Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 82 of 425
Found at i:23441005 original size:11 final size:11
Alignment explanation
Indices: 23440967--23441022 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
23440957 CATGGTATGT
23440967 ATGATATGCAC
1 ATGATATGCAC
* *
23440978 ATGACATGTAC
1 ATGATATGCAC
23440989 --GATATGCAC
1 ATGATATGCAC
*
23440998 ATGATATG--T
1 ATGATATGCAC
23441007 ATGATATGCAC
1 ATGATATGCAC
23441018 ATGAT
1 ATGAT
23441023 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:23441022 original size:20 final size:20
Alignment explanation
Indices: 23440956--23441022 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
23440946 ATTTTGATAA
*
23440956 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
23440976 ACATGACATGTACGATATGC
1 ACATGATATGTATGATATGC
23440996 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
23441016 ACATGAT
1 ACATGAT
23441023 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:23441103 original size:23 final size:23
Alignment explanation
Indices: 23441073--23441192 Score: 204
Period size: 23 Copynumber: 5.1 Consensus size: 23
23441063 AGGAAGTGAA
23441073 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
23441096 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
23441119 AAAAGGGCTTATGCCTCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
23441143 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
23441166 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
23441190 AAA
1 AAA
23441193 AGAGGCTAGG
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
23 48 0.52
24 44 0.48
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:23441128 original size:24 final size:24
Alignment explanation
Indices: 23441072--23441213 Score: 218
Period size: 24 Copynumber: 6.0 Consensus size: 24
23441062 GAGGAAGTGA
23441072 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
23441096 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
23441119 AAAAGGGCTTATGCCTCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
23441143 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
23441166 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
23441190 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
23441214 ATGATAAAAC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
23 45 0.41
24 53 0.49
25 11 0.10
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:23441141 original size:47 final size:47
Alignment explanation
Indices: 23441072--23441192 Score: 224
Period size: 47 Copynumber: 2.6 Consensus size: 47
23441062 GAGGAAGTGA
23441072 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
23441119 AAAAGGGCTTATGCCTCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
23441166 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
23441193 AGAGGCTAGG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:23441442 original size:31 final size:31
Alignment explanation
Indices: 23441407--23441470 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
23441397 CGTTTACAGT
*
23441407 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATAAAATATGA
**
23441438 AAAGGCTTCGGCCCAGTGTTATAAAATATGA
1 AAAGGCTTCGGCCCAGTAATATAAAATATGA
23441469 AA
1 AA
23441471 TATAAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATAAAATATGA
Found at i:23444768 original size:49 final size:51
Alignment explanation
Indices: 23444638--23444770 Score: 180
Period size: 51 Copynumber: 2.6 Consensus size: 51
23444628 TCTATTGTGA
* *
23444638 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAACTTC
* * * * *
23444689 GATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAA-TT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAACTTC
*
23444738 GGTCGCATATGTAGTACTAAGTGCAGGCTACTA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
23444771 TGCAAACCAG
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
49 28 0.40
50 2 0.03
51 40 0.57
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAACTTC
Found at i:23454001 original size:49 final size:51
Alignment explanation
Indices: 23453872--23454006 Score: 184
Period size: 51 Copynumber: 2.7 Consensus size: 51
23453862 TCTATTGTGA
*
23453872 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTTC
* * * * *
23453923 GATCACGTGTGTAGTACTAAGTGGAGGCTACTATGTTTACCGGATAA-TT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTTC
* *
23453972 GGTCACATGTGGAGTACTAAGTGTAGGCTACTATG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
23454007 CGAACCAGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 31 0.42
50 2 0.03
51 41 0.55
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTTC
Found at i:23461123 original size:17 final size:17
Alignment explanation
Indices: 23461101--23461135 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23461091 CCAATTGGGC
23461101 CGTGTGGGT-CACACGGG
1 CGTGT-GGTCCACACGGG
23461118 CGTGTGGTCCACACGGG
1 CGTGTGGTCCACACGGG
23461135 C
1 C
23461136 AGGGCACACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.11, C:0.29, G:0.43, T:0.17
Consensus pattern (17 bp):
CGTGTGGTCCACACGGG
Found at i:23464302 original size:9 final size:9
Alignment explanation
Indices: 23464288--23464339 Score: 68
Period size: 9 Copynumber: 5.7 Consensus size: 9
23464278 GCTATGATAC
23464288 TTTTGAAGG
1 TTTTGAAGG
23464297 TTTTGAAGG
1 TTTTGAAGG
* *
23464306 TTTTGGGAGA
1 TTTT-GAAGG
23464316 TTTTGAAGG
1 TTTTGAAGG
*
23464325 TTTTGAAGA
1 TTTTGAAGG
23464334 TTTTGA
1 TTTTGA
23464340 GAGATTTCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 30 0.81
10 7 0.19
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (9 bp):
TTTTGAAGG
Found at i:23464321 original size:19 final size:18
Alignment explanation
Indices: 23464288--23464339 Score: 77
Period size: 19 Copynumber: 2.8 Consensus size: 18
23464278 GCTATGATAC
*
23464288 TTTTGAAGGTTTTGAAGG
1 TTTTGAAGATTTTGAAGG
*
23464306 TTTTGGGAGATTTTGAAGG
1 TTTT-GAAGATTTTGAAGG
23464325 TTTTGAAGATTTTGA
1 TTTTGAAGATTTTGA
23464340 GAGATTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (18 bp):
TTTTGAAGATTTTGAAGG
Found at i:23464328 original size:28 final size:28
Alignment explanation
Indices: 23464288--23464346 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
23464278 GCTATGATAC
* *
23464288 TTTTGAAGGTTTTGAAGGTTTTGGGAGA
1 TTTTGAAGGTTTTGAAGATTTTGAGAGA
23464316 TTTTGAAGGTTTTGAAGATTTTGAGAGA
1 TTTTGAAGGTTTTGAAGATTTTGAGAGA
23464344 TTT
1 TTT
23464347 CAAAATTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.46
Consensus pattern (28 bp):
TTTTGAAGGTTTTGAAGATTTTGAGAGA
Found at i:23464563 original size:13 final size:13
Alignment explanation
Indices: 23464503--23464549 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
23464493 TTTATGATTG
23464503 GGTTGGGTAATTA
1 GGTTGGGTAATTA
23464516 GGTTGGGTAATTA
1 GGTTGGGTAATTA
* *
23464529 GTTTGGGTAATTG
1 GGTTGGGTAATTA
23464542 GGTTGGGT
1 GGTTGGGT
23464550 TGGGTACTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
GGTTGGGTAATTA
Found at i:23469416 original size:45 final size:45
Alignment explanation
Indices: 23469362--23469480 Score: 166
Period size: 45 Copynumber: 2.6 Consensus size: 45
23469352 TTCGTAATGT
* * * **
23469362 CATAGCATCTTTTAGCTATGGTCTTACTCGTTAGAATCATGATGC
1 CATAACATCTTTCAGCTATGGTCTTACTCGATAGAATCATGATAA
*
23469407 CATAACATCTTTCAGCTATGGTCTTACTCGATAGAATCGTGATAA
1 CATAACATCTTTCAGCTATGGTCTTACTCGATAGAATCATGATAA
* *
23469452 CATAACGTCTTTCAGTTATGGTCTTACTC
1 CATAACATCTTTCAGCTATGGTCTTACTC
23469481 ATTTCTAGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (45 bp):
CATAACATCTTTCAGCTATGGTCTTACTCGATAGAATCATGATAA
Found at i:23469507 original size:45 final size:46
Alignment explanation
Indices: 23469458--23469575 Score: 141
Period size: 45 Copynumber: 2.6 Consensus size: 46
23469448 ATAACATAAC
** * *
23469458 GTCTTTCAGTTATGGTCTTACTCATTTCTAG-TATGGTGCCATAGT
1 GTCTTTCAACTATGGTCTTAATCATTTCTAGATATAGTGCCATAGT
* * * *
23469503 GTCTTTCAACTATGGTCTTATTTATTT-TTGATATAGTGTCATAGT
1 GTCTTTCAACTATGGTCTTAATCATTTCTAGATATAGTGCCATAGT
*
23469548 GTCTTTCAACTATGGTTTTAATCATTTC
1 GTCTTTCAACTATGGTCTTAATCATTTC
23469576 CTTCAAGCCA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 2 0.03
45 59 0.97
ACGTcount: A:0.20, C:0.15, G:0.16, T:0.48
Consensus pattern (46 bp):
GTCTTTCAACTATGGTCTTAATCATTTCTAGATATAGTGCCATAGT
Found at i:23469654 original size:13 final size:13
Alignment explanation
Indices: 23469636--23469662 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23469626 CCAAAACAGC
23469636 AACTAATTGATTT
1 AACTAATTGATTT
23469649 AACTAATTGATTT
1 AACTAATTGATTT
23469662 A
1 A
23469663 TATATGATTA
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:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
AACTAATTGATTT
Found at i:23475151 original size:101 final size:99
Alignment explanation
Indices: 23475024--23475224 Score: 276
Period size: 101 Copynumber: 2.0 Consensus size: 99
23475014 TATATGTAGC
* * * *
23475024 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACGTGTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA-TT-GATCACATGTGT
* * *
23475089 AGTACTAAGTGCAGGCTACTACGTGTATCAGATAGT
64 AATACTAAGTGCAGGCTACTACGCGTACCAGATAGT
* * * *
23475125 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGATCACATGTGTAA
*
23475190 TACTAAGTGCAGGCTACTATGCGTACCAGATAGT
66 TACTAAGTGCAGGCTACTACGCGTACCAGATAGT
23475224 T
1 T
23475225 TGGCTACATA
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 42 0.48
100 2 0.02
101 44 0.50
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (99 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGATCACATGTGTAA
TACTAAGTGCAGGCTACTACGCGTACCAGATAGT
Found at i:23481673 original size:43 final size:42
Alignment explanation
Indices: 23481583--23481729 Score: 129
Period size: 43 Copynumber: 3.4 Consensus size: 42
23481573 ATCGAGATGT
* *
23481583 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATCGTAATGA
* *
23481626 GATTACTTGTAAGACCATGTCTGGGACATAGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACAT-GGCATCG-TAATGA
* * * * *
23481669 GATTACGTGTAATACCTTGTTTGGGACAGTGGCATC-TATATGT
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATCGTA-ATGA
*
23481712 G-TTAACATATAAGACCAT
1 GATT-ACATGTAAGACCAT
23481730 AGCTAGGATA
Statistics
Matches: 85, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.02
42 5 0.06
43 74 0.87
44 4 0.05
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATGGCATCGTAATGA
Found at i:23483798 original size:40 final size:39
Alignment explanation
Indices: 23483686--23483790 Score: 174
Period size: 39 Copynumber: 2.7 Consensus size: 39
23483676 GAATGTTCGA
23483686 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
23483725 GTGATACCCAGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
23483764 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
23483791 CTTTGTGCGG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
39 51 0.85
40 9 0.15
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:23494691 original size:71 final size:71
Alignment explanation
Indices: 23494603--23494766 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
23494593 GAGATGTATC
23494603 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
23494668 AGGACA
66 AGGAAA
*
23494674 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
23494739 CGGAAA
66 AGGAAA
23494745 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
23494767 AGACAAATCG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGAAA
Found at i:23500420 original size:55 final size:53
Alignment explanation
Indices: 23500361--23500519 Score: 153
Period size: 53 Copynumber: 3.0 Consensus size: 53
23500351 GAAAGGTTTC
*
23500361 TAAGGCAAGGAAATCATGTAAGACCACATCAAGACATGGCATTGATAAGTTACTA
1 TAAGGCAAGGAAATCATGTAAGACCACATCAAGACATGGCATTGGTAAGTT-C-A
*** * *
23500416 TAAGGCAAAGGCCCT-ATGTAAGA-C-CATGCTAAGGCATGGCATTGGTGAGTTCA
1 TAAGGC-AAGGAAATCATGTAAGACCACAT-C-AAGACATGGCATTGGTAAGTTCA
* * ** *
23500469 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 TAAGGCAAGGAAATCATGTAAGACCACATCAAGACATGGCATTGGTAAGTT
23500520 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 15, Indels: 14
0.74 0.13 0.12
Matches are distributed among these distances:
52 4 0.05
53 36 0.43
54 5 0.06
55 33 0.40
56 5 0.06
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
TAAGGCAAGGAAATCATGTAAGACCACATCAAGACATGGCATTGGTAAGTTCA
Found at i:23500495 original size:53 final size:54
Alignment explanation
Indices: 23500312--23500519 Score: 198
Period size: 55 Copynumber: 3.9 Consensus size: 54
23500302 ATTAGGGTTT
* * *
23500312 AAGGATACCATGTAAGACCATGC-CAAGGCATGGAAATTGGAAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCTCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * *
23500367 AAGGAAATCATGTAAGACCA--CATCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGC-TCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
23500422 AAAGG--CCCTATGTAAGACCATGCT-AAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACC-ATGTAAGACCATGCTCAAGACATGGCATTGGTAAGTTCATAAGGC
*
23500475 AAGGATACCATGTAAGACCATG-TCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCTCAAGACATGGCATTGGTAAGTT
23500520 TCAAAAGGAT
Statistics
Matches: 126, Mismatches: 15, Indels: 26
0.75 0.09 0.16
Matches are distributed among these distances:
52 7 0.06
53 41 0.33
54 10 0.08
55 62 0.49
56 5 0.04
57 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:23500518 original size:108 final size:110
Alignment explanation
Indices: 23500321--23500519 Score: 278
Period size: 108 Copynumber: 1.8 Consensus size: 110
23500311 TAAGGATACC
*
23500321 ATGTAAGACCATGCCAAGGCATGGAAATTGGAAAGGTTTCTAAGGCAAGGAAATCATGTAAGACC
1 ATGTAAGACCATGCCAAGGCATGGAAATTGGAAAGGTTTCTAAGGCAAGGAAACCATGTAAGACC
*
23500386 ACATCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGCCCT
66 ACATCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGCCCT
* * ** *
23500431 ATGTAAGACCATGCTAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGAC
1 ATGTAAGACCATGCCAAGGCATGGAAATTGGAAAGGTTTC-TAAGGCAAGGAAACCATGTAAGAC
** *
23500493 CATGTCAAGACATGGCAATGGTAAGTT
65 CACATCAAGACATGGCAATGATAAGTT
23500520 TCAAAAGGAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.59
109 6 0.08
110 23 0.29
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
ATGTAAGACCATGCCAAGGCATGGAAATTGGAAAGGTTTCTAAGGCAAGGAAACCATGTAAGACC
ACATCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGCCCT
Found at i:23500661 original size:23 final size:24
Alignment explanation
Indices: 23500635--23500679 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
23500625 AAGGTAAGGT
*
23500635 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
23500658 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
23500680 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:23502653 original size:29 final size:29
Alignment explanation
Indices: 23502518--23502652 Score: 198
Period size: 29 Copynumber: 4.7 Consensus size: 29
23502508 GCTTGGAAGG
*
23502518 TATGGCACTAAGTGTGCGAATTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
23502547 TATGGCACTAAGTGTGCGAACGTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
23502576 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
23502605 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
23502634 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
23502653 GATCGTTTAT
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 95 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:23509033 original size:40 final size:39
Alignment explanation
Indices: 23508868--23509051 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
23508858 AAATTGAATG
* * *
23508868 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
23508908 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
23508948 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
23508988 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
23509027 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
23509052 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:23509076 original size:80 final size:81
Alignment explanation
Indices: 23508908--23509096 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
23508898 GCTGGAAATT
* * * *
23508908 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
23508973 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
23508989 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
23509052 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
23509068 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
23509097 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:23521530 original size:14 final size:15
Alignment explanation
Indices: 23521511--23521540 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
23521501 ACCTAAATTG
23521511 TTATGTTAAA-TCAA
1 TTATGTTAAATTCAA
23521525 TTATGTTAAATTCAA
1 TTATGTTAAATTCAA
23521540 T
1 T
23521541 GTTTATGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (15 bp):
TTATGTTAAATTCAA
Found at i:23527979 original size:13 final size:13
Alignment explanation
Indices: 23527961--23527985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23527951 CATATTTGAA
23527961 TTTTTTTTTCTTG
1 TTTTTTTTTCTTG
23527974 TTTTTTTTTCTT
1 TTTTTTTTTCTT
23527986 TCCGTCTTTG
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:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTCTTG
Found at i:23530322 original size:49 final size:49
Alignment explanation
Indices: 23530172--23530383 Score: 183
Period size: 49 Copynumber: 4.4 Consensus size: 49
23530162 GACGAGAGAT
* * *
23530172 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCTC-A-AGATATACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATAGAT-GA-AAGCC
* * * * * *
23530220 AGTGTAAGACCTGTCAGGGACATGGCGTCAG-CTTG-T-TATG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATAGATGAAAGCC
* *
23530264 AGTGTAAGACCTGTCTGGGACATGGCAT-TGACACT-GATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAG-C-CTCGATAGATGAAAGCC
* * *
23530313 AGTGTAAGACCTGTCTGGGAAATGGCATCAGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATAGATGAAAGCC
*
23530362 AATGTAAGACCTGTCTGGGACA
1 AGTGTAAGACCTGTCTGGGACA
23530384 CGACATCGAC
Statistics
Matches: 130, Mismatches: 22, Indels: 23
0.74 0.13 0.13
Matches are distributed among these distances:
43 1 0.01
44 27 0.21
45 1 0.01
46 3 0.02
47 3 0.02
48 27 0.21
49 67 0.52
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATAGATGAAAGCC
Found at i:23530376 original size:142 final size:138
Alignment explanation
Indices: 23530125--23530383 Score: 324
Period size: 142 Copynumber: 1.8 Consensus size: 138
23530115 TTATGAAAGC
* * * *
23530125 CAGTGTAAGACATGTCTGGGACATTAATTGGCATTGAGACGAGAGATAGTGTAAGACATGTCTGG
1 CAGTGTAAGACATGTCTGGGACATGAATTGACACTGAGACGAGAGACAGTGTAAGACATGTCTGG
* *
23530190 GACATGCATCAGCCTCAAGATATACAAGCTAGTGTAAGACCTGTCAGGGACATGGCGTCAGCTTG
66 GAAATGCATCAGCCTCAAGATATACAAGCTAATGTAAGACCTGTCAGGGACATGGCGTCAGCTTG
23530255 TTATGTGT
131 TTATGTGT
* * * * *
23530263 CAGTGTAAGACCTGTCTGGGACATGGCATTGACACTGATAGATGAGAGCCAGTGTAAGACCTGTC
1 CAGTGTAAGACATGTCTGGGACAT-GAATTGACACTG--AGACGAGAGACAGTGTAAGACATGTC
* * *
23530328 TGGGAAATGGCATCAGCCTCGATATATGA-AAG-TCAATGTAAGACCTGTCTGGGACA
63 TGGGAAAT-GCATCAGCCTCAAGATAT-ACAAGCT-AATGTAAGACCTGTCAGGGACA
23530384 CGACATCGAC
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
138 23 0.23
139 8 0.08
141 30 0.30
142 39 0.39
143 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (138 bp):
CAGTGTAAGACATGTCTGGGACATGAATTGACACTGAGACGAGAGACAGTGTAAGACATGTCTGG
GAAATGCATCAGCCTCAAGATATACAAGCTAATGTAAGACCTGTCAGGGACATGGCGTCAGCTTG
TTATGTGT
Found at i:23532097 original size:15 final size:15
Alignment explanation
Indices: 23532077--23532113 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
23532067 AAGGGACTGC
23532077 GCCCGTGGATAGTGG
1 GCCCGTGGATAGTGG
23532092 GCCCGTGGATAGTGG
1 GCCCGTGGATAGTGG
23532107 GCCCGTG
1 GCCCGTG
23532114 ACAATGAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.11, C:0.24, G:0.46, T:0.19
Consensus pattern (15 bp):
GCCCGTGGATAGTGG
Found at i:23551086 original size:29 final size:29
Alignment explanation
Indices: 23551054--23551126 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
23551044 CTTCGAGCTC
*
23551054 GCACACCCAGTGCCGTATATTTCCAGAAT
1 GCACACCCAGTGCCATATATTTCCAGAAT
** *
23551083 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGAAT
**
23551112 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
23551127 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGAAT
Found at i:23555257 original size:40 final size:41
Alignment explanation
Indices: 23555161--23555490 Score: 358
Period size: 40 Copynumber: 8.3 Consensus size: 41
23555151 ACCCAATTAT
* ** *
23555161 CTTCGGGATTTAG-CCGGATA-TAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATTAATAACTCGCACAAATGC
* * * ** * *
23555199 ATTCGGGTCTTAGTCCGGATA-TGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAATAACTCGCACAAATGC
*
23555239 CTTCGGGACTTAGCCCGGATA-TAATAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAATAACTCGCACAAATGC
*
23555279 CTTCGGGACTTAGCCCGGATA-TAATAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAATAACTCGCACAAATGC
** *
23555319 CTTCGGCG-CTTAGCCCGGA-ATTTGTAACTCGCACAAAAGC
1 CTTCGG-GACTTAGCCCGGATATTAATAACTCGCACAAATGC
* *
23555359 CTTCGGGACTTAGCCCAGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAATAACTCGCACAAATGC
* *
23555399 CTTCGGGACTTAGCCC-GAAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAATAACTCGCACAAATGC
* * * *
23555439 CTTTGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATTAATAACTCGCACAAATGC
23555479 CTTCGGGACTTA
1 CTTCGGGACTTA
23555491 ACCCCGTTAG
Statistics
Matches: 257, Mismatches: 28, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
38 10 0.04
39 20 0.08
40 224 0.87
41 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATTAATAACTCGCACAAATGC
Found at i:23563533 original size:40 final size:40
Alignment explanation
Indices: 23563429--23563774 Score: 423
Period size: 40 Copynumber: 8.7 Consensus size: 40
23563419 GGATATAACC
* * * * *
23563429 ACTCGCAC-AAGGCCTTCGGGTCTTAGTCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
23563468 ACTAGCACAAAAATGCCTTCGGGACTTAGCCCGG-ATATAATA
1 ACTCGCAC--AAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * *
23563510 ACTTGCACAAATGCCTTCGGGACTTAGCCTGG-ATATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * *
23563550 ACTTGCACAAATGCCTTCGGGGCTTAGCCCGGAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
23563590 ACTCGCACAAATGCCTTCGGGACTTAGCCTGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
23563630 ACTCGCACAAATGCCTTTGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
23563670 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
** * *
23563710 ACTCGCACAAATGCCTTCGGGACTTAGCCTAGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
23563750 ACTAGCACAAATGTCTTC-GGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
23563775 ACCCCGTTAG
Statistics
Matches: 277, Mismatches: 26, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
39 14 0.05
40 229 0.83
41 2 0.01
42 32 0.12
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:23568027 original size:2 final size:2
Alignment explanation
Indices: 23568020--23568058 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
23568010 TCATAACAGC
23568020 AT AT AT AT 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 AT AT AT AT A
23568059 ACATTTAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23578948 original size:39 final size:39
Alignment explanation
Indices: 23578840--23579032 Score: 296
Period size: 39 Copynumber: 4.9 Consensus size: 39
23578830 CGTTCAAACA
* * * * * *
23578840 CCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
*
23578880 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
23578920 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
23578959 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
*
23578998 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
23579033 TTCATACACA
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 103 0.72
40 41 0.28
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:23586912 original size:39 final size:39
Alignment explanation
Indices: 23586834--23586957 Score: 212
Period size: 39 Copynumber: 3.2 Consensus size: 39
23586824 TATGGTAACC
* *
23586834 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
23586874 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
23586913 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
23586952 CGCACA
1 CGCACA
23586958 TTCATACACA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 64 0.79
40 17 0.21
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:23593858 original size:20 final size:23
Alignment explanation
Indices: 23593820--23593863 Score: 67
Period size: 20 Copynumber: 2.0 Consensus size: 23
23593810 GAACTTTAAT
23593820 ATCTCTCGTATACTGTTCATATG
1 ATCTCTCGTATACTGTTCATATG
23593843 ATCT-TCGT-TACT-TTCATATG
1 ATCTCTCGTATACTGTTCATATG
23593863 A
1 A
23593864 AAATAGACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 4 0.19
23 4 0.19
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.45
Consensus pattern (23 bp):
ATCTCTCGTATACTGTTCATATG
Found at i:23594776 original size:40 final size:39
Alignment explanation
Indices: 23594712--23594871 Score: 203
Period size: 39 Copynumber: 4.1 Consensus size: 39
23594702 GCTACTCGTT
* * * *** *
23594712 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
*
23594752 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
*
23594792 CAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCACAACTCGCA
* *
23594831 CAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCACAACTCGCA
23594870 CA
1 CA
23594872 TTCATACACA
Statistics
Matches: 109, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 64 0.59
40 45 0.41
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.21
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCACAACTCGCA
Found at i:23594826 original size:39 final size:39
Alignment explanation
Indices: 23594748--23594871 Score: 212
Period size: 39 Copynumber: 3.2 Consensus size: 39
23594738 TATGGTAACC
* *
23594748 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
23594788 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
23594827 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
23594866 CGCACA
1 CGCACA
23594872 TTCATACACA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 64 0.79
40 17 0.21
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:23603621 original size:40 final size:40
Alignment explanation
Indices: 23603576--23603743 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
23603566 CGGAATATAA
23603576 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
23603616 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
23603656 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
23603696 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
23603736 CCGGATAT
1 CCGGATAT
23603744 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:23606398 original size:27 final size:26
Alignment explanation
Indices: 23606350--23606423 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 26
23606340 TCAAAAACAC
23606350 CGCAAAATGTAAAAC-ATCAGCGGCGTTT
1 CGCAAAA-GTAAAACAAT-AGCGGCG-TT
* *
23606378 CGCAAAAGTAAAGCAATAGCGGTGTT
1 CGCAAAAGTAAAACAATAGCGGCGTT
*
23606404 CGCCAAAGGTAAAACAATAG
1 CG-CAAAAGTAAAACAATAG
23606424 TGGCTTTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 4 0.10
27 27 0.68
28 9 0.22
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.18
Consensus pattern (26 bp):
CGCAAAAGTAAAACAATAGCGGCGTT
Found at i:23612940 original size:5 final size:6
Alignment explanation
Indices: 23612908--23612947 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
23612898 ATAATTTAAT
**
23612908 AAATAA AAATAA AGTCTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA A-AATAA AAATAA AAATAA AAATAA AAA
23612948 ACATATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 25 0.86
7 4 0.14
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:23612985 original size:9 final size:9
Alignment explanation
Indices: 23612967--23613043 Score: 102
Period size: 9 Copynumber: 8.6 Consensus size: 9
23612957 TTTATACAAA
23612967 TAATTCGGT
1 TAATTCGGT
*
23612976 TAATTTGGT
1 TAATTCGGT
*
23612985 TAATTTGGT
1 TAATTCGGT
23612994 TAATTC-GT
1 TAATTCGGT
23613002 GTAATTCGGT
1 -TAATTCGGT
**
23613012 TAATTCAAT
1 TAATTCGGT
23613021 TAATTCGGT
1 TAATTCGGT
23613030 TAATTCGGT
1 TAATTCGGT
23613039 TAATT
1 TAATT
23613044 TTATACTTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
8 2 0.03
9 56 0.93
10 2 0.03
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.48
Consensus pattern (9 bp):
TAATTCGGT
Found at i:23616580 original size:12 final size:12
Alignment explanation
Indices: 23616563--23616588 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23616553 TTGCTTTTTT
23616563 TTTTTGTTTATA
1 TTTTTGTTTATA
23616575 TTTTTGTTTATA
1 TTTTTGTTTATA
23616587 TT
1 TT
23616589 ATTAGTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTTGTTTATA
Found at i:23616628 original size:3 final size:3
Alignment explanation
Indices: 23616614--23616704 Score: 100
Period size: 3 Copynumber: 30.7 Consensus size: 3
23616604 ATTCCTTAGT
* * *
23616614 TTA TTA TCA TTA TTA TT- TTA TCA TT- TT- TTA TGTA TTTA TCTA -CA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA T-TA TTA
23616658 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23616705 GTATTTATTT
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
2 7 0.09
3 62 0.82
4 6 0.08
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:23617433 original size:18 final size:18
Alignment explanation
Indices: 23617410--23617445 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23617400 TGTGTATTAT
23617410 TTATTTAAAATTGTTTTA
1 TTATTTAAAATTGTTTTA
23617428 TTATTTAAAATTGTTTTA
1 TTATTTAAAATTGTTTTA
23617446 GTCCCCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (18 bp):
TTATTTAAAATTGTTTTA
Found at i:23621231 original size:22 final size:22
Alignment explanation
Indices: 23621205--23621249 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
23621195 TTAGTCATAT
23621205 AATA-AATT-ATTAATATAATA
1 AATATAATTCATTAATATAATA
* *
23621225 AATATAATTCATTATTTTAATA
1 AATATAATTCATTAATATAATA
23621247 AAT
1 AAT
23621250 TATTTAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 4 0.19
22 13 0.62
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATAATTCATTAATATAATA
Found at i:23621875 original size:14 final size:14
Alignment explanation
Indices: 23621856--23621894 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
23621846 TCAGCAAAGT
23621856 AAATCATTTTCTAG
1 AAATCATTTTCTAG
*
23621870 AAATCATTTTCTGG
1 AAATCATTTTCTAG
*
23621884 AAGTCATTTTC
1 AAATCATTTTC
23621895 AGTGAAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (14 bp):
AAATCATTTTCTAG
Found at i:23624754 original size:7 final size:7
Alignment explanation
Indices: 23624742--23624766 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23624732 GTCCTACCCA
23624742 ACCAACC
1 ACCAACC
23624749 ACCAACC
1 ACCAACC
23624756 ACCAACC
1 ACCAACC
23624763 ACCA
1 ACCA
23624767 TCTCCTGTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.56, G:0.00, T:0.00
Consensus pattern (7 bp):
ACCAACC
Found at i:23635013 original size:40 final size:40
Alignment explanation
Indices: 23634939--23635160 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
23634929 AACCCAAGTA
** *
23634939 CCTTCGGGGTTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
23634978 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
23635018 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
23635058 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
23635098 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
23635138 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
23635161 CATTCGAATA
Statistics
Matches: 171, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 12 0.07
40 156 0.91
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:23640880 original size:47 final size:46
Alignment explanation
Indices: 23640770--23641080 Score: 160
Period size: 46 Copynumber: 6.6 Consensus size: 46
23640760 TTATTTGTGT
* *
23640770 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTAAGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCAG-CACATTAAAAGA
* * *
23640816 GCCAATGTAAGACCATGTCTGGAACATGGCAT-AG-ACATTTATACAAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCACA-TTA-A-AAGA
* * * * *
23640864 GCTAGTGTAAGACATGTTTGGGACAT-GCACCGGC-C-TCGAGATAGAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCAGCACAT-TA-AAAG-A
* * * * *
23640910 GCCAGTGTAAGACATGTCTGGGACAT-GCATCAGCTAC--GAGATGT
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCAGC-ACATTAAAAGA
* * * *
23640954 G-TCAGTGTAAGACCATGTCTGAGACATGGCATCAGCACGTATAGAAGT
1 GCT-AGTGTAAGA-CATGTCTGGGACATGGCATCAGCACAT-TAAAAGA
* ***
23641002 G-TCAGTGTAAGACCATTTCTGGGACATGGCATC-GACACGTATATGTGAGA
1 GCT-AGTGTAAGA-CATGTCTGGGACATGGCATCAG-CAC--AT-TAAAAGA
23641052 GCTAGTGTAAGACTATGTCTGGGACATGG
1 GCTAGTGTAAGAC-ATGTCTGGGACATGG
23641081 TGTCGACCTC
Statistics
Matches: 209, Mismatches: 34, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
44 10 0.05
45 22 0.11
46 59 0.28
47 30 0.14
48 57 0.27
49 1 0.00
50 29 0.14
51 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCAGCACATTAAAAGA
Found at i:23641013 original size:48 final size:48
Alignment explanation
Indices: 23640773--23641180 Score: 212
Period size: 48 Copynumber: 8.6 Consensus size: 48
23640763 TTTGTGTGCT
* * * *
23640773 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TA-AGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGTATAGA-AGTGTC
* * ** * *
23640819 AATGTAAGACCATGTCTGGAACATGGCAT-AGACATTTATACAAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGTATAGAAGTGTC
* * * * * *
23640866 TAGTGTAAGA-CATGTTTGGGACAT-GCACCGGCCTCGAGATAGAA--GCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACG-TATAGAAGTGTC
*
23640913 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTACG---AGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-ACGTATAGAAGTGTC
*
23640957 AGTGTAAGACCATGTCTGAGACATGGCATCAGCACGTATAGAAGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGTATAGAAGTGTC
* * *
23641005 AGTGTAAGACCATTTCTGGGACATGGCATC-GACACGTATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGTATA-G-AAGTGTC
* ** * **
23641054 TAGTGTAAGACTATGTCTGGGACATGGTGTC-G-ACCTCAATTTCAA-TAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGT--A-TAGAAGT-GTC
* * * * * *
23641104 AGTGTAAGACCATGCCTGGGACATGGCATC-G-ACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGT-ATAGAAGTGTC
*
23641151 AGTGTAAGACCATGTCTGGGGCATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
23641181 CTCATCATAA
Statistics
Matches: 285, Mismatches: 51, Indels: 51
0.74 0.13 0.13
Matches are distributed among these distances:
42 3 0.01
44 11 0.04
45 17 0.06
46 49 0.17
47 66 0.23
48 71 0.25
49 35 0.12
50 32 0.11
51 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGTATAGAAGTGTC
Found at i:23643300 original size:40 final size:40
Alignment explanation
Indices: 23643088--23643293 Score: 337
Period size: 40 Copynumber: 5.2 Consensus size: 40
23643078 AACCCAAGTA
*
23643088 CCTTCGGGATTTAG-CCGGATATAG-CAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATG
*
23643127 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
23643167 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
23643207 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
23643247 CCTTCGAGACTTAGCCTGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
23643287 CCTTCGG
1 CCTTCGG
23643294 ATCTTAGTCC
Statistics
Matches: 158, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 14 0.09
40 143 0.91
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:23644688 original size:13 final size:13
Alignment explanation
Indices: 23644670--23644695 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23644660 ATTTTTATTT
23644670 TTAACATAAAATA
1 TTAACATAAAATA
23644683 TTAACATAAAATA
1 TTAACATAAAATA
23644696 ATTATAATAT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:23650669 original size:40 final size:40
Alignment explanation
Indices: 23650595--23650720 Score: 193
Period size: 40 Copynumber: 3.2 Consensus size: 40
23650585 AACCCAAGTA
* * *
23650595 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATG
23650634 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
*
23650674 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
23650714 CCTTCGG
1 CCTTCGG
23650721 TGTAACACCC
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 13 0.16
40 66 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
Found at i:23660999 original size:40 final size:40
Alignment explanation
Indices: 23660908--23660992 Score: 152
Period size: 40 Copynumber: 2.1 Consensus size: 40
23660898 GGTTGTCACA
*
23660908 TTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATAAAGTAACTAGCACAAATGCC
*
23660948 TTCGGGACTTAGCCCGGATAAAGTCACTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATAAAGTAACTAGCACAAATGCC
23660988 TTCGG
1 TTCGG
23660993 ATCTTAGTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (40 bp):
TTCGGGACTTAGCCCGGATAAAGTAACTAGCACAAATGCC
Found at i:23662387 original size:13 final size:13
Alignment explanation
Indices: 23662369--23662394 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23662359 ATTTTTATTT
23662369 TTAACATAAAATA
1 TTAACATAAAATA
23662382 TTAACATAAAATA
1 TTAACATAAAATA
23662395 ATTATAATAT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:23671058 original size:118 final size:118
Alignment explanation
Indices: 23670850--23671086 Score: 431
Period size: 118 Copynumber: 2.0 Consensus size: 118
23670840 CAAGAACTAT
*
23670850 AGAAGCATCTGGCGTGGTTAAATTGGTATAGAACTCTCATATTGAATCCTCTTCAGGCAATGATC
1 AGAAGCATCTGGCGTGGTTAAATTGGCATAGAACTCTCATATTGAATCCTCTTCAGGCAATGATC
*
23670915 GTGCGTCACAAAATTGATTCCAACTTAAGGCCTTAATTATTTTCTAAATTGAC
66 GCGCGTCACAAAATTGATTCCAACTTAAGGCCTTAATTATTTTCTAAATTGAC
*
23670968 AGAAGCATCTGGCGTGGTTAAATTGGCATAGAACTCTGATATT-AATTCCTCTTCAGGCAATGAT
1 AGAAGCATCTGGCGTGGTTAAATTGGCATAGAACTCTCATATTGAA-TCCTCTTCAGGCAATGAT
23671032 CGCGCGTCACAAAATTGATTCCAACTTAAGGCCTTAATTATTTTCTAAATTGAC
65 CGCGCGTCACAAAATTGATTCCAACTTAAGGCCTTAATTATTTTCTAAATTGAC
23671086 A
1 A
23671087 AAGGCATAAT
Statistics
Matches: 115, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
117 2 0.02
118 113 0.98
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (118 bp):
AGAAGCATCTGGCGTGGTTAAATTGGCATAGAACTCTCATATTGAATCCTCTTCAGGCAATGATC
GCGCGTCACAAAATTGATTCCAACTTAAGGCCTTAATTATTTTCTAAATTGAC
Found at i:23674088 original size:39 final size:39
Alignment explanation
Indices: 23674014--23674118 Score: 174
Period size: 39 Copynumber: 2.7 Consensus size: 39
23674004 CCGCACAAAG
*
23674014 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* *
23674054 GCCTTCGGGCTTAGCCTGGGTATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
23674093 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
23674119 TCGAACATTC
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
39 51 0.85
40 9 0.15
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:23680037 original size:27 final size:28
Alignment explanation
Indices: 23679973--23680040 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
23679963 AATGAGATTG
*
23679973 GCACTAAGTGTGCGAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTTAATTATATA
*
23680001 GCACTAAGTGTGCGAGTTTGATTAT-TA
1 GCACTAAGTGTGCGAGTTTAATTATATA
23680028 GCACTAAGTGTGC
1 GCACTAAGTGTGC
23680041 AGACTTACTA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 15 0.39
28 23 0.61
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATATA
Found at i:23687960 original size:40 final size:40
Alignment explanation
Indices: 23687681--23687965 Score: 362
Period size: 40 Copynumber: 7.1 Consensus size: 40
23687671 AGATGATAAT
* * *
23687681 TCCGGGCTAATTCCCGAAAGCATTTGTGCTAGTGACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
* *
23687720 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGGGACTA-A
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
* *
23687760 TTCCGGGATAAGTCCCGAAGGCATTTGTGCTAGTGACTA-A
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
* * *
23687800 TTCTGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
*
23687841 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
* * *
23687881 TCCGAGCTAAGTCCCGAAGACATTTGTGCGAACT-ACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTATA
* *
23687921 TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
23687961 TCCGG
1 TCCGG
23687966 TTAAAGCCCG
Statistics
Matches: 222, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 217 0.98
41 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
Found at i:23691194 original size:28 final size:28
Alignment explanation
Indices: 23691162--23691231 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
23691152 AATAAGATTG
*
23691162 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
23691190 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
23691218 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
23691232 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:23695001 original size:64 final size:68
Alignment explanation
Indices: 23694920--23695065 Score: 187
Period size: 67 Copynumber: 2.2 Consensus size: 68
23694910 ATACTATGTG
* * * * *
23694920 GTAGCTAGGTCACATGTGTGA-TAC-GG-GATGTATACCATGTAGACAAGAGAGCTACGGGAT-A
1 GTAGCTAGGTCACATGTGTGATTACAGGTGAAGGACACCATGTAGACAAAAGAGCTACGAGATAA
23694981 AAT
66 AAT
* *
23694984 GTAGCTAGGTCGCATGTGTGATTCCAGGTGAAGGACACCATGTAGACAAAAGAGCTACGAGATAA
1 GTAGCTAGGTCACATGTGTGATTACAGGTGAAGGACACCATGTAGACAAAAGAGCTACGAGATAA
23695049 AAT
66 AAT
23695052 G--GCTAGGTCACATG
1 GTAGCTAGGTCACATG
23695066 GGTGGTACTA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
64 20 0.29
65 2 0.03
66 14 0.20
67 29 0.41
68 5 0.07
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (68 bp):
GTAGCTAGGTCACATGTGTGATTACAGGTGAAGGACACCATGTAGACAAAAGAGCTACGAGATAA
AAT
Found at i:23708517 original size:36 final size:37
Alignment explanation
Indices: 23708415--23708535 Score: 208
Period size: 37 Copynumber: 3.3 Consensus size: 37
23708405 TATAAAAGAA
*
23708415 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
23708452 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
23708489 GTCTTACCCAGTCATAA-CTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
23708525 GTCTCACCCGG
1 GTCTTACCCGG
23708536 AACATATTCC
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
36 28 0.35
37 52 0.65
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:23708692 original size:49 final size:49
Alignment explanation
Indices: 23708637--23708899 Score: 447
Period size: 49 Copynumber: 5.4 Consensus size: 49
23708627 TTTTACATTA
*
23708637 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
*
23708686 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
23708735 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
23708784 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCA-CACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* * * *
23708832 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* *
23708881 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTCATCACA
23708900 CATATATGTA
Statistics
Matches: 207, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 47 0.23
49 160 0.77
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.28
Consensus pattern (49 bp):
GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
Found at i:23711664 original size:40 final size:41
Alignment explanation
Indices: 23711620--23711718 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
23711610 TCGATTGTCC
* * **
23711620 TCGGGACATAGCCCGG-TTATAGTTA-TTCGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAAAGCCT
23711660 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
*
23711701 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
23711719 ACCATTCGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.38
41 30 0.60
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
Found at i:23712232 original size:29 final size:29
Alignment explanation
Indices: 23712200--23712478 Score: 524
Period size: 29 Copynumber: 9.7 Consensus size: 29
23712190 TGTTGAAAAA
* * *
23712200 CTCGTACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
23712229 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
23712258 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
23712287 CTCGCACACAT-GTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
23712315 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
23712344 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
23712373 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
23712402 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
23712431 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
23712460 CTCGCACACATAGTGCCTC
1 CTCGCACACATAGTGCCTC
23712479 AATCATTCGC
Statistics
Matches: 246, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
28 28 0.11
29 218 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCGATTACTGAT
Found at i:23714669 original size:36 final size:37
Alignment explanation
Indices: 23714567--23714687 Score: 208
Period size: 37 Copynumber: 3.3 Consensus size: 37
23714557 TATAAAAGAA
*
23714567 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
23714604 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
23714641 GTCTTACCCAGTCATAA-CTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
23714677 GTCTCACCCGG
1 GTCTTACCCGG
23714688 AACATATTCC
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
36 28 0.35
37 52 0.65
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:23715056 original size:49 final size:49
Alignment explanation
Indices: 23714789--23715050 Score: 447
Period size: 49 Copynumber: 5.4 Consensus size: 49
23714779 TTTTACATTA
*
23714789 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
*
23714838 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
23714887 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
23714936 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* * *
23714985 GCCATTAGGCCTCATCACATATACAT-CACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* *
23715033 G-CATTCGGCCTTATCACA
1 GCCATTAGGCCTCATCACA
23715051 CATATATGTA
Statistics
Matches: 207, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 15 0.07
48 20 0.10
49 172 0.83
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.28
Consensus pattern (49 bp):
GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
Found at i:23728777 original size:24 final size:24
Alignment explanation
Indices: 23728750--23728803 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
23728740 CTTGTGCGAA
23728750 TAGCGTAGGCTCGTGCAAGTGCTC
1 TAGCGTAGGCTCGTGCAAGTGCTC
23728774 TAGCGTAGGCTCGTGCAAGTGCTC
1 TAGCGTAGGCTCGTGCAAGTGCTC
23728798 TAGCGT
1 TAGCGT
23728804 CAGATCTCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.17, C:0.24, G:0.33, T:0.26
Consensus pattern (24 bp):
TAGCGTAGGCTCGTGCAAGTGCTC
Found at i:23735570 original size:46 final size:45
Alignment explanation
Indices: 23735440--23735570 Score: 120
Period size: 46 Copynumber: 2.9 Consensus size: 45
23735430 GTATGTGAGC
* * * *
23735440 TAGTGTAAGACATGTCTAGGG-TATGCATCGCCACGATATGAGAGC
1 TAGTGTAAGACATGT-TTGGGATATGCATCGCCTCGAGATGAGAGA
* * * * * * * *
23735485 CAATGTAAGACATGTATGGGACATGTAATGGCTTTGAGATGAGAGA
1 TAGTGTAAGACATGTTTGGGATATG-CATCGCCTCGAGATGAGAGA
23735531 TAGTGTAAGACATGTTTGGGATATGCATCGACCTCGAGAT
1 TAGTGTAAGACATGTTTGGGATATGCATCG-CCTCGAGAT
23735571 ATACAAGCTA
Statistics
Matches: 63, Mismatches: 20, Indels: 5
0.72 0.23 0.06
Matches are distributed among these distances:
44 3 0.05
45 19 0.30
46 41 0.65
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (45 bp):
TAGTGTAAGACATGTTTGGGATATGCATCGCCTCGAGATGAGAGA
Found at i:23737816 original size:40 final size:40
Alignment explanation
Indices: 23737779--23737961 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
23737769 GCTACTCGTT
*
23737779 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
23737819 TAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
*
23737859 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
23737898 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
23737939 CAAA-GCCTTC-GGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
23737962 ACATCATTCG
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
38 2 0.02
39 41 0.33
40 71 0.57
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:23737890 original size:79 final size:81
Alignment explanation
Indices: 23737779--23737962 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 81
23737769 GCTACTCGTT
* * *
23737779 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
23737842 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
**
23737859 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
*
23737923 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
*
23737939 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGA
23737963 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
78 3 0.03
79 66 0.72
80 23 0.25
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:23746097 original size:40 final size:40
Alignment explanation
Indices: 23745951--23746099 Score: 169
Period size: 40 Copynumber: 3.7 Consensus size: 40
23745941 GCTACTCGTT
* *
23745951 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * *
23745991 TAAATGCCTTCGGGACTTAACCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTGCA
* ** *
23746031 CAAATGCCTTC-GAATCTTAGTTCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
23746072 CAAA-GCCTTCGGGACTTAGCCCGGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
23746100 CATTCGAATA
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
39 3 0.03
40 76 0.85
41 10 0.11
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:23749339 original size:40 final size:40
Alignment explanation
Indices: 23749283--23749450 Score: 184
Period size: 40 Copynumber: 4.2 Consensus size: 40
23749273 CAATTGAATG
* *
23749283 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
23749324 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
23749363 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
23749403 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
23749443 ATATCCGG
1 ATATCCGG
23749451 TTGTATTCCA
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:23749416 original size:80 final size:79
Alignment explanation
Indices: 23749283--23749450 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 79
23749273 CAATTGAATG
* *
23749283 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
23749348 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
23749363 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
23749427 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
23749443 ATATCCGG
1 ATATCCGG
23749451 TTGTATTCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 76 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:23759640 original size:16 final size:16
Alignment explanation
Indices: 23759619--23759653 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23759609 TATGATATTA
* *
23759619 TTTAAATTATTGAATG
1 TTTAAATAATTAAATG
23759635 TTTAAATAATTAAATG
1 TTTAAATAATTAAATG
23759651 TTT
1 TTT
23759654 TTTTATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (16 bp):
TTTAAATAATTAAATG
Found at i:23766195 original size:40 final size:40
Alignment explanation
Indices: 23766121--23766303 Score: 273
Period size: 40 Copynumber: 4.6 Consensus size: 40
23766111 AACCCAAGTA
*
23766121 CCTTCGGGAT-TTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATG
23766160 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
* *
23766200 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
* *
23766240 CCTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCAC-AAATG
23766281 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
23766304 CATCCGAATA
Statistics
Matches: 133, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 12 0.09
40 93 0.70
41 27 0.20
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:23769289 original size:7 final size:7
Alignment explanation
Indices: 23769277--23769315 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
23769267 TCTTTATTTC
23769277 TTTCTTA
1 TTTCTTA
23769284 TTTCTTA
1 TTTCTTA
23769291 TTTCTTA
1 TTTCTTA
23769298 TTTCTTA
1 TTTCTTA
* *
23769305 ATTGTTA
1 TTTCTTA
23769312 TTTC
1 TTTC
23769316 ATTTTGAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.15, C:0.13, G:0.03, T:0.69
Consensus pattern (7 bp):
TTTCTTA
Found at i:23770907 original size:15 final size:13
Alignment explanation
Indices: 23770897--23770939 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
23770887 TTATTTTATT
23770897 ATTATTAATTTTA
1 ATTATTAATTTTA
23770910 ATT-TTAATTTTA
1 ATTATTAATTTTA
*
23770922 ATT-TTACTTTTA
1 ATTATTAATTTTA
*
23770934 TTTATT
1 ATTATT
23770940 TTTGAAGACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTATTAATTTTA
Found at i:23770910 original size:6 final size:6
Alignment explanation
Indices: 23770901--23770933 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
23770891 TTTATTATTA
*
23770901 TTAATT TTAATT TTAATT TTAATT TTACTT TTA
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTA
23770934 TTTATTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (6 bp):
TTAATT
Found at i:23772508 original size:46 final size:46
Alignment explanation
Indices: 23772441--23772611 Score: 270
Period size: 46 Copynumber: 3.7 Consensus size: 46
23772431 AGATATTTGG
*
23772441 ACATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGA
1 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * *
23772487 ACATCCGGACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGTGA
1 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*
23772533 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTA
1 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * *
23772579 ACGTCCAAACTCGTTGAGTTGAGTCTGAGTTCA
1 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCA
23772612 TGAAATGTAA
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 114 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (46 bp):
ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:23779104 original size:58 final size:58
Alignment explanation
Indices: 23778986--23779115 Score: 190
Period size: 58 Copynumber: 2.2 Consensus size: 58
23778976 GTGACGAGAT
* *
23778986 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAAATA
***
23779044 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAAATA
*
23779102 TGGCACTGTGTGTG
1 TGGCACTGAGTGTG
23779116 TGGGCTTAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 64 0.98
59 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (58 bp):
TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAAATA
Found at i:23779108 original size:29 final size:29
Alignment explanation
Indices: 23778986--23779087 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
23778976 GTGACGAGAT
23778986 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
23779015 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
23779044 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
23779073 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
23779088 GAGCTCGAAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:23786933 original size:58 final size:58
Alignment explanation
Indices: 23786815--23786944 Score: 190
Period size: 58 Copynumber: 2.2 Consensus size: 58
23786805 GTGACGAGAT
* *
23786815 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAAATA
***
23786873 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAAATA
*
23786931 TGGCACTGTGTGTG
1 TGGCACTGAGTGTG
23786945 TTAAATCGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 64 0.98
59 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (58 bp):
TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAAATA
Found at i:23786937 original size:29 final size:29
Alignment explanation
Indices: 23786815--23786916 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
23786805 GTGACGAGAT
23786815 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
23786844 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
23786873 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
23786902 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
23786917 GAGCTCGAAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:23791382 original size:48 final size:48
Alignment explanation
Indices: 23791304--23791403 Score: 148
Period size: 48 Copynumber: 2.1 Consensus size: 48
23791294 CACATGGTAG
* *
23791304 GATGCCAATGCCATATCCCGAATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCGAACATCGTCTTACATGGGATCACATATC
* *
23791352 GATGCCAATGCCATGTCCC-AGACATCGTCTTACATGGGATCACATATT
1 GATGCCAATGCCATATCCCGA-ACATCGTCTTACATGGGATCACATATC
23791400 GATG
1 GATG
23791404 TCGATAGCTC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
47 1 0.02
48 46 0.98
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCGAACATCGTCTTACATGGGATCACATATC
Found at i:23795527 original size:4 final size:4
Alignment explanation
Indices: 23795518--23795573 Score: 94
Period size: 4 Copynumber: 14.0 Consensus size: 4
23795508 AAATATGCCC
* *
23795518 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAAA TTGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
23795566 TAGA TAGA
1 TAGA TAGA
23795574 GGTGAAAGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (4 bp):
TAGA
Found at i:23809660 original size:13 final size:13
Alignment explanation
Indices: 23809642--23809666 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23809632 GAGCCATCAG
23809642 CAAAGGAGTGAAA
1 CAAAGGAGTGAAA
23809655 CAAAGGAGTGAA
1 CAAAGGAGTGAA
23809667 GGAGCCTCGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.32, T:0.08
Consensus pattern (13 bp):
CAAAGGAGTGAAA
Found at i:23823354 original size:24 final size:24
Alignment explanation
Indices: 23823327--23823389 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
23823317 CTTATTATGT
23823327 TCGCACACATAGTGCCATAGAAAA
1 TCGCACACATAGTGCCATAGAAAA
*
23823351 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGAAAA
23823375 TCGCACACATAGTGC
1 TCGCACACATAGTGC
23823390 AATTGAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGAAAA
Found at i:23830778 original size:24 final size:23
Alignment explanation
Indices: 23830751--23830795 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
23830741 ATAAAGTACA
23830751 ATTTAACAGCAAAAATTCATAATC
1 ATTTAACAG-AAAAATTCATAATC
* *
23830775 ATTTCACAGAATAATTCATAA
1 ATTTAACAGAAAAATTCATAA
23830796 GCCTGACCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (23 bp):
ATTTAACAGAAAAATTCATAATC
Found at i:23833383 original size:10 final size:10
Alignment explanation
Indices: 23833368--23833397 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
23833358 CTCTACCTGG
23833368 ATCATTTCCA
1 ATCATTTCCA
23833378 ATCATTTCCA
1 ATCATTTCCA
23833388 ATCATTTCCA
1 ATCATTTCCA
23833398 TTTCTCGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (10 bp):
ATCATTTCCA
Found at i:23840213 original size:27 final size:27
Alignment explanation
Indices: 23840172--23840226 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
23840162 TGTCATGTGA
* *
23840172 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
23840199 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
23840226 A
1 A
23840227 GTTGTACCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:23840590 original size:49 final size:49
Alignment explanation
Indices: 23840462--23840582 Score: 215
Period size: 49 Copynumber: 2.5 Consensus size: 49
23840452 GGTCACGTGT
* *
23840462 GTAGTACTAAGTGCAGGGTACTACGTGTACAGGATAATTGGTCGCATGG
1 GTAGTACTAAGTGCAGGATACTACGTGTACCGGATAATTGGTCGCATGG
*
23840511 GTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGG
1 GTAGTACTAAGTGCAGGATACTACGTGTACCGGATAATTGGTCGCATGG
23840560 GTAGTACTAAGTGCAGGATACTA
1 GTAGTACTAAGTGCAGGATACTA
23840583 TGCGTACCAG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (49 bp):
GTAGTACTAAGTGCAGGATACTACGTGTACCGGATAATTGGTCGCATGG
Found at i:23848008 original size:8 final size:8
Alignment explanation
Indices: 23847995--23848027 Score: 52
Period size: 7 Copynumber: 4.4 Consensus size: 8
23847985 ATGTAATTAG
23847995 TTAAAAAA
1 TTAAAAAA
23848003 TT-AAAAA
1 TTAAAAAA
23848010 TT-AAAAA
1 TTAAAAAA
23848017 TTAAAAAA
1 TTAAAAAA
23848025 TTA
1 TTA
23848028 GTCTTGGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 14 0.58
8 10 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
TTAAAAAA
Found at i:23850176 original size:2 final size:2
Alignment explanation
Indices: 23850171--23850210 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
23850161 TTAAGGGGTC
23850171 AT AT AT AT AT 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 AT AT AT AT AT
23850211 TTTTAGAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23851640 original size:131 final size:134
Alignment explanation
Indices: 23851397--23851655 Score: 346
Period size: 131 Copynumber: 1.9 Consensus size: 134
23851387 CCTACTTTTT
* * * * *
23851397 ACTATAATATGTTGTTATCTACACTTTTGACTTCGTCTTGTTTACTTCTCTGTGCCTTACCAATT
1 ACTATAATATATTGTTATCAACACTTTTGAATTCGTCTTGTTTACGTCTCTGT-CCTTACCAATG
* ** **
23851462 AGCTTTCACTACTTTAACATATTACGATGAAACTTGTTTTATGTTAATTCGTGTGTTCATCAAAA
65 AGCTTTCACTACTTTAACATATTAAGATGAAACCAGTTTTATGTTAATTCGTGCATTCATCAAAA
23851527 TGTTC
130 TGTTC
* *
23851532 ACTATAATATATTGTTATCAACACTTTTGAATTCGTCTTGTTTA-GT-TCTGT-CTTACTAGTGA
1 ACTATAATATATTGTTATCAACACTTTTGAATTCGTCTTGTTTACGTCTCTGTCCTTACCAATGA
* *
23851594 GCTTTTACTA-TTGTAACATATTAAGATGAAACCAGTTTTATTTTAATTCGTGCATTCATCAA
66 GCTTTCACTACTT-TAACATATTAAGATGAAACCAGTTTTATGTTAATTCGTGCATTCATCAA
23851656 TAAGAACCAT
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
130 2 0.02
131 60 0.55
133 5 0.05
134 1 0.01
135 41 0.38
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.45
Consensus pattern (134 bp):
ACTATAATATATTGTTATCAACACTTTTGAATTCGTCTTGTTTACGTCTCTGTCCTTACCAATGA
GCTTTCACTACTTTAACATATTAAGATGAAACCAGTTTTATGTTAATTCGTGCATTCATCAAAAT
GTTC
Found at i:23851835 original size:17 final size:17
Alignment explanation
Indices: 23851813--23851847 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
23851803 GTTCTTGTTA
23851813 TTTTGATGATGTAAATT
1 TTTTGATGATGTAAATT
23851830 TTTTGATGATGTAAATT
1 TTTTGATGATGTAAATT
23851847 T
1 T
23851848 CTCGAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (17 bp):
TTTTGATGATGTAAATT
Found at i:23858843 original size:22 final size:22
Alignment explanation
Indices: 23858817--23858860 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23858807 GAAAATAATC
23858817 AAAATTAATCAAAATTAATTAT
1 AAAATTAATCAAAATTAATTAT
* *
23858839 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTAATTAT
23858861 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTAATCAAAATTAATTAT
Found at i:23858859 original size:10 final size:10
Alignment explanation
Indices: 23858808--23858859 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
23858798 AAATCTATCG
*
23858808 AAAA-TAATC
1 AAAATTAATT
*
23858817 AAAATTAATC
1 AAAATTAATT
23858827 AAAATTAATTAT
1 AAAATTAA-T-T
23858839 AAAATTAATT
1 AAAATTAATT
*
23858849 AAAATTCATT
1 AAAATTAATT
23858859 A
1 A
23858860 TGTTAATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 4 0.11
10 24 0.63
11 2 0.05
12 8 0.21
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTAATT
Found at i:23860082 original size:30 final size:30
Alignment explanation
Indices: 23860048--23860110 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
23860038 TTCATTCAAA
*
23860048 TAGCATAAATTGTCAATTCAAAATTTATTC
1 TAGCATAAATTGTCAATTCAAAATTTACTC
23860078 TAGCATAAATTGTCAATTCAAAATTTACTC
1 TAGCATAAATTGTCAATTCAAAATTTACTC
23860108 TAG
1 TAG
23860111 TACCATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (30 bp):
TAGCATAAATTGTCAATTCAAAATTTACTC
Found at i:23860525 original size:22 final size:22
Alignment explanation
Indices: 23860500--23860544 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
23860490 TATTTCATGA
*
23860500 ACTAATTATTGAGCCTATGCTC
1 ACTAATTATTAAGCCTATGCTC
23860522 ACTAATTATTAAGCCTATGCTC
1 ACTAATTATTAAGCCTATGCTC
23860544 A
1 A
23860545 ATCTCTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (22 bp):
ACTAATTATTAAGCCTATGCTC
Found at i:23865433 original size:18 final size:18
Alignment explanation
Indices: 23865396--23865433 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23865386 GTTACATTAA
*
23865396 TTCCCTTTCCCTTTCTCT
1 TTCCCTTTCCCTTTCGCT
23865414 TTCCCTTTTCCC-TTCGCT
1 TTCCC-TTTCCCTTTCGCT
23865432 TT
1 TT
23865434 TCTTTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.00, C:0.42, G:0.03, T:0.55
Consensus pattern (18 bp):
TTCCCTTTCCCTTTCGCT
Found at i:23866033 original size:104 final size:103
Alignment explanation
Indices: 23865878--23866069 Score: 244
Period size: 104 Copynumber: 1.9 Consensus size: 103
23865868 ATGAGCAATA
* * * *
23865878 GACATGGGCATGTGTCTAGCTATGTAACTTACTATTTGTGATTTAGGACCACAC-GGCTAG-GGA
1 GACATGGGCATGTGTCTAGCTATGTAACTCACTATTTATGATTTAGAACCACACAGAC-AGAGGA
*
23865941 CATGGGTGTGTGCCCAGGCCATGTGAGTCATACAAGCAAG
65 CATAGGTGTGT-CCCAGGCCATGTGAGTCATACAAGCAAG
* * * *
23865981 GACATGGGCGTGTGTCTAGGCTGTGTAACTCACTATTTATGTTTTATAACCACACAGACAGAGGA
1 GACATGGGCATGTGTCTA-GCTATGTAACTCACTATTTATGATTTAGAACCACACAGACAGAGGA
* *
23866046 CATAGGTGTGTTCCAGGCCGTGTG
65 CATAGGTGTGTCCCAGGCCATGTG
23866070 GCATATAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
103 17 0.23
104 43 0.57
105 15 0.20
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (103 bp):
GACATGGGCATGTGTCTAGCTATGTAACTCACTATTTATGATTTAGAACCACACAGACAGAGGAC
ATAGGTGTGTCCCAGGCCATGTGAGTCATACAAGCAAG
Found at i:23868026 original size:48 final size:48
Alignment explanation
Indices: 23867884--23868110 Score: 176
Period size: 48 Copynumber: 4.8 Consensus size: 48
23867874 GTTATGTACA
* * * * * ***
23867884 ATCCCATGTAAGACCATGTTTGGAACATGGCTTTGGCATCGATATGTA
1 ATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGACATACG
** * * * * **
23867932 ATTTCATGTAAGACCATAGCTAGG-C-T---ATCGGCATCGATATGTG
1 ATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGACATACG
* * *
23867975 ATCCCATATAAGACCATTTCTGGGACATGGCATTGGCATCGACCTACG
1 ATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGACATACG
* * * **
23868023 ATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGATATGTG
1 ATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGACATACG
* * *
23868071 ATCCCATGTAAAACCATATCCGGGATATGGCATTGGCATC
1 ATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATC
23868111 CTACCATGTG
Statistics
Matches: 141, Mismatches: 33, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
43 32 0.23
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 105 0.74
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (48 bp):
ATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGACATACG
Found at i:23868039 original size:91 final size:92
Alignment explanation
Indices: 23867884--23868110 Score: 232
Period size: 91 Copynumber: 2.4 Consensus size: 92
23867874 GTTATGTACA
* * * **
23867884 ATCCCATGTAAGACCATGTT-TGGAACATGGCTTTGGCATCGATATGTAATTTCATGTAAGACCA
1 ATCCCATGTAAGACCAT-TTCTGGGACATGGCATTGGCATCGATACG-AATCCCATGTAAGACCA
23867948 TAG-CTAGG-CTAT-C-GGCATCGATATGTG
64 T-GTCTAGGAC-ATGCTGGCATCGATATGTG
*
23867975 ATCCCATATAAGACCATTTCTGGGACATGGCATTGGCATCGACCTACG-ATCCCATGTAAGACCA
1 ATCCCATGTAAGACCATTTCTGGGACATGGCATTGGCATCGA--TACGAATCCCATGTAAGACCA
*
23868039 TGTCTGGGACATGGCGTTGGCATCGATATGTG
64 TGTCTAGGACAT-GC--TGGCATCGATATGTG
* * * *
23868071 ATCCCATGTAAAACCATATCCGGGATATGGCATTGGCATC
1 ATCCCATGTAAGACCATTTCTGGGACATGGCATTGGCATC
23868111 CTACCATGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
90 3 0.03
91 57 0.50
92 1 0.01
93 4 0.04
96 49 0.43
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (92 bp):
ATCCCATGTAAGACCATTTCTGGGACATGGCATTGGCATCGATACGAATCCCATGTAAGACCATG
TCTAGGACATGCTGGCATCGATATGTG
Found at i:23869529 original size:21 final size:21
Alignment explanation
Indices: 23869505--23869544 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23869495 TGTGACCCTG
23869505 TTTCATGAAAATTTTCTAAGT
1 TTTCATGAAAATTTTCTAAGT
* *
23869526 TTTCCTGAAAGTTTTCTAA
1 TTTCATGAAAATTTTCTAA
23869545 AGTTCTCGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (21 bp):
TTTCATGAAAATTTTCTAAGT
Found at i:23874030 original size:25 final size:24
Alignment explanation
Indices: 23874002--23874049 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
23873992 TAAATAATGG
* *
23874002 TAAGCTCATACGAGTTGAGTATCGA
1 TAAGCTCATAAGAGCTGAG-ATCGA
23874027 TAAGCTCATAAGAGCTGAGATCG
1 TAAGCTCATAAGAGCTGAGATCG
23874050 GTAACCCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (24 bp):
TAAGCTCATAAGAGCTGAGATCGA
Found at i:23876416 original size:26 final size:26
Alignment explanation
Indices: 23876380--23876433 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
23876370 GCCAACACTA
23876380 GTGAACGTTTTGTCACTATCTCATGT
1 GTGAACGTTTTGTCACTATCTCATGT
23876406 GTGAACGTTTTGTCACTATCTCATGT
1 GTGAACGTTTTGTCACTATCTCATGT
23876432 GT
1 GT
23876434 TAATCATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.43
Consensus pattern (26 bp):
GTGAACGTTTTGTCACTATCTCATGT
Found at i:23877652 original size:29 final size:29
Alignment explanation
Indices: 23877615--23877677 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
23877605 TAACCATAGT
23877615 TATAACTTTATCCTTTTTAAGATTGATTA
1 TATAACTTTATCCTTTTTAAGATTGATTA
*
23877644 TATAACTTTGTCCTTTTTAAGATTGATTA
1 TATAACTTTATCCTTTTTAAGATTGATTA
23877673 TATAA
1 TATAA
23877678 TGCTATATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.51
Consensus pattern (29 bp):
TATAACTTTATCCTTTTTAAGATTGATTA
Found at i:23877879 original size:29 final size:29
Alignment explanation
Indices: 23877837--23877896 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
23877827 TTATACATTT
23877837 CTCAAGCATGTATAGAATTGAACTCCAAA
1 CTCAAGCATGTATAGAATTGAACTCCAAA
23877866 CTCAAGCATGTATAGAATTGAACTCCAAA
1 CTCAAGCATGTATAGAATTGAACTCCAAA
23877895 CT
1 CT
23877897 AACCATTGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (29 bp):
CTCAAGCATGTATAGAATTGAACTCCAAA
Found at i:23879540 original size:20 final size:20
Alignment explanation
Indices: 23879495--23879546 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
23879485 TAATTTTAAA
*
23879495 ATTTATTTTCATTTATCTTT
1 ATTTATTTTTATTTATCTTT
*
23879515 AATTATTTTTATTTAT-TTGT
1 ATTTATTTTTATTTATCTT-T
23879535 ATTTATCTTTTA
1 ATTTAT-TTTTA
23879547 GAATTTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 20 0.74
21 5 0.19
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (20 bp):
ATTTATTTTTATTTATCTTT
Found at i:23881278 original size:3 final size:3
Alignment explanation
Indices: 23881270--23881305 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
23881260 CAAAACAGTA
23881270 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
23881306 GATTTAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23882254 original size:12 final size:12
Alignment explanation
Indices: 23882226--23882260 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
23882216 TTGAAACGAC
*
23882226 TTATTTTAATATT
1 TTATTTT-ATTTT
23882239 TTATTTTATTTT
1 TTATTTTATTTT
23882251 TTATTTTATT
1 TTATTTTATT
23882261 AGGATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTTTATTTT
Found at i:23884512 original size:40 final size:40
Alignment explanation
Indices: 23884467--23884634 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
23884457 CGGAATATAA
23884467 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
23884507 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
23884547 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
23884587 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
23884627 CCGGATAT
1 CCGGATAT
23884635 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:23892524 original size:40 final size:40
Alignment explanation
Indices: 23892479--23892646 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
23892469 CGGAATATAA
23892479 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
23892519 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
23892559 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
23892599 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
23892639 CCGGATAT
1 CCGGATAT
23892647 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:23892629 original size:80 final size:80
Alignment explanation
Indices: 23892495--23892644 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
23892485 ATAATCACGT
*
23892495 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
23892559 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
23892575 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
23892638 CCCGGAT
64 CCCGGAT
23892645 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:23897246 original size:71 final size:71
Alignment explanation
Indices: 23897160--23897323 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
23897150 CGATTTGTCT
23897160 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
23897225 CTTTCA
66 CTTTCA
23897231 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
23897296 CTTTCA
66 CTTTCA
23897302 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
23897324 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Done.