Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 154 of 161
Found at i:47975717 original size:80 final size:80
Alignment explanation
Indices: 47975629--47975788 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
47975619 ATCATAATGA
*
47975629 ATCTTTATCAATTTCTGTTAAAATTGAATTATTGATGATGCCATAAAATATTCGTGTTAGAATTT
1 ATCTTTATCAATTTCTGTTAAAATTGAATTATTGATGATGCCATAAAATATTCGTGTTAAAATTT
47975694 TCTGTTGGTATCAAC
66 TCTGTTGGTATCAAC
47975709 ATCTTTATCAATTTCTGTTAAAATTGAATTATTGATGATGCCATAAAATATTCGTGTTAAAATTT
1 ATCTTTATCAATTTCTGTTAAAATTGAATTATTGATGATGCCATAAAATATTCGTGTTAAAATTT
47975774 TCTGTTGGTATCAAC
66 TCTGTTGGTATCAAC
47975789 TTCACATTTA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (80 bp):
ATCTTTATCAATTTCTGTTAAAATTGAATTATTGATGATGCCATAAAATATTCGTGTTAAAATTT
TCTGTTGGTATCAAC
Found at i:47980870 original size:13 final size:13
Alignment explanation
Indices: 47980815--47980872 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
47980805 GAGCACGAGT
*
47980815 AAAACTTATTTT-
1 AAAACATATTTTA
*
47980827 AAAACATAGCTTTA
1 AAAACATA-TTTTA
* * *
47980841 AAAACATGTATTG
1 AAAACATATTTTA
47980854 AAAACATATTTTA
1 AAAACATATTTTA
47980867 AAAACA
1 AAAACA
47980873 GAGTGTCAGA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
12 7 0.20
13 21 0.60
14 7 0.20
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (13 bp):
AAAACATATTTTA
Found at i:47981430 original size:26 final size:26
Alignment explanation
Indices: 47981399--47981452 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
47981389 GAACCCCCAA
*
47981399 TTTGCAACTTA-CTTGGCGAACACTAG
1 TTTGCAACTTAGC-TGGAGAACACTAG
*
47981425 TTTGCAACTTAGCTGGAGAACCCTAG
1 TTTGCAACTTAGCTGGAGAACACTAG
47981451 TT
1 TT
47981453 CGCCAAACAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (26 bp):
TTTGCAACTTAGCTGGAGAACACTAG
Found at i:47983388 original size:13 final size:14
Alignment explanation
Indices: 47983355--47983400 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
47983345 AGTGTGTAAC
47983355 AACATAATTTATAA
1 AACATAATTTATAA
47983369 AACCATAATTTA-AA
1 AA-CATAATTTATAA
*
47983383 AACAT-A-TCATAA
1 AACATAATTTATAA
47983395 AACATA
1 AACATA
47983401 GACTTGCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 2 0.07
12 8 0.29
13 3 0.11
14 6 0.21
15 9 0.32
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (14 bp):
AACATAATTTATAA
Found at i:47984637 original size:123 final size:123
Alignment explanation
Indices: 47984313--47984689 Score: 531
Period size: 125 Copynumber: 3.0 Consensus size: 123
47984303 CATACCATGT
* *
47984313 AACATCCGTTTAACATGCAATGAACGTATATGCAAATACTTACACACTTGTACAACAATATGTAT
1 AACATCTGTTTAACATGCAATGAAC--ATATGCAAATACTCACACACTTGTACAACAATATGTAT
* * * * *
47984378 TCGCATCATGTTCAGTCACCGTTTTTACACACAACATTGGACTTATATGACCTACAATAC
64 TCGCAGCATGTTCAGTCACCATTTTTACACACAACATTGGACTCATATGACCCAAAATAC
* * *
47984438 AACATATGTTTAACATGTAATTAACATACATGCAAATACTCACACACTTGTACAACAATATGTAT
1 AACATCTGTTTAACATGCAATGAACAT--ATGCAAATACTCACACACTTGTACAACAATATGTAT
* * *
47984503 TCGCAGCATGTTCAGTCACCATTTTTACACATAATATTGGACTCATATGACCCATAATAC
64 TCGCAGCATGTTCAGTCACCATTTTTACACACAACATTGGACTCATATGACCCAAAATAC
* * *
47984563 AACATCTGTTTAACATGCAATGAACATATGCAAATACTCACTCACTTGTACAATAATATGTATTT
1 AACATCTGTTTAACATGCAATGAACATATGCAAATACTCACACACTTGTACAACAATATGTATTC
* * * *
47984628 GCAGCATGTT-TGTCACCATTTTTAAACACAACATTAGACTCATATGACCCAAAATAA
66 GCAGCATGTTCAGTCACCATTTTTACACACAACATTGGACTCATATGACCCAAAATAC
47984685 AACAT
1 AACAT
47984690 AAATCATTTA
Statistics
Matches: 225, Mismatches: 25, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
122 45 0.20
123 47 0.21
125 133 0.59
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (123 bp):
AACATCTGTTTAACATGCAATGAACATATGCAAATACTCACACACTTGTACAACAATATGTATTC
GCAGCATGTTCAGTCACCATTTTTACACACAACATTGGACTCATATGACCCAAAATAC
Found at i:47988669 original size:15 final size:15
Alignment explanation
Indices: 47988649--47988679 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47988639 ATCCAATTAT
47988649 GAAAGAAGTTATCAA
1 GAAAGAAGTTATCAA
47988664 GAAAGAAGTTATCAA
1 GAAAGAAGTTATCAA
47988679 G
1 G
47988680 TGGCTTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (15 bp):
GAAAGAAGTTATCAA
Found at i:47998249 original size:25 final size:25
Alignment explanation
Indices: 47998220--47998291 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 25
47998210 GAAGCTTTTC
47998220 CGAGCAATATAATGGGAAGCTCATG
1 CGAGCAATATAATGGGAAGCTCATG
* ** ** *
47998245 TGAGCTGTATAACAGGAAGCTCTTG
1 CGAGCAATATAATGGGAAGCTCATG
*
47998270 CGAGCCAAT-TATTGGGAAGCTC
1 CGAG-CAATATAATGGGAAGCTC
47998292 CAAAGAGCCA
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
25 32 0.94
26 2 0.06
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (25 bp):
CGAGCAATATAATGGGAAGCTCATG
Found at i:47998322 original size:24 final size:24
Alignment explanation
Indices: 47998257--47998348 Score: 69
Period size: 25 Copynumber: 3.8 Consensus size: 24
47998247 AGCTGTATAA
* *
47998257 CAGGAAGCTCTTGCGAGCCAATTAT
1 CAGGAAGCTCCTGAGAGCCAA-TAT
** **
47998282 TGGGAAGCTCCAAAGAGCCAATAT
1 CAGGAAGCTCCTGAGAGCCAATAT
* *
47998306 CAGGAAGCTCGTGAGAGCTCTATAT
1 CAGGAAGCTCCTGAGAGC-CAATAT
*
47998331 CAGGATGCTCAC-GAGAGC
1 CAGGAAGCTC-CTGAGAGC
47998349 TAAATAACGG
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
24 16 0.31
25 35 0.69
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (24 bp):
CAGGAAGCTCCTGAGAGCCAATAT
Found at i:48000790 original size:41 final size:41
Alignment explanation
Indices: 48000664--48000904 Score: 292
Period size: 41 Copynumber: 5.9 Consensus size: 41
48000654 TTGTAAAACA
* * *
48000664 CAGAGCAATAGCGGCGTTTTTGGTAAGACGCCGCTAAA-AC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* * * *
48000704 CAGAGCAAT-GCGGCG-TTTTAGTAAAAAGCGCCTCTAAA-AA
1 CAGAGCATTAGCGGCGCTTTTGGT-AAAA-CGCCGCTAAAGAC
* *
48000744 TAGAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* * *
48000785 CAGAGCATTAGCAGCGCTTTTGGTGAAACGCCACTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
**
48000826 CAGAGCATTAGCGGCGCTTTTATTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
48000867 TAGAGCCTTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
48000905 AGTCATATAA
Statistics
Matches: 174, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
38 6 0.03
39 9 0.05
40 35 0.20
41 118 0.68
42 6 0.03
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
Found at i:48000885 original size:123 final size:121
Alignment explanation
Indices: 48000664--48000904 Score: 326
Period size: 123 Copynumber: 2.0 Consensus size: 121
48000654 TTGTAAAACA
* * *
48000664 CAGAGCAATAGCGGCGTTTTTGGTAAGACGCCGCTAAAACCAGAGCAATGCGGCGTTTTAGTAAA
1 CAGAGCAATAGCAGCGCTTTTGGTAAGACGCCACTAAAACCAGAGCAATGCGGCGTTTTAGTAAA
* *
48000729 AAGCGCCTCTAAAAATAGAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAGAC
66 AAGCGCCGCTAAAAATAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
48000785 CAGAGCATTAGCAGCGCTTTTGGTGAA-ACGCCACTAAAGACCAGAGCATTAGCGGCGCTTTTA-
1 CAGAGCAATAGCAGCGCTTTTGGT-AAGACGCCACTAAA-ACCAGAGCAAT-GCGGCG-TTTTAG
* * *
48000848 TTAAAA-CGCCGCTAAAGACTAGAGCCTTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
62 TAAAAAGCGCCGCTAAA-AATAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
48000905 AGTCATATAA
Statistics
Matches: 105, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
121 31 0.30
122 21 0.20
123 48 0.46
124 5 0.05
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (121 bp):
CAGAGCAATAGCAGCGCTTTTGGTAAGACGCCACTAAAACCAGAGCAATGCGGCGTTTTAGTAAA
AAGCGCCGCTAAAAATAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
Found at i:48001084 original size:14 final size:14
Alignment explanation
Indices: 48001062--48001139 Score: 58
Period size: 14 Copynumber: 5.9 Consensus size: 14
48001052 TTAATTAACA
48001062 TTATAGTTTAAGGT
1 TTATAGTTTAAGGT
*
48001076 TTATTGTTTAAGGT
1 TTATAGTTTAAGGT
48001090 TTATGAG-TTAA---
1 TTAT-AGTTTAAGGT
* * *
48001101 CTATGGTTTAAGAT
1 TTATAGTTTAAGGT
* *
48001115 ATATAGTTTAGGGT
1 TTATAGTTTAAGGT
48001129 TTA-AGTTTAAG
1 TTATAGTTTAAG
48001140 AGTTAACTAG
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
10 1 0.02
11 7 0.14
13 7 0.14
14 33 0.67
15 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.22, T:0.47
Consensus pattern (14 bp):
TTATAGTTTAAGGT
Found at i:48001449 original size:21 final size:21
Alignment explanation
Indices: 48001425--48001476 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
48001415 TGATTTAATT
*
48001425 TTTAGGGTTTGGAGA-TTAGGG
1 TTTAGGGTTTGG-GATTTAGAG
48001446 TTTAGGGTTTGGGATTTAGAG
1 TTTAGGGTTTGGGATTTAGAG
48001467 TTTAGGGTTT
1 TTTAGGGTTT
48001477 AGGCTTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.44
Consensus pattern (21 bp):
TTTAGGGTTTGGGATTTAGAG
Found at i:48001452 original size:7 final size:7
Alignment explanation
Indices: 48001425--48001484 Score: 61
Period size: 7 Copynumber: 8.6 Consensus size: 7
48001415 TGATTTAATT
48001425 TTTAGGG
1 TTTAGGG
48001432 TTT-GGAG
1 TTTAGG-G
*
48001439 ATTAGGG
1 TTTAGGG
48001446 TTTAGGG
1 TTTAGGG
48001453 TTT-GGG
1 TTTAGGG
*
48001459 ATTTAGAG
1 -TTTAGGG
48001467 TTTAGGG
1 TTTAGGG
*
48001474 TTTAGGC
1 TTTAGGG
48001481 TTTA
1 TTTA
48001485 TAATTTAGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
6 5 0.11
7 35 0.80
8 4 0.09
ACGTcount: A:0.18, C:0.02, G:0.37, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:48001484 original size:21 final size:21
Alignment explanation
Indices: 48001425--48001484 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
48001415 TGATTTAATT
* *
48001425 TTTAGGGTTT-GGAGATTAGGG
1 TTTAGGGTTTAGGA-TTTAGAG
*
48001446 TTTAGGGTTTGGGATTTAGAG
1 TTTAGGGTTTAGGATTTAGAG
*
48001467 TTTAGGGTTTAGGCTTTA
1 TTTAGGGTTTAGGATTTA
48001485 TAATTTAGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 31 0.91
22 3 0.09
ACGTcount: A:0.18, C:0.02, G:0.37, T:0.43
Consensus pattern (21 bp):
TTTAGGGTTTAGGATTTAGAG
Found at i:48001490 original size:28 final size:28
Alignment explanation
Indices: 48001440--48001494 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
48001430 GGTTTGGAGA
* * *
48001440 TTAGGGTTTAGGGTTTGGGATTTAGAGT
1 TTAGGGTTTAGGCTTTAGAATTTAGAGT
*
48001468 TTAGGGTTTAGGCTTTATAATTTAGAG
1 TTAGGGTTTAGGCTTTAGAATTTAGAG
48001495 CGCCTTAGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.44
Consensus pattern (28 bp):
TTAGGGTTTAGGCTTTAGAATTTAGAGT
Found at i:48001491 original size:21 final size:21
Alignment explanation
Indices: 48001446--48001492 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
48001436 GAGATTAGGG
* *
48001446 TTTAGGGTTTGGGATTTAGAG
1 TTTAGGGTTTAGGATTTAGAA
* *
48001467 TTTAGGGTTTAGGCTTTATAA
1 TTTAGGGTTTAGGATTTAGAA
48001488 TTTAG
1 TTTAG
48001493 AGCGCCTTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (21 bp):
TTTAGGGTTTAGGATTTAGAA
Found at i:48001942 original size:80 final size:81
Alignment explanation
Indices: 48001850--48001998 Score: 255
Period size: 81 Copynumber: 1.9 Consensus size: 81
48001840 CGTTTATTTA
*
48001850 AAAAATGCCGCAAAAAACATAGCAG-TTAACGAAAACGACGTCGTTTTAATTGGATATTTAGGAG
1 AAAAACGCCGCAAAAAACATAGCAGTTTAACGAAAACGACGTCGTTTTAATTGGATATTTAGGAG
48001914 AGTAGCGGCGTTTTCG
66 AGTAGCGGCGTTTTCG
* * *
48001930 AAAAACGCCGCAAAAAACATAGCAGTTTAACGAAAACGGCGTCGTTTTAATTGGATTTTTAGGGG
1 AAAAACGCCGCAAAAAACATAGCAGTTTAACGAAAACGACGTCGTTTTAATTGGATATTTAGGAG
48001995 AGTA
66 AGTA
48001999 CTGGCATTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
80 24 0.38
81 40 0.62
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (81 bp):
AAAAACGCCGCAAAAAACATAGCAGTTTAACGAAAACGACGTCGTTTTAATTGGATATTTAGGAG
AGTAGCGGCGTTTTCG
Found at i:48006627 original size:183 final size:183
Alignment explanation
Indices: 48006319--48006655 Score: 629
Period size: 183 Copynumber: 1.8 Consensus size: 183
48006309 AGATTCAGCA
* *
48006319 TCAGTTACTGCTTCCTGCTCCTCCTGCAACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGA
1 TCAGTTACTGCTTCCTGCTCCTCCTGCAACTATTGGTTCAACTGAAACTGCCATTTAATCTTCAA
*
48006384 ATTAATATTTGGTACTGATATAGATAAAGTTTTTATATTTGCTTAAACTGAAATATATTTGGTGC
66 AATAATATTTGGTACTGATATAGATAAAGTTTTTATATTTGCTTAAACTGAAATATATTTGGTGC
*
48006449 AACTCTTATAATCTTACATGTGTCTGTATTAGTGAATTAATGTTGTATGTATT
131 AACTCTTATAATCTTACATCTGTCTGTATTAGTGAATTAATGTTGTATGTATT
48006502 TCAGTTACTGCTTCCTGCTCCTCCTGCAACTATTGGTTCAACTGAAACTGCCATTTAATCTTCAA
1 TCAGTTACTGCTTCCTGCTCCTCCTGCAACTATTGGTTCAACTGAAACTGCCATTTAATCTTCAA
48006567 AATAATATTTGGTACTGATATAGATAAAGTTTTTATATTTGCTTAAACTGAAATATATTTGGTGC
66 AATAATATTTGGTACTGATATAGATAAAGTTTTTATATTTGCTTAAACTGAAATATATTTGGTGC
*
48006632 TACTCTTATAATCTTACATCTGTC
131 AACTCTTATAATCTTACATCTGTC
48006656 CTAGGTACTA
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 149 1.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (183 bp):
TCAGTTACTGCTTCCTGCTCCTCCTGCAACTATTGGTTCAACTGAAACTGCCATTTAATCTTCAA
AATAATATTTGGTACTGATATAGATAAAGTTTTTATATTTGCTTAAACTGAAATATATTTGGTGC
AACTCTTATAATCTTACATCTGTCTGTATTAGTGAATTAATGTTGTATGTATT
Found at i:48007075 original size:9 final size:9
Alignment explanation
Indices: 48007061--48007118 Score: 62
Period size: 9 Copynumber: 6.1 Consensus size: 9
48007051 ACCTTCTCTC
48007061 ACATAACTT
1 ACATAACTT
*
48007070 ACATAATTT
1 ACATAACTT
*
48007079 ACATAACTC
1 ACATAACTT
*
48007088 ACATAACAT
1 ACATAACTT
48007097 ACATAACAACTT
1 ACAT---AACTT
48007109 ACATAACTT
1 ACATAACTT
48007118 A
1 A
48007119 ACTAATACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
9 32 0.80
12 8 0.20
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.29
Consensus pattern (9 bp):
ACATAACTT
Found at i:48012679 original size:21 final size:21
Alignment explanation
Indices: 48012655--48012696 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48012645 AACTCAGAGT
48012655 GGAGGCAACAACAAGGGAGGC
1 GGAGGCAACAACAAGGGAGGC
* * *
48012676 GGAGGCAGCAGCGAGGGAGGC
1 GGAGGCAACAACAAGGGAGGC
48012697 AGAGCAGAAC
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:0.19, G:0.50, T:0.00
Consensus pattern (21 bp):
GGAGGCAACAACAAGGGAGGC
Found at i:48013067 original size:43 final size:43
Alignment explanation
Indices: 48012993--48013094 Score: 150
Period size: 43 Copynumber: 2.4 Consensus size: 43
48012983 ACTAGGCAAA
* * * *
48012993 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGACCAAGACTT
1 TTAGCGGCGTTTTTTAAAAAAACACCACTAAAGAACAAGACTT
* *
48013036 TTAGTGGCGCTTTTTAAAAAAACACCACTAAAGAACAAGACTT
1 TTAGCGGCGTTTTTTAAAAAAACACCACTAAAGAACAAGACTT
48013079 TTAGCGGCGTTTTTTA
1 TTAGCGGCGTTTTTTA
48013095 TATAAGCGCC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTAAAAAAACACCACTAAAGAACAAGACTT
Found at i:48013125 original size:43 final size:43
Alignment explanation
Indices: 48013078--48013313 Score: 294
Period size: 43 Copynumber: 5.4 Consensus size: 43
48013068 GAACAAGACT
48013078 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
1 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
* * *
48013121 TTTAGCGGCGTTTTTTAAAAAAGTGCCGCTATAAGTCCTGGTC
1 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
* * * * *
48013164 TTTAGCGGCATTTTTTA-AAAAGCGCCTCTATTAGTCCTAGTC
1 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
48013206 TTTAGCGGCACTTTCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
1 TTTAGCGG------CGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
* * * * *
48013255 TTTAGTGGCATTTTTTGTATAAGCGCTGCTAAAAGTCCTGGTC
1 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
48013298 TTTAGCGGCGTTTTTT
1 TTTAGCGGCGTTTTTT
48013314 TCAACAAAAC
Statistics
Matches: 166, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
42 29 0.17
43 101 0.61
48 8 0.05
49 28 0.17
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
Found at i:48018928 original size:46 final size:45
Alignment explanation
Indices: 48018872--48019047 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
48018862 TATTTGGGCA
48018872 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
48018918 TCGGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
48018965 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
48019011 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48019048 GCAGGTTACA
Statistics
Matches: 104, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 61 0.59
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:48019027 original size:93 final size:93
Alignment explanation
Indices: 48018868--48019039 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
48018858 AGGATATTTG
* * ** *
48018868 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCGGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAG
48018933 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
48018961 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG-CCCAAGCTCATTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCCAA-CTCATTGA
48019025 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
48019040 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:48023637 original size:47 final size:48
Alignment explanation
Indices: 48023519--48023649 Score: 203
Period size: 47 Copynumber: 2.8 Consensus size: 48
48023509 GTGTGAGCGA
* *
48023519 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTCGGAGAAGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGAGAAGAGT
**
48023567 TACCTTGATTTGGCTACAAGCCATGGTATAGGTACTCCGG-GATA-AGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGAGA-AGAGT
48023614 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
48023650 TATCGATTGA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 39 0.51
48 37 0.49
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (48 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGAGAAGAGT
Found at i:48023668 original size:47 final size:46
Alignment explanation
Indices: 48023522--48023668 Score: 142
Period size: 47 Copynumber: 3.1 Consensus size: 46
48023512 TGAGCGATAC
48023522 CTTGATTTGGCTACGGGCCATGGTATAGGTA-TTTCGGA-GAAGAGTTA
1 CTTGATTTGGCTACGGGCCATGGTATAGGTACTTTC-GATG-AGA-TTA
** * *
48023569 CCTTGATTTGGCTACAAGCCATGGTATAGGTAC-TCCGGGATAAG-TTA
1 -CTTGATTTGGCTACGGGCCATGGTATAGGTACTTTC--GATGAGATTA
48023616 CCTTGATTTGGCTACGGGCCATGGTATAGGTACTTATCGATTGAGATT-
1 -CTTGATTTGGCTACGGGCCATGGTATAGGTACTT-TCGA-TGAGATTA
48023664 CTTGA
1 CTTGA
48023669 ATATCCAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
47 41 0.49
48 35 0.42
49 8 0.10
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (46 bp):
CTTGATTTGGCTACGGGCCATGGTATAGGTACTTTCGATGAGATTA
Found at i:48024900 original size:39 final size:40
Alignment explanation
Indices: 48024799--48024983 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
48024789 TTGAATGATG
* * * *
48024799 TCCGGGCTAAGTCCCGAAGGC-CTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
48024838 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
48024879 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
48024918 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
48024957 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
48024984 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:48024935 original size:79 final size:81
Alignment explanation
Indices: 48024799--48024983 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
48024789 TTGAATGATG
* * *
48024799 TCCGGGCTAAGTCCCGAAGGC-CTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
48024863 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
48024878 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
48024940 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
48024958 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48024984 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:48025005 original size:79 final size:79
Alignment explanation
Indices: 48024852--48025016 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
48024842 GGACTAAGAT
* * **
48024852 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
48024917 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
48024931 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
48024994 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
48025010 CCGAAGG
1 CCGAAGG
48025017 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:48026634 original size:6 final size:6
Alignment explanation
Indices: 48026623--48026647 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
48026613 GCGTACCAAT
48026623 CAAAAC CAAAAC CAAAAC CAAAAC C
1 CAAAAC CAAAAC CAAAAC CAAAAC C
48026648 GATCATTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAC
Found at i:48032776 original size:20 final size:20
Alignment explanation
Indices: 48032704--48032798 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 20
48032694 GCCTCTATTA
*
48032704 TGCACTTCGGTGCCTCTG-T
1 TGCACTTTGGTGCCTCTGCT
* * * * *
48032723 TACACTTTGATGTCTTTGAT
1 TGCACTTTGGTGCCTCTGCT
***
48032743 TCGCACTACCGTGCCTCTGCT
1 T-GCACTTTGGTGCCTCTGCT
*
48032764 TGCACATTT-GTGCCTCTGTT
1 TGCAC-TTTGGTGCCTCTGCT
48032784 TGCACTTTGGTGCCT
1 TGCACTTTGGTGCCT
48032799 TTTTATTGCA
Statistics
Matches: 56, Mismatches: 16, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
19 16 0.29
20 27 0.48
21 13 0.23
ACGTcount: A:0.11, C:0.28, G:0.21, T:0.40
Consensus pattern (20 bp):
TGCACTTTGGTGCCTCTGCT
Found at i:48032797 original size:40 final size:38
Alignment explanation
Indices: 48032692--48032798 Score: 97
Period size: 40 Copynumber: 2.7 Consensus size: 38
48032682 TTGTAATTCG
*
48032692 GTGCCTCTATTATGCACTTCGGTGCCTCTGTTACACTTT
1 GTGCCTCTGTT-TGCACTTCGGTGCCTCTGTTACACTTT
* * * * * *
48032731 GATGTCTTTGATTCGCACTACCGTGCCTCTGCTTGCACATTT
1 G-TGCCTCTG-TTTGCACTTCGGTGCCTCTG-TTACAC-TTT
*
48032773 GTGCCTCTGTTTGCACTTTGGTGCCT
1 GTGCCTCTGTTTGCACTTCGGTGCCT
48032799 TTTTATTGCA
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
39 1 0.02
40 33 0.65
41 13 0.25
42 4 0.08
ACGTcount: A:0.11, C:0.28, G:0.21, T:0.40
Consensus pattern (38 bp):
GTGCCTCTGTTTGCACTTCGGTGCCTCTGTTACACTTT
Found at i:48034413 original size:23 final size:23
Alignment explanation
Indices: 48034362--48034413 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
48034352 CCTACTTTCT
*
48034362 TACT-GTAATTTTTGGGGTATTA
1 TACTAGTAATTTTTGGGATATTA
* *
48034384 CAGTAGTAATTTTTGGGATATTA
1 TACTAGTAATTTTTGGGATATTA
48034407 TACTAGT
1 TACTAGT
48034414 GTTTGGGATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.46
Consensus pattern (23 bp):
TACTAGTAATTTTTGGGATATTA
Found at i:48037245 original size:15 final size:16
Alignment explanation
Indices: 48037218--48037247 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48037208 AAAAATAATT
48037218 AATATATATTATATAA
1 AATATATATTATATAA
48037234 AATATA-ATTATATA
1 AATATATATTATATA
48037248 TTAGTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:48045106 original size:20 final size:19
Alignment explanation
Indices: 48045069--48045179 Score: 87
Period size: 20 Copynumber: 5.6 Consensus size: 19
48045059 TAGGACACCA
* *
48045069 AAGTGCAATCAAGAGCACG
1 AAGTGCAATCAGGGGCACG
*
48045088 AATGTGCAATCAGGGGCACCA
1 AA-GTGCAATCAGGGGCA-CG
* *
48045109 AAGTGCAAACAGGGGCGCG
1 AAGTGCAATCAGGGGCACG
* *
48045128 TAAGTGCAATCAAGGGTACCG
1 -AAGTGCAATCAGGGGCA-CG
* * *
48045149 AAGTACAAACAGGGGCATG
1 AAGTGCAATCAGGGGCACG
48045168 TAAGTGCAATCA
1 -AAGTGCAATCA
48045180 TTGAATAATT
Statistics
Matches: 70, Mismatches: 17, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
19 4 0.06
20 61 0.87
21 5 0.07
ACGTcount: A:0.37, C:0.20, G:0.30, T:0.14
Consensus pattern (19 bp):
AAGTGCAATCAGGGGCACG
Found at i:48045135 original size:40 final size:40
Alignment explanation
Indices: 48045064--48045179 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 40
48045054 CATAATAGGA
* * * *
48045064 CACCAAAGTGCAATCAAGAGCACG-AATGTGCAATCAGGGG
1 CACCAAAGTGCAAACAGGGGCACGTAA-GTGCAATCAAGGG
*
48045104 CACCAAAGTGCAAACAGGGGCGCGTAAGTGCAATCAAGGG
1 CACCAAAGTGCAAACAGGGGCACGTAAGTGCAATCAAGGG
* * * *
48045144 TACCGAAGTACAAACAGGGGCATGTAAGTGCAATCA
1 CACCAAAGTGCAAACAGGGGCACGTAAGTGCAATCA
48045180 TTGAATAATT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 63 0.97
41 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.28, T:0.13
Consensus pattern (40 bp):
CACCAAAGTGCAAACAGGGGCACGTAAGTGCAATCAAGGG
Found at i:48048669 original size:25 final size:25
Alignment explanation
Indices: 48048635--48048698 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
48048625 ATTTTTATAA
48048635 CTCGTGTGAGCATA-TCGATTCACAG
1 CTCGTGTGAGCATACT-GATTCACAG
*
48048660 CTCGTGTGAGCATACTGATTCATAG
1 CTCGTGTGAGCATACTGATTCACAG
* *
48048685 CTTGTATGAGCATA
1 CTCGTGTGAGCATA
48048699 AATGTACATC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 34 0.97
26 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (25 bp):
CTCGTGTGAGCATACTGATTCACAG
Found at i:48051622 original size:40 final size:40
Alignment explanation
Indices: 48051441--48051608 Score: 221
Period size: 40 Copynumber: 4.2 Consensus size: 40
48051431 CTCGTTCAAG
* * * * *
48051441 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* *
48051480 TGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
48051520 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* * * *
48051560 TGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
*
48051600 GGCCTTCGG
1 TGCCTTCGG
48051609 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 32 0.28
40 83 0.72
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
Found at i:48051649 original size:80 final size:79
Alignment explanation
Indices: 48051442--48051661 Score: 201
Period size: 80 Copynumber: 2.8 Consensus size: 79
48051432 TCGTTCAAGT
* * * * * *
48051442 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CACAATGCCTTCGGGACATAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATATAATAACT-AGCACAATGCCTTCGGGACTTAACCCGGATTTA
* *
48051506 ACAACTCGCACGAAT
65 ACAACTCGCACAAAG
* * *
48051521 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCCTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATATAATAACTAGCAC-AATGCCTTCGGGACTTAACCCGGATTTA
** *
48051586 GTATCTCGCACAAAG
65 ACAACTCGCACAAAG
** * ** * *
48051601 GCCTTC-GGATCTTAGTCCGGATATATTCGCTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCACAATGCCTTCGGGACTTAACCCGGA
48051662 CAGCATTCAA
Statistics
Matches: 115, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
79 33 0.29
80 77 0.67
81 5 0.04
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGACTTAACCCGGATATAATAACTAGCACAATGCCTTCGGGACTTAACCCGGATTTAA
CAACTCGCACAAAG
Found at i:48054400 original size:17 final size:19
Alignment explanation
Indices: 48054362--48054409 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
48054352 TCTTCTTGCG
*
48054362 TTTTTCTTA-TTTACTTTC
1 TTTTTTTTATTTTACTTTC
48054380 TTTTTTTTATTTTA-TTT-
1 TTTTTTTTATTTTACTTTC
*
48054397 TTTTGTTTATTTT
1 TTTTTTTTATTTT
48054410 CTACAACTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 12 0.44
18 11 0.41
19 4 0.15
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.81
Consensus pattern (19 bp):
TTTTTTTTATTTTACTTTC
Found at i:48057157 original size:27 final size:26
Alignment explanation
Indices: 48057103--48057159 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
48057093 TAAAATGGTA
* * *
48057103 ATTTTACCCCCGGGGGTATTTTGGTC
1 ATTTTACCCCCGAGGGTATTTCGATC
*
48057129 ATTTTACCCTTCGAGGGTATTTCGATC
1 ATTTTACCC-CCGAGGGTATTTCGATC
48057156 ATTT
1 ATTT
48057160 AACCATCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCCGAGGGTATTTCGATC
Found at i:48059800 original size:15 final size:15
Alignment explanation
Indices: 48059772--48059819 Score: 71
Period size: 15 Copynumber: 3.1 Consensus size: 15
48059762 AGGGAGAAAG
48059772 AGAAAAGAATGTGTGA
1 AGAAAAG-ATGTGTGA
48059788 AGAAAAGATGTGTGA
1 AGAAAAGATGTGTGA
48059803 A-AGAAAGATGTGTGA
1 AGA-AAAGATGTGTGA
48059818 AG
1 AG
48059820 TGAGGGATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.03
15 22 0.73
16 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.19
Consensus pattern (15 bp):
AGAAAAGATGTGTGA
Found at i:48060114 original size:131 final size:131
Alignment explanation
Indices: 48059875--48060133 Score: 419
Period size: 131 Copynumber: 2.0 Consensus size: 131
48059865 AGATGGCTAC
* * * *
48059875 TAAATTTAGCTAAAAATAGCAGCCAATCCCCCTTGTAATGGCTAGTCATGCTACGTTGAAGGTTT
1 TAAAATTAGCAAAAAATAGCAGCCAATCCCCCTTCTAATGGCTAGTCATGCTACGTGGAAGGTTT
*
48059940 GATTAATTCAAACTTGATATTTTTTACTTATGGATAAAAATAGAGGGCATGAAAAGAGAAGGGTG
66 GATTAATTCAAACTTGATATTTTTTACTTATGGATAAAAATAGAAGGCATGAAAAGAGAAGGGTG
48060005 A
131 A
* * *
48060006 TAAAATTAGCAAAAAATAGCAGCCAATGCCCCTTCTCATGGCTTGTCATGCTACGTGGAAGGTTT
1 TAAAATTAGCAAAAAATAGCAGCCAATCCCCCTTCTAATGGCTAGTCATGCTACGTGGAAGGTTT
* * *
48060071 GATTGATTCAAACTTGCTATTTTTTTCTTATGGATAAAAATAGAAGGCATGAAAAGAGAAGGG
66 GATTAATTCAAACTTGATATTTTTTACTTATGGATAAAAATAGAAGGCATGAAAAGAGAAGGG
48060134 GTTTGAATGG
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 117 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (131 bp):
TAAAATTAGCAAAAAATAGCAGCCAATCCCCCTTCTAATGGCTAGTCATGCTACGTGGAAGGTTT
GATTAATTCAAACTTGATATTTTTTACTTATGGATAAAAATAGAAGGCATGAAAAGAGAAGGGTG
A
Found at i:48062182 original size:96 final size:96
Alignment explanation
Indices: 48061870--48062173 Score: 581
Period size: 96 Copynumber: 3.2 Consensus size: 96
48061860 GAATGGCTAC
48061870 GGTAGTATGATCGGCATGCAGCCATTAGTAATGGTAATATGATCAGCACACAGCCATTAGTAATG
1 GGTAGTATGATCGGCATGCAGCCATTAGTAATGGTAATATGATCAGCACACAGCCATTAGTAATG
48061935 GTAATATGATCGACACACAGCCATCAGTAAT
66 GTAATATGATCGACACACAGCCATCAGTAAT
48061966 GGTAGTATGATCGGCATGCAGCCATTAGTAATGGTAATATGATCAGCACACAGCCATTAGTAATG
1 GGTAGTATGATCGGCATGCAGCCATTAGTAATGGTAATATGATCAGCACACAGCCATTAGTAATG
48062031 GTAATATGATCGACACACAGCCATCAGTAAT
66 GTAATATGATCGACACACAGCCATCAGTAAT
48062062 GGTAGTATGATCGGCATGCAGCCATTAGTAATGGTAATATGATCAGCACACAGCCATTAGTAATG
1 GGTAGTATGATCGGCATGCAGCCATTAGTAATGGTAATATGATCAGCACACAGCCATTAGTAATG
*
48062127 GTAATATGATCGACACACAGCCATCAGTAGT
66 GTAATATGATCGACACACAGCCATCAGTAAT
* *
48062158 CGTAATATGATCGGCA
1 GGTAGTATGATCGGCA
48062174 CAAAGCCATC
Statistics
Matches: 205, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 205 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (96 bp):
GGTAGTATGATCGGCATGCAGCCATTAGTAATGGTAATATGATCAGCACACAGCCATTAGTAATG
GTAATATGATCGACACACAGCCATCAGTAAT
Found at i:48062184 original size:32 final size:32
Alignment explanation
Indices: 48061870--48062182 Score: 437
Period size: 32 Copynumber: 9.8 Consensus size: 32
48061860 GAATGGCTAC
* **
48061870 GGTAGTATGATCGGCATGCAGCCATTAGTAAT
1 GGTAATATGATCGGCACACAGCCATTAGTAAT
*
48061902 GGTAATATGATCAGCACACAGCCATTAGTAAT
1 GGTAATATGATCGGCACACAGCCATTAGTAAT
* *
48061934 GGTAATATGATCGACACACAGCCATCAGTAAT
1 GGTAATATGATCGGCACACAGCCATTAGTAAT
* **
48061966 GGTAGTATGATCGGCATGCAGCCATTAGTAAT
1 GGTAATATGATCGGCACACAGCCATTAGTAAT
*
48061998 GGTAATATGATCAGCACACAGCCATTAGTAAT
1 GGTAATATGATCGGCACACAGCCATTAGTAAT
* *
48062030 GGTAATATGATCGACACACAGCCATCAGTAAT
1 GGTAATATGATCGGCACACAGCCATTAGTAAT
* **
48062062 GGTAGTATGATCGGCATGCAGCCATTAGTAAT
1 GGTAATATGATCGGCACACAGCCATTAGTAAT
*
48062094 GGTAATATGATCAGCACACAGCCATTAGTAAT
1 GGTAATATGATCGGCACACAGCCATTAGTAAT
* * *
48062126 GGTAATATGATCGACACACAGCCATCAGTAGT
1 GGTAATATGATCGGCACACAGCCATTAGTAAT
* *
48062158 CGTAATATGATCGGCACAAAGCCAT
1 GGTAATATGATCGGCACACAGCCAT
48062183 CAATAGCATT
Statistics
Matches: 246, Mismatches: 35, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 246 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (32 bp):
GGTAATATGATCGGCACACAGCCATTAGTAAT
Found at i:48062242 original size:26 final size:26
Alignment explanation
Indices: 48062178--48062243 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
48062168 TCGGCACAAA
* * *
48062178 GCCATCAATAGCATTGCAGCAAAGCT
1 GCCAGCAATAGTATCGCAGCAAAGCT
*
48062204 GCCAGCAACAGTATCGCAGCAAAGCT
1 GCCAGCAATAGTATCGCAGCAAAGCT
* *
48062230 GCTAGTAATAGTAT
1 GCCAGCAATAGTAT
48062244 ATGTAGCCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (26 bp):
GCCAGCAATAGTATCGCAGCAAAGCT
Found at i:48062263 original size:27 final size:27
Alignment explanation
Indices: 48062233--48062290 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
48062223 CAAAGCTGCT
48062233 AGTAATAGT-ATATGTAGCCA-AGCCACC
1 AGTAATAGTGAT-TGT-GCCAGAGCCACC
*
48062260 AGTAATAGTGATTGTGGCAGAGCCACC
1 AGTAATAGTGATTGTGCCAGAGCCACC
48062287 AGTA
1 AGTA
48062291 CAATACTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 3 0.11
27 23 0.82
28 2 0.07
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (27 bp):
AGTAATAGTGATTGTGCCAGAGCCACC
Found at i:48062427 original size:28 final size:24
Alignment explanation
Indices: 48062369--48062448 Score: 124
Period size: 24 Copynumber: 3.3 Consensus size: 24
48062359 AATCAGTCAT
*
48062369 ACAAATCAGTCATTTAAACCACAG
1 ACAAATCAATCATTTAAACCACAG
*
48062393 ACAAATCAATCATTTAAACCACAT
1 ACAAATCAATCATTTAAACCACAG
* *
48062417 ACAAATCAATCATTTAAATCACAA
1 ACAAATCAATCATTTAAACCACAG
48062441 ACAAATCA
1 ACAAATCA
48062449 GTTATCTACA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.23
Consensus pattern (24 bp):
ACAAATCAATCATTTAAACCACAG
Found at i:48062554 original size:27 final size:27
Alignment explanation
Indices: 48062524--48062858 Score: 339
Period size: 27 Copynumber: 12.4 Consensus size: 27
48062514 AGCAAAAATA
*
48062524 GTCATTTTACCCTACAGGGGCATCACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
48062551 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * *
48062578 ATAATTTTACCTTATAGGGGCGTTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
48062605 ATCATTTTACCCTATAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
*
48062632 GTAATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
48062659 ATCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
48062686 GTCATTTTACCCTACAAGGTCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * **
48062713 GTTATTTTATCCTACAGGGGCGTTATA
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
48062740 GTCATTTTATCCTACAAGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* *
48062767 ATCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* * * **
48062794 ATCATTTTACCC-ATAGAGGGTATTTTG
1 GTCATTTTACCCTACAG-GGGCATTACG
* * * * *
48062821 GTAATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGCATTACG
*
48062848 ATCATTTTACC
1 GTCATTTTACC
48062859 ATTTAAGGGT
Statistics
Matches: 258, Mismatches: 48, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
26 3 0.01
27 254 0.98
28 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:48062852 original size:81 final size:81
Alignment explanation
Indices: 48062767--48062941 Score: 217
Period size: 81 Copynumber: 2.2 Consensus size: 81
48062757 GGGCATTACA
* * *
48062767 ATCATTTTACCCTACAGGGGCATTAC-AATCATTTTACCCATAGAGGGTATTTTGGTAATTTTAC
1 ATCATTTTACCCTACAAGGGCATT-CTAATAATTTTACCCATAGAGGGTATTTAGGTAATTTTAC
*
48062831 CCTTCGGGGGTATTTCG
65 CCTTCGGGGGTATTTAG
* ** * * ** *
48062848 ATCATTTTACCATTTAAGGGTATTCTAGTAATTTTACCTTTCGAGGGTATTTAGGTAATTTTACC
1 ATCATTTTACCCTACAAGGGCATTCTAATAATTTTACCCATAGAGGGTATTTAGGTAATTTTACC
48062913 CTTCGGGGGTATTTAG
66 CTTCGGGGGTATTTAG
*
48062929 ATAATTTTACCCT
1 ATCATTTTACCCT
48062942 TCGAGGGTAT
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 78 0.99
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (81 bp):
ATCATTTTACCCTACAAGGGCATTCTAATAATTTTACCCATAGAGGGTATTTAGGTAATTTTACC
CTTCGGGGGTATTTAG
Found at i:48062949 original size:81 final size:81
Alignment explanation
Indices: 48062809--48062961 Score: 234
Period size: 81 Copynumber: 1.9 Consensus size: 81
48062799 TTTACCCATA
* * * *
48062809 GAGGGTATTTTGGTAATTTTACCCTTCGGGGGTATTTCGATCATTTTACCATTTAAGGGTATTCT
1 GAGGGTATTTAGGTAATTTTACCCTTCGGGGGTATTTAGATAATTTTACCATTCAAGGGTATTCT
48062874 AGTAATTTTACCTTTC
66 AGTAATTTTACCTTTC
* * *
48062890 GAGGGTATTTAGGTAATTTTACCCTTCGGGGGTATTTAGATAATTTTACCCTTCGAGGGTATTTT
1 GAGGGTATTTAGGTAATTTTACCCTTCGGGGGTATTTAGATAATTTTACCATTCAAGGGTATTCT
*
48062955 GGTAATT
66 AGTAATT
48062962 ACAACCTTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 64 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (81 bp):
GAGGGTATTTAGGTAATTTTACCCTTCGGGGGTATTTAGATAATTTTACCATTCAAGGGTATTCT
AGTAATTTTACCTTTC
Found at i:48062969 original size:27 final size:27
Alignment explanation
Indices: 48062797--48062961 Score: 188
Period size: 27 Copynumber: 6.1 Consensus size: 27
48062787 CATTACAATC
* * *
48062797 ATTTTACCCATAGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTAGGTA
* * * *
48062824 ATTTTACCCTTCGGGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTAGGTA
* **
48062851 ATTTTACCATTTAAGGGTATTCTA-GTA
1 ATTTTACCCTTCGAGGGTATT-TAGGTA
*
48062878 ATTTTACCTTTCGAGGGTATTTAGGTA
1 ATTTTACCCTTCGAGGGTATTTAGGTA
* *
48062905 ATTTTACCCTTCGGGGGTATTTAGATA
1 ATTTTACCCTTCGAGGGTATTTAGGTA
*
48062932 ATTTTACCCTTCGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTAGGTA
48062959 ATT
1 ATT
48062962 ACAACCTTTT
Statistics
Matches: 114, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.02
27 111 0.97
28 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTAGGTA
Found at i:48065730 original size:57 final size:57
Alignment explanation
Indices: 48065620--48065731 Score: 179
Period size: 57 Copynumber: 2.0 Consensus size: 57
48065610 AAAATTGTTC
* * * * *
48065620 AGCATGTCATAAAACATAAGAAAAATGAATAAAATTTAATTTTCGGGCTTAGGGGCA
1 AGCAGGTCATAAAACATAAGAAAAAGGAATAAAATTTAATTTCCGAGCCTAGGGGCA
48065677 AGCAGGTCATAAAACATAAGAAAAAGGAATAAAATTTAATTTCCGAGCCTAGGGG
1 AGCAGGTCATAAAACATAAGAAAAAGGAATAAAATTTAATTTCCGAGCCTAGGGG
48065732 AAAAATCGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.23
Consensus pattern (57 bp):
AGCAGGTCATAAAACATAAGAAAAAGGAATAAAATTTAATTTCCGAGCCTAGGGGCA
Found at i:48066071 original size:51 final size:51
Alignment explanation
Indices: 48066007--48066158 Score: 200
Period size: 51 Copynumber: 3.0 Consensus size: 51
48065997 ATTTGAAAGT
* * *
48066007 GAAAGTGATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCG
1 GAAAGTTATGGTCATGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
* * * * *
48066058 GATA-TTAATGGTCATGTGTGTAGTACTATATGCAGGCTACTACGTGAACCG
1 GAAAGTT-ATGGTCATGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
*
48066109 GAAAGTT-TGATCATGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 GAAAGTTATGGTCATGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
48066159 AATGATAATA
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
50 39 0.45
51 45 0.52
52 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (51 bp):
GAAAGTTATGGTCATGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
Found at i:48066145 original size:50 final size:50
Alignment explanation
Indices: 48066022--48066153 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 50
48066012 TGATGGTCAC
* * * * *
48066022 GTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATATTAATGGTCAT
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAATT-ATGATCAT
* *
48066073 GTGTGTAGTACTATATGCAGGCTACTACGTGAACCGGAAAGTT-TGATCAT
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAA-TTATGATCAT
48066123 GTGTGTAGTACTATGTGAAGGCTACTACGTG
1 GTGTGTAGTACTATGTGAAGGCTACTACGTG
48066154 TATCGAATGA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
50 35 0.49
51 35 0.49
52 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (50 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAATTATGATCAT
Found at i:48072130 original size:41 final size:41
Alignment explanation
Indices: 48072076--48072311 Score: 366
Period size: 41 Copynumber: 5.8 Consensus size: 41
48072066 AATATTGTTG
* *
48072076 AATTACACATACGTGCCCCTGTTTGTACTTCGGTACCCTTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTA
* * *
48072117 AATTGCACATACGTGCCCCTATTTGTACTTTGGTACTCTTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTA
*
48072158 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTA
* * *
48072199 AATTGCACATACGTGCCCCTATTTGTACTTTGGTACTCTTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTA
*
48072240 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCATA
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTA
*
48072281 AATTGCA-ATACATGCCCCTGTTTGTACTTCG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCG
48072312 ATGCCCCTGA
Statistics
Matches: 177, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 23 0.13
41 154 0.87
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.36
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTA
Found at i:48072218 original size:82 final size:82
Alignment explanation
Indices: 48072076--48072309 Score: 416
Period size: 82 Copynumber: 2.9 Consensus size: 82
48072066 AATATTGTTG
*
48072076 AATTACACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGAATTGCACATACGTGCCCCTATTT
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGAATTGCACATACGTGCCCCTATTT
48072141 GTACTTTGGTACTCTTA
66 GTACTTTGGTACTCTTA
48072158 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGAATTGCACATACGTGCCCCTATTT
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGAATTGCACATACGTGCCCCTATTT
48072223 GTACTTTGGTACTCTTA
66 GTACTTTGGTACTCTTA
* * * *
48072240 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCATAAATTGCA-ATACATGCCCCTGTTT
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGAATTGCACATACGTGCCCCTATTT
48072304 GTACTT
66 GTACTT
48072310 CGATGCCCCT
Statistics
Matches: 147, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 20 0.14
82 127 0.86
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (82 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGAATTGCACATACGTGCCCCTATTT
GTACTTTGGTACTCTTA
Found at i:48076119 original size:138 final size:138
Alignment explanation
Indices: 48075798--48076357 Score: 824
Period size: 138 Copynumber: 4.1 Consensus size: 138
48075788 TAGAAAAAGG
* ** * **
48075798 AATTATATTCTTTCGAAAAGAATATTAATTTCCATGTCTTTTATGCTTTAACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATAATTTGACCAAAATTAATTAA
* *
48075863 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATA-TTT-T-TGAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
48075925 CAAATATATATT
131 C----ATATATT
*
48075937 AATTATATTC-TTCCTAAAAGAATATTAATTTTCATGTCTTTTATAATTTGACCAAAATTAATTA
1 AATTATATTCTTTCC-AAAAGAATATTAATTTCCATGTCTTTTATAATTTGACCAAAATTAATTA
* * * **
48076001 ATTTAATTGTTTATATTACTAAGTAAGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
65 ATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
48076066 TCATATATT
130 TCATATATT
* *
48076075 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATAATTTGACCAAAATTAATTAA
48076140 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
48076205 CATATATT
131 CATATATT
* * * *
48076213 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTAT-ACTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATAATTTGACCAAAATTAATTAA
* * * *
48076277 TATAATTGTTTATATTAATAAATTCGATAAAATATGTACAATTAATATTTTTTATAAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
48076342 CATATATT
131 CATATATT
48076350 AATTATAT
1 AATTATAT
48076358 CTATGTTCTC
Statistics
Matches: 384, Mismatches: 32, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
137 92 0.24
138 178 0.46
139 98 0.26
140 3 0.01
141 1 0.00
142 12 0.03
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATAATTTGACCAAAATTAATTAA
TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:48082053 original size:21 final size:21
Alignment explanation
Indices: 48082024--48082065 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
48082014 AAATCCATTT
*
48082024 CATCATCTCCTTCTTCTTCGC
1 CATCATCTCCTTCCTCTTCGC
*
48082045 CATCCTCTCCTTCCTCTTCGC
1 CATCATCTCCTTCCTCTTCGC
48082066 TTTCACGCGC
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:0.07, C:0.48, G:0.05, T:0.40
Consensus pattern (21 bp):
CATCATCTCCTTCCTCTTCGC
Found at i:48085170 original size:18 final size:18
Alignment explanation
Indices: 48085147--48085185 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
48085137 CTTTATTTTG
48085147 AAATAGTTGAAAAATATC
1 AAATAGTTGAAAAATATC
48085165 AAATAGTTGAAAAATATC
1 AAATAGTTGAAAAATATC
48085183 AAA
1 AAA
48085186 ACTTTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (18 bp):
AAATAGTTGAAAAATATC
Found at i:48085454 original size:5 final size:5
Alignment explanation
Indices: 48085444--48085476 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
48085434 ATATGGCAAA
48085444 AAAAG AAAAG AAAAG AAAAG AAAA- ATAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG A-AAAG AAA
48085477 CAAGAATGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 24 0.92
6 1 0.04
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:48085638 original size:3 final size:3
Alignment explanation
Indices: 48085632--48085672 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
48085622 TAATAATATT
48085632 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
48085673 ATGATAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:48086226 original size:42 final size:42
Alignment explanation
Indices: 48086117--48086626 Score: 535
Period size: 42 Copynumber: 12.2 Consensus size: 42
48086107 ATATACAATA
* * * *
48086117 CAATGAAAAGTAAATAGACTTTCACACCTGTGCCT-TAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * *
48086158 GAATGAAAAGTAAATGGACTTTCACACCTGGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * * *
48086200 CATTGAAAATTCAACT-GACCTCCACACTTGGGCCTCTAAATG
1 CAATGAAAAGT-AAATGGACCTCCACACCTGGGCCTCTAAATG
* * * * *
48086242 CAATGAAAATTCAATGGACCTCCGCACCGGGGTCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * * * *
48086284 CAATGAAAAGAAAATGGACCTCCGCACCTAGGTCTCTAAATA
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * **
48086326 CAATGAAAAG-AAAGTGGACCTACACACTTTAGCCTCTAAATG
1 CAATGAAAAGTAAA-TGGACCTCCACACCTGGGCCTCTAAATG
* * *
48086368 CAATAAAAAGCAAATGGACCTCCACACTTGGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * *
48086410 CAATAAAAAGTAAATGGAACTCCACACCTGGGCCTTTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * * *
48086452 CAGTAAAAAGTAAATGGACCTCCACACATGGGCCTTTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* *
48086494 CAAT-AGAAAGTAAATAGACCTCCACACTTGGGCCTCTAAATG
1 CAATGA-AAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * *
48086536 CAAT-AAAATGTAAATGGACCTCTACGCCTGGGCATCTAAATG
1 CAATGAAAA-GTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * * ** *
48086578 CAATGAAAAGTGAATGGACCTCCACTCCTAGGTTTCTAAATA
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
48086620 CAATGAA
1 CAATGAA
48086627 TGTTTTCCTT
Statistics
Matches: 404, Mismatches: 57, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
41 41 0.10
42 353 0.87
43 10 0.02
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (42 bp):
CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
Found at i:48087633 original size:20 final size:21
Alignment explanation
Indices: 48087608--48087652 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
48087598 CTTTTTCTCC
48087608 TTTTGTATT-TCATTTCTTCT-
1 TTTTGT-TTCTCATTTCTTCTG
*
48087628 TTTTGTTTCTTATTTCTTCTG
1 TTTTGTTTCTCATTTCTTCTG
48087649 TTTT
1 TTTT
48087653 CTTTTTTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 16 0.73
21 4 0.18
ACGTcount: A:0.07, C:0.13, G:0.07, T:0.73
Consensus pattern (21 bp):
TTTTGTTTCTCATTTCTTCTG
Found at i:48090347 original size:14 final size:14
Alignment explanation
Indices: 48090328--48090355 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48090318 TCATATTCAG
48090328 TGAACCATCTTGTT
1 TGAACCATCTTGTT
48090342 TGAACCATCTTGTT
1 TGAACCATCTTGTT
48090356 GCCGCAGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (14 bp):
TGAACCATCTTGTT
Found at i:48104723 original size:40 final size:41
Alignment explanation
Indices: 48104567--48104733 Score: 180
Period size: 42 Copynumber: 4.0 Consensus size: 41
48104557 AGGAGCACAA
* *
48104567 TCACTTAAGCTTGCA-TAGGGAGCTTTGTTGATACACAACTTG
1 TCACTTAAGC-T-CACTAGGGAGCTTCGCTGATACACAACTTG
* * *
48104609 TCAGTTAAGCTCACGT-GAGGAGCATT-GCTGATACACAGCTTA
1 TCACTTAAGCTCAC-TAG-GGAGC-TTCGCTGATACACAACTTG
* *
48104651 TCACTTGAGCTCATGTAGGGAGCTTCGCTGATACACAACTTG
1 TCACTTAAGCTCA-CTAGGGAGCTTCGCTGATACACAACTTG
*
48104693 TCACTTAAGCTCACT-GGGAGCTTCGCTGATACACAGCTTG
1 TCACTTAAGCTCACTAGGGAGCTTCGCTGATACACAACTTG
48104733 T
1 T
48104734 AAAAACCGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
40 27 0.25
41 5 0.05
42 71 0.67
43 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (41 bp):
TCACTTAAGCTCACTAGGGAGCTTCGCTGATACACAACTTG
Found at i:48107831 original size:28 final size:28
Alignment explanation
Indices: 48107799--48107873 Score: 132
Period size: 28 Copynumber: 2.7 Consensus size: 28
48107789 AACAGTGTAA
*
48107799 GCCTTAGCCCAATATAGTAACAATGTGG
1 GCCTTAGCCCAATACAGTAACAATGTGG
*
48107827 GCCTTAGCCCAATACAGTAACATTGTGG
1 GCCTTAGCCCAATACAGTAACAATGTGG
48107855 GCCTTAGCCCAATACAGTA
1 GCCTTAGCCCAATACAGTA
48107874 TCGATACAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (28 bp):
GCCTTAGCCCAATACAGTAACAATGTGG
Found at i:48108144 original size:32 final size:32
Alignment explanation
Indices: 48108108--48108201 Score: 82
Period size: 32 Copynumber: 2.9 Consensus size: 32
48108098 ATACAGTAAT
48108108 ATGATTGGCACAACGCCATCAGTAGCAGTGAG
1 ATGATTGGCACAACGCCATCAGTAGCAGTGAG
* * * * * *
48108140 ATGATTGGCTC-GCAGCCATCAGTAACGGTAAT
1 ATGATTGGCACAAC-GCCATCAGTAGCAGTGAG
*** *
48108172 ATGATCAACACAAAGCCATCAGTAGCAGTG
1 ATGATTGGCACAACGCCATCAGTAGCAGTG
48108202 CCATAAATAC
Statistics
Matches: 45, Mismatches: 15, Indels: 4
0.70 0.23 0.06
Matches are distributed among these distances:
31 1 0.02
32 44 0.98
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (32 bp):
ATGATTGGCACAACGCCATCAGTAGCAGTGAG
Found at i:48108254 original size:32 final size:32
Alignment explanation
Indices: 48108232--48108337 Score: 122
Period size: 32 Copynumber: 3.3 Consensus size: 32
48108222 TTGGCACAAC
* * * * *
48108232 GCCATCAGTAGCAGTGAGATGATTGGCTCGCA
1 GCCATCAGTAGCAGTGATATGATCGACACACA
* * * * *
48108264 GCCATCAGTAACGGTAATATGATCAACACAAA
1 GCCATCAGTAGCAGTGATATGATCGACACACA
48108296 GCCATCAGTAGCAGTGATATGATCGACACACA
1 GCCATCAGTAGCAGTGATATGATCGACACACA
48108328 GCCATCAGTA
1 GCCATCAGTA
48108338 ACGGTAATAT
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 59 1.00
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.20
Consensus pattern (32 bp):
GCCATCAGTAGCAGTGATATGATCGACACACA
Found at i:48108284 original size:110 final size:110
Alignment explanation
Indices: 48108091--48108311 Score: 442
Period size: 110 Copynumber: 2.0 Consensus size: 110
48108081 ATGGCTACAA
48108091 GCCATAAATACAGTAATATGATTGGCACAACGCCATCAGTAGCAGTGAGATGATTGGCTCGCAGC
1 GCCATAAATACAGTAATATGATTGGCACAACGCCATCAGTAGCAGTGAGATGATTGGCTCGCAGC
48108156 CATCAGTAACGGTAATATGATCAACACAAAGCCATCAGTAGCAGT
66 CATCAGTAACGGTAATATGATCAACACAAAGCCATCAGTAGCAGT
48108201 GCCATAAATACAGTAATATGATTGGCACAACGCCATCAGTAGCAGTGAGATGATTGGCTCGCAGC
1 GCCATAAATACAGTAATATGATTGGCACAACGCCATCAGTAGCAGTGAGATGATTGGCTCGCAGC
48108266 CATCAGTAACGGTAATATGATCAACACAAAGCCATCAGTAGCAGT
66 CATCAGTAACGGTAATATGATCAACACAAAGCCATCAGTAGCAGT
48108311 G
1 G
48108312 ATATGATCGA
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 111 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (110 bp):
GCCATAAATACAGTAATATGATTGGCACAACGCCATCAGTAGCAGTGAGATGATTGGCTCGCAGC
CATCAGTAACGGTAATATGATCAACACAAAGCCATCAGTAGCAGT
Found at i:48108318 original size:64 final size:64
Alignment explanation
Indices: 48108226--48108372 Score: 195
Period size: 64 Copynumber: 2.3 Consensus size: 64
48108216 ATATGATTGG
* * * * * *
48108226 CACAACGCCATCAGTAGCAGTGAGATGATTGGCTCGCAGCCATCAGTAACGGTAATATGATCAA
1 CACAAAGCCATCAGTAGCAGTGAGATGATCGACACACAGCCATCAGTAACGGTAATATGACCAA
* **
48108290 CACAAAGCCATCAGTAGCAGTGATATGATCGACACACAGCCATCAGTAACGGTAATATGACCGG
1 CACAAAGCCATCAGTAGCAGTGAGATGATCGACACACAGCCATCAGTAACGGTAATATGACCAA
* *
48108354 CATAAAGCCATCAGCAGCA
1 CACAAAGCCATCAGTAGCA
48108373 TCGCAGCAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 72 1.00
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (64 bp):
CACAAAGCCATCAGTAGCAGTGAGATGATCGACACACAGCCATCAGTAACGGTAATATGACCAA
Found at i:48108348 original size:32 final size:32
Alignment explanation
Indices: 48108263--48108367 Score: 138
Period size: 32 Copynumber: 3.3 Consensus size: 32
48108253 ATTGGCTCGC
*
48108263 AGCCATCAGTAACGGTAATATGATCAACACAA
1 AGCCATCAGTAACGGTAATATGATCGACACAA
* * * *
48108295 AGCCATCAGTAGCAGTGATATGATCGACACAC
1 AGCCATCAGTAACGGTAATATGATCGACACAA
* * *
48108327 AGCCATCAGTAACGGTAATATGACCGGCATAA
1 AGCCATCAGTAACGGTAATATGATCGACACAA
48108359 AGCCATCAG
1 AGCCATCAG
48108368 CAGCATCGCA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (32 bp):
AGCCATCAGTAACGGTAATATGATCGACACAA
Found at i:48108680 original size:27 final size:27
Alignment explanation
Indices: 48108650--48108741 Score: 82
Period size: 27 Copynumber: 3.4 Consensus size: 27
48108640 GGTATTTTTT
*
48108650 TCATTTTACCCTAATA-GGGT-ATCTCGA
1 TCATTTTACCCT-ATAGGGGTAAT-TCAA
*
48108677 TCATTTTACCCTTTAGGGGTAATTCAA
1 TCATTTTACCCTATAGGGGTAATTCAA
* * *
48108704 TCATTTTACCC-ATCGAGGGTATTTCAG
1 TCATTTTACCCTATAG-GGGTAATTCAA
*
48108731 TAATTTTACCC
1 TCATTTTACCC
48108742 ATTGAGGGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
26 4 0.07
27 49 0.89
28 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTAATTCAA
Found at i:48108861 original size:81 final size:81
Alignment explanation
Indices: 48108652--48108873 Score: 227
Period size: 81 Copynumber: 2.7 Consensus size: 81
48108642 TATTTTTTTC
* * * * * *
48108652 ATTTTACCCTAAT-AGGGTATCTCGATCATTTTACCCTTT-AGGGGTAATTCAATCATTTTACCC
1 ATTTTACCC-ATTCAGGGTATTTCGATAATTTTA-CCTTTCAAGGGTATTTCAATAATTTTACCC
48108715 ATCGAGGGTATTTCAGTA
64 ATCGAGGGTATTTCAGTA
* * * * * *
48108733 ATTTTACCCATTGAGGGTATTTCGGTAATTTTACCCTTCGAGAGTATTTCGATAATTTTACCCAT
1 ATTTTACCCATTCAGGGTATTTCGATAATTTTACCTTTCAAGGGTATTTCAATAATTTTACCCAT
* *
48108798 TGGGGGTATTTC-GCTA
66 CGAGGGTATTTCAG-TA
* * *
48108814 ATTTTACCC-TTCAGAGGTATTTTGATAATTTTACCTTTCAAGGGTATTTTAGTAATTTTA
1 ATTTTACCCATTCAG-GGTATTTCGATAATTTTACCTTTCAAGGGTATTTCAATAATTTTA
48108874 TAGGCCCATT
Statistics
Matches: 115, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
80 11 0.10
81 104 0.90
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (81 bp):
ATTTTACCCATTCAGGGTATTTCGATAATTTTACCTTTCAAGGGTATTTCAATAATTTTACCCAT
CGAGGGTATTTCAGTA
Found at i:48108863 original size:27 final size:27
Alignment explanation
Indices: 48108665--48108862 Score: 190
Period size: 27 Copynumber: 7.3 Consensus size: 27
48108655 TTACCCTAAT
* * *
48108665 AGGGTATCTCGATCATTTTACCCTT-T
1 AGGGTATTTCGATAATTTTACCCTTCG
* * * *
48108691 AGGGGTAATTCAATCATTTTACCCATCG
1 A-GGGTATTTCGATAATTTTACCCTTCG
48108719 AGGGTATTTC-AGTAATTTTACCCATT-G
1 AGGGTATTTCGA-TAATTTTACCC-TTCG
*
48108746 AGGGTATTTCGGTAATTTTACCCTTCG
1 AGGGTATTTCGATAATTTTACCCTTCG
*
48108773 AGAGTATTTCGATAATTTTACCCATT-G
1 AGGGTATTTCGATAATTTTACCC-TTCG
* *
48108800 GGGGTATTTCGCTAATTTTACCCTTC-
1 AGGGTATTTCGATAATTTTACCCTTCG
* * *
48108826 AGAGGTATTTTGATAATTTTACCTTTCA
1 AG-GGTATTTCGATAATTTTACCCTTCG
48108854 AGGGTATTT
1 AGGGTATTT
48108863 TAGTAATTTT
Statistics
Matches: 144, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
26 7 0.05
27 131 0.91
28 6 0.04
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACCCTTCG
Found at i:48111881 original size:45 final size:44
Alignment explanation
Indices: 48111817--48111903 Score: 120
Period size: 45 Copynumber: 2.0 Consensus size: 44
48111807 GTCTTTATCA
**
48111817 GAAGAGCCTTTAAAAGGTAAGTTAGGTAGCATAGCAATTTCANCG
1 GAAGAGCCTTTAAAAGGTAAGTTAAATAGCATAGCAATTTCA-CG
* * *
48111862 GAAGAGTCTTTAAGAGGTAAGTTAAATAGCATAGCAGTTTCA
1 GAAGAGCCTTTAAAAGGTAAGTTAAATAGCATAGCAATTTCA
48111904 TCAAAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.26
Consensus pattern (44 bp):
GAAGAGCCTTTAAAAGGTAAGTTAAATAGCATAGCAATTTCACG
Found at i:48117812 original size:20 final size:21
Alignment explanation
Indices: 48117777--48117815 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
48117767 GTTGGGAATA
48117777 TATATTAATTACATGTTTTTT
1 TATATTAATTACATGTTTTTT
*
48117798 TATATT-ATTAGATGTTTT
1 TATATTAATTACATGTTTT
48117816 GAATGTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (21 bp):
TATATTAATTACATGTTTTTT
Found at i:48120766 original size:25 final size:24
Alignment explanation
Indices: 48120722--48120772 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
48120712 TTTATGTGAA
*
48120722 TAAAATATTAATTAATTATAATAAT
1 TAAAATATTAATCAATTATAA-AAT
48120747 TAAAATATTAATC-ATATATAAAAT
1 TAAAATATTAATCAAT-TATAAAAT
48120771 TA
1 TA
48120773 TAAAAAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TAAAATATTAATCAATTATAAAAT
Found at i:48121824 original size:3 final size:3
Alignment explanation
Indices: 48121816--48121859 Score: 52
Period size: 3 Copynumber: 13.3 Consensus size: 3
48121806 AAAAGAACCC
48121816 CAT CAT CAT CAT CCAT CAT CCAT CAT CTAT CAT CCAT CAT CAT C
1 CAT CAT CAT CAT -CAT CAT -CAT CAT C-AT CAT -CAT CAT CAT C
48121860 GACGTACTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
3 25 0.68
4 12 0.32
ACGTcount: A:0.30, C:0.39, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:48121834 original size:7 final size:7
Alignment explanation
Indices: 48121815--48121856 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
48121805 AAAAAGAACC
48121815 CCATCAT
1 CCATCAT
48121822 -CATCAT
1 CCATCAT
48121828 CCATCAT
1 CCATCAT
48121835 CCATCAT
1 CCATCAT
*
48121842 CTATCAT
1 CCATCAT
48121849 CCATCAT
1 CCATCAT
48121856 C
1 C
48121857 ATCGACGTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.29, C:0.40, G:0.00, T:0.31
Consensus pattern (7 bp):
CCATCAT
Found at i:48125371 original size:2 final size:2
Alignment explanation
Indices: 48125366--48125400 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
48125356 TAAAAAAAAT
48125366 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
48125401 TTTCAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:48126161 original size:18 final size:18
Alignment explanation
Indices: 48126138--48126176 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
48126128 AATCAACCAT
48126138 TAAAAATATAGAAAAAA-A
1 TAAAAAT-TAGAAAAAATA
*
48126156 TAAAAATTTGAAAAAATA
1 TAAAAATTAGAAAAAATA
48126174 TAA
1 TAA
48126177 CCACCTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
TAAAAATTAGAAAAAATA
Found at i:48132083 original size:130 final size:129
Alignment explanation
Indices: 48131906--48132153 Score: 361
Period size: 130 Copynumber: 1.9 Consensus size: 129
48131896 TCACGAACAA
* ** *
48131906 TGTTGAAGTTTATCAGCTAAGAGCGTAGGTCCGTGAGCTGTTTTAGAGTAGCGAGCTTAAATCAG
1 TGTTAAAGTTTATCAGCTAAGAGCGTAGGTCCACGAGCTGTTCTAGAGTAGCGAGCTTAAATCAG
* * * **
48131971 CTAACTCAAATAAATGAATGTTGTGAGTATAACTCAGCTAACCTTTAAACATCAACTGCGAGATG
66 CTAACTCAAA-AAATGAAGGTTGTAAGTATAACTCAACTAAAATTTAAACATCAACTGCGAGATG
* * * *
48132036 TGTTAAAGTTTATCAGTTAGGAGTGTAGGTCCACGAGCTGTTCTAGAGTAGCGAGCTTAACTCAG
1 TGTTAAAGTTTATCAGCTAAGAGCGTAGGTCCACGAGCTGTTCTAGAGTAGCGAGCTTAAATCAG
*
48132101 CTAACTCAAAAAATGAAGGTTGTAAGTGTAACTCAACTAAAATTTAAACATCA
66 CTAACTCAAAAAATGAAGGTTGTAAGTATAACTCAACTAAAATTTAAACATCA
48132154 GTTGGGAGCA
Statistics
Matches: 104, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
129 37 0.36
130 67 0.64
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (129 bp):
TGTTAAAGTTTATCAGCTAAGAGCGTAGGTCCACGAGCTGTTCTAGAGTAGCGAGCTTAAATCAG
CTAACTCAAAAAATGAAGGTTGTAAGTATAACTCAACTAAAATTTAAACATCAACTGCGAGATG
Found at i:48132290 original size:103 final size:102
Alignment explanation
Indices: 48132061--48132290 Score: 254
Period size: 103 Copynumber: 2.2 Consensus size: 102
48132051 GTTAGGAGTG
* *
48132061 TAGGTCCACGAGCTGTTCTAGAGTAGCGAGCTTAACTCAGCTAACTCAAAAAATGAAGGTTGTAA
1 TAGGTCCACGAGCTATT-TAAAGTAGCGAGCTTAACTCAGCTAACTCAAAAAATGAAGGTTGTAA
* *
48132126 GTGTAACTCAACTAAAATTTAAACATCAGTTGGGAGCA
65 GTATAACTCAACTAAAATTTAAACATCAGTTGAGAGCA
* * ***
48132164 AAAGTCTGTGAG-TACTTTCAAAGTAGCGAGCTTAACTCAGCTAACTCAAATAAATGAAGGTTGT
1 TAGGTCCACGAGCTA-TTT-AAAGTAGCGAGCTTAACTCAGCTAACTCAAA-AAATGAAGGTTGT
**
48132228 GAA-TATAA-T-ATAGCTAACCTTTAAA-ATCAGTTGAGAGCA
63 -AAGTATAACTCA-A-CTAAAATTTAAACATCAGTTGAGAGCA
48132267 TAGGTCCACGAGCTATGTTAAAGT
1 TAGGTCCACGAGCTAT-TTAAAGT
48132291 TTATCAACTT
Statistics
Matches: 103, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
102 3 0.03
103 67 0.65
104 31 0.30
105 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (102 bp):
TAGGTCCACGAGCTATTTAAAGTAGCGAGCTTAACTCAGCTAACTCAAAAAATGAAGGTTGTAAG
TATAACTCAACTAAAATTTAAACATCAGTTGAGAGCA
Found at i:48136446 original size:42 final size:42
Alignment explanation
Indices: 48136399--48136480 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
48136389 GGGTATAAGG
* *
48136399 TTCAAACTTA-CCTTGAGGGATGTACTTCATTATGCACTCTGC
1 TTCAAACTTACCCTCG-GGGATGTACCTCATTATGCACTCTGC
48136441 TTCAAACTTACCCTCGGGGATGTACCTCATTATGCACTCT
1 TTCAAACTTACCCTCGGGGATGTACCTCATTATGCACTCT
48136481 AGTTAAGCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 33 0.89
43 4 0.11
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (42 bp):
TTCAAACTTACCCTCGGGGATGTACCTCATTATGCACTCTGC
Found at i:48160935 original size:21 final size:21
Alignment explanation
Indices: 48160910--48160960 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
48160900 GTTGAGAAGG
*
48160910 AAGTTGCTGCTGTAGAAGAAA
1 AAGTTGCTGCTGAAGAAGAAA
* *
48160931 AAGTTGTTGCTGAAGAAGAAG
1 AAGTTGCTGCTGAAGAAGAAA
48160952 AAGTTGCTG
1 AAGTTGCTG
48160961 AAAATGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.25
Consensus pattern (21 bp):
AAGTTGCTGCTGAAGAAGAAA
Found at i:48160947 original size:18 final size:18
Alignment explanation
Indices: 48160924--48160962 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
48160914 TGCTGCTGTA
**
48160924 GAAGAAAAAGTTGTTGCT
1 GAAGAAAAAGAAGTTGCT
*
48160942 GAAGAAGAAGAAGTTGCT
1 GAAGAAAAAGAAGTTGCT
48160960 GAA
1 GAA
48160963 AATGAGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.31, T:0.21
Consensus pattern (18 bp):
GAAGAAAAAGAAGTTGCT
Found at i:48161691 original size:21 final size:21
Alignment explanation
Indices: 48161666--48161707 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
48161656 ATCTTCAAGG
48161666 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
48161687 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
48161708 TTCTAATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:48161741 original size:23 final size:23
Alignment explanation
Indices: 48161678--48161743 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
48161668 ATGCAATCTT
*
48161678 AGATATGATATATGCAATCTT---
1 AGATATGATAT-TGTAATCTTAGA
*
48161699 AGATATGAT-TTCTAATCTTAGA
1 AGATATGATATTGTAATCTTAGA
48161721 AGATATGATATTGTAATCTTAGA
1 AGATATGATATTGTAATCTTAGA
48161744 GATTTAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
19 7 0.18
20 1 0.03
21 9 0.24
22 9 0.24
23 12 0.32
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (23 bp):
AGATATGATATTGTAATCTTAGA
Found at i:48167342 original size:6 final size:6
Alignment explanation
Indices: 48167287--48167325 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
48167277 TGATGATGGA
*
48167287 AAAAAG GAAAAG AAAAAG -AAAAG AAAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG AAA
48167326 GAATAAGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 5 0.17
6 19 0.66
7 5 0.17
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:48168713 original size:44 final size:44
Alignment explanation
Indices: 48168645--48168942 Score: 431
Period size: 44 Copynumber: 6.8 Consensus size: 44
48168635 TGACTCCAAC
* *
48168645 CCTATCTCCCTGGTCAGCAATGGAATAGGTTAAAGATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
48168689 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGT
* * * *
48168733 TCTATCTCCTTGGTTAGCAGTGGAATAGGTTGAATATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
* *
48168777 CCTATCTCCTTGGTCAACAGTGGAATAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
*
48168821 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGAATGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
* * *
48168865 CCTATCTACCTGGTCAGCAATGGAATAGATTGAAGATTGTGAA-T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGT
*
48168909 CCTATCTCCCTGAG-CAACAGTGGAATAGGTTGAA
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
48168943 AATAGCAAAT
Statistics
Matches: 229, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
43 2 0.01
44 222 0.97
45 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
Found at i:48169497 original size:268 final size:267
Alignment explanation
Indices: 48169020--48169633 Score: 978
Period size: 268 Copynumber: 2.3 Consensus size: 267
48169010 GTTGCAATGG
* *
48169020 AAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCTGGCATTGTAGCGGAGCAGATTGAAGCCA
1 AAAAGATTGAAGCCGCAACGGCGAATCTTATTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
* *
48169085 CGGCGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTGAAGCT
66 CGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
* *
48169150 GTGGGCAGCGAATCCTATCACTTTGGCATTACAGTGGAGCAGATTGAAACCACAACGGTGGATCT
131 GTGGGCAGCGAATCCTATCACTTTAGCATTACAGTGGAGCAGATTGAAACCACAACGGTGAATCT
* * *
48169215 TACTCCCTTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATT
196 TACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGACGGCAAATCTTGTTTCCCCAACATT
*
48169280 GCAATTTA
261 ACAA-TTA
*
48169288 AAAAGATTGAAGCCGCAACGGTGAATCTTATTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
1 AAAAGATTGAAGCCGCAACGGCGAATCTTATTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
* *
48169353 CGATGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGTAGCGGATTGAAGCT
66 CGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
* * *
48169418 GTGGGCAGCGAATCCTATCTCTTTAGCATTACAGTGGAGCAGATTGAAGCCGCAACGGTGAATCT
131 GTGGGCAGCGAATCCTATCACTTTAGCATTACAGTGGAGCAGATTGAAACCACAACGGTGAATCT
*
48169483 TACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGACGGTAAATCTTGTTTCCCCAACATT
196 TACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGACGGCAAATCTTGTTTCCCCAACATT
48169548 ACAATTA
261 ACAATTA
* * * * * * * *
48169555 AAAAGATTGAAGGCGCAATGGCAAATCTTACTCCCCTGGCAG-TGTAGTGGAACAGATTGAAGCT
1 AAAAGATTGAAGCCGCAACGGCGAATCTTATTTCCCTGGC-GTTGTAGCGGAGCAGATTGAAGCC
48169619 ACGACGGTGAATCTT
65 ACGACGGTGAATCTT
48169634 GTTTCCCTAA
Statistics
Matches: 318, Mismatches: 27, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
267 70 0.22
268 248 0.78
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (267 bp):
AAAAGATTGAAGCCGCAACGGCGAATCTTATTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
CGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
GTGGGCAGCGAATCCTATCACTTTAGCATTACAGTGGAGCAGATTGAAACCACAACGGTGAATCT
TACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGACGGCAAATCTTGTTTCCCCAACATT
ACAATTA
Found at i:48169582 original size:100 final size:100
Alignment explanation
Indices: 48169458--48169766 Score: 447
Period size: 100 Copynumber: 3.1 Consensus size: 100
48169448 ACAGTGGAGC
* *
48169458 AGATTGAAGCCGCAACGGTGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* *
48169523 CGGTAAATCTTGTTTCCCCAACATTACAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * * *
48169558 AGATTGAAGGCGCAATGGCAAATCTTACTCCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
*
48169623 CGGTGAATCTTGTTTCCCTAACATTGCAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * *
48169658 AGATTGAACCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGTTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* ** * * *
48169723 TGACGAATCTTATTTTCCCAACATTGCAATTTAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
*
48169758 AGACTGAAG
1 AGATTGAAG
48169767 ATAGCAAATC
Statistics
Matches: 184, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 184 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (100 bp):
AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
Found at i:48169712 original size:50 final size:50
Alignment explanation
Indices: 48169450--48169716 Score: 183
Period size: 50 Copynumber: 5.3 Consensus size: 50
48169440 TTAGCATTAC
* * *
48169450 AGTGGAGCAGATTGAAGCCGCAACGGTGAATCTTACTCCCCTGGCGGTGT
1 AGTGGAACAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCAGTGT
* * * ** *** * **
48169500 AGTGGAACAGATTGAAGCCACGACGGTAAATCTTGTTTCCCCAACATTAC
1 AGTGGAACAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCAGTGT
* ** * * * ** *
48169550 AATTAAAAAGATTGAAGGCGCAATGGCAAATCTTACTCCCCTGGCAGTGT
1 AGTGGAACAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCAGTGT
** * ** ** * *
48169600 AGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCTAACATTGC
1 AGTGGAACAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCAGTGT
* ** * * * *
48169650 AATTAAAAAGATTGAACCCGCAACGGCGAATCTTACTTCCCTGGCGGTGT
1 AGTGGAACAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCAGTGT
48169700 AGTGGAACAGATTGAAG
1 AGTGGAACAGATTGAAG
48169717 TTACGATGAC
Statistics
Matches: 146, Mismatches: 71, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
50 146 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (50 bp):
AGTGGAACAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCAGTGT
Found at i:48169870 original size:44 final size:43
Alignment explanation
Indices: 48169774--48170151 Score: 191
Period size: 44 Copynumber: 8.7 Consensus size: 43
48169764 AAGATAGCAA
* * * * *
48169774 ATCTTATCTCTCTGAAGTTGTAGTGGAGTAGATTAAAGCCAATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAA-G
* * *
48169818 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-AG
* * ** * *
48169862 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATT-GCATCTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAG
* * *
48169903 -TCTTATCTCCTTGAAGTTGCAGTGGAGCAGAGTAAGTAAGCAAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCAAG
* * * * * ** *
48169947 -TCTTATC-CTTCTAAAGTTACAGT-GAGGCATACTGAAGATGGCGA-
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-ACCAAG
* * *
48169991 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAA-G
* * * * *
48170035 ATCCTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAACCACTG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-AG
* * * * * * * *
48170079 ATCTTATCT-CTTTAATGTTGCAGTAGAGTAGA-TCACATC-GG
1 ATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTAAAACCAAG
* *
48170120 GTCTTATCTCCCTGAAGCTGCAGTGGAGCAGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
48170152 CTCAAGAAAA
Statistics
Matches: 254, Mismatches: 63, Indels: 37
0.72 0.18 0.10
Matches are distributed among these distances:
40 20 0.08
41 32 0.13
42 10 0.04
43 20 0.08
44 140 0.55
45 29 0.11
46 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAG
Found at i:48170788 original size:19 final size:19
Alignment explanation
Indices: 48170764--48170821 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 19
48170754 AATCTTCAAG
*
48170764 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
48170783 GATATGTAATCTTAGAAGATAT
1 GATATGTAATCTT---AGATAT
48170805 GATATTGTAATCTTAGA
1 GATA-TGTAATCTTAGA
48170822 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 12 0.35
20 3 0.09
22 10 0.29
23 9 0.26
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:48170805 original size:22 final size:23
Alignment explanation
Indices: 48170777--48170821 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
48170767 ATGCAATCTT
48170777 AGATATGATA-TGTAATCTTAGA
1 AGATATGATATTGTAATCTTAGA
48170799 AGATATGATATTGTAATCTTAGA
1 AGATATGATATTGTAATCTTAGA
48170822 GATTTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATATTGTAATCTTAGA
Found at i:48171303 original size:3 final size:3
Alignment explanation
Indices: 48171295--48171325 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
48171285 ATCTTGTATC
48171295 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
48171326 CCACGTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:48172571 original size:91 final size:91
Alignment explanation
Indices: 48172415--48172595 Score: 292
Period size: 91 Copynumber: 2.0 Consensus size: 91
48172405 CCTCGTACGT
* * * *
48172415 AACTGACTCCCGAATCCGTTTTTCTGAAACTCGTAGACCAAAGTTGTTTTTTAGGTAATCTAATC
1 AACTGACTCCCGAATCCATTTTTCTGAAACTCGTAGACCAAAATTATTTTTTAGGTAATCCAATC
48172480 A-CACCTGAATAAAAGATTGGTGGCGC
66 ATC-CCTGAATAAAAGATTGGTGGCGC
*
48172506 AACTGACTCCCGAATCCATTTTTCTGAAACTCGTAGACCAAAATTATTTTTTAGGTGATCCAATC
1 AACTGACTCCCGAATCCATTTTTCTGAAACTCGTAGACCAAAATTATTTTTTAGGTAATCCAATC
*
48172571 ATCCCTTAATAAAAGATTGGTGGCG
66 ATCCCTGAATAAAAGATTGGTGGCG
48172596 ACTCCAAATT
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
91 82 0.99
92 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (91 bp):
AACTGACTCCCGAATCCATTTTTCTGAAACTCGTAGACCAAAATTATTTTTTAGGTAATCCAATC
ATCCCTGAATAAAAGATTGGTGGCGC
Found at i:48175555 original size:19 final size:16
Alignment explanation
Indices: 48175529--48175571 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 16
48175519 ACATAAAATG
48175529 TTATTAAAAATTTATATT
1 TTATTAAAAA-TTAT-TT
*
48175547 TTAATTAAATATTATTT
1 TT-ATTAAAAATTATTT
48175564 TTATTAAA
1 TTATTAAA
48175572 TTAGATTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.26
17 4 0.17
18 6 0.26
19 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTAAAAATTATTT
Found at i:48175565 original size:17 final size:16
Alignment explanation
Indices: 48175536--48175573 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
48175526 ATGTTATTAA
48175536 AAATTTATATTTTAATT
1 AAATTTATATTTT-ATT
48175553 AAATATTAT-TTTTATT
1 AAAT-TTATATTTTATT
48175569 AAATT
1 AAATT
48175574 AGATTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 7 0.35
17 8 0.40
18 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AAATTTATATTTTATT
Found at i:48187358 original size:89 final size:89
Alignment explanation
Indices: 48187191--48187359 Score: 196
Period size: 89 Copynumber: 1.9 Consensus size: 89
48187181 TACTGGTGGC
** ** *
48187191 GAAAACAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATACCAGATCTTGCCTTCCC
1 GAAAACAGATATTGTCTTCATGTACCGGCGTGAAACAGATCAAAGATACCAGATCCTGCCTTCCC
*
48187256 ATACTGGTGGCGAAGCAGATCAAA
66 ATACTGGTAGCGAAGCAGATCAAA
* * * ** * * *
48187280 GAAAGCAGATCTTGTTTTCATGTACCGGCGTGAAACAGATCAAAGATAGTAGGTCCTGTCTTCCT
1 GAAAACAGATATTGTCTTCATGTACCGGCGTGAAACAGATCAAAGATACCAGATCCTGCCTTCCC
48187345 ATA-TCGGTAGCGAAG
66 ATACT-GGTAGCGAAG
48187360 TGGATCGAAT
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
88 1 0.02
89 64 0.98
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (89 bp):
GAAAACAGATATTGTCTTCATGTACCGGCGTGAAACAGATCAAAGATACCAGATCCTGCCTTCCC
ATACTGGTAGCGAAGCAGATCAAA
Found at i:48187621 original size:44 final size:44
Alignment explanation
Indices: 48187534--48187648 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 44
48187524 CAGTGGAATC
*
48187534 GATCGGAAAAAGCAGATCTTGTCTTCATGTATTGAAGTAAAGTA
1 GATCGGAAAAAGCAGATCTTGTCTTCATGTATGGAAGTAAAGTA
* *
48187578 GATCGGAGAAAA-CAGATCTTGTCTTCATGTACTGGCA-TGAAGTA
1 GATCGGA-AAAAGCAGATCTTGTCTTCATGTA-TGGAAGTAAAGTA
***
48187622 GATAAAAAATAAGCAGATCTTGTCTTC
1 GATCGGAAA-AAGCAGATCTTGTCTTC
48187649 CCATACTGGT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
43 2 0.03
44 38 0.62
45 21 0.34
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (44 bp):
GATCGGAAAAAGCAGATCTTGTCTTCATGTATGGAAGTAAAGTA
Found at i:48190425 original size:27 final size:27
Alignment explanation
Indices: 48190374--48190425 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
48190364 AGAATAATAA
* *
48190374 ATTTTATATACAATAAATATTTTAATT
1 ATTTTATATAAAATAAATATATTAATT
* *
48190401 ATTTTATATAAAATAACTCTATTAA
1 ATTTTATATAAAATAAATATATTAA
48190426 ATATATATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTTATATAAAATAAATATATTAATT
Found at i:48191395 original size:64 final size:64
Alignment explanation
Indices: 48191322--48191456 Score: 254
Period size: 64 Copynumber: 2.1 Consensus size: 64
48191312 ACAATATTTA
*
48191322 ATCTATTACCTTTTTGTACCAAATACAGATTTTTCATATGTATAAAGTGATTTAGTGCCGGATT
1 ATCTATTACCTTTTTGTACCAAAAACAGATTTTTCATATGTATAAAGTGATTTAGTGCCGGATT
48191386 ATCTATTACCTTTTTGTACCAAAAACAGATTTTTCATATGTATAAAGTGATTTAGTGCCGGATT
1 ATCTATTACCTTTTTGTACCAAAAACAGATTTTTCATATGTATAAAGTGATTTAGTGCCGGATT
48191450 AT-TATTA
1 ATCTATTA
48191457 TTATTATTAT
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
63 5 0.07
64 65 0.93
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (64 bp):
ATCTATTACCTTTTTGTACCAAAAACAGATTTTTCATATGTATAAAGTGATTTAGTGCCGGATT
Found at i:48191455 original size:3 final size:3
Alignment explanation
Indices: 48191447--48191491 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
48191437 TTAGTGCCGG
48191447 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48191492 TTGTTTTAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:48191913 original size:3 final size:3
Alignment explanation
Indices: 48191900--48191931 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
48191890 GTTACCATAA
*
48191900 GGT GAT GGT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
48191932 AAAATACGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.66, T:0.31
Consensus pattern (3 bp):
GGT
Found at i:48192819 original size:18 final size:18
Alignment explanation
Indices: 48192766--48192820 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 18
48192756 AATATTTTTA
*
48192766 TATTATTTAATTTTAATATAT
1 TATTTTTTAA-TTT-ATA-AT
48192787 TATTCTTTT--TTTATAAT
1 TATT-TTTTAATTTATAAT
48192804 TATTTTTTAATTTATAA
1 TATTTTTTAATTTATAA
48192821 AACTTCGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
16 4 0.13
17 6 0.20
18 10 0.33
19 3 0.10
21 4 0.13
22 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTTTTTAATTTATAAT
Found at i:48200489 original size:51 final size:51
Alignment explanation
Indices: 48200363--48200539 Score: 216
Period size: 51 Copynumber: 3.5 Consensus size: 51
48200353 AGTGAAAGTG
* * *
48200363 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * *
48200412 ATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * *
48200463 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
48200515 ATGGTCACATGTGTAGTACTATGTG
1 ATGGTCACATGTGTAGTACTATGTG
48200540 AACCGAACAT
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
49 2 0.02
50 39 0.36
51 64 0.60
52 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:48200610 original size:45 final size:45
Alignment explanation
Indices: 48200541--48200635 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
48200531 TACTATGTGA
* *
48200541 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
48200586 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
48200631 ACCGA
1 ACCGA
48200636 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:48202606 original size:16 final size:16
Alignment explanation
Indices: 48202582--48202649 Score: 75
Period size: 16 Copynumber: 4.2 Consensus size: 16
48202572 GTTAACGGAG
48202582 GTGGCGAGCTAGTGGA
1 GTGGCGAGCTAGTGGA
* *
48202598 GTGGTGAGCTAGTAGA
1 GTGGCGAGCTAGTGGA
*
48202614 GTTGGCGAGCTAGCGGA
1 G-TGGCGAGCTAGTGGA
*
48202631 GGTGGC-AGCTAGTGAA
1 -GTGGCGAGCTAGTGGA
48202647 GTG
1 GTG
48202650 ACAAGCTGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
15 3 0.07
16 23 0.53
17 16 0.37
18 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.47, T:0.21
Consensus pattern (16 bp):
GTGGCGAGCTAGTGGA
Found at i:48204538 original size:17 final size:17
Alignment explanation
Indices: 48204513--48204591 Score: 79
Period size: 17 Copynumber: 4.7 Consensus size: 17
48204503 AGTTAGCAGA
* *
48204513 GTGGTGAGCTAGTGAAG
1 GTGGCGAGCTAGCGAAG
* *
48204530 GTGGCGAGCTAGTGGAG
1 GTGGCGAGCTAGCGAAG
* *
48204547 TTGGCGAACTAGCGAAG
1 GTGGCGAGCTAGCGAAG
* *
48204564 GTGGTGAGCTAGCGGA-
1 GTGGCGAGCTAGCGAAG
48204580 GTGGCGAGCTAG
1 GTGGCGAGCTAG
48204592 AAGAGGTTGC
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
16 11 0.22
17 40 0.78
ACGTcount: A:0.22, C:0.13, G:0.47, T:0.19
Consensus pattern (17 bp):
GTGGCGAGCTAGCGAAG
Found at i:48204573 original size:34 final size:33
Alignment explanation
Indices: 48204506--48204591 Score: 100
Period size: 34 Copynumber: 2.6 Consensus size: 33
48204496 TATGGTGAGT
* * * *
48204506 TAGCAGAGTGGTGAGCTAGTGAAGGTGGCGAGC
1 TAGCGGAGTGGCGAACTAGCGAAGGTGGCGAGC
* *
48204539 TAGTGGAGTTGGCGAACTAGCGAAGGTGGTGAGC
1 TAGCGGAG-TGGCGAACTAGCGAAGGTGGCGAGC
*
48204573 TAGCGGAGTGGCGAGCTAG
1 TAGCGGAGTGGCGAACTAG
48204592 AAGAGGTTGC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 16 0.36
34 28 0.64
ACGTcount: A:0.23, C:0.13, G:0.45, T:0.19
Consensus pattern (33 bp):
TAGCGGAGTGGCGAACTAGCGAAGGTGGCGAGC
Found at i:48204609 original size:50 final size:51
Alignment explanation
Indices: 48204513--48204612 Score: 125
Period size: 50 Copynumber: 2.0 Consensus size: 51
48204503 AGTTAGCAGA
* **
48204513 GTGGTGAGCTAGTGAAGGTGGCGAGCTAGTGGAGTTGGCGAACTAGCGAAG
1 GTGGTGAGCTAGCGAAGGTGGCGAGCTAGAAGAGTTGGCGAACTAGCGAAG
*
48204564 GTGGTGAGCTAGCGGA-GTGGCGAGCTAGAAGAGGTT-GC-AAGCTAGCGAA
1 GTGGTGAGCTAGCGAAGGTGGCGAGCTAGAAGA-GTTGGCGAA-CTAGCGAA
48204613 CGCTAGCGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
49 2 0.05
50 24 0.56
51 17 0.40
ACGTcount: A:0.25, C:0.13, G:0.44, T:0.18
Consensus pattern (51 bp):
GTGGTGAGCTAGCGAAGGTGGCGAGCTAGAAGAGTTGGCGAACTAGCGAAG
Found at i:48205126 original size:23 final size:23
Alignment explanation
Indices: 48205076--48205128 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
48205066 AAAATTAGGT
48205076 GAGTTGTACAGCAAAACTTTGAC
1 GAGTTGTACAGCAAAACTTTGAC
*
48205099 TAGTTGTACAGCGAAAA-TTT-AGC
1 GAGTTGTACAGC-AAAACTTTGA-C
48205122 GAGTTGT
1 GAGTTGT
48205129 GCTTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 21 0.81
24 4 0.15
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (23 bp):
GAGTTGTACAGCAAAACTTTGAC
Found at i:48205505 original size:108 final size:107
Alignment explanation
Indices: 48205368--48205885 Score: 447
Period size: 108 Copynumber: 4.8 Consensus size: 107
48205358 AAGATTCTGG
** *
48205368 AAATCTTGTAAGTATAAGGCTGAAATCTTAAATCAGTGAGCTGCAAGATTCAAAAAATCTTGTAA
1 AAATCTTGTAAGTATAAGGCTGCGATCTTAAAT-AG-GAACTGCAAGATTCAAAAAATCTTGTAA
* * *
48205433 GTATAAGGTTGCGATCTTAAATTGGA-GAGCCATAGGATT-TAGA
64 GTATAAGGTTGCGATCTTAAATTGGACGAGCCACAAGATTCGA-A
* * * * ** *
48205476 AAATCTTATAAGTATAAGGTTGCGGTCTTAAATTGGCAAACCACAA-ATTCAGAAAATCTTGTAA
1 AAATCTTGTAAGTATAAGGCTGCGATCTTAAATAGG--AACTGCAAGATTCAAAAAATCTTGTAA
* * * * *
48205540 GTATAAGGCTACGATCTTAAATT-GACGAGTCGCAAGATTTGAA
64 GTATAAGGTTGCGATCTTAAATTGGACGAGCCACAAGATTCGAA
** * * * *
48205583 AAATCTTGTATCTATAAGGGTGTGATCATAAATTGGCAACTTGCAAGATTCAAAAAATCTTGTAA
1 AAATCTTGTAAGTATAAGGCTGCGATCTTAAATAGG-AAC-TGCAAGATTCAAAAAATCTTGTAA
* * * * *
48205648 GTATAAGGCTT-TGATATTAAA-TCGACAAGCTACAAGATTCGAA
64 GTATAAGG-TTGCGATCTTAAATTGGACGAGCCACAAGATTCGAA
* * * * * *
48205691 AAATCTTGTAAGTATAAGGTTGTGATCTTAAATAGGAAAATTGTAGGATTCAAAAAATCTTATAA
1 AAATCTTGTAAGTATAAGGCTGCGATCTTAAATAGG--AACTGCAAGATTCAAAAAATCTTGTAA
* * * *
48205756 GTATAAGGTTGCAATTTTAAATTGG-CAAGCCGCAAGATTCGAA
64 GTATAAGGTTGCGATCTTAAATTGGACGAGCCACAAGATTCGAA
* * * * * *
48205799 AAATCTTTTAAGTATAAAGCTACGATCTTAAATCGGCGACTGTCGAGATTCAAAAAATCTTGTAA
1 AAATCTTGTAAGTATAAGGCTGCGATCTTAAATAGG-AACTG-CAAGATTCAAAAAATCTTGTAA
** *
48205864 GTATAAGACTGCAATCTTAAAT
64 GTATAAGGTTGCGATCTTAAAT
48205886 CGATGAGCCA
Statistics
Matches: 330, Mismatches: 68, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
106 6 0.02
107 87 0.26
108 232 0.70
109 5 0.02
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (107 bp):
AAATCTTGTAAGTATAAGGCTGCGATCTTAAATAGGAACTGCAAGATTCAAAAAATCTTGTAAGT
ATAAGGTTGCGATCTTAAATTGGACGAGCCACAAGATTCGAA
Found at i:48205887 original size:54 final size:54
Alignment explanation
Indices: 48205351--48205885 Score: 385
Period size: 54 Copynumber: 9.9 Consensus size: 54
48205341 CTTAAACCGA
*** ** *
48205351 CAACTG-CAAGATTCTGGAAATCTTGTAAGTATAAGGCTGAAATCTTAAATCAGTG
1 CAACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAAT-TG-G
* *
48205406 -AGCTG-CAAGATTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGG
1 CAACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATTGG
* * * * * *
48205458 -AGA--GCCATAGGATTTAGAAAATCTTATAAGTATAAGGTTGCGGTCTTAAATTGG
1 CA-ACTGTCA-A-GATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATTGG
** * * *
48205512 CAAAC-CACAA-ATTCAGAAAATCTTGTAAGTATAAGGCTACGATCTTAAATTGA
1 C-AACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATTGG
* * ** ** * * *
48205565 CGAGTCG-CAAGATTTGAAAAATCTTGTATCTATAAGGGTGTGATCATAAATTGG
1 CAACT-GTCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATTGG
** * * *
48205619 CAACT-TGCAAGATTCAAAAAATCTTGTAAGTATAAGGCTTTGATATTAAATCGA
1 CAACTGT-CAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATTGG
* * * * *
48205673 CAAGCT-ACAAGATTCGAAAAATCTTGTAAGTATAAGGTTGTGATCTTAAATAGG
1 CAA-CTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATTGG
* * * * * * *
48205727 AAAATTGT-AGGATTCAAAAAATCTTATAAGTATAAGGTTGCAATTTTAAATTGG
1 -CAACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATTGG
* * * * * *
48205781 CAAGCCG-CAAGATTCGAAAAATCTTTTAAGTATAAAGCTACGATCTTAAATCGG
1 CAA-CTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATTGG
* * * *
48205835 CGACTGTCGAGATTCAAAAAATCTTGTAAGTATAAGACTGCAATCTTAAAT
1 CAACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAAT
48205886 CGATGAGCCA
Statistics
Matches: 378, Mismatches: 84, Indels: 37
0.76 0.17 0.07
Matches are distributed among these distances:
51 1 0.00
52 5 0.01
53 47 0.12
54 316 0.84
55 6 0.02
56 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.30
Consensus pattern (54 bp):
CAACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATTGG
Found at i:48206036 original size:29 final size:28
Alignment explanation
Indices: 48206003--48206084 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 28
48205993 GTAAGTAGCT
* *
48206003 AATTGAGCGAAGAAGAAAACCATGGAGTG
1 AATTGAG-GAAGGAGAAAATCATGGAGTG
48206032 AATTGAGGGAAGGAGAAAATCATGGAGTG
1 AATTGA-GGAAGGAGAAAATCATGGAGTG
48206061 AATTGAGGAAAGGAGAAAATCATG
1 AATTGAGG-AAGGAGAAAATCATG
48206085 CCATTTTCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.04
29 46 0.94
30 1 0.02
ACGTcount: A:0.45, C:0.06, G:0.33, T:0.16
Consensus pattern (28 bp):
AATTGAGGAAGGAGAAAATCATGGAGTG
Found at i:48207230 original size:17 final size:16
Alignment explanation
Indices: 48207206--48207249 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
48207196 GATAATAATG
48207206 AAAATGAAAATAAATA
1 AAAATGAAAATAAATA
* *
48207222 AATAATGAATATAATTA
1 AA-AATGAAAATAAATA
48207239 AAAATGTAAAA
1 AAAATG-AAAA
48207250 AGATATATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (16 bp):
AAAATGAAAATAAATA
Found at i:48207522 original size:3 final size:3
Alignment explanation
Indices: 48207514--48207547 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
48207504 AAGATGAAAC
*
48207514 TAA TAA TAA TTAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
48207548 CACTAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Done.