Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 104 of 333
Found at i:33248981 original size:47 final size:47
Alignment explanation
Indices: 33248924--33249051 Score: 168
Period size: 47 Copynumber: 2.7 Consensus size: 47
33248914 CTCAATCGAT
* *
33248924 AAGTATCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGCAACTTATCCCG
* * * *
33248971 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGCAACTTCTCTCT
1 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGCAACTTATCCCG
* *
33249018 AAATACCTATACCATGGCCCT-TAACCAAATCAAG
1 AAGTACCTATACCATGG-CCTGTAGCCAAATCAAG
33249052 CTATTATTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 69 0.97
48 2 0.03
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGCAACTTATCCCG
Found at i:33251629 original size:73 final size:73
Alignment explanation
Indices: 33251510--33251656 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
33251500 TGTGGTCGAT
33251510 TTAATTTTCATAATTTTTCATAAAATAGGTGCAGACTTCACACGCCCAGGGCACATGCCCGTGCC
1 TTAATTTTCATAATTTTTCATAAAATAGGTGCAGACTTCACACGCCCAGGGCACATGCCCGTGCC
33251575 TGTGGCCG
66 TGTGGCCG
33251583 TTAATTTTCATAATTTTTCATAAAATAGGTGCAGACTTCACACGCCCAGGGCACATGCCCGTGCC
1 TTAATTTTCATAATTTTTCATAAAATAGGTGCAGACTTCACACGCCCAGGGCACATGCCCGTGCC
33251648 TGTGGCCG
66 TGTGGCCG
33251656 T
1 T
33251657 GTCATCCACA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (73 bp):
TTAATTTTCATAATTTTTCATAAAATAGGTGCAGACTTCACACGCCCAGGGCACATGCCCGTGCC
TGTGGCCG
Found at i:33252175 original size:25 final size:25
Alignment explanation
Indices: 33252145--33252192 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
33252135 AATTAATTAT
*
33252145 GACACATAACAAAATGACCAAGTTC
1 GACACAAAACAAAATGACCAAGTTC
33252170 GACACAAAACAAAATGACCAAGT
1 GACACAAAACAAAATGACCAAGT
33252193 CCCTATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.52, C:0.23, G:0.12, T:0.12
Consensus pattern (25 bp):
GACACAAAACAAAATGACCAAGTTC
Found at i:33252686 original size:42 final size:41
Alignment explanation
Indices: 33252640--33252793 Score: 175
Period size: 42 Copynumber: 3.7 Consensus size: 41
33252630 TATCGTACCA
*
33252640 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATG-AATCTCATATCG
* *
33252682 ATGCCAATAGCCCA-ACTATGGTCTTACATGAAATCTCATATCA
1 ATGCC-ATATCCCAGA-TATGGTCTTACATG-AATCTCATATCG
* * * * *
33252725 ATGTCATATCCTAGATATGGTCTGACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAA-TCTCATATCG
*
33252767 ATCCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
33252794 CATAGTCTTA
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
41 2 0.02
42 55 0.59
43 36 0.39
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACATGAATCTCATATCG
Found at i:33261240 original size:40 final size:40
Alignment explanation
Indices: 33261180--33261382 Score: 257
Period size: 40 Copynumber: 5.1 Consensus size: 40
33261170 CGGATGATAA
* * * *
33261180 CCGGGCTAAGTCCCGGAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* * *
33261220 CCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
33261260 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
33261300 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
33261340 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
33261380 CCG
1 CCG
33261383 ATTAAATCCC
Statistics
Matches: 143, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 2 0.01
40 141 0.99
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:33269476 original size:40 final size:40
Alignment explanation
Indices: 33269345--33269640 Score: 303
Period size: 40 Copynumber: 7.5 Consensus size: 40
33269335 CGGATGATAA
* * * * **
33269345 CCGGGCTAAGTCCCGGAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * * * * **
33269385 CCGGGCTAAGTCTCGGAGGCATTTGCGCTAGTGAC-AGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
*
33269424 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
33269464 CCGAGCTAAGTCCCAAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
33269504 CCGGGCTAAGTCCCGAAGGCATTTGTCCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
33269544 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * * *
33269583 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACAT
* *
33269623 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
33269641 TACTTGGCTT
Statistics
Matches: 227, Mismatches: 26, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 83 0.37
40 144 0.63
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:33269484 original size:79 final size:78
Alignment explanation
Indices: 33269345--33269640 Score: 285
Period size: 79 Copynumber: 3.8 Consensus size: 78
33269335 CGGATGATAA
* * * * ** * *
33269345 CCGGGCTAAGTCCCGGAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCTCGGAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
33269410 CGCTAGTGACAGTT
66 TGCGAGTTACA-TT
* * *
33269424 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGAGCTAAGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
33269489 TGCGAGTTATTACA-T
66 TGCGAG---TTACATT
* * * *
33269504 CCGGGCTAAGTCCCGAAGGCATTTGTCCGAGCTACTATATCCGGGCTAAG-CCCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
33269568 TGCGAGTTACTATAT
66 TGCGAGTTAC-AT-T
* * * * * *
33269583 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACATCCGGGCTAAGTCCCGAAGG
33269641 TACTTGGCTT
Statistics
Matches: 182, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
76 4 0.02
77 1 0.01
78 7 0.04
79 120 0.66
80 46 0.25
82 4 0.02
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACATT
Found at i:33269625 original size:119 final size:119
Alignment explanation
Indices: 33269423--33269640 Score: 296
Period size: 119 Copynumber: 1.8 Consensus size: 119
33269413 TAGTGACAGT
* * *
33269423 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGAGCTAAGTCCCAAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTACATCCGAGCTAAGTCCCAAAGGCATTC
* * *
33269488 GTGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGCTACTATA
66 GAGCGAGTTACTACATCC-GGCTAAATCCCGAAGGCATTTGTCCGAGCTACTATA
* * * *
33269543 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTACATCCGAGCTAAGTCCCAAAGGCATTC
* *
33269607 GAGCGAG-TAGCTATATCCGGTTAAATCCCGAAGG
66 GAGCGAGTTA-CTACATCCGGCTAAATCCCGAAGG
33269641 TACTTGGCTT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
118 16 0.19
119 58 0.68
120 11 0.13
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTACATCCGAGCTAAGTCCCAAAGGCATTC
GAGCGAGTTACTACATCCGGCTAAATCCCGAAGGCATTTGTCCGAGCTACTATA
Found at i:33280933 original size:42 final size:42
Alignment explanation
Indices: 33280822--33280977 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
33280812 TACCATACCA
* * *
33280822 ATGCCATATCTCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * * * *
33280864 ACGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* *
33280907 ATGCCATATCCCAGGTATGGTCTTACATGAAGTCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
*
33280949 ATGCCATATCCCAGATATGCTCTTACATG
1 ATGCCATATCCCAGATATGGTCTTACATG
33280978 TAGTTTTAGT
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 63 0.65
43 34 0.35
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:33282781 original size:9 final size:9
Alignment explanation
Indices: 33282767--33282793 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
33282757 AAGTAACTAA
33282767 ATGTTTGAT
1 ATGTTTGAT
33282776 ATGTTTGAT
1 ATGTTTGAT
33282785 ATGTTTGAT
1 ATGTTTGAT
33282794 TTTTCATGTG
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:0.00, G:0.22, T:0.56
Consensus pattern (9 bp):
ATGTTTGAT
Found at i:33284866 original size:15 final size:16
Alignment explanation
Indices: 33284846--33284877 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33284836 TCAATACACC
33284846 GGCAC-AAGCCTACTA
1 GGCACAAAGCCTACTA
33284861 GGCACAAAGCCTACTA
1 GGCACAAAGCCTACTA
33284877 G
1 G
33284878 CACTAGCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.34, C:0.31, G:0.22, T:0.12
Consensus pattern (16 bp):
GGCACAAAGCCTACTA
Found at i:33284902 original size:22 final size:22
Alignment explanation
Indices: 33284857--33284898 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
33284847 GCACAAGCCT
33284857 ACTAGGCACAAAGCCTACTAGC
1 ACTAGGCACAAAGCCTACTAGC
*
33284879 ACTA-GCACAAAGCCTGCTAG
1 ACTAGGCACAAAGCCTACTAG
33284899 GCACAGAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.14
Consensus pattern (22 bp):
ACTAGGCACAAAGCCTACTAGC
Found at i:33293439 original size:12 final size:12
Alignment explanation
Indices: 33293422--33293447 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33293412 CATTCCGAAG
33293422 TATATATATACA
1 TATATATATACA
33293434 TATATATATACA
1 TATATATATACA
33293446 TA
1 TA
33293448 AGTATGCCAT
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:33293962 original size:27 final size:27
Alignment explanation
Indices: 33293931--33294108 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33293921 TAAATTGTAC
33293931 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33293958 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33293984 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33294012 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33294040 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33294067 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33294094 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33294109 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33294045 original size:82 final size:81
Alignment explanation
Indices: 33293932--33294087 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33293922 AAATTGTACA
* *
33293932 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33293996 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33294013 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33294078 TGCGAGTTGA
65 TGCGAATTGA
33294088 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33294099 original size:82 final size:81
Alignment explanation
Indices: 33293928--33294108 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33293918 GATTAAATTG
* *
33293928 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33293993 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33294009 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33294073 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33294091 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33294109 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33311258 original size:22 final size:20
Alignment explanation
Indices: 33311233--33311273 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
33311223 AAACATAAAA
33311233 AACTAAAAAATAATATATTAAC
1 AACTAAAAAAT--TATATTAAC
*
33311255 AACTAAATAATTATATTAA
1 AACTAAAAAATTATATTAA
33311274 TTAAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (20 bp):
AACTAAAAAATTATATTAAC
Found at i:33314321 original size:16 final size:15
Alignment explanation
Indices: 33314298--33314330 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
33314288 GAAATATTTT
*
33314298 AAATATA-AATGCTA
1 AAATATATAATACTA
33314312 AAATATATAATACTA
1 AAATATATAATACTA
33314327 AAAT
1 AAAT
33314331 TTACAACGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (15 bp):
AAATATATAATACTA
Found at i:33314455 original size:17 final size:17
Alignment explanation
Indices: 33314433--33314489 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
33314423 TTTTATGAAT
33314433 AAAAGATTTATTAATTA
1 AAAAGATTTATTAATTA
** **
33314450 AAAAGATGAATTAAAAA
1 AAAAGATTTATTAATTA
*
33314467 ACAATATATTTATTAATTA
1 A-AA-AGATTTATTAATTA
33314486 AAAA
1 AAAA
33314490 TAAAAAAAGC
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
17 15 0.52
18 4 0.14
19 10 0.34
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (17 bp):
AAAAGATTTATTAATTA
Found at i:33316315 original size:15 final size:17
Alignment explanation
Indices: 33316295--33316326 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33316285 TCATTTCATT
33316295 TATAT-AAT-CATAAAA
1 TATATAAATGCATAAAA
33316310 TATATAAATGCATAAAA
1 TATATAAATGCATAAAA
33316327 AGATTTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (17 bp):
TATATAAATGCATAAAA
Found at i:33318142 original size:29 final size:29
Alignment explanation
Indices: 33318100--33318157 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
33318090 TAAATAAATT
33318100 CTTTTTTGGAACTACATAGATCTATGGAA
1 CTTTTTTGGAACTACATAGATCTATGGAA
33318129 CTTTTTTGGAACTACATAGATCTATGGAA
1 CTTTTTTGGAACTACATAGATCTATGGAA
33318158 TCGGTTAATA
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:0.14, G:0.17, T:0.38
Consensus pattern (29 bp):
CTTTTTTGGAACTACATAGATCTATGGAA
Found at i:33321803 original size:21 final size:21
Alignment explanation
Indices: 33321779--33321819 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33321769 AGATTGATTA
* *
33321779 TATAGATATATCCAACTTTTC
1 TATAGAGATATACAACTTTTC
*
33321800 TATAGAGATATAGAACTTTT
1 TATAGAGATATACAACTTTT
33321820 ATCAGTAACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (21 bp):
TATAGAGATATACAACTTTTC
Found at i:33322197 original size:16 final size:17
Alignment explanation
Indices: 33322168--33322202 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
33322158 TTTTTCTTTC
*
33322168 TTCCTATTTCTTTTTAT
1 TTCCTATTTATTTTTAT
33322185 TTCC-ATTTATTTTTAT
1 TTCCTATTTATTTTTAT
33322201 TT
1 TT
33322203 TACTAGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (17 bp):
TTCCTATTTATTTTTAT
Found at i:33322460 original size:11 final size:11
Alignment explanation
Indices: 33322444--33322468 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33322434 CTTTATATTT
33322444 ATATACAATAA
1 ATATACAATAA
33322455 ATATACAATAA
1 ATATACAATAA
33322466 ATA
1 ATA
33322469 CAATAATCGC
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:33347575 original size:13 final size:15
Alignment explanation
Indices: 33347550--33347589 Score: 66
Period size: 13 Copynumber: 2.8 Consensus size: 15
33347540 TATTTTATTA
33347550 AATAAATATTAAATT
1 AATAAATATTAAATT
33347565 AA-AAA-ATTAAATT
1 AATAAATATTAAATT
33347578 AATAAATATTAA
1 AATAAATATTAA
33347590 TAAATTAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.43
14 6 0.26
15 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAAATATTAAATT
Found at i:33359341 original size:12 final size:12
Alignment explanation
Indices: 33359324--33359348 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33359314 CAGAGGCTAT
33359324 TAACAATATTTA
1 TAACAATATTTA
33359336 TAACAATATTTA
1 TAACAATATTTA
33359348 T
1 T
33359349 GTTATAAAAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:33361898 original size:21 final size:20
Alignment explanation
Indices: 33361869--33361907 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
33361859 ACGCCTACGA
33361869 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
33361889 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
33361908 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:33362100 original size:15 final size:15
Alignment explanation
Indices: 33362080--33362118 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
33362070 TATCATTTCA
33362080 ATATATAATTTAAAT
1 ATATATAATTTAAAT
33362095 ATATATAAATTTAAAT
1 ATATAT-AATTTAAAT
33362111 ATAT-TAAT
1 ATATATAAT
33362119 AATATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.13
15 7 0.30
16 13 0.57
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:33363881 original size:13 final size:13
Alignment explanation
Indices: 33363863--33363896 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
33363853 ACCTCCTTGG
33363863 ATTAAATTATTAA
1 ATTAAATTATTAA
33363876 ATTAAAATTATTAA
1 ATT-AAATTATTAA
33363890 A-TAAATT
1 ATTAAATT
33363897 GAAATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 4 0.20
14 11 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAAATTATTAA
Found at i:33369548 original size:8 final size:8
Alignment explanation
Indices: 33369535--33369560 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
33369525 AATCCACTTG
33369535 TTTAGTTC
1 TTTAGTTC
33369543 TTTAGTTC
1 TTTAGTTC
33369551 TTTAGTTC
1 TTTAGTTC
33369559 TT
1 TT
33369561 AAGGAGCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (8 bp):
TTTAGTTC
Found at i:33371160 original size:17 final size:17
Alignment explanation
Indices: 33371140--33371173 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33371130 TTCGTATATT
*
33371140 ATACTAATTATATCTAA
1 ATACTAAGTATATCTAA
33371157 ATACTAAGTATATCTAA
1 ATACTAAGTATATCTAA
33371174 GCGAATCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (17 bp):
ATACTAAGTATATCTAA
Found at i:33374042 original size:18 final size:18
Alignment explanation
Indices: 33374019--33374055 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
33374009 ATGAAGCTGG
* *
33374019 TTTATCTCATTTTTCCAC
1 TTTATCTAATTTATCCAC
33374037 TTTATCTAATTTATCCAC
1 TTTATCTAATTTATCCAC
33374055 T
1 T
33374056 GCGTCGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTATCTAATTTATCCAC
Found at i:33375830 original size:20 final size:19
Alignment explanation
Indices: 33375760--33375843 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
33375750 ATAGATAAGA
33375760 AATAGATAAATAATATAA-A-
1 AATA-ATAAAT-ATATAATAG
*
33375779 AATAATACTAATATATATTAG
1 AATAATA--AATATATAATAG
33375800 AAT-AT--ATATATAATAG
1 AATAATAAATATATAATAG
33375816 AATAGATAAATATATAATAG
1 AATA-ATAAATATATAATAG
33375836 AATTAATA
1 AA-TAATA
33375844 TTCTAACATC
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
16 13 0.24
18 5 0.09
19 9 0.17
20 22 0.41
21 5 0.09
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (19 bp):
AATAATAAATATATAATAG
Found at i:33379281 original size:15 final size:15
Alignment explanation
Indices: 33379261--33379291 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
33379251 CTGTATCAGT
33379261 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
33379276 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
33379291 A
1 A
33379292 CGGAACCGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (15 bp):
AATGAATCAGAGCAC
Found at i:33392080 original size:21 final size:21
Alignment explanation
Indices: 33392041--33392080 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33392031 TTTATTTAAA
*
33392041 AATATAAATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
33392062 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
33392081 TGCTGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:33392121 original size:21 final size:21
Alignment explanation
Indices: 33392088--33392128 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33392078 AATTGCTGAT
* *
33392088 AAAAGTTCTATATCTCTATAG
1 AAAAGTTCGATATATCTATAG
*
33392109 AAAAGTTGGATATATCTATA
1 AAAAGTTCGATATATCTATA
33392129 TAATCAATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
AAAAGTTCGATATATCTATAG
Found at i:33394335 original size:15 final size:15
Alignment explanation
Indices: 33394311--33394340 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33394301 CTCCGACTCT
33394311 TTGGTCTTAAGAATG
1 TTGGTCTTAAGAATG
*
33394326 TTGGTTTTAAGAATG
1 TTGGTCTTAAGAATG
33394341 AGTGATTGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.27, T:0.43
Consensus pattern (15 bp):
TTGGTCTTAAGAATG
Found at i:33394637 original size:14 final size:14
Alignment explanation
Indices: 33394615--33394645 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33394605 GGAATGATGG
*
33394615 AAGGGAATAAAAAA
1 AAGGAAATAAAAAA
33394629 AAGGAAATAAAAAA
1 AAGGAAATAAAAAA
33394643 AAG
1 AAG
33394646 AGGGTTCATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (14 bp):
AAGGAAATAAAAAA
Found at i:33395060 original size:18 final size:18
Alignment explanation
Indices: 33395027--33395120 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
33395017 AAAGTTTTCT
33395027 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
33395042 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
33395060 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
33395078 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
33395096 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
33395114 TATTGAT
1 TATTGAT
33395121 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:33398119 original size:20 final size:20
Alignment explanation
Indices: 33398096--33398133 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33398086 GTCTATATTA
*
33398096 AGATTATATTAAATATATAT
1 AGATTATATTAAAAATATAT
33398116 AGATTATATTAAAAATAT
1 AGATTATATTAAAAATAT
33398134 GGACAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
AGATTATATTAAAAATATAT
Found at i:33406150 original size:12 final size:12
Alignment explanation
Indices: 33406125--33406162 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
33406115 ACAAAACAAC
33406125 ATAAAAT-A-AG
1 ATAAAATAACAG
33406135 ATAAAATAACAG
1 ATAAAATAACAG
*
33406147 ATAAAATAACAT
1 ATAAAATAACAG
33406159 ATAA
1 ATAA
33406163 CATATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 7 0.28
11 1 0.04
12 17 0.68
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (12 bp):
ATAAAATAACAG
Found at i:33413304 original size:30 final size:30
Alignment explanation
Indices: 33413282--33413370 Score: 98
Period size: 29 Copynumber: 3.1 Consensus size: 30
33413272 ATTTTCTTTC
33413282 TATATTATT-ATATTATTAATA-TTATTTA
1 TATATTATTAATATTATTAATATTTATTTA
*
33413310 TATATTATTAAATATTATTAATA--TATTAA
1 TATATTATT-AATATTATTAATATTTATTTA
* * *
33413339 AATATTATTAATA-TATTAAAATTTATATA
1 TATATTATTAATATTATTAATATTTATTTA
33413368 TAT
1 TAT
33413371 TTAAATTATA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 7 0.14
28 13 0.25
29 19 0.37
30 12 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
TATATTATTAATATTATTAATATTTATTTA
Found at i:33413310 original size:21 final size:20
Alignment explanation
Indices: 33413284--33413356 Score: 103
Period size: 19 Copynumber: 3.6 Consensus size: 20
33413274 TTTCTTTCTA
*
33413284 TATTATTATATTATTAATAT
1 TATTAATATATTATTAATAT
*
33413304 TATTTATATATTATTAAATAT
1 TATTAATATATTATT-AATAT
*
33413325 TATTAATATATTA-AAATAT
1 TATTAATATATTATTAATAT
33413344 TATTAATATATTA
1 TATTAATATATTA
33413357 AAATTTATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
19 18 0.38
20 13 0.27
21 17 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTAATATATTATTAATAT
Found at i:33413347 original size:11 final size:10
Alignment explanation
Indices: 33413283--33413356 Score: 77
Period size: 10 Copynumber: 7.6 Consensus size: 10
33413273 TTTTCTTTCT
33413283 ATATTATT--
1 ATATTATTAA
33413291 ATATTATT-A
1 ATATTATTAA
*
33413300 ATATTATTTAT
1 ATATTA-TTAA
33413311 ATATTATTAA
1 ATATTATTAA
33413321 ATATTATT-A
1 ATATTATTAA
33413330 ATA-TATTAAA
1 ATATTATT-AA
33413340 ATATTATTAA
1 ATATTATTAA
33413350 TATATTA
1 -ATATTA
33413357 AAATTTATAT
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
8 12 0.21
9 10 0.18
10 19 0.33
11 16 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATATTATTAA
Found at i:33413382 original size:17 final size:16
Alignment explanation
Indices: 33413305--33413383 Score: 72
Period size: 19 Copynumber: 4.6 Consensus size: 16
33413295 TATTAATATT
33413305 ATTTATATATTATT-AA
1 ATTTATATA-TATTAAA
33413321 ATATTATTAATATATTAAA
1 AT-TTA-T-ATATATTAAA
33413340 ATATTATTAATATATTAAA
1 AT-TTA-T-ATATATTAAA
*
33413359 ATTTATATATATTTAA
1 ATTTATATATATTAAA
33413375 A-TTATATAT
1 ATTTATATAT
33413384 TGAAATGATA
Statistics
Matches: 58, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
15 8 0.14
16 12 0.21
17 4 0.07
18 8 0.14
19 26 0.45
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTATATATATTAAA
Found at i:33418899 original size:12 final size:12
Alignment explanation
Indices: 33418882--33418907 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33418872 CAGAGGCTAT
33418882 TAACAATATTTA
1 TAACAATATTTA
33418894 TAACAATATTTA
1 TAACAATATTTA
33418906 TA
1 TA
33418908 TTTATGTTAT
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:33420231 original size:21 final size:21
Alignment explanation
Indices: 33420191--33420229 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
33420181 AAATCATGGA
33420191 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
33420212 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
33420230 TCGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:33420573 original size:13 final size:13
Alignment explanation
Indices: 33420555--33420582 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33420545 GTTATTCATA
33420555 ATTAATATGAATT
1 ATTAATATGAATT
33420568 ATTAATATGAATT
1 ATTAATATGAATT
33420581 AT
1 AT
33420583 AGACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:33420887 original size:17 final size:17
Alignment explanation
Indices: 33420865--33420903 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
33420855 CTGACTCCAT
*
33420865 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
33420882 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
33420899 TTTTA
1 TTTTA
33420904 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:33421191 original size:27 final size:28
Alignment explanation
Indices: 33421161--33421217 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
33421151 AAATGAATGG
*
33421161 AATAATTAGTTCTAGTTATTA-AATATA
1 AATAATTAGTTCTAGCTATTATAATATA
*
33421188 AATAATTAGTTCTAGCTATTATACTATA
1 AATAATTAGTTCTAGCTATTATAATATA
33421216 AA
1 AA
33421218 AATAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
AATAATTAGTTCTAGCTATTATAATATA
Found at i:33427352 original size:23 final size:23
Alignment explanation
Indices: 33427326--33427371 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
33427316 GGGATATTAG
33427326 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
33427349 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
33427372 TCAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (23 bp):
ATATTGACTAGTTATATACGAAC
Found at i:33435812 original size:17 final size:18
Alignment explanation
Indices: 33435771--33435813 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
33435761 TGTATTTACT
33435771 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
33435789 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
33435806 TATTATAT
1 TATTATAT
33435814 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:33435935 original size:11 final size:11
Alignment explanation
Indices: 33435911--33435944 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
33435901 GAATAGCAGG
33435911 GAAAGAAAGAAA
1 GAAA-AAAGAAA
*
33435923 GAAAAAGGAAA
1 GAAAAAAGAAA
33435934 GAAAAAAGAAA
1 GAAAAAAGAAA
33435945 AGGAAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:33437820 original size:22 final size:22
Alignment explanation
Indices: 33437786--33437841 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
33437776 CGGGTTGATG
* *
33437786 ACACGGGCATGTCACATCAGCC
1 ACACCGGCATGTCACACCAGCC
*
33437808 ACACCGGCGTGTCACACCAGCC
1 ACACCGGCATGTCACACCAGCC
*
33437830 ACACGGGCATGT
1 ACACCGGCATGT
33437842 GGTACTATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (22 bp):
ACACCGGCATGTCACACCAGCC
Found at i:33439250 original size:42 final size:42
Alignment explanation
Indices: 33439172--33439251 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
33439162 GTGCAAGGTT
* * *
33439172 CACACGGCCAAGACACACGCCCGTGTTCTAGGCCGTGTAGCA
1 CACACGGCCAAGACACACGCCCATATTCTAGCCCGTGTAGCA
**
33439214 CACACGGCTGAGACACACGCCCATATCTCTA-CCCGTGT
1 CACACGGCCAAGACACACGCCCATAT-TCTAGCCCGTGT
33439252 GTTCAATTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 28 0.88
43 4 0.12
ACGTcount: A:0.24, C:0.38, G:0.23, T:0.16
Consensus pattern (42 bp):
CACACGGCCAAGACACACGCCCATATTCTAGCCCGTGTAGCA
Found at i:33442721 original size:23 final size:22
Alignment explanation
Indices: 33442670--33442721 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
33442660 CCTCGTCTTT
*
33442670 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
33442692 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
33442715 TTCTTTT
1 TTCTTTT
33442722 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:33442736 original size:18 final size:18
Alignment explanation
Indices: 33442715--33442753 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
33442705 TTTCTTCAAC
* *
33442715 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
33442733 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
33442751 TTC
1 TTC
33442754 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:33450429 original size:62 final size:62
Alignment explanation
Indices: 33450346--33450465 Score: 161
Period size: 62 Copynumber: 1.9 Consensus size: 62
33450336 ACTCAATGCT
* * * *
33450346 AAATCTTTGTAACGTGTCGCACACTTAGTGCCGTTACATTAACATCTTGCACACTTAGTACTA
1 AAATCTTTGTAACGTATCGCACACTTAGTGCCATCACATTAAC-CCTTGCACACTTAGTACTA
* * *
33450409 AAATC-TTGTGACGTATCGCACACTTAGTGCCATCACTTTATCCCTTGCACACTTAGT
1 AAATCTTTGTAACGTATCGCACACTTAGTGCCATCACATTAACCCTTGCACACTTAGT
33450466 GCCATATTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 14 0.28
62 31 0.62
63 5 0.10
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (62 bp):
AAATCTTTGTAACGTATCGCACACTTAGTGCCATCACATTAACCCTTGCACACTTAGTACTA
Found at i:33458203 original size:40 final size:40
Alignment explanation
Indices: 33458125--33458347 Score: 274
Period size: 40 Copynumber: 5.5 Consensus size: 40
33458115 ACCCAAGTAT
* * *
33458125 CTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
33458164 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
33458204 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
33458244 CTTC-GGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * * *
33458286 CTTCGGGACTTAGCTCAGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
33458326 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
33458348 CATCCGAATA
Statistics
Matches: 159, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.21
40 91 0.57
41 1 0.01
42 14 0.09
43 19 0.12
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:33458307 original size:82 final size:79
Alignment explanation
Indices: 33458125--33458347 Score: 281
Period size: 82 Copynumber: 2.8 Consensus size: 79
33458115 ACCCAAGTAT
* * *
33458125 CTTCGGGATTTAGCCAGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCAGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
33458189 CACTAGCATGAATGC
65 CACTAGCACAAATGC
* *
33458204 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC-GGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAG-CCAGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
33458267 CAACTACTCGCACAAATGC
65 C-ACTA---GCACAAATGC
* *
33458286 CTTCGGGACTTAGCTCAGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGC-CAGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
33458348 CATCCGAATA
Statistics
Matches: 125, Mismatches: 11, Indels: 12
0.84 0.07 0.08
Matches are distributed among these distances:
78 1 0.01
79 33 0.26
80 26 0.21
81 2 0.02
82 47 0.38
83 16 0.13
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCAGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:33466265 original size:40 final size:40
Alignment explanation
Indices: 33466206--33466429 Score: 285
Period size: 40 Copynumber: 5.5 Consensus size: 40
33466196 ACCCAAGTAT
*
33466206 CTTCGGGA-TTCAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTT-AGCCCGGATATAGCAACTAGCACAAATGC
* **
33466245 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
33466285 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
33466325 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
* * *
33466368 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
*
33466408 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
33466430 CATCCGAATA
Statistics
Matches: 164, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 10 0.06
40 117 0.71
41 1 0.01
43 36 0.22
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:33466402 original size:83 final size:80
Alignment explanation
Indices: 33466206--33466429 Score: 292
Period size: 83 Copynumber: 2.8 Consensus size: 80
33466196 ACCCAAGTAT
* * *
33466206 CTTCGGGA-TTCAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTT-AGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
33466269 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
* *
33466285 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
33466349 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * *
33466368 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
33466430 CATCCGAATA
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
79 11 0.09
80 51 0.40
83 65 0.51
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:33468363 original size:37 final size:37
Alignment explanation
Indices: 33468312--33468387 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
33468302 ATGGTCGATG
*
33468312 TTGTTGTGATTAGCCAAATG-TAT-TGGCTTATAATGAT
1 TTGTTGTGATTAGCC--ATGAGATGTGGCTTATAATGAT
33468349 TTGTTGT-ATGTAGCCATGAGATGTGGCTTATAATGAT
1 TTGTTGTGAT-TAGCCATGAGATGTGGCTTATAATGAT
33468386 TT
1 TT
33468388 TGACTTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
35 3 0.09
36 4 0.11
37 28 0.80
ACGTcount: A:0.25, C:0.08, G:0.24, T:0.43
Consensus pattern (37 bp):
TTGTTGTGATTAGCCATGAGATGTGGCTTATAATGAT
Found at i:33476326 original size:37 final size:37
Alignment explanation
Indices: 33476233--33476328 Score: 101
Period size: 36 Copynumber: 2.6 Consensus size: 37
33476223 CGAATATTTT
*
33476233 AAATTTTTATG-AAATT-TTAATTAGTATTATGAAATA
1 AAATTTTTATGAAAATTATT-ATTAGTATTATGAAAGA
* * **
33476269 AAATTATTA-GAAAAATATTATT-GTATGTATGTTAGA
1 AAATTTTTATGAAAATTATTATTAGTAT-TATGAAAGA
33476305 AAATTTTTATGAAAATTATTATTA
1 AAATTTTTATGAAAATTATTATTA
33476329 TTTGTTGTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
35 5 0.10
36 29 0.60
37 14 0.29
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (37 bp):
AAATTTTTATGAAAATTATTATTAGTATTATGAAAGA
Found at i:33478752 original size:20 final size:20
Alignment explanation
Indices: 33478709--33478756 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
33478699 GCTGTTTTGT
33478709 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
33478729 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
33478748 TAT-GGCCAA
1 TATGGGCCAA
33478757 GGCCCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:33478820 original size:60 final size:61
Alignment explanation
Indices: 33478745--33478883 Score: 160
Period size: 60 Copynumber: 2.3 Consensus size: 61
33478735 CCAACTGTGT
* *
33478745 TAATAT-GGCCAAGGCCCAATATA-TCTCA-ACTTGTAATAGGGCTACGGCCCAGATTGATAC
1 TAATATGGGCTAAGGCCCAATATACTCTCATAC-TGTAA-AGGGCTACGGCCCAGATTAATAC
* * * * *
33478805 TAATATTGGCT-AGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATAT
1 TAATATGGGCTAAGGCCCAATATACTCTCATACTGTAAAGGGCTACGGCCCAGATTAATAC
*
33478865 TGATATGGGCTAAGGCCCA
1 TAATATGGGCTAAGGCCCA
33478884 GTTAACACTA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
60 46 0.69
61 19 0.28
62 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (61 bp):
TAATATGGGCTAAGGCCCAATATACTCTCATACTGTAAAGGGCTACGGCCCAGATTAATAC
Found at i:33489736 original size:21 final size:21
Alignment explanation
Indices: 33489712--33489755 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
33489702 AAAATCACTT
33489712 AACAA-AACTTGTAAATCTATC
1 AACAAGAACTTGT-AATCTATC
* *
33489733 AACAAGCATTTGTAATCTATC
1 AACAAGAACTTGTAATCTATC
33489754 AA
1 AA
33489756 GAAACTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (21 bp):
AACAAGAACTTGTAATCTATC
Found at i:33496157 original size:46 final size:46
Alignment explanation
Indices: 33496090--33496265 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
33496080 TGTAACCCGC
* *
33496090 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * *
33496136 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTCGCAT
* * *
33496186 -C-TCA-CGAACTCGGACTCAAATCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
33496229 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
33496266 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 59 0.56
47 25 0.24
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:33496262 original size:93 final size:93
Alignment explanation
Indices: 33496097--33496268 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
33496087 CGCCCATAAG
* * *
33496097 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
**
33496162 ATGAGTTCAGATGCCTAGTTACATCTCA
66 ACAAGTTCAGATGCCTAGTTACATCTCA
*
33496190 CGAACTCGGACTCAAATCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
33496255 ACAAGTTCGGATGC
66 ACAAGTTCAGATGC
33496269 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCAGATGCCTAGTTACATCTCA
Found at i:33496284 original size:46 final size:45
Alignment explanation
Indices: 33496191--33496276 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
33496181 TACATCTCAC
* * *
33496191 GAACTCGGACTCAAATCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAAATCAACAAGTTCGGA-ATGCGCAACCATAAGT
* *
33496237 GAACTCGGACTCAACTCAACAAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAAATCAACAAGTTCGGAATGCGCAACCAT
33496277 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 9 0.26
46 26 0.74
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAAATCAACAAGTTCGGAATGCGCAACCATAAGT
Found at i:33497805 original size:30 final size:30
Alignment explanation
Indices: 33497769--33497835 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
33497759 TGGGCTGTCG
* * **
33497769 GTGTGTCACACATGGCCTAGACACACGCTC
1 GTGTGTCACAAACGGCCTAGACACACGCAA
33497799 GTGTGTCACAAACGGCCTAGACACACGCAA
1 GTGTGTCACAAACGGCCTAGACACACGCAA
33497829 GTGTGTC
1 GTGTGTC
33497836 TTACCCGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.19
Consensus pattern (30 bp):
GTGTGTCACAAACGGCCTAGACACACGCAA
Found at i:33498606 original size:33 final size:34
Alignment explanation
Indices: 33498569--33498815 Score: 124
Period size: 33 Copynumber: 7.6 Consensus size: 34
33498559 GCACATTCCC
*
33498569 TTTCCAAGTGGTACACACGAAGTGTACAT-ACCT
1 TTTCCAAGTGGTACACACAAAGTGTACATAACCT
* ** * *
33498602 TTTCCAATTTATACACACAAAGTGCATATAACCT
1 TTTCCAAGTGGTACACACAAAGTGTACATAACCT
* * * * **
33498636 TTT-CAAGT-GTACTCATATAGTGTACCTCTCCT
1 TTTCCAAGTGGTACACACAAAGTGTACATAACCT
* * *
33498668 TTT-CAAGTGGTATACACAAAGTATACCAT-TCCT
1 TTTCCAAGTGGTACACACAAAGTGTA-CATAACCT
* * * **
33498701 TTT-CATA-TGGTATACACAAAGTATACCTTTCCT
1 TTTCCA-AGTGGTACACACAAAGTGTACATAACCT
** * *
33498734 TTT-CATA-TGGTGTACAAAAAGTATAC-TAACC-
1 TTTCCA-AGTGGTACACACAAAGTGTACATAACCT
* *
33498765 TTTCCAAGT-GTACACACAAAGTGCACATAGCCT
1 TTTCCAAGTGGTACACACAAAGTGTACATAACCT
* *
33498798 TTT-CATGTGGTATACACA
1 TTTCCAAGTGGTACACACA
33498816 TGGTATACCT
Statistics
Matches: 169, Mismatches: 35, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
31 16 0.09
32 39 0.23
33 104 0.62
34 10 0.06
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (34 bp):
TTTCCAAGTGGTACACACAAAGTGTACATAACCT
Found at i:33498832 original size:33 final size:33
Alignment explanation
Indices: 33498658--33498835 Score: 171
Period size: 33 Copynumber: 5.5 Consensus size: 33
33498648 TCATATAGTG
* *
33498658 TACCTCTCCTTTTCAAGTGGTATACACAAAGTA
1 TACCTTTCCTTTTCATGTGGTATACACAAAGTA
* *
33498691 TACCATTCCTTTTCATATGGTATACACAAAGTA
1 TACCTTTCCTTTTCATGTGGTATACACAAAGTA
* * *
33498724 TACCTTTCCTTTTCATATGGTGTACAAAAAGTA
1 TACCTTTCCTTTTCATGTGGTATACACAAAGTA
** * * * *
33498757 TA-CTAACCTTTCCAAGT-GTACACACAAAGTG
1 TACCTTTCCTTTTCATGTGGTATACACAAAGTA
* * ** **
33498788 CACATAGCCTTTTCATGTGGTATACACATGGTA
1 TACCTTTCCTTTTCATGTGGTATACACAAAGTA
33498821 TACCTTTCCTTTTCA
1 TACCTTTCCTTTTCA
33498836 CATTCGATAG
Statistics
Matches: 114, Mismatches: 29, Indels: 4
0.78 0.20 0.03
Matches are distributed among these distances:
31 11 0.10
32 21 0.18
33 82 0.72
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (33 bp):
TACCTTTCCTTTTCATGTGGTATACACAAAGTA
Found at i:33498873 original size:29 final size:29
Alignment explanation
Indices: 33498828--33498896 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
33498818 GTATACCTTT
*
33498828 CCTTTTCACATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTAGATAGCCAAAGCTATC
*
33498857 CCTTTTCACATTAGATAGCCGAAGCTATC
1 CCTTTTCACATTAGATAGCCAAAGCTATC
33498886 CCTTTTCACAT
1 CCTTTTCACAT
33498897 GGTACACGCA
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:0.26, C:0.30, G:0.10, T:0.33
Consensus pattern (29 bp):
CCTTTTCACATTAGATAGCCAAAGCTATC
Found at i:33506205 original size:31 final size:31
Alignment explanation
Indices: 33506162--33506225 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
33506152 CCTTTTCATA
33506162 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
33506193 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
33506224 TT
1 TT
33506226 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:33506463 original size:24 final size:24
Alignment explanation
Indices: 33506416--33506556 Score: 211
Period size: 24 Copynumber: 6.0 Consensus size: 24
33506406 GCTTTATCAT
*
33506416 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
33506441 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
33506465 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
33506488 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
33506512 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
33506535 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
33506557 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 1, Indels: 12
0.89 0.01 0.10
Matches are distributed among these distances:
22 12 0.11
23 37 0.34
24 47 0.43
25 14 0.13
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:33506491 original size:47 final size:48
Alignment explanation
Indices: 33506437--33506556 Score: 219
Period size: 47 Copynumber: 2.6 Consensus size: 48
33506427 CCTAGCCTCT
33506437 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGCCC
33506484 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGCCC
33506531 TTTAATAACT-GGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
33506557 GCACTTCCTC
Statistics
Matches: 71, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
46 12 0.17
47 53 0.75
48 6 0.08
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (48 bp):
TTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGCCC
Found at i:33506628 original size:9 final size:9
Alignment explanation
Indices: 33506614--33506670 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
33506604 ATCTCGTGTG
33506614 CATATCATA
1 CATATCATA
*
33506623 CATATCATGTG
1 CATATCA--TA
33506634 CATATCATA
1 CATATCATA
* *
33506643 CATGTCATGTG
1 CATATCA--TA
33506654 CATATCATA
1 CATATCATA
33506663 CATATCAT
1 CATATCAT
33506671 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:33506633 original size:20 final size:20
Alignment explanation
Indices: 33506610--33506672 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
33506600 GAACATCTCG
33506610 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
33506630 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
33506650 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
33506670 TGT
1 TGT
33506673 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:33506737 original size:25 final size:25
Alignment explanation
Indices: 33506709--33506756 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33506699 ATATATAAAC
* * *
33506709 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
33506734 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
33506757 CATTTATAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:33514304 original size:31 final size:31
Alignment explanation
Indices: 33514261--33514324 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
33514251 CCTTTTCATA
33514261 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
33514292 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
33514323 TT
1 TT
33514325 ACTGTAATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:33514617 original size:47 final size:47
Alignment explanation
Indices: 33514538--33514660 Score: 183
Period size: 47 Copynumber: 2.6 Consensus size: 47
33514528 CCTAGCCTCT
* * *
33514538 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAGTAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
33514585 TTTAGTAACTGGGGTATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAGTAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
* *
33514632 TTTTGATAACTGAGGCATAAGCCCTTTTG
1 TTTAG-TAACTGGGGCATAAGCCCTTTTG
33514661 CACTTCCTCC
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
47 47 0.69
48 21 0.31
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (47 bp):
TTTAGTAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:33514660 original size:24 final size:24
Alignment explanation
Indices: 33514531--33514660 Score: 190
Period size: 24 Copynumber: 5.4 Consensus size: 24
33514521 CTGGAGGCCT
* *
33514531 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTGATAACTGGGGCATA
*
33514556 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
* *
33514580 AGCCCTTTAG-TAACTGGGGTATA
1 AGCCCTTTTGATAACTGGGGCATA
33514603 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
*
33514627 AGCCCTTTTGATAACTGAGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
33514651 AGCCCTTTTG
1 AGCCCTTTTG
33514661 CACTTCCTCC
Statistics
Matches: 97, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
23 21 0.22
24 72 0.74
25 4 0.04
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTGATAACTGGGGCATA
Found at i:33514731 original size:9 final size:9
Alignment explanation
Indices: 33514717--33514773 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
33514707 ATCTCGTGTG
33514717 CATATCATA
1 CATATCATA
*
33514726 CATATCATGTG
1 CATATCA--TA
33514737 CATATCATA
1 CATATCATA
* *
33514746 CATGTCATGTG
1 CATATCA--TA
33514757 CATATCATA
1 CATATCATA
33514766 CATATCAT
1 CATATCAT
33514774 GTCTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:33514738 original size:20 final size:20
Alignment explanation
Indices: 33514713--33514775 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
33514703 GACCATCTCG
33514713 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
33514733 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
33514753 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
33514773 TGT
1 TGT
33514776 CTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:33518799 original size:28 final size:28
Alignment explanation
Indices: 33518759--33518812 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
33518749 CACCTTAAGC
33518759 TTTTGAAGAAGATGACATTGATAAAAGA
1 TTTTGAAGAAGATGACATTGATAAAAGA
33518787 TTTTGAAGAAGATGACATTGATAAAA
1 TTTTGAAGAAGATGACATTGATAAAA
33518813 AAAATCATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (28 bp):
TTTTGAAGAAGATGACATTGATAAAAGA
Found at i:33521400 original size:13 final size:13
Alignment explanation
Indices: 33521384--33521408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33521374 ATACACAGAT
33521384 TGTATAATTACTA
1 TGTATAATTACTA
33521397 TGTATAATTACT
1 TGTATAATTACT
33521409 GATCGCATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (13 bp):
TGTATAATTACTA
Found at i:33521540 original size:25 final size:24
Alignment explanation
Indices: 33521495--33521548 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
33521485 GTCATTAGGG
* *
33521495 TTACCGATTCTAGCTCTTATGAGC
1 TTACCGATACTAGCTCGTATGAGC
33521519 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGATACT-AGCTCGTATGAGC
33521544 TTACC
1 TTACC
33521549 ATTATTCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (24 bp):
TTACCGATACTAGCTCGTATGAGC
Found at i:33521570 original size:25 final size:25
Alignment explanation
Indices: 33521540--33521601 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
33521530 CAGCTCGTAT
33521540 GAGCTTACCATTATTCAACTCAGAG
1 GAGCTTACCATTATTCAACTCAGAG
* * *
33521565 GGGCTTACCGTTATTCAGCTCAGAG
1 GAGCTTACCATTATTCAACTCAGAG
33521590 GAGCTTACCATT
1 GAGCTTACCATT
33521602 TATAGCTCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
GAGCTTACCATTATTCAACTCAGAG
Found at i:33526535 original size:46 final size:47
Alignment explanation
Indices: 33526481--33526610 Score: 149
Period size: 47 Copynumber: 2.8 Consensus size: 47
33526471 GTGCAAATAA
* *
33526481 TACCTTGATTTGGCTAC-GACCATGATATAGGTATTTT-GAGAGGAGC
1 TACCTTGATTTGGCTACAGGCCATGATATAGGTATTTTGGA-AGAAGC
* * * *
33526527 TACCTTGATTTGGCTACAGGCCAT-AGTATAGGTACTCTGGAATAAGT
1 TACCTTGATTTGGCTACAGGCCATGA-TATAGGTATTTTGGAAGAAGC
* *
33526574 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTT
1 TACCTTGATTTGGCTACAGGCCATGATATAGGTATTT
33526611 ATCGATTGTG
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
46 18 0.26
47 50 0.71
48 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACAGGCCATGATATAGGTATTTTGGAAGAAGC
Found at i:33532276 original size:29 final size:29
Alignment explanation
Indices: 33532171--33532268 Score: 108
Period size: 29 Copynumber: 3.4 Consensus size: 29
33532161 TTCACATACC
* * * *
33532171 TGTATCTGGCCCACTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
** * *
33532199 TCCATATGGCCCATTAGACCCAAATCACC
1 TGTATATGGCCCATTAGGCCCAAATCACA
33532228 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
33532257 TTTATATGGCCC
1 TGTATATGGCCC
33532269 GTTGGGCCTA
Statistics
Matches: 56, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
28 15 0.27
29 41 0.73
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.26
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:33535278 original size:55 final size:53
Alignment explanation
Indices: 33535190--33535439 Score: 212
Period size: 49 Copynumber: 4.8 Consensus size: 53
33535180 CATTACGGTT
* *
33535190 TAAGGATACCATGTAAGACCATGCCAAGCCATGGCAATTGGTAAGGTTTCTAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTATAAGG
* * * *
33535245 TAAGGATATCATGCAAGACCATGTCAAGACATGGCATT-G--A-TCTATAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGG
* * * * *
33535294 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTAATAAGG
1 -TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGG
* * * * *
33535347 CAAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTT-CAA--
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGG
* * * * * *
33535397 -AAGGATACAACGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
33535440 GTACCCGTGT
Statistics
Matches: 160, Mismatches: 29, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
49 71 0.44
50 5 0.03
51 1 0.01
52 7 0.04
53 42 0.26
54 3 0.02
55 31 0.19
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGG
Found at i:33535312 original size:49 final size:52
Alignment explanation
Indices: 33535191--33535382 Score: 187
Period size: 53 Copynumber: 3.7 Consensus size: 52
33535181 ATTACGGTTT
* * * ** *
33535191 AAGGATACCATGTAAGACCATGCCAAGCCATGGCAATTGGTAAGGTTTCTAAGGT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATT-GTGA-GTTAATAAGGC
* *
33535246 AAGGATATCATGCAAGACCATGTCAAGACATGGCA-T-TGA-TCT-ATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGTGAGT-TAATAAGGC
* * *
33535295 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTAATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATT-GTGAGTTAATAAGGC
*
33535348 AAGGATACCATGTAAGACCATGTCGAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
33535383 ATGGTAAGTT
Statistics
Matches: 113, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
49 31 0.27
50 6 0.05
51 2 0.02
52 8 0.07
53 35 0.31
54 1 0.01
55 30 0.27
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGTGAGTTAATAAGGC
Found at i:33535412 original size:102 final size:103
Alignment explanation
Indices: 33535191--33535441 Score: 262
Period size: 102 Copynumber: 2.4 Consensus size: 103
33535181 ATTACGGTTT
** * *
33535191 AAGGATACCATGTAAGACCATGCCAAGCCATGGCAATTGGTAAGGTTTCTAAGGTAAGGATATCA
1 AAGGATACCATGTAAGACCATGCCAAGCCATGGCAATTGGTAAGGTTAATAAGGCAAGGATACCA
*
33535256 TGCAAGACCATGTCAAGACATGGCATTGATCTATAAGGCA
66 TGCAAGACCATGTCAAGACATGGCA-T-ATCGATAAGGCA
* * *
33535296 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-GTTAATAAGGCAAGGATACCA
1 AAGGATACCATGTAAGACCATGCCAAGCCATGGCAATTGGTAAGGTTAATAAGGCAAGGATACCA
* * * *
33535358 TGTAAGACCATGTCGAGACATGGCA-AT-GGTAAGTTTCAA
66 TGCAAGACCATGTCAAGACATGGCATATCGATAAG--GC-A
* * * * *
33535397 AAGGATACAACGTAAGACCATGACAAGTCATGG-AAATGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGCCATGGCAATTGGTAAGGT
33535442 ACCCGTGTAT
Statistics
Matches: 121, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
98 4 0.03
99 2 0.02
100 1 0.01
101 5 0.04
102 69 0.57
103 9 0.07
104 27 0.22
105 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (103 bp):
AAGGATACCATGTAAGACCATGCCAAGCCATGGCAATTGGTAAGGTTAATAAGGCAAGGATACCA
TGCAAGACCATGTCAAGACATGGCATATCGATAAGGCA
Found at i:33544076 original size:18 final size:18
Alignment explanation
Indices: 33544043--33544088 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
33544033 TTGTGGGCTT
33544043 TGTGGG-CCACACGAGCA
1 TGTGGGCCCACACGAGCA
*
33544060 TGTGGGCCCACATGAGCA
1 TGTGGGCCCACACGAGCA
33544078 TGTGGGCCCAC
1 TGTGGGCCCAC
33544089 TGGGCCGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.20, C:0.30, G:0.35, T:0.15
Consensus pattern (18 bp):
TGTGGGCCCACACGAGCA
Found at i:33545222 original size:25 final size:25
Alignment explanation
Indices: 33545194--33545253 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
33545184 GATTATATGA
*
33545194 GCTTACTGTTATTCAACTCGGAGGG
1 GCTTACCGTTATTCAACTCGGAGGG
* *
33545219 GCTTACCGTTATTCAGCTCGGAGGA
1 GCTTACCGTTATTCAACTCGGAGGG
*
33545244 GTTTACCGTT
1 GCTTACCGTT
33545254 TATAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (25 bp):
GCTTACCGTTATTCAACTCGGAGGG
Found at i:33548976 original size:17 final size:18
Alignment explanation
Indices: 33548954--33548987 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33548944 TCATAGCATG
33548954 AATGTGAAATAT-TTGGA
1 AATGTGAAATATATTGGA
*
33548971 AATGTGATATATATTGG
1 AATGTGAAATATATTGG
33548988 TGAGATGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (18 bp):
AATGTGAAATATATTGGA
Found at i:33552262 original size:9 final size:9
Alignment explanation
Indices: 33552248--33552282 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
33552238 TTATCTAACT
33552248 AATTAATTA
1 AATTAATTA
33552257 AATTAATTA
1 AATTAATTA
*
33552266 AATTAACTA
1 AATTAATTA
33552275 AATTAATT
1 AATTAATT
33552283 TCTTAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (9 bp):
AATTAATTA
Found at i:33553149 original size:19 final size:19
Alignment explanation
Indices: 33553121--33553159 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
33553111 AATAAACAAA
*
33553121 TAAAATCATTGAAATTTAC
1 TAAAACCATTGAAATTTAC
33553140 TAAAACCATTGAAATTTAC
1 TAAAACCATTGAAATTTAC
33553159 T
1 T
33553160 GTTGAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (19 bp):
TAAAACCATTGAAATTTAC
Found at i:33556891 original size:49 final size:50
Alignment explanation
Indices: 33556827--33556947 Score: 163
Period size: 50 Copynumber: 2.4 Consensus size: 50
33556817 CTGGTACGCA
* ** * *
33556827 TAGTAGCCTACACTTAGTACTACACATGCGACC-AATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACG
* * *
33556876 TAGTAGCCTGCACTTAGTCCTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACG
33556926 TAGTAGCCTGCACTTAGTACTA
1 TAGTAGCCTGCACTTAGTACTA
33556948 ACACGTGACC
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
49 30 0.48
50 32 0.52
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACG
Found at i:33556941 original size:50 final size:50
Alignment explanation
Indices: 33556827--33556958 Score: 169
Period size: 49 Copynumber: 2.7 Consensus size: 50
33556817 CTGGTACGCA
* * ** * *
33556827 TAGTAGCCTACACTTAGTACTACACATGCGACC-AATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACG
* *
33556876 TAGTAGCCTGCACTTAGTCCTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACG
*
33556926 TAGTAGCCTGCACTTAGTACTA-ACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT
33556959 CACAATAGAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 40 0.56
50 32 0.44
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACG
Found at i:33562019 original size:49 final size:49
Alignment explanation
Indices: 33561963--33562194 Score: 302
Period size: 49 Copynumber: 4.7 Consensus size: 49
33561953 CTAGTACGCA
* *
33561963 TAGTAGCCTGCACTTAGTACTATACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** * *
33562012 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * *
33562062 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* *
33562113 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
33562162 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
33562195 TCACAATAGA
Statistics
Matches: 157, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
49 71 0.45
50 48 0.31
51 38 0.24
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:33562136 original size:101 final size:98
Alignment explanation
Indices: 33561963--33562194 Score: 313
Period size: 100 Copynumber: 2.3 Consensus size: 98
33561953 CTAGTACGCA
* * * * *
33561963 TAGTAGCCTGCACTTAGTACTATACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
*
33562028 GTACTACACACGTGACCTAACCA-TCTGATACACG
66 GTACTACACACGCGACC-AACCATTC-GATACACG
* *
33562062 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
* ** *
33562127 TAGTACTACACATGCGACCAATTATTCGGTACACG
64 TAGTACTACACACGCGACCAACCATTCGATACACG
33562162 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
33562195 TCACAATAGA
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
99 29 0.25
100 44 0.38
101 44 0.38
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATTCGATACACG
Found at i:33565013 original size:43 final size:43
Alignment explanation
Indices: 33564958--33565128 Score: 181
Period size: 43 Copynumber: 4.0 Consensus size: 43
33564948 AGCTCATATA
*
33564958 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
33565001 ATGCC-ACTGTCCCAAACAG-GGTCTTATACG-AATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
* * * *
33565042 ATGCTAATGTCCCAGACATGGTCTTACACATAAATCACA-ATTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCACATA-TCG
* *
33565086 AGGCCAACGTCCCAGACGTGATCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
33565129 GAATCTTATG
Statistics
Matches: 102, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
41 22 0.22
42 13 0.13
43 39 0.38
44 28 0.27
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:33575947 original size:45 final size:45
Alignment explanation
Indices: 33575883--33575974 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
33575873 TCGTAACCAC
* *
33575883 ATATGGATGCCAACATCCCAGACGTAGTCTTACATGAAAACACAT
1 ATATCGATGCCAACATCCCAGACGTAGTCTTACACGAAAACACAT
* * *
33575928 ATATCGATGCCAACGTCCCAGATGTGGTCTTACACGAAAACACAT
1 ATATCGATGCCAACATCCCAGACGTAGTCTTACACGAAAACACAT
33575973 AT
1 AT
33575975 CATAATGCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (45 bp):
ATATCGATGCCAACATCCCAGACGTAGTCTTACACGAAAACACAT
Found at i:33578910 original size:46 final size:46
Alignment explanation
Indices: 33578843--33579014 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
33578833 AACCCGCCCC
*
33578843 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
33578889 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
33578937 TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
33578982 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
33579015 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 59 0.56
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:33578957 original size:93 final size:93
Alignment explanation
Indices: 33578848--33579018 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
33578838 GCCCCTAAGT
* * *
33578848 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
33578913 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
33578941 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
33579006 CGAGTTCGGATGC
66 CGAGTTCGGATGC
33579019 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:33579472 original size:30 final size:30
Alignment explanation
Indices: 33579438--33579497 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
33579428 ATTTAATACG
*
33579438 AACTTTGGGAAAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
33579468 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
33579498 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:33584261 original size:27 final size:28
Alignment explanation
Indices: 33584177--33584274 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
33584167 CATGAGATTT
* * * *
33584177 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
33584206 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
33584234 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
33584261 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
33584275 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:33584285 original size:27 final size:27
Alignment explanation
Indices: 33584205--33584287 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
33584195 TAAATTGTAC
* *
33584205 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
33584233 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
33584260 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
33584287 A
1 A
33584288 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:33584288 original size:29 final size:27
Alignment explanation
Indices: 33584177--33584288 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
33584167 CATGAGATTT
** * *
33584177 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
33584206 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
33584234 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
33584261 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
33584289 TTTTGAATCG
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:33587428 original size:79 final size:80
Alignment explanation
Indices: 33587292--33587471 Score: 224
Period size: 79 Copynumber: 2.3 Consensus size: 80
33587282 TCGAATGATG
* *
33587292 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
*
33587357 GTGTGAGTTACTAGT-
66 GTGCGAGTTACTA-TA
* * **
33587372 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
33587434 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
33587451 ACCGGGCTATGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
33587472 CTTTGAACGA
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.02
79 59 0.68
80 26 0.30
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:33587483 original size:40 final size:40
Alignment explanation
Indices: 33587292--33587476 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
33587282 TCGAATGATG
* * *
33587292 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * **
33587332 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAGT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33587372 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33587411 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
33587452 -CCGGGCTATGTCCCGAAGGCCTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33587477 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 33 0.27
40 82 0.66
41 9 0.07
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33594769 original size:28 final size:28
Alignment explanation
Indices: 33594701--33594799 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
33594691 CATGAGATTT
* * * *
33594701 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
33594730 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
33594758 GCACTAAGTGTGCAAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
33594785 GCACTGAGTGTGCGA
1 GCACTAAGTGTGCGA
33594800 ACTTAATATA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 18 0.29
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:33594809 original size:27 final size:28
Alignment explanation
Indices: 33594729--33594812 Score: 107
Period size: 27 Copynumber: 3.0 Consensus size: 28
33594719 TAAATTGTAC
**
33594729 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAACTTGATTATAT
*
33594757 AGCACTAAGTGTGC-AAGTTGATTATAT
1 AGCACTAAGTGTGCGAACTTGATTATAT
* *
33594784 AGCACTGAGTGTGCGAACTTAATATATAT
1 AGCACTAAGTGTGCGAACTTGAT-TATAT
33594813 TTTTGAATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 24 0.49
28 20 0.41
29 5 0.10
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAACTTGATTATAT
Found at i:33600324 original size:46 final size:46
Alignment explanation
Indices: 33600257--33600428 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
33600247 AACCCGCCCC
* *
33600257 TAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
33600303 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * * * *
33600351 TCA-CGAACTCGGACTCAACTCAATGAGTTTGGACATTCGCATCTA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
33600396 TAAGTGAGCTCGGACTCAACTCAATGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
33600429 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 57 0.56
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:33600370 original size:93 final size:93
Alignment explanation
Indices: 33600262--33600432 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
33600252 GCCCCTAAGT
* * *
33600262 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
33600327 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
33600355 GAACTCGGACTCAACTCAATGAGTTTGGACATTCGCATCTATAAGTGAGCTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
33600420 TGAGTTCGGATGC
66 CGAGTTCGGATGC
33600433 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:33600428 original size:20 final size:20
Alignment explanation
Indices: 33600359--33600429 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 20
33600349 TCTCACGAAC
33600359 TCGGACTCAACTCAATGAGT
1 TCGGACTCAACTCAATGAGT
* * * *
33600379 TTGGACATTCGCATCTATAAGTGAGC
1 TCGGAC--T--CAACT-CAA-TGAGT
33600405 TCGGACTCAACTCAATGAGT
1 TCGGACTCAACTCAATGAGT
33600425 TCGGA
1 TCGGA
33600430 TGCTCAACCA
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 14 0.38
21 2 0.05
22 5 0.14
24 5 0.14
25 2 0.05
26 9 0.24
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (20 bp):
TCGGACTCAACTCAATGAGT
Found at i:33600886 original size:30 final size:30
Alignment explanation
Indices: 33600852--33600911 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
33600842 ATTTAATACG
*
33600852 AACTTTGGGAAAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
33600882 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
33600912 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:33603697 original size:13 final size:13
Alignment explanation
Indices: 33603681--33603705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33603671 TTAATTCATG
33603681 AATATTTATTAAA
1 AATATTTATTAAA
33603694 AATATTTATTAA
1 AATATTTATTAA
33603706 TTATAGTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATATTTATTAAA
Done.