Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 104 of 185
Found at i:32921799 original size:17 final size:17
Alignment explanation
Indices: 32921753--32921801 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
32921743 ACCCATATAA
32921753 TATTTTTT-A-TTTTTC
1 TATTTTTTCACTTTTTC
32921768 T-TTTTTTC-CTATTTTTC
1 TATTTTTTCAC--TTTTTC
32921785 TATTTTTTCACTTTTTC
1 TATTTTTTCACTTTTTC
32921802 GATCACTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
14 6 0.21
15 1 0.04
17 13 0.46
18 7 0.25
19 1 0.04
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTTTTTCACTTTTTC
Found at i:32930431 original size:17 final size:17
Alignment explanation
Indices: 32930377--32930431 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
32930367 GTAGATGATC
*
32930377 TGGCGAACTCTAAGGTT
1 TGGCAAACTCTAAGGTT
*
32930394 TGGAAAACTCTAAGGTT
1 TGGCAAACTCTAAGGTT
*
32930411 TGGCAAACTCTAGGGTT
1 TGGCAAACTCTAAGGTT
32930428 TGGC
1 TGGC
32930432 GGACCCTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (17 bp):
TGGCAAACTCTAAGGTT
Found at i:32937003 original size:21 final size:22
Alignment explanation
Indices: 32936974--32937014 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
32936964 AGTTTCTTGA
32936974 CAACATCTA-TCATTGCCTTAT
1 CAACATCTATTCATTGCCTTAT
* *
32936995 CAACTTCTATTCCTTGCCTT
1 CAACATCTATTCATTGCCTT
32937015 GTAGTTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.22, C:0.32, G:0.05, T:0.41
Consensus pattern (22 bp):
CAACATCTATTCATTGCCTTAT
Found at i:32946157 original size:27 final size:27
Alignment explanation
Indices: 32946126--32946303 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32946116 TAAATTGTAC
32946126 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
32946153 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32946179 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
32946207 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
32946235 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32946262 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
32946289 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
32946304 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:32946240 original size:82 final size:81
Alignment explanation
Indices: 32946127--32946282 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32946117 AAATTGTACA
* *
32946127 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
32946191 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
32946208 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
32946273 TGCGAGTTGA
65 TGCGAATTGA
32946283 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:32946294 original size:82 final size:81
Alignment explanation
Indices: 32946123--32946303 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
32946113 GATTAAATTG
* *
32946123 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
32946188 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
32946204 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
32946268 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
32946286 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
32946304 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:32953844 original size:27 final size:27
Alignment explanation
Indices: 32953813--32953990 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32953803 TAAATTGTAC
32953813 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
32953840 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32953866 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
32953894 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
32953922 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32953949 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
32953976 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
32953991 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:32953927 original size:82 final size:81
Alignment explanation
Indices: 32953814--32953969 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32953804 AAATTGTACA
* *
32953814 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
32953878 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
32953895 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
32953960 TGCGAGTTGA
65 TGCGAATTGA
32953970 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:32953981 original size:82 final size:81
Alignment explanation
Indices: 32953810--32953990 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
32953800 GATTAAATTG
* *
32953810 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
32953875 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
32953891 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
32953955 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
32953973 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
32953991 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:32980962 original size:15 final size:15
Alignment explanation
Indices: 32980942--32980981 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
32980932 TTTTAAGCAT
32980942 TGCATTATGTATATG
1 TGCATTATGTATATG
32980957 TGCATTATGTATATG
1 TGCATTATGTATATG
32980972 TGCATTATGT
1 TGCATTATGT
32980982 TGATCTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (15 bp):
TGCATTATGTATATG
Found at i:32987301 original size:13 final size:13
Alignment explanation
Indices: 32987283--32987307 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32987273 CCGAAACTAG
32987283 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
32987296 AAAGAAAAAAAA
1 AAAGAAAAAAAA
32987308 ATGCTCATCC
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:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:32988476 original size:39 final size:40
Alignment explanation
Indices: 32988381--32988680 Score: 390
Period size: 39 Copynumber: 7.7 Consensus size: 40
32988371 TTGAATGATG
*
32988381 TCCGGGCTAAGTCCCGAAGG--TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
32988419 ATCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
32988460 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
32988499 TCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
32988538 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
32988577 TCC-GGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
32988615 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
32988654 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
32988681 AACGAGGAGC
Statistics
Matches: 238, Mismatches: 13, Indels: 19
0.88 0.05 0.07
Matches are distributed among these distances:
38 37 0.16
39 130 0.55
40 59 0.25
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:32996470 original size:39 final size:40
Alignment explanation
Indices: 32996375--32996674 Score: 381
Period size: 39 Copynumber: 7.7 Consensus size: 40
32996365 TTGAATGATG
*
32996375 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
32996413 ATCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
32996454 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
32996493 TCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
32996532 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
32996571 TCC-GGCTAAG-CCCAAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
32996609 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
32996648 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
32996675 AACGAGGAGC
Statistics
Matches: 236, Mismatches: 15, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
38 36 0.15
39 131 0.56
40 58 0.25
41 10 0.04
42 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:33000983 original size:38 final size:38
Alignment explanation
Indices: 33000961--33001083 Score: 156
Period size: 38 Copynumber: 3.2 Consensus size: 38
33000951 TTGTCGCTAT
33000961 ATCTGACAAATATATGTGTGCCCAACACTGGTTAGTGA
1 ATCTGACAAATATATGTGTGCCCAACACTGGTTAGTGA
* **
33000999 ATCTGACAAATATATGTGTGCCCAGCACTGGTCGGTGA
1 ATCTGACAAATATATGTGTGCCCAACACTGGTTAGTGA
* * * * * * *
33001037 ATTTAATAAATATATGTGTGACCATCACTAGTCAGTGA
1 ATCTGACAAATATATGTGTGCCCAACACTGGTTAGTGA
33001075 ATCTGACAA
1 ATCTGACAA
33001084 TACTCAAAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 72 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (38 bp):
ATCTGACAAATATATGTGTGCCCAACACTGGTTAGTGA
Found at i:33001007 original size:76 final size:76
Alignment explanation
Indices: 33000923--33001084 Score: 184
Period size: 76 Copynumber: 2.1 Consensus size: 76
33000913 TGGTCAATAC
* * * *
33000923 AATC-GACAATTATATGTATGCCCAATACTTGTCGCT-ATATCTGACAAATATATGTGTGCCCAA
1 AATCTGACAATTATATGTATGCCCAACACTGGTCGCTGA-ATCTAACAAATATATGTGTGACCAA
* *
33000986 CACTGGTTAGTG
65 CACTAGTCAGTG
* * * * * * *
33000998 AATCTGACAAATATATGTGTGCCCAGCACTGGTCGGTGAATTTAATAAATATATGTGTGACCATC
1 AATCTGACAATTATATGTATGCCCAACACTGGTCGCTGAATCTAACAAATATATGTGTGACCAAC
33001063 ACTAGTCAGTG
66 ACTAGTCAGTG
33001074 AATCTGACAAT
1 AATCTGACAAT
33001085 ACTCAAAATA
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
75 4 0.06
76 66 0.93
77 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (76 bp):
AATCTGACAATTATATGTATGCCCAACACTGGTCGCTGAATCTAACAAATATATGTGTGACCAAC
ACTAGTCAGTG
Found at i:33004741 original size:40 final size:40
Alignment explanation
Indices: 33004550--33004734 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
33004540 TCGAATGATG
* * * *
33004550 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
33004590 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
33004630 TCCGGGCAAAG-CTCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33004669 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33004710 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33004735 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 32 0.26
40 79 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33004756 original size:79 final size:79
Alignment explanation
Indices: 33004603--33004767 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
33004593 GGACTAAGAT
* * **
33004603 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCAAAGCTCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCAAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
33004668 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
33004682 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCAAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
33004745 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
33004761 CCGAAGG
1 CCGAAGG
33004768 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCAAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:33010254 original size:56 final size:56
Alignment explanation
Indices: 33010168--33010287 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
33010158 ACAAGGGATG
33010168 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
33010224 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
33010280 ATGGGCAA
1 ATGGGCAA
33010288 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:33011654 original size:40 final size:40
Alignment explanation
Indices: 33011420--33011640 Score: 279
Period size: 40 Copynumber: 5.5 Consensus size: 40
33011410 ATGATGTCCA
* * * *
33011420 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* * *
33011460 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
33011500 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
33011539 GGTTAAGTCGCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
33011579 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
33011619 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
33011641 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 115 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:33018875 original size:5 final size:5
Alignment explanation
Indices: 33018865--33018910 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
33018855 AATAAAAAAT
* *
33018865 TTAAA TTAAA TTAAA TTATAA --AAA TCAAA TTTAA TTAAA TTAAA TT
1 TTAAA TTAAA TTAAA TTA-AA TTAAA TTAAA TTAAA TTAAA TTAAA TT
33018911 TTTTCTATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
3 2 0.06
4 1 0.03
5 30 0.86
6 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (5 bp):
TTAAA
Found at i:33021583 original size:37 final size:37
Alignment explanation
Indices: 33021533--33021609 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
33021523 AATATTATGA
* * *
33021533 TTACAAAGTTTAAACATAATAGTGTATCCATTTAATT
1 TTACAAAGTTTAAACATAATACTATATCAATTTAATT
*
33021570 TTACAAAGTTTAAACATCATACTATATCAATTTAATT
1 TTACAAAGTTTAAACATAATACTATATCAATTTAATT
33021607 TTA
1 TTA
33021610 AAAAATGATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.42
Consensus pattern (37 bp):
TTACAAAGTTTAAACATAATACTATATCAATTTAATT
Found at i:33026343 original size:30 final size:30
Alignment explanation
Indices: 33026303--33026457 Score: 188
Period size: 30 Copynumber: 5.2 Consensus size: 30
33026293 ATTCCAACCT
* *
33026303 TTTTCATGGCTCGAGAGTCGAAGCTATCCC
1 TTTTCGTGGCTCGATAGTCGAAGCTATCCC
* *
33026333 TTTTCGTGGCTCGATAGTCAAAGCTATCCA
1 TTTTCGTGGCTCGATAGTCGAAGCTATCCC
* *
33026363 TTTTCATAGCTCGATAG-CTGAAGCTATCCC
1 TTTTCGTGGCTCGATAGTC-GAAGCTATCCC
* *
33026393 TTTTCGTGGCTCGATAGTCAAAGTTATCCC
1 TTTTCGTGGCTCGATAGTCGAAGCTATCCC
* *
33026423 TTTTCGTAGCTCGATA-CCTGAAGCTATCCC
1 TTTTCGTGGCTCGATAGTC-GAAGCTATCCC
33026453 TTTTC
1 TTTTC
33026458 ATTATTTAAT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
29 2 0.02
30 103 0.97
31 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.35
Consensus pattern (30 bp):
TTTTCGTGGCTCGATAGTCGAAGCTATCCC
Found at i:33026375 original size:60 final size:60
Alignment explanation
Indices: 33026303--33026457 Score: 240
Period size: 60 Copynumber: 2.6 Consensus size: 60
33026293 ATTCCAACCT
* *
33026303 TTTTCATGGCTCGAGAG-TCGAAGCTATCCCTTTTCGTGGCTCGATAGTCAAAGCTATCCA
1 TTTTCATAGCTCGATAGCT-GAAGCTATCCCTTTTCGTGGCTCGATAGTCAAAGCTATCCA
* *
33026363 TTTTCATAGCTCGATAGCTGAAGCTATCCCTTTTCGTGGCTCGATAGTCAAAGTTATCCC
1 TTTTCATAGCTCGATAGCTGAAGCTATCCCTTTTCGTGGCTCGATAGTCAAAGCTATCCA
* *
33026423 TTTTCGTAGCTCGATACCTGAAGCTATCCCTTTTC
1 TTTTCATAGCTCGATAGCTGAAGCTATCCCTTTTC
33026458 ATTATTTAAT
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
60 87 0.99
61 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.35
Consensus pattern (60 bp):
TTTTCATAGCTCGATAGCTGAAGCTATCCCTTTTCGTGGCTCGATAGTCAAAGCTATCCA
Found at i:33026482 original size:30 final size:30
Alignment explanation
Indices: 33026448--33026645 Score: 161
Period size: 30 Copynumber: 6.7 Consensus size: 30
33026438 ACCTGAAGCT
*
33026448 ATCCCTTTTCATTATTTAATGGTCGTCACC
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
* * *
33026478 ATCCCTTTTCATT-GTTGATGATCATCACC
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
* * * * *
33026507 ATCCCTTTTCATAATTTGATAGCCG-AAGCT
1 ATCCCTTTTCATTATTTGATGGTCGTCA-CC
* * * * * *
33026537 ATCCCTTTTCATAATTCGATAGCCG-AAGCT
1 ATCCCTTTTCATTATTTGATGGTCGTCA-CC
* * *
33026567 ATCCTTTTTCATTGTTCGATGGTCGTCACC
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
* *
33026597 ATCCTTTTTCATTGTTT-ATGGTCGTCACC
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
*
33026626 GTCCCTTTTCATTATTTGAT
1 ATCCCTTTTCATTATTTGAT
33026646 AGCCGAGGCT
Statistics
Matches: 140, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
29 51 0.36
30 88 0.63
31 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATTATTTGATGGTCGTCACC
Found at i:33026514 original size:29 final size:30
Alignment explanation
Indices: 33026448--33026518 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
33026438 ACCTGAAGCT
* * *
33026448 ATCCCTTTTCATTATTTAATGGTCGTCACC
1 ATCCCTTTTCATTAGTTAATGATCATCACC
*
33026478 ATCCCTTTTCATT-GTTGATGATCATCACC
1 ATCCCTTTTCATTAGTTAATGATCATCACC
33026507 ATCCCTTTTCAT
1 ATCCCTTTTCAT
33026519 AATTTGATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 24 0.65
30 13 0.35
ACGTcount: A:0.20, C:0.28, G:0.08, T:0.44
Consensus pattern (30 bp):
ATCCCTTTTCATTAGTTAATGATCATCACC
Found at i:33026556 original size:119 final size:119
Alignment explanation
Indices: 33026417--33026711 Score: 412
Period size: 119 Copynumber: 2.5 Consensus size: 119
33026407 TAGTCAAAGT
* ** * *
33026417 TATCCCTTTTCGTAGCTCGATA-CCTGAAGCTATCCCTTTTCATTATTTAATGGTCGTCACCATC
1 TATCCCTTTTCATAATTCGATAGCC-GAAGCTATCCATTTTCATTATTCAATGGTCGTCACCATC
33026481 CCTTTTCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCGAAGC
65 CCTTTTCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCGAAGC
* * *
33026536 TATCCCTTTTCATAATTCGATAGCCGAAGCTATCCTTTTTCATTGTTCGATGGTCGTCACCATCC
1 TATCCCTTTTCATAATTCGATAGCCGAAGCTATCCATTTTCATTATTCAATGGTCGTCACCATCC
* * * * * * *
33026601 TTTTTCATTGTTTATGGTCGTCACCGTCCCTTTTCATTATTTGATAGCCGAGGC
66 CTTTTCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCGAAGC
* * *
33026655 TATCCCTTTTCATAATTTGATAGCCGAAGCTATCCATTTTCATTAGTCAATGATCGT
1 TATCCCTTTTCATAATTCGATAGCCGAAGCTATCCATTTTCATTATTCAATGGTCGT
33026712 TGATAAACCA
Statistics
Matches: 155, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
119 153 0.99
120 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (119 bp):
TATCCCTTTTCATAATTCGATAGCCGAAGCTATCCATTTTCATTATTCAATGGTCGTCACCATCC
CTTTTCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCGAAGC
Found at i:33026661 original size:30 final size:30
Alignment explanation
Indices: 33026627--33026699 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
33026617 GTCGTCACCG
*
33026627 TCCCTTTTCATTATTTGATAGCCGAGGCTA
1 TCCCTTTTCATTATTTGATAGCCGAAGCTA
*
33026657 TCCCTTTTCATAATTTGATAGCCGAAGCTA
1 TCCCTTTTCATTATTTGATAGCCGAAGCTA
*
33026687 TCCATTTTCATTA
1 TCCCTTTTCATTA
33026700 GTCAATGATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.41
Consensus pattern (30 bp):
TCCCTTTTCATTATTTGATAGCCGAAGCTA
Found at i:33028171 original size:16 final size:15
Alignment explanation
Indices: 33028150--33028217 Score: 67
Period size: 14 Copynumber: 4.9 Consensus size: 15
33028140 TATATTGTAA
33028150 TAATAGTTATATATAT
1 TAATAG-TATATATAT
*
33028166 TAATAGT-T-T-TAG
1 TAATAGTATATATAT
33028178 TAATAGT-TATATAT
1 TAATAGTATATATAT
*
33028192 T-ATATTATAT-TAT
1 TAATAGTATATATAT
33028205 TAATAGTATATAT
1 TAATAGTATATAT
33028218 TATTTTATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
12 10 0.23
13 10 0.23
14 15 0.35
15 2 0.05
16 6 0.14
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (15 bp):
TAATAGTATATATAT
Found at i:33028218 original size:16 final size:15
Alignment explanation
Indices: 33028150--33028221 Score: 75
Period size: 16 Copynumber: 5.1 Consensus size: 15
33028140 TATATTGTAA
33028150 TAATAGTTATATATAT
1 TAATAGTTATAT-TAT
*
33028166 TAATAG-T-T-TTAG
1 TAATAGTTATATTAT
33028178 TAATAGTTATA-TAT
1 TAATAGTTATATTAT
33028192 T-ATA-TTATATTAT
1 TAATAGTTATATTAT
33028205 TAATAGTATATATTAT
1 TAATAGT-TATATTAT
33028221 T
1 T
33028222 TTATTATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
12 13 0.28
13 9 0.19
14 8 0.17
15 2 0.04
16 15 0.32
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TAATAGTTATATTAT
Found at i:33028221 original size:24 final size:25
Alignment explanation
Indices: 33028150--33028229 Score: 74
Period size: 28 Copynumber: 3.0 Consensus size: 25
33028140 TATATTGTAA
*
33028150 TAATAGTTATATA-TATTAATAGTTTTAG
1 TAATAGTTATATATTATT-ATA---TTAT
33028178 TAATAGTTATATATTATATTATATTAT
1 TAATAGTTATATA-T-TATTATATTAT
*
33028205 TAATAG-TATATATTATTTTATTAT
1 TAATAGTTATATATTATTATATTAT
33028229 T
1 T
33028230 TTATGTTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
24 11 0.23
25 1 0.02
26 6 0.13
27 9 0.19
28 13 0.28
30 3 0.06
31 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (25 bp):
TAATAGTTATATATTATTATATTAT
Found at i:33029265 original size:43 final size:43
Alignment explanation
Indices: 33029209--33029295 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
33029199 TAATACGTTT
*
33029209 CTAGGTGGATGTG-AGCGCACAACATAGTTGCAGATAAGAGCTG
1 CTAGGTGGATGTGAAGC-CACAACATAGTTGCAGATAAAAGCTG
* * * *
33029252 CTAGTTGGTTGTGAATCCACAACATATTTGCAGATAAAAGCTG
1 CTAGGTGGATGTGAAGCCACAACATAGTTGCAGATAAAAGCTG
33029295 C
1 C
33029296 CAGATAGTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 36 0.95
44 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (43 bp):
CTAGGTGGATGTGAAGCCACAACATAGTTGCAGATAAAAGCTG
Found at i:33032312 original size:22 final size:21
Alignment explanation
Indices: 33032285--33032325 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33032275 AGAAGATGAT
*
33032285 GAAAAAGAAAGAAAGAAAATAG
1 GAAAAA-AAAGAAAAAAAATAG
*
33032307 GAAAAATAAGAAAAAAAAT
1 GAAAAAAAAGAAAAAAAAT
33032326 TCTAATTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (21 bp):
GAAAAAAAAGAAAAAAAATAG
Found at i:33038066 original size:14 final size:15
Alignment explanation
Indices: 33038044--33038082 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
33038034 CCAAAAAAGT
33038044 AAGTCATTTTCCAGA
1 AAGTCATTTTCCAGA
*
33038059 AA-TCATTTT-CTGA
1 AAGTCATTTTCCAGA
33038072 AAGTCATTTTC
1 AAGTCATTTTC
33038083 AGTAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 5 0.24
14 14 0.67
15 2 0.10
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (15 bp):
AAGTCATTTTCCAGA
Found at i:33041501 original size:11 final size:11
Alignment explanation
Indices: 33041475--33041509 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
33041465 TTGATGATTT
33041475 TTTATTTTT-A
1 TTTATTTTTCA
*
33041485 TATATTTTTCA
1 TTTATTTTTCA
33041496 TTTATTTTTCA
1 TTTATTTTTCA
33041507 TTT
1 TTT
33041510 TCATTGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTTTCA
Found at i:33045233 original size:42 final size:42
Alignment explanation
Indices: 33045096--33045237 Score: 205
Period size: 42 Copynumber: 3.4 Consensus size: 42
33045086 ACGTCGCTAA
* *
33045096 CTTTTGCGGCGCTTACAGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GGAAAAAACGCCGCTAAAGATCATGTT
* *
33045139 CTTTAGTGGCACTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
33045181 CTTTAGCGGCGCTT-GGAAAAAAACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAAAGATCATGTT
*
33045223 CTTTAACGGCGCTTA
1 CTTTAGCGGCGCTTA
33045238 TTTCACAAAC
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.02
42 75 0.84
43 12 0.13
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:33045705 original size:12 final size:12
Alignment explanation
Indices: 33045673--33045712 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
33045663 TTTTGAACCT
* *
33045673 CTGCTTCTATCG
1 CTGCTTCTCTAG
33045685 CTGCTTCTCTAG
1 CTGCTTCTCTAG
*
33045697 CTGCTTCTCTTG
1 CTGCTTCTCTAG
33045709 CTGC
1 CTGC
33045713 GGCATTTGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.05, C:0.35, G:0.17, T:0.42
Consensus pattern (12 bp):
CTGCTTCTCTAG
Found at i:33045722 original size:21 final size:21
Alignment explanation
Indices: 33045697--33045782 Score: 91
Period size: 21 Copynumber: 4.1 Consensus size: 21
33045687 GCTTCTCTAG
*
33045697 CTGCTTCTCTTGCTGCGGCAT
1 CTGCTTCTCTCGCTGCGGCAT
* *
33045718 TTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCGGCAT
* ** *
33045739 CTGCTTCTCTCGTTGTAGCCT
1 CTGCTTCTCTCGCTGCGGCAT
* *
33045760 CTGCTTCCCTCGCTGCCGCAT
1 CTGCTTCTCTCGCTGCGGCAT
33045781 CT
1 CT
33045783 ACTTTAAGTT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.03, C:0.38, G:0.21, T:0.37
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCGGCAT
Found at i:33050242 original size:7 final size:7
Alignment explanation
Indices: 33050230--33050368 Score: 59
Period size: 7 Copynumber: 19.0 Consensus size: 7
33050220 TACCCTTGAC
33050230 ACCCTAA
1 ACCCTAA
33050237 ACCCTAA
1 ACCCTAA
33050244 ATCCCT-A
1 A-CCCTAA
*
33050251 ACCAGTAA
1 ACC-CTAA
*
33050259 CCCCTAA
1 ACCCTAA
*
33050266 ATCTCCTAG
1 A-C-CCTAA
*
33050275 CCCCTAA
1 ACCCTAA
*
33050282 ATTCCTAA
1 A-CCCTAA
*
33050290 CCCCTAA
1 ACCCTAA
*
33050297 CCCCTAA
1 ACCCTAA
33050304 ATCCCT-A
1 A-CCCTAA
33050311 ACCCTTAA
1 ACCC-TAA
*
33050319 CCCCTAA
1 ACCCTAA
*
33050326 ATCTCTAA
1 A-CCCTAA
*
33050334 TCCCTAA
1 ACCCTAA
*
33050341 CCCCTAA
1 ACCCTAA
*
33050348 ACCTTATA
1 ACCCTA-A
*
33050356 TCCC-AA
1 ACCCTAA
33050362 ACCCTAA
1 ACCCTAA
33050369 TAGAGTACAT
Statistics
Matches: 97, Mismatches: 23, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
6 9 0.09
7 54 0.56
8 30 0.31
9 4 0.04
ACGTcount: A:0.34, C:0.42, G:0.01, T:0.22
Consensus pattern (7 bp):
ACCCTAA
Found at i:33050264 original size:22 final size:21
Alignment explanation
Indices: 33050230--33050348 Score: 122
Period size: 22 Copynumber: 5.7 Consensus size: 21
33050220 TACCCTTGAC
*
33050230 ACCCTAAACCCTAAATCCCTA
1 ACCCTAACCCCTAAATCCCTA
*
33050251 ACCAGTAACCCCTAAAT--CT-
1 ACC-CTAACCCCTAAATCCCTA
* *
33050270 --CCTAGCCCCTAAATTCCTA
1 ACCCTAACCCCTAAATCCCTA
33050289 ACCCCTAACCCCTAAATCCCTA
1 A-CCCTAACCCCTAAATCCCTA
*
33050311 ACCCTTAACCCCTAAATCTCTA
1 ACCC-TAACCCCTAAATCCCTA
33050333 ATCCCTAACCCCTAAA
1 A-CCCTAACCCCTAAA
33050349 CCTTATATCC
Statistics
Matches: 82, Mismatches: 7, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
16 11 0.13
17 1 0.01
18 2 0.02
20 2 0.02
21 6 0.07
22 57 0.70
23 3 0.04
ACGTcount: A:0.34, C:0.43, G:0.02, T:0.22
Consensus pattern (21 bp):
ACCCTAACCCCTAAATCCCTA
Found at i:33050280 original size:16 final size:15
Alignment explanation
Indices: 33050256--33050296 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
33050246 CCCTAACCAG
33050256 TAACCCCTAAATCTCC
1 TAACCCCTAAAT-TCC
*
33050272 TAGCCCCTAAATTCC
1 TAACCCCTAAATTCC
33050287 TAACCCCTAA
1 TAACCCCTAA
33050297 CCCCTAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.32, C:0.41, G:0.02, T:0.24
Consensus pattern (15 bp):
TAACCCCTAAATTCC
Found at i:33050280 original size:38 final size:37
Alignment explanation
Indices: 33050238--33050310 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 37
33050228 ACACCCTAAA
*
33050238 CCCTAAATCCCTAACCAGTAACCCCTAAATCTCCTAGC
1 CCCTAAATCCCTAACCACTAACCCCTAAATC-CCTAGC
* *
33050276 CCCTAAATTCCTAACCCCTAACCCCTAAATCCCTA
1 CCCTAAATCCCTAACCACTAACCCCTAAATCCCTA
33050311 ACCCTTAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 4 0.12
38 28 0.88
ACGTcount: A:0.32, C:0.44, G:0.03, T:0.22
Consensus pattern (37 bp):
CCCTAAATCCCTAACCACTAACCCCTAAATCCCTAGC
Found at i:33050358 original size:22 final size:21
Alignment explanation
Indices: 33050231--33050365 Score: 85
Period size: 22 Copynumber: 6.1 Consensus size: 21
33050221 ACCCTTGACA
*
33050231 CCCTAAACCCTAAATCCCTAAC
1 CCCTAAA-CCTTAATCCCTAAC
** * * *
33050253 CAGTAACCCCTAAATCTCCTAGC
1 CCCTAA-ACCTTAATC-CCTAAC
*
33050276 CCCTAAATTCC-TAACCCCTAAC
1 CCCTAAA--CCTTAATCCCTAAC
*
33050298 CCCTAAATCCCTAA-CCCTTAAC
1 CCCTAAA-CCTTAATCCC-TAAC
*
33050320 CCCTAAATCTCTAATCCCTAAC
1 CCCTAAACCT-TAATCCCTAAC
*
33050342 CCCTAAACCTTATATCCCAAAC
1 CCCTAAACCTTA-ATCCCTAAC
33050364 CC
1 CC
33050366 TAATAGAGTA
Statistics
Matches: 90, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
21 9 0.10
22 64 0.71
23 15 0.17
24 2 0.02
ACGTcount: A:0.33, C:0.44, G:0.01, T:0.22
Consensus pattern (21 bp):
CCCTAAACCTTAATCCCTAAC
Found at i:33052292 original size:41 final size:41
Alignment explanation
Indices: 33052230--33052427 Score: 204
Period size: 41 Copynumber: 4.8 Consensus size: 41
33052220 TTTTGTTACT
**
33052230 ATTAGCGGCGCTTC-GGCAAAAACGCCGCTAAAGGCCAGAGA
1 ATTAGCGGCGC-TCAGATAAAAACGCCGCTAAAGGCCAGAGA
* * ** *
33052271 ATTAGCGGCGCTCAGATAAAAATGCTGCTAAATATCC-GAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAA-GGCCAGAGA
* *
33052312 ATTAGCGGCTCTTAGATAAAAACGCCGCTAAAGGCCAGAGA
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCAGAGA
* * ** *
33052353 ATTAGCGGCGCTCGGATACAAACGCCGCTAAATATCCA-AGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAA-GGCCAGAGA
* *
33052394 ATTAGTGGCGCTTAGATAAAAACGCCGCTAAAGG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGG
33052428 TTTAAAAATC
Statistics
Matches: 126, Mismatches: 27, Indels: 9
0.78 0.17 0.06
Matches are distributed among these distances:
40 4 0.03
41 117 0.93
42 5 0.04
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.18
Consensus pattern (41 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCAGAGA
Found at i:33052383 original size:82 final size:82
Alignment explanation
Indices: 33052230--33052427 Score: 306
Period size: 82 Copynumber: 2.4 Consensus size: 82
33052220 TTTTGTTACT
* ** *
33052230 ATTAGCGGCGCTTCGGCAAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAATG
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAACG
* *
33052295 CTGCTAAATATCCGAGC
66 CCGCTAAATATCCAAGC
* * *
33052312 ATTAGCGGCTCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCGGATACAAACG
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAACG
33052377 CCGCTAAATATCCAAGC
66 CCGCTAAATATCCAAGC
*
33052394 ATTAGTGGCGCTTAGATAAAAACGCCGCTAAAGG
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG
33052428 TTTAAAAATC
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 105 1.00
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.18
Consensus pattern (82 bp):
ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAACG
CCGCTAAATATCCAAGC
Found at i:33052595 original size:40 final size:39
Alignment explanation
Indices: 33052483--33052598 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 39
33052473 GCGCTTTATA
* *
33052483 TAAAACGCCGCTAATTC-CTATTTTTAGCGGCGC-TTGG
1 TAAATCGCCGCTAATGCTCTATTTTTAGCGGCGCTTTGG
* **
33052520 TGGAAATCGCCGCTGATGCTCTACCTTTAGCGGCGCTTTGG
1 T--AAATCGCCGCTAATGCTCTATTTTTAGCGGCGCTTTGG
* * *
33052561 CTAAATCGCCGCTAATGCTCGATTTTTTGTGGCGCTTT
1 -TAAATCGCCGCTAATGCTCTATTTTTAGCGGCGCTTT
33052599 TGTTCCAAAC
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
37 1 0.02
39 13 0.21
40 44 0.70
41 4 0.06
42 1 0.02
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (39 bp):
TAAATCGCCGCTAATGCTCTATTTTTAGCGGCGCTTTGG
Found at i:33054066 original size:32 final size:32
Alignment explanation
Indices: 33054028--33054107 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
33054018 ACTTCACACC
* * *
33054028 CCCGTGTGGTTTCATATGGCCTGAATATCTAG
1 CCCGTGTGGTTTCACATGGCCTAAATATATAG
* * *
33054060 CTCGTGTGGTTTCACATGTCCTAAATATATGG
1 CCCGTGTGGTTTCACATGGCCTAAATATATAG
*
33054092 CCCGTGTTGTTTCACA
1 CCCGTGTGGTTTCACA
33054108 CGACCTAGCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (32 bp):
CCCGTGTGGTTTCACATGGCCTAAATATATAG
Found at i:33067253 original size:26 final size:26
Alignment explanation
Indices: 33067224--33067310 Score: 97
Period size: 26 Copynumber: 3.4 Consensus size: 26
33067214 GCGCTGATGC
33067224 TTATTTAGCAGGCCTTGAGTTGGTGT
1 TTATTTAGCAGGCCTTGAGTTGGTGT
* *** *
33067250 TTATTTAGAAGGCCTTGAGTCAATGA
1 TTATTTAGCAGGCCTTGAGTTGGTGT
*
33067276 TTATTTAGCAGGCTTTGA-TCTGGTGT
1 TTATTTAGCAGGCCTTGAGT-TGGTGT
33067302 TT-TTTAGCA
1 TTATTTAGCA
33067311 TGCTTTGATC
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
25 8 0.16
26 41 0.84
ACGTcount: A:0.21, C:0.11, G:0.25, T:0.43
Consensus pattern (26 bp):
TTATTTAGCAGGCCTTGAGTTGGTGT
Found at i:33068521 original size:21 final size:21
Alignment explanation
Indices: 33068497--33068538 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
33068487 TTTAGATATG
33068497 AAATG-CTTTTGGTCATTAGCT
1 AAATGCCTTTT-GTCATTAGCT
*
33068518 AAATGCCTTTTGTGATTAGCT
1 AAATGCCTTTTGTCATTAGCT
33068539 TGATATATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (21 bp):
AAATGCCTTTTGTCATTAGCT
Found at i:33072101 original size:38 final size:38
Alignment explanation
Indices: 33072050--33072124 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
33072040 GTTGAATTTG
*
33072050 CTAAGTTTGATTTGTTTCGAAAATGATTTCAGTGATAA
1 CTAAGTCTGATTTGTTTCGAAAATGATTTCAGTGATAA
*
33072088 CTAAGTCTGATTTGTTTCGAAAATGATTTTAGTGATA
1 CTAAGTCTGATTTGTTTCGAAAATGATTTCAGTGATA
33072125 TCTGTATAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.43
Consensus pattern (38 bp):
CTAAGTCTGATTTGTTTCGAAAATGATTTCAGTGATAA
Found at i:33075047 original size:26 final size:26
Alignment explanation
Indices: 33075018--33075245 Score: 172
Period size: 26 Copynumber: 8.8 Consensus size: 26
33075008 AATAGCAGGG
*
33075018 CTTGAGTCGGTGTTTATTTAGCAAGC
1 CTTGAGCCGGTGTTTATTTAGCAAGC
* * * *
33075044 CTTG-GACCTGTGTTTCTTTAGTAGGC
1 CTTGAG-CCGGTGTTTATTTAGCAAGC
* * *
33075070 CTTGAGACGGTGTTTATTTAGTAGGC
1 CTTGAGCCGGTGTTTATTTAGCAAGC
* * * * *
33075096 CTTGGGCTGATGTTTCTTGAGCAAGC
1 CTTGAGCCGGTGTTTATTTAGCAAGC
* * *
33075122 CTTGAGCCGATGTTTATTTAACAGGC
1 CTTGAGCCGGTGTTTATTTAGCAAGC
* * * * *
33075148 TTTGGGCAGGTGTTTCTTTAGCAAGT
1 CTTGAGCCGGTGTTTATTTAGCAAGC
* * *
33075174 TTTGAGCCAGTGTTTATTTAGCACGC
1 CTTGAGCCGGTGTTTATTTAGCAAGC
** *
33075200 CTTGAGCTAGTGGTTATTTAGCAA-C
1 CTTGAGCCGGTGTTTATTTAGCAAGC
* *
33075225 TTTGAGCTGGTGTTTATTTAG
1 CTTGAGCCGGTGTTTATTTAG
33075246 ATGGCTTTGA
Statistics
Matches: 157, Mismatches: 43, Indels: 5
0.77 0.21 0.02
Matches are distributed among these distances:
25 20 0.13
26 136 0.87
27 1 0.01
ACGTcount: A:0.18, C:0.15, G:0.27, T:0.39
Consensus pattern (26 bp):
CTTGAGCCGGTGTTTATTTAGCAAGC
Found at i:33075098 original size:52 final size:51
Alignment explanation
Indices: 33075018--33075245 Score: 192
Period size: 52 Copynumber: 4.4 Consensus size: 51
33075008 AATAGCAGGG
* * * *
33075018 CTTGAGTCGGTGTTTATTTAGCAAGCCTTGGACCTGTGTTTCTTTAGTAGGC
1 CTTGAGACGGTGTTTATTTAGCAGGCCTTGG-CCTGTGTTTCTTTAGCAAGC
* * *
33075070 CTTGAGACGGTGTTTATTTAGTAGGCCTTGGGCTGATGTTTCTTGAGCAAGC
1 CTTGAGACGGTGTTTATTTAGCAGGCCTTGGCCTG-TGTTTCTTTAGCAAGC
* * * * ** *
33075122 CTTGAGCCGATGTTTATTTAACAGGCTTTGGGCAGGTGTTTCTTTAGCAAGT
1 CTTGAGACGGTGTTTATTTAGCAGGCCTT-GGCCTGTGTTTCTTTAGCAAGC
* * * * * *
33075174 TTTGAGCCAGTGTTTATTTAGCACGCCTTGAG-CTAGTGGTTATTTAGCAA-C
1 CTTGAGACGGTGTTTATTTAGCAGGCCTTG-GCCT-GTGTTTCTTTAGCAAGC
*
33075225 TTTGAG-CTGGTGTTTATTTAG
1 CTTGAGAC-GGTGTTTATTTAG
33075246 ATGGCTTTGA
Statistics
Matches: 142, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
50 1 0.01
51 22 0.15
52 116 0.82
53 3 0.02
ACGTcount: A:0.18, C:0.15, G:0.27, T:0.39
Consensus pattern (51 bp):
CTTGAGACGGTGTTTATTTAGCAGGCCTTGGCCTGTGTTTCTTTAGCAAGC
Found at i:33080983 original size:20 final size:18
Alignment explanation
Indices: 33080958--33080997 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
33080948 ACCTAACACG
33080958 AATTAAATTTAAATCATATT
1 AATTAAA-TTAAA-CATATT
33080978 AATTAAATTAAACATATT
1 AATTAAATTAAACATATT
33080996 AA
1 AA
33080998 CATCACAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:33082070 original size:18 final size:17
Alignment explanation
Indices: 33082041--33082080 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
33082031 TATGTTGTTT
33082041 TCTCCTTCATTTCTTTC
1 TCTCCTTCATTTCTTTC
*
33082058 TCTCCTCTCATTTTTTTC
1 TCTCCT-TCATTTCTTTC
33082076 TCTCC
1 TCTCC
33082081 CCTTCCACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.57
Consensus pattern (17 bp):
TCTCCTTCATTTCTTTC
Found at i:33096806 original size:15 final size:15
Alignment explanation
Indices: 33096786--33096815 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33096776 ATTTTACTTA
*
33096786 GTAGTTTTATTTAAT
1 GTAGTTTAATTTAAT
33096801 GTAGTTTAATTTAAT
1 GTAGTTTAATTTAAT
33096816 TTTTACAGGT
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:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (15 bp):
GTAGTTTAATTTAAT
Found at i:33097899 original size:49 final size:49
Alignment explanation
Indices: 33097832--33097931 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
33097822 TGTCCATTCA
* *
33097832 ATCCAGTGTCAATATACTATATGGGGAACTCTAACTAAAACAATAATCC
1 ATCCAGTGTCAATATACTATATAGGGAACTCCAACTAAAACAATAATCC
33097881 ATCCAGTGTCAATATACTATATAGGGAACTCCAACTAAAACAATAATCC
1 ATCCAGTGTCAATATACTATATAGGGAACTCCAACTAAAACAATAATCC
33097930 AT
1 AT
33097932 ACTGTAATAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (49 bp):
ATCCAGTGTCAATATACTATATAGGGAACTCCAACTAAAACAATAATCC
Found at i:33106422 original size:41 final size:41
Alignment explanation
Indices: 33106377--33106538 Score: 159
Period size: 41 Copynumber: 4.0 Consensus size: 41
33106367 TTGTATAAAA
* * * *
33106377 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
*
33106418 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGAAGTA-A-TT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTG-A-TACATTT
* * *
33106459 CACCGGCATCAAGCTTGCTAGACATAAAGTCTGAAACATTT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
* * * * *
33106500 CATCGGCATCAAGCCT-CTTGGACGTAAAGTCTGAAACAT
1 CACCGGCATAAAGCCTGC-TAGACATAAAGTCTGATACAT
33106539 CTTATTTTCA
Statistics
Matches: 103, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
41 95 0.92
42 2 0.02
43 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (41 bp):
CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
Found at i:33106507 original size:82 final size:82
Alignment explanation
Indices: 33106377--33106534 Score: 194
Period size: 82 Copynumber: 1.9 Consensus size: 82
33106367 TTGTATAAAA
* *
33106377 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTTCACCGGCA-CAAAGCCTGC-TAGA
1 CACCGGCATAAAGCCTGCTAGACACAAAGCCCGAAACATTTCACCGGCATC-AAGCCT-CTTAGA
33106440 CATAAAGTCTGAAGTAATT
64 CATAAAGTCTGAAGTAATT
* * * * * * * *
33106459 CACCGGCATCAAGCTTGCTAGACATAAAGTCTGAAACATTTCATCGGCATCAAGCCTCTTGGACG
1 CACCGGCATAAAGCCTGCTAGACACAAAGCCCGAAACATTTCACCGGCATCAAGCCTCTTAGACA
33106524 TAAAGTCTGAA
66 TAAAGTCTGAA
33106535 ACATCTTATT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
81 1 0.02
82 62 0.97
83 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.21
Consensus pattern (82 bp):
CACCGGCATAAAGCCTGCTAGACACAAAGCCCGAAACATTTCACCGGCATCAAGCCTCTTAGACA
TAAAGTCTGAAGTAATT
Found at i:33107443 original size:8 final size:8
Alignment explanation
Indices: 33107430--33107454 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33107420 GCGGACACAA
33107430 TCGACTAC
1 TCGACTAC
33107438 TCGACTAC
1 TCGACTAC
33107446 TCGACTAC
1 TCGACTAC
33107454 T
1 T
33107455 TTCATTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.36, G:0.12, T:0.28
Consensus pattern (8 bp):
TCGACTAC
Found at i:33125949 original size:18 final size:18
Alignment explanation
Indices: 33125926--33125960 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33125916 TAGTTTATTT
*
33125926 ACCATTTAATATCGTTTA
1 ACCATTTAATATAGTTTA
33125944 ACCATTTAATATAGTTT
1 ACCATTTAATATAGTTT
33125961 TCATTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (18 bp):
ACCATTTAATATAGTTTA
Found at i:33126643 original size:39 final size:38
Alignment explanation
Indices: 33126536--33126652 Score: 123
Period size: 39 Copynumber: 3.0 Consensus size: 38
33126526 AGCCTTTGGA
* *
33126536 TAAAAAACGCCGCTAAAAATC-AGGCATTACCGGCGCTTC
1 TAAAAAACGCCGCT-AAAATCGA-GCATTAGCGGCGCTTT
* * *
33126575 TAAAAAATGCCGCAAAAGATCGAGTATTAGCGGCGCTTT
1 TAAAAAACGCCGCTAAA-ATCGAGCATTAGCGGCGCTTT
33126614 TAAGAAAACGCCGCTAAAA-CGGAGCATTAGCGGCG-TTT
1 TAA-AAAACGCCGCTAAAATC-GAGCATTAGCGGCGCTTT
33126652 T
1 T
33126653 CCAAAAGGCG
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
38 8 0.12
39 45 0.68
40 13 0.20
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (38 bp):
TAAAAAACGCCGCTAAAATCGAGCATTAGCGGCGCTTT
Found at i:33126929 original size:122 final size:122
Alignment explanation
Indices: 33126711--33127011 Score: 372
Period size: 122 Copynumber: 2.5 Consensus size: 122
33126701 TTTTCGGGGC
* * *
33126711 TTTAGCGGCGTTTTTAAGAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCATTTTTGAAGAAGCGC
1 TTTAGCGGCGTTTTTAAGAAGCACCGCGAATGCTCGGGTCTTTAGCAGCATTTTTGAAGAAGCGC
* **
33126776 CGCTAATGCTCGGGTCTTTAGCGCCGTTTTTGAAGAAGCGCTGATAATGCTCAGGTT
66 CGCTAATGCCCGGGTCTTTAGCGCCAATTTTGAAGAAGCGCTGATAATGCTCAGGTT
* * *
33126833 TTTAGCGGTGTTTTTGAAGTAGCACCGCGAATGCTCGTGTC-TTAGCAGCATTTTTGAAGAAGCG
1 TTTAGCGGCGTTTTT-AAGAAGCACCGCGAATGCTCGGGTCTTTAGCAGCATTTTTGAAGAAGCG
* * * * *
33126897 CCGCTAATGCCCGGGTCTTTAGCGGCAATTTTGAAGAAGCGCCGCTAATTCTC-GTGTA
65 CCGCTAATGCCCGGGTCTTTAGCGCCAATTTTGAAGAAGCGCTGATAATGCTCAG-GTT
* * * * * *
33126955 TTTAGCAGCATTTTTTGAAGAAGCGCCGCTAATTCTCGGGTCTTTAGCAGCGTTTTT
1 TTTAGCGGC-GTTTTT-AAGAAGCACCGCGAATGCTCGGGTCTTTAGCAGCATTTTT
33127012 AAAAAAATGC
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
121 1 0.01
122 91 0.60
123 47 0.31
124 13 0.09
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (122 bp):
TTTAGCGGCGTTTTTAAGAAGCACCGCGAATGCTCGGGTCTTTAGCAGCATTTTTGAAGAAGCGC
CGCTAATGCCCGGGTCTTTAGCGCCAATTTTGAAGAAGCGCTGATAATGCTCAGGTT
Found at i:33127024 original size:41 final size:41
Alignment explanation
Indices: 33126704--33127011 Score: 377
Period size: 41 Copynumber: 7.5 Consensus size: 41
33126694 TTTTGAGTTT
*
33126704 TCGGGGCTTTAGCGGCGTTTTT-AAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
*
33126744 TCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * *
33126785 TCGGGTCTTTAGCGCCGTTTTTGAAGAAGCGCTGATAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * * * * *
33126826 TCAGGTTTTTAGCGGTGTTTTTGAAGTAGCACCGCGAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * *
33126867 TCGTGTC-TTAGCAGCATTTTTGAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* ** *
33126907 CCGGGTCTTTAGCGGCAATTTTGAAGAAGCGCCGCTAATTC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * * * *
33126948 TCGTGTATTTAGCAGCATTTTTTGAAGAAGCGCCGCTAATTC
1 TCGGGTCTTTAGCGGC-GTTTTTGAAGAAGCGCCGCTAATGC
*
33126990 TCGGGTCTTTAGCAGCGTTTTT
1 TCGGGTCTTTAGCGGCGTTTTT
33127012 AAAAAAATGC
Statistics
Matches: 227, Mismatches: 38, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
40 52 0.23
41 138 0.61
42 37 0.16
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.32
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
Found at i:33129754 original size:20 final size:20
Alignment explanation
Indices: 33129729--33129769 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
33129719 AAGAAAGCAG
33129729 TGGAAATCTTAGATGTATAT
1 TGGAAATCTTAGATGTATAT
33129749 TGGAAATCTTAGATGTATAT
1 TGGAAATCTTAGATGTATAT
33129769 T
1 T
33129770 AAAAGAAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (20 bp):
TGGAAATCTTAGATGTATAT
Found at i:33131461 original size:43 final size:43
Alignment explanation
Indices: 33131393--33131581 Score: 227
Period size: 43 Copynumber: 4.4 Consensus size: 43
33131383 TTTTTAATAG
* * * * *
33131393 AAGCGTCGCTAAAGGTCATGATCTTTAGCAGCGTCTGTGGGAA
1 AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAA
* * * * * *
33131436 AAGAGCCGCTATAGGTCTTGTTCTTTAGCGGCGTTTTTGAGAA
1 AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAA
*
33131479 AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCATTTGTGGGAGA
1 AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGA-A
* *
33131523 AA-CGCCGCTAAAGGTCCTGGTCTTTAGCTGCGTTTGTGGAAA
1 AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAA
*
33131565 AAGCGTCGCTAAAGGTC
1 AAGCGCCGCTAAAGGTC
33131582 TTATTAGCGA
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
42 3 0.02
43 118 0.95
44 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAA
Found at i:33133678 original size:43 final size:43
Alignment explanation
Indices: 33133464--33133772 Score: 220
Period size: 42 Copynumber: 7.3 Consensus size: 43
33133454 TTACAGAAAT
* * * * *
33133464 AAACGCCGTTAAAGGTCATGTTCTTTAGCGGCGC-TGA-AAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTATACAC
* * * * *
33133505 AAACGCCGCTAAAAATCATGTTCTGTAGCGGCGCTTCA-AAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTATACAC
** * *
33133547 AAACGCCGCTAAAGGCCATGTTCTTTAGCAGCGCTTT-TACAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTATACAC
* * ** * * *
33133589 AATACGCTGCTAAAGAACATGACCTATAGCGGCGC-CTA-CCAAC
1 AA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTATAC-AC
* * *
33133632 AAACGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTATTCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTATACAC
* * * * *
33133675 AAACGCCGCTAAA-AGTAATGTTTTTTAGCGGCGTTTTTTTCCAC
1 AAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCG-CTTTATACAC
* * * *
33133719 AAACGCCGCTAAAGGTCATGCTCTTTAGCGGCGATTT-TCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTATACAC
*
33133761 AAATGCCGCTAA
1 AAACGCCGCTAA
33133773 TTTTGGGATT
Statistics
Matches: 214, Mismatches: 44, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
41 30 0.14
42 85 0.40
43 63 0.29
44 36 0.17
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTATACAC
Found at i:33133704 original size:85 final size:83
Alignment explanation
Indices: 33133464--33133772 Score: 248
Period size: 85 Copynumber: 3.7 Consensus size: 83
33133454 TTACAGAAAT
* * * ** * * *
33133464 AAACGCCGTTAAAGGTCATGTTCTTTAGCGGCGC-TGAAAAAAAACGCCGCTAAAAATCATGTTC
1 AAACGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTTACAAAAACGCCGCTAAAAGTAATGTTC
* * *
33133528 TGTAGCGGCGCTTCAAAAA
66 TATAGCGGCGCTTC-CAAC
* *
33133547 AAACGCCGCTAAAGGC-CATGTTCTTTAGCAGCGCTTTTACAAAATACGCTGCT-AAAGAACATG
1 AAACGCCGCTAAA-GCTCATGTTCTTTAGCAGCGCTTTTACAAAA-ACGCCGCTAAAAGTA-ATG
** *
33133610 ACCTATAGCGGCGCCTACCAAC
63 TTCTATAGCGGCG-CTTCCAAC
* *
33133632 AAACGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTATTCACAAACGCCGCTAAAAGTAATGTT
1 AAACGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTT-TACAAAAACGCCGCTAAAAGTAATGTT
* * *
33133697 TTTTAGCGGCGTTTTTTTCC-AC
65 CTATAGCGGCG----CTTCCAAC
* * * * * * *
33133719 AAACGCCGCTAAAGGTCATGCTCTTTAGCGGCGATTTTCCACAAATGCCGCTAA
1 AAACGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTTACAAAAACGCCGCTAA
33133773 TTTTGGGATT
Statistics
Matches: 182, Mismatches: 33, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
83 29 0.16
84 12 0.07
85 75 0.41
86 28 0.15
87 35 0.19
88 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (83 bp):
AAACGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTTACAAAAACGCCGCTAAAAGTAATGTTC
TATAGCGGCGCTTCCAAC
Found at i:33133730 original size:44 final size:43
Alignment explanation
Indices: 33133630--33133772 Score: 166
Period size: 44 Copynumber: 3.3 Consensus size: 43
33133620 GCGCCTACCA
* *
33133630 ACAAACGCCGCT-AAAGCTCATGTTCTTTAGCAGCGCTTTATT-C
1 ACAAACGCCGCTAAAAG-TCATGTTCTTTAGCGGCG-TTTTTTCC
* *
33133673 ACAAACGCCGCTAAAAGTAATGTTTTTTAGCGGCGTTTTTTTCC
1 ACAAACGCCGCTAAAAGTCATGTTCTTTAGCGGCG-TTTTTTCC
* * *
33133717 ACAAACGCCGCTAAAGGTCATGCTCTTTAGCGGCG-ATTTTCC
1 ACAAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTTTTCC
*
33133759 ACAAATGCCGCTAA
1 ACAAACGCCGCTAA
33133773 TTTTGGGATT
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
42 19 0.22
43 32 0.37
44 36 0.41
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (43 bp):
ACAAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTTTTCC
Found at i:33134164 original size:21 final size:21
Alignment explanation
Indices: 33134140--33134190 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
33134130 TTCTTTTGAA
*
33134140 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
* *
33134161 CCTCTGTTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
33134182 CCTCTGCTT
1 CCTCTGCTT
33134191 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.45, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:33139481 original size:17 final size:16
Alignment explanation
Indices: 33139459--33139493 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
33139449 TAAATATTCA
33139459 AATTTATAAATACTATC
1 AATTT-TAAATACTATC
33139476 AA-TTTAAATACTATC
1 AATTTTAAATACTATC
33139491 AAT
1 AAT
33139494 ATTCAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
15 13 0.76
16 2 0.12
17 2 0.12
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (16 bp):
AATTTTAAATACTATC
Found at i:33139485 original size:15 final size:15
Alignment explanation
Indices: 33139465--33139493 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33139455 TTCAAATTTA
33139465 TAAATACTATCAATT
1 TAAATACTATCAATT
33139480 TAAATACTATCAAT
1 TAAATACTATCAAT
33139494 ATTCAAATTT
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:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAATACTATCAATT
Found at i:33140142 original size:20 final size:20
Alignment explanation
Indices: 33140117--33140154 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33140107 AGTAATGCAT
*
33140117 TTTTAAAAAATAATTACACA
1 TTTTAAAAAATAAATACACA
33140137 TTTTAAAAAATAAATACA
1 TTTTAAAAAATAAATACA
33140155 TCAATATATT
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:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
TTTTAAAAAATAAATACACA
Found at i:33140385 original size:15 final size:16
Alignment explanation
Indices: 33140355--33140390 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
33140345 TTTTTTTAAA
*
33140355 ATATTAATTTATATTT
1 ATATTAATTTACATTT
33140371 ATATT-ATTTACATTT
1 ATATTAATTTACATTT
33140386 ATATT
1 ATATT
33140391 CAAAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTAATTTACATTT
Found at i:33140536 original size:7 final size:7
Alignment explanation
Indices: 33140526--33140581 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
33140516 CCGTAAATCT
33140526 TAAACCC
1 TAAACCC
**
33140533 TAAACTA
1 TAAACCC
33140540 TAAACCC
1 TAAACCC
33140547 TAAACCC
1 TAAACCC
*
33140554 CAAACCC
1 TAAACCC
* **
33140561 CAAACTA
1 TAAACCC
33140568 TAAACCC
1 TAAACCC
33140575 TAAACCC
1 TAAACCC
33140582 ATTAATTAAC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAACCC
Found at i:33140536 original size:14 final size:14
Alignment explanation
Indices: 33140526--33140579 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
33140516 CCGTAAATCT
33140526 TAAACCCTAAACTA
1 TAAACCCTAAACTA
**
33140540 TAAACCCTAAACCC
1 TAAACCCTAAACTA
* *
33140554 CAAACCCCAAACTA
1 TAAACCCTAAACTA
33140568 TAAACCCTAAAC
1 TAAACCCTAAAC
33140580 CCATTAATTA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:33140558 original size:28 final size:28
Alignment explanation
Indices: 33140527--33140581 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
33140517 CGTAAATCTT
*
33140527 AAACCCTAAACTATAAACCCTAAACCCC
1 AAACCCCAAACTATAAACCCTAAACCCC
33140555 AAACCCCAAACTATAAACCCTAAACCC
1 AAACCCCAAACTATAAACCCTAAACCC
33140582 ATTAATTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (28 bp):
AAACCCCAAACTATAAACCCTAAACCCC
Found at i:33140696 original size:22 final size:21
Alignment explanation
Indices: 33140660--33140735 Score: 84
Period size: 21 Copynumber: 3.6 Consensus size: 21
33140650 ATCGTAAATC
33140660 TTAAACCCTAAACCATAAACA
1 TTAAACCCTAAACCATAAACA
33140681 TTAAACCCATAAACCATAAACA
1 TTAAACCC-TAAACCATAAACA
* * *
33140703 --ACAACCACCAAATCATAAACT
1 TTA-AACC-CTAAACCATAAACA
33140724 TTAAACCCTAAA
1 TTAAACCCTAAA
33140736 ACTAGCCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
20 1 0.02
21 26 0.57
22 18 0.39
23 1 0.02
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (21 bp):
TTAAACCCTAAACCATAAACA
Found at i:33140700 original size:15 final size:15
Alignment explanation
Indices: 33140661--33140701 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
33140651 TCGTAAATCT
*
33140661 TAAACCCTAAA-CCA
1 TAAACCATAAACCCA
33140675 TAAA-CATTAAACCCA
1 TAAACCA-TAAACCCA
33140690 TAAACCATAAAC
1 TAAACCATAAAC
33140702 AACAACCACC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 1 0.04
14 8 0.35
15 12 0.52
16 2 0.09
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAACCATAAACCCA
Found at i:33141476 original size:114 final size:114
Alignment explanation
Indices: 33141354--33141746 Score: 608
Period size: 114 Copynumber: 3.4 Consensus size: 114
33141344 CTATTGGCTC
* * * * *
33141354 TATACCTCAAGACCAAACACTGCGCTTTGGATAAGATATTTTGCAGCGCTTTTTATAATGTGCCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCAGCGCTTTTTATAATGCGCTG
*
33141419 CTAATTCTGTGCTTTAGTGGCGTTTTTCCATAAGCGCCACTAATTCTAA
66 CTAATTCTGTGCTTTAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAA
* * **
33141468 TTTACCTCAAGACCAAACGTTGCGTTTTGGTTAAGATATTTTGTTGCGCTTTTTATAATGCGCTG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCAGCGCTTTTTATAATGCGCTG
* *
33141533 CTAATGCTGTGCTTTAGCGGCGTTTTTCCATAAGCGCCACGAATTCTAA
66 CTAATTCTGTGCTTTAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAA
33141582 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTG-AGGCGCTTTTTATAATGCGCT
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCA-GCGCTTTTTATAATGCGCT
* *
33141646 GCTAATTCTGTGATTTAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAA
65 GCTAATTCTGTGCTTTAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAA
* * * *
33141696 TAAACCTCTAGACCAAATGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCAGCGCTT
33141747 ACAAATAAAC
Statistics
Matches: 254, Mismatches: 23, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
114 254 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (114 bp):
TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCAGCGCTTTTTATAATGCGCTG
CTAATTCTGTGCTTTAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAA
Found at i:33145192 original size:91 final size:91
Alignment explanation
Indices: 33145037--33145218 Score: 364
Period size: 91 Copynumber: 2.0 Consensus size: 91
33145027 CGAGTGCTCT
33145037 CCAACGAGATAAACAACTGGCCATGAAATGTGCCCATTCCCATATGCAAAGATCAAACCCCTATT
1 CCAACGAGATAAACAACTGGCCATGAAATGTGCCCATTCCCATATGCAAAGATCAAACCCCTATT
33145102 TTCATGGTTAAAGAATGAGATGAGTA
66 TTCATGGTTAAAGAATGAGATGAGTA
33145128 CCAACGAGATAAACAACTGGCCATGAAATGTGCCCATTCCCATATGCAAAGATCAAACCCCTATT
1 CCAACGAGATAAACAACTGGCCATGAAATGTGCCCATTCCCATATGCAAAGATCAAACCCCTATT
33145193 TTCATGGTTAAAGAATGAGATGAGTA
66 TTCATGGTTAAAGAATGAGATGAGTA
33145219 ACACCACAAT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (91 bp):
CCAACGAGATAAACAACTGGCCATGAAATGTGCCCATTCCCATATGCAAAGATCAAACCCCTATT
TTCATGGTTAAAGAATGAGATGAGTA
Found at i:33147778 original size:12 final size:11
Alignment explanation
Indices: 33147706--33147780 Score: 51
Period size: 12 Copynumber: 6.3 Consensus size: 11
33147696 GCTTTTACTA
* *
33147706 ATTAATTTAAT
1 ATTATTTTATT
33147717 ATTATTATTATTT
1 ATTATT-TTA-TT
**
33147730 ATTAATCCTATT
1 ATT-ATTTTATT
*
33147742 ATTATTTGTACT
1 ATTATTT-TATT
33147754 ATTATTGTTATT
1 ATTATT-TTATT
33147766 ATTATTTTCATT
1 ATTATTTT-ATT
33147778 ATT
1 ATT
33147781 TCTTCTTATC
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
11 9 0.18
12 32 0.64
13 7 0.14
14 2 0.04
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:33157336 original size:3 final size:3
Alignment explanation
Indices: 33157330--33157360 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
33157320 CAAGAAGAAG
33157330 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
33157361 CAACCTACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:33158067 original size:20 final size:19
Alignment explanation
Indices: 33158038--33158075 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
33158028 CTAGGGTTTG
33158038 TTTTGATTTTGATTGATTTT
1 TTTTGATTTTGA-TGATTTT
*
33158058 TTTTGTTTTTGATGATTT
1 TTTTGATTTTGATGATTT
33158076 GTCCAAGGGG
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:0.13, C:0.00, G:0.16, T:0.71
Consensus pattern (19 bp):
TTTTGATTTTGATGATTTT
Found at i:33161382 original size:8 final size:8
Alignment explanation
Indices: 33161369--33161393 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33161359 ATTTGTGTGT
33161369 TCAATTTC
1 TCAATTTC
33161377 TCAATTTC
1 TCAATTTC
33161385 TCAATTTC
1 TCAATTTC
33161393 T
1 T
33161394 TCTGCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCAATTTC
Found at i:33166182 original size:6 final size:6
Alignment explanation
Indices: 33166171--33166206 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
33166161 ACTACAGCAT
33166171 CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA
33166207 ATTAGACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:33168887 original size:6 final size:6
Alignment explanation
Indices: 33168868--33168907 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
33168858 TTCAATTTTT
* *
33168868 TTATAA TTAT-A TTATAA TTATAG TTAAAA TTATAA TTATA
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA TTATA
33168908 TTTAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
TTATAA
Found at i:33168901 original size:18 final size:18
Alignment explanation
Indices: 33168878--33168912 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33168868 TTATAATTAT
33168878 ATTATAATTATAGTTAAA
1 ATTATAATTATAGTTAAA
*
33168896 ATTATAATTATATTTAA
1 ATTATAATTATAGTTAA
33168913 TTTTTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTATAATTATAGTTAAA
Found at i:33169088 original size:17 final size:17
Alignment explanation
Indices: 33169054--33169088 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
33169044 CAACTTTTAA
33169054 TAAATTATAATTATTTT
1 TAAATTATAATTATTTT
33169071 TAAATGTATAATTATTTT
1 TAAAT-TATAATTATTTT
33169089 GCTTCAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TAAATTATAATTATTTT
Found at i:33169409 original size:27 final size:28
Alignment explanation
Indices: 33169379--33169447 Score: 97
Period size: 26 Copynumber: 2.5 Consensus size: 28
33169369 ATTATGTTAT
*
33169379 CTTTTAAAAAATATACTTTCAAAA-AAA
1 CTTTTAAAAAATATACTTTAAAAATAAA
*
33169406 CTTTT-AAAGATATACTTTAAAAATAAA
1 CTTTTAAAAAATATACTTTAAAAATAAA
*
33169433 CTTTTAAAATATATA
1 CTTTTAAAAAATATA
33169448 ACCAAGCTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.43
27 13 0.35
28 8 0.22
ACGTcount: A:0.52, C:0.09, G:0.01, T:0.38
Consensus pattern (28 bp):
CTTTTAAAAAATATACTTTAAAAATAAA
Found at i:33169426 original size:13 final size:13
Alignment explanation
Indices: 33169386--33169445 Score: 68
Period size: 13 Copynumber: 4.6 Consensus size: 13
33169376 TATCTTTTAA
*
33169386 AAAATATACTTTC
1 AAAATATACTTTT
*
33169399 AAAA-AAACTTTT
1 AAAATATACTTTT
*
33169411 AAAGATATACTTTA
1 AAA-ATATACTTTT
*
33169425 AAAATAAACTTTT
1 AAAATATACTTTT
33169438 AAAATATA
1 AAAATATA
33169446 TAACCAAGCT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 9 0.24
13 20 0.53
14 9 0.24
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (13 bp):
AAAATATACTTTT
Found at i:33171060 original size:30 final size:30
Alignment explanation
Indices: 33171024--33171083 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
33171014 CTAATTGTAT
33171024 TATTTTAGAAAATAAAATAATTTAAAGATA
1 TATTTTAGAAAATAAAATAATTTAAAGATA
33171054 TATTTTAGAAAATAAAATAATTTAAAGATA
1 TATTTTAGAAAATAAAATAATTTAAAGATA
33171084 AATTAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (30 bp):
TATTTTAGAAAATAAAATAATTTAAAGATA
Found at i:33171772 original size:17 final size:16
Alignment explanation
Indices: 33171746--33171792 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
33171736 GTAACACTAA
33171746 TTAAATAATA-ATTGAT
1 TTAAATAATATATT-AT
33171762 TTAATATAATATATTAT
1 TTAA-ATAATATATTAT
33171779 TTATAACTAATATA
1 TTA-AA-TAATATA
33171793 CTTAGTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.15
17 12 0.44
18 11 0.41
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
TTAAATAATATATTAT
Found at i:33174663 original size:19 final size:18
Alignment explanation
Indices: 33174626--33174665 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
33174616 ATGGCAAAGT
33174626 ATGTGAAATGAAAATGAA
1 ATGTGAAATGAAAATGAA
* *
33174644 ATGTGGAATGGAATATGAA
1 ATGTGAAAT-GAAAATGAA
33174663 ATG
1 ATG
33174666 ATAAATCTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (18 bp):
ATGTGAAATGAAAATGAA
Found at i:33186341 original size:41 final size:41
Alignment explanation
Indices: 33186286--33186385 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 41
33186276 TTAATTTAAA
* *
33186286 CAGATTCACTGGCACTTAGCTTGTTAGGCTTAAAGCCTAATT
1 CAGA-TCACTGGCACTTAGCCTGCTAGGCTTAAAGCCTAATT
* * *
33186328 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACTGGCACTTAGCCTGCTAGGCTTAAAGCCTAATT
*
33186369 CAGTTCACTGGCACTTA
1 CAGATCACTGGCACTTA
33186386 TACAGAATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 47 0.92
42 4 0.08
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (41 bp):
CAGATCACTGGCACTTAGCCTGCTAGGCTTAAAGCCTAATT
Found at i:33199858 original size:13 final size:13
Alignment explanation
Indices: 33199840--33199864 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33199830 TTCGAAACGT
33199840 GAAAAAAAAAATC
1 GAAAAAAAAAATC
33199853 GAAAAAAAAAAT
1 GAAAAAAAAAAT
33199865 TAATTAAAAA
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:0.80, C:0.04, G:0.08, T:0.08
Consensus pattern (13 bp):
GAAAAAAAAAATC
Found at i:33199874 original size:17 final size:15
Alignment explanation
Indices: 33199854--33199897 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
33199844 AAAAAAATCG
33199854 AAAAAAAAAATTAATTA
1 AAAAAAAAAATT--TTA
* *
33199871 AAAAAAAATATTTTG
1 AAAAAAAAAATTTTA
33199886 AAAAAAAAAATT
1 AAAAAAAAAATT
33199898 GCATACGGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.54
17 11 0.46
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
AAAAAAAAAATTTTA
Found at i:33200658 original size:15 final size:15
Alignment explanation
Indices: 33200626--33200659 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
33200616 GTTCAACGAA
*
33200626 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
33200641 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
33200656 GAGG
1 GAGG
33200660 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:33207453 original size:11 final size:11
Alignment explanation
Indices: 33207428--33207468 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
33207418 TAGTTTCTCG
*
33207428 AAAAAAACTCA
1 AAAAAAATTCA
33207439 AAAAAGAATTCA
1 AAAAA-AATTCA
33207451 AAAAAAATTCA
1 AAAAAAATTCA
33207462 AAAAAAA
1 AAAAAAA
33207469 AAACTAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.76, C:0.10, G:0.02, T:0.12
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:33207469 original size:12 final size:12
Alignment explanation
Indices: 33207428--33207469 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
33207418 TAGTTTCTCG
*
33207428 AAAAAAACTCAA
1 AAAAAAATTCAA
*
33207440 AAAAGAATTC-A
1 AAAAAAATTCAA
33207451 AAAAAAATTCAA
1 AAAAAAATTCAA
33207463 AAAAAAA
1 AAAAAAA
33207470 AACTAGTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.76, C:0.10, G:0.02, T:0.12
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:33207533 original size:14 final size:12
Alignment explanation
Indices: 33207514--33207559 Score: 65
Period size: 12 Copynumber: 3.7 Consensus size: 12
33207504 TCAAGTTGTG
33207514 AAAAAAAATTGA
1 AAAAAAAATTGA
33207526 AAAAAAAATTGTGA
1 AAAAAAAA-T-TGA
*
33207540 AAAAAAATTTGA
1 AAAAAAAATTGA
33207552 AAAAAAAA
1 AAAAAAAA
33207560 AGAGCTAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 18 0.60
13 2 0.07
14 10 0.33
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (12 bp):
AAAAAAAATTGA
Found at i:33207537 original size:25 final size:26
Alignment explanation
Indices: 33207509--33207559 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
33207499 GGATATCAAG
33207509 TTGTGAAAAAAAA-TTGAAAAAAAAA
1 TTGTGAAAAAAAATTTGAAAAAAAAA
33207534 TTGTGAAAAAAAATTTGAAAAAAAAA
1 TTGTGAAAAAAAATTTGAAAAAAAAA
33207560 AGAGCTAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.22
Consensus pattern (26 bp):
TTGTGAAAAAAAATTTGAAAAAAAAA
Found at i:33207560 original size:14 final size:13
Alignment explanation
Indices: 33207514--33207559 Score: 69
Period size: 13 Copynumber: 3.6 Consensus size: 13
33207504 TCAAGTTGTG
33207514 AAAAAAAA-TTGA
1 AAAAAAAATTTGA
33207526 AAAAAAAATTGTG-
1 AAAAAAAATT-TGA
33207539 AAAAAAAATTTGA
1 AAAAAAAATTTGA
33207552 AAAAAAAA
1 AAAAAAAA
33207560 AGAGCTAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 10 0.32
13 19 0.61
14 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (13 bp):
AAAAAAAATTTGA
Found at i:33208507 original size:18 final size:17
Alignment explanation
Indices: 33208486--33208530 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
33208476 GAGTGACGAG
33208486 AGAAAAAGAAATCGAAAA
1 AGAAAAA-AAATCGAAAA
*
33208504 AGAAACAAAAATTGAAAA
1 AGAAA-AAAAATCGAAAA
33208522 AGAGAAAAA
1 AGA-AAAAA
33208531 GATTGGAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.73, C:0.04, G:0.16, T:0.07
Consensus pattern (17 bp):
AGAAAAAAAATCGAAAA
Found at i:33208535 original size:18 final size:18
Alignment explanation
Indices: 33208484--33208535 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
33208474 AAGAGTGACG
*
33208484 AGAGAAAAAGAAATCGAAAA
1 AGAGAAAAAG--ATTGAAAA
*
33208504 AGA-AACAAAAATTGAAAA
1 AGAGAA-AAAGATTGAAAA
33208522 AGAGAAAAAGATTG
1 AGAGAAAAAGATTG
33208536 GAGAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 17 0.63
19 4 0.15
20 6 0.22
ACGTcount: A:0.67, C:0.04, G:0.19, T:0.10
Consensus pattern (18 bp):
AGAGAAAAAGATTGAAAA
Found at i:33215201 original size:40 final size:40
Alignment explanation
Indices: 33215149--33215422 Score: 476
Period size: 40 Copynumber: 6.8 Consensus size: 40
33215139 ATTACCACAA
* * ** *
33215149 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
33215189 GCACGAATGCCTTCGGGCCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
33215229 GCACAAATGCCTTCGGGTCTTAACCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33215269 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33215309 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33215349 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33215389 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
33215423 TCAAATGCTC
Statistics
Matches: 223, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:33218645 original size:40 final size:40
Alignment explanation
Indices: 33218545--33218809 Score: 272
Period size: 40 Copynumber: 6.7 Consensus size: 40
33218535 GCTCCTCGTT
* * * * *
33218545 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* ** *
33218585 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
*
33218624 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
33218664 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
*
33218704 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
** * * *
33218744 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-ATC-TCGCA
*
33218785 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
33218810 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
39 39 0.20
40 143 0.72
41 16 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:33218818 original size:41 final size:41
Alignment explanation
Indices: 33218741--33218818 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
33218731 TTTGTATCTC
* * *
33218741 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
33218782 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
33218819 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:33237525 original size:10 final size:10
Alignment explanation
Indices: 33237510--33237547 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
33237500 TATCAAAAAC
33237510 CATACCATTT
1 CATACCATTT
*
33237520 CATACCAATTC
1 CATACC-ATTT
33237531 CATACCATTT
1 CATACCATTT
33237541 CATACCA
1 CATACCA
33237548 ATTCCCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (10 bp):
CATACCATTT
Found at i:33237535 original size:21 final size:21
Alignment explanation
Indices: 33237509--33237552 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
33237499 GTATCAAAAA
33237509 CCATACCATTTCATACCAATT
1 CCATACCATTTCATACCAATT
33237530 CCATACCATTTCATACCAATT
1 CCATACCATTTCATACCAATT
33237551 CC
1 CC
33237553 CAAATACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (21 bp):
CCATACCATTTCATACCAATT
Found at i:33239000 original size:19 final size:21
Alignment explanation
Indices: 33238963--33239004 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
33238953 TTGGTATTTG
33238963 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTATGAAATGGTAT
33238984 GGAATTGGTA-G-AATGGTAT
1 GGAATTGGTATGAAATGGTAT
33239003 GG
1 GG
33239005 TATTTGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.48
20 1 0.05
21 10 0.48
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (21 bp):
GGAATTGGTATGAAATGGTAT
Found at i:33240721 original size:16 final size:15
Alignment explanation
Indices: 33240698--33240731 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
33240688 TCTTTTCAAA
33240698 TTTTTTTTGATTTTT
1 TTTTTTTTGATTTTT
33240713 TTTTATTTTGATTTTT
1 TTTT-TTTTGATTTTT
33240729 TTT
1 TTT
33240732 CGAACTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (15 bp):
TTTTTTTTGATTTTT
Found at i:33241072 original size:21 final size:21
Alignment explanation
Indices: 33241046--33241108 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
33241036 TTGGTATTTG
33241046 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
33241067 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* * *
33241088 GGTATTTGATACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
33241109 ATGGTTCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 22 0.61
22 14 0.39
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:33241077 original size:11 final size:11
Alignment explanation
Indices: 33241057--33241089 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
33241047 GAATTGGTAC
33241057 GAAATGGTATG
1 GAAATGGTATG
*
33241068 GAATTGGTAT-
1 GAAATGGTATG
33241078 GAAATGGTATG
1 GAAATGGTATG
33241089 G
1 G
33241090 TATTTGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (11 bp):
GAAATGGTATG
Found at i:33242203 original size:10 final size:10
Alignment explanation
Indices: 33242188--33242229 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
33242178 TTTGCAAGTT
33242188 TTGAGCTAAA
1 TTGAGCTAAA
* *
33242198 TTGAGCTGAT
1 TTGAGCTAAA
*
33242208 TTGAGCT-CA
1 TTGAGCTAAA
33242217 TTGAGCTAAA
1 TTGAGCTAAA
33242227 TTG
1 TTG
33242230 GAAGTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (10 bp):
TTGAGCTAAA
Found at i:33244148 original size:23 final size:22
Alignment explanation
Indices: 33244113--33244175 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 22
33244103 ACTCTCTCAC
*
33244113 TTTTTCCTTTCTTTTT-ATCATT
1 TTTTTCTTTTCTTTTTAATC-TT
33244135 TTTTTCTTTCTCTTTTTCAATCTT
1 TTTTTCTTT-TCTTTTT-AATCTT
*
33244159 TTTTTCTTGTACTTTTT
1 TTTTTCTT-TTCTTTTT
33244176 CTTTCTTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 8 0.23
23 7 0.20
24 16 0.46
25 4 0.11
ACGTcount: A:0.08, C:0.17, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTTCTTTTCTTTTTAATCTT
Found at i:33244160 original size:21 final size:21
Alignment explanation
Indices: 33244114--33244166 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
33244104 CTCTCTCACT
* *
33244114 TTTTCCTTTCTTTTTATCATTT
1 TTTT-CTTTCTTTTTATCAATC
33244136 TTTTCTTTCTCTTTT-TCAATC
1 TTTTCTTTCT-TTTTATCAATC
33244157 TTTT-TTTCTT
1 TTTTCTTTCTT
33244167 GTACTTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 1 0.04
20 5 0.18
21 14 0.50
22 8 0.29
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTCTTTCTTTTTATCAATC
Found at i:33246378 original size:20 final size:20
Alignment explanation
Indices: 33246345--33246403 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
33246335 TGCTCCACTC
* *
33246345 AGCTCAAATCAGCTCACTTG
1 AGCTCAATTTAGCTCACTTG
* * **
33246365 AGCTTATTTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACTTG
*
33246385 AGCTCAATTTAGCTTACTT
1 AGCTCAATTTAGCTCACTT
33246404 TCAGCCCGTT
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACTTG
Found at i:33246389 original size:30 final size:31
Alignment explanation
Indices: 33246355--33246414 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
33246345 AGCTCAAATC
* * *
33246355 AGCTCACTTGAGCTTA-TTTTAGCTCGTTTG
1 AGCTCAATTGAGCTTACTTTCAGCCCGTTTG
*
33246385 AGCTCAATTTAGCTTACTTTCAGCCCGTTT
1 AGCTCAATTGAGCTTACTTTCAGCCCGTTT
33246415 CTTTTATCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (31 bp):
AGCTCAATTGAGCTTACTTTCAGCCCGTTTG
Found at i:33248594 original size:22 final size:22
Alignment explanation
Indices: 33248563--33248627 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
33248553 ACCTTTTTGA
* *
33248563 ACCATTACCAATTCATACCAAAT
1 ACCA-TACCATTTCGTACCAAAT
*
33248586 ACCATACCATTTCGTACCAACT
1 ACCATACCATTTCGTACCAAAT
*
33248608 TCCATACCATTTCGTACCAA
1 ACCATACCATTTCGTACCAA
33248628 TTCCTAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
22 34 0.89
23 4 0.11
ACGTcount: A:0.35, C:0.34, G:0.03, T:0.28
Consensus pattern (22 bp):
ACCATACCATTTCGTACCAAAT
Found at i:33249715 original size:27 final size:27
Alignment explanation
Indices: 33249677--33249728 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
33249667 TGTTTGTAGG
*
33249677 TACATGCATGGACAACATTGAAGATAA
1 TACATGCATGGACAACAATGAAGATAA
33249704 TACATGCATGGACAACAATGAAGAT
1 TACATGCATGGACAACAATGAAGAT
33249729 GCTTCAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.21
Consensus pattern (27 bp):
TACATGCATGGACAACAATGAAGATAA
Found at i:33253292 original size:23 final size:22
Alignment explanation
Indices: 33253255--33253309 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 22
33253245 GCTGAATTCA
*
33253255 TGAACCATCTTTAATGTTTTAGTG
1 TGAACCATCTTTAAT-TGTT-GTG
*
33253279 TGAACCCT-TTTAATTGTTGTG
1 TGAACCATCTTTAATTGTTGTG
33253300 TGAACACATC
1 TGAAC-CATC
33253310 AGTAGCCGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 8 0.31
22 5 0.19
23 6 0.23
24 7 0.27
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (22 bp):
TGAACCATCTTTAATTGTTGTG
Done.