Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 174 of 210
Found at i:57823157 original size:87 final size:87
Alignment explanation
Indices: 57822789--57823147 Score: 409
Period size: 87 Copynumber: 4.1 Consensus size: 87
57822779 TCATCGACCA
* * * *
57822789 ATGAAGAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCTGCTATCGATTATGAGAA
1 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAA
* *
57822854 GGGATAGTTTCGACTATCGATT
66 GGGATAGTTTCGACCATCGAAT
* * * * * *
57822876 ATGAGAAGGGATAGCTTCGATTATCGATTATGAGAAGGGATAGCTTTGGCTATCGATTATGATAA
1 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAA
* * * * *
57822941 GGGATAGCTTCGGCTATTGATT
66 GGGATAGTTTCGACCATCGAAT
* * * *
57822963 ATGAGAAGGGATAGCTTC-AGCTATCGAATATGAAAAGGGATAGCTTCGGTTATCAATTATGGAA
1 ATGAAAAGGGATAGCTTCGA-CTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAA
* **
57823027 AGGGATGGTGACGACCATC-AACT
65 AGGGATAGTTTCGACCATCGAA-T
* * *
57823050 ATGAAAAGGGAT-GGTGACGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAA
1 ATGAAAAGGGATAGCT-TCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAA
* *
57823114 AGGGATGGTTTTGACCATCGAAT
65 AGGGATAGTTTCGACCATCGAAT
57823137 ATGAAAAGGGA
1 ATGAAAAGGGA
57823148 CGATTACGAC
Statistics
Matches: 229, Mismatches: 38, Indels: 10
0.83 0.14 0.04
Matches are distributed among these distances:
86 4 0.02
87 222 0.97
88 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (87 bp):
ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAA
GGGATAGTTTCGACCATCGAAT
Found at i:57842651 original size:15 final size:15
Alignment explanation
Indices: 57842619--57842654 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
57842609 ATCTGTTCCG
*
57842619 TTTCAAATTTTACTT
1 TTTCAAATTTCACTT
57842634 TTTCATAATTTCACTT
1 TTTCA-AATTTCACTT
57842650 TTTCA
1 TTTCA
57842655 CTTTCAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTCAAATTTCACTT
Found at i:57846369 original size:50 final size:50
Alignment explanation
Indices: 57846294--57846392 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
57846284 GAGAAAACCA
* *
57846294 TTTTCGAAGTCGTTTTGGAAACCTAGTTGCCTTATC-GATTTGTTTTTCAG
1 TTTTCCAAGTCGTTTTGGAAACCTAGTTGCCTTATCAG-TTTATTTTTCAG
57846344 TTTTCCAAGTCGTTTTGGAAACCTAGTTGCCTTATCAGTTTATTTTTCA
1 TTTTCCAAGTCGTTTTGGAAACCTAGTTGCCTTATCAGTTTATTTTTCA
57846393 AAAATGGCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 45 0.98
51 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.46
Consensus pattern (50 bp):
TTTTCCAAGTCGTTTTGGAAACCTAGTTGCCTTATCAGTTTATTTTTCAG
Found at i:57855649 original size:20 final size:18
Alignment explanation
Indices: 57855616--57855652 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
57855606 TGTGATGTTG
57855616 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
57855634 ATATGTCTTAAATTTAATT
1 ATATGT-TT-AATTTAATT
57855653 CGTGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:57857294 original size:20 final size:20
Alignment explanation
Indices: 57857269--57857307 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57857259 TACTTTCTTC
*
57857269 TTTACTTAATCTCTTACTTG
1 TTTACTTAATCACTTACTTG
*
57857289 TTTACTTACTCACTTACTT
1 TTTACTTAATCACTTACTT
57857308 AAATAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.23, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTACTTAATCACTTACTTG
Found at i:57870878 original size:16 final size:15
Alignment explanation
Indices: 57870851--57870884 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
57870841 ATAATTAGTA
*
57870851 TATAATTATATTTAT
1 TATAATTATATTAAT
57870866 TATAATATATATTAAT
1 TATAAT-TATATTAAT
57870882 TAT
1 TAT
57870885 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:57873912 original size:16 final size:15
Alignment explanation
Indices: 57873878--57873915 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
57873868 TTCTTAGACA
*
57873878 TTTTAA-TTACTTAG
1 TTTTAATTTAATTAG
57873892 TTTTAATTTAATTATG
1 TTTTAATTTAATTA-G
57873908 TTTTAATT
1 TTTTAATT
57873916 CCTATAGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 9 0.43
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (15 bp):
TTTTAATTTAATTAG
Found at i:57874550 original size:26 final size:26
Alignment explanation
Indices: 57874513--57874562 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
57874503 TATCTAACTT
*
57874513 AAGGCTCTTCGTGCACACCAATGGAC
1 AAGGCTCATCGTGCACACCAATGGAC
*
57874539 AAGGCTCATCGTGCACATCAATGG
1 AAGGCTCATCGTGCACACCAATGG
57874563 TCACAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (26 bp):
AAGGCTCATCGTGCACACCAATGGAC
Found at i:57880517 original size:16 final size:15
Alignment explanation
Indices: 57880483--57880520 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
57880473 TTCTTAGACA
*
57880483 TTTTAA-TTACTTAG
1 TTTTAATTTAATTAG
57880497 TTTTAATTTAATTATG
1 TTTTAATTTAATTA-G
57880513 TTTTAATT
1 TTTTAATT
57880521 CCTACAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 9 0.43
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (15 bp):
TTTTAATTTAATTAG
Found at i:57881145 original size:26 final size:26
Alignment explanation
Indices: 57881116--57881166 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
57881106 TTGTCCAACT
*
57881116 CAAGGCTCTTCGTGCACACCAATGGA
1 CAAGGCTCATCGTGCACACCAATGGA
* *
57881142 CAAGGCTCATCGTGCGCATCAATGG
1 CAAGGCTCATCGTGCACACCAATGG
57881167 TAACAACACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.20
Consensus pattern (26 bp):
CAAGGCTCATCGTGCACACCAATGGA
Found at i:57890819 original size:34 final size:35
Alignment explanation
Indices: 57890775--57890841 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
57890765 CAGTAAAATG
57890775 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTGC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTGC
* *
57890809 TTTTCTGTAAAATGATTTACTGGACAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
57890842 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTGC
Found at i:57902516 original size:50 final size:50
Alignment explanation
Indices: 57902441--57902544 Score: 208
Period size: 50 Copynumber: 2.1 Consensus size: 50
57902431 ATACTGATTC
57902441 CCTACATGCAGTCATGACAAGTGATCAAACACTTGATTTTCAGTGCATTT
1 CCTACATGCAGTCATGACAAGTGATCAAACACTTGATTTTCAGTGCATTT
57902491 CCTACATGCAGTCATGACAAGTGATCAAACACTTGATTTTCAGTGCATTT
1 CCTACATGCAGTCATGACAAGTGATCAAACACTTGATTTTCAGTGCATTT
57902541 CCTA
1 CCTA
57902545 TCTTTGATTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (50 bp):
CCTACATGCAGTCATGACAAGTGATCAAACACTTGATTTTCAGTGCATTT
Found at i:57904287 original size:90 final size:90
Alignment explanation
Indices: 57904134--57904314 Score: 362
Period size: 90 Copynumber: 2.0 Consensus size: 90
57904124 CATTTTCAAA
57904134 TTGCTGAGTTTCCATCAGCTCTTCAGATTCTTTAGTCAAATCTATTTCATTTAATTGGGTAGAGT
1 TTGCTGAGTTTCCATCAGCTCTTCAGATTCTTTAGTCAAATCTATTTCATTTAATTGGGTAGAGT
57904199 CTGCATCAGAATTGTTGTGCATATG
66 CTGCATCAGAATTGTTGTGCATATG
57904224 TTGCTGAGTTTCCATCAGCTCTTCAGATTCTTTAGTCAAATCTATTTCATTTAATTGGGTAGAGT
1 TTGCTGAGTTTCCATCAGCTCTTCAGATTCTTTAGTCAAATCTATTTCATTTAATTGGGTAGAGT
57904289 CTGCATCAGAATTGTTGTGCATATG
66 CTGCATCAGAATTGTTGTGCATATG
57904314 T
1 T
57904315 CCTGCAAATT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (90 bp):
TTGCTGAGTTTCCATCAGCTCTTCAGATTCTTTAGTCAAATCTATTTCATTTAATTGGGTAGAGT
CTGCATCAGAATTGTTGTGCATATG
Found at i:57908237 original size:28 final size:28
Alignment explanation
Indices: 57908197--57908256 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
57908187 CATTTAAAAG
*
57908197 AATTAGAAATTAGAAATTTCTATCTTTA
1 AATTAGAAATTAGAAATTTATATCTTTA
57908225 AATTAGAAATTAGAAATTTATATCTTTA
1 AATTAGAAATTAGAAATTTATATCTTTA
57908253 AATT
1 AATT
57908257 TTTATATCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (28 bp):
AATTAGAAATTAGAAATTTATATCTTTA
Found at i:57909496 original size:50 final size:51
Alignment explanation
Indices: 57909442--57909554 Score: 140
Period size: 50 Copynumber: 2.3 Consensus size: 51
57909432 TATCCCAAAT
** * *
57909442 ATGGTCTTACATG-AGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGCAGACCTCTCATATCGGTACCAATGCCATGTCCCAGAC
* * * *
57909492 ATGGTCTTAC-GGCGGACCTCTCATCTTGGTACCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGCAGACCTCTCATATCGGTACCAATGCCATGTCCCAGAC
57909542 ATGGTCTTACATG
1 ATGGTCTTACATG
57909555 GGGTCTCTTC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
49 1 0.02
50 50 0.96
51 1 0.02
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.28
Consensus pattern (51 bp):
ATGGTCTTACATGCAGACCTCTCATATCGGTACCAATGCCATGTCCCAGAC
Found at i:57911862 original size:72 final size:72
Alignment explanation
Indices: 57911774--57911907 Score: 189
Period size: 72 Copynumber: 1.9 Consensus size: 72
57911764 CAAATTATAT
* * * * *
57911774 ATGATGCCATAATGTCTTCCAGCTATGGTCTTA-TAGAATATAACCCCGTGTTTACTGTCCCGGT
1 ATGATGCCATAATGTCTTCCAGCTATGATATTACT-CAATATAACCCCGAGTTTACTATCCCGGT
57911838 GGACTATC
65 GGACTATC
* *
57911846 ATGATGCCATAGTGTCTTCCAGTTATGATATTACTCAATATAACCCCGAGTTTACTATCCCG
1 ATGATGCCATAATGTCTTCCAGCTATGATATTACTCAATATAACCCCGAGTTTACTATCCCG
57911908 ACGGACTACC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 53 0.98
73 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (72 bp):
ATGATGCCATAATGTCTTCCAGCTATGATATTACTCAATATAACCCCGAGTTTACTATCCCGGTG
GACTATC
Found at i:57922567 original size:15 final size:15
Alignment explanation
Indices: 57922542--57922580 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
57922532 TGGCTAGACC
*
57922542 ACCATCACCACCTTG
1 ACCAGCACCACCTTG
* *
57922557 AGCAGCACCACGTTG
1 ACCAGCACCACCTTG
57922572 ACCAGCACC
1 ACCAGCACC
57922581 TCTACCACCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.28, C:0.44, G:0.15, T:0.13
Consensus pattern (15 bp):
ACCAGCACCACCTTG
Found at i:57924951 original size:15 final size:15
Alignment explanation
Indices: 57924931--57924959 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57924921 TTCACACACA
57924931 GTGTTATCAATCAAT
1 GTGTTATCAATCAAT
57924946 GTGTTATCAATCAA
1 GTGTTATCAATCAA
57924960 CAAAACACCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (15 bp):
GTGTTATCAATCAAT
Found at i:57930415 original size:30 final size:29
Alignment explanation
Indices: 57930359--57930419 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
57930349 TTTTTTTATA
* *
57930359 AATATTTAAAAAAGAGACATCTAATTTTT
1 AATATTTAAAAAAGAGACACCAAATTTTT
57930388 AATATTTACAAAAAGAG-CAACCAAATTTTT
1 AATATTTA-AAAAAGAGAC-ACCAAATTTTT
57930418 AA
1 AA
57930420 AAATAATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (29 bp):
AATATTTAAAAAAGAGACACCAAATTTTT
Found at i:57930416 original size:29 final size:29
Alignment explanation
Indices: 57930359--57930416 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
57930349 TTTTTTTATA
* * *
57930359 AATATTTAAAAAAGAGACATCTAATTTTT
1 AATATTTAAAAAAGAGACAACCAAATTTT
57930388 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTA-AAAAAGAGACAACCAAATTTT
57930417 TAAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (29 bp):
AATATTTAAAAAAGAGACAACCAAATTTT
Found at i:57935070 original size:24 final size:24
Alignment explanation
Indices: 57935027--57935075 Score: 57
Period size: 23 Copynumber: 2.0 Consensus size: 24
57935017 ATTTTCCAGT
*
57935027 AACTTGTTTTCTTAATAATT-CAA
1 AACTTGTTTTCTTAACAATTACAA
57935050 AACTTGTTTT-TTAACACAATTACAA
1 AACTTGTTTTCTT-A-ACAATTACAA
57935075 A
1 A
57935076 TAATTTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 2 0.09
23 11 0.50
24 5 0.23
25 4 0.18
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (24 bp):
AACTTGTTTTCTTAACAATTACAA
Found at i:57936520 original size:14 final size:14
Alignment explanation
Indices: 57936501--57936527 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57936491 CATTTCTTGG
57936501 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
57936515 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
57936528 ACTAGATCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:57938922 original size:29 final size:29
Alignment explanation
Indices: 57938888--57938945 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
57938878 AGTGCACCTT
*
57938888 AGACTCTCAGTTGGGGAGAATTGCAGCTC
1 AGACTCTCAGCTGGGGAGAATTGCAGCTC
57938917 AGACTCTCAGCTGGGGAGAATTGCAGCTC
1 AGACTCTCAGCTGGGGAGAATTGCAGCTC
57938946 TTCTATTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (29 bp):
AGACTCTCAGCTGGGGAGAATTGCAGCTC
Found at i:57942591 original size:20 final size:18
Alignment explanation
Indices: 57942544--57942592 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
57942534 ATAGATAAAC
57942544 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
57942561 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
57942581 ATTAAATTAATA
1 ATTAAATTAATA
57942593 ACATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:57942637 original size:19 final size:18
Alignment explanation
Indices: 57942606--57942647 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
57942596 TACTATTAAG
**
57942606 ATATT-AAATTTAATTTA
1 ATATTAAAATTTAAAATA
57942623 ATATTAAAATATTAAAATA
1 ATATTAAAAT-TTAAAATA
57942642 ATATTA
1 ATATTA
57942648 TTTTTAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 4 0.19
19 12 0.57
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATTAAAATTTAAAATA
Found at i:57944735 original size:50 final size:51
Alignment explanation
Indices: 57944611--57944853 Score: 258
Period size: 50 Copynumber: 4.7 Consensus size: 51
57944601 GATAAAGTGA
* *
57944611 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG--TATGAGAGG
** * **
57944667 TCTAATGTAAAACCATGTCTGGGACATGGTGTTGGCACCAAGT-TGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGTATGAGAGG
* **
57944717 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG-ATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGTATGAGAGG
** * * **
57944767 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-TATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGTATGAGAGG
* *
57944817 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
57944854 GTACAAGAAA
Statistics
Matches: 160, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
50 124 0.77
51 1 0.01
53 2 0.01
56 33 0.21
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (51 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGTATGAGAGG
Found at i:57956293 original size:16 final size:16
Alignment explanation
Indices: 57956254--57956318 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
57956244 CTTAAATAGA
57956254 ATTTTAATTAAAGTTAATT
1 ATTTTAATT-AA-TT-ATT
*
57956273 TTTTTAATTAATTATT
1 ATTTTAATTAATTATT
*
57956289 ATTTTAAATAA-TATT
1 ATTTTAATTAATTATT
57956304 ACTTTGT-ATTAATTA
1 A-TTT-TAATTAATTA
57956319 CATAAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 5 0.13
16 19 0.49
17 5 0.13
18 2 0.05
19 8 0.21
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAATTATT
Found at i:57957115 original size:20 final size:21
Alignment explanation
Indices: 57957090--57957129 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
57957080 GGATGTCTTA
*
57957090 GGGAGATG-GACGAAGAAAGT
1 GGGAGAAGCGACGAAGAAAGT
*
57957110 GGGAGAAGCGACGAGGAAAG
1 GGGAGAAGCGACGAAGAAAG
57957130 CCGAGGATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.40, C:0.07, G:0.47, T:0.05
Consensus pattern (21 bp):
GGGAGAAGCGACGAAGAAAGT
Found at i:57963800 original size:27 final size:27
Alignment explanation
Indices: 57963736--57963836 Score: 139
Period size: 27 Copynumber: 3.6 Consensus size: 27
57963726 GTATGCTGTC
57963736 AAGGCATTCCTTTCATCGTATATTGCCACA
1 AAGGCATTCCTTTCA---TATATTGCCACA
* *
57963766 AAGGCATTCCTTTCATATTTTGTCACA
1 AAGGCATTCCTTTCATATATTGCCACA
* *
57963793 AAGACATTCTTTTCATATATTGCCACA
1 AAGGCATTCCTTTCATATATTGCCACA
57963820 AAGGCATTCCTTTCATA
1 AAGGCATTCCTTTCATA
57963837 AGTTGTTTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 48 0.76
30 15 0.24
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.37
Consensus pattern (27 bp):
AAGGCATTCCTTTCATATATTGCCACA
Found at i:57967727 original size:19 final size:17
Alignment explanation
Indices: 57967691--57967729 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
57967681 TTAGTTGTTG
57967691 ATTAGTTAAATAAATTA
1 ATTAGTTAAATAAATTA
*
57967708 ATTAGCTTAAGATTAATTA
1 ATTAG-TTAA-ATAAATTA
57967727 ATT
1 ATT
57967730 TAATAAAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (17 bp):
ATTAGTTAAATAAATTA
Found at i:57969990 original size:6 final size:6
Alignment explanation
Indices: 57969979--57970119 Score: 102
Period size: 6 Copynumber: 22.5 Consensus size: 6
57969969 ACATTGTAAT
* * * * *
57969979 AAAAAG AAAAAG AAGAAAATG AAAATG AAAATG AAGAAG AAAATG AAAATG
1 AAAAAG AAAAAG -A-AAAA-G AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
* * **
57970030 AAAAAG AAAAAG AAAAAG AAATAG CAAAAG AAAAAG AAATCG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
** * * *
57970078 TGAGAG AAAAAG AAAACGAA AAAAAG AAAATTG AAAAAG AAA
1 AAAAAG AAAAAG AAAA--AG AAAAAG AAAA-AG AAAAAG AAA
57970120 TTGAGATTGA
Statistics
Matches: 105, Mismatches: 24, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
6 85 0.81
7 9 0.09
8 10 0.10
9 1 0.01
ACGTcount: A:0.72, C:0.02, G:0.18, T:0.07
Consensus pattern (6 bp):
AAAAAG
Found at i:57970138 original size:18 final size:18
Alignment explanation
Indices: 57970107--57970141 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
57970097 AAAAAAGAAA
57970107 ATTGAAAAAGAAATTGAG
1 ATTGAAAAAGAAATTGAG
57970125 ATTGAGAAAA-AAATTGA
1 ATTGA-AAAAGAAATTGA
57970142 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAAAAAGAAATTGAG
Found at i:57991656 original size:54 final size:54
Alignment explanation
Indices: 57991590--57991714 Score: 180
Period size: 54 Copynumber: 2.3 Consensus size: 54
57991580 GAATAAGTAT
* * *
57991590 TTAGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGCTCATCTTAGTTAA-
1 TTAGTTGCTGGAATAAATTACTAATCTTAGTTAATTAAGCTCAGCTTAGTTAAC
* *
57991643 TTAAGTTGTTGGAATAAATTACTAATCTTAGTTAATTAAGTTCAGCTTAGTTAAC
1 TT-AGTTGCTGGAATAAATTACTAATCTTAGTTAATTAAGCTCAGCTTAGTTAAC
*
57991698 TTAGTTGCTGGATTAAA
1 TTAGTTGCTGGAATAAA
57991715 CTTTTAATGT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
53 2 0.03
54 59 0.94
55 2 0.03
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (54 bp):
TTAGTTGCTGGAATAAATTACTAATCTTAGTTAATTAAGCTCAGCTTAGTTAAC
Found at i:57993554 original size:27 final size:28
Alignment explanation
Indices: 57993510--57993563 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
57993500 TATTAAAATA
*
57993510 AAAATATTTACTTAACTACAA-AAATTC
1 AAAATATTTACTTAACTAAAATAAATTC
*
57993537 AAAATATTT-TTTACACTAAAATAAATT
1 AAAATATTTACTTA-ACTAAAATAAATT
57993564 ATATTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.13
27 15 0.65
28 5 0.22
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAATATTTACTTAACTAAAATAAATTC
Found at i:58002973 original size:27 final size:27
Alignment explanation
Indices: 58002939--58002997 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
58002929 CACGACAACT
58002939 AAGAATAGCCATTATGGTGAACTCTAA
1 AAGAATAGCCATTATGGTGAACTCTAA
* * *
58002966 AAGAATAGCCTTTGTGTTGAACTCTAA
1 AAGAATAGCCATTATGGTGAACTCTAA
58002993 AAGAA
1 AAGAA
58002998 ATGCCTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (27 bp):
AAGAATAGCCATTATGGTGAACTCTAA
Found at i:58007373 original size:11 final size:10
Alignment explanation
Indices: 58007350--58007409 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
58007340 ATTGGGTTAA
58007350 AATTGAGCTG
1 AATTGAGCTG
*
58007360 AATTGATCTCG
1 AATTGAGCT-G
58007371 AA-TGAGCTG
1 AATTGAGCTG
* *
58007380 ACTTGAGCTC
1 AATTGAGCTG
*
58007390 AAGTGAGCTGG
1 AATTGAGCT-G
*
58007401 AAATGAGCT
1 AATTGAGCT
58007410 AAACAGAGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
9 2 0.05
10 26 0.67
11 11 0.28
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (10 bp):
AATTGAGCTG
Found at i:58007376 original size:20 final size:20
Alignment explanation
Indices: 58007353--58007409 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
58007343 GGGTTAAAAT
*
58007353 TGAGCTGAATTGATCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
58007373 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
*
58007393 TGAGCTGGAAATGAGCT
1 TGAGCT-GAATTGAGCT
58007410 AAACAGAGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 2 0.06
20 21 0.68
21 8 0.26
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:58007894 original size:22 final size:20
Alignment explanation
Indices: 58007850--58007894 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
58007840 TATTTTAGAT
* *
58007850 TTAGTTTTTTTTTTGTTTTC
1 TTAGTTTTTTTTTTGCTTGC
58007870 TTAGTTTTATTTTTATGCTTGC
1 TTAGTTTT-TTTTT-TGCTTGC
58007892 TTA
1 TTA
58007895 ACCGGGAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 5 0.24
22 8 0.38
ACGTcount: A:0.11, C:0.07, G:0.11, T:0.71
Consensus pattern (20 bp):
TTAGTTTTTTTTTTGCTTGC
Found at i:58014893 original size:50 final size:50
Alignment explanation
Indices: 58014839--58015012 Score: 231
Period size: 50 Copynumber: 3.5 Consensus size: 50
58014829 TATCCCAAAT
* ** * * * *
58014839 ATGGTCTTATATGGGAGTTCTCATATTGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* * *
58014889 ATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACACTATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
58014939 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* * *
58014989 ATCGTTTTACATGGGACCTTTCAT
1 ATGGTCTTACATGGGACCTCTCAT
58015013 AATTTCAATA
Statistics
Matches: 108, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 108 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
Found at i:58019109 original size:25 final size:25
Alignment explanation
Indices: 58019081--58019165 Score: 134
Period size: 25 Copynumber: 3.4 Consensus size: 25
58019071 GTATGCTCTC
*
58019081 ACGAGCTGTGAATCGGGAAGCTCAT
1 ACGAGCTGTAAATCGGGAAGCTCAT
* *
58019106 ACGAGCTGCAAATTGGGAAGCTCAT
1 ACGAGCTGTAAATCGGGAAGCTCAT
*
58019131 ACGAGCTGTAAATCGAGAAGCTCAT
1 ACGAGCTGTAAATCGGGAAGCTCAT
58019156 ACGAGCTGTA
1 ACGAGCTGTA
58019166 GTGTGTTCGC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (25 bp):
ACGAGCTGTAAATCGGGAAGCTCAT
Found at i:58032036 original size:23 final size:22
Alignment explanation
Indices: 58031991--58032037 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
58031981 GACAGTGTAG
* *
58031991 AAGTTAAATGGGTTTTAGGTTT
1 AAGTTAAAAGGGTTTTAAGTTT
*
58032013 AAGTTAAAAGGGTTTTTAATTTT
1 AAGTTAAAAGGG-TTTTAAGTTT
58032036 AA
1 AA
58032038 AAAAGGTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (22 bp):
AAGTTAAAAGGGTTTTAAGTTT
Found at i:58032043 original size:20 final size:21
Alignment explanation
Indices: 58032018--58032067 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
58032008 GGTTTAAGTT
**
58032018 AAAAGGGT-TTTTAATTTTAA
1 AAAAGGGTATTTTAAAGTTAA
58032038 AAAA-GGTATTTTAAAGTTAA
1 AAAAGGGTATTTTAAAGTTAA
58032058 AAATAGGGTA
1 AAA-AGGGTA
58032068 AAATTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 3 0.12
20 17 0.68
21 1 0.04
22 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (21 bp):
AAAAGGGTATTTTAAAGTTAA
Found at i:58037017 original size:17 final size:17
Alignment explanation
Indices: 58036997--58037035 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
58036987 TGGCGGACCA
58036997 TATCACCTGGCAGATAG
1 TATCACCTGGCAGATAG
* * *
58037014 TATCACTTGGCGGATTG
1 TATCACCTGGCAGATAG
58037031 TATCA
1 TATCA
58037036 TCTAGTGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (17 bp):
TATCACCTGGCAGATAG
Found at i:58049496 original size:52 final size:53
Alignment explanation
Indices: 58049432--58049536 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 53
58049422 TGATTTATGT
* * *
58049432 CTATTAAGTATGCTATAATTCGGACAGCATCAATACATGTT-TTAAGTCAGAC
1 CTATTAACTATGCTATAATTCAGACAGCATCAATACATGTTAATAAGTCAGAC
* * * * *
58049484 CTATTAACTATGCTCTATTTCAGACAGCCTTAATGCATGTTAATAAGTCAGAC
1 CTATTAACTATGCTATAATTCAGACAGCATCAATACATGTTAATAAGTCAGAC
58049537 TCTTTAATTG
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
52 34 0.77
53 10 0.23
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (53 bp):
CTATTAACTATGCTATAATTCAGACAGCATCAATACATGTTAATAAGTCAGAC
Found at i:58051424 original size:20 final size:20
Alignment explanation
Indices: 58051374--58051427 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
58051364 TGAACCCTTC
*
58051374 CATTTACTTAATTTCCATTG
1 CATTTACTTACTTTCCATTG
*
58051394 CATTTACTTACTTTTCATTG
1 CATTTACTTACTTTCCATTG
58051414 CATTTACTTACTTT
1 CATTTACTTACTTT
58051428 AGCTTAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.54
Consensus pattern (20 bp):
CATTTACTTACTTTCCATTG
Found at i:58052336 original size:45 final size:46
Alignment explanation
Indices: 58052265--58052387 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 46
58052255 GATCGGAGTG
* * *
58052265 TGCCATGGTGTCTTTCAACCATGGTCTTATTTATTCT-CATCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTCTCCATCGTGA
* * * *
58052310 TGTCATAGTGTCTTTCAACCGTGGTCTTATTCATTTTCCATCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTCTCCATCGTGA
* * *
58052356 TGCCATATTTTGTTTCAACCATGGTCTTATTC
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTC
58052388 GTTTGATTCA
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
45 32 0.49
46 33 0.51
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (46 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTCTCCATCGTGA
Found at i:58052479 original size:89 final size:90
Alignment explanation
Indices: 58052368--58052570 Score: 209
Period size: 89 Copynumber: 2.3 Consensus size: 90
58052358 CCATATTTTG
* * * *
58052368 TTTCAACCATGGTCTTATTCGTTTGATTCATGATGCCATAGCAT-A-TTTCAG-CTATTG-TCTT
1 TTTCAATCATGGTCTTACTCGTTTGAATCATGAAGCCATA--ATGACTTTCAGTC-A-TGCTCTT
* *
58052429 ACTTGATAGAACCGTG-TGCCATAACGTC
62 ACTCGATAGAACCGTGATGCCATAACATC
* * * *
58052457 TTTCAATCATGGTCTTCCTCGTTAGAATCGTGAAGCCATAATGACTTTTAGTCATGCTCTTACTC
1 TTTCAATCATGGTCTTACTCGTTTGAATCATGAAGCCATAATGACTTTCAGTCATGCTCTTACTC
* **
58052522 GTTAGAATTGTGATGCCATAACATC
66 GATAGAACCGTGATGCCATAACATC
*
58052547 TTTCAGTCATGGTCTTACTCGTTT
1 TTTCAATCATGGTCTTACTCGTTT
58052571 CTGGTATGGT
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
87 2 0.02
88 3 0.03
89 55 0.59
90 33 0.35
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (90 bp):
TTTCAATCATGGTCTTACTCGTTTGAATCATGAAGCCATAATGACTTTCAGTCATGCTCTTACTC
GATAGAACCGTGATGCCATAACATC
Found at i:58052512 original size:45 final size:45
Alignment explanation
Indices: 58052375--58052569 Score: 171
Period size: 45 Copynumber: 4.4 Consensus size: 45
58052365 TTGTTTCAAC
* * * * * * *
58052375 CATGGTCTTATTCGTTTGATTCATGATGCCATAGCATATTTCAG-
1 CATGGTCTTACTCGTTAGAATCGTGAAGCCATAACATCTTTCAGT
* * * * * * *
58052419 CTATTGTCTTACTTGATAGAACCGTG-TGCCATAACGTCTTTCAAT
1 C-ATGGTCTTACTCGTTAGAATCGTGAAGCCATAACATCTTTCAGT
* * *
58052464 CATGGTCTTCCTCGTTAGAATCGTGAAGCCATAATGA-CTTTTAGT
1 CATGGTCTTACTCGTTAGAATCGTGAAGCCATAA-CATCTTTCAGT
* * *
58052509 CATGCTCTTACTCGTTAGAATTGTGATGCCATAACATCTTTCAGT
1 CATGGTCTTACTCGTTAGAATCGTGAAGCCATAACATCTTTCAGT
58052554 CATGGTCTTACTCGTT
1 CATGGTCTTACTCGTT
58052570 TCTGGTATGG
Statistics
Matches: 117, Mismatches: 29, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
44 35 0.30
45 82 0.70
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (45 bp):
CATGGTCTTACTCGTTAGAATCGTGAAGCCATAACATCTTTCAGT
Found at i:58054910 original size:54 final size:54
Alignment explanation
Indices: 58054848--58054975 Score: 204
Period size: 54 Copynumber: 2.4 Consensus size: 54
58054838 CCACACGGCT
*
58054848 GTGTCGCAGGCCATGTGCTAAA-TCGTGTAACAATCTATTTTGGCTCACATGACC
1 GTGTCGCAGGCCGTGTGCTAAACT-GTGTAACAATCTATTTTGGCTCACATGACC
* *
58054902 GTGTCGCAGGCTGTGTGCTAAACTGTGTAACAATCTATTTTGGCTCACATGGCC
1 GTGTCGCAGGCCGTGTGCTAAACTGTGTAACAATCTATTTTGGCTCACATGACC
*
58054956 GTGTCACAGGCCGTGTGCTA
1 GTGTCGCAGGCCGTGTGCTA
58054976 GACCGTGCAG
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
54 67 0.99
55 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (54 bp):
GTGTCGCAGGCCGTGTGCTAAACTGTGTAACAATCTATTTTGGCTCACATGACC
Found at i:58055887 original size:6 final size:6
Alignment explanation
Indices: 58055876--58055911 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
58055866 CACAAATCGT
58055876 ATCTCA ATCTCA ATCTCA ATCTCA ATCTCA ATCTCA
1 ATCTCA ATCTCA ATCTCA ATCTCA ATCTCA ATCTCA
58055912 GTCGAATCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (6 bp):
ATCTCA
Found at i:58061366 original size:20 final size:20
Alignment explanation
Indices: 58061317--58061423 Score: 117
Period size: 20 Copynumber: 5.3 Consensus size: 20
58061307 GCATCATAGA
* *
58061317 TGCATAACAGAGTCACTGAAG
1 TGCA-AACAGAGGCACCGAAG
* *
58061338 TGTAGACAGAGGCA-CGAATG
1 TGCAAACAGAGGCACCGAA-G
* * *
58061358 TGCGAACAGATGCACCGAAA
1 TGCAAACAGAGGCACCGAAG
58061378 TGCAAACAGAGGCACCGAAG
1 TGCAAACAGAGGCACCGAAG
*
58061398 TGCAAAGAGAGGCACCGAAG
1 TGCAAACAGAGGCACCGAAG
58061418 TGCAAA
1 TGCAAA
58061424 TCCATAAACA
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
19 3 0.04
20 61 0.86
21 7 0.10
ACGTcount: A:0.39, C:0.21, G:0.29, T:0.11
Consensus pattern (20 bp):
TGCAAACAGAGGCACCGAAG
Found at i:58076241 original size:13 final size:14
Alignment explanation
Indices: 58076218--58076246 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
58076208 AATAAATTAT
58076218 TTAATTTTAGTTAG
1 TTAATTTTAGTTAG
58076232 TTAA-TTTAGTTAG
1 TTAATTTTAGTTAG
58076245 TT
1 TT
58076247 CAGTTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TTAATTTTAGTTAG
Found at i:58080916 original size:13 final size:14
Alignment explanation
Indices: 58080893--58080921 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
58080883 AATAAATTAT
58080893 TTAATTTTAGTTAG
1 TTAATTTTAGTTAG
58080907 TTAA-TTTAGTTAG
1 TTAATTTTAGTTAG
58080920 TT
1 TT
58080922 CAGTTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TTAATTTTAGTTAG
Found at i:58083803 original size:13 final size:14
Alignment explanation
Indices: 58083780--58083808 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
58083770 AATAAATTAT
58083780 TTAATTTTAGTTAG
1 TTAATTTTAGTTAG
58083794 TTAA-TTTAGTTAG
1 TTAATTTTAGTTAG
58083807 TT
1 TT
58083809 CAGTTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TTAATTTTAGTTAG
Found at i:58091519 original size:45 final size:45
Alignment explanation
Indices: 58091456--58091718 Score: 438
Period size: 45 Copynumber: 5.9 Consensus size: 45
58091446 NNNNNNNGGA
*
58091456 CAACATC-TGCATAATTCATGGGAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
58091500 CAACATCATGCATAATTCATGGGAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
58091545 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
58091590 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * *
58091635 CAACATCATGCATAATTCATGGAAGAATTTAATGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
58091680 CAACATCATGCATAATTTATAGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
58091719 CCATGGCCGA
Statistics
Matches: 208, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
44 7 0.03
45 201 0.97
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:58093095 original size:23 final size:22
Alignment explanation
Indices: 58093067--58093121 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
58093057 AATCTATTTT
58093067 TTTATTAAAAATTACAAACGAA
1 TTTATTAAAAATTACAAACGAA
* * * * *
58093089 TCTTATTTAAACTTATAATCTAA
1 T-TTATTAAAAATTACAAACGAA
58093112 TTTATTAAAA
1 TTTATTAAAA
58093122 TCTATCAATC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (22 bp):
TTTATTAAAAATTACAAACGAA
Found at i:58093323 original size:93 final size:93
Alignment explanation
Indices: 58093048--58093349 Score: 270
Period size: 93 Copynumber: 3.2 Consensus size: 93
58093038 TAATCTAACA
* * *
58093048 AAAACCTAAAATCTATTTTTTTATTAAAAATTACAAACGAATCTTATTTAAACTTATAATCTAAT
1 AAAACTTAAAATCTA-ATTTTTATTAAAAATTACAAACGAATCTTATTTAAACTTATAATTTAAT
*
58093113 TTATTAAAATCTATCAATCTAATTTTACTAAAT
65 TTATTAAAACCTATCAATCTAATTTTAC----T
* * * * * * * * * *
58093146 AAAACTTAAAATC-AAATTCTACTT-ATAATTA-TAA-TAATTTTTTTTCCAAAATTAAAATCTA
1 AAAACTTAAAATCTAATTTTTA-TTAAAAATTACAAACGAATCTTATTT--AAACTTATAAT-TT
** * **
58093207 AACCTATTAAAAGCTAAAAATCTAATTTTACT
62 AATTTATTAAAACCTATCAATCTAATTTTACT
* *
58093239 ACAACTTAAAATCTAATTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAATTTAATT
1 AAAACTTAAAATCTAATTTTTATTAAAAATTACAAACGAATCTTATTTAAACTTATAATTTAATT
* *
58093304 TATTAAAACCTATCCATCTAATTTTAAT
66 TATTAAAACCTATCAATCTAATTTTACT
* *
58093332 AGAACTTAAAATCAAATT
1 AAAACTTAAAATCTAATT
58093350 CTAACTAAAA
Statistics
Matches: 157, Mismatches: 39, Indels: 21
0.72 0.18 0.10
Matches are distributed among these distances:
93 57 0.36
94 29 0.18
95 4 0.03
96 26 0.17
97 29 0.18
98 12 0.08
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (93 bp):
AAAACTTAAAATCTAATTTTTATTAAAAATTACAAACGAATCTTATTTAAACTTATAATTTAATT
TATTAAAACCTATCAATCTAATTTTACT
Found at i:58093396 original size:186 final size:190
Alignment explanation
Indices: 58093054--58093437 Score: 618
Period size: 186 Copynumber: 2.0 Consensus size: 190
58093044 AACAAAAACC
* *
58093054 TAAAATCTATTTTTTTATTAAAAATTACAAACGAATCTTATTTAAACTTATAATCTAATTTATTA
1 TAAAATCTATATTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAATCTAATTTATTA
* *
58093119 AAATCTATCAATCTAATTTTACTAAATAAAACTTAAAATCAAATTCTACTTATAATTATAATAAT
66 AAACCTATCAATCTAATTTTA-TAAATAAAACTTAAAATCAAATTCTACTTAAAATTATAATAAT
*
58093184 TTTTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACT
130 ATTTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACT
*
58093245 TAAAATCTA-ATTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAATTTAATTTATTA
1 TAAAATCTATATTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAATCTAATTTATTA
* * *
58093309 AAACCTATCCATCTAA-TTT-T-AATAGAACTTAAAATCAAATTCTAAC-TAAAATTCTAAT-AT
66 AAACCTATCAATCTAATTTTATAAATAAAACTTAAAATCAAATTCT-ACTTAAAATTATAATAAT
58093369 AATTTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACT
130 -ATTTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACT
58093431 TAAAATC
1 TAAAATC
58093438 AAACCCTTTT
Statistics
Matches: 182, Mismatches: 9, Indels: 9
0.91 0.05 0.05
Matches are distributed among these distances:
185 2 0.01
186 99 0.54
187 3 0.02
189 3 0.02
190 66 0.36
191 9 0.05
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.39
Consensus pattern (190 bp):
TAAAATCTATATTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAATCTAATTTATTA
AAACCTATCAATCTAATTTTATAAATAAAACTTAAAATCAAATTCTACTTAAAATTATAATAATA
TTTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACT
Found at i:58093582 original size:92 final size:92
Alignment explanation
Indices: 58093186--58093945 Score: 867
Period size: 92 Copynumber: 8.2 Consensus size: 92
58093176 ATAATAATTT
* * * * *
58093186 TTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAAT
1 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAAT
* ** * ** * * *
58093251 CTAATTTTTATTAAAAATTACAAACGAA
66 C-AAATCCTATTTAAACCTATAATCTAA
* * ** * * ** * *** * * *
58093279 TCTCATTTAAACTTATAAT-TTAATTTATTAAAACCTATCCATCTAATTTTAATAGAACTTAAAA
1 TTTTA-CCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAA
* ** ** * *
58093343 TCAAATTCTAACTAAAATTCTAATATAA
65 TCAAATCCTATTTAAACCTATAATCTAA
* * * * *
58093371 TTTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAA
1 -TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAA
*
58093436 TCAAACCCT-TTTAAACCTATAATCTAA
65 TCAAATCCTATTTAAACCTATAATCTAA
** *
58093463 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATACTATTACAACTTAAAAT
1 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAAT
*
58093528 CAAATCCTATTTAAACCTATTATCTAA
66 CAAATCCTATTTAAACCTATAATCTAA
* * * * *
58093555 TTTTTCCAAAATTATGATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
1 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAAT
58093620 CAAATCCTATTTAAACCTATAATCTAA
66 CAAATCCTATTTAAACCTATAATCTAA
**
58093647 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATACTACTACAACTTAAAAT
1 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAAT
* *
58093712 CAAATCCTATTTAATCCTATTATCTAA
66 CAAATCCTATTTAAACCTATAATCTAA
* * * * *
58093739 TTTTTCCAAAATTATGATCTAAGCCTATTAGAACCTAAAATTCTAATTTTACTACAACTTAAAAT
1 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAAT
*
58093804 CAAATCCTATTTAAACCTATAAACTAA
66 CAAATCCTATTTAAACCTATAATCTAA
* * * *
58093831 TTTTACCAAAATTACAATATAAACCTACTAGAACCTAAAAATATAATTTTACTACAACTTCAAAT
1 TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAAT
*
58093896 CAAATCCTATTTAAATCTATAATCTAA
66 CAAATCCTATTTAAACCTATAATCTAA
* *
58093923 TTTTACCAAAATTAAAACCTAAA
1 TTTTACCAAAATTATAATCTAAA
58093946 AATATAGTTT
Statistics
Matches: 561, Mismatches: 102, Indels: 9
0.83 0.15 0.01
Matches are distributed among these distances:
91 64 0.11
92 403 0.72
93 85 0.15
94 9 0.02
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.36
Consensus pattern (92 bp):
TTTTACCAAAATTATAATCTAAACCTATTAGAACCTAAAAATATAATTTTACTACAACTTAAAAT
CAAATCCTATTTAAACCTATAATCTAA
Found at i:58095021 original size:6 final size:6
Alignment explanation
Indices: 58095010--58095038 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
58095000 TGAAAGGGTT
58095010 GAGAGG GAGAGG GAGAGG GAGAGG GAGAG
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAG
58095039 AGTGTCTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:58095050 original size:4 final size:4
Alignment explanation
Indices: 58095041--58095081 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
58095031 AGGGAGAGAG
58095041 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC T
1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC T
58095082 CTGTGTGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.00, C:0.24, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTC
Found at i:58095090 original size:2 final size:2
Alignment explanation
Indices: 58095083--58095112 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
58095073 TGTCTGTCTC
*
58095083 TG TG TG TG TG TG TG TG TG TG TG TG CG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
58095113 GACAGCCACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
TG
Found at i:58099367 original size:22 final size:21
Alignment explanation
Indices: 58099340--58099381 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
58099330 TTTTCCTTTG
58099340 TTTTA-TTTATTTATTTATTTAT
1 TTTTATTTTA-TTATTT-TTTAT
58099362 TTTTATTTTATTATTTTTTA
1 TTTTATTTTATTATTTTTTA
58099382 ATGCTTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTATTTTATTATTTTTTAT
Found at i:58099586 original size:109 final size:108
Alignment explanation
Indices: 58099386--58099586 Score: 314
Period size: 109 Copynumber: 1.9 Consensus size: 108
58099376 TTTTTAATGC
* * *
58099386 TTAAGAATGTATTGGTCCTTTTGACGCGAAATGGAATGACAATCAAGCACCCCACCCTGGTTACT
1 TTAAGAATGTATTGGCCCTTTTGACGCGAAATGGAATGACAACCAAGCACCCCACCCTAGTTACT
* *
58099451 CAGCCCAACATACTCTTAATTTATTATATTATATATATATTGT
66 CAGCCCAACACACTCTTAATTAATTATATTATATATATATTGT
* *
58099494 TTAAGAATGTATTGGCCCTTTTGACGC-AAAGTGGAATGACAACCCAGACATCCCACCCTAGTTA
1 TTAAGAATGTATTGGCCCTTTTGACGCGAAA-TGGAATGACAACCAAG-CACCCCACCCTAGTTA
58099558 CTCAGCCCAACACACTCTTAATTAATTAT
64 CTCAGCCCAACACACTCTTAATTAATTAT
58099587 TTTTTGTTTA
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
107 3 0.04
108 40 0.48
109 41 0.49
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (108 bp):
TTAAGAATGTATTGGCCCTTTTGACGCGAAATGGAATGACAACCAAGCACCCCACCCTAGTTACT
CAGCCCAACACACTCTTAATTAATTATATTATATATATATTGT
Found at i:58100391 original size:12 final size:12
Alignment explanation
Indices: 58100374--58100413 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
58100364 GAAAGAAAAT
58100374 AAAATATATAAC
1 AAAATATATAAC
*
58100386 AAAATA-A-AAT
1 AAAATATATAAC
58100396 AAAATATATAAC
1 AAAATATATAAC
58100408 AAAATA
1 AAAATA
58100414 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 8 0.33
11 2 0.08
12 14 0.58
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATATATAAC
Found at i:58100397 original size:22 final size:23
Alignment explanation
Indices: 58100369--58100422 Score: 101
Period size: 22 Copynumber: 2.4 Consensus size: 23
58100359 AACATGAAAG
58100369 AAAATAAAATATATAACAAAAT-
1 AAAATAAAATATATAACAAAATA
58100391 AAAATAAAATATATAACAAAATA
1 AAAATAAAATATATAACAAAATA
58100414 AAAATAAAA
1 AAAATAAAA
58100423 ATTAAATTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 22 0.71
23 9 0.29
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (23 bp):
AAAATAAAATATATAACAAAATA
Found at i:58104452 original size:10 final size:10
Alignment explanation
Indices: 58104403--58104436 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
58104393 ATTTATGACA
58104403 TGTATCATAT
1 TGTATCATAT
58104413 TGTATCATAT
1 TGTATCATAT
58104423 TGTATCATAT
1 TGTATCATAT
58104433 TGTA
1 TGTA
58104437 AATGTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (10 bp):
TGTATCATAT
Found at i:58105113 original size:15 final size:15
Alignment explanation
Indices: 58105093--58105123 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58105083 TTGATTTTGT
*
58105093 AATCTTAAGGGATTG
1 AATCTTAAAGGATTG
58105108 AATCTTAAAGGATTG
1 AATCTTAAAGGATTG
58105123 A
1 A
58105124 GTCAATCCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (15 bp):
AATCTTAAAGGATTG
Found at i:58105690 original size:85 final size:85
Alignment explanation
Indices: 58105558--58105727 Score: 313
Period size: 85 Copynumber: 2.0 Consensus size: 85
58105548 ATCTCATTTT
*
58105558 TTTTTTTGCATTTTATAGAAAATGGTGAAATTCCAATTTTAGACCTTATCGTACACTCAAAATTT
1 TTTTTTTGCATTTTATAAAAAATGGTGAAATTCCAATTTTAGACCTTATCGTACACTCAAAATTT
58105623 ATATTATATAATAATAGTCA
66 ATATTATATAATAATAGTCA
* *
58105643 TTTTTTTGCATTTTATAAAAAATGGTGAAATTCCAATTTTAGTCCTTATCGTACACTCTAAATTT
1 TTTTTTTGCATTTTATAAAAAATGGTGAAATTCCAATTTTAGACCTTATCGTACACTCAAAATTT
58105708 ATATTATATAATAATAGTCA
66 ATATTATATAATAATAGTCA
58105728 AATTTCAATT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.44
Consensus pattern (85 bp):
TTTTTTTGCATTTTATAAAAAATGGTGAAATTCCAATTTTAGACCTTATCGTACACTCAAAATTT
ATATTATATAATAATAGTCA
Found at i:58106733 original size:19 final size:20
Alignment explanation
Indices: 58106685--58106741 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 20
58106675 AGCTAGCCTT
58106685 TATTATGTATAATTATAATATAA
1 TATTAT-TA-AATTA-AATATAA
58106708 TATTTATTAAATTAAATA-AA
1 TA-TTATTAAATTAAATATAA
*
58106728 TATTATGAAATTAA
1 TATTATTAAATTAA
58106742 TCTCAATGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 11 0.34
20 4 0.12
21 4 0.12
22 5 0.16
23 4 0.12
24 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
TATTATTAAATTAAATATAA
Found at i:58112475 original size:19 final size:19
Alignment explanation
Indices: 58112451--58112488 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
58112441 AGTATGTGTA
*
58112451 AATTTTAGTTATGTTAATT
1 AATTTTAATTATGTTAATT
*
58112470 AATTTTAATTATTTTAATT
1 AATTTTAATTATGTTAATT
58112489 TGTACTGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
AATTTTAATTATGTTAATT
Found at i:58114049 original size:32 final size:31
Alignment explanation
Indices: 58113970--58114050 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 31
58113960 GGTCCCTTCA
*
58113970 CCGTCGGTTTCCTCATCGTCTAACCCCTTTCC
1 CCGTCGGTTTCC-CATCGTCAAACCCCTTTCC
* *
58114002 CCATCGATTTCCCCATC-TCGAAACCCCTTTCC
1 CCGTCGGTTT-CCCATCGTC-AAACCCCTTTCC
58114034 CCGTCGGTTATCCCATC
1 CCGTCGGTT-TCCCATC
58114051 CCCGAACCCC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
31 2 0.05
32 36 0.88
33 3 0.07
ACGTcount: A:0.14, C:0.44, G:0.11, T:0.31
Consensus pattern (31 bp):
CCGTCGGTTTCCCATCGTCAAACCCCTTTCC
Found at i:58114059 original size:32 final size:32
Alignment explanation
Indices: 58113991--58114063 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
58113981 CTCATCGTCT
*
58113991 AACCCCTTTCCCCATCGATTTCCCCATCTCGA
1 AACCCCTTTCCCCATCGATTTCCCCATCCCGA
* *
58114023 AACCCCTTTCCCCGTCGGTTAT-CCCATCCCCGA
1 AACCCCTTTCCCCATCGATT-TCCCCAT-CCCGA
*
58114056 ACCCCCTT
1 AACCCCTT
58114064 CCTTGTCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 23 0.66
33 12 0.34
ACGTcount: A:0.16, C:0.49, G:0.08, T:0.26
Consensus pattern (32 bp):
AACCCCTTTCCCCATCGATTTCCCCATCCCGA
Found at i:58114142 original size:66 final size:64
Alignment explanation
Indices: 58113970--58114142 Score: 161
Period size: 64 Copynumber: 2.7 Consensus size: 64
58113960 GGTCCCTTCA
* * * * * *
58113970 CCGTCGGTTTCCTCATCGTCTAACCCCTTTCCCCATCGATTTCCCCATCTCGAAACCCCTTTCC
1 CCGTCGGTTTCCTCATCGCCGAACCCCCTTCCCCATCGATTTCCCCAGCCCGAAACCCATTTCC
* *** * *
58114034 CCGTCGGTTATCC-CATCCCCGAACCCCCTTCCTTGTCAATTTCCCTAGCCCTG-AACCTACATT
1 CCGTCGGTT-TCCTCATCGCCGAACCCCCTTCCCCATCGATTTCCCCAGCCC-GAAACC--CATT
*
58114097 TTC
62 TCC
* *
58114100 CCGTCGATTTCCTCTTCGCCGAACCCCCTTCCCCATCGATTTC
1 CCGTCGGTTTCCTCATCGCCGAACCCCCTTCCCCATCGATTTC
58114143 TTCATCTTCA
Statistics
Matches: 84, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
64 40 0.48
65 7 0.08
66 37 0.44
ACGTcount: A:0.14, C:0.45, G:0.10, T:0.31
Consensus pattern (64 bp):
CCGTCGGTTTCCTCATCGCCGAACCCCCTTCCCCATCGATTTCCCCAGCCCGAAACCCATTTCC
Found at i:58114157 original size:32 final size:33
Alignment explanation
Indices: 58114121--58114182 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
58114111 CTCTTCGCCG
58114121 AACCCC-CTTCCCCATCGA-TTTCTTCATCTTCA
1 AACCCCTCTTCCCCATC-ATTTTCTTCATCTTCA
*
58114153 AACCCCTCTTCCCCGTCATTTTCTTCATCT
1 AACCCCTCTTCCCCATCATTTTCTTCATCT
58114183 CTGAACACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.16, C:0.44, G:0.03, T:0.37
Consensus pattern (33 bp):
AACCCCTCTTCCCCATCATTTTCTTCATCTTCA
Found at i:58129072 original size:25 final size:25
Alignment explanation
Indices: 58128999--58129091 Score: 82
Period size: 25 Copynumber: 3.8 Consensus size: 25
58128989 TCATTAGGGA
* *
58128999 TTACCAA-TTGCAGCTTGTGAGAGC
1 TTACCAATTTACAGCTCGTGAGAGC
** *
58129023 TTACCAATTTTTAGCTCAT-ATGAGC
1 TTACCAATTTACAGCTCGTGA-GAGC
*
58129048 TTACTAATTTACAGCTCGTGAGAGC
1 TTACCAATTTACAGCTCGTGAGAGC
* * *
58129073 ATACCGATTCACAGCTCGT
1 TTACCAATTTACAGCTCGT
58129092 ATGAGCATAC
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
24 8 0.15
25 45 0.83
26 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (25 bp):
TTACCAATTTACAGCTCGTGAGAGC
Found at i:58129097 original size:25 final size:25
Alignment explanation
Indices: 58129035--58129101 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
58129025 ACCAATTTTT
* * * *
58129035 AGCTCATATGAGCTTACTAATTTAC
1 AGCTCGTATGAGCATACCAATTCAC
*
58129060 AGCTCGTGA-GAGCATACCGATTCAC
1 AGCTCGT-ATGAGCATACCAATTCAC
58129085 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
58129102 ATGTACAGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCAATTCAC
Found at i:58129918 original size:25 final size:25
Alignment explanation
Indices: 58129880--58129958 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
58129870 CAGCTTGTGA
**
58129880 GAGCTTACCAATTTTTAGCTCATAT
1 GAGCTTACCAATTTACAGCTCATAT
**
58129905 GAGCTTACTGATTTACAGCTCATGA-
1 GAGCTTACCAATTTACAGCTCAT-AT
* * * *
58129930 GAGCATACCGATTCACAGCTCGTAT
1 GAGCTTACCAATTTACAGCTCATAT
58129955 GAGC
1 GAGC
58129959 ATAGTACAGG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 1 0.02
25 42 0.95
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (25 bp):
GAGCTTACCAATTTACAGCTCATAT
Found at i:58129959 original size:25 final size:25
Alignment explanation
Indices: 58129896--58129961 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
58129886 ACCAATTTTT
* * *
58129896 AGCTCATATGAGCTTACTGATTTAC
1 AGCTCATATGAGCATACCGATTCAC
58129921 AGCTCATGA-GAGCATACCGATTCAC
1 AGCTCAT-ATGAGCATACCGATTCAC
*
58129946 AGCTCGTATGAGCATA
1 AGCTCATATGAGCATA
58129962 GTACAGGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (25 bp):
AGCTCATATGAGCATACCGATTCAC
Found at i:58130777 original size:25 final size:25
Alignment explanation
Indices: 58130749--58130815 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
58130739 ACCATTTTTT
* * * *
58130749 AGCTCATATGAGCTTACTGATTTAC
1 AGCTCGTATGAGCATACCGATTCAC
58130774 AGCTCGTGA-GAGCATACCGATTCAC
1 AGCTCGT-ATGAGCATACCGATTCAC
58130799 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
58130816 ATGTACAGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCGATTCAC
Found at i:58130900 original size:856 final size:858
Alignment explanation
Indices: 58128695--58131255 Score: 4681
Period size: 858 Copynumber: 3.0 Consensus size: 858
58128685 AAATTGTATA
*
58128695 AAATT-ATTAATTTAGATCAAGATTGGGTGGAAAATCGAGGAAAATAGAAAATTACCAAAATGCC
1 AAATTAATTAATTTAGATCAAGATTGGGTGGAAAATCGAGGAAAATAAAAAATTACCAAAATGCC
*
58128759 CTTAAATTTTGGTGTTTCTGCAATTTAGCTAGGTAAGTTCGTCTGAACTGTATTCTGTATAATTT
66 CTTAAATTTTGGTATTTCTGCAATTTAGCTAGGTAAGTTCGTCTGAACTGTATTCTGTATAATTT
58128824 TGATTAAATTGAATGTTAATATGTGATTATATTGTGATTAAATCAATATATATATATATGATAGT
131 TGATTAAATTGAATGTTAATATGTGATTATATTGTGATTAAATC-A-ATATATATATATGATAGT
*
58128889 ATGCAATTTACCATGTTATGAAACGACGTAAATCCAACAACATACGACAATTAACGAGTCTCGTT
194 ATGCAATTTACCATGTTATGAAACGACGTAAATCCAACAACATACGACGATTAACGAGTCTCGTT
58128954 TGAACCTTAAAAATTCGTAGGATACAAATAACATATCATTAGGGATTACCAATTGCAGCTTGTGA
259 TGAACCTTAAAAATTCGTAGGATACAAATAACATATCATTAGGGATTACCAATTGCAGCTTGTGA
*
58129019 GAGCTTACCAATTTTTAGCTCATATGAGCTTACTAATTTACAGCTCGTGAGAGCATACCGATTCA
324 GAGCTTACCAATTTTTAGCTCATATGAGCTTACTGATTTACAGCTCGTGAGAGCATACCGATTCA
58129084 CAGCTCGTATGAGCATACATGTACAGGAATTGACGGATTACAGCTTAGCACACTATGTTTGAGCT
389 CAGCTCGTATGAGCATACATGTACAGGAATTGACGGATTACAGCTTAGCACACTATGTTTGAGCT
58129149 ATCCCGAGTATCTAACGGTATTCTAAATGGTTTAACGGGAAATATTCTGATTCGAACTGGTAAGA
454 ATCCCGAGTATCTAACGGTATTCTAAATGGTTTAACGGGAAATATTCTGATTCGAACTGGTAAGA
58129214 TTTCAATACGGACTATTACAGGGACACATATGAATTACATGGAAATGTTGTTACATGGTATATGG
519 TTTCAATACGGACTATTACAGGGACACA-ATGAATTACATGGAAATGTTGTTACATGGTATATGG
*
58129279 AAAATTGAATTGGATGATACATGTATATGAAAATTAATCAATTGTGGTGCTCATACATGATTATT
583 AAAATTGAATTGGATGATACATGTATATGAAAATTAATCAATTGTTGTGCTCATACATGATTATT
58129344 GGTTTATATATGTATTTACATGGCTAACATGTGCTGTTGTTTGATGCTTAGGCATGT-CTCAAGC
648 GGTTTATATATGTATTTACATGGCTAACATGTGCTGTTGTTTGATGCTTAGGCATGTGC-CAAGC
*
58129408 TATTGATTAAATGGTATTATGTTTACTTATAAGTTGCATTGAAATGGTAAGTGCTCCAATGGAAA
712 TATTGATTGAATGGTATTATGTTTACTTATAAGTTGCATTGAAATGGTAAGTGCTCCAATGGAAA
58129473 TATGCTTGTGTTCATGAAAGAGTGGTAAGGTTTAAATCATGTAATTTCTTTGGAAATGGTTTGTC
777 TATGCTTGTGTTCAT---AGAGTGGTAAGGTTTAAATCATGTAATTTCTTTGGAAATGGTTTGTC
*
58129538 ATGTGACTAATTCGTTGCCT
839 ATGTGACTAATTCATTGCCT
*
58129558 AAATTAATTAATTTAGATCAAGATTGGGTGGAAAATCGAGGAAAATAAAAAATTACCAAAACGCC
1 AAATTAATTAATTTAGATCAAGATTGGGTGGAAAATCGAGGAAAATAAAAAATTACCAAAATGCC
*
58129623 CTT-TATTTTGGTATTTCTGCAATTTAGCTAGGTAAGTTCGTCTGAACTGTATTCTGTATAATTT
66 CTTAAATTTTGGTATTTCTGCAATTTAGCTAGGTAAGTTCGTCTGAACTGTATTCTGTATAATTT
* *
58129687 TGATTAAATTGAATGTTAATATGTGATTATATTTTGAGTAAATCAATATATATATATGATAGTAT
131 TGATTAAATTGAATGTTAATATGTGATTATATTGTGATTAAATCAATATATATATATGATAGTAT
* *
58129752 GCAATTTACCATGTTATGAAACGACGTAAATCCAACAACATATGACGATTTACGAGTCTCGTTTG
196 GCAATTTACCATGTTATGAAACGACGTAAATCCAACAACATACGACGATTAACGAGTCTCGTTTG
58129817 AACCTTAAAAATTCGTAGGATACAAATAACATATCATTAGGGATTACCAATTGCAGCTTGTGAGA
261 AACCTTAAAAATTCGTAGGATACAAATAACATATCATTAGGGATTACCAATTGCAGCTTGTGAGA
*
58129882 GCTTACCAATTTTTAGCTCATATGAGCTTACTGATTTACAGCTCATGAGAGCATACCGATTCACA
326 GCTTACCAATTTTTAGCTCATATGAGCTTACTGATTTACAGCTCGTGAGAGCATACCGATTCACA
58129947 GCTCGTATGAGCAT--A-GTACAGGAATTGACGGATTACAGCTTAGCACACTATGTTTGAGCTAT
391 GCTCGTATGAGCATACATGTACAGGAATTGACGGATTACAGCTTAGCACACTATGTTTGAGCTAT
* *
58130009 CCCGAGTATCTAATGGTATTCTAAATGGTTTAACGGGAAATATTCTGATTCGAACTAGTAAGATT
456 CCCGAGTATCTAACGGTATTCTAAATGGTTTAACGGGAAATATTCTGATTCGAACTGGTAAGATT
58130074 TCAATACGGACTATTACAGGGACAC-ATGAATTACATGGAAATGTTGTTACATGGTATATGGAAA
521 TCAATACGGACTATTACAGGGACACAATGAATTACATGGAAATGTTGTTACATGGTATATGGAAA
58130138 ATTGAATTGGATGATACATGTATATGAAAATTAATCAATTGTTGTGCTCATACATGATTATTGGT
586 ATTGAATTGGATGATACATGTATATGAAAATTAATCAATTGTTGTGCTCATACATGATTATTGGT
58130203 TTATATATGTATTTACATGGCTAACATGTGCTGTTGTTTGATGCTTAGGCATGTGCCAAGCTATT
651 TTATATATGTATTTACATGGCTAACATGTGCTGTTGTTTGATGCTTAGGCATGTGCCAAGCTATT
**
58130268 GATTGAATGGTCCTATGTTTACTTATAAGTTGCATTGAAATGGTAAGTGCTCCAATGGAAATATG
716 GATTGAATGGTATTATGTTTACTTATAAGTTGCATTGAAATGGTAAGTGCTCCAATGGAAATATG
58130333 CTTGTGTTCAT-GAGTGGTAAGGTTTAAATCATGTAATTTCTTTGGAAATGGTTTGTCATGTGAC
781 CTTGTGTTCATAGAGTGGTAAGGTTTAAATCATGTAATTTCTTTGGAAATGGTTTGTCATGTGAC
58130397 TAATTCATTGCCT
846 TAATTCATTGCCT
*
58130410 AAATTAATTAAATTAGATCAAGATTGGGTGGAAAATCGAGGAAAATAAAAAATTACCAAAATGCC
1 AAATTAATTAATTTAGATCAAGATTGGGTGGAAAATCGAGGAAAATAAAAAATTACCAAAATGCC
*
58130475 CTTAAATTTTGGTATTTCTGCAATTTAGCTTA-GTAAGTTCGTCTGAACTGTATTCTATATAATT
66 CTTAAATTTTGGTATTTCTGCAATTTAGC-TAGGTAAGTTCGTCTGAACTGTATTCTGTATAATT
*
58130539 TTGATTAAATTTAATGTTAATATGTGATTATATTGTGATTAAATCAATATATATATATGATAGTA
130 TTGATTAAATTGAATGTTAATATGTGATTATATTGTGATTAAATCAATATATATATATGATAGTA
*
58130604 TGCAATTTACCATGTTATGAAACGACGTAAATCCAACAACATACGATGATTAACGAGTCTCGTTT
195 TGCAATTTACCATGTTATGAAACGACGTAAATCCAACAACATACGACGATTAACGAGTCTCGTTT
58130669 GAACCTTAAAAATTCGTAGGATACAAATAACATATCATTAGGGATTACCAATTGCAGCTTGTGAG
260 GAACCTTAAAAATTCGTAGGATACAAATAACATATCATTAGGGATTACCAATTGCAGCTTGTGAG
*
58130734 AGCTTACCATTTTTTAGCTCATATGAGCTTACTGATTTACAGCTCGTGAGAGCATACCGATTCAC
325 AGCTTACCAATTTTTAGCTCATATGAGCTTACTGATTTACAGCTCGTGAGAGCATACCGATTCAC
*
58130799 AGCTCGTATGAGCATACATGTACAGGAATTGACGAATTACAGCTTAGCACACTATGTTTGAGCTA
390 AGCTCGTATGAGCATACATGTACAGGAATTGACGGATTACAGCTTAGCACACTATGTTTGAGCTA
*
58130864 TCACGAGTATCTAACGGTATTCTAAATGGTTTAACGGGAAATATTCTGATTCGAACTGGTAAGAT
455 TCCCGAGTATCTAACGGTATTCTAAATGGTTTAACGGGAAATATTCTGATTCGAACTGGTAAGAT
58130929 TTCAATACGGACTATTACAGGGACACATATGAATTACATGGAAATGTTGTTACATGGTATATGGA
520 TTCAATACGGACTATTACAGGGACACA-ATGAATTACATGGAAATGTTGTTACATGGTATATGGA
* *
58130994 AAATTGAATTGGATGATACATGTATATGAAAATTAATCAATTGTTGTGCTCATGCATGATTACTG
584 AAATTGAATTGGATGATACATGTATATGAAAATTAATCAATTGTTGTGCTCATACATGATTATTG
* * *
58131059 GTTTATATATGTATTTATATGGCTAACTTGTGCTGTTGTTTGATGCTTAGGCATGTGTCAAGCTA
649 GTTTATATATGTATTTACATGGCTAACATGTGCTGTTGTTTGATGCTTAGGCATGTGCCAAGCTA
58131124 TTGATTGAATGGTATTATGTTTACTTATAAGTTGCATTGAAATGGTAAGTGCTCCAATGGAAATA
714 TTGATTGAATGGTATTATGTTTACTTATAAGTTGCATTGAAATGGTAAGTGCTCCAATGGAAATA
58131189 TGCTTGTGTTCATGAAAGAGTGGTAAGGTTTAAATCATGTAATTTCTTTGGAAATGGTTTGTCAT
779 TGCTTGTGTTCAT---AGAGTGGTAAGGTTTAAATCATGTAATTTCTTTGGAAATGGTTTGTCAT
58131254 GT
841 GT
58131256 AATTTCTATG
Statistics
Matches: 1644, Mismatches: 41, Indels: 27
0.96 0.02 0.02
Matches are distributed among these distances:
852 131 0.08
853 322 0.20
854 2 0.00
855 1 0.00
856 372 0.23
857 1 0.00
858 373 0.23
859 1 0.00
861 224 0.14
862 51 0.03
863 106 0.06
864 60 0.04
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (858 bp):
AAATTAATTAATTTAGATCAAGATTGGGTGGAAAATCGAGGAAAATAAAAAATTACCAAAATGCC
CTTAAATTTTGGTATTTCTGCAATTTAGCTAGGTAAGTTCGTCTGAACTGTATTCTGTATAATTT
TGATTAAATTGAATGTTAATATGTGATTATATTGTGATTAAATCAATATATATATATGATAGTAT
GCAATTTACCATGTTATGAAACGACGTAAATCCAACAACATACGACGATTAACGAGTCTCGTTTG
AACCTTAAAAATTCGTAGGATACAAATAACATATCATTAGGGATTACCAATTGCAGCTTGTGAGA
GCTTACCAATTTTTAGCTCATATGAGCTTACTGATTTACAGCTCGTGAGAGCATACCGATTCACA
GCTCGTATGAGCATACATGTACAGGAATTGACGGATTACAGCTTAGCACACTATGTTTGAGCTAT
CCCGAGTATCTAACGGTATTCTAAATGGTTTAACGGGAAATATTCTGATTCGAACTGGTAAGATT
TCAATACGGACTATTACAGGGACACAATGAATTACATGGAAATGTTGTTACATGGTATATGGAAA
ATTGAATTGGATGATACATGTATATGAAAATTAATCAATTGTTGTGCTCATACATGATTATTGGT
TTATATATGTATTTACATGGCTAACATGTGCTGTTGTTTGATGCTTAGGCATGTGCCAAGCTATT
GATTGAATGGTATTATGTTTACTTATAAGTTGCATTGAAATGGTAAGTGCTCCAATGGAAATATG
CTTGTGTTCATAGAGTGGTAAGGTTTAAATCATGTAATTTCTTTGGAAATGGTTTGTCATGTGAC
TAATTCATTGCCT
Found at i:58133906 original size:27 final size:27
Alignment explanation
Indices: 58133876--58133973 Score: 144
Period size: 27 Copynumber: 3.6 Consensus size: 27
58133866 TTCATAATTC
*
58133876 GCCACTAAGGCTATTCTCTTAGAGTTT
1 GCCACAAAGGCTATTCTCTTAGAGTTT
58133903 GCCACAAAGGCTATTCT-TTCAGAGTTT
1 GCCACAAAGGCTATTCTCTT-AGAGTTT
* *
58133930 GCCACAAAGGCTTTTCTCCTAGAGTTT
1 GCCACAAAGGCTATTCTCTTAGAGTTT
*
58133957 GCCACAAAGGCTTTTCT
1 GCCACAAAGGCTATTCT
58133974 TCCAGTCTTT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
26 2 0.03
27 63 0.95
28 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (27 bp):
GCCACAAAGGCTATTCTCTTAGAGTTT
Found at i:58133934 original size:54 final size:54
Alignment explanation
Indices: 58133846--58133974 Score: 168
Period size: 54 Copynumber: 2.4 Consensus size: 54
58133836 CCTTGTAGGA
* * * * * *
58133846 TTTGCCACAGAGGCTATCCCTTCATAATTCGCCACTAAGGCTATTCTCTTAGAG
1 TTTGCCACAAAGGCTATTCTTTCAGAATTCGCCACAAAGGCTATTCTCCTAGAG
* * *
58133900 TTTGCCACAAAGGCTATTCTTTCAGAGTTTGCCACAAAGGCTTTTCTCCTAGAG
1 TTTGCCACAAAGGCTATTCTTTCAGAATTCGCCACAAAGGCTATTCTCCTAGAG
*
58133954 TTTGCCACAAAGGCTTTTCTT
1 TTTGCCACAAAGGCTATTCTT
58133975 CCAGTCTTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (54 bp):
TTTGCCACAAAGGCTATTCTTTCAGAATTCGCCACAAAGGCTATTCTCCTAGAG
Found at i:58133992 original size:27 final size:27
Alignment explanation
Indices: 58133896--58134001 Score: 142
Period size: 27 Copynumber: 3.9 Consensus size: 27
58133886 CTATTCTCTT
* *
58133896 AGAGTTTGCCACAAAGGCTATTCTTTC
1 AGAGTTTGCCACAAAGGCTTTTCTTCC
58133923 AGAGTTTGCCACAAAGGCTTTTC-TCC
1 AGAGTTTGCCACAAAGGCTTTTCTTCC
58133949 TAGAGTTTGCCACAAAGGCTTTTCTTCC
1 -AGAGTTTGCCACAAAGGCTTTTCTTCC
** * *
58133977 AGTCTTTACCAAAAAGGCTTTTCTT
1 AGAGTTTGCCACAAAGGCTTTTCTT
58134002 TCCTGACGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.03
27 66 0.93
28 3 0.04
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (27 bp):
AGAGTTTGCCACAAAGGCTTTTCTTCC
Found at i:58133993 original size:54 final size:54
Alignment explanation
Indices: 58133882--58134000 Score: 166
Period size: 54 Copynumber: 2.2 Consensus size: 54
58133872 ATTCGCCACT
* * * * * *
58133882 AAGGCTATTCTCTTAGAGTTTGCCACAAAGGCTATTCTTTCAGAGTTTGCCACA
1 AAGGCTTTTCTCCTAGAGTTTGCCACAAAGGCTATTCTTCCAGACTTTACCAAA
* *
58133936 AAGGCTTTTCTCCTAGAGTTTGCCACAAAGGCTTTTCTTCCAGTCTTTACCAAA
1 AAGGCTTTTCTCCTAGAGTTTGCCACAAAGGCTATTCTTCCAGACTTTACCAAA
58133990 AAGGCTTTTCT
1 AAGGCTTTTCT
58134001 TTCCTGACGT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (54 bp):
AAGGCTTTTCTCCTAGAGTTTGCCACAAAGGCTATTCTTCCAGACTTTACCAAA
Found at i:58136980 original size:42 final size:42
Alignment explanation
Indices: 58136934--58137013 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
58136924 TCAAAATTGG
58136934 GACACACAGCCGTGTCCCAGCCT-GTGTAACTCATTGACATGA
1 GACACACAGCCGTGTCCCAG-CTAGTGTAACTCATTGACATGA
* * *
58136976 GACACACGGCTGTGTCTCAGCTAGTGTAACTCATTGAC
1 GACACACAGCCGTGTCCCAGCTAGTGTAACTCATTGAC
58137014 TTAGGTCACA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (42 bp):
GACACACAGCCGTGTCCCAGCTAGTGTAACTCATTGACATGA
Found at i:58137849 original size:22 final size:22
Alignment explanation
Indices: 58137807--58137854 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
58137797 TATTCAATTA
**
58137807 CATGATATTACCATTTCTATTT
1 CATGATATTACCACATCTATTT
58137829 CATGCATATTACCACAT-TATTT
1 CATG-ATATTACCACATCTATTT
58137851 CATG
1 CATG
58137855 TTATGTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (22 bp):
CATGATATTACCACATCTATTT
Found at i:58145369 original size:8 final size:8
Alignment explanation
Indices: 58145356--58145380 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
58145346 TTTTAAATGA
58145356 TATTTTAT
1 TATTTTAT
58145364 TATTTTAT
1 TATTTTAT
58145372 TATTTTAT
1 TATTTTAT
58145380 T
1 T
58145381 TAGTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:58147429 original size:50 final size:50
Alignment explanation
Indices: 58147375--58147758 Score: 468
Period size: 50 Copynumber: 7.7 Consensus size: 50
58147365 CAATATGTGG
*
58147375 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * *
58147425 CCATGTAAGACCATGTCTAGGACATGGCGTTGGCACTGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * * *
58147475 CCCTGTAAGACCATGTCTGGGAAATGGCGTTGGCACCAAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* *
58147525 CCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAAAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* *
58147575 CCATATAAGACCATGTCTGGGACATGGCATTGACACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
** * * * **
58147625 CCCCGTAAGACCATGTCTGGGACATGGCATGGGCACGGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * * * * * **
58147675 CCATGTAAGGCCATATCTTGGATATGGCATTGGCA--GTACA-GAAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG-AGAGGTC
* *
58147724 CCATGTAAGACCATGTATGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
58147759 TGTTATTATC
Statistics
Matches: 289, Mismatches: 43, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
48 2 0.01
49 35 0.12
50 252 0.87
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
Found at i:58162064 original size:26 final size:26
Alignment explanation
Indices: 58162035--58162090 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
58162025 ATAAAAAAAA
*
58162035 CTTTTCTAGATAGCACACCACAAAGG
1 CTTTTCTAGATAACACACCACAAAGG
* * **
58162061 CTTTTCCAGAAAACATGCCACAAAGG
1 CTTTTCTAGATAACACACCACAAAGG
58162087 CTTT
1 CTTT
58162091 CACAAGATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (26 bp):
CTTTTCTAGATAACACACCACAAAGG
Found at i:58162135 original size:26 final size:24
Alignment explanation
Indices: 58162052--58162141 Score: 65
Period size: 26 Copynumber: 3.6 Consensus size: 24
58162042 AGATAGCACA
58162052 CCACAAAGGCTTTTCCAGAAAACATG
1 CCACAAAGG-TTTTCCA-AAAACATG
* * **
58162078 CCACAAAGGCTTTCACAAGATTA-G
1 CCACAAAGGTTTTC-CAAAAACATG
* *
58162102 CCATAAAGGTTTTTCCATATAACATG
1 CCACAAAGG-TTTTCCA-AAAACATG
*
58162128 CCACAAAGGCTTTC
1 CCACAAAGGTTTTC
58162142 AGAAGATAAC
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
24 11 0.22
25 18 0.37
26 20 0.41
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (24 bp):
CCACAAAGGTTTTCCAAAAACATG
Found at i:58162158 original size:27 final size:28
Alignment explanation
Indices: 58162120--58162176 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
58162110 GTTTTTCCAT
* * *
58162120 ATAACATGCCACAAAGGC-TTTCAGAAG
1 ATAACATACCACAAAAGCTTTTCACAAG
58162147 ATAACATACCACAAAAGCTTTTCACAAG
1 ATAACATACCACAAAAGCTTTTCACAAG
58162175 AT
1 AT
58162177 TAGCTACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (28 bp):
ATAACATACCACAAAAGCTTTTCACAAG
Found at i:58162188 original size:78 final size:77
Alignment explanation
Indices: 58162052--58162195 Score: 195
Period size: 78 Copynumber: 1.9 Consensus size: 77
58162042 AGATAGCACA
* * *
58162052 CCACAAAGGCTTTTCCAGAAAACATGCCACAAAGGCTTTCACAAGATTAGCCATAAAGG-TTTTT
1 CCACAAAGGCTTTTCCAGAAAACATACCACAAAAGCTTTCACAAGATTAGCCACAAAGGCTTTTT
58162116 CCATATAACATG
66 CCATATAACATG
*
58162128 CCACAAAGGC-TTT-CAGAAGATAACATACCACAAAAGCTTTTCACAAGATTAGCTACAAAGGCT
1 CCACAAAGGCTTTTCCAG-A-A-AACATACCACAAAAGC-TTTCACAAGATTAGCCACAAAGGCT
58162191 TTTTC
62 TTTTC
58162196 ACGTAAGCTG
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
74 3 0.05
75 4 0.07
76 11 0.19
77 14 0.24
78 21 0.36
79 6 0.10
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.25
Consensus pattern (77 bp):
CCACAAAGGCTTTTCCAGAAAACATACCACAAAAGCTTTCACAAGATTAGCCACAAAGGCTTTTT
CCATATAACATG
Found at i:58167804 original size:6 final size:6
Alignment explanation
Indices: 58167788--58167828 Score: 73
Period size: 6 Copynumber: 6.7 Consensus size: 6
58167778 TTAAATATAC
58167788 AAAACT AAAAACT AAAACT AAAACT AAAACT AAAACT AAAA
1 AAAACT -AAAACT AAAACT AAAACT AAAACT AAAACT AAAA
58167829 GCTCCCAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAACT
Found at i:58170863 original size:21 final size:21
Alignment explanation
Indices: 58170837--58170883 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
58170827 ATAAAATCTC
*
58170837 CTAATACTTATCCTAATAAAA
1 CTAATACATATCCTAATAAAA
* *
58170858 CTAATACATCTTCTAATAAAA
1 CTAATACATATCCTAATAAAA
58170879 -TAATA
1 CTAATA
58170884 ACTAATGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (21 bp):
CTAATACATATCCTAATAAAA
Found at i:58172624 original size:24 final size:23
Alignment explanation
Indices: 58172597--58172658 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
58172587 TACTGCAAAG
*
58172597 TTGAGTTGTTTGTACACAACGCTA-
1 TTGAGTGGTTTG-ACACAACG-TAT
*
58172621 TTGAGTGGCTTTGCCACAACGTAT
1 TTGAGTGG-TTTGACACAACGTAT
58172645 TTGAGTGGTTTGAC
1 TTGAGTGGTTTGAC
58172659 CATAAACAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 7 0.21
24 22 0.67
25 4 0.12
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (23 bp):
TTGAGTGGTTTGACACAACGTAT
Found at i:58190399 original size:29 final size:29
Alignment explanation
Indices: 58190299--58190429 Score: 88
Period size: 29 Copynumber: 4.4 Consensus size: 29
58190289 TCACTGGGAA
* *
58190299 AGGAATGCCTTTATGGCAAAACTCTAGAC
1 AGGAAAGCCTTTATGGCAAAACTCTAAAC
* * *
58190328 AGGAAAGCCTTTGTGG-AGAGTACTGGATATAA-
1 AGGAAAGCCTTTATGGCA-A-AACT--CTA-AAC
58190360 AGGAATA-CCTTTATGGCAAAACTCTAAAC
1 AGGAA-AGCCTTTATGGCAAAACTCTAAAC
* * * * * *
58190389 AGGAAATCCTTTGTAGCACAACTCTAGAG
1 AGGAAAGCCTTTATGGCAAAACTCTAAAC
58190418 AGGAAAGCCTTT
1 AGGAAAGCCTTT
58190430 GCGATGAGTA
Statistics
Matches: 79, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
28 4 0.05
29 50 0.63
30 3 0.04
31 3 0.04
32 16 0.20
33 3 0.04
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (29 bp):
AGGAAAGCCTTTATGGCAAAACTCTAAAC
Found at i:58190452 original size:90 final size:90
Alignment explanation
Indices: 58190299--58190493 Score: 268
Period size: 90 Copynumber: 2.2 Consensus size: 90
58190289 TCACTGGGAA
* * * * *
58190299 AGGAATGCCTTTATGGCAAAACTCTAGACAGGAAAGCCTTTGTGGAGAGTACTGGATATAAAGGA
1 AGGAAAGCCTTTGTAGCACAACTCTAGACAGGAAAGCCTTTGTCGAGAGTACTGGATATAAAGGA
58190364 ATACCTTTATGGCA-AAACTCTAAAC
66 ATACCTTTATGGCACAAA-TCTAAAC
* *
58190389 AGGAAATCCTTTGTAGCACAACTCTAGAGAGGAAAGCCTTTG-CGATGAGTACTGGATATAAAGG
1 AGGAAAGCCTTTGTAGCACAACTCTAGACAGGAAAGCCTTTGTCGA-GAGTACTGGATATAAAGG
* * *
58190453 AATACCTTTGTGGCACAAATCTAGAT
65 AATACCTTTATGGCACAAATCTAAAC
58190479 AGGAAAGCCTTTGTA
1 AGGAAAGCCTTTGTA
58190494 CGAGTACTTG
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
89 2 0.02
90 87 0.95
91 3 0.03
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.25
Consensus pattern (90 bp):
AGGAAAGCCTTTGTAGCACAACTCTAGACAGGAAAGCCTTTGTCGAGAGTACTGGATATAAAGGA
ATACCTTTATGGCACAAATCTAAAC
Found at i:58190454 original size:61 final size:60
Alignment explanation
Indices: 58190389--58190530 Score: 187
Period size: 61 Copynumber: 2.4 Consensus size: 60
58190379 AACTCTAAAC
* * *
58190389 AGGAAATCCTTTGTAGCACAACTCTAGAGAGGAAAGCCTTTGCGATGAGTACTGGATATAA
1 AGGAAATCCTTTGTGGCACAAATCTAGAGAGGAAAGCCTTTG-GACGAGTACTGGATATAA
* * *
58190450 AGG-AATACCTTTGTGGCACAAATCTAGATAGGAAAGCCTTTGTACGAGTACTTGATATAA
1 AGGAAAT-CCTTTGTGGCACAAATCTAGAGAGGAAAGCCTTTGGACGAGTACTGGATATAA
**
58190510 AGGAACGCCTTTGTGGCACAA
1 AGGAAATCCTTTGTGGCACAA
58190531 GGAAAAATCA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
60 35 0.49
61 36 0.51
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (60 bp):
AGGAAATCCTTTGTGGCACAAATCTAGAGAGGAAAGCCTTTGGACGAGTACTGGATATAA
Found at i:58190524 original size:60 final size:61
Alignment explanation
Indices: 58190396--58190530 Score: 191
Period size: 60 Copynumber: 2.2 Consensus size: 61
58190386 AACAGGAAAT
* * * *
58190396 CCTTTGTAGCACAACTCTAGAGAGGAAAGCCTTTGCGATGAGTACTGGATATAAAGGAATA
1 CCTTTGTGGCACAAATCTAGAGAGGAAAGCCTTTGCGACGAGTACTGGATATAAAGGAACA
* * * *
58190457 CCTTTGTGGCACAAATCTAGATAGGAAAGCCTTTG-TACGAGTACTTGATATAAAGGAACG
1 CCTTTGTGGCACAAATCTAGAGAGGAAAGCCTTTGCGACGAGTACTGGATATAAAGGAACA
58190517 CCTTTGTGGCACAA
1 CCTTTGTGGCACAA
58190531 GGAAAAATCA
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
60 34 0.52
61 32 0.48
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (61 bp):
CCTTTGTGGCACAAATCTAGAGAGGAAAGCCTTTGCGACGAGTACTGGATATAAAGGAACA
Found at i:58194246 original size:347 final size:347
Alignment explanation
Indices: 58193611--58194307 Score: 1376
Period size: 347 Copynumber: 2.0 Consensus size: 347
58193601 GGGAAGTCAT
58193611 CTTCTATTCAGGTGTTGGAGGCACAATTAGGACAACTTGCTTCAAATCTGAATACTCGACCACCA
1 CTTCTATTCAGGTGTTGGAGGCACAATTAGGACAACTTGCTTCAAATCTGAATACTCGACCACCA
* *
58193676 GGCGCACTACCTAGTGACACGAAAAATCCCAGTCCTAGTGGGAAAGAACACTGTAAGGCTATCAC
66 GGCACACTACCTAGTGACACGAAAAATCCCAGTCCGAGTGGGAAAGAACACTGTAAGGCTATCAC
58193741 TCTTAGGAGTGGTAAACAAACGGCGAGCCGACTACATACTCTGTTGTAGCACCTCAAGATACCGA
131 TCTTAGGAGTGGTAAACAAACGGCGAGCCGACTACATACTCTGTTGTAGCACCTCAAGATACCGA
58193806 TGAAGTGATCCCTGGTAAGAAGGTTGAATCTGAAGAGCCTATCAATGTACCAGACAAAGAAGTTC
196 TGAAGTGATCCCTGGTAAGAAGGTTGAATCTGAAGAGCCTATCAATGTACCAGACAAAGAAGTTC
58193871 CACAAACTATCACTCATATGCCTCATGTCCAACCCTTGAAACTGTTGACGCAATCAAAGGTGTCG
261 CACAAACTATCACTCATATGCCTCATGTCCAACCCTTGAAACTGTTGACGCAATCAAAGGTGTCG
58193936 GCACAATCAGATGTATCTTTAC
326 GCACAATCAGATGTATCTTTAC
58193958 CTTCTATTCAGGTGTTGGAGGCACAATTAGGACAACTTGCTTCAAATCTGAATACTCGACCACCA
1 CTTCTATTCAGGTGTTGGAGGCACAATTAGGACAACTTGCTTCAAATCTGAATACTCGACCACCA
58194023 GGCACACTACCTAGTGACACGAAAAATCCCAGTCCGAGTGGGAAAGAACACTGTAAGGCTATCAC
66 GGCACACTACCTAGTGACACGAAAAATCCCAGTCCGAGTGGGAAAGAACACTGTAAGGCTATCAC
58194088 TCTTAGGAGTGGTAAACAAACGGCGAGCCGACTACATACTCTGTTGTAGCACCTCAAGATACCGA
131 TCTTAGGAGTGGTAAACAAACGGCGAGCCGACTACATACTCTGTTGTAGCACCTCAAGATACCGA
58194153 TGAAGTGATCCCTGGTAAGAAGGTTGAATCTGAAGAGCCTATCAATGTACCAGACAAAGAAGTTC
196 TGAAGTGATCCCTGGTAAGAAGGTTGAATCTGAAGAGCCTATCAATGTACCAGACAAAGAAGTTC
58194218 CACAAACTATCACTCATATGCCTCATGTCCAACCCTTGAAACTGTTGACGCAATCAAAGGTGTCG
261 CACAAACTATCACTCATATGCCTCATGTCCAACCCTTGAAACTGTTGACGCAATCAAAGGTGTCG
58194283 GCACAATCAGATGTATCTTTAC
326 GCACAATCAGATGTATCTTTAC
58194305 CTT
1 CTT
58194308 TACCTTTCCC
Statistics
Matches: 348, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
347 348 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (347 bp):
CTTCTATTCAGGTGTTGGAGGCACAATTAGGACAACTTGCTTCAAATCTGAATACTCGACCACCA
GGCACACTACCTAGTGACACGAAAAATCCCAGTCCGAGTGGGAAAGAACACTGTAAGGCTATCAC
TCTTAGGAGTGGTAAACAAACGGCGAGCCGACTACATACTCTGTTGTAGCACCTCAAGATACCGA
TGAAGTGATCCCTGGTAAGAAGGTTGAATCTGAAGAGCCTATCAATGTACCAGACAAAGAAGTTC
CACAAACTATCACTCATATGCCTCATGTCCAACCCTTGAAACTGTTGACGCAATCAAAGGTGTCG
GCACAATCAGATGTATCTTTAC
Found at i:58203646 original size:12 final size:12
Alignment explanation
Indices: 58203631--58203660 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
58203621 AGCCACAAGC
58203631 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
58203643 CCGTGTGCTAGG
1 CCGTGTGCCAGG
58203655 CCGTGT
1 CCGTGT
58203661 AACTGCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:58209226 original size:50 final size:53
Alignment explanation
Indices: 58209104--58209246 Score: 148
Period size: 50 Copynumber: 2.7 Consensus size: 53
58209094 GGTGATGAGA
**
58209104 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTACGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC--T-AGACTACGAGAAC
* * * * *
58209160 TCTCATGTAAGGCCATGTCTGGGACATGGCATGGGCA-C-CGA-TATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTAGACTACGAGAAC
* * *
58209210 TCCCATGTAATACCATGTCTAGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
58209247 GTACAGGAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
50 37 0.50
51 2 0.03
55 1 0.01
56 34 0.46
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (53 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTAGACTACGAGAAC
Found at i:58220107 original size:50 final size:50
Alignment explanation
Indices: 58219998--58220195 Score: 211
Period size: 50 Copynumber: 3.9 Consensus size: 50
58219988 ACATTTGGGT
*
58219998 GATGAGA--TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGA
*
58220049 GACTATGAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
** * * *
58220102 GATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* ** * * *
58220152 TATGAGAACTCCCATGTAAGACCATATCTGGGATAAGGCATTGG
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
58220196 AAGTACAGGA
Statistics
Matches: 124, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
50 77 0.62
51 1 0.01
53 4 0.03
54 6 0.05
55 1 0.01
56 35 0.28
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
Found at i:58220498 original size:20 final size:20
Alignment explanation
Indices: 58220460--58220498 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58220450 TAAGCAAGAA
*
58220460 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
58220480 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
58220499 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:58229991 original size:3 final size:3
Alignment explanation
Indices: 58229975--58230017 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
58229965 AGCAATAATG
*
58229975 TTA TTA TCA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
58230018 GTTTTATTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 35 0.95
4 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:58232166 original size:19 final size:18
Alignment explanation
Indices: 58232125--58232167 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
58232115 CGTCTCTTTT
58232125 TGCATTCATTTCATGCATC
1 TGCATTCATTTCATGCA-C
58232144 TGCATTGCATTTCATTGCA-
1 TGCATT-CATTTCA-TGCAC
58232163 TGCAT
1 TGCAT
58232168 CAAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (18 bp):
TGCATTCATTTCATGCAC
Found at i:58234284 original size:1 final size:1
Alignment explanation
Indices: 58234203--58234271 Score: 57
Period size: 1 Copynumber: 69.0 Consensus size: 1
58234193 AGTTCAGACT
* * * ** * ** *
58234203 AAAAAAAAAACAAAAAAACAAAAAAAAAACAAAAAAAATCAAAAATAAAAAATCAAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
58234268 AAAA
1 AAAA
58234272 TCAAAGTCAA
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.06
Consensus pattern (1 bp):
A
Found at i:58234306 original size:7 final size:6
Alignment explanation
Indices: 58234289--58234322 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
58234279 CAAAAATAGG
58234289 AGAAAA AGAAAGA AGAAAAA AGAAAA AGAAAA AG
1 AGAAAA AGAAA-A AG-AAAA AGAAAA AGAAAA AG
58234323 GAGAGGTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 17 0.65
7 6 0.23
8 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:58234310 original size:14 final size:13
Alignment explanation
Indices: 58234291--58234321 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
58234281 AAAATAGGAG
58234291 AAAAAGAAAGAAGA
1 AAAAAGAAA-AAGA
58234305 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
58234318 AAAA
1 AAAA
58234322 GGAGAGGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:58236520 original size:88 final size:88
Alignment explanation
Indices: 58236371--58237578 Score: 1979
Period size: 88 Copynumber: 13.7 Consensus size: 88
58236361 ATGAAGTTGC
* * *
58236371 AGATCCTGCCTTCCTGCATTGACAGCGAAGCAGGTCG-AGGACACAAACCTTGCCTCTCTCGGTT
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGG-CACAAACCTTACCTCTCTCGGTT
* * *
58236435 GTGATGGAGCTGGTTCAAGACAAA
65 GTCATGGAGCTGCTTGAAGACAAA
58236459 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
58236524 TCATGGAGCTGCTTGAAGACAAA
66 TCATGGAGCTGCTTGAAGACAAA
58236547 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
58236612 TCATGGAGCTGCTTGAAGACAAA
66 TCATGGAGCTGCTTGAAGACAAA
58236635 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
58236700 TCATGGAGCTGCTTGAAGACAAA
66 TCATGGAGCTGCTTGAAGACAAA
58236723 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
58236788 TCATGGAGCTGCTTGAAGACAAA
66 TCATGGAGCTGCTTGAAGACAAA
58236811 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
58236876 TCATGGAGCTGCTTGAAGACAAA
66 TCATGGAGCTGCTTGAAGACAAA
58236899 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
58236964 TCATGGAGCTGCTTGAAGACAAA
66 TCATGGAGCTGCTTGAAGACAAA
58236987 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
58237052 TCATGGAGCTGCTTGAAGACAAA
66 TCATGGAGCTGCTTGAAGACAAA
** *
58237075 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAATACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
* * *
58237140 TGATGGAGCTGGTTGAAGACAAG
66 TCATGGAGCTGCTTGAAGACAAA
* * * * *
58237163 AGATCTTGCCTTCATGCATTGACAGCGAAGCACGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
*
58237228 TGATGGAGCTAG-TTGAAGACAAA
66 TCATGGAGCT-GCTTGAAGACAAA
** *
58237251 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAATACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
* *
58237316 TGATGGAGCTGGTTGAAGACAAA
66 TCATGGAGCTGCTTGAAGACAAA
* * * *
58237339 AGATGTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACTTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
* * *
58237404 TGATGGAGTTGGTTGAAGACAAA
66 TCATGGAGCTGCTTGAAGACAAA
* * * ** *
58237427 AGATCTTGCTTTCCTGCATTGACAGCGAAGCAGGTCAAATACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
** * *
58237492 TGGTGGAGCTGGTTGAAAACAAA
66 TCATGGAGCTGCTTGAAGACAAA
* * * * *
58237515 AGATCTTGCCTTCCTGCATTGCCAGTGAAGCAGGTCGAAGACACAAGCCTTACCTCTCTCGGTT
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTT
58237579 CTAGTGGAGT
Statistics
Matches: 1076, Mismatches: 41, Indels: 6
0.96 0.04 0.01
Matches are distributed among these distances:
87 1 0.00
88 1071 1.00
89 4 0.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTACCTCTCTCGGTTG
TCATGGAGCTGCTTGAAGACAAA
Found at i:58237763 original size:88 final size:88
Alignment explanation
Indices: 58237611--58237819 Score: 328
Period size: 88 Copynumber: 2.4 Consensus size: 88
58237601 GCATATTCTG
* * * * *
58237611 TCACCCTATGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAGTACAGTGGAGAA
1 TCACCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAA
*
58237676 GAATATTTAAGCCATTAGTCCTA
66 GAAGATTTAAGCCATTAGTCCTA
*
58237699 TCACCCTAAGCAGTAGTAGAGTAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAA
1 TCACCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAA
*
58237764 GCAGATTTAAGCCATTAGTCCTA
66 GAAGATTTAAGCCATTAGTCCTA
* *
58237787 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGAT
1 TCACCCTAAGCAGTAGTGGAGTAGATCGAAGAT
58237820 TGCAGATTCT
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 110 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (88 bp):
TCACCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAA
GAAGATTTAAGCCATTAGTCCTA
Found at i:58237845 original size:132 final size:132
Alignment explanation
Indices: 58237699--58238166 Score: 622
Period size: 132 Copynumber: 3.6 Consensus size: 132
58237689 ATTAGTCCTA
* * *
58237699 TCACCCTAAGCAGTAGTAGAGTAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAA
1 TCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAA
58237764 GCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
66 GCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
58237829 TG
131 TG
* ** * * *
58237831 TCACCCTATGCAGTAGTGGAATAAATCAAAGATGGTGAATCTTATCTTCCCAGTACAGTGGAGAA
1 TCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAA
** *
58237896 ATAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGATGAAGATTGCAGATTC
66 GCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
58237961 TG
131 TG
* * * *
58237963 TCACCCTAAGAAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAT
1 TCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAA
* * * * *
58238028 GCAGATTTAAGCCATTAGTCC-AT--CCCT-TGCCAGCAATGGAATAGATTGAAGATTGCAGATT
66 GCAGATTTAAGCCATTAGTCCTATCACCCTAAG-CAGTAGTGGAGTAGGTTGAAGATTGCAGATT
58238089 CTG
130 CTG
* * * * * *
58238092 TTC-CCTTAAGTAATAGTGGAGCAGATCAAAGATGGTGAATCATATCTTCCCAAGATAGTAGAGA
1 -TCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGA
* *
58238156 AGTAAATTTAA
65 AGCAGATTTAA
58238167 ACCACGAATC
Statistics
Matches: 297, Mismatches: 37, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
128 1 0.00
129 94 0.32
130 2 0.01
131 2 0.01
132 198 0.67
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (132 bp):
TCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAA
GCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
TG
Found at i:58238254 original size:261 final size:262
Alignment explanation
Indices: 58237699--58238176 Score: 597
Period size: 261 Copynumber: 1.8 Consensus size: 262
58237689 ATTAGTCCTA
*
58237699 TCACCCTAAGCAGTAGTAGAGTAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAA
1 TCACCCTAAGAAGTAGTAGAGTAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAA
* * * *
58237764 GCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
66 GCAGATTTAAGCCATTAGTCCTAT-ACCCTAAGCAGCAATGGAATAGATTGAAGATTGCAGATTC
* * * * *
58237829 TGTCACCCTATGCAGTAGTGGAATAAATCAAAGATGGTGAATCTTATCTTCCCAGTACAGTGGAG
130 TGTCACCCTAAGCAATAGTGGAACAAATCAAAGATGGTGAATCATATCTTCCCAGTACAGTAGAG
* * ** * * * * *
58237894 AAATAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGATGAAGATTGCAGAT
195 AAATAAATTTAAACCACGAATCCTATCACCCTAA-CAATAGTGGAGTAGGATGAAGACTACAGAG
*
58237959 TCTG
259 TCAG
* * * *
58237963 TCACCCTAAGAAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAT
1 TCACCCTAAGAAGTAGTAGAGTAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAA
*
58238028 GCAGATTTAAGCCATTAGTCC-AT-CCCT-TGCCAGCAATGGAATAGATTGAAGATTGCAGATTC
66 GCAGATTTAAGCCATTAGTCCTATACCCTAAG-CAGCAATGGAATAGATTGAAGATTGCAGATTC
* * * * *
58238090 TGTTC-CCTTAAGTAATAGTGGAGCAGATCAAAGATGGTGAATCATATCTTCCCAAG-ATAGTAG
130 TG-TCACCCTAAGCAATAGTGGAACAAATCAAAGATGGTGAATCATATCTTCCC-AGTACAGTAG
*
58238153 AGAAGTAAATTTAAACCACGAATC
193 AGAAATAAATTTAAACCACGAATC
58238177 TCGTTCCCCT
Statistics
Matches: 185, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
260 1 0.01
261 97 0.52
262 4 0.02
263 2 0.01
264 81 0.44
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (262 bp):
TCACCCTAAGAAGTAGTAGAGTAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAA
GCAGATTTAAGCCATTAGTCCTATACCCTAAGCAGCAATGGAATAGATTGAAGATTGCAGATTCT
GTCACCCTAAGCAATAGTGGAACAAATCAAAGATGGTGAATCATATCTTCCCAGTACAGTAGAGA
AATAAATTTAAACCACGAATCCTATCACCCTAACAATAGTGGAGTAGGATGAAGACTACAGAGTC
AG
Found at i:58239612 original size:132 final size:132
Alignment explanation
Indices: 58239434--58239691 Score: 462
Period size: 132 Copynumber: 2.0 Consensus size: 132
58239424 ATTTAGTCCN
*
58239434 GTTGAAGATTGCAGATTCTGTCACCCTATGCAGTAGTGGAACAGATCAAAGATGGTGAATCTTAT
1 GTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAACAGATCAAAGATGGTGAATCTTAT
* * *
58239499 CTTCTCAGTACAGTGGAGAAGCAGATTTAAGCCGTTAGTCCTATCACCCTAAGCAGTAGTGGAGT
66 CTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGT
58239564 AG
131 AG
* *
58239566 GTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTAT
1 GTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAACAGATCAAAGATGGTGAATCTTAT
58239631 CTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTG
66 CTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTG
58239692 NNNNNNNNNN
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 120 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (132 bp):
GTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAACAGATCAAAGATGGTGAATCTTAT
CTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGT
AG
Found at i:58239898 original size:44 final size:45
Alignment explanation
Indices: 58239797--58239891 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 45
58239787 AAGCCGTTAG
* * *
58239797 TCTTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGAT
1 TCTTATCACCCTAAGCAGTAGTGGAGAAGATCGAAGATTGCAGAA
* **
58239842 TC-TGTCACCCTAAGCAGTAGTGGAGAAGATCGAAGA-TGGTGAA
1 TCTTATCACCCTAAGCAGTAGTGGAGAAGATCGAAGATTGCAGAA
58239885 TCTTATC
1 TCTTATC
58239892 TTCCTAATAC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
43 6 0.14
44 34 0.81
45 2 0.05
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (45 bp):
TCTTATCACCCTAAGCAGTAGTGGAGAAGATCGAAGATTGCAGAA
Found at i:58239919 original size:132 final size:129
Alignment explanation
Indices: 58239759--58240027 Score: 317
Period size: 129 Copynumber: 2.1 Consensus size: 129
58239749 NNNNNNNNNN
* * * * *
58239759 CTTCCCAATACAGTGGAGAAGCAGATTTAAGCCGTTAGTCTTATCACCCTAAG-CAGTAGTGGAG
1 CTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTC-CAT--CCCT-AGCCAGCAATGGAA
* * * *
58239823 TAGGTCGAAGATTGCAGATTCTG-TCACCCTAAGCAGTAGTGGAGAAGATCGAAGATGGTGAATC
62 TAGATCGAAGATTGCAGATTCTGTTC-CCCTAAACAGTAGTGGAGAAGATCAAAGATGCTGAATC
58239887 TTAT
126 TTAT
* * * * *
58239891 CTTCCTAATACAGTGGAGAAGTAGATTTAAGTCATTATTCCATCCCTTGCCAGCAATGGAATAGA
1 CTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCATCCCTAGCCAGCAATGGAATAGA
* * * *
58239956 TTGAAGATTGCAGATTCTGTTCCCTTAAATAGTAGTGGAGCAGATCAAAGATGCTGAATCTTAT
66 TCGAAGATTGCAGATTCTGTTCCCCTAAACAGTAGTGGAGAAGATCAAAGATGCTGAATCTTAT
58240020 CTTCCCAA
1 CTTCCCAA
58240028 GATAGTAGAG
Statistics
Matches: 116, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
128 1 0.01
129 76 0.66
130 2 0.02
131 2 0.02
132 35 0.30
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (129 bp):
CTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCATCCCTAGCCAGCAATGGAATAGA
TCGAAGATTGCAGATTCTGTTCCCCTAAACAGTAGTGGAGAAGATCAAAGATGCTGAATCTTAT
Found at i:58243905 original size:58 final size:58
Alignment explanation
Indices: 58243815--58243927 Score: 208
Period size: 58 Copynumber: 1.9 Consensus size: 58
58243805 TGGCGTTCGT
*
58243815 TATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTGTTGATTTTGC
1 TATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTGCTGATTTTGC
*
58243873 TATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGTTTTATTTGCTGATTT
1 TATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTGCTGATTT
58243928 CATTTTTCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.47
Consensus pattern (58 bp):
TATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTGCTGATTTTGC
Found at i:58245818 original size:43 final size:42
Alignment explanation
Indices: 58245756--58245854 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 42
58245746 CGCTATAGAT
* * * * *
58245756 CATGACCTTTAGTGGCGCTTCTACCACAAATGCCTCTAAAGAA
1 CATGACCTTTAGCGACGCTTATACCACAAACGCCACTAAA-AA
*
58245799 CATGACCTTTAGCGACGCTTATACCACAAACGCCACTATAAA
1 CATGACCTTTAGCGACGCTTATACCACAAACGCCACTAAAAA
* *
58245841 GATGACTTTTAGCG
1 CATGACCTTTAGCG
58245855 GCGTTTTTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 14 0.29
43 34 0.71
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
CATGACCTTTAGCGACGCTTATACCACAAACGCCACTAAAAA
Found at i:58252237 original size:20 final size:19
Alignment explanation
Indices: 58252196--58252239 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
58252186 AATTTTAATT
*
58252196 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
* *
58252215 AATAGTAAATAGACAGATAA
1 AATA-TAAATAAACAAATAA
58252235 AATAT
1 AATAT
58252240 TTTTGTGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Done.