Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold247
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: 4737410
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 17 of 29
Found at i:2569555 original size:33 final size:32
Alignment explanation
Indices: 2569494--2569561 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
2569484 CCTTAACTGT
2569494 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
2569526 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
2569559 TTG
1 TTG
2569562 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 17 0.50
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:2571137 original size:13 final size:13
Alignment explanation
Indices: 2571119--2571144 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2571109 CAATTTTTTG
2571119 TGTATCGATACAT
1 TGTATCGATACAT
2571132 TGTATCGATACAT
1 TGTATCGATACAT
2571145 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2571229 original size:20 final size:20
Alignment explanation
Indices: 2571204--2571276 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2571194 CAACTTTTTT
2571204 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2571224 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2571245 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2571265 ATGTATCGATAC
1 ATGTATCGATAC
2571277 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2571242 original size:41 final size:41
Alignment explanation
Indices: 2571183--2571276 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2571173 CTGCCAAGAA
*
2571183 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
2571224 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
2571265 ATGTATCGATAC
1 ATGTATCGATAC
2571277 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:2571258 original size:21 final size:21
Alignment explanation
Indices: 2571183--2571258 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2571173 CTGCCAAGAA
* *
2571183 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2571204 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2571224 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2571245 ATGTATCGATACAT
1 ATGTATCGATACAT
2571259 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2573741 original size:13 final size:13
Alignment explanation
Indices: 2573723--2573761 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2573713 ATAATCACCC
*
2573723 TGTATCGATACAG
1 TGTATCGATACAA
2573736 TGTATCGATACAA
1 TGTATCGATACAA
2573749 TGTATCGATACAA
1 TGTATCGATACAA
2573762 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2573772 original size:20 final size:20
Alignment explanation
Indices: 2573747--2573825 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
2573737 GTATCGATAC
2573747 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
2573767 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
2573792 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
2573812 CATGTATCGATACA
1 AATGTATCGATACA
2573826 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:2575863 original size:15 final size:15
Alignment explanation
Indices: 2575843--2575873 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2575833 ATTTCGTTTG
*
2575843 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2575858 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2575873 G
1 G
2575874 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2579953 original size:13 final size:13
Alignment explanation
Indices: 2579935--2579960 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2579925 CAATTTTTTG
2579935 TGTATCGATACAT
1 TGTATCGATACAT
2579948 TGTATCGATACAT
1 TGTATCGATACAT
2579961 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2580045 original size:20 final size:20
Alignment explanation
Indices: 2580020--2580092 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2580010 CAACTTTTTT
2580020 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2580040 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2580061 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2580081 ATGTATCGATAC
1 ATGTATCGATAC
2580093 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2580058 original size:41 final size:41
Alignment explanation
Indices: 2579999--2580092 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2579989 CTGCCAAGAA
*
2579999 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
2580040 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
2580081 ATGTATCGATAC
1 ATGTATCGATAC
2580093 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:2580074 original size:21 final size:21
Alignment explanation
Indices: 2579999--2580074 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2579989 CTGCCAAGAA
* *
2579999 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2580020 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2580040 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2580061 ATGTATCGATACAT
1 ATGTATCGATACAT
2580075 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2581494 original size:19 final size:20
Alignment explanation
Indices: 2581472--2581509 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
2581462 TTTAATTTTT
*
2581472 AAAATTAATAAAA-TAAATC
1 AAAACTAATAAAATTAAATC
*
2581491 AAAACTATTAAAATTAAAT
1 AAAACTAATAAAATTAAAT
2581510 TTATTTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAACTAATAAAATTAAATC
Found at i:2581514 original size:15 final size:15
Alignment explanation
Indices: 2581496--2581548 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
2581486 AAATCAAAAC
2581496 TATTAAAATTAAATT
1 TATTAAAATTAAATT
* *
2581511 TATTTAAATTAAACT
1 TATTAAAATTAAATT
**
2581526 TAAAAAAATTTAAACTT
1 TATTAAAA-TTAAA-TT
2581543 TATTAA
1 TATTAA
2581549 TCTAATTTTT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 18 0.64
16 5 0.18
17 5 0.18
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (15 bp):
TATTAAAATTAAATT
Found at i:2582150 original size:30 final size:32
Alignment explanation
Indices: 2582115--2582188 Score: 107
Period size: 30 Copynumber: 2.4 Consensus size: 32
2582105 AAAATAACAA
*
2582115 TAAATTTAAAATAATTTATATA-AAAA-AATT
1 TAAATTTAAAATAATTTAGATACAAAATAATT
*
2582145 TAAATTTAAATTAATTTAGATACAAAATAATT
1 TAAATTTAAAATAATTTAGATACAAAATAATT
*
2582177 TAAAATTAAAAT
1 TAAATTTAAAAT
2582189 TAATCTAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 20 0.53
31 4 0.11
32 14 0.37
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (32 bp):
TAAATTTAAAATAATTTAGATACAAAATAATT
Found at i:2582154 original size:16 final size:16
Alignment explanation
Indices: 2582115--2582201 Score: 79
Period size: 16 Copynumber: 5.5 Consensus size: 16
2582105 AAAATAACAA
2582115 TAAATTTAAAATAATT
1 TAAATTTAAAATAATT
* *
2582131 T--ATATAAAAAAATT
1 TAAATTTAAAATAATT
*
2582145 TAAATTTAAATTAATT
1 TAAATTTAAAATAATT
* **
2582161 TAGATACAAAATAATT
1 TAAATTTAAAATAATT
* *
2582177 TAAAATTAAAATTAATC
1 TAAATTTAAAA-TAATT
2582194 TAAATTTA
1 TAAATTTA
2582202 TTCTACCTAA
Statistics
Matches: 53, Mismatches: 15, Indels: 5
0.73 0.21 0.07
Matches are distributed among these distances:
14 12 0.23
16 30 0.57
17 11 0.21
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (16 bp):
TAAATTTAAAATAATT
Found at i:2583047 original size:28 final size:30
Alignment explanation
Indices: 2583027--2583095 Score: 54
Period size: 29 Copynumber: 2.3 Consensus size: 30
2583017 ATATAATTAA
* *
2583027 TATATATTTTTAA-ATTT-AATAAAAATAA
1 TATATATTTTTAATATTTAAATATAATTAA
* *
2583055 TATATTATATATAATATTTAAATGATAATTAA
1 TATA-TATTTTTAATATTTAAAT-ATAATTAA
*
2583087 -ATAAATTTT
1 TATATATTTT
2583096 CGTTAAGTCA
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
28 4 0.13
29 7 0.23
30 7 0.23
31 6 0.20
32 6 0.20
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (30 bp):
TATATATTTTTAATATTTAAATATAATTAA
Found at i:2583050 original size:36 final size:35
Alignment explanation
Indices: 2583005--2583077 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 35
2582995 TTAAAATAAT
*
2583005 ATTTATAAAAA-AATATAATTA-ATATATATTTTTAA
1 ATTTATAAAAATAATAT-ATTATATATA-ATATTTAA
2583040 ATTTAATAAAAATAATATATTATATATAATATTTAA
1 ATTT-ATAAAAATAATATATTATATATAATATTTAA
2583076 AT
1 AT
2583078 GATAATTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
35 4 0.12
36 20 0.59
37 10 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (35 bp):
ATTTATAAAAATAATATATTATATATAATATTTAA
Found at i:2583654 original size:23 final size:25
Alignment explanation
Indices: 2583611--2583684 Score: 62
Period size: 27 Copynumber: 2.8 Consensus size: 25
2583601 ATATTAAAAG
2583611 ATAAA-AATATTTAATATTAATATTT
1 ATAAATAA-ATTTAATATTAATATTT
**
2583636 ATAAATAAATTTAAATAATTTTTATTAT
1 ATAAATAAATTT-AAT-ATTAATATT-T
2583664 ATAAATAATAATTTAA-ATTAA
1 ATAAAT-A-AATTTAATATTAA
2583685 AATAATTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
25 9 0.23
26 5 0.13
27 10 0.26
28 7 0.18
29 3 0.08
30 5 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATAAATAAATTTAATATTAATATTT
Found at i:2588407 original size:156 final size:157
Alignment explanation
Indices: 2588117--2588505 Score: 431
Period size: 156 Copynumber: 2.5 Consensus size: 157
2588107 CAAAGATGGT
* * * * * *
2588117 AAGAATGTCAAATGTACTGATTTAAGGCCATCGA-CATTGGACTTAAAAGATGACAAAAAAATGC
1 AAGAATGCCAAATGTGCTGATTCAAGGCCAAC-ACCATTGGACTT-AAAGATG--ATAAGAATGC
* ** * * * * *
2588181 CAATAGGCTGTTTCACGACCAACGATATTGGTTTTAAAGATGACGAAGGTATCAATGTGTTGATT
62 CAATATGCTGACTCACGACCAACAATATTGGTCTTAAAGATGACGAAGGTACCAATGTGCTAATT
* ** * *
2588246 TAAGGCCAGTGACATTGGACTTAAGGA-AAA
127 CAAGGCCAACGACATTAGACTCAAGGATAAA
*
2588276 AAGAATGCCAAATGTGCTGATTCAAGGCTAACACCATTGGACTTAAAGATGATAAGAATGCCAAT
1 AAGAATGCCAAATGTGCTGATTCAAGGCCAACACCATTGGACTTAAAGATGATAAGAATGCCAAT
* * **
2588341 ATACTGACTCATGACCAACAATATTGGTCTTAAAGATGGTGAAGGTACCAATGTGCTAATTCAAG
66 ATGCTGACTCACGACCAACAATATTGGTCTTAAAGATGACGAAGGTACCAATGTGCTAATTCAAG
* *
2588406 GCTAACGACATTAGACTCAAGGATGAA
131 GCCAACGACATTAGACTCAAGGATAAA
* * * * * *
2588433 GAGAATGCTAAATATGCTGATTCAAGGCCAACGCTATTGGACTTAGAGATGATAAGAATGCCAAA
1 AAGAATGCCAAATGTGCTGATTCAAGGCCAACACCATTGGACTTAAAGATGATAAGAATGCC-AA
2588498 TATGCTGA
65 TATGCTGA
2588506 TTCAAGGCCA
Statistics
Matches: 193, Mismatches: 34, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
156 82 0.42
157 57 0.30
158 17 0.09
159 37 0.19
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (157 bp):
AAGAATGCCAAATGTGCTGATTCAAGGCCAACACCATTGGACTTAAAGATGATAAGAATGCCAAT
ATGCTGACTCACGACCAACAATATTGGTCTTAAAGATGACGAAGGTACCAATGTGCTAATTCAAG
GCCAACGACATTAGACTCAAGGATAAA
Found at i:2588491 original size:53 final size:53
Alignment explanation
Indices: 2588259--2588516 Score: 231
Period size: 52 Copynumber: 4.9 Consensus size: 53
2588249 GGCCAGTGAC
* * * * * *
2588259 ATTGGACTTAAGGA-AAAAAGAATGCCAAATGTGCTGATTCAAGGCTAACACC
1 ATTGGACTTAAAGATGATAAGAATGCCAAATATGCTGATTCAAGGCCAACACT
* * * * *
2588311 ATTGGACTTAAAGATGATAAGAATGCC-AATATACTGACTCATGACCAACAAT
1 ATTGGACTTAAAGATGATAAGAATGCCAAATATGCTGATTCAAGGCCAACACT
* * * * * * *
2588363 ATTGGTCTTAAAGATGGTGAAG-GTACC-AATGTGCTAATTCAAGGCTAACGAC-
1 ATTGGACTTAAAGATGAT-AAGAATGCCAAATATGCTGATTCAAGGCCAAC-ACT
* * * * *
2588415 ATTAGACTCAAGGATGA-AGAGAATGCTAAATATGCTGATTCAAGGCCAACGCT
1 ATTGGACTTAAAGATGATA-AGAATGCCAAATATGCTGATTCAAGGCCAACACT
*
2588468 ATTGGACTTAGAGATGATAAGAATGCCAAATATGCTGATTCAAGGCCAA
1 ATTGGACTTAAAGATGATAAGAATGCCAAATATGCTGATTCAAGGCCAA
2588517 TGACATTAGT
Statistics
Matches: 158, Mismatches: 40, Indels: 15
0.74 0.19 0.07
Matches are distributed among these distances:
50 1 0.01
51 2 0.01
52 79 0.50
53 75 0.47
54 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (53 bp):
ATTGGACTTAAAGATGATAAGAATGCCAAATATGCTGATTCAAGGCCAACACT
Found at i:2588966 original size:33 final size:33
Alignment explanation
Indices: 2588764--2588995 Score: 175
Period size: 33 Copynumber: 7.0 Consensus size: 33
2588754 GAAGGAAATG
* *
2588764 CCACCAACTTATGTGGGCTTTTG-ATAAGGTTA
1 CCACCAACTTGTGTGGGCTTTTGAAAAAGGTTA
* * *
2588796 CCACTAACTTATGTGGGC-TTTGAAGAAGGTTA
1 CCACCAACTTGTGTGGGCTTTTGAAAAAGGTTA
* * * * *
2588828 CTACCAGCTTGTGTGGGCTTTGGAAAAAAGTTG
1 CCACCAACTTGTGTGGGCTTTTGAAAAAGGTTA
* ** * *
2588861 CTACCAACTTGCATGGGCTTTTGAAAGAAAAGGATG
1 CCACCAACTTGTGTGGGCTTTTG--A-AAAAGGTTA
** * *
2588897 CCACTGACTTGTG-GGG-TTTTAGAGGGAAAGGCTA
1 CCACCAACTTGTGTGGGCTTTT-GA--AAAAGGTTA
*
2588931 CCACCAACTTGTGTGGGCTGTTGAAAAAGGTTA
1 CCACCAACTTGTGTGGGCTTTTGAAAAAGGTTA
* * *
2588964 CCACTAACCTGTGTGGGCTTTTGAGAAAGGTT
1 CCACCAACTTGTGTGGGCTTTTGAAAAAGGTT
2588996 TCTCCACTAG
Statistics
Matches: 158, Mismatches: 33, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
31 4 0.03
32 39 0.25
33 65 0.41
34 22 0.14
35 10 0.06
36 18 0.11
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (33 bp):
CCACCAACTTGTGTGGGCTTTTGAAAAAGGTTA
Found at i:2589237 original size:26 final size:26
Alignment explanation
Indices: 2589208--2589263 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
2589198 ATGACTCATA
*
2589208 TTGACAATAATTTCGTGACAAAAGTT-
1 TTGACAA-AAGTTCGTGACAAAAGTTC
* *
2589234 TTGACAAACGTTCTTGACAAAAGTTC
1 TTGACAAAAGTTCGTGACAAAAGTTC
2589260 TTGA
1 TTGA
2589264 TGACAACCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (26 bp):
TTGACAAAAGTTCGTGACAAAAGTTC
Found at i:2589252 original size:13 final size:13
Alignment explanation
Indices: 2589208--2589263 Score: 69
Period size: 13 Copynumber: 4.3 Consensus size: 13
2589198 ATGACTCATA
*
2589208 TTGACAATAATTTC
1 TTGACAA-AAGTTC
*
2589222 GTGACAAAAGTT-
1 TTGACAAAAGTTC
*
2589234 TTGACAAACGTTC
1 TTGACAAAAGTTC
2589247 TTGACAAAAGTTC
1 TTGACAAAAGTTC
2589260 TTGA
1 TTGA
2589264 TGACAACCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
12 10 0.28
13 20 0.56
14 6 0.17
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (13 bp):
TTGACAAAAGTTC
Found at i:2589727 original size:21 final size:21
Alignment explanation
Indices: 2589703--2589758 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
2589693 GACATGGTTT
2589703 TGTATCGATACATTTGAGACA
1 TGTATCGATACATTTGAGACA
*
2589724 TGTATCGATACATTTGAGATA
1 TGTATCGATACATTTGAGACA
*
2589745 TGTATTGATACATT
1 TGTATCGATACATT
2589759 CACTTATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTTGAGACA
Found at i:2589768 original size:20 final size:20
Alignment explanation
Indices: 2589743--2589782 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2589733 ACATTTGAGA
*
2589743 TATGTATTGATACATTCACT
1 TATGTATTAATACATTCACT
*
2589763 TATGTATTAATATATTCACT
1 TATGTATTAATACATTCACT
2589783 AATTATATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.47
Consensus pattern (20 bp):
TATGTATTAATACATTCACT
Found at i:2593056 original size:15 final size:15
Alignment explanation
Indices: 2593036--2593065 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2593026 TTATTCAAGA
2593036 AATGTATCGACACAT
1 AATGTATCGACACAT
2593051 AATGTATCGACACAT
1 AATGTATCGACACAT
2593066 TTAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (15 bp):
AATGTATCGACACAT
Found at i:2593472 original size:17 final size:16
Alignment explanation
Indices: 2593443--2593480 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
2593433 ATTTTATTAA
2593443 AAAAT-TTAAAAATAT
1 AAAATATTAAAAATAT
*
2593458 AAAATATTAATAAATTT
1 AAAATATTAA-AAATAT
2593475 AAAATA
1 AAAATA
2593481 ACATATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 4 0.20
17 11 0.55
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATATTAAAAATAT
Found at i:2594998 original size:135 final size:134
Alignment explanation
Indices: 2594756--2595029 Score: 478
Period size: 135 Copynumber: 2.0 Consensus size: 134
2594746 CTTATACCTC
* * *
2594756 TCTAATTTTTGTTTACTTTCAAGTTTATGAGAACAATTCACTAACCATTACTTAAAGAGGACATC
1 TCTAATCTTTGTTTACTTTCAAGTTTACGAGAACAATTCACTAACCATTACTCAAAGAGGACATC
*
2594821 AACAAAACTTAACTTGGTTAAGAGTTATATATAGAATTATTACAAAAAAAAATGTATTCAAAAGA
66 AACAAAACTTAACTTGGTTAAGAGTTATATATAAAATTATTACAAAAAAAAA-GTATTCAAAAGA
2594886 ATAAT
130 ATAAT
* *
2594891 TCTAATCTTTGTTTACTTTCAAGTTTACGAGAACAATTCTCTAACCATTACTCAAGGAGGACATC
1 TCTAATCTTTGTTTACTTTCAAGTTTACGAGAACAATTCACTAACCATTACTCAAAGAGGACATC
2594956 AACAAAACTTAACTTGGTTAAGAGTTATATATAAAATTATTACAAAAAAAAAGTATTCAAAAGAA
66 AACAAAACTTAACTTGGTTAAGAGTTATATATAAAATTATTACAAAAAAAAAGTATTCAAAAGAA
2595021 TAAT
131 TAAT
2595025 T-TAAT
1 TCTAAT
2595030 ATAATTAAAA
Statistics
Matches: 133, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
133 4 0.03
134 18 0.14
135 111 0.83
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (134 bp):
TCTAATCTTTGTTTACTTTCAAGTTTACGAGAACAATTCACTAACCATTACTCAAAGAGGACATC
AACAAAACTTAACTTGGTTAAGAGTTATATATAAAATTATTACAAAAAAAAAGTATTCAAAAGAA
TAAT
Found at i:2595819 original size:26 final size:26
Alignment explanation
Indices: 2595767--2595819 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
2595757 ATAAAGTACA
* * *
2595767 ATTAAAAATATTATTTAAAAAATAAT
1 ATTAAAAATATTACTCAAAAAAAAAT
2595793 ATTAAAAA-ATTACTCAAAATAAAAAT
1 ATTAAAAATATTACTCAAAA-AAAAAT
2595819 A
1 A
2595820 AAAATAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (26 bp):
ATTAAAAATATTACTCAAAAAAAAAT
Found at i:2598477 original size:19 final size:18
Alignment explanation
Indices: 2598455--2598518 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
2598445 AGAAAACCAG
*
2598455 AAAAAAAAAGGAAAAAGA
1 AAAAAAAAAAGAAAAAGA
*
2598473 AAAAAAGAAAGAAATAAGA
1 AAAAAAAAAAGAAA-AAGA
* *
2598492 AAGATAATAAAGAAAAAGA
1 AA-AAAAAAAAGAAAAAGA
2598511 AAAGAAAA
1 AAA-AAAA
2598519 GAGAGGGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 13 0.35
19 14 0.38
20 10 0.27
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (18 bp):
AAAAAAAAAAGAAAAAGA
Found at i:2599386 original size:29 final size:29
Alignment explanation
Indices: 2599327--2599389 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
2599317 GATTACTATA
2599327 AATTTCATACATTATAGGTACTATTATGT
1 AATTTCATACATTATAGGTACTATTATGT
* * *
2599356 AATTTCATGCATTCTA-GTACTATTTTAGT
1 AATTTCATACATTATAGGTACTATTAT-GT
2599385 AATTT
1 AATTT
2599390 TACATGACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.48
Consensus pattern (29 bp):
AATTTCATACATTATAGGTACTATTATGT
Found at i:2599969 original size:39 final size:39
Alignment explanation
Indices: 2599891--2599970 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 39
2599881 TTTTAAGCTC
* * * *
2599891 ATGTGAGAACTTTTGTGTCGATACATGTTTATTAAGGTT
1 ATGTGAGAACTTTTGCGTCAAAACATGTCTATTAAGGTT
* *
2599930 ATGTGAGAAAC-TTTGCGTCAAAACATGTCTCTTAGGGTT
1 ATGTGAG-AACTTTTGCGTCAAAACATGTCTATTAAGGTT
2599969 AT
1 AT
2599971 TTTAGTAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 31 0.91
40 3 0.09
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.39
Consensus pattern (39 bp):
ATGTGAGAACTTTTGCGTCAAAACATGTCTATTAAGGTT
Found at i:2608028 original size:16 final size:16
Alignment explanation
Indices: 2608009--2608042 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
2607999 AAAAGAAAAT
2608009 AAAA-AGAAAAAAGTGA
1 AAAATAGAAAAAA-TGA
2608025 AAAATAGAAAAAATGA
1 AAAATAGAAAAAATGA
2608041 AA
1 AA
2608043 CTCTAAGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (16 bp):
AAAATAGAAAAAATGA
Found at i:2609195 original size:20 final size:21
Alignment explanation
Indices: 2609170--2609209 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2609160 TTGTATCGAT
2609170 ACAAA-TATATCGATACATGG
1 ACAAATTATATCGATACATGG
*
2609190 ACAAATTGTATCGATACATG
1 ACAAATTATATCGATACATG
2609210 AAATTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (21 bp):
ACAAATTATATCGATACATGG
Found at i:2609275 original size:13 final size:13
Alignment explanation
Indices: 2609254--2609317 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 13
2609244 CGATACATGG
*
2609254 TACAATGTATCGA
1 TACATTGTATCGA
2609267 TACATTGTATCGA
1 TACATTGTATCGA
*
2609280 TACA-TG-A-AGA
1 TACATTGTATCGA
2609290 -A-A-TGTATCGA
1 TACATTGTATCGA
2609300 TACATTGTATCGA
1 TACATTGTATCGA
2609313 TACAT
1 TACAT
2609318 GAAGAAATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
8 3 0.07
9 2 0.05
10 4 0.09
11 2 0.05
12 3 0.07
13 29 0.67
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2609280 original size:33 final size:32
Alignment explanation
Indices: 2609238--2609337 Score: 157
Period size: 33 Copynumber: 3.0 Consensus size: 32
2609228 CTATCACTAT
2609238 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
2609271 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
2609304 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
2609337 T
1 T
2609338 AGCTTGTAAC
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
33 63 0.97
34 1 0.02
35 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:2609297 original size:20 final size:20
Alignment explanation
Indices: 2609272--2609337 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
2609262 ATCGATACAT
2609272 TGTATCGATACATGAAGAAA
1 TGTATCGATACATGAAGAAA
2609292 TGTATCGATACAT-------
1 TGTATCGATACATGAAGAAA
2609305 TGTATCGATACATGAAGAAA
1 TGTATCGATACATGAAGAAA
2609325 TGTATCGATACAT
1 TGTATCGATACAT
2609338 AGCTTGTAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.33
20 26 0.67
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAA
Found at i:2609728 original size:43 final size:43
Alignment explanation
Indices: 2609676--2609767 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
2609666 AATAAATTTT
*
2609676 TTTTTACATAAAGAGGGAAAAGATAATTGTTTCAGGGGGAGAA
1 TTTTTACATAAAGAGGGAAAAGATAATTGTTTAAGGGGGAGAA
* *
2609719 TTTTTACATAAAGGGGGAGAAGATAATTGTTTAAGGGGGAGAA
1 TTTTTACATAAAGAGGGAAAAGATAATTGTTTAAGGGGGAGAA
2609762 TTTTTA
1 TTTTTA
2609768 AGGGGAGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (43 bp):
TTTTTACATAAAGAGGGAAAAGATAATTGTTTAAGGGGGAGAA
Found at i:2609774 original size:15 final size:17
Alignment explanation
Indices: 2609743--2609776 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
2609733 GGGAGAAGAT
2609743 AATTGTTTAAGGGGGAG
1 AATTGTTTAAGGGGGAG
2609760 AATT-TTTAA-GGGGAG
1 AATTGTTTAAGGGGGAG
2609775 AA
1 AA
2609777 AAACGAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 5 0.29
17 4 0.24
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (17 bp):
AATTGTTTAAGGGGGAG
Found at i:2610349 original size:20 final size:21
Alignment explanation
Indices: 2610324--2610363 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2610314 TTGTATCGAT
2610324 ACAAA-TATATCGATACATGG
1 ACAAATTATATCGATACATGG
*
2610344 ACAAATTGTATCGATACATG
1 ACAAATTATATCGATACATG
2610364 AAATTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (21 bp):
ACAAATTATATCGATACATGG
Found at i:2610429 original size:13 final size:13
Alignment explanation
Indices: 2610408--2610471 Score: 59
Period size: 13 Copynumber: 5.4 Consensus size: 13
2610398 CGATACATGG
*
2610408 TACAATGTATCGA
1 TACATTGTATCGA
2610421 TACATTGTATCGA
1 TACATTGTATCGA
*
2610434 TACA-TG-A-AGA
1 TACATTGTATCGA
2610444 -A-A-TGTATCGA
1 TACATTGTATCGA
*
2610454 TACATTATATCGA
1 TACATTGTATCGA
2610467 TACAT
1 TACAT
2610472 GAAGAAATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 3 0.07
9 2 0.05
10 4 0.10
11 2 0.05
12 3 0.07
13 28 0.67
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2610434 original size:33 final size:32
Alignment explanation
Indices: 2610392--2610491 Score: 148
Period size: 33 Copynumber: 3.0 Consensus size: 32
2610382 CTATCACTAT
2610392 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
2610425 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
*
2610458 TTATATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
2610491 T
1 T
2610492 AGCTTGTAAT
Statistics
Matches: 64, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
33 62 0.97
34 1 0.02
35 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:2610451 original size:20 final size:20
Alignment explanation
Indices: 2610426--2610491 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
2610416 ATCGATACAT
2610426 TGTATCGATACATGAAGAAA
1 TGTATCGATACATGAAGAAA
2610446 TGTATCGATACAT-------
1 TGTATCGATACATGAAGAAA
*
2610459 TATATCGATACATGAAGAAA
1 TGTATCGATACATGAAGAAA
2610479 TGTATCGATACAT
1 TGTATCGATACAT
2610492 AGCTTGTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 12 0.32
20 25 0.68
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAA
Found at i:2618527 original size:15 final size:15
Alignment explanation
Indices: 2618507--2618535 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2618497 ATTGTTTCAG
2618507 GGGGAGAATTTTTAA
1 GGGGAGAATTTTTAA
2618522 GGGGAGAATTTTTA
1 GGGGAGAATTTTTA
2618536 CATAAAGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (15 bp):
GGGGAGAATTTTTAA
Found at i:2618539 original size:58 final size:58
Alignment explanation
Indices: 2618472--2618587 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
2618462 AAATAATTTT
*
2618472 TTTTTACATAAAGGGGGAGAAGATAATTGTTTCAGGGGGAGAATTTTTAAGGGGAGAA
1 TTTTTACATAAAGGGGGAGAAGATAATTGTTTAAGGGGGAGAATTTTTAAGGGGAGAA
2618530 TTTTTACATAAAGGGGGAGAAGATAATTGTTTAAGGGGGAGAATTTTTAAGGGGAGAA
1 TTTTTACATAAAGGGGGAGAAGATAATTGTTTAAGGGGGAGAATTTTTAAGGGGAGAA
2618588 AAACGAAAAC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.35, C:0.03, G:0.33, T:0.29
Consensus pattern (58 bp):
TTTTTACATAAAGGGGGAGAAGATAATTGTTTAAGGGGGAGAATTTTTAAGGGGAGAA
Found at i:2618585 original size:15 final size:17
Alignment explanation
Indices: 2618496--2618587 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 17
2618486 GGGAGAAGAT
*
2618496 AATTGTTTCAGGGGGAG
1 AATTGTTTAAGGGGGAG
2618513 AATT-TTTAA-GGGGAG
1 AATTGTTTAAGGGGGAG
*
2618528 AATTTTTACATAAAGGGGGAGAAG
1 AATTGTT---T-AA-GGGG-G-AG
2618552 ATAATTGTTTAAGGGGGAG
1 --AATTGTTTAAGGGGGAG
2618571 AATT-TTTAA-GGGGAG
1 AATTGTTTAAGGGGGAG
2618586 AA
1 AA
2618588 AAACGAAAAC
Statistics
Matches: 62, Mismatches: 2, Indels: 24
0.70 0.02 0.27
Matches are distributed among these distances:
15 18 0.29
16 11 0.18
17 8 0.13
19 3 0.05
20 3 0.05
21 4 0.06
22 5 0.08
23 2 0.03
24 2 0.03
26 6 0.10
ACGTcount: A:0.35, C:0.02, G:0.34, T:0.29
Consensus pattern (17 bp):
AATTGTTTAAGGGGGAG
Found at i:2619163 original size:13 final size:13
Alignment explanation
Indices: 2619145--2619170 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2619135 ACATGTTCAA
2619145 TGTATCGATACAT
1 TGTATCGATACAT
2619158 TGTATCGATACAT
1 TGTATCGATACAT
2619171 GTTCAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2619166 original size:32 final size:32
Alignment explanation
Indices: 2619125--2619189 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
2619115 ACATGCTGTT
2619125 TTGTATCGATACATGTTCAATGTATCGATACA
1 TTGTATCGATACATGTTCAATGTATCGATACA
2619157 TTGTATCGATACATGTTCAATGTATCGATACA
1 TTGTATCGATACATGTTCAATGTATCGATACA
2619189 T
1 T
2619190 GGACAAATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACATGTTCAATGTATCGATACA
Found at i:2619203 original size:21 final size:20
Alignment explanation
Indices: 2619156--2619211 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
2619146 GTATCGATAC
**
2619156 ATTGTATCGATACATGTTCA
1 ATTGTATCGATACATGGACA
2619176 A-TGTATCGATACATGGACAA
1 ATTGTATCGATACATGGAC-A
2619196 ATTGTATCGATACATG
1 ATTGTATCGATACATG
2619212 AAATTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 15 0.47
20 3 0.09
21 14 0.44
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:2619277 original size:13 final size:13
Alignment explanation
Indices: 2619256--2619286 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2619246 CGATACATGG
*
2619256 TACAATGTATCGA
1 TACATTGTATCGA
2619269 TACATTGTATCGA
1 TACATTGTATCGA
2619282 TACAT
1 TACAT
2619287 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2621121 original size:40 final size:40
Alignment explanation
Indices: 2621021--2621138 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 40
2621011 GTTAGTTACC
* * *
2621021 TTTAGTTGATTGTACTGGTTTAACTTTGGTCAACCCCTCTAA
1 TTTA-TTGATTGTACTGGTTTAGCCTTAGTCAA-CCCTCTAA
* * * * *
2621063 CTTGTTGAATATACTGGTTTAGCCTTAGTTAACCCTCTAA
1 TTTATTGATTGTACTGGTTTAGCCTTAGTCAACCCTCTAA
* *
2621103 TTTATTGATTGTAATGGTTTAGCCCTAGTCAACCCT
1 TTTATTGATTGTACTGGTTTAGCCTTAGTCAACCCT
2621139 TTTTAACTTA
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
40 37 0.61
41 22 0.36
42 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (40 bp):
TTTATTGATTGTACTGGTTTAGCCTTAGTCAACCCTCTAA
Found at i:2621216 original size:41 final size:41
Alignment explanation
Indices: 2621169--2621259 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 41
2621159 TAGTCCCTTT
*
2621169 TTGTTGACTATACTAATTTAGCCTTAGTTAAATCC-TCTAAC
1 TTGTTGACTATACTAATTTAGCCTTAGTT-AACCCTTCTAAC
* * * *
2621210 TTGTTGATTGTACTAGTTTAGCCTTGGTTAACCCTTCTAAC
1 TTGTTGACTATACTAATTTAGCCTTAGTTAACCCTTCTAAC
*
2621251 TTATTGACT
1 TTGTTGACT
2621260 GTAATGGTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 4 0.10
41 38 0.90
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (41 bp):
TTGTTGACTATACTAATTTAGCCTTAGTTAACCCTTCTAAC
Found at i:2621251 original size:105 final size:105
Alignment explanation
Indices: 2621064--2621253 Score: 256
Period size: 106 Copynumber: 1.8 Consensus size: 105
2621054 CCCCTCTAAC
** * *
2621064 TTGTTGAATATACTGGTTTAGCCTTAGTTAACCCTCTAATTTATTGATTGTAATGGTTTAGCCCT
1 TTGTTGAATATACTAATTTAGCCTTAGTTAACCCTCTAACTTATTGATTGTAATAGTTTAGCCCT
*
2621129 AGTCAACCCTTTTTAACTTAGTTTTCATCCTAGTCCCTTT
66 AGTCAACCCTTTCTAACTTAGTTTTCATCCTAGTCCCTTT
* * * * *
2621169 TTGTTGACTATACTAATTTAGCCTTAGTTAAATCCTCTAACTTGTTGATTGTACTAGTTTAGCCT
1 TTGTTGAATATACTAATTTAGCCTTAGTT-AACCCTCTAACTTATTGATTGTAATAGTTTAGCCC
* *
2621234 TGGTTAACCC-TTCTAACTTA
65 TAGTCAACCCTTTCTAACTTA
2621254 TTGACTGTAA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
105 35 0.49
106 37 0.51
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.44
Consensus pattern (105 bp):
TTGTTGAATATACTAATTTAGCCTTAGTTAACCCTCTAACTTATTGATTGTAATAGTTTAGCCCT
AGTCAACCCTTTCTAACTTAGTTTTCATCCTAGTCCCTTT
Found at i:2621270 original size:41 final size:41
Alignment explanation
Indices: 2621185--2621270 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
2621175 ACTATACTAA
* * * *
2621185 TTTAGCCTTAGTTAAATCCTCTAACTTGTTGATTGTACTAG
1 TTTAGCCTTAGTTAAACCCTCTAACTTATTGACTGTAATAG
* *
2621226 TTTAGCCTTGGTT-AACCCTTCTAACTTATTGACTGTAATGG
1 TTTAGCCTTAGTTAAACCC-TCTAACTTATTGACTGTAATAG
2621267 TTTA
1 TTTA
2621271 ACCCTAGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 4 0.11
41 34 0.89
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.44
Consensus pattern (41 bp):
TTTAGCCTTAGTTAAACCCTCTAACTTATTGACTGTAATAG
Found at i:2621294 original size:146 final size:146
Alignment explanation
Indices: 2621056--2621319 Score: 388
Period size: 146 Copynumber: 1.8 Consensus size: 146
2621046 TTGGTCAACC
* * *
2621056 CCTCTAACTTGTTGAATATACTGGTTTAGCCTTAGTTAACCCTCTAATTTATTGATTGTAATGGT
1 CCTCTAACTTGTTGAATATACTAGTTTAGCCTTAGTTAACCCTCTAACTTATTGACTGTAATGGT
* * * *
2621121 TTAGCCCTAGTCAACCCTTTTTAACTTA-GTTTTCATCCTAGTCCCTTTTTGTTGACTATACTAA
66 TTAACCCTAGTCAACCCTTTTCAACTTAGGTTTT-ATCCTAGTCACTTGTTGTTGACTATACTAA
2621185 TTTAGCCTTAGTTAAAT
130 TTTAGCCTTAGTTAAAT
* * *
2621202 CCTCTAACTTGTTGATTGTACTAGTTTAGCCTTGGTTAACCCTTCTAACTTATTGACTGTAATGG
1 CCTCTAACTTGTTGAATATACTAGTTTAGCCTTAGTTAACCC-TCTAACTTATTGACTGTAATGG
* *
2621267 TTTAACCCTAGTCAA-CCTTTTCGACTTAGGTTTTATCTTAGTCACTTGTTGTT
65 TTTAACCCTAGTCAACCCTTTTCAACTTAGGTTTTATCCTAGTCACTTGTTGTT
2621320 AATTGTAGTA
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
146 65 0.62
147 39 0.38
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (146 bp):
CCTCTAACTTGTTGAATATACTAGTTTAGCCTTAGTTAACCCTCTAACTTATTGACTGTAATGGT
TTAACCCTAGTCAACCCTTTTCAACTTAGGTTTTATCCTAGTCACTTGTTGTTGACTATACTAAT
TTAGCCTTAGTTAAAT
Found at i:2621363 original size:147 final size:147
Alignment explanation
Indices: 2621052--2621363 Score: 387
Period size: 146 Copynumber: 2.1 Consensus size: 147
2621042 AACTTTGGTC
* * *
2621052 AACCCCTCTAACTTGTTGAATATACTGGTTTAGCCTTAGTTAACCCTCTAATTTATTGATTGTAA
1 AACCCCTCTAACTTGTTGAATATACTAGTTTAGCCTTAGTTAACCCTCTAACTTATTGACTGTAA
* * * * *
2621117 TGGTTTAGCCCTAGTCAACCCTTTTTAACTTAGTTTTCATCCTAGTCCCTTTTTGTTGACTATAC
66 TGGTTTAACCCTAGTCAACCCTTTTCAACTTAGTTTTCATCCTAGTCACTTGTTGTTAACTATAC
* *
2621182 TAATTTAGCCTTAGTTA
131 TAATTTAGCCCTAGTCA
* * * *
2621199 AA-TCCTCTAACTTGTTGATTGTACTAGTTTAGCCTTGGTTAACCCTTCTAACTTATTGACTGTA
1 AACCCCTCTAACTTGTTGAATATACTAGTTTAGCCTTAGTTAACCC-TCTAACTTATTGACTGTA
* * * *
2621263 ATGGTTTAACCCTAGTCAA-CCTTTTCGACTTAGGTTTT-ATCTTAGTCACTTGTTGTTAATTGT
65 ATGGTTTAACCCTAGTCAACCCTTTTCAACTTA-GTTTTCATCCTAGTCACTTGTTGTTAACTAT
* *
2621326 AGTAGTTTAGCCCTAGTCA
129 ACTAATTTAGCCCTAGTCA
* *
2621345 AACCCCTATAATTTGTTGA
1 AACCCCTCTAACTTGTTGA
2621364 CCGTAATGGT
Statistics
Matches: 139, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
146 85 0.61
147 54 0.39
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (147 bp):
AACCCCTCTAACTTGTTGAATATACTAGTTTAGCCTTAGTTAACCCTCTAACTTATTGACTGTAA
TGGTTTAACCCTAGTCAACCCTTTTCAACTTAGTTTTCATCCTAGTCACTTGTTGTTAACTATAC
TAATTTAGCCCTAGTCA
Found at i:2621521 original size:100 final size:102
Alignment explanation
Indices: 2621273--2621754 Score: 305
Period size: 100 Copynumber: 4.6 Consensus size: 102
2621263 ATGGTTTAAC
* * * * * *
2621273 CCTAGTCAACCTTTTCGACTTAGGTTTTATCTTAGTCACTTGTTGTTAATTGTAGTAGTTTAGCC
1 CCTAGTCAATCTTTTCGACTTAGGTTTCATCTTAGTCACTTTTTGTTGACTGTACTAGTTTAGCC
* *
2621338 CTAGTCAAACCCCTATAATTTGTTGACCGTAATGGTTTAGC
66 CTAGTCAAACCCCTATAATTTGTT---C-TAATGGCTTAGA
* * * * * * * *
2621379 CCTAGTTAACTTTTTTCAAATTAGGTTTCATCCTAGTTACTTTTTGTTGACTGTACTGGTTTAGT
1 CCTAGTCAA-TCTTTTCGACTTAGGTTTCATCTTAGTCACTTTTTGTTGACTGTACTAGTTTAGC
** *
2621444 CCTAGTC-AACCTTTTTAATTTG-T-TAATGGCTTAGA
65 CCTAGTCAAACCCCTATAATTTGTTCTAATGGCTTAGA
* * *
2621479 CCTAGTCAAGTCTTTTCGACTTAGGTTTCAACTTAGTCACTTTTTATTGACTATACTAGTTTAGC
1 CCTAGTCAA-TCTTTTCGACTTAGGTTTCATCTTAGTCACTTTTTGTTGACTGTACTAGTTTAGC
* * * * *
2621544 CTTGGT-TAA-CCCTCTAATTTGTTGACTATAATGGTTTA-A
65 CCTAGTCAAACCCCTATAATTTGTT--C--TAATGGCTTAGA
* * ** * * * * *
2621583 CACTAGTTAACCCATTCAACTTAGGTTTCGTCTTAGTCACTTTGTATTGACTTTACTAGTTTAGC
1 C-CTAGTCAATCTTTTCGACTTAGGTTTCATCTTAGTCACTTTTTGTTGACTGTACTAGTTTAGC
* * * * * *
2621648 CTTAGTC-AACACCTCTAATTTATTAACGATAATGGTTTAGT
65 CCTAGTCAAACCCCTATAATTTGTT--C--TAATGGCTTAGA
* * * * * * * *
2621689 CCT-GATTAACCTTTTTCGATTTAGCTTTTATCTTAGTCACCTTTAGTTGACTGTACTGGTTTAG
1 CCTAG-TCAATC-TTTTCGACTTAGGTTTCATCTTAGTCACTTTTTGTTGACTGTACTAGTTTAG
2621753 CC
64 CC
2621755 GTAATCAACC
Statistics
Matches: 297, Mismatches: 65, Indels: 28
0.76 0.17 0.07
Matches are distributed among these distances:
99 9 0.03
100 70 0.24
104 57 0.19
105 50 0.17
106 62 0.21
107 49 0.16
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (102 bp):
CCTAGTCAATCTTTTCGACTTAGGTTTCATCTTAGTCACTTTTTGTTGACTGTACTAGTTTAGCC
CTAGTCAAACCCCTATAATTTGTTCTAATGGCTTAGA
Found at i:2621845 original size:41 final size:41
Alignment explanation
Indices: 2621734--2621846 Score: 136
Period size: 41 Copynumber: 2.8 Consensus size: 41
2621724 GTCACCTTTA
* * *
2621734 GTTGACTGTACTGGTTTAGCCGTAATCAACCCTTCTAACTT
1 GTTGACTATACTGGTTTAGCCCTAATCAACCCCTCTAACTT
* * * * **
2621775 ATTGGCTATACTAGTTTAGGCCTCTTCAACCCCTCTAACTT
1 GTTGACTATACTGGTTTAGCCCTAATCAACCCCTCTAACTT
*
2621816 GTTGACTATAATGGTTTAGCCCTAATCAACC
1 GTTGACTATACTGGTTTAGCCCTAATCAACC
2621847 TTTTTTGACT
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (41 bp):
GTTGACTATACTGGTTTAGCCCTAATCAACCCCTCTAACTT
Found at i:2632070 original size:26 final size:26
Alignment explanation
Indices: 2632030--2632080 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
2632020 AAAAGCAACT
* *
2632030 AAATAAGTAAGCAAACAAATGAATAA
1 AAATAAATAAGCAAACAAATAAATAA
* *
2632056 AAATAAATAATCAAATAAATAAATA
1 AAATAAATAAGCAAACAAATAAATA
2632081 TATAAATGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (26 bp):
AAATAAATAAGCAAACAAATAAATAA
Found at i:2636629 original size:16 final size:16
Alignment explanation
Indices: 2636608--2636642 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2636598 TTTCATCACT
* *
2636608 TTCCATATTTATTATC
1 TTCCATATCTATCATC
2636624 TTCCATATCTATCATC
1 TTCCATATCTATCATC
2636640 TTC
1 TTC
2636643 TATTCTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (16 bp):
TTCCATATCTATCATC
Found at i:2638415 original size:26 final size:26
Alignment explanation
Indices: 2638379--2638433 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
2638369 GAATTTACAA
2638379 ATTTTCTAGACAATAAAAACTTTCAT
1 ATTTTCTAGACAATAAAAACTTTCAT
*
2638405 ATTTTCTAGACAATGAAAACTTTCAT
1 ATTTTCTAGACAATAAAAACTTTCAT
2638431 ATT
1 ATT
2638434 CCCTTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (26 bp):
ATTTTCTAGACAATAAAAACTTTCAT
Found at i:2638687 original size:14 final size:14
Alignment explanation
Indices: 2638668--2638694 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2638658 CTCCCAAACC
2638668 TTTTTAAGAGTTTG
1 TTTTTAAGAGTTTG
2638682 TTTTTAAGAGTTT
1 TTTTTAAGAGTTT
2638695 CATAATCCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (14 bp):
TTTTTAAGAGTTTG
Found at i:2640322 original size:28 final size:28
Alignment explanation
Indices: 2640246--2640322 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
2640236 TAACACAACT
*
2640246 TTATCTATATTGTTTTGATAAGACAATC
1 TTATCTATATTGTCTTGATAAGACAATC
* * *
2640274 TTATCTATATTATGTTGATAAGACAATG
1 TTATCTATATTGTCTTGATAAGACAATC
*
2640302 TTATGC-ATATTGTCTTAATAA
1 TTAT-CTATATTGTCTTGATAA
2640323 CATCATTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 41 0.98
29 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (28 bp):
TTATCTATATTGTCTTGATAAGACAATC
Found at i:2641233 original size:20 final size:20
Alignment explanation
Indices: 2641193--2641246 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
2641183 TTTTACAATT
2641193 TGTATTGATACAATAAATGAA
1 TGTATTGATAC-ATAAATGAA
*
2641214 TGTATTGATACATAAGTGAA
1 TGTATTGATACATAAATGAA
*
2641234 TGTATCGATACAT
1 TGTATTGATACAT
2641247 GTTTAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (20 bp):
TGTATTGATACATAAATGAA
Found at i:2641333 original size:20 final size:20
Alignment explanation
Indices: 2641308--2641361 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
2641298 AAAAAAAATA
2641308 TATCGATACATTTTTCATTG
1 TATCGATACATTTTTCATTG
*
2641328 TATCGATACATTTTTTATTG
1 TATCGATACATTTTTCATTG
* *
2641348 TATCAATACCTTTT
1 TATCGATACATTTT
2641362 GGGTTTTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (20 bp):
TATCGATACATTTTTCATTG
Found at i:2641456 original size:52 final size:52
Alignment explanation
Indices: 2641363--2641462 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
2641353 ATACCTTTTG
** *
2641363 GGTTTTTGACCAAAATGTATCAATAAAGTTTTCCTTGTATCGATACATTATA
1 GGTTTTTGACCAAAATGTATCAATAAAGTTTTCAATATATCGATACATTATA
* *
2641415 GGTTTTTGACCCAAATGTATCAATACA-TTCTTCAATATATCGATACAT
1 GGTTTTTGACCAAAATGTATCAATAAAGTT-TTCAATATATCGATACAT
2641463 GCAAGCAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.05
52 40 0.95
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (52 bp):
GGTTTTTGACCAAAATGTATCAATAAAGTTTTCAATATATCGATACATTATA
Found at i:2643963 original size:79 final size:79
Alignment explanation
Indices: 2643825--2644025 Score: 217
Period size: 79 Copynumber: 2.6 Consensus size: 79
2643815 AAATATCAAA
* * * * *
2643825 AGGGGA-ACACCAACCCTATTTCTAC-TCCTAAAACATTGAATTTTTTATCTTAGGAATACTTTA
1 AGGGGATACTCCAACCCTATTTATACTTCC-AAAACATTGAATTTTTCATCTCAGGAATACTCTA
* *
2643888 ACCTTGCCATTTTTG
65 ACCCTACCATTTTTG
* * * * *
2643903 AGGGGATACTCCAACCCCATTTTTACTTCCAAAATATTGAATTTTTCATCTCGGGGATACTCTAA
1 AGGGGATACTCCAACCCTATTTATACTTCCAAAACATTGAATTTTTCATCTCAGGAATACTCTAA
* *
2643968 CCCTATCTTTTTTG
66 CCCTACCATTTTTG
* * * *
2643982 AGAGGATGCTCCAACCCTATTTATACTTCTAAAACATCGAATTT
1 AGGGGATACTCCAACCCTATTTATACTTCCAAAACATTGAATTT
2644026 CTTCTGTAGA
Statistics
Matches: 101, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
78 6 0.06
79 92 0.91
80 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (79 bp):
AGGGGATACTCCAACCCTATTTATACTTCCAAAACATTGAATTTTTCATCTCAGGAATACTCTAA
CCCTACCATTTTTG
Found at i:2644349 original size:60 final size:60
Alignment explanation
Indices: 2644173--2644974 Score: 1161
Period size: 60 Copynumber: 13.3 Consensus size: 60
2644163 TAGCCCTTCC
* *
2644173 AGTCCTCAAAGAGCAGGACGCCTTTTCGTTTTAAAGCTCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
2644233 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT
* * *
2644294 AGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
2644354 AGTCCTCAAAGAGCAGGACGCCTTTTCATTTTAAAACCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTT
**
2644415 AGTCCTCAAAGAGCAGGACGCCTTTT-C----AAAGCCCACATGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * *
2644470 AGTCTTCAAAGAGCAGGACGCATTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * * * *
2644530 AGTCCTCAAATAGCAAGACACATTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * *
2644590 AGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTT
* * * *
2644651 AGTCCTTAAAGAGCAGGACGCCTTCTCC-TTCAAAGCCCACACGAA-TTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACAC-AAGTTGGTGGCACCTT-T
*
2644711 AGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
2644773 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTT
* *
2644834 AGTCCTCAAAGAGCAGGACGCCTTCT-CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTT
* *
2644894 AGTCCTCAAAGAGCAGGACACATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTT
* *
2644955 AGTCCTCAAAAAGCAAGACG
1 AGTCCTCAAAGAGCAGGACG
2644975 TTCTCTCTTT
Statistics
Matches: 675, Mismatches: 51, Indels: 31
0.89 0.07 0.04
Matches are distributed among these distances:
55 27 0.04
56 23 0.03
59 4 0.01
60 374 0.55
61 193 0.29
62 28 0.04
63 26 0.04
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (60 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:2644416 original size:121 final size:119
Alignment explanation
Indices: 2644173--2644974 Score: 1157
Period size: 121 Copynumber: 6.7 Consensus size: 119
2644163 TAGCCCTTCC
* * *
2644173 AGTCCTCAAAGAGCAGGACGCCTTTTCGTTTTAAAGCTCACACAAGTTGGTGGCACCTTTAGTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCC
*
2644238 TCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
66 TCAAAGAGCAGGACGCC-TTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT
* *
2644294 AGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCC
*
2644359 TCAAAGAGCAGGACGCCTTTTCATTTTAAAACCCACACAAGTTGGTGGCACCTTTT
66 TCAAAGAGCAGGACGCCTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCACC-TTT
* *
2644415 AGTCCTCAAAGAGCAGGACGCCTTTT-C----AAAGCCCACATGAGTTGGTGGCACCTTTAGTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCC
* *
2644475 TCAAAGAGCAGGACGCATTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
66 TCAAAGAGCAGGACGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * * *
2644530 AGTCCTCAAATAGCAAGACACATTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCC
* * *
2644595 TCAAAGAGTAGGACACCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCCTTT
66 TCAAAGAGCAGGACGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTT
* * * * *
2644651 AGTCCTTAAAGAGCAGGACGCCTTCTCC-TTCAAAGCCCACACGAATTGGTGGCACCTTCCAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTT-TAGTC
2644715 CTCAAAGAGCAGGACGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
65 CTCAAAGAGCAGGACGCC--TTTTC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTT
*
2644773 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACC-TTTAGTC
* *
2644838 CTCAAAGAGCAGGACGCCTTCTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT
65 CTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTT
* * *
2644894 AGTCCTCAAAGAGCAGGACACATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACC-TTTAGTC
* *
2644959 CTCAAAAAGCAAGACG
65 CTCAAAGAGCAGGACG
2644975 TTCTCTCTTT
Statistics
Matches: 616, Mismatches: 49, Indels: 32
0.88 0.07 0.05
Matches are distributed among these distances:
115 25 0.04
116 79 0.13
117 1 0.00
120 161 0.26
121 239 0.39
122 32 0.05
123 77 0.12
124 2 0.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (119 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCC
TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:2645055 original size:55 final size:56
Alignment explanation
Indices: 2644993--2645187 Score: 232
Period size: 55 Copynumber: 3.4 Consensus size: 56
2644983 TTTCACCCTT
2644993 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * * *
2645049 -AGTCCTCAAAGAGCAGGACGCTTTTTAAATCTCACACAAGTTGGTTGCACTTTTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC-TTTTC
* *
2645105 TAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
1 TAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACTTTTC
* *
2645166 TAGTCCTCAAAGAACATGACGC
1 TAGTCCTCAAAGAGCAGGACGC
2645188 TCTCTCCTTT
Statistics
Matches: 116, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
55 45 0.39
56 5 0.04
57 20 0.17
58 3 0.03
61 22 0.19
63 21 0.18
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (56 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
Found at i:2645225 original size:157 final size:154
Alignment explanation
Indices: 2645049--2645341 Score: 424
Period size: 155 Copynumber: 1.9 Consensus size: 154
2645039 GGCACTTTTC
* * * * * ** *
2645049 AGTCCTCAAAGAGCAGGACGCTTTTTAAATCTCACACAAGTTGGTTGCACTTTTTCTAGTCCTCA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAACCCACACAAGTTGGTGGCAC--CCTCCAGTCCTCA
* * *
2645114 AAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGA
64 AAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGATAGCACCTTC-AGTCCTCAAAGA
*
2645179 ACATGACGCTCTCTCCTTTCACCCTTT
128 ACAGGACGCTCTCTCCTTTCACCCTTT
*
2645206 AGTCCTCAAAGAGCAGGACGCCTTTCAAAACCCATACAAGTTGGTGGCACCCTCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAACCCACACAAGTTGGTGGCACCCTCCAGTCCTCAAA
* *
2645271 GAGTAGGACGCCTTTTTCTTTTAAAGCCCACACAAGCTGATAGCACCTTCAGTCCTCAAAGAGCA
66 GAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGATAGCACCTTCAGTCCTCAAAGAACA
2645336 GGACGC
131 GGACGC
2645342 CTTCTCTTTT
Statistics
Matches: 121, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
154 19 0.16
155 58 0.48
157 44 0.36
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (154 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAACCCACACAAGTTGGTGGCACCCTCCAGTCCTCAAA
GAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGATAGCACCTTCAGTCCTCAAAGAACA
GGACGCTCTCTCCTTTCACCCTTT
Found at i:2645330 original size:60 final size:60
Alignment explanation
Indices: 2645258--2645402 Score: 186
Period size: 60 Copynumber: 2.4 Consensus size: 60
2645248 GGTGGCACCC
* *
2645258 TCCAGTCCTCAAAGAGTAGGACGCCTT-TTTCTTTTAAAGCCCACACAAGCTGATAGCACCT
1 TCCAGTCCTCAAAGAGCAGGACGCCTTCTCT-TTTTAAAGCCCACACAAGCTGATAGCA-CT
* * * *
2645319 T-CAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCTCACACAAGTTGGTGGCACT
1 TCCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGCTGATAGCACT
*
2645378 TCCTAGTCCTCAAAGAGCATGACGC
1 TCC-AGTCCTCAAAGAGCAGGACGC
2645403 TCTCTCCTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
59 3 0.04
60 48 0.65
61 23 0.31
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (60 bp):
TCCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGCTGATAGCACT
Found at i:2645334 original size:427 final size:428
Alignment explanation
Indices: 2644768--2645607 Score: 1120
Period size: 427 Copynumber: 1.9 Consensus size: 428
2644758 GTTGGTGGCA
* * *
2644768 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCC---TAAAACCCACACAAGTTGGTGGCACCCTC
* * * * *
2644833 TAGTCCTCAAAGAGCAGGACGCCTTCTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTC
63 CAGTCCTCAAAGAGCAGGACGCCTTCTCTTTCAAAGCCCACACAAGCTGATAGCACCTTTCAGTC
* *
2644898 CTCAAAGAGCAGGACACATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TTAGTCCTC
128 CTCAAAGAGCAGGACACATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTC
* * *
2644962 AAAAAGCAAGACGTTCTCTCTTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCC
192 AAAAAGCAAGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCC
* * * * *
2645027 ACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACG-CT-TTTTAAATCTCACACAAGT
257 ACACAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGCAAGACGCCTCTTTTAAAGCCCACACAAGT
* * *
2645090 TGGTTGCACTTTTTCTAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTT
321 TGATGGCAC-TTTTC-AATCCTCAAAGAGTAGGACG-C-TTTCCTTTTCAAAGCCCACACAAGTT
* *
2645154 GGTGGCACCTTCTAGTCCTCAAAGAACATGACGCTCTCTCCTTTCAC
382 GGTGGCACCTTCGAGTACTCAAAGAACATGACGCTCTCTCCTTTCAC
*
2645201 CCTTTAGTCCTCAAAGAGCAGGACGCC-TTT-C-AAAACCCATACAAGTTGGTGGCACCCTCCAG
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTAAAACCCACACAAGTTGGTGGCACCCTCCAG
* * *
2645263 TCCTCAAAGAGTAGGACGCCTTTTTCTTTTAAAGCCCACACAAGCTGATAGCACC-TTCAGTCCT
66 TCCTCAAAGAGCAGGACGCC-TTCTCTTTCAAAGCCCACACAAGCTGATAGCACCTTTCAGTCCT
* * * *
2645327 CAAAGAGCAGGACGCCTTCTCTTTTTAAAGCTCACACAAGTTGGTGGCACTTCCTAGTCCTCAAA
130 CAAAGAGCAGGACACATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAA
* * * * * *
2645392 GAGCATGACGCTCTCTCCTTTCGCCTTTTTGTCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACA
195 AAGCAAGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACA
2645457 CAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGT
260 CAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAAGACG-C--CT-CTTTTAAAGCCCACACAAGT
* * * *
2645522 TGATGGCACTTTTCAATCCTCAAAGAGTAGGATGCTTTCTTTTTGCAAAGTCCACATAAGTTGGT
321 TGATGGCACTTTTCAATCCTCAAAGAGTAGGACGCTTTCCTTTT-CAAAGCCCACACAAGTTGGT
2645587 GGCACCTTCGAGTACTCAAAG
385 GGCACCTTCGAGTACTCAAAG
2645608 GGCAGGACGC
Statistics
Matches: 356, Mismatches: 41, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
426 25 0.07
427 177 0.50
428 37 0.10
429 1 0.00
430 56 0.16
431 6 0.02
432 27 0.08
433 27 0.08
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (428 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTAAAACCCACACAAGTTGGTGGCACCCTCCAG
TCCTCAAAGAGCAGGACGCCTTCTCTTTCAAAGCCCACACAAGCTGATAGCACCTTTCAGTCCTC
AAAGAGCAGGACACATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAA
AGCAAGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACAC
AAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAAGACGCCTCTTTTAAAGCCCACACAAGTTGATG
GCACTTTTCAATCCTCAAAGAGTAGGACGCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACC
TTCGAGTACTCAAAGAACATGACGCTCTCTCCTTTCAC
Found at i:2645406 original size:215 final size:215
Alignment explanation
Indices: 2644768--2645617 Score: 1047
Period size: 215 Copynumber: 3.9 Consensus size: 215
2644758 GTTGGTGGCA
*
2644768 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTTAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACCCTT
* * * * *
2644833 TAGTCCTCAAAGAGCAGGACGCCTTCTCTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTTTAGT
60 CAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGATGGCACTC-TTCAGT
* * *
2644897 CCTCAAAGAGCAGGACACATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTC
124 CCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTC
* * * *
2644962 AAAAAGCAAGACGTTCTCTCTTTTCAC
189 AAAGAGCATGACGCTCTCTCCTTTCAC
**
2644989 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCC
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAGTCC
* * * * *
2645054 TCAAAGAGCAGGACG-C---T-TTTTAAATCTCACACAAGTTGGTTGCACTTTTTCTAGTCCTCA
66 TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGATGGCAC-TCTTC-AGTCCTCA
*
2645114 AAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGA
129 AAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGA
*
2645179 ACATGACGCTCTCTCCTTTCAC
194 GCATGACGCTCTCTCCTTTCAC
* * *
2645201 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAACCCATACAAGTTGGTGGCACCCTCCAGTCC
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAGTCC
* * *
2645266 TCAAAGAGTAGGACGCCTTTTTCTTTTAAAGCCCACACAAGCTGATAGCAC-CTTCAGTCCTCAA
66 TCAAAGAGCAGGACGCC-TTTTCTTTTAAAGCCCACACAAGTTGATGGCACTCTTCAGTCCTCAA
* * *
2645330 AGAGCAGGACGCCTTCTCTTTTTAAAGCTCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGA
130 AGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGA
*
2645394 GCATGACGCTCTCTCCTTTCGC
194 GCATGACGCTCTCTCCTTTCAC
* * * * *
2645416 CTTTTTGTCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGCTGGTGGCA-CCTTCAGTCC
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAGTCC
* * * *
2645480 TCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGATGGCACTTTTCAATCCTCAA
66 TCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGATGGCACTCTTCAGTCCTCAA
* * * * * * *
2645545 AGAGTAGGATG-C-TTTCTTTTTGCAAAGTCCACATAAGTTGGTGGCACCTTCGAGTACTCAAAG
130 AGAGCAGGACGCCTTTTCCTTTT--AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAG
* *
2645608 GGCAGGACGC
193 AGCATGACGC
2645618 CTTTTCTTTT
Statistics
Matches: 554, Mismatches: 60, Indels: 36
0.85 0.09 0.06
Matches are distributed among these distances:
210 24 0.04
211 3 0.01
212 160 0.29
213 11 0.02
214 57 0.10
215 238 0.43
216 6 0.01
217 1 0.00
218 23 0.04
219 1 0.00
220 3 0.01
221 27 0.05
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (215 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAGTCC
TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGATGGCACTCTTCAGTCCTCAAA
GAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGC
ATGACGCTCTCTCCTTTCAC
Found at i:2645636 original size:122 final size:121
Alignment explanation
Indices: 2645447--2645675 Score: 325
Period size: 122 Copynumber: 1.9 Consensus size: 121
2645437 GACGCCTTTT
*
2645447 AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGC
1 AAAGCCCACACAAGCTGGTGGCACCTTCAGTACTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGC
*
2645512 CCACACAAGTTGATGGCACTTTTCAATCCTCAAAGAGTAGGATGCTTTCTTTTTGC
66 CCACACAAGTTGATGGCACTTTTCAATCCTCAAAGAGCAGGATGCTTTCTTTTTGC
* * * * * *
2645568 AAAGTCCACATAAGTTGGTGGCACCTTCGAGTACTCAAAGGGCAGGACGCCTT-TTCTTTTCAAA
1 AAAGCCCACACAAGCTGGTGGCACCTTC-AGTACTCAAAGAGCAAGACGCCTTCTCCTTTT-AAA
** * *
2645632 GCCCACAGGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
64 GCCCACACAAGTTGATGGCACTTTTCAATCCTCAAAGAGCAGGA
2645676 CGCACTTTAT
Statistics
Matches: 94, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
121 31 0.33
122 63 0.67
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (121 bp):
AAAGCCCACACAAGCTGGTGGCACCTTCAGTACTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGC
CCACACAAGTTGATGGCACTTTTCAATCCTCAAAGAGCAGGATGCTTTCTTTTTGC
Found at i:2645689 original size:61 final size:60
Alignment explanation
Indices: 2645441--2645683 Score: 267
Period size: 61 Copynumber: 4.0 Consensus size: 60
2645431 GAGCAAGACG
* *
2645441 CCTTTT-AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAAGACGCCTTCT
1 CCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTT-T
* * * * *
2645501 CCTTTT-AAAGCCCACACAAGTTGATGGCACTTTTCAATCCTCAAAGAGTAGGATG-CTTT
1 CCTTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGACGCCTTT
* * * * *
2645560 CTTTTTGCAAAGTCCACATAAGTTGGTGGCACCTTCGAGTACTCAAAGGGCAGGACGCCTTT
1 CCTTTT-CAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGACGCCTTT
* ** *
2645622 TCTTTTCAAAGCCCACAGGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCACTTT
1 CCTTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGACGC-CTTT
2645684 ATTTTCCTTT
Statistics
Matches: 151, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
59 6 0.04
60 34 0.23
61 96 0.64
62 15 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (60 bp):
CCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
Found at i:2645707 original size:42 final size:43
Alignment explanation
Indices: 2645659--2645762 Score: 106
Period size: 42 Copynumber: 2.4 Consensus size: 43
2645649 GCACTTTTCA
* *
2645659 GTCCTCAAAGAGCAGGACGCACTTT-ATTTTCC-TTTTTCTTTT
1 GTCCTCAAAGAGCAGGACGCA-TTTCATTTCCCTTTTTTCCTTT
* * * *
2645701 GTCCTCAAATAGTAGGACGTATTTCGTTTCCCTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACGCATTTCATTTCCCTTTTTTCCTTT
*
2645744 ATCCTCGAAAG-GCAGGACG
1 GTCCTC-AAAGAGCAGGACG
2645763 TACTCTTTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
41 3 0.06
42 23 0.46
43 21 0.42
44 3 0.06
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.38
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGACGCATTTCATTTCCCTTTTTTCCTTT
Found at i:2646434 original size:20 final size:20
Alignment explanation
Indices: 2646409--2646465 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
2646399 TTTTCACAAT
*
2646409 TTGTATCCATACATTGTTCA
1 TTGTATCGATACATTGTTCA
**
2646429 TTGTATCGATACATTACTCA
1 TTGTATCGATACATTGTTCA
2646449 TTGTATCGATACATTGT
1 TTGTATCGATACATTGT
2646466 ATTGATACAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:2646465 original size:13 final size:13
Alignment explanation
Indices: 2646447--2646476 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2646437 ATACATTACT
2646447 CATTGTATCGATA
1 CATTGTATCGATA
*
2646460 CATTGTATTGATA
1 CATTGTATCGATA
2646473 CATT
1 CATT
2646477 CTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2646496 original size:29 final size:29
Alignment explanation
Indices: 2646463--2646534 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
2646453 ATCGATACAT
* *
2646463 TGTATTGATACATTCTGGGTTTACTTAGA
1 TGTATCGATACATTCTGGGTTTACCTAGA
2646492 TGTATCGATACATTCTGGGTTTACCTAGA
1 TGTATCGATACATTCTGGGTTTACCTAGA
*
2646521 TGTATCAATACATT
1 TGTATCGATACATT
2646535 TTGCATTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (29 bp):
TGTATCGATACATTCTGGGTTTACCTAGA
Found at i:2646585 original size:33 final size:33
Alignment explanation
Indices: 2646538--2646607 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
2646528 ATACATTTTG
2646538 CATTATATCGATACATTACTCATTGTATCGATA
1 CATTATATCGATACATTACTCATTGTATCGATA
* *
2646571 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTATATCGATACATTACTCATTGTATCGATA
2646604 CATT
1 CATT
2646608 TTACAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (33 bp):
CATTATATCGATACATTACTCATTGTATCGATA
Found at i:2646586 original size:53 final size:53
Alignment explanation
Indices: 2646521--2646627 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
2646511 TTTACCTAGA
* *
2646521 TGTATCAATACATT-TTGCATTATATCGATACATTACT-CATTGTATCGATACAT
1 TGTATCAATACATTGCT-CATTATATCGATACATT-CTACAATGTATCGATACAT
* * *
2646574 TGTATCGATACATTGCTCATTGTATCGATACATTTTACAATGTATCGATACAT
1 TGTATCAATACATTGCTCATTATATCGATACATTCTACAATGTATCGATACAT
2646627 T
1 T
2646628 CAGGCATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.02
53 45 0.96
54 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (53 bp):
TGTATCAATACATTGCTCATTATATCGATACATTCTACAATGTATCGATACAT
Found at i:2646596 original size:20 final size:20
Alignment explanation
Indices: 2646569--2646628 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
2646559 ATTGTATCGA
2646569 TACATTGTATCGATACATTGC
1 TACATTGTATCGATACATT-C
*
2646590 T-CATTGTATCGATACATTT
1 TACATTGTATCGATACATTC
*
2646609 TACAATGTATCGATACATTC
1 TACATTGTATCGATACATTC
2646629 AGGCATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (20 bp):
TACATTGTATCGATACATTC
Found at i:2646607 original size:13 final size:13
Alignment explanation
Indices: 2646558--2646588 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
2646548 ATACATTACT
2646558 CATTGTATCGATA
1 CATTGTATCGATA
2646571 CATTGTATCGATA
1 CATTGTATCGATA
2646584 CATTG
1 CATTG
2646589 CTCATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2648995 original size:51 final size:51
Alignment explanation
Indices: 2648935--2649093 Score: 160
Period size: 51 Copynumber: 3.1 Consensus size: 51
2648925 TCATCTCGTG
* * * *
2648935 GATACTCTAA-TCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAATCGGA
1 GATACTCTAACT-CCGATTTCATTTCCAAAACACCAATTTTCCATAATCGGA
* * * *
2648986 GATACTCTAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCGGG
1 GATACTCTAACTCCGATTTCATTTCCAAAACACCAATTTTCCATAATCGGA
* * * * * *
2649037 GATACTCCAACTCTGATTTTATTTCCAAAACACCGACTTTT-CACAATCGGG
1 GATACTCTAACTCCGATTTCATTTCCAAAACACC-AATTTTCCATAATCGGA
2649088 GATACT
1 GATACT
2649094 TCAACCCCGT
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
51 87 0.95
52 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.35
Consensus pattern (51 bp):
GATACTCTAACTCCGATTTCATTTCCAAAACACCAATTTTCCATAATCGGA
Found at i:2649326 original size:79 final size:79
Alignment explanation
Indices: 2649034--2649444 Score: 400
Period size: 79 Copynumber: 5.2 Consensus size: 79
2649024 TTCCATAATC
* * * * * * * * *
2649034 GGGGATACTCCAACTCTGATTTTATTTCCAAAACACCGACTTTTCACAATCGGGGATACTTCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGAGGATACTCCAAC
2649099 CCCGTTA-TTTCTGA
66 CCCGTTATTTTC-GA
* * * *
2649113 GGGGACACTCCAACCCCGGTTTTATTTTTAAAACATCAATTTTT--C-ATCGGGGTTACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGAGGATACTCCAAC
* *
2649175 CCCATTATTTTTTGA
66 CCCGTTA-TTTTCGA
* * * * * * * * *
2649190 GAGGATACCCCAACCTCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGAGGATACTCCAAC
*
2649255 CCCATTATTTTCGA
66 CCCGTTATTTTCGA
* * * *
2649269 GGGGATACTCTAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATAGTCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGAGGATACTCCAAC
*
2649334 CCCGTTATTTCCGA
66 CCCGTTATTTTCGA
* * * * * *
2649348 GGGGATACTTCAATCCCGATTTTATTTCGAAATCATCGATTTTTCACAATCCGA-GATACTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAAT-CGAGGATACTCCAA
* * *
2649412 TCCTGTTATTTTCAA
65 CCCCGTTATTTTCGA
*
2649427 TGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
2649445 TTATTATCTC
Statistics
Matches: 271, Mismatches: 55, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
76 21 0.08
77 38 0.14
78 3 0.01
79 183 0.68
80 26 0.10
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGAGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:2650516 original size:51 final size:52
Alignment explanation
Indices: 2650447--2650565 Score: 152
Period size: 52 Copynumber: 2.3 Consensus size: 52
2650437 ATTTTCCGAA
* * * *
2650447 AGGATACTCCAACTCCGTTTTTGCTTC-GAAACATTGAA-CTTTTCATTTTCG
1 AGGATACTCCAACCCCGTTTTTACTTCTAAAACATTGAATC-TTACATTTTCG
* *
2650498 AGGATACTCCAACCCCGTTTTTACTTCTAAAACATTGAATCTTACGTTTTGG
1 AGGATACTCCAACCCCGTTTTTACTTCTAAAACATTGAATCTTACATTTTCG
*
2650550 GGGATACTCCAACCCC
1 AGGATACTCCAACCCC
2650566 ACTATCTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 25 0.42
52 33 0.56
53 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.34
Consensus pattern (52 bp):
AGGATACTCCAACCCCGTTTTTACTTCTAAAACATTGAATCTTACATTTTCG
Found at i:2650591 original size:28 final size:28
Alignment explanation
Indices: 2650551--2650647 Score: 151
Period size: 28 Copynumber: 3.5 Consensus size: 28
2650541 ACGTTTTGGG
2650551 GGATACTCCAACCCCACTATCTTTAAGA
1 GGATACTCCAACCCCACTATCTTTAAGA
2650579 GGATACTCCAACCCCACTATCTTTAAGA
1 GGATACTCCAACCCCACTATCTTTAAGA
* * *
2650607 AGATACTCTAACCCCACCATCTTTAAG-
1 GGATACTCCAACCCCACTATCTTTAAGA
2650634 GAGATACTCCAACC
1 G-GATACTCCAACC
2650648 TCGATTTTCA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.33, C:0.33, G:0.10, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCACTATCTTTAAGA
Found at i:2657809 original size:8 final size:8
Alignment explanation
Indices: 2657778--2657857 Score: 54
Period size: 8 Copynumber: 9.5 Consensus size: 8
2657768 AAAAATTAAT
*
2657778 AATAACAC
1 AATAACAA
*
2657786 AATAAAAA
1 AATAACAA
**
2657794 AACGACAA
1 AATAACAA
2657802 AATAACAA
1 AATAACAA
*
2657810 GATAACAA
1 AATAACAA
2657818 AATCAACATAA
1 AAT-AAC--AA
2657829 AATAA-AA
1 AATAACAA
*
2657836 ATATAATAA
1 A-ATAACAA
2657845 TAATAACAA
1 -AATAACAA
2657854 AATA
1 AATA
2657858 CAATTCGATT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
7 3 0.05
8 34 0.61
9 11 0.20
10 3 0.05
11 5 0.09
ACGTcount: A:0.70, C:0.11, G:0.03, T:0.16
Consensus pattern (8 bp):
AATAACAA
Found at i:2658819 original size:15 final size:14
Alignment explanation
Indices: 2658789--2658846 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
2658779 TATGTATTCA
*
2658789 TATTATATATATTT
1 TATTATATATAATT
2658803 TATTATATCATAATT
1 TATTATAT-ATAATT
2658818 TATT-TA-A-AATAT
1 TATTATATATAAT-T
*
2658830 TATATATATATATTT
1 TAT-TATATATAATT
2658845 TA
1 TA
2658847 AAATATTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
11 3 0.08
12 5 0.14
13 1 0.03
14 12 0.33
15 13 0.36
16 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATATATAATT
Found at i:2658830 original size:24 final size:23
Alignment explanation
Indices: 2658803--2658854 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
2658793 ATATATATTT
*
2658803 TATTATATCATA-ATTTATTTAAAA
1 TATTATAT-ATATATAT-TTTAAAA
2658827 TATTATATATATATATTTTAAAA
1 TATTATATATATATATTTTAAAA
2658850 TATTA
1 TATTA
2658855 ATAATTCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTATATATATATATTTTAAAA
Found at i:2659276 original size:19 final size:19
Alignment explanation
Indices: 2659241--2659286 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
2659231 TCTCAGGTTT
*
2659241 TTATTTT-GTTTTTTATTG
1 TTATTTTAGTTATTTATTG
2659259 TTATTTTAGTTATTTATTG
1 TTATTTTAGTTATTTATTG
2659278 TTATATTTA
1 TTAT-TTTA
2659287 TTTTTCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.28
19 14 0.56
20 4 0.16
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.72
Consensus pattern (19 bp):
TTATTTTAGTTATTTATTG
Found at i:2661046 original size:14 final size:14
Alignment explanation
Indices: 2661027--2661053 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2661017 CACCACTAAA
2661027 TAGTATTTTTTTAG
1 TAGTATTTTTTTAG
2661041 TAGTATTTTTTTA
1 TAGTATTTTTTTA
2661054 TCATAAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (14 bp):
TAGTATTTTTTTAG
Found at i:2662847 original size:2 final size:2
Alignment explanation
Indices: 2662840--2662865 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2662830 TAGGATTGCC
2662840 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
2662866 GTGTACAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2662969 original size:2 final size:2
Alignment explanation
Indices: 2662962--2662994 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2662952 ACGACAAATG
2662962 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2662995 GTTAAAGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2666407 original size:21 final size:21
Alignment explanation
Indices: 2666381--2666420 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2666371 ATATGTGCAT
*
2666381 TTAGATAAAATAATACATTGA
1 TTAGATAAAAGAATACATTGA
*
2666402 TTAGATAAAAGAATGCATT
1 TTAGATAAAAGAATACATT
2666421 TGTTGGATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (21 bp):
TTAGATAAAAGAATACATTGA
Found at i:2672590 original size:30 final size:30
Alignment explanation
Indices: 2672526--2672590 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
2672516 CTTTGTTAAC
* *
2672526 TATTTTTTCAATATAGTTTCTTATTTATTA
1 TATTTTTTCAAAATAGTTTCTAATTTATTA
*
2672556 TATTTTTTCTTAAAATAGTTT-TAATTT-TTT
1 TATTTTTTC--AAAATAGTTTCTAATTTATTA
2672586 TATTT
1 TATTT
2672591 CTTATCTCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 16 0.53
31 5 0.17
32 9 0.30
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (30 bp):
TATTTTTTCAAAATAGTTTCTAATTTATTA
Found at i:2678479 original size:39 final size:39
Alignment explanation
Indices: 2678430--2678508 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
2678420 TTTTTAGGTT
* *
2678430 GAATTATTTTT-GATGAATTACTAGAGCGATGAAATTGAA
1 GAATTATTTTTGGA-GAATTAATAGAGAGATGAAATTGAA
* *
2678469 GAATTATTTTTGGAGAATTAATGGAGAGGTGAAATTGAA
1 GAATTATTTTTGGAGAATTAATAGAGAGATGAAATTGAA
2678508 G
1 G
2678509 GAGCTGAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.94
40 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (39 bp):
GAATTATTTTTGGAGAATTAATAGAGAGATGAAATTGAA
Found at i:2678615 original size:48 final size:48
Alignment explanation
Indices: 2678563--2678656 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
2678553 AGAATGAATG
* *
2678563 GAAGGGCA-AAATTGAAAGAATTGAAATGGTGGAGA-GATGAAATTGATA
1 GAAGGG-AGAAATTGAAAGAATTGAAAGGGT-GAAATGATGAAATTGATA
2678611 GAAGGGAGAAATTGAAAGAATTGAAAGGGTGAAATGATGAAATTGA
1 GAAGGGAGAAATTGAAAGAATTGAAAGGGTGAAATGATGAAATTGA
2678657 ATAATTGATC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.47, C:0.01, G:0.32, T:0.20
Consensus pattern (48 bp):
GAAGGGAGAAATTGAAAGAATTGAAAGGGTGAAATGATGAAATTGATA
Found at i:2679730 original size:79 final size:78
Alignment explanation
Indices: 2679601--2679801 Score: 194
Period size: 79 Copynumber: 2.6 Consensus size: 78
2679591 ATGCTAAATG
* * * **
2679601 CAACCCTAAAGGCTCA-GAG-TTGAAATAAAAATACTAAAATATTCTTAAAAGCTTAGTTTTGAT
1 CAACCATAAAGGCT-ATGAGTTTGACATAAAAATACTAAAATA-ACAAAAAAGCTTAGTTTTGAT
* *
2679664 GTGAAAGTATTAAACA
64 ATGAAAGTACT-AACA
* * *
2679680 CTACCTTAAAGGCT-TGAGTTTGACATAAAAATACTAAAATAACAAAAAAAGTTTAGTTTTGATA
1 CAACCATAAAGGCTATGAGTTTGACATAAAAATACTAAAATAAC-AAAAAAGCTTAGTTTTGATA
* *
2679744 TTAAAGTGCTAACA
65 TGAAAGTACTAACA
* * *
2679758 CAACCATAAAGGATAT-AGTTTTGACATAAAACTACTTAAATAAC
1 CAACCATAAAGGCTATGAG-TTTGACATAAAAATACTAAAATAAC
2679802 CTTAAAGTTT
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
78 21 0.21
79 80 0.79
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.29
Consensus pattern (78 bp):
CAACCATAAAGGCTATGAGTTTGACATAAAAATACTAAAATAACAAAAAAGCTTAGTTTTGATAT
GAAAGTACTAACA
Found at i:2679741 original size:39 final size:40
Alignment explanation
Indices: 2679698--2679801 Score: 93
Period size: 39 Copynumber: 2.6 Consensus size: 40
2679688 AAGGCTTGAG
*
2679698 TTTGACATAAAAATACTAAAATAACAAAAAAAG-TTTAGT
1 TTTGACATAAAAATACTAAAATAACAAAAAAAGATATAGT
* * * * * * * * *
2679737 TTTGATATTAAAGTGCTAACACAACCATAAAGGATATAGT
1 TTTGACATAAAAATACTAAAATAACAAAAAAAGATATAGT
* *
2679777 TTTGACATAAAACTACTTAAATAAC
1 TTTGACATAAAAATACTAAAATAAC
2679802 CTTAAAGTTT
Statistics
Matches: 47, Mismatches: 17, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
39 24 0.51
40 23 0.49
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.30
Consensus pattern (40 bp):
TTTGACATAAAAATACTAAAATAACAAAAAAAGATATAGT
Found at i:2679836 original size:79 final size:78
Alignment explanation
Indices: 2679568--2679836 Score: 188
Period size: 79 Copynumber: 3.4 Consensus size: 78
2679558 AAATGACCTT
* * ** * * * *
2679568 AAAAGTTTAGTTTTGACTTGAAAATGCTAA-ATGCAACCCTAAAGGCTCAGAG-TTGAAATAAAA
1 AAAAGTTTAGTTTTGACATGAAAGTATTAACA--CAACCATAAAGGAT-TGAGTTTGACATAAAA
* **
2679631 ATACTAAAATATTC-TT
63 ATACTAAAATA-ACAAA
* ** * * *
2679647 AAAAGCTTAGTTTTGATGTGAAAGTATTAAACACTACCTTAAAGGCTTGAGTTTGACATAAAAAT
1 AAAAGTTTAGTTTTGACATGAAAGTATT-AACACAACCATAAAGGATTGAGTTTGACATAAAAAT
2679712 ACTAAAATAACAAA
65 ACTAAAATAACAAA
* * ** *
2679726 AAAAGTTTAGTTTTGATATTAAAGTGCTAACACAACCATAAAGGATAT-AGTTTTGACATAAAAC
1 AAAAGTTTAGTTTTGACATGAAAGTATTAACACAACCATAAAGGAT-TGAG-TTTGACATAAAAA
* **
2679790 TACTTAAATAAC-CT
64 TACTAAAATAACAAA
* *
2679804 TAAAGTTTTGATTTTGACATGAAAGTATTAACA
1 AAAAGTTTAG-TTTTGACATGAAAGTATTAACA
2679837 TGACCTTAAA
Statistics
Matches: 152, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
78 29 0.19
79 120 0.79
80 2 0.01
81 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (78 bp):
AAAAGTTTAGTTTTGACATGAAAGTATTAACACAACCATAAAGGATTGAGTTTGACATAAAAATA
CTAAAATAACAAA
Found at i:2679847 original size:79 final size:77
Alignment explanation
Indices: 2679620--2679877 Score: 184
Period size: 79 Copynumber: 3.3 Consensus size: 77
2679610 AGGCTCAGAG
* * ** * **
2679620 TTGAAATAAAAATACTAAAATATTC-TTAAAAGCTTAGTTTTGATGTGAAAGTATTAAACACTAC
1 TTGACATAAAAATACTAAAATA-ACAAAAAAAGTTTAGTTTTGACATGAAAGTATT-AACA-TAC
*
2679684 CTTAAAGGCTTGAGT
63 CTTAAAGGATTGAGT
* * ** * *
2679699 TTGACATAAAAATACTAAAATAACAAAAAAAGTTTAGTTTTGATATTAAAGTGCTAACACAACCA
1 TTGACATAAAAATACTAAAATAACAAAAAAAGTTTAGTTTTGACATGAAAGTATTAACA-TACCT
2679764 TAAAGGATAT-AGTT
65 TAAAGGAT-TGAG-T
* * *** *
2679778 TTGACATAAAACTACTTAAATAAC-CTTAAAGTTTTGATTTTGACATGAAAGTATTAACATGACC
1 TTGACATAAAAATACTAAAATAACAAAAAAAGTTTAG-TTTTGACATGAAAGTATTAACAT-ACC
2679842 TTAAA-GACTTG-GTT
64 TTAAAGGA-TTGAG-T
* *
2679856 TTTACGTAAAAAATACTAAAAT
1 TTGACAT-AAAAATACTAAAAT
2679878 GATTTTAAAA
Statistics
Matches: 143, Mismatches: 28, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
78 37 0.26
79 106 0.74
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (77 bp):
TTGACATAAAAATACTAAAATAACAAAAAAAGTTTAGTTTTGACATGAAAGTATTAACATACCTT
AAAGGATTGAGT
Found at i:2687160 original size:2 final size:2
Alignment explanation
Indices: 2687153--2687185 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2687143 AATAAAGTTT
2687153 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2687186 TTTATGTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2689588 original size:18 final size:18
Alignment explanation
Indices: 2689567--2689619 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
2689557 CAAGCTACCT
*
2689567 TTTACAAGCTTAAAAATC
1 TTTACAAGCTTAAAAATA
*
2689585 TTTACAAACTTAAAAATA
1 TTTACAAGCTTAAAAATA
2689603 TTGATA-AAGCTTAAAAA
1 TT--TACAAGCTTAAAAA
2689620 ATAAATATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 18 0.60
19 10 0.33
20 2 0.07
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (18 bp):
TTTACAAGCTTAAAAATA
Found at i:2690502 original size:28 final size:28
Alignment explanation
Indices: 2690469--2690535 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
2690459 ACTTACAGAG
2690469 TTAATTAAAATTTTACAT-ATAATAAAA-T
1 TTAATTAAAATTTTA-ATAAT-ATAAAATT
* *
2690497 TTAATTAAAAATTTAATAATGTAAAATT
1 TTAATTAAAATTTTAATAATATAAAATT
2690525 TTAATTAAAAT
1 TTAATTAAAAT
2690536 ACCATAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.21
28 27 0.79
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (28 bp):
TTAATTAAAATTTTAATAATATAAAATT
Found at i:2690535 original size:12 final size:12
Alignment explanation
Indices: 2690469--2690535 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 12
2690459 ACTTACAGAG
2690469 TTAATTAAAATT
1 TTAATTAAAATT
*
2690481 TTACATATAATAAAAT
1 TTA-AT-T-A-AAATT
2690497 TTAATTAAAAATT
1 TTAATT-AAAATT
2690510 TAATAATGTAAAATT
1 T--TAAT-TAAAATT
2690525 TTAATTAAAAT
1 TTAATTAAAAT
2690536 ACCATAAGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
12 9 0.20
13 11 0.24
14 4 0.09
15 14 0.30
16 8 0.17
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (12 bp):
TTAATTAAAATT
Found at i:2691222 original size:19 final size:19
Alignment explanation
Indices: 2691183--2691266 Score: 108
Period size: 19 Copynumber: 4.7 Consensus size: 19
2691173 TTTCAACGAT
2691183 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
2691203 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
2691222 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
2691236 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
2691254 TTGTATCGATACA
1 TTGTATCGATACA
2691267 ATATAAGCTA
Statistics
Matches: 58, Mismatches: 0, Indels: 13
0.82 0.00 0.18
Matches are distributed among these distances:
13 11 0.19
15 2 0.03
17 2 0.03
19 29 0.50
20 14 0.24
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2691241 original size:13 final size:13
Alignment explanation
Indices: 2691223--2691247 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2691213 ACATAAGTGT
2691223 TGTATCGATACAA
1 TGTATCGATACAA
2691236 TGTATCGATACA
1 TGTATCGATACA
2691248 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2691245 original size:32 final size:32
Alignment explanation
Indices: 2691204--2691268 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
2691194 CATAAAGTGT
2691204 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2691236 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2691268 T
1 T
2691269 ATAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2691354 original size:52 final size:52
Alignment explanation
Indices: 2691310--2691438 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
2691300 CACTGATCTT
2691310 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2691362 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2691414 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGTAGGCAAATTT
2691439 TCATATTTGG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2692333 original size:20 final size:21
Alignment explanation
Indices: 2692292--2692333 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2692282 CAGCCCATGA
**
2692292 TTCATGCATTTTGAGCTATGT
1 TTCATGCATTTACAGCTATGT
2692313 TTCATGCATTTACAG-TATGT
1 TTCATGCATTTACAGCTATGT
2692333 T
1 T
2692334 CAGCACCTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (21 bp):
TTCATGCATTTACAGCTATGT
Found at i:2694617 original size:20 final size:20
Alignment explanation
Indices: 2694592--2694630 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2694582 TACTGCCAAG
2694592 GAAATGTATCGATACATTAC
1 GAAATGTATCGATACATTAC
*
2694612 GAAATGTATCGATGCATTA
1 GAAATGTATCGATACATTA
2694631 TATCGATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (20 bp):
GAAATGTATCGATACATTAC
Found at i:2699557 original size:13 final size:13
Alignment explanation
Indices: 2699539--2699595 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
2699529 CATAAAGTGT
2699539 TGTATCGATACAA
1 TGTATCGATACAA
2699552 TGTATCGATACATAAGTA
1 TGTATCGATAC---A--A
2699570 TTGTATCGATACAA
1 -TGTATCGATACAA
2699584 TGTATCGATACA
1 TGTATCGATACA
2699596 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2699576 original size:19 final size:19
Alignment explanation
Indices: 2699552--2699614 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
2699542 ATCGATACAA
2699552 TGTATCGATACATAAGTAT
1 TGTATCGATACATAAGTAT
2699571 TGTATCGATAC---A--A-
1 TGTATCGATACATAAGTAT
*
2699584 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTAT
2699603 TGTATCGATACA
1 TGTATCGATACA
2699615 ATTTAAGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
16 2 0.05
19 23 0.62
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAAGTAT
Found at i:2699579 original size:32 final size:32
Alignment explanation
Indices: 2699519--2699616 Score: 160
Period size: 32 Copynumber: 3.0 Consensus size: 32
2699509 TTCAACGATT
* *
2699519 TGTATCGAAACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTATTGTATCGATACAA
2699552 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
2699584 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2699616 T
1 T
2699617 TTAAGCTACT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 50 0.81
33 12 0.19
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2699669 original size:13 final size:15
Alignment explanation
Indices: 2699635--2699675 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
2699625 CTACCAAAAA
2699635 ATGTATCGATACATT
1 ATGTATCGATACATT
2699650 ATGTATCGATACA-T
1 ATGTATCGATACATT
2699664 -TGTATCGATACA
1 ATGTATCGATACA
2699676 CTGATCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 12 0.46
14 1 0.04
15 13 0.50
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (15 bp):
ATGTATCGATACATT
Found at i:2699728 original size:52 final size:52
Alignment explanation
Indices: 2699684--2699860 Score: 336
Period size: 52 Copynumber: 3.4 Consensus size: 52
2699674 CACTGATCTT
*
2699684 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2699736 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2699788 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2699840 TGTATCGATACATGCAGGCAA
1 TGTATCGATACATGCAGGCAA
2699861 CTTTTCATAT
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 123 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2705475 original size:1 final size:1
Alignment explanation
Indices: 2705471--2705531 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
2705461 GTAAAAACAC
* * * * * * * *
2705471 AAAAAAAAAAAAGAAAAAGAAAGAAAAAAAAAGAAAAAAGACAAAAAAACAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2705532 CACACACACA
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Done.