Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 212 of 770
Found at i:63356629 original size:77 final size:77
Alignment explanation
Indices: 63356532--63356680 Score: 246
Period size: 77 Copynumber: 1.9 Consensus size: 77
63356522 CCTCTTTAAT
**
63356532 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAG
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAG
63356597 CCCTTTTCGGTA
66 CCCTTTTCGGTA
**
63356609 AACTGGGGCATAAG-CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAA
1 AACTGGGGCA-AAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAA
63356673 GCCCTTTT
65 GCCCTTTT
63356681 GCACTTCCTC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
77 64 0.96
78 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (77 bp):
AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAG
CCCTTTTCGGTA
Found at i:63357555 original size:26 final size:26
Alignment explanation
Indices: 63357482--63357574 Score: 125
Period size: 27 Copynumber: 3.5 Consensus size: 26
63357472 GGGCATATTC
*
63357482 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
63357509 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
63357536 GTCACTTTACCTACAGGGGCTTTACG
1 GTCACTTTACCTACAGGGGCTTTACG
**
63357562 GTCTTTTTACCTA
1 GTCACTTTACCTA
63357575 ATAGGGGTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
26 28 0.46
27 30 0.49
28 3 0.05
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:63357656 original size:27 final size:27
Alignment explanation
Indices: 63357603--63357852 Score: 184
Period size: 27 Copynumber: 9.3 Consensus size: 27
63357593 TTTCATCCTA
* * * * *
63357603 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
63357630 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
63357657 CAATGGTATTTTA-TAATTTT-TAAAAGT
1 CAAGGGTATTTTAGTAATTTTAT-AAA-C
* * *
63357684 CAAGGGTATTTT-GTAACTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
63357710 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
** * * *
63357737 TGAGGGTA-TTTCGATAATTTCACAAAC
1 CAAGGGTATTTTAG-TAATTTTATAAAC
* *
63357764 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
63357791 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
63357818 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
63357845 CAAGGGTA
1 CAAGGGTA
63357853 AAACAGTAAT
Statistics
Matches: 182, Mismatches: 34, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.01
26 26 0.14
27 150 0.82
28 5 0.03
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:63357691 original size:54 final size:54
Alignment explanation
Indices: 63357603--63357879 Score: 206
Period size: 54 Copynumber: 5.1 Consensus size: 54
63357593 TTTCATCCTA
* * * * *
63357603 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGATAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAAC
* * * *
63357657 CAATGGTATTTT-ATAATTTTTA-AAAGTCAAGGGTATTT-TGTAACTTTGTAAAT
1 CAAGGGTATTTTGATAA-TTTTACAAA-TCAAGGGTATTTCAGTAATTTTGTAAAC
* * ** ***
63357710 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC-GATAATTTCACAAAC
1 CAAGGGTATTTTGATAATTTTACAAATCAAGGGTATTTCAG-TAATTTTGTAAAC
* * ** **
63357764 CAAGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGATAATTTTACAAATC-AAGGGTATTTCAGTAATTTTGTAAAC
** *** * *
63357818 CAAGGGTATTTT-AGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTTGA-TAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAAC
63357872 CAAGGGTA
1 CAAGGGTA
63357880 AAACAGTAAT
Statistics
Matches: 175, Mismatches: 38, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
53 44 0.25
54 129 0.74
55 2 0.01
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.37
Consensus pattern (54 bp):
CAAGGGTATTTTGATAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAAC
Found at i:63357720 original size:26 final size:25
Alignment explanation
Indices: 63357630--63357879 Score: 128
Period size: 27 Copynumber: 9.3 Consensus size: 25
63357620 ATCTACAAAC
* *
63357630 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTT-TGTAA-TTTGTAAAT
* * *
63357657 CAATGGTATTTTATAATTTTTAAAAGT
1 CAAGGGTATTTTGTAATTTGT-AAA-T
63357684 CAAGGGTATTTTGTAACTTTGTAAAT
1 CAAGGGTATTTTGTAA-TTTGTAAAT
*
63357710 CAGGGGTATTTTGGTAATTT-TACAAAT
1 CAAGGGTATTTT-GTAATTTGT--AAAT
** * ** *
63357737 TGAGGGTATTTCGATAATTTCACAAAC
1 CAAGGGTATTTTG-TAATTT-GTAAAT
*
63357764 CAAGGGTATTTTGGTAATTT-TACAAA
1 CAAGGGTATTTT-GTAATTTGTA-AAT
* *
63357790 CTAGGGGTATTTTGGTAATTT-TACAAAC
1 C-AAGGGTATTTT-GTAATTTGT--AAAT
63357818 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTT-GTAA-TTTGTAAAT
****
63357845 CAAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGT-ATTTTGTAATT-TGTAAAT
63357872 CAAGGGTA
1 CAAGGGTA
63357880 AAACAGTAAT
Statistics
Matches: 176, Mismatches: 29, Indels: 37
0.73 0.12 0.15
Matches are distributed among these distances:
25 6 0.03
26 28 0.16
27 128 0.73
28 12 0.07
29 2 0.01
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (25 bp):
CAAGGGTATTTTGTAATTTGTAAAT
Found at i:63357849 original size:81 final size:79
Alignment explanation
Indices: 63357603--63357852 Score: 238
Period size: 81 Copynumber: 3.1 Consensus size: 79
63357593 TTTCATCCTA
* * * * ** ** *
63357603 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
63357668 TA-TAATTTTTAAAAGT
65 TAGTAATTTTT-AAA-T
* ***
63357684 CAAGGGTATTTT-GTAACTTTGTA-AATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTA-T
1 CAAGGGTATTTTGGTAA-TTT-TACAAACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATT
* ** *
63357746 TTCGATAATTTCACAAAC
64 TTAG-TAATTT-TTAAAT
63357764 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
63357829 TAGTAATTTTGTAAAT
65 TAGTAATTTT-TAAAT
63357845 CAAGGGTA
1 CAAGGGTA
63357853 AAACAGTAAT
Statistics
Matches: 134, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
79 5 0.04
80 48 0.36
81 75 0.56
82 6 0.04
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (79 bp):
CAAGGGTATTTTGGTAATTTTACAAACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
AGTAATTTTTAAAT
Found at i:63357860 original size:27 final size:27
Alignment explanation
Indices: 63357831--63358038 Score: 289
Period size: 27 Copynumber: 7.8 Consensus size: 27
63357821 GGGTATTTTA
* * *
63357831 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
63357858 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
63357885 GTAATTCTATAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
63357912 GTAATTCTGTAAAT-GAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
63357938 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
63357965 GTAATTCTGTAAATCG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
63357991 GTAATTATGTAAATCG-GAGGTAAAACG
1 GTAATTCTGTAAATCGAG-GGTAAAACG
63358018 GTAATTCTGTAAATCG-GGGTA
1 GTAATTCTGTAAATCGAGGGTA
63358039 CTTTGGTAAT
Statistics
Matches: 166, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
26 54 0.33
27 112 0.67
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:63357879 original size:81 final size:79
Alignment explanation
Indices: 63357630--63357879 Score: 202
Period size: 81 Copynumber: 3.1 Consensus size: 79
63357620 ATCTACAAAC
** ** *
63357630 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTTA-TAATTTTTAAAAGTCAAGGGT-AT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTT-AAA-TCAAGGGTAAT
*
63357693 TTTGTAACTTTGTAAAT
64 TTAGTAA-TTTGTAAAT
* *** * ** * *
63357710 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTA-TTTCGATAATTTCACAAACCAAGGGTATT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG-TAATTT-TTAAATCAAGGGTAAT
* *
63357774 TTGGTAATTT-TACAAA
64 TTAGTAATTTGTA-AAT
* *
63357790 CTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCAAGGGTAAA
1 C-AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT-TAAATCAAGGGTAAT
**
63357855 ACAGTAATTCTGTAAAT
64 TTAGTAATT-TGTAAAT
63357872 CAAGGGTA
1 CAAGGGTA
63357880 AAACAGTAAT
Statistics
Matches: 130, Mismatches: 30, Indels: 19
0.73 0.17 0.11
Matches are distributed among these distances:
79 5 0.04
80 39 0.30
81 76 0.58
82 8 0.06
83 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (79 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTTAAATCAAGGGTAATTT
AGTAATTTGTAAAT
Found at i:63357953 original size:53 final size:54
Alignment explanation
Indices: 63357831--63358038 Score: 289
Period size: 53 Copynumber: 3.9 Consensus size: 54
63357821 GGGTATTTTA
* * * * *
63357831 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * *
63357885 GTAATTCTATAAGTCGAGGGTAAAACGGTAATTCTGTAAAT-GAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
*
63357938 GTAATTCTGTAAGTCGAGGGTAAAACGGTAATTCTGTAAATCG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
*
63357991 GTAATTATGTAAATCG-GAGGTAAAACGGTAATTCTGTAAATCG-GGGTA
1 GTAATTCTGTAAATCGAG-GGTAAAACGGTAATTCTGTAAATCGAGGGTA
63358039 CTTTGGTAAT
Statistics
Matches: 140, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
52 1 0.01
53 102 0.73
54 37 0.26
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:63357960 original size:80 final size:80
Alignment explanation
Indices: 63357831--63358038 Score: 287
Period size: 80 Copynumber: 2.6 Consensus size: 80
63357821 GGGTATTTTA
* * * *
63357831 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
63357896 AGTCGAGGGTAAAACG
66 AATCG-GGGTAAAACG
* * * * *
63357912 GTAATTCTGTAAAT-GAGGGTAAAATGGTAATTCTGTAAGTCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
63357976 AATCGGGGTAAAACG
66 AATCGGGGTAAAACG
63357991 GTAATTATGTAAATCG-GAGGTAAAACGGTAATTCTGTAAATCG-GGGTA
1 GTAATTATGTAAATCGAG-GGTAAAACGGTAATTCTGTAAATCGAGGGTA
63358039 CTTTGGTAAT
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
79 29 0.26
80 71 0.63
81 13 0.12
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (80 bp):
GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
AATCGGGGTAAAACG
Found at i:63358078 original size:27 final size:27
Alignment explanation
Indices: 63358044--63358106 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
63358034 GGGTACTTTG
63358044 GTAATTTTAC-AAGTCAAAGGTATTTCA
1 GTAATTTTACAAAGT-AAAGGTATTTCA
* * *
63358071 GTATTTTTACAAAGTAAGGGTATTTCG
1 GTAATTTTACAAAGTAAAGGTATTTCA
63358098 GTAATTTTA
1 GTAATTTTA
63358107 GTAAACTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAAGTAAAGGTATTTCA
Found at i:63360486 original size:41 final size:42
Alignment explanation
Indices: 63360403--63360493 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 42
63360393 TGGCCCATAG
* * * *
63360403 GCCCATTTCAGTATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATGACAATGAATGTATGCAA
63360445 GCCCATTTCAATATCACATGAAAT-ACAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATGACAATGAATGTATGCAA
63360486 GCCCATTT
1 GCCCATTT
63360494 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 23 0.51
42 22 0.49
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATGACAATGAATGTATGCAA
Found at i:63360683 original size:26 final size:26
Alignment explanation
Indices: 63360638--63360735 Score: 171
Period size: 26 Copynumber: 3.8 Consensus size: 26
63360628 CCTCTTTAAT
63360638 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
63360663 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
63360689 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
63360715 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
63360736 GCACTTCCTC
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
25 10 0.15
26 58 0.85
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:63361634 original size:27 final size:27
Alignment explanation
Indices: 63361535--63361617 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
63361525 GGGCATATTC
* *
63361535 GTCATTTTACCATACA-GGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
63361561 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
63361588 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
63361615 GTC
1 GTC
63361618 TTTTTACCTA
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
26 14 0.26
27 38 0.72
28 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:63361905 original size:27 final size:27
Alignment explanation
Indices: 63361685--63362187 Score: 197
Period size: 27 Copynumber: 18.9 Consensus size: 27
63361675 CTACAAACCA
* * * *
63361685 AGGGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTCGGTAATTTTATAAATCG
* ** * *
63361712 ATGGTATTTCTATAATTTTTAGAAAGTCA
1 AGGGTATTTCGGTAA-TTTTATAAA-TCG
* * *
63361741 AGGGTATTTCTGTAACTTTGTAAATC-
1 AGGGTATTTCGGTAATTTTATAAATCG
* * **
63361767 AGGGTATTTTGGTAATTTTACAAATTA
1 AGGGTATTTCGGTAATTTTATAAATCG
* * * *
63361794 AGGGTATTTCGGTAATTTCACAAACCA
1 AGGGTATTTCGGTAATTTTATAAATCG
* *
63361821 AGGGTATTTTC-GTAATTTTACAAA-CT
1 AGGGTA-TTTCGGTAATTTTATAAATCG
* * * *
63361847 AGGGGTATTTTGGTAATTTTACAAACCA
1 A-GGGTATTTCGGTAATTTTATAAATCG
** *
63361875 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
*** * * * **
63361902 AGGGTAAAACAGTAATTCTGTAAATTA
1 AGGGTATTTCGGTAATTTTATAAATCG
*** * *
63361929 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
*** * *
63361956 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
*** *
63361983 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
** * *
63362010 AGGGTAAAAT-GGTAATTCTGTAAATCG
1 AGGGT-ATTTCGGTAATTTTATAAATCG
** * *
63362037 AGGGTAAAAT--GTAATTATGTAAATCG
1 AGGGT-ATTTCGGTAATTTTATAAATCG
*** *
63362063 -GGGTAAAACGGTAA-TTTGTAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
* *
63362088 -GGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCGGTAATTTTATAAATCG
* * *
63362114 AAGGTATTTCAGTAATTTTACAAAT-G
1 AGGGTATTTCGGTAATTTTATAAATCG
* * *
63362140 A-GGTATTTCAGT-ATTTTACAAAT-A
1 AGGGTATTTCGGTAATTTTATAAATCG
*
63362164 AGGGTATTTCGGTAATTTTGTAAA
1 AGGGTATTTCGGTAATTTTATAAA
63362188 CTAAAGTATT
Statistics
Matches: 399, Mismatches: 61, Indels: 33
0.81 0.12 0.07
Matches are distributed among these distances:
24 15 0.04
25 45 0.11
26 65 0.16
27 237 0.59
28 22 0.06
29 15 0.04
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTATAAATCG
Found at i:63361907 original size:54 final size:54
Alignment explanation
Indices: 63361656--63361907 Score: 231
Period size: 54 Copynumber: 4.6 Consensus size: 54
63361646 TTTCATCCTA
* * * * * * **
63361656 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAAC
* * * * ** *
63361710 CAATGGTATTTCTA-TAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-TCAAGGGTATTTCGGTAATTTTACAAAC
* * *
63361766 C-AGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAAC
* * *
63361819 CAAGGGTATTTTCGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAATC-AAGGGTATTTCGGTAATTTTACAAAC
** *
63361873 CAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 CAAGGGTATTTTAGTAATTTTACAAATCAAGGGTA
63361908 AAACAGTAAT
Statistics
Matches: 161, Mismatches: 30, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
53 22 0.14
54 95 0.59
55 19 0.12
56 25 0.16
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAAC
Found at i:63361934 original size:81 final size:81
Alignment explanation
Indices: 63361857--63362085 Score: 239
Period size: 81 Copynumber: 2.9 Consensus size: 81
63361847 AGGGGTATTT
* **** *
63361857 TGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTG
1 TGGTAATTCTACAAACCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTG
63361922 TAAATTAAGGGTAAAA
66 TAAATTAAGGGTAAAA
** * * * * * *
63361938 CAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTA
1 TGGTAATTCTACAAACCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTG
**
63362003 TAAATCGAGGGTAAAA
66 TAAATTAAGGGTAAAA
** * * * *
63362019 TGGTAATTCTGTAAATCGAGGGTAAAA-TGTAATTATGTAAATCG-GGGTAAAACGGTAATT-TG
1 TGGTAATTCTACAAACCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTG
63362081 TAAAT
66 TAAAT
63362086 CGGGGTACTT
Statistics
Matches: 126, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
78 6 0.05
79 16 0.13
80 15 0.12
81 89 0.71
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (81 bp):
TGGTAATTCTACAAACCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTG
TAAATTAAGGGTAAAA
Found at i:63362160 original size:24 final size:25
Alignment explanation
Indices: 63362098--63362182 Score: 109
Period size: 25 Copynumber: 3.3 Consensus size: 25
63362088 GGGTACTTTG
*
63362098 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAAT-G-AGGTATTTCA
63362125 GTAATTTTACAAATGAGGTATTTCA
1 GTAATTTTACAAATGAGGTATTTCA
* *
63362150 GT-ATTTTACAAATAAGGGTATTTCG
1 GTAATTTTACAAATGA-GGTATTTCA
63362175 GTAATTTT
1 GTAATTTT
63362183 GTAAACTAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
24 12 0.23
25 22 0.42
26 6 0.11
27 13 0.25
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (25 bp):
GTAATTTTACAAATGAGGTATTTCA
Found at i:63364453 original size:31 final size:31
Alignment explanation
Indices: 63364417--63364485 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
63364407 TACTGGGCTG
63364417 AAGCCTTTTCATAAATCATATCACTAGGCCA
1 AAGCCTTTTCATAAATCATATCACTAGGCCA
* * * *
63364448 AAGCCTTTTCATAAATCATTTTACTGGGCCG
1 AAGCCTTTTCATAAATCATATCACTAGGCCA
63364479 AAGCCTT
1 AAGCCTT
63364486 CTCTGTAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (31 bp):
AAGCCTTTTCATAAATCATATCACTAGGCCA
Found at i:63364557 original size:42 final size:42
Alignment explanation
Indices: 63364510--63364601 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
63364500 TGGCCCATAG
* ** *
63364510 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
63364552 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
63364594 GCCCATTT
1 GCCCATTT
63364602 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:63364784 original size:26 final size:26
Alignment explanation
Indices: 63364745--63364894 Score: 212
Period size: 26 Copynumber: 5.8 Consensus size: 26
63364735 GCCTTTTAAT
*
63364745 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
* * *
63364770 AACTTGGGCATAAGCCATTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
63364796 AACTGGGGCATAAGCCCTTTTCGTTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
63364822 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* * *
63364848 AACTAGGGCATAAGCCTTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
63364874 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
63364895 ACACTTCCTC
Statistics
Matches: 108, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
25 9 0.08
26 99 0.92
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:63364818 original size:52 final size:52
Alignment explanation
Indices: 63364736--63364894 Score: 252
Period size: 52 Copynumber: 3.1 Consensus size: 52
63364726 AGAGGCCTAG
*
63364736 CCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTTGGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
* *
63364785 CATTTTCAATAAACTGGGGCATAAGCCCTTTTCGTTAAACTGGGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
* *
63364837 CCTTTTCAATAAACTAGGGCATAAGCCTTTTTCGGTAAACTGGGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
63364889 CCTTTT
1 CCTTTT
63364895 ACACTTCCTC
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
49 5 0.05
50 3 0.03
51 10 0.10
52 82 0.82
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (52 bp):
CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
Found at i:63364843 original size:78 final size:77
Alignment explanation
Indices: 63364745--63364894 Score: 237
Period size: 78 Copynumber: 1.9 Consensus size: 77
63364735 GCCTTTTAAT
** *
63364745 AACTGGGGCAAAGCCCTTTTCGGTAAACTTGGGCATAAGCCATTTTCAATAAACTGGGGCATAAG
1 AACTGGGGCAAAGCCCTTTTCAATAAACTAGGGCATAAGCCATTTTCAATAAACTGGGGCATAAG
63364810 CCCTTTTCGTTA
66 CCCTTTTCGTTA
* **
63364822 AACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCTTTTTCGGTAAACTGGGGCATAA
1 AACTGGGGCA-AAGCCCTTTTCAATAAACTAGGGCATAAGCCATTTTCAATAAACTGGGGCATAA
63364887 GCCCTTTT
65 GCCCTTTT
63364895 ACACTTCCTC
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
77 10 0.15
78 56 0.85
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (77 bp):
AACTGGGGCAAAGCCCTTTTCAATAAACTAGGGCATAAGCCATTTTCAATAAACTGGGGCATAAG
CCCTTTTCGTTA
Found at i:63365782 original size:27 final size:27
Alignment explanation
Indices: 63365691--63365774 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
63365681 GGGCATATTC
* *
63365691 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
63365718 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
63365745 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
63365772 GTC
1 GTC
63365775 TTTTTACCGA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:63365866 original size:27 final size:27
Alignment explanation
Indices: 63365836--63366118 Score: 115
Period size: 27 Copynumber: 10.4 Consensus size: 27
63365826 GTAAATCTAC
*
63365836 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
63365863 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * * *
63365891 AAAGTCAAGGGTATTT-TGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
** * ** *
63365918 AAATTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
63365945 AAA-TTGGAGGTATTTCGGTAATTTCAC
1 AAACCAAG-GGTATTTCAGTAATTTTAT
** *
63365972 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
63365999 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
63366026 AAACCAAGGGTATTTTAGTAAGTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *** * *
63366053 AAATCGAGGGTAAAACAGTAATTCTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* **
63366080 AAATCAAGGGTAAAAT-AGTAATTTTAT
1 AAACCAAGGGT-ATTTCAGTAATTTTAT
* *
63366107 AAATCGAGGGTA
1 AAACCAAGGGTA
63366119 AAACGGTAAT
Statistics
Matches: 204, Mismatches: 44, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
26 14 0.07
27 165 0.81
28 15 0.07
29 10 0.05
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:63365987 original size:54 final size:54
Alignment explanation
Indices: 63365925--63366046 Score: 192
Period size: 54 Copynumber: 2.3 Consensus size: 54
63365915 TGTAAATTAG
*
63365925 GGGTATTTTGGTAATTTTACAAA-TTGGAGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGG-GGTATTTCGGTAATTTCACAAACCAA
* *
63365979 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAA
*
63366033 GGGTATTTTAGTAA
1 GGGTATTTTGGTAA
63366047 GTTTGTAAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
54 60 0.95
55 3 0.05
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAA
Found at i:63366063 original size:81 final size:80
Alignment explanation
Indices: 63365813--63366064 Score: 204
Period size: 81 Copynumber: 3.1 Consensus size: 80
63365803 TTTCATCCTA
* * * * ** ** *
63365813 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
63365878 CTA-TAATTTTTAGAAAGT
66 -TAGTAA--TTTATAAA-T
* ** * ***
63365896 CAAGGGTATTTT-GTAACTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAA-TTGGAGGTATT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAG-GGTATT
** * *
63365959 TCGGTAATTTCACAAAC
65 TTAGTAATTT-ATAAAT
*
63365976 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
63366041 TAGTAAGTTTGTAAAT
66 TAGTAA-TTTATAAAT
*
63366057 CGAGGGTA
1 CAAGGGTA
63366065 AAACAGTAAT
Statistics
Matches: 130, Mismatches: 33, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
80 15 0.12
81 61 0.47
82 43 0.33
83 11 0.08
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (80 bp):
CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
TAGTAATTTATAAAT
Found at i:63366074 original size:54 final size:54
Alignment explanation
Indices: 63366016--63366176 Score: 144
Period size: 54 Copynumber: 3.0 Consensus size: 54
63366006 GGGTATTTTG
*** *
63366016 GTAATTTTACAAACCAAGGGTATTTTAGTAAGTTTGTAAATCGAGGGTAAAACA
1 GTAATTTTACAAACCAAGGGTAAAATAGTAAGTTTATAAATCGAGGGTAAAACA
* ** * * *
63366070 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTTTACAAACCAAGGGTAAAATAGTAAGTTTATAAATCGAGGGTAAAACA
** * * ** * *
63366124 GTAATTTTGTAAATCGAGGGTAAAACGGTAA-TTCTGTAAGTCGAGGGTAAAAC
1 GTAATTTTACAAACCAAGGGTAAAATAGTAAGTT-TATAAATCGAGGGTAAAAC
63366177 GATAATTATG
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 2 0.02
54 88 0.98
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (54 bp):
GTAATTTTACAAACCAAGGGTAAAATAGTAAGTTTATAAATCGAGGGTAAAACA
Found at i:63366091 original size:81 final size:81
Alignment explanation
Indices: 63366016--63366245 Score: 216
Period size: 81 Copynumber: 2.9 Consensus size: 81
63366006 GGGTATTTTG
****
63366016 GTAATTTTACAAACCAAGGGTATTTTAGTAAGTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
1 GTAATTTTACAAACCAAGGGTAAAACAGTAAGTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
63366081 AATCAAGGGTAAAATA
66 AATCAAGGGTAAAATA
* * * * * *
63366097 GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTTTACAAACCAAGGGTAAAACAGTAAGTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
* * *
63366162 AGTCGAGGGTAAAA-C
66 AATCAAGGGTAAAATA
* ** * ** * *
63366177 GATAATTATGTAAATCGGGGGTAAAACGGTAA-TTATGTAAATCG-GGGTAAAAC-GATAATTAT
1 G-TAATTTTACAAACCAAGGGTAAAACAGTAAGTT-TGTAAATCGAGGGTAAAACAG-TAATTCT
63366239 GTAAATC
63 GTAAATC
63366246 GGGGGTACTT
Statistics
Matches: 128, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 24 0.19
81 103 0.80
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTTTACAAACCAAGGGTAAAACAGTAAGTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
AATCAAGGGTAAAATA
Found at i:63366119 original size:27 final size:27
Alignment explanation
Indices: 63366042--63366252 Score: 248
Period size: 27 Copynumber: 7.9 Consensus size: 27
63366032 AGGGTATTTT
*
63366042 AGTAAGTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* * *
63366069 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
63366096 AGTAATTTTATAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
63366123 GGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* * *
63366150 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
63366177 -GATAATTATGTAAATCGGGGGTAAAAC
1 AG-TAATTTTGTAAATCGAGGGTAAAAC
* *
63366204 GGTAATTATGTAAATCG-GGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
63366230 -GATAATTATGTAAATCGGGGGTA
1 AG-TAATTTTGTAAATCGAGGGTA
63366253 CTTTGGTAAT
Statistics
Matches: 165, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
25 1 0.01
26 25 0.15
27 138 0.84
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AGTAATTTTGTAAATCGAGGGTAAAAC
Found at i:63366177 original size:54 final size:54
Alignment explanation
Indices: 63366050--63366252 Score: 275
Period size: 54 Copynumber: 3.8 Consensus size: 54
63366040 TTAGTAAGTT
* * ** *
63366050 TGTAAATCGAGGGTAAAAC-AGTAATTCTGTAAATCAAGGGTAAAATAGTAATTT
1 TGTAAATCGAGGGTAAAACGA-TAATTATGTAAATCGAGGGTAAAACGGTAATTA
* * * *
63366104 TATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTC
1 TGTAAATCGAGGGTAAAACGATAATTATGTAAATCGAGGGTAAAACGGTAATTA
* *
63366158 TGTAAGTCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAACGGTAATTA
1 TGTAAATCGAGGGTAAAACGATAATTATGTAAATCGAGGGTAAAACGGTAATTA
*
63366212 TGTAAATCG-GGGTAAAACGATAATTATGTAAATCGGGGGTA
1 TGTAAATCGAGGGTAAAACGATAATTATGTAAATCGAGGGTA
63366253 CTTTGGTAAT
Statistics
Matches: 134, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
53 32 0.24
54 102 0.76
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (54 bp):
TGTAAATCGAGGGTAAAACGATAATTATGTAAATCGAGGGTAAAACGGTAATTA
Found at i:63366279 original size:27 final size:27
Alignment explanation
Indices: 63366258--63366347 Score: 112
Period size: 27 Copynumber: 3.3 Consensus size: 27
63366248 GGGTACTTTG
*
63366258 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
63366285 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
63366312 GTATTTTTACAAA-CTAAGGGTATTTC-
1 GTAATTTTACAAATCGAA-GGTATTTCA
63366338 GATAATTTTA
1 G-TAATTTTA
63366348 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:63366412 original size:28 final size:28
Alignment explanation
Indices: 63366381--63366447 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
63366371 GGATAACAAT
63366381 ACAAATGGGCCTAAAGCCTATTCTCGGC
1 ACAAATGGGCCTAAAGCCTATTCTCGGC
63366409 ACAAATGGGCCTAAAGCCTATTCTCGGC
1 ACAAATGGGCCTAAAGCCTATTCTCGGC
*
63366437 CCAAATGGGCC
1 ACAAATGGGCC
63366448 CACACGCTCG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.19
Consensus pattern (28 bp):
ACAAATGGGCCTAAAGCCTATTCTCGGC
Found at i:63366817 original size:13 final size:13
Alignment explanation
Indices: 63366799--63366831 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
63366789 AAAATTTACC
63366799 CATGTGTGACATG
1 CATGTGTGACATG
63366812 CATGTGTGACATG
1 CATGTGTGACATG
63366825 CATGTGT
1 CATGTGT
63366832 TTTGATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.33
Consensus pattern (13 bp):
CATGTGTGACATG
Found at i:63377053 original size:29 final size:29
Alignment explanation
Indices: 63377002--63377081 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
63376992 ATATGGCCCA
* * * *
63377002 TCAGGCCCAATTCACATTCATATAGTCTT-
1 TCAGGCCCAAATCACCTTTATAT-GGCTTG
63377031 TCAGGCCCAAATCACCTTTATATGGCTTG
1 TCAGGCCCAAATCACCTTTATATGGCTTG
*
63377060 TTAGGCCCAAATCACC-TTATAT
1 TCAGGCCCAAATCACCTTTATAT
63377082 TAATGCTCAC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 10 0.22
29 35 0.78
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (29 bp):
TCAGGCCCAAATCACCTTTATATGGCTTG
Found at i:63377255 original size:28 final size:28
Alignment explanation
Indices: 63377215--63377271 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
63377205 GTCCATGGAA
63377215 TCGCCCATAGGCCTTAGACAATCTATGG
1 TCGCCCATAGGCCTTAGACAATCTATGG
63377243 TCGCCCATAGGCCTTAGACAATCTATGG
1 TCGCCCATAGGCCTTAGACAATCTATGG
63377271 T
1 T
63377272 TTCCTCCTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (28 bp):
TCGCCCATAGGCCTTAGACAATCTATGG
Found at i:63384849 original size:29 final size:29
Alignment explanation
Indices: 63384774--63384856 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 29
63384764 AATTTTATTT
** *
63384774 ATATGGCCCAGCAGGCCCAATTCACATTC
1 ATATGGCCCTTCAGGCCCAAATCACATTC
*
63384803 ATATGGCCCTTCAAGCCCAAATCATCATT-
1 ATATGGCCCTTCAGGCCCAAATCA-CATTC
*
63384832 ATATGG-CCTGTTAGGCCCAAATCAC
1 ATATGGCCCT-TCAGGCCCAAATCAC
63384857 CTAATATTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
28 4 0.09
29 38 0.83
30 4 0.09
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (29 bp):
ATATGGCCCTTCAGGCCCAAATCACATTC
Found at i:63385109 original size:16 final size:16
Alignment explanation
Indices: 63385075--63385109 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
63385065 GCAGCCAAAC
* *
63385075 TTTCGGCTTTTCGGTA
1 TTTCGGCTTTTCAGCA
63385091 TTTCGGCTTTTCAGCA
1 TTTCGGCTTTTCAGCA
63385107 TTT
1 TTT
63385110 TAGCTTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.20, G:0.20, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:63391770 original size:43 final size:43
Alignment explanation
Indices: 63391706--63391819 Score: 156
Period size: 43 Copynumber: 2.7 Consensus size: 43
63391696 CCTGGTGAAT
* * * *
63391706 AATATTATCAGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCAGTGA
*
63391749 GATAATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCAGTGA
1 AATAATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCAGTGA
* * *
63391792 AATGATATCGGGCTTCAAGACTAGCAGG
1 AATAATATCGGGCTTCAGGCCTAGCAGG
63391820 TGAAATGTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (43 bp):
AATAATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCAGTGA
Found at i:63398113 original size:39 final size:39
Alignment explanation
Indices: 63398063--63398323 Score: 405
Period size: 39 Copynumber: 6.7 Consensus size: 39
63398053 ATTATATTAT
* * *
63398063 CAGCACAAAGCCTGCAGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
63398102 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
63398141 CAGCACGAAGCCTGCTGGACTTTGGCTCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
63398180 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
63398219 CAGCACGAAGCCTGCGGGACTTTAGCCTGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
63398258 CAGGACGAAGCCTGCGGGACTTTAGCCCAGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
63398297 CAGCACGAAGCCTGCGGGACTTTAGCC
1 CAGCACGAAGCCTGCGGGACTTTAGCC
63398324 TGCGGGACTT
Statistics
Matches: 207, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 207 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:63398325 original size:15 final size:15
Alignment explanation
Indices: 63398305--63398338 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
63398295 TCCAGCACGA
63398305 AGCCTGCGGGACTTT
1 AGCCTGCGGGACTTT
63398320 AGCCTGCGGGACTTT
1 AGCCTGCGGGACTTT
63398335 AGCC
1 AGCC
63398339 CAGATACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.15, C:0.29, G:0.32, T:0.24
Consensus pattern (15 bp):
AGCCTGCGGGACTTT
Found at i:63398355 original size:54 final size:54
Alignment explanation
Indices: 63398266--63398377 Score: 206
Period size: 54 Copynumber: 2.1 Consensus size: 54
63398256 TCCAGGACGA
* *
63398266 AGCCTGCGGGACTTTAGCCCAGATATATTTCCAGCACGAAGCCTGCGGGACTTT
1 AGCCTGCGGGACTTTAGCCCAGATACATTTACAGCACGAAGCCTGCGGGACTTT
63398320 AGCCTGCGGGACTTTAGCCCAGATACATTTACAGCACGAAGCCTGCGGGACTTT
1 AGCCTGCGGGACTTTAGCCCAGATACATTTACAGCACGAAGCCTGCGGGACTTT
63398374 AGCC
1 AGCC
63398378 CGGATACATT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (54 bp):
AGCCTGCGGGACTTTAGCCCAGATACATTTACAGCACGAAGCCTGCGGGACTTT
Found at i:63405454 original size:49 final size:49
Alignment explanation
Indices: 63405400--63405577 Score: 274
Period size: 49 Copynumber: 3.7 Consensus size: 49
63405390 AGATTTTAAC
*
63405400 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAAT
63405449 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAAT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAAT
* * * *
63405498 GTGATGAATGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAAC
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAAT
*
63405545 GTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAG
63405578 TCCCGAAGGG
Statistics
Matches: 120, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
47 51 0.43
48 1 0.01
49 68 0.57
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.29
Consensus pattern (49 bp):
GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAAT
Found at i:63405566 original size:96 final size:95
Alignment explanation
Indices: 63405400--63405577 Score: 268
Period size: 96 Copynumber: 1.9 Consensus size: 95
63405390 AGATTTTAAC
* * *
63405400 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 GTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAG
63405465 TGTATATATATGTGATAAGGCCTAATGGCCAAT
65 TGTATA-A-ATGTGATAAGGCCTAATGGCCAAT
* * *
63405498 GTGATGAATGTGAAAGTG-TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGT
1 GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGT
63405562 GTATAAATGTGATAAG
66 GTATAAATGTGATAAG
63405578 TCCCGAAGGG
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
94 10 0.14
95 1 0.01
96 45 0.61
98 18 0.24
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.29
Consensus pattern (95 bp):
GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGT
GTATAAATGTGATAAGGCCTAATGGCCAAT
Found at i:63408856 original size:39 final size:39
Alignment explanation
Indices: 63408813--63408891 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
63408803 CCTTCCATTC
63408813 ATTGACCAAATTTGGAAAGATTGTCAGGGCACATGTACT
1 ATTGACCAAATTTGGAAAGATTGTCAGGGCACATGTACT
63408852 ATTGACCAAATTTGGAAAGATTGTCAGGGCACATGTACT
1 ATTGACCAAATTTGGAAAGATTGTCAGGGCACATGTACT
63408891 A
1 A
63408892 CTGCTTTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (39 bp):
ATTGACCAAATTTGGAAAGATTGTCAGGGCACATGTACT
Found at i:63416239 original size:26 final size:26
Alignment explanation
Indices: 63416201--63416258 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
63416191 CATGAAATTC
63416201 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
63416227 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
63416253 TTATCA
1 TTATCA
63416259 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:63424049 original size:20 final size:20
Alignment explanation
Indices: 63424026--63424066 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
63424016 AAGCAGTAGC
63424026 TCATCCATATAAACAGTATT
1 TCATCCATATAAACAGTATT
*
63424046 TCATCCATATAAATAGTATT
1 TCATCCATATAAACAGTATT
63424066 T
1 T
63424067 ATGCTCATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (20 bp):
TCATCCATATAAACAGTATT
Found at i:63426109 original size:24 final size:24
Alignment explanation
Indices: 63426082--63426131 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
63426072 TTTTTATGGT
*
63426082 CCTATAATATGCAGACTTAGCTTC
1 CCTATAAAATGCAGACTTAGCTTC
*
63426106 CCTATAAAATGTAGACTTAGCTTC
1 CCTATAAAATGCAGACTTAGCTTC
63426130 CC
1 CC
63426132 CTTTTGATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (24 bp):
CCTATAAAATGCAGACTTAGCTTC
Found at i:63431304 original size:20 final size:21
Alignment explanation
Indices: 63431267--63431305 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
63431257 CATAGGCAAG
*
63431267 GTCAAAATTTTTTTAGAGAGT
1 GTCAAAATTTTTTAAGAGAGT
63431288 GTCAAAA-TTTTTAAGAGA
1 GTCAAAATTTTTTAAGAGA
63431306 TTTAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (21 bp):
GTCAAAATTTTTTAAGAGAGT
Found at i:63437402 original size:24 final size:24
Alignment explanation
Indices: 63437371--63437419 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
63437361 TTTTTTAAAA
63437371 TTATTTATAATATTT-ATAT-TATG
1 TTATTTATAAT-TTTGATATATATG
63437394 TTATATTATAATTTTGATATATATG
1 TTAT-TTATAATTTTGATATATATG
63437419 T
1 T
63437420 ATGAGATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.30
24 11 0.48
25 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (24 bp):
TTATTTATAATTTTGATATATATG
Found at i:63437831 original size:26 final size:26
Alignment explanation
Indices: 63437802--63437909 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
63437792 TGGTACAAAT
*
63437802 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
63437828 TGATAGTGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
63437854 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
63437880 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
63437906 TGAT
1 TGAT
63437910 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:63439542 original size:27 final size:26
Alignment explanation
Indices: 63439502--63439696 Score: 228
Period size: 27 Copynumber: 7.2 Consensus size: 26
63439492 AGGAAGCGTC
* *
63439502 CTGGTGGCTATGCCACAATTAGCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
63439529 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
63439556 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
63439583 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* * *
63439610 TTGGTGGCTATGCCACGATTATTTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
63439637 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
63439664 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
63439691 CTGGTG
1 CTGGTG
63439697 ACTTCGTCAC
Statistics
Matches: 143, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.08
27 127 0.89
28 4 0.03
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:63439584 original size:54 final size:54
Alignment explanation
Indices: 63439502--63439696 Score: 311
Period size: 54 Copynumber: 3.6 Consensus size: 54
63439492 AGGAAGCGTC
* *
63439502 CTGGTGGCTATGCCACAATTAGCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
63439556 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
63439610 TTGGTGGCTATGCCACGATTATTTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
63439664 CTGGTGGCTCTGCCAC-AATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACGATTATCTG-ATCTGGTG
63439697 ACTTCGTCAC
Statistics
Matches: 130, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
53 6 0.05
54 124 0.95
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:63442840 original size:107 final size:107
Alignment explanation
Indices: 63442654--63442871 Score: 418
Period size: 107 Copynumber: 2.0 Consensus size: 107
63442644 AGGTTGTGAG
63442654 GCCTATTTGGCATTTGTAAGTCAGTCAGAAGAGGAGGGACTGACAGTGGATAAGGTTAGGACTGT
1 GCCTATTTGGCATTTGTAAGTCAGTCAGAAGAGGAGGGACTGACAGTGGATAAGGTTAGGACTGT
*
63442719 AAAGGAGTTCCAAGATATTTTTTCGGAGGAGCTTCCAGGATT
66 AAAGGAGTTCCAAGATATTTTTTCGGAGGAGCTTCCAAGATT
63442761 GCCTATTTGGCATTTGTAAGTCAGTCAGAAGAGGAGGGACTGACAGTGGATAAGGTTAGGACTGT
1 GCCTATTTGGCATTTGTAAGTCAGTCAGAAGAGGAGGGACTGACAGTGGATAAGGTTAGGACTGT
*
63442826 AAAGGAGTTCCAAGATGTTTTTTCGGAGGAGCTTCCAAGATT
66 AAAGGAGTTCCAAGATATTTTTTCGGAGGAGCTTCCAAGATT
63442868 GCCT
1 GCCT
63442872 CCGAACCGAG
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 109 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.28
Consensus pattern (107 bp):
GCCTATTTGGCATTTGTAAGTCAGTCAGAAGAGGAGGGACTGACAGTGGATAAGGTTAGGACTGT
AAAGGAGTTCCAAGATATTTTTTCGGAGGAGCTTCCAAGATT
Found at i:63445999 original size:26 final size:26
Alignment explanation
Indices: 63445970--63446076 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
63445960 TGGTACAAAT
*
63445970 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
63445996 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
63446022 TGATAATGGGTTAGGTAAATG-TCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
63446047 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
63446073 TGAT
1 TGAT
63446077 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 24 0.32
26 50 0.68
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:63446072 original size:51 final size:52
Alignment explanation
Indices: 63445970--63446076 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 52
63445960 TGGTACAAAT
*
63445970 TGATAATGGGTTAGGTAAATGTTCTATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
63446022 TGATAATGGGTTAGGTAAATG-TCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
63446073 TGAT
1 TGAT
63446077 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 31 0.60
52 21 0.40
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:63447728 original size:27 final size:27
Alignment explanation
Indices: 63447688--63447800 Score: 140
Period size: 27 Copynumber: 4.2 Consensus size: 27
63447678 AGGAAGCGTC
63447688 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* * *
63447715 CTGGTGGCTCTGCCAC-ATATATATGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
63447742 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
63447769 TTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
63447796 CTGGT
1 CTGGT
63447801 TACTTCGTCA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.11
27 63 0.86
28 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:63447774 original size:54 final size:54
Alignment explanation
Indices: 63447688--63447800 Score: 183
Period size: 54 Copynumber: 2.1 Consensus size: 54
63447678 AGGAAGCGTC
63447688 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATATGT-T
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACA-ATATATGTAT
* * *
63447742 CTGGTGGCTATGCCACGATTATCTGATTTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACAATATATGTAT
63447796 CTGGT
1 CTGGT
63447801 TACTTCGTCA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 7 0.13
54 48 0.87
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACAATATATGTAT
Found at i:63453553 original size:93 final size:93
Alignment explanation
Indices: 63453441--63453611 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
63453431 GCCCATAAGT
* *
63453441 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
63453506 CGAGTTCGGATGCCTAGTTACATCTCTC
66 CGAGTTCGGATGCCTAGTTACATCTCTC
* *
63453534 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
63453599 CGAGTTCGGATGC
66 CGAGTTCGGATGC
63453612 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:63453608 original size:46 final size:46
Alignment explanation
Indices: 63453433--63453608 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
63453423 TGTAACCCGC
* * *
63453433 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
63453479 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
63453525 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
63453572 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
63453609 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.62
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:63461311 original size:36 final size:37
Alignment explanation
Indices: 63461254--63461350 Score: 128
Period size: 37 Copynumber: 2.7 Consensus size: 37
63461244 CGTTTACTTG
63461254 ATGCCATAGTCC-A-CTATGGTCTTAC-TCATATCACA
1 ATGCCATAG-CCTAGCTATGGTCTTACATCATATCACA
** * *
63461289 ATGCCATAGCCTAGCTATGGTCTTACATGTTGTCACG
1 ATGCCATAGCCTAGCTATGGTCTTACATCATATCACA
63461326 ATGCCATAGCCTAGCTATGGTCTTA
1 ATGCCATAGCCTAGCTATGGTCTTA
63461351 TGCGAAGTCT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
34 2 0.04
35 10 0.18
36 12 0.22
37 31 0.56
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (37 bp):
ATGCCATAGCCTAGCTATGGTCTTACATCATATCACA
Found at i:63461460 original size:48 final size:48
Alignment explanation
Indices: 63461380--63461500 Score: 152
Period size: 48 Copynumber: 2.5 Consensus size: 48
63461370 GTCAAGTCCT
* * ** * *
63461380 AGACATAGTCTTACACGAAATCACATATCGATGCCAATGCTATATCCC
1 AGACATGGTCTTACATGGGATCACATACCGATGCCAATGCCATATCCC
* * * *
63461428 ATATATGGTCTTACTTGGGATCACATACCGATGCCAATGCCATGTCCC
1 AGACATGGTCTTACATGGGATCACATACCGATGCCAATGCCATATCCC
63461476 AGACATGGTCTTACATGGGATCACA
1 AGACATGGTCTTACATGGGATCACA
63461501 ATGCCATGGC
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (48 bp):
AGACATGGTCTTACATGGGATCACATACCGATGCCAATGCCATATCCC
Found at i:63461542 original size:37 final size:37
Alignment explanation
Indices: 63461462--63461562 Score: 116
Period size: 37 Copynumber: 2.7 Consensus size: 37
63461452 ATACCGATGC
*
63461462 CAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCA
1 CAATGCCATGTCCCAG-CTATGGTCTTACATGGCATCA
* * *
63461499 CAATGCCATGGCCCAGCTATGGTCTTACATGTCATTA
1 CAATGCCATGTCCCAGCTATGGTCTTACATGGCATCA
* *
63461536 CGATGCCATAGTCCTA-CTATGGTCTTA
1 CAATGCCAT-GTCCCAGCTATGGTCTTA
63461563 TACGTACTCA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
36 1 0.02
37 50 0.91
38 4 0.07
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (37 bp):
CAATGCCATGTCCCAGCTATGGTCTTACATGGCATCA
Found at i:63471656 original size:29 final size:29
Alignment explanation
Indices: 63471614--63471677 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
63471604 CCTTAGATCA
63471614 ACAGCTATATCTTTTGTTCCTCTTTGACT
1 ACAGCTATATCTTTTGTTCCTCTTTGACT
63471643 ACAGCTATATCTTTTGTTCCTCTTTGACT
1 ACAGCTATATCTTTTGTTCCTCTTTGACT
63471672 ACAGCT
1 ACAGCT
63471678 TACATTTCCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.19, C:0.25, G:0.11, T:0.45
Consensus pattern (29 bp):
ACAGCTATATCTTTTGTTCCTCTTTGACT
Found at i:63476542 original size:46 final size:46
Alignment explanation
Indices: 63476447--63476560 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 46
63476437 GACGAGGGCT
* *
63476447 AGTGTAAGACATGTCTGGGACATGTATCAGCCACAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATCAGAGCC
* * * *
63476493 AGTGTAAGACATGTCTGGGACATGCGTCAG-CACGATTA-CATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATCA-GAGCC
*
63476539 AGTGTAAGACCTGTCTGGGACA
1 AGTGTAAGACATGTCTGGGACA
63476561 CGGCATCGAC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
45 4 0.07
46 55 0.93
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATCAGAGCC
Found at i:63482547 original size:46 final size:46
Alignment explanation
Indices: 63482452--63482565 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 46
63482442 GACGAGGGCT
*
63482452 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATCAGAGCC
* * * *
63482498 AGTGTAAGACATGTCTGGGACATGCGTCAG-CACGGT-TACATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTAT-CA-GAGCC
*
63482544 AGTGTAAGACCTGTCTGGGACA
1 AGTGTAAGACATGTCTGGGACA
63482566 CGGCATCGAC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
44 1 0.02
45 6 0.10
46 53 0.88
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATCAGAGCC
Found at i:63493300 original size:17 final size:18
Alignment explanation
Indices: 63493258--63493306 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
63493248 AGTTGAAAAG
63493258 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
63493277 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
63493294 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
63493307 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:63499800 original size:39 final size:39
Alignment explanation
Indices: 63499713--63499826 Score: 156
Period size: 39 Copynumber: 2.9 Consensus size: 39
63499703 TATGGTAACC
** * *
63499713 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
63499753 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
63499792 CGCCCAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
63499827 TCGAACATTC
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 50 0.77
40 15 0.23
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:63507075 original size:13 final size:13
Alignment explanation
Indices: 63507057--63507084 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
63507047 AATATAGGGG
63507057 AAAATGTACCATT
1 AAAATGTACCATT
63507070 AAAATGTACCATT
1 AAAATGTACCATT
63507083 AA
1 AA
63507085 CGAATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATGTACCATT
Found at i:63514415 original size:32 final size:32
Alignment explanation
Indices: 63514379--63514440 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
63514369 AGCTTTTGGT
63514379 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
63514411 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
63514441 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:63522628 original size:6 final size:6
Alignment explanation
Indices: 63522617--63522695 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
63522607 GGGATCACTA
63522617 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* *
63522660 A-GAAT A-GAAT ACTAAT -CTAAT ACTCTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT A--CTAAT ACTAAT A
63522696 GAATAGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
4 3 0.05
5 27 0.43
6 27 0.43
8 6 0.10
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (6 bp):
ACTAAT
Found at i:63522639 original size:20 final size:21
Alignment explanation
Indices: 63522613--63522658 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
63522603 AGCCGGGATC
63522613 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
63522634 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
63522654 ACTAA
1 ACTAA
63522659 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:63522683 original size:11 final size:11
Alignment explanation
Indices: 63522613--63522659 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
63522603 AGCCGGGATC
63522613 ACTAA-CTAAT
1 ACTAATCTAAT
63522623 ACTAATCTAAT
1 ACTAATCTAAT
63522634 -CTAA-CTAAT
1 ACTAATCTAAT
63522643 ACTAATCTAAT
1 ACTAATCTAAT
63522654 ACTAAT
1 ACTAAT
63522660 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:63522709 original size:14 final size:14
Alignment explanation
Indices: 63522692--63522719 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63522682 CTCTAATACT
63522692 AATAGAATAGAAAA
1 AATAGAATAGAAAA
63522706 AATAGAATAGAAAA
1 AATAGAATAGAAAA
63522720 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:63531048 original size:18 final size:18
Alignment explanation
Indices: 63530969--63531062 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
63530959 CAAGGTCACG
*
63530969 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
* *
63530987 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTATC
*
63531005 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
63531023 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
63531041 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
63531056 ATCAATA
1 ATCAATA
63531063 AGAAAACCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:63531049 original size:9 final size:9
Alignment explanation
Indices: 63530969--63531049 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
63530959 CAAGGTCACG
*
63530969 ATCAATAGC
1 ATCAATATC
* *
63530978 GTCACTATC
1 ATCAATATC
*
63530987 ATCAATAGC
1 ATCAATATC
* * *
63530996 GTCACTAGC
1 ATCAATATC
63531005 ATCAATATC
1 ATCAATATC
* * *
63531014 GTCACTAGC
1 ATCAATATC
63531023 ATCAATATC
1 ATCAATATC
* *
63531032 GTCACTATC
1 ATCAATATC
63531041 ATCAATATC
1 ATCAATATC
63531050 GATATCATCA
Statistics
Matches: 51, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (9 bp):
ATCAATATC
Found at i:63533458 original size:21 final size:21
Alignment explanation
Indices: 63533428--63533516 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
63533418 CTCACAAAGA
* *
63533428 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
63533448 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
63533469 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
63533490 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
63533514 AAA
1 AAA
63533517 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:63533509 original size:24 final size:21
Alignment explanation
Indices: 63533428--63533496 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
63533418 CTCACAAAGA
* * *
63533428 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
63533448 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
63533469 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
63533490 AAAAAGA
1 AAAAAGA
63533497 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:63537682 original size:14 final size:14
Alignment explanation
Indices: 63537663--63537691 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
63537653 TACAATATAT
63537663 ATAAGAATTATACG
1 ATAAGAATTATACG
63537677 ATAAGAATTATACG
1 ATAAGAATTATACG
63537691 A
1 A
63537692 ATCCATCTGT
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:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:63543398 original size:16 final size:16
Alignment explanation
Indices: 63543373--63543405 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
63543363 ACGGTATTCT
*
63543373 ATATTTTATAGTAGCA
1 ATATTCTATAGTAGCA
63543389 ATATTCTATAGTAGCA
1 ATATTCTATAGTAGCA
63543405 A
1 A
63543406 AGGAATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (16 bp):
ATATTCTATAGTAGCA
Found at i:63543904 original size:15 final size:15
Alignment explanation
Indices: 63543871--63543904 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
63543861 AGTTATGTCT
*
63543871 ATGTATGGAATTATA
1 ATGTATGGAATTAGA
*
63543886 ATGTATGGAATTAGC
1 ATGTATGGAATTAGA
63543901 ATGT
1 ATGT
63543905 CAAAAAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:63544926 original size:19 final size:19
Alignment explanation
Indices: 63544904--63544943 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
63544894 TTAAACTTTT
* *
63544904 ATTATACTTTTCTATTCTA
1 ATTAAACTTTTCGATTCTA
63544923 ATTAAACTTTTCGATTCTA
1 ATTAAACTTTTCGATTCTA
63544942 AT
1 AT
63544944 AAAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTAAACTTTTCGATTCTA
Found at i:63546650 original size:14 final size:14
Alignment explanation
Indices: 63546631--63546659 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
63546621 CTTTTTACTT
63546631 TGTTATATAGATTA
1 TGTTATATAGATTA
63546645 TGTTATATAGATTA
1 TGTTATATAGATTA
63546659 T
1 T
63546660 TATTTATCTA
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:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (14 bp):
TGTTATATAGATTA
Found at i:63546808 original size:21 final size:21
Alignment explanation
Indices: 63546784--63546823 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
63546774 TTTATCAGTA
*
63546784 ATTCCATTTCATTTATATTAT
1 ATTCCATATCATTTATATTAT
*
63546805 ATTCTATATCATTTATATT
1 ATTCCATATCATTTATATT
63546824 TTTAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTCCATATCATTTATATTAT
Found at i:63547423 original size:11 final size:11
Alignment explanation
Indices: 63547407--63547431 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
63547397 CTTTATATTT
63547407 ATATACAATAA
1 ATATACAATAA
63547418 ATATACAATAA
1 ATATACAATAA
63547429 ATA
1 ATA
63547432 CAATAATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:63548130 original size:13 final size:15
Alignment explanation
Indices: 63548095--63548133 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
63548085 TATCTTTATC
63548095 TTATTTATATTCTATT
1 TTATTTAT-TTCTATT
63548111 TTATTTATTTCT-TT
1 TTATTTATTTCTATT
63548125 TT-TTTATTT
1 TTATTTATTT
63548134 ATCCATCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.30
14 4 0.17
15 4 0.17
16 8 0.35
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTATTTCTATT
Found at i:63552817 original size:23 final size:23
Alignment explanation
Indices: 63552787--63552832 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
63552777 TATATTTTGA
63552787 GTTCGTATATAACTAGTCAATAT
1 GTTCGTATATAACTAGTCAATAT
63552810 GTTCGTATATAACTAGTCAATAT
1 GTTCGTATATAACTAGTCAATAT
63552833 CTAATATCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (23 bp):
GTTCGTATATAACTAGTCAATAT
Found at i:63553392 original size:14 final size:14
Alignment explanation
Indices: 63553373--63553400 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63553363 TCAAGATAAA
63553373 GATAATATTGATCG
1 GATAATATTGATCG
63553387 GATAATATTGATCG
1 GATAATATTGATCG
63553401 AAGGTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
GATAATATTGATCG
Found at i:63554601 original size:29 final size:29
Alignment explanation
Indices: 63554559--63554616 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
63554549 TATTAACCGA
63554559 TTCCATAGATCTATGTAGTTCCAAAAAAG
1 TTCCATAGATCTATGTAGTTCCAAAAAAG
63554588 TTCCATAGATCTATGTAGTTCCAAAAAAG
1 TTCCATAGATCTATGTAGTTCCAAAAAAG
63554617 AATTTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (29 bp):
TTCCATAGATCTATGTAGTTCCAAAAAAG
Found at i:63570687 original size:15 final size:15
Alignment explanation
Indices: 63570667--63570709 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
63570657 TATTAGAAAT
63570667 AAATAGATATTATAA
1 AAATAGATATTATAA
63570682 AAATAGA-A--AT--
1 AAATAGATATTATAA
63570692 AAATAGATATTATAA
1 AAATAGATATTATAA
63570707 AAA
1 AAA
63570710 GAAACTAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 7 0.30
11 1 0.04
12 2 0.09
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATAGATATTATAA
Found at i:63570688 original size:25 final size:25
Alignment explanation
Indices: 63570660--63570709 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
63570650 AAATATTTAT
63570660 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
63570685 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
63570710 GAAACTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (25 bp):
TAGAAATAAATAGATATTATAAAAA
Found at i:63576401 original size:31 final size:33
Alignment explanation
Indices: 63576338--63576411 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
63576328 AAAATGAAAA
* *
63576338 TAAATTAATAATTTATTTTAATTATACTTAAAT
1 TAAATTATTAATTTATTCTAATTATACTTAAAT
*
63576371 TAAATTATTAATTT-TTCTATTTA-ACTTAAAT
1 TAAATTATTAATTTATTCTAATTATACTTAAAT
63576402 TAAA-TATTAA
1 TAAATTATTAA
63576412 ATAATAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.16
31 12 0.32
32 7 0.18
33 13 0.34
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (33 bp):
TAAATTATTAATTTATTCTAATTATACTTAAAT
Found at i:63576417 original size:10 final size:10
Alignment explanation
Indices: 63576404--63576623 Score: 97
Period size: 11 Copynumber: 21.4 Consensus size: 10
63576394 ACTTAAATTA
*
63576404 AATATTAAAT
1 AATAATAAAT
63576414 AATAATAAAT
1 AATAATAAAT
** *
63576424 TCTAAATATACT
1 AAT-AATA-AAT
63576436 AA-ATATAAAT
1 AATA-ATAAAT
63576446 AATAACTAAAT
1 AATAA-TAAAT
63576457 AATAACTAAAT
1 AATAA-TAAAT
63576468 AGA-AAT--A-
1 A-ATAATAAAT
63576475 AA-AATAAAT
1 AATAATAAAT
63576484 AATAACTAAAT
1 AATAA-TAAAT
63576495 AGA-AATAAAAT
1 A-ATAAT-AAAT
63576506 AATAACTAAAT
1 AATAA-TAAAT
63576517 AGA-AATAAA-
1 A-ATAATAAAT
*
63576526 AAT-ATATAT
1 AATAATAAAT
* *
63576535 AAAAATATAT
1 AATAATAAAT
63576545 -ATAAT-AAT
1 AATAATAAAT
63576553 AATATATAAA-
1 AATA-ATAAAT
*
63576563 AATAATATAT
1 AATAATAAAT
*
63576573 AAATTATAAAT
1 -AATAATAAAT
63576584 AGATAATATAAT
1 A-ATAATA-AAT
63576596 AATAGATAGAAT
1 AATA-ATA-AAT
63576608 AATAAAATAAAT
1 AAT--AATAAAT
63576620 AATA
1 AATA
63576624 TAGAAATATA
Statistics
Matches: 165, Mismatches: 16, Indels: 58
0.69 0.07 0.24
Matches are distributed among these distances:
6 4 0.02
7 1 0.01
8 9 0.05
9 16 0.10
10 39 0.24
11 67 0.41
12 25 0.15
13 3 0.02
14 1 0.01
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (10 bp):
AATAATAAAT
Found at i:63576537 original size:22 final size:24
Alignment explanation
Indices: 63576453--63576533 Score: 114
Period size: 22 Copynumber: 3.4 Consensus size: 24
63576443 AATAATAACT
63576453 AAATA-ATAACTAAATAGAAATAA
1 AAATATATAACTAAATAGAAATAA
63576476 AAATAAATAATAACTAAATAGAAAT-A
1 AAAT--AT-ATAACTAAATAGAAATAA
63576502 AAATA-ATAACTAAATAGAAATAA
1 AAATATATAACTAAATAGAAATAA
63576525 AAATATATA
1 AAATATATA
63576534 TAAAAATATA
Statistics
Matches: 52, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
22 16 0.31
23 10 0.19
24 4 0.08
25 1 0.02
26 5 0.10
27 16 0.31
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.23
Consensus pattern (24 bp):
AAATATATAACTAAATAGAAATAA
Found at i:63576542 original size:12 final size:13
Alignment explanation
Indices: 63576521--63576575 Score: 87
Period size: 13 Copynumber: 4.4 Consensus size: 13
63576511 CTAAATAGAA
63576521 ATAAAAAT-ATAT
1 ATAAAAATAATAT
63576533 ATAAAAAT-ATAT
1 ATAAAAATAATAT
*
63576545 ATAATAATAATAT
1 ATAAAAATAATAT
63576558 ATAAAAATAATAT
1 ATAAAAATAATAT
63576571 ATAAA
1 ATAAA
63576576 TTATAAATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
12 19 0.47
13 21 0.52
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAAAAATAATAT
Found at i:63576556 original size:15 final size:15
Alignment explanation
Indices: 63576527--63576623 Score: 78
Period size: 15 Copynumber: 6.7 Consensus size: 15
63576517 AGAAATAAAA
*
63576527 ATATAT-ATAAAAAT
1 ATATATAATAATAAT
63576541 ATATATAATAATAAT
1 ATATATAATAATAAT
63576556 ATATA-AA-AATAAT
1 ATATATAATAATAAT
*
63576569 ATATA-AATTATAA-
1 ATATATAATAATAAT
*
63576582 ATAGATAATATAATAAT
1 ATATAT-A-ATAATAAT
* * *
63576599 AGATAGAATAATAAA
1 ATATATAATAATAAT
*
63576614 ATAAATAATA
1 ATATATAATA
63576624 TAGAAATATA
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
13 17 0.26
14 12 0.18
15 27 0.41
16 7 0.11
17 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATATAATAATAAT
Found at i:63576566 original size:43 final size:42
Alignment explanation
Indices: 63576470--63576633 Score: 118
Period size: 43 Copynumber: 3.7 Consensus size: 42
63576460 AACTAAATAG
* * * * *
63576470 AAATAAAAATAAATAATAA-CTAAATAGAAATAAAATAATAACT
1 AAATAAAAATAAA-AATAATATAAAAATATATATAATAATAA-T
*
63576513 AAATAGAAATAAAAATATATATAAAAATATATATAATAATAAT
1 AAATAAAAATAAAAATA-ATATAAAAATATATATAATAATAAT
* *
63576556 ATATAAAAATAATATATAAATTATAAATAGATA-ATATAATAATAGAT
1 AAATAAAAATAA-AAAT-AA-TATAAA-A-ATATATATAATAATA-AT
* *
63576603 AGAATAATAAA-ATAAATAATATAGAAATATA
1 A-AATAA-AAATAAAAATAATATAAAAATATA
63576634 GATTTATAAA
Statistics
Matches: 97, Mismatches: 13, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
42 4 0.04
43 27 0.28
44 23 0.24
45 12 0.12
46 14 0.14
47 9 0.09
48 5 0.05
49 3 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (42 bp):
AAATAAAAATAAAAATAATATAAAAATATATATAATAATAAT
Found at i:63576566 original size:49 final size:50
Alignment explanation
Indices: 63576429--63576625 Score: 139
Period size: 49 Copynumber: 4.0 Consensus size: 50
63576419 TAAATTCTAA
* *
63576429 ATATACTAAATATAAATAATAACTAA-ATAATAACTAAATAGAAATAAAAATA-
1 ATATAATAAATATATATAATAA-TAATAT-ATAAC-AAATA-AAATAAAAATAT
* * *
63576481 A-ATAATAACTAAATAGAAATAA-AATA-ATAACTAAATAGAAATAAAAATAT
1 ATATAATAAATATATA-TAATAATAATATATAAC-AAATA-AAATAAAAATAT
* *
63576531 ATATAA-AAATATATATAATAATAATATATAA-AAATAATATATAAAT-T
1 ATATAATAAATATATATAATAATAATATATAACAAATAAAATAAAAATAT
* * * *
63576578 ATA-AATAGATA-ATATAATAAT-AGATAGAA-TAATAAAATAAATAATAT
1 ATATAATAAATATATATAATAATAATATATAACAAATAAAATAAA-AATAT
63576625 A
1 A
63576626 GAAATATAGA
Statistics
Matches: 120, Mismatches: 16, Indels: 23
0.75 0.10 0.14
Matches are distributed among these distances:
45 15 0.12
46 15 0.12
47 10 0.08
48 8 0.07
49 33 0.28
50 14 0.12
51 19 0.16
52 6 0.05
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (50 bp):
ATATAATAAATATATATAATAATAATATATAACAAATAAAATAAAAATAT
Found at i:63576594 original size:20 final size:20
Alignment explanation
Indices: 63576569--63576672 Score: 62
Period size: 20 Copynumber: 5.4 Consensus size: 20
63576559 TAAAAATAAT
63576569 ATATAAATTATAAATAGATA
1 ATATAAATTATAAATAGATA
* *
63576589 ATAT-AATAATAGATAGAATA
1 ATATAAATTATAAATAG-ATA
*
63576609 ATA-AAATAAATAATATAGA-A
1 ATATAAAT-TATAA-ATAGATA
* *
63576629 ATATAGATTTATAAATCGA-A
1 ATATA-AATTATAAATAGATA
*
63576649 ATAT--ATTA-ATATA-ATA
1 ATATAAATTATAAATAGATA
63576665 ATATAAAT
1 ATATAAAT
63576673 ATTATTAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 20
0.69 0.09 0.21
Matches are distributed among these distances:
15 1 0.02
16 8 0.12
17 3 0.05
18 2 0.03
19 10 0.15
20 26 0.39
21 10 0.15
22 6 0.09
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.34
Consensus pattern (20 bp):
ATATAAATTATAAATAGATA
Found at i:63576630 original size:15 final size:14
Alignment explanation
Indices: 63576471--63576631 Score: 55
Period size: 13 Copynumber: 11.8 Consensus size: 14
63576461 ACTAAATAGA
63576471 AATA-AAAATAAAT
1 AATATAAAATAAAT
*
63576484 AATAACTAAATAGAAAT
1 AAT-A-TAAA-ATAAAT
* *
63576501 AA-A-ATAATAACT
1 AATATAAAATAAAT
63576513 AA-ATAGAAATAAA-
1 AATATA-AAATAAAT
63576526 AATATATATAA-AAAT
1 AATATA-A-AATAAAT
*
63576541 -ATATATAAT-AAT
1 AATATAAAATAAAT
*
63576553 AATATATAA-AAAT
1 AATATAAAATAAAT
63576566 AATAT---ATAAAT
1 AATATAAAATAAAT
*
63576577 --TAT-AAATAGAT
1 AATATAAAATAAAT
*
63576588 AATATAATAATAGATAG
1 AATATAA-AATA-A-AT
63576605 AATAATAAAATAAAT
1 AAT-ATAAAATAAAT
63576620 AATATAGAAATA
1 AATATA-AAATA
63576632 TAGATTTATA
Statistics
Matches: 113, Mismatches: 12, Indels: 44
0.67 0.07 0.26
Matches are distributed among these distances:
9 3 0.03
10 1 0.01
11 9 0.08
12 12 0.11
13 27 0.24
14 22 0.19
15 16 0.14
16 4 0.04
17 15 0.13
18 4 0.04
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (14 bp):
AATATAAAATAAAT
Found at i:63576678 original size:23 final size:23
Alignment explanation
Indices: 63576647--63576730 Score: 64
Period size: 26 Copynumber: 3.6 Consensus size: 23
63576637 TTATAAATCG
63576647 AAATA-TATTAATATAATAATAT
1 AAATATTATTAATATAATAATAT
* *
63576669 AAATATTATTAATTACTTAATATTCT
1 AAATATTATTAA-TA--TAATAATAT
* * *
63576695 TAATATTAATAACA-AATAATAT
1 AAATATTATTAATATAATAATAT
*
63576717 AAATTAATATTAAT
1 AAA-TATTATTAAT
63576731 TGCTAATAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
22 13 0.28
23 13 0.28
24 2 0.04
25 1 0.02
26 17 0.37
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATATTATTAATATAATAATAT
Found at i:63576738 original size:26 final size:26
Alignment explanation
Indices: 63576651--63576739 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 26
63576641 AAATCGAAAT
63576651 ATATTAA-TA-TAATAATATAAA-TA
1 ATATTAATTACTAATAATATAAATTA
* **
63576674 TTATTAATTACT--TAATAT-TCTTA
1 ATATTAATTACTAATAATATAAATTA
* *
63576697 ATATTAATAACAAATAATATAAATTA
1 ATATTAATTACTAATAATATAAATTA
*
63576723 ATATTAATTGCTAATAA
1 ATATTAATTACTAATAA
63576740 CTTGTAATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
23 23 0.47
24 2 0.04
25 7 0.14
26 17 0.35
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (26 bp):
ATATTAATTACTAATAATATAAATTA
Found at i:63582397 original size:15 final size:15
Alignment explanation
Indices: 63582379--63582409 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
63582369 ATCTCTCATC
63582379 TATCTATCTATTTTT
1 TATCTATCTATTTTT
63582394 TATCTATCTATTTTT
1 TATCTATCTATTTTT
63582409 T
1 T
63582410 CTTTAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (15 bp):
TATCTATCTATTTTT
Found at i:63583111 original size:16 final size:17
Alignment explanation
Indices: 63583084--63583117 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
63583074 AAATGGATTT
63583084 AATAGAAATTAAATAGA
1 AATAGAAATTAAATAGA
63583101 AATAG-AATTAAATAGA
1 AATAGAAATTAAATAGA
63583117 A
1 A
63583118 TTCTCTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
AATAGAAATTAAATAGA
Found at i:63584047 original size:15 final size:15
Alignment explanation
Indices: 63584018--63584079 Score: 54
Period size: 16 Copynumber: 4.0 Consensus size: 15
63584008 GTAGAAAGCC
* *
63584018 TATTTTTTTTTCTAG
1 TATTTTATTTACTAG
63584033 TATTTTATTTACTAG
1 TATTTTATTTACTAG
**
63584048 CGTGTTTATTTACTAGCG
1 TAT-TTTATTTACTA--G
63584066 TA-TTTATTTACTAG
1 TATTTTATTTACTAG
63584080 CGTATTTGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
14 1 0.03
15 14 0.37
16 22 0.58
18 1 0.03
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.58
Consensus pattern (15 bp):
TATTTTATTTACTAG
Found at i:63584057 original size:16 final size:16
Alignment explanation
Indices: 63584036--63584086 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
63584026 TTTCTAGTAT
*
63584036 TTTATTTACTAGCGTG
1 TTTATTTACTAGCGTA
63584052 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
63584068 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
63584084 TTT
1 TTT
63584087 GCTCTTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.53
Consensus pattern (16 bp):
TTTATTTACTAGCGTA
Found at i:63585437 original size:13 final size:14
Alignment explanation
Indices: 63585404--63585437 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
63585394 GCCCGGAGGC
*
63585404 TAAAGAAAAAGTGA
1 TAAAAAAAAAGTGA
63585418 TAAAAAAAAAGTGA
1 TAAAAAAAAAGTGA
63585432 TGAAAA
1 T-AAAA
63585438 GTTTTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (14 bp):
TAAAAAAAAAGTGA
Found at i:63586722 original size:9 final size:9
Alignment explanation
Indices: 63586708--63586796 Score: 57
Period size: 9 Copynumber: 10.3 Consensus size: 9
63586698 AGAAATAAAT
63586708 ATATATATA
1 ATATATATA
63586717 ATATATA-A
1 ATATATATA
*
63586725 AAATAATATTA
1 ATAT-ATA-TA
63586736 ATATATA-A
1 ATATATATA
63586744 ATATA-A-A
1 ATATATATA
63586751 A-ATATATA
1 ATATATATA
* *
63586759 AAATATTTA
1 ATATATATA
63586768 GATATA-A-A
1 -ATATATATA
* *
63586776 ATATTTAGA
1 ATATATATA
63586785 ATATATATA
1 ATATATATA
63586794 ATA
1 ATA
63586797 AAATAGATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
6 3 0.05
7 8 0.13
8 14 0.22
9 27 0.43
10 7 0.11
11 4 0.06
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
ATATATATA
Found at i:63586737 original size:19 final size:19
Alignment explanation
Indices: 63586704--63586761 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
63586694 AAATAGAAAT
63586704 AAATATATATATAATATATAA
1 AAATA-ATAT-TAATATATAA
63586725 AAATAATATTAATATATAA
1 AAATAATATTAATATATAA
*
63586744 ATATAA-A--AATATATAA
1 AAATAATATTAATATATAA
63586760 AA
1 AA
63586762 TATTTAGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 10 0.29
18 1 0.03
19 15 0.43
20 4 0.11
21 5 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATAATATTAATATATAA
Found at i:63586748 original size:34 final size:35
Alignment explanation
Indices: 63586677--63586818 Score: 109
Period size: 34 Copynumber: 4.1 Consensus size: 35
63586667 TTTTGTATTG
* * * *
63586677 TATATAATGTATACAAAA-A-ATAGAAATAAATATA
1 TATATAATATATA-AAAATAGATATAAATATATAAA
*
63586711 TATATAATATATAAAAATA-ATATTAATATATAAA
1 TATATAATATATAAAAATAGATATAAATATATAAA
* *
63586745 TATAAAAATATATAAAATATTTAGATATAAAATATTTAGAA
1 TAT-ATAATATATAAAA-A--TAGATAT-AAATATATA-AA
63586786 TATAT-ATA-AT-AAAATAGATAT-AATATATAAA
1 TATATAATATATAAAAATAGATATAAATATATAAA
63586817 TA
1 TA
63586819 AATTGAATAT
Statistics
Matches: 90, Mismatches: 10, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
31 4 0.04
32 7 0.08
33 4 0.04
34 34 0.38
35 12 0.13
36 2 0.02
37 3 0.03
38 4 0.04
39 7 0.08
40 8 0.09
41 5 0.06
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (35 bp):
TATATAATATATAAAAATAGATATAAATATATAAA
Found at i:63586763 original size:25 final size:24
Alignment explanation
Indices: 63586700--63586818 Score: 109
Period size: 24 Copynumber: 4.9 Consensus size: 24
63586690 CAAAAAATAG
*
63586700 AAATAAATAT-ATATATAATATATA
1 AAATATATATAATATATAA-ATATA
63586724 AAA-ATAATATTAATATATAAATATAA
1 AAATAT-ATA-TAATATATAAATAT-A
* * *
63586750 AAATATATAAAATATTTAGATATA
1 AAATATATATAATATATAAATATA
* * *
63586774 AAATATTTAGAATATATATA-ATA
1 AAATATATATAATATATAAATATA
*
63586797 AAATAGATATAATATATAAATA
1 AAATATATATAATATATAAATA
63586819 AATTGAATAT
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
23 20 0.26
24 24 0.31
25 16 0.21
26 15 0.19
27 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (24 bp):
AAATATATATAATATATAAATATA
Found at i:63586774 original size:15 final size:16
Alignment explanation
Indices: 63586754--63586789 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
63586744 ATATAAAAAT
63586754 ATATAAAATATTTAG-
1 ATATAAAATATTTAGA
63586769 ATATAAAATATTTAGA
1 ATATAAAATATTTAGA
63586785 ATATA
1 ATATA
63586790 TATAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
ATATAAAATATTTAGA
Found at i:63586828 original size:22 final size:22
Alignment explanation
Indices: 63586700--63586839 Score: 85
Period size: 23 Copynumber: 6.2 Consensus size: 22
63586690 CAAAAAATAG
*
63586700 AAATAAATATATATATAATATAT
1 AAATAAA-ATAGATATAATATAT
63586723 --A-AAAATA-ATATTAATATAT
1 AAATAAAATAGATA-TAATATAT
* * *
63586742 AAATATAAAAATATATAAAATATTT
1 -AA-AT-AAAATAGATATAATATAT
** *
63586767 AGATATAAAATATTTAGAATATAT
1 A-A-ATAAAATAGATATAATATAT
63586791 ATAATAAAATAGATATAATATAT
1 A-AATAAAATAGATATAATATAT
*
63586814 AAAT-AAATTGAATATAATAT-T
1 AAATAAAATAG-ATATAATATAT
63586835 AAATA
1 AAATA
63586840 GATAAATAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
18 3 0.03
19 11 0.11
20 3 0.03
21 11 0.11
22 12 0.12
23 19 0.20
24 18 0.19
25 16 0.17
26 3 0.03
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (22 bp):
AAATAAAATAGATATAATATAT
Found at i:63587245 original size:13 final size:13
Alignment explanation
Indices: 63587227--63587253 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
63587217 GTTATTCATA
63587227 ATTAATATGAATT
1 ATTAATATGAATT
63587240 ATTAATATGAATT
1 ATTAATATGAATT
63587253 A
1 A
63587254 GAGACTCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:63587442 original size:19 final size:21
Alignment explanation
Indices: 63587414--63587463 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
63587404 AAATTAAAAT
63587414 TTTATATATATA-TTTAT-TA
1 TTTATATATATATTTTATATA
*
63587433 TTTATCTATATATTTTATATA
1 TTTATATATATATTTTATATA
63587454 TTTA-ATATAT
1 TTTATATATAT
63587464 TTAATATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 10 0.37
21 6 0.22
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATATATATATTTTATATA
Found at i:63587562 original size:17 final size:17
Alignment explanation
Indices: 63587540--63587578 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
63587530 CTGACTCCAT
*
63587540 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
63587557 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
63587574 TTTTA
1 TTTTA
63587579 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:63587744 original size:15 final size:17
Alignment explanation
Indices: 63587714--63587745 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
63587704 GTCAAAATCT
63587714 TTTTATGCAGTTATATA
1 TTTTATGCAGTTATATA
63587731 TTTTATG-A-TTATATA
1 TTTTATGCAGTTATATA
63587746 AATGAAACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (17 bp):
TTTTATGCAGTTATATA
Found at i:63588395 original size:18 final size:18
Alignment explanation
Indices: 63588368--63588410 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
63588358 CGCATAAAAA
* *
63588368 GAAAGCAAATAAATAAAC
1 GAAAGAAAATAAACAAAC
*
63588386 GAAAGAAAATAAACAAAT
1 GAAAGAAAATAAACAAAC
63588404 GAAAGAA
1 GAAAGAA
63588411 GGGGGAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.14, T:0.09
Consensus pattern (18 bp):
GAAAGAAAATAAACAAAC
Found at i:63593155 original size:15 final size:15
Alignment explanation
Indices: 63593135--63593165 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
63593125 GACGGTTCCG
63593135 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
63593150 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
63593165 T
1 T
63593166 ACTGATACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.19, G:0.19, T:0.48
Consensus pattern (15 bp):
TGTGCTCTGATTCAT
Found at i:63596610 original size:20 final size:19
Alignment explanation
Indices: 63596580--63596663 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
63596570 GATGTTAGAA
63596580 TATTAATTCTATTATATATT
1 TATT-ATTCTATTATATATT
63596600 TATCTATTCTATTATATA--
1 TAT-TATTCTATTATATATT
*
63596618 TA-TATTCTAATATATATT
1 TATTATTCTATTATATATT
63596636 AGTATTATT-T-TTATATTATT
1 --TATTATTCTATTATA-TATT
63596656 TATCTATT
1 TAT-TATT
63596664 TCTTATCTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
16 13 0.24
18 5 0.09
19 8 0.15
20 23 0.43
21 5 0.09
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (19 bp):
TATTATTCTATTATATATT
Done.