Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_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: 3884024
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 18
Found at i:3647164 original size:31 final size:31
Alignment explanation
Indices: 3647043--3647170 Score: 134
Period size: 31 Copynumber: 4.1 Consensus size: 31
3647033 AGAGTCGAGG
*
3647043 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTATGGAACATATGGACA
* * *
3647074 GAATTACCTATG-TCTTTCGGTACATATGGACA
1 G-TTTACCTATGTTCTAT-GGAACATATGGACA
*
3647106 -TTATACCTATGTTCTAAGGAACATATGGACA
1 GTT-TACCTATGTTCTATGGAACATATGGACA
* * * *
3647137 GTTTACCTAGGTTCTTTGGGACCTATGGACA
1 GTTTACCTATGTTCTATGGAACATATGGACA
3647168 GTT
1 GTT
3647171 GCTGAGGTTC
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
30 1 0.01
31 51 0.65
32 27 0.34
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTATGGAACATATGGACA
Found at i:3648065 original size:19 final size:19
Alignment explanation
Indices: 3648027--3648077 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
3648017 CACTGTTCAC
*
3648027 AGTATTGTTCATATAGTAT
1 AGTATTGTTCATACAGTAT
3648046 AGTATTGTTCATACCA-TAT
1 AGTATTGTTCATA-CAGTAT
* *
3648065 ATTACTGTTCATA
1 AGTATTGTTCATA
3648078 AAAACGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 27 0.96
20 1 0.04
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (19 bp):
AGTATTGTTCATACAGTAT
Found at i:3648631 original size:19 final size:19
Alignment explanation
Indices: 3648607--3648643 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
3648597 ATGTCGACCG
3648607 CCACCACCG-TCGATGCCCA
1 CCACCACCGCT-GATGCCCA
3648626 CCACCACCGCTGATGCCC
1 CCACCACCGCTGATGCCC
3648644 GTCGCTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.19, C:0.54, G:0.16, T:0.11
Consensus pattern (19 bp):
CCACCACCGCTGATGCCCA
Found at i:3648874 original size:21 final size:21
Alignment explanation
Indices: 3648850--3648890 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3648840 GCTTATATCG
3648850 GGGTTGCCTATGTGCTTTTTT
1 GGGTTGCCTATGTGCTTTTTT
***
3648871 GGGTTTTTTATGTGCTTTTT
1 GGGTTGCCTATGTGCTTTTT
3648891 GGTTTGTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.10, G:0.27, T:0.59
Consensus pattern (21 bp):
GGGTTGCCTATGTGCTTTTTT
Found at i:3649389 original size:21 final size:20
Alignment explanation
Indices: 3649363--3649405 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
3649353 TTTAGACTTG
3649363 AAACAAAAAAAAATAAGTAAT
1 AAACAAAAAAAAATAA-TAAT
* *
3649384 AAACAAATAATAATAATAAT
1 AAACAAAAAAAAATAATAAT
3649404 AA
1 AA
3649406 TAAAGTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (20 bp):
AAACAAAAAAAAATAATAAT
Found at i:3649537 original size:33 final size:31
Alignment explanation
Indices: 3649474--3649607 Score: 155
Period size: 33 Copynumber: 4.2 Consensus size: 31
3649464 TATATATTAC
3649474 ATATAAATTTTC-AAAAATGTTTTTTTAAAAAAACT
1 ATAT-AATTTTCAAAAAATG--TTTTT--AAAAACT
3649509 ATATAATTTTCAAAAAATGTTTTTAAAAACT
1 ATATAATTTTCAAAAAATGTTTTTAAAAACT
*
3649540 ATATAGTTTTCAAAAAAAATGTTTTTAAAAACT
1 ATATAATTTTC--AAAAAATGTTTTTAAAAACT
* * *
3649573 ATATAATTTT-TAAAAATGTTTTCAAAAATT
1 ATATAATTTTCAAAAAATGTTTTTAAAAACT
3649603 ATATA
1 ATATA
3649608 TTATATAAGT
Statistics
Matches: 91, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
30 22 0.24
31 17 0.19
33 34 0.37
34 7 0.08
35 11 0.12
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.43
Consensus pattern (31 bp):
ATATAATTTTCAAAAAATGTTTTTAAAAACT
Found at i:3649665 original size:39 final size:36
Alignment explanation
Indices: 3649572--3649838 Score: 315
Period size: 37 Copynumber: 7.2 Consensus size: 36
3649562 TTTTAAAAAC
* *
3649572 TATATAATTTTTAAAAATGTTTTCAAAAATTATATAT
1 TATATAAGTTTTAAAAATGTTTT-AAAAACTATATAT
3649609 TATATAAGTTTTCAAAAATGTTTTCAAAAACTATATAT
1 TATATAAGTTTT-AAAAATGTTTT-AAAAACTATATAT
3649647 TATATAAGTTTTTAAAAAATGTTTTAAAAAACTATATAT
1 TATATAAG-TTTT-AAAAATGTTTT-AAAAACTATATAT
* *
3649686 TATATATGTTTTCAAAATGATTTTAAAAACTATATAT
1 TATATAAGTTTTAAAAATG-TTTTAAAAACTATATAT
* * *
3649723 TATATATA-TTTTCTAAATTTTTTTAAAAACTATATAT
1 TATATA-AGTTTT-AAAAATGTTTTAAAAACTATATAT
*
3649760 TATAT-AGTTTTCAAAAGTGTTTTAAAAACTATATAT
1 TATATAAGTTTT-AAAAATGTTTTAAAAACTATATAT
* *
3649796 TATATACA-TTTTCAAAATGTCTTTAGAAACTATATAT
1 TATATA-AGTTTTAAAAATGT-TTTAAAAACTATATAT
3649833 TATATA
1 TATATA
3649839 TATATATATT
Statistics
Matches: 205, Mismatches: 16, Indels: 18
0.86 0.07 0.08
Matches are distributed among these distances:
35 1 0.00
36 37 0.18
37 87 0.42
38 45 0.22
39 35 0.17
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (36 bp):
TATATAAGTTTTAAAAATGTTTTAAAAACTATATAT
Found at i:3649801 original size:43 final size:42
Alignment explanation
Indices: 3649600--3649891 Score: 165
Period size: 37 Copynumber: 7.4 Consensus size: 42
3649590 GTTTTCAAAA
3649600 ATTATATAT-TATATAAGTTTTCAAAAATGTTTTCAAAAACTATAT
1 ATTATATATATATAT-A-TTTTC-AAAATGTTTT-AAAAACTATAT
* ** *
3649645 ATTATATA-A-GT-T-TTTAAAAAATGTTTTAAAAA--A-CT
1 ATTATATATATATATATTTTCAAAATGTTTTAAAAACTATAT
*
3649680 A-TATAT-TATATATGTTTTCAAAATGATTTTAAAAACTATAT
1 ATTATATATATATATATTTTCAAAATG-TTTTAAAAACTATAT
* * *
3649721 A-T-TATATATAT-T-TTCT-AAATTTTTTTAAAAAC----T
1 ATTATATATATATATATTTTCAAAATGTTTTAAAAACTATAT
*
3649754 A-TATAT-TATATA-GTTTTCAAAAGTGTTTTAAAAAC----T
1 ATTATATATATATATATTTTCAAAA-TGTTTTAAAAACTATAT
* *
3649790 A-TATAT-TATATACATTTTCAAAATGTCTTTAGAAACTATAT
1 ATTATATATATATATATTTTCAAAATGT-TTTAAAAACTATAT
**
3649831 ATTATATATATATATATTTTCAAAAACTG-TTTGCAAACTATAAT
1 ATTATATATATATATATTTTC-AAAA-TGTTTTAAAAACTAT-AT
3649875 ATATATATATATATATA
1 AT-TATATATATATATA
3649892 GATATATGTG
Statistics
Matches: 201, Mismatches: 19, Indels: 54
0.73 0.07 0.20
Matches are distributed among these distances:
33 8 0.04
34 12 0.06
35 6 0.03
36 29 0.14
37 36 0.18
38 18 0.09
39 13 0.06
40 8 0.04
41 10 0.05
42 5 0.02
43 23 0.11
44 9 0.04
45 24 0.12
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (42 bp):
ATTATATATATATATATTTTCAAAATGTTTTAAAAACTATAT
Found at i:3649878 original size:41 final size:43
Alignment explanation
Indices: 3649789--3649891 Score: 127
Period size: 43 Copynumber: 2.3 Consensus size: 43
3649779 TTTTAAAAAC
* **
3649789 TATATATTATATACATTTTCAAAATGTCTTTAGAAACTATATAT
1 TATATA-TATATATATTTTCAAAAACTCTTTAGAAACTATATAT
*
3649833 TATATATATATATATTTTCAAAAACTGTTT-GCAAACTATAATAT
1 TATATATATATATATTTTCAAAAACTCTTTAG-AAACTAT-ATAT
3649877 ATATATATATATATA
1 -TATATATATATATA
3649892 GATATATGTG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
42 1 0.02
43 27 0.52
44 10 0.19
45 14 0.27
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.45
Consensus pattern (43 bp):
TATATATATATATATTTTCAAAAACTCTTTAGAAACTATATAT
Found at i:3657107 original size:2 final size:2
Alignment explanation
Indices: 3657100--3657127 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3657090 TAATAAAATT
3657100 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
3657128 AAAGATTAAA
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):
TA
Found at i:3662297 original size:22 final size:23
Alignment explanation
Indices: 3662251--3662302 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
3662241 TTATAGAGCA
*
3662251 TGTATATTATAAAACCTTTATTT
1 TGTATATTATAAAACCTCTATTT
* *
3662274 TGTATATTTTGAAACC-CTATTT
1 TGTATATTATAAAACCTCTATTT
3662296 TGTATAT
1 TGTATAT
3662303 ACGAGTCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.52
Consensus pattern (23 bp):
TGTATATTATAAAACCTCTATTT
Found at i:3679341 original size:13 final size:13
Alignment explanation
Indices: 3679323--3679347 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3679313 TCTATTGTGC
3679323 AAAGGATTGATCA
1 AAAGGATTGATCA
3679336 AAAGGATTGATC
1 AAAGGATTGATC
3679348 CCTTTCAAGA
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:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (13 bp):
AAAGGATTGATCA
Found at i:3680876 original size:23 final size:22
Alignment explanation
Indices: 3680857--3680901 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3680847 GGCTTGTACT
*
3680857 TTCTGAAACCTTTATTTTGTATA
1 TTCTGAAACC-CTATTTTGTATA
*
3680880 TTTTGAAACCCTATTTTGTATA
1 TTCTGAAACCCTATTTTGTATA
3680902 AGTGAGTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.51
Consensus pattern (22 bp):
TTCTGAAACCCTATTTTGTATA
Found at i:3689053 original size:23 final size:23
Alignment explanation
Indices: 3689027--3689077 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
3689017 TTATAGGGCA
*
3689027 TGTATATTCTAAAACCTTTATTT
1 TGTATATTCTAAAACCTTGATTT
* *
3689050 TGTATATTTTGAAACCTTGATTT
1 TGTATATTCTAAAACCTTGATTT
3689073 T-TATA
1 TGTATA
3689078 AGCAAGTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.53
Consensus pattern (23 bp):
TGTATATTCTAAAACCTTGATTT
Found at i:3692476 original size:21 final size:20
Alignment explanation
Indices: 3692423--3692479 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
3692413 ACCGTTTATT
*
3692423 TTTTTATAATAAAAATATAA
1 TTTTTATAAAAAAAATATAA
* * *
3692443 TTTCTAATTAAAAAAATCTAA
1 TTT-TTATAAAAAAAATATAA
3692464 TTATTTATAAAAAAAA
1 TT-TTTATAAAAAAAA
3692480 CTCAACTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 3 0.10
21 25 0.86
22 1 0.03
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTTTATAAAAAAAATATAA
Found at i:3697846 original size:42 final size:40
Alignment explanation
Indices: 3697745--3697848 Score: 100
Period size: 42 Copynumber: 2.5 Consensus size: 40
3697735 AAAATAAATC
*
3697745 TAATTAATAATTTTAATTTATCAATAAATAATAAAAAATAA
1 TAATTAATAA-TTTATTTTATCAATAAATAATAAAAAATAA
* * * * * *
3697786 TAAGTTAGCTAATCTATTTTCTTAATAAATAATAAAATATTAT
1 TAA-TTA-ATAATTTATTTTATCAATAAATAATAAAA-AATAA
3697829 TAATTAATAATATTATTTTA
1 TAATTAATAAT-TTATTTTA
3697849 ATACAAAAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
41 7 0.14
42 33 0.67
43 9 0.18
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (40 bp):
TAATTAATAATTTATTTTATCAATAAATAATAAAAAATAA
Found at i:3700258 original size:117 final size:112
Alignment explanation
Indices: 3700105--3700432 Score: 354
Period size: 117 Copynumber: 2.8 Consensus size: 112
3700095 AGAGAGAGAG
* ** ** * *
3700105 AAAAACATGATTAAATTTAATTTAAAATTAAATGAATAAATAAGAGAAATGGAAAAGGAGAGTCA
1 AAAAA-ATGGTTAAATTTAATCCAAAATTGGATGAATTAACAAGAGAAATGGAAAA--AGAGTCA
*
3700170 AAAACTAAACATTTCATGAAATTATAAAAATTAGGGAGCCTAATTATAAATAT
63 AAAACTAAA-ATTT-ATGAAATTATAAAAATTAGGG-CCCTAATTATAAATAT
* *
3700223 AAAAAATGGTTAAATTTAATCCAAAATTGGATGAATTAACAACAGAAATAGGAAAAAAAGGGTCA
1 AAAAAATGGTTAAATTTAATCCAAAATTGGATGAATTAACAAGAGAAAT-GG--AAAAAGAGTCA
*
3700288 AAAAATAAAAAATTTATGAAATTATAAAAATTAGGGCCCTAATTATAAATAT
63 AAAACT--AAAATTTATGAAATTATAAAAATTAGGGCCCTAATTATAAATAT
* * * * * ** *
3700340 ATAAAATGGTTAAATTCAGTCCGAAATTGGATGAATTAACCAGAGAAATGGGGAAA-ACTC-AAA
1 AAAAAATGGTTAAATTTAATCCAAAATTGGATGAATTAACAAGAGAAATGGAAAAAGAGTCAAAA
*
3700403 ACTAAAATTTTATAAAATTATAAAAATTAG
66 ACTAAAA-TTTATGAAATTATAAAAATTAG
3700433 TATCATGATT
Statistics
Matches: 181, Mismatches: 23, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
110 4 0.02
111 21 0.12
112 5 0.03
113 2 0.01
114 3 0.02
116 2 0.01
117 94 0.52
118 39 0.22
119 4 0.02
120 7 0.04
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (112 bp):
AAAAAATGGTTAAATTTAATCCAAAATTGGATGAATTAACAAGAGAAATGGAAAAAGAGTCAAAA
ACTAAAATTTATGAAATTATAAAAATTAGGGCCCTAATTATAAATAT
Found at i:3700313 original size:118 final size:116
Alignment explanation
Indices: 3700105--3700390 Score: 358
Period size: 117 Copynumber: 2.4 Consensus size: 116
3700095 AGAGAGAGAG
* ** ** * * **
3700105 AAAAACATGATTAAATTTAATTTAAAATTAAATGAATAAATAAGAGAAATGGAAAAGGAGAGTCA
1 AAAAA-ATGGTTAAATTTAATCCAAAATTGGATGAATTAACAAGAGAAATGGAAAAAAAGAGTCA
* * *
3700170 AAAACTAAACATTTCATGAAATTATAAAAATTAGGGAGCCTAATTATAAATAT
65 AAAAATAAAAATTTCATGAAATTATAAAAATTAGGG-CCCTAATTATAAATAT
* *
3700223 AAAAAATGGTTAAATTTAATCCAAAATTGGATGAATTAACAACAGAAATAGGAAAAAAAGGGTCA
1 AAAAAATGGTTAAATTTAATCCAAAATTGGATGAATTAACAAGAGAAAT-GGAAAAAAAGAGTCA
3700288 AAAAATAAAAAATTT-ATGAAATTATAAAAATTAGGGCCCTAATTATAAATAT
65 AAAAAT-AAAAATTTCATGAAATTATAAAAATTAGGGCCCTAATTATAAATAT
* * * * *
3700340 ATAAAATGGTTAAATTCAGTCCGAAATTGGATGAATTAACCAGAGAAATGG
1 AAAAAATGGTTAAATTTAATCCAAAATTGGATGAATTAACAAGAGAAATGG
3700391 GGAAAACTCA
Statistics
Matches: 146, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
116 2 0.01
117 94 0.64
118 43 0.29
119 7 0.05
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.26
Consensus pattern (116 bp):
AAAAAATGGTTAAATTTAATCCAAAATTGGATGAATTAACAAGAGAAATGGAAAAAAAGAGTCAA
AAAATAAAAATTTCATGAAATTATAAAAATTAGGGCCCTAATTATAAATAT
Found at i:3701758 original size:42 final size:42
Alignment explanation
Indices: 3701699--3701778 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
3701689 CACCTTAGCT
3701699 TAATCAAAAAAATCTTCAACCAATTATTTACTAAAAATAATA
1 TAATCAAAAAAATCTTCAACCAATTATTTACTAAAAATAATA
* *
3701741 TAATCAAAAAATTCTTCAGCCAATTATTTACTAAAAAT
1 TAATCAAAAAAATCTTCAACCAATTATTTACTAAAAAT
3701779 GACATCCTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (42 bp):
TAATCAAAAAAATCTTCAACCAATTATTTACTAAAAATAATA
Found at i:3711461 original size:23 final size:22
Alignment explanation
Indices: 3711421--3711473 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
3711411 AAAAGGATTT
3711421 GAAAAAAATAGTTTAAAAAAAA
1 GAAAAAAATAGTTTAAAAAAAA
3711443 GAAAAAAATAGTTTAAAAAAAA
1 GAAAAAAATAGTTTAAAAAAAA
3711465 GAAATAAAA
1 GAAA-AAAA
3711474 ATAAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (22 bp):
GAAAAAAATAGTTTAAAAAAAA
Found at i:3713262 original size:902 final size:905
Alignment explanation
Indices: 3711027--3713798 Score: 4542
Period size: 902 Copynumber: 3.0 Consensus size: 905
3711017 ATGATAATCC
3711027 ATGATTTTGCTGATTGAAATTCACCTAA-CCGATGCATGAACCCACTTTGGTAAGATTTGAGCCT
1 ATGATTTTGCTGATTGAAATTCACCTAACCCGATGCATGAACCCACTTTGGTAAGATTTGAGCCT
3711091 TGATGAGCATGTTCTTTATATTTTTGCTCTTATTTCTTGTTTGAGTGTATCGAACTAGACATTGA
66 TGATGAGCATGTTCTTTATATTTTTGCTCTTATTTCTTGTTTGAGTGTATCGAACTAGACATTGA
*
3711156 CGATCTACAAATTTTAGTACAATGCATGTCAAGATCACATGGGAACTTGATGTTTTGAAATGATT
131 CGATCTAGAAATTTTAGTACAATGCATGTCAAGATCACATGGGAACTTGATGTTTTGAAATGATT
3711221 TGGGCACCTAGGATTCACCTATTTCCCCCCAAAATGCCTACCTTATTCTTTCCCACTAGTTAACC
196 TGGGCACCTAGGATTCACCTATTTCCCCCCAAAATGCCTACCTTATTCTTTCCCACTAGTTAACC
*
3711286 ATGTTTGAGCCTATTCCCATTCTTTGTTTTCACCTTGATAATAAATTCGAGCCTTTTTATTTATC
261 ATGTTTGAGCCTATTCCCATTCTTTGTTTTCACCTTGATAATAAACTCGAGCCTTTTTATTTATC
3711351 CCTCTTCCACCCTTGTCAAGACAAAAAGTATAAGTTGAAGG-T-TGAGATCATGTTCACGAAAAA
326 CCTCTTCCACCCTTGTCAAGACAAAAAGTATAAGTTGAAGGTTGTGAGATCATGTTC-C------
** * *
3711414 AGGATTTGAAAAAAATAGTTTAAAAAAAAGAAAAAAATAGTTTAAAAAAAAGAAATAAAAATAAA
384 ---A--TG-AAAAAAGGGTTT------GA-AAAAAAATAGTTTCAAAAAAAG-----------AA
3711479 AAATAAAAAGTGATTGTTTGATGTTTTGTTCATTTTAATTACCTTTGTTCCTTATGTTTATTTTG
425 AAATAAAAAGTGATTGTTTGATGTTTTGTTCATTTTAATTACCTTTGTTCCTTATGTTTATTTTG
** *
3711544 CTTATTCATGCCGCTTATATTTTCTTTGGTTGTGAACATGATTTAATTACTTGTT-GGAAACTCT
490 CTTATTCATGTTGCTTATATTTTCTTTGGTTGTGGACATGATTTAATTACTTGTTGGGAAACTCT
3711608 TGTCTTGATTATTAGCTTCATTTTAGCTTTATTCCATGCCTTTACCTAAGCCCCATTACAACATT
555 TGTCTTGATTATTAGCTTCATTTTAGCTTTATTCC-TGCCTTTACCTAAGCCCCATTACAACATT
3711673 TTTCAAGACCCAATGATTGATGCATCTTGTTCAATTTAAGTAGTGGAGCTTTGATTGTCTTAGAA
619 TTTCAAGACCCAATGATTGATGCATCTTGTTCAATTTAAGTAGTGGAGCTTTGATTGTCTTAGAA
3711738 GCCTATGGAATTGTCATGTTTGGTTTCGACTTTGAGCATTCTTGCACCCAAAACACATTGAGTGA
684 GCCTATGGAATTGTCATGTTTGGTTTCGACTTTGAGCATTCTTGCACCCAAAACACATTGAGTGA
3711803 GTTGAGTGAAAGCTTTGTGAGGTGTTGATTAGGTTGAATTGAGATTAATAAATGATTGGATGTTG
749 GTTGAGTGAAAGCTTTGTGAGGTGTTGATTAGGTTGAATTGAGATTAATAAATGATTGGATGTTG
3711868 T-AATTTGTTTAAATTGATCCAACTTATTCTTTCCAATTGATTGATGTTTTGACTTGGATAATTG
814 TGAATTTGTTTAAATTGATCCAACTTATTCTTTCCAATTGATTGATGTTTTGACTTGGATAATTG
3711932 TTGCGAAATTAACTTGCATGATTCGTT
879 TTGCGAAATTAACTTGCATGATTCGTT
3711959 ATGATTTTGCTGATTGAAATTCACCTAACCCGATGCATGAACCCACTTTGGTAAGATTTGAGCCT
1 ATGATTTTGCTGATTGAAATTCACCTAACCCGATGCATGAACCCACTTTGGTAAGATTTGAGCCT
3712024 TGATGAGCATGTTCTTTATATTTTTGCTCTTATTTCTTGTTTGAGTGTATCGAACTAGACATTGA
66 TGATGAGCATGTTCTTTATATTTTTGCTCTTATTTCTTGTTTGAGTGTATCGAACTAGACATTGA
* *
3712089 CGGTCTAGAAATTTTAGTACAATGCATGTCAAGATCACATGGAAACTTGATGTTTTGAAATGATT
131 CGATCTAGAAATTTTAGTACAATGCATGTCAAGATCACATGGGAACTTGATGTTTTGAAATGATT
*
3712154 TGGGCACCTAGGATTCACCTATTTTCCCCCAAAATGCCTACCTTATTCTTTCCCACTAGTTAACC
196 TGGGCACCTAGGATTCACCTATTTCCCCCCAAAATGCCTACCTTATTCTTTCCCACTAGTTAACC
*
3712219 ATGTTTGAGCCTATTCTCATTCTTTGTTTTCACCTTGATAATAAACTCGAGCC-TTTTATTTATC
261 ATGTTTGAGCCTATTCCCATTCTTTGTTTTCACCTTGATAATAAACTCGAGCCTTTTTATTTATC
* *
3712283 CCTCTTCCACCCTTGTCAAGACAAAAAGTATAAGTTGAATGTTGTGAGATCATGTTCCACGAAAA
326 CCTCTTCCACCCTTGTCAAGACAAAAAGTATAAGTTGAAGGTTGTGAGATCATGTTCCATGAAAA
3712348 AAGGGATTTGAAAAAAAATAGTTTCAAAAAAAG-AAAA-AAAAAGTGATTGTTTGATGTTTTGTT
391 AAGGG-TTTGAAAAAAAATAGTTTCAAAAAAAGAAAAATAAAAAGTGATTGTTTGATGTTTTGTT
3712411 CATTTTAATTACCTTTGTTCCTTATGTTTATTTTGCTTATTCATGTTGCTTATATTTTCTTTGGT
455 CATTTTAATTACCTTTGTTCCTTATGTTTATTTTGCTTATTCATGTTGCTTATATTTTCTTTGGT
3712476 TGTGGACATGATTTAATTACTTGTTGGGAAACTCTTGTCTTGATTATTAGCTTCATTTTAGCTTT
520 TGTGGACATGATTTAATTACTTGTTGGGAAACTCTTGTCTTGATTATTAGCTTCATTTTAGCTTT
*
3712541 ATTCCTGCCTTTACCTAAGCCCCATTACAACGTTTTTCAAGACCCAATGATTGATGCATCTTGTT
585 ATTCCTGCCTTTACCTAAGCCCCATTACAACATTTTTCAAGACCCAATGATTGATGCATCTTGTT
3712606 CAATTTAAGTAGTGGAGCTTTGATTGTCTTAGAAGCCTATGGAATTGTCATGTTTGGTTT-GACT
650 CAATTTAAGTAGTGGAGCTTTGATTGTCTTAGAAGCCTATGGAATTGTCATGTTTGGTTTCGACT
3712670 TTGAGCATTCTTGCACCCAAAACACATTGAGTGAGTTGAGTGAAAGCTTTGTGAGGTGTTGATTA
715 TTGAGCATTCTTGCACCCAAAACACATTGAGTGAGTTGAGTGAAAGCTTTGTGAGGTGTTGATTA
3712735 GGTTGAATTGAGATTAATAAATGATTGGATGTTGTGAATTTGTTTAAATTGATCCAACTTATTCT
780 GGTTGAATTGAGATTAATAAATGATTGGATGTTGTGAATTTGTTTAAATTGATCCAACTTATTCT
3712800 TTCCAATTGATTGATGTTTTGACTTGGATAATTGTTGCGAAATTAACTTGCATGATTCGTT
845 TTCCAATTGATTGATGTTTTGACTTGGATAATTGTTGCGAAATTAACTTGCATGATTCGTT
*
3712861 ATGATTTTGCTGATTGAAATTCACCTAACCCGATGCATGAACCCACTTTGGTAAGATCTGAGCCT
1 ATGATTTTGCTGATTGAAATTCACCTAACCCGATGCATGAACCCACTTTGGTAAGATTTGAGCCT
3712926 TGATGAGCATGTTCTTTATATTTTTGCTCTTATTTCTTGTTTGAGTGTATCGAACTAGACATTGA
66 TGATGAGCATGTTCTTTATATTTTTGCTCTTATTTCTTGTTTGAGTGTATCGAACTAGACATTGA
* **
3712991 CGATCTAGAAATTTTAGTTCAATGCATGTCATTATCACATGGGAACTTGATGTTTTGAAATGATT
131 CGATCTAGAAATTTTAGTACAATGCATGTCAAGATCACATGGGAACTTGATGTTTTGAAATGATT
3713056 TGGGCACCTAGGATTCACCTATTTCCCCCCCAAAATGCCTACCTTATTCTTTCCCACTAGTTAAC
196 TGGGCACCTAGGATTCACCTATTT-CCCCCCAAAATGCCTACCTTATTCTTTCCCACTAGTTAAC
3713121 CATGTTTGAGCCTATTCCCATTCTTTGTTTTCACCTTGATAATAAACTCGAGCCTTTTTATTTAT
260 CATGTTTGAGCCTATTCCCATTCTTTGTTTTCACCTTGATAATAAACTCGAGCCTTTTTATTTAT
3713186 CCCTCTT-CACCCTTGTCAAGACAAAAAGTATAAGTTGAAGGTTGTGAGATCATGTTCCATGAAA
325 CCCTCTTCCACCCTTGTCAAGACAAAAAGTATAAGTTGAAGGTTGTGAGATCATGTTCCATGAAA
3713250 AAAGGGTTTGAAAAAAAATAGTTTCAAAAAAAGAAAAATAGTTTCAAAAAAGAAAAATAAAAATA
390 AAAGGGTTTGAAAAAAAATAGTTTC--------------A-----AAAAAAG-------------
3713315 AAAAAATAAAAAGTGATTGTTTGATGTTTTGTTCATTTTAA-TACCTTTGTTCCTTATGTTTATT
423 -AAAAATAAAAAGTGATTGTTTGATGTTTTGTTCATTTTAATTACCTTTGTTCCTTATGTTTATT
*
3713379 TTTCTTATTCATGTTGCTTATATTTTCTTTGGTTGTGGACATGATTTAATTACTTGTTGGGAAAC
487 TTGCTTATTCATGTTGCTTATATTTTCTTTGGTTGTGGACATGATTTAATTACTTGTTGGGAAAC
* *
3713444 TCTTGTCTTGATTATTAGCTTTATTTTAGCTTTATTCCCTACCTTTACCTAAG-CCCATTACAAC
552 TCTTGTCTTGATTATTAGCTTCATTTTAGCTTTATT-CCTGCCTTTACCTAAGCCCCATTACAAC
*
3713508 CTTTTTCAAGACCCAATGATTGATGCATCTTGTTCAATTTAAGTAGTGGAGCTTTGATTGTCTTA
616 ATTTTTCAAGACCCAATGATTGATGCATCTTGTTCAATTTAAGTAGTGGAGCTTTGATTGTCTT-
* * *
3713573 GAAGCAAGCCTATGGAATTGCCATGTTTGGTTTCGAATTTGAGCATTCTTGCACCCGAAACACAT
680 --AG-AAGCCTATGGAATTGTCATGTTTGGTTTCGACTTTGAGCATTCTTGCACCCAAAACACAT
3713638 TGAGTGAGTTGAGTGAAAGCTTTGTGAGGTGTTGATTAGGTTGAATTGAGATTAATAAATGATTG
742 TGAGTGAGTTGAGTGAAAGCTTTGTGAGGTGTTGATTAGGTTGAATTGAGATTAATAAATGATTG
* *
3713703 GATGTTGTGAATTTGTTTAAATTGATCCAACTTATCCTTTCTAATTGATTGATGTTTTGACTTGG
807 GATGTTGTGAATTTGTTTAAATTGATCCAACTTATTCTTTCCAATTGATTGATGTTTTGACTTGG
*
3713768 ATAATTGTTACGAAATTAACTTGCATGATTC
872 ATAATTGTTGCGAAATTAACTTGCATGATTC
3713799 ATTTTGATAT
Statistics
Matches: 1755, Mismatches: 36, Indels: 89
0.93 0.02 0.05
Matches are distributed among these distances:
901 104 0.06
902 554 0.32
903 201 0.11
904 17 0.01
915 21 0.01
916 2 0.00
921 14 0.01
922 4 0.00
924 1 0.00
932 79 0.05
933 280 0.16
934 13 0.01
936 200 0.11
937 49 0.03
939 2 0.00
940 27 0.02
941 187 0.11
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (905 bp):
ATGATTTTGCTGATTGAAATTCACCTAACCCGATGCATGAACCCACTTTGGTAAGATTTGAGCCT
TGATGAGCATGTTCTTTATATTTTTGCTCTTATTTCTTGTTTGAGTGTATCGAACTAGACATTGA
CGATCTAGAAATTTTAGTACAATGCATGTCAAGATCACATGGGAACTTGATGTTTTGAAATGATT
TGGGCACCTAGGATTCACCTATTTCCCCCCAAAATGCCTACCTTATTCTTTCCCACTAGTTAACC
ATGTTTGAGCCTATTCCCATTCTTTGTTTTCACCTTGATAATAAACTCGAGCCTTTTTATTTATC
CCTCTTCCACCCTTGTCAAGACAAAAAGTATAAGTTGAAGGTTGTGAGATCATGTTCCATGAAAA
AAGGGTTTGAAAAAAAATAGTTTCAAAAAAAGAAAAATAAAAAGTGATTGTTTGATGTTTTGTTC
ATTTTAATTACCTTTGTTCCTTATGTTTATTTTGCTTATTCATGTTGCTTATATTTTCTTTGGTT
GTGGACATGATTTAATTACTTGTTGGGAAACTCTTGTCTTGATTATTAGCTTCATTTTAGCTTTA
TTCCTGCCTTTACCTAAGCCCCATTACAACATTTTTCAAGACCCAATGATTGATGCATCTTGTTC
AATTTAAGTAGTGGAGCTTTGATTGTCTTAGAAGCCTATGGAATTGTCATGTTTGGTTTCGACTT
TGAGCATTCTTGCACCCAAAACACATTGAGTGAGTTGAGTGAAAGCTTTGTGAGGTGTTGATTAG
GTTGAATTGAGATTAATAAATGATTGGATGTTGTGAATTTGTTTAAATTGATCCAACTTATTCTT
TCCAATTGATTGATGTTTTGACTTGGATAATTGTTGCGAAATTAACTTGCATGATTCGTT
Found at i:3713298 original size:19 final size:20
Alignment explanation
Indices: 3713263--3713308 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
3713253 GGGTTTGAAA
3713263 AAAAATAGTTTCAAAAAAAG
1 AAAAATAGTTTCAAAAAAAG
3713283 AAAAATAGTTTC-AAAAAAG
1 AAAAATAGTTTCAAAAAAAG
3713302 AAAAATA
1 AAAAATA
3713309 AAAATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (20 bp):
AAAAATAGTTTCAAAAAAAG
Found at i:3720524 original size:2 final size:2
Alignment explanation
Indices: 3720517--3720541 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3720507 AACTAAAATT
3720517 TA 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 T
3720542 TAATTTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3722124 original size:13 final size:12
Alignment explanation
Indices: 3722096--3722166 Score: 72
Period size: 12 Copynumber: 5.7 Consensus size: 12
3722086 ACCCTTTTTC
*
3722096 ATTTATTT-TAT
1 ATTTATTTCTTT
3722107 ATTTATCTTCTTT
1 ATTTAT-TTCTTT
*
3722120 ATTTATTTCTGT
1 ATTTATTTCTTT
*
3722132 ATTTATTTTTTAT
1 ATTTATTTCTT-T
3722145 ATTTATTATTCTTT
1 ATTTA-T-TTCTTT
3722159 ATTTATTT
1 ATTTATTT
3722167 TTTGTCTTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
11 6 0.12
12 18 0.36
13 15 0.30
14 7 0.14
15 4 0.08
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (12 bp):
ATTTATTTCTTT
Found at i:3722134 original size:12 final size:12
Alignment explanation
Indices: 3722096--3722166 Score: 63
Period size: 13 Copynumber: 5.7 Consensus size: 12
3722086 ACCCTTTTTC
3722096 ATTTATTT-TAT
1 ATTTATTTCTAT
*
3722107 ATTTATCTTCTTT
1 ATTTAT-TTCTAT
*
3722120 ATTTATTTCTGT
1 ATTTATTTCTAT
*
3722132 ATTTATTTTTTAT
1 ATTTA-TTTCTAT
*
3722145 ATTTATTATTCTTT
1 ATTTA-T-TTCTAT
3722159 ATTTATTT
1 ATTTATTT
3722167 TTTGTCTTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
11 6 0.12
12 14 0.28
13 21 0.42
14 9 0.18
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (12 bp):
ATTTATTTCTAT
Found at i:3722138 original size:16 final size:15
Alignment explanation
Indices: 3722117--3722165 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
3722107 ATTTATCTTC
*
3722117 TTTATTTATTTCTGTA
1 TTTA-TTATTTCTATA
3722133 TTTATT-TTT-TATA
1 TTTATTATTTCTATA
*
3722146 TTTATTA-TTCTTTA
1 TTTATTATTTCTATA
3722160 TTTATT
1 TTTATT
3722166 TTTTGTCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 11 0.38
14 12 0.41
15 2 0.07
16 4 0.14
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATTATTTCTATA
Found at i:3722163 original size:20 final size:19
Alignment explanation
Indices: 3722097--3722164 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
3722087 CCCTTTTTCA
*
3722097 TTTATTTTATATTTATCTTC
1 TTTA-TTTATATTTATATTC
*
3722117 TTTATTTAT-TTCTGTATT-
1 TTTATTTATATT-TATATTC
*
3722135 TATTTTTTATATTTATTATTC
1 T-TTATTTATATTTA-TATTC
3722156 TTTATTTAT
1 TTTATTTAT
3722165 TTTTTGTCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 3 0.08
19 17 0.45
20 17 0.45
21 1 0.03
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (19 bp):
TTTATTTATATTTATATTC
Found at i:3722314 original size:19 final size:20
Alignment explanation
Indices: 3722289--3722339 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
3722279 TGCTATATCT
3722289 TTTTATTATTTTTTT-TTT-
1 TTTTATTATTTTTTTCTTTA
3722307 TCTTTATT-TTTTTTTCTTTA
1 T-TTTATTATTTTTTTCTTTA
3722327 TTTTATTCATTTT
1 TTTTATT-ATTTT
3722340 CATTTGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
18 8 0.29
19 15 0.54
20 1 0.04
21 4 0.14
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTATTATTTTTTTCTTTA
Found at i:3722316 original size:14 final size:14
Alignment explanation
Indices: 3722299--3722330 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
3722289 TTTTATTATT
3722299 TTTTTTTTTCTTTA
1 TTTTTTTTTCTTTA
3722313 TTTTTTTTTCTTTA
1 TTTTTTTTTCTTTA
3722327 TTTT
1 TTTT
3722331 ATTCATTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTCTTTA
Found at i:3725476 original size:53 final size:53
Alignment explanation
Indices: 3725396--3725501 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
3725386 GGTGGATGGC
* *
3725396 GATAAGGATATACAATTAAATTGAGAAAGTCAAAGGAGAAAATCAAGGGATTT
1 GATAAGGATATACAATCAAATTGAGAAAGTCAAACGAGAAAATCAAGGGATTT
*
3725449 GATAAGGATATACAATCAAGTTGAGAAAGTCAAACGAGAAAATCAAGGGATTT
1 GATAAGGATATACAATCAAATTGAGAAAGTCAAACGAGAAAATCAAGGGATTT
3725502 TCACTTTTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.48, C:0.08, G:0.23, T:0.22
Consensus pattern (53 bp):
GATAAGGATATACAATCAAATTGAGAAAGTCAAACGAGAAAATCAAGGGATTT
Found at i:3729948 original size:53 final size:53
Alignment explanation
Indices: 3729868--3729974 Score: 178
Period size: 53 Copynumber: 2.0 Consensus size: 53
3729858 TACGGGGGCA
*
3729868 TGATAAGGATATACAATCAAATTGAGAAAGTTAAAGGAGAAAATCAAGGGATT
1 TGATAAGGATATACAATCAAATTGAGAAAGTCAAAGGAGAAAATCAAGGGATT
* * *
3729921 TGATAAGGATATACAATCAAGTTGAGAAAGTCAAATGAGAAAATTAAGGGATT
1 TGATAAGGATATACAATCAAATTGAGAAAGTCAAAGGAGAAAATCAAGGGATT
3729974 T
1 T
3729975 TCACTTTTGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.48, C:0.06, G:0.22, T:0.24
Consensus pattern (53 bp):
TGATAAGGATATACAATCAAATTGAGAAAGTCAAAGGAGAAAATCAAGGGATT
Found at i:3730359 original size:15 final size:16
Alignment explanation
Indices: 3730331--3730363 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
3730321 TATCTTAGAC
3730331 TATTTTTAGATTAAAT
1 TATTTTTAGATTAAAT
*
3730347 TATTTTT-GTTTAAAT
1 TATTTTTAGATTAAAT
3730362 TA
1 TA
3730364 ATGTTTAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TATTTTTAGATTAAAT
Found at i:3732527 original size:130 final size:126
Alignment explanation
Indices: 3732367--3732610 Score: 339
Period size: 131 Copynumber: 1.9 Consensus size: 126
3732357 TATCATTTTT
** * *
3732367 AAATTAGGAAAAAAGTACATTATTATTGTATTTGTAATT-AAAGAAGAAACTAATCTCCTAATTT
1 AAATTAGGAAAAAAGTACATTATTATTGTATTTCCAATTAAAAAAAGAAACTAATCCCCTAATTT
* * *
3732431 GCATTAA-TACAATTATTTCTCATTTTTAATTGAATAATAAAATATTATCATTTTTCAAAAAATT
66 GAATTAAGGA-AATTATTTC-C-TATTTAA---AATAATAAAATATTATCATTTTTCAAAAAATT
3732495 AA
125 AA
*
3732497 AAATTAGGAAAAATGTACATTATTATTGTATTTCCAATTAAAAAAAGAAACTAATCCCCTAATTT
1 AAATTAGGAAAAAAGTACATTATTATTGTATTTCCAATTAAAAAAAGAAACTAATCCCCTAATTT
*
3732562 GAATTAAGGAAATTATTTCCTATTTGAAATAATAAAATATTATCATTTT
66 GAATTAAGGAAATTATTTCCTATTTAAAATAATAAAATATTATCATTTT
3732611 CTAAGAAATG
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
126 22 0.21
129 5 0.05
130 37 0.36
131 38 0.37
132 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (126 bp):
AAATTAGGAAAAAAGTACATTATTATTGTATTTCCAATTAAAAAAAGAAACTAATCCCCTAATTT
GAATTAAGGAAATTATTTCCTATTTAAAATAATAAAATATTATCATTTTTCAAAAAATTAA
Found at i:3736028 original size:14 final size:15
Alignment explanation
Indices: 3736005--3736037 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3735995 AAAAATCTAC
3736005 ATATTAAAT-AAATA
1 ATATTAAATAAAATA
*
3736019 ATATTTAATAAAATA
1 ATATTAAATAAAATA
3736034 ATAT
1 ATAT
3736038 GAGAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATTAAATAAAATA
Found at i:3739445 original size:25 final size:25
Alignment explanation
Indices: 3739411--3739459 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
3739401 GGCTGGAACA
3739411 TTTAGGGTTTGAAACCCTAATCTGT
1 TTTAGGGTTTGAAACCCTAATCTGT
3739436 TTTAGGGTTTGAAACCCTAATCTG
1 TTTAGGGTTTGAAACCCTAATCTG
3739460 ATGGGTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (25 bp):
TTTAGGGTTTGAAACCCTAATCTGT
Found at i:3739577 original size:13 final size:13
Alignment explanation
Indices: 3739573--3739609 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
3739563 ATTAATAAAC
3739573 ATAATAATAATAA
1 ATAATAATAATAA
3739586 ATAATAATAAT-A
1 ATAATAATAATAA
3739598 ATAATAA-AATAA
1 ATAATAATAATAA
3739610 CGATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.13
12 9 0.39
13 11 0.48
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAATAATAATAA
Found at i:3739581 original size:3 final size:3
Alignment explanation
Indices: 3739573--3739609 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
3739563 ATTAATAAAC
3739573 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
3739610 CGATAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:3739829 original size:43 final size:42
Alignment explanation
Indices: 3739766--3740131 Score: 183
Period size: 43 Copynumber: 8.4 Consensus size: 42
3739756 TGTTGGGGAC
* * * *
3739766 GACACTGCTCATACATGATGAAGAGTTTGAGTCGTCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAGTTTG-GTCATCTAAAGGT
*
3739809 GACACGGCTCCTACGTGATGAAGAGTTCTTGGCCATCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAG-T-TTGGTCATCTAAAGGT
* * * ** * *
3739853 GATAACACGGTTCCTACGTGACGAGGACGGCTGGTTATCT-ATGGTT
1 G---ACACGGCTCCTACGTGATGAAGA-GTTTGGTCATCTAAAGG-T
* * **
3739899 GACACGGCTCCTACGTGATGAGGAGATATGG---TCT-GGGGAT
1 GACACGGCTCCTACGTGATGAAGAG-TTTGGTCATCTAAAGG-T
* *
3739939 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAGTT-TGGTCATCTAAAGGT
* * * ** * *
3739982 GATAACATGGTTCCTACGTGATGAGGACGGCTGGTTATCT-ATGGTT
1 G---ACACGGCTCCTACGTGATGAAGA-GTTTGGTCATCTAAAGG-T
* ****
3740028 GACACGGCTCCTACGTGATGAAGAGATCTGGTC-GGGGAA--T
1 GACACGGCTCCTACGTGATGAAGAG-TTTGGTCATCTAAAGGT
* *
3740068 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAGTT-TGGTCATCTAAAGGT
*
3740111 GATAACACGGTTCCTACGTGA
1 G---ACACGGCTCCTACGTGA
3740132 CGAGGACGGC
Statistics
Matches: 244, Mismatches: 52, Indels: 51
0.70 0.15 0.15
Matches are distributed among these distances:
39 2 0.01
40 61 0.25
41 2 0.01
42 2 0.01
43 79 0.32
44 15 0.06
45 9 0.04
46 52 0.21
47 21 0.09
48 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (42 bp):
GACACGGCTCCTACGTGATGAAGAGTTTGGTCATCTAAAGGT
Found at i:3739954 original size:40 final size:41
Alignment explanation
Indices: 3739808--3740098 Score: 160
Period size: 40 Copynumber: 6.8 Consensus size: 41
3739798 CGTCTAAAGG
* *
3739808 TGACACGGCTCCTACGTGATGAAGAGTTCTTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAAGAGATC-TGG--ATCT---GGGGA
* * * * * ** *
3739855 TAACACGGTTCCTACGTGACGAGGACG-GCTGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAAGA-GATCTGG--ATCTGGGGA
* *
3739898 TGACACGGCTCCTACGTGATGAGGAGATATGG-TCTGGGGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGGATCTGGGGA
* * *
3739938 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGG--ATCT---GGGGA
* * * * * ** *
3739984 TAACATGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAAGA-GATCTGG--ATCTGGGGA
3740027 TGACACGGCTCCTACGTGATGAAGAGATCTGG-TC-GGGGAA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGGATCTGGGG-A
* *
3740067 TGACACGGCTCATACGTGATGAAGAGTTCTGG
1 TGACACGGCTCCTACGTGATGAAGAGATCTGG
3740099 CCATCTAAAG
Statistics
Matches: 187, Mismatches: 46, Indels: 29
0.71 0.18 0.11
Matches are distributed among these distances:
39 2 0.01
40 65 0.35
42 2 0.01
43 55 0.29
46 39 0.21
47 23 0.12
48 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (41 bp):
TGACACGGCTCCTACGTGATGAAGAGATCTGGATCTGGGGA
Found at i:3740000 original size:129 final size:129
Alignment explanation
Indices: 3739808--3740150 Score: 616
Period size: 129 Copynumber: 2.7 Consensus size: 129
3739798 CGTCTAAAGG
*
3739808 TGACACGGCTCCTACGTGATGAAGAGTTCTTGGCCATCTAAAGGTGATAACACGGTTCCTACGTG
1 TGACACGGCTCATACGTGATGAAGAGTTC-TGGCCATCTAAAGGTGATAACACGGTTCCTACGTG
*
3739873 ACGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATATGGTCTGGGG-
65 ACGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATATGGTC-GGGGA
3739937 A
129 A
*
3739938 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACATGGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
* *
3740003 TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAA
66 CGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATATGGTCGGGGAA
3740067 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
3740132 CGAGGACGGCTGGTTATCT
66 CGAGGACGGCTGGTTATCT
3740151 CTAGGATAAT
Statistics
Matches: 205, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
128 4 0.02
129 173 0.84
130 28 0.14
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (129 bp):
TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
CGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATATGGTCGGGGAA
Found at i:3740022 original size:46 final size:46
Alignment explanation
Indices: 3739810--3740150 Score: 168
Period size: 46 Copynumber: 7.8 Consensus size: 46
3739800 TCTAAAGGTG
* ** **
3739810 ACACGGCTCCTACGTGATGAAGAGTTCTTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAGGAGAGC-TGGTTATCTAAAGGTGATA
* * * *
3739857 ACACGGTTCCTACGTGACGAGGACG-GCTGGTTATCT-ATGGT--TG
1 ACACGGCTCCTACGTGATGAGGA-GAGCTGGTTATCTAAAGGTGATA
** * *
3739900 ACACGGCTCCTACGTGATGAGGAGATATGG---TCT---GGGGATG
1 ACACGGCTCCTACGTGATGAGGAGAGCTGGTTATCTAAAGGTGATA
* * ** **
3739940 ACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAGGAGAGCTGGTTATCTAAAGGTGATA
* * * *
3739986 ACATGGTTCCTACGTGATGAGGACG-GCTGGTTATCT-ATGGT--TG
1 ACACGGCTCCTACGTGATGAGGA-GAGCTGGTTATCTAAAGGTGATA
* * * *
3740029 ACACGGCTCCTACGTGATGAAGAGATCTGG---TC----GGGGAATG
1 ACACGGCTCCTACGTGATGAGGAGAGCTGGTTATCTAAAGGTG-ATA
* * ** **
3740069 ACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAGGAGAGCTGGTTATCTAAAGGTGATA
* *
3740115 ACACGGTTCCTACGTGACGAGGACG-GCTGGTTATCT
1 ACACGGCTCCTACGTGATGAGGA-GAGCTGGTTATCT
3740151 CTAGGATAAT
Statistics
Matches: 227, Mismatches: 44, Indels: 47
0.71 0.14 0.15
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
40 63 0.28
42 2 0.01
43 55 0.24
45 8 0.04
46 68 0.30
47 26 0.11
48 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (46 bp):
ACACGGCTCCTACGTGATGAGGAGAGCTGGTTATCTAAAGGTGATA
Found at i:3740535 original size:35 final size:36
Alignment explanation
Indices: 3740488--3740570 Score: 100
Period size: 35 Copynumber: 2.3 Consensus size: 36
3740478 ACAAAATTCA
**
3740488 TTTCAAGAGAAAC-GATCTCAAAGAT-GTTTATTTTG
1 TTTCAAGAGAAACAGAT-TCAAAGATGGTAAATTTTG
*
3740523 TTTCAAGGGAAACAGATTCAAAGATGGTAAATTTTG
1 TTTCAAGAGAAACAGATTCAAAGATGGTAAATTTTG
3740559 TTTCCAA-AGAAA
1 TTT-CAAGAGAAA
3740571 TAAACTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 20 0.49
36 18 0.44
37 3 0.07
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (36 bp):
TTTCAAGAGAAACAGATTCAAAGATGGTAAATTTTG
Found at i:3740846 original size:15 final size:15
Alignment explanation
Indices: 3740822--3740865 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
3740812 AAGATGATCT
*
3740822 TGTTTTAAGAGAAAA
1 TGTTTCAAGAGAAAA
3740837 TGTTTCAAGAGAAAA
1 TGTTTCAAGAGAAAA
*
3740852 TGTTTCAAGTGAAA
1 TGTTTCAAGAGAAA
3740866 CGACTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (15 bp):
TGTTTCAAGAGAAAA
Found at i:3741519 original size:55 final size:55
Alignment explanation
Indices: 3741449--3741574 Score: 173
Period size: 55 Copynumber: 2.3 Consensus size: 55
3741439 AAATAAGTAG
***
3741449 ACTCAAAGATATTTTTCAAAAGAAAC-AACTCAAAGATTTTTATTCAAAAGGGGCAA
1 ACTCAAAGAT-TTTTTCAAAAGAAACAAACTCAAAGATTTTT-TTCAAAAGAAACAA
* * *
3741505 ACTCAAAGATTTTTTCAAGAGGAACAAACTCAAAGATTTTTTTCAAGAGAAACAA
1 ACTCAAAGATTTTTTCAAAAGAAACAAACTCAAAGATTTTTTTCAAAAGAAACAA
3741560 ACTCAAAGATTTTTT
1 ACTCAAAGATTTTTT
3741575 TCTCAAAAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
55 38 0.60
56 25 0.40
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.29
Consensus pattern (55 bp):
ACTCAAAGATTTTTTCAAAAGAAACAAACTCAAAGATTTTTTTCAAAAGAAACAA
Found at i:3741575 original size:28 final size:28
Alignment explanation
Indices: 3741449--3741586 Score: 172
Period size: 28 Copynumber: 4.9 Consensus size: 28
3741439 AAATAAGTAG
*
3741449 ACTCAAAGATATTTTTCAAAAGAAAC-A
1 ACTCAAAGATTTTTTTCAAAAGAAACAA
***
3741476 ACTCAAAGATTTTTATTCAAAAGGGGCAA
1 ACTCAAAGATTTTT-TTCAAAAGAAACAA
* *
3741505 ACTCAAAGA-TTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTTCAAAAGAAACAA
*
3741532 ACTCAAAGATTTTTTTCAAGAGAAACAA
1 ACTCAAAGATTTTTTTCAAAAGAAACAA
3741560 ACTCAAAGATTTTTTTCTCAAAAGAAA
1 ACTCAAAGA-TTTTTT-TCAAAAGAAA
3741587 TTGTCTTTAA
Statistics
Matches: 97, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
27 33 0.34
28 39 0.40
29 16 0.16
30 9 0.09
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (28 bp):
ACTCAAAGATTTTTTTCAAAAGAAACAA
Found at i:3741938 original size:36 final size:36
Alignment explanation
Indices: 3741871--3741940 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
3741861 GTCTCAAATG
**
3741871 AGACAAAATTTATTTTTAGAGAAATTGTCTCAAGCA
1 AGACAAAATTTATTTTTAGAGAAAACGTCTCAAGCA
*
3741907 AGACAAAGTTTATTTTT-GAGAAAACGATCTCAAG
1 AGACAAAATTTATTTTTAGAGAAAACG-TCTCAAG
3741941 TGAGATCAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 7 0.23
36 23 0.77
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (36 bp):
AGACAAAATTTATTTTTAGAGAAAACGTCTCAAGCA
Found at i:3742049 original size:105 final size:105
Alignment explanation
Indices: 3741940--3742128 Score: 238
Period size: 105 Copynumber: 1.8 Consensus size: 105
3741930 ACGATCTCAA
* * *
3741940 GTGAGATCAACTTTGTTTA-ATGTGTAA-CAAATTCGAAATTTGGATTTAAAAGGGAAAAGGTCT
1 GTGAGATCAACTTTGTTTATA-GTG-AATCAAATTCAAAATTTGGATCTAAAAGGAAAAAGGTCT
3742003 CAAGCGAAACGAAATTTGTTTTGAAAGAAACAACAATCTAAG
64 CAAGCGAAACGAAATTTGTTTTGAAAGAAACAACAATCTAAG
* * * * * * *
3742045 GTGAGATTAATTTTGTTTTTAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAATGTCTTA
1 GTGAGATCAACTTTGTTTATAGTGAATCAAATTCAAAATTTGGATCTAAAAGGAAAAAGGTCTCA
* *
3742110 AGCGAGACGAAGTTTGTTT
66 AGCGAAACGAAATTTGTTT
3742129 CAAGAGAATT
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
104 2 0.03
105 67 0.96
106 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (105 bp):
GTGAGATCAACTTTGTTTATAGTGAATCAAATTCAAAATTTGGATCTAAAAGGAAAAAGGTCTCA
AGCGAAACGAAATTTGTTTTGAAAGAAACAACAATCTAAG
Found at i:3742189 original size:35 final size:34
Alignment explanation
Indices: 3742103--3742239 Score: 148
Period size: 36 Copynumber: 3.9 Consensus size: 34
3742093 AAAGGAAAAA
* * * *
3742103 TGTCTTAAGCGAGACGAAGTTTGTTTCAAGAGAATT
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGA-AA-T
*
3742139 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAAAGT
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGAAA-T
* *
3742174 TGTTTCAAGCGAGACAAAATTTGCTTTGAAAGAAAT
1 TGTCTCAAGCGAGACAAAATTTG-TTT-TAAGAAAT
*
3742210 TGTCTCAAACGAGACGAAAATTTGTTTTAA
1 TGTCTCAAGCGAGAC-AAAATTTGTTTTAA
3742240 AATTCTCAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
35 27 0.31
36 46 0.53
37 13 0.15
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (34 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAT
Found at i:3742600 original size:4 final size:4
Alignment explanation
Indices: 3742584--3742629 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
3742574 ATGCAAATTT
*
3742584 TATG TAT- TATG TATG TATG --TG TATA TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
3742629 T
1 T
3742630 TTGTTTTCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 32 0.86
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:3742614 original size:18 final size:17
Alignment explanation
Indices: 3742586--3742621 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
3742576 GCAAATTTTA
3742586 TGTATTATGTATGTATG
1 TGTATTATGTATGTATG
3742603 TGTATATATGTATGTATG
1 TGTAT-TATGTATGTATG
3742621 T
1 T
3742622 ATGTATGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (17 bp):
TGTATTATGTATGTATG
Found at i:3744576 original size:26 final size:26
Alignment explanation
Indices: 3744498--3744579 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 26
3744488 TTTCAAAGTG
3744498 GAAAGAATGTTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
**
3744524 GAGGGAATGTTTCAAGG--TC---GA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
3744545 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
3744570 GATAGAATGT
1 GAAAGAATGT
3744580 CAAAAATTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
20 13 0.30
21 2 0.05
22 2 0.05
24 2 0.05
25 2 0.05
26 22 0.51
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (26 bp):
GAAAGAATGTTTCAAGGTCTCAAAGA
Found at i:3744578 original size:46 final size:45
Alignment explanation
Indices: 3744486--3744579 Score: 134
Period size: 46 Copynumber: 2.1 Consensus size: 45
3744476 ATAAATACAG
* * *
3744486 TGTTTCAAAGTGGAAAGAATGTTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAAGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
* *
3744531 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAAGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
3744577 TGT
1 TGT
3744580 CAAAAATTGG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 10 0.23
46 33 0.77
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.27
Consensus pattern (45 bp):
TGTTTCAAAGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:3747051 original size:31 final size:32
Alignment explanation
Indices: 3746995--3747056 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3746985 TGACAAAATG
3746995 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
3747027 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
3747057 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:3750791 original size:25 final size:25
Alignment explanation
Indices: 3750757--3750805 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
3750747 GGCTGGAACA
3750757 TTTAGGGTTTGAAACCCTAATCTGT
1 TTTAGGGTTTGAAACCCTAATCTGT
3750782 TTTAGGGTTTGAAACCCTAATCTG
1 TTTAGGGTTTGAAACCCTAATCTG
3750806 ATGGGTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (25 bp):
TTTAGGGTTTGAAACCCTAATCTGT
Found at i:3750923 original size:13 final size:13
Alignment explanation
Indices: 3750919--3750955 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
3750909 ATTAATAAAC
3750919 ATAATAATAATAA
1 ATAATAATAATAA
3750932 ATAATAATAAT-A
1 ATAATAATAATAA
3750944 ATAATAA-AATAA
1 ATAATAATAATAA
3750956 CGATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.13
12 9 0.39
13 11 0.48
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAATAATAATAA
Found at i:3750927 original size:3 final size:3
Alignment explanation
Indices: 3750919--3750955 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
3750909 ATTAATAAAC
3750919 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
3750956 CGATAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:3754085 original size:37 final size:36
Alignment explanation
Indices: 3754005--3754085 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 36
3753995 GCACCTAATT
*
3754005 TTGAAAAAATGATTTTCAAAGTTTGGTAAACGTTTC
1 TTGAAAAAATAATTTTCAAAGTTTGGTAAACGTTTC
* * * *
3754041 TTTAAAAAATAATTTTTCAAAGTTTGGTAGATGTTTG
1 TTGAAAAAATAA-TTTTCAAAGTTTGGTAAACGTTTC
3754078 TTGAAAAA
1 TTGAAAAA
3754086 TGATAATGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
36 10 0.26
37 28 0.74
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (36 bp):
TTGAAAAAATAATTTTCAAAGTTTGGTAAACGTTTC
Found at i:3754504 original size:16 final size:17
Alignment explanation
Indices: 3754483--3754517 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
3754473 TACTATTAAC
3754483 GTGAATAGT-AAATTTT
1 GTGAATAGTGAAATTTT
3754499 GTGAATAGTGAAATTTT
1 GTGAATAGTGAAATTTT
3754516 GT
1 GT
3754518 CGGCGATACG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (17 bp):
GTGAATAGTGAAATTTT
Found at i:3763012 original size:57 final size:57
Alignment explanation
Indices: 3762943--3763051 Score: 182
Period size: 57 Copynumber: 1.9 Consensus size: 57
3762933 ACAATATTAT
*
3762943 TTACCGATATAGGTAAACACAACTATCGCAACGCAAATTTCGTTTTCGCAACGCTAA
1 TTACCGATATAGGTAAACACAACTATCGCAACGCAAATTTCATTTTCGCAACGCTAA
* * *
3763000 TTACCGATATAGGTAACCACAACTATCGCAATGCGAATTTCATTTTCGCAAC
1 TTACCGATATAGGTAAACACAACTATCGCAACGCAAATTTCATTTTCGCAAC
3763052 TCGAATTCAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (57 bp):
TTACCGATATAGGTAAACACAACTATCGCAACGCAAATTTCATTTTCGCAACGCTAA
Found at i:3764218 original size:16 final size:16
Alignment explanation
Indices: 3764176--3764218 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
3764166 ACCCGACTTA
*
3764176 TTTTCAACCTAACCTG
1 TTTTCAACCTGACCTG
3764192 TTTTCAACCTGACCTG
1 TTTTCAACCTGACCTG
*
3764208 TTTTTAACCTG
1 TTTTCAACCTG
3764219 GTCTGATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (16 bp):
TTTTCAACCTGACCTG
Found at i:3764467 original size:23 final size:24
Alignment explanation
Indices: 3764433--3764482 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
3764423 ATGCAAAGGA
*
3764433 AAATTAATATAGTTTAATTTTTAT
1 AAATTAATATAGTTTAATTTATAT
3764457 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
3764480 AAA
1 AAA
3764483 GAAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:3764683 original size:14 final size:14
Alignment explanation
Indices: 3764652--3764699 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
3764642 TACATTATGG
**
3764652 TTTATGGTTTAATG
1 TTTATGGTTTAAAA
3764666 TTTATGGTTTAAAA
1 TTTATGGTTTAAAA
* *
3764680 TTTAGGGTTTAGAA
1 TTTATGGTTTAAAA
3764694 TTTATG
1 TTTATG
3764700 ATTAGGGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (14 bp):
TTTATGGTTTAAAA
Found at i:3764818 original size:15 final size:15
Alignment explanation
Indices: 3764798--3764830 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3764788 TAATTTACTT
*
3764798 TATATAGTTTATATA
1 TATATAGGTTATATA
3764813 TATATAGGTTATATA
1 TATATAGGTTATATA
3764828 TAT
1 TAT
3764831 TATACATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (15 bp):
TATATAGGTTATATA
Found at i:3765305 original size:4 final size:4
Alignment explanation
Indices: 3765288--3765334 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
3765278 ATAAGTTTAT
* * *
3765288 ATAC ATAC ACAC ATAC ATAC ATGC ATAC ATAC ATAC ATAC ATGC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
3765335 GCGCCGTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.47, C:0.26, G:0.04, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:3765472 original size:13 final size:13
Alignment explanation
Indices: 3765462--3765488 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3765452 TACATATTAT
3765462 ATAAAATTATTTA
1 ATAAAATTATTTA
3765475 ATAAAATTATTTA
1 ATAAAATTATTTA
3765488 A
1 A
3765489 ATGTAAATTA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:3765498 original size:15 final size:14
Alignment explanation
Indices: 3765462--3765504 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
3765452 TACATATTAT
3765462 ATAAAATTATTT-A
1 ATAAAATTATTTAA
3765475 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
3765489 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
3765504 A
1 A
3765505 AGATTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:3765987 original size:13 final size:13
Alignment explanation
Indices: 3765965--3766017 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
3765955 TATACATACA
*
3765965 TATTTTATAAAAT
1 TATTTAATAAAAT
3765978 TATTTAAT-AAA-
1 TATTTAATAAAAT
3765989 -A-TTAATAAAAT
1 TATTTAATAAAAT
3766000 TATTTAAATATAAAT
1 TATTT-AATA-AAAT
3766015 TAT
1 TAT
3766018 ATAAAACATG
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
9 5 0.15
10 4 0.12
12 4 0.12
13 9 0.27
14 4 0.12
15 7 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATTTAATAAAAT
Found at i:3765996 original size:22 final size:25
Alignment explanation
Indices: 3765970--3766023 Score: 87
Period size: 22 Copynumber: 2.3 Consensus size: 25
3765960 ATACATATTT
3765970 TATAAAATTATTT-AATA-AAATTA
1 TATAAAATTATTTAAATATAAATTA
3765993 -ATAAAATTATTTAAATATAAATTA
1 TATAAAATTATTTAAATATAAATTA
3766017 TATAAAA
1 TATAAAA
3766024 CATGATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 12 0.43
23 4 0.14
24 6 0.21
25 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TATAAAATTATTTAAATATAAATTA
Found at i:3766513 original size:518 final size:506
Alignment explanation
Indices: 3765443--3766521 Score: 1492
Period size: 518 Copynumber: 2.1 Consensus size: 506
3765433 ACTATACATG
* * *
3765443 GTTTATACATACATATTATATAAAATTATTTAATAAAATTATTTAAATGTAAATTATATAAAAGA
1 GTTTATACATACATATTATATAATA-TA-TTAATAAAATTATTTAAATATAAATTATATAAAACA
*
3765508 TTATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGT
64 TGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGT
*
3765573 ACATGTCATATTAATTTTATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTA
129 ACATGTCATATTAATTTTATATGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTA
*
3765638 ATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCAAAAAATAAGTCCATTTGCAT
194 ATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCAAAAAATAAGTCCATCTGCAT
* * * *
3765703 TAGTGTTTGTCCATTTACATTAGTTTATATAGGCCCAATACATAAGTCTACTCTTTTATTACAAA
259 TAGTGCTTGTCCATTTACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAA
*
3765768 TATATATGCATTAATGCTAGTACATTTACATTAAGATTTATGGTTTATGGTTTAGTGTTGGGAGT
324 TATATATGCATTAATGCTAGTACATTTACATTAAGATTTATGGTTTAGGGTTTAGTGTTGGGAGT
* * *
3765833 GTATAGTTTATGATTTAGGGTTTAGGGTTTTTAATAAACTATATATTTTATTACTTTATATAGTT
389 GTATAGTTTAAGATTTAAGGTTTAGGGTTTTTAATAAACTATATACTTTATTACTTTATATAGTT
* * * *
3765898 TATGCATAGTGTTTCTATAAACTATATAAGTAATTTACTTTATATATACACGTG
454 TATGCATAGTCTTTCTATAAACTATATAAGCAATTTACATTATATATA-ACGTA
*
3765952 GTTTATACATACATATTTTATAAAATTATTTAATAAAATTAATAAAATTATTTAAATATAAATTA
1 GTTTATACATACATA---T-T---A-TA--TAAT-ATATTAATAAAATTATTTAAATATAAATTA
3766017 TATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATA
55 TATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATA
3766082 AATAGTAGTACATGTCATATTAATTTTATATGCATAATTAGTATTTTAGTTGCATGTTAGGTTAA
120 AATAGTAGTACATGTCATATTAATTTTATATGCATAATTAGTATTTTAGTTGCATGTTAGGTTAA
* *
3766147 TTTACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTC
185 TTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCAAAAAATAAGTC
3766212 CATCTGCATTAGTGCTTGTCCATTTACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTT
250 CATCTGCATTAGTGCTTGTCCATTTACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTT
* * *
3766277 TATTACAAATATATATGCATTAATGCTAGT-CTATTTATATTAGGGTTTATGGTTTAGGGTTTAG
315 TATTACAAATATATATGCATTAATGCTAGTAC-ATTTACATTAAGATTTATGGTTTAGGGTTTAG
* * *
3766341 TGTCTAGTTTGTATGATTTAAAGTTTAAGGTTTAAGTTTTAAGGTTTAGGGTTTTTAATAAACTA
379 TGT-T-G---G---GA-GT---GTAT-A-GTTTAAGATTTAAGGTTTAGGGTTTTTAATAAACTA
3766406 TATACTTTATTACTTTATATAGTTTATGCATAGTACTTT-TATAATA-TATATATA-CAATCTAT
430 TATACTTTATTACTTTATATAGTTTATGCATAGT-CTTTCTATAA-ACTATATA-AGCAAT-T-T
* *
3766468 AGATTACT-TAT-A-TTA
490 ACATTA-TATATAACGTA
* *
3766483 G-TTATACATACGTA-TATATACTATATTAATATAAATTAT
1 GTTTATACATACATATTATATAATATATTAATA-AAATTAT
3766522 AATTTATAAA
Statistics
Matches: 505, Mismatches: 32, Indels: 56
0.85 0.05 0.09
Matches are distributed among these distances:
509 15 0.03
512 1 0.00
513 1 0.00
516 1 0.00
517 3 0.01
518 345 0.68
519 15 0.03
520 2 0.00
521 2 0.00
522 1 0.00
523 1 0.00
525 1 0.00
526 2 0.00
527 1 0.00
530 15 0.03
531 3 0.01
532 81 0.16
533 6 0.01
534 8 0.02
535 1 0.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (506 bp):
GTTTATACATACATATTATATAATATATTAATAAAATTATTTAAATATAAATTATATAAAACATG
ATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTAC
ATGTCATATTAATTTTATATGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAAT
AGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCAAAAAATAAGTCCATCTGCATTA
GTGCTTGTCCATTTACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATA
TATATGCATTAATGCTAGTACATTTACATTAAGATTTATGGTTTAGGGTTTAGTGTTGGGAGTGT
ATAGTTTAAGATTTAAGGTTTAGGGTTTTTAATAAACTATATACTTTATTACTTTATATAGTTTA
TGCATAGTCTTTCTATAAACTATATAAGCAATTTACATTATATATAACGTA
Found at i:3766963 original size:2 final size:2
Alignment explanation
Indices: 3766956--3767164 Score: 56
Period size: 2 Copynumber: 108.0 Consensus size: 2
3766946 ACTTTGAATA
*
3766956 AT AT AT AT AT AT AT AT AT AT -T AT AT -T A- AT AT AA AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
3766994 AGT TT AT AA ACT AT AT ACT TT TT AT A- AT TT AT AC AT AT AT AGT
1 A-T AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T
* * * * *
3767037 TT AC AT AT AT AGT TT AT AT AT AT A- AT -T CAT AT AA AC AT A- AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
*
3767078 AT AT AT AT A- ACT -T AT A- AT A- AT -T AT AT ACT TT AT A- AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * * *
3767116 AA AT AT AGT TT AT AT AT AT A- AT TT AT AT AT AA ACT -T AT AT -T
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
3767157 AT AT AT AT
1 AT AT AT AT
3767165 TGTATTTTTT
Statistics
Matches: 149, Mismatches: 31, Indels: 54
0.64 0.13 0.23
Matches are distributed among these distances:
1 17 0.11
2 124 0.83
3 8 0.05
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3766986 original size:15 final size:14
Alignment explanation
Indices: 3766953--3766994 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
3766943 CTCACTTTGA
3766953 ATAATATATA-TAT
1 ATAATATATATTAT
3766966 AT-ATATATATTAT
1 ATAATATATATTAT
*
3766979 ATTAATATAAATTAT
1 A-TAATATATATTAT
3766994 A
1 A
3766995 GTTTATAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 7 0.28
13 6 0.24
14 1 0.04
15 11 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAATATATATTAT
Found at i:3767039 original size:15 final size:15
Alignment explanation
Indices: 3767016--3767060 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 15
3767006 ATATACTTTT
*
3767016 TATAATTTATACATA
1 TATAGTTTATACATA
3767031 TATAG-TT-TACATA
1 TATAGTTTATACATA
*
3767044 TATAGTTTATATATA
1 TATAGTTTATACATA
3767059 TA
1 TA
3767061 ATTCATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 11 0.42
14 4 0.15
15 11 0.42
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (15 bp):
TATAGTTTATACATA
Found at i:3767041 original size:13 final size:13
Alignment explanation
Indices: 3767025--3767060 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
3767015 TTATAATTTA
3767025 TACATATATAGTT
1 TACATATATAGTT
3767038 TACATATATAGTT
1 TACATATATAGTT
*
3767051 TATATATATA
1 TACATATATA
3767061 ATTCATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (13 bp):
TACATATATAGTT
Found at i:3767069 original size:15 final size:13
Alignment explanation
Indices: 3767041--3767146 Score: 53
Period size: 13 Copynumber: 8.4 Consensus size: 13
3767031 TATAGTTTAC
* *
3767041 ATATATAGTTTAT
1 ATATATAATATAT
3767054 ATATATAATTCATAT
1 ATATATAA-T-ATAT
* *
3767069 AAACATAATATAT
1 ATATATAATATAT
*
3767082 ATATA-ACT-TAT
1 ATATATAATATAT
*
3767093 A-ATA-ATTATAT
1 ATATATAATATAT
*
3767104 ACTTTATAATATA-
1 A-TATATAATATAT
* *
3767117 A-ATATAGTTTAT
1 ATATATAATATAT
*
3767129 ATATATAATTTAT
1 ATATATAATATAT
3767142 ATATA
1 ATATA
3767147 AACTTATATT
Statistics
Matches: 71, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
10 5 0.07
11 15 0.21
12 3 0.04
13 32 0.45
14 7 0.10
15 9 0.13
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (13 bp):
ATATATAATATAT
Found at i:3770599 original size:29 final size:29
Alignment explanation
Indices: 3770567--3770630 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
3770557 AATATTTTTA
3770567 CTTTTTAATCTCTTAGCTTCTTTTTTATT
1 CTTTTTAATCTCTTAGCTTCTTTTTTATT
3770596 CTTTTTAATCTCTTAGCTTCTTTTTTATT
1 CTTTTTAATCTCTTAGCTTCTTTTTTATT
3770625 CTTTTT
1 CTTTTT
3770631 TAACGGCGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.12, C:0.17, G:0.03, T:0.67
Consensus pattern (29 bp):
CTTTTTAATCTCTTAGCTTCTTTTTTATT
Found at i:3771124 original size:37 final size:37
Alignment explanation
Indices: 3771082--3771362 Score: 352
Period size: 37 Copynumber: 7.4 Consensus size: 37
3771072 ATATTCACGG
* *
3771082 AGTTTTGAAAATATTTTTAAAAACATATATAATATAT
1 AGTTTTGAAAATATTTTTGAAAATATATATAATATAT
3771119 AGTTTTGAAAATAATTTTTTGAAAATATATATAATATAT
1 AGTTTTGAAAAT-A-TTTTTGAAAATATATATAATATAT
* * *
3771158 AGTTTTGAAAACAATTTTTTTTCTGAAAATAAATACAATATAT
1 AGTTTTG--AA-AA--TATTTT-TGAAAATATATATAATATAT
* *
3771201 AGTTTTGAAAACATTTTTAAAAATATATATAATATAT
1 AGTTTTGAAAATATTTTTGAAAATATATATAATATAT
*
3771238 AGTTTTGAAAACATTTTTTTGAAAATATATATAATATAT
1 AGTTTTG-AAA-ATATTTTTGAAAATATATATAATATAT
* *
3771277 AGTTTTGAAAACATTTTTAAAAATATATAT-A-ATAT
1 AGTTTTGAAAATATTTTTGAAAATATATATAATATAT
3771312 AGTTTTGAAAACT-TTTTTGAAAATATATATAATATAT
1 AGTTTTGAAAA-TATTTTTGAAAATATATATAATATAT
3771349 AGTTTTGAAAATAT
1 AGTTTTGAAAATAT
3771363 ATAATATATA
Statistics
Matches: 212, Mismatches: 18, Indels: 28
0.82 0.07 0.11
Matches are distributed among these distances:
35 31 0.15
36 3 0.01
37 69 0.33
38 11 0.05
39 60 0.28
40 2 0.01
41 4 0.02
42 6 0.03
43 25 0.12
44 1 0.00
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (37 bp):
AGTTTTGAAAATATTTTTGAAAATATATATAATATAT
Found at i:3771149 original size:39 final size:38
Alignment explanation
Indices: 3771082--3771359 Score: 352
Period size: 39 Copynumber: 7.3 Consensus size: 38
3771072 ATATTCACGG
* * *
3771082 AGTTTTGAAAATA-TTTTTAAAAACATATATAATATAT
1 AGTTTTGAAAAAATTTTTTGAAAATATATATAATATAT
3771119 AGTTTTGAAAATAATTTTTTGAAAATATATATAATATAT
1 AGTTTTGAAAA-AATTTTTTGAAAATATATATAATATAT
* *
3771158 AGTTTTGAAAACAATTTTTTTTCTGAAAATAAATACAATATAT
1 AGTTTTGAAAA-AA---TTTTT-TGAAAATATATATAATATAT
* *
3771201 AGTTTTGAAAACA-TTTTTAAAAATATATATAATATAT
1 AGTTTTGAAAAAATTTTTTGAAAATATATATAATATAT
*
3771238 AGTTTTGAAAACATTTTTTTGAAAATATATATAATATAT
1 AGTTTTGAAAA-AATTTTTTGAAAATATATATAATATAT
* *
3771277 AGTTTTGAAAACA-TTTTTAAAAATATATAT-A-ATAT
1 AGTTTTGAAAAAATTTTTTGAAAATATATATAATATAT
*
3771312 AGTTTTG-AAAACTTTTTTGAAAATATATATAATATAT
1 AGTTTTGAAAAAATTTTTTGAAAATATATATAATATAT
3771349 AGTTTTGAAAA
1 AGTTTTGAAAA
3771360 TATATAATAT
Statistics
Matches: 210, Mismatches: 19, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
34 3 0.01
35 27 0.13
36 2 0.01
37 66 0.31
38 8 0.04
39 69 0.33
42 6 0.03
43 29 0.14
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (38 bp):
AGTTTTGAAAAAATTTTTTGAAAATATATATAATATAT
Found at i:3771366 original size:23 final size:25
Alignment explanation
Indices: 3771326--3771377 Score: 90
Period size: 23 Copynumber: 2.2 Consensus size: 25
3771316 TTGAAAACTT
3771326 TTTTGAAAATATATATAATATATAG
1 TTTTGAAAATATATATAATATATAG
3771351 TTTTG-AAA-ATATATAATATATAG
1 TTTTGAAAATATATATAATATATAG
3771374 TTTT
1 TTTT
3771378 TTTTAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 19 0.70
24 3 0.11
25 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (25 bp):
TTTTGAAAATATATATAATATATAG
Found at i:3771441 original size:13 final size:11
Alignment explanation
Indices: 3771420--3771472 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
3771410 TATAATTTTA
*
3771420 TATTATATAGTT
1 TATTTTATA-TT
3771432 TATTGTTATATT
1 TATT-TTATATT
*
3771444 TATTTTATTTT
1 TATTTTATATT
*
3771455 TGTTTT-TATT
1 TATTTTATATT
3771465 TATTTTAT
1 TATTTTAT
3771473 TTATTATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
10 8 0.24
11 12 0.35
12 10 0.29
13 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.72
Consensus pattern (11 bp):
TATTTTATATT
Found at i:3771464 original size:21 final size:23
Alignment explanation
Indices: 3771440--3771488 Score: 75
Period size: 21 Copynumber: 2.2 Consensus size: 23
3771430 TTTATTGTTA
*
3771440 TATTTATTTTATTT-TTGTTT-T
1 TATTTATTTTATTTATTATTTAT
3771461 TATTTATTTTATTTATTATTTAT
1 TATTTATTTTATTTATTATTTAT
3771484 TATTT
1 TATTT
3771489 TTATTTCAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 14 0.56
22 5 0.20
23 6 0.24
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (23 bp):
TATTTATTTTATTTATTATTTAT
Found at i:3771468 original size:16 final size:16
Alignment explanation
Indices: 3771442--3771484 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
3771432 TATTGTTATA
3771442 TTTATTTTATTTT-TGTT
1 TTTA-TTTATTTTAT-TT
3771459 TTTATTTATTTTATTT
1 TTTATTTATTTTATTT
*
3771475 ATTATTTATT
1 TTTATTTATT
3771485 ATTTTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTATTTATTTTATTT
Found at i:3771484 original size:20 final size:20
Alignment explanation
Indices: 3771430--3771494 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
3771420 TATTATATAG
*
3771430 TTTATTGTTATATTTATTTTA
1 TTTATTATT-TATTTATTTTA
* *
3771451 TTTTTGTTTTTATTTATTTTA
1 TTTAT-TATTTATTTATTTTA
3771472 TTTATTATTTA-TTATTTTTA
1 TTTATTATTTATTTA-TTTTA
3771492 TTT
1 TTT
3771495 CAGGCCCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
19 3 0.08
20 13 0.34
21 19 0.50
22 3 0.08
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTATTATTTATTTATTTTA
Found at i:3771491 original size:16 final size:15
Alignment explanation
Indices: 3771447--3771493 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 15
3771437 TTATATTTAT
*
3771447 TTTATTTTTGTTTTTA
1 TTTATTTTT-TTATTA
3771463 TTTATTTTATTTATTA
1 TTTATTTT-TTTATTA
3771479 TTTATTATTTTTATT
1 TTTATT-TTTTTATT
3771494 TCAGGCCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 25 0.89
17 3 0.11
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTATTTTTTTATTA
Found at i:3786174 original size:37 final size:37
Alignment explanation
Indices: 3786060--3786380 Score: 406
Period size: 37 Copynumber: 8.7 Consensus size: 37
3786050 TTTTATTTAG
* *
3786060 TATATATAATATATAATTTTGAAAACATTTTTG--AA
1 TATATATAATATATAGTTTTGAAAATATTTTTGAAAA
*
3786095 -A-ATATAATATATAGTTTTGAAAACATTTCTTGAAAA
1 TATATATAATATATAGTTTTGAAAATATTT-TTGAAAA
*
3786131 TATATATAATATATAGTTTTGAAAATAGTTTTGAAAA
1 TATATATAATATATAGTTTTGAAAATATTTTTGAAAA
* *
3786168 TATATATAATATATAGTTTTGAAAACATTTCTCGAAAA
1 TATATATAATATATAGTTTTGAAAATATTT-TTGAAAA
3786206 TATATATAATATATAGTTTTGAAAATATTTTTGAAAA
1 TATATATAATATATAGTTTTGAAAATATTTTTGAAAA
* * *
3786243 TATATACATTATATAGTTTTGAAAACATTTTTTTGAAAA
1 TATATATAATATATAGTTTTG-AAA-ATATTTTTGAAAA
*
3786282 TATATATAATATATAGTTTTGAAAACCTTTTTTTG-AAA
1 TATATATAATATATAGTTTTGAAAA--TATTTTTGAAAA
*
3786320 -ATATATAATATATAGTTTTGAAAACTTTTTTTTG-AAA
1 TATATATAATATATAGTTTTGAAAA--TATTTTTGAAAA
*
3786357 -ATATATAATATATAGTTTTTAAAA
1 TATATATAATATATAGTTTTGAAAA
3786381 AAAACATTTT
Statistics
Matches: 261, Mismatches: 15, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
33 26 0.10
34 4 0.02
36 2 0.01
37 121 0.46
38 69 0.26
39 39 0.15
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (37 bp):
TATATATAATATATAGTTTTGAAAATATTTTTGAAAA
Found at i:3786208 original size:75 final size:73
Alignment explanation
Indices: 3786060--3786380 Score: 461
Period size: 75 Copynumber: 4.3 Consensus size: 73
3786050 TTTTATTTAG
* *
3786060 TATATATAATATATAATTTTGAAAACATTTTTG-AAA-ATATAATATATAGTTTTGAAAACATTT
1 TATATATAATATATAGTTTTGAAAATATTTTTGAAAATATATAATATATAGTTTTGAAAACATTT
3786123 CTTGAAAA
66 CTTGAAAA
*
3786131 TATATATAATATATAGTTTTGAAAATAGTTTTGAAAATATATATAATATATAGTTTTGAAAACAT
1 TATATATAATATATAGTTTTGAAAATATTTTTG-AAA-ATATATAATATATAGTTTTGAAAACAT
*
3786196 TTCTCGAAAA
64 TTCTTGAAAA
3786206 TATATATAATATATAGTTTTGAAAATATTTTTGAAAATATATACATTATATAGTTTTGAAAACAT
1 TATATATAATATATAGTTTTGAAAATATTTTTGAAAATATATA-A-TATATAGTTTTGAAAACA-
*
3786271 TTTTTTGAAAA
63 TTTCTTGAAAA
* *
3786282 TATATATAATATATAGTTTTGAAAACCTTTTTTTGAAAATATATAATATATAGTTTTGAAAACTT
1 TATATATAATATATAGTTTTGAAAA--TATTTTTGAAAATATATAATATATAGTTTTGAAAAC-A
*
3786347 TTTTTTG-AAA
63 TTTCTTGAAAA
*
3786357 -ATATATAATATATAGTTTTTAAAA
1 TATATATAATATATAGTTTTGAAAA
3786381 AAAACATTTT
Statistics
Matches: 230, Mismatches: 10, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
71 30 0.13
73 9 0.04
74 28 0.12
75 87 0.38
76 58 0.25
77 1 0.00
78 17 0.07
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (73 bp):
TATATATAATATATAGTTTTGAAAATATTTTTGAAAATATATAATATATAGTTTTGAAAACATTT
CTTGAAAA
Found at i:3786447 original size:17 final size:17
Alignment explanation
Indices: 3786427--3786468 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
3786417 TATTATATAG
3786427 TTTATTGTT-TTATTTGT
1 TTTATT-TTGTTATTTGT
*
3786444 TTTATTTTGTTTTTTGTT
1 TTTATTTTGTTATTTG-T
3786462 TTTATTT
1 TTTATTT
3786469 ATTTTGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 12 0.55
18 8 0.36
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.81
Consensus pattern (17 bp):
TTTATTTTGTTATTTGT
Found at i:3786448 original size:26 final size:27
Alignment explanation
Indices: 3786413--3786473 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
3786403 AACATATAAT
*
3786413 TTTATATTATATAGTTTATTG-TTTTA
1 TTTATTTTATATAGTTTATTGTTTTTA
* * * *
3786439 TTTGTTTTATTTTGTTTTTTGTTTTTA
1 TTTATTTTATATAGTTTATTGTTTTTA
3786466 TTTATTTT
1 TTTATTTT
3786474 GTTTTATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.75
Consensus pattern (27 bp):
TTTATTTTATATAGTTTATTGTTTTTA
Found at i:3786454 original size:10 final size:10
Alignment explanation
Indices: 3786431--3786483 Score: 63
Period size: 10 Copynumber: 5.2 Consensus size: 10
3786421 ATATAGTTTA
3786431 TTGTTTTA-T
1 TTGTTTTATT
3786440 TTGTTTTATT
1 TTGTTTTATT
*
3786450 TTGTTTTTTGT
1 TTGTTTTAT-T
*
3786461 TTTTATTTATT
1 TTGT-TTTATT
3786472 TTGTTTTATT
1 TTGTTTTATT
3786482 TT
1 TT
3786484 TATTTTTCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 8 0.22
10 17 0.46
11 8 0.22
12 4 0.11
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (10 bp):
TTGTTTTATT
Found at i:3786479 original size:32 final size:32
Alignment explanation
Indices: 3786435--3786501 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
3786425 AGTTTATTGT
*
3786435 TTTATTTGTTTTATTTTGT-TTTTT-GTTTTTA
1 TTTATTTGTTTTATTTT-TATTTTTCCTTTTTA
3786466 TTTATTTTGTTTTATTTTTATTTTTCCTTTTTA
1 TTTA-TTTGTTTTATTTTTATTTTTCCTTTTTA
3786499 TTT
1 TTT
3786502 TAGACCCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 5 0.16
32 18 0.56
33 9 0.28
ACGTcount: A:0.10, C:0.03, G:0.06, T:0.81
Consensus pattern (32 bp):
TTTATTTGTTTTATTTTTATTTTTCCTTTTTA
Found at i:3786486 original size:6 final size:6
Alignment explanation
Indices: 3786443--3786502 Score: 50
Period size: 6 Copynumber: 9.5 Consensus size: 6
3786433 GTTTTATTTG
* * *
3786443 TTTTAT TTTGT-T TTTTGT TTTTAT TTATTTT GTTTTAT TTTTAT TTTTCCT
1 TTTTAT TTT-TAT TTTTAT TTTTAT TT-TTAT -TTTTAT TTTTAT TTTT-AT
3786494 TTTTAT TTT
1 TTTTAT TTT
3786503 AGACCCAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
5 1 0.02
6 29 0.66
7 12 0.27
8 2 0.05
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:3786490 original size:27 final size:27
Alignment explanation
Indices: 3786427--3786490 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
3786417 TATTATATAG
* *
3786427 TTTATTGTTTTATTTGTTTTATTTTGTT
1 TTTATT-TTTTATTTATTTTATTTTATT
*
3786455 TTT-TGTTTTTATTTATTTTGTTTTATT
1 TTTAT-TTTTTATTTATTTTATTTTATT
3786482 TTTATTTTT
1 TTTATTTTT
3786491 CCTTTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 26 0.84
28 5 0.16
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.81
Consensus pattern (27 bp):
TTTATTTTTTATTTATTTTATTTTATT
Found at i:3789973 original size:17 final size:17
Alignment explanation
Indices: 3789947--3790098 Score: 139
Period size: 17 Copynumber: 8.8 Consensus size: 17
3789937 ATAAAACATA
*
3789947 TGATATCTGTAAATATC
1 TGATAACTGTAAATATC
* *
3789964 TGATAGCTGT-AATCATA
1 TGATAACTGTAAAT-ATC
3789981 TGATATA-TGTAAATATC
1 TGATA-ACTGTAAATATC
*
3789998 TGATAACTGAAAATCATC
1 TGATAACTGTAAAT-ATC
* *
3790016 TGATAACTGTAGATATA
1 TGATAACTGTAAATATC
3790033 TGATAACTG-AAAGTCATC
1 TGATAACTGTAAA-T-ATC
*
3790051 TGATAATTGTAAATATC
1 TGATAACTGTAAATATC
* *
3790068 TGATAACGGTGAAATGTC
1 TGATAACTGT-AAATATC
*
3790086 TGATAACCGTAAA
1 TGATAACTGTAAA
3790099 CATTTAGAAT
Statistics
Matches: 111, Mismatches: 15, Indels: 18
0.77 0.10 0.12
Matches are distributed among these distances:
16 6 0.05
17 58 0.52
18 44 0.40
19 3 0.03
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (17 bp):
TGATAACTGTAAATATC
Found at i:3790073 original size:52 final size:51
Alignment explanation
Indices: 3789947--3790074 Score: 154
Period size: 52 Copynumber: 2.5 Consensus size: 51
3789937 ATAAAACATA
* *
3789947 TGATATCTGTAAATATCTGATAGCTGTAATCATATGATATATGTAAATATC
1 TGATAACTGTAAATATCTGATAACTGTAATCATATGATATATGTAAATATC
*
3789998 TGATAACTGAAAATCATCTGATAACTGTAGAT-ATATGATA-ACTG-AAAGTCATC
1 TGATAACTGTAAAT-ATCTGATAACTGTA-ATCATATGATATA-TGTAAA-T-ATC
*
3790051 TGATAATTGTAAATATCTGATAAC
1 TGATAACTGTAAATATCTGATAAC
3790075 GGTGAAATGT
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
51 16 0.24
52 34 0.51
53 17 0.25
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (51 bp):
TGATAACTGTAAATATCTGATAACTGTAATCATATGATATATGTAAATATC
Found at i:3790088 original size:35 final size:34
Alignment explanation
Indices: 3789947--3790098 Score: 164
Period size: 35 Copynumber: 4.4 Consensus size: 34
3789937 ATAAAACATA
* * * *
3789947 TGATATCTGTAAATATCTGATAGCTGTAATCATA
1 TGATAACTGTAAATATCTGATAACTGAAATCATC
3789981 TGATATA-TGTAAATATCTGATAACTGAAAATCATC
1 TGATA-ACTGTAAATATCTGATAACTG-AAATCATC
* *
3790016 TGATAACTGTAGATATATGATAACTGAAAGTCATC
1 TGATAACTGTAAATATCTGATAACTGAAA-TCATC
* *
3790051 TGATAATTGTAAATATCTGATAACGGTGAAAT-GTC
1 TGATAACTGTAAATATCTGATAAC--TGAAATCATC
*
3790086 TGATAACCGTAAA
1 TGATAACTGTAAA
3790099 CATTTAGAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
34 27 0.27
35 67 0.67
36 1 0.01
37 5 0.05
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (34 bp):
TGATAACTGTAAATATCTGATAACTGAAATCATC
Found at i:3790092 original size:70 final size:69
Alignment explanation
Indices: 3789939--3790074 Score: 177
Period size: 69 Copynumber: 2.0 Consensus size: 69
3789929 TAATAACTAT
* * * * *
3789939 AAAA-CATATGATATCTGTAAATATCTGATAGCTGTAATCATATGATATATGTAAATATCTGATA
1 AAAATCATCTGATAACTGTAAATATATGATAACTGAAATCATATGATATATGTAAATATCTGATA
3790003 ACTG
66 ACTG
* *
3790007 AAAATCATCTGATAACTGTAGATATATGATAACTGAAAGTCATCTGATA-ATTGTAAATATCTGA
1 AAAATCATCTGATAACTGTAAATATATGATAACTGAAA-TCATATGATATA-TGTAAATATCTGA
3790071 TAAC
64 TAAC
3790075 GGTGAAATGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
68 4 0.07
69 28 0.48
70 26 0.45
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (69 bp):
AAAATCATCTGATAACTGTAAATATATGATAACTGAAATCATATGATATATGTAAATATCTGATA
ACTG
Found at i:3791052 original size:27 final size:27
Alignment explanation
Indices: 3791000--3791053 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
3790990 TTAAATATAA
*
3791000 AAATTGATAAAAATAAAATTGATACTT
1 AAATTGATAAAAATAAAATCGATACTT
3791027 AAATTGATATAAAACT-AAATCG-TACTT
1 AAATTGATA-AAAA-TAAAATCGATACTT
3791054 CCATCGTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 14 0.58
28 9 0.38
29 1 0.04
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (27 bp):
AAATTGATAAAAATAAAATCGATACTT
Found at i:3794788 original size:19 final size:20
Alignment explanation
Indices: 3794760--3794807 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
3794750 GCCAGTTTTA
* *
3794760 TATCAGTACC-AAGGGTGAG
1 TATCAATACCGAAGGGTCAG
* *
3794779 TATCCATACCGTAGGGTCAG
1 TATCAATACCGAAGGGTCAG
3794799 TATCAATAC
1 TATCAATAC
3794808 TAAAATGCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (20 bp):
TATCAATACCGAAGGGTCAG
Found at i:3801269 original size:21 final size:21
Alignment explanation
Indices: 3801243--3801289 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
3801233 GATGAAGTGG
* *
3801243 AAGTAGGTGAATTACCTTGGT
1 AAGTAGATGAAGTACCTTGGT
3801264 AAGTAGATGAAGTACCTTGGT
1 AAGTAGATGAAGTACCTTGGT
3801285 AAGTA
1 AAGTA
3801290 TCTCTGAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.30
Consensus pattern (21 bp):
AAGTAGATGAAGTACCTTGGT
Found at i:3802383 original size:29 final size:29
Alignment explanation
Indices: 3802341--3802396 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
3802331 TATAAAGGGT
* *
3802341 TTTCTAATATCCAAAAGTTCTGAAAAATG
1 TTTCTAATATCCAAAAATTATGAAAAATG
*
3802370 TTTCTAATCTCCAAAAATTATGAAAAA
1 TTTCTAATATCCAAAAATTATGAAAAA
3802397 AAAAGTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (29 bp):
TTTCTAATATCCAAAAATTATGAAAAATG
Found at i:3804972 original size:14 final size:15
Alignment explanation
Indices: 3804953--3804984 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
3804943 ACCTAGGGTG
3804953 GTATCGATAC-CCAA
1 GTATCGATACTCCAA
3804967 GTATCGATACTCCAA
1 GTATCGATACTCCAA
3804982 GTA
1 GTA
3804985 AGAGTATCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (15 bp):
GTATCGATACTCCAA
Found at i:3807281 original size:61 final size:60
Alignment explanation
Indices: 3807119--3807282 Score: 150
Period size: 60 Copynumber: 2.7 Consensus size: 60
3807109 ATGATTCTCA
* * *** ** * *
3807119 TCTAAATTAGTCCCTAAACTTCCAAATA-TTCCAATTTCATCCTTAAACTATGGCTTTGAT
1 TCTAAAATAGTCCCCAAACTTTTGAATACTT-CAATTTCATCCCCAAACAATGGCTTTCAT
* * ** * * **
3807179 TTTAAATTAGTCTTCTAACTTTTGAATATTTCAATGCCATCCCCAAACAATGGCTTTCAT
1 TCTAAAATAGTCCCCAAACTTTTGAATACTTCAATTTCATCCCCAAACAATGGCTTTCAT
3807239 TCTAAAATAGTCCCCAAACTTTTTGAATACTTCAATTTCATCCC
1 TCTAAAATAGTCCCCAAAC-TTTTGAATACTTCAATTTCATCCC
3807283 AAATTATATG
Statistics
Matches: 80, Mismatches: 22, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
60 57 0.71
61 23 0.29
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (60 bp):
TCTAAAATAGTCCCCAAACTTTTGAATACTTCAATTTCATCCCCAAACAATGGCTTTCAT
Found at i:3808108 original size:16 final size:16
Alignment explanation
Indices: 3808087--3808118 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3808077 CGTTAAAAAG
3808087 TTTAGAGACTAATTTA
1 TTTAGAGACTAATTTA
3808103 TTTAGAGACTAATTTA
1 TTTAGAGACTAATTTA
3808119 GAGTGAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
TTTAGAGACTAATTTA
Found at i:3808990 original size:28 final size:27
Alignment explanation
Indices: 3808944--3808999 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
3808934 TGCCATCTAA
* **
3808944 AAAATAAAATTATTTATATAATTGATAT
1 AAAATAAAATGATAGATAT-ATTGATAT
*
3808972 AAAATAAAATGATAGATATTTTGATAT
1 AAAATAAAATGATAGATATATTGATAT
3808999 A
1 A
3809000 TTGTGGCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (27 bp):
AAAATAAAATGATAGATATATTGATAT
Found at i:3809353 original size:2 final size:2
Alignment explanation
Indices: 3809346--3809379 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3809336 ATTATCGAGA
3809346 AT 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
3809380 TGGGTATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3810101 original size:20 final size:19
Alignment explanation
Indices: 3810076--3810137 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 19
3810066 CTAGTATATT
*
3810076 TTCTTTAAAAATTTGTTATA
1 TTCTTT-AAAATTAGTTATA
*
3810096 TTCTTTTTAAATTAGTT-TA
1 TTC-TTTAAAATTAGTTATA
3810115 TT-TTTAAAATTAG-TATA
1 TTCTTTAAAATTAGTTATA
3810132 TTCTTT
1 TTCTTT
3810138 TTTATTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 1 0.03
17 14 0.39
18 3 0.08
19 4 0.11
20 11 0.31
21 3 0.08
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (19 bp):
TTCTTTAAAATTAGTTATA
Found at i:3810370 original size:28 final size:26
Alignment explanation
Indices: 3810314--3810391 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 26
3810304 AAAATTTATG
* *
3810314 TAAATGTTTAATATTTTAT-TTAA-TT
1 TAAAT-TTTCATAATTTATATTAATTT
3810339 TAAAGTTTTCATGAATTTATATTAATTT
1 TAAA-TTTTCAT-AATTTATATTAATTT
*
3810367 TAAATTTTTATAATGTT-TATTAATT
1 TAAATTTTCATAAT-TTATATTAATT
3810392 AGGAAAATGA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
25 9 0.20
26 18 0.40
27 12 0.27
28 6 0.13
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (26 bp):
TAAATTTTCATAATTTATATTAATTT
Found at i:3812058 original size:21 final size:21
Alignment explanation
Indices: 3811986--3812058 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
3811976 TATGCCACTA
* *
3811986 CCGCAAGGTTACATTCATAGT
1 CCGCAAGGTTACATTCCTAGC
* * * * *
3812007 CCACAGGGGTACATACCCAGC
1 CCGCAAGGTTACATTCCTAGC
*
3812028 CCTCAAGGTTACATTCCTAGC
1 CCGCAAGGTTACATTCCTAGC
*
3812049 CCGCAGGGTT
1 CCGCAAGGTT
3812059 TTATGACACC
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (21 bp):
CCGCAAGGTTACATTCCTAGC
Found at i:3818404 original size:21 final size:22
Alignment explanation
Indices: 3818335--3818416 Score: 87
Period size: 23 Copynumber: 3.7 Consensus size: 22
3818325 ATAGGGCAGA
* *
3818335 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATTCCCCCTTGAAG
*
3818357 GGGAACCGATTCCCCCTTTGAAT
1 GGGAACCGATTCCCCC-TTGAAG
3818380 GGGAACCGATTCCCTCCTTG-A-
1 GGGAACCGATTCCC-CCTTGAAG
* *
3818401 GGGAATCGATACCCCC
1 GGGAACCGATTCCCCC
3818417 CACGGGTTCT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
20 2 0.04
21 12 0.23
22 15 0.28
23 22 0.42
24 2 0.04
ACGTcount: A:0.23, C:0.32, G:0.24, T:0.21
Consensus pattern (22 bp):
GGGAACCGATTCCCCCTTGAAG
Found at i:3825559 original size:20 final size:19
Alignment explanation
Indices: 3825529--3825582 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
3825519 ACAAGTAATG
*
3825529 AATTGGACAAAACCGATTGGA
1 AATT-GACAAAACCGACT-GA
* *
3825550 AATTGACAAAATCGGCTGA
1 AATTGACAAAACCGACTGA
3825569 AATTTGACAAAACC
1 AA-TTGACAAAACC
3825583 AGTAAAAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.14
20 20 0.71
21 4 0.14
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20
Consensus pattern (19 bp):
AATTGACAAAACCGACTGA
Found at i:3826762 original size:228 final size:226
Alignment explanation
Indices: 3826315--3826767 Score: 687
Period size: 226 Copynumber: 2.0 Consensus size: 226
3826305 GCACGTTGTC
* * *
3826315 GAAACCCTAGTTTTTTAGTATTACAGTAATTGGAAATAGGGGTTAGGTTTATGGGTTTAGGGTTT
1 GAAACCCTAGTTTTTTAGTATTACAATAATTGGAAATAGGGATTAGGTTTATGGGTTTAGGCTTT
* * * *
3826380 TTGAAGTAAAGAAACATTTGAGACCGATTATAGGTAAAAGTGATATTCTAGGTAGAAAATAAATA
66 TTAAAGCAAAGAAACATTTGAGACCGATTACAGGTAAAAGTGATATTATAGGTAGAAAATAAATA
3826445 TCGACACTTTTATATAATATTATAGGTAGAAATGATATTGTAGGTTGTATAAAGGTACCGATACT
131 TCGACACTTTTATATAATATTATAGGTAGAAATGATATTGTAGGTTGTATAAAGGTACCGATACT
3826510 TGTAATAGAGAGTATTCCCATTCCTTTGAAA
196 TGTAATAGAGAGTATTCCCATTCCTTTGAAA
**
3826541 GAAA-CCTAGTTTTTTTAGTATTACAAT-ATTTTAAATTAGGGATTAGGTTTATGGGTTT-GGCT
1 GAAACCCTAG-TTTTTTAGTATTACAATAATTGGAAA-TAGGGATTAGGTTTATGGGTTTAGGCT
** * *
3826603 TTTTCAAAGCAAAGAAGGATTTGGGACCGATTACAGTTAGAAAGTGATATTATAGGTAGAAAATA
64 TTTT-AAAGCAAAGAAACATTTGAGACCGATTACAGGTA-AAAGTGATATTATAGGTAGAAAATA
* *
3826668 AATATCGATACTTTTATATAATATTATATGTAGAAAATGATATTGTAGGTTGTATAAAGGTACCG
127 AATATCGACACTTTTATATAATATTATAGGTAG-AAATGATATTGTAGGTTGTATAAAGGTACCG
* *
3826733 ATACTTGTAGTAGAGAGTATTCTCATTCCTTTGAA
191 ATACTTGTAATAGAGAGTATTCCCATTCCTTTGAA
3826768 GGAATCTGTT
Statistics
Matches: 205, Mismatches: 17, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
225 18 0.09
226 68 0.33
227 55 0.27
228 64 0.31
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (226 bp):
GAAACCCTAGTTTTTTAGTATTACAATAATTGGAAATAGGGATTAGGTTTATGGGTTTAGGCTTT
TTAAAGCAAAGAAACATTTGAGACCGATTACAGGTAAAAGTGATATTATAGGTAGAAAATAAATA
TCGACACTTTTATATAATATTATAGGTAGAAATGATATTGTAGGTTGTATAAAGGTACCGATACT
TGTAATAGAGAGTATTCCCATTCCTTTGAAA
Found at i:3827865 original size:20 final size:21
Alignment explanation
Indices: 3827822--3827867 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
3827812 GTAAACATAA
* *
3827822 AGTATCGATACTTATTATTCC
1 AGTATCGAAACTTATTACTCC
3827843 AGTATCGAAACTT-TTACTCC
1 AGTATCGAAACTTATTACTCC
3827863 AGTAT
1 AGTAT
3827868 GCATCTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (21 bp):
AGTATCGAAACTTATTACTCC
Found at i:3828030 original size:20 final size:19
Alignment explanation
Indices: 3828002--3828044 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
3827992 TAAATAGAAA
* *
3828002 GTATTGATACGTTTTGTATG
1 GTATCGATAC-TTTAGTATG
*
3828022 GTATCGATACTTTAGTTTG
1 GTATCGATACTTTAGTATG
3828041 GTAT
1 GTAT
3828045 GCTTATCAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.21, C:0.07, G:0.23, T:0.49
Consensus pattern (19 bp):
GTATCGATACTTTAGTATG
Found at i:3828287 original size:20 final size:20
Alignment explanation
Indices: 3828240--3828312 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
3828230 ATAGGTAAGG
* *
3828240 AATTTGAAAAAAACCGATTAGA
1 AATTTGACAAAAA-CGGTTA-A
3828262 AA-TTGACAAAAACGGTTAA
1 AATTTGACAAAAACGGTTAA
*
3828281 AATTTGACAAAACCGGTTAA
1 AATTTGACAAAAACGGTTAA
3828301 AATTTGACAAAA
1 AATTTGACAAAA
3828313 TCGATAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
19 3 0.06
20 33 0.70
21 9 0.19
22 2 0.04
ACGTcount: A:0.52, C:0.11, G:0.14, T:0.23
Consensus pattern (20 bp):
AATTTGACAAAAACGGTTAA
Found at i:3834740 original size:12 final size:12
Alignment explanation
Indices: 3834723--3834749 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3834713 ATTAAAATTA
3834723 CAAGAATTAATG
1 CAAGAATTAATG
3834735 CAAGAATTAATG
1 CAAGAATTAATG
3834747 CAA
1 CAA
3834750 CTATCATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22
Consensus pattern (12 bp):
CAAGAATTAATG
Found at i:3835258 original size:2 final size:2
Alignment explanation
Indices: 3835251--3835287 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3835241 TCAATCTACA
3835251 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 A
3835288 ATTTACGACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3835377 original size:13 final size:13
Alignment explanation
Indices: 3835359--3835401 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
3835349 AATGACAGAC
*
3835359 AATGTAAGTCGTA
1 AATGTAAGTCATA
3835372 AATGTAAGTCATA
1 AATGTAAGTCATA
3835385 AATGTAAGTCATA
1 AATGTAAGTCATA
3835398 AATG
1 AATG
3835402 CGTGTCATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (13 bp):
AATGTAAGTCATA
Found at i:3835408 original size:26 final size:26
Alignment explanation
Indices: 3835359--3835413 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
3835349 AATGACAGAC
* *
3835359 AATGTAAGTCGTAAATGTAAGTCATA
1 AATGTAAGTCATAAATGCAAGTCATA
**
3835385 AATGTAAGTCATAAATGCGTGTCATA
1 AATGTAAGTCATAAATGCAAGTCATA
3835411 AAT
1 AAT
3835414 TTATGACACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (26 bp):
AATGTAAGTCATAAATGCAAGTCATA
Found at i:3835488 original size:13 final size:13
Alignment explanation
Indices: 3835470--3835521 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
3835460 AATGACGCGC
*
3835470 AATGCGCGTCATA
1 AATGCGTGTCATA
3835483 AATGCGTGTCATA
1 AATGCGTGTCATA
**
3835496 AATGTTTGTCATA
1 AATGCGTGTCATA
3835509 AATGCGTGTCATA
1 AATGCGTGTCATA
3835522 GATTTATGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (13 bp):
AATGCGTGTCATA
Found at i:3835547 original size:111 final size:112
Alignment explanation
Indices: 3835379--3835582 Score: 286
Period size: 111 Copynumber: 1.8 Consensus size: 112
3835369 GTAAATGTAA
*
3835379 GTCATAAATGTAAGTCATAAATGCGTGTCATAAATTTATGACACACAAATCTATGTCATCT-TCA
1 GTCATAAATGTAAGTCATAAATGCGTGTCATAAATTTATGACACACAAATCTATGTCATCTGACA
* *
3835443 TTTATGAAGGGGGCTTCAATGACGCGCAATGCGCGTCATAAATGCGT
66 TTTATGAAGGGGACCTCAATGACGCGCAATGCGCGTCATAAATGCGT
** * * * *
3835490 GTCATAAATGTTTGTCATAAATGCGTGTCATAGATTTATGACACACAATTGC-GTGTCATCTGAG
1 GTCATAAATGTAAGTCATAAATGCGTGTCATAAATTTATGACACACAAAT-CTATGTCATCTGAC
* *
3835554 ATTTATGACGGTGACCTCAATGACGCGCA
65 ATTTATGAAGGGGACCTCAATGACGCGCA
3835583 TTTGTGTGTC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
111 54 0.68
112 26 0.32
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (112 bp):
GTCATAAATGTAAGTCATAAATGCGTGTCATAAATTTATGACACACAAATCTATGTCATCTGACA
TTTATGAAGGGGACCTCAATGACGCGCAATGCGCGTCATAAATGCGT
Found at i:3836164 original size:66 final size:66
Alignment explanation
Indices: 3836058--3836316 Score: 385
Period size: 66 Copynumber: 3.9 Consensus size: 66
3836048 GAATACCATG
** * *
3836058 AGTGGCACCTTTTATGCCGATAATGCATTGTTATTCATTAATCAAAATCGATCAATAATTTTCAT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTAATCAAAATCGATCGATAATTTTCAT
3836123 T
66 T
*
3836124 AGTGGCACCTTTTATGCCGATAATGCACTGTTATGCATTAATCAAAATCGATCGATAATTTTCAT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTAATCAAAATCGATCGATAATTTTCAT
3836189 T
66 T
* * * * * *
3836190 AATGTCACATTTTATGCCAATTATGCACCGTTATGCATTAACCAAAATCGATCGATAATTTTCAT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTAATCAAAATCGATCGATAATTTTCAT
3836255 T
66 T
* * *
3836256 AGTGGCACCTTTTATGCCTATAATGAACCGTTATGAATTAATCAAAATCGATC-ATAATTTT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTAATCAAAATCGATCGATAATTTT
3836317 AACCTATTCA
Statistics
Matches: 175, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
65 8 0.05
66 167 0.95
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (66 bp):
AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTAATCAAAATCGATCGATAATTTTCAT
T
Done.