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 209 of 210
Found at i:69383611 original size:42 final size:43
Alignment explanation
Indices: 69383534--69383620 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 43
69383524 TTCAAGCAGC
* * * *
69383534 GAGACAAAATTGATAAAGGTCAGCTTTTCTATGGCTTAAGTTT
1 GAGAAAAAATTGATAAAGCTCAGCTTTCCTATGGCTTAAGCTT
* *
69383577 GAGAAAAAATTGATAGA-CTCAGCTTTCCTGTGGCTTAAGCTT
1 GAGAAAAAATTGATAAAGCTCAGCTTTCCTATGGCTTAAGCTT
69383619 GA
1 GA
69383621 CTTATGTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
42 23 0.61
43 15 0.39
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (43 bp):
GAGAAAAAATTGATAAAGCTCAGCTTTCCTATGGCTTAAGCTT
Found at i:69383924 original size:34 final size:35
Alignment explanation
Indices: 69383880--69383952 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
69383870 GAAATTATAT
* **
69383880 TTTGTCTAACTTAACTTGCAAGTAATCTCTTAG-A
1 TTTGTCTAACTTAACTTACAAACAATCTCTTAGAA
* *
69383914 TTTGTTTAACTTGACTTACAAACAATCTCTTAGAA
1 TTTGTCTAACTTAACTTACAAACAATCTCTTAGAA
69383949 TTTG
1 TTTG
69383953 GGTCACACGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
34 28 0.85
35 5 0.15
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.42
Consensus pattern (35 bp):
TTTGTCTAACTTAACTTACAAACAATCTCTTAGAA
Found at i:69384666 original size:22 final size:22
Alignment explanation
Indices: 69384636--69384700 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
69384626 ACACCAAAAC
*
69384636 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
69384658 AGGCCTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
*
69384680 AGGCCTTTAGCGGCACTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
69384701 AGCGCCGCAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.11, C:0.22, G:0.26, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:69398615 original size:23 final size:23
Alignment explanation
Indices: 69398589--69398634 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
69398579 AACCTTAAAT
* *
69398589 CCCTAGCTCTTAACCCCTAAACC
1 CCCTAACTCCTAACCCCTAAACC
69398612 CCCTAACTCCTAACCCCTAAACC
1 CCCTAACTCCTAACCCCTAAACC
69398635 TTAAACCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.50, G:0.02, T:0.20
Consensus pattern (23 bp):
CCCTAACTCCTAACCCCTAAACC
Found at i:69398955 original size:21 final size:21
Alignment explanation
Indices: 69398913--69398985 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
69398903 TTAACCCCTA
**
69398913 AACCCCTAAACCTCT-AGCCCT
1 AACCCCTAAACCT-TAAATCCT
69398934 AACCCCTAAACCTTAAATCCT
1 AACCCCTAAACCTTAAATCCT
*
69398955 AA-CCC--GACCTTAAATCCCT
1 AACCCCTAAACCTTAAAT-CCT
*
69398974 AATCCCTAAACC
1 AACCCCTAAACC
69398986 CCAACCCAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
18 9 0.21
19 5 0.12
20 7 0.16
21 19 0.44
22 3 0.07
ACGTcount: A:0.34, C:0.42, G:0.03, T:0.21
Consensus pattern (21 bp):
AACCCCTAAACCTTAAATCCT
Found at i:69399102 original size:15 final size:16
Alignment explanation
Indices: 69399076--69399109 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
69399066 CTATACTTTT
69399076 AACCCTTAAATCCATA
1 AACCCTTAAATCCATA
69399092 AACCC-TAAATCCATA
1 AACCCTTAAATCCATA
69399107 AAC
1 AAC
69399110 ACCATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (16 bp):
AACCCTTAAATCCATA
Found at i:69399443 original size:41 final size:41
Alignment explanation
Indices: 69399397--69399550 Score: 159
Period size: 41 Copynumber: 3.8 Consensus size: 41
69399387 TAAAAAATAT
* **
69399397 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAATCTTAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGATCAGAGC
* * * **
69399438 ATTAGCGGCGCTTATTAAAAAATGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGATCAGAGC
* * *
69399479 ATTACCGGCGCTTCTTCAAAAACGTCGCTAAAGGAT-AGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA-GATCAGAGC
* *
69399520 ATTAGCGGCG-TTTTTTAAGAAGCGCCGCTAA
1 ATTAGCGGCGCTTTTTCAA-AAACGCCGCTAA
69399551 TGCTGCTCTG
Statistics
Matches: 91, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
40 6 0.07
41 84 0.92
42 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGATCAGAGC
Found at i:69399547 original size:82 final size:82
Alignment explanation
Indices: 69399397--69399550 Score: 193
Period size: 82 Copynumber: 1.9 Consensus size: 82
69399387 TAAAAAATAT
* * ** *
69399397 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAATCTTAGCATTAGCGGCGCTTATTAAAAAATG
1 ATTACCGGCGCTTCTTCAAAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTATTAAAAAACG
69399462 CCGCTAAAGGCCAGAGC
66 CCGCTAAAGGCCAGAGC
* * * * * *
69399479 ATTACCGGCGCTTCTTCAAAAACGTCGCTAAAGGAT-AGAGCATTAGCGGCGTTTTTTAAGAAGC
1 ATTACCGGCGCTTCTTCAAAAACGCCGCTAAA-AATCAGAGCATTAGCGGCGCTTATTAAAAAAC
69399543 GCCGCTAA
65 GCCGCTAA
69399551 TGCTGCTCTG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
82 58 0.97
83 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (82 bp):
ATTACCGGCGCTTCTTCAAAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTATTAAAAAACG
CCGCTAAAGGCCAGAGC
Found at i:69399703 original size:39 final size:39
Alignment explanation
Indices: 69399636--69399730 Score: 113
Period size: 39 Copynumber: 2.4 Consensus size: 39
69399626 TGGCTTAGGC
* *
69399636 TTTTT-GCGGCGATTTTCAGAAAACGCCGCTAATGCT-AA
1 TTTTTAGCGGCG-TTTTTATAAAACGCCGCTAATGCTCAA
* *
69399674 TTTTTAGCGGTGTTTTTATAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTATAAAA-CGCCGCTAATGCTCAA
*
69399714 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
69399731 TGTCCAAACG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
38 14 0.29
39 18 0.38
40 16 0.33
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTATAAAACGCCGCTAATGCTCAA
Found at i:69414935 original size:3 final size:3
Alignment explanation
Indices: 69414927--69414997 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
69414917 CTATTAACCC
69414927 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
69414975 ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
69414998 TGAATGAAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:69415424 original size:16 final size:16
Alignment explanation
Indices: 69415403--69415436 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
69415393 TACTTAAAAG
69415403 TTAAAACTAATTGTTA
1 TTAAAACTAATTGTTA
*
69415419 TTAAAATTAATTGTTA
1 TTAAAACTAATTGTTA
69415435 TT
1 TT
69415437 GAATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
TTAAAACTAATTGTTA
Found at i:69416471 original size:3 final size:3
Alignment explanation
Indices: 69416463--69416520 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
69416453 NNNNNNNNNN
69416463 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
69416511 ATA ATA ATA A
1 ATA ATA ATA A
69416521 AATCAAAATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:69416952 original size:22 final size:22
Alignment explanation
Indices: 69416924--69416975 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
69416914 AATGAAGCAC
*
69416924 CGTGGAGTCGTGGAGTC-GTGGA
1 CGTGGAGTCGT-GAATCGGTGGA
*
69416946 CGTGGAGTTGTGAATCGGTGGA
1 CGTGGAGTCGTGAATCGGTGGA
*
69416968 GGTGGAGT
1 CGTGGAGT
69416976 TGGATCCGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.15, C:0.10, G:0.50, T:0.25
Consensus pattern (22 bp):
CGTGGAGTCGTGAATCGGTGGA
Found at i:69417830 original size:29 final size:29
Alignment explanation
Indices: 69417769--69417837 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
69417759 AATATTGAAA
*
69417769 ATTTTTA--AAAAATTATTAGATTAAGTC
1 ATTTTTACGAAAAATTATGAGATTAAGTC
*
69417796 ATTTTTTCGAAAAATTATGAGATT-AGATC
1 ATTTTTACGAAAAATTATGAGATTAAG-TC
69417825 GA-TTTTACGAAAA
1 -ATTTTTACGAAAA
69417838 CACTTCTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 6 0.17
28 2 0.06
29 26 0.74
30 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.41
Consensus pattern (29 bp):
ATTTTTACGAAAAATTATGAGATTAAGTC
Found at i:69430948 original size:74 final size:74
Alignment explanation
Indices: 69430824--69430964 Score: 255
Period size: 74 Copynumber: 1.9 Consensus size: 74
69430814 AACAAATGAA
* *
69430824 AATATTCAAATTTTATATGTTAAATATCATTAAATTACCATTTGGGAATTTAAATTTTAAAAATA
1 AATATTCAAATTTTATAAGTTAAATATCATTAAATTACCATTTGGAAATTTAAATTTTAAAAATA
69430889 TTATAGAAG
66 TTATAGAAG
*
69430898 AATATTCAAATTTTATAAGTTAAATATTATTAAATTACCATTTGGAAATTTAAATTTTAAAAATA
1 AATATTCAAATTTTATAAGTTAAATATCATTAAATTACCATTTGGAAATTTAAATTTTAAAAATA
69430963 TT
66 TT
69430965 GTAAATCGAG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.43
Consensus pattern (74 bp):
AATATTCAAATTTTATAAGTTAAATATCATTAAATTACCATTTGGAAATTTAAATTTTAAAAATA
TTATAGAAG
Found at i:69439951 original size:18 final size:18
Alignment explanation
Indices: 69439915--69439951 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
69439905 AACAACCTAC
*
69439915 AAATTAAAAAGAAATTAA
1 AAATTAAAAAGAAAATAA
*
69439933 AAATTAAAAATAAAATAA
1 AAATTAAAAAGAAAATAA
69439951 A
1 A
69439952 TAAAATATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
AAATTAAAAAGAAAATAA
Found at i:69446130 original size:50 final size:49
Alignment explanation
Indices: 69446064--69446224 Score: 166
Period size: 50 Copynumber: 3.2 Consensus size: 49
69446054 GAGGATGAGG
*
69446064 TCCCATGTAAGATCATGTCTTGGACATGGCGTTGGCACCGAGATGAGACA
1 TCCCATCTAAGATCATGTCTTGGACATGGCGTTGGCACCGAGATGAGA-A
* * *
69446114 TCCCATCTAAAATCATGTC-TGTGACATGGCGTTGGCACCGAGATTAGAGG
1 TCCCATCTAAGATCATGTCTTG-GACATGGCGTTGGCACCGAGATGAGA-A
* * * * *
69446164 TCCC--CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAA
1 TCCCATC-TAAGATCATGTCTTGGACATGGCGTTGGCACCGAGATGAGAA
*
69446212 CTCCCATGTAAGA
1 -TCCCATCTAAGA
69446225 CCATATATGG
Statistics
Matches: 91, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
48 1 0.01
49 38 0.42
50 52 0.57
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (49 bp):
TCCCATCTAAGATCATGTCTTGGACATGGCGTTGGCACCGAGATGAGAA
Found at i:69446200 original size:49 final size:50
Alignment explanation
Indices: 69446060--69446298 Score: 189
Period size: 49 Copynumber: 4.8 Consensus size: 50
69446050 TTAAGAGGAT
* * * *
69446060 GAGGTCCCATGTAAGATCATGTCTTGGACATGGCGTTGGCACCGAGATGA
1 GAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
** * * * * *
69446110 GACATCCCATC-TAAAATCATGTCTGTGACATGGCGTTGGCACCGAGATTA
1 GAGGTCCCA-CGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
* *
69446160 GAGGTCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGA
1 GAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
** * * * * * *
69446209 GAACTCCCATGTAAGACCATATATGGGATATGGCATTGGCA--GTACAAGA
1 GAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGA
* * * * * *
69446258 AACGTCCCATGTAAGACCATGTCTGTGATATGGCTTTGGCA
1 GAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
69446299 TGTTATTATC
Statistics
Matches: 153, Mismatches: 32, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
48 2 0.01
49 76 0.50
50 75 0.49
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (50 bp):
GAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
Found at i:69446242 original size:99 final size:100
Alignment explanation
Indices: 69446060--69446249 Score: 231
Period size: 99 Copynumber: 1.9 Consensus size: 100
69446050 TTAAGAGGAT
* * * * *
69446060 GAGGTCCCATGTAAGATCATGTCTTGGACATGGCGTTGGCACCGAGATGAGACATCCCATCTAAA
1 GAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGACATCCCATCTAAA
* * * * *
69446125 ATCATGTCTGTGACATGGCGTTGGCACCGAGATTA
66 ACCATATATGGGACATGGCATTGGCACCGAGATTA
* *
69446160 GAGGTCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGA-ACTCCCATGTAA
1 GAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGACA-TCCCATCTAA
* *
69446223 GACCATATATGGGATATGGCATTGGCA
65 AACCATATATGGGACATGGCATTGGCA
69446250 GTACAAGAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
98 1 0.01
99 66 0.88
100 8 0.11
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (100 bp):
GAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGACATCCCATCTAAA
ACCATATATGGGACATGGCATTGGCACCGAGATTA
Found at i:69456073 original size:27 final size:26
Alignment explanation
Indices: 69456016--69456337 Score: 298
Period size: 27 Copynumber: 12.3 Consensus size: 26
69456006 AGAGGTCAAT
* ** *
69456016 AAATGACCGAAATACCCTCAAAGATTG
1 AAATGACCGAAATACCC-CATAGGGTA
* *
69456043 AAATGACCAAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCC-CATAGGGTA
* *
69456070 AAATGACTGAAATACCTCTATAGGGTA
1 AAATGACCGAAATACC-CCATAGGGTA
69456097 AAATGACCGAAATACCCCATAGGGTA
1 AAATGACCGAAATACCCCATAGGGTA
* * * *
69456123 AATTGACCAAAATATCCCTAAAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
*
69456150 AAATGATCGAAATACCCCAATAGGGTA
1 AAATGACCGAAATACCCC-ATAGGGTA
* *
69456177 AAATGATCGAAATACCCCCATAGGCTA
1 AAATGACCGAAATA-CCCCATAGGGTA
**
69456204 AAATGTTCGAAATACTCCCATAGGGTA
1 AAATGACCGAAATAC-CCCATAGGGTA
* * * *
69456231 AAATGGCTGAACTACCTCCAGAGGGTA
1 AAATGACCGAAATACC-CCATAGGGTA
*
69456258 AAATGACCAAAATATCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
*
69456285 AAATGA-C------CCCCATAGAGTA
1 AAATGACCGAAATACCCCATAGGGTA
69456304 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
69456331 AAATGAC
1 AAATGAC
69456338 TATTATACCC
Statistics
Matches: 246, Mismatches: 34, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
19 17 0.07
20 1 0.00
26 27 0.11
27 194 0.79
28 7 0.03
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (26 bp):
AAATGACCGAAATACCCCATAGGGTA
Found at i:69456297 original size:19 final size:19
Alignment explanation
Indices: 69456273--69456311 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
69456263 ACCAAAATAT
*
69456273 CCCCATAGGGTAAAATGAC
1 CCCCATAGAGTAAAATGAC
69456292 CCCCATAGAGTAAAATGAC
1 CCCCATAGAGTAAAATGAC
69456311 C
1 C
69456312 GAAATACCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.28, G:0.18, T:0.15
Consensus pattern (19 bp):
CCCCATAGAGTAAAATGAC
Found at i:69457582 original size:29 final size:29
Alignment explanation
Indices: 69457550--69457722 Score: 160
Period size: 29 Copynumber: 6.0 Consensus size: 29
69457540 TCGGCTATCG
69457550 ATTATGAAAAGGGATGGTGACGACCATCA
1 ATTATGAAAAGGGATGGTGACGACCATCA
* *
69457579 ATTATGAAAAGGGATGGTGACAACTATCAA
1 ATTATGAAAAGGGATGGTGACGACCATC-A
* *
69457609 ATT-TG-AAAGGGATGGCT-TCGGTA-C-T-G
1 ATTATGAAAAGGGATGG-TGAC-G-ACCATCA
* *
69457635 GTTAATGAAAAGGGATGGTGACCACCATCA
1 ATT-ATGAAAAGGGATGGTGACGACCATCA
* *
69457665 ACTATGAAAAGGGATGGTGACGACCATCG
1 ATTATGAAAAGGGATGGTGACGACCATCA
**
69457694 ATTAATGAAAAGGGATGGTCTCGACCATC
1 ATT-ATGAAAAGGGATGGTGACGACCATC
69457723 GAATATAAAA
Statistics
Matches: 115, Mismatches: 17, Indels: 23
0.74 0.11 0.15
Matches are distributed among these distances:
26 2 0.02
27 1 0.01
28 16 0.14
29 67 0.58
30 29 0.25
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (29 bp):
ATTATGAAAAGGGATGGTGACGACCATCA
Found at i:69457618 original size:57 final size:59
Alignment explanation
Indices: 69457552--69457712 Score: 190
Period size: 57 Copynumber: 2.8 Consensus size: 59
69457542 GGCTATCGAT
* *
69457552 TATGAAAAGGGATGGTGACGACCATCAATT-ATGAAAAGGGATGGTGACAACTATCAAA
1 TATGAAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATGGTGACAACCATCAAA
* * * * *
69457610 TTTG-AAAGGGATGGCT-TCGGTA-C-T-GGTTAATGAAAAGGGATGGTGACCACCATCAAC
1 TATGAAAAGGGATGG-TGAC-G-ACCATCGATTAATGAAAAGGGATGGTGACAACCATCAAA
69457667 TATGAAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATGGT
1 TATGAAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATGGT
69457713 CTCGACCATC
Statistics
Matches: 84, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
56 3 0.04
57 43 0.51
58 18 0.21
59 20 0.24
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.22
Consensus pattern (59 bp):
TATGAAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATGGTGACAACCATCAAA
Found at i:69457750 original size:59 final size:59
Alignment explanation
Indices: 69457636--69457750 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 59
69457626 TCGGTACTGG
* * * * *
69457636 TTAATGAAAAGGGATGGTGACCACCATCAACTATGAAAAGGGATGGTGACGACCATCGA
1 TTAATGAAAAGGGATGGTCACCACCATCAACTATAAAAAAGGACGGTGACAACCATCGA
* * *
69457695 TTAATGAAAAGGGATGGTCTCGACCATCGAA-TATAAAAAAGGACGGTTACAACCAT
1 TTAATGAAAAGGGATGGTCACCACCATC-AACTATAAAAAAGGACGGTGACAACCAT
69457751 ATTTTATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
59 45 0.96
60 2 0.04
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (59 bp):
TTAATGAAAAGGGATGGTCACCACCATCAACTATAAAAAAGGACGGTGACAACCATCGA
Found at i:69459702 original size:17 final size:17
Alignment explanation
Indices: 69459680--69459712 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
69459670 ATGTTGTAAA
69459680 TTGAATGTTTTAAATTT
1 TTGAATGTTTTAAATTT
*
69459697 TTGAATGTTTTGAATT
1 TTGAATGTTTTAAATT
69459713 GTAAACTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (17 bp):
TTGAATGTTTTAAATTT
Found at i:69461886 original size:14 final size:13
Alignment explanation
Indices: 69461839--69461886 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
69461829 GTATTGATCC
69461839 AAATTAA-TATATT
1 AAATTAACTA-ATT
69461852 -AATTAAACTAATT
1 AAATT-AACTAATT
69461865 AAATTAACTAACTT
1 AAATTAACTAA-TT
69461879 AAATTAAC
1 AAATTAAC
69461887 CTACTAGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.13
13 11 0.35
14 16 0.52
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTAACTAATT
Found at i:69463724 original size:39 final size:39
Alignment explanation
Indices: 69463669--69463764 Score: 138
Period size: 39 Copynumber: 2.5 Consensus size: 39
69463659 AACATGTTTT
*
69463669 TGAGTATTGTGATATATGCCTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCCTAAATGTTATGAGATTATA
* * *
69463708 TGAGTATTGTGGTATATACTTAAATGTTATGAGATTATA
1 TGAGTATTGTGATATATGCCTAAATGTTATGAGATTATA
* *
69463747 TGTGTAATGTGATATATG
1 TGAGTATTGTGATATATG
69463765 ATTAAAAGTG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.31, C:0.03, G:0.22, T:0.44
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCCTAAATGTTATGAGATTATA
Found at i:69469572 original size:16 final size:18
Alignment explanation
Indices: 69469544--69469577 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
69469534 ATAAATTAAT
69469544 TTAAATCAAATTT-TCAA
1 TTAAATCAAATTTATCAA
69469561 TTAAAT-AAATTTATCAA
1 TTAAATCAAATTTATCAA
69469578 CCCGGTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAAATCAAATTTATCAA
Found at i:69471911 original size:69 final size:69
Alignment explanation
Indices: 69471823--69471977 Score: 231
Period size: 69 Copynumber: 2.2 Consensus size: 69
69471813 GATATACAAG
*
69471823 ACCATGGTTGG-ACAATGACAATGTTTACGTAAGACCGTAGCGAGACTATGGTAGTTTTTCAGAC
1 ACCATGGTTGGAAC-ATGACAATGTTTACGTAAGACCATAGCGAGACTATGGTAGTTTTTCAGAC
69471887 GTAAA
65 GTAAA
* * * *
69471892 ACCATGGTTGGAACATGACAATGTTTATGTAAGACCATAGTGAGGCTATGGTAGTTTTTCAGATG
1 ACCATGGTTGGAACATGACAATGTTTACGTAAGACCATAGCGAGACTATGGTAGTTTTTCAGACG
*
69471957 TAAG
66 TAAA
*
69471961 ACCATGGTTGGACCATG
1 ACCATGGTTGGAACATG
69471978 GCAGTGTATA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
69 76 0.97
70 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (69 bp):
ACCATGGTTGGAACATGACAATGTTTACGTAAGACCATAGCGAGACTATGGTAGTTTTTCAGACG
TAAA
Found at i:69472018 original size:39 final size:35
Alignment explanation
Indices: 69471917--69472019 Score: 89
Period size: 39 Copynumber: 2.8 Consensus size: 35
69471907 TGACAATGTT
* * *
69471917 TATGTAAGACCATAGTGAGGCTATGGTAGTTTTTCA
1 TATGTAAGACCATAGTG-GGCTATGGCAGTTATACA
* * * *
69471953 GATGTAAGACCATGGTTGGACCATGGCAGTGTATACATA
1 TATGTAAGACCATAG-TGGGCTATGGCAGT-TATAC--A
69471992 TATGTAAGACCATAGCTGGGCTATGGCA
1 TATGTAAGACCATAG-TGGGCTATGGCA
69472020 TTCTAATGAT
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
36 22 0.43
37 5 0.10
39 24 0.47
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (35 bp):
TATGTAAGACCATAGTGGGCTATGGCAGTTATACA
Found at i:69481912 original size:29 final size:28
Alignment explanation
Indices: 69481868--69482004 Score: 141
Period size: 28 Copynumber: 4.9 Consensus size: 28
69481858 GTGTGTCCCC
* * * * *
69481868 TATTTTTTATATTTTATAGTTTTGCCTT
1 TATTTTTCAAATTTTACAATTTTGCCCT
* *
69481896 TATTTTTCAAATTTTTATAATTTGGCCCT
1 TATTTTTCAAA-TTTTACAATTTTGCCCT
*
69481925 TATTTTTCAAATTTTACAATTTTTCCCT
1 TATTTTTCAAATTTTACAATTTTGCCCT
* * *
69481953 TGTTTTTCATATTTTACAGTTTTGCCAC-
1 TATTTTTCAAATTTTACAATTTTGCC-CT
*
69481981 TATTTTTCAAATTTTACATTTTTG
1 TATTTTTCAAATTTTACAATTTTG
69482005 AACCATAATT
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
28 66 0.72
29 26 0.28
ACGTcount: A:0.22, C:0.13, G:0.06, T:0.59
Consensus pattern (28 bp):
TATTTTTCAAATTTTACAATTTTGCCCT
Found at i:69483583 original size:27 final size:26
Alignment explanation
Indices: 69483553--69483641 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 26
69483543 CATTACGGTC
69483553 ATTTTACCTTACAGGGGTATTTTAGTA
1 ATTTTACCTT-CAGGGGTATTTTAGTA
* * *
69483580 ATTTTACCCTTCAAGAGTATTTCAGTA
1 ATTTTA-CCTTCAGGGGTATTTTAGTA
*
69483607 ATTTTACCATTC-GAGGGTATTTTGGTA
1 ATTTTACC-TTCAG-GGGTATTTTAGTA
69483634 ATTTTACC
1 ATTTTACC
69483642 CGTCGAGGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.04
27 46 0.88
28 4 0.08
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.44
Consensus pattern (26 bp):
ATTTTACCTTCAGGGGTATTTTAGTA
Found at i:69483647 original size:27 final size:27
Alignment explanation
Indices: 69483567--69483656 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
69483557 TACCTTACAG
* *
69483567 GGGTATTTTAGTAATTTTACCCTTCAA
1 GGGTATTTCAGTAATTTTACCCTTCGA
* *
69483594 GAGTATTTCAGTAATTTTACCATTCGA
1 GGGTATTTCAGTAATTTTACCCTTCGA
** *
69483621 GGGTATTTTGGTAATTTTACCCGTCGA
1 GGGTATTTCAGTAATTTTACCCTTCGA
69483648 GGGTATTTC
1 GGGTATTTC
69483657 GGTCATTTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACCCTTCGA
Found at i:69488716 original size:30 final size:30
Alignment explanation
Indices: 69488682--69488767 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 30
69488672 ATTTACTAAA
*
69488682 ATGTGGAAGCTTTTGTGGCTATTCTCAAAT
1 ATGTGGAAGCCTTTGTGGCTATTCTCAAAT
* **
69488712 ATGTGAAAGCCTTTGTGGCTATTCTCTGAT
1 ATGTGGAAGCCTTTGTGGCTATTCTCAAAT
* * * *
69488742 AAGTGGAAGCCTCTATGGCTGTTCTC
1 ATGTGGAAGCCTTTGTGGCTATTCTC
69488768 TGTTAACGTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.37
Consensus pattern (30 bp):
ATGTGGAAGCCTTTGTGGCTATTCTCAAAT
Found at i:69494122 original size:18 final size:18
Alignment explanation
Indices: 69494083--69494122 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
69494073 TTGTGGGAAC
*
69494083 AAAAGCATTATCAGAGTT
1 AAAAGCATTATCAGAGTG
* *
69494101 AAAAGCATTGTCAGTGTG
1 AAAAGCATTATCAGAGTG
69494119 AAAA
1 AAAA
69494123 AAGTATAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (18 bp):
AAAAGCATTATCAGAGTG
Found at i:69499757 original size:16 final size:16
Alignment explanation
Indices: 69499736--69499766 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69499726 TCTTTTAAAT
*
69499736 TTTATTTATTCTTTTG
1 TTTATTTATTATTTTG
69499752 TTTATTTATTATTTT
1 TTTATTTATTATTTT
69499767 TCATGAGTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTATTTATTATTTTG
Found at i:69507667 original size:24 final size:22
Alignment explanation
Indices: 69507640--69507683 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
69507630 ACAGTTCAAA
69507640 ATTTTTCTTTCCATTTATTAAAAG
1 ATTTTTC--TCCATTTATTAAAAG
*
69507664 ATTTTTCTGCATTTATTAAA
1 ATTTTTCTCCATTTATTAAA
69507684 TCTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
24 7 0.37
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTTTTCTCCATTTATTAAAAG
Found at i:69517451 original size:23 final size:23
Alignment explanation
Indices: 69517424--69517467 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
69517414 CAAATTTACG
*
69517424 TGTAATATCCTGAAAATTACTAC
1 TGTAATACCCTGAAAATTACTAC
69517447 TGTAATACCCTGAAAATTACT
1 TGTAATACCCTGAAAATTACT
69517468 GCAGTAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (23 bp):
TGTAATACCCTGAAAATTACTAC
Found at i:69517474 original size:23 final size:23
Alignment explanation
Indices: 69517425--69517474 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
69517415 AAATTTACGT
* *
69517425 GTAATATCCTGAAAATTACTACT
1 GTAATACCCTGAAAATTACTACA
*
69517448 GTAATACCCTGAAAATTACTGCA
1 GTAATACCCTGAAAATTACTACA
69517471 GTAA
1 GTAA
69517475 GAAAGTAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (23 bp):
GTAATACCCTGAAAATTACTACA
Found at i:69520994 original size:15 final size:15
Alignment explanation
Indices: 69520954--69520992 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
69520944 TGTATGTTTA
**
69520954 ATAATATTAAACATT
1 ATAATATTTTACATT
69520969 ATAATATTTTACATT
1 ATAATATTTTACATT
69520984 -TAATATTTT
1 ATAATATTTT
69520993 TAAAGTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (15 bp):
ATAATATTTTACATT
Found at i:69521994 original size:21 final size:21
Alignment explanation
Indices: 69521944--69522017 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
69521934 AATTGGCAAG
* *
69521944 GAGTTGGGACAACCTCCTGCT
1 GAGTTGGGGCAGCCTCCTGCT
69521965 GAGTTGGGGCAGCCTCCTGCT
1 GAGTTGGGGCAGCCTCCTGCT
* * **
69521986 GAGTTGGGGTAGACTGTTGCT
1 GAGTTGGGGCAGCCTCCTGCT
69522007 GAGTTGGGGCA
1 GAGTTGGGGCA
69522018 ACTACTTAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.15, C:0.20, G:0.39, T:0.26
Consensus pattern (21 bp):
GAGTTGGGGCAGCCTCCTGCT
Found at i:69525417 original size:21 final size:21
Alignment explanation
Indices: 69525393--69525432 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
69525383 CAACGTGATA
69525393 AGTTAAC-TGACCACATCAGTT
1 AGTTAACTTG-CCACATCAGTT
69525414 AGTTAACTTGCCACATCAG
1 AGTTAACTTGCCACATCAG
69525433 CAGTCCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (21 bp):
AGTTAACTTGCCACATCAGTT
Found at i:69528150 original size:22 final size:22
Alignment explanation
Indices: 69528122--69528166 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
69528112 CATAATTCAA
69528122 GAATGGGGTATTTGCCTATATG
1 GAATGGGGTATTTGCCTATATG
69528144 GAATGGGGTATTTGCCTATATG
1 GAATGGGGTATTTGCCTATATG
69528166 G
1 G
69528167 TTTCATCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.33, T:0.36
Consensus pattern (22 bp):
GAATGGGGTATTTGCCTATATG
Found at i:69534037 original size:23 final size:21
Alignment explanation
Indices: 69534011--69534051 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
69534001 ATTCAAATTA
69534011 TATATATTATGATTTTAGTAT
1 TATATATTATGATTTTAGTAT
69534032 TATATATTATGATTTTAGTA
1 TATATATTATGATTTTAGTA
69534052 AATTCATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (21 bp):
TATATATTATGATTTTAGTAT
Found at i:69553603 original size:24 final size:24
Alignment explanation
Indices: 69553571--69553619 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
69553561 CATTTGTTTT
69553571 TGAACAATTTGAAGTATGTGAATC
1 TGAACAATTTGAAGTATGTGAATC
69553595 TGAACAATTTGAAGTATGTGAATC
1 TGAACAATTTGAAGTATGTGAATC
69553619 T
1 T
69553620 TACTTATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (24 bp):
TGAACAATTTGAAGTATGTGAATC
Found at i:69559070 original size:23 final size:22
Alignment explanation
Indices: 69559044--69559095 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
69559034 AATTCTAGTC
*
69559044 CATTTAGGCACTAAAACGTACCA
1 CATTTAGCCA-TAAAACGTACCA
* *
69559067 CATTTAGCCATTAAATGTACCA
1 CATTTAGCCATAAAACGTACCA
69559089 CATTTAG
1 CATTTAG
69559096 TCATTTCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.29
Consensus pattern (22 bp):
CATTTAGCCATAAAACGTACCA
Found at i:69563099 original size:29 final size:29
Alignment explanation
Indices: 69563064--69563125 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
69563054 AATTTCCATT
69563064 AACATACAAAATACGAATACAATATTCCA
1 AACATACAAAATACGAATACAATATTCCA
69563093 AACATACAAAATACGAATACAATATTCCA
1 AACATACAAAATACGAATACAATATTCCA
69563122 AACA
1 AACA
69563126 CACATGTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.19
Consensus pattern (29 bp):
AACATACAAAATACGAATACAATATTCCA
Found at i:69564155 original size:22 final size:22
Alignment explanation
Indices: 69564129--69564172 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
69564119 CCCTAAAGAG
69564129 AACGACAATCGACAACGAGTTT
1 AACGACAATCGACAACGAGTTT
69564151 AACGACAATCGACAACGAGTTT
1 AACGACAATCGACAACGAGTTT
69564173 GGCGAAGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (22 bp):
AACGACAATCGACAACGAGTTT
Found at i:69573689 original size:46 final size:48
Alignment explanation
Indices: 69573622--69573755 Score: 191
Period size: 46 Copynumber: 2.8 Consensus size: 48
69573612 GTTATCATGG
* *
69573622 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTAAAAATAAAT-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAAATA
* * ***
69573669 C-AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAAATGGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAAATA
69573716 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
69573756 GCCGCAAACC
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
46 38 0.50
47 2 0.03
48 36 0.47
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (48 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAAATA
Found at i:69573740 original size:48 final size:45
Alignment explanation
Indices: 69573622--69573784 Score: 179
Period size: 46 Copynumber: 3.6 Consensus size: 45
69573612 GTTATCATGG
* * **
69573622 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTAAAAATAAAT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAAT-GCT
*
69573669 C-AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAAATGGCT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAAT-GCT
*
69573715 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAA-GCCG
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATG-CT
* *
69573760 CAAACCTTATCTCTCTGAAGTTGCA
1 CAAATCTTATCTCCCTGAAGTTGCA
69573785 ATAGAGTAGG
Statistics
Matches: 102, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
44 24 0.24
45 1 0.01
46 41 0.40
47 2 0.02
48 34 0.33
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGCT
Found at i:69573935 original size:44 final size:43
Alignment explanation
Indices: 69573830--69574213 Score: 208
Period size: 44 Copynumber: 8.7 Consensus size: 43
69573820 TAAATTTCAG
* ** * *
69573830 ATCTTATCTCTCTGAAGTTGCAGTAAAGCAGA-T-CATAT-CA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* *
69573870 AACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
1 ATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* *
69573915 ATCTTATCTCCTTGAAGTTGCAGTGGAGCATATTGAA-ATTACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACA
* * *
69573958 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAAATA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT--ACA
* * * * *
69574004 ATCCTATCTCACTGAAGTTGCAGTGGAGCGGATTAAAACGAT-GA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAA-GATACA
* * * * * * *
69574048 ATCCTATATCTCTGAAGTTGCAAT-AAGTCAGATTAAATCTACCATAACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATT-GA---A-GAT-ACA
* * *
69574097 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAACCACAA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TAC-A
** *** * *
69574142 ATCTCGTC-CCCTTGAAGTTGCAACAGAGTAGATTGAAGCTACAA
1 ATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTGAAGATAC-A
* *
69574186 ATCGTATCTCTCTGAAGTTGCAGTGGAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAG
69574214 TGAATCGAAG
Statistics
Matches: 264, Mismatches: 55, Indels: 46
0.72 0.15 0.13
Matches are distributed among these distances:
40 2 0.01
41 25 0.09
42 1 0.00
43 12 0.05
44 143 0.54
45 40 0.15
46 5 0.02
47 7 0.03
48 1 0.00
49 2 0.01
50 24 0.09
51 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
Found at i:69574066 original size:89 final size:88
Alignment explanation
Indices: 69573879--69574069 Score: 206
Period size: 89 Copynumber: 2.2 Consensus size: 88
69573869 AAACATTATC
** * *
69573879 TCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCTTGAAGTTGCAGTGGAGC
1 TCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAATCCTATCTCCTTGAAGTTGCAGTGGAGC
* * ** * *
69573944 ATATTGAAATTACAAGTCTTATC
66 AGATTAAAACGACAAGTCCTATA
* *
69573967 TCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAAATAATCCTATCTCAC-TGAAGTTGCAGTGGA
1 TCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AACAATCCTATCTC-CTTGAAGTTGCAGTGGA
* *
69574031 GCGGATTAAAACGATGAA-TCCTATA
64 GCAGATTAAAACGA-CAAGTCCTATA
*
69574056 TCTCTGAAGTTGCA
1 TCCCTGAAGTTGCA
69574070 ATAAGTCAGA
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
88 29 0.35
89 52 0.62
90 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (88 bp):
TCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAATCCTATCTCCTTGAAGTTGCAGTGGAGC
AGATTAAAACGACAAGTCCTATA
Found at i:69575867 original size:19 final size:19
Alignment explanation
Indices: 69575843--69575887 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
69575833 TGAATGGAAT
69575843 ATTTTA-TTCATAAATTATC
1 ATTTTAGTTC-TAAATTATC
*
69575862 ATTTTATGTTCTATATTATC
1 ATTTTA-GTTCTAAATTATC
69575882 ATTTTA
1 ATTTTA
69575888 CTTTATTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 14 0.61
21 3 0.13
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTTAGTTCTAAATTATC
Found at i:69583823 original size:17 final size:17
Alignment explanation
Indices: 69583803--69583846 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
69583793 TTCATAAACA
69583803 TATATCATTCATTTCAT-
1 TATATCATT-ATTTCATG
*
69583820 TATATCAATATTTCATG
1 TATATCATTATTTCATG
69583837 TATCATCATT
1 TAT-ATCATT
69583847 TTTATGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 7 0.30
17 11 0.48
18 5 0.22
ACGTcount: A:0.32, C:0.16, G:0.02, T:0.50
Consensus pattern (17 bp):
TATATCATTATTTCATG
Found at i:69594599 original size:2 final size:2
Alignment explanation
Indices: 69594592--69594622 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
69594582 ATCTATAAGA
69594592 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
69594623 CAAAGATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:69594643 original size:99 final size:99
Alignment explanation
Indices: 69594529--69594729 Score: 393
Period size: 99 Copynumber: 2.0 Consensus size: 99
69594519 TTTTGATAAA
69594529 ATAAACCTTGGATTTGTTTGTCATTTCATTCGTAGAGTTTAAATTTTATCTTAATCTATAAGAAT
1 ATAAACCTTGGATTTGTTTGTCATTTCATTCGTAGAGTTTAAATTTTATCTTAATCTATAAGAAT
*
69594594 ATATATATATATATATATATATATATATACAAAG
66 ATATATATATATATATATATATATATATAAAAAG
69594628 ATAAACCTTGGATTTGTTTGTCATTTCATTCGTAGAGTTTAAATTTTATCTTAATCTATAAGAAT
1 ATAAACCTTGGATTTGTTTGTCATTTCATTCGTAGAGTTTAAATTTTATCTTAATCTATAAGAAT
69594693 ATATATATATATATATATATATATATATAAAAAG
66 ATATATATATATATATATATATATATATAAAAAG
69594727 ATA
1 ATA
69594730 TGGCAAGGCA
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 101 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.44
Consensus pattern (99 bp):
ATAAACCTTGGATTTGTTTGTCATTTCATTCGTAGAGTTTAAATTTTATCTTAATCTATAAGAAT
ATATATATATATATATATATATATATATAAAAAG
Found at i:69594698 original size:2 final size:2
Alignment explanation
Indices: 69594691--69594721 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
69594681 ATCTATAAGA
69594691 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
69594722 AAAAGATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:69595258 original size:40 final size:41
Alignment explanation
Indices: 69595203--69595291 Score: 153
Period size: 41 Copynumber: 2.2 Consensus size: 41
69595193 AAATACATCA
* *
69595203 TTTTCATTTGTTATCCTTTT-GGATAACATCCTTTTCAACC
1 TTTTCATTTGATATCCTTTTCGAATAACATCCTTTTCAACC
69595243 TTTTCATTTGATATCCTTTTCGAATAACATCCTTTTCAACC
1 TTTTCATTTGATATCCTTTTCGAATAACATCCTTTTCAACC
69595284 TTTTCATT
1 TTTTCATT
69595292 AATTCAGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 19 0.41
41 27 0.59
ACGTcount: A:0.21, C:0.22, G:0.06, T:0.51
Consensus pattern (41 bp):
TTTTCATTTGATATCCTTTTCGAATAACATCCTTTTCAACC
Found at i:69599633 original size:41 final size:41
Alignment explanation
Indices: 69599573--69599854 Score: 218
Period size: 41 Copynumber: 6.9 Consensus size: 41
69599563 GATACACTAG
* *
69599573 CACGAAGCCTATTAAGCTCAAAGCCTGATATAACACACTGA
1 CACGAAGCCTGTTAGGCTCAAAGCCTGATATAACACACTGA
* *
69599614 CACGATGCCTGTTAGGCTCAAAGCCTGATATAACACACCGA
1 CACGAAGCCTGTTAGGCTCAAAGCCTGATATAACACACTGA
* * * * * * *
69599655 TATGAAGCCT-TCTAGGCACAAAGCTTAATATAATACACTGG
1 CACGAAGCCTGT-TAGGCTCAAAGCCTGATATAACACACTGA
* * *
69599696 CACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACTGA
1 CACGAAGCCTGTTAGGCTCAAAGCCTGATATAACACACTGA
* *
69599737 CATGAAGCCTGCTAGG-TACAAAGCCTGATA-ATACAC-C-GA
1 CACGAAGCCTGTTAGGCT-CAAAGCCTGATATA-ACACACTGA
* ** * * *
69599776 CTCGAAGCCTACTAGGCAT-AAATCCTGATATAATACA-TAA
1 CACGAAGCCTGTTAGGC-TCAAAGCCTGATATAACACACTGA
** * * * *
69599816 GCATAAAGTCTGCTAGGCACAAAGCCTGATATAATACAC
1 -CACGAAGCCTGTTAGGCTCAAAGCCTGATATAACACAC
69599855 CGGCACAAAT
Statistics
Matches: 194, Mismatches: 35, Indels: 23
0.77 0.14 0.09
Matches are distributed among these distances:
39 28 0.14
40 5 0.03
41 161 0.83
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (41 bp):
CACGAAGCCTGTTAGGCTCAAAGCCTGATATAACACACTGA
Found at i:69599810 original size:80 final size:80
Alignment explanation
Indices: 69599591--69599856 Score: 266
Period size: 82 Copynumber: 3.2 Consensus size: 80
69599581 CTATTAAGCT
* ** * * *
69599591 CAAAGCCTGAT-ATAACACACTGACACGATGCCTGTTAGGCTCAAAGCCTGATATAACACACCGA
1 CAAAGCCTGATAAT-ACAC-C-GACACGAAGCCTACTAGGCACAAAGCCTGATATAATACACTGA
* *
69599655 TATGAAGCCTTCTAGGCA
63 CATGAAGCCTGCTAGGCA
* * * * *
69599673 CAAAGCTTAATATAATACACTGGCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACTGAC
1 CAAAGCCT--GATAATACACCGACACGAAGCCTACTAGGCACAAAGCCTGATATAATACACTGAC
*
69599738 ATGAAGCCTGCTAGGTA
64 ATGAAGCCTGCTAGGCA
* * * *
69599755 CAAAGCCTGATAATACACCGACTCGAAGCCTACTAGGCATAAATCCTGATATAATACA-TAAGCA
1 CAAAGCCTGATAATACACCGACACGAAGCCTACTAGGCACAAAGCCTGATATAATACACTGA-CA
* *
69599819 TAAAGTCTGCTAGGCA
65 TGAAGCCTGCTAGGCA
69599835 CAAAGCCTGATATAATACACCG
1 CAAAGCCTG--ATAATACACCG
69599857 GCACAAATCC
Statistics
Matches: 154, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
79 2 0.01
80 67 0.44
82 77 0.50
84 6 0.04
85 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (80 bp):
CAAAGCCTGATAATACACCGACACGAAGCCTACTAGGCACAAAGCCTGATATAATACACTGACAT
GAAGCCTGCTAGGCA
Found at i:69599834 original size:121 final size:122
Alignment explanation
Indices: 69599564--69599854 Score: 338
Period size: 121 Copynumber: 2.4 Consensus size: 122
69599554 AACTTACCTG
* ** * * * * *
69599564 ATACACTAGCACGAAGCCTATTAAGCTCAAAGCCTGATATAACACACTGACACGATGCCTGTTAG
1 ATACACTAGCACAAAGCCTGCTAGGCACAAAGCCTGATATAATACACTGACACGAAGCCTGCTAG
* * *
69599629 GCTCAAAGCCTGATATAACACACCGATATGAAGCCTTCTAGGCACAAAGCTTAATATA
66 GCTCAAAGCCTGA-ATAACACACCGATACGAAGCCTACTAGGCACAAAGCCTAATATA
* * *
69599687 ATACACTGGCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACTGACATGAAGCCTGCTAG
1 ATACACTAGCACAAAGCCTGCTAGGCACAAAGCCTGATATAATACACTGACACGAAGCCTGCTAG
* * * *
69599752 G-TACAAAGCCTG-ATAATACACCGACT-CGAAGCCTACTAGGCATAAATCCTGATATA
66 GCT-CAAAGCCTGAATAACACACCGA-TACGAAGCCTACTAGGCACAAAGCCTAATATA
* *
69599808 ATACA-TAAGCATAAAGTCTGCTAGGCACAAAGCCTGATATAATACAC
1 ATACACT-AGCACAAAGCCTGCTAGGCACAAAGCCTGATATAATACAC
69599855 CGGCACAAAT
Statistics
Matches: 145, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
120 1 0.01
121 76 0.52
122 2 0.01
123 66 0.46
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (122 bp):
ATACACTAGCACAAAGCCTGCTAGGCACAAAGCCTGATATAATACACTGACACGAAGCCTGCTAG
GCTCAAAGCCTGAATAACACACCGATACGAAGCCTACTAGGCACAAAGCCTAATATA
Found at i:69599859 original size:25 final size:25
Alignment explanation
Indices: 69599831--69599884 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
69599821 AAGTCTGCTA
*
69599831 GGCACAAAGCCTGATATAATACACC
1 GGCACAAAGCCTAATATAATACACC
* *
69599856 GGCACAAATCCTAATATAATACATC
1 GGCACAAAGCCTAATATAATACACC
69599881 GGCA
1 GGCA
69599885 TGAAGCTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.19
Consensus pattern (25 bp):
GGCACAAAGCCTAATATAATACACC
Found at i:69599932 original size:66 final size:66
Alignment explanation
Indices: 69599791--69599933 Score: 198
Period size: 66 Copynumber: 2.2 Consensus size: 66
69599781 AGCCTACTAG
*
69599791 GCATAAATCCTGATATAATACATAAGCATAAAGTCTGCTAGGCACAAAGCCTGATATAATACACC
1 GCATAAATCCTAATATAATACATAAGCATAAAGTCTGCTAGGCACAAAGCCTGATATAATACACC
*
69599856 G
66 A
* ** * *
69599857 GCACAAATCCTAATATAATACATCGGCATGAAG-CTTGCTAGGCACAAAGCTTGATATAATACAC
1 GCATAAATCCTAATATAATACATAAGCATAAAGTC-TGCTAGGCACAAAGCCTGATATAATACAC
69599921 CA
65 CA
*
69599923 GCATGAATCCT
1 GCATAAATCCT
69599934 GGTAGGCATA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
65 1 0.01
66 66 0.99
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.23
Consensus pattern (66 bp):
GCATAAATCCTAATATAATACATAAGCATAAAGTCTGCTAGGCACAAAGCCTGATATAATACACC
A
Found at i:69599983 original size:148 final size:146
Alignment explanation
Indices: 69599710--69600016 Score: 381
Period size: 148 Copynumber: 2.1 Consensus size: 146
69599700 AAGCCTGCTA
* *
69599710 GGCACAAAGCCTGATATAATACACTGACATGAAGCCTGCTAGGTACAAAGCCTGATAATACACCG
1 GGCACAAAGCCTAATATAATACACTGACATGAAGCCTGCTAGGCACAAAGCCTGATAATACACCG
* *
69599775 ACTCGAAGCCTACTAGGCATAAATCCTGATATAATACATAAGCATAAAGTCTGCTAGGCACAAAG
66 ACTCGAAGCCTACTAGGCATAAAGCCTGATATAATACATAAGCACAAAGTCTGCTAGGCACAAAG
69599840 CCTGATATAATACACC
131 CCTGATATAATACACC
* * * *
69599856 GGCACAAATCCTAATATAATACA-TCGGCATGAAGCTTGCTAGGCACAAAGCTTGATATAATACA
1 GGCACAAAGCCTAATATAATACACT-GACATGAAGCCTGCTAGGCACAAAGCCTG--ATAATACA
* ** *
69599920 CC-AGCAT-GAATCCTGGTAGGCATAAAGCCTGATATAATACACT-AGCACGAA-TCCTGCTAGG
63 CCGA-C-TCGAAGCCTACTAGGCATAAAGCCTGATATAATACA-TAAGCACAAAGT-CTGCTAGG
**
69599981 CACAAAGCCTGATATAATACATT
124 CACAAAGCCTGATATAATACACC
*
69600004 GGCACGAAGCCTA
1 GGCACAAAGCCTA
69600017 CTAGGCATAA
Statistics
Matches: 138, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
145 1 0.01
146 46 0.33
147 2 0.01
148 87 0.63
149 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (146 bp):
GGCACAAAGCCTAATATAATACACTGACATGAAGCCTGCTAGGCACAAAGCCTGATAATACACCG
ACTCGAAGCCTACTAGGCATAAAGCCTGATATAATACATAAGCACAAAGTCTGCTAGGCACAAAG
CCTGATATAATACACC
Found at i:69600022 original size:82 final size:82
Alignment explanation
Indices: 69599886--69600097 Score: 280
Period size: 82 Copynumber: 2.6 Consensus size: 82
69599876 ACATCGGCAT
* *** * **
69599886 GAAGCTTGCTAGGCACAAAGCTTGATATAATACACCAGCATGAATCCTGGTAGGCATAAAGCCTG
1 GAAGCCTGCTAGGCACAAAGCTTGATATAATACAATGGCATGAAGCCTACTAGGCATAAAGCCTG
* *
69599951 ATATAATACACTAGCAC
66 ATATAATACACCAACAC
* * * * *
69599968 GAATCCTGCTAGGCACAAAGCCTGATATAATACATTGGCACGAAGCCTACTAGGCATAAAGCTTG
1 GAAGCCTGCTAGGCACAAAGCTTGATATAATACAATGGCATGAAGCCTACTAGGCATAAAGCCTG
69600033 ATATAATACACCAACAC
66 ATATAATACACCAACAC
* *
69600050 GAAGCTTGTTAGGCACAAAGCTTGATATAATACAATGGCATGAAGCCT
1 GAAGCCTGCTAGGCACAAAGCTTGATATAATACAATGGCATGAAGCCT
69600098 GCAGGACTTA
Statistics
Matches: 111, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
82 111 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (82 bp):
GAAGCCTGCTAGGCACAAAGCTTGATATAATACAATGGCATGAAGCCTACTAGGCATAAAGCCTG
ATATAATACACCAACAC
Found at i:69600035 original size:123 final size:123
Alignment explanation
Indices: 69599856--69600083 Score: 330
Period size: 123 Copynumber: 1.9 Consensus size: 123
69599846 ATAATACACC
* * * *
69599856 GGCACAAATCCTAATATAATACATCGGCATGAAGCTTGCTAGGCACAAAGCTTGATATAATACAC
1 GGCACAAAGCCTAATATAATACATCGGCACGAAGCCTACTAGGCACAAAGCTTGATATAATACAC
* * * *
69599921 CAGCATGAATCCTGGTAGGCATAAAGCCTGATATAATACACTAGCACGAATCCTGCTA
66 CAACACGAAGCCTGGTAGGCACAAAGCCTGATATAATACACTAGCACGAATCCTGCTA
* * *
69599979 GGCACAAAGCCTGATATAATACATTGGCACGAAGCCTACTAGGCATAAAGCTTGATATAATACAC
1 GGCACAAAGCCTAATATAATACATCGGCACGAAGCCTACTAGGCACAAAGCTTGATATAATACAC
* * *
69600044 CAACACGAAGCTTGTTAGGCACAAAGCTTGATATAATACA
66 CAACACGAAGCCTGGTAGGCACAAAGCCTGATATAATACA
69600084 ATGGCATGAA
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
123 91 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (123 bp):
GGCACAAAGCCTAATATAATACATCGGCACGAAGCCTACTAGGCACAAAGCTTGATATAATACAC
CAACACGAAGCCTGGTAGGCACAAAGCCTGATATAATACACTAGCACGAATCCTGCTA
Found at i:69600095 original size:41 final size:41
Alignment explanation
Indices: 69599869--69600099 Score: 248
Period size: 41 Copynumber: 5.6 Consensus size: 41
69599859 ACAAATCCTA
* * *
69599869 ATATAATACA-TCGGCATGAAGCTTGCTAGGCACAAAGCTTG
1 ATATAATACACT-AGCACGAAGCCTGCTAGGCACAAAGCTTG
* * * * * *
69599910 ATATAATACACCAGCATGAATCCTGGTAGGCATAAAGCCTG
1 ATATAATACACTAGCACGAAGCCTGCTAGGCACAAAGCTTG
* *
69599951 ATATAATACACTAGCACGAATCCTGCTAGGCACAAAGCCTG
1 ATATAATACACTAGCACGAAGCCTGCTAGGCACAAAGCTTG
* * * *
69599992 ATATAATACATTGGCACGAAGCCTACTAGGCATAAAGCTTG
1 ATATAATACACTAGCACGAAGCCTGCTAGGCACAAAGCTTG
* * * *
69600033 ATATAATACACCAACACGAAGCTTGTTAGGCACAAAGCTTG
1 ATATAATACACTAGCACGAAGCCTGCTAGGCACAAAGCTTG
* * *
69600074 ATATAATACAATGGCATGAAGCCTGC
1 ATATAATACACTAGCACGAAGCCTGC
69600100 AGGACTTAGT
Statistics
Matches: 157, Mismatches: 32, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
41 157 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.23
Consensus pattern (41 bp):
ATATAATACACTAGCACGAAGCCTGCTAGGCACAAAGCTTG
Found at i:69603356 original size:32 final size:32
Alignment explanation
Indices: 69603278--69603362 Score: 93
Period size: 32 Copynumber: 2.6 Consensus size: 32
69603268 TCTGTAAAAT
* * *
69603278 GATTTACTGGAAAATATTTTCTGGTGTTTGGTA
1 GATTT-CTTGAAAATATTTTCTGCTGTTTGGCA
*
69603311 -A-ATCTGTGTAAAATATTTTCTGCTGTTTGGCA
1 GATTTCT-TG-AAAATATTTTCTGCTGTTTGGCA
69603343 GATTTCTTGAAAATATTTTC
1 GATTTCTTGAAAATATTTTC
69603363 CGAAAAGTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
30 2 0.05
31 2 0.05
32 33 0.77
33 3 0.07
34 3 0.07
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (32 bp):
GATTTCTTGAAAATATTTTCTGCTGTTTGGCA
Found at i:69603402 original size:14 final size:14
Alignment explanation
Indices: 69603383--69603410 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
69603373 TTTTTACATA
69603383 TATTAATATATATT
1 TATTAATATATATT
69603397 TATTAATATATATT
1 TATTAATATATATT
69603411 AATAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTAATATATATT
Found at i:69607307 original size:28 final size:27
Alignment explanation
Indices: 69607275--69607342 Score: 97
Period size: 25 Copynumber: 2.6 Consensus size: 27
69607265 AAGCTTTGAG
69607275 GAATGGAAAATGTCTGCTGCTTAGA-AGA
1 GAATGGAAAATGTCT-CTGCTTAGAGA-A
69607303 GAATGGAAAATG--TCTGCTTAGAGAA
1 GAATGGAAAATGTCTCTGCTTAGAGAA
69607328 GAATGGAAAATGTCT
1 GAATGGAAAATGTCT
69607343 TACCAATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
25 22 0.59
26 2 0.05
27 1 0.03
28 12 0.32
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.25
Consensus pattern (27 bp):
GAATGGAAAATGTCTCTGCTTAGAGAA
Found at i:69619161 original size:12 final size:12
Alignment explanation
Indices: 69619144--69619169 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
69619134 TCTGAATCAT
69619144 ACATTCAGATTG
1 ACATTCAGATTG
69619156 ACATTCAGATTG
1 ACATTCAGATTG
69619168 AC
1 AC
69619170 CATCCGTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (12 bp):
ACATTCAGATTG
Found at i:69623843 original size:50 final size:50
Alignment explanation
Indices: 69623736--69623973 Score: 255
Period size: 50 Copynumber: 4.7 Consensus size: 50
69623726 ATTTGGGTAA
69623736 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATG
* *
69623792 AGAGGTCCCATGTAAGACCATGTCTGGGACGTGGCATTGGCACTGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* ** * * * *
69623842 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATAGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * * *
69623892 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGT-ACACG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* *
69623941 AAACATCCCATGTAAGACCATGTCTGGGACATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATG
69623974 TAAGAACATA
Statistics
Matches: 157, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
49 31 0.20
50 81 0.52
53 4 0.03
55 1 0.01
56 40 0.25
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:69631223 original size:25 final size:25
Alignment explanation
Indices: 69631195--69631247 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
69631185 CGTACAAGCT
**
69631195 TACCGATTCGTAGCTCGTGAGAGCA
1 TACCGATTCACAGCTCGTGAGAGCA
* *
69631220 TACCGATTCACAGCTTGTGTGAGCA
1 TACCGATTCACAGCTCGTGAGAGCA
69631245 TAC
1 TAC
69631248 ATGTACATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (25 bp):
TACCGATTCACAGCTCGTGAGAGCA
Found at i:69637271 original size:25 final size:25
Alignment explanation
Indices: 69637243--69637315 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
69637233 GGACACACCA
69637243 CAGCTCGTATGAGCTTACAGATTAG
1 CAGCTCGTATGAGCTTACAGATTAG
* **
69637268 CAGCTCGTGA-GAGGTTACCA-ATTCT
1 CAGCTCGT-ATGAGCTTA-CAGATTAG
*
69637293 CAGCTCGTATGAGCTTACTGATT
1 CAGCTCGTATGAGCTTACAGATT
69637316 TAAAGCTCGT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
24 2 0.05
25 34 0.87
26 3 0.08
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACAGATTAG
Found at i:69637322 original size:25 final size:25
Alignment explanation
Indices: 69637294--69637353 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
69637284 ACCAATTCTC
** *
69637294 AGCTCGTATGAGCTTACTGATTTAA
1 AGCTCGTATGAGAATACTGATTCAA
*
69637319 AGCTCGTGA-GAGAATACTGATTCAT
1 AGCTCGT-ATGAGAATACTGATTCAA
69637344 AGCTCGTATG
1 AGCTCGTATG
69637354 GGTATACTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 27 0.93
26 1 0.03
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (25 bp):
AGCTCGTATGAGAATACTGATTCAA
Found at i:69637348 original size:50 final size:50
Alignment explanation
Indices: 69637243--69637353 Score: 136
Period size: 50 Copynumber: 2.2 Consensus size: 50
69637233 GGACACACCA
* **
69637243 CAGCTCGTATGAGCTTACAGATTAGCAGCTCGTGAGAGGTTACCAATTCT
1 CAGCTCGTATGAGCTTACAGATTAGAAGCTCGTGAGAGAATACCAATTCT
* **
69637293 CAGCTCGTATGAGCTTACTGATTTA-AAGCTCGTGAGAGAATACTGATTCAT
1 CAGCTCGTATGAGCTTACAGA-TTAGAAGCTCGTGAGAGAATACCAATTC-T
69637344 -AGCTCGTATG
1 CAGCTCGTATG
69637354 GGTATACTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 49 0.92
51 4 0.08
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACAGATTAGAAGCTCGTGAGAGAATACCAATTCT
Found at i:69637573 original size:248 final size:248
Alignment explanation
Indices: 69637118--69637595 Score: 726
Period size: 248 Copynumber: 1.9 Consensus size: 248
69637108 GCTACTATAG
* * *
69637118 GCATATTCGATGACGTACGACGATTATCGAGCCCTTTTTGAACCTTAGGAATTTATAGGATACAA
1 GCATATTCGATGACGTACGACGATTATCGAGCCCTGTTTGAACCTTAAGAATTCATAGGATACAA
*
69637183 TTGACATGTCATTAGGGTTACCGATTTGGTTGAGGTCCTGCATGTGTTACGGACACACCACAGCT
66 ATGACATGTCATTAGGGTTACCGATTTGGTTGAGGTCCTGCATGTGTTACGGACACACCACAGCT
* *
69637248 CGTATGAGCTTACAGATTAGCAGCTCGTGAGAGGTTACCAATTCTCAGCTCGTATGAGCTTACTG
131 CGTATGAGCTTACAGATTAGCAGCTCGTGAGAGCTTACCAATTCTCAGCTCGTATGAGCTTACCG
* *
69637313 ATTTAAAGCTCGTGAGAGAATACTGATTCATAGCTCGTATGGGTATACTAATT
196 ATTTAAAGCTCGTGAGAGAATACCGATTCACAGCTCGTATGGGTATACTAATT
* *
69637366 GCATA-TCTGATGACGTACGATGATTATCGAGCCCTGTTTGAACCTTAAGAATTCATAGGATAGA
1 GCATATTC-GATGACGTACGACGATTATCGAGCCCTGTTTGAACCTTAAGAATTCATAGGATACA
* * *
69637430 AATGACATGTCATTAGGGTTACTGATTTGGTTGAGGTCCTGCATGTGTTACGGACACATCGCAGC
65 AATGACATGTCATTAGGGTTACCGATTTGGTTGAGGTCCTGCATGTGTTACGGACACACCACAGC
* * ** ** *
69637495 TCGTATGAGCTTACCA-ATTTGTAGCTCGTGAGAGCTTACTGATTCTCATTTTGTATGAGCTTAC
130 TCGTATGAGCTTA-CAGATTAGCAGCTCGTGAGAGCTTACCAATTCTCAGCTCGTATGAGCTTAC
* *
69637559 CGATTTACAGCTCGTGAGAGCATACCGATTCACAGCT
194 CGATTTAAAGCTCGTGAGAGAATACCGATTCACAGCT
69637596 TGTGTGAGCA
Statistics
Matches: 206, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
247 2 0.01
248 202 0.98
249 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (248 bp):
GCATATTCGATGACGTACGACGATTATCGAGCCCTGTTTGAACCTTAAGAATTCATAGGATACAA
ATGACATGTCATTAGGGTTACCGATTTGGTTGAGGTCCTGCATGTGTTACGGACACACCACAGCT
CGTATGAGCTTACAGATTAGCAGCTCGTGAGAGCTTACCAATTCTCAGCTCGTATGAGCTTACCG
ATTTAAAGCTCGTGAGAGAATACCGATTCACAGCTCGTATGGGTATACTAATT
Found at i:69637579 original size:25 final size:25
Alignment explanation
Indices: 69637491--69637604 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
69637481 GGACACATCG
* *
69637491 CAGCTCGT-ATGAGCTTACCAATTTG
1 CAGCTCGTGA-GAGCTTACCGATTTA
* *
69637516 TAGCTCGTGAGAGCTTACTGATTCT-
1 CAGCTCGTGAGAGCTTACCGATT-TA
** *
69637541 CATTTTGT-ATGAGCTTACCGATTTA
1 CAGCTCGTGA-GAGCTTACCGATTTA
* *
69637566 CAGCTCGTGAGAGCATACCGATTCA
1 CAGCTCGTGAGAGCTTACCGATTTA
* *
69637591 CAGCTTGTGTGAGC
1 CAGCTCGTGAGAGC
69637605 ATACATGTAC
Statistics
Matches: 69, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
24 2 0.03
25 64 0.93
26 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (25 bp):
CAGCTCGTGAGAGCTTACCGATTTA
Found at i:69637604 original size:50 final size:50
Alignment explanation
Indices: 69637491--69637604 Score: 138
Period size: 50 Copynumber: 2.3 Consensus size: 50
69637481 GGACACATCG
* ** * * *
69637491 CAGCTCGTATGAGCTTACCAATTTGTAGCTCGTGAGAGCTTACTGATTCT
1 CAGCTTGTATGAGCTTACCAATTTACAGCTCGTGAGAGCATACCGATTCA
** *
69637541 CATTTTGTATGAGCTTACCGATTTACAGCTCGTGAGAGCATACCGATTCA
1 CAGCTTGTATGAGCTTACCAATTTACAGCTCGTGAGAGCATACCGATTCA
*
69637591 CAGCTTGTGTGAGC
1 CAGCTTGTATGAGC
69637605 ATACATGTAC
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (50 bp):
CAGCTTGTATGAGCTTACCAATTTACAGCTCGTGAGAGCATACCGATTCA
Found at i:69637605 original size:25 final size:25
Alignment explanation
Indices: 69637545--69637608 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
69637535 GATTCTCATT
* * *
69637545 TTGTATGAGCTTACCGATTTACAGC
1 TTGTGTGAGCATACCGATTCACAGC
* *
69637570 TCGTGAGAGCATACCGATTCACAGC
1 TTGTGTGAGCATACCGATTCACAGC
69637595 TTGTGTGAGCATAC
1 TTGTGTGAGCATAC
69637609 ATGTACATGA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (25 bp):
TTGTGTGAGCATACCGATTCACAGC
Found at i:69638770 original size:30 final size:30
Alignment explanation
Indices: 69638735--69638803 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
69638725 GTGTGTCTTA
69638735 GCCGTGTGTGACACATGGCTAGGTGACACG
1 GCCGTGTGTGACACATGGCTAGGTGACACG
*
69638765 GCCGTGTGTGACACATGGCTAGGTTACACG
1 GCCGTGTGTGACACATGGCTAGGTGACACG
69638795 GCCGTGTGT
1 GCCGTGTGT
69638804 CCTTTGTAGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.17, C:0.23, G:0.36, T:0.23
Consensus pattern (30 bp):
GCCGTGTGTGACACATGGCTAGGTGACACG
Found at i:69660471 original size:43 final size:43
Alignment explanation
Indices: 69660409--69660497 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 43
69660399 ACAAACGCCG
* * *
69660409 CTAAAAAACATGACCTTTAGCGGCGCTTCT-CATAAAAATGCCA
1 CTAAAAAACATGACATTTAGCGACACTTCTAC-TAAAAATGCCA
* *
69660452 CTAAAGAACATGACATTTAGTGACACTTCTACTAAAAATGCCA
1 CTAAAAAACATGACATTTAGCGACACTTCTACTAAAAATGCCA
69660495 CTA
1 CTA
69660498 CCTATAAAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 39 0.98
44 1 0.03
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (43 bp):
CTAAAAAACATGACATTTAGCGACACTTCTACTAAAAATGCCA
Found at i:69660911 original size:57 final size:57
Alignment explanation
Indices: 69660823--69660937 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
69660813 CTTACATATC
*
69660823 ATGTTTTTCTTGTAAATTTCGTGAAGCCTAGTAGATTGAAAGTTCAAGTCGGAGCAG
1 ATGTTTTTCTTGTAAATTTCGTGAAGCCTAGTAGATCGAAAGTTCAAGTCGGAGCAG
69660880 ATGTTTTTCTTGTAAATTTCGTGAAGCCTAGTAGATCGAAAGTTCAAGTCGGAGCAG
1 ATGTTTTTCTTGTAAATTTCGTGAAGCCTAGTAGATCGAAAGTTCAAGTCGGAGCAG
69660937 A
1 A
69660938 CACACTATCC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (57 bp):
ATGTTTTTCTTGTAAATTTCGTGAAGCCTAGTAGATCGAAAGTTCAAGTCGGAGCAG
Found at i:69663051 original size:25 final size:25
Alignment explanation
Indices: 69663023--69663097 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
69663013 GCTCTTATGG
*
69663023 GCTTCCCGTTATATAGCTCGGATAA
1 GCTTCCCGTTATATGGCTCGGATAA
* * ** *
69663048 GCTTCCCATTACATGGCTCACATGA
1 GCTTCCCGTTATATGGCTCGGATAA
69663073 GCTTCCCGTTATATGGCTCGAGATA
1 GCTTCCCGTTATATGGCTCG-GATA
69663098 GGACTTCCTA
Statistics
Matches: 38, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
25 36 0.95
26 2 0.05
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (25 bp):
GCTTCCCGTTATATGGCTCGGATAA
Found at i:69663066 original size:50 final size:50
Alignment explanation
Indices: 69662973--69663097 Score: 132
Period size: 50 Copynumber: 2.5 Consensus size: 50
69662963 TGGCTCTTCG
* * * * **
69662973 GAGCTACCCGTTATA-GGCTC-ACATGAGCTTCCCTATTATGGCTCTTAT
1 GAGCTTCCCGTTATATAGCTCGAGATAAGCTTCCCTATTATGGCTCACAT
*
69663021 GGGCTTCCCGTTATATAGCTCG-GATAAGCTTCCC-ATTACATGGCTCACAT
1 GAGCTTCCCGTTATATAGCTCGAGATAAGCTTCCCTATT--ATGGCTCACAT
*
69663071 GAGCTTCCCGTTATATGGCTCGAGATA
1 GAGCTTCCCGTTATATAGCTCGAGATA
69663098 GGACTTCCTA
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
48 16 0.25
49 14 0.22
50 29 0.46
51 4 0.06
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (50 bp):
GAGCTTCCCGTTATATAGCTCGAGATAAGCTTCCCTATTATGGCTCACAT
Found at i:69666483 original size:24 final size:25
Alignment explanation
Indices: 69666456--69666512 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
69666446 ATTAATACTA
*
69666456 TTATTGTTTATGTGTTTATT-TTAT
1 TTATTGTTTATATGTTTATTATTAT
*
69666480 TTATT-TATAATATGTTTATTATTAT
1 TTATTGT-TTATATGTTTATTATTAT
69666505 TTA-TGTTT
1 TTATTGTTT
69666513 GTTTATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
23 1 0.04
24 18 0.67
25 8 0.30
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (25 bp):
TTATTGTTTATATGTTTATTATTAT
Found at i:69667285 original size:94 final size:94
Alignment explanation
Indices: 69667179--69667363 Score: 334
Period size: 94 Copynumber: 2.0 Consensus size: 94
69667169 TATAGTCAAA
*
69667179 ATTAATCAACACAATTACTTAATTTTGTGCTATTTTATCAATAAAAGTTATTTTACCATATGTCT
1 ATTAATCAACACAATTACTTAATTTTGTACTATTTTATCAATAAAAGTTATTTTACCATATGTCT
69667244 ATTAATTCATCTCACAATTATATTTTACT
66 ATTAATTCATCTCACAATTATATTTTACT
* * *
69667273 ATTAATTAACACAATTATTTAATTTTGTACTATTTTATCAATAAAAGTTATTTTACTATATGTCT
1 ATTAATCAACACAATTACTTAATTTTGTACTATTTTATCAATAAAAGTTATTTTACCATATGTCT
69667338 ATTAATTCATCTCACAATTATATTTT
66 ATTAATTCATCTCACAATTATATTTT
69667364 TTTTTTAAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 87 1.00
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.48
Consensus pattern (94 bp):
ATTAATCAACACAATTACTTAATTTTGTACTATTTTATCAATAAAAGTTATTTTACCATATGTCT
ATTAATTCATCTCACAATTATATTTTACT
Found at i:69671299 original size:433 final size:434
Alignment explanation
Indices: 69670488--69671302 Score: 1524
Period size: 433 Copynumber: 1.9 Consensus size: 434
69670478 TATCAATTTA
*
69670488 TATCTTGAACTTAAATGAATTATTCTAATGGAAATAAGAACTTACCTCGGCTAAAACGGTTACTA
1 TATCTTGAACTTAAATGAATTATTCTAATGGAAATAAGAACTTACCTCAGCTAAAACGGTTACTA
*
69670553 AAATGGAGTTGATAACTAGTCTGAAACTTTGGTTTTCCCTCGGTTTAAATTTGATTGCAGCGTTT
66 AAATGGAGTTGATAACTACTCTGAAACTTTGGTTTTCCCTCGGTTTAAATTTGATTGCAGCGTTT
* *
69670618 CTTGATCTAAATAATAATTTAATTCAAATAATACCATTTCAGGACTTAACTAAACAATTTTATAC
131 CTTAATCTAAATAATAATTTAATTCAAATAATACCATTTCAGGACTTAAATAAACAATTTTATAC
* *
69670683 AATTAATGTAACACCTCTTACCCGTATTCGATGCCGGAAAAGGGTACGAGGTATTAGCAGAACAT
196 AATTAATGTAACACCTCTTACCCGTATTCGATGCCGGAAAAGGGTACGAGGTATTACCAAAACAT
*
69670748 ATACACTTTTAACTGTAGTAAACCAAGTTGTAAAATTTCATCTAAATTAAAAATTTCAAGTTGTT
261 ATACACTTTTAACCGTAGTAAACCAAGTTGTAAAATTTCATCTAAATTAAAAATTTCAAGTTGTT
69670813 ATTCTCGAGTCGTTAATTAGGGTTTTCTTGGCTAAATATACTCACAATCTTTCACTTCCTCGTCG
326 ATTCTCGAGTCGTTAATTAGGGTTTTCTTGGCTAAATATACTCACAATCTTTCACTTCCTCGTCG
69670878 TATGAATTTATAAATTTTCACTTGCTTGTTGAATTCGTCCTGAG
391 TATGAATTTATAAATTTTCACTTGCTTGTTGAATTCGTCCTGAG
*
69670922 TATC-TGAACTTAAATGAATTATTTTAATGGAAATAAGAACTTACCTCAGCTAAAACGGTTACTA
1 TATCTTGAACTTAAATGAATTATTCTAATGGAAATAAGAACTTACCTCAGCTAAAACGGTTACTA
69670986 AAATGGAGTTGATAACTACTCTGAAACTTTGGTTTTCCCTCGGTTTAAATTTGATTGCAGCGTTT
66 AAATGGAGTTGATAACTACTCTGAAACTTTGGTTTTCCCTCGGTTTAAATTTGATTGCAGCGTTT
*
69671051 CTTAATCTAAATAATAATTTCATTCAAATAATACCATTTCAGGACTTAAATAAACAATTTTATAC
131 CTTAATCTAAATAATAATTTAATTCAAATAATACCATTTCAGGACTTAAATAAACAATTTTATAC
*
69671116 AATTAATGTAACACCTCTTACCCGTATTCGATGCCGGAATAGGGTACGAGGTATTACCAAAACAT
196 AATTAATGTAACACCTCTTACCCGTATTCGATGCCGGAAAAGGGTACGAGGTATTACCAAAACAT
*
69671181 ATACACTTTTAACCGTAGTAAACCAAGTTGTAAAATTTCATCTAAATTAAAATTTTCAAGTTGTT
261 ATACACTTTTAACCGTAGTAAACCAAGTTGTAAAATTTCATCTAAATTAAAAATTTCAAGTTGTT
69671246 ATTCTCGAGTCGTTAATTAGGGTTTTCTTGGCTAAATATACTCACAATCTTTCACTT
326 ATTCTCGAGTCGTTAATTAGGGTTTTCTTGGCTAAATATACTCACAATCTTTCACTT
69671303 NNNNNNNNNN
Statistics
Matches: 370, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
433 366 0.99
434 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (434 bp):
TATCTTGAACTTAAATGAATTATTCTAATGGAAATAAGAACTTACCTCAGCTAAAACGGTTACTA
AAATGGAGTTGATAACTACTCTGAAACTTTGGTTTTCCCTCGGTTTAAATTTGATTGCAGCGTTT
CTTAATCTAAATAATAATTTAATTCAAATAATACCATTTCAGGACTTAAATAAACAATTTTATAC
AATTAATGTAACACCTCTTACCCGTATTCGATGCCGGAAAAGGGTACGAGGTATTACCAAAACAT
ATACACTTTTAACCGTAGTAAACCAAGTTGTAAAATTTCATCTAAATTAAAAATTTCAAGTTGTT
ATTCTCGAGTCGTTAATTAGGGTTTTCTTGGCTAAATATACTCACAATCTTTCACTTCCTCGTCG
TATGAATTTATAAATTTTCACTTGCTTGTTGAATTCGTCCTGAG
Found at i:69672766 original size:51 final size:48
Alignment explanation
Indices: 69672591--69672766 Score: 185
Period size: 49 Copynumber: 3.5 Consensus size: 48
69672581 TCGATACACG
* * * * * *
69672591 TAGTAGCCTTCATATAATACTACACACTTAATCAAACTTTCCGGTTCACG-
1 TAGTAGCCTGCACATAGTACTACACACGTGATC-AACTATCCGG-T-ACGC
* * *
69672641 TATTAGCCTGCACATAGTACTACACACGTGATCATTAATATCCGATACG-
1 TAGTAGCCTGCACATAGTACTACACACGTGATCA--ACTATCCGGTACGC
69672690 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGC
1 TAGTAGCCTGCACATAGTACTACACACGTGATC-AA-CTATCCGGTACGC
69672740 ATAGTAGCCTGCACATAGTACTACACA
1 -TAGTAGCCTGCACATAGTACTACACA
69672767 TGCGACCTTT
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
48 1 0.01
49 46 0.43
50 29 0.27
51 32 0.30
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (48 bp):
TAGTAGCCTGCACATAGTACTACACACGTGATCAACTATCCGGTACGC
Found at i:69680298 original size:10 final size:10
Alignment explanation
Indices: 69680283--69680311 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
69680273 TCTTTCGAAT
69680283 TTATTACATA
1 TTATTACATA
69680293 TTATTACATA
1 TTATTACATA
69680303 TTATTACAT
1 TTATTACAT
69680312 TCTCTTCCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (10 bp):
TTATTACATA
Found at i:69681589 original size:22 final size:25
Alignment explanation
Indices: 69681563--69681616 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
69681553 TTATAAATTC
69681563 AATTTAAAAG-ATA-TAAT-ACAAT
1 AATTTAAAAGCATATTAATAACAAT
*
69681585 AATTT-CAAGCATATTTAATAACAAT
1 AATTTAAAAGCATA-TTAATAACAAT
69681610 AATTTAA
1 AATTTAA
69681617 TCATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
24 4 0.16
25 10 0.40
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTTAAAAGCATATTAATAACAAT
Found at i:69682247 original size:8 final size:8
Alignment explanation
Indices: 69682230--69682266 Score: 65
Period size: 8 Copynumber: 4.5 Consensus size: 8
69682220 ATAACATAAA
69682230 TTAATAATT
1 TTAAT-ATT
69682239 TTAATATT
1 TTAATATT
69682247 TTAATATT
1 TTAATATT
69682255 TTAATATT
1 TTAATATT
69682263 TTAA
1 TTAA
69682267 AAGTCTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 23 0.82
9 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TTAATATT
Found at i:69689913 original size:15 final size:15
Alignment explanation
Indices: 69689893--69689923 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
69689883 GATATGCAAG
69689893 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
69689908 TGAAAGGTTAAGAGT
1 TGAAAGGTCAAGAGT
69689923 T
1 T
69689924 ATGTTGTTTT
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:0.03, G:0.32, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:69694253 original size:15 final size:15
Alignment explanation
Indices: 69694233--69694263 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
69694223 GTTATGTAAG
69694233 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
69694248 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
69694263 T
1 T
69694264 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:69696458 original size:26 final size:24
Alignment explanation
Indices: 69696422--69696474 Score: 88
Period size: 26 Copynumber: 2.1 Consensus size: 24
69696412 TATTTGTTTT
69696422 AAAAATCAGTTGAATATTAACTTTAA
1 AAAAATCAGTTGAATATTAA--TTAA
69696448 AAAAATCAGTTGAATATTAATTAA
1 AAAAATCAGTTGAATATTAATTAA
69696472 AAA
1 AAA
69696475 TTATTATCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 7 0.26
26 20 0.74
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.32
Consensus pattern (24 bp):
AAAAATCAGTTGAATATTAATTAA
Found at i:69698295 original size:17 final size:16
Alignment explanation
Indices: 69698254--69698296 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 16
69698244 GCGTGTTTTC
*
69698254 AATAGAAATGAAAAAATA
1 AATAGAAA--AAAAAAGA
69698272 AATAGAAAAAAAAAGA
1 AATAGAAAAAAAAAGA
69698288 AATGAGAAA
1 AAT-AGAAA
69698297 CATTCAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 10 0.43
17 5 0.22
18 8 0.35
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (16 bp):
AATAGAAAAAAAAAGA
Found at i:69698391 original size:12 final size:12
Alignment explanation
Indices: 69698370--69698399 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
69698360 AGTTTCCAGA
*
69698370 AAATGGAAATGG
1 AAATGAAAATGG
69698382 AAATGAAAATGG
1 AAATGAAAATGG
69698394 AAATGA
1 AAATGA
69698400 TCCATGTGCA
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:0.57, C:0.00, G:0.27, T:0.17
Consensus pattern (12 bp):
AAATGAAAATGG
Found at i:69698606 original size:26 final size:26
Alignment explanation
Indices: 69698543--69698645 Score: 86
Period size: 26 Copynumber: 4.0 Consensus size: 26
69698533 ACATATTTTC
** *
69698543 TCAAAATTTTACCAGGGACAAAGTCA-
1 TCAAAATTTTATTAGGGACAAAAT-AG
69698569 TCAAAATTTTATTAGGGACAAAATAG
1 TCAAAATTTTATTAGGGACAAAATAG
* * * *
69698595 TCAAAATTTTATCAAAGG-TAAAATTG
1 TCAAAATTTTAT-TAGGGACAAAATAG
* *
69698621 TCAAAATTTTGTT-GGGATAAAATAG
1 TCAAAATTTTATTAGGGACAAAATAG
69698646 GAATGATTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
24 2 0.03
25 8 0.13
26 50 0.79
27 3 0.05
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.31
Consensus pattern (26 bp):
TCAAAATTTTATTAGGGACAAAATAG
Found at i:69707303 original size:27 final size:27
Alignment explanation
Indices: 69707286--69707371 Score: 136
Period size: 27 Copynumber: 3.2 Consensus size: 27
69707276 GGGTATAATA
69707286 GTCATTTTACCCTATAAGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTTG
*
69707313 GTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTTG
** *
69707340 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTTG
69707367 GTCAT
1 GTCAT
69707372 ATTTTGACCT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAAGGGTATTTTG
Found at i:69707317 original size:54 final size:53
Alignment explanation
Indices: 69707259--69707371 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 53
69707249 GGCCATAACA
*
69707259 GTCATTTCATCTCCTA-AGGGTATAATAGTCATTTTACCCTATAAGGGTATTTTG
1 GTCATTTCA-C-CCTAGAGGGTATAATAGTCATTTTACCCTATAAGGGTATTTCG
* ** * **
69707313 GTCATTTTACCCTATGAGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTCACCCTA-GAGGGTATAATAGTCATTTTACCCTATAAGGGTATTTCG
69707367 GTCAT
1 GTCAT
69707372 ATTTTGACCT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
52 4 0.08
53 1 0.02
54 45 0.90
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (53 bp):
GTCATTTCACCCTAGAGGGTATAATAGTCATTTTACCCTATAAGGGTATTTCG
Found at i:69713482 original size:61 final size:61
Alignment explanation
Indices: 69713296--69713475 Score: 186
Period size: 62 Copynumber: 2.9 Consensus size: 61
69713286 TTGGTCTAAT
** * * * * *
69713296 AACAAATTTAGCTATCCAATATTTAC-ACATTAAATCAATTTGATTCAAAATCTAAAAAATTC
1 AACAAATTTAGCCCT-CAATATTTACAAAATT-TATCAATTTGGTTCTAATTCTAAAAAATTC
* * * *
69713358 AACAAATTTAGCCCTCAATGTTTACAAAATTTGTCATTTTAG-TCTAAATTCTAAAAAAATTC
1 AACAAATTTAGCCCTCAATATTTACAAAATTTATCAATTTGGTTCT-AATTCT-AAAAAATTC
*
69713420 AATAAATTTA-CCCTCAATATTTACAAAAATTTATCAATTTGGTTCTAATTCTAAAA
1 AACAAATTTAGCCCTCAATATTTAC-AAAATTTATCAATTTGGTTCTAATTCTAAAA
69713476 TTTTCAAAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
60 2 0.02
61 37 0.38
62 55 0.57
63 3 0.03
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.37
Consensus pattern (61 bp):
AACAAATTTAGCCCTCAATATTTACAAAATTTATCAATTTGGTTCTAATTCTAAAAAATTC
Found at i:69713805 original size:9 final size:10
Alignment explanation
Indices: 69713781--69713817 Score: 74
Period size: 10 Copynumber: 3.7 Consensus size: 10
69713771 TTCATGAAAT
69713781 GAAAAACCTA
1 GAAAAACCTA
69713791 GAAAAACCTA
1 GAAAAACCTA
69713801 GAAAAACCTA
1 GAAAAACCTA
69713811 GAAAAAC
1 GAAAAAC
69713818 TTATTTCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.62, C:0.19, G:0.11, T:0.08
Consensus pattern (10 bp):
GAAAAACCTA
Found at i:69719082 original size:27 final size:27
Alignment explanation
Indices: 69719049--69719220 Score: 265
Period size: 27 Copynumber: 6.4 Consensus size: 27
69719039 TTAAGCATAC
69719049 AGTCATTTTATAACATAGGGGCATAAT
1 AGTCATTTTATAACATAGGGGCATAAT
*
69719076 AGTCATTTTATAATATAGGGGCATAAT
1 AGTCATTTTATAACATAGGGGCATAAT
*
69719103 AGTCATTTTATAACATAGGAGCATAAT
1 AGTCATTTTATAACATAGGGGCATAAT
** *
69719130 CTTCATTTTATAACATAGGGGCATAACC
1 AGTCATTTTATAACATAGGGGCATAA-T
*
69719158 A-TCATTTTATAACATAGGGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAT
*
69719184 CGTCATTTTATAACATAGGGGCATAAT
1 AGTCATTTTATAACATAGGGGCATAAT
69719211 AGTCATTTTA
1 AGTCATTTTA
69719221 CCACGTGAGG
Statistics
Matches: 132, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.01
27 131 0.99
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (27 bp):
AGTCATTTTATAACATAGGGGCATAAT
Found at i:69719251 original size:54 final size:53
Alignment explanation
Indices: 69719049--69719252 Score: 248
Period size: 54 Copynumber: 3.8 Consensus size: 53
69719039 TTAAGCATAC
*
69719049 AGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAATATAGGGGCATAAT
1 AGTCATTTTATAACATA-GGGCATAATAGTCATTTTATAACATAGGGGCATAAT
** *
69719103 AGTCATTTTATAACATAGGAGCATAATCTTCATTTTATAACATAGGGGCATAACC
1 AGTCATTTTATAACATAGG-GCATAATAGTCATTTTATAACATAGGGGCATAA-T
**
69719158 A-TCATTTTATAACATAGGGGCATAACCGTCATTTTATAACATAGGGGCATAAT
1 AGTCATTTTATAACATA-GGGCATAATAGTCATTTTATAACATAGGGGCATAAT
** * * * *
69719211 AGTCATTTTACCACGTGAGGGCGTAATAGTAATTTCATAACA
1 AGTCATTTTATAACAT-AGGGCATAATAGTCATTTTATAACA
69719253 GTTTGGGGGT
Statistics
Matches: 130, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
53 3 0.02
54 123 0.95
55 4 0.03
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (53 bp):
AGTCATTTTATAACATAGGGCATAATAGTCATTTTATAACATAGGGGCATAAT
Found at i:69719251 original size:81 final size:81
Alignment explanation
Indices: 69719049--69719252 Score: 250
Period size: 81 Copynumber: 2.5 Consensus size: 81
69719039 TTAAGCATAC
* * *
69719049 AGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAATATAGGGGCATAATAGTCATTTTAT
1 AGTCATTTTACAACATAGGGGCATAATAGTCATTTTATAACATAGGGGCATAACAGTCATTTTAT
69719114 AACATAGGAGCATAAT
66 AACATAGGAGCATAAT
** * * *
69719130 CTTCATTTTATAACATAGGGGCATAACCA-TCATTTTATAACATAGGGGCATAACCGTCATTTTA
1 AGTCATTTTACAACATAGGGGCATAA-TAGTCATTTTATAACATAGGGGCATAACAGTCATTTTA
*
69719194 TAACATAGGGGCATAAT
65 TAACATAGGAGCATAAT
* * * * *
69719211 AGTCATTTTACCACGT-GAGGGCGTAATAGTAATTTCATAACA
1 AGTCATTTTACAACATAG-GGGCATAATAGTCATTTTATAACA
69719253 GTTTGGGGGT
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
80 2 0.02
81 101 0.97
82 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (81 bp):
AGTCATTTTACAACATAGGGGCATAATAGTCATTTTATAACATAGGGGCATAACAGTCATTTTAT
AACATAGGAGCATAAT
Found at i:69719390 original size:24 final size:23
Alignment explanation
Indices: 69719351--69719404 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
69719341 GTTGGGCCCA
*
69719351 AGGCCCATAATACGAGCCCGTGT
1 AGGCCCATAATACGAGCCCATGT
*
69719374 AGGACCCATAATGCGAGCCCATGT
1 AGG-CCCATAATACGAGCCCATGT
69719398 AGGCCCA
1 AGGCCCA
69719405 CACACTCCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.28, C:0.31, G:0.26, T:0.15
Consensus pattern (23 bp):
AGGCCCATAATACGAGCCCATGT
Found at i:69725539 original size:6 final size:6
Alignment explanation
Indices: 69725528--69725557 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
69725518 GCATTTTTTT
69725528 TCATAA TCATAA TCATAA TCATAA TCATAA
1 TCATAA TCATAA TCATAA TCATAA TCATAA
69725558 ATATGTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
TCATAA
Found at i:69735798 original size:49 final size:49
Alignment explanation
Indices: 69735719--69735908 Score: 213
Period size: 51 Copynumber: 3.8 Consensus size: 49
69735709 AGTGAAAGTG
69735719 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGA-A-T
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-CAGATAGT
* * * **
69735767 GATAGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATTGGATAGT
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-CAGATAGT
* * * * *
69735818 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-CAGATAGT
*
69735869 AATGGTCACATGTGTAGTACTATGTGCAAGCTACTATGTG
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
69735909 AACCGAACAT
Statistics
Matches: 116, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 40 0.34
50 2 0.02
51 73 0.63
52 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACAGATAGT
Found at i:69735848 original size:100 final size:101
Alignment explanation
Indices: 69735723--69735906 Score: 282
Period size: 100 Copynumber: 1.8 Consensus size: 101
69735713 AAAGTGATGG
* *
69735723 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAAT-G-ATAGTCGCATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG-ATGGAATAGTCACATGTGTAGTA
*
69735786 CTATGTGCAGGCTACTATGCGTATTGGATAGTTTCGA
65 CTATGTGCAAGCTACTATGCGTATTGGATAGTTTCGA
* * *
69735823 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGTAATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGG-AATAGTCACATGTGTAGTA
69735888 CTATGTGCAAGCTACTATG
65 CTATGTGCAAGCTACTATG
69735907 TGAACCGAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
99 2 0.03
100 39 0.52
102 34 0.45
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (101 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGGAATAGTCACATGTGTAGTAC
TATGTGCAAGCTACTATGCGTATTGGATAGTTTCGA
Found at i:69735908 original size:26 final size:26
Alignment explanation
Indices: 69735828--69735908 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
69735818 TTCGATCACG
*
69735828 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAAGCTACTA
* * * *
69735854 CGTGTA-T-CAGATG-GTAATGGTCAC-A
1 TGTGTAGTAC-TATGTGCAA-GCT-ACTA
69735879 TGTGTAGTACTATGTGCAAGCTACTA
1 TGTGTAGTACTATGTGCAAGCTACTA
69735905 TGTG
1 TGTG
69735909 AACCGAACAT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
24 3 0.08
25 14 0.36
26 18 0.46
27 4 0.10
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAAGCTACTA
Found at i:69735966 original size:45 final size:45
Alignment explanation
Indices: 69735910--69736001 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
69735900 TACTATGTGA
* *
69735910 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
* *
69735955 ACCGGACATCATTGATTAATAAGGTGGTTGTTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
69736000 AC
1 AC
69736002 TGAGTATCTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:69746617 original size:61 final size:61
Alignment explanation
Indices: 69746543--69746663 Score: 179
Period size: 61 Copynumber: 2.0 Consensus size: 61
69746533 AAAGAAAGGA
* *
69746543 AAAGACAAAGTCATCGACAAATAGCTCGGAGATTACGGTTTGTGTTTCTATAATCCAAACT
1 AAAGACAAAGTCATCGACAAATAGCTCAGAGATTACGGCTTGTGTTTCTATAATCCAAACT
** * * *
69746604 AAAGACAAAGTCATCGATGAATATCTCAGAGTTTACGGCTTGTGTTTCTATAATCTAAAC
1 AAAGACAAAGTCATCGACAAATAGCTCAGAGATTACGGCTTGTGTTTCTATAATCCAAAC
69746664 CATCTCAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (61 bp):
AAAGACAAAGTCATCGACAAATAGCTCAGAGATTACGGCTTGTGTTTCTATAATCCAAACT
Found at i:69787070 original size:37 final size:37
Alignment explanation
Indices: 69787016--69787200 Score: 239
Period size: 37 Copynumber: 5.0 Consensus size: 37
69787006 ATTTGAGAAA
* * * *
69787016 ACATTTAGTATAATCAGTAGACATTGCTCTTTTGAGC
1 ACATTCAGTATATTCAGTAGATATTGCTCGTTTGAGC
* * **
69787053 TCATTTAGTATATTCAGTAGGCATTGCTCGTTTGAGC
1 ACATTCAGTATATTCAGTAGATATTGCTCGTTTGAGC
*
69787090 ACATTCAGTATATTCAGTAGATATTGCTCATTTGAGC
1 ACATTCAGTATATTCAGTAGATATTGCTCGTTTGAGC
* *
69787127 AC-TTCAGTATATTCAGTAGATATTAG-TTGTTTGAGA
1 ACATTCAGTATATTCAGTAGATATT-GCTCGTTTGAGC
*
69787163 ACATTCAATATATTCAGTAGATATTGCTCGTTTGAGC
1 ACATTCAGTATATTCAGTAGATATTGCTCGTTTGAGC
69787200 A
1 A
69787201 TACTTTCAAT
Statistics
Matches: 130, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
36 32 0.25
37 98 0.75
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (37 bp):
ACATTCAGTATATTCAGTAGATATTGCTCGTTTGAGC
Found at i:69787169 original size:73 final size:74
Alignment explanation
Indices: 69787001--69787200 Score: 242
Period size: 73 Copynumber: 2.7 Consensus size: 74
69786991 CAGTTGATAA
* * * * * * *
69787001 TGCTCATTTGAGAAAACATTTAGTATAATCAGTAGACATTGCTCTTTTGAGCTCATTTAGTATAT
1 TGCTCGTTTGAG--AACATTCAGTATATTCAGTAGATATTGCTCATTTGAGCACATTCAGTATAT
*
69787066 TCAGTAGGCAT
64 TCAGTAGACAT
*
69787077 TGCTCGTTTGAGCACATTCAGTATATTCAGTAGATATTGCTCATTTGAGCAC-TTCAGTATATTC
1 TGCTCGTTTGAGAACATTCAGTATATTCAGTAGATATTGCTCATTTGAGCACATTCAGTATATTC
*
69787141 AGTAGATAT
66 AGTAGACAT
* * *
69787150 TAG-TTGTTTGAGAACATTCAATATATTCAGTAGATATTGCTCGTTTGAGCA
1 T-GCTCGTTTGAGAACATTCAGTATATTCAGTAGATATTGCTCATTTGAGCA
69787201 TACTTTCAAT
Statistics
Matches: 109, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
73 63 0.58
74 35 0.32
76 11 0.10
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (74 bp):
TGCTCGTTTGAGAACATTCAGTATATTCAGTAGATATTGCTCATTTGAGCACATTCAGTATATTC
AGTAGACAT
Found at i:69802052 original size:27 final size:27
Alignment explanation
Indices: 69802014--69802065 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
69802004 CAATGATTCA
*
69802014 GGGAATCAGCACTTAGCAGCCCCCTGG
1 GGGAATCAGCACTTAGCAACCCCCTGG
69802041 GGGAATCAGCACTTAGCAACCCCCT
1 GGGAATCAGCACTTAGCAACCCCCT
69802066 TCACATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.35, G:0.25, T:0.15
Consensus pattern (27 bp):
GGGAATCAGCACTTAGCAACCCCCTGG
Found at i:69802105 original size:102 final size:103
Alignment explanation
Indices: 69801937--69802243 Score: 465
Period size: 103 Copynumber: 3.0 Consensus size: 103
69801927 CCAGTGATTC
* * * *
69801937 GGGGAATCAGCACTTAGCAAACCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGAAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
69802002 ACCAATGATTC-AGGGAATCAGCACTTAGCAGCCCCCTG
66 ACCAATGAATCGA-GGAATCAGCACTTAGCAACCCCCTG
* *
69802040 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAA-ATACGGTGGGATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
*
69802104 ACCAATGAATCGAGGAATCAGCACTTAGCAACCCCTTG
66 ACCAATGAATCGAGGAATCAGCACTTAGCAACCCCCTG
* * *
69802142 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGTGGAATCAACACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
69802207 ACCAATTAGTCGAGGAATCAGCACTTAGCAACCCCCT
66 ACCAATGAATCGAGGAATCAGCACTTAGCAACCCCCT
69802244 TTATATTCAA
Statistics
Matches: 185, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
102 91 0.49
103 94 0.51
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATCGAGGAATCAGCACTTAGCAACCCCCTG
Found at i:69802129 original size:33 final size:32
Alignment explanation
Indices: 69802087--69802163 Score: 92
Period size: 27 Copynumber: 2.5 Consensus size: 32
69802077 ATACGGTGGG
69802087 ATCAGCACTTAGCAACCACCAATGAATCGAGGA
1 ATCAGCACTTAGCAACCACCAAT-AATCGAGGA
* *
69802120 ATCAGCACTTAGCAACC-CC--T--TGGGGGA
1 ATCAGCACTTAGCAACCACCAATAATCGAGGA
69802147 ATCAGCACTTAGCAACC
1 ATCAGCACTTAGCAACC
69802164 CCCTTTATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 22 0.52
30 1 0.02
32 2 0.05
33 17 0.40
ACGTcount: A:0.34, C:0.30, G:0.19, T:0.17
Consensus pattern (32 bp):
ATCAGCACTTAGCAACCACCAATAATCGAGGA
Found at i:69802234 original size:103 final size:103
Alignment explanation
Indices: 69801937--69802243 Score: 458
Period size: 102 Copynumber: 3.0 Consensus size: 103
69801927 CCAGTGATTC
* * *
69801937 GGGGAATCAGCACTTAGCAA-ACCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGAAAC
1 GGGGAATCAGCACTTAGCAACCCCCTTT-ACATTCAAAGATACGGTGGAATCAGCACTTAGCAAC
* *
69802001 CACCAATGATTC-AGGGAATCAGCACTTAGCAGCCCCCTG
65 CACCAATGAATCGA-GGAATCAGCACTTAGCAACCCCCTG
* * *
69802040 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAA-ATACGGTGGGATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
*
69802104 ACCAATGAATCGAGGAATCAGCACTTAGCAACCCCTTG
66 ACCAATGAATCGAGGAATCAGCACTTAGCAACCCCCTG
* *
69802142 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGTGGAATCAACACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
69802207 ACCAATTAGTCGAGGAATCAGCACTTAGCAACCCCCT
66 ACCAATGAATCGAGGAATCAGCACTTAGCAACCCCCT
69802244 TTATATTCAA
Statistics
Matches: 184, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
102 91 0.49
103 88 0.48
104 5 0.03
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTTACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATCGAGGAATCAGCACTTAGCAACCCCCTG
Found at i:69809546 original size:33 final size:33
Alignment explanation
Indices: 69809509--69809763 Score: 93
Period size: 33 Copynumber: 7.5 Consensus size: 33
69809499 AAGATATGAT
69809509 GGAATCAGCACTTAGCAACCACCAATGATTCGG
1 GGAATCAGCACTTAGCAACCACCAATGATTCGG
* * *
69809542 GGAATCAACACTTAGCAGCC-CC-----TTGGG
1 GGAATCAGCACTTAGCAACCACCAATGATTCGG
* * * *
69809569 GGAATCAGTACTTAGCAACCCCTTCACATTTAAAATACGG
1 GGAATCAGCACTTAGCAACCAC--CA-A--T--GATTCGG
* * * *
69809609 TGGGATCAGCACTTAGCAACCACTAATGAATCAG
1 -GGAATCAGCACTTAGCAACCACCAATGATTCGG
* *
69809643 GGAATCAGCACTTAGCAA-CTCC-----TTGGG
1 GGAATCAGCACTTAGCAACCACCAATGATTCGG
* * *
69809670 GGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACTGT
1 GGAATCAGCACTTAGCAACCACC---A-A-T----GATTC-GG
** *
69809713 GGAATCAGCACTTAGCAACGGCCAATGAGTCGG
1 GGAATCAGCACTTAGCAACCACCAATGATTCGG
69809746 GGAATCAGCACTTAGCAA
1 GGAATCAGCACTTAGCAA
69809764 TCCCTTGGGG
Statistics
Matches: 161, Mismatches: 31, Indels: 60
0.64 0.12 0.24
Matches are distributed among these distances:
27 41 0.25
28 4 0.02
30 1 0.01
32 4 0.02
33 54 0.34
34 6 0.04
36 1 0.01
38 2 0.01
39 2 0.01
40 4 0.02
41 19 0.12
42 1 0.01
43 22 0.14
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.21
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGATTCGG
Found at i:69809581 original size:27 final size:27
Alignment explanation
Indices: 69809540--69809592 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
69809530 CCAATGATTC
*
69809540 GGGGAATCAACACTTAGCAGCCCCTTG
1 GGGGAATCAACACTTAGCAACCCCTTG
**
69809567 GGGGAATCAGTACTTAGCAACCCCTT
1 GGGGAATCAACACTTAGCAACCCCTT
69809593 CACATTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (27 bp):
GGGGAATCAACACTTAGCAACCCCTTG
Done.