 0.05
33 54 0.70
34 2 0.03
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (33 bp):
TATATATAAACTATATATTTTATACTTCATTAG
Found at i:1450440 original size:26 final size:26
Alignment explanation
Indices: 1450420--1450472 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
1450410 TTATACTTCA
1450420 TTAGTATATATAAAC-TATATATTAAT
1 TTAGTA-ATATAAACATATATATTAAT
*
1450446 TTATTAATATAAACATATATATTAAT
1 TTAGTAATATAAACATATATATTAAT
1450472 T
1 T
1450473 GAAAGAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
TTAGTAATATAAACATATATATTAAT
Found at i:1450569 original size:61 final size:61
Alignment explanation
Indices: 1450500--1450635 Score: 236
Period size: 61 Copynumber: 2.2 Consensus size: 61
1450490 TATAAGGATC
1450500 AAATTGAACAAATTTTAAATATGAAGCTTAAATTAATACATTGCAACATTAAATTTGGACT
1 AAATTGAACAAATTTTAAATATGAAGCTTAAATTAATACATTGCAACATTAAATTTGGACT
* * *
1450561 AAATTGAACAAATTTTAAATATGGAGTTTAAATTAATACATTGCATCATTAAATTTGGACT
1 AAATTGAACAAATTTTAAATATGAAGCTTAAATTAATACATTGCAACATTAAATTTGGACT
*
1450622 AAATTGGACAAATT
1 AAATTGAACAAATT
1450636 AAAAACTAGG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 71 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (61 bp):
AAATTGAACAAATTTTAAATATGAAGCTTAAATTAATACATTGCAACATTAAATTTGGACT
Found at i:1451049 original size:109 final size:109
Alignment explanation
Indices: 1450862--1451059 Score: 296
Period size: 109 Copynumber: 1.8 Consensus size: 109
1450852 AAAACCCTTC
1450862 TTTGATCTTCACAAACACCAAAACCCAAACCATTTCCTTTTTTTATCAAACACCAAAAATTTCAA
1 TTTGATCTTCACAAACACCAAAACCCAAACCATTTCCTTTTTTTATCAAACACCAAAAATTTCAA
* *
1450927 CCCTTGTTCATCCGTGTTCATCCCAGTTCTTCCCTAAACAATTT
66 CACTTGTTAATCCGTGTTCATCCCAGTTCTTCCCTAAACAATTT
*
1450971 TTTGATCTTCACAAACACCAAAACCTAAACC-TATTCCTGTTTTTTATCAAACACCCAAAAA-TT
1 TTTGATCTTCACAAACACCAAAACCCAAACCAT-TTCCT-TTTTTTATCAAACA-CCAAAAATTT
*
1451034 -AA-ACTGTGTTAATCCGTGTTCTTCCC
63 CAACACT-TGTTAATCCGTGTTCATCCC
1451060 CAAACCCTTA
Statistics
Matches: 81, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
108 3 0.04
109 55 0.68
110 16 0.20
111 7 0.09
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.34
Consensus pattern (109 bp):
TTTGATCTTCACAAACACCAAAACCCAAACCATTTCCTTTTTTTATCAAACACCAAAAATTTCAA
CACTTGTTAATCCGTGTTCATCCCAGTTCTTCCCTAAACAATTT
Found at i:1451237 original size:24 final size:24
Alignment explanation
Indices: 1451210--1451277 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
1451200 CATCTTCTTC
*
1451210 AACCCAAACCTGAACCCAAACACA
1 AACCCAAACCCGAACCCAAACACA
* *
1451234 AACCCAAACCCGAATCCAAACCCA
1 AACCCAAACCCGAACCCAAACACA
* *
1451258 AACCCAAACTCAAACCCAAA
1 AACCCAAACCCGAACCCAAA
1451278 TCTAAACTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.50, C:0.43, G:0.03, T:0.04
Consensus pattern (24 bp):
AACCCAAACCCGAACCCAAACACA
Found at i:1451243 original size:6 final size:6
Alignment explanation
Indices: 1451210--1451277 Score: 82
Period size: 6 Copynumber: 11.3 Consensus size: 6
1451200 CATCTTCTTC
** * * *
1451210 AACCCA AACCTG AACCCA AACACA AACCCA AACCCG AATCCA AACCCA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
*
1451258 AACCCA AACTCA AACCCA AA
1 AACCCA AACCCA AACCCA AA
1451278 TCTAAACTAA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.50, C:0.43, G:0.03, T:0.04
Consensus pattern (6 bp):
AACCCA
Found at i:1451284 original size:12 final size:12
Alignment explanation
Indices: 1451222--1451302 Score: 74
Period size: 12 Copynumber: 6.8 Consensus size: 12
1451212 CCCAAACCTG
*
1451222 AACCCAAACACA
1 AACCCAAACTCA
* *
1451234 AACCCAAACCCG
1 AACCCAAACTCA
* *
1451246 AATCCAAACCCA
1 AACCCAAACTCA
1451258 AACCCAAACTCA
1 AACCCAAACTCA
1451270 AACCCAAA-TCTA
1 AACCCAAACTC-A
**
1451282 AACTAAAACTCA
1 AACCCAAACTCA
*
1451294 AACCTAAAC
1 AACCCAAAC
1451303 CCTAATCGAG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
11 2 0.04
12 53 0.93
13 2 0.04
ACGTcount: A:0.52, C:0.38, G:0.01, T:0.09
Consensus pattern (12 bp):
AACCCAAACTCA
Found at i:1451284 original size:18 final size:18
Alignment explanation
Indices: 1451222--1451302 Score: 74
Period size: 18 Copynumber: 4.5 Consensus size: 18
1451212 CCCAAACCTG
* *
1451222 AACCCAAACACAAACCCA
1 AACCTAAACTCAAACCCA
**
1451240 AACCCGAA-TCCAAACCCA
1 AACCTAAACT-CAAACCCA
*
1451258 AACCCAAACTCAAACCCA
1 AACCTAAACTCAAACCCA
* * *
1451276 AATCTAAACTAAAACTCA
1 AACCTAAACTCAAACCCA
1451294 AACCTAAAC
1 AACCTAAAC
1451303 CCTAATCGAG
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
18 52 0.98
19 1 0.02
ACGTcount: A:0.52, C:0.38, G:0.01, T:0.09
Consensus pattern (18 bp):
AACCTAAACTCAAACCCA
Found at i:1451440 original size:52 final size:51
Alignment explanation
Indices: 1451328--1451453 Score: 144
Period size: 52 Copynumber: 2.4 Consensus size: 51
1451318 TCTCTTTCTG
* * *
1451328 TCTCTGTTCATCTTCTCTAATCCCAAAACCCTAACCTAGCCTCGTCATCTTC
1 TCTCTGTTCATCTTCTCTAA-CCCAAAACCCAAACCAAGCCTCGTCATCTAC
* * * * **
1451380 TGTTTGTTCATATTCTCTAACCCCAAACCCAAACCAAGCCTTTTCATCTAC
1 TCTCTGTTCATCTTCTCTAACCCAAAACCCAAACCAAGCCTCGTCATCTAC
*
1451431 ATCTCTGTTCATCTTCTTTAACC
1 -TCTCTGTTCATCTTCTCTAACC
1451454 TTAACCCTTA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
51 25 0.42
52 35 0.58
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.37
Consensus pattern (51 bp):
TCTCTGTTCATCTTCTCTAACCCAAAACCCAAACCAAGCCTCGTCATCTAC
Found at i:1451689 original size:2 final size:2
Alignment explanation
Indices: 1451682--1451722 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1451672 GCTTTATTTA
1451682 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
1451723 ATTTTTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1452217 original size:19 final size:19
Alignment explanation
Indices: 1452193--1452231 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1452183 TCGAATGCAT
1452193 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1452212 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1452231 T
1 T
1452232 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1452248 original size:65 final size:64
Alignment explanation
Indices: 1452130--1452338 Score: 187
Period size: 65 Copynumber: 3.2 Consensus size: 64
1452120 TATTCAAAGG
* *
1452130 CATGCACCGATGCA-TCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAACATCGAATGC
1 CATGCACCGATGCACTC--TCCATGCATCGATGCACTC--TGAATAT-TTTCAAACATCGAATGC
*
1452191 ATTC
61 ATTT
1452195 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTT
* * ** ** * **
1452260 GATGCATCGATATACAAGT-CATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATGCATT
1 CATGCACCGATGCAC-TCTCCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATT
1452323 T
64 T
*
1452324 CATGCATCGATGCAC
1 CATGCACCGATGCAC
1452339 ACTTGGTGCA
Statistics
Matches: 122, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
63 7 0.06
64 50 0.41
65 62 0.51
66 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTT
Found at i:1452329 original size:64 final size:65
Alignment explanation
Indices: 1452179--1452341 Score: 188
Period size: 65 Copynumber: 2.5 Consensus size: 65
1452169 GAATTAATTG
* * * * *
1452179 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATACACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* * * **
1452244 AACATCGAATGCATTTGATGCATCGATATACAAGT-CATGCATCGATGCAC-CAGGCTATTTTTC
1 AACATCGAATGCATTTCATGCATCGATACAC-ACTCCATGCATCGATGCACTCAGAATA-TTTTC
1452307 -A
64 AA
*
1452308 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATACACACT
1452342 TGGTGCACCG
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
63 2 0.02
64 33 0.40
65 46 0.56
66 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATACACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:1452354 original size:64 final size:65
Alignment explanation
Indices: 1452179--1452356 Score: 198
Period size: 64 Copynumber: 2.8 Consensus size: 65
1452169 GAATTAATTG
* * * * *
1452179 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTTCATGCATCGATGCACTCAGAATATTTTCAA
* ** ** **
1452244 AACATCGAATGCATTTGATGCATCGATATACAAGTCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTTCATGCATCGATGCACTCAGAATA-TTTTCA
1452307 A
65 A
** *
1452308 AACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTTCATGCATCGATGCA
1452357 TCAAGTGTTC
Statistics
Matches: 92, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
64 46 0.50
65 46 0.50
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTTCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:1458167 original size:44 final size:44
Alignment explanation
Indices: 1458111--1458212 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
1458101 TTTGTGCTTC
* * * *
1458111 ATGCACCGATGCATTTAACA-ATGCATCGATGCATCCCTTTGAAT
1 ATGCATCGATGCATTCAACAGATGCACCGATGCATACC-TTGAAT
* *
1458155 ATGTATCGATGCA-TCACCATGATGCACCGATGCATACCTTGAAT
1 ATGCATCGATGCATTCAACA-GATGCACCGATGCATACCTTGAAT
1458199 ATGCATCGATGCAT
1 ATGCATCGATGCAT
1458213 AAGACCATGC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
43 4 0.08
44 29 0.60
45 15 0.31
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
ATGCATCGATGCATTCAACAGATGCACCGATGCATACCTTGAAT
Found at i:1459326 original size:31 final size:31
Alignment explanation
Indices: 1459273--1459352 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
1459263 ATTTAACAAA
* * **
1459273 AAGGGGGAGAAAATTTAAGATGTGCTATAGT
1 AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
*
1459304 AATGGGGAGTAAGTTTTTGATGTGCTATAGT
1 AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
1459335 AAGGGGGAGTAAGTTTTT
1 AAGGGGGAGTAAGTTTTT
1459353 CAAAATCGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.31, C:0.03, G:0.34, T:0.33
Consensus pattern (31 bp):
AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
Found at i:1459768 original size:19 final size:19
Alignment explanation
Indices: 1459744--1459782 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1459734 TCGAATGCAT
1459744 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1459763 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1459782 T
1 T
1459783 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1459799 original size:65 final size:64
Alignment explanation
Indices: 1459681--1459889 Score: 205
Period size: 65 Copynumber: 3.2 Consensus size: 64
1459671 TATTCAAAGG
* *
1459681 CATGCACCGATGCA-TCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAACATCGAATGC
1 CATGCACCGATGCACTC--TCCATGCATCGATGCACTC--TGAATAT-TTTCAAACATCGAATGC
*
1459742 ATTC
61 ATTT
1459746 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTT
* * ** * **
1459811 GATGCATCGATGCACAAGT-CATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATGCATT
1 CATGCACCGATGCAC-TCTCCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATT
1459874 T
64 T
*
1459875 CATGCATCGATGCAC
1 CATGCACCGATGCAC
1459890 ACTTGGTGCA
Statistics
Matches: 126, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
63 7 0.06
64 52 0.41
65 64 0.51
66 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTT
Found at i:1459883 original size:64 final size:66
Alignment explanation
Indices: 1459730--1459890 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 66
1459720 GAATTAATTG
* * * *
1459730 AACATCGAATGCATTCCATGCACCGATGCAC-TCTCCATGCATCGATGCACTCTGAATATTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAACTCCATGCATCGATGCACTCAGAATATTTTCA
1459794 A
66 A
* * **
1459795 AACATCGAATGCATTTGATGCATCGATGCACAAGT-CATGCATCGATGCAC-CAGGCTATTTTTC
1 AACATCGAATGCATTTCATGCATCGATGCACAACTCCATGCATCGATGCACTCAGAATA-TTTTC
1459858 -A
65 AA
1459859 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
1459891 CTTGGTGCAC
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 36 0.42
65 48 0.56
66 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (66 bp):
AACATCGAATGCATTTCATGCATCGATGCACAACTCCATGCATCGATGCACTCAGAATATTTTCA
A
Found at i:1459905 original size:64 final size:65
Alignment explanation
Indices: 1459730--1459907 Score: 216
Period size: 64 Copynumber: 2.8 Consensus size: 65
1459720 GAATTAATTG
* * * * *
1459730 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTTCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
1459795 AACATCGAATGCATTTGATGCATCGATGCACAAGTCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTTCATGCATCGATGCACTCAGAATA-TTTTCA
1459858 A
65 A
** *
1459859 AACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTTCATGCATCGATGCA
1459908 TCAAGTGTTC
Statistics
Matches: 96, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
64 48 0.50
65 48 0.50
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTTCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:1466237 original size:96 final size:96
Alignment explanation
Indices: 1466065--1466246 Score: 269
Period size: 96 Copynumber: 1.9 Consensus size: 96
1466055 TGATTTAGTG
* * *
1466065 GTTTATGAACTATGGTTACCTGAAATATGTTCTCTGGTTACCTGTTTTCACTATAAAATATGATC
1 GTTTATGAACTATGGTTACCTCAAATATGTTATATGGTTACCTGTTTTCACTATAAAATATGATC
1466130 ATTCCATATTTATGAATCATGGAATCTAATA
66 ATTCCATATTTATGAATCATGGAATCTAATA
* *
1466161 GTTTATGAACTATGGTTACCTCAAATGTGTTATATGGTTACCTGTTTTCATTGA-AAAATATGAT
1 GTTTATGAACTATGGTTACCTCAAATATGTTATATGGTTACCTGTTTTCACT-ATAAAATATGAT
* *
1466225 CGTTCC-TGATTTATGGATCATG
65 CATTCCAT-ATTTATGAATCATG
1466247 AAATTTACTA
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
95 1 0.01
96 75 0.97
97 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (96 bp):
GTTTATGAACTATGGTTACCTCAAATATGTTATATGGTTACCTGTTTTCACTATAAAATATGATC
ATTCCATATTTATGAATCATGGAATCTAATA
Found at i:1470156 original size:26 final size:26
Alignment explanation
Indices: 1470127--1470178 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
1470117 CATTTAGTAC
*
1470127 ATATAGTGGGCATAACCTTATGTGTA
1 ATATAGTGGGCACAACCTTATGTGTA
* *
1470153 ATATGGTGGGCACGACCTTATGTGTA
1 ATATAGTGGGCACAACCTTATGTGTA
1470179 TTAGCACTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (26 bp):
ATATAGTGGGCACAACCTTATGTGTA
Found at i:1472074 original size:20 final size:21
Alignment explanation
Indices: 1472049--1472100 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
1472039 GATTAAAGTA
* *
1472049 GTATCGATACTGATGTG-GAG
1 GTATCGATACTGAAGTGTAAG
*
1472069 GTATCGATAC-CAAGTGTAAG
1 GTATCGATACTGAAGTGTAAG
1472089 GTATCGATACTG
1 GTATCGATACTG
1472101 TAATGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (21 bp):
GTATCGATACTGAAGTGTAAG
Found at i:1472965 original size:24 final size:23
Alignment explanation
Indices: 1472938--1473076 Score: 124
Period size: 24 Copynumber: 5.8 Consensus size: 23
1472928 GCAGTCCTTT
1472938 GGGACGAATTCTACGTGGTCA-TTC
1 GGGAC-AATTCTACGTGG-CACTTC
*
1472962 GGGACAAATTCTACGAGGTC-CTTC
1 GGGAC-AATTCTACGTGG-CACTTC
* *
1472986 GGGACAAATCTATGTGGCACTTC
1 GGGACAATTCTACGTGGCACTTC
**
1473009 GGTTCATATTCTACGTGGCACTTC
1 GGGACA-ATTCTACGTGGCACTTC
1473033 GGTG-CATATTCTACGTGGCACTTC
1 GG-GACA-ATTCTACGTGGCACTTC
1473057 GGTG-CAAATTCTACGTGGCA
1 GG-GAC-AATTCTACGTGGCA
1473077 GTGGTGATTG
Statistics
Matches: 100, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.01
23 17 0.17
24 81 0.81
25 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (23 bp):
GGGACAATTCTACGTGGCACTTC
Found at i:1473068 original size:48 final size:47
Alignment explanation
Indices: 1472938--1473076 Score: 151
Period size: 48 Copynumber: 2.9 Consensus size: 47
1472928 GCAGTCCTTT
*
1472938 GGGACGAATTCTACGTGGTCA-TTCGG-GACAAATTCTACGAGGTC-CTTC
1 GGGAC-AATTCTACGTGG-CACTTCGGTG-CAAATTCTACGTGG-CACTTC
* * * *
1472986 GGGACAAATCTATGTGGCACTTCGGTTCATATTCTACGTGGCACTTC
1 GGGACAATTCTACGTGGCACTTCGGTGCAAATTCTACGTGGCACTTC
1473033 GGTG-CATATTCTACGTGGCACTTCGGTGCAAATTCTACGTGGCA
1 GG-GACA-ATTCTACGTGGCACTTCGGTGCAAATTCTACGTGGCA
1473077 GTGGTGATTG
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
46 3 0.04
47 35 0.45
48 39 0.51
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (47 bp):
GGGACAATTCTACGTGGCACTTCGGTGCAAATTCTACGTGGCACTTC
Found at i:1473823 original size:38 final size:37
Alignment explanation
Indices: 1473733--1473915 Score: 174
Period size: 38 Copynumber: 4.8 Consensus size: 37
1473723 TACAATATCG
* *
1473733 TATTTCAATCGAATATAAATTCGT-AATAATATATTCA
1 TATTT-AATTGAATATAAATTCATAAATAATATATTCA
**
1473770 TATATTAATTGAATATAAATTCATAAATAATATATTTT
1 TAT-TTAATTGAATATAAATTCATAAATAATATATTCA
* * * *
1473808 TATTTAAATTAAATATAAATTTATATATAATATACTCA
1 TATTT-AATTGAATATAAATTCATAAATAATATATTCA
* *
1473846 TATTTCAATTTAATATAAATT-AGTAAATAATATATTTGA
1 TATTT-AATTGAATATAAATTCA-TAAATAATATA-TTCA
* *
1473885 -ATTTTAATTGAATATAAATCCTTAAATAATA
1 TA-TTTAATTGAATATAAATTCATAAATAATA
1473916 GAAAATTATC
Statistics
Matches: 121, Mismatches: 18, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
37 22 0.18
38 94 0.78
39 5 0.04
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (37 bp):
TATTTAATTGAATATAAATTCATAAATAATATATTCA
Found at i:1473861 original size:76 final size:75
Alignment explanation
Indices: 1473744--1473903 Score: 207
Period size: 76 Copynumber: 2.1 Consensus size: 75
1473734 ATTTCAATCG
* * *
1473744 AATATAAATTCGTAATAATATATTCATATATTAATTGAATATAAATTCA-TAAATAATATATTTT
1 AATATAAATTCATAATAATATACTCATATATTAATTGAATATAAATT-AGTAAATAATATATTTG
*
1473808 TATTTAAATTA
65 AATTTAAATTA
* *
1473819 AATATAAATTTATATATAATATACTCATAT-TTCAATTTAATATAAATTAGTAAATAATATATTT
1 AATATAAATTCATA-ATAATATACTCATATATT-AATTGAATATAAATTAGTAAATAATATATTT
* *
1473883 GAATTTTAATTG
64 GAATTTAAATTA
1473895 AATATAAAT
1 AATATAAAT
1473904 CCTTAAATAA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
75 15 0.20
76 59 0.80
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (75 bp):
AATATAAATTCATAATAATATACTCATATATTAATTGAATATAAATTAGTAAATAATATATTTGA
ATTTAAATTA
Found at i:1473914 original size:76 final size:75
Alignment explanation
Indices: 1473734--1473915 Score: 201
Period size: 76 Copynumber: 2.4 Consensus size: 75
1473724 ACAATATCGT
* * * *
1473734 ATTTCAATCGAATATAAATTCGT-AATAATATATTCATATATTAATTGAATATAAATTCATAAAT
1 ATTTAAATTGAATATAAA-TCTTAAATAATATACTCATATATTAATTGAATATAAATTCATAAAT
**
1473798 AATATATTTTT
65 AATATATTTGA
* *
1473809 ATTTAAATTAAATATAAAT-TTATATATAATATACTCATAT-TTCAATTTAATATAAATT-AGTA
1 ATTTAAATTGAATATAAATCTTA-A-ATAATATACTCATATATT-AATTGAATATAAATTCA-TA
1473871 AATAATATATTTGA
62 AATAATATATTTGA
*
1473885 ATTTTAATTGAATATAAATCCTTAAATAATA
1 ATTTAAATTGAATATAAAT-CTTAAATAATA
1473916 GAAAATTATC
Statistics
Matches: 90, Mismatches: 10, Indels: 13
0.80 0.09 0.12
Matches are distributed among these distances:
73 1 0.01
74 1 0.01
75 19 0.21
76 65 0.72
77 1 0.01
78 3 0.03
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (75 bp):
ATTTAAATTGAATATAAATCTTAAATAATATACTCATATATTAATTGAATATAAATTCATAAATA
ATATATTTGA
Found at i:1479898 original size:12 final size:12
Alignment explanation
Indices: 1479862--1479918 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
1479852 ATTTGGAATA
1479862 TGTTCTGATTTC
1 TGTTCTGATTTC
* *
1479874 TTATTC-GAATTC
1 -TGTTCTGATTTC
1479886 TGTTCTGATTTC
1 TGTTCTGATTTC
*
1479898 TGATCTGGATTT-
1 TGTTCT-GATTTC
1479910 TGTTCTGAT
1 TGTTCTGAT
1479919 ATAAATTCTG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
11 7 0.19
12 20 0.56
13 9 0.25
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.54
Consensus pattern (12 bp):
TGTTCTGATTTC
Found at i:1479913 original size:24 final size:24
Alignment explanation
Indices: 1479862--1479918 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
1479852 ATTTGGAATA
*
1479862 TGTTCTGATTTCTTATTCGAATTC
1 TGTTCTGATTTCTGATTCGAATTC
* *
1479886 TGTTCTGATTTCTGA-TCTGGATTT
1 TGTTCTGATTTCTGATTC-GAATTC
1479910 TGTTCTGAT
1 TGTTCTGAT
1479919 ATAAATTCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.54
Consensus pattern (24 bp):
TGTTCTGATTTCTGATTCGAATTC
Found at i:1482188 original size:13 final size:13
Alignment explanation
Indices: 1482172--1482201 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1482162 CCGTTAACCC
*
1482172 GACCCGATCCGTT
1 GACCCGACCCGTT
1482185 GACCCGACCCGTT
1 GACCCGACCCGTT
1482198 GACC
1 GACC
1482202 GGCGTTGACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1482192 original size:18 final size:18
Alignment explanation
Indices: 1482149--1482195 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
1482139 GACCGGTCAC
*
1482149 AACCCGAACCGACCCGTT
1 AACCCGACCCGACCCGTT
*
1482167 AACCCGACCCGATCCGTT
1 AACCCGACCCGACCCGTT
*
1482185 GACCCGACCCG
1 AACCCGACCCG
1482196 TTGACCGGCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.23, C:0.47, G:0.19, T:0.11
Consensus pattern (18 bp):
AACCCGACCCGACCCGTT
Found at i:1484529 original size:12 final size:11
Alignment explanation
Indices: 1484508--1484544 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 11
1484498 TCTGATTCGA
1484508 ATTTTGTTCTG
1 ATTTTGTTCTG
1484519 ATTTCTGTTCTGG
1 ATTT-TGTTCT-G
1484532 ATTTTGTTCTG
1 ATTTTGTTCTG
1484543 AT
1 AT
1484545 ATATGATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.29
12 12 0.50
13 5 0.21
ACGTcount: A:0.11, C:0.11, G:0.19, T:0.59
Consensus pattern (11 bp):
ATTTTGTTCTG
Found at i:1484542 original size:24 final size:24
Alignment explanation
Indices: 1484488--1484544 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
1484478 ATTTGGAATA
*
1484488 TGTTCTAATTTCTGATTCGAATTT
1 TGTTCTGATTTCTGATTCGAATTT
*
1484512 TGTTCTGATTTCTG-TTCTGGATTT
1 TGTTCTGATTTCTGATTC-GAATTT
1484536 TGTTCTGAT
1 TGTTCTGAT
1484545 ATATGATATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 3 0.10
24 27 0.90
ACGTcount: A:0.14, C:0.12, G:0.18, T:0.56
Consensus pattern (24 bp):
TGTTCTGATTTCTGATTCGAATTT
Found at i:1487432 original size:21 final size:21
Alignment explanation
Indices: 1487385--1487445 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
1487375 ATCGATGTTG
*
1487385 GAGAGTATGGATACTT-AACTA
1 GAGAGTATGGATA-TTCAAATA
* *
1487406 GGGAGTATGGATATTCAAATC
1 GAGAGTATGGATATTCAAATA
* *
1487427 GAGAGTATGTATACTCAAA
1 GAGAGTATGGATATTCAAA
1487446 CAAGAAGTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (21 bp):
GAGAGTATGGATATTCAAATA
Found at i:1490636 original size:31 final size:31
Alignment explanation
Indices: 1490596--1490669 Score: 139
Period size: 31 Copynumber: 2.4 Consensus size: 31
1490586 GTTACAAAAT
1490596 GGTCCCTCGACTGTAGGGAGTTGCTTTGTTA
1 GGTCCCTCGACTGTAGGGAGTTGCTTTGTTA
*
1490627 GGTCTCTCGACTGTAGGGAGTTGCTTTGTTA
1 GGTCCCTCGACTGTAGGGAGTTGCTTTGTTA
1490658 GGTCCCTCGACT
1 GGTCCCTCGACT
1490670 ATTACAAGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.12, C:0.22, G:0.31, T:0.35
Consensus pattern (31 bp):
GGTCCCTCGACTGTAGGGAGTTGCTTTGTTA
Found at i:1493514 original size:13 final size:13
Alignment explanation
Indices: 1493496--1493522 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1493486 ATCAACTAGA
1493496 TATTTAATATTAT
1 TATTTAATATTAT
1493509 TATTTAATATTAT
1 TATTTAATATTAT
1493522 T
1 T
1493523 TCTGAATTAA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTAATATTAT
Found at i:1494906 original size:5 final size:5
Alignment explanation
Indices: 1494896--1494924 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
1494886 TATTTGTTTC
1494896 ATTTT ATTTT ATTTT ATTTT A-TTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
1494925 CATTATTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:1494920 original size:14 final size:14
Alignment explanation
Indices: 1494884--1494924 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1494874 TTTTCATATC
* *
1494884 TTTATTTGTTTCAT
1 TTTATTTATTTTAT
1494898 TTTATTTTATTTTAT
1 TTTA-TTTATTTTAT
1494913 TTTATTTATTTT
1 TTTATTTATTTT
1494925 CATTATTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTATTTATTTTAT
Found at i:1495950 original size:17 final size:17
Alignment explanation
Indices: 1495928--1495962 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1495918 ACCCATTAAT
*
1495928 ATTTTAAAACCCAATTA
1 ATTTTAAAACCAAATTA
*
1495945 ATTTTAAATCCAAATTA
1 ATTTTAAAACCAAATTA
1495962 A
1 A
1495963 AAAAATACCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTTTAAAACCAAATTA
Found at i:1496081 original size:24 final size:24
Alignment explanation
Indices: 1496047--1496098 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
1496037 CCTGATTAAT
* *
1496047 TTTATGTTTGTTCATTTATGTTTG
1 TTTATGCTTGTTCATTTATGTTCG
* *
1496071 TTTATGCTTGTTCGTTTTTGTTCG
1 TTTATGCTTGTTCATTTATGTTCG
1496095 TTTA
1 TTTA
1496099 CATTCTTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.10, C:0.08, G:0.17, T:0.65
Consensus pattern (24 bp):
TTTATGCTTGTTCATTTATGTTCG
Found at i:1525044 original size:4 final size:4
Alignment explanation
Indices: 1525037--1525069 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
1525027 TATATATATA
1525037 TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG T
1525070 TGATTTTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Done.