Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 178 of 378
Found at i:51904992 original size:42 final size:41
Alignment explanation
Indices: 51904874--51904992 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 41
51904864 CATACCAATG
* * *
51904874 CCATATCCCAAATATGGTCTTATATGGGATCTCATATCGATT
1 CCATATCCCAGATATGGTCTTACAT-GAATCTCATATCGATT
* *
51904916 CCAATAGCCCAGCTATGGTCTTACATGAAGTCTCATATCGATGT
1 CC-ATATCCCAGATATGGTCTTACATGAA-TCTCATATCGAT-T
*
51904960 -CATATCCCAGATATGGTCTTACACGTAATCTCA
1 CCATATCCCAGATATGGTCTTACATG-AATCTCA
51904993 AATAACCCTA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 30 0.46
43 34 0.52
44 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (41 bp):
CCATATCCCAGATATGGTCTTACATGAATCTCATATCGATT
Found at i:51906336 original size:29 final size:30
Alignment explanation
Indices: 51906304--51906372 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 30
51906294 TCGTCACCAT
* *
51906304 CCCTTTTCATAATTGATAGTCAAAGCTA-C
1 CCCTTTTCATAATAGATAGCCAAAGCTATC
*
51906333 CCCTTTTCATAATAGATAGCCGAAGCTATC
1 CCCTTTTCATAATAGATAGCCAAAGCTATC
51906363 CCC-TTTCATA
1 CCCTTTTCATA
51906373 TTCAATGGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 32 0.89
30 4 0.11
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (30 bp):
CCCTTTTCATAATAGATAGCCAAAGCTATC
Found at i:51906426 original size:29 final size:29
Alignment explanation
Indices: 51906389--51906461 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
51906379 GGTCGTCACC
* * *
51906389 ATCCCTTTTCATAGTCGATAGCTGAAGCT
1 ATCCATTTTCATAGTCGATAGCCGAAACT
** *
51906418 ATCTTTTTTCATAATCGATAGCCGAAACT
1 ATCCATTTTCATAGTCGATAGCCGAAACT
51906447 ATCCATTTTCATAGT
1 ATCCATTTTCATAGT
51906462 TGATGATTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.38
Consensus pattern (29 bp):
ATCCATTTTCATAGTCGATAGCCGAAACT
Found at i:51906427 original size:87 final size:87
Alignment explanation
Indices: 51906273--51906462 Score: 249
Period size: 87 Copynumber: 2.2 Consensus size: 87
51906263 GGTCATGATG
* *
51906273 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATAGTCAAAGCTACCCCTT
1 ATCCCTTTTCATAGTTAATGGTCGTCACCATCCCTTTTCATAATCGATAGTCAAAGCTACCCCTT
*
51906338 TTCATAATAGATAGCCGAAGCT
66 TTCATAATAGATAGCCGAAACT
* * * * **
51906360 ATCCCCTTTCATA-TTCAATGGTCGTCACCATCCCTTTTCATAGTCGATAG-CTGAAGCTATCTT
1 ATCCCTTTTCATAGTT-AATGGTCGTCACCATCCCTTTTCATAATCGATAGTC-AAAGCTACCCC
*
51906423 TTTTCATAATCGATAGCCGAAACT
64 TTTTCATAATAGATAGCCGAAACT
*
51906447 ATCCATTTTCATAGTT
1 ATCCCTTTTCATAGTT
51906463 GATGATTGTC
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
86 3 0.03
87 83 0.94
88 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (87 bp):
ATCCCTTTTCATAGTTAATGGTCGTCACCATCCCTTTTCATAATCGATAGTCAAAGCTACCCCTT
TTCATAATAGATAGCCGAAACT
Found at i:51909275 original size:21 final size:21
Alignment explanation
Indices: 51909245--51909287 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
51909235 CTCGAAATCG
*
51909245 TACGTCGGATAATTCTTTTCA
1 TACGTAGGATAATTCTTTTCA
51909266 TACGTAGGATAATTCTTTTCA
1 TACGTAGGATAATTCTTTTCA
51909287 T
1 T
51909288 GCGACTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (21 bp):
TACGTAGGATAATTCTTTTCA
Found at i:51913348 original size:28 final size:29
Alignment explanation
Indices: 51913281--51913380 Score: 125
Period size: 29 Copynumber: 3.5 Consensus size: 29
51913271 ATAGTGAATC
*
51913281 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
51913310 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * *
51913338 CGCACACTTAGTGCTGTACAATTTTAAAC-
1 CGCACACTTAGTGCTATATAA-TTCAAACT
51913367 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51913381 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 34 0.53
30 5 0.08
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:51920751 original size:40 final size:40
Alignment explanation
Indices: 51920696--51920802 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
51920686 GAAATTATAA
* *
51920696 CGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC-ATC
1 CGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATACTATC
*
51920736 CGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTCTATC
1 CGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATACTATC
*
51920776 CGGGCTAAGACCCGAAGGCATTTGTGC
1 CGGGCTAAGACCCGAAGGCAATTGTGC
51920803 AAATCGTGAT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
38 1 0.02
39 5 0.08
40 51 0.86
41 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.21
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATACTATC
Found at i:51920816 original size:40 final size:39
Alignment explanation
Indices: 51920652--51920834 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
51920642 AAATTGAATG
* * *
51920652 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
51920692 ATA-ACGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
51920731 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
51920771 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
51920810 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
51920835 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 26, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
36 4 0.04
37 2 0.02
38 2 0.02
39 20 0.18
40 83 0.75
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:51920817 original size:80 final size:80
Alignment explanation
Indices: 51920696--51920843 Score: 181
Period size: 80 Copynumber: 1.9 Consensus size: 80
51920686 GAAATTATAA
* * * *
51920696 CGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCGT
1 CGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCGT
51920761 GCGAGTCATTCTATC
66 GCGAGTCATTCTATC
* * * * * * *
51920776 CGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTGG
1 CGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTCG
51920840 TGCG
65 TGCG
51920844 GGTTACCATA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 55 0.98
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (80 bp):
CGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCGT
GCGAGTCATTCTATC
Found at i:51928923 original size:40 final size:39
Alignment explanation
Indices: 51928758--51928941 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
51928748 AAATTGAATG
* * *
51928758 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
51928798 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
51928838 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
51928878 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
51928917 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
51928942 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:51928966 original size:80 final size:81
Alignment explanation
Indices: 51928798--51928986 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
51928788 GCTGGAAATT
* * * *
51928798 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
51928863 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
51928879 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
51928942 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
51928958 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
51928987 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:51932171 original size:40 final size:40
Alignment explanation
Indices: 51932126--51932293 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
51932116 CGGAATACAA
*
51932126 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
** * *
51932166 CCGGATATAACGTCTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
51932206 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * *
51932246 CCGGATA-AAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCACTTGCACGAA-TGCCTTCGGGTCTTAGC
51932286 CCGGATAT
1 CCGGATAT
51932294 CATTCAATTG
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
39 4 0.04
40 106 0.96
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:51932266 original size:80 final size:80
Alignment explanation
Indices: 51932126--51932293 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
51932116 CGGAATACAA
* *
51932126 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGTCTTGCACAAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGTCTAGCACAAATG
*
51932191 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * *
51932206 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGT--CTAGCACAAA
*
51932269 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
51932286 CCGGATAT
1 CCGGATAT
51932294 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 2 0.03
79 2 0.03
80 74 0.95
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGTCTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:51939969 original size:40 final size:39
Alignment explanation
Indices: 51939925--51940077 Score: 175
Period size: 40 Copynumber: 3.8 Consensus size: 39
51939915 TATAACCACA
51939925 TGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATGTCT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATATAA-GTCT
* * * **
51939965 TGCACAAATGCCTTCGGGTATTAGCCCGGATTTAACAACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATATAA-GTCT
51940005 TGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AAGTCACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAGT--CT
* * *
51940045 AGCAC-AATTGCCTTCGGGTCTTAACCCAGATAT
1 TGCACGAA-TGCCTTCGGGTCTTAGCCCGGATAT
51940078 CATTCAATTG
Statistics
Matches: 95, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.04
40 91 0.96
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
TGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAGTCT
Found at i:51940050 original size:80 final size:80
Alignment explanation
Indices: 51939910--51940077 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
51939900 CAGAATACAA
* *
51939910 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATGTCTTGCACAAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATGTCTAGCACAAATG
51939975 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAGC
* * *
51939990 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATGT--CTAGCACAAA
* *
51940053 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAGC
*
51940070 CCAGATAT
1 CCGGATAT
51940078 CATTCAATTG
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
78 2 0.03
79 2 0.03
80 73 0.95
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATGTCTAGCACAAATG
CCTTCGGGTATTAGC
Found at i:51944580 original size:21 final size:20
Alignment explanation
Indices: 51944544--51944584 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
51944534 CCTGTTCCTG
51944544 GTAAAATAATTTTAAGTTTT
1 GTAAAATAATTTTAAGTTTT
51944564 GTAAAA-AATTTCCTAAGTTTT
1 GTAAAATAATTT--TAAGTTTT
51944585 CGGTTTAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 6 0.32
21 8 0.42
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (20 bp):
GTAAAATAATTTTAAGTTTT
Found at i:51954569 original size:29 final size:29
Alignment explanation
Indices: 51954523--51954591 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
51954513 AGCCGAAGCT
*
51954523 ATCCCTTTTCATATTTGATGGTCATCACC
1 ATCCCTTTTCATAGTTGATGGTCATCACC
*
51954552 ATCCCTTTTCATAGTTGATGGTCGTCACC
1 ATCCCTTTTCATAGTTGATGGTCATCACC
51954581 ATCCCTTTTCA
1 ATCCCTTTTCA
51954592 AAATCAATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.41
Consensus pattern (29 bp):
ATCCCTTTTCATAGTTGATGGTCATCACC
Found at i:51954604 original size:29 final size:29
Alignment explanation
Indices: 51954523--51954631 Score: 103
Period size: 29 Copynumber: 3.8 Consensus size: 29
51954513 AGCCGAAGCT
* * * *
51954523 ATCCCTTTTCATATTTGATGGTCATCACC
1 ATCCCTTTTCATAATCGATAGTCGTCACC
* * *
51954552 ATCCCTTTTCATAGTTGATGGTCGTCACC
1 ATCCCTTTTCATAATCGATAGTCGTCACC
* * * *
51954581 ATCCCTTTTCAAAATCAATAGTCG-AAGCT
1 ATCCCTTTTCATAATCGATAGTCGTCA-CC
51954610 ATCCCTTTTCATAATCGATAGT
1 ATCCCTTTTCATAATCGATAGT
51954632 TGAAACTATC
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 1 0.01
29 67 0.99
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGTCGTCACC
Found at i:51954640 original size:29 final size:29
Alignment explanation
Indices: 51954581--51954651 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
51954571 GGTCGTCACC
* *
51954581 ATCCCTTTTCAAAATCAATAGTCGAAGCT
1 ATCCCTTTTCATAATCAATAGTCGAAACT
* *
51954610 ATCCCTTTTCATAATCGATAGTTGAAACT
1 ATCCCTTTTCATAATCAATAGTCGAAACT
*
51954639 ATCCTTTTTCATA
1 ATCCCTTTTCATA
51954652 GTTGATGATC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCATAATCAATAGTCGAAACT
Found at i:51960445 original size:26 final size:26
Alignment explanation
Indices: 51960410--51960460 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
51960400 AGTCATACAT
* *
51960410 CTCATAAGGGCGTAATAGTCAATTTAC
1 CTCATAAGGGCATAACAGTC-ATTTAC
51960437 CTCAT-AGGGCATAACAGTCATTTA
1 CTCATAAGGGCATAACAGTCATTTA
51960461 TCACTTTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 12 0.55
27 5 0.23
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (26 bp):
CTCATAAGGGCATAACAGTCATTTAC
Found at i:51970703 original size:28 final size:28
Alignment explanation
Indices: 51970671--51970750 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 28
51970661 CATACATGCT
*
51970671 TATGGCCCACTAGGCCCAATCTCAT-TCA
1 TATGGCCCACTAGGCCCAATCACATCT-A
*
51970699 TATGGCCCATTAGGCCCAAATCACATCTA
1 TATGGCCCACTAGGCCC-AATCACATCTA
* *
51970728 AATGGTCCACTAGGCCCAATCAC
1 TATGGCCCACTAGGCCCAATCAC
51970751 TTTTACAGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
28 22 0.49
29 22 0.49
30 1 0.02
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.23
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATCTA
Found at i:51970994 original size:16 final size:16
Alignment explanation
Indices: 51970970--51971010 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
51970960 GTAGCCAAAC
51970970 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
* *
51970986 TTTCAGCTTTTTGGCA
1 TTTCGGCTTTTCGGCA
51971002 TTTCGGCTT
1 TTTCGGCTT
51971011 CTTGGGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.07, C:0.22, G:0.22, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:51971015 original size:16 final size:15
Alignment explanation
Indices: 51970970--51971020 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
51970960 GTAGCCAAAC
51970970 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTT-GGCA
*
51970986 TTTCAGCTTTTTGGCA
1 TTTCGGC-TTTTGGCA
*
51971002 TTTCGGCTTCTTGGGA
1 TTTCGGCTT-TTGGCA
51971018 TTT
1 TTT
51971021 GCCAATCTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 2 0.07
16 24 0.80
17 4 0.13
ACGTcount: A:0.08, C:0.20, G:0.24, T:0.49
Consensus pattern (15 bp):
TTTCGGCTTTTGGCA
Found at i:51984240 original size:12 final size:13
Alignment explanation
Indices: 51984214--51984247 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
51984204 TGCATTATGG
51984214 AAGGAAAATAAAA
1 AAGGAAAATAAAA
*
51984227 AATGAAAA-AAAA
1 AAGGAAAATAAAA
51984239 AAGGAAAAT
1 AAGGAAAAT
51984248 GATGATAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (13 bp):
AAGGAAAATAAAA
Found at i:51985468 original size:29 final size:29
Alignment explanation
Indices: 51985436--51985508 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
51985426 TGAAAAGTAT
* * *
51985436 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
51985465 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
51985494 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
51985509 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:51992478 original size:29 final size:29
Alignment explanation
Indices: 51992446--51992518 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
51992436 TGAAAAGTAT
* * *
51992446 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
51992475 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
51992504 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
51992519 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:51997502 original size:20 final size:21
Alignment explanation
Indices: 51997463--51997503 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
51997453 ACTTGTGTAA
*
51997463 CTATCAACAACCATTCAAAAT
1 CTATCAACAAACATTCAAAAT
*
51997484 CTATCATCAAACA-TCAAAAT
1 CTATCAACAAACATTCAAAAT
51997504 ACTCATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (21 bp):
CTATCAACAAACATTCAAAAT
Found at i:52004854 original size:157 final size:158
Alignment explanation
Indices: 52004567--52004855 Score: 429
Period size: 157 Copynumber: 1.8 Consensus size: 158
52004557 AAGCATTACA
* *
52004567 TGCTTAGTAAGCTCGTATAACAGAAACTAAACTTACCAATCCCCATTTATTAAATCTAATCATAC
1 TGCTTAGTAAGCTCGTACAACAGAAACTAAACTTACCAATCCCCATTTAGTAAATCTAATCATAC
* * * * *
52004632 AATATCATGTTTTTCCATCCATTTGGAAAAATTGCTTAAACACATGCACTCAATCAAATAAGTTA
66 AATATCATGTTTTTCCATCCATTAGGAAAAATTGCCTAAAAACATGAACTCAATCAAACAAGTTA
52004697 GTTACAAAATTTGCATATACATCAAGTG
131 GTTACAAAATTTGCATATACATCAAGTG
* * * * *
52004725 TGCTTAGTAAGTTCGTACAACGGAAATTGAACTTACCAAT-CCCGTTTAGTAAATCTAAGT-ATA
1 TGCTTAGTAAGCTCGTACAACAGAAACTAAACTTACCAATCCCCATTTAGTAAATCTAA-TCATA
* *
52004788 CAATATCATGTTTTTCCATCCATTAGGCAAAATTGCCTAAAAACATGAATTCAATCAAACAAGTT
65 CAATATCATGTTTTTCCATCCATTAGGAAAAATTGCCTAAAAACATGAACTCAATCAAACAAGTT
52004853 AGT
130 AGT
52004856 CTTAGTCACA
Statistics
Matches: 116, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
157 80 0.69
158 36 0.31
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (158 bp):
TGCTTAGTAAGCTCGTACAACAGAAACTAAACTTACCAATCCCCATTTAGTAAATCTAATCATAC
AATATCATGTTTTTCCATCCATTAGGAAAAATTGCCTAAAAACATGAACTCAATCAAACAAGTTA
GTTACAAAATTTGCATATACATCAAGTG
Found at i:52009691 original size:42 final size:42
Alignment explanation
Indices: 52009645--52009758 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 42
52009635 TACCACACCA
* ** * *
52009645 ATGCCATATCCTAGATATGGTCTTACACAGGATCTCGTTTTG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATTG
* *
52009687 ATGCCA-ATCGCCCA-ACTATGGCCTTGCACAAAATCTCATATTG
1 ATGCCATAT--CCCAGA-TATGGTCTTACACAAAATCTCATATTG
*
52009730 ATGTCATATCCCAGATATGGTCTTACACA
1 ATGCCATATCCCAGATATGGTCTTACACA
52009759 TAGTCTCGAT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
41 2 0.04
42 23 0.40
43 30 0.53
44 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATTG
Found at i:52010658 original size:16 final size:16
Alignment explanation
Indices: 52010637--52010668 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52010627 GTAACGCCCC
52010637 AAAAATCCCGAAATCT
1 AAAAATCCCGAAATCT
52010653 AAAAATCCCGAAATCT
1 AAAAATCCCGAAATCT
52010669 CAAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAAATCCCGAAATCT
Found at i:52012060 original size:29 final size:29
Alignment explanation
Indices: 52012022--52012129 Score: 139
Period size: 29 Copynumber: 3.8 Consensus size: 29
52012012 TGAATGTGAC
52012022 TGGGCCTAATGGGCCATATACATGTGATT
1 TGGGCCTAATGGGCCATATACATGTGATT
* *
52012051 TGGGCCTAATAGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATACATGTGATT
* *
52012080 TGGGCCTAATGGACCATATGA-ATATGA-T
1 TGGGCCTAATGGGCCATAT-ACATGTGATT
* *
52012108 TGGGCTTAATGGGCCAAATACA
1 TGGGCCTAATGGGCCATATACA
52012130 GGTATGTGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.01
28 18 0.26
29 48 0.71
30 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACATGTGATT
Found at i:52012090 original size:58 final size:57
Alignment explanation
Indices: 52012022--52012132 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 57
52012012 TGAATGTGAC
* * *
52012022 TGGGCCTAATGGGCCATAT-ACATGTGATTTGGGCCTAATAGGCCATATACAGGTGATT
1 TGGGCCTAATGGACCATATGA-ATATGA-TTGGGCCTAATAGGCCAAATACAGGTGATT
* *
52012080 TGGGCCTAATGGACCATATGAATATGATTGGGCTTAATGGGCCAAATACAGGT
1 TGGGCCTAATGGACCATATGAATATGATTGGGCCTAATAGGCCAAATACAGGT
52012133 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
57 23 0.49
58 23 0.49
59 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (57 bp):
TGGGCCTAATGGACCATATGAATATGATTGGGCCTAATAGGCCAAATACAGGTGATT
Found at i:52013232 original size:17 final size:18
Alignment explanation
Indices: 52013200--52013233 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52013190 TTTAAGAAGG
52013200 GTTTTCAATGAAAACACA
1 GTTTTCAATGAAAACACA
*
52013218 GTTTTCACT-AAAACAC
1 GTTTTCAATGAAAACAC
52013234 TTCAATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (18 bp):
GTTTTCAATGAAAACACA
Found at i:52015039 original size:8 final size:8
Alignment explanation
Indices: 52015022--52015078 Score: 69
Period size: 8 Copynumber: 7.1 Consensus size: 8
52015012 TTGTAACGCC
52015022 CCAAAAAT
1 CCAAAAAT
**
52015030 CCCGAAAT
1 CCAAAAAT
52015038 CCAAAAAT
1 CCAAAAAT
*
52015046 CCCAAAAT
1 CCAAAAAT
52015054 CCAAAAAT
1 CCAAAAAT
* *
52015062 CTAGAAAT
1 CCAAAAAT
52015070 CCAAAAAT
1 CCAAAAAT
52015078 C
1 C
52015079 TCGAAATCCT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 39 1.00
ACGTcount: A:0.54, C:0.28, G:0.04, T:0.14
Consensus pattern (8 bp):
CCAAAAAT
Found at i:52015043 original size:16 final size:16
Alignment explanation
Indices: 52015022--52015087 Score: 96
Period size: 16 Copynumber: 4.1 Consensus size: 16
52015012 TTGTAACGCC
52015022 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
*
52015038 CCAAAAATCCCAAAAT
1 CCAAAAATCCCGAAAT
**
52015054 CCAAAAATCTAGAAAT
1 CCAAAAATCCCGAAAT
*
52015070 CCAAAAATCTCGAAAT
1 CCAAAAATCCCGAAAT
52015086 CC
1 CC
52015088 TGAATTTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.52, C:0.29, G:0.05, T:0.15
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:52016515 original size:58 final size:57
Alignment explanation
Indices: 52016442--52016552 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 57
52016432 TGAATGTGAC
* *
52016442 TGGGCCTAATAGGCCATAT-ACATGTGATTTGGGCCTAATAGGCCATATACAGGTTATT
1 TGGGCCTAATAGGCCATATGA-ATATGA-TTGGGCCTAATAGGCCAAATACAGGTTATT
* * *
52016500 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAAATACAGGT
1 TGGGCCTAATAGGCCATATGAATATGATTGGGCCTAATAGGCCAAATACAGGT
52016553 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
57 23 0.49
58 23 0.49
59 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (57 bp):
TGGGCCTAATAGGCCATATGAATATGATTGGGCCTAATAGGCCAAATACAGGTTATT
Found at i:52016538 original size:28 final size:29
Alignment explanation
Indices: 52016442--52016549 Score: 130
Period size: 29 Copynumber: 3.8 Consensus size: 29
52016432 TGAATGTGAC
52016442 TGGGCCTAATAGGCCATATACATGTGATT
1 TGGGCCTAATAGGCCATATACATGTGATT
* *
52016471 TGGGCCTAATAGGCCATATACAGGTTATT
1 TGGGCCTAATAGGCCATATACATGTGATT
* *
52016500 TGGGCCTAATGGGCCATATGA-ATATGA-T
1 TGGGCCTAATAGGCCATAT-ACATGTGATT
* * *
52016528 TGGGCTTAATGGGCCAAATACA
1 TGGGCCTAATAGGCCATATACA
52016550 GGTATGTGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.01
28 19 0.28
29 48 0.70
30 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (29 bp):
TGGGCCTAATAGGCCATATACATGTGATT
Found at i:52018605 original size:27 final size:26
Alignment explanation
Indices: 52018557--52018616 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
52018547 GCGAGGTTGC
*
52018557 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
52018584 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
52018610 CAGATAT
1 CAGATAT
52018617 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:52018718 original size:67 final size:69
Alignment explanation
Indices: 52018584--52018725 Score: 189
Period size: 67 Copynumber: 2.1 Consensus size: 69
52018574 TCACCAGATA
* * * *
52018584 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGTGA
1 CAGATATTGTGACGAAGCCACCAGAACAGA-ATATATA-GTGGCGAAGCCACCAGATTGCAGCGA
52018649 GGCTAC
64 GGCTAC
* *
52018655 CAGATATTGTGACGAAGTCACCAGAACAG-ATATATA-TGGCGAGGCCACCAGATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACCAGAACAGAATATATAGTGGCGAAGCCACCAGATTGCAGCGAGG
*
52018718 CTGC
66 CTAC
52018722 CAGA
1 CAGA
52018726 ACGCTTCCTA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 32 0.50
69 7 0.11
71 25 0.39
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (69 bp):
CAGATATTGTGACGAAGCCACCAGAACAGAATATATAGTGGCGAAGCCACCAGATTGCAGCGAGG
CTAC
Found at i:52023285 original size:40 final size:40
Alignment explanation
Indices: 52023230--52023328 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 40
52023220 GATATAGCGA
* * * *
52023230 CTCGCTCAAAAGCCTTCGGGACATAGCCC-GATTATAATAG
1 CTCGCACAAATGCCTTCGGGACATAACCCGGATT-TAAGAG
* ** *
52023270 CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGAT
1 CTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGAG
52023310 CTCGCACAAATGCCTTCGG
1 CTCGCACAAATGCCTTCGG
52023329 ATCTTAGTCC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
40 46 0.92
41 4 0.08
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGAG
Found at i:52034455 original size:27 final size:27
Alignment explanation
Indices: 52034425--52034479 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
52034415 AGGCAATCCA
* * *
52034425 TTCAAAGTTTATCATAAAGGTTATTCT
1 TTCAAAGTTTACCACAAAGGCTATTCT
* *
52034452 TTCAGAGTTTGCCACAAAGGCTATTCT
1 TTCAAAGTTTACCACAAAGGCTATTCT
52034479 T
1 T
52034480 AGCTGTCGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (27 bp):
TTCAAAGTTTACCACAAAGGCTATTCT
Found at i:52034782 original size:14 final size:14
Alignment explanation
Indices: 52034760--52034806 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
52034750 TACACCTGAA
52034760 CAGAACATACATCT
1 CAGAACATACATCT
* *
52034774 CATAACATACATTT
1 CAGAACATACATCT
52034788 CAGAACTATACATACT
1 CAGAAC-ATACAT-CT
52034804 CAG
1 CAG
52034807 CCATACTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 17 0.63
15 6 0.22
16 4 0.15
ACGTcount: A:0.43, C:0.26, G:0.06, T:0.26
Consensus pattern (14 bp):
CAGAACATACATCT
Found at i:52038116 original size:20 final size:20
Alignment explanation
Indices: 52038093--52038130 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52038083 CACATCCAAA
*
52038093 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
52038113 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
52038131 CGAATAAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:52045585 original size:41 final size:41
Alignment explanation
Indices: 52045540--52045657 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
52045530 TGAAAGATAA
52045540 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
52045581 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
52045611 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
52045652 ATGTAG
1 ATGTAG
52045658 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:52045596 original size:71 final size:71
Alignment explanation
Indices: 52045508--52045671 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52045498 GAGATGTATC
52045508 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
52045573 AGGACA
66 AGGACA
52045579 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
52045644 AGGACA
66 AGGACA
52045650 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
52045672 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:52053155 original size:41 final size:41
Alignment explanation
Indices: 52053110--52053227 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
52053100 TGAAAGATAA
52053110 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
52053151 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
52053181 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
52053222 ATGTAG
1 ATGTAG
52053228 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:52053166 original size:71 final size:71
Alignment explanation
Indices: 52053078--52053241 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52053068 GAGATGTATC
52053078 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
52053143 AGGACA
66 AGGACA
52053149 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
52053214 AGGACA
66 AGGACA
52053220 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
52053242 AGACAAATCT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:52054934 original size:40 final size:40
Alignment explanation
Indices: 52054860--52055005 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
52054850 CCGCACCAAG
* * * * * *
52054860 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
52054900 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
52054940 GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
52054980 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
52055006 TTTCCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:52055020 original size:40 final size:40
Alignment explanation
Indices: 52054892--52055042 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
52054882 ATCACGATTT
* * * **
52054892 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* *
52054932 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* ***
52054972 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* *
52055012 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
52055043 CATTCAATTT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 15 0.16
40 79 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
Found at i:52062920 original size:40 final size:40
Alignment explanation
Indices: 52062875--52063004 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
52062865 CGGAATACAA
52062875 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
52062915 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
52062955 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
52062995 CCGGATATAA
1 CCGGATATAA
52063005 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:52063019 original size:40 final size:40
Alignment explanation
Indices: 52062875--52063038 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
52062865 CGGAATACAA
* **
52062875 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
52062915 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
52062955 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
52062995 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
52063035 CCGG
1 CCGG
52063039 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:52064791 original size:43 final size:43
Alignment explanation
Indices: 52064743--52064897 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 43
52064733 GGCTGTCACA
52064743 GTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATT
1 GTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATT
** * * *
52064786 GTGATTATGTGTAACACCATGTCTGGGACATTAGCATTGTATT
1 GTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATT
* * * * * *
52064829 ATGATTTCATGTAAGACCCTGGCTAGGACA-AGGCATCG-ATAT
1 GTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT-T
** *
52064871 GTGA-TAGTTGTAAGACCATATCTAGGA
1 GTGATTACATGTAAGACCATGTCTAGGA
52064898 TATGCCATTG
Statistics
Matches: 88, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
41 19 0.22
42 9 0.10
43 60 0.68
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
GTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATT
Found at i:52065720 original size:13 final size:13
Alignment explanation
Indices: 52065704--52065737 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
52065694 AATTTGAATA
*
52065704 TGGAATTGAGTAG
1 TGGAAATGAGTAG
52065717 TGGAAATGAGTAG
1 TGGAAATGAGTAG
*
52065730 TAGAAATG
1 TGGAAATG
52065738 GTGCAGGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.26
Consensus pattern (13 bp):
TGGAAATGAGTAG
Found at i:52067146 original size:71 final size:71
Alignment explanation
Indices: 52067062--52067225 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52067052 CGATTTGTCT
52067062 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52067127 CTTTCA
66 CTTTCA
52067133 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52067198 CTTTCA
66 CTTTCA
52067204 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
52067226 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:52067263 original size:71 final size:70
Alignment explanation
Indices: 52067062--52067259 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
52067052 CGATTTGTCT
* * * *
52067062 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52067127 CTTTCA
65 CTTTCA
* * * *
52067133 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52067198 CTTTCA
65 CTTTCA
* *
52067204 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
52067260 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:52074249 original size:71 final size:71
Alignment explanation
Indices: 52074163--52074326 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52074153 CGATTTGTCT
52074163 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52074228 CTTTCA
66 CTTTCA
52074234 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52074299 CTTTCA
66 CTTTCA
52074305 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
52074327 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:52074364 original size:71 final size:70
Alignment explanation
Indices: 52074163--52074360 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
52074153 CGATTTGTCT
* * * *
52074163 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52074228 CTTTCA
65 CTTTCA
* * * *
52074234 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52074299 CTTTCA
65 CTTTCA
* *
52074305 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
52074361 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:52081917 original size:40 final size:40
Alignment explanation
Indices: 52081844--52082026 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
52081834 CCGCACCAAG
* * * * *
52081844 GCCTACGGGACTTA-CCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
52081883 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
52081923 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
52081963 GCCTTCGGGTCTTAACCCGGATAT-A-AA-TTTCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCA-CA-AA-T
* *
52082003 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
52082027 CATTCAATTT
Statistics
Matches: 118, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 13 0.11
40 99 0.84
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:52089618 original size:40 final size:39
Alignment explanation
Indices: 52089544--52089688 Score: 173
Period size: 40 Copynumber: 3.7 Consensus size: 39
52089534 CCGCACCAAG
* * * * *
52089544 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAAC-ACTTGCACAAAT
* *
52089584 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAAC-ACTTGCACAAAT
* * *
52089624 GCCTTCGGGTCTTAGCCCGGATATAGCACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACACTTGCACAAAT
*
52089663 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
52089689 TTTCAGCATA
Statistics
Matches: 90, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 33 0.37
40 57 0.63
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAACACTTGCACAAAT
Found at i:52089702 original size:39 final size:38
Alignment explanation
Indices: 52089544--52089725 Score: 161
Period size: 39 Copynumber: 4.6 Consensus size: 38
52089534 CCGCACCAAG
* * * * * *
52089544 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATAT-AC-ACTAGCACAATT
* *
52089584 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATAT-AC-ACTAGCAC-AATT
52089624 GCCTTCGGGTCTTAGCCCGGATATAGCACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATA-CACTAGCACAATT
* * *
52089663 GCCTTCGGGTCTTAACCCGGATATA-ATTTCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATACA-CT-AGCACAATT
* *
52089702 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
52089726 CATTCAATTT
Statistics
Matches: 122, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
37 1 0.01
38 3 0.02
39 62 0.51
40 54 0.44
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (38 bp):
GCCTTCGGGTCTTAGCCCGGATATACACTAGCACAATT
Found at i:52094338 original size:20 final size:20
Alignment explanation
Indices: 52094315--52094352 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52094305 CACATCCAAA
*
52094315 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
52094335 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
52094353 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:52097209 original size:34 final size:32
Alignment explanation
Indices: 52097133--52097228 Score: 104
Period size: 33 Copynumber: 2.9 Consensus size: 32
52097123 GAACAATCTA
* * * *
52097133 GGCCTAAGCCCATATCAGTTGCAATATTAGTGT
1 GGCCTTAGCCCATATCAG-TACAGTATCAGTGT
52097166 GGCCTTAGCCCAATAT-AGTAACAGTATCAGTGT
1 GGCCTTAGCCC-ATATCAGT-ACAGTATCAGTGT
*
52097199 AGGCCTTAGCCCATTTCAGTACAGTATCAG
1 -GGCCTTAGCCCATATCAGTACAGTATCAG
52097229 AAATGCATAC
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
32 1 0.02
33 35 0.65
34 18 0.33
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (32 bp):
GGCCTTAGCCCATATCAGTACAGTATCAGTGT
Found at i:52101100 original size:46 final size:46
Alignment explanation
Indices: 52101040--52101405 Score: 590
Period size: 46 Copynumber: 8.0 Consensus size: 46
52101030 TTTGACATGA
* * * * * * *
52101040 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
*
52101086 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
52101132 TGCCATGGTATCTTTCAACGATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
52101178 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
52101224 TGCCATGGTATCTTTCAACCATGGCCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
52101270 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
52101316 TGCCATGGTATATTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
52101362 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTTATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
52101406 AGAGCACACT
Statistics
Matches: 304, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
45 4 0.01
46 300 0.99
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:52103816 original size:30 final size:30
Alignment explanation
Indices: 52103749--52103816 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
52103739 CACCCTTAAA
* * *
52103749 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
52103779 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
52103808 AGTATTTAC
1 A-TATTTAC
52103817 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:52105136 original size:9 final size:9
Alignment explanation
Indices: 52105122--52105148 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
52105112 TAGAGAGTAC
52105122 GAATGTGCT
1 GAATGTGCT
52105131 GAATGTGCT
1 GAATGTGCT
52105140 GAATGTGCT
1 GAATGTGCT
52105149 AATAATCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.33, T:0.33
Consensus pattern (9 bp):
GAATGTGCT
Found at i:52106578 original size:46 final size:47
Alignment explanation
Indices: 52106518--52106699 Score: 246
Period size: 46 Copynumber: 4.0 Consensus size: 47
52106508 TTTGACATGA
* * * * * *
52106518 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
52106564 TGCCATGGTATCTTTCAACCATGGTCTTACA-AATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* *
52106610 TGCCATGATATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
52106656 TGTCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
52106700 AGAGCACACT
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 5 0.04
46 117 0.95
47 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:52109168 original size:30 final size:30
Alignment explanation
Indices: 52109101--52109168 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
52109091 CACCCTTAAA
* * *
52109101 ATATTTGCACTATTACTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
52109131 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
52109160 AGTATTTAC
1 A-TATTTAC
52109169 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:52114402 original size:68 final size:70
Alignment explanation
Indices: 52114330--52114527 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
52114320 ACACCCTGTA
* * * *
52114330 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
52114392 ATAAAT
65 ATAAAT
*
52114398 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
52114463 ATAAAT
65 ATAAAT
*
52114469 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
52114528 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:52114441 original size:41 final size:41
Alignment explanation
Indices: 52114396--52114513 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
52114386 TGAAAGATAA
52114396 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
52114437 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
52114467 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
52114508 ATGTAG
1 ATGTAG
52114514 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:52114453 original size:71 final size:71
Alignment explanation
Indices: 52114364--52114527 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52114354 GAGATGTATC
52114364 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
52114429 AGGACA
66 AGGACA
52114435 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
52114500 AGGACA
66 AGGACA
52114506 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
52114528 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:52121971 original size:68 final size:70
Alignment explanation
Indices: 52121899--52122096 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
52121889 ACACCCTGTA
* * * *
52121899 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
52121961 ATAAAT
65 ATAAAT
*
52121967 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
52122032 ATAAAT
65 ATAAAT
*
52122038 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
52122097 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:52122010 original size:41 final size:41
Alignment explanation
Indices: 52121965--52122082 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
52121955 TGAAAGATAA
52121965 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
52122006 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
52122036 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
52122077 ATGTAG
1 ATGTAG
52122083 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:52122022 original size:71 final size:71
Alignment explanation
Indices: 52121933--52122096 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52121923 GAGATGTATC
52121933 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
52121998 AGGACA
66 AGGACA
52122004 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
52122069 AGGACA
66 AGGACA
52122075 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
52122097 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:52123919 original size:26 final size:26
Alignment explanation
Indices: 52123890--52123943 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
52123880 TACCAATAGT
* *
52123890 AGTAACATAGCAGGGCTGCCAGTAAC
1 AGTAACACAGCAAGGCTGCCAGTAAC
*
52123916 AGTATCACAGCAAGGCTGCCAGTAAC
1 AGTAACACAGCAAGGCTGCCAGTAAC
52123942 AG
1 AG
52123944 AATGACTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.26, T:0.15
Consensus pattern (26 bp):
AGTAACACAGCAAGGCTGCCAGTAAC
Found at i:52124167 original size:43 final size:43
Alignment explanation
Indices: 52124120--52124225 Score: 158
Period size: 43 Copynumber: 2.5 Consensus size: 43
52124110 GTCTTGCGCG
*
52124120 ACCCGTGTAACCTGAACAGAACAGTCCACAGTCGTCTCGTGTA
1 ACCCGTGCAACCTGAACAGAACAGTCCACAGTCGTCTCGTGTA
* * *
52124163 ACCCGTGCAACCTTAACAGAATAGTCCACAGTCGTCTCGTGTG
1 ACCCGTGCAACCTGAACAGAACAGTCCACAGTCGTCTCGTGTA
* *
52124206 ACCCGTGCGACCTTAACAGA
1 ACCCGTGCAACCTGAACAGA
52124226 TTAATACTGG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (43 bp):
ACCCGTGCAACCTGAACAGAACAGTCCACAGTCGTCTCGTGTA
Found at i:52124550 original size:26 final size:26
Alignment explanation
Indices: 52124521--52124624 Score: 113
Period size: 26 Copynumber: 4.0 Consensus size: 26
52124511 TTTACCCTAT
*
52124521 AGGGGTA-TTCAATAATTTTACAAATC
1 AGGGGTATTTCGATAATTTTACAAA-C
* *
52124547 AGGGGTATTTTGGTAATTTTACAAAC
1 AGGGGTATTTCGATAATTTTACAAAC
*
52124573 CGGGGTATTTCGATAA-TTTACAAAC
1 AGGGGTATTTCGATAATTTTACAAAC
* * *
52124598 TGGGGCTATTTCGGTAATCTTACAAAC
1 AGGGG-TATTTCGATAATTTTACAAAC
52124625 TGAGGGTCTT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
25 13 0.20
26 31 0.47
27 22 0.33
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (26 bp):
AGGGGTATTTCGATAATTTTACAAAC
Found at i:52124568 original size:27 final size:26
Alignment explanation
Indices: 52124533--52124624 Score: 114
Period size: 26 Copynumber: 3.5 Consensus size: 26
52124523 GGGTATTCAA
*
52124533 TAATTTTACAAATCAGGGGTATTTTGG
1 TAATTTTACAAA-CAGGGGTATTTCGG
* *
52124560 TAATTTTACAAACCGGGGTATTTCGA
1 TAATTTTACAAACAGGGGTATTTCGG
*
52124586 TAA-TTTACAAACTGGGGCTATTTCGG
1 TAATTTTACAAACAGGGG-TATTTCGG
*
52124612 TAATCTTACAAAC
1 TAATTTTACAAAC
52124625 TGAGGGTCTT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
25 13 0.23
26 24 0.42
27 20 0.35
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (26 bp):
TAATTTTACAAACAGGGGTATTTCGG
Found at i:52124578 original size:52 final size:52
Alignment explanation
Indices: 52124522--52124624 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
52124512 TTACCCTATA
* *
52124522 GGGGTA-TTCAATAATTTTACAAATCAGGGG-TATTTTGGTAATTTTACAAACC
1 GGGGTATTTCAATAA-TTTACAAA-CAGGGGCTATTTCGGTAATCTTACAAACC
* *
52124574 GGGGTATTTCGATAATTTACAAACTGGGGCTATTTCGGTAATCTTACAAAC
1 GGGGTATTTCAATAATTTACAAACAGGGGCTATTTCGGTAATCTTACAAAC
52124625 TGAGGGTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
51 5 0.11
52 33 0.73
53 7 0.16
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (52 bp):
GGGGTATTTCAATAATTTACAAACAGGGGCTATTTCGGTAATCTTACAAACC
Found at i:52128109 original size:34 final size:35
Alignment explanation
Indices: 52128086--52128161 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 35
52128076 ATATTAGTCG
52128086 CAATATCAGTGTAGGCCTTAGCCCA-ATACAGTAA
1 CAATATCAGTGTAGGCCTTAGCCCATATACAGTAA
* * * *
52128120 TAGTATCAGTGTGGGCCTTAGCCCAT-TTCAGT-A
1 CAATATCAGTGTAGGCCTTAGCCCATATACAGTAA
*
52128153 CAGTATCAG
1 CAATATCAG
52128162 AAATGCATAC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 9 0.25
34 27 0.75
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (35 bp):
CAATATCAGTGTAGGCCTTAGCCCATATACAGTAA
Found at i:52130888 original size:21 final size:20
Alignment explanation
Indices: 52130837--52130889 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
52130827 AGTTCAAACT
*
52130837 ATAAAGACAAAAAAAACAAT
1 ATAAAGACAAAAAAAACAAC
* **
52130857 AAAAAGAACAATAAAAATTAAC
1 ATAAAG-ACAA-AAAAAACAAC
52130879 ATAAAGACAAA
1 ATAAAGACAAA
52130890 TGGACTCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 6 0.23
21 8 0.31
22 12 0.46
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.11
Consensus pattern (20 bp):
ATAAAGACAAAAAAAACAAC
Found at i:52131725 original size:19 final size:21
Alignment explanation
Indices: 52131701--52131748 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
52131691 TTAAGAAAGC
*
52131701 AATAATAAGCAACAAT-AAT-
1 AATAATAAGAAACAATGAATA
*
52131720 AATAATAATAAACAATGAATA
1 AATAATAAGAAACAATGAATA
52131741 AATAATAA
1 AATAATAA
52131749 AAATAAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.56
20 3 0.12
21 8 0.32
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.23
Consensus pattern (21 bp):
AATAATAAGAAACAATGAATA
Found at i:52131811 original size:19 final size:19
Alignment explanation
Indices: 52131787--52131835 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
52131777 ATTAGGAAAT
52131787 AAATAATTAATAAT-AATAA
1 AAATAA-TAATAATGAATAA
52131806 AAATAATAATAATGAATAA
1 AAATAATAATAATGAATAA
*
52131825 AGA-AATAATAA
1 AAATAATAATAA
52131836 AGAAAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (19 bp):
AAATAATAATAATGAATAA
Found at i:52131835 original size:3 final size:3
Alignment explanation
Indices: 52131714--52131824 Score: 50
Period size: 3 Copynumber: 35.7 Consensus size: 3
52131704 AATAAGCAAC
* * *
52131714 AAT AAT AAT AAT AAT AAAC AAT GAAT AAAT AAT AAA AAT AA- AACC AAGT
1 AAT AAT AAT AAT AAT -AAT AAT -AAT -AAT AAT AAT AAT AAT AA-T AA-T
* * * * *
52131763 AA- AAT AA- AAT AAT GAT TAG GA- AAT AAAT AATT AAT AAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AA-T AAT AAT AAT AAT
52131807 AAT AAT AAT AAT GAAT AA
1 AAT AAT AAT AAT -AAT AA
52131825 AGAAATAATA
Statistics
Matches: 84, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
2 7 0.08
3 56 0.67
4 21 0.25
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:52136019 original size:15 final size:15
Alignment explanation
Indices: 52135999--52136027 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52135989 AGTGATTTGG
52135999 TAATTGCTTTAGTTC
1 TAATTGCTTTAGTTC
52136014 TAATTGCTTTAGTT
1 TAATTGCTTTAGTT
52136028 AAAGTAGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (15 bp):
TAATTGCTTTAGTTC
Found at i:52141424 original size:66 final size:66
Alignment explanation
Indices: 52141300--52141424 Score: 180
Period size: 67 Copynumber: 1.9 Consensus size: 66
52141290 TATGTGTACA
* * *
52141300 CATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCAAGTGAAGGAC
1 CATGTAGACAAGAGAGCTACGAGATAAATG-AGCTAGGTCACATGCGTGGTACCAAGTGAAGGAC
52141365 AC
65 AC
* *
52141367 CATGTAGACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 CATGTAGACAAGAGAGCTACGAGATAAA-TGAGCTAGGTCACATGCGTGGTACCAAGTG
52141425 TTCACCATGT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
66 24 0.46
67 26 0.50
68 2 0.04
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (66 bp):
CATGTAGACAAGAGAGCTACGAGATAAATGAGCTAGGTCACATGCGTGGTACCAAGTGAAGGACA
C
Found at i:52148385 original size:38 final size:38
Alignment explanation
Indices: 52148334--52148685 Score: 209
Period size: 38 Copynumber: 8.3 Consensus size: 38
52148324 ATGGAAAAAT
* *
52148334 GTGGTGCTGAGTGGATATACCACGGTTATACGTGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
*
52148372 GTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAAC
1 GTGGTGCTAAGTGGATATACCACG---------GTT-ATACATGTAAC
** *
52148420 GTGGTGCTAAGTGGATATGTCACGGTTGCATATATCAATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGG-T---TATA-C-A-T--GTAAC
* * *
52148467 ATGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
* *
52148505 GTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGG-T---TATA-C-A-T--GTAAC
*
52148552 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
* * *
52148590 GTGCTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGG-T---TATA-C-A-T--GTAAC
* *
52148637 ATGGTGCTAAGTGGATATACCACGGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
*
52148675 GTGCTGCTAAG
1 GTGGTGCTAAG
52148686 AAAGAAACGA
Statistics
Matches: 245, Mismatches: 32, Indels: 74
0.70 0.09 0.21
Matches are distributed among these distances:
38 89 0.36
39 2 0.01
40 4 0.02
41 3 0.01
42 12 0.05
43 13 0.05
44 3 0.01
45 3 0.01
46 3 0.01
47 81 0.33
48 32 0.13
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
Found at i:52148491 original size:47 final size:47
Alignment explanation
Indices: 52148368--52148664 Score: 315
Period size: 47 Copynumber: 6.7 Consensus size: 47
52148358 GTTATACGTG
* * * *
52148368 TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
** * *
52148415 GTAACGTGGTGCTAAGTGGATATGTCACGGTTGCATATATCAATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
* *
52148463 TAACATGGTGCTAAGTGGATATACCACGGTT--A-A-A-C-A-T--G
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
* *
52148501 TAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
*
52148548 TAACGTGGTGCTAAGTGGATATACCACGGTT--A-A-A-C-A-T--G
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
* *
52148586 TAACGTGCTGCTAAGTGGATATGCCACGGTTACATATATCGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
*
52148633 TAACATGGTGCTAAGTGGATATACCACGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
52148665 AACATGTAAC
Statistics
Matches: 206, Mismatches: 25, Indels: 37
0.77 0.09 0.14
Matches are distributed among these distances:
38 57 0.28
40 4 0.02
41 4 0.02
42 4 0.02
43 4 0.02
44 4 0.02
45 4 0.02
47 86 0.42
48 39 0.19
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
Found at i:52148513 original size:85 final size:85
Alignment explanation
Indices: 52148411--52148685 Score: 487
Period size: 85 Copynumber: 3.2 Consensus size: 85
52148401 ACATATTGAT
* * * *
52148411 ACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTGCATATATCAATTCATTAACATGGTGCTA
1 ACATGTAACGTGCTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACATGGTGCTA
52148476 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* * *
52148496 ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGCTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACATGGTGCTA
52148561 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
52148581 ACATGTAACGTGCTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACATGGTGCTA
1 ACATGTAACGTGCTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACATGGTGCTA
52148646 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
52148666 ACATGTAACGTGCTGCTAAG
1 ACATGTAACGTGCTGCTAAG
52148686 AAAGAAACGA
Statistics
Matches: 182, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 182 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (85 bp):
ACATGTAACGTGCTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACATGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:52151011 original size:40 final size:40
Alignment explanation
Indices: 52150952--52151158 Score: 303
Period size: 40 Copynumber: 5.2 Consensus size: 40
52150942 TGAATGATAC
* *
52150952 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
52150991 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
52151031 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
52151071 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
52151111 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
52151151 CC-GGCTAA
1 CCGGGCTAA
52151159 ATTCCGAAGA
Statistics
Matches: 154, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.10
40 137 0.89
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:52159105 original size:40 final size:40
Alignment explanation
Indices: 52159015--52159178 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
52159005 TGAATGATAC
* * * *
52159015 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGAT-TAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
52159053 --GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
52159091 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
52159130 CTCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 C-CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
52159171 CC-GGCTAA
1 CCGGGCTAA
52159179 ATTCCGAAGA
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
36 26 0.24
37 3 0.03
38 3 0.03
39 6 0.06
40 69 0.64
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:52159110 original size:76 final size:80
Alignment explanation
Indices: 52159015--52159178 Score: 212
Period size: 80 Copynumber: 2.1 Consensus size: 80
52159005 TGAATGATAC
* * *
52159015 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGAT-TA-T-GGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGATATACTCGGGCTAAGACCCGAAGGCAATTG
*
52159076 TGCGAGTTGTTATAT
66 TGCGAGTGGTTATAT
* * *
52159091 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACTCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGATATACTCGGGCTAAGACCCGAAGGCAATTG
**
52159156 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
52159171 CC-GGCTAA
1 CCGGGCTAA
52159179 ATTCCGAAGA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
76 28 0.37
77 3 0.04
78 2 0.03
79 7 0.09
80 35 0.47
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGATATACTCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:52162403 original size:15 final size:15
Alignment explanation
Indices: 52162383--52162424 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
52162373 GCTGTAAATA
52162383 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
52162398 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
52162413 GGATTTCCTTAT
1 GGATTTCCTTAT
52162425 TCTGGGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:52164968 original size:38 final size:38
Alignment explanation
Indices: 52164917--52165244 Score: 224
Period size: 38 Copynumber: 7.9 Consensus size: 38
52164907 TGGAAAAATA
* * *
52164917 TGGTGTTAAGTGGATATACCATGGTTATACGTGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
*
52164955 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACG
1 TGGTGCTAAGTGGATATACCACG---------GTT-ATACATGTAACG
* * * * *
52165003 TGGTGCTAAGTGAATATACCACGATTAAACATATAAAG
1 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
* * * *
52165041 TGGTGCTAGGTGGATATGCCACAGTTACATATATCGATTCATTAACG
1 TGGTGCTAAGTGGATATACCAC-GGT---TATA-C-A-T--GTAACG
* * *
52165088 TTGTGCTAAGTGGATATACCACGGTTAAACATGCAACG
1 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
* *
52165126 TGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACG
1 TGGTGCTAAGTGGATATACCACGG-T---TATA-C-A-T--GTAACG
*
52165173 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
*
52165211 TGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 TGGTGCTAAGTGGATATACCACGGTTATACATGT
52165245 TAATTTGAAA
Statistics
Matches: 230, Mismatches: 32, Indels: 56
0.72 0.10 0.18
Matches are distributed among these distances:
38 112 0.49
39 6 0.03
40 2 0.01
41 2 0.01
42 8 0.03
43 8 0.03
44 2 0.01
45 2 0.01
46 3 0.01
47 52 0.23
48 33 0.14
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (38 bp):
TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
Found at i:52165020 original size:48 final size:48
Alignment explanation
Indices: 52164943--52165036 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
52164933 TACCATGGTT
* * *
52164943 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGAATATACCACGATTAAACATATTG
52164991 ATACATGTAACGTGGTGCTAAGTGAATATACCACGATTAAACATAT
1 ATACATGTAACGTGGTGCTAAGTGAATATACCACGATTAAACATAT
52165037 AAAGTGGTGC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGAATATACCACGATTAAACATATTG
Found at i:52165101 original size:47 final size:47
Alignment explanation
Indices: 52165040--52165199 Score: 203
Period size: 47 Copynumber: 3.6 Consensus size: 47
52165030 AACATATAAA
* * *
52165040 GTGGTGCTAGGTGGATATGCCACAGTTACATATATCGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCATTAAC
* *
52165087 GTTGTGCTAAGTGGATATACCACGGTT--A-A-A-C-ATGC---AAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCATTAAC
*
52165125 GTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCATTAAC
52165172 GTGGTGCTAAGTGGATATACCACGGTTA
1 GTGGTGCTAAGTGGATATACCACGGTTA
52165200 AACATGTAAC
Statistics
Matches: 95, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
38 28 0.29
40 1 0.01
41 4 0.04
42 2 0.02
43 2 0.02
44 4 0.04
45 1 0.01
47 53 0.56
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (47 bp):
GTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCATTAAC
Found at i:52165109 original size:85 final size:85
Alignment explanation
Indices: 52164917--52165237 Score: 480
Period size: 85 Copynumber: 3.8 Consensus size: 85
52164907 TGGAAAAATA
* * * * * *
52164917 TGGTGTTAAGTGGATATACCATGGTTATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTA
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
* * *
52164982 CACATATTGATACATGTAACG
66 CATATATCGATTCAT-TAACG
* * * * * *
52165003 TGGTGCTAAGTGAATATACCACGATTAAACATATAAAGTGGTGCTAGGTGGATATGCCACAGTTA
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
52165068 CATATATCGATTCATTAACG
66 CATATATCGATTCATTAACG
* *
52165088 TTGTGCTAAGTGGATATACCACGGTTAAACATGCAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
52165153 CATATATCGATTCATTAACG
66 CATATATCGATTCATTAACG
52165173 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
52165238 TACATGTTAA
Statistics
Matches: 210, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
85 145 0.69
86 65 0.31
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (85 bp):
TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
CATATATCGATTCATTAACG
Found at i:52171988 original size:40 final size:40
Alignment explanation
Indices: 52171944--52172129 Score: 245
Period size: 40 Copynumber: 4.7 Consensus size: 40
52171934 GCTACTCGTT
* *
52171944 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
52171984 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
52172024 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
52172064 CAAATGCCTTC-GGATCTTAGTCCGG-TTATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATT-TAGTAAC-TCGCA
52172105 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52172130 CATCATTCGA
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
39 5 0.04
40 114 0.86
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:52172849 original size:2 final size:2
Alignment explanation
Indices: 52172842--52172867 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52172832 ATGTGCAAAC
52172842 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
52172868 GTGCAAGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52179990 original size:40 final size:39
Alignment explanation
Indices: 52179946--52180129 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 39
52179936 GCTACTCGTT
* *
52179946 CAAATGCCTTCGGGACATAGCCCGGTTACAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCA
*
52179986 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
* *
52180026 CAAATGCCTTC-GGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGTTTAGTAACTCGCA
* * *
52180065 CAAATGCCTTC-GGATCTTAGTCCGGTTATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTT-TAGTAAC-TCGCA
52180106 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
52180130 ACATCATTCG
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
39 42 0.33
40 73 0.57
41 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
Found at i:52180053 original size:39 final size:39
Alignment explanation
Indices: 52179975--52180083 Score: 191
Period size: 39 Copynumber: 2.7 Consensus size: 39
52179965 GCCCGGTTAC
*
52179975 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
1 AGTAACTCGCACAAATGCCTTC-GGACTTAACCCAGATTT
52180015 AGTAACTCGCACAAATGCCTTCGGACTTAACCCAGATTT
1 AGTAACTCGCACAAATGCCTTCGGACTTAACCCAGATTT
52180054 AGTAACTCGCACAAATGCCTTCGGATCTTA
1 AGTAACTCGCACAAATGCCTTCGGA-CTTA
52180084 GTCCGGTTAT
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
39 41 0.61
40 26 0.39
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (39 bp):
AGTAACTCGCACAAATGCCTTCGGACTTAACCCAGATTT
Found at i:52180114 original size:79 final size:80
Alignment explanation
Indices: 52179946--52180123 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 80
52179936 GCTACTCGTT
* * * *
52179946 CAAATGCCTTCGGGACATAGCCC-GGTTACAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
52180010 GATTTAGTAACTCGCA
65 GATTTAGTAACTAGCA
**
52180026 CAAATGCCTTC-GGACTTAACCCAGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
52180089 G-TTATAGTCACTTAGCA
65 GATT-TAGTAAC-TAGCA
52180106 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
52180124 GCCCGGACAT
Statistics
Matches: 85, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
78 5 0.06
79 51 0.60
80 29 0.34
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTAGCA
Found at i:52188207 original size:20 final size:20
Alignment explanation
Indices: 52188184--52188222 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
52188174 CCAATAAACA
*
52188184 TATAAAAAAGTATTAAATGT
1 TATAAAAAAATATTAAATGT
52188204 TATAAAAAAATATTAAATG
1 TATAAAAAAATATTAAATG
52188223 ATAATGTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (20 bp):
TATAAAAAAATATTAAATGT
Found at i:52188706 original size:19 final size:20
Alignment explanation
Indices: 52188684--52188721 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52188674 ATAAAATTTA
52188684 ATTTGA-ATATGTAAATCAT
1 ATTTGAGATATGTAAATCAT
*
52188703 ATTTGAGATATTTAAATCA
1 ATTTGAGATATGTAAATCA
52188722 CACATAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (20 bp):
ATTTGAGATATGTAAATCAT
Found at i:52197928 original size:19 final size:20
Alignment explanation
Indices: 52197904--52197941 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52197894 GGTACCACCA
52197904 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
52197923 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
52197942 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:52198271 original size:46 final size:46
Alignment explanation
Indices: 52198166--52198290 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
52198156 AACCCGCCCC
* * *
52198166 TAAGTGAACTCGGACTCAACTCAACGAGCT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
52198211 TAAATGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
52198257 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52198291 TGCTCAACCA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 28 0.38
46 45 0.62
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:52198309 original size:46 final size:45
Alignment explanation
Indices: 52198168--52198309 Score: 128
Period size: 46 Copynumber: 3.1 Consensus size: 45
52198158 CCCGCCCCTA
* ** *
52198168 AGTGAACTCGGACTCAACTCAACGAGCT-GGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* ** **
52198212 AAATGAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
*
52198258 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
52198305 AGTGA
1 AGTGA
52198310 CATGTCACTT
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
45 26 0.31
46 51 0.61
47 1 0.01
48 5 0.06
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:52205451 original size:19 final size:20
Alignment explanation
Indices: 52205427--52205464 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52205417 GGTACCACCA
52205427 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
52205446 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
52205465 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:52205760 original size:46 final size:46
Alignment explanation
Indices: 52205693--52205814 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
52205683 CGCCCCTAAG
* * *
52205693 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* *
52205739 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
52205785 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
52205815 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:52205833 original size:46 final size:45
Alignment explanation
Indices: 52205691--52205833 Score: 137
Period size: 46 Copynumber: 3.1 Consensus size: 45
52205681 CCCGCCCCTA
* ** *
52205691 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* ** **
52205736 AAATGAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
*
52205782 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
52205829 AGTGA
1 AGTGA
52205834 CATGTCACTT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
46 78 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:52207543 original size:2 final size:2
Alignment explanation
Indices: 52207538--52207564 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
52207528 TATATATATT
52207538 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
52207565 TTGTTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:52207790 original size:17 final size:17
Alignment explanation
Indices: 52207767--52207814 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
52207757 GACAATGTGT
*
52207767 GAGCTATGTTTACATGC
1 GAGCTATGTTTACATCC
* * *
52207784 TAGCTATCTTTATATCC
1 GAGCTATGTTTACATCC
*
52207801 GAGCTGTGTTTACA
1 GAGCTATGTTTACA
52207815 CGTGAACTAT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (17 bp):
GAGCTATGTTTACATCC
Found at i:52209439 original size:27 final size:27
Alignment explanation
Indices: 52209409--52209515 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 27
52209399 TTCATTTGGA
*
52209409 GTTTGCCATATGTATTATTCCTTCAGT
1 GTTTGCCATATGTACTATTCCTTCAGT
*
52209436 GTTTGCCATATGTACTATTCCTTCAGA
1 GTTTGCCATATGTACTATTCCTTCAGT
* * **
52209463 GTTCGCCATATTTACTATTCCTTTTGT
1 GTTTGCCATATGTACTATTCCTTCAGT
* * * *
52209490 GTTTACCATATCTTCTAGTCCTTCAG
1 GTTTGCCATATGTACTATTCCTTCAG
52209516 AGCTAACCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.46
Consensus pattern (27 bp):
GTTTGCCATATGTACTATTCCTTCAGT
Found at i:52209465 original size:54 final size:54
Alignment explanation
Indices: 52209407--52209517 Score: 141
Period size: 54 Copynumber: 2.1 Consensus size: 54
52209397 TATTCATTTG
* * * * *
52209407 GAGTTTGCCATATGTATTATTCCTTCAGTGTTTGCCATATGTACTATTCCTTCA
1 GAGTTCGCCATATGTACTATTCCTTCAGTGTTTACCATATCTACTAGTCCTTCA
* ** *
52209461 GAGTTCGCCATATTTACTATTCCTTTTGTGTTTACCATATCTTCTAGTCCTTCA
1 GAGTTCGCCATATGTACTATTCCTTCAGTGTTTACCATATCTACTAGTCCTTCA
52209515 GAG
1 GAG
52209518 CTAACCACAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (54 bp):
GAGTTCGCCATATGTACTATTCCTTCAGTGTTTACCATATCTACTAGTCCTTCA
Found at i:52209579 original size:26 final size:26
Alignment explanation
Indices: 52209550--52209619 Score: 68
Period size: 27 Copynumber: 2.7 Consensus size: 26
52209540 CGGGGCCTAC
52209550 CATACTTACCATTCTTCAAAGCTAGT
1 CATACTTACCATTCTTCAAAGCTAGT
* * ** * *
52209576 CATACCTATCATTCTTCCATGGTTTGT
1 CATACTTACCATTCTT-CAAAGCTAGT
*
52209603 CATACTTACTATTCTTC
1 CATACTTACCATTCTTC
52209620 TCTGTCAGGG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 15 0.44
27 19 0.56
ACGTcount: A:0.24, C:0.27, G:0.07, T:0.41
Consensus pattern (26 bp):
CATACTTACCATTCTTCAAAGCTAGT
Found at i:52212908 original size:7 final size:7
Alignment explanation
Indices: 52212892--52212998 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
52212882 AATAAATGAA
*
52212892 ATAATTT
1 ATAATAT
52212899 ATAATAT
1 ATAATAT
52212906 ATAATAT
1 ATAATAT
*
52212913 A-AAAAT
1 ATAATAT
* *
52212919 GTAAGTTT
1 ATAA-TAT
*
52212927 TTAA-A-
1 ATAATAT
*
52212932 ATAATGT
1 ATAATAT
52212939 ATAATAT
1 ATAATAT
*
52212946 A-AATAA
1 ATAATAT
52212952 ATAAATAT
1 AT-AATAT
52212960 ATAAGATAT
1 AT-A-ATAT
52212969 ATAAGT-T
1 ATAA-TAT
52212976 A-AA-AT
1 ATAATAT
52212981 ATAATAT
1 ATAATAT
52212988 ATAATA-
1 ATAATAT
52212994 ATAAT
1 ATAAT
52212999 TTAAAAATTT
Statistics
Matches: 77, Mismatches: 12, Indels: 23
0.69 0.11 0.21
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 34 0.44
8 14 0.18
9 6 0.08
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:52212962 original size:21 final size:21
Alignment explanation
Indices: 52212930--52212994 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
52212920 TAAGTTTTTA
*
52212930 AAAT-AATGTATAATATAAAT
1 AAATAAATATATAATATAAAT
* *
52212950 AAATAAATATATAAGATATAT
1 AAATAAATATATAATATAAAT
*
52212971 AAGTTAAA-ATATAATATATAAT
1 AA-ATAAATATATAATATA-AAT
52212993 AA
1 AA
52212995 TAATTTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 24 0.67
22 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATAAATATATAATATAAAT
Found at i:52212963 original size:28 final size:29
Alignment explanation
Indices: 52212932--52212992 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
52212922 AGTTTTTAAA
52212932 ATAATGTATAATATAA-AT-AAATA-AATAT
1 ATAATG-AT-ATATAAGATAAAATATAATAT
*
52212960 ATAA-GATATATAAGTTAAAATATAATAT
1 ATAATGATATATAAGATAAAATATAATAT
52212988 ATAAT
1 ATAAT
52212993 AATAATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 6 0.21
28 13 0.46
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
ATAATGATATATAAGATAAAATATAATAT
Found at i:52213033 original size:12 final size:13
Alignment explanation
Indices: 52213014--52213044 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
52213004 AATTTTGAAA
52213014 ATATAAATAATAT
1 ATATAAATAATAT
52213027 A-ATAAATAATAT
1 ATATAAATAATAT
52213039 ATATAA
1 ATATAA
52213045 TAAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAAATAATAT
Found at i:52213038 original size:21 final size:21
Alignment explanation
Indices: 52212939--52213046 Score: 61
Period size: 21 Copynumber: 5.3 Consensus size: 21
52212929 AAAATAATGT
52212939 ATAATATAAATAAATAAATATATA
1 ATAATAT-AATAAAT-AATATA-A
* *
52212963 AGATATATAAGTTAA-AATAT-A
1 ATA-ATATAA-TAAATAATATAA
*
52212984 AT-ATATAAT-AATAATTTAA
1 ATAATATAATAAATAATATAA
* *
52213003 A-AAT-T-TTGAA-AATATAA
1 ATAATATAATAAATAATATAA
*
52213020 ATAATATAATAAATAATATAT
1 ATAATATAATAAATAATATAA
52213041 ATAATA
1 ATAATA
52213047 AATTAAAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 23
0.67 0.09 0.24
Matches are distributed among these distances:
17 10 0.15
18 11 0.17
19 11 0.17
20 3 0.05
21 14 0.22
23 5 0.08
24 4 0.06
25 7 0.11
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
ATAATATAATAAATAATATAA
Found at i:52213042 original size:16 final size:15
Alignment explanation
Indices: 52213019--52213049 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
52213009 TGAAAATATA
52213019 AATAATATAATAAAT
1 AATAATATAATAAAT
52213034 AATATATATAATAAAT
1 AATA-ATATAATAAAT
52213050 TAAAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATAATAAAT
Done.