Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 185 of 253
Found at i:60285224 original size:27 final size:27
Alignment explanation
Indices: 60285186--60285277 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
60285176 TAACATATTC
*
60285186 AGATACAGTTTAGACCTTAGCCCATTT
1 AGATACAGTTTAGGCCTTAGCCCATTT
*
60285213 AGATACAGTTTAGGCCATAGCCCATTT
1 AGATACAGTTTAGGCCTTAGCCCATTT
* * *
60285240 AGCTACAATTTAGGCCTTAGCCCATTC
1 AGATACAGTTTAGGCCTTAGCCCATTT
*
60285267 AAATACAGTTT
1 AGATACAGTTT
60285278 TAGGTATAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (27 bp):
AGATACAGTTTAGGCCTTAGCCCATTT
Found at i:60287798 original size:18 final size:18
Alignment explanation
Indices: 60287772--60287807 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
60287762 AATGCAATTT
60287772 AAAACATTTTGGTGAAGA
1 AAAACATTTTGGTGAAGA
* *
60287790 AAAATATTTTGTTGAAGA
1 AAAACATTTTGGTGAAGA
60287808 GGGTGATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (18 bp):
AAAACATTTTGGTGAAGA
Found at i:60299998 original size:41 final size:41
Alignment explanation
Indices: 60299915--60300053 Score: 138
Period size: 41 Copynumber: 3.4 Consensus size: 41
60299905 AAAATGATAC
*
60299915 TTTGCGGTGTTTTTCTCAT-AACGCCACTAATGTTTGACCT
1 TTTGCGGTGTTTTTCTCATAAACGCCACTAATGCTTGACCT
* ***
60299955 TTTGTGGTGTTTTTCTCATAAACGTTGCTAATGCTTGACCT
1 TTTGCGGTGTTTTTCTCATAAACGCCACTAATGCTTGACCT
* * * * *
60299996 TTTGCGGCAT-TTTTTCTCATAAGCACCACTATTGCTTTACAT
1 TTTGCGG--TGTTTTTCTCATAAACGCCACTAATGCTTGACCT
* *
60300038 ATTGCGGCGTTTTTCT
1 TTTGCGGTGTTTTTCT
60300054 TTTAGTGCCA
Statistics
Matches: 79, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
40 18 0.23
41 30 0.38
42 30 0.38
43 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (41 bp):
TTTGCGGTGTTTTTCTCATAAACGCCACTAATGCTTGACCT
Found at i:60300913 original size:22 final size:22
Alignment explanation
Indices: 60300878--60300937 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
60300868 CGACATTTAG
* * * *
60300878 CACTTCGGTTCTCTTTGTTCAA
1 CACTTTGGTGCTCTCTGCTCAA
*
60300900 CACTTTGGTGCTCTCTGCTCAG
1 CACTTTGGTGCTCTCTGCTCAA
*
60300922 CACTTTAGTGCTCTCT
1 CACTTTGGTGCTCTCT
60300938 TGGGTGGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.12, C:0.30, G:0.17, T:0.42
Consensus pattern (22 bp):
CACTTTGGTGCTCTCTGCTCAA
Found at i:60302000 original size:19 final size:20
Alignment explanation
Indices: 60301963--60302001 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
60301953 ATGTTAGCAT
*
60301963 AATTTGAGTTTGTATTAGTG
1 AATTTGAGTTTGTACTAGTG
*
60301983 AATTTGA-TTTGTCCTAGTG
1 AATTTGAGTTTGTACTAGTG
60302002 TAAATTTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (20 bp):
AATTTGAGTTTGTACTAGTG
Found at i:60305132 original size:28 final size:28
Alignment explanation
Indices: 60305092--60305312 Score: 327
Period size: 28 Copynumber: 7.9 Consensus size: 28
60305082 AACACATCAG
* *
60305092 GAAAAAATAAGCCTTTGTGGCGAACTAT
1 GAAAGAATAAGCCTTTGTGGTGAACTAT
** * *
60305120 GAAAGAATAAGCCTTTGTGGCAAAGTAC
1 GAAAGAATAAGCCTTTGTGGTGAACTAT
*
60305148 GAAAGAATAAGCCTTTGTGGTAAACTAT
1 GAAAGAATAAGCCTTTGTGGTGAACTAT
60305176 GAAAGAATAAGCCTTTGTGGTGAACTAT
1 GAAAGAATAAGCCTTTGTGGTGAACTAT
*
60305204 GAAAGAATAAGCCTTTGTGGTGAACTAC
1 GAAAGAATAAGCCTTTGTGGTGAACTAT
*
60305232 AAAAGAATAAGCCTTTGTGGTGAACTAT
1 GAAAGAATAAGCCTTTGTGGTGAACTAT
*
60305260 GAAAGAATAAGCTTTTGTGGTGAACTAT
1 GAAAGAATAAGCCTTTGTGGTGAACTAT
* *
60305288 GAAAG-ATTAGCCTTTATGGTGAACT
1 GAAAGAATAAGCCTTTGTGGTGAACT
60305313 CTGTATTAAG
Statistics
Matches: 177, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 17 0.10
28 160 0.90
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (28 bp):
GAAAGAATAAGCCTTTGTGGTGAACTAT
Found at i:60309139 original size:22 final size:23
Alignment explanation
Indices: 60309092--60309140 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
60309082 TTATAAAACC
*
60309092 TAAAGATGAAATAAAAGTAGTAT
1 TAAAGATGAAATAAAAGTAATAT
60309115 TAAAGA-GAAATAAAAAGTAAT-T
1 TAAAGATGAAAT-AAAAGTAATAT
60309137 TAAA
1 TAAA
60309141 AATCATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.24
Consensus pattern (23 bp):
TAAAGATGAAATAAAAGTAATAT
Found at i:60323584 original size:46 final size:46
Alignment explanation
Indices: 60323517--60323740 Score: 215
Period size: 46 Copynumber: 4.8 Consensus size: 46
60323507 GATATTTGGG
* *
60323517 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
60323563 CATCCGAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* ** * *
60323609 CGTCCGAACTCGTTGAGTTGAGTCCGAGTT-TGTGAAATGTAACTAG-G-A
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAA
* ** *
60323657 -ATCCGAACTCGTTGAGTTGATTCTAAGTTCACTTACGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *
60323702 C-GCCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60323741 GCGGGTTACA
Statistics
Matches: 141, Mismatches: 27, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 2 0.01
45 5 0.04
46 99 0.70
47 28 0.20
48 3 0.02
49 2 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:60342362 original size:42 final size:42
Alignment explanation
Indices: 60342298--60342467 Score: 241
Period size: 42 Copynumber: 4.0 Consensus size: 42
60342288 GTTACTTGGG
* * *
60342298 AATCTCGCACACTAAGTGCCAATACGTAGCCGAAGCTAACTC
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
* *
60342340 AATCACGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTT
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
* * *
60342382 GATCTCGCACACTAAGTGCCAATGCATAGTCGAAGCTATCCC
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
* * *
60342424 GATCTTGCACAGTAAGTGCCAATGCATAGCCGAAGCTATCTC
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
60342466 AA
1 AA
60342468 ATATTTCCAT
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 113 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (42 bp):
AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
Found at i:60347928 original size:39 final size:39
Alignment explanation
Indices: 60347864--60347943 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
60347854 GTCTCGATTC
*
60347864 AAGGAGTGACACTGAGAATAGCTTTAAAAATATGACTTT
1 AAGGAGTGACACTGAGAATAACTTTAAAAATATGACTTT
* *
60347903 AAGGGGTGACACTGAGAATAACTTTAGAAATATGACTTT
1 AAGGAGTGACACTGAGAATAACTTTAAAAATATGACTTT
60347942 AA
1 AA
60347944 TGCATAAGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (39 bp):
AAGGAGTGACACTGAGAATAACTTTAAAAATATGACTTT
Found at i:60360989 original size:12 final size:12
Alignment explanation
Indices: 60360972--60360997 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60360962 CGATTTTACC
60360972 ATAAAAGAATCT
1 ATAAAAGAATCT
60360984 ATAAAAGAATCT
1 ATAAAAGAATCT
60360996 AT
1 AT
60360998 TTAATATTTC
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:0.58, C:0.08, G:0.08, T:0.27
Consensus pattern (12 bp):
ATAAAAGAATCT
Found at i:60363523 original size:11 final size:11
Alignment explanation
Indices: 60363507--60363531 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60363497 ATATCTAGAA
60363507 TTCTCTTCATT
1 TTCTCTTCATT
60363518 TTCTCTTCATT
1 TTCTCTTCATT
60363529 TTC
1 TTC
60363532 ATCAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:60372461 original size:7 final size:8
Alignment explanation
Indices: 60372441--60372468 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
60372431 AACCATGAAT
60372441 ATTTTTCA
1 ATTTTTCA
60372449 ATTTTTCA
1 ATTTTTCA
60372457 ATTTTTCA
1 ATTTTTCA
60372465 ATTT
1 ATTT
60372469 AACCCCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (8 bp):
ATTTTTCA
Found at i:60379223 original size:10 final size:10
Alignment explanation
Indices: 60379208--60379250 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
60379198 CAATTCACCA
60379208 ACCAAATCAT
1 ACCAAATCAT
*
60379218 ACCAAATCAAA
1 ACCAAATC-AT
60379229 ACCAAAATCAT
1 ACC-AAATCAT
*
60379240 ACCAAAGCAT
1 ACCAAATCAT
60379250 A
1 A
60379251 TGTTTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.56, C:0.28, G:0.02, T:0.14
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:60380056 original size:42 final size:44
Alignment explanation
Indices: 60379994--60380081 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 44
60379984 TACATGTAGA
*
60379994 CAAATATCGATGCCACTGTCCCAAA-TTGGGTCTTACACG-AAAT
1 CAAATATCGATGCCACTGTCCCAAACAT-GGTCTTACACGTAAAT
60380037 CAAATA-CGATGCCGA-TGTCCCAAACATGGTCTTACACGTAAAT
1 CAAATATCGATGCC-ACTGTCCCAAACATGGTCTTACACGTAAAT
60380080 CA
1 CA
60380082 TAAGTTGATG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
42 27 0.66
43 14 0.34
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (44 bp):
CAAATATCGATGCCACTGTCCCAAACATGGTCTTACACGTAAAT
Found at i:60386837 original size:10 final size:10
Alignment explanation
Indices: 60386822--60386864 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
60386812 CAACTCACCA
60386822 ACCAAATCAT
1 ACCAAATCAT
*
60386832 ACCAAATCAAA
1 ACCAAATC-AT
60386843 ACCAAAATCAT
1 ACC-AAATCAT
*
60386854 ACCAAAGCAT
1 ACCAAATCAT
60386864 A
1 A
60386865 TGTTTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.56, C:0.28, G:0.02, T:0.14
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:60389670 original size:20 final size:20
Alignment explanation
Indices: 60389645--60389689 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
60389635 TATCTTAAAC
60389645 CACATAGTTCAAATACATTT-
1 CACATA-TTCAAATACATTTA
* *
60389665 CACATATTCCAATTCATTTA
1 CACATATTCAAATACATTTA
60389685 CACAT
1 CACAT
60389690 GTAGCATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (20 bp):
CACATATTCAAATACATTTA
Found at i:60392580 original size:17 final size:17
Alignment explanation
Indices: 60392558--60392601 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
60392548 AGGGGCCATG
*
60392558 TGGGCCCAATGGGCCTA
1 TGGGCCCAATAGGCCTA
60392575 TGGGCCCAATAGGCCTA
1 TGGGCCCAATAGGCCTA
60392592 TGGGCCCAAT
1 TGGGCCCAAT
60392602 TGGATAAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.20, C:0.30, G:0.32, T:0.18
Consensus pattern (17 bp):
TGGGCCCAATAGGCCTA
Found at i:60392797 original size:27 final size:27
Alignment explanation
Indices: 60392773--60392994 Score: 300
Period size: 27 Copynumber: 8.2 Consensus size: 27
60392763 TTAGTTTACG
* **
60392773 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
60392800 AAATTACTAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
60392827 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
60392854 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
60392881 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
60392908 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
60392935 AAATTATCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
60392962 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
60392989 AAATTA
1 AAATTA
60392995 ATGAAATACC
Statistics
Matches: 170, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 170 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:60393001 original size:27 final size:27
Alignment explanation
Indices: 60392781--60393075 Score: 188
Period size: 27 Copynumber: 10.9 Consensus size: 27
60392771 CGAAATTACC
* * ** *
60392781 AAAATACCCTTGGTTTACAAAATTACT
1 AAAATACCCCTGATTTGTAAAATTAAT
* *
60392808 AAAATACCCCTGGTTTGTAAAATTACT
1 AAAATACCCCTGATTTGTAAAATTAAT
* * * * * **
60392835 AGAATACCCTTGGTTTATAAAATCACC
1 AAAATACCCCTGATTTGTAAAATTAAT
*
60392862 AAAATACCCCTGGTTTGTAAAATT-AT
1 AAAATACCCCTGATTTGTAAAATTAAT
**
60392888 CAAAATACCCCT-AGTTTGTAAAATTACC
1 -AAAATACCCCTGA-TTTGTAAAATTAAT
*
60392916 AAAATACCCCTGGTTTGTAAAATT-AT
1 AAAATACCCCTGATTTGTAAAATTAAT
* **
60392942 CAAAATA-CCCTTAGTTTGTAAAATTACC
1 -AAAATACCCCTGA-TTTGTAAAATTAAT
*
60392970 AAAATACCCCTGATTTGTGAAATTAAT
1 AAAATACCCCTGATTTGTAAAATTAAT
* * * *
60392997 GAAATA-CCCTCGACTTGTAAAACTATT
1 AAAATACCCCT-GATTTGTAAAATTAAT
* * **
60393024 GAAATACCCAC-GACTTGTAAAATTACC
1 AAAATACCC-CTGATTTGTAAAATTAAT
* * * *
60393051 AAAGTACCCTTGATTTATAGAATTA
1 AAAATACCCCTGATTTGTAAAATTA
60393076 TCGTTTTACC
Statistics
Matches: 214, Mismatches: 42, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
26 8 0.04
27 198 0.93
28 7 0.03
29 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATACCCCTGATTTGTAAAATTAAT
Found at i:60393015 original size:81 final size:80
Alignment explanation
Indices: 60392773--60393075 Score: 281
Period size: 81 Copynumber: 3.8 Consensus size: 80
60392763 TTAGTTTACG
* ** * *
60392773 AAATTACCAAAATACCCTTGGTTTACAAAATTACTAAAATACCCCTGGTTTGTAAAATTACTAGA
1 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTA-A
* *
60392838 ATACCCTTGGTTTATA
65 ATACCCTCGGTTTGTA
* * * * *
60392854 AAATCACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCCT-AGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGA-TTTGTAAAATTA-CTA
60392918 AATACCC-CTGGTTTGTA
64 AATACCCTC-GGTTTGTA
* * *
60392935 AAATTATCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTAATGAA
1 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACT-AA
**
60393000 ATACCCTCGACTTGTA
65 ATACCCTCGGTTTGTA
* *** * * * * *
60393016 AAACTATTGAAATACCC--ACGACTTGTAAAATTACCAAAGTACCCTTGATTTATAGAATTA
1 AAATTACCAAAATACCCTTA-G-TTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTA
60393076 TCGTTTTACC
Statistics
Matches: 185, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 179 0.97
82 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAA
TACCCTCGGTTTGTA
Found at i:60393086 original size:81 final size:81
Alignment explanation
Indices: 60392957--60393113 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
60392947 TACCCTTAGT
* **
60392957 TTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTAATGAAATACCCTCGACTTGTAAAACTA
1 TTGTAAAATTACCAAAATACCCCTGATTTATGAAATTAATGAAATACCCTCGACTTACAAAACTA
60393022 TTGAAATACCCACGAC
66 TTGAAATACCCACGAC
* * *** * *
60393038 TTGTAAAATTACCAAAGTACCCTTGATTTAT-AGAATT-ATCGTTTTACCCTCGATTTACAAAAT
1 TTGTAAAATTACCAAAATACCCCTGATTTATGA-AATTAAT-GAAATACCCTCGACTTACAAAAC
60393101 TATTGAAATACCC
64 TATTGAAATACCC
60393114 CTGTAGGGTA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 3 0.05
81 61 0.95
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTGATTTATGAAATTAATGAAATACCCTCGACTTACAAAACTA
TTGAAATACCCACGAC
Found at i:60393112 original size:27 final size:27
Alignment explanation
Indices: 60392989--60393113 Score: 90
Period size: 27 Copynumber: 4.6 Consensus size: 27
60392979 CTGATTTGTG
* *
60392989 AAATTAATGAAATACCCTCGACTTGTA
1 AAATTATTGAAATACCCTCGACTTATA
* * *
60393016 AAACTATTGAAATACCCACGACTTGTA
1 AAATTATTGAAATACCCTCGACTTATA
** * *
60393043 AAATTA-CCAAAGTACCCTTGATTTATA
1 AAATTATTGAAA-TACCCTCGACTTATA
* * *** * *
60393070 GAATTATCGTTTTACCCTCGATTTACA
1 AAATTATTGAAATACCCTCGACTTATA
60393097 AAATTATTGAAATACCC
1 AAATTATTGAAATACCC
60393114 CTGTAGGGTA
Statistics
Matches: 74, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
26 3 0.04
27 70 0.95
28 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTATTGAAATACCCTCGACTTATA
Found at i:60393128 original size:27 final size:27
Alignment explanation
Indices: 60393105--60393482 Score: 513
Period size: 27 Copynumber: 14.0 Consensus size: 27
60393095 CAAAATTATT
60393105 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
60393132 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
60393159 GAAATACCCTTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
60393186 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
60393213 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
60393240 GAAATACCCCTATAGGGTAGAATTAGC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
60393267 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
60393294 GAAATACTCCTGTAGGATAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
60393321 GAAATACCCCTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
60393348 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
60393375 GAAATACCCTTGTAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
60393402 AAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
60393429 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
60393456 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
60393483 ATTTTACCCC
Statistics
Matches: 307, Mismatches: 44, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 307 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:60393771 original size:27 final size:26
Alignment explanation
Indices: 60393727--60393778 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
60393717 CTCGCTGCAA
*
60393727 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
60393754 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
60393779 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:60398325 original size:38 final size:39
Alignment explanation
Indices: 60398272--60398392 Score: 147
Period size: 39 Copynumber: 3.1 Consensus size: 39
60398262 GTTACATCGA
*
60398272 CACGAAGCCTACTAGGCATC-AAGCTTGATAAAT-ACCGG
1 CACGAAGCCTGCTAGGC-TCAAAGCTTGATAAATCACCGG
* * * *
60398310 CACGAAGCATGCTAGGCTCAAAGCTCGATCAGTCACCGG
1 CACGAAGCCTGCTAGGCTCAAAGCTTGATAAATCACCGG
* * *
60398349 CACGAAGCCTGCTAGTCTCAAAGCTTGATAAGTCACCGA
1 CACGAAGCCTGCTAGGCTCAAAGCTTGATAAATCACCGG
60398388 CACGA
1 CACGA
60398393 GGCTTGATAC
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
37 2 0.03
38 25 0.35
39 44 0.62
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.17
Consensus pattern (39 bp):
CACGAAGCCTGCTAGGCTCAAAGCTTGATAAATCACCGG
Found at i:60402638 original size:40 final size:40
Alignment explanation
Indices: 60402491--60402674 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
60402481 TCGAATGATG
* * * *
60402491 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
60402531 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
60402570 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60402609 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
60402650 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60402675 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 23 0.18
39 21 0.17
40 71 0.57
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60410806 original size:39 final size:40
Alignment explanation
Indices: 60410620--60410799 Score: 180
Period size: 38 Copynumber: 4.7 Consensus size: 40
60410610 TCGAATGATG
* * * *
60410620 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAG-TGCCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
60410658 TCCGGACTAAGAT--CGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
60410697 TTCGGGCTAAG--CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60410735 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
60410776 -CC-GGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60410800 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
37 7 0.06
38 45 0.38
39 39 0.33
40 26 0.22
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60410821 original size:78 final size:78
Alignment explanation
Indices: 60410671--60410822 Score: 184
Period size: 78 Copynumber: 1.9 Consensus size: 78
60410661 GGACTAAGAT
** * **
60410671 CGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGCCGAAGGCATTGGTGCGAGTTACTAAAT
1 CGAAGGCATTTGTGCGAGTTACTAATAACCGGCTAAGCCGAAGGCATTGGAACGAGTTACTAAAT
60410736 CCGGGTTAAGTCC
66 CCGGGTTAAGTCC
* *
60410749 CGAAGGCATTTGTGCGAGTTACT-ATAACCGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 CGAAGGCATTTGTGCGAGTTACTAATAACCGGCTAAG--CCGAAGGCATTGGAACGAGTTA-CTA
*
60410812 TATCC-GGTTAA
63 AATCCGGGTTAA
60410823 ATTCTGAAGG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
77 9 0.14
78 31 0.49
79 23 0.37
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (78 bp):
CGAAGGCATTTGTGCGAGTTACTAATAACCGGCTAAGCCGAAGGCATTGGAACGAGTTACTAAAT
CCGGGTTAAGTCC
Found at i:60417948 original size:40 final size:40
Alignment explanation
Indices: 60417864--60418047 Score: 182
Period size: 40 Copynumber: 4.7 Consensus size: 40
60417854 TCGAATGATG
* * *
60417864 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAT
* *
60417903 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCAAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAT
* * *
60417944 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAT
* *
60417983 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAT
* *
60418022 AACCGGGCTATGT-CCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
60418048 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
39 47 0.38
40 67 0.54
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAT
Found at i:60417977 original size:39 final size:39
Alignment explanation
Indices: 60417919--60418047 Score: 170
Period size: 39 Copynumber: 3.3 Consensus size: 39
60417909 ACTAAGATCT
*
60417919 GAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGCCC
1 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCC
* * *
60417958 GAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAG-CCC
* * *
60417998 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCC
1 GAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGCCC
60418037 GAAGGCATTTG
1 GAAGGCATTTG
60418048 AACGAGTAGC
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 46 0.59
40 32 0.41
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (39 bp):
GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCC
Found at i:60418054 original size:79 final size:78
Alignment explanation
Indices: 60417919--60418080 Score: 193
Period size: 79 Copynumber: 2.1 Consensus size: 78
60417909 ACTAAGATCT
* **
60417919 GAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CTAAA
1 GAAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAG-TAGCTAAA
*
60417983 TCCGGGTTAAGTCCC
65 TCC-GGTTAAATCCC
* * * * *
60417998 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATTTGAACGAGTAGCTATA
1 GAAGGCATTTGTGCAAGTTACTAAT-ACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAAA
*
60418062 TCCGGTTAAATTCC
65 TCCGGTTAAATCCC
60418076 GAAGG
1 GAAGG
60418081 TACGTGATTC
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
78 18 0.25
79 53 0.75
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (78 bp):
GAAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAAAT
CCGGTTAAATCCC
Found at i:60421183 original size:39 final size:39
Alignment explanation
Indices: 60421091--60421246 Score: 136
Period size: 39 Copynumber: 4.0 Consensus size: 39
60421081 AGACGTTTTG
* * * **
60421091 AGTATTGTGATATATGCTTAAATGTTATAAGATT-TATA
1 AGTATTATGATATATGCTTGAGTGTTATGTGATTATATA
* *
60421129 TGTATATTACGATATATGCTTGAGTGTTATGTGATTATATA
1 AG--TATTATGATATATGCTTGAGTGTTATGTGATTATATA
* * * * * *
60421170 AGTATTGTTATATATGCTTAAATGTTATGTGATTGTATG
1 AGTATTATGATATATGCTTGAGTGTTATGTGATTATATA
* *
60421209 AGTATTATGATACATGCTTG-GATGTTAGGTGATTATAT
1 AGTATTATGATATATGCTTGAG-TGTTATGTGATTATAT
60421247 GTGTAACATT
Statistics
Matches: 92, Mismatches: 22, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
38 1 0.01
39 60 0.65
40 26 0.28
41 5 0.05
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.46
Consensus pattern (39 bp):
AGTATTATGATATATGCTTGAGTGTTATGTGATTATATA
Found at i:60421246 original size:78 final size:79
Alignment explanation
Indices: 60421091--60421246 Score: 210
Period size: 78 Copynumber: 2.0 Consensus size: 79
60421081 AGACGTTTTG
*
60421091 AGTATTGTGATATATGCTTAAATGTTATAAGATTTATATGTATATTACGATATATGCTTGAGTGT
1 AGTATTGTGATATATGCTTAAATGTTATAAGATTTATATGTATATTACGATACATGCTTGAGTGT
*
60421156 TATGTGATTATATA
66 TAGGTGATTATATA
* ** * *
60421170 AGTATTGTTATATATGCTTAAATGTTATGTGA-TTGTATG-AGTATTATGATACATGCTTG-GAT
1 AGTATTGTGATATATGCTTAAATGTTATAAGATTTATATGTA-TATTACGATACATGCTTGAG-T
60421232 GTTAGGTGATTATAT
64 GTTAGGTGATTATAT
60421247 GTGTAACATT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
77 2 0.03
78 37 0.54
79 29 0.43
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.46
Consensus pattern (79 bp):
AGTATTGTGATATATGCTTAAATGTTATAAGATTTATATGTATATTACGATACATGCTTGAGTGT
TAGGTGATTATATA
Found at i:60421259 original size:78 final size:79
Alignment explanation
Indices: 60421100--60421269 Score: 193
Period size: 78 Copynumber: 2.2 Consensus size: 79
60421090 GAGTATTGTG
* *
60421100 ATATATGCTTAAATGTTATAAGATTTATATGTATATTACGATATATGCTTGAGTGTTATGTGATT
1 ATATATGCTTAAATGTTATAAGATTTATATGTATATTACGATACATGCTTGAGTGTTAGGTGATT
***
60421165 ATATAAGTATTGTT
66 ATATAAGTAACATT
** * *
60421179 ATATATGCTTAAATGTTATGTGA-TTGTATG-AGTATTATGATACATGCTTG-GATGTTAGGTGA
1 ATATATGCTTAAATGTTATAAGATTTATATGTA-TATTACGATACATGCTTGAG-TGTTAGGTGA
**
60421241 TTATATGTGTAACATT
64 TTATATAAGTAACATT
*
60421257 ATATATGCCTAAA
1 ATATATGCTTAAA
60421270 AGTGAATATG
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
77 2 0.03
78 54 0.70
79 21 0.27
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.44
Consensus pattern (79 bp):
ATATATGCTTAAATGTTATAAGATTTATATGTATATTACGATACATGCTTGAGTGTTAGGTGATT
ATATAAGTAACATT
Found at i:60421948 original size:19 final size:20
Alignment explanation
Indices: 60421915--60421964 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
60421905 ATAGAGATTT
*
60421915 AGTATCGATACCTTTGCTTG
1 AGTATCGATACCTTTGCTCG
60421935 AGTATCGA-ACCTTTGCTCG
1 AGTATCGATACCTTTGCTCG
60421954 AGTATCGATAC
1 AGTATCGATAC
60421965 TCAGGGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (20 bp):
AGTATCGATACCTTTGCTCG
Found at i:60423537 original size:21 final size:21
Alignment explanation
Indices: 60423513--60423554 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
60423503 TCGCTATTTA
*
60423513 CATTAAAAATTATTTTTTATC
1 CATTAAAAATTAATTTTTATC
*
60423534 CATTAACAATTAATTTTTATC
1 CATTAAAAATTAATTTTTATC
60423555 TCATGTTGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (21 bp):
CATTAAAAATTAATTTTTATC
Found at i:60423697 original size:94 final size:94
Alignment explanation
Indices: 60423583--60423758 Score: 246
Period size: 94 Copynumber: 1.9 Consensus size: 94
60423573 CCTTCCATGC
* ** **
60423583 TCACACTTACCCTATAAATAAATGTCAATCTTTTTATATATTTTAATT-AAAAGTTAATTTTAAT
1 TCACACTTACCATATAAATAAATGAAAATCTTTAAAT-TATTTTAATTAAAAAGTTAATTTTAAT
*
60423647 CTCACATTGACTTGAGAACAGCCCCATATT
65 CTCACATTGACTAGAGAACAGCCCCATATT
* * * *
60423677 TCACATTTACCATATAAATAAGTGAAAATCTTTAAATTGTTTTCATTAAAAAGTTAATTTTAATC
1 TCACACTTACCATATAAATAAATGAAAATCTTTAAATTATTTTAATTAAAAAGTTAATTTTAATC
60423742 TCACATTGACTAGAGAA
66 TCACATTGACTAGAGAA
60423759 TACTCTCATA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 8 0.11
94 63 0.89
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (94 bp):
TCACACTTACCATATAAATAAATGAAAATCTTTAAATTATTTTAATTAAAAAGTTAATTTTAATC
TCACATTGACTAGAGAACAGCCCCATATT
Found at i:60423775 original size:94 final size:90
Alignment explanation
Indices: 60423440--60423776 Score: 235
Period size: 94 Copynumber: 3.7 Consensus size: 90
60423430 ACTTCTACTA
* * *
60423440 TTTTCATTAAAAAGTTAATTTTAATCACACATTCACTAGAGAATACTCTCATAGCTCACATTTTC
1 TTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAGCTCACATTTAC
* * *
60423505 GCTAT--TTACATTAAAAAT-TATT-TT
66 -CTATAAATA-AATGAAAATCT-TTATT
* * * ** * * * *
60423529 TTATCCATTAACAA-TTAATTTTTATCTCATGTTGGCT-G-TAATACCCTTCCAT-GCTCACACT
1 TT-TTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTC-T-CATAGCTCACATT
**
60423590 TACCCTATAAATAAATGTCAATCTTTTTATAT
63 TA-CCTATAAATAAATGAAAATC--TTTAT-T
* * * * **
60423622 ATTTTAATT-AAAAGTTAATTTTAATCTCACATTGACTTGAGAACAGC-CCCATATTTCACATTT
1 -TTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATA-CTCTCATAGCTCACATTT
*
60423685 ACCATATAAATAAGTGAAAATCTTTAAATT
64 ACC-TATAAATAAATGAAAATCTTT--ATT
*
60423715 GTTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAACTCACAT
1 -TTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAGCTCACAT
60423777 ATCATTATTT
Statistics
Matches: 186, Mismatches: 40, Indels: 39
0.70 0.15 0.15
Matches are distributed among these distances:
87 6 0.03
88 15 0.08
89 28 0.15
90 11 0.06
91 2 0.01
92 8 0.04
93 38 0.20
94 73 0.39
95 4 0.02
96 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.40
Consensus pattern (90 bp):
TTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAGCTCACATTTAC
CTATAAATAAATGAAAATCTTTATT
Found at i:60423801 original size:69 final size:69
Alignment explanation
Indices: 60423716--60423905 Score: 251
Period size: 69 Copynumber: 2.8 Consensus size: 69
60423706 CTTTAAATTG
60423716 TTTTCATT-AAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAACTCACATA-T
1 TTTTCATTAAAAAAGTTAATTTTAATC-CACATTGACTAGAGAATACTCTCATAACTCACATATT
*
60423779 CATTA
65 CACTA
* * * * *
60423784 TTTTAATTAAAAAAGTTAGTTTTAATCCCACATTGACTAGAGAATACTATAATAACTCACTTATT
1 TTTTCATTAAAAAAGTTAATTTTAAT-CCACATTGACTAGAGAATACTCTCATAACTCACATATT
60423849 CACTA
65 CACTA
* * *
60423854 TTTTCATTAAAAAA-TTAATTTGAATCCTACATTGGCTAGAGAACACTCTCAT
1 TTTTCATTAAAAAAGTTAATTTTAATCC-ACATTGACTAGAGAATACTCTCAT
60423906 GCTTATACTT
Statistics
Matches: 105, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
68 9 0.09
69 77 0.73
70 19 0.18
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.37
Consensus pattern (69 bp):
TTTTCATTAAAAAAGTTAATTTTAATCCACATTGACTAGAGAATACTCTCATAACTCACATATTC
ACTA
Found at i:60424227 original size:71 final size:72
Alignment explanation
Indices: 60424133--60424344 Score: 251
Period size: 69 Copynumber: 3.0 Consensus size: 72
60424123 ACGATTTTAT
* * * *
60424133 CCTACATTGATTA-AAGAATACTCTCATAGCTCATTTTTTCACTATTTTTATTAAAAAAAGTTAA
1 CCTACATTGACTAGAA-AATACTCTCATAGCTCACTTCTTCACTATTTTCATTAAAAAAAGTTAA
60424197 TTGTAA-C
65 TTGTAATC
* *
60424204 CCTACATTGACTAGAAAATACTCTCATAGCTCACTTCTCCAATATTTTCATT--AAAAAGTTAAT
1 CCTACATTGACTAGAAAATACTCTCATAGCTCACTTCTTCACTATTTTCATTAAAAAAAGTTAAT
*
60424267 TTTAATC
66 TGTAATC
* * * *
60424274 CC-ACATTTACTAGAGAATATTCCCATAGCTCACTTCTTCACTATTTTCATT--AAAAA-TTAAT
1 CCTACATTGACTAGAAAATACTCTCATAGCTCACTTCTTCACTATTTTCATTAAAAAAAGTTAAT
*
60424335 TTTAATC
66 TGTAATC
60424342 CCT
1 CCT
60424345 TAAAAAGTTA
Statistics
Matches: 125, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
68 14 0.11
69 63 0.50
70 3 0.02
71 43 0.34
72 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (72 bp):
CCTACATTGACTAGAAAATACTCTCATAGCTCACTTCTTCACTATTTTCATTAAAAAAAGTTAAT
TGTAATC
Found at i:60424454 original size:93 final size:93
Alignment explanation
Indices: 60424344--60424555 Score: 304
Period size: 93 Copynumber: 2.3 Consensus size: 93
60424334 TTTTAATCCC
*
60424344 TTAAAAAGTTAATTTTTATTCCACATTGGCTAGAATACAATCCCATG-TTCACAAATACCCTATA
1 TTAAAAAGTTAATTTTTATCCCACATTGGCTAGAATACAATCCCATGCTT-ACAAATACCCTATA
* * *
60424408 AATACGTGTCAATTTCTTCTCTATTTTTA
65 AATACGTATCAACTTCTTCTCTATTGTTA
* * *
60424437 TTAAAAAGTTAATTTTTATCCCACATTGGCTAGAATACACTCCCATGCTTACACATACCCTATGA
1 TTAAAAAGTTAATTTTTATCCCACATTGGCTAGAATACAATCCCATGCTTACAAATACCCTATAA
* *
60424502 ATACGTATCAGCTTCTTTTCTATTGTTA
66 ATACGTATCAACTTCTTCTCTATTGTTA
60424530 TTAAAAA-TTAA-TTTTAGTCCCACATT
1 TTAAAAAGTTAATTTTTA-TCCCACATT
60424556 AACTACAAAA
Statistics
Matches: 108, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
91 5 0.05
92 13 0.12
93 88 0.81
94 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (93 bp):
TTAAAAAGTTAATTTTTATCCCACATTGGCTAGAATACAATCCCATGCTTACAAATACCCTATAA
ATACGTATCAACTTCTTCTCTATTGTTA
Found at i:60430976 original size:29 final size:28
Alignment explanation
Indices: 60430943--60430998 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
60430933 ATTTTTAGTG
*
60430943 AAAAAATTAA-TTTCTCTCTACAGGAAAAC
1 AAAAAATTAAGTTT-TCTCT-CAAGAAAAC
*
60430972 AAAAACTTAAGTTTTCTCTCAAGAAAA
1 AAAAAATTAAGTTTTCTCTCAAGAAAA
60430999 AAGAAGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.29
29 14 0.58
30 3 0.12
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.29
Consensus pattern (28 bp):
AAAAAATTAAGTTTTCTCTCAAGAAAAC
Found at i:60434319 original size:11 final size:11
Alignment explanation
Indices: 60434283--60434338 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
60434273 CATGGTATGT
60434283 ATGATATGCAC
1 ATGATATGCAC
* *
60434294 ATGACATG--T
1 ATGATATGCAC
60434303 ATGATATGCAC
1 ATGATATGCAC
*
60434314 ATGATATG--T
1 ATGATATGCAC
60434323 ATGATATGCAC
1 ATGATATGCAC
60434334 ATGAT
1 ATGAT
60434339 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:60434338 original size:20 final size:20
Alignment explanation
Indices: 60434272--60434338 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
60434262 ATTTTGATAA
*
60434272 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
60434292 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
60434312 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
60434332 ACATGAT
1 ACATGAT
60434339 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:60434503 original size:25 final size:24
Alignment explanation
Indices: 60434388--60434507 Score: 179
Period size: 24 Copynumber: 5.0 Consensus size: 24
60434378 GAGGAAGTGA
60434388 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
60434412 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
60434436 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
60434460 AAAAGGGCTTTTACCCCAGTAATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
60434484 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
60434508 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
24 77 0.89
25 10 0.11
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:60442568 original size:11 final size:11
Alignment explanation
Indices: 60442532--60442587 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
60442522 CATGGTATGT
60442532 ATGATATGCAC
1 ATGATATGCAC
* *
60442543 ATGAAATG--T
1 ATGATATGCAC
60442552 ATGATATGCAC
1 ATGATATGCAC
*
60442563 ATGATATG--T
1 ATGATATGCAC
60442572 ATGATATGCAC
1 ATGATATGCAC
60442583 ATGAT
1 ATGAT
60442588 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:60442587 original size:20 final size:20
Alignment explanation
Indices: 60442522--60442587 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
60442512 TTTTGATAAG
*
60442522 CATGGTATGTATGATATGCA
1 CATGATATGTATGATATGCA
*
60442542 CATGAAATGTATGATATGCA
1 CATGATATGTATGATATGCA
60442562 CATGATATGTATGATATGCA
1 CATGATATGTATGATATGCA
60442582 CATGAT
1 CATGAT
60442588 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
CATGATATGTATGATATGCA
Found at i:60442669 original size:24 final size:24
Alignment explanation
Indices: 60442637--60442790 Score: 227
Period size: 24 Copynumber: 6.4 Consensus size: 24
60442627 GAGGAAGTGA
* *
60442637 AAAAGGGCTTATGCCCCAATTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
60442661 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
60442685 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
60442709 AAAAGGGCTTATGCCGCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATT
*
60442733 AAAAAGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
60442757 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
60442781 AAAAGAGGCT
1 AAAAG-GGCT
60442791 AGGTCTCCAG
Statistics
Matches: 118, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
24 114 0.97
25 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:60447505 original size:11 final size:11
Alignment explanation
Indices: 60447489--60447514 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60447479 AATGTTAAAC
60447489 AAAATAAAAAG
1 AAAATAAAAAG
60447500 AAAATAAAAAG
1 AAAATAAAAAG
60447511 AAAA
1 AAAA
60447515 CATAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAATAAAAAG
Found at i:60460130 original size:22 final size:22
Alignment explanation
Indices: 60460104--60460148 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
60460094 TTCTTCTGAG
60460104 ATGTTTTCCTTCTTAGTTATGA
1 ATGTTTTCCTTCTTAGTTATGA
*
60460126 ATGTTTTCCTTTTTAGTTATGA
1 ATGTTTTCCTTCTTAGTTATGA
60460148 A
1 A
60460149 CTAAATCCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.11, G:0.13, T:0.56
Consensus pattern (22 bp):
ATGTTTTCCTTCTTAGTTATGA
Found at i:60472873 original size:18 final size:18
Alignment explanation
Indices: 60472852--60472900 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
60472842 CTTACATAAA
60472852 TAACACAATTCACCAAAT
1 TAACACAATTCACCAAAT
* * * *
60472870 TAACATAGTTCGCGAAAT
1 TAACACAATTCACCAAAT
60472888 TAACACAATTCAC
1 TAACACAATTCAC
60472901 ATTATTATAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (18 bp):
TAACACAATTCACCAAAT
Found at i:60487810 original size:40 final size:40
Alignment explanation
Indices: 60487751--60487919 Score: 284
Period size: 40 Copynumber: 4.2 Consensus size: 40
60487741 TAACAACCAG
* *
60487751 CACGAATGCCTTCGAGACTTAACCCGATTATAATAACCCA
1 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCA
*
60487791 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCG
1 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCA
* *
60487831 CACAAATGCCTTTGGGACTTAACCCGGTTATAATAACCCA
1 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCA
*
60487871 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCG
1 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCA
60487911 CACGAATGC
1 CACGAATGC
60487920 TATGCACATA
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 120 1.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (40 bp):
CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCA
Found at i:60496321 original size:40 final size:40
Alignment explanation
Indices: 60496272--60496404 Score: 239
Period size: 40 Copynumber: 3.3 Consensus size: 40
60496262 CGGATGTAAC
* *
60496272 AACCAGCACGAATGCCTTCGAGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
60496312 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
60496352 AACCCGTACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
60496392 AACCCGCACGAAT
1 AACCCGCACGAAT
60496405 ACTATGCACA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:60498625 original size:46 final size:46
Alignment explanation
Indices: 60498575--60498746 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
60498565 TGAGCATCCA
*
60498575 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGATCG
* *
60498621 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAA-T--G-ATC-G
* * * *
60498668 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGATCG
*
60498714 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60498747 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
45 3 0.03
46 61 0.56
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGATCG
Found at i:60505710 original size:25 final size:26
Alignment explanation
Indices: 60505676--60505728 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
60505666 ACACTAAAAG
60505676 TTATTTTAGTTCCCCATTTATTT-TT
1 TTATTTTAGTTCCCCATTTATTTATT
*
60505701 TTATTTTAGTTCTCCATTTATTTATT
1 TTATTTTAGTTCCCCATTTATTTATT
60505727 TT
1 TT
60505729 TTTCTTTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.17, C:0.13, G:0.04, T:0.66
Consensus pattern (26 bp):
TTATTTTAGTTCCCCATTTATTTATT
Found at i:60509247 original size:12 final size:12
Alignment explanation
Indices: 60509230--60509254 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60509220 GTTTGGCACG
60509230 GCCTAGCACACA
1 GCCTAGCACACA
60509242 GCCTAGCACACA
1 GCCTAGCACACA
60509254 G
1 G
60509255 ACGTGTATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.40, G:0.20, T:0.08
Consensus pattern (12 bp):
GCCTAGCACACA
Found at i:60509815 original size:14 final size:11
Alignment explanation
Indices: 60509784--60509808 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60509774 GAGGAGGGCA
60509784 AGAAAGGTAGT
1 AGAAAGGTAGT
60509795 AGAAAGGTAGT
1 AGAAAGGTAGT
60509806 AGA
1 AGA
60509809 TCAAAGGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (11 bp):
AGAAAGGTAGT
Found at i:60522436 original size:43 final size:43
Alignment explanation
Indices: 60522389--60522504 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 43
60522379 TGTGATTACA
*
60522389 TGTAAGACCATGTCTAGGACATTGGCAGT-GTATTGA-GATTAT-G
1 TGTAAGACCATGTCTAGGACATTGGCA-TCGTATT-ATAATT-TCG
* *
60522432 TGTAAGACCATGTTTGGGACATTGGCATCGTATTATAATTTCG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTATTATAATTTCG
* * *
60522475 TGTAAGACCCTGTCTTGGACAATGGCATCG
1 TGTAAGACCATGTCTAGGACATTGGCATCG
60522505 ATATGTATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
42 3 0.05
43 60 0.95
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGTATTATAATTTCG
Found at i:60522522 original size:43 final size:42
Alignment explanation
Indices: 60522383--60522528 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 42
60522373 TCGAGATGTG
* * * *
60522383 ATTACATGTAAGACCATGTCTAGGACATTGGCAGT-GTATTGAG
1 ATTACATGTAAGACCATGTTTGGGACAATGGCA-TCGTATT-AT
** *
60522426 ATTATGTGTAAGACCATGTTTGGGACATTGGCATCGTATTAT
1 ATTACATGTAAGACCATGTTTGGGACAATGGCATCGTATTAT
* * *
60522468 AATTTCGTGTAAGACCCTGTCTT-GGACAATGGCATCGATATGTAT
1 -ATTACATGTAAGACCATGT-TTGGGACAATGGCATCG-TAT-TAT
60522513 -TTACATGTAAGACCAT
1 ATTACATGTAAGACCAT
60522529 ATCTGGGATA
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
42 2 0.02
43 76 0.88
44 5 0.06
45 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (42 bp):
ATTACATGTAAGACCATGTTTGGGACAATGGCATCGTATTAT
Found at i:60530936 original size:53 final size:54
Alignment explanation
Indices: 60530870--60531008 Score: 185
Period size: 53 Copynumber: 2.6 Consensus size: 54
60530860 TTAAAGCTCT
* *
60530870 ATTTTCAGAGATTGATTAGGATATTTTATAGGATTTTATGACATA-TTTATGGG
1 ATTTTAAGGGATTGATTAGGATATTTTATAGGATTTTATGACATATTTTATGGG
* * * ** *
60530923 ATTTTAATGGATTGATTAGGATATTCTATATGATTTTATGGGATATTTTATGGT
1 ATTTTAAGGGATTGATTAGGATATTTTATAGGATTTTATGACATATTTTATGGG
60530977 ATTTTAAGGGATTGATTAGG--ATTTTATAGGAT
1 ATTTTAAGGGATTGATTAGGATATTTTATAGGAT
60531009 ATTTTAAATT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
52 10 0.14
53 38 0.51
54 26 0.35
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (54 bp):
ATTTTAAGGGATTGATTAGGATATTTTATAGGATTTTATGACATATTTTATGGG
Found at i:60531168 original size:28 final size:28
Alignment explanation
Indices: 60531136--60531193 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
60531126 TTTTCATGGA
*
60531136 TTGTTAACGTATTTATTCTAGTCAAGGG
1 TTGTTAACGTATTCATTCTAGTCAAGGG
* *
60531164 TTGTTAACTTATTCATTCTAGTTAAGGG
1 TTGTTAACGTATTCATTCTAGTCAAGGG
60531192 TT
1 TT
60531194 TTATCAAGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.47
Consensus pattern (28 bp):
TTGTTAACGTATTCATTCTAGTCAAGGG
Found at i:60540550 original size:22 final size:22
Alignment explanation
Indices: 60540519--60540590 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
60540509 TGCCTAGATG
*
60540519 GTATTTTGATAGCCTTTATGGC
1 GTATTCTGATAGCCTTTATGGC
* *
60540541 GTATTCTGATTTGGCCTTTGTGGC
1 GTATTCTGA--TAGCCTTTATGGC
* *
60540565 --ATTTTGTTAGCC-TTATGGC
1 GTATTCTGATAGCCTTTATGGC
60540584 GTATTCT
1 GTATTCT
60540591 AATTTGGCCT
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
19 6 0.16
20 4 0.11
21 4 0.11
22 13 0.34
24 11 0.29
ACGTcount: A:0.14, C:0.15, G:0.24, T:0.47
Consensus pattern (22 bp):
GTATTCTGATAGCCTTTATGGC
Found at i:60540564 original size:24 final size:24
Alignment explanation
Indices: 60540530--60540604 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
60540520 TATTTTGATA
60540530 GCCTTTATGGCGTATTCTGATTTG
1 GCCTTTATGGCGTATTCTGATTTG
* * *
60540554 GCCTTTGTGGC--ATTTTG--TTA
1 GCCTTTATGGCGTATTCTGATTTG
*
60540574 GCC-TTATGGCGTATTCTAATTTG
1 GCCTTTATGGCGTATTCTGATTTG
60540597 GCCTTTAT
1 GCCTTTAT
60540605 AGTATTCTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
19 6 0.15
20 5 0.13
21 4 0.10
22 5 0.13
23 5 0.13
24 14 0.36
ACGTcount: A:0.13, C:0.17, G:0.23, T:0.47
Consensus pattern (24 bp):
GCCTTTATGGCGTATTCTGATTTG
Found at i:60540616 original size:43 final size:44
Alignment explanation
Indices: 60540519--60540616 Score: 135
Period size: 43 Copynumber: 2.2 Consensus size: 44
60540509 TGCCTAGATG
* * * *
60540519 GTATTTTGATAGCCTTTATGGCGTATTCTGATTTGGCCTTTGTG
1 GTATTTTGTTAGCCTTTATGGCGTATTCTAATTTGGCCTTTATA
*
60540563 GCATTTTGTTAGCC-TTATGGCGTATTCTAATTTGGCCTTTATA
1 GTATTTTGTTAGCCTTTATGGCGTATTCTAATTTGGCCTTTATA
*
60540606 GTATTCTGTTA
1 GTATTTTGTTA
60540617 TGGCATTTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 35 0.74
44 12 0.26
ACGTcount: A:0.16, C:0.14, G:0.21, T:0.48
Consensus pattern (44 bp):
GTATTTTGTTAGCCTTTATGGCGTATTCTAATTTGGCCTTTATA
Found at i:60542046 original size:25 final size:26
Alignment explanation
Indices: 60542009--60542069 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
60541999 TTAAGGAGCA
* *
60542009 AAATGATAGTTTCGTTAATAAAGTAG-
1 AAATTATA-TTTCGTTAATAAAATAGC
60542035 AAATTATATTTCGTTAATAAAATAGC
1 AAATTATATTTCGTTAATAAAATAGC
60542061 AAA-TATATT
1 AAATTATATT
60542070 AATGAATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 22 0.69
26 10 0.31
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (26 bp):
AAATTATATTTCGTTAATAAAATAGC
Found at i:60552624 original size:12 final size:13
Alignment explanation
Indices: 60552607--60552644 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
60552597 ATCCTGGAAT
60552607 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
60552619 ATTAAGAACACATA
1 ATTAAGAACA-AGA
60552633 ATTAAGAACAAG
1 ATTAAGAACAAG
60552645 CCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:60565853 original size:6 final size:6
Alignment explanation
Indices: 60565842--60566028 Score: 163
Period size: 6 Copynumber: 30.8 Consensus size: 6
60565832 AACCAAAATG
*
60565842 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
60565890 AGTAAT- AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
60565939 ACAATC AGTAA-C AGAATC ATAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
60565987 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
60566029 GTGAATGCAA
Statistics
Matches: 148, Mismatches: 17, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
5 12 0.08
6 122 0.82
7 11 0.07
8 3 0.02
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:60565857 original size:30 final size:29
Alignment explanation
Indices: 60565821--60566028 Score: 203
Period size: 30 Copynumber: 7.1 Consensus size: 29
60565811 AAGAAACATT
* * *
60565821 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
60565851 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
*
60565881 ATCA-ATATTAGTAATAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
* *
60565911 ATCAGAATTAGGTGACAGAATCAGAATCACA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
*
60565942 ATC---A--GTAACAGAATCATAATCAGA
1 ATCAGAATTGTAACAGAATCAGAATCAGA
*
60565966 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
*
60565996 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
60566027 AT
1 AT
60566029 GTGAATGCAA
Statistics
Matches: 149, Mismatches: 17, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
24 20 0.13
27 1 0.01
28 1 0.01
29 1 0.01
30 81 0.54
31 45 0.30
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:60565945 original size:85 final size:85
Alignment explanation
Indices: 60565842--60566024 Score: 330
Period size: 85 Copynumber: 2.2 Consensus size: 85
60565832 AACCAAAATG
* *
60565842 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAATAGAATCAGAAT
1 AGAATCAGAATCACAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
60565907 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
* *
60565927 AGAATCAGAATCACAATCAGTAACAGAATCATAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCACAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
60565992 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
60566012 AGAATCAGAATCA
1 AGAATCAGAATCA
60566025 GAATGTGAAT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (85 bp):
AGAATCAGAATCACAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:60566194 original size:27 final size:27
Alignment explanation
Indices: 60566163--60566218 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
60566153 AGAATCGTGA
* *
60566163 CAGAGTCACCAG-ATACAGATAGTGTGG
1 CAGAGCCACCAGAAT-CAGATAATGTGG
60566190 CAGAGCCACCAGAATCAGATAATGTGG
1 CAGAGCCACCAGAATCAGATAATGTGG
60566217 CA
1 CA
60566219 AACCTACCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.36, C:0.21, G:0.27, T:0.16
Consensus pattern (27 bp):
CAGAGCCACCAGAATCAGATAATGTGG
Found at i:60566593 original size:27 final size:26
Alignment explanation
Indices: 60566528--60566610 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
60566518 ATCATCGATC
* * *
60566528 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
* *
60566554 ATATAGCTATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
60566581 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
60566608 AAC
1 AAC
60566611 GCTTCCTCCG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 6 0.13
27 41 0.87
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:60566839 original size:27 final size:27
Alignment explanation
Indices: 60566809--60567003 Score: 241
Period size: 27 Copynumber: 7.3 Consensus size: 27
60566799 GGGGCAAAAT
* * *
60566809 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
60566836 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
60566863 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
60566890 GATAATTCTACCCTACAAGGGTATTT-
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
60566916 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
60566943 AGTAATTCTACCCTA-TAGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* *
60566970 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
60566997 AGTAATT
1 GGTAATT
60567004 TCATAATCAA
Statistics
Matches: 143, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
26 25 0.17
27 117 0.82
28 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:60566945 original size:80 final size:81
Alignment explanation
Indices: 60566811--60566995 Score: 250
Period size: 80 Copynumber: 2.3 Consensus size: 81
60566801 GGCAAAATGG
* * * * *
60566811 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCC
1 TAATTCTACCCTACAAGGGTAT-TTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
60566876 TACAAG-GGTATTTC-GA
65 TA-AAGAGGTATTTCGGA
* *
60566892 TAATTCTACCCTACAAGGGTATTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCT
1 TAATTCTACCCTACAAGGGTATTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
*
60566957 ATAGAGGTATTTCGGA
66 AAAGAGGTATTTCGGA
*
60566973 -AATTCTACCCTACAGGGGTATTT
1 TAATTCTACCCTACAAGGGTATTT
60566996 CAGTAATTTC
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
79 2 0.02
80 69 0.74
81 22 0.24
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (81 bp):
TAATTCTACCCTACAAGGGTATTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
AAAGAGGTATTTCGGA
Found at i:60567028 original size:80 final size:79
Alignment explanation
Indices: 60566862--60567031 Score: 177
Period size: 80 Copynumber: 2.1 Consensus size: 79
60566852 AGGGGTATTT
* *
60566862 CAGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTGGTAATTCTAT
1 CAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTAGTAATTCTAT
* ***
60566927 CCTATAAGGGTATTT
66 -CAATAAGGGTAAAA
* *
60566942 CAGTAATTCTACCCTA-TAGAGGTATTTCGGA-AATTCTACCCTACAGGGGTATTTCAGTAATT-
1 CAGTAATTCTACCCTACAAG-GGTATTTC-GATAATTCTACCCTACAAGGGTATTT-AGTAATTC
60567004 TCAT-AATCAAGGGTAAAA
63 T-ATCAAT-AAGGGTAAAA
*
60567022 CGGTAATTCT
1 CAGTAATTCT
60567032 GTAAATCGAG
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
79 4 0.05
80 62 0.82
81 10 0.13
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (79 bp):
CAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTAGTAATTCTAT
CAATAAGGGTAAAA
Found at i:60567038 original size:27 final size:27
Alignment explanation
Indices: 60567008--60567362 Score: 407
Period size: 27 Copynumber: 13.2 Consensus size: 27
60566998 GTAATTTCAT
*
60567008 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
60567035 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
60567062 AA-CTGAGGGTAAAACTGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
60567089 AATCAAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
60567116 AA-CTGAGGGTAAAACAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
60567143 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
60567170 AATTGAGGGTAAAATGGTAATTCTAG-A
1 AATCGAGGGTAAAACGGTAATTCT-GTA
*
60567197 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
60567224 AA-CTGAGGGTAAAATGATAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
60567251 AATCGAAGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
60567278 AA-CTGAGGGTAAAACGGTAATT-TAAA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
60567304 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
60567331 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
60567358 AATCG
1 AATCG
60567363 GGAGTGCTTT
Statistics
Matches: 279, Mismatches: 38, Indels: 22
0.82 0.11 0.06
Matches are distributed among these distances:
26 27 0.10
27 249 0.89
28 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:60598057 original size:46 final size:46
Alignment explanation
Indices: 60598007--60598182 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
60597997 TGGTTGAGCA
60598007 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
60598053 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
60598098 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
60598146 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60598183 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:60598163 original size:93 final size:93
Alignment explanation
Indices: 60598004--60598175 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
60597994 GGATGGTTGA
* *
60598004 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
60598069 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
60598097 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
60598162 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
60598176 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60605618 original size:46 final size:46
Alignment explanation
Indices: 60605568--60605743 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
60605558 TGGTTGAGCA
60605568 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
60605614 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
60605659 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
60605707 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60605744 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:60605724 original size:93 final size:93
Alignment explanation
Indices: 60605565--60605736 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
60605555 GGATGGTTGA
* *
60605565 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
60605630 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
60605658 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
60605723 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
60605737 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60611729 original size:46 final size:46
Alignment explanation
Indices: 60611679--60611851 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
60611669 TGGTTGAGCA
*
60611679 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
60611725 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
60611772 TCCGAACTCGTTGAGTTGATTCCGAGTTCATTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
60611818 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
60611852 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:60611835 original size:93 final size:93
Alignment explanation
Indices: 60611676--60611846 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
60611666 GGATGGTTGA
***
60611676 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
60611741 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
60611769 GCATCCGAACTCGTTGAGTTGATTCCGAGTTCATTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
60611834 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
60611847 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60619217 original size:46 final size:46
Alignment explanation
Indices: 60619167--60619335 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 46
60619157 TGAGCATCCA
*
60619167 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * *
60619213 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCG
* * * * *
60619260 AACTGGTTAAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
*
60619306 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
60619336 GGGGCGGGTT
Statistics
Matches: 99, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 55 0.56
47 27 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
Found at i:60619319 original size:93 final size:93
Alignment explanation
Indices: 60619160--60619330 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
60619150 GGATGGTTGA
* * *
60619160 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
60619225 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
60619253 GCATCCGAACTGGTTAAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
60619318 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
60619331 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60626641 original size:39 final size:39
Alignment explanation
Indices: 60626452--60626634 Score: 174
Period size: 39 Copynumber: 4.6 Consensus size: 39
60626442 TCGAATGATG
* * * * *
60626452 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAACTGACCATA
1 TCCGGGCTAAGTCCC-AAGGCATTTGTGC-GAGTTACTAAA
* * * * *
60626492 TCTGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCAAGGCATTTGTGCGAGTTACTAAA
*
60626532 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCC-AAGGCATTTGTGCGAGTTACTAAA
* *
60626571 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCAAGGCATTTGTGCGAGTTACTA-AA
*
60626611 -CCGGGCTATGTCCCAAGGCATTTG
1 TCCGGGCTAAGTCCCAAGGCATTTG
60626635 AACGAGTAGC
Statistics
Matches: 116, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
38 2 0.02
39 73 0.63
40 31 0.27
41 10 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCAAGGCATTTGTGCGAGTTACTAAA
Found at i:60626641 original size:78 final size:78
Alignment explanation
Indices: 60626499--60626657 Score: 191
Period size: 78 Copynumber: 2.0 Consensus size: 78
60626489 ATATCTGGAC
* **
60626499 TAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGT
1 TAAGATCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAG-
60626564 TA-CTAAATCCGGGT
65 TAGCTAAATCC-GGT
* * *
60626578 TAAG-TCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCC-AAGGCATTTGAACGA
1 TAAGATCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGA
*
60626640 GTAGCTATATCCGGT
64 GTAGCTAAATCCGGT
60626655 TAA
1 TAA
60626658 ATTGAAGGTA
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
77 10 0.14
78 53 0.76
79 7 0.10
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (78 bp):
TAAGATCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGT
AGCTAAATCCGGT
Found at i:60634719 original size:39 final size:40
Alignment explanation
Indices: 60634618--60634809 Score: 178
Period size: 40 Copynumber: 4.8 Consensus size: 40
60634608 TTGAATGATG
* * * *
60634618 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAT
* *
60634657 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAT
* * *
60634698 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
* * *
60634737 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
* * *
60634776 AACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
60634810 AGCTATATCC
Statistics
Matches: 125, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 34 0.27
40 82 0.66
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
Found at i:60634754 original size:79 final size:81
Alignment explanation
Indices: 60634618--60634800 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
60634608 TTGAATGATG
* *
60634618 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
60634682 TGTACGAGATACTA-A
66 TGTACAAGATACTATA
* * * **
60634697 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
60634759 TTTGTGCAAGTTACTATA
64 TTTGTACAAGATACTATA
* *
60634777 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
60634801 TGAACGAGTA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 30 0.34
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTACAAGATACTATA
Found at i:60634824 original size:79 final size:79
Alignment explanation
Indices: 60634671--60634825 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
60634661 GGACTAAGAT
* * **
60634671 CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
60634736 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * * *
60634750 CCGAAGGCATTTGTGCAAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTACAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
60634813 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
60634826 ATTTCGAAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.59
80 24 0.38
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:60638134 original size:16 final size:17
Alignment explanation
Indices: 60638113--60638145 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60638103 GTTGGCTGAA
60638113 GGTTTT-TTTCAAATTT
1 GGTTTTATTTCAAATTT
*
60638129 GGTTTTATTTGAAATTT
1 GGTTTTATTTCAAATTT
60638146 TTTTACAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.21, C:0.03, G:0.15, T:0.61
Consensus pattern (17 bp):
GGTTTTATTTCAAATTT
Found at i:60652172 original size:94 final size:94
Alignment explanation
Indices: 60652043--60652215 Score: 215
Period size: 94 Copynumber: 1.8 Consensus size: 94
60652033 AAGCTGACGC
** * * *
60652043 CATGTCCCAGACAGTTCTTACACTAGGTTGTATATCGCGAGGCCAATGCATTTCCCGGACATGTC
1 CATGTCCCAGACAGTTCTTACACTAGGTTAAATATCGCGAGGCCAATGCATGTACCAGACATGTC
60652108 TTACACTAGCTCTCGTTTCAATGCCGATG
66 TTACACTAGCTCTCGTTTCAATGCCGATG
* *** *
60652137 CATGTCCCAGACA-TGTCTTACACT-GGCTTAAATATCTCGAGGTTGATGCATGTACTAGACATG
1 CATGTCCCAGACAGT-TCTTACACTAGG-TTAAATATCGCGAGGCCAATGCATGTACCAGACATG
*
60652200 TCTTACACTGGCTCTC
64 TCTTACACTAGCTCTC
60652216 ATACTGTGGC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
93 3 0.05
94 63 0.95
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (94 bp):
CATGTCCCAGACAGTTCTTACACTAGGTTAAATATCGCGAGGCCAATGCATGTACCAGACATGTC
TTACACTAGCTCTCGTTTCAATGCCGATG
Found at i:60652252 original size:46 final size:48
Alignment explanation
Indices: 60652043--60652254 Score: 152
Period size: 46 Copynumber: 4.5 Consensus size: 48
60652033 AAGCTGACGC
** * *
60652043 CATGTCCCAGACA-GTTCTTACACTAGG-TTGTATATCGCGAGGCCAATG
1 CATGTCCCAGACATG-TCTTACACT-GGCTTAAATATCTCGAGGCTAATG
* * * ** * * **
60652091 CATTTCCCGGACATGTCTTACACTAGCTCT-CGT-T-TCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-TAAATATCTCGAGGCTAATG
* *
60652137 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGTTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCTAATG
* * * *
60652185 CATGTACTAGACATGTCTTACACTGGCTCT-CATA-CT-GTGGCTAATG
1 CATGTCCCAGACATGTCTTACACTGGCT-TAAATATCTCGAGGCTAATG
*
60652231 CATGTCCCAGACATGTTTTACACT
1 CATGTCCCAGACATGTCTTACACT
60652255 AGAACACATA
Statistics
Matches: 130, Mismatches: 27, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
45 1 0.01
46 62 0.48
47 5 0.04
48 59 0.45
49 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCTAATG
Found at i:60659941 original size:48 final size:46
Alignment explanation
Indices: 60659821--60659995 Score: 131
Period size: 46 Copynumber: 3.8 Consensus size: 46
60659811 TAGTATATCG
* * * * * * *
60659821 TGAGGCCAATGTATGTCCTAGACATGTCTTACAATAGCTCTCGT-C
1 TGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATGC
* * * *
60659866 TCAATGCCGATGAATGTCCTAGACATGTCTTACACTGGCATAAAT-ATG-
1 T-GAGGCCGATGCATGTCCCAGACATGTCTTACACTGGC-T--ATCATGC
* * *
60659914 TCGAGGCCGATGCATGTCCCAGACATGTCTTTCATTGGCTCTCATGC
1 T-GAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATGC
* * *
60659961 TGTGGCTGATGCATGTCCCAGACATGTTTTACACT
1 TGAGGCCGATGCATGTCCCAGACATGTCTTACACT
60659996 AGCACACATA
Statistics
Matches: 103, Mismatches: 20, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
45 2 0.02
46 63 0.61
47 3 0.03
48 34 0.33
49 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (46 bp):
TGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATGC
Found at i:60672346 original size:26 final size:26
Alignment explanation
Indices: 60672310--60672417 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
60672300 TGATACAAAT
60672310 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
60672336 TGATAATGGGTTACGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60672362 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60672388 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60672414 TGAT
1 TGAT
60672418 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:60674076 original size:27 final size:26
Alignment explanation
Indices: 60674036--60674172 Score: 177
Period size: 27 Copynumber: 5.1 Consensus size: 26
60674026 AGGAAGCGTC
*
60674036 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
60674063 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
60674090 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
60674117 CTGGTGGCTCTG-CACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
60674143 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
60674170 CTG
1 CTG
60674173 ATGACTTCGT
Statistics
Matches: 97, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
25 2 0.02
26 30 0.31
27 63 0.65
28 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:60674157 original size:53 final size:53
Alignment explanation
Indices: 60674036--60674172 Score: 222
Period size: 54 Copynumber: 2.5 Consensus size: 53
60674026 AGGAAGCGTC
60674036 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
60674090 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTG-CACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
60674143 CTGGTGGCTCTGCCACAATATCTGTATCTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTG
60674173 ATGACTTCGT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
52 7 0.09
53 34 0.43
54 38 0.48
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:60674192 original size:53 final size:52
Alignment explanation
Indices: 60674036--60674193 Score: 203
Period size: 53 Copynumber: 3.0 Consensus size: 52
60674026 AGGAAGCGTC
*
60674036 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAA-TATCTGATCTGGTGGCTC-GTCACATATATCTGTT
*
60674090 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTC-TGCACATATATCTGTT
1 CTGGTGGCTATGCCAC-AATATCTGATCTGGTGGCTCGT-CACATATATCTGTT
* * *
60674143 CTGGTGGCTCTGCCACAATATCTGTATCTGATGACTTCGTCACAT-TATCTG
1 CTGGTGGCTATGCCACAATATCTG-ATCTGGTGGC-TCGTCACATATATCTG
60674194 GCAGCCTCGC
Statistics
Matches: 93, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
52 7 0.08
53 43 0.46
54 41 0.44
55 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.35
Consensus pattern (52 bp):
CTGGTGGCTATGCCACAATATCTGATCTGGTGGCTCGTCACATATATCTGTT
Found at i:60678976 original size:292 final size:295
Alignment explanation
Indices: 60678452--60679038 Score: 1074
Period size: 292 Copynumber: 2.0 Consensus size: 295
60678442 ATTGCATTGA
60678452 ATTTGATGTTAATGGACATTTGACGGGAATTGACATTTTAAATGAAATAAATAAGTTTGTATGAA
1 ATTTGATGTTAATGGACATTTGACGGGAATTGACATTTTAAATGAAATAAATAAGTTTGTATGAA
* *
60678517 AACTAGATTATATGTTATTTTTGGTTGTATGGACTAATGCCCAAATAAACATTAAAATGTGTTGA
66 AACTAGATGATATGTTATTTTTGGTTGTATGGACTAATGCCCAAATAAACATGAAAATGTGTTGA
*
60678582 ATTGAATGTACATTGCATGATCATCTATGCATATTGATATACTTGATGAAAAGAGGAAATCTCAG
131 ATTGAATGTACATTGCATGATCATCTATGCATATTGATAAACTTGATGAAAAGAGGAAATCTCAG
* *
60678647 TTGAATAAAAATGGATATCCGATGGATAAAGCA-TTTT-T-TACATGACATGAGATCCTGCATGT
196 TTAAATAAAAAGGGATATCCGATGGATAAAGCATTTTTATGTACATGACATGAGATCCTGCATGT
*
60678709 GTTGCAGAAAAGGATTTAGCCCGGACGGGTAATCC
261 GTTGCAGAAAAGGATTTAGCCCAGACGGGTAATCC
60678744 ATTTGATGTTAATGGACATTTGACGGGAATTGACATTTTAAATGAAATAAATAAGTTTGTATGAA
1 ATTTGATGTTAATGGACATTTGACGGGAATTGACATTTTAAATGAAATAAATAAGTTTGTATGAA
*
60678809 AACTAGATGATATGTTATTTTTGTTTGTATGGACTAATGCCCAAATAAACATGAAAATGTGTTGA
66 AACTAGATGATATGTTATTTTTGGTTGTATGGACTAATGCCCAAATAAACATGAAAATGTGTTGA
60678874 ATTGAATGTACATTGCATGATCATCTATGCATATTGATAAACTTGATGAAAAGAGGAAATCTC-G
131 ATTGAATGTACATTGCATGATCATCTATGCATATTGATAAACTTGATGAAAAGAGGAAATCTCAG
60678938 ATTAAATAAAAAGGGATATCCGATGGATAAAGCATTTTTATGTACATGACATGAGATCCTGCATG
196 -TTAAATAAAAAGGGATATCCGATGGATAAAGCATTTTTATGTACATGACATGAGATCCTGCATG
60679003 TGTTGCAGAAAAGGATTTAGCCCAGACGGGTAATCC
260 TGTTGCAGAAAAGGATTTAGCCCAGACGGGTAATCC
60679039 GTTGATCTCA
Statistics
Matches: 284, Mismatches: 7, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
291 1 0.00
292 220 0.77
293 4 0.01
294 1 0.00
295 58 0.20
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (295 bp):
ATTTGATGTTAATGGACATTTGACGGGAATTGACATTTTAAATGAAATAAATAAGTTTGTATGAA
AACTAGATGATATGTTATTTTTGGTTGTATGGACTAATGCCCAAATAAACATGAAAATGTGTTGA
ATTGAATGTACATTGCATGATCATCTATGCATATTGATAAACTTGATGAAAAGAGGAAATCTCAG
TTAAATAAAAAGGGATATCCGATGGATAAAGCATTTTTATGTACATGACATGAGATCCTGCATGT
GTTGCAGAAAAGGATTTAGCCCAGACGGGTAATCC
Found at i:60694417 original size:29 final size:29
Alignment explanation
Indices: 60694375--60694432 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
60694365 CAAAACCTTT
60694375 ACCTGTTTTGCTTATTCCATATGAAAATA
1 ACCTGTTTTGCTTATTCCATATGAAAATA
60694404 ACCTGTTTTGCTTATTCCATATGAAAATA
1 ACCTGTTTTGCTTATTCCATATGAAAATA
60694433 GACACAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.41
Consensus pattern (29 bp):
ACCTGTTTTGCTTATTCCATATGAAAATA
Found at i:60698863 original size:64 final size:64
Alignment explanation
Indices: 60698782--60698965 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
60698772 AGACATTATG
* * *
60698782 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
60698846 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAACAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
60698911 AA
63 AA
* * *
60698913 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
60698966 CAAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 25 0.26
66 21 0.22
67 32 0.33
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:60703242 original size:68 final size:66
Alignment explanation
Indices: 60703170--60703341 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
60703160 CATCATGTGT
* * * *
60703170 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
60703233 TGTAG
62 TGTAG
** * *
60703238 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
60703303 AG
65 AG
* * * *
60703305 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
60703342 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:60703275 original size:64 final size:64
Alignment explanation
Indices: 60703194--60703377 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
60703184 AGACATTATG
* * *
60703194 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
60703258 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
60703323 AA
63 AA
* * *
60703325 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
60703378 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:60707672 original size:68 final size:66
Alignment explanation
Indices: 60707600--60707770 Score: 177
Period size: 66 Copynumber: 2.6 Consensus size: 66
60707590 CATCATGTGT
* * * *
60707600 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
60707663 TGTAG
62 TGTAG
** * *
60707668 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGTGAAGGACACCATGTA
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
60707733 G
66 G
* * * *
60707734 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
60707771 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
64 24 0.27
65 18 0.20
66 34 0.38
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:60707705 original size:64 final size:64
Alignment explanation
Indices: 60707624--60707806 Score: 210
Period size: 66 Copynumber: 2.8 Consensus size: 64
60707614 AGACATTATG
* * *
60707624 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
60707688 ATGTAGCTAGGTCGCATGCGTGGTTCCAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGATA
60707753 A
64 A
* * *
60707754 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
60707807 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
65 21 0.21
66 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:60712094 original size:63 final size:63
Alignment explanation
Indices: 60712014--60712196 Score: 190
Period size: 63 Copynumber: 2.8 Consensus size: 63
60712004 AGACATTATG
* * *
60712014 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAACAAGAGAGCTACGAGATAA
* * * * *
60712077 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTA-ACAAGAGAGCTACGAGAT
60712142 AA
62 AA
* * * *
60712144 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGTGTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGT-AACAAGAGAGC
60712197 CGAACTATAT
Statistics
Matches: 97, Mismatches: 17, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
63 43 0.44
64 1 0.01
65 2 0.02
66 30 0.31
67 21 0.22
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAACAAGAGAGCTACGAGATAA
Found at i:60714345 original size:39 final size:38
Alignment explanation
Indices: 60714309--60714487 Score: 152
Period size: 39 Copynumber: 4.6 Consensus size: 38
60714299 GCTACTCGTT
*
60714309 CAAATGCCTTCGGGACATAGCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCGG-TATAGTAACTCGCA
** *
60714348 CAAATGTTTTCGGGACTTAACCTGG-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCC-GGTA-TAGTAACTCGCA
* *
60714387 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCGGTA-TAGTAACTCGCA
* * *
60714426 CAAATGCGCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGC-CTTCGGGA-CTTAG-CCGG-TATAGTAAC-TCGCA
60714468 CAAA-GCCTTC-GGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
60714488 CGGACAATCA
Statistics
Matches: 117, Mismatches: 14, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
38 9 0.08
39 70 0.60
40 13 0.11
41 16 0.14
42 9 0.08
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (38 bp):
CAAATGCCTTCGGGACTTAGCCGGTATAGTAACTCGCA
Found at i:60750384 original size:16 final size:16
Alignment explanation
Indices: 60750365--60750395 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60750355 TTATAAACAC
*
60750365 ATATCATTATTTCATT
1 ATATCAATATTTCATT
60750381 ATATCAATATTTCAT
1 ATATCAATATTTCAT
60750396 ATACCATAGT
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:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATCAATATTTCATT
Found at i:60763064 original size:43 final size:41
Alignment explanation
Indices: 60763017--60763151 Score: 105
Period size: 43 Copynumber: 3.2 Consensus size: 41
60763007 CCAAACGTGA
* *
60763017 TCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAAGG
1 TCTTACA-ATAATTCAATA-CGATGCCTATGTCCCAGACAAGG
* *
60763060 TCTTACACA-AAATCAGATACGATGCCAATGTCCCAGACATA-G
1 TCTTACA-ATAATTCA-ATACGATGCCTATGTCCCAGACA-AGG
* * * *
60763102 TCTTACACATAAATCTCAA-CCGAGGCCTGTGTCCCAGACATGG
1 TCTTACA-AT-AAT-TCAATACGATGCCTATGTCCCAGACAAGG
60763145 TCTTACA
1 TCTTACA
60763152 CGATGTCTCA
Statistics
Matches: 75, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
42 33 0.44
43 36 0.48
44 3 0.04
45 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (41 bp):
TCTTACAATAATTCAATACGATGCCTATGTCCCAGACAAGG
Found at i:60763093 original size:42 final size:43
Alignment explanation
Indices: 60763037--60763152 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 43
60763027 AATTCAATAT
* *
60763037 CGATGCCTCTGTCCCAGACAAGGTCTTACACA-AAATCAGATA-
1 CGATGCCTATGTCCCAGACAAGGTCTTACACATAAATCACA-AC
* *
60763079 CGATGCCAATGTCCCAGACATA-GTCTTACACATAAATCTCAAC
1 CGATGCCTATGTCCCAGACA-AGGTCTTACACATAAATCACAAC
* * *
60763122 CGAGGCCTGTGTCCCAGACATGGTCTTACAC
1 CGATGCCTATGTCCCAGACAAGGTCTTACAC
60763153 GATGTCTCAG
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (43 bp):
CGATGCCTATGTCCCAGACAAGGTCTTACACATAAATCACAAC
Found at i:60765718 original size:24 final size:24
Alignment explanation
Indices: 60765690--60765736 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
60765680 GAGAGCATAG
*
60765690 GAGAGCAAAAGGAATGAGAAACGA
1 GAGAGCAAAAGGAACGAGAAACGA
60765714 GAGAGCAAAAGGAACGAGAAACG
1 GAGAGCAAAAGGAACGAGAAACG
60765737 GGCCAAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.53, C:0.11, G:0.34, T:0.02
Consensus pattern (24 bp):
GAGAGCAAAAGGAACGAGAAACGA
Found at i:60773185 original size:4 final size:4
Alignment explanation
Indices: 60773176--60773200 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
60773166 TATTCTTAAA
60773176 AAAC AAAC AAAC AAAC AAAC AAAC A
1 AAAC AAAC AAAC AAAC AAAC AAAC A
60773201 TGTATACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:60776863 original size:26 final size:25
Alignment explanation
Indices: 60776810--60776870 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
60776800 CAATAATTTT
**
60776810 ATATATTATATAATAAGACCCAGGC
1 ATATATTATATAATAAGACCCACAC
*
60776835 ATATATGTATATAGTAAGACCCACAC
1 ATATAT-TATATAATAAGACCCACAC
*
60776861 ATATAATATA
1 ATATATTATA
60776871 ATTTATGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.30
Consensus pattern (25 bp):
ATATATTATATAATAAGACCCACAC
Found at i:60779779 original size:22 final size:21
Alignment explanation
Indices: 60779747--60779839 Score: 93
Period size: 20 Copynumber: 4.4 Consensus size: 21
60779737 CTCTAATTTG
*
60779747 GCCTTTATGGCGCATTTTGTTA
1 GCCTTTGTGG-GCATTTTGTTA
60779769 GCCTTTGT-GGCATTTTGTTA
1 GCCTTTGTGGGCATTTTGTTA
* *
60779789 GTCTTTGT-GGCATTTTGATA
1 GCCTTTGTGGGCATTTTGTTA
*
60779809 TGGCTTT-TGTGGCATTTTGTTA
1 -GCCTTTGTG-GGCATTTTGTTA
*
60779831 ACCTTTGTG
1 GCCTTTGTG
60779840 ACATTTTAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
20 30 0.50
21 10 0.17
22 20 0.33
ACGTcount: A:0.12, C:0.14, G:0.25, T:0.49
Consensus pattern (21 bp):
GCCTTTGTGGGCATTTTGTTA
Found at i:60779783 original size:20 final size:20
Alignment explanation
Indices: 60779758--60779846 Score: 115
Period size: 20 Copynumber: 4.3 Consensus size: 20
60779748 CCTTTATGGC
60779758 GCATTTTGTTAGCCTTTGTG
1 GCATTTTGTTAGCCTTTGTG
*
60779778 GCATTTTGTTAGTCTTTGTG
1 GCATTTTGTTAGCCTTTGTG
* *
60779798 GCATTTTGATATGGCTTTTGTG
1 GCATTTTG-T-TAGCCTTTGTG
*
60779820 GCATTTTGTTAACCTTTGTG
1 GCATTTTGTTAGCCTTTGTG
*
60779840 ACATTTT
1 GCATTTT
60779847 AATATGGCAT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
20 41 0.69
21 2 0.03
22 16 0.27
ACGTcount: A:0.13, C:0.12, G:0.22, T:0.52
Consensus pattern (20 bp):
GCATTTTGTTAGCCTTTGTG
Found at i:60779821 original size:42 final size:42
Alignment explanation
Indices: 60779772--60779874 Score: 152
Period size: 42 Copynumber: 2.5 Consensus size: 42
60779762 TTTGTTAGCC
** * * *
60779772 TTTGTGGCATTTTGTTAGTCTTTGTGGCATTTTGATATGGCT
1 TTTGTGGCATTTTGTTAACCTTTGTGACATTTTAATATGGCA
60779814 TTTGTGGCATTTTGTTAACCTTTGTGACATTTTAATATGGCA
1 TTTGTGGCATTTTGTTAACCTTTGTGACATTTTAATATGGCA
*
60779856 TTTGTGGCATTCTGTTAAC
1 TTTGTGGCATTTTGTTAAC
60779875 TTTTTGGATA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.17, C:0.12, G:0.22, T:0.50
Consensus pattern (42 bp):
TTTGTGGCATTTTGTTAACCTTTGTGACATTTTAATATGGCA
Found at i:60779866 original size:22 final size:21
Alignment explanation
Indices: 60779792--60779866 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 21
60779782 TTTGTTAGTC
*
60779792 TTTGTGGCATTTTGATATGGCT
1 TTTGTGGCATTTT-ATATGGCA
* ** *
60779814 TTTGTGGCATTTTGT-TAACC
1 TTTGTGGCATTTTATATGGCA
*
60779834 TTTGTGACATTTTAATATGGCA
1 TTTGTGGCATTTT-ATATGGCA
60779856 TTTGTGGCATT
1 TTTGTGGCATT
60779867 CTGTTAACTT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 14 0.34
21 2 0.05
22 25 0.61
ACGTcount: A:0.17, C:0.11, G:0.23, T:0.49
Consensus pattern (21 bp):
TTTGTGGCATTTTATATGGCA
Found at i:60779878 original size:62 final size:62
Alignment explanation
Indices: 60779758--60779878 Score: 138
Period size: 62 Copynumber: 2.0 Consensus size: 62
60779748 CCTTTATGGC
* * ** * * **
60779758 GCATTTTGTTAGCCTTTGTGGCATTTTGTTAGTCTTTGTGGCATTTTGATATGGCTTTTGTG
1 GCATTTTGTTAACCTTTGTGACATTTTAATAGGCTTTGTGGCATTCTGATATAACTTTTGTG
60779820 GCATTTTGTTAACCTTTGTGACATTTTAATATGGCATTTGTGGCATTCTG-T-TAACTTTT
1 GCATTTTGTTAACCTTTGTGACATTTTAATA-GGC-TTTGTGGCATTCTGATATAACTTTT
60779879 TGGATACTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
62 33 0.67
63 3 0.06
64 13 0.27
ACGTcount: A:0.16, C:0.12, G:0.21, T:0.50
Consensus pattern (62 bp):
GCATTTTGTTAACCTTTGTGACATTTTAATAGGCTTTGTGGCATTCTGATATAACTTTTGTG
Found at i:60783501 original size:50 final size:49
Alignment explanation
Indices: 60783371--60783503 Score: 171
Period size: 49 Copynumber: 2.7 Consensus size: 49
60783361 TGTTGTGTGT
* *
60783371 CAATGTAAGACCTGTCTGGGACATGGCATCGACACCGATAAATGAGAGC
1 CAATGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAAATGAAAGC
* * *
60783420 CAATGTAAGACCTATCTAGGACATGGCATCGGC-CTC-ACTATATGAAAGC
1 CAATGTAAGACCTGTCTGGGACATGGCATCGGCAC-CGA-TAAATGAAAGC
*
60783469 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 CAATGTAAGACC-TGTCTGGGACATGGCATCGGCA
60783504 TCTTAACCCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
48 2 0.03
49 51 0.71
50 19 0.26
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (49 bp):
CAATGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAAATGAAAGC
Found at i:60784669 original size:21 final size:21
Alignment explanation
Indices: 60784639--60784695 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
60784629 TAATGACCAC
*
60784639 ACGGGGGTGTTGCCCTTCCAT
1 ACGGGCGTGTTGCCCTTCCAT
60784660 ACGGGCGTGTTGCCCTTCCAT
1 ACGGGCGTGTTGCCCTTCCAT
*
60784681 ACGGACGTG-TGCCCT
1 ACGGGCGTGTTGCCCT
60784696 GCTTCAAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 6 0.18
21 28 0.82
ACGTcount: A:0.11, C:0.32, G:0.32, T:0.26
Consensus pattern (21 bp):
ACGGGCGTGTTGCCCTTCCAT
Found at i:60790255 original size:56 final size:56
Alignment explanation
Indices: 60790188--60790297 Score: 211
Period size: 56 Copynumber: 2.0 Consensus size: 56
60790178 TTTGATTTTT
60790188 TCAGGAATTTCAACAATAATCATAGTAAACTTTAATCACGATCCTTCTATAAAAGA
1 TCAGGAATTTCAACAATAATCATAGTAAACTTTAATCACGATCCTTCTATAAAAGA
*
60790244 TCAGGAATTTCAACAATAATCATAGTAAACTTTAATCATGATCCTTCTATAAAA
1 TCAGGAATTTCAACAATAATCATAGTAAACTTTAATCACGATCCTTCTATAAAA
60790298 ATACAAATAG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (56 bp):
TCAGGAATTTCAACAATAATCATAGTAAACTTTAATCACGATCCTTCTATAAAAGA
Done.