Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 224 of 770
Found at i:67019734 original size:13 final size:11
Alignment explanation
Indices: 67019704--67019737 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
67019694 TATATAAAGT
67019704 AAAAGAAAAAA
1 AAAAGAAAAAA
67019715 AAAAGAAAAAA
1 AAAAGAAAAAA
67019726 AGAATAGAAAAA
1 A-AA-AGAAAAA
67019738 GAAAGAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 12 0.57
12 2 0.10
13 7 0.33
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:67019807 original size:21 final size:22
Alignment explanation
Indices: 67019772--67019813 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
67019762 AGAGCAGGGG
*
67019772 AAAGAAAGAAGGAAGGAAAAAA
1 AAAGAAAGAAAGAAGGAAAAAA
67019794 AAAG-AAGAAAGAAGGAAAAA
1 AAAGAAAGAAAGAAGGAAAAA
67019814 GGGAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (22 bp):
AAAGAAAGAAAGAAGGAAAAAA
Found at i:67021883 original size:46 final size:46
Alignment explanation
Indices: 67021831--67022156 Score: 402
Period size: 46 Copynumber: 7.0 Consensus size: 46
67021821 AGTGTGCTCT
67021831 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
67021877 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
67021923 CTGGTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGTCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
67021969 GTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** *
67022015 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
67022061 ATGACA-GAAAATGAATGAGCAAGACCATAGTTGAAAGACACTATGGCAAC
1 CTGATATG-AAATG--T--GTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
67022111 ATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
67022157 ATGACAGAAA
Statistics
Matches: 244, Mismatches: 30, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
45 1 0.00
46 206 0.84
50 36 0.15
51 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:67021953 original size:21 final size:21
Alignment explanation
Indices: 67021883--67021954 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
67021873 CAACCTGATA
67021883 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* *
67021904 TGAAA-GATATCATGGCAACC-TGGT
1 TGAAATG-TGT-A-AG--ACCATGGT
67021928 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
67021950 TGAAA
1 TGAAA
67021955 GATACCATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 5 0.13
23 2 0.05
24 5 0.13
25 10 0.26
26 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.26
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:67022116 original size:96 final size:93
Alignment explanation
Indices: 67021846--67022201 Score: 425
Period size: 92 Copynumber: 3.8 Consensus size: 93
67021836 ATGAAATGTG
* * *
67021846 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG-TGTAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGATGTAAGACCATAGTTGAAAG
* * ** * **
67021910 ATA-TCATGGCAACCTGGTATGAAATGTG
66 ACACT-ATGGCAACATGACATGAAAAGAA
* * * *
67021938 TAAGACCATGGTTGAAAGATACCATGTCAACGTGATATGAAAT-ATGTAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGATGTAAGACCATAGTTGAAAG
* * *
67022002 ATACCATGGCAACGTGACATGAAAAGAA
66 ACACTATGGCAACATGACATGAAAAGAA
* *
67022030 TAAGACCATGGTTGAAAGATAACATGGCAACATGACA-GAAAATGAATGAGCAAGACCATAGTTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATG-AT--GTAAGACCATAGTTG
67022094 AAAGACACTATGGCAACATGACATGAAAAGAA
62 AAAGACACTATGGCAACATGACATGAAAAGAA
67022126 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGAGTAAGACCATAGTTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATG-AT--GTAAGACCATAGTTG
67022190 AAAGACACTATG
62 AAAGACACTATG
67022202 TGTAACACCC
Statistics
Matches: 237, Mismatches: 20, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
91 1 0.00
92 118 0.50
94 2 0.01
96 116 0.49
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (93 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGATGTAAGACCATAGTTGAAAG
ACACTATGGCAACATGACATGAAAAGAA
Found at i:67022952 original size:31 final size:31
Alignment explanation
Indices: 67022908--67022971 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
67022898 CCTTTTCATA
*
67022908 TTTCATATCTCATAACACTGGGCCGAAGCCT
1 TTTCAAATCTCATAACACTGGGCCGAAGCCT
* **
67022939 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATCTCATAACACTGGGCCGAAGCCT
67022970 TT
1 TT
67022972 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (31 bp):
TTTCAAATCTCATAACACTGGGCCGAAGCCT
Found at i:67023213 original size:24 final size:24
Alignment explanation
Indices: 67023162--67023304 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
67023152 GCTTTATCAT
*
67023162 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
67023187 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
67023211 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
67023234 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
67023258 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
67023282 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
67023305 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:67023241 original size:47 final size:48
Alignment explanation
Indices: 67023162--67023303 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
67023152 GCTTTATCAT
* *
67023162 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
67023211 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
67023258 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
67023304 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:67023262 original size:71 final size:72
Alignment explanation
Indices: 67023161--67023304 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
67023151 TGCTTTATCA
*
67023161 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
67023226 GCCCTTT
66 GCCCTTT
* * **
67023233 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
67023296 AGCCCTTT
65 AGCCCTTT
67023304 T
1 T
67023305 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:67023379 original size:20 final size:20
Alignment explanation
Indices: 67023354--67023414 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
67023344 TTATGATTAC
67023354 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
67023374 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
67023394 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
67023414 A
1 A
67023415 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:67023484 original size:25 final size:25
Alignment explanation
Indices: 67023456--67023503 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
67023446 ATACATAAAC
* * *
67023456 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
67023481 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
67023504 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:67024760 original size:27 final size:27
Alignment explanation
Indices: 67024740--67025185 Score: 517
Period size: 27 Copynumber: 16.6 Consensus size: 27
67024730 AGGGTATTTT
*
67024740 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
67024767 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
67024794 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
67024821 GGTAATTCTGTAAATCGA-GGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
67024847 -GATAATTATGTAAATCGGGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * * *
67024874 GGTAATTATGTAAAT-TAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
67024900 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
67024927 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
67024954 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
67024981 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
67025008 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
67025035 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
67025062 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
67025089 GGTAATTCTGTAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
67025116 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
67025143 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
67025170 GGTAATTCTGTAAATC
1 AGTAATTCTGTAAATC
67025186 AGGAGTACTT
Statistics
Matches: 367, Mismatches: 42, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
25 1 0.00
26 45 0.12
27 318 0.87
28 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:67028351 original size:22 final size:22
Alignment explanation
Indices: 67028309--67028351 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
67028299 CACTAAGTCA
* *
67028309 ACAGAACGGCTCAACGTCGTAG
1 ACAGAACGGCTAAACGCCGTAG
*
67028331 ACAGAACGGCTAAAGGCCGTA
1 ACAGAACGGCTAAACGCCGTA
67028352 AATATCGCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.26, G:0.28, T:0.12
Consensus pattern (22 bp):
ACAGAACGGCTAAACGCCGTAG
Found at i:67028621 original size:26 final size:25
Alignment explanation
Indices: 67028587--67028661 Score: 60
Period size: 27 Copynumber: 2.8 Consensus size: 25
67028577 GCATAATCGC
*
67028587 CATTCTACCATACAGGGTATTACGGT
1 CATTTTACCATA-AGGGTATTACGGT
** * *
67028613 TGTTTTACCCTATAGGGGCATTACGGT
1 CATTTTA-CC-ATAAGGGTATTACGGT
67028640 CATTTTACACTATAAGGGTATT
1 CATTTTAC-C-ATAAGGGTATT
67028662 TCAATAATTT
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
26 5 0.14
27 29 0.78
28 3 0.08
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (25 bp):
CATTTTACCATAAGGGTATTACGGT
Found at i:67028708 original size:26 final size:27
Alignment explanation
Indices: 67028655--67028711 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
67028645 TACACTATAA
67028655 GGGTATTTCAATAATTTTAAAAACCAG
1 GGGTATTTCAATAATTTTAAAAACCAG
* *
67028682 GGGTATTTCGATAATTTTACAAA-CAG
1 GGGTATTTCAATAATTTTAAAAACCAG
67028708 GGGT
1 GGGT
67028712 CTTAACAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (27 bp):
GGGTATTTCAATAATTTTAAAAACCAG
Found at i:67028959 original size:19 final size:19
Alignment explanation
Indices: 67028926--67028963 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
67028916 ATGTGGGGCC
67028926 CACGAGCCCATTAGGCCCA
1 CACGAGCCCATTAGGCCCA
67028945 CACG-GCCCATCTAGGCCCA
1 CACGAGCCCAT-TAGGCCCA
67028964 ACGTGGCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.24, C:0.45, G:0.21, T:0.11
Consensus pattern (19 bp):
CACGAGCCCATTAGGCCCA
Found at i:67040635 original size:76 final size:75
Alignment explanation
Indices: 67040530--67040680 Score: 284
Period size: 76 Copynumber: 2.0 Consensus size: 75
67040520 CCTCAGATTC
*
67040530 GTGGTCCCGAAACATCGTTCCGACTAGGGTCTAAATCGGGCTGTTACAACCTTGCCACTCCACCA
1 GTGGTCCCGAAACATCGTTCCGACTAGGGTCTAAATCGAGCTGTTACAACCTTGCCACTCCACCA
67040595 CAGGCTCTTT
66 CAGGCTCTTT
67040605 GTGGTCCCGAAACCATCGTTCCGACTAGGGTCTAAATCGAGCTGTTACAACCTTGCCACTCCACC
1 GTGGTCCCGAAA-CATCGTTCCGACTAGGGTCTAAATCGAGCTGTTACAACCTTGCCACTCCACC
67040670 ACAGGCTCTTT
65 ACAGGCTCTTT
67040681 CTGTGCCACC
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 12 0.16
76 62 0.84
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (75 bp):
GTGGTCCCGAAACATCGTTCCGACTAGGGTCTAAATCGAGCTGTTACAACCTTGCCACTCCACCA
CAGGCTCTTT
Found at i:67042712 original size:27 final size:27
Alignment explanation
Indices: 67042659--67042742 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
67042649 ATCATCTTTC
*
67042659 TACCATACAGGGGTATTATGGTCATTT
1 TACCCTACAGGGGTATTATGGTCATTT
*
67042686 TACCCTACAGGGGTATTACT-GTTATTT
1 TACCCTACAGGGGTATTA-TGGTCATTT
** * *
67042713 TAGACTACAAGGGTATT-TCGGTAATTT
1 TACCCTACAGGGGTATTAT-GGTCATTT
67042740 TAC
1 TAC
67042743 AAACCAGGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
25 1 0.02
27 45 0.96
28 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.38
Consensus pattern (27 bp):
TACCCTACAGGGGTATTATGGTCATTT
Found at i:67043027 original size:19 final size:19
Alignment explanation
Indices: 67042994--67043041 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
67042984 GTGTGGGGCC
67042994 CACGAGCCCATTAGGCCC-A
1 CACG-GCCCATTAGGCCCAA
67043013 CACGGCCCATCTAGGCCCAA
1 CACGGCCCAT-TAGGCCCAA
*
67043033 CATGGCCCA
1 CACGGCCCA
67043042 GAACTACCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 6 0.23
19 11 0.42
20 9 0.35
ACGTcount: A:0.25, C:0.44, G:0.21, T:0.10
Consensus pattern (19 bp):
CACGGCCCATTAGGCCCAA
Found at i:67043938 original size:19 final size:19
Alignment explanation
Indices: 67043914--67043951 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
67043904 TCCTCTCAGG
67043914 ACCCTTAACCACTTGAGCA
1 ACCCTTAACCACTTGAGCA
67043933 ACCCTTAACCACTTGAGCA
1 ACCCTTAACCACTTGAGCA
67043952 GACATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.37, G:0.11, T:0.21
Consensus pattern (19 bp):
ACCCTTAACCACTTGAGCA
Found at i:67044363 original size:37 final size:36
Alignment explanation
Indices: 67044233--67044398 Score: 148
Period size: 37 Copynumber: 4.7 Consensus size: 36
67044223 GTTGTTATTG
* *
67044233 GTTGGATTAGATCTTATGAGCGATTGGCATGTTTC-
1 GTTGGATTAGCTCTTATGAGCGTTTGGCATGTTTCA
* * *
67044268 GATTGGATTAGATCTTATGAGCATTTAG--TGTGTT-A
1 G-TTGGATTAGCTCTTATGAGCGTTTGGCATGT-TTCA
* *
67044303 -TTGG--TAGCTTTTATGAGCATTTGGCATGTTATCA
1 GTTGGATTAGCTCTTATGAGCGTTTGGCATGTT-TCA
* **
67044337 GTTGGATTAGCTCTTATGAACGTTTGGCATGTTATTG
1 GTTGGATTAGCTCTTATGAGCGTTTGGCATGTT-TCA
*
67044374 GGTGGATTAGCTCTTATGAGCGTTT
1 GTTGGATTAGCTCTTATGAGCGTTT
67044399 AATGTGTTAT
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
31 17 0.16
32 1 0.01
33 8 0.07
34 4 0.04
35 7 0.06
36 23 0.21
37 48 0.44
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.42
Consensus pattern (36 bp):
GTTGGATTAGCTCTTATGAGCGTTTGGCATGTTTCA
Found at i:67044370 original size:68 final size:67
Alignment explanation
Indices: 67044246--67044374 Score: 163
Period size: 68 Copynumber: 1.9 Consensus size: 67
67044236 GGATTAGATC
* **
67044246 TTATGAGCGATTGGCATGTTTCGATTGGATTAGATCTTATGAGCATTTAGTGTGTTATTGGTAGC
1 TTATGAGCGATTGGCATGTTTCGATTGGATTAGATCTTATGAACATTTAGCATGTTATTGGTAGC
67044311 TT
66 TT
* * *
67044313 TTATGAGC-ATTTGGCATGTTATC-AGTTGGATTAGCTCTTATGAACGTTTGGCATGTTATTGG
1 TTATGAGCGA-TTGGCATGTT-TCGA-TTGGATTAGATCTTATGAACATTTAGCATGTTATTGG
67044375 GTGGATTAGC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
66 1 0.02
67 19 0.36
68 33 0.62
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.43
Consensus pattern (67 bp):
TTATGAGCGATTGGCATGTTTCGATTGGATTAGATCTTATGAACATTTAGCATGTTATTGGTAGC
TT
Found at i:67044407 original size:37 final size:37
Alignment explanation
Indices: 67044307--67044453 Score: 145
Period size: 37 Copynumber: 4.0 Consensus size: 37
67044297 GTGTTATTGG
* * ** ** *
67044307 TAGCTTTTATGAGCATTTGGCATGTTATCAGTTGGAT
1 TAGCTCTTATGAGCGTTTAACATGTTATTGGGTGGAT
* **
67044344 TAGCTCTTATGAACGTTTGGCATGTTATTGGGTGGAT
1 TAGCTCTTATGAGCGTTTAACATGTTATTGGGTGGAT
**
67044381 TAGCTCTTATGAGCGTTTAATGTGTTATTGGGTGGAT
1 TAGCTCTTATGAGCGTTTAACATGTTATTGGGTGGAT
* *
67044418 TAGCTCTTATGAGCGATTT-TCATGTT-TTGGCTGGAT
1 TAGCTCTTATGAGCG-TTTAACATGTTATTGGGTGGAT
67044454 GACTTGTGTA
Statistics
Matches: 94, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
36 9 0.10
37 82 0.87
38 3 0.03
ACGTcount: A:0.19, C:0.11, G:0.27, T:0.43
Consensus pattern (37 bp):
TAGCTCTTATGAGCGTTTAACATGTTATTGGGTGGAT
Found at i:67046018 original size:42 final size:42
Alignment explanation
Indices: 67045954--67046037 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
67045944 TTGGACCAAC
*
67045954 CCTTGTGGTAGGCATTATCATATGATAAGTCAAGAAATTCTA
1 CCTTATGGTAGGCATTATCATATGATAAGTCAAGAAATTCTA
67045996 CCTTATGGTAGGCATTATCATATGATAAGTCAAGAAATTCTA
1 CCTTATGGTAGGCATTATCATATGATAAGTCAAGAAATTCTA
67046038 TCTTCAAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (42 bp):
CCTTATGGTAGGCATTATCATATGATAAGTCAAGAAATTCTA
Found at i:67049019 original size:13 final size:13
Alignment explanation
Indices: 67048994--67049027 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
67048984 AAGATATAGT
67048994 ACACAGAATCAGAA
1 ACACAG-ATCAGAA
*
67049008 ATACAGATCAGAA
1 ACACAGATCAGAA
67049021 ACACAGA
1 ACACAGA
67049028 ATTCCTACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.56, C:0.21, G:0.15, T:0.09
Consensus pattern (13 bp):
ACACAGATCAGAA
Found at i:67063426 original size:28 final size:29
Alignment explanation
Indices: 67063359--67063459 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
67063349 ATAGTGAATC
*
67063359 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
67063388 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
67063416 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
67063446 CGCACACTTAGTGC
1 CGCACACTTAGTGC
67063460 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:67065977 original size:21 final size:21
Alignment explanation
Indices: 67065953--67065995 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
67065943 GTCTAAAGTT
67065953 GTTGTTTACACTAACCATTCC
1 GTTGTTTACACTAACCATTCC
67065974 GTTGTTTACACTAACCATTCC
1 GTTGTTTACACTAACCATTCC
67065995 G
1 G
67065996 CCCTTCGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (21 bp):
GTTGTTTACACTAACCATTCC
Found at i:67068566 original size:40 final size:40
Alignment explanation
Indices: 67068439--67068568 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
67068429 ATGCTGGAAA
* *
67068439 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * * *
67068479 CTACATCTGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
67068519 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
67068559 TTATATCCGG
1 TTATATCCGG
67068569 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:67084437 original size:30 final size:30
Alignment explanation
Indices: 67084402--67084462 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
67084392 TCCTTAACTC
67084402 AAACTTTTACAAAATTACAATTTTGCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
* * * * *
67084432 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
67084462 A
1 A
67084463 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (30 bp):
AAACTTTTACAAAATTACAATTTTGCCCCT
Found at i:67090691 original size:2 final size:2
Alignment explanation
Indices: 67090684--67090715 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
67090674 TTGTTCTTAA
*
67090684 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67090716 TAGTAATTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:67093405 original size:19 final size:20
Alignment explanation
Indices: 67093368--67093406 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
67093358 GAGACAGGTC
67093368 TGTGTCTCAGCCATGTGTGTG
1 TGTGTCTCAGCCA-GTGTGTG
67093389 TGTGTCTCAGCCA-TGTGT
1 TGTGTCTCAGCCAGTGTGT
67093407 CATACATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
21 13 0.72
ACGTcount: A:0.10, C:0.21, G:0.31, T:0.38
Consensus pattern (20 bp):
TGTGTCTCAGCCAGTGTGTG
Found at i:67101192 original size:23 final size:23
Alignment explanation
Indices: 67101152--67101195 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
67101142 ACTACTATTT
67101152 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* * *
67101175 TCTAAGTAATATACTAATAAA
1 TCTAAATAAAATAATAATAAA
67101196 ACAAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:67103440 original size:17 final size:16
Alignment explanation
Indices: 67103418--67103479 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 16
67103408 TTGAATGTTA
67103418 TGTGATTATATGAGTAT
1 TGTGA-TATATGAGTAT
** *
67103435 TGTGATATATGCTTAAA
1 TGTGATATATGAGT-AT
*
67103452 TGTGATTATATAAGTAT
1 TGTGA-TATATGAGTAT
67103469 TGTGATATATG
1 TGTGATATATG
67103480 TTTTAAAGTG
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
16 12 0.34
17 17 0.49
18 6 0.17
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (16 bp):
TGTGATATATGAGTAT
Found at i:67103460 original size:34 final size:36
Alignment explanation
Indices: 67103389--67103479 Score: 132
Period size: 34 Copynumber: 2.5 Consensus size: 36
67103379 AACATGTTTT
67103389 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAA---TATGTGATTATA
67103428 TGAGTATTGTGATATATGCTT-AA-ATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATATGTGATTATA
*
67103462 TAAGTATTGTGATATATG
1 TGAGTATTGTGATATATG
67103480 TTTTAAAGTG
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
34 28 0.55
38 2 0.04
39 21 0.41
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (36 bp):
TGAGTATTGTGATATATGCTTGAATATGTGATTATA
Found at i:67105256 original size:46 final size:46
Alignment explanation
Indices: 67105206--67105378 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
67105196 TTGAGCATCT
67105206 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * *
67105252 GAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* *
67105299 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* *
67105345 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
67105379 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:67105359 original size:93 final size:93
Alignment explanation
Indices: 67105200--67105371 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
67105190 GGATGGTTGA
* * *
67105200 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
67105265 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
67105293 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
67105358 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
67105372 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:67111118 original size:28 final size:28
Alignment explanation
Indices: 67111078--67111163 Score: 118
Period size: 28 Copynumber: 3.1 Consensus size: 28
67111068 AAGGACTACC
* *
67111078 TCATAGAGAACTCTTAAAGAAATTATGT
1 TCATAGAGAACTCTAAAAGAAATGATGT
* *
67111106 TCATGGAGAACTCTGAAAGAAATGATGT
1 TCATAGAGAACTCTAAAAGAAATGATGT
* *
67111134 TTATAGTGAACTCTAAAAGAAATGATGT
1 TCATAGAGAACTCTAAAAGAAATGATGT
67111162 TC
1 TC
67111164 TTGGTGAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (28 bp):
TCATAGAGAACTCTAAAAGAAATGATGT
Found at i:67111191 original size:27 final size:27
Alignment explanation
Indices: 67111139--67111256 Score: 87
Period size: 27 Copynumber: 4.3 Consensus size: 27
67111129 GATGTTTATA
* *
67111139 GTGAACTCTAAAAGAAAT-GATGTTCTTG
1 GTGAACTCT-GAAGAAATGGA-ATTCTTG
* *
67111167 GTGAAATTTGAAGAAATGGAATTCTTG
1 GTGAACTCTGAAGAAATGGAATTCTTG
* * *
67111194 AG-GAACCCTGAAGAAATGAAATTCTTA
1 -GTGAACTCTGAAGAAATGGAATTCTTG
* * *
67111221 ATGAACTCTAAAGAAATTGAATTCTTG
1 GTGAACTCTGAAGAAATGGAATTCTTG
**
67111248 ACGAACTCT
1 GTGAACTCT
67111257 AAGTGAAAGC
Statistics
Matches: 71, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
27 61 0.86
28 10 0.14
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (27 bp):
GTGAACTCTGAAGAAATGGAATTCTTG
Found at i:67111212 original size:54 final size:54
Alignment explanation
Indices: 67111150--67111253 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
67111140 TGAACTCTAA
** ** * * *
67111150 AAGAAATGATGTTCTTGGTGAAATTTGAAGAAATGGAATTCTTGAGGAACCCTG
1 AAGAAATGAAATTCTTAATGAAATCTAAAGAAATGGAATTCTTGACGAACCCTG
* *
67111204 AAGAAATGAAATTCTTAATGAACTCTAAAGAAATTGAATTCTTGACGAAC
1 AAGAAATGAAATTCTTAATGAAATCTAAAGAAATGGAATTCTTGACGAAC
67111254 TCTAAGTGAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (54 bp):
AAGAAATGAAATTCTTAATGAAATCTAAAGAAATGGAATTCTTGACGAACCCTG
Found at i:67111257 original size:27 final size:27
Alignment explanation
Indices: 67111177--67111258 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
67111167 GTGAAATTTG
* * * *
67111177 AAGAAATGGAATTCTTGAGGAACCCTG
1 AAGAAATTGAATTCTTGACGAACTCTA
* *
67111204 AAGAAA-TGAAATTCTTAATGAACTCTA
1 AAGAAATTG-AATTCTTGACGAACTCTA
67111231 AAGAAATTGAATTCTTGACGAACTCTA
1 AAGAAATTGAATTCTTGACGAACTCTA
67111258 A
1 A
67111259 GTGAAAGCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.02
27 43 0.93
28 2 0.04
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (27 bp):
AAGAAATTGAATTCTTGACGAACTCTA
Found at i:67121695 original size:68 final size:68
Alignment explanation
Indices: 67121548--67121702 Score: 156
Period size: 68 Copynumber: 2.2 Consensus size: 68
67121538 AGCCGATTTG
* * * * *
67121548 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
67121613 TATC
65 TATA
* *
67121617 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
67121679 ATATAGTA
62 ATATA-TA
67121687 TCTCGTAGCT-TCTTGT
1 TCTCGTAGCTCTCTTGT
67121703 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
67 6 0.08
68 28 0.38
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:67123492 original size:44 final size:45
Alignment explanation
Indices: 67123443--67123610 Score: 157
Period size: 44 Copynumber: 3.7 Consensus size: 45
67123433 CTATATGCGT
67123443 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TA-
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC-CAACTCTATAG
** * * *
67123487 GCTGATGCATGTCCCAGACACATCTTACACTAGCTATCTCTGTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTAT--AG
* * *
67123534 GCCT-ATGCATGTCCCAGACATGTCTTGCTCT-GTC-ACTCATAATATG
1 G-CTGATGCATGTCCCAGACATGTCTTACACTAGCCAACTC-T-ATA-G
*
67123580 GCTGAAGCATGTCCCAGACATGTCTTACACT
1 GCTGATGCATGTCCCAGACATGTCTTACACT
67123611 TGTAACACCC
Statistics
Matches: 100, Mismatches: 15, Indels: 16
0.76 0.11 0.12
Matches are distributed among these distances:
43 5 0.05
44 33 0.33
45 6 0.06
46 29 0.29
47 25 0.25
48 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTATAG
Found at i:67125830 original size:40 final size:40
Alignment explanation
Indices: 67125782--67125965 Score: 273
Period size: 40 Copynumber: 4.6 Consensus size: 40
67125772 CTACTCACTC
* *
67125782 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
67125822 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
67125862 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
67125902 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-A
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACA
67125943 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
67125966 TTATCATCCA
Statistics
Matches: 132, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
40 104 0.79
41 24 0.18
42 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:67139035 original size:40 final size:39
Alignment explanation
Indices: 67138962--67139102 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 39
67138952 TCGCTCAAAA
* * ** *
67138962 GCCTTCGGGACATAGCCCGGTTATAATAGCTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATGGTAACTCGCAC-AAT
* *
67139002 GCCTTCGGGACTTAACCCGGATTTGGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATGGTAACTCGCAC-AAT
* * * *
67139042 GCCTTC-GGACCTTAGTCCGGATATGGTCACTTAGCACAAA
1 GCCTTCGGGA-CTTAGCCCGGATATGGTAAC-TCGCACAAT
*
67139082 GCCTTTGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
67139103 CATCATTCGA
Statistics
Matches: 82, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.04
40 71 0.87
41 8 0.10
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAT
Found at i:67142178 original size:25 final size:25
Alignment explanation
Indices: 67142134--67142210 Score: 111
Period size: 25 Copynumber: 3.1 Consensus size: 25
67142124 GCCTAGCCTC
*
67142134 TTTTAATAAA-TGGGGCAAAGCCCT
1 TTTTGATAAACTGGGGCAAAGCCCT
67142158 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTGATAAACTGGGGCAAAGCCCT
* * *
67142183 TTTCGGTAAACTGGGGCATAGCCCT
1 TTTTGATAAACTGGGGCAAAGCCCT
67142208 TTT
1 TTT
67142211 AGCACTTCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
24 9 0.19
25 39 0.81
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
TTTTGATAAACTGGGGCAAAGCCCT
Found at i:67143055 original size:27 final size:26
Alignment explanation
Indices: 67143019--67143074 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
67143009 GGGCATATTC
* *
67143019 GTCATTTTACCATAAAGGGGTATTACG
1 GTCACTTTACCATAAAGGGCT-TTACG
* *
67143046 GTCACTTTACCCTACAGGGCTTTACG
1 GTCACTTTACCATAAAGGGCTTTACG
67143072 GTC
1 GTC
67143075 TTTTTACCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (26 bp):
GTCACTTTACCATAAAGGGCTTTACG
Found at i:67143080 original size:26 final size:27
Alignment explanation
Indices: 67143007--67143082 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 27
67142997 TACGGAACAT
67143007 AAGGGCATATT-C-GTCATTTTACCATA
1 AAGGGC-TATTACGGTCATTTTACCATA
* * *
67143033 AAGGGGTATTACGGTCACTTTACCCTA
1 AAGGGCTATTACGGTCATTTTACCATA
* *
67143060 CAGGGCT-TTACGGTCTTTTTACC
1 AAGGGCTATTACGGTCATTTTACC
67143083 TATTAGGGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 4 0.10
26 20 0.49
27 17 0.41
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
AAGGGCTATTACGGTCATTTTACCATA
Found at i:67143240 original size:27 final size:27
Alignment explanation
Indices: 67143113--67143321 Score: 131
Period size: 27 Copynumber: 7.7 Consensus size: 27
67143103 TTTCATCCTA
* * * *
67143113 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
** ** *
67143140 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
67143167 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-T
* **
67143196 CAAGGGTATTTCT-ATAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
67143223 CAAGGGTATTTTGGTAATTTTACAAATT
1 CAAGGGTATTTTGGTAATTTTACAAA-T
* * *
67143251 GAA-GGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
67143276 CCAGTGGTATATTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAT
*
67143303 CTAGGGGTATTTTGGTAAT
1 C-AAGGGTATTTTGGTAAT
67143322 CCTACCCTAT
Statistics
Matches: 144, Mismatches: 30, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 108 0.75
28 18 0.12
29 16 0.11
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:67143391 original size:27 final size:27
Alignment explanation
Indices: 67143359--67143445 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
67143349 TTCACAATTA
67143359 AGGGTAAAAC-GATAATTTTGTAAATCG
1 AGGGTAAAACAG-TAATTTTGTAAATCG
* *
67143386 AGGGTAAAATAGTAATTTTGTAAATCA
1 AGGGTAAAACAGTAATTTTGTAAATCG
* *
67143413 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
67143440 AGGGTA
1 AGGGTA
67143446 CTTTGGTAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.29
Consensus pattern (27 bp):
AGGGTAAAACAGTAATTTTGTAAATCG
Found at i:67149942 original size:20 final size:20
Alignment explanation
Indices: 67149899--67149940 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
67149889 CAGTAAAATA
*
67149899 TTTTCTAGAATATTATTTAC
1 TTTTCTAGAATATGATTTAC
67149919 TTTTCTAGAA-ATGATTTA-
1 TTTTCTAGAATATGATTTAC
67149937 TTTT
1 TTTT
67149941 TTTGGTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 7 0.33
20 10 0.48
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTCTAGAATATGATTTAC
Found at i:67150294 original size:36 final size:37
Alignment explanation
Indices: 67150254--67150329 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
67150244 AATTGTGTTA
67150254 TAAAAAAAT-AAAAACAAGGATTGAATAATTATAAAT
1 TAAAAAAATAAAAAACAAGGATTGAATAATTATAAAT
67150290 TAAAAAAATAAAAAACAAGGATTGAATAATTATAAAT
1 TAAAAAAATAAAAAACAAGGATTGAATAATTATAAAT
67150327 TAA
1 TAA
67150330 CTTCCAAACC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
36 9 0.23
37 30 0.77
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.25
Consensus pattern (37 bp):
TAAAAAAATAAAAAACAAGGATTGAATAATTATAAAT
Found at i:67156739 original size:40 final size:40
Alignment explanation
Indices: 67156680--67156887 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
67156670 CAATTGAATG
* * * *
67156680 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
67156720 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
67156760 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
67156800 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
67156840 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
67156880 ATATCCGG
1 ATATCCGG
67156888 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:67156818 original size:80 final size:80
Alignment explanation
Indices: 67156681--67156887 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
67156671 AATTGAATGA
* * ** * * *
67156681 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
67156746 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
67156759 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
67156824 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
67156841 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
67156888 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:67164747 original size:40 final size:40
Alignment explanation
Indices: 67164688--67164895 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
67164678 CAATTGAATG
* * * *
67164688 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
67164728 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
67164768 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
67164808 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
67164848 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
67164888 ATATCCGG
1 ATATCCGG
67164896 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:67164826 original size:80 final size:80
Alignment explanation
Indices: 67164689--67164895 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
67164679 AATTGAATGA
* * ** * * *
67164689 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
67164754 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
67164767 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
67164832 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
67164849 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
67164896 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:67166378 original size:24 final size:24
Alignment explanation
Indices: 67166327--67166491 Score: 257
Period size: 23 Copynumber: 7.0 Consensus size: 24
67166317 GCTTTATCAT
*
67166327 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
67166352 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
67166376 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
67166399 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
67166423 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
67166446 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
67166469 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
67166492 GCACTTCCTC
Statistics
Matches: 132, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
23 68 0.52
24 52 0.39
25 12 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:67166402 original size:47 final size:47
Alignment explanation
Indices: 67166348--67166490 Score: 261
Period size: 47 Copynumber: 3.1 Consensus size: 47
67166338 CCTAGCCTCT
*
67166348 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
67166395 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
67166442 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
67166488 TTT
1 TTT
67166491 TGCACTTCCT
Statistics
Matches: 93, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
46 25 0.27
47 68 0.73
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:67166563 original size:9 final size:9
Alignment explanation
Indices: 67166549--67166605 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
67166539 ATCTCATGTG
67166549 CATATCATA
1 CATATCATA
*
67166558 CATATCATGTG
1 CATATCA--TA
67166569 CATATCATA
1 CATATCATA
* *
67166578 CATGTCATGTG
1 CATATCA--TA
67166589 CATATCATA
1 CATATCATA
67166598 CATATCAT
1 CATATCAT
67166606 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:67166565 original size:20 final size:20
Alignment explanation
Indices: 67166537--67166607 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
67166527 GCATTTATGA
*
67166537 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
67166557 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
67166577 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
67166597 ACATATCATGT
1 ACATATCATGT
67166608 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:67166572 original size:11 final size:11
Alignment explanation
Indices: 67166542--67166596 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
67166532 TATGAACATC
67166542 TCATGTGCATA
1 TCATGTGCATA
*
67166553 TCA--TACATA
1 TCATGTGCATA
67166562 TCATGTGCATA
1 TCATGTGCATA
* *
67166573 TCA--TACATG
1 TCATGTGCATA
67166582 TCATGTGCATA
1 TCATGTGCATA
67166593 TCAT
1 TCAT
67166597 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:67166672 original size:25 final size:25
Alignment explanation
Indices: 67166644--67166691 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
67166634 ATATATAAAC
* *
67166644 CCTAGGGGTATAATGGTCATTTTGA
1 CCTAGGGGCAAAATGGTCATTTTGA
67166669 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
67166692 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTGA
Found at i:67173408 original size:29 final size:29
Alignment explanation
Indices: 67173346--67173448 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
67173336 GTGACGAGAT
* * *
67173346 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
67173375 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * **
67173404 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
67173433 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
67173449 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 3 0.05
29 56 0.95
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:67179123 original size:29 final size:29
Alignment explanation
Indices: 67179032--67179162 Score: 122
Period size: 29 Copynumber: 4.6 Consensus size: 29
67179022 TACTCGATTT
** * *
67179032 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
67179061 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
67179090 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
67179119 TGCACACTTAGTG-CATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
67179147 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
67179163 ATCTCGTCAC
Statistics
Matches: 83, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
28 28 0.34
29 55 0.66
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:67179144 original size:28 final size:28
Alignment explanation
Indices: 67179090--67179160 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
67179080 CCTTCGAGCT
67179090 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTG-CATATATTTCCAGCA
* *
67179119 TGCACACTTAGTGCATATTTTTCCAGCA
1 CGCACACTTAGTGCATATATTTCCAGCA
67179147 CGCACACTTAGTGC
1 CGCACACTTAGTGC
67179161 CAATCTCGTC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 27 0.69
29 12 0.31
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCATATATTTCCAGCA
Found at i:67187284 original size:28 final size:28
Alignment explanation
Indices: 67187219--67187319 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
67187209 ATAGTGAATC
*
67187219 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
67187248 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
67187276 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
67187306 CGCACACTTAGTGC
1 CGCACACTTAGTGC
67187320 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:67189997 original size:21 final size:21
Alignment explanation
Indices: 67189973--67190019 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
67189963 CCACCCACCT
67189973 AGAGGTGTTCAGCAGCCACTG
1 AGAGGTGTTCAGCAGCCACTG
67189994 AGAGGTGTTCAGCAGCCACTG
1 AGAGGTGTTCAGCAGCCACTG
67190015 AGAGG
1 AGAGG
67190020 CCATGGTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.36, T:0.17
Consensus pattern (21 bp):
AGAGGTGTTCAGCAGCCACTG
Found at i:67193579 original size:30 final size:31
Alignment explanation
Indices: 67193531--67193588 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
67193521 TTTCCGAGCC
67193531 TAGGGGCAAAATCATAATTCTG-CAAAGGTT
1 TAGGGGCAAAATCATAATTCTGTCAAAGGTT
** *
67193561 TAGGGGCAAAATTGTAATTTTGTCAAAG
1 TAGGGGCAAAATCATAATTCTGTCAAAG
67193589 TTTGAGTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.29
Consensus pattern (31 bp):
TAGGGGCAAAATCATAATTCTGTCAAAGGTT
Found at i:67194193 original size:44 final size:44
Alignment explanation
Indices: 67194128--67194212 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
67194118 TTGATGTCTC
* *
67194128 AAAGTCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACAGA
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACAGA
* * *
67194172 AAAGTCCATGTTTATAACATGGCATTTAAGGAGGAATTGAC
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGAC
67194213 GGTTAAGGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.26
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACAGA
Found at i:67194413 original size:47 final size:47
Alignment explanation
Indices: 67194351--67194472 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
67194341 GCATTGGCAC
67194351 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
67194398 TCAGACAAGAATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* * *
67194445 TAAGATAAGGACATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
67194473 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:67196016 original size:4 final size:4
Alignment explanation
Indices: 67195994--67196046 Score: 54
Period size: 4 Copynumber: 13.0 Consensus size: 4
67195984 TTTTCTTGCA
* * *
67195994 ATTT AATTT AATT -TTT ATTT ATTT ATTT ATTT TTATT ATTT ATTA ATTT
1 ATTT -ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT-TT ATTT ATTT ATTT
67196043 ATTT
1 ATTT
67196047 TTTTCCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
3 2 0.05
4 31 0.77
5 7 0.17
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:67196032 original size:17 final size:18
Alignment explanation
Indices: 67195994--67196042 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
67195984 TTTTCTTGCA
67195994 ATTTAATTTAATTTTTATTT
1 ATTT-ATTT-ATTTTTATTT
67196014 ATTTATTTATTTTTA-TT
1 ATTTATTTATTTTTATTT
*
67196031 ATTTATTAATTT
1 ATTTATTTATTT
67196043 ATTTTTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 13 0.46
18 7 0.25
19 4 0.14
20 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTATTTATTTTTATTT
Found at i:67196034 original size:21 final size:21
Alignment explanation
Indices: 67195996--67196048 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
67195986 TTCTTGCAAT
*
67195996 TTAATTTA-ATTT-TTATTTA
1 TTAATTTATTTTTATTATTTA
*
67196015 TTTATTTATTTTTATTATTTA
1 TTAATTTATTTTTATTATTTA
67196036 TTAATTTATTTTT
1 TTAATTTATTTTT
67196049 TTCCTTCTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 7 0.24
20 3 0.10
21 19 0.66
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (21 bp):
TTAATTTATTTTTATTATTTA
Found at i:67196035 original size:25 final size:24
Alignment explanation
Indices: 67195994--67196050 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
67195984 TTTTCTTGCA
* *
67195994 ATTTAATTTAATTTTTATTTATTT
1 ATTTATTTTAATTTTTATTAATTT
*
67196018 ATTTATTTTTATTATTTATTAATTT
1 ATTTATTTTAATT-TTTATTAATTT
67196043 ATTT-TTTT
1 ATTTATTTT
67196051 CCTTCTCTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (24 bp):
ATTTATTTTAATTTTTATTAATTT
Found at i:67206110 original size:31 final size:30
Alignment explanation
Indices: 67206075--67206177 Score: 113
Period size: 28 Copynumber: 3.5 Consensus size: 30
67206065 ATAGTGAATC
*
67206075 CGCACACTTAGTGCTATATATATTTTCAGCT
1 CGCACACTTAGTGCTATACA-ATTTTCAGCT
*
67206106 CGCACACTTAGTGCTATAGAA---TCAAGCT
1 CGCACACTTAGTGCTATACAATTTTC-AGCT
* * * *
67206134 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATACAATTTTCAGCT
67206164 CGCACACTTAGTGC
1 CGCACACTTAGTGC
67206178 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
27 2 0.03
28 23 0.37
30 17 0.27
31 20 0.32
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (30 bp):
CGCACACTTAGTGCTATACAATTTTCAGCT
Found at i:67210140 original size:46 final size:46
Alignment explanation
Indices: 67210090--67210437 Score: 452
Period size: 46 Copynumber: 7.6 Consensus size: 46
67210080 CATAGTGTCC
*
67210090 TTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATGGTATCT
* *
67210136 TTCAACCATGGTCTTATTCTTTTCATGTCATGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCT
* * *
67210182 TTCAACCATGGTTTTATTCATTTCATGTCACGCTT-CCATGGTATCT
1 TTCAACCATGGTCTTACTCATTTCATGTCATG-TTGCCATGGTATCT
* *
67210228 TTCAACCATGGTCTTATTCATTTC-TCGTCATGTTGTCATGGTATCT
1 TTCAACCATGGTCTTACTCATTTCAT-GTCATGTTGCCATGGTATCT
* * * *
67210274 TTCAACCATGGTCTTATTCTTTTCATGTCACGTTTCCATGGTATCT
1 TTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCT
* * * *
67210320 TTCAACCATGGTCTTACACATTTCATATCATGCTGCCATGATATCT
1 TTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCT
* * * *
67210366 TTCAACCATGGTCTTACACCTTTCATATCATGTTGTCATGGTATCT
1 TTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCT
67210412 TTCAACCATGGTCTTACAT-ATTTCAT
1 TTCAACCATGGTCTTAC-TCATTTCAT
67210438 TTCAGAGAGC
Statistics
Matches: 269, Mismatches: 27, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
45 7 0.03
46 259 0.96
47 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.43
Consensus pattern (46 bp):
TTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCT
Found at i:67210342 original size:138 final size:138
Alignment explanation
Indices: 67210090--67210427 Score: 509
Period size: 138 Copynumber: 2.4 Consensus size: 138
67210080 CATAGTGTCC
* *
67210090 TTCAACTATGGTCTTACTCATTT-TCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
1 TTCAACCATGGTCTTACTCATTTCTC-GTCATGTTGTCATGGTATCTTTCAACCATGGTCTTATT
* * ** * *
67210154 CTTTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTTTTATTCATTTCATGTCACGCTTCC
65 CTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCC
*
67210219 ATGGTATCT
130 ATGATATCT
*
67210228 TTCAACCATGGTCTTATTCATTTCTCGTCATGTTGTCATGGTATCTTTCAACCATGGTCTTATTC
1 TTCAACCATGGTCTTACTCATTTCTCGTCATGTTGTCATGGTATCTTTCAACCATGGTCTTATTC
* *
67210293 TTTTCATGTCACGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGCTGCCA
66 TTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCA
67210358 TGATATCT
131 TGATATCT
* * *
67210366 TTCAACCATGGTCTTACACCTTTCAT-ATCATGTTGTCATGGTATCTTTCAACCATGGTCTTA
1 TTCAACCATGGTCTTACTCATTTC-TCGTCATGTTGTCATGGTATCTTTCAACCATGGTCTTA
67210428 CATATTTCAT
Statistics
Matches: 182, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
138 179 0.98
139 3 0.02
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (138 bp):
TTCAACCATGGTCTTACTCATTTCTCGTCATGTTGTCATGGTATCTTTCAACCATGGTCTTATTC
TTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCA
TGATATCT
Found at i:67210388 original size:21 final size:21
Alignment explanation
Indices: 67210318--67210390 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
67210308 TCCATGGTAT
67210318 CTTTCAACCATGGTCTTACAC
1 CTTTCAACCATGGTCTTACAC
* * * * * *
67210339 ATTTCATATCATGCTGCCATGATAT
1 CTTTCA-ACCATG--GTC-TTACAC
67210364 CTTTCAACCATGGTCTTACAC
1 CTTTCAACCATGGTCTTACAC
67210385 CTTTCA
1 CTTTCA
67210391 TATCATGTTG
Statistics
Matches: 36, Mismatches: 12, Indels: 8
0.64 0.21 0.14
Matches are distributed among these distances:
21 14 0.39
22 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.25, C:0.29, G:0.10, T:0.37
Consensus pattern (21 bp):
CTTTCAACCATGGTCTTACAC
Found at i:67212357 original size:40 final size:39
Alignment explanation
Indices: 67212230--67212359 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
67212220 ATGCTGGAAA
* * *
67212230 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGC
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
67212270 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
67212310 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
67212350 TTATATCCGG
1 TTATATCCGG
67212360 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:67220366 original size:40 final size:40
Alignment explanation
Indices: 67220272--67220397 Score: 159
Period size: 40 Copynumber: 3.2 Consensus size: 40
67220262 CTGGAAATTA
* * *
67220272 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-CGCTAC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG-TTC
67220312 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
* * *
67220351 TATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
67220391 TATCCGG
1 TATCCGG
67220398 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
38 3 0.04
39 29 0.38
40 45 0.58
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
Found at i:67228420 original size:40 final size:39
Alignment explanation
Indices: 67228293--67228422 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
67228283 ATGCTGGAAA
* * *
67228293 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGC
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
67228333 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
67228373 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
67228413 TTATATCCGG
1 TTATATCCGG
67228423 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:67231635 original size:13 final size:13
Alignment explanation
Indices: 67231617--67231650 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
67231607 AAAATAACAA
67231617 TAAAATATCTTAT
1 TAAAATATCTTAT
67231630 TAAAATATCTTAT
1 TAAAATATCTTAT
67231643 TAAAATAT
1 TAAAATAT
67231651 TAATAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAATATCTTAT
Found at i:67231659 original size:11 final size:12
Alignment explanation
Indices: 67231599--67231660 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 12
67231589 CTTTCTTGAT
67231599 ATAC-TAATAAA
1 ATACTTAATAAA
67231610 ATAAC--AATAAA
1 AT-ACTTAATAAA
*
67231621 ATATCTTATTAAA
1 ATA-CTTAATAAA
*
67231634 ATATCTTATTAAA
1 ATA-CTTAATAAA
67231647 ATA-TTAATAAA
1 ATACTTAATAAA
67231658 ATA
1 ATA
67231661 ATTTTTATCT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
10 1 0.02
11 21 0.47
12 2 0.04
13 21 0.47
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATACTTAATAAA
Found at i:67231701 original size:31 final size:32
Alignment explanation
Indices: 67231627--67231701 Score: 77
Period size: 31 Copynumber: 2.4 Consensus size: 32
67231617 TAAAATATCT
*
67231627 TATTAAAATATCTTATTAAAATATTAATAAAA
1 TATTAAAATATCTAATTAAAATATTAATAAAA
**
67231659 TAATT--TTTATCTAATT-AAATAATT-ATAAAA
1 T-ATTAAAATATCTAATTAAAAT-ATTAATAAAA
67231689 TATTAAAATATCT
1 TATTAAAATATCT
67231702 CTAGCATCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
29 3 0.09
30 11 0.32
31 16 0.47
32 1 0.03
33 3 0.09
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (32 bp):
TATTAAAATATCTAATTAAAATATTAATAAAA
Found at i:67234147 original size:47 final size:47
Alignment explanation
Indices: 67234025--67234213 Score: 281
Period size: 47 Copynumber: 4.0 Consensus size: 47
67234015 TATCACAGTT
* * * *
67234025 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATC--ACATAC
*
67234074 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
67234121 ATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
67234168 ATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACATA
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA
67234214 TACATATCTT
Statistics
Matches: 130, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
47 93 0.72
49 35 0.27
50 2 0.02
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:67242796 original size:54 final size:53
Alignment explanation
Indices: 67242734--67242888 Score: 149
Period size: 54 Copynumber: 2.9 Consensus size: 53
67242724 GCAAGGAAAT
*
67242734 CATGTAAGACCATGTCAAGACATGGTATT-GATGAGTTACTAAAAGGCAAA-G-T-C
1 CATGTAAGACCATGTCAAGACATGGCATTAG-TGAGTT-C-AAAAGG-AAAGGATAC
* *
67242787 CTATGTAAGACCATGCCAATG-CATGGCATTAGTGAGTTCATAAGGAAAGGATAC
1 C-ATGTAAGACCATGTCAA-GACATGGCATTAGTGAGTTCAAAAGGAAAGGATAC
* * * *
67242841 CACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCAAAAAGGAAA
1 CATGTAAGACCATGTCAAGACATGGCATTAGTGAGTTC-AAAAGGAAA
67242889 AGGTTCTCGA
Statistics
Matches: 85, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
51 3 0.04
52 7 0.08
53 33 0.39
54 40 0.47
55 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCATTAGTGAGTTCAAAAGGAAAGGATAC
Found at i:67244441 original size:68 final size:70
Alignment explanation
Indices: 67244369--67244566 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
67244359 ACACCCTGTA
* * * *
67244369 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
67244431 ATAAAT
65 ATAAAT
*
67244437 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
67244502 ATAAAT
65 ATAAAT
*
67244508 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
67244567 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:67244480 original size:41 final size:41
Alignment explanation
Indices: 67244435--67244552 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
67244425 TGAAAGATAA
67244435 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
67244476 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
67244506 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
67244547 ATGTAG
1 ATGTAG
67244553 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:67244492 original size:71 final size:71
Alignment explanation
Indices: 67244403--67244566 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
67244393 GAGATGTATC
67244403 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
67244468 AGGACA
66 AGGACA
67244474 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
67244539 AGGACA
66 AGGACA
67244545 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
67244567 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:67251540 original size:68 final size:70
Alignment explanation
Indices: 67251468--67251665 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
67251458 ACACCCTGTA
* * * *
67251468 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
67251530 ATAAAT
65 ATAAAT
*
67251536 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
67251601 ATAAAT
65 ATAAAT
*
67251607 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
67251666 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:67251579 original size:41 final size:41
Alignment explanation
Indices: 67251534--67251651 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
67251524 TGAAAGATAA
67251534 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
67251575 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
67251605 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
67251646 ATGTAG
1 ATGTAG
67251652 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:67251591 original size:71 final size:71
Alignment explanation
Indices: 67251502--67251665 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
67251492 GAGATGTATC
67251502 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
67251567 AGGACA
66 AGGACA
67251573 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
67251638 AGGACA
66 AGGACA
67251644 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
67251666 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:67258675 original size:47 final size:47
Alignment explanation
Indices: 67258617--67258738 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
67258607 GCATTAGCAC
*
67258617 TAAGACAAGGATACCATGTAAGATCATGTTTGGAACATAGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
* *
67258664 TAAGACAAGGATACCATGTAAGACCATGTTTGGACCATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
* *
67258711 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
67258739 AGAAGGCATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
Found at i:67258846 original size:55 final size:54
Alignment explanation
Indices: 67258717--67258913 Score: 238
Period size: 55 Copynumber: 3.6 Consensus size: 54
67258707 TTGGTAAGAT
* ** * *
67258717 AAGGATATCATGTAAGACCATGAGAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
67258771 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * *
67258826 AAAGG-TCCCATGTAAGACCATGCCAATG-CATGGCATTGGTGAGTTC-ATAACGC
1 -AAGGATACCATGTAAGACCATGTCAA-GACATGGCATTGATGAGTTCTATAAGGC
*
67258879 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
67258914 ATGGTAAGTT
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
52 5 0.04
53 31 0.25
54 41 0.33
55 42 0.34
56 5 0.04
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:67259188 original size:12 final size:13
Alignment explanation
Indices: 67259164--67259192 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
67259154 GAGATGTTGT
67259164 AGGTATGTAAGCA
1 AGGTATGTAAGCA
67259177 AGGTAT-TAAGCA
1 AGGTATGTAAGCA
67259189 AGGT
1 AGGT
67259193 GCCTTTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.38, C:0.07, G:0.31, T:0.24
Consensus pattern (13 bp):
AGGTATGTAAGCA
Found at i:67261932 original size:30 final size:30
Alignment explanation
Indices: 67261877--67261934 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
67261867 TCCGAGCCTA
* **
67261877 GGGGCAAAAGTGTAATTATGTAAAAGTTTG
1 GGGGCAAAAATGTAATTATCCAAAAGTTTG
*
67261907 GGGGCAAAAATGTAATTTTCCAAAAGTT
1 GGGGCAAAAATGTAATTATCCAAAAGTT
67261935 CGTATTAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATCCAAAAGTTTG
Found at i:67266103 original size:17 final size:16
Alignment explanation
Indices: 67266065--67266106 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
67266055 CTTCTTCCTC
*
67266065 TCTTTTTCCTCCTTTT
1 TCTTTTTCTTCCTTTT
67266081 TC--TTTCTTCCTTTT
1 TCTTTTTCTTCCTTTT
67266095 TGCTTTTTCTTC
1 T-CTTTTTCTTC
67266107 TAGTTGAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 12 0.55
15 1 0.05
16 2 0.09
17 7 0.32
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (16 bp):
TCTTTTTCTTCCTTTT
Found at i:67282097 original size:21 final size:21
Alignment explanation
Indices: 67282073--67282119 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
67282063 AAGTGTACTG
*
67282073 TACTGGAAGCTCTGCTGTAAT
1 TACTGGAAGCTCTGCTGCAAT
*
67282094 TACTGGCAGCTCTGCTGCAAT
1 TACTGGAAGCTCTGCTGCAAT
*
67282115 CACTG
1 TACTG
67282120 ATTAGTGCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (21 bp):
TACTGGAAGCTCTGCTGCAAT
Found at i:67282295 original size:34 final size:34
Alignment explanation
Indices: 67282248--67282358 Score: 168
Period size: 34 Copynumber: 3.3 Consensus size: 34
67282238 ATTGCATTTT
*
67282248 CTGATACTGTTATTGTAATGGGCTAAAGCCCACA
1 CTGATACTGTTATTGTAATGGGCTAAGGCCCACA
* *
67282282 CTGATACTATTATTGTAATGGGCTAAGGCTCACA
1 CTGATACTGTTATTGTAATGGGCTAAGGCCCACA
* *
67282316 CTGATACTGTTGTTGTAATGGGATAAGGCCCACA
1 CTGATACTGTTATTGTAATGGGCTAAGGCCCACA
*
67282350 CTGGTACTG
1 CTGATACTG
67282359 GACTATAACT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 69 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (34 bp):
CTGATACTGTTATTGTAATGGGCTAAGGCCCACA
Found at i:67286359 original size:53 final size:53
Alignment explanation
Indices: 67286177--67286383 Score: 225
Period size: 53 Copynumber: 3.8 Consensus size: 53
67286167 ATTAGGATTT
* * * *
67286177 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG-TTCATAAGGC
* * * * * * *
67286231 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTATGATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGT-AAGT-TCATAAGGC
* * * * *
67286286 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* *
67286339 AAGGATACCATGTAAGACCATGTCAAGACATGGCAGTGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
67286384 TAAAAAGGAA
Statistics
Matches: 123, Mismatches: 28, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
53 46 0.37
54 37 0.30
55 40 0.33
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:67292414 original size:24 final size:24
Alignment explanation
Indices: 67292387--67292497 Score: 143
Period size: 24 Copynumber: 4.6 Consensus size: 24
67292377 CTTATTATGT
*
67292387 TCGCACACATAGTGCCATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
67292411 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
67292435 TCGCACACATAGTGCTATAATAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
67292459 TTGCACACATAGTG-CATTAATAAA
1 TCGCACACATAGTGCCA-TAGTAAA
* *
67292483 TTGTACACATAGTGC
1 TCGCACACATAGTGC
67292498 ATTTGAGATA
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
23 1 0.01
24 78 0.99
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:67292498 original size:24 final size:24
Alignment explanation
Indices: 67292365--67292500 Score: 127
Period size: 24 Copynumber: 5.7 Consensus size: 24
67292355 ACCGAATGTG
* **
67292365 GCACACATAGTGC-TTATTATGTT
1 GCACACATAGTGCATTAATAAATT
** *
67292388 CGCACACATAGTGCCA-TAGCAAATC
1 -GCACACATAGTG-CATTAATAAATT
* *
67292413 GCACACATAGTGCCA-TAGTAAATC
1 GCACACATAGTG-CATTAATAAATT
67292437 GCACACATAGTGC-TATAATAAATT
1 GCACACATAGTGCAT-TAATAAATT
67292461 GCACACATAGTGCATTAATAAATT
1 GCACACATAGTGCATTAATAAATT
*
67292485 GTACACATAGTGCATT
1 GCACACATAGTGCATT
67292501 TGAGATAGCC
Statistics
Matches: 98, Mismatches: 9, Indels: 10
0.84 0.08 0.09
Matches are distributed among these distances:
23 1 0.01
24 91 0.93
25 6 0.06
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.27
Consensus pattern (24 bp):
GCACACATAGTGCATTAATAAATT
Found at i:67300213 original size:24 final size:24
Alignment explanation
Indices: 67300186--67300296 Score: 161
Period size: 24 Copynumber: 4.6 Consensus size: 24
67300176 CTTATTATGT
*
67300186 TCGCACACATAGTGCCATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
67300210 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
67300234 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
67300258 TTGCACACATAGTG-CATTAATAAA
1 TCGCACACATAGTGCCA-TAGTAAA
* *
67300282 TTGTACACATAGTGC
1 TCGCACACATAGTGC
67300297 ATTTGAGATA
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
23 2 0.02
24 79 0.98
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.23
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:67306880 original size:46 final size:46
Alignment explanation
Indices: 67306827--67306999 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
67306817 AGGTTGAGCA
67306827 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * * *
67306873 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
*
67306918 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
67306966 -CTCGAGCTCATTGAGTTGAGTCTGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
67307000 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 5 0.05
45 5 0.05
46 57 0.55
47 28 0.27
48 4 0.04
50 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:67306983 original size:93 final size:93
Alignment explanation
Indices: 67306824--67306994 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
67306814 GGAAGGTTGA
*
67306824 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAGT
67306889 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCTGAGTTCGTGAAATGTAACTAG
* *
67306917 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CTCGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC-CGAACTCATTGAG
67306981 TTGAGTCTGAGTTC
65 TTGAGTCTGAGTTC
67306995 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAGT
TGAGTCTGAGTTCGTGAAATGTAACTAG
Found at i:67307215 original size:19 final size:20
Alignment explanation
Indices: 67307178--67307215 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
67307168 ATAAGGTGGT
67307178 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
67307198 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
67307216 TGGTGGTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:67314051 original size:18 final size:19
Alignment explanation
Indices: 67314017--67314053 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
67314007 TGTGTCCTGA
67314017 CACACGGGCGTGTGGGAGAC
1 CACACGGGCG-GTGGGAGAC
67314037 CACACGGGC-GTGGGAGA
1 CACACGGGCGGTGGGAGA
67314054 AGCAAACGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.22, C:0.24, G:0.46, T:0.08
Consensus pattern (19 bp):
CACACGGGCGGTGGGAGAC
Found at i:67318221 original size:30 final size:30
Alignment explanation
Indices: 67318186--67318243 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
67318176 CTCAGTATTT
67318186 CACACGGGTAACCCACATGCCCGTGTGTGA
1 CACACGGGTAACCCACATGCCCGTGTGTGA
** *
67318216 CACACGGGTAGGCCACATGCCCTTGTGT
1 CACACGGGTAACCCACATGCCCGTGTGT
67318244 AATGACCGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.33, G:0.28, T:0.19
Consensus pattern (30 bp):
CACACGGGTAACCCACATGCCCGTGTGTGA
Found at i:67328821 original size:55 final size:55
Alignment explanation
Indices: 67328701--67328836 Score: 148
Period size: 55 Copynumber: 2.5 Consensus size: 55
67328691 GCGACATGGA
* ** * * *
67328701 CATGGGCGAACCTGCCAAAACAACATGGGCGTGCGACACGCCCGTGCTTGGAAAC
1 CATGGGCGAACCTGTCAAATTAACACGGGCATGCGACACGCCCGTACTTGGAAAC
* * * *
67328756 TATGGCCGAACCTATCAAATTAACACGGGCATGCGACACGCCCGTAC-TGAGCAAC
1 CATGGGCGAACCTGTCAAATTAACACGGGCATGCGACACGCCCGTACTTG-GAAAC
* *
67328811 CGTGGGCGAACCTGTCAGATTAACAC
1 CATGGGCGAACCTGTCAAATTAACAC
67328837 AGGTGTAGGC
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
54 2 0.03
55 63 0.97
ACGTcount: A:0.29, C:0.30, G:0.26, T:0.15
Consensus pattern (55 bp):
CATGGGCGAACCTGTCAAATTAACACGGGCATGCGACACGCCCGTACTTGGAAAC
Found at i:67351534 original size:38 final size:39
Alignment explanation
Indices: 67351445--67351595 Score: 225
Period size: 38 Copynumber: 3.9 Consensus size: 39
67351435 TATGGTAACC
** *
67351445 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATT
* *
67351485 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCA-AACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
67351523 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
*
67351561 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
67351596 TCGAACATTC
Statistics
Matches: 101, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
37 5 0.05
38 60 0.59
39 21 0.21
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
Found at i:67351579 original size:76 final size:78
Alignment explanation
Indices: 67351445--67351594 Score: 259
Period size: 76 Copynumber: 1.9 Consensus size: 78
67351435 TATGGTAACC
67351445 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAGCC
67351510 CGGATATCAAACT
66 CGGATATCAAACT
** *
67351523 CGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCACAATTTGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAGCC
67351586 CGGATATCA
66 CGGATATCA
67351595 CTCGAACATT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
76 44 0.64
77 9 0.13
78 16 0.23
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (78 bp):
CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAGCC
CGGATATCAAACT
Found at i:67354099 original size:17 final size:18
Alignment explanation
Indices: 67354057--67354105 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
67354047 AGTTGAAAAG
67354057 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
67354076 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
67354093 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
67354106 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:67354992 original size:40 final size:40
Alignment explanation
Indices: 67354926--67355092 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
67354916 AAATTGAATG
* * *
67354926 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
67354965 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
67355005 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
67355045 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
67355085 ATATCCGG
1 ATATCCGG
67355093 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:67362105 original size:17 final size:18
Alignment explanation
Indices: 67362063--67362111 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
67362053 AGTTGAAAAG
67362063 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
67362082 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
67362099 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
67362112 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:67362999 original size:40 final size:40
Alignment explanation
Indices: 67362933--67363099 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
67362923 AAATTGAATG
* * *
67362933 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
67362972 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
67363012 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
67363052 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
67363092 ATATCCGG
1 ATATCCGG
67363100 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:67364485 original size:10 final size:10
Alignment explanation
Indices: 67364470--67364496 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
67364460 ATAAGTTTCA
67364470 AAAAAAAACG
1 AAAAAAAACG
67364480 AAAAAAAACG
1 AAAAAAAACG
67364490 AAAAAAA
1 AAAAAAA
67364497 TTTCAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAACG
Found at i:67365601 original size:30 final size:28
Alignment explanation
Indices: 67365565--67365620 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
67365555 AAGCGAAAAA
* *
67365565 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
67365595 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
67365621 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:67374918 original size:39 final size:39
Alignment explanation
Indices: 67374864--67375007 Score: 216
Period size: 39 Copynumber: 3.7 Consensus size: 39
67374854 GAATGTTCGA
67374864 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * * *
67374903 GTGATACCCGGGCTAAGCCCGAAGGCGATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
67374942 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
67374981 GTGATATCTGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
67375008 CTTTGTGCGG
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 83 0.90
40 9 0.10
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:67374954 original size:78 final size:79
Alignment explanation
Indices: 67374865--67375021 Score: 253
Period size: 78 Copynumber: 2.0 Consensus size: 79
67374855 AATGTTCGAG
67374865 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
*
67374929 GATTGTGCGAGTTA
66 CATTGTGCGAGTTA
* * *
67374943 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCTGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
* *
67375008 CTTTGTGCGGGTTA
66 CATTGTGCGAGTTA
67375022 CCATAACCGG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 52 0.72
79 20 0.28
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
CATTGTGCGAGTTA
Found at i:67382930 original size:15 final size:15
Alignment explanation
Indices: 67382884--67382931 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
67382874 AAACCTACAA
*
67382884 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
67382899 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
67382913 AAACTTCATATCCAT
1 AAACTTCATATCCAT
67382928 AAAC
1 AAAC
67382932 CCACCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:67384105 original size:30 final size:30
Alignment explanation
Indices: 67384069--67384130 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
67384059 CATTCAAATA
67384069 CAATTACTTAGCATTTCATACTTAATCAAC
1 CAATTACTTAGCATTTCATACTTAATCAAC
67384099 CAATTACTTAGCATTTCATACTTAATCAAC
1 CAATTACTTAGCATTTCATACTTAATCAAC
67384129 CA
1 CA
67384131 TTATTTAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.35
Consensus pattern (30 bp):
CAATTACTTAGCATTTCATACTTAATCAAC
Done.