Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009617.1 Hibiscus syriacus cultivar Beakdansim tig00117005_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: 3386631
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 16
Found at i:3053659 original size:21 final size:21
Alignment explanation
Indices: 3053570--3053661 Score: 73
Period size: 21 Copynumber: 4.3 Consensus size: 21
3053560 CCCTTGCTAG
3053570 GTATCAATACCCCTTCAACGT
1 GTATCAATACCCCTTCAACGT
* * *
3053591 GTATCGATACCCTCTTTGAATGT
1 GTATCAATACCC-C-TTCAACGT
* *
3053614 GTAAT-GATACCCCCTTGCTA-G-
1 GT-ATCAATA-CCCCTT-CAACGT
3053635 GTATCAATACCCCTTCAACGT
1 GTATCAATACCCCTTCAACGT
3053656 GTATCA
1 GTATCA
3053662 CACCCTCTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
19 2 0.04
20 9 0.16
21 22 0.39
22 4 0.07
23 14 0.25
24 5 0.09
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (21 bp):
GTATCAATACCCCTTCAACGT
Found at i:3054135 original size:19 final size:19
Alignment explanation
Indices: 3054111--3054156 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
3054101 GAAATAAAAA
3054111 TGTTTTGATTTTAAAT-TGT
1 TGTTTTGA-TTTAAATATGT
* *
3054130 TGTTTTTATTTAATTATGT
1 TGTTTTGATTTAAATATGT
3054149 TGTTTTGA
1 TGTTTTGA
3054157 AAACTACATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.20, C:0.00, G:0.15, T:0.65
Consensus pattern (19 bp):
TGTTTTGATTTAAATATGT
Found at i:3054187 original size:13 final size:13
Alignment explanation
Indices: 3054162--3054201 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
3054152 TTTGAAAACT
3054162 ACATTGATTTTCAA
1 ACATTG-TTTTCAA
3054176 ACATTGTTTTC-A
1 ACATTGTTTTCAA
*
3054188 ACATAGTTTTCAA
1 ACATTGTTTTCAA
3054201 A
1 A
3054202 TTGCCCATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 11 0.46
13 7 0.29
14 6 0.25
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.42
Consensus pattern (13 bp):
ACATTGTTTTCAA
Found at i:3055790 original size:13 final size:14
Alignment explanation
Indices: 3055759--3055792 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
3055749 AGGGGGAGTA
3055759 ATTTTCAAAAATTG
1 ATTTTCAAAAATTG
3055773 A-TTTCAAAAA-TG
1 ATTTTCAAAAATTG
3055785 ATTTTCAA
1 ATTTTCAA
3055793 TAAGAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 15 0.79
14 1 0.05
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (14 bp):
ATTTTCAAAAATTG
Found at i:3058125 original size:76 final size:77
Alignment explanation
Indices: 3058034--3058187 Score: 301
Period size: 76 Copynumber: 2.0 Consensus size: 77
3058024 TCTTTCTTCC
3058034 CTTCTTTCTCTGATCTCTCACGAGCAACCGAGCCTTTTGTTAATGGAGTTGATGAAATCAGACGA
1 CTTCTTTCTCTGATCTCTCACGAGCAACCGAGCCTTTTGTTAATGGAGTTGATGAAATCAGACGA
3058099 TACTG-TCTGAA
66 TACTGTTCTGAA
3058110 CTTCTTTCTCTGATCTCTCACGAGCAACCGAGCCTTTTGTTAATGGAGTTGATGAAATCAGACGA
1 CTTCTTTCTCTGATCTCTCACGAGCAACCGAGCCTTTTGTTAATGGAGTTGATGAAATCAGACGA
3058175 TACTGTTCTGAA
66 TACTGTTCTGAA
3058187 C
1 C
3058188 AGACAACCTT
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
76 70 0.91
77 7 0.09
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (77 bp):
CTTCTTTCTCTGATCTCTCACGAGCAACCGAGCCTTTTGTTAATGGAGTTGATGAAATCAGACGA
TACTGTTCTGAA
Found at i:3058230 original size:3 final size:3
Alignment explanation
Indices: 3058222--3058252 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
3058212 ATGCAGAAAC
*
3058222 AGA AGA AGA GGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
3058253 CGTCGCCGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:3067407 original size:7 final size:7
Alignment explanation
Indices: 3067395--3067422 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
3067385 GAATTTGTTC
3067395 GATGATG
1 GATGATG
3067402 GATGATG
1 GATGATG
3067409 GATGATG
1 GATGATG
3067416 GATGATG
1 GATGATG
3067423 AATTAAGGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.43, T:0.29
Consensus pattern (7 bp):
GATGATG
Found at i:3072852 original size:109 final size:109
Alignment explanation
Indices: 3072728--3072942 Score: 396
Period size: 109 Copynumber: 2.0 Consensus size: 109
3072718 TCTATTAATC
3072728 CAATAAAATACTTTGTATGATTGTTATGATATGTCTACATATTAAATGTATATACTACGTAAAAT
1 CAATAAAATACTTTGTATGATTGTTATGATATGTCTACATATTAAATGTATATACTACGTAAAAT
3072793 AT-TTTTAAATTTTTTAATAATTTATAAGTTATCATTTTATGAT
66 ATATTTTAAATTTTTTAATAATTTATAAGTTATCATTTTATGAT
*
3072836 CAATAAAAATACTTTGTATGATTGTTATGATATGTCTACATATTATATGTATATACTACGTAAAA
1 CAAT-AAAATACTTTGTATGATTGTTATGATATGTCTACATATTAAATGTATATACTACGTAAAA
*
3072901 TATATTTTAAATTTTTTAATAATTTATAAGTTATTATTTTAT
65 TATATTTTAAATTTTTTAATAATTTATAAGTTATCATTTTAT
3072943 AACTATATAT
Statistics
Matches: 103, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
108 4 0.04
109 62 0.60
110 37 0.36
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (109 bp):
CAATAAAATACTTTGTATGATTGTTATGATATGTCTACATATTAAATGTATATACTACGTAAAAT
ATATTTTAAATTTTTTAATAATTTATAAGTTATCATTTTATGAT
Found at i:3072998 original size:2 final size:2
Alignment explanation
Indices: 3072991--3073016 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3072981 GGTATTTTTA
3072991 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
3073017 TCAATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3074337 original size:21 final size:22
Alignment explanation
Indices: 3074313--3074356 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
3074303 TCAATACTAT
* *
3074313 ATATGATTATTTAATTA-ATTA
1 ATATGATAAATTAATTACATTA
*
3074334 ATATTATAAATTAATTACATTA
1 ATATGATAAATTAATTACATTA
3074356 A
1 A
3074357 CGATTTTACC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATGATAAATTAATTACATTA
Found at i:3075751 original size:29 final size:30
Alignment explanation
Indices: 3075719--3075778 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
3075709 ATTTCGTCAA
3075719 TAAAT-ATTTCTTATAAATT-TTATTGTGAC
1 TAAATAATTTCTTAT-AATTCTTATTGTGAC
3075748 TAAATAAATTTCTTATAATTCGTTATTGTGA
1 TAAAT-AATTTCTTATAATTC-TTATTGTGA
3075779 AAGAATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 5 0.19
30 4 0.15
31 9 0.33
32 9 0.33
ACGTcount: A:0.35, C:0.07, G:0.08, T:0.50
Consensus pattern (30 bp):
TAAATAATTTCTTATAATTCTTATTGTGAC
Found at i:3076417 original size:37 final size:35
Alignment explanation
Indices: 3076365--3076433 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 35
3076355 ATTAATATTT
* *
3076365 TTTATAAATCTTAATAATAAAACTAATATTAAATA
1 TTTATAAATCTTAATAATAAAAATAACATTAAATA
*
3076400 TTTATAAATCTTATAATAGTAAAAATAACATTAA
1 TTTATAAATC-T-TAATAATAAAAATAACATTAA
3076434 TAGCATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 10 0.34
36 1 0.03
37 18 0.62
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (35 bp):
TTTATAAATCTTAATAATAAAAATAACATTAAATA
Found at i:3079254 original size:18 final size:18
Alignment explanation
Indices: 3079233--3079280 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
3079223 TCCACTTTGG
3079233 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
* *
3079251 GAGCTATCATCTCACCCA
1 GAGCCATCACCTCACCCA
3079269 GAGCCATCACCT
1 GAGCCATCACCT
3079281 GATCGACCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.27, C:0.44, G:0.12, T:0.17
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:3079860 original size:19 final size:20
Alignment explanation
Indices: 3079817--3079861 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
3079807 TTTCGCACGA
3079817 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
3079837 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
3079856 AAATGA
1 AAATGA
3079862 AAATCGTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:3079867 original size:19 final size:19
Alignment explanation
Indices: 3079845--3079908 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
3079835 GGAAATGGCT
3079845 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
3079864 ATCGTAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
3079878 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
3079897 ATCGCAATGCGA
1 ATCGCAATGCGA
3079909 TTTGTGTTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
14 9 0.26
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 20 0.57
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:3079980 original size:20 final size:20
Alignment explanation
Indices: 3079946--3080000 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
3079936 TTACGATTTT
*
3079946 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
3079965 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
3079985 CATTTCCGCGTTGCGA
1 CATTTCCGCGTTGCGA
3080001 AAGTAAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:3081897 original size:14 final size:14
Alignment explanation
Indices: 3081863--3081901 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
3081853 TTGATTGTTT
3081863 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
3081877 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
3081891 TGTTGATTTGT
1 AATTGATTTGT
3081902 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:3082047 original size:14 final size:14
Alignment explanation
Indices: 3082028--3082081 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
3082018 GAAACTGACT
3082028 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
3082042 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
3082061 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
3082075 ATCGCAA
1 ATCGCAA
3082082 TGCGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:3082130 original size:20 final size:20
Alignment explanation
Indices: 3082113--3082200 Score: 115
Period size: 20 Copynumber: 4.4 Consensus size: 20
3082103 CAATTTTCTA
3082113 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
3082133 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
*
3082153 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
3082173 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
3082193 GTTGCGAT
1 GTTGCGAT
3082201 TTCCCCGTGC
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 3 0.05
20 50 0.89
21 3 0.05
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.39
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:3082143 original size:34 final size:36
Alignment explanation
Indices: 3082093--3082180 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 36
3082083 GCGATTTTCA
* * *
3082093 TTTCGCATTGCAATTTTC-T-AGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAT
3082127 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGA-TTTTC--TTC-AATTGCGATAGCCAT
3082167 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
3082181 AGCCATTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
34 11 0.24
35 5 0.11
38 1 0.02
39 1 0.02
40 27 0.60
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (36 bp):
TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAT
Found at i:3082431 original size:19 final size:19
Alignment explanation
Indices: 3082407--3082454 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
3082397 TTGAAGATGA
3082407 TTGCGATTTCAGAATCTCG
1 TTGCGATTTCAGAATCTCG
**
3082426 TTGCGAAAGTCAGAATCTCG
1 TTGCG-ATTTCAGAATCTCG
3082446 TTGCGATTT
1 TTGCGATTT
3082455 GTATTATCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (19 bp):
TTGCGATTTCAGAATCTCG
Found at i:3082482 original size:20 final size:20
Alignment explanation
Indices: 3082415--3082493 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
3082405 GATTGCGATT
*
3082415 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCTCGTTGCGATAG
*
3082435 TCAGAATCTCGTTGCGATTTG
1 TCAGAATCTCGTTGCGA-TAG
** *
3082456 T-ATTATCTAGTTGCGATAG
1 TCAGAATCTCGTTGCGATAG
* * *
3082475 TCAGTATCGCATTGCGATA
1 TCAGAATCTCGTTGCGATA
3082494 TTCCAAATTC
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 3 0.06
20 42 0.89
21 2 0.04
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
TCAGAATCTCGTTGCGATAG
Found at i:3083333 original size:22 final size:22
Alignment explanation
Indices: 3083307--3083351 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
3083297 GAAATTGATC
3083307 TTGGTCAATACCCGGACTTTGA
1 TTGGTCAATACCCGGACTTTGA
* *
3083329 TTGGTCAATACTCGGATTTTGA
1 TTGGTCAATACCCGGACTTTGA
3083351 T
1 T
3083352 GATGTTTCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (22 bp):
TTGGTCAATACCCGGACTTTGA
Found at i:3085789 original size:19 final size:18
Alignment explanation
Indices: 3085765--3085913 Score: 61
Period size: 19 Copynumber: 8.7 Consensus size: 18
3085755 TCTTAATGTC
*
3085765 TATCGCAACGCGGAAATTA
1 TATCGCAACGC-GAAATGA
*
3085784 TATCGCAATGCGAAATGA
1 TATCGCAACGCGAAATGA
* * *
3085802 AATCGCAA--AGAGA-GA
1 TATCGCAACGCGAAATGA
*
3085817 -ATCGCAATGCGAAATGAA
1 TATCGCAACGCGAAATG-A
*
3085835 AATCGCAACGCG-AAT--
1 TATCGCAACGCGAAATGA
* *
3085850 T-TCACAATGCGAAATGAA
1 TATCGCAACGCGAAATG-A
* **
3085868 AATCGCAA--CG-AGGGA
1 TATCGCAACGCGAAATGA
3085883 -ATCGCAACGCGAAATGAA
1 TATCGCAACGCGAAATG-A
*
3085901 AATCGCAACGCGA
1 TATCGCAACGCGA
3085914 TTTTAGTTTC
Statistics
Matches: 98, Mismatches: 17, Indels: 30
0.68 0.12 0.21
Matches are distributed among these distances:
14 22 0.22
15 6 0.06
16 10 0.10
17 5 0.05
18 18 0.18
19 37 0.38
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (18 bp):
TATCGCAACGCGAAATGA
Found at i:3085858 original size:33 final size:31
Alignment explanation
Indices: 3085785--3085913 Score: 152
Period size: 33 Copynumber: 4.0 Consensus size: 31
3085775 CGGAAATTAT
* *
3085785 ATCGCAATGCGAAATG-AAATCGCAAAGAGAGA
1 ATCGCAATGCGAAATGAAAATCGC-AA-CGCGA
3085817 ATCGCAATGCGAAATGAAAATCGCAACGCGA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGA
* *
3085848 ATTTCACAATGCGAAATGAAAATCGCAACGAGGGA
1 A--TCGCAATGCGAAATGAAAATCGCAAC--GCGA
*
3085883 ATCGCAACGCGAAATGAAAATCGCAACGCGA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGA
3085914 TTTTAGTTTC
Statistics
Matches: 85, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
31 7 0.08
32 18 0.21
33 56 0.66
35 4 0.05
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (31 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGA
Found at i:3085886 original size:66 final size:65
Alignment explanation
Indices: 3085789--3085913 Score: 214
Period size: 66 Copynumber: 1.9 Consensus size: 65
3085779 AATTATATCG
*
3085789 CAATGCGAAATGAAATCGCAAAGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTTCA
1 CAATGCGAAATGAAATCGCAAAGAGAGAATCGCAACGCGAAATGAAAATCGCAACGCGAATTTCA
* *
3085854 CAATGCGAAATGAAAATCGCAACGAGGGAATCGCAACGCGAAATGAAAATCGCAACGCGA
1 CAATGCGAAATG-AAATCGCAAAGAGAGAATCGCAACGCGAAATGAAAATCGCAACGCGA
3085914 TTTTAGTTTC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
65 12 0.21
66 44 0.79
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (65 bp):
CAATGCGAAATGAAATCGCAAAGAGAGAATCGCAACGCGAAATGAAAATCGCAACGCGAATTTCA
Found at i:3085925 original size:19 final size:19
Alignment explanation
Indices: 3085903--3085944 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
3085893 GAAATGAAAA
3085903 TCGCAACGCGATTTTAGTT
1 TCGCAACGCGATTTTAGTT
***
3085922 TCGCGTTGCGATTTTAGTT
1 TCGCAACGCGATTTTAGTT
3085941 TCGC
1 TCGC
3085945 GTTACGATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.40
Consensus pattern (19 bp):
TCGCAACGCGATTTTAGTT
Found at i:3085945 original size:19 final size:19
Alignment explanation
Indices: 3085910--3085972 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
3085900 AAATCGCAAC
3085910 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
3085929 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
3085948 ACGATTTTCA-TTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
3085967 GCGATT
1 GCGATT
3085973 CTCTCGTTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
19 40 0.98
20 1 0.02
ACGTcount: A:0.13, C:0.17, G:0.24, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:3085982 original size:14 final size:14
Alignment explanation
Indices: 3085963--3086018 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
3085953 TTTCATTTCG
3085963 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
3085977 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
3085995 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
3086009 CGTTGCGATT
1 CGTTGCGATT
3086019 TCATTGCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 20 0.56
15 3 0.08
17 3 0.08
18 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:3085991 original size:32 final size:32
Alignment explanation
Indices: 3085944--3086023 Score: 142
Period size: 32 Copynumber: 2.5 Consensus size: 32
3085934 TTTAGTTTCG
*
3085944 CGTTACGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGA-TTTCATTTCGCGTTGCGATTCTCT
3085977 CGTTGCGATTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTCATTTCGCGTTGCGATTCTCT
3086009 CGTTGCGATTTCATT
1 CGTTGCGATTTCATT
3086024 GCATTACGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 39 0.85
33 7 0.15
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (32 bp):
CGTTGCGATTTCATTTCGCGTTGCGATTCTCT
Found at i:3086157 original size:14 final size:14
Alignment explanation
Indices: 3086138--3086173 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3086128 CATCAATTAA
3086138 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
3086152 ACAAATCACCTTTT
1 ACAAATCAACTTTT
3086166 AC-AATCAA
1 ACAAATCAA
3086174 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:3087556 original size:21 final size:21
Alignment explanation
Indices: 3087491--3087556 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 21
3087481 GTGAATCGGG
*
3087491 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** *
3087511 CCTCTTCAACGATGACAGTGG-
1 -CTCTTGAACGGTGGGAGGGGA
3087532 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
3087553 CTCT
1 CTCT
3087557 CGAGGAAGAT
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
20 15 0.47
21 15 0.47
22 2 0.06
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:3087974 original size:89 final size:89
Alignment explanation
Indices: 3087823--3087999 Score: 270
Period size: 89 Copynumber: 2.0 Consensus size: 89
3087813 TATTCAAACT
3087823 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATCCAGTTTAGCAG
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAA-CCAGTTTAGCAG
3087888 -AATGGCAACAACCGAATAAATTAC
65 TAATGGCAACAACCGAATAAATTAC
*
3087912 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACATTGTTAATA-AA-CAGTTTAGC
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAA-AGAACCAGTTTAGC
* *
3087975 AGTATTGGCAGCAACCGAATAAATT
63 AGTAATGGCAACAACCGAATAAATT
3088000 TACTAAGCAA
Statistics
Matches: 81, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
89 30 0.37
90 20 0.25
91 30 0.37
92 1 0.01
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (89 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAACCAGTTTAGCAGT
AATGGCAACAACCGAATAAATTAC
Found at i:3089697 original size:20 final size:19
Alignment explanation
Indices: 3089666--3089787 Score: 84
Period size: 20 Copynumber: 6.8 Consensus size: 19
3089656 TCTTTTGGTT
3089666 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
3089685 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
3089706 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
3089725 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
3089739 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
3089758 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
3089772 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
3089788 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 11, Indels: 24
0.70 0.10 0.21
Matches are distributed among these distances:
14 20 0.25
16 4 0.05
17 4 0.05
19 21 0.26
20 29 0.36
21 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:3089734 original size:14 final size:14
Alignment explanation
Indices: 3089715--3089770 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
3089705 GGAAATGACT
3089715 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
3089729 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
3089746 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
3089762 ATCGCAACG
1 ATCGCAACG
3089771 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 6 0.17
19 7 0.20
ACGTcount: A:0.39, C:0.25, G:0.25, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:3089748 original size:33 final size:33
Alignment explanation
Indices: 3089691--3089787 Score: 167
Period size: 33 Copynumber: 2.9 Consensus size: 33
3089681 ACGAGATAAT
3089691 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
3089725 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
3089758 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA
3089788 TGCGATTTTG
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 47 0.77
34 14 0.23
ACGTcount: A:0.41, C:0.23, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:3090378 original size:20 final size:20
Alignment explanation
Indices: 3090353--3090445 Score: 84
Period size: 20 Copynumber: 4.6 Consensus size: 20
3090343 GCTATGTAAA
3090353 TCGCATTGCGATAGTAAGAT
1 TCGCATTGCGATAGTAAGAT
* *
3090373 TCGCATTGCGAT-TTACGTAT
1 TCGCATTGCGATAGTAAG-AT
* *
3090393 TCGCATTGCGAATTAGGAAAAT
1 TCGCATTGCG-A-TAGTAAGAT
*
3090415 T-GCATTGCGATAGTCAG-T
1 TCGCATTGCGATAGTAAGAT
3090433 ATCGCATTGCGAT
1 -TCGCATTGCGAT
3090446 TTTCCAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
18 1 0.02
19 8 0.14
20 35 0.60
21 9 0.16
22 4 0.07
23 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (20 bp):
TCGCATTGCGATAGTAAGAT
Found at i:3090438 original size:41 final size:40
Alignment explanation
Indices: 3090352--3090500 Score: 108
Period size: 41 Copynumber: 3.7 Consensus size: 40
3090342 CGCTATGTAA
* * *
3090352 ATCGCATTGCG-ATAGTAAGATTCGCATTGCGATTTACGT
1 ATCGCATTGCGAATAGGAAAATTCGCATTGCGATTCACGT
3090391 ATTCGCATTGCGAATTAGGAAAATT-GCATTGCGATAGTCA-GT
1 A-TCGCATTGCGAA-TAGGAAAATTCGCATTGCGAT--TCACGT
* **** * *
3090433 ATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTT
1 ATCGCATTGCGAATAGGAAAATTCGCATTGCGATTCACGT
* *
3090473 ATTCACATTGCGAATTGGGAAAA-TCGCA
1 A-TCGCATTGCGAA-TAGGAAAATTCGCA
3090501 ACGCGAAATT
Statistics
Matches: 85, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
39 3 0.04
40 18 0.21
41 47 0.55
42 15 0.18
43 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (40 bp):
ATCGCATTGCGAATAGGAAAATTCGCATTGCGATTCACGT
Found at i:3090527 original size:21 final size:22
Alignment explanation
Indices: 3090478--3090527 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
3090468 TACTTATTCA
3090478 CATTGCG-AATTGGGAAAATCG
1 CATTGCGAAATTGGGAAAATCG
**
3090499 CAACGCGAAATT-GGAAAATCG
1 CATTGCGAAATTGGGAAAATCG
3090520 CATTGCGA
1 CATTGCGA
3090528 TAGTCATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (22 bp):
CATTGCGAAATTGGGAAAATCG
Found at i:3094840 original size:22 final size:21
Alignment explanation
Indices: 3094815--3094865 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
3094805 TTTAATTAGA
* *
3094815 TTATTTTTATTTTATTTTGATT
1 TTATTTTTAATTT-TTTGGATT
3094837 TTATATTTTAATTTTTTGGATT
1 TTAT-TTTTAATTTTTTGGATT
3094859 TTATTTT
1 TTATTTT
3094866 AACAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 3 0.12
22 15 0.58
23 8 0.31
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.75
Consensus pattern (21 bp):
TTATTTTTAATTTTTTGGATT
Found at i:3094845 original size:18 final size:18
Alignment explanation
Indices: 3094817--3094851 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3094807 TAATTAGATT
3094817 ATTTTTATTTT-ATTTTG
1 ATTTTTATTTTAATTTTG
3094834 ATTTTATATTTTAATTTT
1 ATTTT-TATTTTAATTTT
3094852 TTGGATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
ATTTTTATTTTAATTTTG
Found at i:3097816 original size:19 final size:19
Alignment explanation
Indices: 3097770--3097821 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
3097760 CACAATTTGG
*
3097770 TAATTTTAAAAAAATTATT
1 TAATTTTAAAAAAATTATA
**
3097789 TAAAATTAAAAAAATTATA
1 TAATTTTAAAAAAATTATA
*
3097808 TATTTTTAAAAAAA
1 TAATTTTAAAAAAA
3097822 GAAAACATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAATTTTAAAAAAATTATA
Found at i:3098576 original size:202 final size:198
Alignment explanation
Indices: 3098183--3098583 Score: 766
Period size: 202 Copynumber: 2.0 Consensus size: 198
3098173 TGGAGGTGGG
3098183 CGATCGAATGATTTCCTTGCGATTAAGCTCAACGGTGACGATTTCGAGTGATTTGAAGAGGGTCG
1 CGATCGAATGATTTCCTTGCGATTAAGCTCAACGGTGACGATTTCGAGTGATTTGAAGAGGGTCG
3098248 GGTTGAGGTCGTCGGTTGCTGCTGAGTTTGGTGGAAGTGGTGGTGTACACCACTGGTCCGAGAAG
66 GGTTGAGGTCGTCGGTTGCTGCTGAGTTTGGTGGAAGTGGTGGTGTACACCACTGGTCCGAGAAG
3098313 GGTGGTTCGGTGATATGGTTAAAGGTTAATGGGTTGAAATGAATGTTTTCAAAGTTTTGGGGTTA
131 GGTGGTTCGGTGATATGGTTAAAGGTTAATGGGTTGAAATGAATGTTTTCAAAGTTTTGGGGTTA
3098378 TTT
196 TTT
3098381 CGATCGAATGATTTCCTTGCGATTAAGCTCAACGGTGACCGATTTCGAGTGATTTGAAGAGGGTC
1 CGATCGAATGATTTCCTTGCGATTAAGCTCAACGGTGA-CGATTTCGAGTGATTTGAAGAGGGTC
3098446 GGGTTGAGGTCGTCGGTTGCTGCTGAGTTTGGTGGAAGTGGTGGTGTACACCACCACTGGTCCGA
65 GGGTTGAGGTCGTCGGTTGCTGCTGAGTTTGGTGGAAGTGGTGGTGT--A-CACCACTGGTCCGA
3098511 GAAGGGTGGTTCGGTGATATGGTTAAAGGTTAATGGGTTGAAATGAATGTTTTCAAAGTTTTGGG
127 GAAGGGTGGTTCGGTGATATGGTTAAAGGTTAATGGGTTGAAATGAATGTTTTCAAAGTTTTGGG
3098576 GTTATTT
192 GTTATTT
3098583 C
1 C
3098584 AAAAATTTTG
Statistics
Matches: 199, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
198 38 0.19
199 73 0.37
201 1 0.01
202 87 0.44
ACGTcount: A:0.21, C:0.12, G:0.34, T:0.32
Consensus pattern (198 bp):
CGATCGAATGATTTCCTTGCGATTAAGCTCAACGGTGACGATTTCGAGTGATTTGAAGAGGGTCG
GGTTGAGGTCGTCGGTTGCTGCTGAGTTTGGTGGAAGTGGTGGTGTACACCACTGGTCCGAGAAG
GGTGGTTCGGTGATATGGTTAAAGGTTAATGGGTTGAAATGAATGTTTTCAAAGTTTTGGGGTTA
TTT
Found at i:3098649 original size:21 final size:20
Alignment explanation
Indices: 3098601--3098652 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
3098591 TTGTGTTTTC
3098601 TTTTTTTTTTAATATATAAT
1 TTTTTTTTTTAATATATAAT
* *
3098621 TTTATTTTTTTAAT-TTTAAA
1 TTT-TTTTTTTAATATATAAT
*
3098641 TATTTTTTTTAA
1 TTTTTTTTTTAA
3098653 ATTATCAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 9 0.32
20 9 0.32
21 10 0.36
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTTTTTAATATATAAT
Found at i:3100788 original size:29 final size:28
Alignment explanation
Indices: 3100751--3100813 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
3100741 TTAATTTGGA
* *
3100751 AAAAGATTTCTCTTTTGATTGAAAATTAT
1 AAAATATTTCTC-CTTGATTGAAAATTAT
* * *
3100780 AAAATATTTGTCCTTGATTGTAATTTAT
1 AAAATATTTCTCCTTGATTGAAAATTAT
3100808 AAAATA
1 AAAATA
3100814 AATGTTCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (28 bp):
AAAATATTTCTCCTTGATTGAAAATTAT
Found at i:3100879 original size:28 final size:29
Alignment explanation
Indices: 3100825--3100897 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 29
3100815 ATGTTCTTCT
3100825 ATTATAATTT--AAAAAGATTTACCCTAC
1 ATTATAATTTACAAAAAGATTTACCCTAC
*
3100852 ATTATAATTTACAAAAAGATTT-TCCTAC
1 ATTATAATTTACAAAAAGATTTACCCTAC
*
3100880 ATTATAATTCACAAAAAG
1 ATTATAATTTACAAAAAG
3100898 GATTGTCATT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
27 10 0.24
28 22 0.52
29 10 0.24
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.36
Consensus pattern (29 bp):
ATTATAATTTACAAAAAGATTTACCCTAC
Found at i:3102456 original size:57 final size:60
Alignment explanation
Indices: 3102382--3102495 Score: 207
Period size: 57 Copynumber: 1.9 Consensus size: 60
3102372 AAAAATAAAA
3102382 ATATATATCTTATAGGTGCTTCTAAGTTTAGTTTAATTA-TA-TAAACTAATGAATAATT
1 ATATATATCTTATAGGTGCTTCTAAGTTTAGTTTAATTATTATTAAACTAATGAATAATT
3102440 ATATAT-TCTTATAGGTGCTTCTAAGTTTAGTTTAATTATTATTAAACTAATGAATA
1 ATATATATCTTATAGGTGCTTCTAAGTTTAGTTTAATTATTATTAAACTAATGAATA
3102496 GGATTGATTG
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
57 32 0.59
58 8 0.15
59 14 0.26
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.46
Consensus pattern (60 bp):
ATATATATCTTATAGGTGCTTCTAAGTTTAGTTTAATTATTATTAAACTAATGAATAATT
Found at i:3122644 original size:19 final size:19
Alignment explanation
Indices: 3122592--3122644 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
3122582 GTTATATAAA
*
3122592 ATATATTTTTATTATAATT
1 ATATATTTTTATTGTAATT
*
3122611 ATATA-TTTTATTTGTATTT
1 ATATATTTTTA-TTGTAATT
*
3122630 TTATATTTTTATTGT
1 ATATATTTTTATTGT
3122645 TGTTTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 5 0.17
19 19 0.66
20 5 0.17
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (19 bp):
ATATATTTTTATTGTAATT
Found at i:3124418 original size:83 final size:86
Alignment explanation
Indices: 3124275--3124445 Score: 285
Period size: 83 Copynumber: 2.0 Consensus size: 86
3124265 GAGAATTAAA
** *
3124275 TGGCACCAAGCACACAAAAAATCCCTCCTTGGTGGTTCTACAATGATCTGTTGCTATGATGAGCC
1 TGGCACCAAGCACAC-AAAAATCCCTCCTTGGTACTGCTACAATGATCTGTTGCTATGATGAGCC
3124340 CTTCCCCTATAACTTGAACCTT
65 CTTCCCCTATAACTTGAACCTT
3124362 TGGCACCAAGCACAC-AAAATCCCTCCTTGG-ACTGC-ACAATGATCTGTTGCTATGATGAGCCC
1 TGGCACCAAGCACACAAAAATCCCTCCTTGGTACTGCTACAATGATCTGTTGCTATGATGAGCCC
3124424 TTCCCCTATAACTTGAACCTT
66 TTCCCCTATAACTTGAACCTT
3124445 T
1 T
3124446 ATGGCTTTGA
Statistics
Matches: 81, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
83 49 0.60
84 2 0.02
85 15 0.19
87 15 0.19
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (86 bp):
TGGCACCAAGCACACAAAAATCCCTCCTTGGTACTGCTACAATGATCTGTTGCTATGATGAGCCC
TTCCCCTATAACTTGAACCTT
Found at i:3128566 original size:26 final size:26
Alignment explanation
Indices: 3128533--3128596 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
3128523 AAATACAATG
3128533 AATAATATTATTTATTAACAA-AATAC
1 AATAATATTATTTATTAA-AATAATAC
* *
3128559 AATAATATTATTT-TTAAAATATTAG
1 AATAATATTATTTATTAAAATAATAC
3128584 AATAAT-TTATTTA
1 AATAATATTATTTA
3128597 ATATTATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 8 0.24
25 13 0.38
26 13 0.38
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (26 bp):
AATAATATTATTTATTAAAATAATAC
Found at i:3128614 original size:15 final size:14
Alignment explanation
Indices: 3128588--3128617 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
3128578 TATTAGAATA
3128588 ATTTATTTAATATT
1 ATTTATTTAATATT
3128602 ATTTATGTTAATATT
1 ATTTAT-TTAATATT
3128617 A
1 A
3128618 CTATTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (14 bp):
ATTTATTTAATATT
Found at i:3128770 original size:20 final size:20
Alignment explanation
Indices: 3128747--3128802 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
3128737 TATTGTTAAA
3128747 ATAATATTATTATTAAAAAT
1 ATAATATTATTATTAAAAAT
* *
3128767 ATAATATT-TAAAGTAAAAAT
1 ATAATATTAT-TATTAAAAAT
*
3128787 ATTATATTATT-TTAAA
1 ATAATATTATTATTAAA
3128803 GAGTATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 5 0.17
20 23 0.79
21 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAATATTATTATTAAAAAT
Found at i:3130502 original size:54 final size:55
Alignment explanation
Indices: 3130430--3130538 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 55
3130420 ACGTATACAT
*
3130430 TTATAAAAAATATAATTTGACCAACAAAAATATTTAGAATAAATTATAATTGTAA
1 TTATAAAAAATATAATTTGACCAACAAAAATATTTAGAATAAATTATAATAGTAA
** ** * * *
3130485 TTAT-AAAAATATAATTTGGTCAGTAAATATATTTAGAGTAAATTGTAATAGTAA
1 TTATAAAAAATATAATTTGACCAACAAAAATATTTAGAATAAATTATAATAGTAA
3130539 GTAAATTAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
54 42 0.91
55 4 0.09
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (55 bp):
TTATAAAAAATATAATTTGACCAACAAAAATATTTAGAATAAATTATAATAGTAA
Found at i:3130830 original size:31 final size:34
Alignment explanation
Indices: 3130795--3130868 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 34
3130785 AACTAACTTT
*
3130795 TTTTAAATAA-AATTGAAAGGA-TTT-ATT-AGAA
1 TTTTAAA-AACAATGGAAAGGAGTTTAATTAAGAA
*
3130826 TTTTAAAAACAATGGAAGGGAGTTTAATTAAGAA
1 TTTTAAAAACAATGGAAAGGAGTTTAATTAAGAA
*
3130860 TTTTTAAAA
1 TTTTAAAAA
3130869 TTTTTAAAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 2 0.06
31 16 0.44
32 3 0.08
33 3 0.08
34 12 0.33
ACGTcount: A:0.47, C:0.01, G:0.15, T:0.36
Consensus pattern (34 bp):
TTTTAAAAACAATGGAAAGGAGTTTAATTAAGAA
Found at i:3138677 original size:15 final size:16
Alignment explanation
Indices: 3138636--3138679 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
3138626 ATTGAGGTAC
*
3138636 ATTTACATATAAACAT
1 ATTTCCATATAAACAT
*
3138652 ATTTGCATATAAACAT
1 ATTTCCATATAAACAT
3138668 A-TTCCATATAAA
1 ATTTCCATATAAA
3138680 TTCGAGAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 10 0.38
16 16 0.62
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (16 bp):
ATTTCCATATAAACAT
Found at i:3138944 original size:31 final size:31
Alignment explanation
Indices: 3138906--3138967 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
3138896 GGAACATAAG
3138906 AAAGAAGAAATGGAGAGGCTTGTGTTCTTCA
1 AAAGAAGAAATGGAGAGGCTTGTGTTCTTCA
*
3138937 AAAGAAGAAATGGAGAGGTTTGTGTTCTTCA
1 AAAGAAGAAATGGAGAGGCTTGTGTTCTTCA
3138968 CATGGCAGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.27
Consensus pattern (31 bp):
AAAGAAGAAATGGAGAGGCTTGTGTTCTTCA
Found at i:3144394 original size:19 final size:20
Alignment explanation
Indices: 3144356--3144394 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3144346 TAGTGTGCAC
*
3144356 CTTATGTTCTACTCAAATAT
1 CTTATATTCTACTCAAATAT
*
3144376 CTTATATTCT-CTTAAATAT
1 CTTATATTCTACTCAAATAT
3144395 ACTTGAGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.31, C:0.18, G:0.03, T:0.49
Consensus pattern (20 bp):
CTTATATTCTACTCAAATAT
Found at i:3145126 original size:15 final size:16
Alignment explanation
Indices: 3145106--3145161 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 16
3145096 AGTTTCATCG
3145106 AATAAAATT-TAAAAA
1 AATAAAATTCTAAAAA
*
3145121 AATAAAATTCAAAGAAA
1 AATAAAATTCTAA-AAA
* *
3145138 AATAATAATTGTATTAAA
1 AATAA-AATTCTA-AAAA
3145156 AATAAA
1 AATAAA
3145162 TAAAATGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.27
16 2 0.06
17 9 0.27
18 13 0.39
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (16 bp):
AATAAAATTCTAAAAA
Found at i:3146300 original size:35 final size:35
Alignment explanation
Indices: 3146230--3146300 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
3146220 AGATATTTAA
* *
3146230 AAATAAAAAATATAAAAAAATTAATTAAATTAATC
1 AAATAAAAAATATAAAAAAATAAATTAAATAAATC
* *
3146265 AAATTAAAAATTTAAAAAAATAAAGTTAAA-AAATC
1 AAATAAAAAATATAAAAAAATAAA-TTAAATAAATC
3146300 A
1 A
3146301 CCTTCCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 26 0.84
36 5 0.16
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (35 bp):
AAATAAAAAATATAAAAAAATAAATTAAATAAATC
Found at i:3155194 original size:68 final size:67
Alignment explanation
Indices: 3155085--3155225 Score: 273
Period size: 68 Copynumber: 2.1 Consensus size: 67
3155075 AATATAAGAT
3155085 AATATATAATACGTTTTTACTTATTTAAAATTGAGTGGATAGTTTTTCTTTTATATAACTATGAG
1 AATATATAATACGTTTTTACTTATTTAAAATTGAGTGGATAGTTTTTCTTTTATATAACTATGAG
3155150 AGG
66 -GG
3155153 AATATATAATACGTTTTTACTTATTTAAAATTGAGTGGATAGTTTTTCTTTTATATAACTATGAG
1 AATATATAATACGTTTTTACTTATTTAAAATTGAGTGGATAGTTTTTCTTTTATATAACTATGAG
3155218 GG
66 GG
3155220 AATATA
1 AATATA
3155226 AGATAATATA
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
67 8 0.11
68 65 0.89
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (67 bp):
AATATATAATACGTTTTTACTTATTTAAAATTGAGTGGATAGTTTTTCTTTTATATAACTATGAG
GG
Found at i:3156837 original size:2 final size:2
Alignment explanation
Indices: 3156830--3156865 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3156820 TTTCCCCTCT
3156830 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3156866 ATAAATTGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3159429 original size:15 final size:16
Alignment explanation
Indices: 3159409--3159442 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
3159399 GGGATGTTGC
*
3159409 AGAGTGGCAGGGAA-G
1 AGAGTGGAAGGGAATG
3159424 AGAGTGGAAGGGAATG
1 AGAGTGGAAGGGAATG
3159440 AGA
1 AGA
3159443 AAAGAGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.38, C:0.03, G:0.50, T:0.09
Consensus pattern (16 bp):
AGAGTGGAAGGGAATG
Found at i:3161107 original size:3 final size:3
Alignment explanation
Indices: 3161099--3161130 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
3161089 TCACGCGTGC
3161099 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3161131 ACGTCGAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3166117 original size:23 final size:23
Alignment explanation
Indices: 3166072--3166129 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
3166062 TAAGCTACCG
* *
3166072 AAAGGTAGAGAGAAACGTGCCAT
1 AAAGGTAGAGAGAAACATACCAT
* *
3166095 AAAGGTAGAGATAAGCATACCAT
1 AAAGGTAGAGAGAAACATACCAT
3166118 AAA--TAGAGAGAA
1 AAAGGTAGAGAGAA
3166130 CATGTCATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 8 0.27
23 22 0.73
ACGTcount: A:0.50, C:0.10, G:0.26, T:0.14
Consensus pattern (23 bp):
AAAGGTAGAGAGAAACATACCAT
Found at i:3177327 original size:2 final size:2
Alignment explanation
Indices: 3177320--3177344 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3177310 ATTTCATCTG
3177320 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
3177345 CTTCACGCTA
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:3182900 original size:122 final size:122
Alignment explanation
Indices: 3182683--3182912 Score: 289
Period size: 122 Copynumber: 1.9 Consensus size: 122
3182673 GCTGTAGGAT
* * ** ***
3182683 ATGTCTTCTGGTTCTTAAAGTTATTATGATAGACAAAGATTGGGCCCTAGTAAGTAAAAGTTGGA
1 ATGTCTACTAGTTCTTAAAGTTATTATGATAGACAAAGATTGGGCCCTAACAAGTAAAAGTCACA
* * * *
3182748 TTCGTTGATTCCATATCATGTTGGAGAATTTCTACAGCTTGATATGGTTTTACGAGA
66 TTCATTGATTCCAAATCATGGTCGAGAATTTCTACAGCTTGATATGGTTTTACGAGA
* * * * * *
3182805 ATGTCTACTAGTTCTTAAAGTTGTTATGATAGTCAAATATTGTGTCCTAACAAGTGAAAGTCACA
1 ATGTCTACTAGTTCTTAAAGTTATTATGATAGACAAAGATTGGGCCCTAACAAGTAAAAGTCACA
* *
3182870 TTCATTGGTTCCAAATCATGGTCGAGAATTTCTGCAGCTTGAT
66 TTCATTGATTCCAAATCATGGTCGAGAATTTCTACAGCTTGAT
3182913 CTGATTTATG
Statistics
Matches: 89, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
122 89 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (122 bp):
ATGTCTACTAGTTCTTAAAGTTATTATGATAGACAAAGATTGGGCCCTAACAAGTAAAAGTCACA
TTCATTGATTCCAAATCATGGTCGAGAATTTCTACAGCTTGATATGGTTTTACGAGA
Found at i:3186017 original size:15 final size:15
Alignment explanation
Indices: 3185997--3186028 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3185987 ATATATATAA
*
3185997 AAATGGGAAAAAATC
1 AAATGGAAAAAAATC
3186012 AAATGGAAAAAAATC
1 AAATGGAAAAAAATC
3186027 AA
1 AA
3186029 CTAAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.16, T:0.12
Consensus pattern (15 bp):
AAATGGAAAAAAATC
Found at i:3186130 original size:29 final size:32
Alignment explanation
Indices: 3186095--3186165 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
3186085 CTAATACCAT
3186095 TAAACTTTTAATTTT-G-TT-AATTATAACAC
1 TAAACTTTTAATTTTCGTTTCAATTATAACAC
* *
3186124 TAAAC-TTTAATTTTCGTTTCAGTTATACCAC
1 TAAACTTTTAATTTTCGTTTCAATTATAACAC
*
3186155 TAAACTGTTAA
1 TAAACTTTTAA
3186166 ATCGTTAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 9 0.26
29 6 0.17
30 2 0.06
31 14 0.40
32 4 0.11
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (32 bp):
TAAACTTTTAATTTTCGTTTCAATTATAACAC
Found at i:3187230 original size:21 final size:21
Alignment explanation
Indices: 3187191--3187230 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3187181 ATTCCTGGCC
*
3187191 TTTCATCCTACAACTTGTATT
1 TTTCATCCTACAACATGTATT
* *
3187212 TTTCCTCCTACACCATGTA
1 TTTCATCCTACAACATGTA
3187231 AATGTATTAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (21 bp):
TTTCATCCTACAACATGTATT
Found at i:3199349 original size:13 final size:13
Alignment explanation
Indices: 3199309--3199357 Score: 73
Period size: 13 Copynumber: 3.7 Consensus size: 13
3199299 ATATAAAAAT
3199309 ATATTATATGTATTA
1 ATATTATAT-TA-TA
3199324 ATATTAT-TTATA
1 ATATTATATTATA
3199336 ATATTATATTATA
1 ATATTATATTATA
3199349 ATATTATAT
1 ATATTATAT
3199358 ATCTATATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 9 0.27
13 16 0.48
14 1 0.03
15 7 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
ATATTATATTATA
Found at i:3199350 original size:25 final size:26
Alignment explanation
Indices: 3199309--3199377 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
3199299 ATATAAAAAT
*
3199309 ATATTATATGTATTAATATTATTTAT-A
1 ATATTATAT-TA-TAATATTATATATCA
*
3199336 ATATTATATTATAATATTATATATCT
1 ATATTATATTATAATATTATATATCA
*
3199362 ATATTAT-TTATTATAT
1 ATATTATATTATAATAT
3199378 ATAAATATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 20 0.53
26 9 0.24
27 9 0.24
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (26 bp):
ATATTATATTATAATATTATATATCA
Found at i:3199352 original size:42 final size:47
Alignment explanation
Indices: 3199288--3199388 Score: 106
Period size: 44 Copynumber: 2.3 Consensus size: 47
3199278 ATTATTTCTA
*
3199288 TTATAA-ATTATATATAAAAATA-TAT-TATATGTATTA-ATATTAT
1 TTATAATATTATATATAAAAATATTATATATATATATTATATATTAT
* * *
3199331 TTATAATATTATAT-T-ATAATATTATATATCTATATTATTTATTAT
1 TTATAATATTATATATAAAAATATTATATATATATATTATATATTAT
*
3199376 ATATAAATATTAT
1 TTAT-AATATTAT
3199389 TTTAGTTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
42 5 0.10
43 10 0.21
44 16 0.33
45 9 0.19
46 8 0.17
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (47 bp):
TTATAATATTATATATAAAAATATTATATATATATATTATATATTAT
Found at i:3199365 original size:13 final size:12
Alignment explanation
Indices: 3199308--3199388 Score: 63
Period size: 13 Copynumber: 6.2 Consensus size: 12
3199298 TATATAAAAA
3199308 TATATTATATGTAT
1 TATATTATA--TAT
*
3199322 TAATATTATTTAT
1 T-ATATTATATAT
*
3199335 AATATTATATTAT
1 TATATTATA-TAT
*
3199348 AATATTATATAT
1 TATATTATATAT
*
3199360 CTATATTATTTAT
1 -TATATTATATAT
*
3199373 TATATATAAATAT
1 TATAT-TATATAT
3199386 TAT
1 TAT
3199389 TTTAGTTTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
12 15 0.27
13 33 0.59
14 1 0.02
15 7 0.12
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (12 bp):
TATATTATATAT
Found at i:3199373 original size:20 final size:19
Alignment explanation
Indices: 3199319--3199390 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
3199309 ATATTATATG
3199319 TATTAATATTATTTA-TA-A
1 TATT-ATATTATTTATTATA
*
3199337 TATTATATTATAATATTATA
1 TATTATATTAT-TTATTATA
3199357 TATCTATATTATTTATTATA
1 TAT-TATATTATTTATTATA
*
3199377 TATAAATATTATTT
1 TAT-TATATTATTT
3199391 TAGTTTTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.15
18 6 0.13
19 2 0.04
20 23 0.50
21 8 0.17
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTATATTATTTATTATA
Found at i:3200422 original size:51 final size:52
Alignment explanation
Indices: 3200363--3200475 Score: 183
Period size: 52 Copynumber: 2.2 Consensus size: 52
3200353 GGGCAATTCA
* * *
3200363 TATTAGTCAATTGATAAATT-AAATAACGATAAATTAACCTTACTTCATTTG
1 TATTAGTCAATTGATAAATTAAAAAAACGATAAATTAACATTACTTCAATTG
*
3200414 TATTAGTCAATTGATAAATTAAAAAAATGATAAATTAACATTACTTCAATTG
1 TATTAGTCAATTGATAAATTAAAAAAACGATAAATTAACATTACTTCAATTG
3200466 TATTAGTCAA
1 TATTAGTCAA
3200476 GTAAAAATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 20 0.35
52 37 0.65
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (52 bp):
TATTAGTCAATTGATAAATTAAAAAAACGATAAATTAACATTACTTCAATTG
Found at i:3200862 original size:15 final size:15
Alignment explanation
Indices: 3200842--3200871 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3200832 CGTTGAGTCA
*
3200842 TTTATAATTTAAATT
1 TTTATAAATTAAATT
3200857 TTTATAAATTAAATT
1 TTTATAAATTAAATT
3200872 ATTTGTCCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTATAAATTAAATT
Found at i:3200901 original size:16 final size:16
Alignment explanation
Indices: 3200880--3200910 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3200870 TTATTTGTCC
*
3200880 TTTATAATTTAAATTT
1 TTTATAAATTAAATTT
3200896 TTTATAAATTAAATT
1 TTTATAAATTAAATT
3200911 ATTGGTGCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTATAAATTAAATTT
Found at i:3202118 original size:176 final size:182
Alignment explanation
Indices: 3201724--3202184 Score: 630
Period size: 176 Copynumber: 2.6 Consensus size: 182
3201714 ATTAAAAATG
* * * * **
3201724 TATCGATCCACAACGATATAACAGGTAAAACTATGACAAAACCAGTATTGAAATGATAAAACCGG
1 TATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGG
* * * * * * *
3201789 TAAAGCGGTACCGAATATATTTAAAGTGTCGGTATTTTAATATAAGGATCGACACTTCGTTAATT
66 TAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATT
* *
3201854 TAAAAGAGAAGCGGTTTTAGCGTCTATAAAGTGTCGATACTTTCAAAAAATA
131 TAAAAGAGAAGCGGTTTTAGCGCCTATAAAGTGTCGATACTTTCAAAAAAAA
* * * *
3201906 TATCGATCAACAACGATATAACAAGTAAAAATATGATAAAACTGGTATCCAAATGATGAAACCGG
1 TATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGG
* * * * *
3201971 TAAAACGCTACCGGATATATTGAACGTGTCGAAACTTT-ATATAAGGATCGACACTTTGTGAATT
66 TAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATT
3202035 T-AAAGAGAAGC-G-TTTAGCGCCTATAAAGTGTCGATAC-TT-AAAAAAAA
131 TAAAAGAGAAGCGGTTTTAGCGCCTATAAAGTGTCGATACTTTCAAAAAAAA
3202082 TATCGATCAA-ACACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCG
1 TATCGATCAACA-ACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCG
* *
3202146 ATAAAATGATACCGGATATATTAAAAGTGTCGATACTTT
65 GTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
3202185 CGTAAGTACG
Statistics
Matches: 247, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
175 1 0.00
176 98 0.40
177 2 0.01
178 24 0.10
179 1 0.00
180 10 0.04
181 25 0.10
182 86 0.35
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.26
Consensus pattern (182 bp):
TATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGG
TAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATT
TAAAAGAGAAGCGGTTTTAGCGCCTATAAAGTGTCGATACTTTCAAAAAAAA
Found at i:3202128 original size:20 final size:19
Alignment explanation
Indices: 3202105--3202151 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
3202095 CGATATAACA
3202105 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
3202125 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
*
3202145 GATAAAA
1 GGTAAAA
3202152 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.11, G:0.15, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:3202153 original size:17 final size:20
Alignment explanation
Indices: 3202114--3202156 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
3202104 AGGTAAAAAT
3202114 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGGTATCAAA
3202134 ATGATAAAACC-G-AT-AAA
1 ATGATAAAACCGGTATCAAA
3202151 ATGATA
1 ATGATA
3202157 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 2 0.09
19 1 0.04
20 11 0.48
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.21
Consensus pattern (20 bp):
ATGATAAAACCGGTATCAAA
Found at i:3203885 original size:69 final size:67
Alignment explanation
Indices: 3203799--3203935 Score: 240
Period size: 70 Copynumber: 2.0 Consensus size: 67
3203789 GTTCTTCATC
3203799 TTCCTCTTTGATACACGGACC-TCCATTGACATCCGTTGTCACGTTGGACGTAGTAGTAGCAGAC
1 TTCCTCTTTGATACACGGACCATCCATTGACATCCGTTGTCACGTTGGAC---GTAGTAGCAGAC
3203863 ATATT
63 ATATT
3203868 TTCCTCTTTGATACACGGACCATCCATTGACATCCGTTGTCACGTTGGACGTAGTAGCAGACATA
1 TTCCTCTTTGATACACGGACCATCCATTGACATCCGTTGTCACGTTGGACGTAGTAGCAGACATA
3203933 TT
66 TT
3203935 T
1 T
3203936 ATCCGTGTTA
Statistics
Matches: 67, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
67 18 0.27
69 21 0.31
70 28 0.42
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (67 bp):
TTCCTCTTTGATACACGGACCATCCATTGACATCCGTTGTCACGTTGGACGTAGTAGCAGACATA
TT
Found at i:3205372 original size:128 final size:128
Alignment explanation
Indices: 3205144--3205871 Score: 1218
Period size: 128 Copynumber: 5.7 Consensus size: 128
3205134 ACTATTCACA
*
3205144 TGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
3205209 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
* *
3205272 TGAAGGCGCGTTCCCGGGGGCGCACCTTCCATTATTTTTTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
3205337 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
* * *
3205400 TGAAGGCGCATTCCCGGGGGCGCGCCTTCTATTATTTTGTTAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
3205465 TTATGTCACTCATGTCCCTC-GGGACACTATTCATATCAGTACCTATTATTTCTC-AGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
* * *
3205526 TGAAGGCGCATTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCTTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* * *
3205591 TTATGCCACGCATGTCCCTCGGGAACACTATTCATATCAGTACCTATTATTTCTC-AGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
* *
3205653 TAAAGGCGCGTTCCC--GGG-GCGCCTTCCATTA-TTTGTCATAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
3205714 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTTAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
* * *
3205777 TGTAGGCACGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
3205842 TTATGTCACTCATCTCCCTCGGGGACACTA
66 TTATGTCACTCATGTCCCTCGGGGACACTA
3205872 GATGGATTAT
Statistics
Matches: 563, Mismatches: 31, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
123 79 0.14
124 31 0.06
125 3 0.01
126 88 0.16
127 100 0.18
128 262 0.47
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (128 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
Found at i:3205843 original size:377 final size:382
Alignment explanation
Indices: 3205144--3205871 Score: 1250
Period size: 377 Copynumber: 1.9 Consensus size: 382
3205134 ACTATTCACA
*
3205144 TGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCATTCCCGGGGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* * * *
3205209 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACTTG
66 TTATGCCACGCATGTCCCTCGGGAACACTATTCATATCAGTACCTATTATTTCTCAAGGGACTTA
*
3205274 AAGGCGCGTTCCCGGGGGCGCACCTTCCATTATTTTTTCAGAGAATATGTTATCATTGCCCTATT
131 AAGGCGCGTTCCCGGGGGCG-ACCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
3205339 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTGAA
195 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTGAA
* * *
3205404 GGCGCATTCCCGGGGGCGCGCCTTCTATTATTTTGTTAGAGAATATGTTATCATTGCCCTATTAT
260 GGCACATTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTAT
*
3205469 GTCACTCATGTCCCTC-GGGACACTATTCATATCAGTACCTATTATTTCTCAGGGACT
325 GTCACTCATCTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGACT
** *
3205526 TGAAGGCGCATTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCTTA
1 TGAAGGCGCATTCCCGGGGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
3205591 TTATGCCACGCATGTCCCTCGGGAACACTATTCATATCAGTACCTATTATTTCTC-AGGGACTTA
66 TTATGCCACGCATGTCCCTCGGGAACACTATTCATATCAGTACCTATTATTTCTCAAGGGACTTA
*
3205655 AAGGCGCGTTCCC-GGGGCG-CCTTCCATTA-TTTGTCATAGAATATGTTATCATTGCCCTATTA
131 AAGGCGCGTTCCCGGGGGCGACCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
* *
3205717 TGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTTAGGGGACTTGTAG
196 TGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTGAAG
* *
3205782 GCACGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
261 GCACATTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
3205847 TCACTCATCTCCCTCGGGGACACTA
326 TCACTCATCTCCCTCGGGGACACTA
3205872 GATGGATTAT
Statistics
Matches: 327, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
377 168 0.51
378 19 0.06
380 6 0.02
381 21 0.06
382 113 0.35
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (382 bp):
TGAAGGCGCATTCCCGGGGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGCCACGCATGTCCCTCGGGAACACTATTCATATCAGTACCTATTATTTCTCAAGGGACTTA
AAGGCGCGTTCCCGGGGGCGACCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
TGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTGAAG
GCACATTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
TCACTCATCTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGACT
Found at i:3206840 original size:21 final size:21
Alignment explanation
Indices: 3206816--3206894 Score: 97
Period size: 21 Copynumber: 3.8 Consensus size: 21
3206806 AAACCCTACA
*
3206816 GGCTAGGCATGTAACCTGGCG
1 GGCTAGGAATGTAACCTGGCG
*
3206837 GGCTAGGAATGTAACCTTGCG
1 GGCTAGGAATGTAACCTGGCG
* *
3206858 GGCTCGGAATGTAACCCT-GTG
1 GGCTAGGAATGTAA-CCTGGCG
*
3206879 GGCTCGGAATGTAACC
1 GGCTAGGAATGTAACC
3206895 CTGCGAAGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
20 2 0.04
21 48 0.91
22 3 0.06
ACGTcount: A:0.22, C:0.23, G:0.34, T:0.22
Consensus pattern (21 bp):
GGCTAGGAATGTAACCTGGCG
Found at i:3206895 original size:21 final size:21
Alignment explanation
Indices: 3206824--3206899 Score: 109
Period size: 21 Copynumber: 3.6 Consensus size: 21
3206814 CAGGCTAGGC
*
3206824 ATGTAA-CCTGGCGGGCTAGGA
1 ATGTAACCCT-GCGGGCTCGGA
*
3206845 ATGTAACCTTGCGGGCTCGGA
1 ATGTAACCCTGCGGGCTCGGA
*
3206866 ATGTAACCCTGTGGGCTCGGA
1 ATGTAACCCTGCGGGCTCGGA
3206887 ATGTAACCCTGCG
1 ATGTAACCCTGCG
3206900 AAGATGGCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
21 47 0.96
22 2 0.04
ACGTcount: A:0.21, C:0.24, G:0.33, T:0.22
Consensus pattern (21 bp):
ATGTAACCCTGCGGGCTCGGA
Found at i:3206951 original size:21 final size:21
Alignment explanation
Indices: 3206904--3206945 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3206894 CCTGCGAAGA
*
3206904 TGGCATATGAACTGGTGGGCT
1 TGGCATATGAACTGGAGGGCT
*
3206925 TGGCATATGAAGTGGAGGGCT
1 TGGCATATGAACTGGAGGGCT
3206946 GTGCATGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.40, T:0.26
Consensus pattern (21 bp):
TGGCATATGAACTGGAGGGCT
Found at i:3208447 original size:21 final size:21
Alignment explanation
Indices: 3208404--3208448 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3208394 GATTTATGGG
* *
3208404 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
3208425 CAAGGGGAACCGATATCCC-TT
1 CAAGGGGAACCGATA-CCCATT
3208446 CAA
1 CAA
3208449 ACGAACAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:3209711 original size:31 final size:31
Alignment explanation
Indices: 3209622--3209749 Score: 143
Period size: 31 Copynumber: 4.1 Consensus size: 31
3209612 AGAGTCGAGG
3209622 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* *
3209653 GTTTTACCTATG-TCTTTC-GAGAGATATGGACA
1 G-TTTACCTATGTTC-TACGGA-ACATATGGACA
* *
3209685 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* * * *
3209716 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
3209747 GTT
1 GTT
3209750 ACCGAGGATC
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
31 53 0.66
32 27 0.34
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGGACA
Found at i:3209769 original size:30 final size:30
Alignment explanation
Indices: 3209708--3209804 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 30
3209698 CTAAGGAACA
* * ***
3209708 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAG-TTACCGAGGATCTTTATGACC
3209739 TATGGACAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
* *
3209769 TCTGGATAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
*
3209799 TCTGGA
1 TATGGA
3209805 TAGGTCCCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
30 50 0.85
31 9 0.15
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGATCTTTATGACC
Found at i:3209805 original size:30 final size:30
Alignment explanation
Indices: 3209735--3209807 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
3209725 GGTTCTTCGG
* *
3209735 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
3209765 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
3209795 GACCTCTGGATAG
1 GACCTCTGGATAG
3209808 GTCCCGGGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:3211485 original size:29 final size:29
Alignment explanation
Indices: 3211452--3211531 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
3211442 AATTAGCACA
*
3211452 AAATA-ATTAATAAAATAAATAATAATTAT
1 AAATATATTAATAAAATAAA-AATAATTAC
*
3211481 AAATATTATTTAATAAAA-AAAAATATTTAC
1 AAATA-TA-TTAATAAAATAAAAATAATTAC
3211511 ATAATATATTAATAAATATAA
1 A-AATATATTAATAAA-ATAA
3211532 TAACTATTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
29 13 0.30
30 11 0.26
31 10 0.23
32 9 0.21
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (29 bp):
AAATATATTAATAAAATAAAAATAATTAC
Found at i:3211496 original size:32 final size:30
Alignment explanation
Indices: 3211453--3211543 Score: 89
Period size: 32 Copynumber: 3.0 Consensus size: 30
3211443 ATTAGCACAA
3211453 AATA-ATTAATAAAATAAATAATAATTATAAAT
1 AATATATTAATAAAATAAA-AAT-ATT-TAAAT
* *
3211485 ATTAT-TTAATAAAA-AAAAATATTTACAT
1 AATATATTAATAAAATAAAAATATTTAAAT
*
3211513 AATATATTAATAAATATAATAACTATTTAAA
1 AATATATTAATAAA-ATAA-AAATATTTAAA
3211544 AAAATACTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
28 8 0.16
29 11 0.22
30 4 0.08
31 5 0.10
32 21 0.43
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (30 bp):
AATATATTAATAAAATAAAAATATTTAAAT
Found at i:3211829 original size:50 final size:50
Alignment explanation
Indices: 3211730--3211829 Score: 157
Period size: 50 Copynumber: 2.0 Consensus size: 50
3211720 GCATTTAATG
* * *
3211730 GAAGGCGCGTCCCCGGGGATGCGCTTTCCACACGTGGCAGTCGAGTCAGT
1 GAAGGCGCGTCCCCGGGGATGCGCCTTCCACACGTGGCAGTCAACTCAGT
3211780 GAAGGCGCGTCCCCGGGGATGCGCCTTCCACACGTGGCA-TCTAACTCAGT
1 GAAGGCGCGTCCCCGGGGATGCGCCTTCCACACGTGGCAGTC-AACTCAGT
3211830 AAAAACAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 2 0.04
50 44 0.96
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (50 bp):
GAAGGCGCGTCCCCGGGGATGCGCCTTCCACACGTGGCAGTCAACTCAGT
Found at i:3218563 original size:111 final size:111
Alignment explanation
Indices: 3218421--3218753 Score: 612
Period size: 111 Copynumber: 3.0 Consensus size: 111
3218411 ATTACAAAAA
*
3218421 TTAATTCTTACTCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
3218486 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
3218532 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
3218597 AATTAAAACGTTAAAATGTTACCGTATCAGGAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
* *
3218643 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATAATACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
3218708 AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
3218754 ATGATTTACA
Statistics
Matches: 215, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 215 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.35
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:3219164 original size:50 final size:51
Alignment explanation
Indices: 3219054--3219164 Score: 120
Period size: 50 Copynumber: 2.2 Consensus size: 51
3219044 ATAGTGCAGA
* * * * * *
3219054 TCAGAGGGCGCGCTATACCTACGTGACGCCAGATCACCGTATATCGCGGGG
1 TCAGAGGGCGCGCTATACCCACGTGACGCCAAATCAACGTATAACACGGAG
* *
3219105 T-AG-GAGGCGCGTTATACCCACGTGACGCCAAATCAACGTATAACAC-GAT
1 TCAGAG-GGCGCGCTATACCCACGTGACGCCAAATCAACGTATAACACGGAG
3219154 TCAGAGGGCGC
1 TCAGAGGGCGC
3219165 ACTTTACTGC
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
49 3 0.06
50 44 0.90
51 2 0.04
ACGTcount: A:0.26, C:0.28, G:0.29, T:0.17
Consensus pattern (51 bp):
TCAGAGGGCGCGCTATACCCACGTGACGCCAAATCAACGTATAACACGGAG
Found at i:3226594 original size:21 final size:21
Alignment explanation
Indices: 3226565--3226617 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
3226555 ATTCTGACTA
*
3226565 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGACTTTCCAAAT
* *
3226586 TCGCGTTGCGACTTTCCTAAT
1 TCGCATTGCGACTTTCCAAAT
* *
3226607 TCCCAATGCGA
1 TCGCATTGCGA
3226618 ATACGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGACTTTCCAAAT
Found at i:3226639 original size:20 final size:20
Alignment explanation
Indices: 3226610--3226659 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
3226600 TCCTAATTCC
*
3226610 CAATGCGAATACGTAAATCG
1 CAATGTGAATACGTAAATCG
3226630 CAATGTGAATACGTAAATCG
1 CAATGTGAATACGTAAATCG
*
3226650 CAACGTGAAT
1 CAATGTGAAT
3226660 CTGACTATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (20 bp):
CAATGTGAATACGTAAATCG
Found at i:3226880 original size:22 final size:22
Alignment explanation
Indices: 3226855--3226920 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
3226845 GGCGACATCC
3226855 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
3226877 GTCCTCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
3226899 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
3226921 TTCACGGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:3227330 original size:20 final size:20
Alignment explanation
Indices: 3227257--3227347 Score: 103
Period size: 20 Copynumber: 4.6 Consensus size: 20
3227247 GCGATTATGT
3227257 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTTCATTTTCG
** **
3227276 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTTTCATTTTCG
**
3227296 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
3227316 TGTTGCGATTTTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
3227336 TGTTGCGATTTT
1 CGTTGCGATTTT
3227348 AAGTTTCAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
19 12 0.19
20 51 0.81
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCG
Found at i:3227354 original size:20 final size:20
Alignment explanation
Indices: 3227311--3227354 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3227301 CGATAGTCAT
* *
3227311 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
3227331 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
3227351 TTTC
1 TTTC
3227355 AGAAACTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:3229290 original size:20 final size:20
Alignment explanation
Indices: 3229244--3229293 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
3229234 AGAATAGTTT
*
3229244 ACTATCACAAAGCGAAAATG
1 ACTATCGCAAAGCGAAAATG
*
3229264 ACTATCGCAACGCGAAAATG
1 ACTATCGCAAAGCGAAAATG
3229284 ACTATCGCAA
1 ACTATCGCAA
3229294 TGAGAGAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (20 bp):
ACTATCGCAAAGCGAAAATG
Found at i:3229305 original size:34 final size:34
Alignment explanation
Indices: 3229267--3229422 Score: 136
Period size: 34 Copynumber: 4.4 Consensus size: 34
3229257 GAAAATGACT
* * *
3229267 ATCGCAACGCGAAAATGACTATCGCAATGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
** * *
3229301 ATCGCAATGCG-AAATGAAAAAACGCAAC-AACAAA
1 ATCGCAATGCGAAAATG-ACTATCGCAACGAA-AGA
*
3229335 ATCGCAACGCGAAAATGACTATCGCAATGCGAAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAA--CG-AAA-GA
**
3229373 CTATCGCAATGCGAATTTGACTATCGCAACGAAAGA
1 --ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
3229409 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
3229423 TGAAAATCGC
Statistics
Matches: 96, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
33 6 0.06
34 49 0.51
35 5 0.05
36 3 0.03
37 4 0.04
38 5 0.05
40 24 0.25
ACGTcount: A:0.44, C:0.21, G:0.20, T:0.15
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
Found at i:3229360 original size:20 final size:20
Alignment explanation
Indices: 3229335--3229403 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
3229325 CAACAACAAA
3229335 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
3229355 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
3229375 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
3229395 ATCGCAACG
1 ATCGCAACG
3229404 AAAGAATCGC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:3229500 original size:20 final size:20
Alignment explanation
Indices: 3229452--3229514 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
3229442 ATCTCGTTGT
** *
3229452 GATAGTCAAATTCGCATTAC
1 GATAGTCATTTTCGCATTGC
*
3229472 GATAGTCATTTTTGCATTGC
1 GATAGTCATTTTCGCATTGC
*
3229492 GATAGTCATTTTCGCGTTGC
1 GATAGTCATTTTCGCATTGC
3229512 GAT
1 GAT
3229515 TTTAAGTTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (20 bp):
GATAGTCATTTTCGCATTGC
Found at i:3230087 original size:21 final size:21
Alignment explanation
Indices: 3229998--3230102 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
3229988 GACTCACCTG
*
3229998 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
3230020 T-ATCATTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
3230040 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * *
3230061 CCATCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
3230082 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
3230103 CCAACATTCT
Statistics
Matches: 64, Mismatches: 18, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 3 0.05
21 60 0.94
22 1 0.02
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:3230095 original size:42 final size:42
Alignment explanation
Indices: 3229995--3230116 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
3229985 CCCGACTCAC
* * *
3229995 CTGTCATCGTTCAAGAGGCCTCC-CCTATCATTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCATCATTCAAGAGGCCA
* ** *
3230037 CTATCATCCCTCAAGAGTCCCCTCCCATCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCATCATTCAAGAGGCCA
* * *
3230079 CTGTCATCGTTGAAGAGGT-CCCTCCCAACATTCTAGAG
1 CTGTCATCGTTCAAGA-GTCCCCTCCCATCATTCAAGAG
3230117 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
41 2 0.03
42 60 0.94
43 2 0.03
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCATCATTCAAGAGGCCA
Found at i:3231289 original size:24 final size:24
Alignment explanation
Indices: 3231255--3231308 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
3231245 CTGAAAAATC
3231255 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
3231279 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
3231303 ATCAAA
1 ATCAAA
3231309 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:3232179 original size:20 final size:20
Alignment explanation
Indices: 3232154--3232240 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
3232144 AAATTCAGTA
3232154 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
*
3232174 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
3232194 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
* * *
3232214 TTGTGATAGTCACATTCGCG
1 TTGCGATAGTCAGAATCGCG
3232234 TTGCGAT
1 TTGCGAT
3232241 TTACGTATTC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:3232250 original size:20 final size:20
Alignment explanation
Indices: 3232227--3232299 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
3232217 TGATAGTCAC
*
3232227 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
3232247 ATTCGTATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
3232267 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
3232287 ATTCGCATTGCGA
1 ATTCGCATTGCGA
3232300 ATTAGAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:3232320 original size:21 final size:21
Alignment explanation
Indices: 3232296--3232341 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
3232286 TATTCGCATT
3232296 GCGAAT-TAGAAAAATCGCAAC
1 GCGAATAT-GAAAAATCGCAAC
* *
3232317 GCGAATATGGAAAATCGCAAT
1 GCGAATATGAAAAATCGCAAC
3232338 GCGA
1 GCGA
3232342 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.15
Consensus pattern (21 bp):
GCGAATATGAAAAATCGCAAC
Found at i:3233264 original size:6 final size:6
Alignment explanation
Indices: 3233253--3233291 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
3233243 TTGGTAATCA
* *
3233253 ATTTTT ATTTTT ATTTTT ATTTAT A-TTAT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTT
3233292 CTTAAACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:3238288 original size:45 final size:45
Alignment explanation
Indices: 3238221--3238310 Score: 105
Period size: 46 Copynumber: 2.0 Consensus size: 45
3238211 TTTAAAAAAA
* *
3238221 ATAAAAATCTTTAAAAT-TTT-TATTATTTTAAAAATATTTCAAAATT
1 ATAAAAATCATTAAAATATTTATATT-TTTCAAAAA-ATTT-AAAATT
*
3238267 ATAAAAAT-ATTAAACTATTTATATTTTTCAAAAAATTTAAAATT
1 ATAAAAATCATTAAAATATTTATATTTTTCAAAAAATTTAAAATT
3238311 TAATTAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
44 6 0.15
45 10 0.26
46 19 0.49
47 4 0.10
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (45 bp):
ATAAAAATCATTAAAATATTTATATTTTTCAAAAAATTTAAAATT
Found at i:3238963 original size:24 final size:25
Alignment explanation
Indices: 3238927--3238979 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
3238917 TTAGTCAAAA
* *
3238927 TAAAAATCCAATTATGGAGTTT-AAT
1 TAAAAATCAAATT-TGAAGTTTGAAT
3238952 TAAAAAT-AAATTTGAAGTTTGAAT
1 TAAAAATCAAATTTGAAGTTTGAAT
3238976 TAAA
1 TAAA
3238980 CCAATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.28
24 11 0.44
25 7 0.28
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (25 bp):
TAAAAATCAAATTTGAAGTTTGAAT
Found at i:3240576 original size:36 final size:36
Alignment explanation
Indices: 3240527--3240605 Score: 133
Period size: 36 Copynumber: 2.2 Consensus size: 36
3240517 CTCATTGAAT
3240527 ATTGG-AAAATGCTCAAGTTAGGTATTTCCACTAGC
1 ATTGGAAAAATGCTCAAGTTAGGTATTTCCACTAGC
* *
3240562 ATTGGAAAAATGCTCAATTTAGGTTTTTCCACTAGC
1 ATTGGAAAAATGCTCAAGTTAGGTATTTCCACTAGC
3240598 ATTGGAAA
1 ATTGGAAA
3240606 TAACTATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 5 0.12
36 36 0.88
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (36 bp):
ATTGGAAAAATGCTCAAGTTAGGTATTTCCACTAGC
Found at i:3245147 original size:31 final size:31
Alignment explanation
Indices: 3245109--3245169 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
3245099 CAAGAGTTTT
* *
3245109 GGAGTTCCTAGTGAAAATGACATATTGAATG
1 GGAGTTCCTAGTGAAAAGGACACATTGAATG
*
3245140 GGAGTTCCTAGTGAGAAGGACACATTGAAT
1 GGAGTTCCTAGTGAAAAGGACACATTGAAT
3245170 TCACCGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (31 bp):
GGAGTTCCTAGTGAAAAGGACACATTGAATG
Found at i:3245793 original size:36 final size:36
Alignment explanation
Indices: 3245744--3245822 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
3245734 CTCATTGAAT
3245744 ATTGG-AAAATGCTCAAGTTAGGTATTTCCACTAGC
1 ATTGGAAAAATGCTCAAGTTAGGTATTTCCACTAGC
*
3245779 ATTGGAAAAATGCTCAAGTTAGGTTTTTCCACTAGC
1 ATTGGAAAAATGCTCAAGTTAGGTATTTCCACTAGC
3245815 ATTGGAAA
1 ATTGGAAA
3245823 TGACTATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
35 5 0.12
36 37 0.88
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (36 bp):
ATTGGAAAAATGCTCAAGTTAGGTATTTCCACTAGC
Found at i:3246274 original size:35 final size:36
Alignment explanation
Indices: 3246225--3246293 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
3246215 TGAATATTGG
3246225 AAAATGCTCAAGTTAGGTATTTCCACTAGCATTGAA
1 AAAATGCTCAAGTTAGGTATTTCCACTAGCATTGAA
*
3246261 AAAATGC-CAAGTTAGGTTTTTCCACTAGCATTG
1 AAAATGCTCAAGTTAGGTATTTCCACTAGCATTG
3246294 GAAATGACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 25 0.78
36 7 0.22
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (36 bp):
AAAATGCTCAAGTTAGGTATTTCCACTAGCATTGAA
Found at i:3246500 original size:475 final size:476
Alignment explanation
Indices: 3245609--3246548 Score: 1810
Period size: 475 Copynumber: 2.0 Consensus size: 476
3245599 ACTATGTACT
3245609 AGTTCCAGATACGTTCACTAGTGCTTAAGCAACTAATCTCGCTATTGCTCTTCTCATGTTTTAAC
1 AGTTCCAGATACGTTCACTAGTGCTTAAGCAACTAATCTCGCTATTGCTCTTCTCATGTTTTAAC
3245674 TTTATTGCTCTCATCTTTACGAAAAAATTCTTTCGCATTAGTGGGGGAATGTTGATAATGCTCAT
66 TTTATTGCTCTCATCTTTACGAAAAAATTCTTTCGCATTAGTGGGGGAATGTTGATAATGCTCAT
*
3245739 TGAATATTGGAAAATGCTCAAGTTAGGTATTTCCACTAGCATTGGAAAAATGCTCAAGTTAGGTT
131 TGAATATTGGAAAATGCTCAAGTTAGGTATTTCCACTAGCATTGAAAAAATGCTCAAGTTAGGTT
*
3245804 TTTCCACTAGCATTGGAAATGACTATTTTACCCTCACTATTTAGCCTATAAATAGTGAGCAATTT
196 TTTCCACTAGCATTGGAAATGACTATTTTACCCTCACTATTTAGCCTATAAATAGTGACCAATTT
3245869 CATTCATTTTAGATATCCCAAGCAAAACATTTGCTTTGAAACACTCATCTCTTTTGAGTGTTGTT
261 CATTCATTTTAGATATCCCAAGCAAAACATTTGCTTTGAAACACTCATCTCTTTTGAGTGTTGTT
3245934 TGAGTTGAGAGAAGAGCAATACCACCAAGTTCACTCCAGTTTTCGGGTGTACGAATTCTTGGAGA
326 TGAGTTGAGAGAAGAGCAATACCACCAAGTTCACTCCAGTTTTCGGGTGTACGAATTCTTGGAGA
* **
3245999 GCCGTGTTAACCTCAGGGGGTTGTTCGTCCATTGTAGCGATTACACACATCGAGGTGAATTTGCT
391 GCCGTGTTAACCTCAGGGGGTTGTTCGTCCATTGTAGAGATTACACACATCGAGACGAATTTGCT
3246064 TCTAAGGCAGCGATTACACCA
456 TCTAAGGCAGCGATTACACCA
3246085 AGTTCCAGATACGTTCACTAGTGCTTAAGCAACTAATCTCGCTATTGCTCTTCTCATGTTTTAAC
1 AGTTCCAGATACGTTCACTAGTGCTTAAGCAACTAATCTCGCTATTGCTCTTCTCATGTTTTAAC
*
3246150 TTTATTGCTCTCATCTTTACGAAAACATTCTTTCGCATTAGTGGGGGAATGTTGATAATGCTCAT
66 TTTATTGCTCTCATCTTTACGAAAAAATTCTTTCGCATTAGTGGGGGAATGTTGATAATGCTCAT
3246215 TGAATATTGGAAAATGCTCAAGTTAGGTATTTCCACTAGCATTGAAAAAATGC-CAAGTTAGGTT
131 TGAATATTGGAAAATGCTCAAGTTAGGTATTTCCACTAGCATTGAAAAAATGCTCAAGTTAGGTT
3246279 TTTCCACTAGCATTGGAAATGACTATTTTACCCTCACTATTTAGCCTATAAATAGTGACCAATTT
196 TTTCCACTAGCATTGGAAATGACTATTTTACCCTCACTATTTAGCCTATAAATAGTGACCAATTT
*
3246344 CATTCATTTTAGATATCCCAAGCAAAACATTTGCTTTGAAACACTCATCTCTTTTTAGTGTTGTT
261 CATTCATTTTAGATATCCCAAGCAAAACATTTGCTTTGAAACACTCATCTCTTTTGAGTGTTGTT
3246409 TGAGTTGAGAGAAGAGCAATACCACCAAGTTCACTCCAGTTTTCGGGTGTACGAATTCTTGGAGA
326 TGAGTTGAGAGAAGAGCAATACCACCAAGTTCACTCCAGTTTTCGGGTGTACGAATTCTTGGAGA
3246474 GCCGTGTTAACCTCAGGGGGTTGTTCGTCCATTGTAGAGATTACACACATCGAGACGAATTTGCT
391 GCCGTGTTAACCTCAGGGGGTTGTTCGTCCATTGTAGAGATTACACACATCGAGACGAATTTGCT
3246539 TCTAAGGCAG
456 TCTAAGGCAG
3246549 TGGTTAATAC
Statistics
Matches: 457, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
475 276 0.60
476 181 0.40
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (476 bp):
AGTTCCAGATACGTTCACTAGTGCTTAAGCAACTAATCTCGCTATTGCTCTTCTCATGTTTTAAC
TTTATTGCTCTCATCTTTACGAAAAAATTCTTTCGCATTAGTGGGGGAATGTTGATAATGCTCAT
TGAATATTGGAAAATGCTCAAGTTAGGTATTTCCACTAGCATTGAAAAAATGCTCAAGTTAGGTT
TTTCCACTAGCATTGGAAATGACTATTTTACCCTCACTATTTAGCCTATAAATAGTGACCAATTT
CATTCATTTTAGATATCCCAAGCAAAACATTTGCTTTGAAACACTCATCTCTTTTGAGTGTTGTT
TGAGTTGAGAGAAGAGCAATACCACCAAGTTCACTCCAGTTTTCGGGTGTACGAATTCTTGGAGA
GCCGTGTTAACCTCAGGGGGTTGTTCGTCCATTGTAGAGATTACACACATCGAGACGAATTTGCT
TCTAAGGCAGCGATTACACCA
Found at i:3246872 original size:31 final size:31
Alignment explanation
Indices: 3246834--3246918 Score: 170
Period size: 31 Copynumber: 2.7 Consensus size: 31
3246824 GTTACATTGC
3246834 CTTTTACCTTTGTTATTTTCAACTACACTGG
1 CTTTTACCTTTGTTATTTTCAACTACACTGG
3246865 CTTTTACCTTTGTTATTTTCAACTACACTGG
1 CTTTTACCTTTGTTATTTTCAACTACACTGG
3246896 CTTTTACCTTTGTTATTTTCAAC
1 CTTTTACCTTTGTTATTTTCAAC
3246919 CAACCACTGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.19, C:0.22, G:0.08, T:0.51
Consensus pattern (31 bp):
CTTTTACCTTTGTTATTTTCAACTACACTGG
Found at i:3247423 original size:28 final size:29
Alignment explanation
Indices: 3247367--3247498 Score: 94
Period size: 28 Copynumber: 4.7 Consensus size: 29
3247357 TCTTTTATCA
* * *
3247367 TAATTTATAAATAGTTTTGTATTTTATTT
1 TAATTTATAAATAGTTTTATACTTAATTT
*
3247396 TAATTTATAAA-CGTTTTATACTTAATTT
1 TAATTTATAAATAGTTTTATACTTAATTT
* * * *
3247424 TAATTTATAAA-A-ATATGTACTT-TTTT
1 TAATTTATAAATAGTTTTATACTTAATTT
* * * *
3247450 GTAATTTATAAAAAG-TTTGTACTTTATTG
1 -TAATTTATAAATAGTTTTATACTTAATTT
* *
3247479 TAATTAAAAAATAGTTTTAT
1 TAATTTATAAATAGTTTTAT
3247499 CCTTTATGAT
Statistics
Matches: 82, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
26 3 0.04
27 18 0.22
28 44 0.54
29 17 0.21
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (29 bp):
TAATTTATAAATAGTTTTATACTTAATTT
Done.