Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 50 of 328
Found at i:14378538 original size:80 final size:79
Alignment explanation
Indices: 14378400--14378659 Score: 292
Period size: 80 Copynumber: 3.3 Consensus size: 79
14378390 CATTGGAATG
* * *
14378400 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGACTAAGTCCCGAAGGCATTTATGCTAGTAACTATATCCGGGCTAAGACCCGAAGGCA
*
14378465 TTCGTGCGAGTTGTT
66 TT-GTGCGAGTCGTT
* * * * * * *
14378480 ATATCCGGACTATGAT-CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCCAAAACCCGAAGGA
1 ATATCCGGACTAAG-TCCCGAAGGCATTTATGCTAGTAACTATATCCGGGCTAAGACCCGAAGGC
* *
14378544 ATTTGTGCTAG-CGACT
65 A-TTGTGCGAGTCG-TT
* * * *
14378560 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGACTAAGTCCCGAAGGCATTTATGCTAGTAACTATATCCGGGCTAAGACCCGAAGGCA
*
14378625 TTGTGCGAGTGGTT
66 TTGTGCGAGTCGTT
*
14378639 ATATCCGG-CTAAATCCCGAAG
1 ATATCCGGACTAAGTCCCGAAG
14378660 ATACTTGGGT
Statistics
Matches: 148, Mismatches: 27, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
78 12 0.08
79 19 0.13
80 114 0.77
81 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
ATATCCGGACTAAGTCCCGAAGGCATTTATGCTAGTAACTATATCCGGGCTAAGACCCGAAGGCA
TTGTGCGAGTCGTT
Found at i:14387990 original size:15 final size:16
Alignment explanation
Indices: 14387970--14388008 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
14387960 CATGATCCTA
*
14387970 TTGAAACACGAGAA-T
1 TTGAAACACGAAAATT
14387985 TTGAAAACACGAAAATT
1 TTG-AAACACGAAAATT
14388002 TTGAAAC
1 TTGAAAC
14388009 TTGAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 14 0.67
17 4 0.19
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (16 bp):
TTGAAACACGAAAATT
Found at i:14387994 original size:16 final size:17
Alignment explanation
Indices: 14387973--14388134 Score: 62
Period size: 18 Copynumber: 9.1 Consensus size: 17
14387963 GATCCTATTG
*
14387973 AAACACGAGAA-TTTGA
1 AAACACGAAAATTTTGA
14387989 AAACACGAAAATTTTG-
1 AAACACGAAAATTTTGA
** *
14388005 AAACTTGAAAATATTTTTTTA
1 AAACACG-AAA-A--TTTTGA
* * *
14388026 AAACCCGAGAGATTGTGA
1 AAACACGA-AAATTTTGA
*
14388044 AAACACAAAAATTCTTGA
1 AAACACGAAAATT-TTGA
*
14388062 AAAC-CTGAGAATCTTTG-
1 AAACAC-GAAAAT-TTTGA
* ***
14388079 AAACCCGAGAAATTAAAA
1 AAACACGA-AAATTTTGA
*
14388097 AAAAACGAAAATTTTTGA
1 AAACACGAAAA-TTTTGA
*
14388115 AAACATGAAAATTTTTGA
1 AAACACGAAAA-TTTTGA
14388133 AA
1 AA
14388135 CCCGAATTTT
Statistics
Matches: 106, Mismatches: 26, Indels: 26
0.67 0.16 0.16
Matches are distributed among these distances:
16 15 0.14
17 22 0.21
18 56 0.53
19 1 0.01
20 6 0.06
21 6 0.06
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.26
Consensus pattern (17 bp):
AAACACGAAAATTTTGA
Found at i:14389648 original size:29 final size:29
Alignment explanation
Indices: 14389611--14389725 Score: 104
Period size: 30 Copynumber: 3.9 Consensus size: 29
14389601 GTAATTTTTA
* *
14389611 GAAAATTTAAGGTTAAAATGCAATTTAAG
1 GAAAGTTTAAGGTTAAAATGAAATTTAAG
* ** * *
14389640 GAAAGTTTAGGGGTCGAATTGAAATTTAAA
1 GAAAGTTTA-AGGTTAAAATGAAATTTAAG
* *
14389670 GAAATTTTAGGGTTAAAATGAAATTTAAG
1 GAAAGTTTAAGGTTAAAATGAAATTTAAG
* * *
14389699 AAAAGTTCAAGGGTTAAAATGTAATTT
1 GAAAGTTTAA-GGTTAAAATGAAATTT
14389726 TTTTATTTTT
Statistics
Matches: 67, Mismatches: 17, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
29 30 0.45
30 37 0.55
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (29 bp):
GAAAGTTTAAGGTTAAAATGAAATTTAAG
Found at i:14389725 original size:59 final size:59
Alignment explanation
Indices: 14389595--14389725 Score: 145
Period size: 59 Copynumber: 2.2 Consensus size: 59
14389585 CTTCTAGAGC
* ** * * * *
14389595 CAAAGTGTAATTTTTAGAAAATTTAAGGTTAAAATGCAATTTAAGGAAAGTTTAGGGGT
1 CAAAATGTAATTTAAAGAAAATTTAAGGTTAAAATGAAATTTAAGAAAAGTTCAAGGGT
* * * * *
14389654 CGAATTGAAATTTAAAGAAATTTTAGGGTTAAAATGAAATTTAAGAAAAGTTCAAGGGT
1 CAAAATGTAATTTAAAGAAAATTTAAGGTTAAAATGAAATTTAAGAAAAGTTCAAGGGT
*
14389713 TAAAATGTAATTT
1 CAAAATGTAATTT
14389726 TTTTATTTTT
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.44, C:0.03, G:0.20, T:0.34
Consensus pattern (59 bp):
CAAAATGTAATTTAAAGAAAATTTAAGGTTAAAATGAAATTTAAGAAAAGTTCAAGGGT
Found at i:14392529 original size:43 final size:43
Alignment explanation
Indices: 14392445--14392529 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
14392435 TGCCTAAAAA
* * ***
14392445 AAAAGGATCAAGATGAAAACTCGAAAAGGGTGTCTTGATAAAC
1 AAAAGGATCAAGATGAAAACCCGAAAAGGGCGTCCCAATAAAC
* *
14392488 AAAAGGGTTAAGATGAAAACCCGAAAAGGGCGTCCCAATAAA
1 AAAAGGATCAAGATGAAAACCCGAAAAGGGCGTCCCAATAAA
14392530 ACAGATTTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.47, C:0.14, G:0.24, T:0.15
Consensus pattern (43 bp):
AAAAGGATCAAGATGAAAACCCGAAAAGGGCGTCCCAATAAAC
Found at i:14393416 original size:78 final size:77
Alignment explanation
Indices: 14393278--14393756 Score: 553
Period size: 78 Copynumber: 6.2 Consensus size: 77
14393268 TGATATTTTT
*
14393278 ATTTCTGTTTTTC--AAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
1 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
*
14393341 GAGGTATTTTTA
66 GAGGTATTTTCA
* *
14393353 ACTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCAT-GGGTTACACG
1 ATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGGTCACACG
*
14393417 CCGAGGTACTTTTCA
64 CTGAGGTA-TTTTCA
*
14393432 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGATG-CTCGGGTCACACGC
1 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA-GCCTCGGGTCACACGC
*
14393496 TGAGGTACTTTTTA
65 TGAGGTA-TTTTCA
* * * **
14393510 ATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGGCTCAAGTCACACGCT
1 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
14393575 GAGGTATTTTCA
66 GAGGTATTTTCA
* * * * *
14393587 ATTTCCGTTTTTCAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAGGTCACAT
1 ATTTCTGTTTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAC
*
14393652 GCTAAGGTATTTTCA
63 GCTGAGGTATTTTCA
* * * * * * *
14393667 ATTTTTTGCTTTTTC--AAAGATCAACTCATAATCCGAGAGGTGAGTTGAACTTCGGGTCGCATC
1 A-TTTCTG-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA-C
* *
14393730 -CCGAGCTATTTTCA
63 GCTGAGGTATTTTCA
14393744 ATTT-T-TTTTTCAA
1 ATTTCTGTTTTTCAA
14393757 TAAAGAATAA
Statistics
Matches: 351, Mismatches: 37, Indels: 32
0.84 0.09 0.08
Matches are distributed among these distances:
73 6 0.02
75 13 0.04
76 3 0.01
77 67 0.19
78 175 0.50
79 18 0.05
80 59 0.17
81 4 0.01
82 6 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (77 bp):
ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
GAGGTATTTTCA
Found at i:14393980 original size:30 final size:30
Alignment explanation
Indices: 14393940--14394055 Score: 137
Period size: 30 Copynumber: 3.9 Consensus size: 30
14393930 AAAAAATAAA
* * *
14393940 AAATTGCATTTTGACCCTTAAACTTTTCTT
1 AAATTTCATTTTAACCCCTAAACTTTTCTT
14393970 AAATTTCATTTTAACCCCTAAAC-TTTCTTT
1 AAATTTCATTTTAACCCCTAAACTTTTC-TT
* *
14394000 AAATTTCATTTTAACCCCTAAGCTTTCCTT
1 AAATTTCATTTTAACCCCTAAACTTTTCTT
* * *
14394030 AAATTACATTTTGA-CCCTAAATTTTT
1 AAATTTCATTTTAACCCCTAAACTTTT
14394056 TGAAAATTAC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
29 13 0.18
30 58 0.78
31 3 0.04
ACGTcount: A:0.29, C:0.22, G:0.03, T:0.46
Consensus pattern (30 bp):
AAATTTCATTTTAACCCCTAAACTTTTCTT
Found at i:14403040 original size:16 final size:16
Alignment explanation
Indices: 14403019--14403058 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
14403009 CATGATCCGA
* *
14403019 TTGAAACATAAGAATT
1 TTGAAACACAAAAATT
14403035 TTGAAAACACAAAAATT
1 TTG-AAACACAAAAATT
14403052 TTGAAAC
1 TTGAAAC
14403059 TCGAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.28
Consensus pattern (16 bp):
TTGAAACACAAAAATT
Found at i:14403158 original size:53 final size:53
Alignment explanation
Indices: 14403072--14403189 Score: 137
Period size: 53 Copynumber: 2.2 Consensus size: 53
14403062 AAATTTTTTT
* * ** * ** *
14403072 TTTGAAACCCGAGAGATTTTGAAAACACAAAAATTCTTGAAAACCTGAGAATC
1 TTTGAAACTCGAGAAATTTAAAAAAAACAAAAATTCTTGAAAACAGGAAAATC
* * *
14403125 TTTGAAACTCGAGAAATTTAAAAAAAACGAAAATTTTTGAAAACAGGAAAATT
1 TTTGAAACTCGAGAAATTTAAAAAAAACAAAAATTCTTGAAAACAGGAAAATC
14403178 TTTGAAACTCGA
1 TTTGAAACTCGA
14403190 ATTTTTTTTT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (53 bp):
TTTGAAACTCGAGAAATTTAAAAAAAACAAAAATTCTTGAAAACAGGAAAATC
Found at i:14403167 original size:17 final size:17
Alignment explanation
Indices: 14403088--14403184 Score: 59
Period size: 18 Copynumber: 5.5 Consensus size: 17
14403078 ACCCGAGAGA
*
14403088 TTTTGAAAACACAAAAAT
1 TTTTGAAAA-ACGAAAAT
* * *
14403106 TCTTGAAAACCTGAGAAT
1 TTTTGAAAAAC-GAAAAT
* **
14403124 CTTTGAAACTCGAGAAAT
1 TTTTGAAAAACGA-AAAT
***
14403142 TTAAAAAAAACGAAAAT
1 TTTTGAAAAACGAAAAT
*
14403159 TTTTGAAAACAGGAAAAT
1 TTTTGAAAA-ACGAAAAT
14403177 TTTTGAAA
1 TTTTGAAA
14403185 CTCGAATTTT
Statistics
Matches: 57, Mismatches: 19, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
17 13 0.23
18 44 0.77
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.28
Consensus pattern (17 bp):
TTTTGAAAAACGAAAAT
Found at i:14404712 original size:29 final size:30
Alignment explanation
Indices: 14404680--14404795 Score: 114
Period size: 30 Copynumber: 3.9 Consensus size: 30
14404670 TGTAATTTTT
*
14404680 AGAAAATTTA-GGGTCAAAATGCAATTTAA
1 AGAAAATTTAGGGGTCAAAATGAAATTTAA
** * *
14404709 AG-AAATTTAAGGGGTTGAAGTGGAATTTAA
1 AGAAAATTT-AGGGGTCAAAATGAAATTTAA
* *
14404739 AGAAAGTTTA-GGGTCAAAATGAAATTT-C
1 AGAAAATTTAGGGGTCAAAATGAAATTTAA
*
14404767 AGAAAAGTTTAGGGGTCAAAATGTAATTT
1 AGAAAA-TTTAGGGGTCAAAATGAAATTT
14404796 TTTATTTTTC
Statistics
Matches: 70, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
28 11 0.16
29 20 0.29
30 34 0.49
31 5 0.07
ACGTcount: A:0.43, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AGAAAATTTAGGGGTCAAAATGAAATTTAA
Found at i:14404795 original size:59 final size:59
Alignment explanation
Indices: 14404665--14404795 Score: 149
Period size: 59 Copynumber: 2.2 Consensus size: 59
14404655 CTTCTGGAGC
** *
14404665 CAAAGTGTAATTTTTAGAAAATTTAGGGTCAAAATGCAATTTAAAGAAATTTAAGGGGT
1 CAAAGTGTAATTTAAAGAAAATTTAGGGTCAAAATGAAATTTAAAGAAATTTAAGGGGT
** * * *
14404724 TGAAGTGGAATTTAAAGAAAGTTTAGGGTCAAAATGAAATTTCAGAA-AAGTTT-AGGGGT
1 CAAAGTGTAATTTAAAGAAAATTTAGGGTCAAAATGAAATTT-A-AAGAAATTTAAGGGGT
*
14404783 CAAAATGTAATTT
1 CAAAGTGTAATTT
14404796 TTTATTTTTC
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
59 50 0.86
60 6 0.10
61 2 0.03
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (59 bp):
CAAAGTGTAATTTAAAGAAAATTTAGGGTCAAAATGAAATTTAAAGAAATTTAAGGGGT
Found at i:14409254 original size:27 final size:28
Alignment explanation
Indices: 14409189--14409257 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
14409179 AATGAGATTG
* *
14409189 GCACTAAGTGCGCGAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTGAATTGTATA
*
14409217 GCACTAAGTGTGCGAGTTGACTAT-TA-A
1 GCACTAAGTGTGCGAGTTGAAT-TGTATA
14409244 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
14409258 GACTTACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 15 0.41
28 21 0.57
29 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTGAATTGTATA
Found at i:14409266 original size:27 final size:27
Alignment explanation
Indices: 14409216--14409267 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
14409206 TTAATTGTAT
*
14409216 AGCACTAAGTGTGCGAGTTGACTATTA
1 AGCACTAAGTGTGCGACTTGACTATTA
14409243 AGCACTAAGTGTGCGGACTT-ACTAT
1 AGCACTAAGTGTGC-GACTTGACTAT
14409268 ATATTTTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGACTATTA
Found at i:14413582 original size:15 final size:16
Alignment explanation
Indices: 14413562--14413594 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
14413552 TATATTTATT
14413562 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
14413577 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
14413594 T
1 T
14413595 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:14413680 original size:22 final size:22
Alignment explanation
Indices: 14413641--14413699 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
14413631 GTTTTAAGAA
*
14413641 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
14413662 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
14413684 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
14413700 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:14413716 original size:26 final size:24
Alignment explanation
Indices: 14413670--14413729 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
14413660 ATTTGTTTTA
*
14413670 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
14413694 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
14413720 TTTTTTATTT
1 ATATTTATTT
14413730 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:14415908 original size:17 final size:18
Alignment explanation
Indices: 14415873--14415912 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
14415863 TAAAAACATT
*
14415873 TAAAATTACCAAATTTTA
1 TAAAATTACCAAATATTA
*
14415891 TAAAATTA-GAAATATTA
1 TAAAATTACCAAATATTA
14415908 TAAAA
1 TAAAA
14415913 ACTTACAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (18 bp):
TAAAATTACCAAATATTA
Found at i:14417440 original size:32 final size:33
Alignment explanation
Indices: 14417399--14417463 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
14417389 GTAATTCATC
14417399 GTCATTA-TTTTTAATTAAATCAGTCAAAATTA
1 GTCATTATTTTTTAATTAAATCAGTCAAAATTA
14417431 GTCATTATTTTTTAATTAAATCAGTCAAAATTA
1 GTCATTATTTTTTAATTAAATCAGTCAAAATTA
14417464 AGGTTTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 7 0.22
33 25 0.78
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (33 bp):
GTCATTATTTTTTAATTAAATCAGTCAAAATTA
Found at i:14421540 original size:2 final size:2
Alignment explanation
Indices: 14421533--14421564 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14421523 AGAGTAATTA
14421533 AT AT AT 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 AT AT AT
14421565 GTGTGGTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14425993 original size:32 final size:33
Alignment explanation
Indices: 14425957--14426028 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
14425947 CAGTTTTATG
* *
14425957 AAATATTTT-TAGAAAATC-TGTCAAACATCAAA
1 AAATATTTTATACAAAATCAT-TCAAACACCAAA
* *
14425989 AAATATTTTATACAAATTCATTCAAATACCAAA
1 AAATATTTTATACAAAATCATTCAAACACCAAA
14426022 AAATATT
1 AAATATT
14426029 AACTTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 9 0.26
33 24 0.71
34 1 0.03
ACGTcount: A:0.51, C:0.12, G:0.03, T:0.33
Consensus pattern (33 bp):
AAATATTTTATACAAAATCATTCAAACACCAAA
Found at i:14440424 original size:16 final size:16
Alignment explanation
Indices: 14440403--14440452 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
14440393 TGACCATTTG
14440403 GGCTTGTGGGCCACAC
1 GGCTTGTGGGCCACAC
*
14440419 GGCTTGTGGTCCACAC
1 GGCTTGTGGGCCACAC
* *
14440435 GGCGTATGGGCCCACAC
1 GGCTTGTGGG-CCACAC
14440452 G
1 G
14440453 AGTAAAGCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 22 0.76
17 7 0.24
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (16 bp):
GGCTTGTGGGCCACAC
Found at i:14442629 original size:25 final size:25
Alignment explanation
Indices: 14442577--14442630 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
14442567 GGGATAGGAC
* * *
14442577 ATGATATGATATGTTATGATTCGTT
1 ATGATATGATAAGATATGATTCGGT
*
14442602 ATGATATGATAAGATATGATTTGGT
1 ATGATATGATAAGATATGATTCGGT
14442627 ATGA
1 ATGA
14442631 AATTTGATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (25 bp):
ATGATATGATAAGATATGATTCGGT
Found at i:14444787 original size:30 final size:30
Alignment explanation
Indices: 14444731--14444789 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
14444721 CTGATTTTAG
*
14444731 AAAATCATAAAATTATAATTACAAAAAATA
1 AAAATCATAAAATTATAATTAAAAAAAATA
*
14444761 AAAATACATAAAGTTATAA-TAAAAAAAAT
1 AAAAT-CATAAAATTATAATTAAAAAAAAT
14444790 CAAGGTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (30 bp):
AAAATCATAAAATTATAATTAAAAAAAATA
Found at i:14449540 original size:20 final size:20
Alignment explanation
Indices: 14449498--14449542 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
14449488 TTTACAACTT
* *
14449498 TTTTATTAGTTGTTTATACA
1 TTTTATTAGTTGATCATACA
14449518 TTTTATTAGTTTGATCATA-A
1 TTTTATTAG-TTGATCATACA
14449538 TTTTA
1 TTTTA
14449543 AATTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.27, C:0.04, G:0.09, T:0.60
Consensus pattern (20 bp):
TTTTATTAGTTGATCATACA
Found at i:14465876 original size:21 final size:18
Alignment explanation
Indices: 14465852--14465900 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
14465842 AGTATTTGTG
14465852 ATTATTTTGTTTCAATAAAT
1 ATTATTTTGTTT-AA-AAAT
14465872 AATTA-TTT-TTTAAAAAT
1 -ATTATTTTGTTTAAAAAT
14465889 ATTATTTTGTTT
1 ATTATTTTGTTT
14465901 TGATATGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.15
17 7 0.27
18 5 0.19
19 3 0.12
20 3 0.12
21 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (18 bp):
ATTATTTTGTTTAAAAAT
Found at i:14467995 original size:2 final size:2
Alignment explanation
Indices: 14467988--14468020 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14467978 CGTTATCTTT
14467988 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14468021 TTGCTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14469321 original size:131 final size:130
Alignment explanation
Indices: 14468967--14469327 Score: 343
Period size: 131 Copynumber: 2.7 Consensus size: 130
14468957 AAATTCTTTA
* * *
14468967 AAACGAAGGCGATATTCG--ATTCATGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTACA
1 AAACGAAGGCAATATTCGACATT--TGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCA
* ** * * *
14469030 ATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCATGTCTTTTAAAAGTCC
64 ATTTCTTGTTTGCTCAAA-TAATCGAATATCCCTTCAAAATTTCACCCATGTCTTCTAAAAGTCC
*
14469095 CTT
128 ATT
* * * * *
14469098 AAACGAAGGCGATATTTGATATTTGGCGACTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAAT
1 AAACGAAGGCAATATTCGACATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAAT
** * * * *
14469163 TTAGTGTTCGCTTAAAATAATCAAATATCCCTTCAAAATTTCACTCATGTCTTCT-AAAGATCCA
66 TTCTTGTTTGC-TCAAATAATCGAATATCCCTTCAAAATTTCACCCATGTCTTCTAAAAG-TCCA
14469227 TT
129 TT
* * * * * * * **
14469229 AAAATGAAGGTAATATTCGGCATTTGGCAATTTG-GGAATCATGCCCTATCGTGCTGGGTTGTGA
1 -AAACGAAGGCAATATTCGACATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
*
14469293 TTTCTTGTTTGCTCAACACAATCGAATATTCCCTT
65 TTTCTTGTTTGCTCAA-ATAATCGAATA-TCCCTT
14469328 AGGTTTTCAT
Statistics
Matches: 185, Mismatches: 38, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
130 7 0.04
131 141 0.76
132 34 0.18
133 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (130 bp):
AAACGAAGGCAATATTCGACATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAAT
TTCTTGTTTGCTCAAATAATCGAATATCCCTTCAAAATTTCACCCATGTCTTCTAAAAGTCCATT
Found at i:14481113 original size:132 final size:132
Alignment explanation
Indices: 14480899--14481198 Score: 465
Period size: 132 Copynumber: 2.3 Consensus size: 132
14480889 GCGAATCCTA
* * * * * *
14480899 TAGATCTTGTCTCCCTGAAATTGCAGTGAAGCAAATCGAAGACGGCGAATCTTGGCTTCCTGAAG
1 TAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGGCGAATCTTGGCTTCCTAAAG
* *
14480964 TTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGCAGTAGGCTAAAAT
66 TTGCAGTGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAAGTTGTAGTGCAGTAGGCTAAAAT
14481029 TT
131 TT
* * * *
14481031 TAGATCCTGTTTCCTTGAAGTTACAGTGAAACAGATCAAAGACGGTGAATCTTGGCTTCCTAAAG
1 TAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGGCGAATCTTGGCTTCCTAAAG
* * *
14481096 TTGCAGTGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAATTTGTAGTGGAGTAGGCTGAAAT
66 TTGCAGTGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAAGTTGTAGTGCAGTAGGCTAAAAT
14481161 TT
131 TT
14481163 TAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGAT
1 TAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGAT
14481199 TTAAGCCACC
Statistics
Matches: 150, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 150 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (132 bp):
TAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGGCGAATCTTGGCTTCCTAAAG
TTGCAGTGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAAGTTGTAGTGCAGTAGGCTAAAAT
TT
Found at i:14481239 original size:87 final size:87
Alignment explanation
Indices: 14481093--14481286 Score: 334
Period size: 87 Copynumber: 2.2 Consensus size: 87
14481083 TGGCTTCCTA
* *
14481093 AAGTTGCAGTGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAATTTGTAGTGGAGTAGGCTGA
1 AAGTTGCAGTGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAA
14481158 AATTTTAGATCCTGTTTCCCTG
66 AATTTTAGATCCTGTTTCCCTG
* *
14481180 AAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAA
1 AAGTTGCAGTGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAA
*
14481245 AATTTTAGATCCTGTTTCTCTG
66 AATTTTAGATCCTGTTTCCCTG
*
14481267 AAGTTACAGTGAAGCAGATT
1 AAGTTGCAGTGAAGCAGATT
14481287 AAAGACGGCG
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 101 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (87 bp):
AAGTTGCAGTGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAA
AATTTTAGATCCTGTTTCCCTG
Found at i:14481342 original size:219 final size:219
Alignment explanation
Indices: 14480957--14481417 Score: 843
Period size: 219 Copynumber: 2.1 Consensus size: 219
14480947 ATCTTGGCTT
14480957 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGCAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGCAGTAGG
*
14481022 CTAAAATTTTAGATCCTGTTTCCTTGAAGTTACAGTGAAACAGATCAAAGACGGTGAATCTTGGC
66 CTAAAATTTTAGATCCTGTTTCCTTGAAGTTACAGTGAAACAGATCAAAGACGGCGAATCTTGGC
*
14481087 TTCCTAAAGTTGCAGTGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAATTTGTAGTGGAGTA
131 TTCCTAAAGTTGCAGTGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTA
14481152 GGCTGAAATTTTAGATCCTGTTTC
196 GGCTGAAATTTTAGATCCTGTTTC
*
14481176 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGCAGTAGG
* *
14481241 CTAAAATTTTAGATCCTGTTT-CTCTGAAGTTACAGTGAAGCAGATTAAAGACGGCGAATCTTGG
66 CTAAAATTTTAGATCCTGTTTCCT-TGAAGTTACAGTGAAACAGATCAAAGACGGCGAATCTTGG
*
14481305 CTTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGT
130 CTTCCTAAAGTTGCAGTGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGT
14481370 AGGCTGAAATTTTAGATCCTGTTTC
195 AGGCTGAAATTTTAGATCCTGTTTC
*
14481395 CCTGAAGTTACAGTGAAGCAGAT
1 CCTGAAGTTGCAGTGAAGCAGAT
14481418 CAAAGACGGT
Statistics
Matches: 234, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
218 2 0.01
219 232 0.99
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (219 bp):
CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGCAGTAGG
CTAAAATTTTAGATCCTGTTTCCTTGAAGTTACAGTGAAACAGATCAAAGACGGCGAATCTTGGC
TTCCTAAAGTTGCAGTGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTA
GGCTGAAATTTTAGATCCTGTTTC
Found at i:14481519 original size:351 final size:351
Alignment explanation
Indices: 14480899--14481549 Score: 1122
Period size: 351 Copynumber: 1.9 Consensus size: 351
14480889 GCGAATCCTA
* * * *
14480899 TAGATCTTGTCTCCCTGAAATTGCAGTGAAGCAAATCGAAGACGGCGAATCTTGGCTTCCTGAAG
1 TAGATCCTGTCTCCCTGAAATTACAGTGAAGCAAATCAAAGACGGCGAATCTTGGCTTCCTAAAG
*
14480964 TTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGCAGTAGGCTAAAAT
66 TTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGCAGTAGGCTAAAAT
*
14481029 TTTAGATCCTGTTTCCTTGAAGTTACAGTGAAACAGATCAAAGACGGTGAATCTTGGCTTCCTAA
131 TTTAGATCCTGTTTCCCTGAAGTTACAGTGAAACAGATCAAAGACGGTGAATCTTGGCTTCCTAA
* * ** *
14481094 AGTTGCAGTGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAATTTGTAGTGGAGTAGGCTGAA
196 AGTTGCAATGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAAGTTGTAGCAGAGTAGGCTAAA
14481159 ATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAA
261 ATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAA
14481224 AGTTGTAGTGGAGTAGGCTAAAATTT
326 AGTTGTAGTGGAGTAGGCTAAAATTT
* * * * *
14481250 TAGATCCTGTTTCTCTGAAGTTACAGTGAAGCAGATTAAAGACGGCGAATCTTGGCTTCCTAAAG
1 TAGATCCTGTCTCCCTGAAATTACAGTGAAGCAAATCAAAGACGGCGAATCTTGGCTTCCTAAAG
* *
14481315 TTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAAT
66 TTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGCAGTAGGCTAAAAT
*
14481380 TTTAGATCCTGTTTCCCTGAAGTTACAGTGAAGCAGATCAAAGACGGTGAATCTTGGCTTCCTAA
131 TTTAGATCCTGTTTCCCTGAAGTTACAGTGAAACAGATCAAAGACGGTGAATCTTGGCTTCCTAA
*
14481445 AGTTGCAATGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGCAGAGTAGGCTAAA
196 AGTTGCAATGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAAGTTGTAGCAGAGTAGGCTAAA
14481510 ATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGAT
261 ATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGAT
14481550 CGAGGACGAC
Statistics
Matches: 280, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
351 280 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (351 bp):
TAGATCCTGTCTCCCTGAAATTACAGTGAAGCAAATCAAAGACGGCGAATCTTGGCTTCCTAAAG
TTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGCAGTAGGCTAAAAT
TTTAGATCCTGTTTCCCTGAAGTTACAGTGAAACAGATCAAAGACGGTGAATCTTGGCTTCCTAA
AGTTGCAATGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAAGTTGTAGCAGAGTAGGCTAAA
ATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAA
AGTTGTAGTGGAGTAGGCTAAAATTT
Found at i:14481681 original size:351 final size:351
Alignment explanation
Indices: 14480906--14481623 Score: 967
Period size: 351 Copynumber: 2.0 Consensus size: 351
14480896 CTATAGATCT
* * * * *
14480906 TGTCTCCCTGAAA-TTGCAGTGAAGCAAATCG-AAGACGGCGAATCTTGGCTTCCTGAAGTTGCA
1 TGTCTCCCT-AAAGTTACAATGAAGCAGAT-GAAAGACGGAGAATCCTGGCTTCCTGAAGTTGCA
*
14480969 GTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGCAGTAGGCTAAAATTTTAG
64 GTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGCAGTAGGCTAAAATTTTAG
*
14481034 ATCCTGTTTCCTTGAAGTTACAGTGAAACAGATCAAAGACGGTGAATCTTGGCTTCCTAAAGTTG
129 ATCCTGTTTCCCTGAAGTTACAGTGAAACAGATCAAAGACGGTGAATCTTGGCTTCCTAAAGTTG
* * ** *
14481099 CAGTGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAATTTGTAGTGGAGTAGGCTGAAATTTT
194 CAATGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAAGTTGTAGCAGAGTAGGCTAAAATTTT
** *
14481164 AGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTG
259 AGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGCCACAATCCTAGCTCCCTAAAGTTG
* * * *** *
14481229 TAGTGGAGTAGGCTAAAATTTTAGATCC
324 TAGTGAAGCAGACTAAAACCATACATCC
* * * * * * * *
14481257 TGTTTCTCTGAAGTTACAGTGAAGCAGATTAAAGACGGCGAATCTTGGCTTCCTAAAGTTGCAGT
1 TGTCTCCCTAAAGTTACAATGAAGCAGATGAAAGACGGAGAATCCTGGCTTCCTGAAGTTGCAGT
* *
14481322 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGAT
66 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGCAGTAGGCTAAAATTTTAGAT
*
14481387 CCTGTTTCCCTGAAGTTACAGTGAAGCAGATCAAAGACGGTGAATCTTGGCTTCCTAAAGTTGCA
131 CCTGTTTCCCTGAAGTTACAGTGAAACAGATCAAAGACGGTGAATCTTGGCTTCCTAAAGTTGCA
*
14481452 ATGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGCAGAGTAGGCTAAAATTTTAG
196 ATGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAAGTTGTAGCAGAGTAGGCTAAAATTTTAG
* * * * * * *
14481517 ATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAGGACGACGAATCTTGGCTTCTTGAAGTTG
261 ATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAG-CCAC-AATCCTAGCTCCCTAAAGTTG
* * *
14481582 TAGTGAAGCAGATTCAAGCCAT-CATCC
324 TAGTGAAGCAGACTAAAACCATACATCC
14481609 TAG-CTCCCTAAAGTT
1 T-GTCTCCCTAAAGTT
14481624 GTAATGGAGT
Statistics
Matches: 321, Mismatches: 41, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
350 2 0.01
351 273 0.85
352 17 0.05
353 29 0.09
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (351 bp):
TGTCTCCCTAAAGTTACAATGAAGCAGATGAAAGACGGAGAATCCTGGCTTCCTGAAGTTGCAGT
GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGCAGTAGGCTAAAATTTTAGAT
CCTGTTTCCCTGAAGTTACAGTGAAACAGATCAAAGACGGTGAATCTTGGCTTCCTAAAGTTGCA
ATGAAGCAGATTTAAACCACCAACCTAGCTCCCTAAAGTTGTAGCAGAGTAGGCTAAAATTTTAG
ATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGCCACAATCCTAGCTCCCTAAAGTTGTA
GTGAAGCAGACTAAAACCATACATCC
Found at i:14481987 original size:133 final size:133
Alignment explanation
Indices: 14481176--14482336 Score: 1623
Period size: 132 Copynumber: 8.8 Consensus size: 133
14481166 ATCCTGTTTC
14481176 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
* * * * *
14481241 CT-AAAATTTTAGATCCTGTTTCTCTGAAGTTACAGTGAAGCAGATTAAAGACGGCGAATCTTGG
66 CTGAAGATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGACGAATCTTGG
14481305 CTT
131 CTT
* *
14481308 CCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
* **
14481373 CTGAA-ATTTTAGATCCTGTTTCCCTGAAGTTACAGTGAAGCAGATCAAAGACGGTGAATCTTGG
66 CTGAAGATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGACGAATCTTGG
14481437 CTT
131 CTT
* * * **
14481440 CCTAAAGTTGCAATGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGCAGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
* * *
14481505 CT-AAAATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAGGACGACGAATCTTGG
66 CTGAAGATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGACGAATCTTGG
14481569 CTT
131 CTT
* * * * *
14481572 CTTGAAGTTGTAGTGAAGCAGATTCAAGCCATCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
* *
14481637 CTGAA-ATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAA-ACGACAAATCTTA
66 CTGAAGATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATC-AAAGACGACGAATCTTG
14481700 GCTT
130 GCTT
14481704 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
* * * *
14481769 ATGAA-ATTTTAGATCCTGTTTCTCTGAAGTTACAGTGAAGCAGATCAAAGACGGCGAATCTTGG
66 CTGAAGATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGACGAATCTTGG
14481833 CTT
131 CTT
* * * *
14481836 CTTGAAGTTGCAGTGAAGCAAATTTAAGCCACCATCCTAGCTCCATAATGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
* * * * * ** * * *
14481901 CTGAAGATTGTAGATCTTGTCTCCCTAAAGTTGCTGTGGGGCAAATCGAAGACAACGAATCTTGG
66 CTGAAGATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGACGAATCTTGG
14481966 CTT
131 CTT
*
14481969 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAATGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
* * ** * ** * * *
14482034 CTGAAGATTGTAGATCTTGCCTCCCTGAAGTTGTAGTGGGGCAAATCGAAGACGACAAATCTTGG
66 CTGAAGATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGACGAATCTTGG
14482099 CTT
131 CTT
* *
14482102 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCATAATGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
* ** * * * * ** *
14482167 CTAAAGATTGCAGATCTTGTCTCCCTAAAGTTGTAGTGGGGCAAATCAAAGACGACGAATCTTGG
66 CTGAAGATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGACGAATCTTGG
14482232 CTT
131 CTT
*
14482235 CCTGAAGTTGTAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
* * * * *
14482300 CTGATGGTTGTAGATCTTGTCTCCCTGAAGTTGCAGT
66 CTGAAGATTTTAGATCCTGTTTCCCTGAAGTTGCAGT
14482337 AGAGCATATA
Statistics
Matches: 942, Mismatches: 81, Indels: 11
0.91 0.08 0.01
Matches are distributed among these distances:
131 5 0.01
132 540 0.57
133 397 0.42
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (133 bp):
CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
CTGAAGATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGACGAATCTTGG
CTT
Found at i:14484075 original size:2 final size:2
Alignment explanation
Indices: 14484068--14484104 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14484058 ATTTTTACGT
14484068 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14484105 TTGCTTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14484288 original size:37 final size:37
Alignment explanation
Indices: 14484238--14484310 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
14484228 CATATATTTC
14484238 CTTAAATCCATGTGTTTTAACATATATTTTTGCTATA
1 CTTAAATCCATGTGTTTTAACATATATTTTTGCTATA
14484275 CTTAAATCCATGTGTTTTAACATATATTTTTGCTAT
1 CTTAAATCCATGTGTTTTAACATATATTTTTGCTAT
14484311 TCAAATATGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49
Consensus pattern (37 bp):
CTTAAATCCATGTGTTTTAACATATATTTTTGCTATA
Found at i:14485387 original size:121 final size:121
Alignment explanation
Indices: 14485172--14485403 Score: 279
Period size: 121 Copynumber: 1.9 Consensus size: 121
14485162 TTGCTCAAAG
* * * * * *
14485172 TAATCAAAGGTCCCTTTAGAATTTCACCCATGTCTTTTAAAAGTCCCTTAAACGAAGGTGATATT
1 TAATCAAAGATCCCTTCAAAATTTCACCCATGTCTTCTAAAAGTCCATTAAACGAAGGTAATATT
* * * * *
14485237 TGATATTTGGCGACTCGCGGAATCGTGCCCTAACGTGTTGGGTTGTTCGCTTAAAA
66 CGACATTTGGCAACTCGCGGAATCATGCCCTAACGTGCTGGGTTGTTCGCTTAAAA
* *
14485293 TAATCAAATATCCCTTCAAAATTTCACTCATGTCTTCT-AAAGATCCATTAAAACGAAGGTAATA
1 TAATCAAAGATCCCTTCAAAATTTCACCCATGTCTTCTAAAAG-TCCATT-AAACGAAGGTAATA
* * **
14485357 TTCGGCATTTGGCAATTCG-GGAATCATGCCCTATTGTGCTGGGTTGT
64 TTCGACATTTGGCAACTCGCGGAATCATGCCCTAACGTGCTGGGTTGT
14485404 GATTTCTCGT
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
120 4 0.04
121 61 0.66
122 27 0.29
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (121 bp):
TAATCAAAGATCCCTTCAAAATTTCACCCATGTCTTCTAAAAGTCCATTAAACGAAGGTAATATT
CGACATTTGGCAACTCGCGGAATCATGCCCTAACGTGCTGGGTTGTTCGCTTAAAA
Found at i:14488527 original size:44 final size:44
Alignment explanation
Indices: 14488464--14488573 Score: 177
Period size: 44 Copynumber: 2.5 Consensus size: 44
14488454 CTGATCACAT
14488464 TTATCACTTGTC-TCTGATCAGATAAGTGTAGCTAAAACTACCAC
1 TTATCACTTGTCAT-TGATCAGATAAGTGTAGCTAAAACTACCAC
*
14488508 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAACTACCAC
* *
14488552 TTATGACTTGTCACTGATCAGA
1 TTATCACTTGTCATTGATCAGA
14488574 AGTACTCAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
44 61 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (44 bp):
TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAACTACCAC
Found at i:14496254 original size:51 final size:51
Alignment explanation
Indices: 14496183--14496343 Score: 295
Period size: 51 Copynumber: 3.2 Consensus size: 51
14496173 CTGATCACAT
*
14496183 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
14496234 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
14496285 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
14496336 TTGTCACT
1 TTATCACT
14496344 GATCAAAAGT
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 107 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:14497884 original size:16 final size:16
Alignment explanation
Indices: 14497859--14497889 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14497849 GCCGAAATAG
14497859 ACCCTATTTCTTTTAA
1 ACCCTATTTCTTTTAA
*
14497875 ACCCTCTTTCTTTTA
1 ACCCTATTTCTTTTA
14497890 TCATTTAAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.29, G:0.00, T:0.52
Consensus pattern (16 bp):
ACCCTATTTCTTTTAA
Found at i:14499354 original size:32 final size:31
Alignment explanation
Indices: 14499318--14499377 Score: 102
Period size: 32 Copynumber: 1.9 Consensus size: 31
14499308 GTACCTGAAA
14499318 AAAACAGAATTAAAAGCTTTGATATGGAAAAT
1 AAAACAGAATTAAAAGCTTTGAT-TGGAAAAT
*
14499350 AAAACAGAATTAAAAGGTTTGATTGGAA
1 AAAACAGAATTAAAAGCTTTGATTGGAA
14499378 TTTTGAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 5 0.19
32 22 0.81
ACGTcount: A:0.52, C:0.05, G:0.18, T:0.25
Consensus pattern (31 bp):
AAAACAGAATTAAAAGCTTTGATTGGAAAAT
Found at i:14500118 original size:10 final size:10
Alignment explanation
Indices: 14500099--14500148 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
14500089 TTAAATTCTA
14500099 AAAGATAAAT
1 AAAGATAAAT
14500109 ACAA-ATAAAT
1 A-AAGATAAAT
*
14500119 AAAGATAATT
1 AAAGATAAAT
14500129 AAAGATAAAT
1 AAAGATAAAT
14500139 GAAA-ATAAAT
1 -AAAGATAAAT
14500149 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:14500198 original size:14 final size:13
Alignment explanation
Indices: 14500162--14500199 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
14500152 AAAATTAAAT
14500162 CTAAATAATTATC
1 CTAAATAATTATC
*
14500175 CTTAATAATTATC
1 CTAAATAATTATC
14500188 CTAATATAATTA
1 CTAA-ATAATTA
14500200 AACATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:14503080 original size:3 final size:3
Alignment explanation
Indices: 14503066--14503374 Score: 276
Period size: 3 Copynumber: 104.3 Consensus size: 3
14503056 AATTAAAAAG
* * * *
14503066 ATA ATG ATA ATA ATA ATA ATA ATA ACA ACA ACA ATA ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * * *
14503112 ATA ATA ATA GTA A-A AAA ATA ATA ATA GTA ATA ATA ATA ATG ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * * *
14503160 ATA ATA ATA GTA A-A A-A ATA ATA GTA ATA ATA ATG ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
14503206 AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
14503254 A-A AAA ATA ATA CTA GTA ATA ATA ATA ATA ATA ATG ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * * * * *
14503299 GTA ATA GTA A-A A-A ATA ATA ATA GTA A-A AAA ATA ATA CTA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
14503344 ATA ATA ATA A-A ATTA ATTA AT- TTA ATA ATA A
1 ATA ATA ATA ATA A-TA A-TA ATA ATA ATA ATA A
14503375 AGTAGCTAAA
Statistics
Matches: 252, Mismatches: 43, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
2 17 0.07
3 220 0.87
4 15 0.06
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:14504975 original size:21 final size:21
Alignment explanation
Indices: 14504949--14505003 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
14504939 TTAGGGTCAT
14504949 AAATAATTAATTAAAGTATTA
1 AAATAATTAATTAAAGTATTA
*
14504970 AAATAATATAA-TAAGGTATTA
1 AAATAAT-TAATTAAAGTATTA
**
14504991 TTAT-ATTAATTAA
1 AAATAATTAATTAA
14505004 TCTAAATTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.10
20 5 0.17
21 18 0.62
22 3 0.10
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
AAATAATTAATTAAAGTATTA
Found at i:14508473 original size:25 final size:24
Alignment explanation
Indices: 14508443--14508489 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
14508433 AATCATTTTT
*
14508443 TCATTTTGGCCCTTATATTTTTAGG
1 TCATTTTGGCCCTCA-ATTTTTAGG
14508468 TCATTTTGGCCCTCAATTTTTA
1 TCATTTTGGCCCTCAATTTTTA
14508490 AAATTTACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.17, C:0.19, G:0.13, T:0.51
Consensus pattern (24 bp):
TCATTTTGGCCCTCAATTTTTAGG
Found at i:14508848 original size:17 final size:16
Alignment explanation
Indices: 14508822--14508863 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 16
14508812 GGCGAGGTTA
14508822 AAAAATAATAATAAAAAT
1 AAAAA-AATAA-AAAAAT
14508840 AAAAAAATAAAAAAAT
1 AAAAAAATAAAAAAAT
14508856 ACAAAAAA
1 A-AAAAAA
14508864 AGGATCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.30
17 11 0.48
18 5 0.22
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAAAATAAAAAAAT
Found at i:14508864 original size:10 final size:8
Alignment explanation
Indices: 14508822--14508863 Score: 57
Period size: 8 Copynumber: 4.9 Consensus size: 8
14508812 GGCGAGGTTA
14508822 AAAAATAAT
1 AAAAA-AAT
14508831 AATAAAAAT
1 AA-AAAAAT
14508840 AAAAAAAT
1 AAAAAAAT
14508848 AAAAAAAT
1 AAAAAAAT
14508856 ACAAAAAA
1 A-AAAAAA
14508864 AGGATCATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 15 0.48
9 13 0.42
10 3 0.10
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAAAAAT
Found at i:14509388 original size:40 final size:40
Alignment explanation
Indices: 14509333--14509479 Score: 186
Period size: 40 Copynumber: 3.7 Consensus size: 40
14509323 ATTTGGATAA
* *
14509333 AAAAACGCCGTTATAGATCGAGCATTAGCGGTGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* *
14509373 AAAAACGCCGCTATAGATCGAGCATTAGTGGCGTTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
** * * * * *
14509413 AAAAATACCGGTATAAATCGAGAATTAGCAGCACTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
*
14509453 AAAAACGCCACTATAGATCGAGCATTA
1 AAAAACGCCGCTATAGATCGAGCATTA
14509480 AAAATTAAGC
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 88 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
Found at i:14509684 original size:99 final size:99
Alignment explanation
Indices: 14509511--14509696 Score: 275
Period size: 99 Copynumber: 1.9 Consensus size: 99
14509501 GTTTTATGCT
* * * *
14509511 GAGCTTTAGTGGCGTTAGCGATGATTTTTGAAAAACGCCGCTATAGATCGAGTATTAGCTGCACT
1 GAGCTTTAGTGGCATTAGCGATCATTTTTGAAAAACACCGCTATAGATCGAGTATTAGCGGCACT
* * *
14509576 TTTTGAAAAACGCTGCAAAAAATTTCAGTAAGAC
66 TTATCAAAAACGCCGCAAAAAATTTCAGTAAGAC
* *
14509610 GAGCTTTTGTGGCATTAGCGA-CACTTTTTGAAAAACACCGCTATAGATCGAGTTTTAGCGGCAC
1 GAGCTTTAGTGGCATTAGCGATCA-TTTTTGAAAAACACCGCTATAGATCGAGTATTAGCGGCAC
14509674 TTTATCAAAAACGCCGCAAAAAA
65 TTTATCAAAAACGCCGCAAAAAA
14509697 CATGTTATCT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
98 1 0.01
99 76 0.99
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (99 bp):
GAGCTTTAGTGGCATTAGCGATCATTTTTGAAAAACACCGCTATAGATCGAGTATTAGCGGCACT
TTATCAAAAACGCCGCAAAAAATTTCAGTAAGAC
Found at i:14510014 original size:7 final size:7
Alignment explanation
Indices: 14509993--14510157 Score: 93
Period size: 7 Copynumber: 23.4 Consensus size: 7
14509983 TTGATTATCA
*
14509993 TTATAGT
1 TTATGGT
*
14510000 TTAGGGT
1 TTATGGT
14510007 TTATGGT
1 TTATGGT
*
14510014 TTAGGGT
1 TTATGGT
* *
14510021 ATATAGT
1 TTATGGT
*
14510028 TTAGGGT
1 TTATGGT
14510035 TTATGGT
1 TTATGGT
*
14510042 TTAGGGT
1 TTATGGT
* *
14510049 ATATAGT
1 TTATGGT
*
14510056 TTAGGGT
1 TTATGGT
14510063 TTATGGT
1 TTATGGT
*
14510070 TTAGGGT
1 TTATGGT
* *
14510077 ATATAGT
1 TTATGGT
14510084 TTA-GGAT
1 TTATGG-T
*
14510091 TTAAGGT
1 TTATGGT
*
14510098 TTAGGAGT
1 TTATG-GT
14510106 TACTAT--T
1 T--TATGGT
**
14510113 TTAAAGT
1 TTATGGT
*
14510120 TTATGGA
1 TTATGGT
*
14510127 TTATGGA
1 TTATGGT
*
14510134 TTATGGA
1 TTATGGT
14510141 TTATGGT
1 TTATGGT
14510148 TTATGGT
1 TTATGGT
14510155 TTA
1 TTA
14510158 AGTGTTGAGG
Statistics
Matches: 119, Mismatches: 32, Indels: 14
0.72 0.19 0.08
Matches are distributed among these distances:
5 2 0.02
6 1 0.01
7 109 0.92
8 5 0.04
10 2 0.02
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (7 bp):
TTATGGT
Found at i:14510015 original size:14 final size:14
Alignment explanation
Indices: 14509993--14510221 Score: 151
Period size: 14 Copynumber: 16.1 Consensus size: 14
14509983 TTGATTATCA
*
14509993 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
14510007 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
14510021 ATATAGTTTAGGGT
1 TTATGGTTTAGGGT
14510035 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
14510049 ATATAGTTTAGGGT
1 TTATGGTTTAGGGT
14510063 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* * *
14510077 ATATAGTTTAGGAT
1 TTATGGTTTAGGGT
*
14510091 TTAAGGTTTAGGAGT
1 TTATGGTTTAGG-GT
**
14510106 TACTAT--TTTAAAGT
1 T--TATGGTTTAGGGT
* * *
14510120 TTATGGATTATGGA
1 TTATGGTTTAGGGT
* *
14510134 TTATGGATTATGGT
1 TTATGGTTTAGGGT
*
14510148 TTATGGTTTAAGTGT
1 TTATGGTTT-AGGGT
* *
14510163 TGA-GGTTTAAGGT
1 TTATGGTTTAGGGT
* *
14510176 TTAGGGGTTT-GGGG
1 TTA-TGGTTTAGGGT
* *
14510190 TTAAGGGTTAGGTGT
1 TTATGGTTTAGG-GT
*
14510205 TTAGGGTTTAAGGGT
1 TTATGGTTT-AGGGT
14510220 TT
1 TT
14510222 TGCTTTATGA
Statistics
Matches: 166, Mismatches: 38, Indels: 21
0.74 0.17 0.09
Matches are distributed among these distances:
12 3 0.02
13 9 0.05
14 121 0.73
15 28 0.17
16 3 0.02
17 2 0.01
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:14510025 original size:28 final size:28
Alignment explanation
Indices: 14509994--14510102 Score: 200
Period size: 28 Copynumber: 3.9 Consensus size: 28
14509984 TGATTATCAT
14509994 TATAGTTTAGGGTTTATGGTTTAGGGTA
1 TATAGTTTAGGGTTTATGGTTTAGGGTA
14510022 TATAGTTTAGGGTTTATGGTTTAGGGTA
1 TATAGTTTAGGGTTTATGGTTTAGGGTA
14510050 TATAGTTTAGGGTTTATGGTTTAGGGTA
1 TATAGTTTAGGGTTTATGGTTTAGGGTA
* *
14510078 TATAGTTTAGGATTTAAGGTTTAGG
1 TATAGTTTAGGGTTTATGGTTTAGG
14510103 AGTTACTATT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 79 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (28 bp):
TATAGTTTAGGGTTTATGGTTTAGGGTA
Found at i:14510193 original size:21 final size:22
Alignment explanation
Indices: 14510169--14510220 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
14510159 GTGTTGAGGT
*
14510169 TTAAGGTTTAGGGGTTT-GGGG
1 TTAAGGGTTAGGGGTTTAGGGG
* *
14510190 TTAAGGGTTAGGTGTTTAGGGT
1 TTAAGGGTTAGGGGTTTAGGGG
14510212 TTAAGGGTT
1 TTAAGGGTT
14510221 TTGCTTTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.40
Consensus pattern (22 bp):
TTAAGGGTTAGGGGTTTAGGGG
Found at i:14510207 original size:57 final size:57
Alignment explanation
Indices: 14510146--14510271 Score: 144
Period size: 57 Copynumber: 2.2 Consensus size: 57
14510136 ATGGATTATG
* * * * ** * * *
14510146 GTTTATGGTTTAAGTGTTGAGGTTTAAGGTTTAGGGGTTTGGGGTTAAGGGTTAGGT
1 GTTTAGGGTTTAAGGGTTGAGCTTTAAGATTTACAGGTTAGGGGATAAGGGTTAGGA
** *
14510203 GTTTAGGGTTTAAGGGTTTTGCTTTATGATTTACAGGTTAGGGGATAAGGGTTAGGA
1 GTTTAGGGTTTAAGGGTTGAGCTTTAAGATTTACAGGTTAGGGGATAAGGGTTAGGA
14510260 GTTTAGGGTTTA
1 GTTTAGGGTTTA
14510272 GATTAATTAG
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.20, C:0.02, G:0.37, T:0.41
Consensus pattern (57 bp):
GTTTAGGGTTTAAGGGTTGAGCTTTAAGATTTACAGGTTAGGGGATAAGGGTTAGGA
Found at i:14511295 original size:115 final size:112
Alignment explanation
Indices: 14511018--14511339 Score: 344
Period size: 115 Copynumber: 2.8 Consensus size: 112
14511008 TAAATATTTA
* * * * * * *
14511018 GCAAAAA-TCATTTTTTTTTAATAAAAACGGCGCCATTCTATTGGATTTCTTAGTGACGTTTTTG
1 GCAAAAAGTTATTTTATTTTAATCAAAACGGCGCCATTTTATTGGATTTTTTAGTGGC-TTTTTT
* *
14511082 GTGAAACACCGCAATATGTGGGCTTTAGCGGTGCTAGTGAAAAAACAC
65 GTTAAACGCCGCAATATGTGGGCTTTAGCGGTGCTAGTGAAAAAACAC
* * * * *
14511130 GTAAAAAGTTATTCTATTTTAATCAAAATGACGCCATTTTATTTGATTTTTTAGTGGCTTTTTTG
1 GCAAAAAGTTATTTTATTTTAATCAAAACGGCGCCATTTTATTGGATTTTTTAGTGGCTTTTTTG
* *
14511195 TTAAAACGCCGCAATAGGTCGGGCTTTAGCGGTGCTAGGTG-AAAAACGCC
66 TT-AAACGCCGCAATATGT-GGGCTTTAGCGGTGCTA-GTGAAAAAAC-AC
* * * * *
14511245 GCAAAATGTTATTTTGTTTTAATCAAAACGGCGCCTTTTTGTAGG-TTTTTTAGTGGCGTTTTTT
1 GCAAAAAGTTATTTTATTTTAATCAAAACGGCGCCATTTTATTGGATTTTTTAGTGGC-TTTTTT
* *
14511309 GGTTAAACGCCACAATATGTAGGGATTTAGC
65 -GTTAAACGCCGCAATATGT-GGGCTTTAGC
14511340 AGCACTAGTG
Statistics
Matches: 173, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
112 13 0.08
113 54 0.31
114 35 0.20
115 68 0.39
116 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (112 bp):
GCAAAAAGTTATTTTATTTTAATCAAAACGGCGCCATTTTATTGGATTTTTTAGTGGCTTTTTTG
TTAAACGCCGCAATATGTGGGCTTTAGCGGTGCTAGTGAAAAAACAC
Found at i:14513108 original size:16 final size:16
Alignment explanation
Indices: 14513088--14513159 Score: 81
Period size: 16 Copynumber: 4.5 Consensus size: 16
14513078 CGTTTAGTTG
*
14513088 GCTGTAATGGAATAGG
1 GCTGTAATGGAATAGA
*
14513104 GCTGTAATTGAATAGA
1 GCTGTAATGGAATAGA
* * *
14513120 GCTATAGTGAAATAGA
1 GCTGTAATGGAATAGA
* *
14513136 GCTATAATGGAAAAGA
1 GCTGTAATGGAATAGA
14513152 GCTGTAAT
1 GCTGTAAT
14513160 AAGTAATTCA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.39, C:0.07, G:0.28, T:0.26
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:14516501 original size:26 final size:26
Alignment explanation
Indices: 14516463--14516572 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
14516453 CATGAAATTC
*
14516463 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
14516489 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
14516515 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
14516541 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
14516567 TTATCA
1 TTATCA
14516573 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:14523788 original size:41 final size:40
Alignment explanation
Indices: 14523648--14523790 Score: 142
Period size: 42 Copynumber: 3.4 Consensus size: 40
14523638 ATATTTTTTA
* * * *
14523648 AAAGGTCATGTTCTTTAGCGACATTTGTGAGAAAAGCGCTGCT
1 AAAGGTC-TGTTCTATAGCGGCGTTTGTGAAAAAAGC-C-GCT
* * * *
14523691 AAAAGTCTGTTCTATAGTGGCGTTTGTGGAAAAAGTGCCACT
1 AAAGGTCTGTTCTATAGCGGCGTTTGT-GAAAAA-AGCCGCT
* *
14523733 AAAGGTCTGCTCTATAGCGGCGTTTGTGAAAAAAGCCGTT
1 AAAGGTCTGTTCTATAGCGGCGTTTGTGAAAAAAGCCGCT
14523773 AAAGGTCATGTTCTATAG
1 AAAGGTC-TGTTCTATAG
14523791 TGGTGTTTTA
Statistics
Matches: 82, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
40 11 0.13
41 15 0.18
42 42 0.51
43 12 0.15
44 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (40 bp):
AAAGGTCTGTTCTATAGCGGCGTTTGTGAAAAAAGCCGCT
Found at i:14524014 original size:12 final size:12
Alignment explanation
Indices: 14523997--14524029 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
14523987 CGGCCCGCCC
14523997 ATATTAATTTTT
1 ATATTAATTTTT
14524009 ATATT-ATTTTT
1 ATATTAATTTTT
14524020 ATA-TAATTTT
1 ATATTAATTTT
14524030 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:14524212 original size:30 final size:31
Alignment explanation
Indices: 14524153--14524213 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
14524143 AATTAACAAG
*
14524153 CAAATGTCTCTAAAATAATAAAAAAAATTAA
1 CAAATATCTCTAAAATAATAAAAAAAATTAA
* *
14524184 CAAATATCTTTAAAATAAT-AACAAAATTAA
1 CAAATATCTCTAAAATAATAAAAAAAATTAA
14524214 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.28
Consensus pattern (31 bp):
CAAATATCTCTAAAATAATAAAAAAAATTAA
Found at i:14524265 original size:14 final size:14
Alignment explanation
Indices: 14524246--14524275 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14524236 TATACACTAA
14524246 TAGCAACAAAATAG
1 TAGCAACAAAATAG
*
14524260 TAGCAACATAATAG
1 TAGCAACAAAATAG
14524274 TA
1 TA
14524276 AAATAGTAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (14 bp):
TAGCAACAAAATAG
Found at i:14524291 original size:11 final size:11
Alignment explanation
Indices: 14524252--14524292 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
14524242 CTAATAGCAA
14524252 CAAAATAGTAG
1 CAAAATAGTAG
* *
14524263 CAACATAATAG
1 CAAAATAGTAG
*
14524274 TAAAATAGTAG
1 CAAAATAGTAG
14524285 CAAAATAG
1 CAAAATAG
14524293 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:14525242 original size:11 final size:11
Alignment explanation
Indices: 14525226--14525255 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
14525216 GTTGATGATG
14525226 TCTTTTTTTTT
1 TCTTTTTTTTT
14525237 TCTTTTTTTTT
1 TCTTTTTTTTT
14525248 T-TTTTTTT
1 TCTTTTTTT
14525256 ACCTTGGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:14531089 original size:26 final size:26
Alignment explanation
Indices: 14531059--14531110 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
14531049 CAATAATAAA
*
14531059 TCTTCTATAATCAGGTTTATCTCCAC
1 TCTTCCATAATCAGGTTTATCTCCAC
14531085 TCTTCCATAATCAGGTTTATCTCCAC
1 TCTTCCATAATCAGGTTTATCTCCAC
14531111 CTCTCTTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.29, G:0.08, T:0.40
Consensus pattern (26 bp):
TCTTCCATAATCAGGTTTATCTCCAC
Found at i:14535465 original size:59 final size:59
Alignment explanation
Indices: 14535361--14535477 Score: 148
Period size: 59 Copynumber: 2.0 Consensus size: 59
14535351 AGGCATTGAG
* * * * * *
14535361 ACTATTTTATTCTGTCATCCTAGGTTGCTCGACAATGATGGCTTTTAGTATTTGCCTAA
1 ACTATTTTATTCTGCCATCCTAGGTTGCCCAACAACGATGACTTTTAGTATTTACCTAA
14535420 ACTATTTTA-TCTTGCCAT-CTCAGGTTGCCCAACAACGATGACTTTTAGTATTTACCTA
1 ACTATTTTATTC-TGCCATCCT-AGGTTGCCCAACAACGATGACTTTTAGTATTTACCTA
14535478 TGACCCTCAG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 4 0.08
59 46 0.92
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (59 bp):
ACTATTTTATTCTGCCATCCTAGGTTGCCCAACAACGATGACTTTTAGTATTTACCTAA
Found at i:14539718 original size:89 final size:88
Alignment explanation
Indices: 14539264--14539737 Score: 408
Period size: 89 Copynumber: 5.4 Consensus size: 88
14539254 ACTGCAACTA
* * * *
14539264 CTCCACTGCAACTTC-AGAGAGATAAGA-CTTGCAAATTACAGCCTGTTACCCTACCACTTAAGG
1 CTCCACTGCAACTTCAAG-GAGACAAGATC-TGCAATTTTCAGCCTGTTACCCTACTACTT-AGG
* *
14539327 GGTTAAGGCTTGCTTTCTTTGATTTG
63 GGTTAAGGCTTGCTGTCTTTGATCTG
* * *
14539353 TTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGG
1 CTCCACTGCAACTTCAAGGAGACAAGATCTGCAATTTTCAGCCTGTTACCCTACTACTTA-GGGG
*
14539418 TTAAGGCTTGCTTTCTTTGATCTG
65 TTAAGGCTTGCTGTCTTTGATCTG
* * * *
14539442 TTCCACTGCAACTTCAAGGAGACAAGATCCGCAATCTTCAGCTTGTTA-CCTACTACTTAGAGGG
1 CTCCACTGCAACTTCAAGGAGACAAGATCTGCAATTTTCAGCCTGTTACCCTACTACTTAG-GGG
* *
14539506 TTAAGCCTTGCT-TCTTCGATCTG
65 TTAAGGCTTGCTGTCTTTGATCTG
* * * * * * * * *
14539529 CTCCACTGCAACTTTAGGGAGACATGGTTCGTG-TATTTT-ATCTTGCTCTA--CTGCAACTTCA
1 CTCCACTGCAACTTCAAGGAGACA-AGATC-TGCAATTTTCAGCCTG-T-TACCCTACTACTT-A
* * * * ** *
14539590 GAGAGATAAGGATTG-TGACTCCGATCCG
61 G-GGGTTAAGGCTTGCTGTCTTTGATCTG
* * * ** *
14539618 ATCTACTGCAACTTCAAGGAGATAAGATCTGCTGTTTTCGGCCTGTTACCCTACTACTTAGGGGA
1 CTCCACTGCAACTTCAAGGAGACAAGATCTGCAATTTTCAGCCTGTTACCCTACTACTTAGGGG-
** *
14539683 TTAAGGCTCACTGTCTTTGATTTG
65 TTAAGGCTTGCTGTCTTTGATCTG
14539707 CTCCACTGCAACTTCAAGGAGACAAGATCTG
1 CTCCACTGCAACTTCAAGGAGACAAGATCTG
14539738 TGAATTCACT
Statistics
Matches: 312, Mismatches: 57, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
87 43 0.14
88 59 0.19
89 208 0.67
90 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (88 bp):
CTCCACTGCAACTTCAAGGAGACAAGATCTGCAATTTTCAGCCTGTTACCCTACTACTTAGGGGT
TAAGGCTTGCTGTCTTTGATCTG
Found at i:14553225 original size:38 final size:38
Alignment explanation
Indices: 14553171--14553246 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
14553161 AGGAGCCCAA
14553171 CAAGCAAGTGCCATCAGTGTCTCAAAGGAAACGATCTT
1 CAAGCAAGTGCCATCAGTGTCTCAAAGGAAACGATCTT
*
14553209 CAAGCAAGTGCTATCAGTGTCTCAAAGGAAACGATCTT
1 CAAGCAAGTGCCATCAGTGTCTCAAAGGAAACGATCTT
14553247 TACTTTGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (38 bp):
CAAGCAAGTGCCATCAGTGTCTCAAAGGAAACGATCTT
Found at i:14555707 original size:3 final size:3
Alignment explanation
Indices: 14555699--14555732 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
14555689 AACAAATCCA
14555699 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14555733 GACAAATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14561437 original size:22 final size:23
Alignment explanation
Indices: 14561407--14561453 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
14561397 AAAAAATAAC
14561407 AAAATAATAAATTTAAAT-TTAAT
1 AAAATAAT-AATTTAAATATTAAT
*
14561430 AAAA-AATATTTTAAATATTAAT
1 AAAATAATAATTTAAATATTAAT
14561452 AA
1 AA
14561454 TTGAATTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 10 0.45
23 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATAATAATTTAAATATTAAT
Found at i:14564042 original size:47 final size:47
Alignment explanation
Indices: 14563970--14564076 Score: 178
Period size: 47 Copynumber: 2.3 Consensus size: 47
14563960 CAGTAACAGT
* * *
14563970 AACAGTAGCAGTACGGTACAAAGAGTACCTCATCGGAACAAATCTGG
1 AACAGTAACAGTACGGTACAAAGAGTACCTCATCGGAACAAATCCGA
*
14564017 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
1 AACAGTAACAGTACGGTACAAAGAGTACCTCATCGGAACAAATCCGA
14564064 AACAGTAACAGTA
1 AACAGTAACAGTA
14564077 ACGATAACAG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACAAAGAGTACCTCATCGGAACAAATCCGA
Found at i:14564132 original size:12 final size:12
Alignment explanation
Indices: 14564115--14564139 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14564105 AGTGCCGAAT
14564115 CGGTAACAGTAA
1 CGGTAACAGTAA
14564127 CGGTAACAGTAA
1 CGGTAACAGTAA
14564139 C
1 C
14564140 AGTAGTCGGC
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:14565704 original size:20 final size:18
Alignment explanation
Indices: 14565668--14565712 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
14565658 CAAAGTTAAA
14565668 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
14565686 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
14565706 -TTTCCCT
1 TTTTCCCT
14565713 CCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:14566656 original size:29 final size:29
Alignment explanation
Indices: 14566614--14566671 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
14566604 ATACCTTAAG
*
14566614 TGGATGTATTTAGGATTAGGGTAAACTTA
1 TGGATATATTTAGGATTAGGGTAAACTTA
*
14566643 TGGATATATTTAGGATTAGGGTGAACTTA
1 TGGATATATTTAGGATTAGGGTAAACTTA
14566672 CTCATATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.38
Consensus pattern (29 bp):
TGGATATATTTAGGATTAGGGTAAACTTA
Found at i:14566678 original size:29 final size:29
Alignment explanation
Indices: 14566620--14566679 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
14566610 TAAGTGGATG
*
14566620 TATTTAGGATTAGGGTAAACTTATGGATA
1 TATTTAGGATTAGGGTAAACTTATGCATA
*
14566649 TATTTAGGATTAGGGTGAACTTACT-CATA
1 TATTTAGGATTAGGGTAAACTTA-TGCATA
14566678 TA
1 TA
14566680 ATTATTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (29 bp):
TATTTAGGATTAGGGTAAACTTATGCATA
Found at i:14566784 original size:20 final size:21
Alignment explanation
Indices: 14566750--14566803 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
14566740 AATTATAAAT
*
14566750 AAATGAATA-TTTATTTTTTTA
1 AAAT-AATATTTTATTTTATTA
*
14566771 ACATAA-ATTTTA-TTTATTA
1 AAATAATATTTTATTTTATTA
14566790 AAATAATATTTTAT
1 AAATAATATTTTAT
14566804 AAATAAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 12 0.44
20 12 0.44
21 3 0.11
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
AAATAATATTTTATTTTATTA
Found at i:14570088 original size:48 final size:49
Alignment explanation
Indices: 14570035--14570365 Score: 272
Period size: 48 Copynumber: 6.9 Consensus size: 49
14570025 GTGAATTGTT
* * * * *
14570035 GATGCCATGTTCCAAACATGGTCTTACACTAGCT-TACGTGTCGAGGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATCAAGGCC
* * * * **
14570083 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCT-CGTCTTAATACC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATCAAGGCC
* * **
14570131 GATGCCATGTCCCAAACATGGTCTTACAATGGCTCT-CATAAT-GTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACAT-ATCAAGGCC
* * *
14570179 GATGTCATGTCCCAAATATGGTCTTACACTAG-TGC-ACATATCAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCT-CTACATATCAAGGCC
* * *
14570227 GATGCCATATCCCAGACATGGTCTTACACTAGCTCTCACAACATC-A--CC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCT-AC-ATATCAAGGCC
* * * **
14570275 GATGCCATGTTCCAAACATGGTCTTACACTAACTCT-TATAAT-GTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACAT-ATCAAGGCC
* * *
14570323 GATGCCATGTCCCAGACATGGTCTTACACTGGCAC-ACATATCA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATCA
14570366 CCCAAATGTC
Statistics
Matches: 227, Mismatches: 41, Indels: 30
0.76 0.14 0.10
Matches are distributed among these distances:
45 1 0.00
46 2 0.01
47 5 0.02
48 209 0.92
49 3 0.01
50 3 0.01
51 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATCAAGGCC
Found at i:14570200 original size:96 final size:94
Alignment explanation
Indices: 14570035--14570352 Score: 311
Period size: 96 Copynumber: 3.3 Consensus size: 94
14570025 GTGAATTGTT
* * * * *
14570035 GATGCCATGTTCCAAACATGGTCTTACACTAGCT-TACGT-GTCGAGGCTGATGCCATGTTCCAA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCT-CATAAT-GTGGCCGATGCCATGTTCCAA
*
14570098 ACATGGTCTTACACTAGCTCTCGTCTTAATACC
64 ACATGGTCTTACACTAGCTCTC-T-TTAATGCC
* * * * *
14570131 GATGCCATGTCCCAAACATGGTCTTACAATGGCTCTCATAATGTGGCCGATGTCATGTCCCAAAT
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCCATGTTCCAAAC
* *
14570196 ATGGTCTTACACTAG-TGCACATATCAATGCC
66 ATGGTCTTACACTAGCT-CTC-T-TTAATGCC
* * * ** **
14570227 GATGCCATATCCCAGACATGGTCTTACACTAGCTCTCACAACATCACCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCCATGTTCCAAAC
* *
14570292 ATGGTCTTACACTAACTCT-TATAATGTGGCC
66 ATGGTCTTACACTAGCTCTCTTTAA--T-GCC
*
14570323 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAAACATGGTCTTACACT
14570353 GGCACACATA
Statistics
Matches: 183, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
93 2 0.01
94 1 0.01
95 2 0.01
96 175 0.96
97 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (94 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCCATGTTCCAAAC
ATGGTCTTACACTAGCTCTCTTTAATGCC
Found at i:14570361 original size:144 final size:144
Alignment explanation
Indices: 14570035--14570365 Score: 414
Period size: 144 Copynumber: 2.3 Consensus size: 144
14570025 GTGAATTGTT
* ** * * * * * *
14570035 GATGCCATGTTCCAAACATGGTCTTACACTAGCTTACGTGTCGAGGCTGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAAGGCCGATGCCATATCCCAAAC
* * **
14570100 ATGGTCTTACACTAGCTCTCGTCTTAATACCGATGCCATGTCCCAAACATGGTCTTACAATGGCT
66 ATGGTCTTACACTAGCTCTCGACTAAATACCGATGCCATGTCCCAAACATGGTCTTACAATAACT
14570165 CTCATAATGTGGCC
131 CTCATAATGTGGCC
* * ** * *
14570179 GATGTCATGTCCCAAATATGGTCTTACACTAGTGCACATATCAATGCCGATGCCATATCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAAGGCCGATGCCATATCCCAAAC
* *
14570244 ATGGTCTTACACTAGCTCTC-AC-AACATCACCGATGCCATGTTCCAAACATGGTCTTACACTAA
66 ATGGTCTTACACTAGCTCTCGACTAA-AT-ACCGATGCCATGTCCCAAACATGGTCTTACAATAA
*
14570307 CTCTTATAATGTGGCC
129 CTCTCATAATGTGGCC
* *
14570323 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCA
14570366 CCCAAATGTC
Statistics
Matches: 158, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
142 1 0.01
143 3 0.02
144 154 0.97
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (144 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAAGGCCGATGCCATATCCCAAAC
ATGGTCTTACACTAGCTCTCGACTAAATACCGATGCCATGTCCCAAACATGGTCTTACAATAACT
CTCATAATGTGGCC
Found at i:14576715 original size:20 final size:20
Alignment explanation
Indices: 14576653--14576742 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
14576643 TTTCTTATTT
*
14576653 TATTATTATT-TT-TTATATT
1 TATTATTATTATTATTA-ATA
* *
14576672 TATT-TTATTATTATT-TTC
1 TATTATTATTATTATTAATA
* *
14576690 TATTATTTTTATTATTAGTA
1 TATTATTATTATTATTAATA
* *
14576710 TATTATTATTCTTATTAATG
1 TATTATTATTATTATTAATA
14576730 TATTATTATTATT
1 TATTATTATTATT
14576743 TTCTACTTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
18 10 0.18
19 16 0.28
20 31 0.54
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TATTATTATTATTATTAATA
Found at i:14576718 original size:17 final size:17
Alignment explanation
Indices: 14576693--14576740 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
14576683 TATTTTCTAT
*
14576693 TATTTTTATTATTAGTA
1 TATTATTATTATTAGTA
* *
14576710 TATTATTATTCTTATTA
1 TATTATTATTATTAGTA
14576727 -ATGTATTATTATTA
1 TAT-TATTATTATTA
14576741 TTTTCTACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 2 0.08
17 24 0.92
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (17 bp):
TATTATTATTATTAGTA
Found at i:14576724 original size:23 final size:23
Alignment explanation
Indices: 14576690--14576742 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
14576680 TATTATTTTC
* *
14576690 TATTATTTTTATTATTAGTA-TAT
1 TATTATTCTTATTAAT-GTATTAT
14576713 TATTATTCTTATTAATGTATTAT
1 TATTATTCTTATTAATGTATTAT
14576736 TATTATT
1 TATTATT
14576743 TTCTACTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (23 bp):
TATTATTCTTATTAATGTATTAT
Found at i:14576741 original size:17 final size:17
Alignment explanation
Indices: 14576532--14576839 Score: 95
Period size: 18 Copynumber: 18.4 Consensus size: 17
14576522 AATTTTAATT
*
14576532 TTATTATTATTACTATTA
1 TTATTA-TATTATTATTA
14576550 TTATTACTATTACTT-TTA
1 TTATTA-TATTA-TTATTA
* *
14576568 TAATT-TATTATTGTTA
1 TTATTATATTATTATTA
*
14576584 TTGTTACTATT-TCTATTA
1 TTATTA-TATTAT-TATTA
*
14576602 TTGTT-T-TT-TTATTA
1 TTATTATATTATTATTA
* *
14576616 -T-TTATATTATTGTTG
1 TTATTATATTATTATTA
* *
14576631 TTGTTATCATTA-T-TTC
1 TTATTAT-ATTATTATTA
*
14576647 TTATTTTATTATTATT-
1 TTATTATATTATTATTA
14576663 TT-TTATATTTATT-TTA
1 TTATTATA-TTATTATTA
14576679 TTATTAT-TT-TCTATTA
1 TTATTATATTAT-TATTA
*
14576695 TT-TT-TATTATTAGTA
1 TTATTATATTATTATTA
*
14576710 -TA-T-TATTATTCTTA
1 TTATTATATTATTATTA
* *
14576724 TTAATGTATTATTATTA
1 TTATTATATTATTATTA
*
14576741 TT-TTCTACTTTATTATTA
1 TTATTATA--TTATTATTA
* ** *
14576759 TCACCATATTATTAAACTAA
1 TTATTATATTATT--A-TTA
* *
14576779 TTAATTTTA-TATTGTTA
1 TT-ATTATATTATTATTA
14576796 TTATTATATTATATATT-
1 TTATTATATTAT-TATTA
14576813 TTCATTTCATATTTATTATTA
1 TT-A-TT-ATA-TTATTATTA
14576834 TTATTA
1 TTATTA
14576840 CCTATTACCC
Statistics
Matches: 221, Mismatches: 31, Indels: 76
0.67 0.09 0.23
Matches are distributed among these distances:
12 2 0.01
13 2 0.01
14 20 0.09
15 32 0.14
16 45 0.20
17 38 0.17
18 50 0.23
19 8 0.04
20 15 0.07
21 9 0.04
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.64
Consensus pattern (17 bp):
TTATTATATTATTATTA
Found at i:14576759 original size:3 final size:3
Alignment explanation
Indices: 14576532--14576742 Score: 118
Period size: 3 Copynumber: 70.7 Consensus size: 3
14576522 AATTTTAATT
* * *
14576532 TTA TTA TTA TTA CTA TTA TTA TTA CTA TTA CTT- TTA TAA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA
* * * * *
14576578 TTG TTA TTG TTA CTA TT- TCTA TTA TTG TT- TTT TTA TTA TT- TATA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * *
14576622 TTA TTG TTG TTG TTA TCA TTA TTTC TTA TT- TTA TTA TTA TT- TT-
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * *
14576665 TTA -TA TTTA TT- TTA TTA TTA TTT TCTA TTA TTT TTA TTA TTA GTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
*
14576710 -TA TTA TTA TTC TTA TTAA TGTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TT
14576743 TTCTACTTTA
Statistics
Matches: 163, Mismatches: 27, Indels: 36
0.72 0.12 0.16
Matches are distributed among these distances:
2 18 0.11
3 128 0.79
4 16 0.10
5 1 0.01
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:14576782 original size:55 final size:56
Alignment explanation
Indices: 14576676--14576783 Score: 137
Period size: 55 Copynumber: 1.9 Consensus size: 56
14576666 TATATTTATT
* * * ** ** *
14576676 TTATTATTATTTTCTATTATTTTTATTATTAGTATATTATTATTCTTATTAATGTA
1 TTATTATTATTTTCTACTATTATTATTATCACCATATTATTAAACTAATTAATGTA
14576732 TTATTATTATTTTCTACT-TTATTATTATCACCATATTATTAAACTAATTAAT
1 TTATTATTATTTTCTACTATTATTATTATCACCATATTATTAAACTAATTAAT
14576784 TTTATATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
55 27 0.61
56 17 0.39
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (56 bp):
TTATTATTATTTTCTACTATTATTATTATCACCATATTATTAAACTAATTAATGTA
Found at i:14576864 original size:17 final size:16
Alignment explanation
Indices: 14576842--14576878 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
14576832 TATTATTACC
14576842 TATTACCCTTTTATTAT
1 TATTACCCTTTTATT-T
*
14576859 TATTACCTTTTTATTT
1 TATTACCCTTTTATTT
14576875 TATT
1 TATT
14576879 TTACTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTACCCTTTTATTT
Found at i:14579471 original size:46 final size:46
Alignment explanation
Indices: 14579381--14579529 Score: 156
Period size: 46 Copynumber: 3.2 Consensus size: 46
14579371 GGATCAAATT
** ** * *
14579381 GATTGAAGAAGCCACAAAATCCTATACTTCTGAGTTGCAGTGGGATG
1 GATTGAAGAAGATAC-AAATCCTATACCCCTAAATTGCAGTGGGATG
* * * *
14579428 GATTGAAGAAGGTACAAATCTTTTACCCCTAAATTGCAATGGGA-G
1 GATTGAAGAAGATACAAATCCTATACCCCTAAATTGCAGTGGGATG
* *
14579473 GAATTGAAGAAGATACGAATCCTATACCCCTAAGTTGCAGTGGGATG
1 G-ATTGAAGAAGATACAAATCCTATACCCCTAAATTGCAGTGGGATG
*
14579520 GATGGAAGAA
1 GATTGAAGAA
14579530 ACCAAATTTT
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
45 2 0.02
46 67 0.80
47 15 0.18
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (46 bp):
GATTGAAGAAGATACAAATCCTATACCCCTAAATTGCAGTGGGATG
Found at i:14580358 original size:42 final size:43
Alignment explanation
Indices: 14580253--14580631 Score: 126
Period size: 44 Copynumber: 8.5 Consensus size: 43
14580243 AACCATGGCG
* * * *
14580253 AATCTTATCTCCCTGAAGTTACAATGGAGCAGATTGAAGCCTCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAA-CCTAT
* * * *
14580297 AACCTTATTTCCCTAAAGTTGCAGTGGAACAGGTTGAA-C-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAACCTAT
* ** ** ** *
14580338 AGATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATCAAAGATAGCG
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAACCTA--T
* * *
14580384 AATCTTATTTCCC-GAAGTTGTAGTGGAACAGATTGAAGCTACAAACCAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTG-A---AC---CTAT
* **
14580433 GGCAAATCTTATCTCCCTCAAGTTGCAGTGGAGTAGATTGAAGCC-ACT
1 ----AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAA-CCTA-T
* * * ** *
14580481 AACCTTATCTCTCTGAAGTTGTAGTGGAGTAGGTTGAA--TAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAACCTAT
** * ** * * **
14580522 AGATCTTATCTTTCTGAAGTTGCAATGGAGTAGGTCGAAGATAGT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAACCTA-T
* * *
14580567 AAATCTTATTTCCCT-AGCGTTGCAGTGGAACAGATTGAAGCC-AC
1 -AATCTTATCTCCCTGA-AGTTGCAGTGGAACAGATTGAA-CCTAT
*
14580611 CATCCTTATCTCCCTGAAGTT
1 AAT-CTTATCTCCCTGAAGTT
14580632 ATAGCGGAGC
Statistics
Matches: 248, Mismatches: 58, Indels: 58
0.68 0.16 0.16
Matches are distributed among these distances:
41 4 0.02
42 62 0.25
43 2 0.01
44 99 0.40
45 41 0.17
46 2 0.01
47 1 0.00
48 3 0.01
50 1 0.00
51 2 0.01
53 13 0.05
54 18 0.07
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAACCTAT
Found at i:14580485 original size:184 final size:185
Alignment explanation
Indices: 14579971--14580607 Score: 827
Period size: 185 Copynumber: 3.4 Consensus size: 185
14579961 AAGCCACAAG
* * *
14579971 TCTTATCTCCCTGAAGTTGCAGCA-GG-GTAGATTAAAGACAGTGAATCTTATTTCCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCA--ATGGAGTAGATCAAAGATAGCGAATCTTATTTCCCTGAAGTT
* * * * * * *
14580034 ACAATGGAATAGATTAAAGCTACAAACTATGGCCAATCTTATCTCCTTGTAA-TTGCAGTGGAGT
64 GCAGTGGAACAGATTAAAGCTACAAACCATGGCAAATCTTATCTCCCT-CAAGTTGCAGTGGAGT
* *
14580098 AGATTGAAGCCACTAACCTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTGAATATAGG
128 AGATTGAAGCCACTAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAATATAGA
* *
14580156 TCTTATCTCCCTGAAGTTGCAACGGAGCAGA-CTAAAGATAGCGAATCTTATTTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAATGGAGTAGATC-AAAGATAGCGAATCTTATTTCCCTGAAGTTG
* * * * * *
14580220 CAGTGGAAAAGATTAAAGCTACAAACCATGGCGAATCTTATCTCCCTGAAGTTACAATGGAGCAG
65 CAGTGGAACAGATTAAAGCTACAAACCATGGCAAATCTTATCTCCCTCAAGTTGCAGTGGAGTAG
* * * * * *
14580285 ATTGAAGCCTCTAACCTTATTTCCCTAAAGTTGCAGTGGAACAGGTTGAACATAGA
130 ATTGAAGCCACTAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAATATAGA
* * *
14580341 TCTTATCTCCCTGAAGTTGTAGTGGAGTAGATCAAAGATAGCGAATCTTATTTCCC-GAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAATGGAGTAGATCAAAGATAGCGAATCTTATTTCCCTGAAGTTGC
*
14580405 AGTGGAACAGATTGAAGCTACAAACCATGGCAAATCTTATCTCCCTCAAGTTGCAGTGGAGTAGA
66 AGTGGAACAGATTAAAGCTACAAACCATGGCAAATCTTATCTCCCTCAAGTTGCAGTGGAGTAGA
* *
14580470 TTGAAGCCACTAACCTTATCTCTCTGAAGTTGTAGTGGAGTAGGTTGAATATAGA
131 TTGAAGCCACTAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAATATAGA
** * * ** *
14580525 TCTTATCTTTCTGAAGTTGCAATGGAGTAGGTCGAAGATAGTAAATCTTATTTCCCT-AGCGTTG
1 TCTTATCTCCCTGAAGTTGCAATGGAGTAGATCAAAGATAGCGAATCTTATTTCCCTGA-AGTTG
*
14580589 CAGTGGAACAGATTGAAGC
65 CAGTGGAACAGATTAAAGC
14580608 CACCATCCTT
Statistics
Matches: 393, Mismatches: 52, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
183 1 0.00
184 165 0.42
185 226 0.58
186 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (185 bp):
TCTTATCTCCCTGAAGTTGCAATGGAGTAGATCAAAGATAGCGAATCTTATTTCCCTGAAGTTGC
AGTGGAACAGATTAAAGCTACAAACCATGGCAAATCTTATCTCCCTCAAGTTGCAGTGGAGTAGA
TTGAAGCCACTAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAATATAGA
Found at i:14582095 original size:26 final size:26
Alignment explanation
Indices: 14582041--14582116 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 26
14582031 TTATTATTAC
*
14582041 TATTACT-TTTATAATTTATTATTGTTAT
1 TATTACTATTTAT-A-TTATTGTT-TTAT
* *
14582069 TGTTACTATTTCTATTATTGTTTTAT
1 TATTACTATTTATATTATTGTTTTAT
*
14582095 TATTATTATTTATATTATTGTT
1 TATTACTATTTATATTATTGTT
14582117 GTTGTTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 23 0.56
27 7 0.17
28 7 0.17
29 4 0.10
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.66
Consensus pattern (26 bp):
TATTACTATTTATATTATTGTTTTAT
Found at i:14582190 original size:3 final size:3
Alignment explanation
Indices: 14581965--14582173 Score: 91
Period size: 3 Copynumber: 70.0 Consensus size: 3
14581955 CCTTTCTTAA
** *
14581965 ATT ATT ATGCT ATT -TT ATT ATT AAA ATT AATT AATT -TT ATT TTT ATT
1 ATT ATT AT--T ATT ATT ATT ATT ATT ATT -ATT -ATT ATT ATT ATT ATT
* * *
14582012 AATT -TT ATT ATT ATT ACT ATT ATT ATT ACT ATT ACTT -TT ATA ATTT
1 -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT A-TT
* * * *
14582058 ATT ATT GTT ATT GTT ACT ATT -TCT ATT ATT GTT -TT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
* * * * *
14582102 ATT -TAT ATT ATT GTT GTT GTT ATC ATT ATT CCTT ATT -TT ATT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
*
14582147 ATT -TT -TT A-T ATTT ATT -TT AAT ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
14582174 TTCTACTTTA
Statistics
Matches: 158, Mismatches: 27, Indels: 42
0.70 0.12 0.19
Matches are distributed among these distances:
2 22 0.14
3 113 0.72
4 20 0.13
5 3 0.02
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:14584656 original size:27 final size:27
Alignment explanation
Indices: 14584637--14584768 Score: 201
Period size: 27 Copynumber: 4.9 Consensus size: 27
14584627 ATTACCAAAG
* *
14584637 TACCTTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
14584664 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
14584691 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
14584718 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
14584745 TACCCTTGATTTACAAAATTACCA
1 TACCCTCGATTTACAGAATTACCA
14584769 AAATACCCCT
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:14584775 original size:27 final size:27
Alignment explanation
Indices: 14584484--14584884 Score: 162
Period size: 27 Copynumber: 14.9 Consensus size: 27
14584474 AATACTTTAG
*
14584484 TTTACTAAAATTATCAAAATACCCTT-A
1 TTTA-TAAAATTACCAAAATACCCTTGA
* * **
14584511 GTTTGTGAAATTACTGAAATA-CCTTCGA
1 -TTTATAAAATTACCAAAATACCCTT-GA
* * ** ** *
14584539 CTTGTAAAATTACCAAAGCACCCCCGG
1 TTTATAAAATTACCAAAATACCCTTGA
* * *
14584566 TTTATAAAATTACCGAAATACCATCGA
1 TTTATAAAATTACCAAAATACCCTTGA
** * *
14584593 -TTATAAAATTACTGAAATGCCCTTAA
1 TTTATAAAATTACCAAAATACCCTTGA
* *
14584619 TTTGTAAAATTACCAAAGTA-CCTTCGA
1 TTTATAAAATTACCAAAATACCCTT-GA
* * **** *
14584646 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTATAAAATTACCAAAATACCCTTGA
* * *** *
14584673 TTTACAGAATTACCATTTTACCCTCGA
1 TTTATAAAATTACCAAAATACCCTTGA
* *** *
14584700 TTTATAGAATTACCATTTTACCCTCGA
1 TTTATAAAATTACCAAAATACCCTTGA
* * * ****
14584727 TTTACAGAATTATCGTTTTACCCTTGA
1 TTTATAAAATTACCAAAATACCCTTGA
* * *
14584754 TTTACAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCTTGA
* * * *
14584781 TTTGTAAAATTACTAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCTTGA
* * *
14584808 TTTGTAAAATTACCAAAATACCCCTAA
1 TTTATAAAATTACCAAAATACCCTTGA
* * * * * *
14584835 TTTGTGAAATTATCGAAATACTCTCGA
1 TTTATAAAATTACCAAAATACCCTTGA
* *
14584862 TTTGTAAAATTACCGAAATACCC
1 TTTATAAAATTACCAAAATACCC
14584885 CTGTAGGGTA
Statistics
Matches: 296, Mismatches: 71, Indels: 13
0.78 0.19 0.03
Matches are distributed among these distances:
26 29 0.10
27 258 0.87
28 9 0.03
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCTTGA
Found at i:14584792 original size:81 final size:81
Alignment explanation
Indices: 14584518--14584803 Score: 243
Period size: 81 Copynumber: 3.5 Consensus size: 81
14584508 TTAGTTTGTG
** * * * * * * * **
14584518 AAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGCACCCCCGGTTTATAAAATTACCGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTT
* * *
14584583 ATACCATCGA-TTATA
66 TTACCCTCGATTTACA
** * ** *
14584598 AAATTACTGAAATGCCCTTAATTTGTAAAATTACCAAAGTACCTTCGATTTACAGAATTACCGTT
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTT
14584663 TTACCCTCGATTTACA
66 TTACCCTCGATTTACA
* *** * * *** *
14584679 GAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATCGTT
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTT
*
14584744 TTACCCTTGATTTACA
66 TTACCCTCGATTTACA
* * *
14584760 AAATTACCAAAATACCC-CTGGTTTGTAAAATTACTAAAATACCC
1 AAATTACCAAAATACCCTC-GATTTGTAAAATTACCAAAGTACCC
14584804 CTGGTTTGTA
Statistics
Matches: 160, Mismatches: 44, Indels: 3
0.77 0.21 0.01
Matches are distributed among these distances:
80 61 0.38
81 99 0.62
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTT
TTACCCTCGATTTACA
Found at i:14584899 original size:27 final size:27
Alignment explanation
Indices: 14584869--14585090 Score: 293
Period size: 27 Copynumber: 8.3 Consensus size: 27
14584859 CGATTTGTAA
14584869 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
14584896 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
14584923 AATTACTGAAATA-ACCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
14584949 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
14584976 AATTATTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
14585003 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
14585030 AAATACTGAAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
14585057 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
14585084 AATTACC
1 AATTACC
14585091 ATTTTTCCCC
Statistics
Matches: 174, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 24 0.14
27 150 0.86
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:14584975 original size:80 final size:81
Alignment explanation
Indices: 14584869--14585089 Score: 336
Period size: 80 Copynumber: 2.7 Consensus size: 81
14584859 CGATTTGTAA
*
14584869 AATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACTGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACTGAAA
14584934 TAACC-TGTAGGGTAG
66 TAACCTTGTAGGGTAG
* *
14584949 AATTACCGAAATACCCTTGTAGGGTAGAATTATTGAAATACCCTTGTAGGGTAGAATTACTGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACTGAAA
*
14585014 TACCCTTGTAGGGTAG
66 TAACCTTGTAGGGTAG
* * * * * * *
14585030 AAATACTGAAATACCCCCGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 AATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATTAC
14585090 CATTTTTCCC
Statistics
Matches: 127, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 66 0.52
81 61 0.48
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.26
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACTGAAA
TAACCTTGTAGGGTAG
Found at i:14585331 original size:25 final size:25
Alignment explanation
Indices: 14585293--14585359 Score: 125
Period size: 25 Copynumber: 2.7 Consensus size: 25
14585283 AGGAAGTGCT
*
14585293 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
14585318 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
14585343 AAAAGGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
14585360 ATTATTAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:14585618 original size:30 final size:30
Alignment explanation
Indices: 14585584--14585666 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 30
14585574 CGCTTACAGT
14585584 AAAGGCTTCGGCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAGTGATATGATTTATGA
*
14585614 AAAGGCTTCGACCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCC-AGTGATATGATTTATGA
*
14585645 AAAGGTTTCGGCCCAGT-ATATG
1 AAAGGCTTCGG-CCAGTGATATG
14585667 TCGAGACTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
30 17 0.35
31 29 0.60
32 2 0.04
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGATTTATGA
Found at i:14587627 original size:19 final size:19
Alignment explanation
Indices: 14587605--14587652 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
14587595 ATAAATTTTT
14587605 AAAAAATATAAAAATTATA
1 AAAAAATATAAAAATTATA
* * * *
14587624 AAAACATATAAATATTTTT
1 AAAAAATATAAAAATTATA
14587643 AAAAAATATA
1 AAAAAATATA
14587653 TAATGATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAAATATAAAAATTATA
Found at i:14588410 original size:30 final size:31
Alignment explanation
Indices: 14588374--14588433 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
14588364 TAATATAAAA
*
14588374 TTAATATTAAT-T-ATTTTATTTTATTTAATG
1 TTAATATTAATATAATTATA-TTTATTTAATG
14588404 TTAATATTAATATAATTATATTTATTTAAT
1 TTAATATTAATATAATTATATTTATTTAAT
14588434 AATAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 11 0.41
31 11 0.41
32 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (31 bp):
TTAATATTAATATAATTATATTTATTTAATG
Found at i:14588449 original size:66 final size:66
Alignment explanation
Indices: 14588320--14588463 Score: 152
Period size: 66 Copynumber: 2.2 Consensus size: 66
14588310 CGATTGGAGA
* *
14588320 TTTTTATTTTATTTAATACCATTATAATTATAATTATTTAATATTAATATAAAATTAATATT-AA
1 TTTTTATTTTATTTAATACCAATATAATTATAATTATTTAATATTAATATAAAATTAAAATTAAA
14588384 T
66 T
*** * *
14588385 TATTTTATTTTATTTAATGTTAATATTAA-TATAATTATATTTAT-TTAATA-ATAATATAAAAT
1 T-TTTTATTTTATTTAATACCAATA-TAATTATAATTAT-TTAATATTAATATAAAAT-TAAAAT
14588447 TAAAT
62 TAAAT
14588452 TTTATTATTTTA
1 TTT-TTATTTTA
14588464 ATTTTTAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
65 5 0.08
66 42 0.64
67 19 0.29
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (66 bp):
TTTTTATTTTATTTAATACCAATATAATTATAATTATTTAATATTAATATAAAATTAAAATTAAA
T
Found at i:14588514 original size:24 final size:23
Alignment explanation
Indices: 14588446--14588515 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
14588436 TAATATAAAA
14588446 TTAAA-TTTTATTATT-TTAATTT
1 TTAAATTTTTATTATTATT-ATTT
*
14588468 TTAAATATTTATT-TATATGTATTT
1 TTAAATTTTTATTAT-TAT-TATTT
*
14588492 TTAATTTTTTATATATTATTATTT
1 TTAAATTTTTAT-TATTATTATTT
14588516 CTTATCAACA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
22 6 0.15
23 7 0.18
24 20 0.51
25 5 0.13
26 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (23 bp):
TTAAATTTTTATTATTATTATTT
Found at i:14590671 original size:2 final size:2
Alignment explanation
Indices: 14590664--14590689 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14590654 AAGGTTAGTA
14590664 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
14590690 GGCAATAACA
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:14592202 original size:30 final size:30
Alignment explanation
Indices: 14592166--14592246 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
14592156 TAGAGAGAAT
14592166 TAAAATAAAATTATATATTTTTAAGAAAAC
1 TAAAATAAAATTATATATTTTTAAGAAAAC
**
14592196 TAAAATAAAATTATATATTTTTAAGAAAGT
1 TAAAATAAAATTATATATTTTTAAGAAAAC
* * *
14592226 TAAAATATAATTTTTTATTTT
1 TAAAATAAAATTATATATTTT
14592247 AATGATTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (30 bp):
TAAAATAAAATTATATATTTTTAAGAAAAC
Found at i:14594434 original size:17 final size:17
Alignment explanation
Indices: 14594407--14594462 Score: 78
Period size: 17 Copynumber: 3.3 Consensus size: 17
14594397 ATATTATTTT
*
14594407 TAAAAAGCATTTTTGAGA
1 TAAAAA-CATTTTTGAAA
14594425 TAAAAACATTTTTGAAA
1 TAAAAACATTTTTGAAA
*
14594442 TAAAAATATTTTT-AAA
1 TAAAAACATTTTTGAAA
14594458 TAAAA
1 TAAAA
14594463 TATTTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.22
17 22 0.61
18 6 0.17
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.36
Consensus pattern (17 bp):
TAAAAACATTTTTGAAA
Found at i:14594446 original size:16 final size:16
Alignment explanation
Indices: 14594409--14594474 Score: 62
Period size: 16 Copynumber: 4.0 Consensus size: 16
14594399 ATTATTTTTA
*
14594409 AAAAGCATTTTTGAGAT
1 AAAA-CATTTTTGAAAT
14594426 AAAAACATTTTTGAAAT
1 -AAAACATTTTTGAAAT
*
14594443 AAAA-ATATTTTTAAAT
1 AAAACAT-TTTTGAAAT
* *
14594459 AAAATATTTTTAAAAT
1 AAAACATTTTTGAAAT
14594475 TATTTAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
15 2 0.05
16 24 0.56
17 13 0.30
18 4 0.09
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
AAAACATTTTTGAAAT
Found at i:14594464 original size:15 final size:16
Alignment explanation
Indices: 14594424--14594472 Score: 73
Period size: 15 Copynumber: 3.1 Consensus size: 16
14594414 CATTTTTGAG
*
14594424 ATAAAAACATTTTTGAA
1 ATAAAAATATTTTT-AA
14594441 ATAAAAATATTTTTAA
1 ATAAAAATATTTTTAA
14594457 AT-AAAATATTTTTAA
1 ATAAAAATATTTTTAA
14594472 A
1 A
14594473 ATTATTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 14 0.45
16 4 0.13
17 13 0.42
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (16 bp):
ATAAAAATATTTTTAA
Found at i:14594473 original size:26 final size:27
Alignment explanation
Indices: 14594443--14594507 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 27
14594433 TTTTTGAAAT
*
14594443 AAAAATATTTTTAAATAAAATATTTT-
1 AAAAATATTTTTAAAAAAAATATTTTC
* * *
14594469 TAAAAT-TATTTAAAAAAAATGTTTTGC
1 AAAAATATTTTTAAAAAAAATATTTT-C
14594496 AAAAATATTTTT
1 AAAAATATTTTT
14594508 TTAATCAAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
25 16 0.53
26 5 0.17
27 5 0.17
28 4 0.13
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (27 bp):
AAAAATATTTTTAAAAAAAATATTTTC
Found at i:14601435 original size:14 final size:14
Alignment explanation
Indices: 14601416--14601444 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14601406 TGATGAGTCT
14601416 CTTGAGGCTCTTGG
1 CTTGAGGCTCTTGG
14601430 CTTGAGGCTCTTGG
1 CTTGAGGCTCTTGG
14601444 C
1 C
14601445 AATAGTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.24, G:0.34, T:0.34
Consensus pattern (14 bp):
CTTGAGGCTCTTGG
Found at i:14601498 original size:12 final size:12
Alignment explanation
Indices: 14601481--14601505 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14601471 TGGTCTGATG
14601481 ATGGTAAAACTA
1 ATGGTAAAACTA
14601493 ATGGTAAAACTA
1 ATGGTAAAACTA
14601505 A
1 A
14601506 GATGCAATTT
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:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
ATGGTAAAACTA
Found at i:14601686 original size:68 final size:68
Alignment explanation
Indices: 14601577--14601712 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
14601567 GAGTATTGCG
14601577 GTTACTGTCAATTTATCTTTCTCCTCTTTTGAAAATATTATGCAAATATGATATTAGTATATTAA
1 GTTACTGTCAATTTATCTTTCTCCTCTTTTGAAAATATTATGCAAATATGATATTAGTATATTAA
14601642 TTT
66 TTT
*
14601645 GTTACTGTTAATTTATCTTTCTCCTCTTTTGAAAATATTATGCAAATATGATATTAGTATATTAA
1 GTTACTGTCAATTTATCTTTCTCCTCTTTTGAAAATATTATGCAAATATGATATTAGTATATTAA
14601710 TTT
66 TTT
14601713 ATAATATCTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (68 bp):
GTTACTGTCAATTTATCTTTCTCCTCTTTTGAAAATATTATGCAAATATGATATTAGTATATTAA
TTT
Found at i:14607965 original size:44 final size:44
Alignment explanation
Indices: 14607902--14607990 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
14607892 AAAATGTTAT
*
14607902 ATCCATTAAAAAAATAGTCAATTATAGACCGCCACATCATATAA
1 ATCCATTAAAAAAATAGTCAATCATAGACCGCCACATCATATAA
** *
14607946 ATCCATTAAAAAAATAGTCAATCATAGAGTGCCACATCATGTAA
1 ATCCATTAAAAAAATAGTCAATCATAGACCGCCACATCATATAA
14607990 A
1 A
14607991 CATTTAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.25
Consensus pattern (44 bp):
ATCCATTAAAAAAATAGTCAATCATAGACCGCCACATCATATAA
Found at i:14620376 original size:21 final size:21
Alignment explanation
Indices: 14620351--14620399 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
14620341 TACAAGGATC
14620351 ACATGCCCGTGTGG-CCAAGGG
1 ACATGCCCGTGTGGTCCAA-GG
*
14620372 ACATGCCCGTGTGGTCCAATG
1 ACATGCCCGTGTGGTCCAAGG
14620393 ACATGCC
1 ACATGCC
14620400 TGTGCTTCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.18
Consensus pattern (21 bp):
ACATGCCCGTGTGGTCCAAGG
Found at i:14621729 original size:42 final size:43
Alignment explanation
Indices: 14621670--14621833 Score: 169
Period size: 42 Copynumber: 3.9 Consensus size: 43
14621660 TAAGGGTTAC
*
14621670 TGAGACTAT-GTGTAAGACCATATCTAGGATATGGCATCTATA
1 TGAGACTATCATGTAAGACCATATCTAGGATATGGCATCTATA
* *
14621712 TGAGACT-TCGTGTAAGACCATATCT-GTGATATGGCATCGATA
1 TGAGACTATCATGTAAGACCATATCTAG-GATATGGCATCTATA
* * *
14621754 TGAGACT-TCATGTAAGACCATAGCTGGGGTATTGGCAT-TGATA
1 TGAGACTATCATGTAAGACCATATCTAGGATA-TGGCATCT-ATA
* ** *
14621797 CGAGA-TCCCATGTAAGACCATATCTAGGATACGGCAT
1 TGAGACTATCATGTAAGACCATATCTAGGATATGGCAT
14621834 TGGTATGGTA
Statistics
Matches: 105, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
41 2 0.02
42 69 0.66
43 34 0.32
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (43 bp):
TGAGACTATCATGTAAGACCATATCTAGGATATGGCATCTATA
Found at i:14623765 original size:3 final size:3
Alignment explanation
Indices: 14623757--14623834 Score: 61
Period size: 3 Copynumber: 26.0 Consensus size: 3
14623747 TTAGATTTTC
* * * * *
14623757 TAT TAT TAT TAT TAT TAT TAT TGT TGT TGT TGT TGT TACT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* *
14623802 TAT TAT TTT TAT TAT TAT TGT TACT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
14623835 CTTTTGCATC
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
2 4 0.06
3 55 0.85
4 6 0.09
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:14623803 original size:30 final size:30
Alignment explanation
Indices: 14623769--14623834 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
14623759 TTATTATTAT
* * *
14623769 TATTATTATTGTTGTTGTTGTTGTTACTTA
1 TATTATTATTGTTATTATTATTGTTACTTA
*
14623799 TATTATTATTTTTATTATTATTGTTACTTA
1 TATTATTATTGTTATTATTATTGTTACTTA
14623829 TATTAT
1 TATTAT
14623835 CTTTTGCATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.03, G:0.09, T:0.65
Consensus pattern (30 bp):
TATTATTATTGTTATTATTATTGTTACTTA
Found at i:14626591 original size:2 final size:2
Alignment explanation
Indices: 14626584--14626610 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14626574 TTAAACATTA
14626584 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 A
14626611 CACACGGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14628471 original size:40 final size:42
Alignment explanation
Indices: 14628410--14628522 Score: 122
Period size: 44 Copynumber: 2.7 Consensus size: 42
14628400 AAATAACGAA
* * * *
14628410 GCCACTGTCCCAGACAGGGTCTTACACGAAATCT-TAT-TAT
1 GCCAATGTCCCAGACATGGTCTTACACGAAATCTAAATCGAT
* * *
14628450 GTCGATGTCCCAGACATGGTCTTACACGTATATCTCAAATCGAT
1 GCCAATGTCCCAGACATGGTCTTACACG-AAATCT-AAATCGAT
*
14628494 GCCAACGTCCCAGACATGGTCTTACACGA
1 GCCAATGTCCCAGACATGGTCTTACACGA
14628523 TAACATATCT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
40 24 0.41
41 5 0.08
43 3 0.05
44 27 0.46
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (42 bp):
GCCAATGTCCCAGACATGGTCTTACACGAAATCTAAATCGAT
Found at i:14629257 original size:22 final size:21
Alignment explanation
Indices: 14629231--14629273 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
14629221 AGGGCCAACA
*
14629231 CGCACGCCA-CTCCGTCTCACGC
1 CGCACACCATCTCC-TC-CACGC
14629253 CGCACACCATCTCCTCCACGC
1 CGCACACCATCTCCTCCACGC
14629274 GTCACACAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.16, C:0.56, G:0.14, T:0.14
Consensus pattern (21 bp):
CGCACACCATCTCCTCCACGC
Done.