Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 74 of 204
Found at i:23261406 original size:21 final size:21
Alignment explanation
Indices: 23261382--23261427 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
23261372 GTGGGGGTCT
23261382 ACACG-CCATTGTAGAGGCCAC
1 ACACGCCCA-TGTAGAGGCCAC
*
23261403 ACACGCCCATGTGGAGGCCAC
1 ACACGCCCATGTAGAGGCCAC
23261424 ACAC
1 ACAC
23261428 ACCCGTGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.28, C:0.37, G:0.24, T:0.11
Consensus pattern (21 bp):
ACACGCCCATGTAGAGGCCAC
Found at i:23261436 original size:21 final size:21
Alignment explanation
Indices: 23261395--23261436 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23261385 CGCCATTGTA
*
23261395 GAGGCCACACACGCCCATGTG
1 GAGGCCACACACACCCATGTG
*
23261416 GAGGCCACACACACCCGTGTG
1 GAGGCCACACACACCCATGTG
23261437 AGCAGCCCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.38, G:0.29, T:0.10
Consensus pattern (21 bp):
GAGGCCACACACACCCATGTG
Found at i:23263510 original size:5 final size:5
Alignment explanation
Indices: 23263502--23263582 Score: 66
Period size: 5 Copynumber: 16.6 Consensus size: 5
23263492 ATTTAAAATA
* *
23263502 TATAT TATAT TATAT TATAT T-TACT TA-AT TA-AT AAGTAT GT-TTT
1 TATAT TATAT TATAT TATAT TATA-T TATAT TATAT TA-TAT -TATAT
23263546 TATAT TATAT TATTAT TA-A- TATAT TATAT TATAT TAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TAT
23263583 TATATATATA
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
3 2 0.03
4 11 0.17
5 43 0.68
6 7 0.11
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:23285484 original size:27 final size:27
Alignment explanation
Indices: 23285454--23285522 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
23285444 CTATCGAGAT
* *
23285454 AGTAAATACGGGGTAGTCCACTATGAC
1 AGTAAATACGAGGTAGTCCACTAGGAC
* * *
23285481 AGTAAACATGAGGTAGTCCGCTAGGAC
1 AGTAAATACGAGGTAGTCCACTAGGAC
* *
23285508 ATTAAATATGAGGTA
1 AGTAAATACGAGGTA
23285523 AAAGGGTGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.23
Consensus pattern (27 bp):
AGTAAATACGAGGTAGTCCACTAGGAC
Found at i:23288015 original size:41 final size:40
Alignment explanation
Indices: 23287970--23288098 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 40
23287960 AGCGGCACTT
* *
23287970 TTAGCGGCATTTGGATAAAAAACGTCGCTAAAAATCGAACA
1 TTAGCGGCATTTGGATAAAAAACGCCGCTAAAAAT-GAGCA
* * * * *
23288011 TTAGCGGCGCTTT--ATGAAAATCGCCACTAAAGATTGAGCA
1 TTAGCGGC-ATTTGGATAAAAAACGCCGCTAAA-AATGAGCA
* *
23288051 ATAGCGGCGTTTGGATAAAAAACGCCGCTAAAAATGAGCA
1 TTAGCGGCATTTGGATAAAAAACGCCGCTAAAAATGAGCA
23288091 TTAGCGGC
1 TTAGCGGC
23288099 GTTTTCTGAA
Statistics
Matches: 70, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
39 3 0.04
40 39 0.56
41 25 0.36
42 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (40 bp):
TTAGCGGCATTTGGATAAAAAACGCCGCTAAAAATGAGCA
Found at i:23288123 original size:39 final size:39
Alignment explanation
Indices: 23287987--23288123 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 39
23287977 CATTTGGATA
* * * *
23287987 AAAAACGTCGCTAAAAATCGAACATTAGCGGCGCTTTATG
1 AAAAACGCCGCAAAAAAT-GAGCATTAGCGGCGTTTTATG
* * * * * * *
23288027 AAAATCGCCACTAAAGATTGAGCAATAGCGGCGTTTGGATA
1 AAAAACGCCGC-AAAAAATGAGCATTAGCGGCGTTT-TATG
* *
23288068 AAAAACGCCGCTAAAAATGAGCATTAGCGGCGTTTTCTG
1 AAAAACGCCGCAAAAAATGAGCATTAGCGGCGTTTTATG
23288107 AAAAACGCCGCAAAAAA
1 AAAAACGCCGCAAAAAA
23288124 CCTAAGCCCA
Statistics
Matches: 74, Mismatches: 21, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
39 17 0.23
40 42 0.57
41 15 0.20
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (39 bp):
AAAAACGCCGCAAAAAATGAGCATTAGCGGCGTTTTATG
Found at i:23288140 original size:80 final size:81
Alignment explanation
Indices: 23287971--23288130 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 81
23287961 GCGGCACTTT
* * *
23287971 TAGCGGCATTTGGATAAAAAACGTCGCTAAAAATCGAACATTAGCGGCGCTTTATGAAAATCGCC
1 TAGCGGCGTTTGGATAAAAAACGCCGCTAAAAATCGAACATTAGCGGCGCTTTATGAAAAACGCC
* * * *
23288036 ACTAAAGATTGAGCAA
66 ACAAAAAACTAAGCAA
* * *
23288052 TAGCGGCGTTTGGATAAAAAACGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTCTGAAAAACGCC
1 TAGCGGCGTTTGGATAAAAAACGCCGCTAAAAATCGAACATTAGCGGCGCTTTATGAAAAACGCC
*
23288116 GCAAAAAACCTAAGC
66 ACAAAAAA-CTAAGC
23288131 CCAACGGCGT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 31 0.46
81 36 0.54
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.21
Consensus pattern (81 bp):
TAGCGGCGTTTGGATAAAAAACGCCGCTAAAAATCGAACATTAGCGGCGCTTTATGAAAAACGCC
ACAAAAAACTAAGCAA
Found at i:23288238 original size:41 final size:41
Alignment explanation
Indices: 23288184--23288571 Score: 506
Period size: 41 Copynumber: 9.4 Consensus size: 41
23288174 TTTTGGATTA
*** *
23288184 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCAATGTTTTTA
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
*
23288225 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCATTTTTG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* * * *
23288266 GAAAAGCGCTGCTAATGCTCTGGTATTTAGTGGCGTTTTCG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* * * * * * ** *
23288307 AAAAAACACCACGAATGCTCTGGTCTTTAGTGTTGTTTTCG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* *
23288348 AAAAAGCGCCGCGAATGCTCTGGTCTTTAGCGGCGTTTTTG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* *
23288389 GCAAAGCACCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* * *
23288430 GAAAAGCGCCACTAATGCTCTGGCCTTTAGCGGCGTTTTTA
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* *
23288471 AAAAAGCGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTTG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCG-TTTTTG
*
23288513 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGACGTTTTTG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
*
23288554 CAAAAGCGCCGCTAATGC
1 GAAAAGCGCCGCTAATGC
23288572 AAAATACTAT
Statistics
Matches: 304, Mismatches: 42, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
41 267 0.88
42 37 0.12
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (41 bp):
GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
Found at i:23288830 original size:22 final size:22
Alignment explanation
Indices: 23288789--23288830 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23288779 GAGTTACTAT
*
23288789 TTTAAGGTTTAGGGAATATGAA
1 TTTAAGGATTAGGGAATATGAA
* *
23288811 TTTAAGGATTATGGATTATG
1 TTTAAGGATTAGGGAATATG
23288831 GATTATGGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.40
Consensus pattern (22 bp):
TTTAAGGATTAGGGAATATGAA
Found at i:23288881 original size:15 final size:15
Alignment explanation
Indices: 23288854--23288909 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
23288844 AGGTTGGAAT
*
23288854 TTAA-GGTTTAGGGG
1 TTAAGGGTTAAGGGG
* *
23288868 TTAGGGGTTAAGGGT
1 TTAAGGGTTAAGGGG
*
23288883 TTAAGGGTT-AGAGG
1 TTAAGGGTTAAGGGG
23288897 TTATAGGGTTAAG
1 TTA-AGGGTTAAG
23288910 AGTTAGGGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 9 0.27
15 22 0.67
16 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.41, T:0.34
Consensus pattern (15 bp):
TTAAGGGTTAAGGGG
Found at i:23288890 original size:22 final size:22
Alignment explanation
Indices: 23288854--23288917 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
23288844 AGGTTGGAAT
*
23288854 TTAA-GGTTTAGGGGTTAGGGG
1 TTAAGGGTTTAAGGGTTAGGGG
*
23288875 TTAAGGGTTTAAGGGTTAGAGG
1 TTAAGGGTTTAAGGGTTAGGGG
*
23288897 TTATAGGG-TTAAGAGTTAGGG
1 TTA-AGGGTTTAAGGGTTAGGG
23288918 ATTCAGGGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 4 0.11
22 29 0.78
23 4 0.11
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (22 bp):
TTAAGGGTTTAAGGGTTAGGGG
Found at i:23290644 original size:45 final size:46
Alignment explanation
Indices: 23290590--23290700 Score: 188
Period size: 46 Copynumber: 2.4 Consensus size: 46
23290580 ATCACTTGTC
* *
23290590 CTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTACCA
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACATTACCA
*
23290635 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACATTATCA
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACATTACCA
23290681 CTTGATCAGATAAGTGTAGC
1 CTTGATCAGATAAGTGTAGC
23290701 CACTTATCAC
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
45 21 0.34
46 41 0.66
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.31
Consensus pattern (46 bp):
CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACATTACCA
Found at i:23290683 original size:46 final size:44
Alignment explanation
Indices: 23290577--23290700 Score: 187
Period size: 46 Copynumber: 2.8 Consensus size: 44
23290567 CATATGACCT
* *
23290577 CTTATCACTTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
23290620 CTTATCACTTTACCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
1 CTTATCAC-TTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
23290666 CTTATCACATTATCACTTGATCAGATAAGTGTAGC
1 CTTATCAC-TTATCACTTGATCAGATAAGTGTAGC
23290701 CACTTATCAC
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
43 8 0.11
44 3 0.04
45 21 0.29
46 41 0.56
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (44 bp):
CTTATCACTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:23290704 original size:37 final size:37
Alignment explanation
Indices: 23290662--23290875 Score: 329
Period size: 37 Copynumber: 5.8 Consensus size: 37
23290652 AGCTAAAGCT
* * **
23290662 ACCACTTATCACATTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
23290699 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTATA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
23290736 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
23290773 ACCACTTATCACTTTGTTTCTTGATCAGATAAGCGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
23290810 ACCACTTATCACTTTGTTTCTTGATTAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* **
23290847 GCCACTTATCACTTTGTCACTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
23290876 AGTACTCAAA
Statistics
Matches: 162, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 162 1.00
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:23292659 original size:19 final size:19
Alignment explanation
Indices: 23292635--23292682 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
23292625 AAATTATAAG
*
23292635 AAATAAAATTAAAATACAA
1 AAATAAAATTAAAATAAAA
* *
23292654 AAATAAAAATGAAATAAAA
1 AAATAAAATTAAAATAAAA
23292673 AAATAAAATT
1 AAATAAAATT
23292683 TATAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (19 bp):
AAATAAAATTAAAATAAAA
Found at i:23294294 original size:16 final size:16
Alignment explanation
Indices: 23294275--23294319 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
23294265 TTTACTATAT
23294275 TATTATTTTAATA-TTA
1 TATTA-TTTAATACTTA
* *
23294291 TATTATATAATACTTT
1 TATTATTTAATACTTA
23294307 TATTATTTAATAC
1 TATTATTTAATAC
23294320 ATTAGCAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTATTTAATACTTA
Found at i:23296928 original size:43 final size:43
Alignment explanation
Indices: 23296880--23296997 Score: 127
Period size: 43 Copynumber: 2.7 Consensus size: 43
23296870 GTTTGTTCTA
*
23296880 TAGCGGCGTTTTTAACAAAAGCG-CAGCTAAAGGTCATGAG-CTT
1 TAGCGGCGTTTTTAACAAAAGCGCCA-CTAAAGGTCATG-GTCCT
* * *
23296923 TAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTCATGGTCCT
1 TAGCGGCGTTTTTAACAAAAGCGCCACTAAAGGTCATGGTCCT
*
23296966 TAGCGGCGCTTTTGTCAC-AAA-CGCCACTAAAG
1 TAGCGGCG-TTTT-TAACAAAAGCGCCACTAAAG
23296998 CGCCGCTAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
42 1 0.02
43 53 0.83
44 8 0.12
45 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTTTAACAAAAGCGCCACTAAAGGTCATGGTCCT
Found at i:23297059 original size:43 final size:43
Alignment explanation
Indices: 23296993--23297168 Score: 298
Period size: 43 Copynumber: 4.1 Consensus size: 43
23296983 CAAACGCCAC
*
23296993 TAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCATTTGTTGG
1 TAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTTGG
*
23297036 TAAAGCGCCGCTAAAGGTTGTGGTCTTTAGCGGCGTTTGTTGG
1 TAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTTGG
* *
23297079 TAAAGCGCTGCTAAAGGTCGTGGTCTATAGCGGCGTTTGTTGG
1 TAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTTGG
* *
23297122 TAAAGCGCCGCTAAATGTCGTGGTCTTTAGCGGCGTTTGTGGG
1 TAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTTGG
23297165 TAAA
1 TAAA
23297169 AATGCCGCAA
Statistics
Matches: 124, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.31
Consensus pattern (43 bp):
TAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTTGG
Found at i:23298491 original size:9 final size:9
Alignment explanation
Indices: 23298477--23298502 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
23298467 CTAAATTTTT
23298477 AAATTAAAA
1 AAATTAAAA
23298486 AAATTAAAA
1 AAATTAAAA
23298495 AAATTAAA
1 AAATTAAA
23298503 TATCTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAATTAAAA
Found at i:23301184 original size:7 final size:7
Alignment explanation
Indices: 23301168--23301223 Score: 94
Period size: 7 Copynumber: 7.9 Consensus size: 7
23301158 AGAAACTTTC
*
23301168 TTAGGAT
1 TTAGGGT
23301175 TTAGGGT
1 TTAGGGT
23301182 TTAGGGT
1 TTAGGGT
23301189 TTAGGGT
1 TTAGGGT
23301196 TTAGGGTT
1 TTAGGG-T
23301204 TTAGGGT
1 TTAGGGT
23301211 TTAGGGT
1 TTAGGGT
23301218 TTAGGG
1 TTAGGG
23301224 GTTATTAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
7 40 0.85
8 7 0.15
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:23301209 original size:22 final size:22
Alignment explanation
Indices: 23301174--23301223 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
23301164 TTTCTTAGGA
23301174 TTTAGGGTTTAGGGTTTAGGG-
1 TTTAGGGTTTAGGGTTTAGGGT
23301195 TTTAGGGTTTTAGGGTTTAGGG-
1 TTTAGGG-TTTAGGGTTTAGGGT
23301217 TTTAGGG
1 TTTAGGG
23301224 GTTATTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.14, C:0.00, G:0.42, T:0.44
Consensus pattern (22 bp):
TTTAGGGTTTAGGGTTTAGGGT
Found at i:23307295 original size:43 final size:43
Alignment explanation
Indices: 23307247--23307412 Score: 233
Period size: 43 Copynumber: 3.9 Consensus size: 43
23307237 TTATGTGAAA
* *
23307247 AAACGCCGCTAAAGAACATGCCCTTTAGCGGCGCTTTACCCAG
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
23307290 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
* * * * * *
23307333 AAATGTCGCTAAAGAACATGACCTTTAGTGGTGCTTTAACTAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
** *
23307376 AAAAACCGCTAAAGAACATGATCTTTAGCGGCGCTTT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTT
23307413 TATCATAAAC
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 109 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
Found at i:23310971 original size:20 final size:20
Alignment explanation
Indices: 23310946--23310988 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
23310936 GGGAAAAAAA
23310946 GATAGATGAGTACTTGAAAC
1 GATAGATGAGTACTTGAAAC
23310966 GATAGATGAGTACTTGAAAC
1 GATAGATGAGTACTTGAAAC
23310986 GAT
1 GAT
23310989 TCTTCTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (20 bp):
GATAGATGAGTACTTGAAAC
Found at i:23312354 original size:40 final size:40
Alignment explanation
Indices: 23312284--23312521 Score: 192
Period size: 41 Copynumber: 5.8 Consensus size: 40
23312274 TTTAAATCCC
* * *
23312284 TGAGCATTAGCGGCGCTT-TTTAGAACACGCCGCTAAA-AA
1 TGAGCATTAGCGGCGCTTCCTCA-AAAACGCCGCTAAACAA
* **
23312323 TAGAGCATTAGTGGCGCTTCCTCAAAAACGCCGCTAAAGCCC
1 T-GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAA-CAA
* **
23312365 TGATCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCC
1 TGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAA-CAA
* ** * * **
23312406 TGATCATTAGCAACGCTTCCACAAAAACGTCGCTAAAGCCC
1 TGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAA-CAA
* * * * **
23312447 TGAACATTAGCGGCGCTTTCTCGAAAACCCCGCTAAAGCCC
1 TGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAA-CAA
* *
23312488 TGATCATTAGCGACGCTTCCTCAAAAACGCCGCT
1 TGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCT
23312522 GAAGCCCTGT
Statistics
Matches: 170, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 29 0.17
41 139 0.82
42 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (40 bp):
TGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAACAA
Found at i:23312381 original size:41 final size:41
Alignment explanation
Indices: 23312328--23312607 Score: 328
Period size: 41 Copynumber: 6.8 Consensus size: 41
23312318 AAAAATAGAG
* *
23312328 CATTAGTGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
1 CATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
*
23312369 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
1 CATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
* * * *
23312410 CATTAGCAACGCTTCCACAAAAACGTCGCTAAAGCCCTGAA
1 CATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
* * * *
23312451 CATTAGCGGCGCTTTCTCGAAAACCCCGCTAAAGCCCTGAT
1 CATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
*
23312492 CATTAGCGACGCTTCCTCAAAAACGCCGCTGAAGCCCTG-T
1 CATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
* * * * * * *
23312532 GCATCAACGACACTTCCTCAAAAAACGCAGTTAAAGCCTTGAG
1 -CATTAGCGACGCTTCCTC-AAAAACGCCGCTAAAGCCCTGAT
* * * *
23312575 CAATAGCGACGCTTTCTCAAAAACACTGCTAAA
1 CATTAGCGACGCTTCCTCAAAAACGCCGCTAAA
23312608 ACCTCGAAAG
Statistics
Matches: 201, Mismatches: 35, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
40 1 0.00
41 170 0.85
42 30 0.15
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (41 bp):
CATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCCCTGAT
Found at i:23313274 original size:49 final size:49
Alignment explanation
Indices: 23313202--23313320 Score: 148
Period size: 49 Copynumber: 2.4 Consensus size: 49
23313192 CCCGAAAAAT
* * *
23313202 TAAGACAGGCCGCTGGTAAGGCATATTAGTTGCTAAAAAGATTGGCGGA
1 TAAGACAGGCCGCTAGTAGGGCATATTAGTTGCTAAAAAGATTGGCAGA
* * **
23313251 TAAGACGGGCCGCTAGTAGGGCATGTTAGTTGCTAACCAGATTGGCAGA
1 TAAGACAGGCCGCTAGTAGGGCATATTAGTTGCTAAAAAGATTGGCAGA
* * *
23313300 TAAAATAGGCCACTAGTAGGG
1 TAAGACAGGCCGCTAGTAGGG
23313321 ATGTTAATTG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 59 1.00
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (49 bp):
TAAGACAGGCCGCTAGTAGGGCATATTAGTTGCTAAAAAGATTGGCAGA
Found at i:23313348 original size:48 final size:48
Alignment explanation
Indices: 23313258--23313387 Score: 125
Period size: 48 Copynumber: 2.7 Consensus size: 48
23313248 GGATAAGACG
* * * * *
23313258 GGCCGCTAGTAGGGCATGTTAGTTGCTAACCAGATTGGCAGATAAAATA
1 GGCCACTAGTAGGG-ATGTTAATTGTTAACCAGAATGACAGATAAAATA
* ***
23313307 GGCCACTAGTAGGGATGTTAATTGTTAACCATAATGACAGATATGCTA
1 GGCCACTAGTAGGGATGTTAATTGTTAACCAGAATGACAGATAAAATA
* * * *
23313355 GGTCTCTAGTAAGGCATGTTATTTGTTAACCAG
1 GGCCACTAGT-AGGGATGTTAATTGTTAACCAG
23313388 TCTGGCGATT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
48 34 0.52
49 32 0.48
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (48 bp):
GGCCACTAGTAGGGATGTTAATTGTTAACCAGAATGACAGATAAAATA
Found at i:23315108 original size:16 final size:16
Alignment explanation
Indices: 23315083--23315115 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23315073 TAAAAGAAAG
*
23315083 AAAAATAAAATAAAAT
1 AAAAAGAAAATAAAAT
23315099 AAAAAGAAAATAAAAT
1 AAAAAGAAAATAAAAT
23315115 A
1 A
23315116 GTATGCGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (16 bp):
AAAAAGAAAATAAAAT
Found at i:23315308 original size:19 final size:20
Alignment explanation
Indices: 23315284--23315324 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
23315274 ATATTAGTAA
*
23315284 TAATAATAGACAA-TAATAG
1 TAATAATAAACAAGTAATAG
23315303 TAATAATAAACAAGTAATAG
1 TAATAATAAACAAGTAATAG
23315323 TA
1 TA
23315325 CCATAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.27
Consensus pattern (20 bp):
TAATAATAAACAAGTAATAG
Found at i:23318162 original size:14 final size:14
Alignment explanation
Indices: 23318145--23318192 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
23318135 CTTATTTAAT
23318145 TATTATTCTTTA-AA
1 TATTATT-TTTACAA
* *
23318159 TATTTATATTTACTA
1 TA-TTATTTTTACAA
23318174 TATTATTTTTACAA
1 TATTATTTTTACAA
23318188 TATTA
1 TATTA
23318193 ATTAAAAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 21 0.75
15 7 0.25
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTATTTTTACAA
Found at i:23318189 original size:29 final size:28
Alignment explanation
Indices: 23318137--23318191 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
23318127 ACAAAACCCT
23318137 TATTTAATTATTATTCTTTAAATATTTA
1 TATTTAATTATTATTCTTTAAATATTTA
*
23318165 TATTTACTATATTATT-TTTACAATATT
1 TATTTAAT-TATTATTCTTTA-AATATT
23318192 AATTAAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (28 bp):
TATTTAATTATTATTCTTTAAATATTTA
Found at i:23323345 original size:18 final size:16
Alignment explanation
Indices: 23323324--23323357 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
23323314 ACAACATGAC
23323324 AACAGTAAACAACAACAT
1 AACAGT-AACAA-AACAT
23323342 AACAGTAACAAAACAT
1 AACAGTAACAAAACAT
23323358 GTAAAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.62, C:0.21, G:0.06, T:0.12
Consensus pattern (16 bp):
AACAGTAACAAAACAT
Found at i:23323799 original size:19 final size:20
Alignment explanation
Indices: 23323777--23323814 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23323767 TGTAAACAAT
23323777 TAATAT-TAATTTAAATATA
1 TAATATATAATTTAAATATA
* *
23323796 TAATCTATATTTTAAATAT
1 TAATATATAATTTAAATAT
23323815 TATTAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATATATAATTTAAATATA
Found at i:23342087 original size:22 final size:23
Alignment explanation
Indices: 23342049--23342092 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
23342039 TATTGTAAAA
*
23342049 TTTAATTAATATATAACTTATAT
1 TTTAATTAATATATAACGTATAT
23342072 TTTAA-TAAT-TATTAACGTATA
1 TTTAATTAATATA-TAACGTATA
23342093 ACCATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 2 0.11
22 12 0.63
23 5 0.26
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTAATTAATATATAACGTATAT
Found at i:23342819 original size:22 final size:22
Alignment explanation
Indices: 23342776--23342831 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
23342766 TAGTCATATA
* * *
23342776 ATAAATTATTAATATAACAAAT
1 ATAATTTATTATTTTAACAAAT
*
23342798 ATAATTTATTATTTTAATAAAT
1 ATAATTTATTATTTTAACAAAT
*
23342820 -T-ATTTAATATTT
1 ATAATTTATTATTT
23342832 CAATTTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 10 0.34
21 1 0.03
22 18 0.62
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAATTTATTATTTTAACAAAT
Found at i:23342855 original size:13 final size:14
Alignment explanation
Indices: 23342839--23342880 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
23342829 TTTCAATTTT
23342839 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
23342852 ATTTTAAAAATGATA
1 ATTTTAATAAT-ATA
23342867 ATTTTAAATAATAT
1 ATTTT-AATAATAT
23342881 TATTCGCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:23343445 original size:14 final size:13
Alignment explanation
Indices: 23343426--23343466 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
23343416 CCAAAAAAGC
23343426 AAATCATTTTCTAG
1 AAATCATTTTC-AG
*
23343440 AAATCATTTTCCG
1 AAATCATTTTCAG
23343453 AAAGTCATTTTCAG
1 AAA-TCATTTTCAG
23343467 TGAAACAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (13 bp):
AAATCATTTTCAG
Found at i:23346408 original size:12 final size:12
Alignment explanation
Indices: 23346391--23346415 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23346381 AACTTATGTA
23346391 TAATTCGTACTG
1 TAATTCGTACTG
23346403 TAATTCGTACTG
1 TAATTCGTACTG
23346415 T
1 T
23346416 TTTTGGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TAATTCGTACTG
Found at i:23347494 original size:13 final size:13
Alignment explanation
Indices: 23347476--23347500 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23347466 ATAAACGATA
23347476 AAATTTTCACACG
1 AAATTTTCACACG
23347489 AAATTTTCACAC
1 AAATTTTCACAC
23347501 ATATAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:23370924 original size:27 final size:27
Alignment explanation
Indices: 23370861--23370962 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 27
23370851 CGAAAGGGGT
* *
23370861 GTGGTGCCTATCTGATAGGCGACACCA
1 GTGGTGCCTATCTGATAGGCGGCACTA
*** *
23370888 GTGACCCCTATCTGATAGGCGGCACTG
1 GTGGTGCCTATCTGATAGGCGGCACTA
*
23370915 GTTGTGCCTATCTGATAGGCGGCACTA
1 GTGGTGCCTATCTGATAGGCGGCACTA
* *
23370942 GTGGTGTCTATCTAATAGGCG
1 GTGGTGCCTATCTGATAGGCG
23370963 ACACACCTAG
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (27 bp):
GTGGTGCCTATCTGATAGGCGGCACTA
Found at i:23371043 original size:14 final size:15
Alignment explanation
Indices: 23371018--23371046 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23371008 GGAGAAGAGA
23371018 AGAAAGAAAGAAAAG
1 AGAAAGAAAGAAAAG
23371033 AGAAA-AAAGAAAAG
1 AGAAAGAAAGAAAAG
23371047 GTATTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AGAAAGAAAGAAAAG
Found at i:23374413 original size:33 final size:33
Alignment explanation
Indices: 23374356--23374418 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
23374346 AGGAATGCCA
23374356 TACTGCAGTGGATATGACCTAGGAGGAGTGGAG
1 TACTGCAGTGGATATGACCTAGGAGGAGTGGAG
23374389 TACTGCAGTGGAT-TCAGACC-AGGAGGAGTG
1 TACTGCAGTGGATAT--GACCTAGGAGGAGTG
23374419 TTATACTGCG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 1 0.04
33 23 0.82
34 4 0.14
ACGTcount: A:0.27, C:0.14, G:0.38, T:0.21
Consensus pattern (33 bp):
TACTGCAGTGGATATGACCTAGGAGGAGTGGAG
Found at i:23374426 original size:33 final size:32
Alignment explanation
Indices: 23374355--23374433 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 32
23374345 GAGGAATGCC
23374355 ATACTGCAGTGGATATGACCTAGGAGGAGTGG
1 ATACTGCAGTGGATATGACCTAGGAGGAGTGG
*
23374387 AGTACTGCAGTGGAT-TCAGACC-AGGAGGAGTGTT
1 A-TACTGCAGTGGATAT--GACCTAGGAGGAGTG-G
*
23374421 ATACTGCGGTGGA
1 ATACTGCAGTGGA
23374434 ACAACCCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
32 2 0.05
33 34 0.83
34 5 0.12
ACGTcount: A:0.27, C:0.14, G:0.37, T:0.23
Consensus pattern (32 bp):
ATACTGCAGTGGATATGACCTAGGAGGAGTGG
Found at i:23377122 original size:43 final size:45
Alignment explanation
Indices: 23377058--23377144 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 45
23377048 ATAAATTTAA
* *
23377058 AAATTAAATCTGAATTAAATCAA-TAA-TAATAACAACAAAAAAC
1 AAATTAAATATGAATTAAATCAATTAATTAATAACAAAAAAAAAC
* *
23377101 AAATTAAATATTATATT-AATCAATTAATTTATAACAAAAAAAAA
1 AAATTAAATATGA-ATTAAATCAATTAATTAATAACAAAAAAAAA
23377145 TTACTTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 17 0.46
44 6 0.16
45 14 0.38
ACGTcount: A:0.62, C:0.08, G:0.01, T:0.29
Consensus pattern (45 bp):
AAATTAAATATGAATTAAATCAATTAATTAATAACAAAAAAAAAC
Found at i:23377280 original size:22 final size:22
Alignment explanation
Indices: 23377252--23377294 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23377242 TCTCCTTCTC
23377252 TTTTTTCTTCTT-CTTCTCTTTT
1 TTTTTTCTT-TTCCTTCTCTTTT
23377274 TTTTTTCTTTTCCTTCTCTTT
1 TTTTTTCTTTTCCTTCTCTTT
23377295 CTTCCCCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTTCTTTTCCTTCTCTTTT
Found at i:23380963 original size:40 final size:40
Alignment explanation
Indices: 23380897--23381050 Score: 170
Period size: 40 Copynumber: 3.8 Consensus size: 40
23380887 AGCGGCATTT
*
23380897 TTAGCGGCG-TTTGGACAAAAAACGCCGCTAAAAATCGAGCA
1 TTAGCGGCGCTTT-TAC-AAAAACGCCGCTAAAAATCGAGCA
* * *
23380938 TTAGCGGCGC-TTTACGTAAAACGCCGCTAAAGATCCAGCA
1 TTAGCGGCGCTTTTAC-AAAAACGCCGCTAAAAATCGAGCA
*
23380978 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAAT-GAGCA
1 TTAGCGGCGCTTTTACAAAAACGCCGCTAAAAATCGAGCA
* * * *
23381017 ATAGCGGCGTTTTTCCAAAAAACGCCGCAAAAAA
1 TTAGCGGCGCTTTTAC-AAAAACGCCGCTAAAAA
23381051 CCCTAAGCCC
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
39 17 0.18
40 65 0.67
41 15 0.15
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.19
Consensus pattern (40 bp):
TTAGCGGCGCTTTTACAAAAACGCCGCTAAAAATCGAGCA
Found at i:23381163 original size:41 final size:41
Alignment explanation
Indices: 23381088--23381281 Score: 273
Period size: 41 Copynumber: 4.7 Consensus size: 41
23381078 CCTTTCGGGG
** *
23381088 CTTTAGCGGCGTTTTTAAAAAAAGTGCCGCTAATGCTCA-TAT
1 CTTTAGCGGCGTTTTT-GGAAAAGCGCCGCTAATGCTCAGT-T
* *
23381130 TTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTCAGTT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
*
23381171 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGTT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
* * * *
23381212 GTTTAGCGGCGTTTTTGGGAAAGCGTCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
23381253 CTTTAGCGGCGTTTTTGGAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGC
23381282 AAAAACATTT
Statistics
Matches: 138, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
41 122 0.88
42 16 0.12
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
Found at i:23381426 original size:26 final size:26
Alignment explanation
Indices: 23381378--23381428 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
23381368 AAAATGGATA
** *
23381378 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACGTAGAAAT
*
23381404 AATTTGAAATAAAAAAACTTAGAAA
1 AATTTGAAATAAAAAAACGTAGAAA
23381429 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.57, C:0.06, G:0.12, T:0.25
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACGTAGAAAT
Found at i:23381698 original size:14 final size:15
Alignment explanation
Indices: 23381670--23381702 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
23381660 AAGGTTTATA
23381670 GATTATGGAATTAGG
1 GATTATGGAATTAGG
23381685 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
23381699 GATT
1 GATT
23381703 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:23381739 original size:7 final size:7
Alignment explanation
Indices: 23381729--23381762 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
23381719 GATTTAATGT
23381729 TTAGGGG
1 TTAGGGG
23381736 TTAGGGG
1 TTAGGGG
23381743 TTAGGGG
1 TTAGGGG
* *
23381750 TTAAGAG
1 TTAGGGG
23381757 TTAGGG
1 TTAGGG
23381763 ATTTAAGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.50, T:0.29
Consensus pattern (7 bp):
TTAGGGG
Found at i:23381789 original size:22 final size:22
Alignment explanation
Indices: 23381770--23381820 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
23381760 GGGATTTAAG
*
23381770 GTTTAGAG-TTTAGAGGTTTAGG
1 GTTTAGAGTTTTAGA-GTTTAGA
*
23381792 GTTTAGGGTTTTAGAGTTTAGA
1 GTTTAGAGTTTTAGAGTTTAGA
23381814 GTTTAGA
1 GTTTAGA
23381821 TTAATTAGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (22 bp):
GTTTAGAGTTTTAGAGTTTAGA
Found at i:23381804 original size:15 final size:14
Alignment explanation
Indices: 23381764--23381820 Score: 69
Period size: 15 Copynumber: 3.9 Consensus size: 14
23381754 GAGTTAGGGA
*
23381764 TTTAAGGTTTAGAG
1 TTTAGGGTTTAGAG
*
23381778 TTTAGAGGTTTAGGG
1 TTTAG-GGTTTAGAG
23381793 TTTAGGGTTTTAGAG
1 TTTAGGG-TTTAGAG
*
23381808 TTTAGAGTTTAGA
1 TTTAGGGTTTAGA
23381821 TTAATTAGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
14 12 0.32
15 25 0.68
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.44
Consensus pattern (14 bp):
TTTAGGGTTTAGAG
Found at i:23381811 original size:7 final size:7
Alignment explanation
Indices: 23381770--23381820 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
23381760 GGGATTTAAG
23381770 GTTTAGA
1 GTTTAGA
23381777 GTTTAGA
1 GTTTAGA
*
23381784 GGTTTAGG
1 -GTTTAGA
*
23381792 GTTTAGG
1 GTTTAGA
23381799 GTTTTAGA
1 G-TTTAGA
23381807 GTTTAGA
1 GTTTAGA
23381814 GTTTAGA
1 GTTTAGA
23381821 TTAATTAGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
7 28 0.70
8 12 0.30
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (7 bp):
GTTTAGA
Found at i:23381892 original size:63 final size:63
Alignment explanation
Indices: 23381815--23381939 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 63
23381805 GAGTTTAGAG
* *
23381815 TTTAGATTAATTAGTGTGTT-TTAATTTATATATTAAATAATGTTTAGGGGTTAGGGGTTAGGA
1 TTTAGATTAATTAGTGT-TTCTTAATTTATATATTAAATAAGGTTTAGGAGTTAGGGGTTAGGA
* * *
23381878 TTTAGATTAATTAGTGTTTCTTAATTTATATGTTAAATAAGGTTTATGAGTTAGTGGTTAGG
1 TTTAGATTAATTAGTGTTTCTTAATTTATATATTAAATAAGGTTTAGGAGTTAGGGGTTAGG
23381940 GGTTTAGGGT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 2 0.04
63 54 0.96
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.47
Consensus pattern (63 bp):
TTTAGATTAATTAGTGTTTCTTAATTTATATATTAAATAAGGTTTAGGAGTTAGGGGTTAGGA
Found at i:23382891 original size:146 final size:145
Alignment explanation
Indices: 23382738--23383039 Score: 339
Period size: 145 Copynumber: 2.1 Consensus size: 145
23382728 ATCACTTAAC
* *
23382738 TAATAATTTTTAAC-AGACAAAATAAAAG-ATTTTTAGCATAGCAAAACAGTGTCGTTTTATTCC
1 TAATAATTTTT-ACTA-AAAAAAT-AAAGCA-TTTTA-CATAACAAAACAGTGTCGTTTTATTCC
** * * * *
23382801 AAATGAAATAATTTTTTGAGGCGTTTTTATG-AAAAACGCCGCAAAAGGT-AAGCAATAGCGGCG
61 AAACAAAATAATTTTTTGAGGCGTTTTT-GGAAAAAACGCCACAAAAGATCAA-CAATAGCGACG
23382864 TTTTTAT-AAAAACGCCACAAA
124 TTTTTATAAAAAACGCCACAAA
* *
23382885 -AATAA-TTTTACTTTAAAAAAATAACGCCATTTTATATAACAAAACAGTGTCGTTTTATTCCAA
1 TAATAATTTTTAC--TAAAAAAATAAAG-CATTTTACATAACAAAACAGTGTCGTTTTATTCCAA
* * *
23382948 ACAAAATATTTTTTTGCGGCGTTTTTGGAAAAAACGCCACAATAGATCAACAATAGCGACGTTTT
63 ACAAAATAATTTTTTGAGGCGTTTTTGGAAAAAACGCCACAAAAGATCAACAATAGCGACGTTTT
23383013 TATAAAAAACGCCACAAA
128 TATAAAAAACGCCACAAA
*
23383031 TAAAAATTT
1 TAATAATTT
23383040 CACGCTCCAT
Statistics
Matches: 131, Mismatches: 14, Indels: 19
0.80 0.09 0.12
Matches are distributed among these distances:
144 3 0.02
145 88 0.67
146 32 0.24
147 6 0.05
148 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (145 bp):
TAATAATTTTTACTAAAAAAATAAAGCATTTTACATAACAAAACAGTGTCGTTTTATTCCAAACA
AAATAATTTTTTGAGGCGTTTTTGGAAAAAACGCCACAAAAGATCAACAATAGCGACGTTTTTAT
AAAAAACGCCACAAA
Found at i:23385017 original size:43 final size:43
Alignment explanation
Indices: 23384941--23385182 Score: 285
Period size: 43 Copynumber: 5.7 Consensus size: 43
23384931 AAGTTATGTT
* *
23384941 TTTAGCGGCGTTTGTGAA-A-AAACGTCGCTAAAGGTCCTGATC
1 TTTAGCGGCGTTTGT-AAGAGAAGCGCCGCTAAAGGTCCTGATC
* * * *
23384983 TTTAGCGGCATTTATAAGAAAAGCGCCGCTAAAGGTCTTGATC
1 TTTAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCCTGATC
* * * * *
23385026 TTTAGCAGCGTTTGTGAGGGAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCCTGATC
* *
23385069 TTTAGCGGCGTTTGTAGGAGAAGCGCCGCTAAAGG-CCTTGCTC
1 TTTAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCC-TGATC
* *
23385112 TTTAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGG-CCTTGCTC
1 TTTAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCC-TGATC
*
23385155 TTTAGCGGCGTTTGTGAGAGAAGCGCCG
1 TTTAGCGGCGTTTGTAAGAGAAGCGCCG
23385183 AAAATAAATC
Statistics
Matches: 177, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
41 2 0.01
42 15 0.08
43 160 0.90
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCCTGATC
Found at i:23385071 original size:86 final size:86
Alignment explanation
Indices: 23384941--23385182 Score: 324
Period size: 86 Copynumber: 2.8 Consensus size: 86
23384931 AAGTTATGTT
* * * * * * * *
23384941 TTTAGCGGCGTTTGTGA-AAAAACGTCGCTAAAGGTCCTGATCTTTAGCGGCATTTATAAGAAAA
1 TTTAGCAGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTAAGAGAA
*
23385005 GCGCCGCTAAAGGTCTTGATC
66 GCGCCGCTAAAGGCCTTGATC
* * *
23385026 TTTAGCAGCGTTTGTGAGGGAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAGAA
1 TTTAGCAGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTAAGAGAA
*
23385091 GCGCCGCTAAAGGCCTTGCTC
66 GCGCCGCTAAAGGCCTTGATC
* * * *
23385112 TTTAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGGCCTTGCTCTTTAGCGGCGTTTGTGAGAGAA
1 TTTAGCAGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTAAGAGAA
23385177 GCGCCG
66 GCGCCG
23385183 AAAATAAATC
Statistics
Matches: 137, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
85 16 0.12
86 121 0.88
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (86 bp):
TTTAGCAGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTAAGAGAA
GCGCCGCTAAAGGCCTTGATC
Found at i:23385508 original size:5 final size:5
Alignment explanation
Indices: 23385498--23385527 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
23385488 ATTAAAAAAT
23385498 GGGCC GGGCC GGGCC GGGCC GGGCTC GGGC
1 GGGCC GGGCC GGGCC GGGCC GGGC-C GGGC
23385528 TTAGGATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.00, C:0.37, G:0.60, T:0.03
Consensus pattern (5 bp):
GGGCC
Found at i:23388885 original size:115 final size:115
Alignment explanation
Indices: 23388683--23388913 Score: 462
Period size: 115 Copynumber: 2.0 Consensus size: 115
23388673 TTAACTATAA
23388683 AAAATTAAAAATAATTATCATTTTATTTAATAAATAATTTAAATTAATTATATAATTCATTAAAA
1 AAAATTAAAAATAATTATCATTTTATTTAATAAATAATTTAAATTAATTATATAATTCATTAAAA
23388748 TATTGGAAGATACATTTTAATATTTTATTAAATGAATTTATAAATTTTAC
66 TATTGGAAGATACATTTTAATATTTTATTAAATGAATTTATAAATTTTAC
23388798 AAAATTAAAAATAATTATCATTTTATTTAATAAATAATTTAAATTAATTATATAATTCATTAAAA
1 AAAATTAAAAATAATTATCATTTTATTTAATAAATAATTTAAATTAATTATATAATTCATTAAAA
23388863 TATTGGAAGATACATTTTAATATTTTATTAAATGAATTTATAAATTTTAC
66 TATTGGAAGATACATTTTAATATTTTATTAAATGAATTTATAAATTTTAC
23388913 A
1 A
23388914 TATTTTAATA
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 116 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (115 bp):
AAAATTAAAAATAATTATCATTTTATTTAATAAATAATTTAAATTAATTATATAATTCATTAAAA
TATTGGAAGATACATTTTAATATTTTATTAAATGAATTTATAAATTTTAC
Found at i:23389108 original size:20 final size:21
Alignment explanation
Indices: 23389060--23389112 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
23389050 ACCATTGTTT
*
23389060 CTAATCTCACCGCTACAGTAT
1 CTAATCTCACCGCTACAGTAA
*
23389081 CCAATCTCACCGCTACA-TAA
1 CTAATCTCACCGCTACAGTAA
23389101 CTAATCTCACCG
1 CTAATCTCACCG
23389113 TCACCGCTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.30, C:0.38, G:0.08, T:0.25
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:23389666 original size:33 final size:33
Alignment explanation
Indices: 23389629--23389691 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
23389619 ACAATTTGAG
23389629 TTTAT-TATATAAAAAATTAAAAATAATTATCAT
1 TTTATCTA-ATAAAAAATTAAAAATAATTATCAT
* * *
23389662 TTTATCTAATAAATAATTTAAATTAATTAT
1 TTTATCTAATAAAAAATTAAAAATAATTAT
23389692 GTAATTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 24 0.92
34 2 0.08
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (33 bp):
TTTATCTAATAAAAAATTAAAAATAATTATCAT
Found at i:23390189 original size:54 final size:54
Alignment explanation
Indices: 23390125--23390228 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
23390115 CTGTTATTAG
* *
23390125 ATATCGATTATATTGTAATAGGATTTGGATTATATTTTGTCTTTATTTAATTCA
1 ATATCAATTATACTGTAATAGGATTTGGATTATATTTTGTCTTTATTTAATTCA
* * *
23390179 ATATCAATTATACTGTACTAGGATTTTGATTATATTTTTTCTTTATTTAA
1 ATATCAATTATACTGTAATAGGATTTGGATTATATTTTGTCTTTATTTAA
23390229 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.53
Consensus pattern (54 bp):
ATATCAATTATACTGTAATAGGATTTGGATTATATTTTGTCTTTATTTAATTCA
Found at i:23391435 original size:17 final size:17
Alignment explanation
Indices: 23391407--23391452 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
23391397 AAAAATATAA
* *
23391407 AAAATTATAAAATTTTTT
1 AAAATTA-AAAACTCTTT
23391425 AAAATTAAAAACTCTTT
1 AAAATTAAAAACTCTTT
23391442 AAAATTAAAAA
1 AAAATTAAAAA
23391453 ATAAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATTAAAAACTCTTT
Found at i:23392376 original size:36 final size:35
Alignment explanation
Indices: 23392306--23392376 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
23392296 GTAAATAATA
*
23392306 TATTTTTAAAAATATATAATTTTTTTATATTTTTAT
1 TATTTTTAAAAATATAT-ATTTTTTTATAATTTTAT
*
23392342 TATTTTTAAAAATATAT-TTTTATTTTTGAATTTTA
1 TATTTTTAAAAATATATATTTT-TTTAT-AATTTTA
23392377 ATTTTTCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 4 0.13
35 4 0.13
36 23 0.74
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (35 bp):
TATTTTTAAAAATATATATTTTTTTATAATTTTAT
Found at i:23402636 original size:113 final size:113
Alignment explanation
Indices: 23402461--23402665 Score: 304
Period size: 113 Copynumber: 1.8 Consensus size: 113
23402451 CGCTAAATCT
* * * * *
23402461 CTTAACCAAAACGCTGTGTTTTCGTCTTGATGTATCTTAAAAGTAGTGGCGTTTACGCAAAACGC
1 CTTAACCAAAACGCAGAGTTTTCGTCTTGAGGTACCTTAAAAGTAGTGGCGTTTAAGCAAAACGC
23402526 CGTTAAAGGACAGTAATAGCGGCGCTTTTTGGAAACGCCGCAAAATAG
66 CGTTAAAGGACAGTAATAGCGGCGCTTTTTGGAAACGCCGCAAAATAG
* * * *
23402574 CTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTACCTTAGAATTAGTGGCGTTTATAGGAAAACG
1 CTTAACCAAAACGCAGAGTTTTCGTCTTGAGGTACCTTAAAAGTAGTGGCGTTTA-AGCAAAACG
*
23402638 CCGTTAAAGTACAGTAATAGCGGCGCTT
65 CCGTTAAAGGACAGTAATAGCGGCGCTT
23402666 CACGGAAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
112 31 0.38
113 50 0.62
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (113 bp):
CTTAACCAAAACGCAGAGTTTTCGTCTTGAGGTACCTTAAAAGTAGTGGCGTTTAAGCAAAACGC
CGTTAAAGGACAGTAATAGCGGCGCTTTTTGGAAACGCCGCAAAATAG
Found at i:23402678 original size:113 final size:113
Alignment explanation
Indices: 23402447--23402682 Score: 303
Period size: 113 Copynumber: 2.1 Consensus size: 113
23402437 TTACCACAAT
* ** * * * *
23402447 GCGCCGCTAAATCTCTTAACCAAAACGCTGTGTTTTCGTCTTGATGTATCTTAAAAGTAGTGGCG
1 GCGCCGCAAAATAGCTTAACCAAAACGCAGAGTTTTCGTCTTGAGGTACCTTAAAAGTAGTGGCG
* ***
23402512 TTTACGCAAAACGCCGTTAAAGGACAGTAATAGCGGCGCTTTTTGGAA
66 TTTAAGCAAAACGCCGTTAAAGGACAGTAATAGCGGCGCTTCACGGAA
* * * *
23402560 ACGCCGCAAAATAGCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTACCTTAGAATTAGTGGCG
1 GCGCCGCAAAATAGCTTAACCAAAACGCAGAGTTTTCGTCTTGAGGTACCTTAAAAGTAGTGGCG
* *
23402624 TTTATAGGAAAACGCCGTTAAAGTACAGTAATAGCGGCGCTTCACGGAA
66 TTTA-AGCAAAACGCCGTTAAAGGACAGTAATAGCGGCGCTTCACGGAA
23402673 GCGCCGCAAA
1 GCGCCGCAAA
23402683 CTATCTGAAC
Statistics
Matches: 104, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
112 31 0.30
113 73 0.70
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (113 bp):
GCGCCGCAAAATAGCTTAACCAAAACGCAGAGTTTTCGTCTTGAGGTACCTTAAAAGTAGTGGCG
TTTAAGCAAAACGCCGTTAAAGGACAGTAATAGCGGCGCTTCACGGAA
Found at i:23403418 original size:90 final size:90
Alignment explanation
Indices: 23403267--23403470 Score: 383
Period size: 90 Copynumber: 2.3 Consensus size: 90
23403257 AATCATATTT
23403267 GGTTTA-GGTATAGGGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAA
1 GGTTTAGGGT-TAGGGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAA
23403331 GTTTAAAGTTTAGGGTTTACGATGTA
65 GTTTAAAGTTTAGGGTTTACGATGTA
*
23403357 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGGGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
23403422 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
23403447 GGTTTAGGGTTAGGGTATTAGGGT
1 GGTTTAGGGTTAGGGTATTAGGGT
23403471 GTTAATTTAG
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
90 108 0.97
91 3 0.03
ACGTcount: A:0.26, C:0.03, G:0.28, T:0.43
Consensus pattern (90 bp):
GGTTTAGGGTTAGGGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
TTTAAAGTTTAGGGTTTACGATGTA
Found at i:23403482 original size:27 final size:27
Alignment explanation
Indices: 23403449--23403500 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
23403439 ACGATGTAGG
23403449 TTTAGGGTTAGGGTATTAGGGTGTTAA
1 TTTAGGGTTAGGGTATTAGGGTGTTAA
23403476 TTTAGGGTTAGGGTATTAGGGTGTT
1 TTTAGGGTTAGGGTATTAGGGTGTT
23403501 TTGGGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.42
Consensus pattern (27 bp):
TTTAGGGTTAGGGTATTAGGGTGTTAA
Found at i:23404708 original size:22 final size:22
Alignment explanation
Indices: 23404682--23404728 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
23404672 ACTATTCCGA
*
23404682 TTAAATATGTAAGACGTTTCTG
1 TTAAATAGGTAAGACGTTTCTG
*
23404704 TTAAATAGGTAAGGCGTTTCTG
1 TTAAATAGGTAAGACGTTTCTG
23404726 TTA
1 TTA
23404729 TTACAGCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (22 bp):
TTAAATAGGTAAGACGTTTCTG
Found at i:23405108 original size:36 final size:36
Alignment explanation
Indices: 23405066--23405181 Score: 114
Period size: 36 Copynumber: 3.2 Consensus size: 36
23405056 GTTGTTATGT
23405066 TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
1 TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
* ** * * *
23405102 TCTGAAATA--ATTTGTTTTTG--ATTATGTTGTTATG
1 TCTGAAATATGCTTTGGATTTGAAATAAT-TTCTGA-G
*
23405136 TTCTGAAATATGCTTTGGATTTGAAATAATTTCTGGG
1 -TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
23405173 TCTGAAATA
1 TCTGAAATA
23405182 ATTTGTTTTT
Statistics
Matches: 60, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
32 4 0.07
33 4 0.07
34 9 0.15
35 9 0.15
36 18 0.30
37 9 0.15
38 3 0.05
39 4 0.07
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.46
Consensus pattern (36 bp):
TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
Found at i:23405132 original size:71 final size:71
Alignment explanation
Indices: 23405033--23405233 Score: 368
Period size: 71 Copynumber: 2.8 Consensus size: 71
23405023 TGAGTGGATT
23405033 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
23405098 TGAGTC
66 TGAGTC
23405104 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
*
23405169 TGGGTC
66 TGAGTC
*
23405175 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAATTATGCTTTGG-TTCTGAAAT
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATT-TGAAAT
23405234 CTGGATCTGG
Statistics
Matches: 127, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
70 2 0.02
71 125 0.98
ACGTcount: A:0.25, C:0.05, G:0.19, T:0.50
Consensus pattern (71 bp):
TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
TGAGTC
Found at i:23405388 original size:14 final size:14
Alignment explanation
Indices: 23405369--23405398 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
23405359 ATAAAAGGTT
23405369 TTTAGTTAATCATC
1 TTTAGTTAATCATC
23405383 TTTAGTTAATCATC
1 TTTAGTTAATCATC
23405397 TT
1 TT
23405399 GCTGTTCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:23406019 original size:45 final size:43
Alignment explanation
Indices: 23405936--23406019 Score: 96
Period size: 45 Copynumber: 1.9 Consensus size: 43
23405926 AAATTTATAT
* * * * *
23405936 CTTACATTACTTAAATATATATTTTTAAGTATATTTTACATGA
1 CTTACATTACTTAAAAACATATTTTTAACTAAAATTTACATGA
*
23405979 CTTACATTACTTACTAAAACATATTTTTTACTAAAATTTAC
1 CTTACATTACTTA--AAAACATATTTTTAACTAAAATTTAC
23406020 TTGAATATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
43 13 0.39
45 20 0.61
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.46
Consensus pattern (43 bp):
CTTACATTACTTAAAAACATATTTTTAACTAAAATTTACATGA
Found at i:23417426 original size:21 final size:21
Alignment explanation
Indices: 23417401--23417469 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
23417391 CAGCAACTTA
* * *
23417401 AAGCAGACGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
* ** *
23417422 AAGCAGTGGCTACAACGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
23417443 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
23417464 AAGCAG
1 AAGCAG
23417470 CGAGAGAAGC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.35, C:0.22, G:0.41, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:23417471 original size:12 final size:12
Alignment explanation
Indices: 23417454--23417481 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23417444 AGCAGAGGCC
23417454 GCAGCGAGAGAA
1 GCAGCGAGAGAA
23417466 GCAGCGAGAGAA
1 GCAGCGAGAGAA
23417478 GCAG
1 GCAG
23417482 TAATAGAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.43, T:0.00
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:23418011 original size:84 final size:84
Alignment explanation
Indices: 23417914--23418244 Score: 431
Period size: 85 Copynumber: 3.9 Consensus size: 84
23417904 TTTGTGAAAT
* * *
23417914 AAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCG-TTTTTAATAAGCGCCGCTATAGAACATTA
1 AAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACATGA
23417976 -CTTTTAGAGGCGCTTTCTTCCA
64 TC-TTTAGAGGCG-TTTCTTCCA
*
23417998 AAGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCA-AAGCGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-CATAAGCGCCGCTAAAGAACATGAT
* * *
23418062 CTTTAGTGGCGTTTTTTACAA
65 CTTTAGAGGCGTTTCTT-CCA
* *
23418083 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCTTTTTTTCCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACATGATC
* * *
23418148 TTTAGGGGCGTTTCTTTCT
66 TTTAGAGGCGTTTCTTCCA
*
23418167 AAGCGCCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTTC-TAAGCGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCATAAGCGCCGCTAAAGAACATGAT
*
23418231 CTTTAGCGGCGTTT
65 CTTTAGAGGCGTTT
23418245 TTTTATGTAA
Statistics
Matches: 221, Mismatches: 18, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
83 1 0.00
84 101 0.46
85 117 0.53
86 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (84 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACATGATC
TTTAGAGGCGTTTCTTCCA
Found at i:23418179 original size:169 final size:169
Alignment explanation
Indices: 23417897--23418266 Score: 489
Period size: 169 Copynumber: 2.2 Consensus size: 169
23417887 ATATCAAAAC
* *
23417897 AGTGGCGTTTGTGAAATAAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTTAATAAGCGCC
1 AGTGGCGTTTTTTAAATAAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTTAATAAGCGCC
* * *
23417962 GCTATAGAACATTACTTTTAGAGGCGCTTTCTTCCAAAGCGTCGCTAAAGAACATGATCTTTAGC
66 GCTAAAGAACATGACTTTTAGAGGCGCTTTCTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGC
23418027 GGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGATCTTT
131 GGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGATCTTT
* **
23418066 AGTGGCGTTTTTTACAA-AAGCGCCGCTAAAGAACA-TGA-TCTTTAGCGGCTTTTTTTCCTAAG
1 AGTGGCGTTTTTTA-AATAAGCGCCGCTAAAGAACACT-ACT-TTTAGCGGC-GTTTTTAATAAG
* * * *
23418128 CGCCGCTAAAGAACATGA-TCTTTAGGGGCG-TTTCTTTCTAAGCGCCGCTAAAGAGCATGATCT
62 CGCCGCTAAAGAACATGACT-TTTAGAGGCGCTTTCTTCCAAAGCGCCGCTAAAGAACATGATCT
* *
23418191 TTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTT
126 TTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGATCTTT
* ** *
23418235 AGCGGCGTTTTTTTATGTAAGCGCCGCAAAAG
1 AGTGGCG-TTTTTTAAATAAGCGCCGCTAAAG
23418267 TTAGTGACGT
Statistics
Matches: 176, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
168 2 0.01
169 118 0.67
170 56 0.32
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (169 bp):
AGTGGCGTTTTTTAAATAAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTTAATAAGCGCC
GCTAAAGAACATGACTTTTAGAGGCGCTTTCTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGC
GGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGATCTTT
Found at i:23418248 original size:42 final size:42
Alignment explanation
Indices: 23417913--23418266 Score: 430
Period size: 42 Copynumber: 8.4 Consensus size: 42
23417903 GTTTGTGAAA
**
23417913 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCG-TTTTTAA
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTC
* * * * *
23417954 TAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGCTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCG-TTTTTTTC
* * *
23417997 AAAGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* * *
23418039 AAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTAC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
23418081 AAAAGCGCCGCTAAAGAACATGATCTTTAGCGGC-TTTTTTTCC
1 -TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-C
* *
23418124 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTCTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
23418166 TAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
23418208 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTT-TC
*
23418252 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
23418267 TTAGTGACGT
Statistics
Matches: 279, Mismatches: 25, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.00
41 30 0.11
42 156 0.56
43 76 0.27
44 16 0.06
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:23418374 original size:22 final size:22
Alignment explanation
Indices: 23418338--23418380 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
23418328 TAGTGGCGTT
*
23418338 AAAAAACGCCACTAAAGACCTA
1 AAAAAACGCCACTAAAAACCTA
* *
23418360 AAAAAACGTCGCTAAAAACCT
1 AAAAAACGCCACTAAAAACCT
23418381 GTTCTGCTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.26, G:0.09, T:0.12
Consensus pattern (22 bp):
AAAAAACGCCACTAAAAACCTA
Found at i:23418899 original size:30 final size:28
Alignment explanation
Indices: 23418860--23418936 Score: 73
Period size: 33 Copynumber: 2.6 Consensus size: 28
23418850 GTTTTTCAAT
* *
23418860 TTTTGAGGGCCCAAAAAAACTTTTACCAAC
1 TTTTAAGGGCCCAAAAAAAATTTTA--AAC
*
23418890 TTTTAAGGGCCCCCCAAAAAAAATTTTAAGC
1 TTTTAAGGG---CCCAAAAAAAATTTTAAAC
*
23418921 TTTTAAAGGCCCAAAA
1 TTTTAAGGGCCCAAAA
23418937 TTCTTTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
28 7 0.17
30 8 0.20
31 10 0.25
33 15 0.38
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (28 bp):
TTTTAAGGGCCCAAAAAAAATTTTAAAC
Found at i:23418924 original size:31 final size:32
Alignment explanation
Indices: 23418869--23418932 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
23418859 TTTTTGAGGG
* *
23418869 CCCAAAAAAACTTTTACCAACTTTTAAGGGCCC
1 CCCAAAAAAAATTTTA-CAACTTTTAAAGGCCC
*
23418902 CCCAAAAAAAATTTTA-AGCTTTTAAAGGCCC
1 CCCAAAAAAAATTTTACAACTTTTAAAGGCCC
23418933 AAAATTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 13 0.46
33 15 0.54
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.25
Consensus pattern (32 bp):
CCCAAAAAAAATTTTACAACTTTTAAAGGCCC
Found at i:23422916 original size:32 final size:34
Alignment explanation
Indices: 23422880--23422945 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 34
23422870 TGCTTAGCAA
* *
23422880 ATGCATATACCTATTG-CATATATAT-TTAATAT
1 ATGCATATACCGAATGACATATATATATTAATAT
23422912 ATGCATATACCGAATGCACATATATATATTAATA
1 ATGCATATACCGAATG-ACATATATATATTAATA
23422946 ATTGCTTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
34 9 0.31
35 6 0.21
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.38
Consensus pattern (34 bp):
ATGCATATACCGAATGACATATATATATTAATAT
Found at i:23422959 original size:35 final size:34
Alignment explanation
Indices: 23422896--23422961 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
23422886 ATACCTATTG
*
23422896 CATATATATTTAATATATGCATATACCGAATGCA
1 CATATATATTTAATATATGCATAGACCGAATGCA
*
23422930 CATATATATATTAATA-ATTGCTTAGACCGAAT
1 CATATATAT-TTAATATA-TGCATAGACCGAAT
23422962 ATATATATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 10 0.36
35 18 0.64
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (34 bp):
CATATATATTTAATATATGCATAGACCGAATGCA
Found at i:23423259 original size:41 final size:41
Alignment explanation
Indices: 23423174--23423313 Score: 140
Period size: 41 Copynumber: 3.4 Consensus size: 41
23423164 TGATTCGGTA
* * * *
23423174 CACCGGCTTTTAGCCTGTTAGACTTATTGTCTG-A-AATGTAT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCTGAATAAT-T-T
23423215 CACCGGCATTAAGCCTGCTAGACTTATAGTCTGAATAATTT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCTGAATAATTT
* * * * *
23423256 CACCGACATCAAGCCTGCTAGACATAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCTGAATAATTT
* * *
23423297 CACTGGCAATAAACCTG
1 CACCGGCATTAAGCCTG
23423314 ATAGGCACTG
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 78 0.94
42 2 0.02
43 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACTTATAGTCTGAATAATTT
Found at i:23427430 original size:25 final size:25
Alignment explanation
Indices: 23427396--23427448 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
23427386 AAATTCTTAG
23427396 TAATTTCAAATGGAAAACATTATAC
1 TAATTTCAAATGGAAAACATTATAC
*
23427421 TAATTTCAAATGGAAAACATTGTAC
1 TAATTTCAAATGGAAAACATTATAC
23427446 TAA
1 TAA
23427449 CCTTGTCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.32
Consensus pattern (25 bp):
TAATTTCAAATGGAAAACATTATAC
Found at i:23432822 original size:58 final size:59
Alignment explanation
Indices: 23432752--23432866 Score: 178
Period size: 58 Copynumber: 2.0 Consensus size: 59
23432742 ACTTTACTCG
* * *
23432752 TTAAATCTAAAAATTTCATTAAAAATGTATTAAATAATTTAAT-AAAAATATTTATTCC
1 TTAAATCTAAAAATTCCACTAAAAATGTATTAAATAATCTAATAAAAAATATTTATTCC
* *
23432810 TTAAATCTAAAAATTCCACTAACAATGTATTAAATAATCTAATAAAAAATGTTTATT
1 TTAAATCTAAAAATTCCACTAAAAATGTATTAAATAATCTAATAAAAAATATTTATT
23432867 AGAAAAAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 39 0.76
59 12 0.24
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.39
Consensus pattern (59 bp):
TTAAATCTAAAAATTCCACTAAAAATGTATTAAATAATCTAATAAAAAATATTTATTCC
Found at i:23433573 original size:20 final size:20
Alignment explanation
Indices: 23433536--23433573 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23433526 AAAACAACTC
*
23433536 AAAATAATTTTCAGATTTTT
1 AAAATAATTTTCAAATTTTT
*
23433556 AAAATAATTTTTAAATTT
1 AAAATAATTTTCAAATTT
23433574 AAAAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
AAAATAATTTTCAAATTTTT
Found at i:23433580 original size:19 final size:20
Alignment explanation
Indices: 23433536--23433580 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
23433526 AAAACAACTC
* *
23433536 AAAATAATTTTCAGATTTTT
1 AAAATAATTTTCAGAATTTA
*
23433556 AAAATAATTTTTA-AATTTA
1 AAAATAATTTTCAGAATTTA
23433575 AAAATA
1 AAAATA
23433581 TTTATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
AAAATAATTTTCAGAATTTA
Found at i:23433610 original size:26 final size:26
Alignment explanation
Indices: 23433581--23433631 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
23433571 TTTAAAAATA
*
23433581 TTTATAAAAAAT-TAAAAATTTATATT
1 TTTA-AAAAAATCTAAAAATATATATT
*
23433607 TTTAAAAAATTCTAAAAATATATAT
1 TTTAAAAAAATCTAAAAATATATAT
23433632 AAAAAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TTTAAAAAAATCTAAAAATATATATT
Found at i:23433612 original size:24 final size:26
Alignment explanation
Indices: 23433578--23433631 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 26
23433568 AAATTTAAAA
*
23433578 ATATTTATAAAAAA-T-TAAAAATTT
1 ATATTTATAAAAAATTCTAAAAATAT
*
23433602 ATATTTTTAAAAAATTCTAAAAATAT
1 ATATTTATAAAAAATTCTAAAAATAT
23433628 ATAT
1 ATAT
23433632 AAAAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 13 0.50
25 1 0.04
26 12 0.46
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATTTATAAAAAATTCTAAAAATAT
Found at i:23434307 original size:24 final size:25
Alignment explanation
Indices: 23434275--23434321 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
23434265 AAGAAAGTCA
*
23434275 AAAGCAAAACGA-AACAGAAAGAAAG
1 AAAGCAAAAAGAGAA-AGAAAGAAAG
23434300 AAAG-AAAAAGAGAAAGAAAGAA
1 AAAGCAAAAAGAGAAAGAAAGAA
23434322 GAACGCACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.72, C:0.06, G:0.21, T:0.00
Consensus pattern (25 bp):
AAAGCAAAAAGAGAAAGAAAGAAAG
Found at i:23434313 original size:12 final size:13
Alignment explanation
Indices: 23434290--23434323 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
23434280 AAAACGAAAC
23434290 AGAAAGAA-AGAA
1 AGAAAGAAGAGAA
23434302 AGAAA-AAGAGAA
1 AGAAAGAAGAGAA
23434314 AGAAAGAAGA
1 AGAAAGAAGA
23434324 ACGCACGGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.10
12 14 0.70
13 4 0.20
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AGAAAGAAGAGAA
Found at i:23434751 original size:19 final size:20
Alignment explanation
Indices: 23434727--23434767 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
23434717 GAATTTAGGA
*
23434727 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
23434746 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
23434766 AA
1 AA
23434768 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:23441150 original size:17 final size:18
Alignment explanation
Indices: 23441118--23441151 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23441108 AGTAAAACTC
23441118 AAGATGAATATATATAAT
1 AAGATGAATATATATAAT
*
23441136 AAGAT-AATGTATATAA
1 AAGATGAATATATATAA
23441152 AATAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
AAGATGAATATATATAAT
Found at i:23451087 original size:2 final size:2
Alignment explanation
Indices: 23451080--23451126 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
23451070 ATTAAAAGTT
* * *
23451080 TA TA TA TA CA CA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23451122 TA TA T
1 TA TA T
23451127 GATAAAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:23451611 original size:7 final size:7
Alignment explanation
Indices: 23451575--23451599 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23451565 CGCCTACCAT
23451575 ATAAATA
1 ATAAATA
23451582 ATAAATA
1 ATAAATA
23451589 ATAAATA
1 ATAAATA
23451596 ATAA
1 ATAA
23451600 TAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAAATA
Found at i:23455440 original size:31 final size:31
Alignment explanation
Indices: 23455405--23455472 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
23455395 TACAAAATGA
23455405 TCACTAAATTA-TCTGAAAGTTTTCATTTAAG
1 TCACTAAATTATTC-GAAAGTTTTCATTTAAG
** *
23455436 TCACTAAATTATTCGAATTTTTTTATTTAAG
1 TCACTAAATTATTCGAAAGTTTTCATTTAAG
23455467 TCACTA
1 TCACTA
23455473 GACTGTTAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 31 0.94
32 2 0.06
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (31 bp):
TCACTAAATTATTCGAAAGTTTTCATTTAAG
Found at i:23456226 original size:23 final size:21
Alignment explanation
Indices: 23456200--23456255 Score: 51
Period size: 23 Copynumber: 2.5 Consensus size: 21
23456190 TTAATTTAAT
23456200 TAAATATAAAAAAAATTCAAATG
1 TAAATATAAAAAAAA-T-AAATG
*
23456223 TAAAGTA-AAATAAAATAAATG
1 TAAA-TATAAAAAAAATAAATG
*
23456244 TAATAAATAAAA
1 TAA-ATATAAAA
23456256 GTGATTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
21 9 0.33
22 5 0.19
23 11 0.41
24 2 0.07
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (21 bp):
TAAATATAAAAAAAATAAATG
Found at i:23462979 original size:88 final size:87
Alignment explanation
Indices: 23462857--23463163 Score: 429
Period size: 88 Copynumber: 3.5 Consensus size: 87
23462847 TTAATGGTGT
* *
23462857 AAAAA-ACCCTCAAACTTTTTTCAGAAAAAGCAATTAAGCCCCTCCTTTTTTTCCACTCAATTGA
1 AAAAAGACCCTCAAAC-TTTTTC-GAAAAAGCAATTAAGCCCCTCCTTTTTTTTCACTCAATTGG
*
23462921 GCACTTGAACTTTCAAAATGCATC
64 GTACTTGAACTTTCAAAATGCATC
*
23462945 AAAAAGACCCTCAAACTTGTTCGAAAAGAGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTGG
1 AAAAAGACCCTCAAACTTTTTCGAAAA-AGCAATTAAGCCCCT-CCTTTTTTTTCACTCAATTGG
* *
23463010 GTACTTGAAATTTTAAAATGCATC
64 GTACTTGAACTTTCAAAATGCATC
* * * *
23463034 AAAAAGACCCTCAAGCTTCTTT-GACAAAAGCAATAAAGCCCCTACTTTTTTTTCACTTAATTGG
1 AAAAAGACCCTCAAACTT-TTTCGA-AAAAGCAATTAAGCCCCTCCTTTTTTTTCACTCAATTGG
23463098 GTACTTGAACTTTCAAAATGCATC
64 GTACTTGAACTTTCAAAATGCATC
* * *
23463122 AAAAAGACCCTCAAAATTTTTCAAAAAAGCAATTAAGTCCCT
1 AAAAAGACCCTCAAACTTTTTCGAAAAAGCAATTAAGCCCCT
23463164 GCTCTTATTA
Statistics
Matches: 195, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
87 24 0.12
88 83 0.43
89 83 0.43
90 5 0.03
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.30
Consensus pattern (87 bp):
AAAAAGACCCTCAAACTTTTTCGAAAAAGCAATTAAGCCCCTCCTTTTTTTTCACTCAATTGGGT
ACTTGAACTTTCAAAATGCATC
Found at i:23463007 original size:89 final size:88
Alignment explanation
Indices: 23462857--23463163 Score: 433
Period size: 89 Copynumber: 3.5 Consensus size: 88
23462847 TTAATGGTGT
*
23462857 AAAAA-ACCCTCAAACTTTTTTCAGAAAAAGCAATTAAGCCCCT-CCTTTTTTTCCACTCAATTG
1 AAAAAGACCCTCAAAC-TTTTTC-GAAAAAGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTG
* *
23462920 AGCACTTGAACTTTCAAAATGCATC
64 GGTACTTGAACTTTCAAAATGCATC
*
23462945 AAAAAGACCCTCAAACTTGTTCGAAAAGAGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTGG
1 AAAAAGACCCTCAAACTTTTTCGAAAA-AGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTGG
* *
23463010 GTACTTGAAATTTTAAAATGCATC
65 GTACTTGAACTTTCAAAATGCATC
* * *
23463034 AAAAAGACCCTCAAGCTTCTTT-GACAAAAGCAATAAAGCCCCTA-CTTTTTTTTCACTTAATTG
1 AAAAAGACCCTCAAACTT-TTTCGA-AAAAGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTG
23463097 GGTACTTGAACTTTCAAAATGCATC
64 GGTACTTGAACTTTCAAAATGCATC
* * *
23463122 AAAAAGACCCTCAAAATTTTTCAAAAAAGCAATTAAGTCCCT
1 AAAAAGACCCTCAAACTTTTTCGAAAAAGCAATTAAGCCCCT
23463164 GCTCTTATTA
Statistics
Matches: 196, Mismatches: 17, Indels: 13
0.87 0.08 0.06
Matches are distributed among these distances:
87 24 0.12
88 83 0.42
89 84 0.43
90 5 0.03
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.30
Consensus pattern (88 bp):
AAAAAGACCCTCAAACTTTTTCGAAAAAGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTGGG
TACTTGAACTTTCAAAATGCATC
Found at i:23463268 original size:47 final size:46
Alignment explanation
Indices: 23463166--23463285 Score: 118
Period size: 47 Copynumber: 2.5 Consensus size: 46
23463156 AAGTCCCTGC
*
23463166 TCTTATTAAAAATTAGAAAAAAATAAATTTTAGAAAAATTATTAAATT
1 TCTTA-TAAAAATTA-AAAAAAATAAATTTTAGAAAAATTATGAAATT
* ** * *
23463214 T-TAATAAAAATATAAAAAATTTAAATTTTATTAAAAATTA-GAATTT
1 TCTTATAAAAAT-TAAAAAAAATAAATTTTA-GAAAAATTATGAAATT
*
23463260 TCTTATAAAAATCTTAAAAAAATAAA
1 TCTTATAAAAAT-TAAAAAAAATAAA
23463286 AATTGTAACT
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
46 26 0.45
47 31 0.53
48 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (46 bp):
TCTTATAAAAATTAAAAAAAATAAATTTTAGAAAAATTATGAAATT
Found at i:23463528 original size:29 final size:30
Alignment explanation
Indices: 23463495--23463555 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
23463485 TTACATTTTG
23463495 TATAATTTTCTTACGA-CTTTATAAAATTT
1 TATAATTTTCTTACGATCTTTATAAAATTT
* *
23463524 TATAATTTTTTTACGATTTTTATAAAATTT
1 TATAATTTTCTTACGATCTTTATAAAATTT
23463554 TA
1 TA
23463556 CATTTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 15 0.52
30 14 0.48
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (30 bp):
TATAATTTTCTTACGATCTTTATAAAATTT
Found at i:23463532 original size:39 final size:38
Alignment explanation
Indices: 23463447--23463533 Score: 88
Period size: 39 Copynumber: 2.2 Consensus size: 38
23463437 TTTTGGTACG
* *
23463447 ATAATTTTTATAAATTTTTTTACGAAATTTATATTTTT
1 ATAATTTTTATAAATTTTCTTACGAAATTTATAATTTT
* *
23463485 TTACATTTTGTAT-AATTTTCTTACG-ACTTTATAAAATTTT
1 ATA-ATTTT-TATAAATTTTCTTACGAAATTTAT--AATTTT
23463525 ATAATTTTT
1 ATAATTTTT
23463534 TTACGATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
38 9 0.22
39 21 0.52
40 10 0.25
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (38 bp):
ATAATTTTTATAAATTTTCTTACGAAATTTATAATTTT
Found at i:23463554 original size:19 final size:18
Alignment explanation
Indices: 23463532--23463572 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
23463522 TTTATAATTT
23463532 TTTTACGATTTTTATAAA-A
1 TTTTAC-ATTTTT-TAAATA
23463551 TTTTACATTTTTTAAATA
1 TTTTACATTTTTTAAATA
23463569 TTTT
1 TTTT
23463573 TTTATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 11 0.52
19 6 0.29
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTACATTTTTTAAATA
Found at i:23463560 original size:29 final size:29
Alignment explanation
Indices: 23463495--23463563 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
23463485 TTACATTTTG
*
23463495 TATAATTTTCTTACGACTTTATAAAATTT
1 TATAATTTTTTTACGACTTTATAAAATTT
*
23463524 TATAATTTTTTTACGATTTTTATAAAATTT
1 TATAATTTTTTTACGA-CTTTATAAAATTT
*
23463554 TA-CATTTTTT
1 TATAATTTTTT
23463564 AAATATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 22 0.61
30 14 0.39
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (29 bp):
TATAATTTTTTTACGACTTTATAAAATTT
Found at i:23463572 original size:28 final size:27
Alignment explanation
Indices: 23463512--23463637 Score: 69
Period size: 29 Copynumber: 4.4 Consensus size: 27
23463502 TTCTTACGAC
*
23463512 TTTATAAAATTTTATAATTTTTTTACGAT-T
1 TTTATAAAA-TTT-TAA-TTTTTTA-AATAT
23463542 TTTATAAAATTTTACATTTTTTAAATATT
1 TTTATAAAATTTTA-ATTTTTTAAATA-T
* * * * *
23463571 TTTTTATATTTTTATATTTTTTCTAATTT
1 TTTATAAAATTTTA-ATTTTTT-AAATAT
* * *
23463600 TTTCT-AATTTTTAATATTTT-AATAT
1 TTTATAAAATTTTAATTTTTTAAATAT
23463625 TTTATTAAAATTT
1 TTTA-TAAAATTT
23463638 AATAATATTT
Statistics
Matches: 77, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
25 7 0.09
26 1 0.01
27 13 0.17
28 16 0.21
29 28 0.36
30 12 0.16
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTATAAAATTTTAATTTTTTAAATAT
Found at i:23463592 original size:10 final size:11
Alignment explanation
Indices: 23463566--23463611 Score: 50
Period size: 10 Copynumber: 4.7 Consensus size: 11
23463556 CATTTTTTAA
23463566 ATATTTTTT-T
1 ATATTTTTTCT
23463576 ATA--TTTT-T
1 ATATTTTTTCT
23463584 ATATTTTTTCT
1 ATATTTTTTCT
23463595 A-ATTTTTTCT
1 ATATTTTTTCT
23463605 A-ATTTTT
1 ATATTTTT
23463612 AATATTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.24
10 23 0.70
11 2 0.06
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (11 bp):
ATATTTTTTCT
Found at i:23463848 original size:88 final size:89
Alignment explanation
Indices: 23463689--23463871 Score: 233
Period size: 88 Copynumber: 2.0 Consensus size: 89
23463679 AATTTTTAAT
* * *
23463689 AAAAGCAGGGGCTTAATTGTTTTTTTTTTTGAAAAAGTTTGAGAGTCTTTTTGATGCATTTTGAA
1 AAAAGCAGGGGCTTAATTG--TCTTTGTTTGAAAAAGTTTGAGAGCCTTTTTGATGCATTTTGAA
* *
23463754 AGTTCAAGTACCCAATTGAGTGCAAA
64 AATTCAAGTACCCAAATGAGTGCAAA
* * * ** *
23463780 AAAAGGAGGGGCTTAATTG-CTTTGTTTGAAAAGGTTTGAGGGCCTTTTTGATTTATTTTTAAAA
1 AAAAGCAGGGGCTTAATTGTCTTTGTTTGAAAAAGTTTGAGAGCCTTTTTGATGCATTTTGAAAA
*
23463844 TTCAAGTACTCAAATGAGTGCAAA
66 TTCAAGTACCCAAATGAGTGCAAA
23463868 AAAA
1 AAAA
23463872 AAACAAGGGT
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
88 62 0.77
91 18 0.22
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (89 bp):
AAAAGCAGGGGCTTAATTGTCTTTGTTTGAAAAAGTTTGAGAGCCTTTTTGATGCATTTTGAAAA
TTCAAGTACCCAAATGAGTGCAAA
Found at i:23465010 original size:20 final size:20
Alignment explanation
Indices: 23464987--23465059 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
23464977 AGCACATTCA
*
23464987 TGCTCATGTTAGCATTACAG
1 TGCTCATGTTAGCAATACAG
* * *
23465007 TGCTCCTGATAGCACATA-TG
1 TGCTCATGTTAGCA-ATACAG
** * *
23465027 TGCTTTTGTTAACACTACAG
1 TGCTCATGTTAGCAATACAG
23465047 TGCTCATGTTAGC
1 TGCTCATGTTAGC
23465060 TACACATTTG
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
19 2 0.05
20 34 0.89
21 2 0.05
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (20 bp):
TGCTCATGTTAGCAATACAG
Found at i:23466223 original size:12 final size:12
Alignment explanation
Indices: 23466208--23466237 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23466198 CCATAAAAAT
23466208 AACAATAATAAC
1 AACAATAATAAC
*
23466220 AACAATAATAAT
1 AACAATAATAAC
23466232 AACAAT
1 AACAAT
23466238 GAAAGTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (12 bp):
AACAATAATAAC
Found at i:23468005 original size:44 final size:44
Alignment explanation
Indices: 23467821--23468460 Score: 356
Period size: 44 Copynumber: 14.3 Consensus size: 44
23467811 CCAATGTAAT
* * * * * *
23467821 TTCAGGGAGAAAAGACTTGTAGATTCGATCTACTCCGCTGTAAC
1 TTCAGGGAGATAAGAATTGTAGCTTCGATCTGCTCCACTGCAAC
* ** * * *
23467865 TTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCTACTGCAAC
1 TTCAGGGAGATAAGAATT-GTAGCTTCGATCTGCTCCACTGCAAC
** * ** * *
23467910 TTCAGGGAGATAAGGTTTGGGTA-TTTTTATCCTGCTCTACTACAAC
1 TTCAGGGAGATAAGAATT--GTAGCTTCGAT-CTGCTCCACTGCAAC
* * * * *
23467956 TTCAGGGAGATAAGAATTGTGGCATCGATCTGCTCCAATGTAAT
1 TTCAGGGAGATAAGAATTGTAGCTTCGATCTGCTCCACTGCAAC
* * * *
23468000 TTCAGGGAGA-AGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCAGGGAGATA-AGAATTGTAGCTTCGATCTGCTCCACTGCAAC
* ** * * *
23468044 ATCAATGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGAATT-GTAGCTTCGATCTGCTCCACTGCAAC
** * **
23468089 TTCAGGGAGATAAGGTTTGT-GTATTTTTATCCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGAATTGTAG--CTTCGAT-CTGCTCCACTGCAAC
* * * * * *
23468135 TTCAGGGAGATAAGAATTGTGGCTTCGATCTACTCTAATGTAAT
1 TTCAGGGAGATAAGAATTGTAGCTTCGATCTGCTCCACTGCAAC
* * * * * *
23468179 TTCAGGGCGA-AGAGATTTGTAGCTTCGATCTACTTCGCTGGAAC
1 TTCAGGGAGATA-AGAATTGTAGCTTCGATCTGCTCCACTGCAAC
* * * * *
23468223 TTCACGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAAC
1 TTCAGGGAGATAAGAATT-GTAGCTTCGATCTGCTCCACTGCAAC
** * ** *
23468268 TTCAGGGAGATAAGGTTTGT-GTATTTTTATCTTGCTCCATTGCAAC
1 TTCAGGGAGATAAGAATTGTAG--CTTCGATC-TGCTCCACTGCAAC
* * * * * * * *
23468314 TTCCGTGAGATAAGGATTGTGGCTTCGATCTGCTTCAATGTAAT
1 TTCAGGGAGATAAGAATTGTAGCTTCGATCTGCTCCACTGCAAC
** * * * *
23468358 TTCAATGAGA-AGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCAGGGAGATA-AGAATTGTAGCTTCGATCTGCTCCACTGCAAC
* * * * * *
23468402 TTCAAGGAGATAAGAATTGGTAACTTCAACCTACTCCACTACAAC
1 TTCAGGGAGATAAGAATT-GTAGCTTCGATCTGCTCCACTGCAAC
23468447 TTCAGGGAGATAAG
1 TTCAGGGAGATAAG
23468461 GTTTGTGTAT
Statistics
Matches: 447, Mismatches: 128, Indels: 41
0.73 0.21 0.07
Matches are distributed among these distances:
43 3 0.01
44 188 0.42
45 158 0.35
46 96 0.21
47 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (44 bp):
TTCAGGGAGATAAGAATTGTAGCTTCGATCTGCTCCACTGCAAC
Found at i:23468115 original size:179 final size:179
Alignment explanation
Indices: 23467800--23468517 Score: 1139
Period size: 179 Copynumber: 4.0 Consensus size: 179
23467790 GAATTGGTGT
* * * * * *
23467800 TTCGATTTGTTCCAATGTAATTTCAGGGAGAAAAGACTTGTAGATTCGATCTACTCCGCTGTAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* * * *
23467865 TTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGG
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
* *
23467930 GTATTTTTATCCTGCTCTACTACAACTTCAGGGAGATAAGAATTGTGGC
131 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
*
23467979 ATCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* * *
23468044 ATCAATGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
23468109 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
131 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
* * * *
23468158 TTCGATCTACTCTAATGTAATTTCAGGGCGAAGAGATTTGTAGCTTCGATCTACTTCGCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
*
23468223 TTCACGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
* * * * *
23468288 GTATTTTTATCTTGCTCCATTGCAACTTCCGTGAGATAAGGATTGTGGC
131 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
* **
23468337 TTCGATCTGCTTCAATGTAATTTCAATGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
*
23468402 TTCAAGGAGATAAGAATTGGTAACTTCAACCTACTCCACTACAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
* * *
23468467 GTATTTTTATCCTACTCCACTGTAACTTCAGGGAGATAAGGATTGTGGC
131 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
23468516 TT
1 TT
23468518 TACCGATATG
Statistics
Matches: 496, Mismatches: 43, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
179 496 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (179 bp):
TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
Found at i:23472211 original size:9 final size:9
Alignment explanation
Indices: 23472200--23472248 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
23472190 TTTGGTTAAA
*
23472200 AATTAACCA
1 AATTAACCG
23472209 AATTAACCG
1 AATTAACCG
**
23472218 AATTAACTT
1 AATTAACCG
*
23472227 AATTACCCG
1 AATTAACCG
23472236 AATTAACCG
1 AATTAACCG
23472245 AATT
1 AATT
23472249 GAATCACTAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:23472306 original size:20 final size:20
Alignment explanation
Indices: 23472283--23472376 Score: 57
Period size: 20 Copynumber: 4.3 Consensus size: 20
23472273 TACATAAGTT
23472283 TTAAATTTTATTTTTATTTA
1 TTAAATTTTATTTTTATTTA
*
23472303 TTAAATTATT-TGTTTATACTT-
1 TTAAATT-TTAT-TTT-TATTTA
* * *
23472324 TTAGACTTTAGTTTTAGTTTTA
1 TTAAATTTTATTTTTA--TTTA
23472346 GTTTTAGAATTTTATTTTTATTTA
1 ---TTA-AATTTTATTTTTATTTA
23472370 TTAAATT
1 TTAAATT
23472377 ATTTGTAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 22
0.65 0.09 0.26
Matches are distributed among these distances:
19 2 0.04
20 17 0.31
21 15 0.27
22 4 0.07
24 4 0.07
25 3 0.05
26 10 0.18
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (20 bp):
TTAAATTTTATTTTTATTTA
Found at i:23472416 original size:18 final size:18
Alignment explanation
Indices: 23472393--23472446 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
23472383 AATTTTTATG
23472393 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
* *
23472411 ATTGGGTTGGGCTGGATA
1 ATTGGGTTGGGTTGGGTA
* *
23472429 CTTGGGTTTGGATTGGGT
1 ATTGGG-TTGGGTTGGGT
23472447 TTAGGTGAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
18 21 0.72
19 8 0.28
ACGTcount: A:0.11, C:0.04, G:0.46, T:0.39
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:23483455 original size:89 final size:87
Alignment explanation
Indices: 23483348--23483612 Score: 406
Period size: 89 Copynumber: 3.0 Consensus size: 87
23483338 CTTTTCTTTT
* * *
23483348 CTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCATCAAAAAGGCCCTCAAACTTCTT
1 CTTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGGCCCTCAAACTTCTT
23483413 CAAAAAAAGCAATTAAGCCCCTG
66 C-AAAAAAGCAATTAAGCCCCTG
*
23483436 CTTCTTTTTTCACTTAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGGCCCTCAAACTTCT
1 CTT-TTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGGCCCTCAAACTTC-
* *
23483501 TTGAAAAAAGCAATTAAGCCCCTA
64 TTCAAAAAAGCAATTAAGCCCCTG
* * *
23483525 C-TTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAATTTTT
1 CTTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGGCCCTCAAACTTCTT
*
23483589 CAAAAAAGCAATTAAGCCCTTG
66 CAAAAAAGCAATTAAGCCCCTG
23483611 CT
1 CT
23483613 CTTATTAAAA
Statistics
Matches: 161, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
86 22 0.14
87 56 0.35
88 4 0.02
89 77 0.48
90 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (87 bp):
CTTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGGCCCTCAAACTTCTT
CAAAAAAGCAATTAAGCCCCTG
Found at i:23483663 original size:18 final size:19
Alignment explanation
Indices: 23483640--23483688 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
23483630 AAAAAATATA
23483640 AAAAATAATAAATTTTAGA-
1 AAAAATAATAAATTTTA-AC
* *
23483659 AAAATTATTAAATTTTAAC
1 AAAAATAATAAATTTTAAC
23483678 AAAAAT-ATAAA
1 AAAAATAATAAA
23483689 AATAATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAATAATAAATTTTAAC
Found at i:23483667 original size:49 final size:47
Alignment explanation
Indices: 23483621--23483712 Score: 123
Period size: 47 Copynumber: 2.0 Consensus size: 47
23483611 CTCTTATTAA
23483621 AAATTAGAAAAAAAATATAAAAAATAATAAATTTT-AGAAAAATTATT
1 AAATTAGAAAAAAAATAT-AAAAATAATAAATTTTAAGAAAAATTATT
** * * *
23483668 AAATTTTAACAAAAATATAAAAATAATAATTTTTAATAAAAATTA
1 AAATTAGAAAAAAAATATAAAAATAATAAATTTTAAGAAAAATTA
23483713 AAAAAAATAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 15 0.38
47 24 0.62
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (47 bp):
AAATTAGAAAAAAAATATAAAAATAATAAATTTTAAGAAAAATTATT
Found at i:23483689 original size:27 final size:26
Alignment explanation
Indices: 23483658--23483729 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
23483648 TAAATTTTAG
*
23483658 AAAAATTATTAAATTTTAACAAAAATAT
1 AAAAA-TAATAAATTTTAACAAAAAT-T
* *
23483686 AAAAATAATAATTTTTAATAAAAATT
1 AAAAATAATAAATTTTAACAAAAATT
*
23483712 AAAAAAAATAGAATTTTA
1 AAAAATAATA-AATTTTA
23483730 TTAAAATTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
26 10 0.26
27 23 0.61
28 5 0.13
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (26 bp):
AAAAATAATAAATTTTAACAAAAATT
Found at i:23483734 original size:27 final size:27
Alignment explanation
Indices: 23483667--23483735 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
23483657 GAAAAATTAT
* *
23483667 TAAATTTTAACAAAAATATAAAAATAA
1 TAAATTTTAATAAAAATATAAAAAAAA
*
23483694 TAATTTTTAATAAAAAT-TAAAAAAAA
1 TAAATTTTAATAAAAATATAAAAAAAA
*
23483720 TAGAATTTTATTAAAA
1 TA-AATTTTAATAAAA
23483736 TTTATATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 10 0.28
27 26 0.72
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (27 bp):
TAAATTTTAATAAAAATATAAAAAAAA
Done.