Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 160 of 444
Found at i:43931344 original size:27 final size:27
Alignment explanation
Indices: 43931314--43931366 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
43931304 GGGTGTTTTG
43931314 GTAAATCTACAAACCAAGGGTATTTCA
1 GTAAATCTACAAACCAAGGGTATTTCA
* * * *
43931341 GTAATTTTGCAAACCAATGGTATTTC
1 GTAAATCTACAAACCAAGGGTATTTC
43931367 TCTAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (27 bp):
GTAAATCTACAAACCAAGGGTATTTCA
Found at i:43931472 original size:54 final size:54
Alignment explanation
Indices: 43931329--43931512 Score: 217
Period size: 54 Copynumber: 3.4 Consensus size: 54
43931319 TCTACAAACC
* * * * *
43931329 AAGGGTATTTCAGTAATTTTGCAAACCAATGGTATTTCTCTAATTTTTAGAAAGTC
1 AAGGGTATTTCAGTAATTTTGCAAATCAAGGGTATTTCTATAA-TTTTACAAA-TT
* * * * * *
43931385 AAGGATATTTCTGTAATTTTGTAAATTAGGGGTATTTCTATAATTTTCCAAATT
1 AAGGGTATTTCAGTAATTTTGCAAATCAAGGGTATTTCTATAATTTTACAAATT
* *
43931439 AAGGGTATTTCAGTAATTTTCCAAATCAAGGGTATTT-TGGTAATTTTACAAATT
1 AAGGGTATTTCAGTAATTTTGCAAATCAAGGGTATTTCT-ATAATTTTACAAATT
43931493 AAGGGTATTTCAGTAATTTT
1 AAGGGTATTTCAGTAATTTT
43931513 ACAAGTTGGG
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.01
54 65 0.60
55 7 0.06
56 35 0.32
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.42
Consensus pattern (54 bp):
AAGGGTATTTCAGTAATTTTGCAAATCAAGGGTATTTCTATAATTTTACAAATT
Found at i:43931500 original size:81 final size:82
Alignment explanation
Indices: 43931302--43931540 Score: 232
Period size: 81 Copynumber: 2.9 Consensus size: 82
43931292 TTTTACCTAT
* * * ** * ** *
43931302 AAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGCAAACCAATGGTATTTC
1 AAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATTAAGGGTATTTC
** *
43931367 TCTAATTTTTAGAAAGTC
66 AGTAA-TTTTACAAAGTC
* ** * *
43931385 AAGGATATTTCT-GTAATTTTGTAAATTAGGGGTATTTCTA-TAATTTTCCAAATTAAGGGTATT
1 AAGGGTATTT-TGGTAATTTTACAAATTAAGGGTATTTC-AGTAATTTTACAAATTAAGGGTATT
*
43931448 TCAGTAATTTTCCAAA-TC
64 TCAGTAATTTTACAAAGTC
* **
43931466 AAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAGTTGGGGGTATTTC
1 AAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATTAAGGGTATTTC
*
43931531 GGTAATTTTA
66 AGTAATTTTA
43931541 TAGGTTGATG
Statistics
Matches: 125, Mismatches: 27, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
80 2 0.02
81 63 0.50
82 7 0.06
83 51 0.41
84 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (82 bp):
AAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATTAAGGGTATTTC
AGTAATTTTACAAAGTC
Found at i:43931513 original size:27 final size:27
Alignment explanation
Indices: 43931329--43931540 Score: 192
Period size: 27 Copynumber: 7.8 Consensus size: 27
43931319 TCTACAAACC
* **
43931329 AAGGGTATTTCAGTAATTTTGCAAACC
1 AAGGGTATTTCAGTAATTTTACAAATT
* ** * *
43931356 AATGGTATTTCTCTAATTTTTAGAAAGTC
1 AAGGGTATTTCAGTAA-TTTTACAAA-TT
* * **
43931385 AAGGATATTTCTGTAATTTTGTAAATT
1 AAGGGTATTTCAGTAATTTTACAAATT
* *
43931412 AGGGGTATTTCTA-TAATTTTCCAAATT
1 AAGGGTATTTC-AGTAATTTTACAAATT
* *
43931439 AAGGGTATTTCAGTAATTTTCCAAATC
1 AAGGGTATTTCAGTAATTTTACAAATT
**
43931466 AAGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTCAGTAATTTTACAAATT
*
43931493 AAGGGTATTTCAGTAATTTTACAAGTT
1 AAGGGTATTTCAGTAATTTTACAAATT
** *
43931520 GGGGGTATTTCGGTAATTTTA
1 AAGGGTATTTCAGTAATTTTA
43931541 TAGGTTGATG
Statistics
Matches: 152, Mismatches: 29, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
26 1 0.01
27 123 0.81
28 14 0.09
29 14 0.09
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (27 bp):
AAGGGTATTTCAGTAATTTTACAAATT
Found at i:43931526 original size:54 final size:54
Alignment explanation
Indices: 43931304--43931621 Score: 212
Period size: 54 Copynumber: 5.9 Consensus size: 54
43931294 TTACCTATAA
* * * ** * ** *
43931304 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGCAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATTAG
* * * * * * **
43931358 TGGTATTTCT-CTAATTTTTAGAAAGTCAAGGATATTTCTGTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAA-TTTTACAAA-TTAAGGGTATTTCAGTAATTTTACAAATTAG
* * * * *
43931414 GGGTATTTCT-ATAATTTTCCAAATTAAGGGTATTTCAGTAATTTTCCAAATCAA
1 GGGTATTT-TGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATTAG
* *
43931468 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAGTTGG
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATTAG
* * ** * * * **
43931522 GGGTATTTCGGTAATTTTATAGGTTGATGGTATTTC-GATAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAG-TAATTTTACAAATTAG
* ** ** *
43931576 GGGTACTTTGGTAATTTTGTAAACCAAAGGTATTT-AGTAATTTTAC
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTAC
43931622 CCTACAAGGG
Statistics
Matches: 206, Mismatches: 52, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
53 10 0.05
54 146 0.71
55 14 0.07
56 36 0.17
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATTAG
Found at i:43931547 original size:27 final size:27
Alignment explanation
Indices: 43931414--43931570 Score: 134
Period size: 27 Copynumber: 5.8 Consensus size: 27
43931404 TGTAAATTAG
** * * *
43931414 GGGTATTTCTATAATTTTCCAAATTAA
1 GGGTATTTCGGTAATTTTACAAGTTGA
* * * **
43931441 GGGTATTTCAGTAATTTTCCAAATCAA
1 GGGTATTTCGGTAATTTTACAAGTTGA
* * *
43931468 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTCGGTAATTTTACAAGTTGA
* *
43931495 GGGTATTTCAGTAATTTTACAAGTTGG
1 GGGTATTTCGGTAATTTTACAAGTTGA
* *
43931522 GGGTATTTCGGTAATTTTATAGGTTGA
1 GGGTATTTCGGTAATTTTACAAGTTGA
* * *
43931549 TGGTATTTCGATAATTTCACAA
1 GGGTATTTCGGTAATTTTACAA
43931571 ACCAGGGGTA
Statistics
Matches: 109, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 109 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAGTTGA
Found at i:43931652 original size:27 final size:27
Alignment explanation
Indices: 43931607--43931682 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 27
43931597 AACCAAAGGT
*
43931607 ATTT-AGTAATTTTACCCTACAAGGGC
1 ATTTCAGTAATTCTACCCTACAAGGGC
* * *
43931633 ATTTCAGTAATTCTATCCTATAGGGGC
1 ATTTCAGTAATTCTACCCTACAAGGGC
* * *
43931660 AATTCAGTAATACTAGCCTACAA
1 ATTTCAGTAATTCTACCCTACAA
43931683 ATATGAGATT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 4 0.10
27 36 0.90
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAAGGGC
Found at i:43933738 original size:28 final size:27
Alignment explanation
Indices: 43933703--43933784 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 27
43933693 ATTCAATATT
43933703 AGTACAGTCTGGGCCTAAGCCCTATACAGTATC
1 AGTACAGTCTGGGCCTAAGCCC--T--A-TA-C
43933736 AGTACAGTCTGGGCCTAAGCCCTATAC
1 AGTACAGTCTGGGCCTAAGCCCTATAC
*
43933763 AGTAGCAGTGTGGGCCTAAGCC
1 AGTA-CAGTCTGGGCCTAAGCC
43933785 AAATGCAGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
27 5 0.11
28 18 0.38
29 1 0.02
31 1 0.02
33 22 0.47
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.22
Consensus pattern (27 bp):
AGTACAGTCTGGGCCTAAGCCCTATAC
Found at i:43933764 original size:33 final size:33
Alignment explanation
Indices: 43933666--43933771 Score: 149
Period size: 33 Copynumber: 3.2 Consensus size: 33
43933656 AATAACATAA
* * * * *
43933666 TATCAATACAGTCTAGGCCAAAGCCCTATTCAA
1 TATCAGTACAGTCTGGGCCTAAGCCCTATACAG
*
43933699 TATTAGTACAGTCTGGGCCTAAGCCCTATACAG
1 TATCAGTACAGTCTGGGCCTAAGCCCTATACAG
43933732 TATCAGTACAGTCTGGGCCTAAGCCCTATACAG
1 TATCAGTACAGTCTGGGCCTAAGCCCTATACAG
*
43933765 TAGCAGT
1 TATCAGT
43933772 GTGGGCCTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (33 bp):
TATCAGTACAGTCTGGGCCTAAGCCCTATACAG
Found at i:43933793 original size:28 final size:27
Alignment explanation
Indices: 43933703--43933794 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 27
43933693 ATTCAATATT
43933703 AGTACAGTCTGGGCCTAAGCCCTATACAGTATC
1 AGTACAGTCTGGGCCTAAG-CC-A-A-A-TA-C
**
43933736 AGTACAGTCTGGGCCTAAGCCCTATAC
1 AGTACAGTCTGGGCCTAAGCCAAATAC
* *
43933763 AGTAGCAGTGTGGGCCTAAGCCAAATGC
1 AGTA-CAGTCTGGGCCTAAGCCAAATAC
43933791 AGTA
1 AGTA
43933795 ACAATATAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.10
28 25 0.48
29 1 0.02
32 2 0.04
33 19 0.37
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (27 bp):
AGTACAGTCTGGGCCTAAGCCAAATAC
Found at i:43934065 original size:27 final size:26
Alignment explanation
Indices: 43934035--43934128 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 26
43934025 GGGCATAATC
43934035 GTCATTTTACCATATAGGGGTATTACA
1 GTCATTTTACC-TATAGGGGTATTACA
* * *
43934062 GTCACTTTACCCTACAGGGGCATTACA
1 GTCATTTTA-CCTATAGGGGTATTACA
* **
43934089 GTCTTTTTACCTATTAGGGGTATTTTA
1 GTCATTTTACCTA-TAGGGGTATTACA
*
43934116 GTCATTTCACCTA
1 GTCATTTTACCTA
43934129 CAAGGGTGTT
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 4 0.07
27 48 0.89
28 2 0.04
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACA
Found at i:43934292 original size:53 final size:53
Alignment explanation
Indices: 43934157--43934404 Score: 207
Period size: 53 Copynumber: 4.6 Consensus size: 53
43934147 TCTACAAACC
* * * ** *
43934157 AAGGGTATTTCAATAATTTTGCAAACCAATGGTATTTCTATAATTTTTAGAAAGTC
1 AAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTCTATAATTTTT--AAA-TT
** **
43934213 AAGGGTATTTTTGTAATTTTGTAAATCAGGGGTATTTCTATAATTTTTAAATT
1 AAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTCTATAATTTTTAAATT
* * * *
43934266 AAGGGTATTTTAGTAATTTTCCAAATCA-GGGTATTT-TGGTAATTTTACAAATT
1 AAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTCT-ATAATTTT-TAAATT
* ** ** **
43934319 AAGGGTATTTCAGTAATTTTACAAGTGGGGGGTATTTCGGTAA-TTTTAGGTT
1 AAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTCTATAATTTTTAAATT
* *
43934371 GAGTGTATTTCAGTAATTTTACAAA-CTAGGGGTA
1 AAGGGTATTTCAGTAATTTTACAAATC-AGGGGTA
43934405 CTTTGGTAAT
Statistics
Matches: 160, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
51 1 0.01
52 46 0.29
53 57 0.36
54 15 0.09
56 41 0.26
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (53 bp):
AAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTCTATAATTTTTAAATT
Found at i:43934339 original size:27 final size:27
Alignment explanation
Indices: 43934143--43934417 Score: 150
Period size: 27 Copynumber: 10.3 Consensus size: 27
43934133 GGTGTTTTGC
* ** *
43934143 TAATTCTACAAACCAAGGGTATTTCAA
1 TAATTTTACAAATTAAGGGTATTTCAG
* ** *
43934170 TAATTTTGCAAACCAATGGTATTTCTA-
1 TAATTTTACAAATTAAGGGTATTTC-AG
* * **
43934197 TAATTTTTAGAAAGTCAAGGGTATTTTTG
1 TAA-TTTTACAAA-TTAAGGGTATTTCAG
** * *
43934226 TAATTTTGTAAATCAGGGGTATTTCTA-
1 TAATTTTACAAATTAAGGGTATTTC-AG
* *
43934253 TAATTTT-TAAATTAAGGGTATTTTAG
1 TAATTTTACAAATTAAGGGTATTTCAG
* * **
43934279 TAATTTTCCAAA-TCAGGGTATTTTGG
1 TAATTTTACAAATTAAGGGTATTTCAG
43934305 TAATTTTACAAATTAAGGGTATTTCAG
1 TAATTTTACAAATTAAGGGTATTTCAG
* *** *
43934332 TAATTTTACAAGTGGGGGGTATTTCGG
1 TAATTTTACAAATTAAGGGTATTTCAG
** * *
43934359 TAATTTT--AGGTTGAGTGTATTTCAG
1 TAATTTTACAAATTAAGGGTATTTCAG
* * *
43934384 TAATTTTACAAACTAGGGGTACTTT-GG
1 TAATTTTACAAATTAAGGGTA-TTTCAG
43934411 TAATTTT
1 TAATTTT
43934418 GTAAACCAAA
Statistics
Matches: 196, Mismatches: 41, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
25 21 0.11
26 44 0.22
27 100 0.51
28 18 0.09
29 13 0.07
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
TAATTTTACAAATTAAGGGTATTTCAG
Found at i:43934386 original size:25 final size:25
Alignment explanation
Indices: 43934320--43934391 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
43934310 TTACAAATTA
43934320 AGGGTATTTCAGTAATTTTACAAGTGG
1 AGGGTATTTCAGTAATTTT--AAGTGG
* * * *
43934347 GGGGTATTTCGGTAATTTTAGGTTG
1 AGGGTATTTCAGTAATTTTAAGTGG
*
43934372 AGTGTATTTCAGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
43934392 CAAACTAGGG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 21 0.55
27 17 0.45
ACGTcount: A:0.25, C:0.06, G:0.26, T:0.43
Consensus pattern (25 bp):
AGGGTATTTCAGTAATTTTAAGTGG
Found at i:43934464 original size:27 final size:27
Alignment explanation
Indices: 43934431--43934494 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
43934421 AACCAAAGGT
43934431 ATTCAGTAATTCTACACTACAAGGGCA
1 ATTCAGTAATTCTACACTACAAGGGCA
* * *
43934458 TTTCAGTAATTCTACCCTACAGGGGCA
1 ATTCAGTAATTCTACACTACAAGGGCA
43934485 ATTCAGTAAT
1 ATTCAGTAAT
43934495 ACTAGCCTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (27 bp):
ATTCAGTAATTCTACACTACAAGGGCA
Found at i:43934503 original size:27 final size:26
Alignment explanation
Indices: 43934431--43934506 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 26
43934421 AACCAAAGGT
*
43934431 ATTCAGTAATTCTACACTACAAGGGCA
1 ATTCAGTAATTCTAC-CTACAGGGGCA
*
43934458 TTTCAGTAATTCTACCCTACAGGGGCA
1 ATTCAGTAATTCTA-CCTACAGGGGCA
*
43934485 ATTCAGTAATACTAGCCTACAG
1 ATTCAGTAATTCTA-CCTACAG
43934507 ATATGAGATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 42 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (26 bp):
ATTCAGTAATTCTACCTACAGGGGCA
Found at i:43937446 original size:25 final size:27
Alignment explanation
Indices: 43937409--43937458 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
43937399 TCAAACATGC
43937409 ATTTAGGTCAATTTAAC-CCTAGGGAT
1 ATTTAGGTCAATTTAACTCCTAGGGAT
* *
43937435 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
43937459 GTAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGAT
Found at i:43940608 original size:39 final size:40
Alignment explanation
Indices: 43940404--43940607 Score: 326
Period size: 40 Copynumber: 5.2 Consensus size: 40
43940394 ATTCCAAGTA
* *
43940404 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
43940443 CCTTCGGGACTTAGCCCGAATATAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43940483 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
43940523 CCTTCGGGACTTAGCCC-GATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
43940562 CCTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
43940601 CCTTCGG
1 CCTTCGG
43940608 ATCTTAGTCC
Statistics
Matches: 153, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
38 11 0.07
39 66 0.43
40 75 0.49
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:43940614 original size:78 final size:80
Alignment explanation
Indices: 43940404--43940607 Score: 335
Period size: 78 Copynumber: 2.6 Consensus size: 80
43940394 ATTCCAAGTA
* *
43940404 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATA
*
43940467 GTCATTAGCACAAATG
65 GTCACTAGCACAAATG
*
43940483 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG-ATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAG
43940547 TCACTAGCACAAATG
66 TCACTAGCACAAATG
43940562 CCTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGG
43940608 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
78 40 0.34
79 38 0.32
80 40 0.34
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAG
TCACTAGCACAAATG
Found at i:43942039 original size:13 final size:13
Alignment explanation
Indices: 43942023--43942050 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43942013 TTTATTATTT
43942023 TTAACACAAAATA
1 TTAACACAAAATA
43942036 TTAACACAAAATA
1 TTAACACAAAATA
43942049 TT
1 TT
43942051 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:43948592 original size:40 final size:40
Alignment explanation
Indices: 43948518--43948721 Score: 335
Period size: 40 Copynumber: 5.2 Consensus size: 40
43948508 AACCCAAGTA
* *
43948518 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
43948557 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
43948597 CCTTCGGGACTTAGCCCGGATATAGTAATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
43948637 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
43948676 CCTTCGGGACTTAGCCC-GATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
43948715 CCTTCGG
1 CCTTCGG
43948722 ATATTAGTCC
Statistics
Matches: 156, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
38 7 0.04
39 63 0.40
40 85 0.54
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:43950157 original size:13 final size:13
Alignment explanation
Indices: 43950141--43950168 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43950131 TTTATTATTT
43950141 TTAACACAAAATA
1 TTAACACAAAATA
43950154 TTAACACAAAATA
1 TTAACACAAAATA
43950167 TT
1 TT
43950169 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:43955120 original size:12 final size:11
Alignment explanation
Indices: 43955091--43955139 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 11
43955081 TATAAACACC
43955091 TATTATTTATTGT
1 TATT-TTTATT-T
43955104 TATTTTCTATTT
1 TATTTT-TATTT
43955116 TATTTTTATCTT
1 TATTTTTAT-TT
*
43955128 TATTTATATTT
1 TATTTTTATTT
43955139 T
1 T
43955140 GCAATTACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.18
12 19 0.58
13 8 0.24
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:43962800 original size:40 final size:40
Alignment explanation
Indices: 43962755--43962921 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
43962745 CGGAATATAA
43962755 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
43962795 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
43962835 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43962875 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
43962914 CCGGATAT
1 CCGGATAT
43962922 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43962905 original size:80 final size:79
Alignment explanation
Indices: 43962755--43962921 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
43962745 CGGAATATAA
* *
43962755 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
43962820 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
43962835 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
43962897 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
43962914 CCGGATAT
1 CCGGATAT
43962922 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:43968151 original size:17 final size:18
Alignment explanation
Indices: 43968129--43968163 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
43968119 TCACATTGAA
43968129 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
43968146 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
43968164 CTCCGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:43969321 original size:29 final size:29
Alignment explanation
Indices: 43969232--43969349 Score: 116
Period size: 29 Copynumber: 4.1 Consensus size: 29
43969222 ACATACATGC
* *
43969232 ATATGGCCCACTT-GGCCC-AATCTCATTT
1 ATATGGCCCA-TTAGGCCCAAATCACCTTT
* * * ** *
43969260 ATATGGCCCATCAGGCCCAATTTATATTC
1 ATATGGCCCATTAGGCCCAAATCACCTTT
*
43969289 ATATGACCCATTAGGCCCAAATCACCTTT
1 ATATGGCCCATTAGGCCCAAATCACCTTT
*
43969318 ATATGGCCCATTAGGCCCATATCACC-TT
1 ATATGGCCCATTAGGCCCAAATCACCTTT
43969346 ATAT
1 ATAT
43969350 TTATGCTCAC
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
27 1 0.01
28 21 0.29
29 51 0.70
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.31
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACCTTT
Found at i:43973773 original size:28 final size:27
Alignment explanation
Indices: 43973742--43973794 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
43973732 ATATACATGC
**
43973742 ATATGGCCCATTTGGCCCAATCTCATTT
1 ATATGGCCCATCAGGCCCAAT-TCATTT
43973770 ATATGGCCCATCAGGCCCAATTCAT
1 ATATGGCCCATCAGGCCCAATTCAT
43973795 ATTCAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (27 bp):
ATATGGCCCATCAGGCCCAATTCATTT
Found at i:43973814 original size:29 final size:28
Alignment explanation
Indices: 43973748--43973816 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
43973738 ATGCATATGG
* * *
43973748 CCCATTTGGCCCAATCTCATTTATATGG
1 CCCATTAGGCCCAATCTCATTTAAATGA
*
43973776 CCCATCAGGCCCAAT-TCATATTCAAATGA
1 CCCATTAGGCCCAATCTCAT-TT-AAATGA
43973805 CCCATTAGGCCC
1 CCCATTAGGCCC
43973817 CAAATCACCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 4 0.12
28 15 0.44
29 15 0.44
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.28
Consensus pattern (28 bp):
CCCATTAGGCCCAATCTCATTTAAATGA
Found at i:43994420 original size:32 final size:32
Alignment explanation
Indices: 43994384--43994446 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
43994374 AACTACAACT
* *
43994384 GATACAGCATCTTTCTTTCTTGGTGACAACAG
1 GATACAGCATATTTCTTTCTCGGTGACAACAG
*
43994416 GATACATCATATTTCTTTCTCGGTGACAACA
1 GATACAGCATATTTCTTTCTCGGTGACAACA
43994447 ACAATCCCGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (32 bp):
GATACAGCATATTTCTTTCTCGGTGACAACAG
Found at i:44000123 original size:2 final size:2
Alignment explanation
Indices: 44000116--44000141 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44000106 GCTCTTGCAC
44000116 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
44000142 GTTTGCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44002410 original size:124 final size:122
Alignment explanation
Indices: 44002190--44002411 Score: 293
Period size: 124 Copynumber: 1.8 Consensus size: 122
44002180 GAATTATGTG
* * * *
44002190 GAATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATAATACCCGGGC
1 GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
* * * **
44002255 TAAGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
44002312 GAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCG
1 GAATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAATAATACCCG
*
44002376 GGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
63 GGCTAAGCCCCGAAGACAATTATGCTAGAAATTATA
44002412 TCCGGGTTAA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
122 16 0.19
124 65 0.77
125 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (122 bp):
GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:44002455 original size:40 final size:40
Alignment explanation
Indices: 44002370--44002520 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
44002360 AATTGAATGA
* * * *
44002370 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
44002410 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
44002451 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
44002490 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
44002521 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:44002534 original size:40 final size:40
Alignment explanation
Indices: 44002407--44002536 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
44002397 ATGCTGGAAA
* * *
44002407 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
44002447 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
44002487 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
44002527 TTATATCCGG
1 TTATATCCGG
44002537 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:44002535 original size:80 final size:80
Alignment explanation
Indices: 44002369--44002536 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
44002359 AAATTGAATG
* *
44002369 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
44002434 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
44002449 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
44002512 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
44002529 ATATCCGG
1 ATATCCGG
44002537 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:44004127 original size:40 final size:40
Alignment explanation
Indices: 44004083--44004188 Score: 160
Period size: 40 Copynumber: 2.6 Consensus size: 40
44004073 CTAAGTCCCG
*
44004083 AAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCA
1 AAGGCATTTGTGCT-AGTTACTAAATCCGGACTAAGATCCA
* * *
44004123 AAGGCATTTGTGCGAGTTACTAAATTCGGACTAAGATCCG
1 AAGGCATTTGTGCTAGTTACTAAATCCGGACTAAGATCCA
44004163 AAGGCATTTGTGCTAGTTACTAAATC
1 AAGGCATTTGTGCTAGTTACTAAATC
44004189 AGGGTTAAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 52 0.88
41 7 0.12
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (40 bp):
AAGGCATTTGTGCTAGTTACTAAATCCGGACTAAGATCCA
Found at i:44004204 original size:40 final size:39
Alignment explanation
Indices: 44004080--44004224 Score: 159
Period size: 40 Copynumber: 3.6 Consensus size: 39
44004070 GGGCTAAGTC
* *
44004080 CCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGC-GAGTTACTAAAT-CGGACTAAGAT
*
44004120 CCAAAGGCATTTGTGCGAGTTACTAAATTCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAA-TCGGACTAAGAT
* **
44004160 CCGAAGGCATTTGTGCTAGTTACTAAATCAGGGTTAAG-T
1 CCGAAGGCATTTGTGCGAGTTACTAAATC-GGACTAAGAT
* *
44004199 CCCGAAGGCCTTTGTGCGAGCTACTA
1 -CCGAAGGCATTTGTGCGAGTTACTA
44004225 TAACCGGGCT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
39 3 0.03
40 80 0.88
41 8 0.09
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCGGACTAAGAT
Found at i:44004241 original size:40 final size:40
Alignment explanation
Indices: 44004070--44004252 Score: 144
Period size: 40 Copynumber: 4.6 Consensus size: 40
44004060 AATGATGTCC
* *
44004070 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACTAAATCA
* * *
44004110 GGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAAATTC-
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAA-TCA
* * *
44004150 GGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTAAATCA
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATCA
* * *
44004190 GGGTTAAGTCCCGAAGGCCTTTGTGCGAGCTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTA-AATCA
* * *
44004230 GGGCTATGTCCCAAAGGTATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
44004253 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.03
40 104 0.87
41 13 0.11
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAATCA
Found at i:44004252 original size:80 final size:80
Alignment explanation
Indices: 44004067--44004252 Score: 191
Period size: 80 Copynumber: 2.3 Consensus size: 80
44004057 TCAAATGATG
* *
44004067 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTGACTAAATCAGGACTAAGATCCAAAGGCATTT
*
44004132 GTGCGAGTTACTAAA
66 GTGCGAGCTACTAAA
* * * ** * *
44004147 TTCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGTTACTAAATCAGGGTTAAG-TCCCGAAGGCC
1 TCCGGGCTAAG-TCCCGAAGG-ATTTGTGCTAAGTGACTAAATCAGGACTAAGAT-CCAAAGGCA
44004209 TTTGTGCGAGCTACTATAA
63 TTTGTGCGAGCTACTA-AA
* *
44004228 -CCGGGCTATGTCCCAAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGG-ATTTG
44004253 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
79 2 0.02
80 73 0.85
81 11 0.13
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTGACTAAATCAGGACTAAGATCCAAAGGCATTT
GTGCGAGCTACTAAA
Found at i:44012295 original size:40 final size:40
Alignment explanation
Indices: 44012121--44012306 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
44012111 TCGAATGATG
* *
44012121 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
44012161 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44012201 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
44012241 TCTGGGTTAAGTCCCAAAGGCCTTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
44012282 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44012307 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 116 0.91
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44014247 original size:49 final size:50
Alignment explanation
Indices: 44014178--44014418 Score: 252
Period size: 49 Copynumber: 4.8 Consensus size: 50
44014168 ATCTATTGTG
* * *
44014178 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATTATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
44014228 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * * * **
44014278 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * * *
44014328 AGGTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCGGGTAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
** * *
44014378 -GGTTGCATGTGTTGTACTAAGTGCAGGCTACTATGCGTACC
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
44014419 TAATAGCTTT
Statistics
Matches: 157, Mismatches: 32, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 75 0.48
50 45 0.29
51 37 0.24
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:44018051 original size:24 final size:24
Alignment explanation
Indices: 44018019--44018081 Score: 110
Period size: 24 Copynumber: 2.6 Consensus size: 24
44018009 AATCTCAAAT
44018019 GCACTATGTGTGCGATTTA-TGATG
1 GCACTATGTGTGCGATTTACT-ATG
44018043 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
44018067 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
44018082 ACATAATAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 37 0.97
25 1 0.03
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:44018982 original size:16 final size:17
Alignment explanation
Indices: 44018963--44018996 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
44018953 AGTAGAAATG
44018963 AAATTAAGTAAT-GAAT
1 AAATTAAGTAATCGAAT
*
44018979 AAATTATGTAATCGAAT
1 AAATTAAGTAATCGAAT
44018996 A
1 A
44018997 TCGATGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (17 bp):
AAATTAAGTAATCGAAT
Found at i:44020557 original size:16 final size:16
Alignment explanation
Indices: 44020538--44020568 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44020528 CTTCTTCACT
44020538 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
44020554 TACTTACTTACTTAA
1 TACTCACTTACTTAA
44020569 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:44020574 original size:20 final size:20
Alignment explanation
Indices: 44020535--44020574 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
44020525 AAACTTCTTC
* *
44020535 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
44020555 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
44020575 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:44020591 original size:20 final size:20
Alignment explanation
Indices: 44020568--44020607 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
44020558 TACTTACTTA
44020568 ATCAAATTTATTAATACATT
1 ATCAAATTTATTAATACATT
44020588 ATCAAATTTATTAATACATT
1 ATCAAATTTATTAATACATT
44020608 TTACTTACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (20 bp):
ATCAAATTTATTAATACATT
Found at i:44021031 original size:55 final size:52
Alignment explanation
Indices: 44020825--44021032 Score: 211
Period size: 55 Copynumber: 3.9 Consensus size: 52
44020815 ATCACTTTGA
* * * * * *
44020825 AACTTACCATTGTCATGTCTCGACATGGTCTTACATGGTATCATTGCCTTATG
1 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTA-G
* *
44020878 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTGCC-T-TAG
** * * *
44020932 TAACTTATTAATGCCATGTCTTGACATGGTCTTACATGGAATCCTTGCCTTAG
1 -AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTAG
*
44020985 AAACCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -AA-CTTACCAA-TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
44021033 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
52 1 0.01
53 43 0.34
54 9 0.07
55 72 0.57
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (52 bp):
AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTAG
Found at i:44021403 original size:30 final size:30
Alignment explanation
Indices: 44021369--44021427 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
44021359 TCCTTGACTC
44021369 AAACTTTGGA-AAAATTACACTTTTGCCCCT
1 AAACTTT-GACAAAATTACACTTTTGCCCCT
* * *
44021399 AAACTTTTACATATTTACACTTTTGCCCC
1 AAACTTTGACAAAATTACACTTTTGCCCC
44021428 AAGGCTCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AAACTTTGACAAAATTACACTTTTGCCCCT
Found at i:44024850 original size:37 final size:37
Alignment explanation
Indices: 44024806--44024881 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
44024796 ATCTCTTACA
44024806 TATTATAGCTTCAGTCGAAACACATTCTCGAGCATAT
1 TATTATAGCTTCAGTCGAAACACATTCTCGAGCATAT
44024843 TATTATAGCTTCAGTCGAAACACATTCTCGAGCATAT
1 TATTATAGCTTCAGTCGAAACACATTCTCGAGCATAT
44024880 TA
1 TA
44024882 ACTCAATCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (37 bp):
TATTATAGCTTCAGTCGAAACACATTCTCGAGCATAT
Found at i:44027977 original size:56 final size:56
Alignment explanation
Indices: 44027891--44028076 Score: 273
Period size: 56 Copynumber: 3.3 Consensus size: 56
44027881 CATGGCATCA
* * * * *
44027891 ATATATGTGTGTGGGTAAGACCACATTTAATACGTTAGCCTCGATATGTAACTCCG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTAGCATCGATATGTGACTCCG
*
44027947 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTCCG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTAGCATCGATATGTGACTCCG
* * *
44028003 ATATATGTGTGCAAGTAAGACCACGTTTAATATGTTTGCATCGATATGTGACTCCG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTAGCATCGATATGTGACTCCG
* *
44028059 ATTTATGTGTACGAGTAA
1 ATATATGTGTGCGAGTAA
44028077 AACCCTATCT
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTAGCATCGATATGTGACTCCG
Found at i:44029836 original size:37 final size:37
Alignment explanation
Indices: 44029786--44029863 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
44029776 TATAAAAGAA
44029786 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
44029823 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
44029860 GTCT
1 GTCT
44029864 CGCCCGGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:44030026 original size:49 final size:49
Alignment explanation
Indices: 44029966--44030088 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
44029956 CATATATTTT
*
44029966 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
44030015 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
44030064 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
44030089 CATATATGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
Found at i:44033952 original size:2 final size:2
Alignment explanation
Indices: 44033945--44033977 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
44033935 GGCTATATTG
44033945 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44033978 CTTAGCCACA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44034819 original size:28 final size:29
Alignment explanation
Indices: 44034788--44034842 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
44034778 ATTCATATAT
*
44034788 ATATGTTACATATT-T-TCAATTCATTTGC
1 ATATATTACATATTGTCTC-ATTCATTTGC
*
44034816 ATATATTGCATATTGTCTCATTCATTT
1 ATATATTACATATTGTCTCATTCATTT
44034843 ATCACATATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 12 0.52
29 9 0.39
30 2 0.09
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.51
Consensus pattern (29 bp):
ATATATTACATATTGTCTCATTCATTTGC
Found at i:44035188 original size:44 final size:44
Alignment explanation
Indices: 44035023--44035222 Score: 178
Period size: 44 Copynumber: 4.6 Consensus size: 44
44035013 ATATCGTACA
* ** * *
44035023 ATGCCAACATCCCAGATGTGGTCTTACATGT-AATCA-AATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCG
* **
44035066 ATGCC-ACTGTCCTAGACAAAGTCTTACACG-AAATCA-AA-TACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCATAAGT-CG
* * * * *
44035108 ATGTCAACGTCCCAGACGTGGTCTTATACATAAAATCATAAGTCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AAATCATAAGTCG
* *
44035153 ATGCCAACGTCCTAGACATGGTTTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCATAAGTCG
*
44035197 ATGCCAACGTCCCAGACGTGGTCTTA
1 ATGCCAACGTCCCAGACATGGTCTTA
44035223 TAGGATAACA
Statistics
Matches: 124, Mismatches: 25, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 24 0.19
43 29 0.23
44 41 0.33
45 28 0.23
46 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCATAAGTCG
Found at i:44056962 original size:27 final size:27
Alignment explanation
Indices: 44056920--44057037 Score: 121
Period size: 27 Copynumber: 4.4 Consensus size: 27
44056910 AAACATATAT
**
44056920 CACAT-AGGGCCAAAACTGTCATTTTAC
1 CACATAAGGG-CAAAACAATCATTTTAC
* * *
44056947 CATATAAGGGAAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* *
44056974 CACATGAGGGCAAAACAATCATTTTAA
1 CACATAAGGGCAAAACAATCATTTTAC
* * *
44057001 CACAAAAGGGCAAAACAATCATTCTAT
1 CACATAAGGGCAAAACAATCATTTTAC
*
44057028 CATATAAGGG
1 CACATAAGGG
44057038 GGTCTAGTGT
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
27 72 0.95
28 4 0.05
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAACAATCATTTTAC
Found at i:44061749 original size:46 final size:46
Alignment explanation
Indices: 44061699--44061874 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
44061689 TGGTTGAGCA
44061699 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44061745 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44061790 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
44061838 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44061875 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44061855 original size:93 final size:93
Alignment explanation
Indices: 44061696--44061866 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
44061686 GGATGGTTGA
* *
44061696 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44061761 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44061789 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44061854 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
44061867 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44064861 original size:15 final size:15
Alignment explanation
Indices: 44064822--44064901 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
44064812 GTATCTTGGG
*
44064822 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
44064837 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
44064852 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
44064867 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
44064882 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
44064896 TTTCTT
1 TTTCTT
44064902 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:44064891 original size:30 final size:30
Alignment explanation
Indices: 44064813--44064900 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
44064803 CATAGTATCG
* * *
44064813 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
44064843 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
44064873 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
44064901 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:44067329 original size:46 final size:46
Alignment explanation
Indices: 44067279--44067454 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
44067269 TGGTTGAGCA
44067279 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44067325 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44067370 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
44067418 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44067455 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44067435 original size:93 final size:93
Alignment explanation
Indices: 44067276--44067446 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
44067266 GGATGGTTGA
* *
44067276 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44067341 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44067369 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44067434 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
44067447 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44072220 original size:27 final size:27
Alignment explanation
Indices: 44072186--44072358 Score: 247
Period size: 27 Copynumber: 6.4 Consensus size: 27
44072176 TGGATAAGTT
** *
44072186 GTAGAATTACCGAAATACCTTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
44072213 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
44072240 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
44072267 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
44072294 ATAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
44072321 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
44072348 GTAAAATTACC
1 GTAGAATTACC
44072359 ATTTTTCCCC
Statistics
Matches: 131, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:44073156 original size:27 final size:26
Alignment explanation
Indices: 44073104--44073163 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
44073094 GTATATATAT
*
44073104 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
44073130 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
44073157 ATATCTG
1 ATATCTG
44073164 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:44074415 original size:27 final size:26
Alignment explanation
Indices: 44074380--44074487 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
44074370 AGCATGGCTG
* * *
44074380 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGAAAATGTGGCAGAGCCA
*
44074406 CCAGATACAGAAAATCATGGCAGAGCCA
1 CCAGA-ACAGAAAAT-GTGGCAGAGCCA
*
44074434 CCAGAATAGAAATATGTGGCAGAGCCA
1 CCAGAACAGAAA-ATGTGGCAGAGCCA
* * *
44074461 CCAGATCAGATAATGTGGCATAGCCA
1 CCAGAACAGAAAATGTGGCAGAGCCA
44074487 C
1 C
44074488 TAGGATGCTT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
26 19 0.28
27 34 0.49
28 16 0.23
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGAAAATGTGGCAGAGCCA
Found at i:44075932 original size:24 final size:24
Alignment explanation
Indices: 44075905--44075951 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
44075895 CTAGATTTCC
**
44075905 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
44075929 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
44075952 CTTTGACAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:44082216 original size:27 final size:28
Alignment explanation
Indices: 44082186--44082292 Score: 123
Period size: 27 Copynumber: 3.9 Consensus size: 28
44082176 GGTTGCCATA
* *
44082186 ACAGATAA-TGTGACAGAGTCACCAGAT
1 ACAGATAACTGTGGCAGAGCCACCAGAT
* *
44082213 ACAGAAAATTGTGGCAGAGCCACCAGA-
1 ACAGATAACTGTGGCAGAGCCACCAGAT
*
44082240 ACAGATATA-TGTGGCAGAGCCACCAAAT
1 ACAGATA-ACTGTGGCAGAGCCACCAGAT
*
44082268 -CAGATAACTGTGGCATAGCCACCAG
1 ACAGATAACTGTGGCAGAGCCACCAG
44082293 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.01
27 51 0.74
28 17 0.25
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (28 bp):
ACAGATAACTGTGGCAGAGCCACCAGAT
Found at i:44082282 original size:54 final size:54
Alignment explanation
Indices: 44082185--44082292 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
44082175 TGGTTGCCAT
* * *
44082185 AACAGATAATGTGACAGAGTCACCAGATACAGAAAATTGTGGCAGAGCCACCAG
1 AACAGATAATGTGACAGAGCCACCAAATACAGAAAACTGTGGCAGAGCCACCAG
* * *
44082239 AACAGATATATGTGGCAGAGCCACCAAAT-CAGATAACTGTGGCATAGCCACCAG
1 AACAGATA-ATGTGACAGAGCCACCAAATACAGAAAACTGTGGCAGAGCCACCAG
44082293 GACGCTTCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 30 0.64
55 17 0.36
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (54 bp):
AACAGATAATGTGACAGAGCCACCAAATACAGAAAACTGTGGCAGAGCCACCAG
Found at i:44083739 original size:24 final size:24
Alignment explanation
Indices: 44083712--44083758 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
44083702 CTAGATTTCC
** *
44083712 TCCCTTATCTGCTCTTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
44083736 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
44083759 CTCCTGACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.36, G:0.02, T:0.38
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:44090264 original size:46 final size:46
Alignment explanation
Indices: 44090211--44090386 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
44090201 TATTTGGGCA
44090211 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
44090257 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* ** *
44090304 TCCGAGCTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
44090350 CCCGAGCTCGTTGAGTTAAGTCCGAGTTCGA-TTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGG
44090387 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 63 0.59
47 31 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:44090366 original size:93 final size:93
Alignment explanation
Indices: 44090207--44090379 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
44090197 GGGATATTTG
* *
44090207 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
44090272 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTAAGTCCGAGTTCGTGAGATGTAACTA
* ** *
44090300 GGCATCCGAGCTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44090365 TTAAGTCCGAGTTCG
66 TTAAGTCCGAGTTCG
44090380 ATTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTAAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44093357 original size:15 final size:15
Alignment explanation
Indices: 44093318--44093397 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
44093308 GTATCTTGGG
*
44093318 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
44093333 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
44093348 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
44093363 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
44093378 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
44093392 TTTCTT
1 TTTCTT
44093398 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:44093387 original size:30 final size:30
Alignment explanation
Indices: 44093309--44093396 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
44093299 CATAGTATCG
* * *
44093309 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
44093339 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
44093369 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
44093397 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:44095825 original size:46 final size:46
Alignment explanation
Indices: 44095775--44095949 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
44095765 TATTTGGGCA
44095775 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
44095821 TCCGAACTCGTT-AGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
44095867 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
44095913 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44095950 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
42 4 0.04
44 2 0.02
45 18 0.17
46 61 0.56
47 18 0.17
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:44098844 original size:27 final size:27
Alignment explanation
Indices: 44098810--44099036 Score: 319
Period size: 27 Copynumber: 8.4 Consensus size: 27
44098800 TGGATAAGTT
*
44098810 GTAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
44098837 GTAGAATTATCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
44098864 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
** *
44098891 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
44098918 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
44098945 ATAGAATTATCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* **
44098972 GTAGAAATATTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
44098999 GTAGAATTACCGAAATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
44099026 GTAAAATTACC
1 GTAGAATTACC
44099037 ATTTTGCCCC
Statistics
Matches: 181, Mismatches: 19, Indels: 0
0.90 0.09 0.00
Matches are distributed among these distances:
27 181 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:44099819 original size:27 final size:26
Alignment explanation
Indices: 44099767--44099825 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
44099757 ATATATATAT
*
44099767 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
44099793 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
44099820 ATATCT
1 ATATCT
44099826 AGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:44101348 original size:40 final size:40
Alignment explanation
Indices: 44101311--44101513 Score: 178
Period size: 40 Copynumber: 5.3 Consensus size: 40
44101301 GCTACTCGTT
* *
44101311 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCAGATT-TAGTAACTCGCA
*
44101351 CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTCGCA
* * * * *
44101391 CAAATGCCTTCGGG-CTTAGCTCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTCGCA
*
44101430 CAAAT---TT----A-GTAA-CCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTCGCA
* * **
44101461 CGAATGCCTTC-GGATCTTAGTCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAACCCAGATTTAGTAACTCGCA
*
44101501 CGAATGCCTTCGG
1 CAAATGCCTTCGG
44101514 ATCTTAGTCC
Statistics
Matches: 134, Mismatches: 17, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
31 20 0.15
32 2 0.01
34 2 0.01
36 2 0.01
37 1 0.01
39 26 0.19
40 77 0.57
41 4 0.03
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTCGCA
Found at i:44101514 original size:40 final size:40
Alignment explanation
Indices: 44101442--44101532 Score: 164
Period size: 40 Copynumber: 2.3 Consensus size: 40
44101432 AATTTAGTAA
44101442 CCAGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGT
1 CCAGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGT
44101482 CCAGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGT
1 CCAGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGT
* *
44101522 CCGGATATAGT
1 CCAGATTTAGT
44101533 CACTTAGCAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (40 bp):
CCAGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGT
Found at i:44101550 original size:40 final size:40
Alignment explanation
Indices: 44101449--44101566 Score: 132
Period size: 40 Copynumber: 3.0 Consensus size: 40
44101439 TAACCAGATT
* * * *
44101449 TAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCAGATT
1 TAGTAACTAGCACGAAAGCCTTCGGATCTTAGTCCGGATA
* *
44101489 TAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATA
1 TAGTAACTAGCACGAAAGCCTTCGGATCTTAGTCCGGATA
* *
44101529 TAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TAGCACGAAAGCCTTC-GGATCTTAGTCCGGA
44101567 CATCATTCGA
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
40 62 0.89
41 8 0.11
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TAGTAACTAGCACGAAAGCCTTCGGATCTTAGTCCGGATA
Found at i:44109093 original size:18 final size:20
Alignment explanation
Indices: 44109056--44109095 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
44109046 AGCCATGACA
44109056 ATGTGTATACGTGAAAGTAT
1 ATGTGTATACGTGAAAGTAT
*
44109076 ATGTG-ATATGTG-AAGTAT
1 ATGTGTATACGTGAAAGTAT
44109094 AT
1 AT
44109096 TTGGATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 6 0.32
20 5 0.26
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (20 bp):
ATGTGTATACGTGAAAGTAT
Found at i:44109200 original size:47 final size:47
Alignment explanation
Indices: 44109149--44109484 Score: 519
Period size: 47 Copynumber: 7.1 Consensus size: 47
44109139 TTAGGATTTT
*
44109149 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
44109196 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
44109243 ATCTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
44109290 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
44109341 ATGTGATGAATGTGTACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
44109388 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
44109435 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
44109482 ATG
1 ATG
44109485 CGAAACGTGT
Statistics
Matches: 265, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
47 221 0.83
49 2 0.01
51 42 0.16
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:44109334 original size:145 final size:143
Alignment explanation
Indices: 44109171--44109484 Score: 533
Period size: 145 Copynumber: 2.2 Consensus size: 143
44109161 TGAACATGCG
*
44109171 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
*
44109236 ATGGCCAATCTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
66 ATGGCCAATCTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
*
44109301 GTGAACCCGTATATA
131 GTGAACACG-A-ATA
*
44109316 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGTACATGCGTATGTGTGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
*
44109381 ATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
66 ATGGCCAATCTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
*
44109446 GTGAACATGAATA
131 GTGAACACGAATA
*
44109459 TATGTG-G-TAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
44109485 CGAAACGTGT
Statistics
Matches: 162, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
141 18 0.11
142 1 0.01
143 9 0.06
144 1 0.01
145 133 0.82
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.27
Consensus pattern (143 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
ATGGCCAATCTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
GTGAACACGAATA
Found at i:44109345 original size:24 final size:24
Alignment explanation
Indices: 44109317--44109439 Score: 64
Period size: 24 Copynumber: 5.2 Consensus size: 24
44109307 CCGTATATAT
44109317 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
44109341 ATGTGATGA-ATGTG--TACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
44109364 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
44109388 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
44109411 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
44109435 ATGTG
1 ATGTG
44109440 ATGAATGTGA
Statistics
Matches: 69, Mismatches: 16, Indels: 28
0.61 0.14 0.25
Matches are distributed among these distances:
22 8 0.12
23 24 0.35
24 29 0.42
25 8 0.12
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:44109524 original size:46 final size:46
Alignment explanation
Indices: 44109458--44109548 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
44109448 GAACATGAAT
* * *
44109458 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * *
44109504 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
44109549 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:44109802 original size:37 final size:37
Alignment explanation
Indices: 44109694--44109802 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
44109684 GGAAATATAT
*
44109694 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
44109731 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
44109768 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
44109803 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:44113748 original size:40 final size:39
Alignment explanation
Indices: 44113507--44113748 Score: 251
Period size: 40 Copynumber: 6.1 Consensus size: 39
44113497 CGGAGTTTAA
** *
44113507 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTC-GGACTTAGC
* *
44113547 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTC-GGACTTAGC
* *
44113587 CCGGATTTAGTAACTCGTACAAATGCCTTCGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGC
*
44113625 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGA-CTTAGC
* * * *
44113665 CC-AATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGA-CTTAGC
* *
44113704 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTC-GGACTTAGC
44113744 CCGGA
1 CCGGA
44113749 CATCATTCGA
Statistics
Matches: 173, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
38 34 0.20
39 38 0.22
40 91 0.53
41 10 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGC
Found at i:44124826 original size:93 final size:92
Alignment explanation
Indices: 44124670--44124846 Score: 214
Period size: 93 Copynumber: 1.9 Consensus size: 92
44124660 CAGGTTAATT
* * * * *
44124670 GTGTGCCAGTGTAAGACATGTCTAGGACATGCATTGGCCACATTATGAGAGCTAGTGTAAGACCA
1 GTGTGCCAGTGTAAGACATGTCTAGGACATGCATCGACCACATAAAGAGAGCTAGTGCAAGACCA
* *
44124735 TGTCTGGGACATG-CATCAGCTACAAG
66 TGCCTGGAACATGACATCAGCTACAAG
* * * *
44124761 GTGTGTCAGTGTAAGACCATGTCTAGGACATGGCATCGACACGCATAAAG-GTGTTAGTGCAAGA
1 GTGTGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGAC-CACATAAAGAGAGCTAGTGCAAGA
44124825 CCATGCCTGGAACATGACATCA
63 CCATGCCTGGAACATGACATCA
44124847 ACACGGATAT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
91 15 0.21
92 14 0.20
93 31 0.44
94 11 0.15
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (92 bp):
GTGTGCCAGTGTAAGACATGTCTAGGACATGCATCGACCACATAAAGAGAGCTAGTGCAAGACCA
TGCCTGGAACATGACATCAGCTACAAG
Found at i:44124890 original size:50 final size:47
Alignment explanation
Indices: 44124677--44124890 Score: 138
Period size: 48 Copynumber: 4.5 Consensus size: 47
44124667 ATTGTGTGCC
* ***
44124677 AGTGTAAGA-CATGTCTAGGACATGCATTGGCCAC-ATTA-TGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGCA-TCAACACGA-TAGTGAGAGCT
* * *
44124723 AGTGTAAGACCATGTCTGGGACATGCATCAGCTAC-A-AG-GTGTG-T
1 AGTGTAAGACCATGTCTGGGACATGCATCAAC-ACGATAGTGAGAGCT
* * ** * *
44124767 CAGTGTAAGACCATGTCTAGGACATGGCATCGACACGCATAAAG-GTGTT
1 -AGTGTAAGACCATGTCTGGGACAT-GCATCAACACG-ATAGTGAGAGCT
* * *
44124816 AGTGCAAGACCATGCCTGGAACATGACATCAACACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATG-CATCAACAC-GATA-GTGAGAGCT
*
44124866 AGTGTAAGACCATGTTTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
44124891 GCGTCAGCCT
Statistics
Matches: 131, Mismatches: 23, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
44 1 0.01
45 29 0.22
46 17 0.13
47 21 0.16
48 35 0.27
49 4 0.03
50 24 0.18
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAACACGATAGTGAGAGCT
Found at i:44127874 original size:40 final size:40
Alignment explanation
Indices: 44127812--44128030 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
44127802 CATTTGAATG
44127812 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
44127851 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
44127891 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
44127931 ATATCCGGGCTAAGACCC-AAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
44127970 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
44128010 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
44128031 AAACTTGGGT
Statistics
Matches: 163, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 60 0.37
40 102 0.63
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:44127962 original size:79 final size:80
Alignment explanation
Indices: 44127812--44128030 Score: 320
Period size: 79 Copynumber: 2.8 Consensus size: 80
44127802 CATTTGAATG
*
44127812 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
*
44127876 TTTGTGCGAGTTGTT
66 TTTGTGCGAGTTGCT
*
44127891 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGTTATATCCGGGCTAAGACCC-AAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
44127955 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * * * * *
44127970 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA-CCCGAAG
44128031 AAACTTGGGT
Statistics
Matches: 127, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
77 1 0.01
78 9 0.07
79 76 0.60
80 41 0.32
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:44129482 original size:20 final size:21
Alignment explanation
Indices: 44129444--44129482 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44129434 TTATAATGAC
44129444 CACACAGGCGTGTTGCCCTTA
1 CACACAGGCGTGTTGCCCTTA
*
44129465 CACACGGGCGTG-TGCCCT
1 CACACAGGCGTGTTGCCCT
44129483 ATTTCAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.36, G:0.28, T:0.21
Consensus pattern (21 bp):
CACACAGGCGTGTTGCCCTTA
Found at i:44131565 original size:43 final size:43
Alignment explanation
Indices: 44131468--44131569 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 43
44131458 ACCGAGATGT
* * *
44131468 GATTACATGTAAGACCATGTCTGGAACATTAGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGAACATTAGCATCGTAATCA
* * * *
44131511 GGTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATCA
1 GATTACATGTAAGACCATGTCTGGAACATTAGCATCG-TAATCA
*
44131555 -ATTTCATGTAAGACC
1 GATTACATGTAAGACC
44131570 CTATCTAAGA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 44 0.92
44 4 0.08
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGAACATTAGCATCGTAATCA
Found at i:44132087 original size:75 final size:75
Alignment explanation
Indices: 44131959--44132129 Score: 247
Period size: 75 Copynumber: 2.3 Consensus size: 75
44131949 GACATAGGGG
*
44131959 CACGCCTGTGTCCTCAGGCCGCATAACTCTCTGTTTATGACGTCAGCACACAAATTGAACCAC-C
1 CACGCCCGTGTCCTCAGGCCGCATAACTCTCTGTTTATGACGTCAGCACACAAATTGAACCACAC
44132023 TAGCCAGGCTA
66 -AGCCAGGCTA
* * *
44132034 CACGCCCGTGTCCTCAGGCTGTATAACTCTCTGTTTATGACGTCAGCATACAAATTGAACCACAC
1 CACGCCCGTGTCCTCAGGCCGCATAACTCTCTGTTTATGACGTCAGCACACAAATTGAACCACAC
*
44132099 GGCCAGGCTA
66 AGCCAGGCTA
**
44132109 CACGATCGTGT-CTCCAGGCCG
1 CACGCCCGTGTCCT-CAGGCCG
44132130 TATCCCTCAC
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
74 2 0.02
75 83 0.97
76 1 0.01
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (75 bp):
CACGCCCGTGTCCTCAGGCCGCATAACTCTCTGTTTATGACGTCAGCACACAAATTGAACCACAC
AGCCAGGCTA
Found at i:44133871 original size:59 final size:59
Alignment explanation
Indices: 44133772--44133951 Score: 281
Period size: 59 Copynumber: 3.1 Consensus size: 59
44133762 AAGTACCACA
* * * *
44133772 TATCACAGAATCATATGCCTCTCAATGGGGCTACTCAAAAGCACTCGGACCCTAGCATG
1 TATCACATAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGGACCCTAGCATG
* *
44133831 TATCACAT-ATCCACATGCCTCTCAACGGGGTTACTGAAAAGCACCCGGACCCTAGCATG
1 TATCACATAAT-CACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGGACCCTAGCATG
*
44133890 TATCACATAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGGACCCTAACATG
1 TATCACATAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGGACCCTAGCATG
44133949 TAT
1 TAT
44133952 TACGTATCAA
Statistics
Matches: 110, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
58 2 0.02
59 106 0.96
60 2 0.02
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (59 bp):
TATCACATAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGGACCCTAGCATG
Found at i:44139488 original size:35 final size:36
Alignment explanation
Indices: 44139448--44139603 Score: 122
Period size: 35 Copynumber: 4.4 Consensus size: 36
44139438 CAAGGTTCAT
44139448 TATATCATCACATATGGCCAAATATACAAG-TACAA
1 TATATCATCACATATGGCCAAATATACAAGCTACAA
** * *
44139483 TATATCATCGTATATGACCGAATATACAAGCT-CAA
1 TATATCATCACATATGGCCAAATATACAAGCTACAA
* * * * * * * **
44139518 TAAAACATCACATGTAGTCAAATATTCATG-TTTAA
1 TATATCATCACATATGGCCAAATATACAAGCTACAA
* * * *
44139553 TATAACATCACATGTGGCCAAATATACAGGTTA-AA
1 TATATCATCACATATGGCCAAATATACAAGCTACAA
*
44139588 TATTTCATCACATATG
1 TATATCATCACATATG
44139604 TACATACATA
Statistics
Matches: 93, Mismatches: 25, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
34 1 0.01
35 90 0.97
36 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (36 bp):
TATATCATCACATATGGCCAAATATACAAGCTACAA
Found at i:44145069 original size:68 final size:69
Alignment explanation
Indices: 44144997--44145148 Score: 179
Period size: 67 Copynumber: 2.2 Consensus size: 69
44144987 CATCATGTGT
* * * *
44144997 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTAGCATGGGTGATT-CTA-TG-TGTACACC
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTAGCATGCGTGATTCCAAGTGAAGGACACC
44145059 ATGTAG
64 ATGTAG
* * *
44145065 ACAAGAGAGCTACG-G-GATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTAGCATGCGTGATTCCAAGTGAAGGACACCAT
44145128 GTAG
66 GTAG
*
44145132 ACAAGAAAGCTACGAGA
1 ACAAGAGAGCTACGAGA
44145149 TAAACTGGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 22 0.31
65 5 0.07
66 3 0.04
67 26 0.37
68 15 0.21
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (69 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTAGCATGCGTGATTCCAAGTGAAGGACACCAT
GTAG
Found at i:44149634 original size:68 final size:64
Alignment explanation
Indices: 44149557--44149761 Score: 200
Period size: 64 Copynumber: 3.1 Consensus size: 64
44149547 CATCATGTGT
*
44149557 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACGAG--A-TAT-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
44149622 TAG
62 TAG
* * * * * * *
44149625 ACAAGAGAGCTACGGGATATATGTAGCTAGCTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
44149690 AG
63 AG
* * * * *
44149692 ACAAGA-AGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
44149753 TACAAGAGA
1 -ACAAGAGA
44149762 ACAAAAATTA
Statistics
Matches: 112, Mismatches: 20, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
61 1 0.01
62 15 0.13
63 2 0.02
64 23 0.21
65 22 0.20
66 16 0.14
67 18 0.16
68 15 0.13
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:44154941 original size:28 final size:28
Alignment explanation
Indices: 44154898--44154961 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
44154888 GTGGAAGTAG
*
44154898 TTGGGCCTGATAGGCCATATGAATGTGA
1 TTGGGCCTGATAGGCCATATGAATGAGA
*
44154926 TTGGGCCTGATGGGCCATATGAATGAGA
1 TTGGGCCTGATAGGCCATATGAATGAGA
44154954 TTGGGCCT
1 TTGGGCCT
44154962 AAAGGGGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCATATGAATGAGA
Found at i:44155339 original size:26 final size:27
Alignment explanation
Indices: 44155278--44155697 Score: 435
Period size: 27 Copynumber: 15.7 Consensus size: 27
44155268 TAATAAAGAG
*
44155278 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
44155305 AAATTACTGAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
*
44155331 AAATGACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
44155358 AAATTACCGAAATACCCGCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
*
44155384 AAATTACTGAAATACCCTCTATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
44155411 AAATTACTGAAATACCTTCGA-TTATA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
44155437 AAATTACTGAAATACCCTCAATTTTTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
44155464 AAATTA-TCGAAATACCC-CTGATTTGTG
1 AAATTACT-GAAATACCCTC-GATTTGTA
* * **
44155491 AAATTACCGAAACACCCTTAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * **
44155518 AAATTATTGAAACACCCTTAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
44155545 AAATTA-TCGAAACACCCTCAATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
44155572 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
44155599 AAATTACTAAAATAACCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
44155626 AAATTCCTAAAACT-CCCTCGATTTGTA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* *
44155653 AAATTA-TCGAAATACCCT-TATAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
* *
44155680 GAATTACTAAAATACCCT
1 AAATTACTGAAATACCCT
44155698 TGTAGTGTAA
Statistics
Matches: 336, Mismatches: 43, Indels: 28
0.83 0.11 0.07
Matches are distributed among these distances:
26 76 0.23
27 258 0.77
28 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:44155721 original size:27 final size:27
Alignment explanation
Indices: 44155662--44155736 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
44155652 AAAATTATCG
* * *
44155662 AAATACCCTTATAGTGTAGAATTACTA
1 AAATACCCTTGTAGTGTAAAATAACTA
*
44155689 AAATACCCTTGTAGTGTAAAATAACTG
1 AAATACCCTTGTAGTGTAAAATAACTA
* *
44155716 ACATACTCC-TGTAGGGTAAAA
1 AAATAC-CCTTGTAGTGTAAAA
44155737 AGACTATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 39 0.95
28 2 0.05
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (27 bp):
AAATACCCTTGTAGTGTAAAATAACTA
Found at i:44157644 original size:35 final size:35
Alignment explanation
Indices: 44157579--44157758 Score: 146
Period size: 35 Copynumber: 5.1 Consensus size: 35
44157569 TACTTACTTG
* *
44157579 TATGGCCGAATACT-CAAGGTTCATTATATCATCACA
1 TATGGCCAAATA-TACAA-GTTCAATATATCATCACA
* * *
44157615 TATGGCCCAATATACAAGTACAATATATCATCATA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* ** * * * * *
44157650 TATGACGGAATATACTAGCTCAATAAAACATCGCA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * * * *
44157685 TGTAGTCAAATATTCAAGTTTAATATAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* *
44157720 TGTGGCTAAATATACAAGTTCAATATATCATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
44157755 TATG
1 TATG
44157759 TACATACCTA
Statistics
Matches: 110, Mismatches: 33, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
35 96 0.87
36 14 0.13
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (35 bp):
TATGGCCAAATATACAAGTTCAATATATCATCACA
Found at i:44161097 original size:21 final size:22
Alignment explanation
Indices: 44161068--44161116 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
44161058 GAAATGGGAG
44161068 TGGGC-GAGGTCATG-GT-ACAC
1 TGGGCAGAGGTC-TGAGTAACAC
44161088 TGGGCAGAGGTCTGAGTAACAC
1 TGGGCAGAGGTCTGAGTAACAC
44161110 TGAGGCA
1 TG-GGCA
44161117 AGACAACCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.28
21 8 0.32
22 6 0.24
23 4 0.16
ACGTcount: A:0.24, C:0.18, G:0.39, T:0.18
Consensus pattern (22 bp):
TGGGCAGAGGTCTGAGTAACAC
Found at i:44174375 original size:26 final size:26
Alignment explanation
Indices: 44174284--44174408 Score: 162
Period size: 26 Copynumber: 4.7 Consensus size: 26
44174274 GGTCGTTAAG
44174284 ACCTCAGTTTGTAAAATTACTGAAAT
1 ACCTCAGTTTGTAAAATTACTGAAAT
* *
44174310 ACCCCTGATTTGTAAAATTACTGAAAT
1 ACCTCAG-TTTGTAAAATTACTGAAAT
* *
44174337 ACCCTCAATTTGTAAAATTACTAAAAT
1 A-CCTCAGTTTGTAAAATTACTGAAAT
*
44174364 ACCTCAGTTTGTAAAATTACCGAAAT
1 ACCTCAGTTTGTAAAATTACTGAAAT
*
44174390 ACC-CCGATTTGTAAAATTA
1 ACCTCAG-TTTGTAAAATTA
44174409 TCAAAATACC
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.02
26 42 0.49
27 39 0.45
28 3 0.03
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (26 bp):
ACCTCAGTTTGTAAAATTACTGAAAT
Found at i:44174419 original size:26 final size:26
Alignment explanation
Indices: 44174291--44174408 Score: 166
Period size: 27 Copynumber: 4.5 Consensus size: 26
44174281 AAGACCTCAG
44174291 TTTGTAAAATTACTGAAATACCCCTGA
1 TTTGTAAAATTACTGAAATACCCC-GA
*
44174318 TTTGTAAAATTACTGAAATACCCTCAA
1 TTTGTAAAATTACTGAAATACCC-CGA
* *
44174345 TTTGTAAAATTACTAAAATACCTC-A
1 TTTGTAAAATTACTGAAATACCCCGA
*
44174370 GTTTGTAAAATTACCGAAATACCCCGA
1 -TTTGTAAAATTACTGAAATACCCCGA
44174397 TTTGTAAAATTA
1 TTTGTAAAATTA
44174409 TCAAAATACC
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
25 1 0.01
26 34 0.41
27 46 0.56
28 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (26 bp):
TTTGTAAAATTACTGAAATACCCCGA
Found at i:44174430 original size:53 final size:52
Alignment explanation
Indices: 44174291--44174447 Score: 165
Period size: 53 Copynumber: 3.0 Consensus size: 52
44174281 AAGACCTCAG
* * * * *
44174291 TTTGTAAAATTACTGAAATACCCCTGATTTGTAAAATTACTGAAATACCCTCAA
1 TTTGTAAAATTACTAAAATACCTCAG-TATGTAAAATTACCGAAATACCC-CAA
* *
44174345 TTTGTAAAATTACTAAAATACCTCAGTTTGTAAAATTACCGAAATACCCCGA
1 TTTGTAAAATTACTAAAATACCTCAGTATGTAAAATTACCGAAATACCCCAA
* * *
44174397 TTTGTAAAATTA-TCAAAATACC-CTTGTAATGTAAAATTACCGTAATGCCCC
1 TTTGTAAAATTACT-AAAATACCTC-AGT-ATGTAAAATTACCGAAATACCCC
44174448 TATAGTGTAG
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
51 2 0.02
52 24 0.26
53 42 0.46
54 23 0.25
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (52 bp):
TTTGTAAAATTACTAAAATACCTCAGTATGTAAAATTACCGAAATACCCCAA
Found at i:44174456 original size:27 final size:26
Alignment explanation
Indices: 44174427--44174677 Score: 279
Period size: 27 Copynumber: 9.4 Consensus size: 26
44174417 CCCTTGTAAT
*
44174427 GTAAAATTACCGTAATGCCCCTATAG
1 GTAAAATGACCGTAATGCCCCTATAG
* *
44174453 TGTAGAATGACCGTAATGCCCCTGTAG
1 -GTAAAATGACCGTAATGCCCCTATAG
*
44174480 GATAAAATGATCGTAATGCCCCT-TAGG
1 G-TAAAATGACCGTAATGCCCCTATA-G
*
44174507 GTAAAATGACTGTAATGCCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTATA-G
* * *
44174534 GTAAAATGACCATACTGCCCCTGTAG
1 GTAAAATGACCGTAATGCCCCTATAG
**
44174560 GTAAAATGACTATAATGCCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTATA-G
* * * *
44174587 GTAAAATGATCATAATGTCCCTGTAAG
1 GTAAAATGACCGTAATGCCCCTAT-AG
* *
44174614 GTAAAATGACTGTAATGTCCCTATAG
1 GTAAAATGACCGTAATGCCCCTATAG
44174640 AGTAAAATGACCGTAATGCCCCTATAAG
1 -GTAAAATGACCGTAATGCCCCTAT-AG
44174668 GTAAAATGAC
1 GTAAAATGAC
44174678 GATTATGCCC
Statistics
Matches: 193, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
26 47 0.24
27 143 0.74
28 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (26 bp):
GTAAAATGACCGTAATGCCCCTATAG
Found at i:44174539 original size:53 final size:54
Alignment explanation
Indices: 44174427--44174677 Score: 319
Period size: 53 Copynumber: 4.7 Consensus size: 54
44174417 CCCTTGTAAT
* * * *
44174427 GTAAAATTACCGTAATGCCCCTAT-AGTGTAGAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTATAAG-GTAAAATGACTGTAATGCCCCTATAGG
* * *
44174481 ATAAAATGATCGTAATGCCCCT-TAGGGTAAAATGACTGTAATGCCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTATAAGGTAAAATGACTGTAATGCCCCTATAGG
* * * *
44174534 GTAAAATGACCATACTGCCCCTGT-AGGTAAAATGACTATAATGCCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTATAAGGTAAAATGACTGTAATGCCCCTATAGG
* * * * * *
44174587 GTAAAATGATCATAATGTCCCTGTAAGGTAAAATGACTGTAATGTCCCTATAGA
1 GTAAAATGACCGTAATGCCCCTATAAGGTAAAATGACTGTAATGCCCCTATAGG
44174641 GTAAAATGACCGTAATGCCCCTATAAGGTAAAATGAC
1 GTAAAATGACCGTAATGCCCCTATAAGGTAAAATGAC
44174678 GATTATGCCC
Statistics
Matches: 171, Mismatches: 23, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
53 91 0.53
54 80 0.47
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (54 bp):
GTAAAATGACCGTAATGCCCCTATAAGGTAAAATGACTGTAATGCCCCTATAGG
Found at i:44174560 original size:80 final size:80
Alignment explanation
Indices: 44174427--44174677 Score: 294
Period size: 80 Copynumber: 3.1 Consensus size: 80
44174417 CCCTTGTAAT
* * * *
44174427 GTAAAATTACCGTAATGCCCCTATAGTGTAGAATGACCGTAATGCCCCTGTAGGATAAAATGATC
1 GTAAAATGACTGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGGATAAAATGA-C
44174492 GTAATGCCCCT-TAGG
65 GTAATGCCCCTATAGG
* *
44174507 GTAAAATGACTGTAATGCCCCTATAGGGTAAAATGACCATACTGCCCCTGTAGG-TAAAATGACT
1 GTAAAATGACTGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGGATAAAATGAC-
*
44174571 ATAATGCCCCTATAGG
65 GTAATGCCCCTATAGG
* * * * * * *
44174587 GTAAAATGA-TCATAATGTCCCTGTAAGGTAAAATGACTGTAATGTCCCTATA-GAGTAAAATGA
1 GTAAAATGACT-GTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGGA-TAAAATGA
*
44174650 CCGTAATGCCCCTATAAG
64 -CGTAATGCCCCTATAGG
44174668 GTAAAATGAC
1 GTAAAATGAC
44174678 GATTATGCCC
Statistics
Matches: 146, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 20 0.14
80 93 0.64
81 31 0.21
82 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (80 bp):
GTAAAATGACTGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGGATAAAATGACG
TAATGCCCCTATAGG
Found at i:44174800 original size:27 final size:26
Alignment explanation
Indices: 44174756--44174825 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 26
44174746 ATGGAGGAAG
* *
44174756 TACTGTACTGGTGACTATGTCAC-AT
1 TACTGTACTGGTGGCTATGCCACAAT
44174781 TCACTGTTACTGGTGGCTATGCCACAAT
1 T-ACTG-TACTGGTGGCTATGCCACAAT
44174809 TACTGATACTGGTGGCT
1 TACTG-TACTGGTGGCT
44174826 TTGCTGCATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 31 0.79
28 3 0.08
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (26 bp):
TACTGTACTGGTGGCTATGCCACAAT
Found at i:44174838 original size:27 final size:27
Alignment explanation
Indices: 44174778--44174885 Score: 76
Period size: 27 Copynumber: 4.0 Consensus size: 27
44174768 GACTATGTCA
* * * **
44174778 CATTCACTGTTACTGGTGGCTATGCCA
1 CATTTACTGATACTGGTAGCTATGCTG
* * *
44174805 CAATTACTGATACTGGTGGCTTTGCTG
1 CATTTACTGATACTGGTAGCTATGCTG
* * *
44174832 CATTTACTGTTTCTGGAAGCTATGCTG
1 CATTTACTGATACTGGTAGCTATGCTG
* *
44174859 CA-TTA-TGATTACTGGCAGCTTTGCTG
1 CATTTACTGA-TACTGGTAGCTATGCTG
44174885 C
1 C
44174886 GATATTGGTG
Statistics
Matches: 64, Mismatches: 16, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
25 2 0.03
26 18 0.28
27 44 0.69
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (27 bp):
CATTTACTGATACTGGTAGCTATGCTG
Found at i:44174883 original size:26 final size:27
Alignment explanation
Indices: 44174808--44174885 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
44174798 TATGCCACAA
* **
44174808 TTACTGATACTGGTGGCTTTGCTGCAT
1 TTACTGTTACTGGAAGCTTTGCTGCAT
* *
44174835 TTACTGTTTCTGGAAGCTATGCTGCA-
1 TTACTGTTACTGGAAGCTTTGCTGCAT
*
44174861 TTA-TGATTACTGGCAGCTTTGCTGC
1 TTACTG-TTACTGGAAGCTTTGCTGC
44174886 GATATTGGTG
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
25 2 0.05
26 19 0.45
27 21 0.50
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (27 bp):
TTACTGTTACTGGAAGCTTTGCTGCAT
Found at i:44175057 original size:28 final size:28
Alignment explanation
Indices: 44175002--44175091 Score: 81
Period size: 33 Copynumber: 3.0 Consensus size: 28
44174992 ACTGTATTGA
* * * *
44175002 TACTGCATTGGGCTTAGGCCCACACTGT
1 TACTGTATAGGGCTAAGGCCCAGACTGT
*
44175030 TACTGTATAGGGCTAAGGCCCAGGCTGTACTGA
1 TACTGTATAGGGCTAAGGCCCA----G-ACTGT
*
44175063 TACTGTATAGGGCTAAAGCCCAGACTGT
1 TACTGTATAGGGCTAAGGCCCAGACTGT
44175091 T
1 T
44175092 TTGCATATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
28 24 0.48
29 1 0.02
33 25 0.50
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (28 bp):
TACTGTATAGGGCTAAGGCCCAGACTGT
Found at i:44175072 original size:33 final size:33
Alignment explanation
Indices: 44175025--44175090 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
44175015 TTAGGCCCAC
* * *
44175025 ACTGTTACTGTATAGGGCTAAGGCCCAGGCTGT
1 ACTGATACTGTATAGGGCTAAAGCCCAGACTGT
44175058 ACTGATACTGTATAGGGCTAAAGCCCAGACTGT
1 ACTGATACTGTATAGGGCTAAAGCCCAGACTGT
44175091 TTTGCATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (33 bp):
ACTGATACTGTATAGGGCTAAAGCCCAGACTGT
Found at i:44180604 original size:46 final size:46
Alignment explanation
Indices: 44180537--44180712 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
44180527 TATTTGGGCA
*
44180537 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCAAACG
* * * *
44180583 TCCGAACTCGTTGAGTTGAGTCCGAGTT-CGTGA--GATGTAACCAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCAA--A--CG
* * * **
44180630 TCCGAACTCGTTGAATTGAGTCCGAGTTCACTCATGGATGCGGACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCAAACG
* * *
44180676 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGG
44180713 GCAGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 61 0.58
47 27 0.26
48 3 0.03
50 4 0.04
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCAAACG
Found at i:44180692 original size:93 final size:93
Alignment explanation
Indices: 44180533--44180705 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
44180523 AGGATATTTG
* * * * *
44180533 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
44180598 TTGAGTCCGAGTTCGTGAGATGTAACCA
66 TTGAGTCCGAGTTCGTGAGATGTAACCA
** *
44180626 GGCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTCATGGATGCGGACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
44180691 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
44180706 CTTATGGGCA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACCA
Found at i:44183656 original size:15 final size:15
Alignment explanation
Indices: 44183618--44183661 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
44183608 CATAGTATCG
* *
44183618 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
44183633 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
44183648 TATCTTGGATTTCT
1 TATCTTGGATTTCT
44183662 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:44186159 original size:47 final size:47
Alignment explanation
Indices: 44186041--44186214 Score: 193
Period size: 45 Copynumber: 3.8 Consensus size: 47
44186031 AGGATATTTG
*
44186041 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAT
* *
44186089 -G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA-T
*
44186132 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-
1 -GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC-AAT
* *
44186181 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
44186215 TATGGGCGGG
Statistics
Matches: 109, Mismatches: 8, Indels: 20
0.80 0.06 0.15
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 2 0.02
45 30 0.28
46 30 0.28
47 30 0.28
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAT
Found at i:44186210 original size:46 final size:45
Alignment explanation
Indices: 44186046--44186219 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 45
44186036 ATTTGGGCAT
* *
44186046 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
* * *
44186091 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC---GC
44186136 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
44186184 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44186220 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
42 6 0.05
44 2 0.02
45 29 0.26
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:44190976 original size:48 final size:48
Alignment explanation
Indices: 44190910--44191134 Score: 335
Period size: 48 Copynumber: 4.7 Consensus size: 48
44190900 GTGCTAAATA
*
44190910 TGCCTATGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
44190958 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
* * * *
44191006 TGTCTGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
* *
44191054 TGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
** * *
44191102 -GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 TGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
44191135 TGGTACTTTA
Statistics
Matches: 162, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 1 0.01
48 161 0.99
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (48 bp):
TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
Found at i:44197446 original size:40 final size:40
Alignment explanation
Indices: 44197319--44197448 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
44197309 ATGCTGGAAA
* *
44197319 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
44197359 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
44197399 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
44197439 TTATATCCGG
1 TTATATCCGG
44197449 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Done.