Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 18 of 106
Found at i:3057818 original size:15 final size:15
Alignment explanation
Indices: 3057798--3057828 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3057788 GTCTTTCTCA
*
3057798 TGATGCATATGTGAT
1 TGATGCAAATGTGAT
3057813 TGATGCAAATGTGAT
1 TGATGCAAATGTGAT
3057828 T
1 T
3057829 TTTTTATAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.39
Consensus pattern (15 bp):
TGATGCAAATGTGAT
Found at i:3058718 original size:22 final size:23
Alignment explanation
Indices: 3058693--3058738 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
3058683 TCAACTTTAG
3058693 TATTCTACTTTCTT-GAATTCTA
1 TATTCTACTTTCTTAGAATTCTA
** *
3058715 TATTCTTTTTTCTTAGGATTCTA
1 TATTCTACTTTCTTAGAATTCTA
3058738 T
1 T
3058739 CTAATTCTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.59
Consensus pattern (23 bp):
TATTCTACTTTCTTAGAATTCTA
Found at i:3058828 original size:13 final size:13
Alignment explanation
Indices: 3058810--3058859 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
3058800 TTGCTCTTTA
3058810 CTTTTTTTTTTTG
1 CTTTTTTTTTTTG
3058823 CTTTTTTTTCTTT-
1 CTTTTTTTT-TTTG
*
3058836 C-TTTTTTTTGTG
1 CTTTTTTTTTTTG
3058848 CTTTTTTTTTTT
1 CTTTTTTTTTTT
3058860 TTGAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 2 0.06
12 8 0.25
13 19 0.59
14 3 0.09
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (13 bp):
CTTTTTTTTTTTG
Found at i:3060422 original size:22 final size:22
Alignment explanation
Indices: 3060394--3060446 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
3060384 TGACCAATTG
3060394 TTTGAATTTTTAGAAAATATTA
1 TTTGAATTTTTAGAAAATATTA
3060416 TTTGAATTTTTAGAAAATATTA
1 TTTGAATTTTTAGAAAATATTA
3060438 TTTGAATTT
1 TTTGAATTT
3060447 AAATTATAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
TTTGAATTTTTAGAAAATATTA
Found at i:3062540 original size:33 final size:33
Alignment explanation
Indices: 3062477--3062550 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
3062467 GTGTGTGTAC
* *
3062477 TGGGTGGAGCTTCAAATTGGTTTTCGGTGTTGT
1 TGGGTGGAGCTTCAAATTGGTTTTCAGTGTTCT
*
3062510 TGGGTTGGAGCTT-AAGTTGG-TTTCTAGTGTTCT
1 TGGG-TGGAGCTTCAAATTGGTTTTC-AGTGTTCT
3062543 TGGTGTGG
1 TGG-GTGG
3062551 TAGATGGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
32 4 0.11
33 22 0.63
34 9 0.26
ACGTcount: A:0.11, C:0.08, G:0.38, T:0.43
Consensus pattern (33 bp):
TGGGTGGAGCTTCAAATTGGTTTTCAGTGTTCT
Found at i:3063636 original size:61 final size:60
Alignment explanation
Indices: 3063541--3063659 Score: 202
Period size: 61 Copynumber: 2.0 Consensus size: 60
3063531 ACCAAGCTAA
*
3063541 CTAACTACATAAAATCAATATAAAATTGAATTAAATATCATATGATGGGACTTTAATCTAT
1 CTAACTACATAAAATCAACATAAAATTGAATTAAAT-TCATATGATGGGACTTTAATCTAT
* *
3063602 CTAACTATATAAAATCAACATAAAATTGAATTAAATTCATATGATGGGATTTTAATCT
1 CTAACTACATAAAATCAACATAAAATTGAATTAAATTCATATGATGGGACTTTAATCT
3063660 CGTACCTAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 21 0.38
61 34 0.62
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.35
Consensus pattern (60 bp):
CTAACTACATAAAATCAACATAAAATTGAATTAAATTCATATGATGGGACTTTAATCTAT
Found at i:3072303 original size:25 final size:25
Alignment explanation
Indices: 3072247--3072293 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
3072237 TATTTATGTA
*
3072247 ATTTTTT--ATAAATATATATTAAC
1 ATTTTTTAAATAAAAATATATTAAC
3072270 ATTTTTTAAATAAAAATATATTAA
1 ATTTTTTAAATAAAAATATATTAA
3072294 TTCTTATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTTTTAAATAAAAATATATTAAC
Found at i:3074622 original size:27 final size:28
Alignment explanation
Indices: 3074592--3074644 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
3074582 TAAGGTTTAA
*
3074592 GGGCT-AGGGTAACAAAGAGAATGAAAT
1 GGGCTGAGGATAACAAAGAGAATGAAAT
3074619 GGGCTGAGGATAACAAAGAGAATGAA
1 GGGCTGAGGATAACAAAGAGAATGAA
3074645 CAAGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.45, C:0.08, G:0.34, T:0.13
Consensus pattern (28 bp):
GGGCTGAGGATAACAAAGAGAATGAAAT
Found at i:3074924 original size:15 final size:15
Alignment explanation
Indices: 3074904--3074935 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
3074894 TTATTATTTG
3074904 ATAATTATATGGTAA
1 ATAATTATATGGTAA
3074919 ATAATTATATGGTAA
1 ATAATTATATGGTAA
3074934 AT
1 AT
3074936 GTTATTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (15 bp):
ATAATTATATGGTAA
Found at i:3080632 original size:13 final size:13
Alignment explanation
Indices: 3080616--3080649 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
3080606 AAAATGTTTG
3080616 AAAATTATTGTGA
1 AAAATTATTGTGA
*
3080629 AAAATAATTGTGA
1 AAAATTATTGTGA
*
3080642 AAAGTTAT
1 AAAATTAT
3080650 GATTTGAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (13 bp):
AAAATTATTGTGA
Found at i:3081565 original size:3 final size:3
Alignment explanation
Indices: 3081559--3081599 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
3081549 ATTATTATTA
*
3081559 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTT TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
3081600 ATTATTATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (3 bp):
TTG
Found at i:3081615 original size:9 final size:9
Alignment explanation
Indices: 3081556--3081614 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
3081546 ATTATTATTA
3081556 TTATTGTTG
1 TTATTGTTG
*
3081565 TTGTTGTTG
1 TTATTGTTG
*
3081574 TTGTTGTTG
1 TTATTGTTG
* *
3081583 TTGTTTTTG
1 TTATTGTTG
* *
3081592 TTGTTGTTA
1 TTATTGTTG
*
3081601 TTATTATTG
1 TTATTGTTG
3081610 TTATT
1 TTATT
3081615 ACTTATTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.08, C:0.00, G:0.22, T:0.69
Consensus pattern (9 bp):
TTATTGTTG
Found at i:3082062 original size:19 final size:19
Alignment explanation
Indices: 3082040--3082076 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3082030 TTTTGTTTGA
*
3082040 AGGTTTGAATTTTTCGACG
1 AGGTTTGAAGTTTTCGACG
3082059 AGGTTTGAAGTTTTCGAC
1 AGGTTTGAAGTTTTCGAC
3082077 CAAGTTTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.41
Consensus pattern (19 bp):
AGGTTTGAAGTTTTCGACG
Found at i:3082083 original size:19 final size:19
Alignment explanation
Indices: 3082042--3082083 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
3082032 TTGTTTGAAG
* * *
3082042 GTTTGAATTTTTCGACGAG
1 GTTTGAAGTTTTCGACCAA
3082061 GTTTGAAGTTTTCGACCAA
1 GTTTGAAGTTTTCGACCAA
3082080 GTTT
1 GTTT
3082084 CAGCTAGTTT
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:0.21, C:0.12, G:0.24, T:0.43
Consensus pattern (19 bp):
GTTTGAAGTTTTCGACCAA
Found at i:3087768 original size:9 final size:9
Alignment explanation
Indices: 3087754--3087802 Score: 66
Period size: 9 Copynumber: 5.4 Consensus size: 9
3087744 TTTTCATTTA
3087754 TATTTTATT
1 TATTTTATT
3087763 TATTTTATT
1 TATTTTATT
3087772 TA-TTTATAT
1 TATTTTAT-T
3087781 T-TTTTATT
1 TATTTTATT
3087789 TCATTTTATT
1 T-ATTTTATT
3087799 TATT
1 TATT
3087803 ATCATTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
8 7 0.19
9 21 0.58
10 8 0.22
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (9 bp):
TATTTTATT
Found at i:3087775 original size:13 final size:13
Alignment explanation
Indices: 3087757--3087825 Score: 68
Period size: 13 Copynumber: 4.9 Consensus size: 13
3087747 TCATTTATAT
3087757 TTTATTTATTTTA
1 TTTATTTATTTTA
3087770 TTTATTTATATTT-
1 TTTATTTAT-TTTA
3087783 TTTATTTCATTTTA
1 TTTATTT-ATTTTA
3087797 TTTATTATCATTATTA
1 TTTATT-T-ATT-TTA
*
3087813 TTATACTTATTTT
1 TT-TATTTATTTT
3087826 TAAATTAAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
13 19 0.39
14 13 0.27
15 8 0.16
16 6 0.12
17 3 0.06
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:3087804 original size:17 final size:16
Alignment explanation
Indices: 3087754--3087804 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 16
3087744 TTTTCATTTA
3087754 TATTTTATTTATTTTATT
1 TATTTTATTTA--TTATT
*
3087772 TATTTATATTTTTTATT
1 TATTT-TATTTATTATT
3087789 TCATTTTATTTATTAT
1 T-ATTTTATTTATTAT
3087805 CATTATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 15 0.52
18 9 0.31
19 5 0.17
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (16 bp):
TATTTTATTTATTATT
Found at i:3087814 original size:26 final size:24
Alignment explanation
Indices: 3087749--3087802 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 24
3087739 TTTTCTTTTC
3087749 ATTTATATTTTATTTATTTTATTT
1 ATTTATATTTTATTTATTTTATTT
3087773 ATTTATATTTTTTATTTCATTTTATTT
1 ATTTATA--TTTTATTT-ATTTTATTT
3087800 ATT
1 ATT
3087803 ATCATTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 7 0.26
26 8 0.30
27 12 0.44
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (24 bp):
ATTTATATTTTATTTATTTTATTT
Found at i:3089368 original size:69 final size:70
Alignment explanation
Indices: 3089231--3089369 Score: 226
Period size: 70 Copynumber: 2.0 Consensus size: 70
3089221 TATAAAAAAA
* *
3089231 AAAAAAAAAACTCTCATTAAAGAAAGAATCTTATATAATATCGTAATCATATCACAATCTTAAAT
1 AAAAAAAAAACTCTCATTAAACAAAGAATCTTATATAATATAGTAATCATATCACAATCTTAAAT
3089296 ATTAT
66 ATTAT
* * *
3089301 AAAAAAAAAATTCTCATTAAACAAAGAATCTTATATAATATAGTAATC-TATCATAATTTTAAAT
1 AAAAAAAAAACTCTCATTAAACAAAGAATCTTATATAATATAGTAATCATATCACAATCTTAAAT
3089365 ATTAT
66 ATTAT
3089370 TTTAATTACA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
69 19 0.30
70 45 0.70
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.34
Consensus pattern (70 bp):
AAAAAAAAAACTCTCATTAAACAAAGAATCTTATATAATATAGTAATCATATCACAATCTTAAAT
ATTAT
Found at i:3089394 original size:21 final size:21
Alignment explanation
Indices: 3089369--3089465 Score: 63
Period size: 21 Copynumber: 4.3 Consensus size: 21
3089359 TTAAATATTA
3089369 TTTTAATTACAATATCATAAT
1 TTTTAATTACAATATCATAAT
*
3089390 TTTTAA-TATAATAT-AGTAAT
1 TTTTAATTACAATATCA-TAAT
* *
3089410 CTTATATAATATAGTAATCTATCACAAT
1 -TT-T-TAAT-TA-CAA--TATCATAAT
* *
3089438 TTTAAATTACAGTATCATAAT
1 TTTTAATTACAATATCATAAT
3089459 TTTTAAT
1 TTTTAAT
3089466 ATTATATTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
19 1 0.02
20 11 0.19
21 22 0.37
22 1 0.02
23 4 0.07
24 2 0.03
25 5 0.08
26 4 0.07
27 2 0.03
28 6 0.10
29 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.46
Consensus pattern (21 bp):
TTTTAATTACAATATCATAAT
Found at i:3089418 original size:18 final size:18
Alignment explanation
Indices: 3089395--3089429 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3089385 ATAATTTTTA
3089395 ATATAATATAGTAATCTT
1 ATATAATATAGTAATCTT
3089413 ATATAATATAGTAATCT
1 ATATAATATAGTAATCT
3089430 ATCACAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (18 bp):
ATATAATATAGTAATCTT
Found at i:3092033 original size:35 final size:35
Alignment explanation
Indices: 3091976--3092043 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
3091966 TCAAGCATTC
*
3091976 TTTCTTTATAAAGTTGGAATTACAACTTCTTTTATT
1 TTTCTTTATAAAGTTGGAATTACAA-TTCCTTTATT
***
3092012 TTTCTTTAT-AAGTTTTTATTACAATTCCTTTA
1 TTTCTTTATAAAGTTGGAATTACAATTCCTTTA
3092044 ATGCTTTACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 7 0.25
35 12 0.43
36 9 0.32
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (35 bp):
TTTCTTTATAAAGTTGGAATTACAATTCCTTTATT
Found at i:3101217 original size:16 final size:15
Alignment explanation
Indices: 3101198--3101266 Score: 54
Period size: 17 Copynumber: 4.5 Consensus size: 15
3101188 TAATAAATAA
3101198 AATTTGTAACTTAATT
1 AATTT-TAACTTAATT
* *
3101214 AATTTTAAATGATAATA
1 AATTTTAACT--TAATT
*
3101231 AATTTTAA-ATAA--
1 AATTTTAACTTAATT
3101243 AATTTGTAACTTAATT
1 AATTT-TAACTTAATT
3101259 AATTTTAA
1 AATTTTAA
3101267 ATGATAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
12 5 0.12
13 3 0.07
14 6 0.14
15 7 0.16
16 10 0.23
17 12 0.28
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (15 bp):
AATTTTAACTTAATT
Found at i:3101234 original size:17 final size:16
Alignment explanation
Indices: 3101209--3101286 Score: 58
Period size: 17 Copynumber: 5.0 Consensus size: 16
3101199 ATTTGTAACT
*
3101209 TAATTAATTTTAAATGA
1 TAATAAATTTTAAAT-A
3101226 TAATAAATTTT-AA-A
1 TAATAAATTTTAAATA
*
3101240 T-A-AAATTTGTAACT-
1 TAATAAATTT-TAAATA
*
3101254 TAATTAATTTTAAATGA
1 TAATAAATTTTAAAT-A
*
3101271 TAATAAGTTTTAAATA
1 TAATAAATTTTAAATA
3101287 AAATTTGTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
12 6 0.12
13 2 0.04
14 4 0.08
15 5 0.10
16 8 0.17
17 23 0.48
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (16 bp):
TAATAAATTTTAAATA
Found at i:3101240 original size:45 final size:45
Alignment explanation
Indices: 3101191--3101296 Score: 203
Period size: 45 Copynumber: 2.4 Consensus size: 45
3101181 TAATTATTAA
3101191 TAAATAAAATTTGTAACTTAATTAATTTTAAATGATAATAAATTT
1 TAAATAAAATTTGTAACTTAATTAATTTTAAATGATAATAAATTT
*
3101236 TAAATAAAATTTGTAACTTAATTAATTTTAAATGATAATAAGTTT
1 TAAATAAAATTTGTAACTTAATTAATTTTAAATGATAATAAATTT
3101281 TAAATAAAATTTGTAA
1 TAAATAAAATTTGTAA
3101297 GTATTATATT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (45 bp):
TAAATAAAATTTGTAACTTAATTAATTTTAAATGATAATAAATTT
Found at i:3101333 original size:26 final size:30
Alignment explanation
Indices: 3101302--3101369 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
3101292 TGTAAGTATT
3101302 ATATTA-ATTAATAAA-TTTAT-AA-TTAA
1 ATATTAGATTAATAAATTTTATAAATTTAA
* *
3101328 ATATTAGACTAA-AAATTTTTTAAATTTAA
1 ATATTAGATTAATAAATTTTATAAATTTAA
*
3101357 ATATTATATTAAT
1 ATATTAGATTAAT
3101370 TTGGTTTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 9 0.27
27 8 0.24
28 2 0.06
29 14 0.42
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
ATATTAGATTAATAAATTTTATAAATTTAA
Found at i:3101944 original size:22 final size:22
Alignment explanation
Indices: 3101919--3101968 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
3101909 AATAATCTCA
3101919 AATAATGGAAAAAAATGCCTTG
1 AATAATGGAAAAAAATGCCTTG
** *
3101941 AATAATGGGTAAAAATGCTTTG
1 AATAATGGAAAAAAATGCCTTG
3101963 AATAAT
1 AATAAT
3101969 CTCAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.28
Consensus pattern (22 bp):
AATAATGGAAAAAAATGCCTTG
Found at i:3101976 original size:22 final size:22
Alignment explanation
Indices: 3101919--3101977 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
3101909 AATAATCTCA
* *
3101919 AATAATGGAAAAAAATGCCTTG
1 AATAATCGCAAAAAATGCCTTG
* ** *
3101941 AATAATGGGTAAAAATGCTTTG
1 AATAATCGCAAAAAATGCCTTG
*
3101963 AATAATCTCAAAAAA
1 AATAATCGCAAAAAA
3101978 AAAATTATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.25
Consensus pattern (22 bp):
AATAATCGCAAAAAATGCCTTG
Found at i:3104849 original size:21 final size:21
Alignment explanation
Indices: 3104823--3104864 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3104813 AATCCTTAAG
3104823 TTGGTAATGCTGATACTCAAA
1 TTGGTAATGCTGATACTCAAA
* * *
3104844 TTGGTAGTGTTGATATTCAAA
1 TTGGTAATGCTGATACTCAAA
3104865 GTGATAAGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (21 bp):
TTGGTAATGCTGATACTCAAA
Found at i:3108830 original size:319 final size:314
Alignment explanation
Indices: 3108256--3109351 Score: 999
Period size: 319 Copynumber: 3.4 Consensus size: 314
3108246 AAAGTTGTCA
* * * * * * *
3108256 TTTATATCCGTTTAGCACTTT-TTGTGTCATTAAAGGGAAAAATATAAATATGCAGTTATTTTTT
1 TTTATGTCTGTTTAGCACTTTGTTATGCCATTAAAGGCAAAAATATAAATTTGCAGTTATTATTT
* * * * * * *
3108320 TGTTTTAACAATTTGGATAGCTTTAATACATTATATTAAACTTGCTCAAATGACTGAACTTGGTT
66 AGTTTTAACAGTTTAGATAGC-TTAATACATGATATTAAACTTGTTTAAATGATTGAACTTGGTT
* * * *
3108385 TTCATGGTTGATATGTGTGAAAAGTTACTGTTTATATCTTTTTAGGACTTTGTTGTGCTGTTAAA
130 TTCATAGTTGATATGTGTGAAAAGTTAC-ATTTATATCTATTTAGGA-TTTTTTGTGCTGTTAAA
* * * * * *
3108450 AGGCAAAAATGTAAATATGTAG-TTA-TATTTATGTTTTAACAATTTGGATAGCTTAAATACATG
193 AGGCCAAAATGAAAATTTGT-GTTTATTA-TTATGTTTTAACAGTTTAGATAGCTTCAATACATG
*
3108513 ATATTCAACTTGTCCGGATGATTGAACTTGGTTTTCACGATTG-ATGTTAGAAAAAGTTAT
256 ATATT-AACTTGTCCGGATGATTGAACTTGATTTTCACGATTGAATGTT-GAAAAAGTTAT
* * * * ***
3108573 TGTTATGTCTGTTTAGCACTTTTTTGTGCCATTAAAAGGCTAAAATGTAAATTTGTTTTTATTAT
1 T-TTATGTCTGTTTAGCACTTTGTTATGCCATT-AAAGGCAAAAATATAAATTTGCAGTTATTAT
* * *
3108638 TTCA-TTTTAACAGTTTAGATAGCTTCAATAAATGATATT-AACTTGTTTGAATGATTGAACTTA
64 TT-AGTTTTAACAGTTTAGATAGCTT-AATACATGATATTAAACTTGTTTAAATGATTGAACTTG
* * * * *
3108701 CTTTGCATAGTTGATATGTGTGAAAAGGTTGTCATTTATGTCTATTTAGGATTTTTTATGCTGTT
127 GTTTTCATAGTTGATATGTGTGAAAA-GTT-ACATTTATATCTATTTAGGATTTTTTGTGCTGTT
* *
3108766 AAAAGGCCAAAATGAAAATTTGTGTTTATTATTCTGTTTTAACAGTTTAGATAGTTTCAATACAT
190 AAAAGGCCAAAATGAAAATTTGTGTTTATTATTATGTTTTAACAGTTTAGATAGCTTCAATACAT
* * * * * *
3108831 AATATTAAACTTGTCCAGATAATTGAACTTGATTTTCATGATTGATATGTGCGAAAAAGTTACCA
255 GATATT-AACTTGTCCGGATGATTGAACTTGATTTTCACGATTGA-ATGT-TGAAAAAGTTA--T
* * * * * * *
3108896 TTTATGTCTTTTTAAG-ACTTTGTTATGCCGTTAAAGGGTAAAAATGTTATTTTGCATTTATT-T
1 TTTATGTCTGTTT-AGCACTTTGTTATGCCATTAAA-GGCAAAAATATAAATTTGCAGTTATTAT
* * * *
3108959 TTATGTTTTAATAGTTTAGATAGCTTAAATACATTATATTAAACATTTTTTGAATGATTGAACTT
64 TTA-GTTTTAACAGTTTAGATAGCTT-AATACATGATATTAAAC-TTGTTTAAATGATTGAACTT
* * * * * ** * *
3109024 GGTTTTCATGAATT-ATTTGTATGAAAAAGTTACCATTTATACCTGTTTAACACTTTTTGTGCCG
126 GGTTTTCAT-AGTTGATATGTGTG-AAAAGTTA-CATTTATATCTATTTAGGATTTTTTGTGCTG
* * * *
3109088 TTAAAAGGCCAAAATGCAAATTTGTGTTTATTATTATGTTTTGACAGTTTAGATAACTTCAGTAC
188 TTAAAAGGCCAAAATGAAAATTTGTGTTTATTATTATGTTTTAACAGTTTAGATAGCTTCAATAC
* * * ** *
3109153 ATGATATTAAGTTTATCCGAATGATTGATTGAACTTGATTTCCACGGCTGATATGTGTGAAAATG
253 ATGATATTAA-CTTGTCCG---GA-TGATTGAACTTGATTTTCACGATTGA-ATGT-TGAAAAAG
3109218 TTAT
311 TTAT
* * * * *
3109222 CATT-TGTCTTTTTAGGACTTTGTTATGCCATTAAAGGGCAAAAATATAATTTTGTAGTTA-TAT
1 -TTTATGTCTGTTTAGCACTTTGTTATGCCATTAAA-GGCAAAAATATAAATTTGCAGTTATTAT
* * * * *
3109285 TTATGTTTTAACAGATTAGATAGCTTAATATATGATATTAAACTTATCTAAATGATTGAATTTGG
64 TTA-GTTTTAACAGTTTAGATAGCTTAATACATGATATTAAACTTGTTTAAATGATTGAACTTGG
3109350 TT
128 TT
3109352 ATAACAATTT
Statistics
Matches: 639, Mismatches: 109, Indels: 55
0.80 0.14 0.07
Matches are distributed among these distances:
317 1 0.00
318 19 0.03
319 155 0.24
320 74 0.12
321 21 0.03
322 75 0.12
323 8 0.01
324 149 0.23
325 25 0.04
326 72 0.11
327 4 0.01
328 36 0.06
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (314 bp):
TTTATGTCTGTTTAGCACTTTGTTATGCCATTAAAGGCAAAAATATAAATTTGCAGTTATTATTT
AGTTTTAACAGTTTAGATAGCTTAATACATGATATTAAACTTGTTTAAATGATTGAACTTGGTTT
TCATAGTTGATATGTGTGAAAAGTTACATTTATATCTATTTAGGATTTTTTGTGCTGTTAAAAGG
CCAAAATGAAAATTTGTGTTTATTATTATGTTTTAACAGTTTAGATAGCTTCAATACATGATATT
AACTTGTCCGGATGATTGAACTTGATTTTCACGATTGAATGTTGAAAAAGTTAT
Found at i:3109089 original size:162 final size:161
Alignment explanation
Indices: 3108244--3109419 Score: 914
Period size: 161 Copynumber: 7.3 Consensus size: 161
3108234 GCATCAAATA
** * * * * * *
3108244 AAAAAGTTGTCATTTATATCCGTTTAGCACTTTTTGTGTCATT-AAAGGGAAAAATATAAATATG
1 AAAAAGTTACCATTTATATCTGTTTAGCACTTTTTGTGCCGTTAAAAGGCAAAAATGTAAATTTG
* * * * * * * * *
3108308 CAGTTATTTTTTTGTTTTAACAATTTGGATAGCTTTAATACATTATATTAAACTTGCTCAAATGA
66 TATTTATTTTTATGTTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGA
* *
3108373 CTGAACTTGGTTTTCATGGTTGATATGTGTG
131 TTGAACTTGGTTTTCATGATTGATATGTGTG
** * * * *
3108404 -AAAAGTTACTGTTTATATCTTTTTAGGACTTTGTTGTGCTGTTAAAAGGCAAAAATGTAAATAT
1 AAAAAGTTACCATTTATATCTGTTTAGCACTTT-TTGTGCCGTTAAAAGGCAAAAATGTAAATTT
* * * * * * * *
3108468 GTAGTTATATTTATGTTTTAACAATTTGGATAGCTTAAATACATGATATTCAACTTGTCCGGATG
65 GTATTTATTTTTATGTTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATG
*
3108533 ATTGAACTTGGTTTTCACGATTG--ATGT-TAG
130 ATTGAACTTGGTTTTCATGATTGATATGTGT-G
* * * *
3108563 AAAAAGTTA--TTGTTATGTCTGTTTAGCACTTTTTTGTGCCATTAAAAGGCTAAAATGTAAATT
1 AAAAAGTTACCAT-TTATATCTGTTTAGCAC-TTTTTGTGCCGTTAAAAGGCAAAAATGTAAATT
* * *
3108626 TGTTTTTATTATTTCA--TTTTAACAGTTTAGATAGCTTCAATAAATGATATT-AACTTGTTTGA
64 TGTATTTATT-TTT-ATGTTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGA
** *
3108688 ATGATTGAACTTACTTTGCAT-AGTTGATATGTGTG
127 ATGATTGAACTTGGTTTTCATGA-TTGATATGTGTG
* ** * * * * * * * *
3108723 AAAAGGTTGTCATTTATGTCTATTTAGGATTTTTTATGCTGTTAAAAGGCCAAAATGAAAATTTG
1 AAAAAGTTACCATTTATATCTGTTTAGCACTTTTTGTGCCGTTAAAAGGCAAAAATGTAAATTTG
* * * * * * *
3108788 TGTTTATTATTCTGTTTTAACAGTTTAGATAGTTTCAATACATAATATTAAACTTG-TCCAGATA
66 TATTTATTTTTATGTTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGA-ATG
* *
3108852 ATTGAACTTGATTTTCATGATTGATATGTGCG
130 ATTGAACTTGGTTTTCATGATTGATATGTGTG
* * * * * * *
3108884 AAAAAGTTACCATTTATGTCTTTTTAAG-ACTTTGTTATGCCGTTAAAGGGTAAAAATGTTATTT
1 AAAAAGTTACCATTTATATCTGTTT-AGCACTTT-TTGTGCCGTTAAAAGGCAAAAATGTAAATT
* * * * * *
3108948 TGCATTTATTTTTATGTTTTAATAGTTTAGATAGCTTAAATACATTATATTAAACATTTTTTGAA
64 TGTATTTATTTTTATGTTTTAACAGTTTAGATAGCTTCAATACATGATATTAAAC-TTGTTCGAA
* *
3109013 TGATTGAACTTGGTTTTCATGAATT-ATTTGTATG
128 TGATTGAACTTGGTTTTCATG-ATTGATATGTGTG
* * * *
3109047 AAAAAGTTACCATTTATACCTGTTTAACACTTTTTGTGCCGTTAAAAGGCCAAAATGCAAATTTG
1 AAAAAGTTACCATTTATATCTGTTTAGCACTTTTTGTGCCGTTAAAAGGCAAAAATGTAAATTTG
* * * * * ** * *
3109112 TGTTTATTATTATGTTTTGACAGTTTAGATAACTTCAGTACATGATATTAAGTTTATCCGAATGA
66 TATTTATTTTTATGTTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCG-A--A
* * * **
3109177 TTGATTGAACTTGATTTCCACGGCTGATATGTGTG
128 -TGATTGAACTTGGTTTTCATGATTGATATGTGTG
* * * * * * * * * *
3109212 AAAATGTTATCA-TT-TGTCTTTTTAGGACTTTGTTATGCCATTAAAGGGCAAAAATATAATTTT
1 AAAAAGTTACCATTTATATCTGTTTAGCACTTT-TTGTGCCGTTAAAAGGCAAAAATGTAAATTT
* * * * * *
3109275 GTAGTTATATTTATGTTTTAACAGATTAGATAGCTT-AATATATGATATTAAACTT-ATCTAAAT
65 GTATTTATTTTTATGTTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTC-GAAT
* * * ** *
3109338 GATTGAATTTGGTTATAACAATTTGATATGTAT-
129 GATTGAACTTGGTTTTCATGA-TTGATATGTGTG
* * * * **
3109371 AAATAAGTTACGATTTATGTTTGTTTAGGACTTTTTGTAACGTTAAAAG
1 AAA-AAGTTACCATTTATATCTGTTTAGCACTTTTTGTGCCGTTAAAAG
3109420 ATAAAAAGGC
Statistics
Matches: 802, Mismatches: 178, Indels: 71
0.76 0.17 0.07
Matches are distributed among these distances:
157 1 0.00
158 30 0.04
159 128 0.16
160 120 0.15
161 184 0.23
162 160 0.20
163 82 0.10
164 62 0.08
165 35 0.04
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (161 bp):
AAAAAGTTACCATTTATATCTGTTTAGCACTTTTTGTGCCGTTAAAAGGCAAAAATGTAAATTTG
TATTTATTTTTATGTTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGA
TTGAACTTGGTTTTCATGATTGATATGTGTG
Found at i:3112808 original size:107 final size:105
Alignment explanation
Indices: 3112622--3112826 Score: 356
Period size: 107 Copynumber: 1.9 Consensus size: 105
3112612 TATCGTTTTT
*
3112622 ACAAAAGTTATATAATTAAATTATTGAGTAAAAATCAAGTTTCAAAAGTGATACATTACTAGCGT
1 ACAAAAGTTATATAATTAAATTATTGAGTAAAAATCAAGTTTCAAAAGTGATACATTACTAACGT
*
3112687 TATGTCTAATCTAATGAAAAAAAAATTGATTGATTCGATTTG
66 TACGTCTAATCTAAT--AAAAAAAATTGATTGATTCGATTTG
* *
3112729 ACAAAAGTTATATAATTAAATTATTGAGTAAAAATCAAGTTTCAAAAGTGATATATTGCTAACGT
1 ACAAAAGTTATATAATTAAATTATTGAGTAAAAATCAAGTTTCAAAAGTGATACATTACTAACGT
3112794 TACGTCTAATCTAATAAAAAAAATTGATTGATT
66 TACGTCTAATCTAATAAAAAAAATTGATTGATT
3112827 ACAATAAAAA
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
105 18 0.19
107 76 0.81
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (105 bp):
ACAAAAGTTATATAATTAAATTATTGAGTAAAAATCAAGTTTCAAAAGTGATACATTACTAACGT
TACGTCTAATCTAATAAAAAAAATTGATTGATTCGATTTG
Found at i:3122533 original size:22 final size:24
Alignment explanation
Indices: 3122504--3122560 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
3122494 TAATTCTTGT
* *
3122504 CATTTTTTTAAAGATTATTCAAAG
1 CATTTTTATAGAGATTATTCAAAG
* *
3122528 CATTTTTATTAGGGATTATTCAAGG
1 CATTTTTA-TAGAGATTATTCAAAG
3122553 CATTTTTA
1 CATTTTTA
3122561 CCCAGAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (24 bp):
CATTTTTATAGAGATTATTCAAAG
Found at i:3130274 original size:15 final size:14
Alignment explanation
Indices: 3130246--3130286 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 14
3130236 TGAACATTAA
3130246 ATGATACGACGATG
1 ATGATACGACGATG
3130260 ATGATA--ACGATG
1 ATGATACGACGATG
3130272 ATG--ACGACGATG
1 ATGATACGACGATG
3130284 ATG
1 ATG
3130287 CATAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.04
12 18 0.72
14 6 0.24
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (14 bp):
ATGATACGACGATG
Found at i:3130279 original size:24 final size:24
Alignment explanation
Indices: 3130246--3130291 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
3130236 TGAACATTAA
3130246 ATGATACGACGATGATG-ATAACG
1 ATGATACGACGATGATGCATAACG
3130269 ATGATGACGACGATGATGCATAA
1 ATGAT-ACGACGATGATGCATAA
3130292 ATTTTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (24 bp):
ATGATACGACGATGATGCATAACG
Found at i:3132153 original size:24 final size:22
Alignment explanation
Indices: 3132126--3132179 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
3132116 TTATGATGTC
* *
3132126 ATAATTAATTATTTAATTTATTAT
1 ATAATTAA-TACTTAA-TTATGAT
3132150 ATAAATATAATACTTAATTATGAT
1 AT-AAT-TAATACTTAATTATGAT
3132174 ATAATT
1 ATAATT
3132180 TAAAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 1 0.04
23 3 0.12
24 10 0.38
25 9 0.35
26 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
ATAATTAATACTTAATTATGAT
Found at i:3132225 original size:3 final size:3
Alignment explanation
Indices: 3132217--3132241 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3132207 TGAAACTTAA
3132217 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
3132242 TGACAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3135692 original size:3 final size:3
Alignment explanation
Indices: 3135684--3135727 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
3135674 TTTATGAAAC
3135684 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3135728 TGACAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3139862 original size:22 final size:22
Alignment explanation
Indices: 3139815--3139865 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
3139805 TGGGGCTTGT
* *
3139815 ATTTGAGAAATTTTTTAAATGAA
1 ATTTAAGAAATTTTTAAAAT-AA
3139838 ATTTAAGAAATTTTTAAAA-ATA
1 ATTTAAGAAATTTTTAAAATA-A
3139860 ATTTAA
1 ATTTAA
3139866 TAAAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 7 0.28
23 17 0.68
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (22 bp):
ATTTAAGAAATTTTTAAAATAA
Found at i:3142190 original size:33 final size:33
Alignment explanation
Indices: 3142153--3142272 Score: 133
Period size: 33 Copynumber: 3.7 Consensus size: 33
3142143 AATTTTACTT
3142153 ATAAATAATATTATATTATATTATAATATATTA
1 ATAAATAATATTATATTATATTATAATATATTA
*
3142186 ATAAATACTATTATATTA-ATTATAAATATATT-
1 ATAAATAATATTATATTATATTAT-AATATATTA
* * *
3142218 ATAAATATATATTA-A-TAAATAAT-ATCCTATTA
1 ATAAATA-ATATTATATTATATTATAAT-ATATTA
*
3142250 ATAAATAATATTATAATATATTA
1 ATAAATAATATTATATTATATTA
3142273 ATAAATAACA
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
30 2 0.03
31 12 0.16
32 25 0.34
33 35 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (33 bp):
ATAAATAATATTATATTATATTATAATATATTA
Found at i:3142207 original size:4 final size:5
Alignment explanation
Indices: 3142160--3142220 Score: 52
Period size: 5 Copynumber: 11.6 Consensus size: 5
3142150 CTTATAAATA
* *
3142160 ATATT ATATT ATATT ATAAT ATATT AATAAAT ACTATT ATATT A-ATT
1 ATATT ATATT ATATT ATATT ATATT -AT-ATT A-TATT ATATT ATATT
*
3142207 ATAAAT ATATT ATA
1 AT-ATT ATATT ATA
3142221 AATATATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
4 4 0.09
5 28 0.62
6 10 0.22
7 3 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (5 bp):
ATATT
Found at i:3142280 original size:23 final size:23
Alignment explanation
Indices: 3142170--3142415 Score: 123
Period size: 23 Copynumber: 10.2 Consensus size: 23
3142160 ATATTATATT
3142170 ATATTATAATATATTAATAAATA
1 ATATTATAATATATTAATAAATA
* *
3142193 CTATTATATTA-ATT-ATAAAT-
1 ATATTATAATATATTAATAAATA
3142213 ATATTATAAATATATATTAATAAATA
1 ATATTAT--A-ATATATTAATAAATA
* *
3142239 ATATCCTATTAATA-AATAATATTATA
1 ATAT--TA-TAATATATTAATA-AATA
* *
3142265 ATA-TATTAATAAATAACATAACAATAA
1 ATATTA-TAATATATTA-AT-A-AAT-A
* * *
3142292 ATATTCTTA-AT-TTAATTAATAA
1 ATATTATAATATATTAATAAAT-A
3142314 ATATTATAGTAATATATTAATAAATA
1 ATATT--A-TAATATATTAATAAATA
* *
3142340 ATA-TATTAT-TAGTAAATAACATA
1 ATATTATAATATA-TTAATAA-ATA
*
3142363 CTATTACTATAATATATTAATAAATA
1 --A-TATTATAATATATTAATAAATA
*
3142389 ATATTATAATATATTAATAAGTA
1 ATATTATAATATATTAATAAATA
3142412 ATAT
1 ATAT
3142416 AAAGAATAAT
Statistics
Matches: 172, Mismatches: 24, Indels: 54
0.69 0.10 0.22
Matches are distributed among these distances:
20 6 0.03
21 8 0.05
22 23 0.13
23 47 0.27
24 8 0.05
25 20 0.12
26 28 0.16
27 26 0.15
28 5 0.03
29 1 0.01
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (23 bp):
ATATTATAATATATTAATAAATA
Found at i:3142296 original size:132 final size:131
Alignment explanation
Indices: 3142175--3142417 Score: 287
Period size: 132 Copynumber: 1.8 Consensus size: 131
3142165 ATATTATATT
* * * *
3142175 ATAATATATTAATA-AATACTATTATATTAATTATAAATATATTA-TAAAT-ATATATTAATA-A
1 ATAA-ATATT-ATAGAATA-TATTA-ATAAATAATAAAT-TATTAGTAAATAACATACTAATACA
*
3142236 ATAATATCCTATTAATAAATAATATTATAATATATTAATAAATAACATAACAATAAATATTCTTA
61 ATAATA---TATTAATAAATAATATTATAATATATTAATAAATAACATAACAATAAATATTCATA
3142301 ATTTAATTA
123 ATTTAATTA
* * *
3142310 ATAAATATTATAGTAATATATTAATAAATAATATATTATTAGTAAATAACATACTATTACTATAA
1 ATAAATATTATAG-AATATATTAATAAATAATAAATTATTAGTAAATAACATACTAATACAATAA
* *
3142375 TATATTAATAAATAATATTATAATATATTAATAAGTAATATAA
65 TATATTAATAAATAATATTATAATATATTAATAAATAACATAA
3142418 AGAATAATAA
Statistics
Matches: 94, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
132 44 0.47
133 18 0.19
134 18 0.19
135 14 0.15
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (131 bp):
ATAAATATTATAGAATATATTAATAAATAATAAATTATTAGTAAATAACATACTAATACAATAAT
ATATTAATAAATAATATTATAATATATTAATAAATAACATAACAATAAATATTCATAATTTAATT
A
Found at i:3142398 original size:15 final size:15
Alignment explanation
Indices: 3142175--3142392 Score: 114
Period size: 15 Copynumber: 14.5 Consensus size: 15
3142165 ATATTATATT
3142175 ATAATATATTAATAA
1 ATAATATATTAATAA
*
3142190 ATACTATTATATTAAT-T
1 ATA--A-TATATTAATAA
3142207 ATAAATATATT-ATAA
1 AT-AATATATTAATAA
3142222 AT-ATATATTAATAA
1 ATAATATATTAATAA
** *
3142236 ATAATATCCT-ATTA
1 ATAATATATTAATAA
* *
3142250 ATAA-ATAAT-AT-T
1 ATAATATATTAATAA
3142262 ATAATATATTAATAA
1 ATAATATATTAATAA
* **
3142277 ATAACATAACAATAA
1 ATAATATATTAATAA
* * *
3142292 ATATTCTTAATTTAATTA
1 ATAAT-AT-A-TTAATAA
3142310 ATAA-ATATT-AT-A
1 ATAATATATTAATAA
*
3142322 GTAATATATTAATAA
1 ATAATATATTAATAA
3142337 ATAATATATTATTAGTAA
1 ATAATATATTA--A-TAA
* * * *
3142355 ATAACATACTATTACT
1 ATAATATATTAATA-A
3142371 ATAATATATTAATAA
1 ATAATATATTAATAA
3142386 ATAATAT
1 ATAATAT
3142393 TATAATATAT
Statistics
Matches: 152, Mismatches: 31, Indels: 40
0.68 0.14 0.18
Matches are distributed among these distances:
12 8 0.05
13 23 0.15
14 21 0.14
15 52 0.34
16 14 0.09
17 5 0.03
18 29 0.19
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (15 bp):
ATAATATATTAATAA
Found at i:3142399 original size:15 final size:15
Alignment explanation
Indices: 3142153--3142267 Score: 67
Period size: 18 Copynumber: 7.2 Consensus size: 15
3142143 AATTTTACTT
3142153 ATAAATAATATTATA
1 ATAAATAATATTATA
*
3142168 TTATATTATAATA-TATTA
1 --ATA-AATAATATTA-TA
*
3142186 ATAAATACTATTATA
1 ATAAATAATATTATA
* *
3142201 TTAATTATAA-ATATATT
1 ATAA--ATAATAT-TATA
3142218 ATAAAT-ATA-TATTA
1 ATAAATAATATTA-TA
3142232 ATAAATAATATCCTATTA
1 ATAAATAATAT--TA-TA
3142250 ATAAATAATATTATA
1 ATAAATAATATTATA
3142265 ATA
1 ATA
3142268 TATTAATAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
13 2 0.03
14 8 0.10
15 21 0.27
16 9 0.12
17 14 0.18
18 24 0.31
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAAATAATATTATA
Found at i:3142514 original size:17 final size:18
Alignment explanation
Indices: 3142464--3142527 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
3142454 ATTAACATAA
*
3142464 TATTAAATATTAAATATTAT
1 TATT-AATATTAATTATT-T
*
3142484 TATTAAAATATAATTATTT
1 TATTAATAT-TAATTATTT
*
3142503 T-TTAATATTAATAATTT
1 TATTAATATTAATTATTT
*
3142520 TAATAATA
1 TATTAATA
3142528 AATAATTTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 9 0.24
18 11 0.30
19 6 0.16
20 11 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTAATATTAATTATTT
Found at i:3142522 original size:15 final size:15
Alignment explanation
Indices: 3142502--3142542 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
3142492 TATAATTATT
*
3142502 TTTTAATATTAATAA
1 TTTTAATATAAATAA
3142517 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
*
3142533 TTTCAATATA
1 TTTTAATATA
3142543 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:3142545 original size:26 final size:25
Alignment explanation
Indices: 3142512--3142561 Score: 91
Period size: 26 Copynumber: 2.0 Consensus size: 25
3142502 TTTTAATATT
3142512 AATAATTTTAATAATAAATAATTTC
1 AATAATTTTAATAATAAATAATTTC
3142537 AATATATTTTAATAATAAATAATTT
1 AATA-ATTTTAATAATAAATAATTT
3142562 TTAATGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
AATAATTTTAATAATAAATAATTTC
Found at i:3142561 original size:16 final size:16
Alignment explanation
Indices: 3142502--3142562 Score: 55
Period size: 15 Copynumber: 4.2 Consensus size: 16
3142492 TATAATTATT
*
3142502 TTTTAAT-ATTAATAA
1 TTTTAATAATAAATAA
3142517 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
*
3142533 -TTT--CAAT--AT-A
1 TTTTAATAATAAATAA
3142543 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
3142559 TTTT
1 TTTT
3142563 TAATGTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 13
0.69 0.06 0.25
Matches are distributed among these distances:
10 1 0.03
11 5 0.14
13 6 0.17
15 12 0.33
16 12 0.33
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTTAATAATAAATAA
Found at i:3142802 original size:22 final size:20
Alignment explanation
Indices: 3142773--3142816 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
3142763 TTATTTTTAA
3142773 AATTTTTTAAATAAATTATTT
1 AATTTTTTAAATAAATT-TTT
**
3142794 AATTATTTTTTATAAATTTTT
1 AATT-TTTTAAATAAATTTTT
3142815 AA
1 AA
3142817 ACATTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTTTTTAAATAAATTTTT
Found at i:3150840 original size:18 final size:18
Alignment explanation
Indices: 3150813--3150856 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
3150803 AAAGATTCAT
*
3150813 AAGA-TTTTCAAATTTGC
1 AAGATTTTTCAAATTTAC
*
3150830 AAGATTTTTCAGATTTAC
1 AAGATTTTTCAAATTTAC
3150848 AAGATTTTT
1 AAGATTTTT
3150857 AGATTCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (18 bp):
AAGATTTTTCAAATTTAC
Found at i:3150860 original size:17 final size:17
Alignment explanation
Indices: 3150813--3150861 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
3150803 AAAGATTCAT
* * *
3150813 AAGATTTTCAAATTTGC
1 AAGATTTTTAGATTTAC
3150830 AAGATTTTTCAGATTTAC
1 AAGATTTTT-AGATTTAC
3150848 AAGATTTTTAGATT
1 AAGATTTTTAGATT
3150862 CATAAGAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (17 bp):
AAGATTTTTAGATTTAC
Found at i:3150868 original size:17 final size:17
Alignment explanation
Indices: 3150805--3150901 Score: 79
Period size: 17 Copynumber: 5.7 Consensus size: 17
3150795 CAAGGTTAAA
3150805 AGATTCATAAGATTTTC
1 AGATTCATAAGATTTTC
* ***
3150822 AAATTTGCAAGATTTTTC
1 AGATTCATAAGA-TTTTC
* * *
3150840 AGATTTACAAGATTTTT
1 AGATTCATAAGATTTTC
*
3150857 AGATTCATAAGAATTTC
1 AGATTCATAAGATTTTC
* **
3150874 AGTTTCATAAGA-GCTC
1 AGATTCATAAGATTTTC
3150890 AGATTCATAAGA
1 AGATTCATAAGA
3150902 ATTAAAGATA
Statistics
Matches: 64, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
16 13 0.20
17 36 0.56
18 15 0.23
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.38
Consensus pattern (17 bp):
AGATTCATAAGATTTTC
Found at i:3150896 original size:16 final size:16
Alignment explanation
Indices: 3150857--3150901 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
3150847 CAAGATTTTT
**
3150857 AGATTCATAAGAATTTC
1 AGATTCATAAG-AGCTC
*
3150874 AGTTTCATAAGAGCTC
1 AGATTCATAAGAGCTC
3150890 AGATTCATAAGA
1 AGATTCATAAGA
3150902 ATTAAAGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (16 bp):
AGATTCATAAGAGCTC
Found at i:3151033 original size:16 final size:16
Alignment explanation
Indices: 3151014--3151113 Score: 56
Period size: 16 Copynumber: 6.1 Consensus size: 16
3151004 TTTATATTTA
*
3151014 CAAGATTTCAGTTTCG
1 CAAGATTTCAGATTCG
** *
3151030 CAAGAATTAAAGATTCA
1 CAAG-ATTTCAGATTCG
* * *
3151047 AAAGATCTCAGATTCA
1 CAAGATTTCAGATTCG
**
3151063 CAAGAATTAAAGATTCG
1 CAAG-ATTTCAGATTCG
* * *
3151080 CAAGCTTTCAGGTTTG
1 CAAGATTTCAGATTCG
* *
3151096 CAAGATTTTAGTTTCG
1 CAAGATTTCAGATTCG
3151112 CA
1 CA
3151114 TTTGAGAGAT
Statistics
Matches: 60, Mismatches: 22, Indels: 4
0.70 0.26 0.05
Matches are distributed among these distances:
16 37 0.62
17 23 0.38
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (16 bp):
CAAGATTTCAGATTCG
Found at i:3151052 original size:33 final size:33
Alignment explanation
Indices: 3151015--3151100 Score: 102
Period size: 33 Copynumber: 2.6 Consensus size: 33
3151005 TTATATTTAC
3151015 AAGATTTCAGTTTCGCAAGAATTAAAGATTCAA
1 AAGATTTCAGTTTCGCAAGAATTAAAGATTCAA
* * * **
3151048 AAGATCTCAGATTCACAAGAATTAAAGATTCGC
1 AAGATTTCAGTTTCGCAAGAATTAAAGATTCAA
*
3151081 AAGCTTTCAGGTTT-GCAAGA
1 AAGATTTCA-GTTTCGCAAGA
3151101 TTTTAGTTTC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
33 40 0.93
34 3 0.07
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (33 bp):
AAGATTTCAGTTTCGCAAGAATTAAAGATTCAA
Found at i:3151078 original size:17 final size:17
Alignment explanation
Indices: 3151030--3151083 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
3151020 TTCAGTTTCG
3151030 CAAGAATTAAAGATTCA
1 CAAGAATTAAAGATTCA
* *
3151047 AAAG-ATCT-CAGATTCA
1 CAAGAAT-TAAAGATTCA
*
3151063 CAAGAATTAAAGATTCG
1 CAAGAATTAAAGATTCA
3151080 CAAG
1 CAAG
3151084 CTTTCAGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (17 bp):
CAAGAATTAAAGATTCA
Found at i:3151291 original size:46 final size:47
Alignment explanation
Indices: 3151227--3151331 Score: 117
Period size: 46 Copynumber: 2.3 Consensus size: 47
3151217 AACAAAAGTT
* *
3151227 AAAGATT-TTCATTTGAAAAACTTGAGAGATTCACTTCTAAGATTTC
1 AAAGATTCTTCATTCGAAAAACTTGAGAGATTCACATCTAAGATTTC
* * * * *
3151273 AAAGATTCTT-ATTCGAAAAGCTTTAGAGATTTACATGTAATATTTC
1 AAAGATTCTTCATTCGAAAAACTTGAGAGATTCACATCTAAGATTTC
*
3151319 AAAGGTTC-TCATT
1 AAAGATTCTTCATT
3151332 TAAAAATTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.02
46 46 0.94
47 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (47 bp):
AAAGATTCTTCATTCGAAAAACTTGAGAGATTCACATCTAAGATTTC
Found at i:3152607 original size:8 final size:8
Alignment explanation
Indices: 3152596--3152641 Score: 58
Period size: 9 Copynumber: 5.6 Consensus size: 8
3152586 ACATTTTTCA
3152596 TCATTTTT
1 TCATTTTT
3152604 TCATTTTT
1 TCATTTTT
3152612 T-ATTTTT
1 TCATTTTT
*
3152619 TTATTTTTT
1 TCA-TTTTT
3152628 TCACTTTTT
1 TCA-TTTTT
3152637 TCATT
1 TCATT
3152642 ATTGATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 7 0.21
8 12 0.35
9 15 0.44
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (8 bp):
TCATTTTT
Found at i:3152608 original size:18 final size:16
Alignment explanation
Indices: 3152596--3152641 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
3152586 ACATTTTTCA
3152596 TCATTTTTTCATTTTT
1 TCATTTTTTCATTTTT
*
3152612 T-ATTTTTTTATTTTTT
1 TCATTTTTTCA-TTTTT
3152628 TCACTTTTTTCATT
1 TCA-TTTTTTCATT
3152642 ATTGATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 8 0.32
16 7 0.28
17 3 0.12
18 7 0.28
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (16 bp):
TCATTTTTTCATTTTT
Found at i:3152612 original size:9 final size:9
Alignment explanation
Indices: 3152579--3152641 Score: 60
Period size: 8 Copynumber: 7.1 Consensus size: 9
3152569 TTCTTACTCG
*
3152579 TTTTTTCAC
1 TTTTTTCAT
*
3152588 ATTTTTCAT
1 TTTTTTCAT
3152597 CATTTTTTCA-
1 --TTTTTTCAT
3152607 TTTTTT-AT
1 TTTTTTCAT
3152615 TTTTTT-AT
1 TTTTTTCAT
*
3152623 TTTTTTCAC
1 TTTTTTCAT
3152632 TTTTTTCAT
1 TTTTTTCAT
3152641 T
1 T
3152642 ATTGATATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
7 1 0.02
8 20 0.44
9 17 0.38
11 7 0.16
ACGTcount: A:0.14, C:0.13, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:3153554 original size:22 final size:23
Alignment explanation
Indices: 3153529--3153572 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3153519 ATGAAATCTT
*
3153529 ATTAC-ATAAAAGAAATTTTAAC
1 ATTACTATAAAAGAAATCTTAAC
*
3153551 ATTACTTTAAAAGAAATCTTAA
1 ATTACTATAAAAGAAATCTTAA
3153573 AATGACAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (23 bp):
ATTACTATAAAAGAAATCTTAAC
Found at i:3160428 original size:66 final size:66
Alignment explanation
Indices: 3160313--3160511 Score: 337
Period size: 66 Copynumber: 3.0 Consensus size: 66
3160303 AAGCTGTTAA
* *
3160313 TAACTGCTGTGATTTCGTTAGCATATTA-ATAAATAGACTTAAGCTGGTTGTTAACTTCAATTCA
1 TAACAGCTGTGATTTCGTTAGCATATTATA-AAAGAGACTTAAGCTGGTTGTTAACTTCAATTCA
3160377 TT
65 TT
*
3160379 TAACAGCTATGATTTCGTTAGCATATTATAAAAGAGACTTAAGCTGGTTGTTAACTTCAATTCAT
1 TAACAGCTGTGATTTCGTTAGCATATTATAAAAGAGACTTAAGCTGGTTGTTAACTTCAATTCAT
3160444 T
66 T
* *
3160445 TAACAGCTGTGATTCCATTAGCATATTATAAAAGAGACTTAAGCTGGTTGTTAACTTCAATTCAT
1 TAACAGCTGTGATTTCGTTAGCATATTATAAAAGAGACTTAAGCTGGTTGTTAACTTCAATTCAT
3160510 T
66 T
3160511 T
1 T
3160512 CTATAAAAAT
Statistics
Matches: 126, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
66 125 0.99
67 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (66 bp):
TAACAGCTGTGATTTCGTTAGCATATTATAAAAGAGACTTAAGCTGGTTGTTAACTTCAATTCAT
T
Found at i:3169286 original size:22 final size:23
Alignment explanation
Indices: 3169242--3169291 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
3169232 AGAAAGTGCC
*
3169242 AAAATTTTTTATAATTAATTTAA
1 AAAATTTTTGATAATTAATTTAA
* *
3169265 GAAATTTTTGGTAATTAA-TTAA
1 AAAATTTTTGATAATTAATTTAA
3169287 AAAAT
1 AAAAT
3169292 AAAGATTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (23 bp):
AAAATTTTTGATAATTAATTTAA
Found at i:3172579 original size:2 final size:2
Alignment explanation
Indices: 3172572--3172600 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3172562 CTTTCGTATT
3172572 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3172601 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3175613 original size:6 final size:6
Alignment explanation
Indices: 3175592--3175623 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
3175582 AAGCAGAAGT
3175592 AAAAT- AAAAT- AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
3175624 CCTTCATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:3178635 original size:2 final size:2
Alignment explanation
Indices: 3178628--3178662 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
3178618 TATCTTGCAG
3178628 TA TA TA TA TA TA TA TA TA TA TA -A 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
3178663 AACTTTCGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3179336 original size:21 final size:22
Alignment explanation
Indices: 3179305--3179357 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
3179295 TTATATAATT
3179305 ATATATTTATA-TTTAAAAAATA
1 ATAT-TTTATATTTTAAAAAATA
3179327 ATATTTTATATTTTAAAAAATA
1 ATATTTTATATTTTAAAAAATA
3179349 ATATTTTAT
1 ATATTTTAT
3179358 TAATTTCGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTTTATATTTTAAAAAATA
Found at i:3181950 original size:23 final size:23
Alignment explanation
Indices: 3181901--3181944 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
3181891 ATAAGAGAAA
*
3181901 TTGATTCGAAGCCTCTTTAATAT
1 TTGATTCGAAGCCTCTTGAATAT
3181924 TTGATCTCGAAGCCT-TTGAAT
1 TTGAT-TCGAAGCCTCTTGAAT
3181945 TGTTGAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (23 bp):
TTGATTCGAAGCCTCTTGAATAT
Found at i:3182029 original size:16 final size:16
Alignment explanation
Indices: 3182008--3182041 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3181998 GAAAGGAAAT
* *
3182008 TAATTAATATTATATA
1 TAATTAAAACTATATA
3182024 TAATTAAAACTATATA
1 TAATTAAAACTATATA
3182040 TA
1 TA
3182042 TATATACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATTAAAACTATATA
Found at i:3183800 original size:16 final size:18
Alignment explanation
Indices: 3183769--3183801 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
3183759 TCTTGAAATT
3183769 TCTTCTACTCTATCCATG
1 TCTTCTACTCTATCCATG
3183787 TCTTCTA-T-TATCCAT
1 TCTTCTACTCTATCCAT
3183802 AAAGTTGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.18, C:0.30, G:0.03, T:0.48
Consensus pattern (18 bp):
TCTTCTACTCTATCCATG
Found at i:3193152 original size:18 final size:17
Alignment explanation
Indices: 3193124--3193168 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
3193114 AGTAAGATGA
3193124 AAAAGAAAAGAAAAAGAG
1 AAAA-AAAAGAAAAAGAG
* *
3193142 AAGAAAAAAGAACAAGAT
1 AA-AAAAAAGAAAAAGAG
3193160 AAAAAAAAG
1 AAAAAAAAG
3193169 GGAAAGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.29
18 15 0.62
19 2 0.08
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (17 bp):
AAAAAAAAGAAAAAGAG
Found at i:3193158 original size:13 final size:12
Alignment explanation
Indices: 3193123--3193168 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
3193113 TAGTAAGATG
3193123 AAAAAGAAAAG-
1 AAAAAGAAAAGA
*
3193134 AAAAAGAGAAGA
1 AAAAAGAAAAGA
3193146 AAAAAGAACAAGA
1 AAAAAGAA-AAGA
*
3193159 TAAAA-AAAAG
1 AAAAAGAAAAG
3193169 GGAAAGGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 13 0.43
12 9 0.30
13 8 0.27
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.02
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:3203010 original size:11 final size:12
Alignment explanation
Indices: 3202994--3203022 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3202984 CTCGAGGTTG
3202994 AAAGAA-AGGCT
1 AAAGAAGAGGCT
3203005 AAAGAAGAGGCT
1 AAAGAAGAGGCT
3203017 AAAGAA
1 AAAGAA
3203023 TAAGTGGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.59, C:0.07, G:0.28, T:0.07
Consensus pattern (12 bp):
AAAGAAGAGGCT
Found at i:3203725 original size:21 final size:21
Alignment explanation
Indices: 3203700--3203740 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3203690 CTAAATTTAA
3203700 TAAATTAAATTGAGAATCTAT
1 TAAATTAAATTGAGAATCTAT
* *
3203721 TAAATTAACTTGATAATCTA
1 TAAATTAAATTGAGAATCTA
3203741 ATTTAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (21 bp):
TAAATTAAATTGAGAATCTAT
Found at i:3205128 original size:11 final size:11
Alignment explanation
Indices: 3205112--3205136 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3205102 ATTTGTGAAT
3205112 AAGTTCATTTA
1 AAGTTCATTTA
3205123 AAGTTCATTTA
1 AAGTTCATTTA
3205134 AAG
1 AAG
3205137 CTTGTTCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (11 bp):
AAGTTCATTTA
Found at i:3205264 original size:20 final size:21
Alignment explanation
Indices: 3205239--3205278 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3205229 TTTAAAGTTT
*
3205239 GTTTATGTTTGTTT-GGGTTC
1 GTTTATGTTTATTTAGGGTTC
3205259 GTTTATGTTTATTTAGGGTT
1 GTTTATGTTTATTTAGGGTT
3205279 TATTGTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.10, C:0.03, G:0.28, T:0.60
Consensus pattern (21 bp):
GTTTATGTTTATTTAGGGTTC
Found at i:3206874 original size:3 final size:3
Alignment explanation
Indices: 3206862--3206906 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
3206852 ACACAAAAAG
*
3206862 ATA A-A ATA ATA AT- ATA GATA ATG AT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
3206905 AT
1 AT
3206907 TTTATTATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
2 6 0.16
3 28 0.76
4 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3206892 original size:23 final size:23
Alignment explanation
Indices: 3206861--3206906 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
3206851 AACACAAAAA
3206861 GATAAAATAATAAT-ATAGATAAT
1 GATAAAATAATAATAATA-ATAAT
*
3206884 GATATAATAATAATAATAATAAT
1 GATAAAATAATAATAATAATAAT
3206907 TTTATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (23 bp):
GATAAAATAATAATAATAATAAT
Found at i:3207029 original size:17 final size:16
Alignment explanation
Indices: 3206996--3207034 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
3206986 AGTAATAAAT
3206996 AAAATACAAAATCAAA
1 AAAATACAAAATCAAA
* *
3207012 ACAATACGAAAATTAAA
1 AAAATAC-AAAATCAAA
3207029 AAAATA
1 AAAATA
3207035 AAATGCAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.72, C:0.10, G:0.03, T:0.15
Consensus pattern (16 bp):
AAAATACAAAATCAAA
Found at i:3207069 original size:38 final size:38
Alignment explanation
Indices: 3206992--3207070 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
3206982 ATAAAGTAAT
* *
3206992 AAATAAAATACAAAATCAAAACAATACGAAAATTAAAA
1 AAATAAAATACAAAACCAAAACAATACGAAAAATAAAA
*
3207030 AAATAAAATGCAAAACCAAAACAATAAC-AAATAATAAAA
1 AAATAAAATACAAAACCAAAACAAT-ACGAAA-AATAAAA
3207069 AA
1 AA
3207071 GAAATGAGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
38 26 0.72
39 10 0.28
ACGTcount: A:0.72, C:0.11, G:0.03, T:0.14
Consensus pattern (38 bp):
AAATAAAATACAAAACCAAAACAATACGAAAAATAAAA
Found at i:3208380 original size:27 final size:27
Alignment explanation
Indices: 3208348--3208400 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
3208338 TAAAAACGTA
3208348 AAGCCCTAAAGTGAAACTTTAAAATTG
1 AAGCCCTAAAGTGAAACTTTAAAATTG
3208375 AAGCCCTAAAGTGAAACTTTAAAATT
1 AAGCCCTAAAGTGAAACTTTAAAATT
3208401 AAAACCGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.26
Consensus pattern (27 bp):
AAGCCCTAAAGTGAAACTTTAAAATTG
Found at i:3208411 original size:27 final size:27
Alignment explanation
Indices: 3208346--3208411 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
3208336 CTTAAAAACG
*
3208346 TAAAGCCCTAAAGTGAAACTTTAAAAT
1 TAAAACCCTAAAGTGAAACTTTAAAAT
* *
3208373 TGAAGCCCTAAAGTGAAACTTTAAAAT
1 TAAAACCCTAAAGTGAAACTTTAAAAT
*
3208400 TAAAACCGTAAA
1 TAAAACCCTAAA
3208412 CAAAACTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.24
Consensus pattern (27 bp):
TAAAACCCTAAAGTGAAACTTTAAAAT
Found at i:3220048 original size:21 final size:22
Alignment explanation
Indices: 3220015--3220056 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
3220005 TGAAAAAATA
3220015 AAAAATAACAAAAAATAAAAAC
1 AAAAATAACAAAAAATAAAAAC
* *
3220037 AAAAAT-ATAAAATATAAAAA
1 AAAAATAACAAAAAATAAAAA
3220057 AAAGTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (22 bp):
AAAAATAACAAAAAATAAAAAC
Found at i:3220050 original size:29 final size:31
Alignment explanation
Indices: 3220008--3220066 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
3219998 TTTTTCTTGA
*
3220008 AAAAATAAAAAATA-ACAAAAAA-TAAAAAC
1 AAAAATAAAAAATATAAAAAAAAGTAAAAAC
*
3220037 AAAAATATAAAATATAAAAAAAAGTAAAAA
1 AAAAATAAAAAATATAAAAAAAAGTAAAAA
3220067 AGGAAGAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 13 0.50
30 7 0.27
31 6 0.23
ACGTcount: A:0.81, C:0.03, G:0.02, T:0.14
Consensus pattern (31 bp):
AAAAATAAAAAATATAAAAAAAAGTAAAAAC
Found at i:3220059 original size:31 final size:30
Alignment explanation
Indices: 3220007--3220066 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
3219997 ATTTTTCTTG
*
3220007 AAAAAATAAAAAATAACAAAAAATAAAAAC
1 AAAAAATAAAAAATAAAAAAAAATAAAAAC
* *
3220037 AAAAATATAAAATATAAAAAAAAGTAAAAA
1 AAAAA-ATAAAAAATAAAAAAAAATAAAAA
3220067 AGGAAGAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.82, C:0.03, G:0.02, T:0.13
Consensus pattern (30 bp):
AAAAAATAAAAAATAAAAAAAAATAAAAAC
Found at i:3221041 original size:69 final size:70
Alignment explanation
Indices: 3220926--3221156 Score: 193
Period size: 69 Copynumber: 3.3 Consensus size: 70
3220916 TTAAAGAAAA
* * ** *
3220926 TTTATCCCCGATCACTTTTTATTTCATGGCTCGTGG-TTGATCTTAGTCATTTTTATTTCTTGCC
1 TTTAT-CCCGATCA-TTTTTATTTCATGACTCATGGTTTGATCTTAGTCACCTTTATTTCTTGAC
**
3220990 TTATGGC
64 TTACAGC
* * *
3220997 TTTATCCCAATCATTTTTATTTCATGACTCATGGTTTG-TTTTAGTCACCTTTGTTTCTTGACTT
1 TTTATCCCGATCATTTTTATTTCATGACTCATGGTTTGATCTTAGTCACCTTTATTTCTTGACTT
*
3221061 ACAGT
66 ACAGC
* * * * * *** * *
3221066 TTTATCCCGGTCGTCTTTATTTCATGACTCATAGTTT-ATCTCAGTTGTCTTT-TTTTTTTACTT
1 TTTATCCCGATCATTTTTATTTCATGACTCATGGTTTGATCTTAGTCACCTTTATTTCTTGACTT
3221129 AC-GAC
66 ACAG-C
* *
3221134 TTTATCTCGATCATCTTTATTTC
1 TTTATCCCGATCATTTTTATTTC
3221157 CTAACTTGTA
Statistics
Matches: 130, Mismatches: 27, Indels: 9
0.78 0.16 0.05
Matches are distributed among these distances:
67 1 0.01
68 31 0.24
69 83 0.64
70 10 0.08
71 5 0.04
ACGTcount: A:0.16, C:0.20, G:0.12, T:0.51
Consensus pattern (70 bp):
TTTATCCCGATCATTTTTATTTCATGACTCATGGTTTGATCTTAGTCACCTTTATTTCTTGACTT
ACAGC
Found at i:3221177 original size:35 final size:35
Alignment explanation
Indices: 3221132--3221200 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
3221122 TTTACTTACG
3221132 ACTTTATCTCGATCATCTTTATTTCCTAACTTGTA
1 ACTTTATCTCGATCATCTTTATTTCCTAACTTGTA
* ** *
3221167 ACTTTGTCTCGATTGTCTTTATTTTCTAACTTGT
1 ACTTTATCTCGATCATCTTTATTTCCTAACTTGT
3221201 GACATTATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.19, C:0.20, G:0.09, T:0.52
Consensus pattern (35 bp):
ACTTTATCTCGATCATCTTTATTTCCTAACTTGTA
Found at i:3221222 original size:35 final size:35
Alignment explanation
Indices: 3221148--3221241 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 35
3221138 TCTCGATCAT
* * *
3221148 CTTTATTTCCTAACTTGTAACTTTGTCTCGATTGT
1 CTTTATTTCCTAACTTGTGACTTTGTCTCAATTGC
*
3221183 CTTTATTTTCTAACTTGTGACATTAT-TCT-AATTGC
1 CTTTATTTCCTAACTTGTGAC-TT-TGTCTCAATTGC
* *
3221218 CTTTATTTCCTAATTTGTGGCTTT
1 CTTTATTTCCTAACTTGTGACTTT
3221242 ATTTTGGTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
33 1 0.02
34 2 0.04
35 41 0.82
36 5 0.10
37 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.53
Consensus pattern (35 bp):
CTTTATTTCCTAACTTGTGACTTTGTCTCAATTGC
Found at i:3221362 original size:36 final size:34
Alignment explanation
Indices: 3221316--3221435 Score: 100
Period size: 36 Copynumber: 3.5 Consensus size: 34
3221306 CTCTATCCTG
*
3221316 ATCATTTTTATTTTTTGACTTATAGCTCAATCCCG
1 ATCATTTTTATTTTTT-ACTTATAGCTCAATCCCA
* * * *
3221351 ATTATTCTTTATTTTTCAACTTGTAGTTCAATCCCA
1 ATCATT-TTTATTTTT-TACTTATAGCTCAATCCCA
* * * * *
3221387 ATCA-TCTT-TTTTTTATTTATAGTTTAGTCCCA
1 ATCATTTTTATTTTTTACTTATAGCTCAATCCCA
*
3221419 ATTATTTTTATTTTTTA
1 ATCATTTTTATTTTTTA
3221436 TTCGTGACCC
Statistics
Matches: 67, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
32 17 0.25
33 8 0.12
34 9 0.13
35 6 0.09
36 27 0.40
ACGTcount: A:0.23, C:0.16, G:0.06, T:0.55
Consensus pattern (34 bp):
ATCATTTTTATTTTTTACTTATAGCTCAATCCCA
Found at i:3221410 original size:32 final size:30
Alignment explanation
Indices: 3221374--3221436 Score: 72
Period size: 32 Copynumber: 2.0 Consensus size: 30
3221364 TTTCAACTTG
*
3221374 TAGTTCAATCCCAATCATCTTTTTTTTATTTA
1 TAGTTCAATCCCAATCAT-TTTTATTT-TTTA
* * *
3221406 TAGTTTAGTCCCAATTATTTTTATTTTTTA
1 TAGTTCAATCCCAATCATTTTTATTTTTTA
3221436 T
1 T
3221437 TCGTGACCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 5 0.19
31 7 0.26
32 15 0.56
ACGTcount: A:0.24, C:0.14, G:0.05, T:0.57
Consensus pattern (30 bp):
TAGTTCAATCCCAATCATTTTTATTTTTTA
Found at i:3221796 original size:3 final size:3
Alignment explanation
Indices: 3221788--3221844 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
3221778 AAACACAAAG
3221788 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
3221836 GTA ATA ATA
1 ATA ATA ATA
3221845 TTTCTTGAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3222015 original size:22 final size:20
Alignment explanation
Indices: 3221989--3222053 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 20
3221979 ATAAATAAAT
3221989 AAATACAAATCAAAACAATACA
1 AAATA-AAATCAAAACAATA-A
* *
3222011 AAATATAA--AAAATAATAA
1 AAATAAAATCAAAACAATAA
3222029 AATATAAAATCAAAACAAATAA
1 AA-ATAAAATCAAAAC-AATAA
3222051 AAA
1 AAA
3222054 ATATTAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
18 3 0.09
19 13 0.37
21 7 0.20
22 12 0.34
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAAATCAAAACAATAA
Found at i:3222024 original size:16 final size:16
Alignment explanation
Indices: 3221983--3222037 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
3221973 TATGTAATAA
3221983 ATAAATAAATAC-AAAT
1 ATAAA-AAATACAAAAT
*
3221999 CA-AAACAATACAAAAT
1 -ATAAAAAATACAAAAT
*
3222015 ATAAAAAATAATAAAAT
1 ATAAAAAAT-ACAAAAT
3222032 ATAAAA
1 ATAAAA
3222038 TCAAAACAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 6 0.19
16 13 0.41
17 13 0.41
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (16 bp):
ATAAAAAATACAAAAT
Found at i:3222028 original size:10 final size:10
Alignment explanation
Indices: 3222000--3222074 Score: 64
Period size: 10 Copynumber: 7.4 Consensus size: 10
3221990 AATACAAATC
* *
3222000 AAAACAATAC
1 AAAATAATAA
3222010 AAAAT-ATAA
1 AAAATAATAA
3222019 AAAATAATAA
1 AAAATAATAA
*
3222029 AATATAA-AA
1 AAAATAATAA
*
3222038 TCAAAACAAATAA
1 --AAAA-TAATAA
*
3222051 AAAATATTAA
1 AAAATAATAA
3222061 AAAATAATAA
1 AAAATAATAA
3222071 AAAA
1 AAAA
3222075 GATATGGATG
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
9 10 0.19
10 31 0.60
11 7 0.13
12 2 0.04
13 2 0.04
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAATAATAA
Found at i:3222430 original size:31 final size:31
Alignment explanation
Indices: 3222369--3222431 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
3222359 GAAACTACAT
* *
3222369 AAAGCGAAAAAGAGGCAACTGGTGAGAAAAA
1 AAAGCGAAAAAGAGGCAACTGGTAAAAAAAA
* *
3222400 AAAGGGAAAAAGTGGCAACAT-GTAAAAAAAA
1 AAAGCGAAAAAGAGGCAAC-TGGTAAAAAAAA
3222431 A
1 A
3222432 TTGAATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.59, C:0.08, G:0.25, T:0.08
Consensus pattern (31 bp):
AAAGCGAAAAAGAGGCAACTGGTAAAAAAAA
Found at i:3224149 original size:27 final size:27
Alignment explanation
Indices: 3224108--3224205 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 27
3224098 CTCCAAAGCT
* **
3224108 TAAAGTAAAACCCTAAAACCAAAGCCC
1 TAAAGTGAAACCCTAAAATTAAAGCCC
** *
3224135 TAAAGTGAATTCCTAAAATTGAAGCCC
1 TAAAGTGAAACCCTAAAATTAAAGCCC
* *
3224162 TAAGGTGAAACCCTAAAATTAAAACCC
1 TAAAGTGAAACCCTAAAATTAAAGCCC
*
3224189 TAAA-TGAAACCTTAAAA
1 TAAAGTGAAACCCTAAAA
3224206 CCTTGGTGAA
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
26 12 0.21
27 46 0.79
ACGTcount: A:0.49, C:0.21, G:0.10, T:0.19
Consensus pattern (27 bp):
TAAAGTGAAACCCTAAAATTAAAGCCC
Found at i:3224163 original size:14 final size:14
Alignment explanation
Indices: 3224146--3224205 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 14
3224136 AAAGTGAATT
*
3224146 CCTAAAATTGAAGC
1 CCTAAAATTGAAAC
**
3224160 CCT-AAGGTGAAAC
1 CCTAAAATTGAAAC
*
3224173 CCTAAAATTAAAAC
1 CCTAAAATTGAAAC
3224187 CCT-AAA-TGAAAC
1 CCTAAAATTGAAAC
*
3224199 CTTAAAA
1 CCTAAAA
3224206 CCTTGGTGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
12 7 0.19
13 16 0.44
14 13 0.36
ACGTcount: A:0.48, C:0.22, G:0.10, T:0.20
Consensus pattern (14 bp):
CCTAAAATTGAAAC
Found at i:3224656 original size:20 final size:20
Alignment explanation
Indices: 3224619--3224657 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3224609 GCTTATAGAC
**
3224619 ATGTTTATTTTTAATTATTG
1 ATGTTTATGGTTAATTATTG
*
3224639 ATGTTTATGGTTAGTTATT
1 ATGTTTATGGTTAATTATT
3224658 TAATTATTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (20 bp):
ATGTTTATGGTTAATTATTG
Found at i:3224811 original size:22 final size:23
Alignment explanation
Indices: 3224784--3224826 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
3224774 CCAATAATTA
*
3224784 TTATTTTCAAA-TAATATTATTT
1 TTATTTTCAAAGAAATATTATTT
3224806 TTATTTTCAAAGAAATATTAT
1 TTATTTTCAAAGAAATATTAT
3224827 GGTAAATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (23 bp):
TTATTTTCAAAGAAATATTATTT
Found at i:3226807 original size:18 final size:18
Alignment explanation
Indices: 3226784--3226827 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
3226774 ATTATGGAGT
*
3226784 TTAAGAGCTTGAAGTAGC
1 TTAAGAGCTTAAAGTAGC
3226802 TTAAGAGCTTAAAGTAGC
1 TTAAGAGCTTAAAGTAGC
3226820 TTAAGAGC
1 TTAAGAGC
3226828 ACAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.27
Consensus pattern (18 bp):
TTAAGAGCTTAAAGTAGC
Found at i:3229518 original size:13 final size:13
Alignment explanation
Indices: 3229500--3229524 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3229490 TAGTAAAAGT
3229500 AGAGAGAAAACAC
1 AGAGAGAAAACAC
3229513 AGAGAGAAAACA
1 AGAGAGAAAACA
3229525 ACATTGGCAA
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:0.64, C:0.12, G:0.24, T:0.00
Consensus pattern (13 bp):
AGAGAGAAAACAC
Found at i:3233097 original size:13 final size:13
Alignment explanation
Indices: 3233079--3233103 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3233069 TGACCTTATT
3233079 ACCTTAAAGTAAA
1 ACCTTAAAGTAAA
3233092 ACCTTAAAGTAA
1 ACCTTAAAGTAA
3233104 TACAAAGCCT
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:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (13 bp):
ACCTTAAAGTAAA
Found at i:3244569 original size:22 final size:21
Alignment explanation
Indices: 3244544--3244586 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
3244534 TAGGTGTCAC
*
3244544 TTTCT-TTTGATTTGTTTTTTTT
1 TTTCTGTTT-ATTT-TTATTTTT
3244566 TTTCTGTTTATTTTTATTTTT
1 TTTCTGTTTATTTTTATTTTT
3244587 GGTTTGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 9 0.47
23 3 0.16
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.81
Consensus pattern (21 bp):
TTTCTGTTTATTTTTATTTTT
Found at i:3267750 original size:30 final size:30
Alignment explanation
Indices: 3267716--3267773 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
3267706 GGTTTGTAAT
3267716 ATTTTTCAACAAATTATTTAGAATAAATAC
1 ATTTTTCAACAAATTATTTAGAATAAATAC
* * * *
3267746 ATTTTTGAATAATTTATTTATAATAAAT
1 ATTTTTCAACAAATTATTTAGAATAAAT
3267774 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (30 bp):
ATTTTTCAACAAATTATTTAGAATAAATAC
Found at i:3268316 original size:158 final size:158
Alignment explanation
Indices: 3268028--3268343 Score: 632
Period size: 158 Copynumber: 2.0 Consensus size: 158
3268018 CAAACAATAT
3268028 GAGCTTATAAGTAAGAAACCTATAACTGACTTTCGATAGTTATATGCTTAGCTTTGCAATTATTA
1 GAGCTTATAAGTAAGAAACCTATAACTGACTTTCGATAGTTATATGCTTAGCTTTGCAATTATTA
3268093 GATAAATTTGAGTTTGGTAGGTACGTTATTTTGGTTAACAGAATTATTTAGGAGTATTAGATGGA
66 GATAAATTTGAGTTTGGTAGGTACGTTATTTTGGTTAACAGAATTATTTAGGAGTATTAGATGGA
3268158 ATCTACATTAAAATGCATGTACTAGAAA
131 ATCTACATTAAAATGCATGTACTAGAAA
3268186 GAGCTTATAAGTAAGAAACCTATAACTGACTTTCGATAGTTATATGCTTAGCTTTGCAATTATTA
1 GAGCTTATAAGTAAGAAACCTATAACTGACTTTCGATAGTTATATGCTTAGCTTTGCAATTATTA
3268251 GATAAATTTGAGTTTGGTAGGTACGTTATTTTGGTTAACAGAATTATTTAGGAGTATTAGATGGA
66 GATAAATTTGAGTTTGGTAGGTACGTTATTTTGGTTAACAGAATTATTTAGGAGTATTAGATGGA
3268316 ATCTACATTAAAATGCATGTACTAGAAA
131 ATCTACATTAAAATGCATGTACTAGAAA
3268344 TTGCCAAATC
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (158 bp):
GAGCTTATAAGTAAGAAACCTATAACTGACTTTCGATAGTTATATGCTTAGCTTTGCAATTATTA
GATAAATTTGAGTTTGGTAGGTACGTTATTTTGGTTAACAGAATTATTTAGGAGTATTAGATGGA
ATCTACATTAAAATGCATGTACTAGAAA
Found at i:3272820 original size:21 final size:19
Alignment explanation
Indices: 3272796--3272839 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
3272786 CTTTTTAATA
3272796 ATTTTTAATATGAAATGTTAT
1 ATTTTTAATATG-AAT-TTAT
* *
3272817 ATTTTTTATTTGAATTTAT
1 ATTTTTAATATGAATTTAT
3272836 ATTT
1 ATTT
3272840 ATTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 3 0.14
21 10 0.48
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
ATTTTTAATATGAATTTAT
Found at i:3277422 original size:3 final size:3
Alignment explanation
Indices: 3277410--3277518 Score: 55
Period size: 3 Copynumber: 37.3 Consensus size: 3
3277400 GATTTTATTG
* * * *
3277410 TAT T-T TAT TAT TAT TAT TAT TAT TAT GA- TAT T-G TACA TAG T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * * * * * * *
3277452 TAT TAG TAT TAT TAT TGT TAT TAT TAC TAT TAT CAT CAT CAT CAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
3277500 CAT CAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
3277519 TTAAAAATAT
Statistics
Matches: 87, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
2 5 0.06
3 80 0.92
4 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:3277622 original size:37 final size:37
Alignment explanation
Indices: 3277581--3277689 Score: 141
Period size: 37 Copynumber: 3.0 Consensus size: 37
3277571 AGAAGGAAAC
* *
3277581 TGGTGATTCAATCTCGGATCCGTTGGAGCATGATTTT
1 TGGTGATTCAATCTCGGATCCGTTGGAGCATAATTCT
*
3277618 TGGTGATTCAATCAT-GAATCCGTTGGAGCATAATTCT
1 TGGTGATTCAATC-TCGGATCCGTTGGAGCATAATTCT
* **
3277655 TGGTGATTCAATCCCGGATTTGTTGG-GCATAATTC
1 TGGTGATTCAATCTCGGATCCGTTGGAGCATAATTC
3277690 ATGCAGAGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
36 9 0.14
37 53 0.84
38 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.37
Consensus pattern (37 bp):
TGGTGATTCAATCTCGGATCCGTTGGAGCATAATTCT
Found at i:3278431 original size:29 final size:28
Alignment explanation
Indices: 3278357--3278435 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 28
3278347 TATGACTTTA
*
3278357 TTTTT-TTA-TCATTTTA-TATTTAAAG
1 TTTTTATTATTCATTTTATTATTTTAAG
* *
3278382 TTTTTATT-TT-ATTTTCTTTATTTTTAG
1 TTTTTATTATTCATTTT-ATTATTTTAAG
3278409 TTTTTTATTATTCATTTTATTATTTTA
1 -TTTTTATTATTCATTTTATTATTTTA
3278436 TTGGGTAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
25 10 0.24
26 3 0.07
27 7 0.17
28 8 0.19
29 9 0.21
30 5 0.12
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.72
Consensus pattern (28 bp):
TTTTTATTATTCATTTTATTATTTTAAG
Found at i:3278522 original size:15 final size:16
Alignment explanation
Indices: 3278502--3278535 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3278492 TCAGAAAACA
*
3278502 AAATAAA-ATCTTTTC
1 AAATAAATATCTTTAC
3278517 AAATAAATATCTTTAC
1 AAATAAATATCTTTAC
3278533 AAA
1 AAA
3278536 ACAAATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATAAATATCTTTAC
Found at i:3280599 original size:16 final size:16
Alignment explanation
Indices: 3280578--3280608 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3280568 TTAGGGTTTT
3280578 GATTTTAGAGTTTGGA
1 GATTTTAGAGTTTGGA
*
3280594 GATTTTAGGGTTTGG
1 GATTTTAGAGTTTGG
3280609 GTTTTGGGGT
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:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (16 bp):
GATTTTAGAGTTTGGA
Found at i:3280618 original size:14 final size:14
Alignment explanation
Indices: 3280604--3280697 Score: 98
Period size: 14 Copynumber: 6.5 Consensus size: 14
3280594 GATTTTAGGG
* **
3280604 TTTGGGTTTTGGGG
1 TTTGGGGTTTGGAT
3280618 TTTGGGGTTTGGAT
1 TTTGGGGTTTGGAT
**
3280632 TTAAGGGTTTGGAT
1 TTTGGGGTTTGGAT
*
3280646 TTTAGGGATTTTGGAT
1 TTT-GGG-GTTTGGAT
3280662 TTTGGGGTTTGGAT
1 TTTGGGGTTTGGAT
3280676 TTTAGGGGTTTGGAT
1 TTT-GGGGTTTGGAT
*
3280691 TTAGGGG
1 TTTGGGG
3280698 ATTTTTTATT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
14 39 0.58
15 18 0.27
16 10 0.15
ACGTcount: A:0.12, C:0.00, G:0.41, T:0.47
Consensus pattern (14 bp):
TTTGGGGTTTGGAT
Found at i:3280621 original size:30 final size:31
Alignment explanation
Indices: 3280567--3280689 Score: 108
Period size: 30 Copynumber: 3.9 Consensus size: 31
3280557 ATATGGAAGG
* *
3280567 TTTAGGGTTTTGATTTTA-GAGTTTGGAGAT
1 TTTAGGGTTTGGATTTTAGGGGTTTGGAGAT
* *
3280597 TTTAGGGTTTGGGTTTT-GGGGTTTGGGGTTTGGAT
1 TTTAGGGTTTGGATTTTAGGGGTTT--GG---AGAT
* * *
3280632 TTAAGGGTTTGGATTTTAGGGATTTTG-GAT
1 TTTAGGGTTTGGATTTTAGGGGTTTGGAGAT
*
3280662 TTTGGGGTTTGGATTTTAGGGGTTTGGA
1 TTTAGGGTTTGGATTTTAGGGGTTTGGA
3280690 TTTAGGGGAT
Statistics
Matches: 73, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
30 46 0.63
32 2 0.03
34 1 0.01
35 18 0.25
36 6 0.08
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.48
Consensus pattern (31 bp):
TTTAGGGTTTGGATTTTAGGGGTTTGGAGAT
Found at i:3280626 original size:51 final size:50
Alignment explanation
Indices: 3280565--3280673 Score: 139
Period size: 51 Copynumber: 2.1 Consensus size: 50
3280555 GGATATGGAA
* * * *
3280565 GGTTTAGGGTTTTGATTTTAGAGTTTGGAGATTTTAGGG-TTTGGGTTTTGG
1 GGTTTGGGGTTTGGATTTAAGAGTTT-G-GATTTTAGGGATTTGGATTTTGG
*
3280616 GGTTTGGGGTTTGGATTTAAGGGTTTGGATTTTAGGGATTTTGGATTTTGG
1 GGTTTGGGGTTTGGATTTAAGAGTTTGGATTTTAGGGA-TTTGGATTTTGG
3280667 GGTTTGG
1 GGTTTGG
3280674 ATTTTAGGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
49 10 0.20
50 1 0.02
51 40 0.78
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (50 bp):
GGTTTGGGGTTTGGATTTAAGAGTTTGGATTTTAGGGATTTGGATTTTGG
Found at i:3280659 original size:44 final size:45
Alignment explanation
Indices: 3280610--3280702 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 45
3280600 AGGGTTTGGG
*
3280610 TTTTGGGGTTTGGGGTTTGGA-TTTAAGGGTTTGGATTTTA-GGGA
1 TTTTGGAGTTTGGGGTTTGGATTTTAAGGGTTTGGA-TTTAGGGGA
* *
3280654 TTTTGGATTTTGGGGTTTGGATTTTAGGGGTTTGGATTTAGGGGA
1 TTTTGGAGTTTGGGGTTTGGATTTTAAGGGTTTGGATTTAGGGGA
3280699 TTTT
1 TTTT
3280703 TTATTTTAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 23 0.52
45 21 0.48
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (45 bp):
TTTTGGAGTTTGGGGTTTGGATTTTAAGGGTTTGGATTTAGGGGA
Found at i:3280685 original size:15 final size:15
Alignment explanation
Indices: 3280621--3280717 Score: 110
Period size: 14 Copynumber: 6.5 Consensus size: 15
3280611 TTTGGGGTTT
3280621 GGGGTTTGGA-TTTA
1 GGGGTTTGGATTTTA
*
3280635 AGGGTTTGGATTTTA
1 GGGGTTTGGATTTTA
*
3280650 GGGATTTTGGATTTT-
1 GGG-GTTTGGATTTTA
3280665 GGGGTTTGGATTTTA
1 GGGGTTTGGATTTTA
3280680 GGGGTTTGGA-TTTA
1 GGGGTTTGGATTTTA
**
3280694 GGGGATTTTTTATTTTA
1 GGGG--TTTGGATTTTA
3280711 GGGGTTT
1 GGGGTTT
3280718 TAGAAACCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
14 27 0.38
15 22 0.31
16 14 0.20
17 8 0.11
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.48
Consensus pattern (15 bp):
GGGGTTTGGATTTTA
Found at i:3280700 original size:45 final size:44
Alignment explanation
Indices: 3280618--3280717 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 44
3280608 GGTTTTGGGG
3280618 TTTGGGGTTTGGATTTAAGGGTTTGGATTTTAGGGATTTTGGAT
1 TTTGGGGTTTGGATTTAAGGGTTTGGATTTTAGGGATTTTGGAT
* **
3280662 TTTGGGGTTTGGATTTTAGGGGTTTGGA-TTTAGGGGATTTTTTAT
1 TTTGGGGTTTGGA-TTTAAGGGTTTGGATTTTA-GGGATTTTGGAT
3280707 TTTAGGGGTTT
1 TTT-GGGGTTT
3280718 TAGAAACCTA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
44 17 0.34
45 26 0.52
46 7 0.14
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (44 bp):
TTTGGGGTTTGGATTTAAGGGTTTGGATTTTAGGGATTTTGGAT
Found at i:3281156 original size:10 final size:10
Alignment explanation
Indices: 3281141--3281169 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
3281131 ATAATAATAT
3281141 AAAAAAATTA
1 AAAAAAATTA
3281151 AAAAAAATTA
1 AAAAAAATTA
3281161 AAAAAAATT
1 AAAAAAATT
3281170 TTTTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:3282219 original size:20 final size:20
Alignment explanation
Indices: 3282181--3282218 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3282171 ACCCTACTTT
3282181 CTATTTCTTTTTTCTTTTTC
1 CTATTTCTTTTTTCTTTTTC
3282201 CTATTT-TTTCTTT-TTTTT
1 CTATTTCTTT-TTTCTTTTT
3282219 TAATAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (20 bp):
CTATTTCTTTTTTCTTTTTC
Done.