Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 123 of 335
Found at i:37168710 original size:23 final size:21
Alignment explanation
Indices: 37168668--37168715 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
37168658 GTCACTCAAC
* * *
37168668 TATTAATTTTTTTGATTTAAT
1 TATTAATTTTTTTAAATTAAA
37168689 TATTAATTTTTTTCTAAATTAAA
1 TATTAA-TTTTTT-TAAATTAAA
37168712 TATT
1 TATT
37168716 TTAATCATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 6 0.27
22 6 0.27
23 10 0.45
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TATTAATTTTTTTAAATTAAA
Found at i:37170845 original size:5 final size:5
Alignment explanation
Indices: 37170835--37170863 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
37170825 AAATTTTGAA
37170835 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
37170864 ATAATCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:37172093 original size:17 final size:17
Alignment explanation
Indices: 37172071--37172108 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
37172061 GTTATTAACT
*
37172071 ACATAATATATAAA-AAA
1 ACATAACATA-AAATAAA
37172088 ACATAACATAAAATAAA
1 ACATAACATAAAATAAA
37172105 ACAT
1 ACAT
37172109 TACAAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (17 bp):
ACATAACATAAAATAAA
Found at i:37175430 original size:37 final size:37
Alignment explanation
Indices: 37175326--37175678 Score: 336
Period size: 37 Copynumber: 9.5 Consensus size: 37
37175316 AAAAATGGAA
* * * * *
37175326 TACTGAATATACTGAACGTGCTCAAAAGAGTAATGTC
1 TACTGATTATACTGAATGTGCTCAAACGAGCAATATC
* *
37175363 TACTGATTATACTAAAAGTTGCTCAAACGAGCAATATCC
1 TACTGATTATACTGAATG-TGCTCAAACGAGCAATAT-C
* *
37175402 T-CTGATTATACTGAATGGGCTCAAACGAGCAATGTC
1 TACTGATTATACTGAATGTGCTCAAACGAGCAATATC
* *
37175438 TAATGATTATACTGAATGTACTCAAACGAGCAATATC
1 TACTGATTATACTGAATGTGCTCAAACGAGCAATATC
* * *
37175475 TACTAAATT-TACTGAACGTGCTCGAAA-GAGCAATGTC
1 TACT-GATTATACTGAATGTGCTC-AAACGAGCAATATC
* * ** *
37175512 TATTGATTATACTGAAAGTTAATCAAACAAGCAATATC
1 TACTGATTATACTGAATG-TGCTCAAACGAGCAATATC
* *
37175550 TACTAATTATACCGAATG-GACTCAAACGAGCAATATC
1 TACTGATTATACTGAATGTG-CTCAAACGAGCAATATC
* * * ** *
37175587 TACTGAATATACTAAACGTGCTCAAAAAAGCAATGTC
1 TACTGATTATACTGAATGTGCTCAAACGAGCAATATC
* *
37175624 TACTGATTATACTGAAAGTTGCTCAAACGAGCGATATC
1 TACTGATTATACTGAATG-TGCTCAAACGAGCAATATC
* *
37175662 CACTGATTATACGGAAT
1 TACTGATTATACTGAAT
37175679 TCATGCTCAA
Statistics
Matches: 254, Mismatches: 51, Indels: 21
0.78 0.16 0.06
Matches are distributed among these distances:
36 5 0.02
37 157 0.62
38 90 0.35
39 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (37 bp):
TACTGATTATACTGAATGTGCTCAAACGAGCAATATC
Found at i:37175538 original size:112 final size:112
Alignment explanation
Indices: 37175346--37175678 Score: 364
Period size: 112 Copynumber: 3.0 Consensus size: 112
37175336 ACTGAACGTG
* * * * * * ** *
37175346 CTCAAAAGAGTAATGTCTACTGATTATACTAAAAGTTGCTCAAACGAGCAATATCCT-CTGATTA
1 CTCAAACGAGCAATATCTACTAAATATACTAAACG-TGCTCAAAAAAGCAATGT-CTACTGATTA
* *** * * * *
37175410 TACTGAATG-GGCTCAAACGAGCAATGTCTAATGATTATACTGAATGTA
64 TACTGAAAGTTAATCAAACGAGCAATATCTACTGATTATACCGAATGGA
* * * * *
37175458 CTCAAACGAGCAATATCTACTAAATTTACTGAACGTGCTCGAAAGAGCAATGTCTATTGATTATA
1 CTCAAACGAGCAATATCTACTAAATATACTAAACGTGCTCAAAAAAGCAATGTCTACTGATTATA
* *
37175523 CTGAAAGTTAATCAAACAAGCAATATCTACTAATTATACCGAATGGA
66 CTGAAAGTTAATCAAACGAGCAATATCTACTGATTATACCGAATGGA
*
37175570 CTCAAACGAGCAATATCTACTGAATATACTAAACGTGCTCAAAAAAGCAATGTCTACTGATTATA
1 CTCAAACGAGCAATATCTACTAAATATACTAAACGTGCTCAAAAAAGCAATGTCTACTGATTATA
** * * *
37175635 CTGAAAGTTGCTCAAACGAGCGATATCCACTGATTATACGGAAT
66 CTGAAAGTTAATCAAACGAGCAATATCTACTGATTATACCGAAT
37175679 TCATGCTCAA
Statistics
Matches: 184, Mismatches: 35, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
110 2 0.01
111 29 0.16
112 153 0.83
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (112 bp):
CTCAAACGAGCAATATCTACTAAATATACTAAACGTGCTCAAAAAAGCAATGTCTACTGATTATA
CTGAAAGTTAATCAAACGAGCAATATCTACTGATTATACCGAATGGA
Found at i:37175611 original size:149 final size:149
Alignment explanation
Indices: 37175326--37175673 Score: 419
Period size: 149 Copynumber: 2.3 Consensus size: 149
37175316 AAAAATGGAA
* * **
37175326 TACTGAATATACTGAACGTGCTCAAAAGAGTAATGTCTACTGATTATACTAAAAGTTGCTCAAAC
1 TACTAAATATACTGAACGTGCTCAAAAGAGCAATGTCTACTGATTATACTAAAAGTTAATCAAAC
* * * * * * * *
37175391 GAGCAATATCCTCTGATTATACTGAATGGGCTCAAACGAGCAATGTCTAATGATTATACTGAATG
66 AAGCAATATCCTCTAATTATACCGAATGGACTCAAACGAGCAATATCTAATGAATATACTAAACG
**
37175456 TACTCAAACGAGCAATATC
131 TACTCAAAAAAGCAATATC
* * * *
37175475 TACTAAATTTACTGAACGTGCTCGAAAGAGCAATGTCTATTGATTATACTGAAAGTTAATCAAAC
1 TACTAAATATACTGAACGTGCTCAAAAGAGCAATGTCTACTGATTATACTAAAAGTTAATCAAAC
*
37175540 AAGCAATAT-CTACTAATTATACCGAATGGACTCAAACGAGCAATATCTACTGAATATACTAAAC
66 AAGCAATATCCT-CTAATTATACCGAATGGACTCAAACGAGCAATATCTAATGAATATACTAAAC
* *
37175604 GTGCTCAAAAAAGCAATGTC
130 GTACTCAAAAAAGCAATATC
* * * * * * *
37175624 TACTGATTATACTGAAAGTTGCTCAAACGAGCGATATCCACTGATTATAC
1 TACTAAATATACTGAACG-TGCTCAAAAGAGCAATGTCTACTGATTATAC
37175674 GGAATTCATG
Statistics
Matches: 166, Mismatches: 31, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
148 2 0.01
149 139 0.84
150 25 0.15
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (149 bp):
TACTAAATATACTGAACGTGCTCAAAAGAGCAATGTCTACTGATTATACTAAAAGTTAATCAAAC
AAGCAATATCCTCTAATTATACCGAATGGACTCAAACGAGCAATATCTAATGAATATACTAAACG
TACTCAAAAAAGCAATATC
Found at i:37180106 original size:93 final size:93
Alignment explanation
Indices: 37179994--37180165 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37179984 CGCCCATAAG
* *
37179994 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
37180059 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
37180087 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
37180152 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
37180166 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:37180162 original size:46 final size:46
Alignment explanation
Indices: 37179987--37180162 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
37179977 TGTAACCCGC
* * *
37179987 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
37180033 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
37180083 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
37180126 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
37180163 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:37187685 original size:93 final size:93
Alignment explanation
Indices: 37187573--37187744 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37187563 CGCCCATAAG
* *
37187573 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
37187638 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
37187666 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
37187731 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
37187745 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:37187741 original size:46 final size:46
Alignment explanation
Indices: 37187566--37187741 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
37187556 TGTAACCCGC
* * *
37187566 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
37187612 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
37187662 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
37187705 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
37187742 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:37189140 original size:2 final size:2
Alignment explanation
Indices: 37189133--37189162 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
37189123 GGAATGAAAG
37189133 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37189163 CAGTCTCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37190987 original size:6 final size:6
Alignment explanation
Indices: 37190976--37191019 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
37190966 ACACAGTAGG
37190976 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GT
37191020 CATAGTCAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:37194061 original size:38 final size:39
Alignment explanation
Indices: 37194009--37194123 Score: 187
Period size: 38 Copynumber: 3.0 Consensus size: 39
37193999 TTCAGTGATG
37194009 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
37194048 TATAT-CGGACTTAGGATCCACAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
37194086 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
37194124 ATATGTCGGG
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
38 36 0.52
39 33 0.48
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:37201706 original size:39 final size:39
Alignment explanation
Indices: 37201652--37201777 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
37201642 TTCAGTGATG
*
37201652 TATATTCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
37201691 TATATCCGGACTTAGGATCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
37201730 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
37201769 TATGTCCGG
1 TATATCCGG
37201778 GCTAAAGTCC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:37201810 original size:78 final size:78
Alignment explanation
Indices: 37201652--37201815 Score: 181
Period size: 78 Copynumber: 2.1 Consensus size: 78
37201642 TTCAGTGATG
* * * * * *
37201652 TATATTCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGATCTGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTAAAGATCCGCAGGC
**
37201717 TATGTGCTGGAAT
66 TATGAACTGGAAT
* * *
37201730 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAATATGTCCGGGCTAAAG-TCCCGTAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTAAAGAT-CCGCAGG
*
37201794 CT-TCGAACTGGTAT
65 CTAT-GAACTGGAAT
37201808 TATA-CCGG
1 TATATCCGG
37201816 GTTTAAATTC
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
77 6 0.08
78 66 0.92
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTAAAGATCCGCAGGC
TATGAACTGGAAT
Found at i:37202970 original size:12 final size:12
Alignment explanation
Indices: 37202955--37202979 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37202945 TTTTTCTTTA
37202955 TTCTTTTATTAT
1 TTCTTTTATTAT
37202967 TTCTTTTATTAT
1 TTCTTTTATTAT
37202979 T
1 T
37202980 ATAACATATA
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:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTTTATTAT
Found at i:37203233 original size:19 final size:20
Alignment explanation
Indices: 37203199--37203236 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
37203189 AATCCTTACA
37203199 CTAAATTAACCTTAATTAAG
1 CTAAATTAACCTTAATTAAG
*
37203219 CTAAATTTA-CTTAATTAA
1 CTAAATTAACCTTAATTAA
37203237 AATCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (20 bp):
CTAAATTAACCTTAATTAAG
Found at i:37210112 original size:11 final size:12
Alignment explanation
Indices: 37210096--37210128 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
37210086 TAAAACCTTA
37210096 TTTTTCTTTTC-
1 TTTTTCTTTTCT
*
37210107 TTTTTCTTTCCT
1 TTTTTCTTTTCT
37210119 TTTTTCTTTT
1 TTTTTCTTTT
37210129 TTTCTTTCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:37210191 original size:12 final size:12
Alignment explanation
Indices: 37210176--37210200 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37210166 TTTTTTCTTA
37210176 TTCTTTTATTAT
1 TTCTTTTATTAT
37210188 TTCTTTTATTAT
1 TTCTTTTATTAT
37210200 T
1 T
37210201 ATAACATATA
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:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTTTATTAT
Found at i:37210263 original size:25 final size:25
Alignment explanation
Indices: 37210212--37210263 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
37210202 TAACATATAT
* * *
37210212 ATTATTATATTTTTAAATTATTATA
1 ATTATTATATTCTTAAATAATAATA
37210237 ATTATTAT-TTCTTAAATAATAAGTA
1 ATTATTATATTCTTAAATAATAA-TA
37210262 AT
1 AT
37210264 ACATATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTATTATATTCTTAAATAATAATA
Found at i:37210453 original size:19 final size:20
Alignment explanation
Indices: 37210419--37210469 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
37210409 AATCCTTACA
37210419 CTAAATTAACCTTAATTAAG
1 CTAAATTAACCTTAATTAAG
* *
37210439 CTAAATTTA-CTTAATTAAAT
1 CTAAATTAACCTTAATT-AAG
37210459 CT-AATTAACCT
1 CTAAATTAACCT
37210470 CTTACTTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.39
Consensus pattern (20 bp):
CTAAATTAACCTTAATTAAG
Found at i:37213986 original size:13 final size:13
Alignment explanation
Indices: 37213968--37213994 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37213958 CCATAAAGTG
37213968 CCTCATATGGTGC
1 CCTCATATGGTGC
37213981 CCTCATATGGTGC
1 CCTCATATGGTGC
37213994 C
1 C
37213995 ATCTGTATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.22, T:0.30
Consensus pattern (13 bp):
CCTCATATGGTGC
Found at i:37218784 original size:40 final size:40
Alignment explanation
Indices: 37218711--37218788 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
37218701 TTACACCATG
* * * *
37218711 TGGGGATAAAATTGACCCACCCATCCCTGCACACCATATA
1 TGGGAATAAAATTAACCCACCCAACCCTACACACCATATA
* *
37218751 TGGGAATATAATTAACCCATCCAACCCTACACACCATA
1 TGGGAATAAAATTAACCCACCCAACCCTACACACCATA
37218789 AGGTACCGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.36, C:0.32, G:0.12, T:0.21
Consensus pattern (40 bp):
TGGGAATAAAATTAACCCACCCAACCCTACACACCATATA
Found at i:37229280 original size:22 final size:23
Alignment explanation
Indices: 37229228--37229281 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
37229218 TTTTTAAAAT
*
37229228 TTTGGGCTTTGGGGTTTAGGTAA
1 TTTGGGCTTTAGGGTTTAGGTAA
* * *
37229251 TTTAGGCTTTAGGGTTT-TGTTA
1 TTTGGGCTTTAGGGTTTAGGTAA
37229273 TTTGGGCTT
1 TTTGGGCTT
37229282 GTTTTGGACT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.11, C:0.06, G:0.33, T:0.50
Consensus pattern (23 bp):
TTTGGGCTTTAGGGTTTAGGTAA
Found at i:37229634 original size:44 final size:43
Alignment explanation
Indices: 37229567--37229684 Score: 130
Period size: 44 Copynumber: 2.7 Consensus size: 43
37229557 AGATTTGTTG
* **
37229567 TTGTAGTTTCAATCCATTCCACTGCAACTTCA-GGTATATAGGAT
1 TTGTAGCTTC-ATCCAGCCCACTGCAACTTCATGG-ATATAGGAT
* *
37229611 TTGTAGCTTCATTCCAGCCCACTGCAACTTTATGGGTATAGGAT
1 TTGTAGCTTCA-TCCAGCCCACTGCAACTTCATGGATATAGGAT
**
37229655 TTGTAGCTTCATCTTGCTCCACTGCAACTT
1 TTGTAGCTTCATCCAGC-CCACTGCAACTT
37229685 TAGGGAGATA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
43 5 0.08
44 57 0.89
45 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (43 bp):
TTGTAGCTTCATCCAGCCCACTGCAACTTCATGGATATAGGAT
Found at i:37229685 original size:44 final size:44
Alignment explanation
Indices: 37229584--37229878 Score: 202
Period size: 44 Copynumber: 6.4 Consensus size: 44
37229574 TTCAATCCAT
* * **
37229584 TCCACTGCAACTTCAGGTATATAGGATTTGTAGCTTCATTCCAGC
1 TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCA-TCTTGC
37229629 -CCACTGCAACTTTATGGG-TATAGGATTTGTAGCTTCATCTTGC
1 TCCACTGCAACTTTA-GGGATATAGGATTTGTAGCTTCATCTTGC
* * ***
37229672 TCCACTGCAACTTTAGGGAGATAAGATTCGCTATGATAGCTTCTATC-CAA
1 TCCACTGCAACTTTAGGGATATAGGA-T---T-TG-TAGCTTC-ATCTTGC
** *
37229722 TCCACTTTACCTTTAGGGATATAGGATTTGTAGCTTCATCTTGC
1 TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTGC
* * * * * **
37229766 TCCACTGAAACTTTAGGGAAATAATATTTGATATTATAACTTTGATC-TAA
1 TCCACTGCAACTTTAGGG--AT-ATA--GGAT-TTGTAGC-TTCATCTTGC
* * * *
37229816 TCCACTGCATCTTTAAGGATATAGGATTTTTAGTTTCATCTTGC
1 TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTGC
*
37229860 TCCACTACAACTTTAGGGA
1 TCCACTGCAACTTTAGGGA
37229879 GATAAGGTTT
Statistics
Matches: 192, Mismatches: 39, Indels: 39
0.71 0.14 0.14
Matches are distributed among these distances:
43 15 0.08
44 94 0.49
45 8 0.04
46 3 0.02
47 6 0.03
48 3 0.02
49 6 0.03
50 49 0.26
51 8 0.04
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (44 bp):
TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTGC
Found at i:37229727 original size:94 final size:91
Alignment explanation
Indices: 37229629--37229983 Score: 370
Period size: 94 Copynumber: 3.8 Consensus size: 91
37229619 TCATTCCAGC
*
37229629 CCACTGCAACTTTATGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAGAT
1 CCACTGCAACTTTA-GGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGAT
* * * *
37229694 AAGATTCGCTATGATAGCTTCTATCCAAT
65 AAGATTTGATAT-ATAACTT-TATCTAAT
** * *
37229723 CCACTTTACCTTTAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACTGA-AACTTTAGGGAAA
1 CCACTGCAACTTTAGGG-TATAGGATTTGTAGCTTCATCTTGCTCCACT-ACAACTTTAGGGAGA
*
37229787 TAATATTTGATATTATAACTTTGATCTAAT
64 TAAGATTTGATA-TATAACTTT-ATCTAAT
* * * *
37229817 CCACTGCATCTTTAAGGATATAGGATTTTTAGTTTCATCTTGCTCCACTACAACTTTAGGGAGAT
1 CCACTGCAACTTT-AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGAT
* * * *
37229882 AAGGTTTGTTATAGTAACTTTATTCTGAC
65 AAGATTTGATATA-TAACTTTA-TCTAAT
* * * * * * * *
37229911 CCACTACAACTTCAGTGGTATAGAATTTGTAGCTTTATCTTGATCTACTACAACTTCAAGGAGAT
1 CCACTGCAACTTTAG-GGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGAT
37229976 AAGATTTG
65 AAGATTTG
37229984 TCATTGCAAC
Statistics
Matches: 217, Mismatches: 35, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
93 10 0.05
94 203 0.94
95 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (91 bp):
CCACTGCAACTTTAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATA
AGATTTGATATATAACTTTATCTAAT
Found at i:37229997 original size:188 final size:188
Alignment explanation
Indices: 37229629--37230025 Score: 453
Period size: 188 Copynumber: 2.1 Consensus size: 188
37229619 TCATTCCAGC
* * * *
37229629 CCACTGCAACTTTATGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAGAT
1 CCACTGCATCTTTAAGGATATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGAT
* * ** * * *
37229694 AAGATTCGCTATGATAGCTTCTATCCAATCCACTTTACCTTTAGGGATATAGGATTTGTAGCTTC
66 AAGATTCGCTATGATAACTTCTATCCAACCCACTACAACTTCAGGGATATAGAATTTGTAGCTTC
* * * * * *
37229759 ATCTTGCTCCACTGAAACTTTAGGGAAATAATATTTGATATTATAACTTTGATCTAAT
131 ATCTTGATCCACTGAAACTTCAAGGAAATAAGATTTGATATTACAACTTTGATCCAAT
* *
37229817 CCACTGCATCTTTAAGGATATAGGATTTTTAGTTTCATCTTGCTCCACTACAACTTTAGGGAGAT
1 CCACTGCATCTTTAAGGATATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGAT
* * * **
37229882 AAGGTTTGTTAT-AGTAACTT-TATTCTGACCCACTACAACTTCAGTGG-TATAGAATTTGTAGC
66 AAGATTCGCTATGA-TAACTTCTA-TCCAACCCACTACAACTTCAG-GGATATAGAATTTGTAGC
* * * *
37229944 TTTATCTTGATCTACT-ACAACTTCAAGGAGATAAGATTTG-TCATTGCAACTTTGATCCAAT
128 TTCATCTTGATCCACTGA-AACTTCAAGGAAATAAGATTTGAT-ATTACAACTTTGATCCAAT
*
37230005 CCACTGCATCTTCAAGGATAT
1 CCACTGCATCTTTAAGGATAT
37230026 GGGAGTCACT
Statistics
Matches: 175, Mismatches: 29, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
187 5 0.03
188 168 0.96
189 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (188 bp):
CCACTGCATCTTTAAGGATATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGAT
AAGATTCGCTATGATAACTTCTATCCAACCCACTACAACTTCAGGGATATAGAATTTGTAGCTTC
ATCTTGATCCACTGAAACTTCAAGGAAATAAGATTTGATATTACAACTTTGATCCAAT
Found at i:37238593 original size:20 final size:20
Alignment explanation
Indices: 37238570--37238608 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37238560 GCCCGTATGG
*
37238570 CCTGGGACATGGCCGTGTGA
1 CCTGGAACATGGCCGTGTGA
*
37238590 CCTGGAACATGGTCGTGTG
1 CCTGGAACATGGCCGTGTG
37238609 GCCAGGCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (20 bp):
CCTGGAACATGGCCGTGTGA
Found at i:37239602 original size:17 final size:17
Alignment explanation
Indices: 37239580--37239616 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
37239570 CAGTCGAAAT
37239580 ATCCCTGAACACTTCCA
1 ATCCCTGAACACTTCCA
37239597 ATCCCTGAACACTTCCA
1 ATCCCTGAACACTTCCA
37239614 ATC
1 ATC
37239617 TTATGGCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.41, G:0.05, T:0.24
Consensus pattern (17 bp):
ATCCCTGAACACTTCCA
Found at i:37240429 original size:18 final size:18
Alignment explanation
Indices: 37240403--37240441 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
37240393 TCTATTTCAT
37240403 TTTCATTCTTTCT-TTTTA
1 TTTCATTCTTT-TATTTTA
*
37240421 TTTCTTTCTTTTATTTTA
1 TTTCATTCTTTTATTTTA
37240439 TTT
1 TTT
37240442 AATTACTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTCATTCTTTTATTTTA
Found at i:37240433 original size:13 final size:14
Alignment explanation
Indices: 37240408--37240436 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
37240398 TTCATTTTCA
37240408 TTCTTTCTTTTTAT
1 TTCTTTCTTTTTAT
37240422 TTCTTTC-TTTTAT
1 TTCTTTCTTTTTAT
37240435 TT
1 TT
37240437 TATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (14 bp):
TTCTTTCTTTTTAT
Found at i:37244561 original size:19 final size:19
Alignment explanation
Indices: 37244539--37244577 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
37244529 AACCAAACTA
37244539 GCAAGAGCTATGCAAAACC
1 GCAAGAGCTATGCAAAACC
37244558 GCAAGAGCTATGCAAAACC
1 GCAAGAGCTATGCAAAACC
37244577 G
1 G
37244578 ATTAATCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.26, G:0.23, T:0.10
Consensus pattern (19 bp):
GCAAGAGCTATGCAAAACC
Found at i:37252227 original size:40 final size:40
Alignment explanation
Indices: 37252140--37252360 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 40
37252130 TATTCGGATG
*
37252140 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACT
*
37252179 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACT
* * *
37252219 ATACCCGGGCTAAGTCTCGAAGGC-GTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCTAG-TGACT
**
37252259 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACT
* * *
37252299 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAG-TGACT
*
37252339 ATAT-CTGGCTGAA-TCCCGAAGG
1 ATATCCGGGCT-AAGTCCCGAAGG
37252361 TACTTGGGTT
Statistics
Matches: 160, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 41 0.26
40 115 0.72
41 4 0.03
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACT
Found at i:37253798 original size:24 final size:23
Alignment explanation
Indices: 37253741--37253802 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
37253731 ATTAGTAATT
*
37253741 AAAAATAAAATTCAAAAATCTAACA
1 AAAAATAAAA-T-AAAAATCTAAAA
*
37253766 AAAATTAAAGATAAAAAT-TAAAA
1 AAAAATAAA-ATAAAAATCTAAAA
37253789 AAAACATAAAATAA
1 AAAA-ATAAAATAA
37253803 TAATAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 12 0.38
24 10 0.31
25 9 0.28
26 1 0.03
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (23 bp):
AAAAATAAAATAAAAATCTAAAA
Found at i:37261979 original size:65 final size:65
Alignment explanation
Indices: 37261893--37262030 Score: 240
Period size: 65 Copynumber: 2.1 Consensus size: 65
37261883 GAGCACTACC
* *
37261893 GCAGCTCTTTGTGAGCGTCCTGACATATAATCGGTTGTGATCCTGAATATAGTGCAGACACAAAA
1 GCAGCTCTTTATAAGCGTCCTGACATATAATCGGTTGTGATCCTGAATATAGTGCAGACACAAAA
*
37261958 GCAGCTCTTTATAAGCTTCCTGACATATAATCGGTTGTGATCCTGAATATAGTGCAGACACAAAA
1 GCAGCTCTTTATAAGCGTCCTGACATATAATCGGTTGTGATCCTGAATATAGTGCAGACACAAAA
*
37262023 GCAACTCT
1 GCAGCTCT
37262031 ATGTTACCTT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (65 bp):
GCAGCTCTTTATAAGCGTCCTGACATATAATCGGTTGTGATCCTGAATATAGTGCAGACACAAAA
Found at i:37271942 original size:10 final size:10
Alignment explanation
Indices: 37271915--37271974 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
37271905 TTAAATTCTA
37271915 AAAGATAAAT
1 AAAGATAAAT
37271925 ACAA-ATAAAT
1 A-AAGATAAAT
*
37271935 AAAGATAATT
1 AAAGATAAAT
*
37271945 AAGGATAAAT
1 AAAGATAAAT
37271955 AAAGATAAAT
1 AAAGATAAAT
37271965 GAAA-ATAAAT
1 -AAAGATAAAT
37271975 CCTAAGATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:37273972 original size:20 final size:20
Alignment explanation
Indices: 37273947--37273985 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
37273937 CCACCCAAAC
37273947 AAAATAAAGTAATAAATAAT
1 AAAATAAAGTAATAAATAAT
37273967 AAAATAAAGTAATAAATAA
1 AAAATAAAGTAATAAATAA
37273986 ATAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAATAAAGTAATAAATAAT
Found at i:37279131 original size:20 final size:20
Alignment explanation
Indices: 37279106--37279144 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
37279096 CACGAGTATG
37279106 TTTAAATGTTTTATATGATA
1 TTTAAATGTTTTATATGATA
37279126 TTTAAATGTTTTATATGAT
1 TTTAAATGTTTTATATGAT
37279145 GTCATAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
TTTAAATGTTTTATATGATA
Found at i:37279704 original size:21 final size:20
Alignment explanation
Indices: 37279673--37279712 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
37279663 AGTCGAGGAC
37279673 TAAAGTGGAAACAAATTAAAAT
1 TAAAGTGG-AA-AAATTAAAAT
37279695 TAAA-TGGAAAAATTAAAA
1 TAAAGTGGAAAAATTAAAA
37279713 AGAAAAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 3 0.17
22 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.23
Consensus pattern (20 bp):
TAAAGTGGAAAAATTAAAAT
Found at i:37280869 original size:23 final size:23
Alignment explanation
Indices: 37280841--37280892 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
37280831 TTAGGTTTTA
* *
37280841 GGCTTGACGGCTTAGGTGATTTG
1 GGCTTGACGGCTTAAGTAATTTG
**
37280864 GGCTTGGGGGCTTAAGTAATTTG
1 GGCTTGACGGCTTAAGTAATTTG
37280887 GGCTTG
1 GGCTTG
37280893 TATTGGACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.13, C:0.12, G:0.40, T:0.35
Consensus pattern (23 bp):
GGCTTGACGGCTTAAGTAATTTG
Found at i:37283822 original size:22 final size:22
Alignment explanation
Indices: 37283794--37283840 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
37283784 TTATAGTTAC
37283794 TAGTGTAGATCAAATCCAAAGA
1 TAGTGTAGATCAAATCCAAAGA
37283816 TAGTGTAGATCAAATCCAAAGA
1 TAGTGTAGATCAAATCCAAAGA
37283838 TAG
1 TAG
37283841 AGGATAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (22 bp):
TAGTGTAGATCAAATCCAAAGA
Found at i:37293807 original size:174 final size:174
Alignment explanation
Indices: 37293487--37293812 Score: 368
Period size: 174 Copynumber: 1.9 Consensus size: 174
37293477 AATCCTAATA
* * * * *
37293487 TCTAAACCAACTCAGAGAATATCAAACTAAACAGGTGTACTACTAGCAAGTTAAATTTCACCTTT
1 TCTAAACCAACTCAAAGAATATCAAACTAAACAGCTGCACTAATAGCAAATTAAATTTCACCTTT
* * * * *
37293552 CCAGCATTTCTCAAACATCTAAATAAACTAATTAAGATATTCAAATCTCACAACCAATTTTCCTA
66 CCAGCATTTCTCAAACAGCCAAATAAACTAATTAAGAGATCCAAATCTCACAACCAATTTT-CAA
* * *
37293617 GACCTAATGCTAAAATGAAATTCACAGAAAACAAAATTCTTAACC
130 AACCAAAAGCTAAAATGAAATTCACAGAAAACAAAATTCTTAACC
* * * * ** *
37293662 TCTAAACCAACTCAAAGAA-ATCAAAGTTAACAGCTGCATTAATAGTAAATTGCATTTCACTTTT
1 TCTAAACCAACTCAAAGAATATCAAACTAAACAGCTGCACTAATAGCAAATTAAATTTCACCTTT
* * * * *
37293726 CCATCATTTCTCAAGCAGCCAAATAAACTGATTAAAGAGATCCTAATCTCACTACCAATTTAT-A
66 CCAGCATTTCTCAAACAGCCAAATAAACTAATT-AAGAGATCCAAATCTCACAACCAATTT-TCA
* *
37293790 AAACCAAAAGGTAAAATGTAATT
129 AAACCAAAAGCTAAAATGAAATT
37293813 TTCTTTTTAA
Statistics
Matches: 122, Mismatches: 27, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
174 80 0.66
175 41 0.34
176 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (174 bp):
TCTAAACCAACTCAAAGAATATCAAACTAAACAGCTGCACTAATAGCAAATTAAATTTCACCTTT
CCAGCATTTCTCAAACAGCCAAATAAACTAATTAAGAGATCCAAATCTCACAACCAATTTTCAAA
ACCAAAAGCTAAAATGAAATTCACAGAAAACAAAATTCTTAACC
Found at i:37296481 original size:26 final size:22
Alignment explanation
Indices: 37296452--37296517 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 22
37296442 TAGATATAAC
37296452 AATTTGAAATTGATAATATATAAAAA
1 AATTT-AAATT-A-AATA-ATAAAAA
*
37296478 AATTTAAATTAAATAATAAAAC
1 AATTTAAATTAAATAATAAAAA
* * *
37296500 GATTTAAAATGAATAATA
1 AATTTAAATTAAATAATA
37296518 CATGAAGCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 21 0.58
23 4 0.11
24 1 0.03
25 5 0.14
26 5 0.14
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (22 bp):
AATTTAAATTAAATAATAAAAA
Found at i:37301023 original size:3 final size:3
Alignment explanation
Indices: 37300951--37301003 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
37300941 ATGACAACAC
37300951 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37300999 ATA AT
1 ATA AT
37301004 GATGATGATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:37306280 original size:61 final size:60
Alignment explanation
Indices: 37306215--37306340 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 60
37306205 ATCATAAATA
* ** *
37306215 TAAAATATTCAACAAGATTAG-CCTTCAATGTTTACAA-AATTTGTCATTTTAGTTCGAATTC
1 TAAAAAATTCAACAA-ATTAGCCCTT-AAAATTTACAATAATTT-TCAATTTAGTTCGAATTC
* *
37306276 TAAAAAATTCAATAAATTAGCCCTTAAAATTTACAATAATTTTCAATTTAGTTCTAATTC
1 TAAAAAATTCAACAAATTAGCCCTTAAAATTTACAATAATTTTCAATTTAGTTCGAATTC
*
37306336 CAAAA
1 TAAAA
37306341 CAATAAATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
60 34 0.61
61 22 0.39
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.38
Consensus pattern (60 bp):
TAAAAAATTCAACAAATTAGCCCTTAAAATTTACAATAATTTTCAATTTAGTTCGAATTC
Found at i:37307462 original size:11 final size:11
Alignment explanation
Indices: 37307448--37307548 Score: 58
Period size: 11 Copynumber: 8.9 Consensus size: 11
37307438 AAATGTATAT
37307448 AAAATAATAAC
1 AAAATAATAAC
*
37307459 AAAATTAATAAT
1 AAAA-TAATAAC
* *
37307471 AAAATAAGAAT
1 AAAATAATAAC
* * *
37307482 TATATAATATTC
1 AAAATAATA-AC
* *
37307494 AATAATAACAAT
1 AA-AATAATAAC
37307506 AAAATAATAAC
1 AAAATAATAAC
* *
37307517 AACATAATAAT
1 AAAATAATAAC
*
37307528 AAAATGATAAC
1 AAAATAATAAC
* *
37307539 GAAACAATAA
1 AAAATAATAA
37307549 GGAATCAATA
Statistics
Matches: 65, Mismatches: 22, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
11 47 0.72
12 13 0.20
13 5 0.08
ACGTcount: A:0.65, C:0.07, G:0.03, T:0.25
Consensus pattern (11 bp):
AAAATAATAAC
Found at i:37307537 original size:14 final size:13
Alignment explanation
Indices: 37307451--37307537 Score: 59
Period size: 14 Copynumber: 6.3 Consensus size: 13
37307441 TGTATATAAA
*
37307451 ATAATAACAAAAT
1 ATAATAATAAAAT
37307464 -TAATAATAAAAT
1 ATAATAATAAAAT
* * *
37307476 AAGAATTATATAAT
1 -ATAATAATAAAAT
37307490 ATTCAATAATAACAAT
1 A-T-AATAATAA-AAT
* *
37307506 AAAATAATAACAAC
1 ATAATAATAA-AAT
37307520 ATAATAATAAAAT
1 ATAATAATAAAAT
37307533 GATAA
1 -ATAA
37307538 CGAAACAATA
Statistics
Matches: 57, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
12 11 0.19
13 3 0.05
14 33 0.58
15 6 0.11
16 4 0.07
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (13 bp):
ATAATAATAAAAT
Found at i:37309234 original size:15 final size:15
Alignment explanation
Indices: 37309214--37309243 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37309204 TTGATAAATA
37309214 TTTATAAGATTCATC
1 TTTATAAGATTCATC
37309229 TTTATAAGATTCATC
1 TTTATAAGATTCATC
37309244 GACAAAGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (15 bp):
TTTATAAGATTCATC
Found at i:37311720 original size:23 final size:23
Alignment explanation
Indices: 37311678--37311721 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
37311668 AATTTAATCT
*
37311678 TTTCTTTTCTCCATTTATTAAGG
1 TTTCTTTTCTCCATTAATTAAGG
**
37311701 TTTCTTTTCTTTATTAATTAA
1 TTTCTTTTCTCCATTAATTAA
37311722 AGTAAAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.14, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTCTTTTCTCCATTAATTAAGG
Found at i:37311796 original size:2 final size:2
Alignment explanation
Indices: 37311789--37311814 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37311779 TCTATACTAC
37311789 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
37311815 AAAGAAGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37315825 original size:14 final size:14
Alignment explanation
Indices: 37315786--37315825 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
37315776 ATTTTCTTTA
37315786 ATTATTTTCA-AAT
1 ATTATTTTCATAAT
*
37315799 ATTATTTTTATAAT
1 ATTATTTTCATAAT
*
37315813 ATTATTATCATAA
1 ATTATTTTCATAA
37315826 ATTGTATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTATTTTCATAAT
Found at i:37317253 original size:3 final size:3
Alignment explanation
Indices: 37317247--37317274 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
37317237 TCCTTCTTCC
37317247 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
37317275 ATATATCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:37317706 original size:12 final size:12
Alignment explanation
Indices: 37317689--37317715 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37317679 ATAGATAATC
37317689 TTGTTGTTTATA
1 TTGTTGTTTATA
37317701 TTGTTGTTTATA
1 TTGTTGTTTATA
37317713 TTG
1 TTG
37317716 AGAGAGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.19, T:0.67
Consensus pattern (12 bp):
TTGTTGTTTATA
Found at i:37318229 original size:17 final size:19
Alignment explanation
Indices: 37318199--37318241 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
37318189 TGTAATCATC
37318199 ATAATT-TTTATTAAAT-T
1 ATAATTATTTATTAAATAT
*
37318216 GTAATTATTT-TTAAATAT
1 ATAATTATTTATTAAATAT
37318234 ATAATTAT
1 ATAATTAT
37318242 CACACCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATAATTATTTATTAAATAT
Found at i:37318372 original size:87 final size:89
Alignment explanation
Indices: 37318281--37318448 Score: 200
Period size: 87 Copynumber: 1.9 Consensus size: 89
37318271 AACTAATAAT
* * * * * * *
37318281 TTTAAATGTTAATTTAGAAATAAGATGGAAAAA-ATAAG-GTATTGTTGTTGGTTCAAATA-TTT
1 TTTAAATGTCAACTTAGAAATAAGAT-GAAAAATA-AAGAATATTCTCGTCGATTCAAATACTTT
37318343 TCTAAACTCATG-TTTTATAATTAAA
64 TCTAAACTCATGATTTTATAATTAAA
* * *
37318368 TTTAAATGTCAACTTAGTAATATGATGAAAAATAAAGAATATTCTCGTCGATTCAAATACTTTTT
1 TTTAAATGTCAACTTAGAAATAAGATGAAAAATAAAGAATATTCTCGTCGATTCAAATACTTTTC
37318433 TAAACTCATGATTTTA
66 TAAACTCATGATTTTA
37318449 AAATATATAT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
86 9 0.13
87 39 0.58
88 14 0.21
89 5 0.07
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (89 bp):
TTTAAATGTCAACTTAGAAATAAGATGAAAAATAAAGAATATTCTCGTCGATTCAAATACTTTTC
TAAACTCATGATTTTATAATTAAA
Found at i:37320405 original size:21 final size:21
Alignment explanation
Indices: 37320381--37320421 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
37320371 ATCTTACTGC
*
37320381 TACAATATCCAATCTCATCGT
1 TACAATAACCAATCTCATCGT
* *
37320402 TACAGTAACTAATCTCATCG
1 TACAATAACCAATCTCATCG
37320422 CCACCGCTGT
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:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (21 bp):
TACAATAACCAATCTCATCGT
Found at i:37321561 original size:16 final size:16
Alignment explanation
Indices: 37321542--37321580 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
37321532 TATCAGTGGA
37321542 TTGAATTA-TTTAGATT
1 TTGAATTATTTTAGA-T
37321558 TTGAATTATTTTAGAT
1 TTGAATTATTTTAGAT
37321574 TTGAATT
1 TTGAATT
37321581 GAAAGGTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (16 bp):
TTGAATTATTTTAGAT
Found at i:37321813 original size:14 final size:15
Alignment explanation
Indices: 37321794--37321826 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
37321784 CTTTACTTAA
*
37321794 TTTTTATATATA-AT
1 TTTTTATAAATATAT
37321808 TTTTTATAAATATAT
1 TTTTTATAAATATAT
37321823 TTTT
1 TTTT
37321827 ATGAAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTATAAATATAT
Found at i:37322046 original size:19 final size:19
Alignment explanation
Indices: 37322007--37322046 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37321997 AGCCATGCAA
* *
37322007 AATTCATGTACGTTGATTG
1 AATTCATGTACGTCGAATG
*
37322026 AATTCATGTGCGTCGAATG
1 AATTCATGTACGTCGAATG
37322045 AA
1 AA
37322047 GAAGAACACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (19 bp):
AATTCATGTACGTCGAATG
Found at i:37328616 original size:7 final size:7
Alignment explanation
Indices: 37328606--37328649 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
37328596 AGAGAGAGAG
37328606 AAAAATA
1 AAAAATA
37328613 AAAAATA
1 AAAAATA
37328620 AAAAATA
1 AAAAATA
37328627 AAAAATA
1 AAAAATA
37328634 AAAAAT-
1 AAAAATA
37328640 AAAAATA
1 AAAAATA
37328647 AAA
1 AAA
37328650 TGGAAGAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 6 0.17
7 30 0.83
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:37329138 original size:39 final size:39
Alignment explanation
Indices: 37329091--37329264 Score: 165
Period size: 39 Copynumber: 4.4 Consensus size: 39
37329081 CGTTTGAATG
*
37329091 AAAAACGCCACTAAAGTTTGAGCATTAGCGGCGC-TTTTC
1 AAAAACGCCGCTAAAG-TTGAGCATTAGCGGCGCTTTTTC
* *
37329130 AAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTTA
1 AAAAACGCCGCTAAAG-TTGAGCATTAGCGGCGC-TTTTTC
* * * *
37329171 AAAAACGCCGCTATAAG-TAACCTTTAGCGGCGCTTTTTT
1 AAAAACGCCGCTA-AAGTTGAGCATTAGCGGCGCTTTTTC
* * * *
37329210 AAAAACGCCGCTAATGCTTGATCTTTAGTGGCG-TTTTTC
1 AAAAACGCCGCTAAAG-TTGAGCATTAGCGGCGCTTTTTC
* *
37329249 AAAAACTCCGCAAAAG
1 AAAAACGCCGCTAAAG
37329265 AATTTTTCAA
Statistics
Matches: 113, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 67 0.59
40 24 0.21
41 17 0.15
42 3 0.03
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (39 bp):
AAAAACGCCGCTAAAGTTGAGCATTAGCGGCGCTTTTTC
Found at i:37329815 original size:7 final size:7
Alignment explanation
Indices: 37329718--37329830 Score: 68
Period size: 7 Copynumber: 15.9 Consensus size: 7
37329708 AAGGGTTGGA
*
37329718 GTTTAAG
1 GTTTAGG
37329725 GTTTA-G
1 GTTTAGG
37329731 GTGTTAGG
1 GT-TTAGG
*
37329739 GGTTAGG
1 GTTTAGG
*
37329746 GGTTAGGG
1 GTTTA-GG
*
37329754 GTTAAGG
1 GTTTAGG
*
37329761 G-TGAGGG
1 GTTTA-GG
*
37329768 GTTTATG
1 GTTTAGG
* *
37329775 GTTCAAG
1 GTTTAGG
*
37329782 GTTTATG
1 GTTTAGG
*
37329789 TTTTAGG
1 GTTTAGG
*
37329796 GTTTAAG
1 GTTTAGG
37329803 GTTTAGG
1 GTTTAGG
*
37329810 GATTAGG
1 GTTTAGG
37329817 AGTTTAGG
1 -GTTTAGG
37329825 GTTTAG
1 GTTTAG
37329831 ATTAGTTAGT
Statistics
Matches: 83, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
6 5 0.06
7 63 0.76
8 15 0.18
ACGTcount: A:0.19, C:0.01, G:0.41, T:0.39
Consensus pattern (7 bp):
GTTTAGG
Found at i:37329815 original size:21 final size:21
Alignment explanation
Indices: 37329718--37329830 Score: 75
Period size: 21 Copynumber: 5.3 Consensus size: 21
37329708 AAGGGTTGGA
* *
37329718 GTTTAAGGTTTAGGTG-TTAGG
1 GTTTAGGGTTTAGG-GTTTAAG
* * *
37329739 GGTTAGGGGTTAGGGGTTAAG
1 GTTTAGGGTTTAGGGTTTAAG
* * * *
37329760 GGTGAGGGGTTTATGGTTCAAG
1 GTTTA-GGGTTTAGGGTTTAAG
* *
37329782 GTTTATGTTTTAGGGTTTAAG
1 GTTTAGGGTTTAGGGTTTAAG
* *
37329803 GTTTAGGGATTAGGAGTTTAGG
1 GTTTAGGGTTTAGG-GTTTAAG
37329825 GTTTAG
1 GTTTAG
37329831 ATTAGTTAGT
Statistics
Matches: 70, Mismatches: 19, Indels: 5
0.74 0.20 0.05
Matches are distributed among these distances:
20 1 0.01
21 42 0.60
22 27 0.39
ACGTcount: A:0.19, C:0.01, G:0.41, T:0.39
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGTTTAAG
Found at i:37329940 original size:7 final size:7
Alignment explanation
Indices: 37329928--37329953 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
37329918 TATCATTATA
37329928 GTTTAGG
1 GTTTAGG
37329935 GTTTAGG
1 GTTTAGG
37329942 GTTTAGG
1 GTTTAGG
37329949 GTTTA
1 GTTTA
37329954 AAGTGTATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:37329995 original size:15 final size:15
Alignment explanation
Indices: 37329977--37330019 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
37329967 ATTATTTTAA
37329977 AGTTTATGGATTATG
1 AGTTTATGGATTATG
*
37329992 AGTTTAGGGATTATG
1 AGTTTATGGATTATG
37330007 A-TTTATGG-TTATG
1 AGTTTATGGATTATG
37330020 TAAGAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 5 0.19
14 6 0.23
15 15 0.58
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (15 bp):
AGTTTATGGATTATG
Found at i:37329997 original size:22 final size:22
Alignment explanation
Indices: 37329949--37329997 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
37329939 AGGGTTTAGG
* *
37329949 GTTTAAAGTGTATGGGTTATTA
1 GTTTAAAGTGTATGGATTATGA
* *
37329971 TTTTAAAGTTTATGGATTATGA
1 GTTTAAAGTGTATGGATTATGA
37329993 GTTTA
1 GTTTA
37329998 GGGATTATGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (22 bp):
GTTTAAAGTGTATGGATTATGA
Found at i:37330309 original size:6 final size:7
Alignment explanation
Indices: 37330283--37330345 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
37330273 TATTTATTTT
*
37330283 TTAAAAT
1 TTAAAAA
* *
37330290 TTTAAAT
1 TTAAAAA
37330297 TTAAAAA
1 TTAAAAA
37330304 TTAAAAA
1 TTAAAAA
37330311 TTAAAAAA
1 TT-AAAAA
*
37330319 TAAAAAA
1 TTAAAAA
*
37330326 TAAAAAA
1 TTAAAAA
37330333 CTTAAAAA
1 -TTAAAAA
37330341 CTTAA
1 -TTAA
37330346 TATTTAATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
7 32 0.65
8 17 0.35
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (7 bp):
TTAAAAA
Found at i:37330310 original size:8 final size:8
Alignment explanation
Indices: 37330293--37330345 Score: 58
Period size: 7 Copynumber: 6.9 Consensus size: 8
37330283 TTAAAATTTT
*
37330293 AAATTTAA
1 AAATTAAA
37330301 AAATT-AA
1 AAATTAAA
37330308 AAATTAAA
1 AAATTAAA
37330316 AAA-TAAA
1 AAATTAAA
37330323 AAA-TAAA
1 AAATTAAA
37330330 AAACTTAAA
1 AAA-TTAAA
*
37330339 AACTTAA
1 AAATTAA
37330346 TATTTAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
7 21 0.51
8 14 0.34
9 6 0.15
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.25
Consensus pattern (8 bp):
AAATTAAA
Found at i:37330567 original size:41 final size:42
Alignment explanation
Indices: 37330482--37330567 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
37330472 AGAAAAAATC
*
37330482 AAAATTGAACAATAATGACGTTTTTGAGAAAAATGCCACAAA
1 AAAATTGAACAATAATGACGTTTTTGAGAAAAACGCCACAAA
* * *
37330524 AAAATTGAACTATAATGGCGTTTTTG-TAAAAACGCCACAAA
1 AAAATTGAACAATAATGACGTTTTTGAGAAAAACGCCACAAA
37330565 AAA
1 AAA
37330568 CTATTATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 16 0.40
42 24 0.60
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.24
Consensus pattern (42 bp):
AAAATTGAACAATAATGACGTTTTTGAGAAAAACGCCACAAA
Found at i:37335196 original size:13 final size:13
Alignment explanation
Indices: 37335178--37335203 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37335168 GTCGAAACTT
37335178 GAATTTTGTGTTA
1 GAATTTTGTGTTA
37335191 GAATTTTGTGTTA
1 GAATTTTGTGTTA
37335204 TGGAAACAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (13 bp):
GAATTTTGTGTTA
Found at i:37335631 original size:43 final size:43
Alignment explanation
Indices: 37335524--37335837 Score: 344
Period size: 43 Copynumber: 7.3 Consensus size: 43
37335514 AGGTTATATT
* * ** *
37335524 TTTAGCGGCGTTTATGTGAAAAGCGTTGCTAAAGGTC-TGTTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * ** * * *
37335566 TATAGCGGCGTTTATGAAAAAAGTGCCACTAAAAGTCATGGTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * *
37335609 TTTAGCGGCGTTTTTGGGAAAAGTGCCACTAAAGGTCAAGGTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
37335652 TTTAGCGGCGTTTTTGAGAAAAGCGCTGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGGTC
** ** *
37335695 TTTAGCGGCGTTTGCGGGAAAAATGCCGCTAAAAGTCATGGTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGGTC
**
37335738 TTTAGCGGCGTTTTTTAGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGGTC
** * * * *
37335781 -TTAGCGGCGTTTGCGGCAAAAACGCCGCTAAAAGTCTTGGTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGGTC
37335823 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
37335838 TAGAAAAAAT
Statistics
Matches: 226, Mismatches: 44, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
42 63 0.28
43 163 0.72
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:37335692 original size:86 final size:86
Alignment explanation
Indices: 37335524--37335844 Score: 385
Period size: 86 Copynumber: 3.8 Consensus size: 86
37335514 AGGTTATATT
** * * ** * * * * *
37335524 TTTAGCGGCGTTTATGTGAAAAGCGTTGCTAAAGGTC-TGTTCTATAGCGGCGTTTATGAAAAAA
1 TTTAGCGGCGTTTGCGGGAAAAACGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTTTGAGAAAA
* * *
37335588 GTGCCACTAAAAGTCATGGTC
66 GCGCCGCTAAAGGTCATGGTC
** ** * * *
37335609 TTTAGCGGCGTTTTTGGGAAAAGTGCCACTAAAGGTCAAGGTCTTTAGCGGCGTTTTTGAGAAAA
1 TTTAGCGGCGTTTGCGGGAAAAACGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTTTGAGAAAA
*
37335674 GCGCTGCTAAAGGTCATGGTC
66 GCGCCGCTAAAGGTCATGGTC
* *
37335695 TTTAGCGGCGTTTGCGGGAAAAATGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTTTTAGAAAA
1 TTTAGCGGCGTTTGCGGGAAAAACGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTTTGAGAAAA
37335760 GCGCCGCTAAAGGTCATGGTC
66 GCGCCGCTAAAGGTCATGGTC
* * *
37335781 -TTAGCGGCGTTTGCGGCAAAAACGCCGCTAAAAGTCTTGGTCTTTAGCGGCGTTTTTTAGAAAA
1 TTTAGCGGCGTTTGCGGGAAAAACGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTTTGAGAAAA
37335845 AATGCCACTA
Statistics
Matches: 209, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
85 92 0.44
86 117 0.56
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (86 bp):
TTTAGCGGCGTTTGCGGGAAAAACGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTTTGAGAAAA
GCGCCGCTAAAGGTCATGGTC
Found at i:37335846 original size:129 final size:127
Alignment explanation
Indices: 37335524--37335855 Score: 380
Period size: 129 Copynumber: 2.6 Consensus size: 127
37335514 AGGTTATATT
** * * ** * *
37335524 TTTAGCGGCGTTTATGTGAAAAGCGTTGCTAAAGGTCTGTTCTATAGCGGCGTTTATGAAAAAAG
1 TTTAGCGGCGTTTGCGAGAAAAACGCCGCTAAAGGTCTGGTCTTTAGCGGCGTTTATGAAAAAA-
* *
37335589 TGCCACTAAAAGTCATGGTCTTTAGCGGCGTTTTTGGGAAAAGTGCCACTAAAGGTCAAGGTC
65 TGCCACTAAAAGTCATGGTCTTTAGCGGCGTTTTTGAGAAAAGCGCCACTAAAGGTCAAGGTC
** * * ** *
37335652 TTTAGCGGCGTTTTTGAGAAAAGCGCTGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGGGAAAA
1 TTTAGCGGCGTTTGCGAGAAAAACGCCGCTAAAGGTC-TGGTCTTTAGCGGCGTTT-ATGAAAAA
* * * *
37335717 ATGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTTTTAGAAAAGCGCCGCTAAAGGTCATGGTC
64 ATGCCACTAAAAGTCATGGTCTTTAGCGGCGTTTTTGAGAAAAGCGCCACTAAAGGTCAAGGTC
* *
37335781 -TTAGCGGCGTTTGCG-GCAAAAACGCCGCTAAAAGTCTTGGTCTTTAGCGGCGTTTTTTAGAAA
1 TTTAGCGGCGTTTGCGAG-AAAAACGCCGCTAAAGGTC-TGGTCTTTAGCGGCG-TTTAT-GAAA
37335844 AAATGCCACTAA
62 AAATGCCACTAA
37335856 TTTTTGTGGC
Statistics
Matches: 175, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
127 1 0.01
128 78 0.45
129 90 0.51
130 6 0.03
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (127 bp):
TTTAGCGGCGTTTGCGAGAAAAACGCCGCTAAAGGTCTGGTCTTTAGCGGCGTTTATGAAAAAAT
GCCACTAAAAGTCATGGTCTTTAGCGGCGTTTTTGAGAAAAGCGCCACTAAAGGTCAAGGTC
Found at i:37336803 original size:21 final size:21
Alignment explanation
Indices: 37336769--37336809 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37336759 GCATGAATAA
*
37336769 AATAGTATACAAATGAGTGAC
1 AATAGTATACAAATAAGTGAC
37336790 AATAGTATGA-AAATAAGTGA
1 AATAGTAT-ACAAATAAGTGA
37336810 ACGGATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.51, C:0.05, G:0.20, T:0.24
Consensus pattern (21 bp):
AATAGTATACAAATAAGTGAC
Found at i:37338065 original size:20 final size:21
Alignment explanation
Indices: 37338042--37338085 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
37338032 AACGAAATAA
37338042 AAAAAAAAACTAGTTGT-AAT
1 AAAAAAAAACTAGTTGTAAAT
37338062 AAAAAAAAACTAGTTGTAAAT
1 AAAAAAAAACTAGTTGTAAAT
37338083 AAA
1 AAA
37338086 TATTACGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.64, C:0.05, G:0.09, T:0.23
Consensus pattern (21 bp):
AAAAAAAAACTAGTTGTAAAT
Found at i:37338065 original size:21 final size:22
Alignment explanation
Indices: 37338036--37338085 Score: 77
Period size: 20 Copynumber: 2.3 Consensus size: 22
37338026 AAAAAAAACG
37338036 AAATAAAAAAAAAAACTAGTTGT
1 AAAT-AAAAAAAAAACTAGTTGT
37338059 -AAT-AAAAAAAAACTAGTTGT
1 AAATAAAAAAAAAACTAGTTGT
37338079 AAATAAA
1 AAATAAA
37338086 TATTACGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 17 0.68
21 3 0.12
22 5 0.20
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (22 bp):
AAATAAAAAAAAAACTAGTTGT
Found at i:37338239 original size:17 final size:18
Alignment explanation
Indices: 37338196--37338240 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
37338186 GTAATACCTA
37338196 AAATAT-AA-AAATAAGG
1 AAATATAAATAAATAAGG
37338212 AAAGTATAAATAAATAA-G
1 AAA-TATAAATAAATAAGG
37338230 AAATATAAATA
1 AAATATAAATA
37338241 GATGAGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.12
17 11 0.42
18 6 0.23
19 6 0.23
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (18 bp):
AAATATAAATAAATAAGG
Found at i:37338966 original size:3 final size:3
Alignment explanation
Indices: 37338319--37338947 Score: 267
Period size: 3 Copynumber: 207.0 Consensus size: 3
37338309 TACAAAAATG
** *
37338319 ATA ATA ATA ATA A-A ATA AGTTA ATA ATA ATA ATA ATA ATA ACC GTA
1 ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
37338365 GTA GTA ATA ATA AAA AT- ATA ATA GTA ATA ATA ATA CTA A-A TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * ** * *
37338409 ACA ATA GTA ATA TTA ATA ATA A-A AGTA ATA GCA ATA AAA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * * * * *
37338454 ATA ATA ACA ATG ACA ATAA AGA ATA ATA GTA ATA ATG ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * **
37338500 ATA ATA ATA ATA ACA ATA ATG ATG ATG ATGA A-A AT- ATGA GTA ACC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA AT-A ATA ATA
* * * *
37338545 ATA ATC ACA ACTA TATT ATAA ATA ATAA ATA ATA ATA ATA ATA ATG ATA
1 ATA ATA ATA A-TA -ATA AT-A ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* * * * ** * * * ** * *
37338594 GTC TTA ATA ATG ATA ACG ACA ATA A-A AAA AT- GTA GGA ATG ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
37338640 CTA ATA TATA A-A ATA ATA ATA ATT GTA A-A A-A GATA ATA AGA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* ** ** * ** *
37338684 GTA GCA ATA ATA AGG GTA ATA ACG ATA ATAA ATA ATA ATA CTAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA
* * * * *
37338731 GTA AAA ATA ATA ATA GA-A ATA ATA AAA AGA TTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
37338776 ATA ATA ATA ATG ATA ATA GTA ATA GAAA ATA AAA GATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA
* * *** * * * *
37338822 ATA GTA ATA GTA ATA GCC ATA AAA ATA AAA ATA ATA GTA ATA ATA CGGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA
* *
37338872 ATA ATA ATAA ATA GTA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
37338918 CTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37338948 GCAATAATTT
Statistics
Matches: 452, Mismatches: 141, Indels: 66
0.69 0.21 0.10
Matches are distributed among these distances:
2 22 0.05
3 393 0.87
4 31 0.07
5 6 0.01
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:37340475 original size:27 final size:26
Alignment explanation
Indices: 37340445--37340496 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
37340435 ACAAGGATGT
*
37340445 GTATAAGAATTTCAAAATAAATAATAC
1 GTATAAGAATTT-AAAAGAAATAATAC
* *
37340472 GTATAATAGTTTAAAAGAAATAATA
1 GTATAAGAATTTAAAAGAAATAATA
37340497 TATGTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.31
Consensus pattern (26 bp):
GTATAAGAATTTAAAAGAAATAATAC
Found at i:37340556 original size:3 final size:3
Alignment explanation
Indices: 37340548--37340595 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
37340538 ATATGTTCAA
*
37340548 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
37340596 GAAAATGAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:37344369 original size:3 final size:3
Alignment explanation
Indices: 37344361--37344412 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
37344351 TATATCACTC
37344361 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
37344409 TAT T
1 TAT T
37344413 GCAACAATTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:37344910 original size:31 final size:32
Alignment explanation
Indices: 37344850--37344919 Score: 81
Period size: 34 Copynumber: 2.2 Consensus size: 32
37344840 CAATATGTTC
*
37344850 TTTTAATAAATAAAAAAATTAAACTAATATATAA
1 TTTTAATAAAT-AAAAAATTAAACAAATAT-TAA
* *
37344884 TTTTAATAAAT-AAAATTTAAA-AAATATTTA
1 TTTTAATAAATAAAAAATTAAACAAATATTAA
37344914 TTTTAA
1 TTTTAA
37344920 AGATTCGCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 8 0.24
31 5 0.15
32 9 0.27
34 11 0.33
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (32 bp):
TTTTAATAAATAAAAAATTAAACAAATATTAA
Found at i:37345334 original size:13 final size:14
Alignment explanation
Indices: 37345314--37345355 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
37345304 TTAGTTATAC
37345314 ATAAAATATTATTA
1 ATAAAATATTATTA
*
37345328 A-AAAATAATATCTTA
1 ATAAAAT-AT-TATTA
37345343 ATAAAATATTATT
1 ATAAAATATTATT
37345356 TTTATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
13 5 0.22
14 6 0.26
15 7 0.30
16 5 0.22
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAAAATATTATTA
Found at i:37346228 original size:26 final size:26
Alignment explanation
Indices: 37346189--37346324 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
37346179 TGATACAAAT
* *
37346189 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
37346215 TGGTAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
37346241 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
37346267 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
37346293 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
37346319 TGATAA
1 TGATAA
37346325 GAATATCATG
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:37348355 original size:137 final size:137
Alignment explanation
Indices: 37348109--37348395 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
37348099 GAGTAGTCTC
37348109 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
37348174 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTTGCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
37348239 ACTGTTA
131 ACTGTTA
37348246 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
37348311 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
37348376 ACTGTTA
131 ACTGTTA
**
37348383 CCTGAATGGGCTT
1 CCCAAATGGGCTT
37348396 AGGCCCAATG
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:37349772 original size:30 final size:30
Alignment explanation
Indices: 37349721--37349787 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
37349711 TTGATATGTT
*
37349721 TATATATTTTTAACATGTTATAAATTATAA
1 TATATATTTTTAACATCTTATAAATTATAA
* * *
37349751 TATATA-TTTTAAGTATCTTATAATTTATCA
1 TATATATTTTTAA-CATCTTATAAATTATAA
37349781 TCATATA
1 T-ATATA
37349788 AAATTTCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 6 0.19
30 20 0.65
31 5 0.16
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (30 bp):
TATATATTTTTAACATCTTATAAATTATAA
Found at i:37352438 original size:2 final size:2
Alignment explanation
Indices: 37352431--37352461 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
37352421 TAAAAGATGC
37352431 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37352462 AAATTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37352671 original size:3 final size:3
Alignment explanation
Indices: 37352663--37352706 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
37352653 TACATATATA
37352663 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
37352707 AAGAATGTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:37354616 original size:96 final size:97
Alignment explanation
Indices: 37354443--37354621 Score: 265
Period size: 96 Copynumber: 1.9 Consensus size: 97
37354433 TTTGATCTGC
* * * *
37354443 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCTACTGTAACTTCATAGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTCTACTGCAACTTCAGAGAG
37354508 ATAAGATCTGTAA-TTTATAGCTCCAACCTAT
66 ATAAGATCTGTAACTTTATAGCTCCAACCTAT
* *
37354539 TCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTGC-ACTGCAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCT-CTACTGCAACTTCAGAGA
37354603 GATAAGA-CTTGTAACTTTA
65 GATAAGATC-TGTAACTTTA
37354622 ACCTGCTCTA
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
95 1 0.01
96 68 0.92
97 5 0.07
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (97 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTCTACTGCAACTTCAGAGAG
ATAAGATCTGTAACTTTATAGCTCCAACCTAT
Found at i:37354643 original size:44 final size:43
Alignment explanation
Indices: 37354365--37355054 Score: 242
Period size: 44 Copynumber: 15.4 Consensus size: 43
37354355 TCCATTGCAT
* *
37354365 CTTCAGGGAGATAAGACTTGTAACTTTAACCTGCTCCACTGTAA
1 CTTCAGGGAGATAAGA-TTGTAACTTTAATCTGCTCTACTGTAA
* * * * *
37354409 CTTC-GAGGAAATAAGATTAGTGACTTTGATCTGCTCCACTGCAA
1 CTTCAG-GGAGATAAGATT-GTAACTTTAATCTGCTCTACTGTAA
* * *
37354453 CTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCTACTGTAA
1 CTTCAGGGAGATAAGA-TTG-TAACTTTAATCTGCTCTACTGTAA
** ** *
37354498 CTTCATAGAGATAAGATCTGTAA-TTTATAGCTCCAACCTATTCCACTGTAA
1 CTTCAGGGAGATAAGAT-TGTAACTTTA-A--T-----CTGCTCTACTGTAA
* * * *
37354549 CTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTGC-ACTGCAA
1 CTTCAGGGAGATAAGA-TTG-TAACTTTAATCTGCT-CTACTGTAA
* *
37354594 CTTCAGGGAGATAAGACTTGTAACTTTAACCTGCTCTACCGTAA
1 CTTCAGGGAGATAAGA-TTGTAACTTTAATCTGCTCTACTGTAA
* ** * * * *
37354638 CTTCAGGGAGATAAGGTTAGTGGCTTTGATTTGCTCCACTGCAA
1 CTTCAGGGAGATAAGATT-GTAACTTTAATCTGCTCTACTGTAA
* * * ** *
37354682 CTTCAGGGAGATAAGATT-TACTATCTTCAGTCTACTCCGCTGCAA
1 CTTCAGGGAGATAAGATTGTA--A-CTTTAATCTGCTCTACTGTAA
* * * * * *
37354727 CTTCAGGGAGATAAGACTTGTAACTTCAACCTACTCCACTGCAT
1 CTTCAGGGAGATAAGA-TTGTAACTTTAATCTGCTCTACTGTAA
* * ** * * *
37354771 CTTTAGGGAGATAAGGTTAGTGGCTTCAATCAGCT-TCACTGCAA
1 CTTCAGGGAGATAAGATT-GTAACTTTAATCTGCTCT-ACTGTAA
* * * * * * * * *
37354815 CTTTAGGAATATAAGATTCGCCATCTTCAGTCTGCTCCACTGCAA
1 CTTCAGGGAGATAAGATT-G-TAACTTTAATCTGCTCTACTGTAA
* * * * * * *
37354860 CTTTAGGGAGATAAGACTTGTAACTTCAACCTACTCCACTGCAT
1 CTTCAGGGAGATAAGA-TTGTAACTTTAATCTGCTCTACTGTAA
* * * ** ** * * *
37354904 CTTCAGAGG-GATAGGGTTAATGGCTTCGATATGCTCCACTGCAA
1 CTTCAG-GGAGATAAGATT-GTAACTTTAATCTGCTCTACTGTAA
* ** * * * *
37354948 CTTTAGGGAGATAAGATT-TGCCCTCTTCAGTCTGCCCCACTGCAA
1 CTTCAGGGAGATAAGATTGT-AACT-TT-AATCTGCTCTACTGTAA
* * * * * * *
37354993 CTTCAGGGAGATAAGACTTATAACTTCAAACTACTCCACTGCAT
1 CTTCAGGGAGATAAGA-TTGTAACTTTAATCTGCTCTACTGTAA
37355037 CTTCAGGGAGATAAGATT
1 CTTCAGGGAGATAAGATT
37355055 AATGGCTTTA
Statistics
Matches: 493, Mismatches: 115, Indels: 77
0.72 0.17 0.11
Matches are distributed among these distances:
42 2 0.00
43 19 0.04
44 267 0.54
45 158 0.32
46 10 0.02
47 3 0.01
50 1 0.00
51 26 0.05
52 4 0.01
53 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTCAGGGAGATAAGATTGTAACTTTAATCTGCTCTACTGTAA
Found at i:37354706 original size:133 final size:133
Alignment explanation
Indices: 37354539--37355104 Score: 729
Period size: 133 Copynumber: 4.3 Consensus size: 133
37354529 TCCAACCTAT
* * * * * *
37354539 TCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTGCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* * * * * * * ** *
37354604 ATAAGACTTGTAACTTTAACCTGCTCTACCGTAACTTCAGGGAGATAAGGTTAGTGGCTTTGATT
66 ATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAGGGAGATAAGGTTAATGGCTTCAATC
37354669 TGC
131 TGC
* * * * *
37354672 TCCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAGTCTACTCCGCTGCAACTTCAGGGAG
1 TCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* *
37354737 ATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTTAGGGAGATAAGGTTAGTGGCTTCAATC
66 ATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAGGGAGATAAGGTTAATGGCTTCAATC
*
37354802 AGC
131 TGC
* * * * *
37354805 TTCACTGCAACTTTAGGAATATAAGATTCGCCATCTTCAGTCTGCTCCACTGCAACTTTAGGGAG
1 TCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* *
37354870 ATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAGAGG-GATAGGGTTAATGGCTTCGAT
66 ATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAG-GGAGATAAGGTTAATGGCTTCAAT
*
37354934 ATGC
130 CTGC
* *
37354938 TCCACTGCAACTTTAGGGAGATAAGATTTGCCCTCTTCAGTCTGCCCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* * * *
37355003 ATAAGACTTATAACTTCAAACTACTCCACTGCATCTTCAGGGAGATAAGATTAATGGCTTTAATC
66 ATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAGGGAGATAAGGTTAATGGCTTCAATC
*
37355068 TGT
131 TGC
* * * *
37355071 TTCACTACAACTTTAGGAAGATAAAATTTGCCAT
1 TCCACTGCAACTTTAGGGAGATAAGATTTGCCAT
37355105 AATTCGTAGC
Statistics
Matches: 377, Mismatches: 54, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
132 2 0.01
133 373 0.99
134 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (133 bp):
TCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAGGGAGATAAGGTTAATGGCTTCAATC
TGC
Found at i:37354708 original size:229 final size:229
Alignment explanation
Indices: 37354306--37354742 Score: 660
Period size: 229 Copynumber: 1.9 Consensus size: 229
37354296 TATCTTTAAT
* * * *
37354306 CTATTCCACTGCAACTTCAGGGAAATAAGATCCGATGTCTTCAGTCTGCTCCATTGCATCTTCAG
1 CTATTCCACTGCAACTTCAGGGAAATAAGATCCGATATCTTCAATCTGCTCCACTGCAACTTCAG
*
37354371 GGAGATAAGACTTGTAACTTTAACCTGCTCCACTGTAACTTCGAGGAAATAAGATTAGTGACTTT
66 GGAGATAAGACTTGTAACTTTAACCTGCTCCACCGTAACTTCGAGGAAATAAGATTAGTGACTTT
* * * *
37354436 GATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCTACTGTAACTT
131 GATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAGTCTACTCCACTGCAACTT
*
37354501 CATAGAGATAAGATCTGTAATTTATAGCTCCAAC
196 CAGAGAGATAAGATCTGTAATTTATAGCTCCAAC
* ** * *
37354535 CTATTCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTGCACTGCAACTTCAG
1 CTATTCCACTGCAACTTCAGGGAAATAAGATCCGATATCTTCAATCTGCTCCACTGCAACTTCAG
* * * *
37354600 GGAGATAAGACTTGTAACTTTAACCTGCTCTACCGTAACTTC-AGGGAGATAAGGTTAGTGGCTT
66 GGAGATAAGACTTGTAACTTTAACCTGCTCCACCGTAACTTCGA-GGAAATAAGATTAGTGACTT
* *
37354664 TGATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAGTCTACTCCGCTGCAACT
130 TGATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAGTCTACTCCACTGCAACT
*
37354729 TCAGGGAGATAAGA
195 TCAGAGAGATAAGA
37354743 CTTGTAACTT
Statistics
Matches: 185, Mismatches: 22, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
228 1 0.01
229 184 0.99
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (229 bp):
CTATTCCACTGCAACTTCAGGGAAATAAGATCCGATATCTTCAATCTGCTCCACTGCAACTTCAG
GGAGATAAGACTTGTAACTTTAACCTGCTCCACCGTAACTTCGAGGAAATAAGATTAGTGACTTT
GATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAGTCTACTCCACTGCAACTT
CAGAGAGATAAGATCTGTAATTTATAGCTCCAAC
Found at i:37354887 original size:89 final size:90
Alignment explanation
Indices: 37354310--37355104 Score: 317
Period size: 89 Copynumber: 8.9 Consensus size: 90
37354300 TTTAATCTAT
* ** * * * * * *
37354310 TCCACTGCAACTTCAGGGAAATAAGATCCGATGT--CTTCAGTCTGCTCCATTGCATCTTCAGGG
1 TCCACTGCAACTTCAGGGAGATAAGA-CTTA-GTAACTTCAATCAGCTTCACTGCAACTTCAGGA
* * * * *
37354373 AGATAAGACTTG-TAACTTTAACCTGC
64 AGATAAGATTTGCCATCTTCAATCTGC
* * * ** * * *
37354399 TCCACTGTAACTTC-GAGGAAATAAGA-TTAGTGACTTTGATCTGCTCCACTGCAACTTCAGGGA
1 TCCACTGCAACTTCAG-GGAGATAAGACTTAGTAACTTCAATCAGCTTCACTGCAACTTCAGGAA
* *
37354462 GATAAGATTTGCTATCTTCAGTCTGC
65 GATAAGATTTGCCATCTTCAATCTGC
* * ** * * * *
37354488 TCTACTGTAACTTCATAGAGATAAGATCTGTAATTTATAGCTCCAACCTA--TTCCACTGTAACT
1 TCCACTGCAACTTCAGGGAGATAAGA-CT-T-A-GTA-A-CTTCAATC-AGCTT-CACTGCAACT
*
37354551 TCAGGGAA-ATAAGATTTGCTATCTTCAATCTGC
58 TCA-GGAAGATAAGATTTGCCATCTTCAATCTGC
* * * * * * *
37354584 TGCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTTAACCTGC-TCTACCGTAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTAGTAACTTCAATCAGCTTC-ACTGCAACTTCAGGAA
* * * *
37354647 GATAAGGTTAGTGGC-T-TT-GATTTGC
65 GATAAGATT--TGCCATCTTCAATCTGC
* * * * * * *
37354672 TCCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAGTCTA-CTCCGCTGCAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTAGTAACTTCAATC-AGCTTCACTGCAACTTCAGGAA
* * * * *
37354736 GATAAGACTTG-TAACTTCAACCTAC
65 GATAAGATTTGCCATCTTCAATCTGC
* * * ** * *
37354761 TCCACTGCATCTTTAGGGAGATAAG-GTTAGTGGCTTCAATCAGCTTCACTGCAACTTTAGGAAT
1 TCCACTGCAACTTCAGGGAGATAAGACTTAGTAACTTCAATCAGCTTCACTGCAACTTCAGGAAG
* *
37354825 ATAAGATTCGCCATCTTCAGTCTGC
66 ATAAGATTTGCCATCTTCAATCTGC
* * * *
37354850 TCCACTGCAACTTTAGGGAGATAAGACTT-GTAACTTCAACCTA-CTCCACTGCATCTTCA-GAG
1 TCCACTGCAACTTCAGGGAGATAAGACTTAGTAACTTCAATC-AGCTTCACTGCAACTTCAGGA-
* * * * * *
37354912 GGATAGGGTTAATG---GCTTCGATATGC
64 AGATAAGATT--TGCCATCTTCAATCTGC
* * *** * * ** *
37354938 TCCACTGCAACTTTAGGGAGATAAGA-TTTGCCCTCTTCAGTCTGCCCCACTGCAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTAG-TAACTTCAATCAGCTTCACTGCAACTTCAGGAA
* ** * * *
37355002 GATAAGACTT-ATAACTTCAAACTAC
65 GATAAGATTTGCCATCTTCAATCTGC
* * ** * * * * *
37355027 TCCACTGCATCTTCAGGGAGATAAGA-TTAATGGCTTTAATCTGTTTCACTACAACTTTAGGAAG
1 TCCACTGCAACTTCAGGGAGATAAGACTTAGTAACTTCAATCAGCTTCACTGCAACTTCAGGAAG
*
37355091 ATAAAATTTGCCAT
66 ATAAGATTTGCCAT
37355105 AATTCGTAGC
Statistics
Matches: 526, Mismatches: 138, Indels: 84
0.70 0.18 0.11
Matches are distributed among these distances:
86 2 0.00
87 7 0.01
88 176 0.33
89 256 0.49
90 7 0.01
91 6 0.01
92 1 0.00
93 1 0.00
94 2 0.00
95 4 0.01
96 61 0.12
97 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (90 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTAGTAACTTCAATCAGCTTCACTGCAACTTCAGGAAG
ATAAGATTTGCCATCTTCAATCTGC
Found at i:37366883 original size:254 final size:254
Alignment explanation
Indices: 37366432--37366898 Score: 639
Period size: 254 Copynumber: 1.8 Consensus size: 254
37366422 GTGAATATTG
* *
37366432 AGATTCTCTTATTTTGAAGAAATAAAACATCACATCCAGCACGTAGGACACAACATTTCAAACCT
1 AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAACACGTAGGACACAACATTTCAAACCT
* * * * *
37366497 TTGATATCAAAATCATCTCATAATTCCCAGAATTTATGCATTCAAAAGTTAAAAAGGATATTCGG
66 TCGATACCAAAACCATCTCATAATTCCCAGAACTCATGCATTCAAAAGTTAAAAAGGATATTCGG
* * * * * * * *
37366562 TTGTTCGGTCAAACGATAAATCGAAACCCAGCACGTTGGGCATAATTTCTCTAAATTTCCGAACA
131 TTGTTCAGTCAAACGACAAATCGAAACCCAACACGTAGGGCACAATCTCTCGAAATTTCCAAACA
37366627 CGAAATATTGCCTTGTTTAAAAAAATCTTGAATAAAAATGTAATAGTATGAAACGATTA
196 CGAAATATTGCCTTGTTTAAAAAAATCTTGAATAAAAATGTAATAGTATGAAACGATTA
* * * * *
37366686 AGATTCTCTTGTTTCGAAGAAATAAAATATCACATCCAATACGTAGGACACGATATTTCAAACCT
1 AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAACACGTAGGACACAACATTTCAAACCT
* ** * ** *
37366751 TCGATACCAAAACCATCTCATAATTTCC-GAAACTCATGTTTTGAAATTTTAAAAAGGATATTTG
66 TCGATACCAAAACCATCTCATAATTCCCAG-AACTCATGCATTCAAAAGTTAAAAAGGATATTCG
* * *
37366815 GTTGTTCAGTCAAATGACAAATCGAAACCCAACATGTAGGGCACAATCTCTCGAAATTTGCAAAC
130 GTTGTTCAGTCAAACGACAAATCGAAACCCAACACGTAGGGCACAATCTCTCGAAATTTCCAAAC
*
37366880 ACGAAATATTTCCTTGTTT
195 ACGAAATATTGCCTTGTTT
37366899 TGAATAAAAC
Statistics
Matches: 181, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
253 1 0.01
254 180 0.99
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (254 bp):
AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAACACGTAGGACACAACATTTCAAACCT
TCGATACCAAAACCATCTCATAATTCCCAGAACTCATGCATTCAAAAGTTAAAAAGGATATTCGG
TTGTTCAGTCAAACGACAAATCGAAACCCAACACGTAGGGCACAATCTCTCGAAATTTCCAAACA
CGAAATATTGCCTTGTTTAAAAAAATCTTGAATAAAAATGTAATAGTATGAAACGATTA
Found at i:37367428 original size:27 final size:26
Alignment explanation
Indices: 37367368--37367430 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
37367358 TTTAAAGTGA
*
37367368 ATAATATATATAAAAGATGCATATAT
1 ATAATATATATAAAAGATGCATATAG
**
37367394 ATATATATATATAAACA-ATTTAGTATAG
1 ATA-ATATATATAAA-AGATGCA-TATAG
37367422 ATAATATAT
1 ATAATATAT
37367431 GAATTCTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 3 0.10
27 20 0.65
28 8 0.26
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.38
Consensus pattern (26 bp):
ATAATATATATAAAAGATGCATATAG
Found at i:37367608 original size:3 final size:3
Alignment explanation
Indices: 37367600--37367670 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
37367590 TACATATATA
37367600 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
37367648 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
37367671 AAGAATGTGC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:37371533 original size:33 final size:33
Alignment explanation
Indices: 37371491--37371566 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
37371481 TGAGCGTGAA
*
37371491 AGGAAAGATTGTGAGAGAGCTCAAAGTAAGGGG
1 AGGAAAGATTGAGAGAGAGCTCAAAGTAAGGGG
*
37371524 AGGAAAGATTGAGAGAGAGCTTAAAGTAAGGGG
1 AGGAAAGATTGAGAGAGAGCTCAAAGTAAGGGG
37371557 AGGAAAGATT
1 AGGAAAGATT
37371567 CAGGTCCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.42, C:0.04, G:0.38, T:0.16
Consensus pattern (33 bp):
AGGAAAGATTGAGAGAGAGCTCAAAGTAAGGGG
Found at i:37376776 original size:34 final size:34
Alignment explanation
Indices: 37376712--37376778 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
37376702 TTTATACTAA
* *
37376712 TCAAATTTATATATTTACTGAATTATTATAAAAC
1 TCAAAGTTATATATTTAATGAATTATTATAAAAC
37376746 TCAAAGTTATATATTGTAAT-AAGTTA-TATAAAA
1 TCAAAGTTATATATT-TAATGAA-TTATTATAAAA
37376779 TAATAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 23 0.79
35 6 0.21
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (34 bp):
TCAAAGTTATATATTTAATGAATTATTATAAAAC
Found at i:37376782 original size:17 final size:18
Alignment explanation
Indices: 37376762--37376797 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
37376752 TTATATATTG
*
37376762 TAATAAGTTA-TATAAAA
1 TAATAAATTAGTATAAAA
37376779 TAATAAATTAGTATAAAA
1 TAATAAATTAGTATAAAA
37376797 T
1 T
37376798 TTGGTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (18 bp):
TAATAAATTAGTATAAAA
Found at i:37376973 original size:18 final size:17
Alignment explanation
Indices: 37376932--37376978 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
37376922 TTATGTCATT
37376932 TTTATAATAA-TA-AAA
1 TTTATAATAATTATAAA
*
37376947 TTT-TCATAATTATTAAA
1 TTTATAATAATTA-TAAA
37376964 TTTATAATAATTATA
1 TTTATAATAATTATA
37376979 TAATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 5 0.19
15 5 0.19
17 8 0.31
18 8 0.31
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTATAATAATTATAAA
Found at i:37378568 original size:13 final size:13
Alignment explanation
Indices: 37378550--37378574 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37378540 GGGCTACACG
37378550 GGTGAACCACATA
1 GGTGAACCACATA
37378563 GGTGAACCACAT
1 GGTGAACCACAT
37378575 GGGCGTGTGG
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:0.24, G:0.24, T:0.16
Consensus pattern (13 bp):
GGTGAACCACATA
Found at i:37389057 original size:15 final size:16
Alignment explanation
Indices: 37389037--37389069 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
37389027 ATATATTATT
37389037 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
37389052 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
37389069 T
1 T
37389070 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:37389184 original size:26 final size:24
Alignment explanation
Indices: 37389145--37389194 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
37389135 ATTTATTTTA
*
37389145 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
37389169 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
37389195 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:37402572 original size:213 final size:214
Alignment explanation
Indices: 37402200--37402619 Score: 664
Period size: 213 Copynumber: 2.0 Consensus size: 214
37402190 TCGGGGTAAA
* *
37402200 GGGGTATTGTTAGTCCAGAGGTGTTGAGCCAAAAATATCCTCAATATTAGGTGTAGGTGCTTACT
1 GGGGTATTGTTAGTCCAGAGGTGCTGAGCCAAAAATATCCTCAATATTAGGTGTAGGTGCTTACC
* *
37402265 GATGGAGCTCTGGGTGGTATGCGAACGATCCAGAGTATGCTGAGTGTTGAGGCTCAAGGTCGTTG
66 GATGGAGCTCTGGGTGGTATGAGAACGATCCAGAGTATGCTGAGTATTGAGGCTCAAGGTCGTTG
* * *
37402330 CCAAATATGTCCTCGAACGAAGGAGGATTCGGAT-GGGGGTTTGTGAGGCTTCTTC-AGATGATT
131 CCAAATATGTCCTCGAACAAAGAAGGATTCGGATGGGGGGTTTGTGAGGCTTCCTCGA-ATGATT
37402393 CATATTCATGCTCGGGATCG
195 CATATTCATGCTCGGGATCG
* *
37402413 GGGGTATTGTTAGTCCAGAGGTGCTGAGCCAAAAATATCCTTAATATTAGGTGTAGGTGCTTGCC
1 GGGGTATTGTTAGTCCAGAGGTGCTGAGCCAAAAATATCCTCAATATTAGGTGTAGGTGCTTACC
* * * * * *
37402478 GATGGGGCTTTGGGTGGTATGAGAATGATCCAGAGTTTGTTGAGTATTGAGGCTCAAGGTTGTTG
66 GATGGAGCTCTGGGTGGTATGAGAACGATCCAGAGTATGCTGAGTATTGAGGCTCAAGGTCGTTG
* *
37402543 CCAAATATGTCCTCGAATAAAGAAGGATTCGGATGGGGGGTTTGTGAGGTTTCCTCGAATGATTC
131 CCAAATATGTCCTCGAACAAAGAAGGATTCGGATGGGGGGTTTGTGAGGCTTCCTCGAATGATTC
37402608 ATATTCATGCTC
196 ATATTCATGCTC
37402620 AGGGTCAGGG
Statistics
Matches: 188, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
213 149 0.79
214 38 0.20
215 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.30
Consensus pattern (214 bp):
GGGGTATTGTTAGTCCAGAGGTGCTGAGCCAAAAATATCCTCAATATTAGGTGTAGGTGCTTACC
GATGGAGCTCTGGGTGGTATGAGAACGATCCAGAGTATGCTGAGTATTGAGGCTCAAGGTCGTTG
CCAAATATGTCCTCGAACAAAGAAGGATTCGGATGGGGGGTTTGTGAGGCTTCCTCGAATGATTC
ATATTCATGCTCGGGATCG
Found at i:37403804 original size:13 final size:13
Alignment explanation
Indices: 37403764--37403808 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
37403754 TTGAAATGTA
37403764 TTAAATT-ATTTT
1 TTAAATTAATTTT
* *
37403776 TT-ATTTAA-TCT
1 TTAAATTAATTTT
37403787 TTAAATTAATTTT
1 TTAAATTAATTTT
37403800 TTAAATTAA
1 TTAAATTAA
37403809 AATTAAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
11 7 0.27
12 8 0.31
13 11 0.42
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
TTAAATTAATTTT
Found at i:37403899 original size:140 final size:140
Alignment explanation
Indices: 37403740--37403991 Score: 450
Period size: 140 Copynumber: 1.8 Consensus size: 140
37403730 TTTAATTAGT
* *
37403740 TATAATCTATTCATTTGAAATGTATTAAATTATTTTTTATTTAATCTTTAAATTAATTTTTTAAA
1 TATAATCTATTCAATTGAAATGGATTAAATTATTTTTTATTTAATCTTTAAATTAATTTTTTAAA
*
37403805 TTAAAATTAAGAAATTCAATTAATTTTTAATTTAAACTTTAAGTATTTAATTTTTATTTTTTAAT
66 TAAAAATTAAGAAATTCAATTAATTTTTAATTTAAACTTTAAGTATTTAATTTTTATTTTTTAAT
37403870 TGAAGTTATC
131 TGAAGTTATC
*
37403880 TATAATCTATTCAATTGAAATGGATTAAATTATTTTTTATTTAATCTTTAAATTGATTTTTTAAA
1 TATAATCTATTCAATTGAAATGGATTAAATTATTTTTTATTTAATCTTTAAATTAATTTTTTAAA
* *
37403945 TAAAAATTAAGCAATTCAATTAATTTTTAATTTAAACTTTAATTATT
66 TAAAAATTAAGAAATTCAATTAATTTTTAATTTAAACTTTAAGTATT
37403992 AAGTTAAACT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 106 1.00
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (140 bp):
TATAATCTATTCAATTGAAATGGATTAAATTATTTTTTATTTAATCTTTAAATTAATTTTTTAAA
TAAAAATTAAGAAATTCAATTAATTTTTAATTTAAACTTTAAGTATTTAATTTTTATTTTTTAAT
TGAAGTTATC
Found at i:37404010 original size:19 final size:19
Alignment explanation
Indices: 37403964--37404004 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
37403954 AGCAATTCAA
* *
37403964 TTAATTTTTAATTTAAACT
1 TTAATTATTAAGTTAAACT
37403983 TTAATTATTAAGTTAAACT
1 TTAATTATTAAGTTAAACT
37404002 TTA
1 TTA
37404005 TGTATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (19 bp):
TTAATTATTAAGTTAAACT
Found at i:37404153 original size:170 final size:175
Alignment explanation
Indices: 37403887--37404225 Score: 553
Period size: 170 Copynumber: 2.0 Consensus size: 175
37403877 ATCTATAATC
* *
37403887 TATTCAATTGAAATGGATTAAATTATTTTTTATTTAATCTTTAAATTGATTTTTTAAATAAAAAT
1 TATTCAATTGAAATGGATTAAAATATTTTTTATTTAATCTTTAAATTGATGTTTTAAATAAAAAT
* * * *
37403952 TAAGCAATTCAATTAATTTTTAATTTAAACTTTAATTATTAAGTTAAACTTTATGTATTTAA-TT
66 TAAGAAATCCAATTAATTTTTAATTTAAACTTTAATTATCAAGTTAAACTTAATGTATTTAATTT
37404016 TTTA-TTTTTAATTGAAATTATCTATACTTTAATTGGTTAAAATA
131 TTTATTTTTTAATTGAAATTATCTATACTTTAATTGGTTAAAATA
* * *
37404060 TATTCAATTGAAATGTATTAAAATA-TTTTTATTTAATCTTTAAATTGA-GTTTT-AATTAGAAT
1 TATTCAATTGAAATGGATTAAAATATTTTTTATTTAATCTTTAAATTGATGTTTTAAATAAAAAT
37404122 TAAGAAATCCAATTAATTTTTAATTTAAACTTTAATTATCAAGTTAAACTTAATGTATTTAATTT
66 TAAGAAATCCAATTAATTTTTAATTTAAACTTTAATTATCAAGTTAAACTTAATGTATTTAA-TT
37404187 TTTTATTTTTTAATTGAAATTATCTATACTTTAATTGGT
130 TTTTATTTTTTAATTGAAATTATCTATACTTTAATTGGT
37404226 ATATTAGTTG
Statistics
Matches: 154, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
170 65 0.42
171 4 0.03
172 29 0.19
173 56 0.36
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.51
Consensus pattern (175 bp):
TATTCAATTGAAATGGATTAAAATATTTTTTATTTAATCTTTAAATTGATGTTTTAAATAAAAAT
TAAGAAATCCAATTAATTTTTAATTTAAACTTTAATTATCAAGTTAAACTTAATGTATTTAATTT
TTTATTTTTTAATTGAAATTATCTATACTTTAATTGGTTAAAATA
Found at i:37404158 original size:19 final size:18
Alignment explanation
Indices: 37404134--37404186 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
37404124 AGAAATCCAA
37404134 TTAATTTTTAATTTAAAC
1 TTAATTTTTAATTTAAAC
* * *
37404152 TTTAATTATCAAGTTAAAC
1 -TTAATTTTTAATTTAAAC
37404171 TTAATGTATTTAATTT
1 TTAAT-T-TTTAATTT
37404187 TTTTATTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 5 0.19
19 16 0.62
20 5 0.19
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (18 bp):
TTAATTTTTAATTTAAAC
Found at i:37406703 original size:3 final size:3
Alignment explanation
Indices: 37406644--37406745 Score: 61
Period size: 3 Copynumber: 35.7 Consensus size: 3
37406634 GATAATATGC
* * * * * *
37406644 TAA TAA T-A TAA TAG TAA TGA TAA TAG TAA TAA TAG TAA AAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
37406691 TAA -CA TAA TAA TAA -AA AAA TAA -GA TAA TAA TAA TAG CAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
37406735 AAA TAA TAA TA
1 TAA TAA TAA TA
37406746 GTGATATTAG
Statistics
Matches: 72, Mismatches: 22, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
2 8 0.11
3 64 0.89
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:37406703 original size:11 final size:10
Alignment explanation
Indices: 37406644--37406723 Score: 51
Period size: 11 Copynumber: 7.9 Consensus size: 10
37406634 GATAATATGC
37406644 TAATAATATAA
1 TAATAATA-AA
*
37406655 TAGTAATGATAA
1 TAATAAT-A-AA
*
37406667 TAGTAAT-AA
1 TAATAATAAA
*
37406676 TAGTAA-AAA
1 TAATAATAAA
*
37406685 TAAAAATAACA
1 TAATAATAA-A
37406696 TAATAATAAA
1 TAATAATAAA
37406706 -AA-AATAAGA
1 TAATAATAA-A
37406715 TAATAATAA
1 TAATAATAA
37406724 TAGCAATAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
8 5 0.09
9 17 0.29
10 5 0.09
11 20 0.34
12 11 0.19
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (10 bp):
TAATAATAAA
Found at i:37406710 original size:19 final size:19
Alignment explanation
Indices: 37406686--37406723 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
37406676 TAGTAAAAAT
37406686 AAAAATAACATAATAATAA
1 AAAAATAACATAATAATAA
*
37406705 AAAAATAAGATAATAATAA
1 AAAAATAACATAATAATAA
37406724 TAGCAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (19 bp):
AAAAATAACATAATAATAA
Found at i:37407458 original size:3 final size:3
Alignment explanation
Indices: 37407450--37407497 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
37407440 ACAAATACAT
*
37407450 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
37407498 ACTAATTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:37408668 original size:10 final size:10
Alignment explanation
Indices: 37408653--37408678 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
37408643 TCCAATCTTG
37408653 TCGCTTTGCT
1 TCGCTTTGCT
37408663 TCGCTTTGCT
1 TCGCTTTGCT
37408673 TCGCTT
1 TCGCTT
37408679 CACTGCTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.19, T:0.50
Consensus pattern (10 bp):
TCGCTTTGCT
Found at i:37412855 original size:5 final size:5
Alignment explanation
Indices: 37412836--37412921 Score: 57
Period size: 5 Copynumber: 15.8 Consensus size: 5
37412826 CAACCCAATC
** *
37412836 TTTATT TTTATT TTTATT TTTATT TATTAT TTTCC TTTAT TTTCT TTTATT
1 TTTA-T TTTA-T TTTA-T TTTA-T T-TTAT TTTAT TTTAT TTTAT TTTA-T
*
37412887 ATTTAT TATT-T ATTAT TTTAT TTTAT TTTAT TTTA
1 -TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTA
37412922 GTTAAATATT
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
4 2 0.03
5 33 0.49
6 25 0.37
7 7 0.10
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:37412902 original size:27 final size:25
Alignment explanation
Indices: 37412838--37412913 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 25
37412828 ACCCAATCTT
37412838 TATTTTTATTTTTATTT-TTATTTAT
1 TATTTTTATTTTT-TTTATTATTTAT
37412863 TATTTTCCTTTATTTTCTTTTATTATTTAT
1 TA--TT--TTTATTTT-TTTTATTATTTAT
37412893 TATTTATTATTTTATTTTATT
1 TATTT-TTATTTT-TTTTATT
37412914 TTATTTTAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
25 2 0.05
26 1 0.02
27 16 0.37
28 2 0.05
29 11 0.26
30 11 0.26
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (25 bp):
TATTTTTATTTTTTTTATTATTTAT
Found at i:37412903 original size:37 final size:35
Alignment explanation
Indices: 37412835--37412921 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 35
37412825 GCAACCCAAT
*
37412835 CTTTATTTTTATTT-TTATTTTTATTTATTATTTTC
1 CTTTATTTTT-TTTATTATTTTTATTTATTATTTTA
37412870 CTTTATTTTCTTTTATTATTTATTATTTATTATTTTA
1 CTTTATTTT-TTTTATTATTT-TTATTTATTATTTTA
*
37412907 TTTTATTTTATTTTA
1 CTTTATTTT-TTTTA
37412922 GTTAAATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
35 12 0.26
36 7 0.15
37 27 0.59
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (35 bp):
CTTTATTTTTTTTATTATTTTTATTTATTATTTTA
Found at i:37413073 original size:42 final size:42
Alignment explanation
Indices: 37413027--37413130 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
37413017 ATCCATGGTA
*
37413027 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTGCTG
1 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTGCAG
* * *
37413069 CCAAACAGTTCTATTCCAGCCCAGAATGTCATATCTCTGCAG
1 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTGCAG
* *
37413111 CCAAACA-TCCTATTTCAGCC
1 CCAAACAGTTCTATTCCAGCC
37413131 TTAGAATCCC
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
41 11 0.20
42 45 0.80
ACGTcount: A:0.29, C:0.35, G:0.12, T:0.25
Consensus pattern (42 bp):
CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTGCAG
Found at i:37415866 original size:21 final size:21
Alignment explanation
Indices: 37415842--37415903 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
37415832 AATCAATTCC
37415842 ACTGAAACTTCAAGGAGATCT
1 ACTGAAACTTCAAGGAGATCT
* * * ** *
37415863 ACTGTAGCTTCGATTA-ATCC
1 ACTGAAACTTCAAGGAGATCT
37415883 ACTGAAACTTCAAGGAGATCT
1 ACTGAAACTTCAAGGAGATCT
37415904 GCTGTAGCTT
Statistics
Matches: 28, Mismatches: 12, Indels: 2
0.67 0.29 0.05
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (21 bp):
ACTGAAACTTCAAGGAGATCT
Done.