Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 87 of 175
Found at i:27570312 original size:46 final size:46
Alignment explanation
Indices: 27570208--27570336 Score: 141
Period size: 46 Copynumber: 2.8 Consensus size: 46
27570198 GAGTTTGCCC
* ** * * *
27570208 AGGTTCTGAGCTCGTGCATACATTGCAAACTCGAGAATACAAGACT
1 AGGTTCTGAGCTCCTGCATATGTTGCAGACTCGAGAATACAAAAAT
*
27570254 AGGTTCTGAGCTCCTGCATATGTTGCAGACTCGAGAATATAAAAAT
1 AGGTTCTGAGCTCCTGCATATGTTGCAGACTCGAGAATACAAAAAT
** * * **
27570300 ATTTTCTAAGCTCCTGCATTTGTTATAGACTCGAGAA
1 AGGTTCTGAGCTCCTGCATATGTTGCAGACTCGAGAA
27570337 ACCAGAGATA
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (46 bp):
AGGTTCTGAGCTCCTGCATATGTTGCAGACTCGAGAATACAAAAAT
Found at i:27574628 original size:45 final size:45
Alignment explanation
Indices: 27574563--27574656 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
27574553 AACAGATACT
* * *
27574563 CGGTGGATTCAGCACGTAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
27574608 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
27574653 CGGT
1 CGGT
27574657 TCACATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:27574720 original size:51 final size:52
Alignment explanation
Indices: 27574662--27574797 Score: 181
Period size: 50 Copynumber: 2.7 Consensus size: 52
27574652 TCGGTTCACA
* *
27574662 TAGTAGCCTGCACATAGTACTACACATGTGACCATTA-CAATT-TGATACACG
1 TAGTAGCCTACACATAGTACTACACATGTGACCATTATC-ATTCCGATACACG
* * *
27574713 TAGTAGCCTACACATAGTACTACACATGCGACC--TATCATTCCGGTACATG
1 TAGTAGCCTACACATAGTACTACACATGTGACCATTATCATTCCGATACACG
*
27574763 TAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TAGTAGCCTACACATAGTACTACACATGTGACCAT
27574798 CACTTTCACT
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
49 5 0.07
50 38 0.51
51 31 0.42
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (52 bp):
TAGTAGCCTACACATAGTACTACACATGTGACCATTATCATTCCGATACACG
Found at i:27586273 original size:27 final size:27
Alignment explanation
Indices: 27586242--27586419 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27586232 TAAATTGTAC
27586242 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
27586269 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27586295 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27586323 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27586351 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27586378 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27586405 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27586420 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27586356 original size:82 final size:81
Alignment explanation
Indices: 27586243--27586398 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27586233 AAATTGTACA
* *
27586243 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
27586307 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27586324 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
27586389 TGCGAGTTGA
65 TGCGAATTGA
27586399 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27586410 original size:82 final size:81
Alignment explanation
Indices: 27586239--27586419 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
27586229 GATTAAATTG
* *
27586239 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27586304 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27586320 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27586384 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27586402 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27586420 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27588737 original size:71 final size:72
Alignment explanation
Indices: 27588619--27588754 Score: 188
Period size: 71 Copynumber: 1.9 Consensus size: 72
27588609 GTAAGATTTT
*
27588619 TAGCATTAAAATGATCAACATCATAAACTATTGATATGTTTGAGTGAATCATACTTCAAATTTGT
1 TAGCATTAAAATGA-CAACATCATAAACTATTGATATGCTTGAGTGAATCATACTTCAAATTTGT
27588684 TAACATGC
65 TAACATGC
* * *
27588692 TAGCATTAAAAT-A-ATCATCATAAAGCTATTGATATGCCTT-AGTGAATCCTACTTCGAATTTG
1 TAGCATTAAAATGACAACATCATAAA-CTATTGATATG-CTTGAGTGAATCATACTTCAAATTTG
27588754 T
64 T
27588755 CGATTGCTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
70 10 0.18
71 32 0.56
72 3 0.05
73 12 0.21
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (72 bp):
TAGCATTAAAATGACAACATCATAAACTATTGATATGCTTGAGTGAATCATACTTCAAATTTGTT
AACATGC
Found at i:27590328 original size:21 final size:21
Alignment explanation
Indices: 27590299--27590338 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
27590289 CAAAATAATG
27590299 TAGTCTTGACTTTTAACTTGA
1 TAGTCTTGACTTTTAACTTGA
*
27590320 TAGTTTTGACTTTTAACTT
1 TAGTCTTGACTTTTAACTT
27590339 TAGAAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (21 bp):
TAGTCTTGACTTTTAACTTGA
Found at i:27590720 original size:18 final size:19
Alignment explanation
Indices: 27590699--27590747 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
27590689 TTTTTAAATA
27590699 TATAAATA-TTTGAATTTC
1 TATAAATATTTTGAATTTC
27590717 TATAAATATTTTGAATTT-
1 TATAAATATTTTGAATTTC
*
27590735 TAAAAATTATTTT
1 TATAAA-TATTTT
27590748 CAAATTTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 13 0.46
19 15 0.54
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (19 bp):
TATAAATATTTTGAATTTC
Found at i:27592627 original size:24 final size:24
Alignment explanation
Indices: 27592595--27592643 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
27592585 AAACATAAAG
27592595 ACCTATTTGCATTATTTAATTATC
1 ACCTATTTGCATTATTTAATTATC
27592619 ACCTATTTGCATTATTTAATTATC
1 ACCTATTTGCATTATTTAATTATC
27592643 A
1 A
27592644 TTATATGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.49
Consensus pattern (24 bp):
ACCTATTTGCATTATTTAATTATC
Found at i:27601406 original size:46 final size:46
Alignment explanation
Indices: 27601339--27601478 Score: 201
Period size: 46 Copynumber: 3.0 Consensus size: 46
27601329 TCATGGCAAA
*
27601339 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAATCATATTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATATTGAG
* *
27601385 TTGTGAAAAGTAGGTATGGTGTTTCAATG-AGAAAAACCATATTTAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAG-AAAACCATATTGAG
* * * *
27601431 TTGTGAAAAGTAGGTATGATATTTCAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATATTGAG
27601477 TT
1 TT
27601479 ATAATATTGA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
45 2 0.02
46 79 0.95
47 2 0.02
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATATTGAG
Found at i:27607902 original size:28 final size:29
Alignment explanation
Indices: 27607870--27607968 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
27607860 TATAATAAGC
*
27607870 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
27607898 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
27607926 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
27607955 CGCACACTTAGTGC
1 CGCACACTTAGTGC
27607969 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:27611872 original size:56 final size:50
Alignment explanation
Indices: 27611781--27612022 Score: 220
Period size: 50 Copynumber: 4.7 Consensus size: 50
27611771 GGTAAAGAGA
* * *
27611781 TCCCATGTAAGACAATGTTTGGGACATGGCATTGGCATCATTGAGATCATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAAAGG
* * *
27611837 TCCCATGTAAGACCACGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGG
* *
27611887 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAA-C
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA-AAGG
* * * * * * **
27611937 TCCCATGTAAGACCATATATGGGATATGGCACTGGTA--GTACATGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAAAGG
* * *
27611986 TCCCATGTAAGACTATGTCTGGGACATGACTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
27612023 TGTTATTATC
Statistics
Matches: 157, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
48 3 0.02
49 34 0.22
50 82 0.52
51 1 0.01
53 3 0.02
55 1 0.01
56 33 0.21
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGG
Found at i:27614535 original size:46 final size:46
Alignment explanation
Indices: 27614464--27614557 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
27614454 CCATGGCAAA
* *
27614464 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACCGAG
* *
27614510 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACCATACCGAG
1 TTGTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACCGAG
27614556 TT
1 TT
27614558 ATAGTATTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.29
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACCGAG
Found at i:27615904 original size:20 final size:19
Alignment explanation
Indices: 27615879--27615916 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
27615869 GTTTTTACAT
*
27615879 ATATTAATGAATTTATATAC
1 ATATTAATAAATTT-TATAC
27615899 ATATTAATAAATTTTATA
1 ATATTAATAAATTTTATA
27615917 TTTTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
ATATTAATAAATTTTATAC
Found at i:27618700 original size:18 final size:18
Alignment explanation
Indices: 27618677--27618728 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
27618667 AAAATCAGTA
27618677 GAAAAATTCAAAAAAATT
1 GAAAAATTCAAAAAAATT
* * *
27618695 GAAAAATACAAAATTAAGT
1 GAAAAATTCAAAA-AAATT
27618714 -AAAAATT-AAAAAAAT
1 GAAAAATTCAAAAAAAT
27618729 ATTCAGCGGG
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 2 0.07
17 4 0.15
18 18 0.67
19 3 0.11
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (18 bp):
GAAAAATTCAAAAAAATT
Found at i:27619804 original size:18 final size:20
Alignment explanation
Indices: 27619770--27619818 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
27619760 AAAGGAAGAC
*
27619770 AGAAAAAGA-AGTCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
27619788 AGAAAAAGAGAAT-AAAAAG
1 AGAAAAAGAGAATCAAAAAG
27619807 AGCAAAAAGAGA
1 AG-AAAAAGAGA
27619819 TTGAGAGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 14 0.52
19 4 0.15
20 9 0.33
ACGTcount: A:0.71, C:0.04, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:27626324 original size:2 final size:2
Alignment explanation
Indices: 27626317--27626343 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27626307 CAGGTTTTGC
27626317 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
27626344 ATATTTTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:27641688 original size:27 final size:27
Alignment explanation
Indices: 27641657--27641834 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27641647 TAAATTGTAC
27641657 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
27641684 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27641710 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27641738 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27641766 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27641793 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27641820 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27641835 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27641771 original size:82 final size:81
Alignment explanation
Indices: 27641658--27641813 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27641648 AAATTGTACA
* *
27641658 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
27641722 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27641739 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
27641804 TGCGAGTTGA
65 TGCGAATTGA
27641814 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27641825 original size:82 final size:81
Alignment explanation
Indices: 27641654--27641834 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
27641644 GATTAAATTG
* *
27641654 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27641719 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27641735 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27641799 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27641817 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27641835 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27646342 original size:41 final size:41
Alignment explanation
Indices: 27646312--27646428 Score: 198
Period size: 41 Copynumber: 2.9 Consensus size: 41
27646302 GCAATTAGCT
* *
27646312 TGCTAGACATAAAGTGTGAAATATTTCACCGGCATCAAGCC
1 TGCTAGACATAAAGTCTGAAACATTTCACCGGCATCAAGCC
*
27646353 TGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCAAGCC
1 TGCTAGACATAAAGTCTGAAACATTTCACCGGCATCAAGCC
*
27646394 TGCTAGACATAAAGTCTGAAACATTTCACCAGCAT
1 TGCTAGACATAAAGTCTGAAACATTTCACCGGCAT
27646429 ATATATCTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (41 bp):
TGCTAGACATAAAGTCTGAAACATTTCACCGGCATCAAGCC
Found at i:27653391 original size:68 final size:70
Alignment explanation
Indices: 27653249--27653399 Score: 189
Period size: 71 Copynumber: 2.2 Consensus size: 70
27653239 ATTGTCAAGA
* * * *
27653249 ATTAAAACCGAATGCATATACTCTATAAACATGAATCGCCGAATGCATATATACATATATGCATG
1 ATTAAAACCAAATGCATATACACTATAAACATGAATAGCCGAATGCATATATACA-ATATGCATA
27653314 ACAAAT
65 ACAAAT
* * * * *
27653320 ATTAGAACCAAATGTATATACACTTTAAACAT-ATTAGCCGAATGCATATATAC-ATATGCTTAA
1 ATTAAAACCAAATGCATATACACTATAAACATGAATAGCCGAATGCATATATACAATATGCATAA
27653383 CAAAT
66 CAAAT
*
27653388 ATTATAACCAAA
1 ATTAAAACCAAA
27653400 AGTGTACCTG
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
68 24 0.34
70 19 0.27
71 27 0.39
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.28
Consensus pattern (70 bp):
ATTAAAACCAAATGCATATACACTATAAACATGAATAGCCGAATGCATATATACAATATGCATAA
CAAAT
Found at i:27653898 original size:41 final size:41
Alignment explanation
Indices: 27653853--27653953 Score: 157
Period size: 41 Copynumber: 2.5 Consensus size: 41
27653843 ACCAACAATT
* *
27653853 AGCCTGCTAGACGTAAAGTCTAAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTAAAACATTTCACCGACATCA
* *
27653894 AGCCTGCAAGACGTAAAGTCTGAAACATTTCACCGACATCA
1 AGCCTGCTAGACGTAAAGTCTAAAACATTTCACCGACATCA
*
27653935 AGCTTGCTAGACGTAAAGT
1 AGCCTGCTAGACGTAAAGT
27653954 TTGAATTATC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.23
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTAAAACATTTCACCGACATCA
Found at i:27657374 original size:13 final size:13
Alignment explanation
Indices: 27657356--27657382 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27657346 CATGCATATT
27657356 CATACATTATTTG
1 CATACATTATTTG
27657369 CATACATTATTTG
1 CATACATTATTTG
27657382 C
1 C
27657383 TTGAGGACAA
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:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (13 bp):
CATACATTATTTG
Found at i:27660557 original size:244 final size:251
Alignment explanation
Indices: 27660147--27660620 Score: 622
Period size: 244 Copynumber: 1.9 Consensus size: 251
27660137 ATATATTGCA
* * *
27660147 TATTATTATATATTATTGTTTATCATTATACTAGTTAAATTGTGCACCAAGTCCTTATACTTTTC
1 TATTATTATATATTAATGTTTATCATTATACTAGTTAAATTATGCACAAAGTCCTTATACTTTTC
* * * * * *
27660212 TTACATCTGAAAGTTAGCCTTTCTACTGTATTATGTAATGATATATCATATCATATCATATCATA
66 ATACATCTGAAAGTTAGCCATCCTACTATATTATATAATGATATATCA-ATCA-ATCATATAATA
* *
27660277 TATTATTAATTTATATATATGCATCAATGATTAAACATTAAAATACCATGCAATACTATATCTTT
129 TATTAATAATTTATATATATGCATAAATGATTAAACATTAAAATACCATGCAATACTATATCTTT
*
27660342 TATTGTAATGTATA-T-T-ATAATAATTATATATAATAGTAGTACATTGTCTATTACT
194 TATTATAATGTATATTGTAATAATAATTATATATAATAGTAGTACATTGTCTATTACT
* * * * **
27660397 TATTTTTATATATTAAT-TTTATTATTGTACTAGTTGAAA-TATGCTCAAAGTCCTTATGTTTTT
1 TATTATTATATATTAATGTTTATCATTATACTAGTT-AAATTATGCACAAAGTCCTTATACTTTT
* * *
27660460 CATACATTTGAAAGTTAGTCATCCTACTATATTATATAATGCTATATC-A-C-ATCATATAATAT
65 CATACATCTGAAAGTTAGCCATCCTACTATATTATATAATGATATATCAATCAATCATATAATAT
* * * *
27660522 ATTAATAGTTTATATATATGCATAAATGATTAAACATTATAATATCATGTAATACTATATCTTTT
130 ATTAATAATTTATATATATGCATAAATGATTAAACATTAAAATACCATGCAATACTATATCTTTT
* *
27660587 GTTATAATTTATATTGTAATAATAATTATATATA
195 ATTATAATGTATATTGTAATAATAATTATATATA
27660621 TTATATTTTT
Statistics
Matches: 193, Mismatches: 27, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
244 80 0.41
245 1 0.01
246 2 0.01
247 17 0.09
249 75 0.39
250 18 0.09
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (251 bp):
TATTATTATATATTAATGTTTATCATTATACTAGTTAAATTATGCACAAAGTCCTTATACTTTTC
ATACATCTGAAAGTTAGCCATCCTACTATATTATATAATGATATATCAATCAATCATATAATATA
TTAATAATTTATATATATGCATAAATGATTAAACATTAAAATACCATGCAATACTATATCTTTTA
TTATAATGTATATTGTAATAATAATTATATATAATAGTAGTACATTGTCTATTACT
Found at i:27660657 original size:27 final size:27
Alignment explanation
Indices: 27660606--27660715 Score: 82
Period size: 28 Copynumber: 3.8 Consensus size: 27
27660596 TATATTGTAA
27660606 TAATAATTATATA-TAT-TATATTTTTAG
1 TAATAATTATATATTATAT-TA-TTTTAG
27660633 TAATAATTATATATTATATTATTTTATG
1 TAATAATTATATATTATATTATTTTA-G
27660661 TATTAGTAATAGTTATATATTATATTATATTATAG
1 TA--A-T-A-A-TTATATATTATATTAT-TT-TAG
* *
27660696 T-ATTACTATATATTATATTA
1 TAATAATTATATATTATATTA
27660716 CCATTGAAGT
Statistics
Matches: 70, Mismatches: 2, Indels: 21
0.75 0.02 0.23
Matches are distributed among these distances:
27 18 0.26
28 22 0.31
29 2 0.03
30 1 0.01
31 2 0.03
32 2 0.03
33 1 0.01
34 16 0.23
35 4 0.06
36 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.55
Consensus pattern (27 bp):
TAATAATTATATATTATATTATTTTAG
Found at i:27660667 original size:34 final size:34
Alignment explanation
Indices: 27660603--27660713 Score: 120
Period size: 34 Copynumber: 3.3 Consensus size: 34
27660593 ATTTATATTG
* * *
27660603 TAATAATA-ATTATATATATTATAT-TTTTAGTAA
1 TAATTATATATTATAT-TATTTTATGTATTAGTAA
27660636 TAATTATATATTATATTATTTTATGTATTAGTAA
1 TAATTATATATTATATTATTTTATGTATTAGTAA
* * *
27660670 TAGTTATATATTATATTATATTATAGTATTACT-A
1 TAATTATATATTATATTATTTTAT-GTATTAGTAA
27660704 TATATTATAT
1 TA-ATTATAT
27660714 TACCATTGAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
33 14 0.21
34 40 0.60
35 13 0.19
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.54
Consensus pattern (34 bp):
TAATTATATATTATATTATTTTATGTATTAGTAA
Found at i:27660810 original size:16 final size:17
Alignment explanation
Indices: 27660789--27660821 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
27660779 ATAATTATAG
27660789 TATTAAA-AATATTTTA
1 TATTAAATAATATTTTA
27660805 TATTAAATTAATATTTT
1 TATTAAA-TAATATTTT
27660822 TAAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTAAATAATATTTTA
Found at i:27662427 original size:13 final size:13
Alignment explanation
Indices: 27662409--27662453 Score: 63
Period size: 13 Copynumber: 3.2 Consensus size: 13
27662399 AAATTGGGAA
27662409 TTTGTTAATAACG
1 TTTGTTAATAACG
27662422 TTTGTTAATAACG
1 TTTGTTAATAACG
27662435 TAATTTGTTAATAACG
1 ---TTTGTTAATAACG
27662451 TTT
1 TTT
27662454 CCGTAATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 16 0.55
16 13 0.45
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (13 bp):
TTTGTTAATAACG
Found at i:27662443 original size:16 final size:16
Alignment explanation
Indices: 27662407--27662451 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
27662397 TGAAATTGGG
27662407 AATTTGTTAATAACG-
1 AATTTGTTAATAACGT
27662422 --TTTGTTAATAACGT
1 AATTTGTTAATAACGT
27662436 AATTTGTTAATAACGT
1 AATTTGTTAATAACGT
27662452 TTCCGTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 13 0.48
16 14 0.52
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (16 bp):
AATTTGTTAATAACGT
Found at i:27676337 original size:28 final size:28
Alignment explanation
Indices: 27676272--27676370 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
27676262 CATGAGATTG
* * *
27676272 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
27676301 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
27676329 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
27676357 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
27676371 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:27680174 original size:51 final size:50
Alignment explanation
Indices: 27680116--27680219 Score: 147
Period size: 50 Copynumber: 2.1 Consensus size: 50
27680106 AAACATGTTA
* *
27680116 GTTATAATT-ATTTTTGGAAAGCATATAACATTTTTTTAATACTTTCCATAT
1 GTTATAATTCATTTTTGGAAAGAATATAACA--TGTTTAATACTTTCCATAT
* *
27680167 GTTATAATTCTTTTTTGGAAAGAATATAACATGTTTAATGCTTTCCATAT
1 GTTATAATTCATTTTTGGAAAGAATATAACATGTTTAATACTTTCCATAT
27680217 GTT
1 GTT
27680220 CTCTAGAGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
50 20 0.42
51 9 0.19
52 19 0.40
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.48
Consensus pattern (50 bp):
GTTATAATTCATTTTTGGAAAGAATATAACATGTTTAATACTTTCCATAT
Found at i:27687790 original size:41 final size:41
Alignment explanation
Indices: 27687656--27687804 Score: 113
Period size: 41 Copynumber: 3.6 Consensus size: 41
27687646 AATTATACCT
* * * * * * * *
27687656 TGAATTACACGTACATGCCCCTGTTTGTACGTCAGTAGCCT
1 TGAATGACACATACGTGCTCCTGTTTGTACTTGAGTACCCC
* * * * *
27687697 TAAATTACAAATACGTGCTCCTTTTTGTACTTTAGTACCCC
1 TGAATGACACATACGTGCTCCTGTTTGTACTTGAGTACCCC
* * *
27687738 TGATTTACACATATGTGCTCCTGTTTGTACTTCGA-TACCCC
1 TGAATGACACATACGTGCTCCTGTTTGTACTT-GAGTACCCC
*
27687779 TGAATGGCACATACGTGC-CACTGTTT
1 TGAATGACACATACGTGCTC-CTGTTT
27687805 ACATTTTGGT
Statistics
Matches: 86, Mismatches: 20, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
40 1 0.01
41 84 0.98
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.36
Consensus pattern (41 bp):
TGAATGACACATACGTGCTCCTGTTTGTACTTGAGTACCCC
Found at i:27693013 original size:41 final size:40
Alignment explanation
Indices: 27692962--27693070 Score: 164
Period size: 41 Copynumber: 2.7 Consensus size: 40
27692952 TAATTAATTA
*
27692962 TACCCTGAATTGCACATACATGCCCTTATTTGTACTTCGG
1 TACCCTGAATTGCACATACGTGCCCTTATTTGTACTTCGG
*
27693002 TACCCTTGAATTGCACATACGTGCCCTTGTTTGTACTTCGG
1 TACCC-TGAATTGCACATACGTGCCCTTATTTGTACTTCGG
* *
27693043 TACCCCAGAATTACACATACGTGCCCTT
1 TA-CCCTGAATTGCACATACGTGCCCTT
27693071 TTTTACATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 5 0.08
41 55 0.87
42 3 0.05
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (40 bp):
TACCCTGAATTGCACATACGTGCCCTTATTTGTACTTCGG
Found at i:27693030 original size:21 final size:21
Alignment explanation
Indices: 27692967--27693030 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
27692957 AATTATACCC
*
27692967 TGAATTGCACATACATGCCCT
1 TGAATTGCACATACGTGCCCT
* * * *
27692988 T-ATTTGTAC-TTCGGTACCCT
1 TGAATTGCACATAC-GTGCCCT
27693008 TGAATTGCACATACGTGCCCT
1 TGAATTGCACATACGTGCCCT
27693029 TG
1 TG
27693031 TTTGTACTTC
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
19 2 0.06
20 12 0.39
21 15 0.48
22 2 0.06
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.34
Consensus pattern (21 bp):
TGAATTGCACATACGTGCCCT
Found at i:27703771 original size:48 final size:47
Alignment explanation
Indices: 27703649--27704046 Score: 562
Period size: 47 Copynumber: 8.2 Consensus size: 47
27703639 AATTCTAAAT
27703649 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
27703696 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
27703743 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
27703791 TGTGAATAGGGCCTAATGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 TGTG---A-----TAA-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
27703847 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
27703895 TATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
27703944 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*** * * * * * * *
27703991 TGTGACGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
27704038 TGTGATAAG
1 TGTGATAAG
27704047 TCCCGAAGGG
Statistics
Matches: 319, Mismatches: 21, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
47 136 0.43
48 88 0.28
49 48 0.15
50 1 0.00
54 1 0.00
55 3 0.01
56 42 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:27703826 original size:104 final size:99
Alignment explanation
Indices: 27703649--27703995 Score: 534
Period size: 104 Copynumber: 3.5 Consensus size: 99
27703639 AATTCTAAAT
27703649 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--TG--TGATAAGGCCT
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATGATAAGGCCT
27703709 AATGGCCGATGTGATGAATGTGAAAGTGTATATA
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
27703743 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCCTAAT
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAAT---G-ATAA-
*
27703808 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
61 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
27703847 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--T--ATGATAAGGCCT
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATGATAAGGCCT
27703908 AATGGCCGATGTGATGAATGTGAAAGTGTATATATA
66 AATGGCCGATGTGATGAATGTGAAAGTG--TATATA
27703944 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27703996 CGGGGCCGAG
Statistics
Matches: 231, Mismatches: 6, Indels: 26
0.88 0.02 0.10
Matches are distributed among these distances:
94 4 0.02
95 75 0.32
96 45 0.19
97 13 0.06
98 1 0.00
99 1 0.00
100 2 0.01
102 2 0.01
103 3 0.01
104 85 0.37
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (99 bp):
TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:27704222 original size:38 final size:37
Alignment explanation
Indices: 27704165--27704243 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
27704155 CTGAGCTCTA
* *
27704165 AAGACCCGATGACTACGTGTGG-GAATTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-A-TTATGTCCGGGT
*
27704203 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
27704240 AAGA
1 AAGA
27704244 TTTTGTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 15 0.41
38 21 0.57
39 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:27709213 original size:17 final size:18
Alignment explanation
Indices: 27709190--27709234 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
27709180 TAGTTGTCAC
27709190 ATGAATTAAATT-ATTTG
1 ATGAATTAAATTAATTTG
* *
27709207 TTGAATTAATTTAATTTG
1 ATGAATTAAATTAATTTG
27709225 AT-AATTAAAT
1 ATGAATTAAAT
27709235 ATTAAACACA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (18 bp):
ATGAATTAAATTAATTTG
Found at i:27709424 original size:137 final size:137
Alignment explanation
Indices: 27709283--27709598 Score: 499
Period size: 137 Copynumber: 2.3 Consensus size: 137
27709273 TAGAGAACAT
* * * * *
27709283 AGATAAAATTAATATATGAATTTGATTTATGCAAAATATTTATTGTTTATATTTTACTGAATTTA
1 AGATATAATTAATATATGAATTTGATTCATACAAAATATTTATTGTATATATTTTACCGAATTTA
* * *
27709348 TTAATATAAATGGTTATATTAATTAATTTCATTCAAAATATAAAAGACATGGAAATTAATATTCT
66 TTAATATAAATAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATATT-T
27709413 -TTTGGAA
130 ATTTGGAA
* * *
27709420 AGATATAATTAATATATGAATTTGATTCAAATAAAATATTAATTGTATATATTTTACCGAATTTA
1 AGATATAATTAATATATGAATTTGATTCATACAAAATATTTATTGTATATATTTTACCGAATTTA
*
27709485 TTAATATAAATAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTTA
66 TTAATATAAATAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATATTTA
27709550 TTTGGAA
131 TTTGGAA
27709557 AGAATATAATTAATATATGAATTTGATTCATACAAAATATTT
1 AG-ATATAATTAATATATGAATTTGATTCATACAAAATATTT
27709599 GACTAAATTT
Statistics
Matches: 162, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
136 1 0.01
137 125 0.77
138 36 0.22
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (137 bp):
AGATATAATTAATATATGAATTTGATTCATACAAAATATTTATTGTATATATTTTACCGAATTTA
TTAATATAAATAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATATTTA
TTTGGAA
Found at i:27709801 original size:76 final size:76
Alignment explanation
Indices: 27709668--27709817 Score: 212
Period size: 76 Copynumber: 2.0 Consensus size: 76
27709658 ATAGAAATTA
* * * *
27709668 ATATTCTTTTGGAAAGAAAATAATTCCTTTTTCTAACTTTTCATTTGTTTTTTTCTATTAATAAT
1 ATATTCTTTTGGAAAGAAAATAATTCCTTTTTCTAACTTTCCATTTGTTCTTCTCTATTAATAAG
27709733 GGAATAATCCT
66 GGAATAATCCT
* ** *
27709744 ATATTCTTTTGGAAAGAATATAACTTTTTTTTTCTAACTTTCCATTTG-TCTTCTCTATTAATGA
1 ATATTCTTTTGGAAAGAAAATAA-TTCCTTTTTCTAACTTTCCATTTGTTCTTCTCTATTAATAA
27709808 GGGAATAATC
65 GGGAATAATC
27709818 TTGGTTTTCC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
76 44 0.68
77 21 0.32
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (76 bp):
ATATTCTTTTGGAAAGAAAATAATTCCTTTTTCTAACTTTCCATTTGTTCTTCTCTATTAATAAG
GGAATAATCCT
Found at i:27729966 original size:4 final size:4
Alignment explanation
Indices: 27729953--27729981 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
27729943 TGGTTTTTTG
27729953 AATT -ATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AA
27729982 AGTTCAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:27736256 original size:23 final size:22
Alignment explanation
Indices: 27736213--27736256 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
27736203 TTCTAAGTCG
27736213 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
27736236 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
27736257 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:27739345 original size:57 final size:58
Alignment explanation
Indices: 27739246--27739366 Score: 149
Period size: 57 Copynumber: 2.1 Consensus size: 58
27739236 TCATTTTCAT
* *
27739246 TTTTCATTTTCATTGTGGAGACAACCACAATTATTTTCAAATG-ATTCAATTTCTCCA
1 TTTTCATTTTCATTGTGGAGAAAACCACAATTAGTTTCAAATGTATTCAATTTCTCCA
* * * *
27739303 TTTTC-TTTTCCATTTTGGAGAAAACCATAA-TAGTTTCTAAATGTTTTCCATTTCTCCA
1 TTTTCATTTT-CATTGTGGAGAAAACCACAATTAGTTTC-AAATGTATTCAATTTCTCCA
27739361 TTTTCA
1 TTTTCA
27739367 CCATCTTCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
56 10 0.19
57 27 0.50
58 17 0.31
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.45
Consensus pattern (58 bp):
TTTTCATTTTCATTGTGGAGAAAACCACAATTAGTTTCAAATGTATTCAATTTCTCCA
Found at i:27743706 original size:38 final size:38
Alignment explanation
Indices: 27743655--27743769 Score: 167
Period size: 38 Copynumber: 3.0 Consensus size: 38
27743645 TGTATGAAAC
* *
27743655 TGCTACTCGTAAACATGAGTTATGTATTATTTGGGAAT
1 TGCTACTCGTAAACACGAGTCATGTATTATTTGGGAAT
* **
27743693 TGCTACTCGTAAACACGAGTCAAGTATTATTTGGGACC
1 TGCTACTCGTAAACACGAGTCATGTATTATTTGGGAAT
* *
27743731 TGCTACTCGTAAATACGAGTCATGTATTATTTTGGAAT
1 TGCTACTCGTAAACACGAGTCATGTATTATTTGGGAAT
27743769 T
1 T
27743770 TAGATGAACC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (38 bp):
TGCTACTCGTAAACACGAGTCATGTATTATTTGGGAAT
Found at i:27748685 original size:40 final size:40
Alignment explanation
Indices: 27748630--27748840 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
27748620 ATTTGAATGA
*
27748630 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
27748670 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
27748710 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
27748750 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
27748790 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
27748830 TATCC-GGCTAA
1 TATCCGGGCTAA
27748841 ATTCCGAAGA
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.04
40 146 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:27751242 original size:6 final size:6
Alignment explanation
Indices: 27751231--27751260 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
27751221 CATAATATAA
27751231 TTAATT TTAATT TTAATT TTAATT TTAATT
1 TTAATT TTAATT TTAATT TTAATT TTAATT
27751261 CAATTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTAATT
Found at i:27773413 original size:19 final size:20
Alignment explanation
Indices: 27773386--27773423 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
27773376 AGCACTTTTA
*
27773386 TTATGTTTTAG-TTAAATTT
1 TTATATTTTAGTTTAAATTT
27773405 TTATATTTTAGTTTAAATT
1 TTATATTTTAGTTTAAATT
27773424 AAATAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (20 bp):
TTATATTTTAGTTTAAATTT
Found at i:27774821 original size:17 final size:17
Alignment explanation
Indices: 27774801--27774845 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
27774791 AAATTATAAA
27774801 TATTTTTCTTA-TTTTCT
1 TATTTTTCTTACTTTT-T
*
27774818 TATTTTTACTAACTTTTT
1 TATTTTT-CTTACTTTTT
27774836 TATTTTTCTT
1 TATTTTTCTT
27774846 TTTGGTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 9 0.38
18 11 0.46
19 4 0.17
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTTTCTTACTTTTT
Found at i:27777434 original size:136 final size:138
Alignment explanation
Indices: 27777283--27777564 Score: 408
Period size: 138 Copynumber: 2.1 Consensus size: 138
27777273 GAGAACATAG
* * * *
27777283 ATATAATTAATATATGAATTTGTTTCATACAAAATATTAA-T-TATATATATTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATCCAAACAAAATATTAATTGTATATATATTAACGAATTTATT
* * *
27777346 AATATTAACAGTTATATTAATTAATTTCAATCAAAATATAAAATA-AATGGAAATTAATATTCTT
66 AATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGATAA-GGAAATTAATATTCTT
* *
27777410 TTGGAAATA
130 TTGAAAAAA
*** * *
27777419 ATATAATTAATATATGAATTTGATCCAAATGGAATATTAATTGTATATATTTTAATGAATTTATT
1 ATATAATTAATATATGAATTTGATCCAAACAAAATATTAATTGTATATATATTAACGAATTTATT
27777484 AATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGATAAGGAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGATAAGGAAATTAATATTCTTT
27777549 TGAAAAAA
131 TGAAAAAA
27777557 ATATAATT
1 ATATAATT
27777565 CACTACAGCA
Statistics
Matches: 129, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
136 34 0.26
137 1 0.01
138 92 0.71
139 2 0.02
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATCCAAACAAAATATTAATTGTATATATATTAACGAATTTATT
AATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGATAAGGAAATTAATATTCTTT
TGAAAAAA
Found at i:27777668 original size:40 final size:39
Alignment explanation
Indices: 27777614--27777778 Score: 172
Period size: 40 Copynumber: 4.1 Consensus size: 39
27777604 CGTTTGGATA
* *
27777614 AAAAACGCCACTATAGATCGAGCATTAGCGGCATTTCTTG
1 AAAAACACCGCTATAGATCGAGCATTAGCGGCATTT-TTG
* *
27777654 AAAAACACCGCTATAGATCAAGCATTATCGACGCA-TTTTG
1 AAAAACACCGCTATAGATCGAGCATTAGCG--GCATTTTTG
* * * *
27777694 AAAAACGCCGCTATAGATCGAGCATTAACAGCATTTTTCA
1 AAAAACACCGCTATAGATCGAGCATTAGCGGCATTTTT-G
* *
27777734 AAAAACACCGCTATAGGTCGACCATTAGCGACGC-TTTTTG
1 AAAAACACCGCTATAGATCGAGCATTAGCG--GCATTTTTG
27777774 AAAAA
1 AAAAA
27777779 TGCCGCAAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 12
0.79 0.11 0.09
Matches are distributed among these distances:
38 3 0.03
39 4 0.04
40 85 0.82
41 7 0.07
42 5 0.05
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.24
Consensus pattern (39 bp):
AAAAACACCGCTATAGATCGAGCATTAGCGGCATTTTTG
Found at i:27777708 original size:80 final size:80
Alignment explanation
Indices: 27777614--27777784 Score: 236
Period size: 80 Copynumber: 2.1 Consensus size: 80
27777604 CGTTTGGATA
* * * * *
27777614 AAAAACGCCACTATAGATCGAGCATTAGCGGCATTTCTT-GAAAAACACCGCTATAGATCAAGCA
1 AAAAACGCCGCTATAGATCGAGCATTAACAGCATTT-TTCAAAAAACACCGCTATAGATCAACCA
*
27777678 TTATCGACGCATTTTG
65 TTAGCGACGCATTTTG
* *
27777694 AAAAACGCCGCTATAGATCGAGCATTAACAGCATTTTTCAAAAAACACCGCTATAGGTCGACCAT
1 AAAAACGCCGCTATAGATCGAGCATTAACAGCATTTTTCAAAAAACACCGCTATAGATCAACCAT
*
27777759 TAGCGACGCTTTTTG
66 TAGCGACGCATTTTG
*
27777774 AAAAATGCCGC
1 AAAAACGCCGC
27777785 AAAAAAATTA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
79 2 0.03
80 78 0.98
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (80 bp):
AAAAACGCCGCTATAGATCGAGCATTAACAGCATTTTTCAAAAAACACCGCTATAGATCAACCAT
TAGCGACGCATTTTG
Found at i:27777885 original size:40 final size:40
Alignment explanation
Indices: 27777839--27777935 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
27777829 GGCATTAGCT
* *
27777839 GCGCTTTTTGAAAAATGCCGCTATAGATCGAGCATTAATG
1 GCGCTTTTTGAAAAATGCCGCTATAGATCGACCATTAACG
* * * * *
27777879 GCGCTTTTTGAAAAACGTCGCTATAGGTTGACCATTAGCG
1 GCGCTTTTTGAAAAATGCCGCTATAGATCGACCATTAACG
*
27777919 GTGCTTTTTGAAAAATG
1 GCGCTTTTTGAAAAATG
27777936 GCGCAAAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (40 bp):
GCGCTTTTTGAAAAATGCCGCTATAGATCGACCATTAACG
Found at i:27777957 original size:155 final size:155
Alignment explanation
Indices: 27777689--27777980 Score: 444
Period size: 155 Copynumber: 1.9 Consensus size: 155
27777679 TATCGACGCA
27777689 TTTTGAAAAACGCCGCTATAGATCGAGCATTAACAGCATTTTTCAAAAAACACCGCTATAGGTCG
1 TTTTGAAAAACGCCGCTATAGATCGAGCATTAACAGCATTTTTCAAAAAACACCGCTATAGGTCG
*
27777754 ACCATTAGCGACGCTTTTTGAAAAATGCCGCAAAAAAATTAAGCACAAC-GCAGTCGTTTTATGT
66 ACCATTAGCGACGCTTTTTGAAAAATGCCGCAAAAAAATTAAGCACAACACCA-TCGTTTTATGT
27777818 TGAGCTTTAGTGGCATTAGCTGCGCT
130 TGAGCTTTAGTGGCATTAGCTGCGCT
* ** * * ** *
27777844 TTTTGAAAAATGCCGCTATAGATCGAGCATTAATGGCGCTTTTT-GAAAAACGTCGCTATAGGTT
1 TTTTGAAAAACGCCGCTATAGATCGAGCATTAACAGC-ATTTTTCAAAAAACACCGCTATAGGTC
** *
27777908 GACCATTAGCGGTGCTTTTTGAAAAATGGCGCAAAAAAATTAAGCACAACACCATCGTTTTATGT
65 GACCATTAGCGACGCTTTTTGAAAAATGCCGCAAAAAAATTAAGCACAACACCATCGTTTTATGT
27777973 TGAGCTTT
130 TGAGCTTT
27777981 GTGTTTATTT
Statistics
Matches: 123, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
155 116 0.94
156 7 0.06
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (155 bp):
TTTTGAAAAACGCCGCTATAGATCGAGCATTAACAGCATTTTTCAAAAAACACCGCTATAGGTCG
ACCATTAGCGACGCTTTTTGAAAAATGCCGCAAAAAAATTAAGCACAACACCATCGTTTTATGTT
GAGCTTTAGTGGCATTAGCTGCGCT
Found at i:27778188 original size:12 final size:12
Alignment explanation
Indices: 27778171--27778195 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27778161 TTGATTACCG
27778171 TATTCTTCAAAA
1 TATTCTTCAAAA
27778183 TATTCTTCAAAA
1 TATTCTTCAAAA
27778195 T
1 T
27778196 GAAGGAAAGG
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TATTCTTCAAAA
Found at i:27780865 original size:43 final size:43
Alignment explanation
Indices: 27780818--27781058 Score: 290
Period size: 43 Copynumber: 5.6 Consensus size: 43
27780808 CAACATTTTT
27780818 GATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGC
1 GATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGC
* * * *
27780861 GATAAAAGCGCCACTAAAGGTCATATTCTTTAACGGTGTTTGC
1 GATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGC
**
27780904 GATAAAAGCGCTACTAAAGGTCATGTTCTTTAGCGGCGTTTGC
1 GATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGC
* * * * **
27780947 GATAAAAGAGCCGCTAAAGATCATGTT-TTATAGTGACGTTTAT
1 GATAAAAGCGCCGCTAAAGGTCATGTTCTT-TAGCGGCGTTTGC
* * * *
27780990 GAGT-AAAGCGCCGCTAATGGTTATGTTCTTTAGTGGCGTTT-T
1 GA-TAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGC
*
27781032 TATAAAAGCGCCGCTAAAGGTCATGTT
1 GATAAAAGCGCCGCTAAAGGTCATGTT
27781059 TTAGAGCAGC
Statistics
Matches: 170, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 25 0.15
43 141 0.83
44 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
GATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGC
Found at i:27804295 original size:40 final size:40
Alignment explanation
Indices: 27804240--27804593 Score: 582
Period size: 40 Copynumber: 8.8 Consensus size: 40
27804230 ATTTGAATAC
*
27804240 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
*
27804280 ATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
27804320 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATAT
*
27804362 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
27804402 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATAT
27804444 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
27804484 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
27804524 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
27804564 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
27804594 TTGTGGTTAT
Statistics
Matches: 296, Mismatches: 14, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
40 217 0.73
42 79 0.27
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
Found at i:27804397 original size:82 final size:80
Alignment explanation
Indices: 27804240--27804593 Score: 582
Period size: 82 Copynumber: 4.4 Consensus size: 80
27804230 ATTTGAATAC
27804240 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
*
27804305 TGTGCCAGTTGATAT
66 TGTGCGAGTTGATAT
*
27804320 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATATATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG--ATATATCCGGGCTAAGACCCGAAGGCA
*
27804385 TTTGTGCAAGTTGATAT
64 TTTGTGCGAGTTGATAT
*
27804402 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATATATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG--ATATATCCGGGCTAAGACCCGAAGGCA
27804467 TTTGTGCGAGTTGATAT
64 TTTGTGCGAGTTGATAT
*
27804484 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
* *
27804549 CGTGCGAGTTGCTAT
66 TGTGCGAGTTGATAT
* * *
27804564 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
27804594 TTGTGGTTAT
Statistics
Matches: 263, Mismatches: 9, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
80 105 0.40
82 158 0.60
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGTTGATAT
Found at i:27804484 original size:122 final size:122
Alignment explanation
Indices: 27804232--27804593 Score: 622
Period size: 122 Copynumber: 3.0 Consensus size: 122
27804222 GCATGAGCAT
*
27804232 TTGAATACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCG
1 TTGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCG
*
27804297 AAGGCATTTGTGCCAGTTG-ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
66 AAGGCATTTGTGCGAGTTGCATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
27804353 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
1 TTGA-ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
27804418 GAAGGCATTTGTGCGAGTTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
65 GAAGGCATTTGTGCGAGTTG-CATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
27804477 TTG-ATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCG
1 TTGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCG
* * * *
27804541 AAGGCATTCGTGCGAGTTGC-TATACCCGGGTTAAGACCCGAAGGCAATTGTGC
66 AAGGCATTTGTGCGAGTTGCATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
27804594 TTGTGGTTAT
Statistics
Matches: 231, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
120 30 0.13
121 5 0.02
122 156 0.68
124 40 0.17
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (122 bp):
TTGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCG
AAGGCATTTGTGCGAGTTGCATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:27806098 original size:27 final size:25
Alignment explanation
Indices: 27806068--27806131 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
27806058 CGACCCATAA
27806068 CTCGTGTGAGCAGGCCCATTTTCACAG
1 CTCGTGTGAGCAGGCCCA--TTCACAG
** **
27806095 CTCGTGTGAGCATTCTGATTCACAG
1 CTCGTGTGAGCAGGCCCATTCACAG
27806120 CTCGTGTGAGCA
1 CTCGTGTGAGCA
27806132 TACATGTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 19 0.58
27 14 0.42
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.28
Consensus pattern (25 bp):
CTCGTGTGAGCAGGCCCATTCACAG
Found at i:27811500 original size:56 final size:50
Alignment explanation
Indices: 27811467--27811610 Score: 202
Period size: 49 Copynumber: 2.9 Consensus size: 50
27811457 TATTGAGGCT
*
27811467 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGCACCGAG
*
27811517 ATGAGAGGTCCC-CGTAAGACCATGTCTAGGACATGGCA-TGTGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTG-GCACCGAG
** * * *
27811566 ATGAGAACTCCCATGTAAGACCATGTCTAGGACATGACTTTGGCA
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGCA
27811611 TGTTAGTATC
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
48 2 0.02
49 42 0.50
50 38 0.45
51 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGCACCGAG
Found at i:27821267 original size:28 final size:28
Alignment explanation
Indices: 27821204--27821354 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
27821194 ATATTAAGTC
*
27821204 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
27821231 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
27821259 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
27821287 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
27821315 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
27821344 CGCACACTTAG
1 CGCACACTTAG
27821355 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:27825969 original size:43 final size:42
Alignment explanation
Indices: 27825802--27825970 Score: 150
Period size: 41 Copynumber: 4.0 Consensus size: 42
27825792 CATGGGATTT
* * *
27825802 TCGATATATGTTATCGTCTATGACCACGTCTGGGAC-TTGGCA
1 TCGATATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCA
* * * *
27825844 TCAACT-TGTGTTACGTGTAAGCCCATGTCTGGGACATTGGCA
1 TCGA-TATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * * *
27825886 TCG-TATTTGTTTCGTGTAAGACC-CTATCTAGGACAG-TGGCA
1 TCGATATGTGTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
*
27825927 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCA
27825970 T
1 T
27825971 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 19, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
40 1 0.01
41 48 0.48
42 23 0.23
43 26 0.26
44 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (42 bp):
TCGATATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:27830888 original size:10 final size:10
Alignment explanation
Indices: 27830873--27830919 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
27830863 GAATATGTCG
27830873 AAAATTAATC
1 AAAATTAATC
27830883 AAAATTAATC
1 AAAATTAATC
*
27830893 AAATTTACTAT-
1 AAAATTA--ATC
*
27830904 AAAATTAATT
1 AAAATTAATC
27830914 AAAATT
1 AAAATT
27830920 CAACATGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 2 0.06
10 22 0.69
11 6 0.19
12 2 0.06
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTAATC
Found at i:27832364 original size:19 final size:21
Alignment explanation
Indices: 27832326--27832364 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27832316 GCTAAATAAG
*
27832326 AGAGAAAATAAGTGAAAATGA
1 AGAGAAAATAAATGAAAATGA
27832347 AGAGAAAA-AAAT-AAAATG
1 AGAGAAAATAAATGAAAATG
27832365 TAGAAGAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 3 0.18
21 8 0.47
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.13
Consensus pattern (21 bp):
AGAGAAAATAAATGAAAATGA
Found at i:27833153 original size:24 final size:24
Alignment explanation
Indices: 27833084--27833178 Score: 93
Period size: 24 Copynumber: 4.0 Consensus size: 24
27833074 ATCAAGCTAC
*
27833084 ACATTATGGACAAGCCACTCAATA
1 ACATTATGGTCAAGCCACTCAATA
* * ** *
27833108 ACGTTGT-CCCAAACCACTCAATA
1 ACATTATGGTCAAGCCACTCAATA
*
27833131 GCATTATGGTCAAGCCACTCAATA
1 ACATTATGGTCAAGCCACTCAATA
* * *
27833155 ACGTTGTGGTCTAGCCACTCAATA
1 ACATTATGGTCAAGCCACTCAATA
27833179 TTTCAGTAAA
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
23 17 0.31
24 38 0.69
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (24 bp):
ACATTATGGTCAAGCCACTCAATA
Found at i:27833660 original size:19 final size:21
Alignment explanation
Indices: 27833614--27833660 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
27833604 TCGCGACACC
*
27833614 CCCTATGTTGCAACACTGTAG
1 CCCTGTGTTGCAACACTGTAG
*
27833635 GCCTGTGTTGCAACACTG-A-
1 CCCTGTGTTGCAACACTGTAG
27833654 CCCTGTG
1 CCCTGTG
27833661 CAGCCTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 1 0.04
21 16 0.70
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (21 bp):
CCCTGTGTTGCAACACTGTAG
Found at i:27835976 original size:21 final size:20
Alignment explanation
Indices: 27835931--27835976 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
27835921 AGCGACGAGA
27835931 GGGGA-CAAGGGCATGAAAG
1 GGGGATCAAGGGCATGAAAG
*
27835950 GTGGATCAAGGG-AGTGAAAAG
1 GGGGATCAAGGGCA-TG-AAAG
27835971 GGGGAT
1 GGGGAT
27835977 ATTGGAGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 5 0.23
20 8 0.36
21 9 0.41
ACGTcount: A:0.35, C:0.07, G:0.48, T:0.11
Consensus pattern (20 bp):
GGGGATCAAGGGCATGAAAG
Found at i:27836710 original size:89 final size:90
Alignment explanation
Indices: 27836588--27836774 Score: 324
Period size: 89 Copynumber: 2.1 Consensus size: 90
27836578 ACGTGCAAGG
*
27836588 GGGATGTTTTTTTGTTCTTGTACCATGAAGGAGTTTGAAATGTGGTAAAATACTGAGTGTTTGAG
1 GGGATGTTTTTTTGTTCTTGTACCATGAAGGAGTTGGAAATGTGGTAAAATACTGAGTGTTTGAG
27836653 ATGTGTGGGAGGTTGTGGACGATTT
66 ATGTGTGGGAGGTTGTGGACGATTT
*
27836678 GGGAT-TTTTTTTGTTCTTGTACCATGATGGAGTTGGAAATGTGGTAAAATACTGAGTGTTTGAG
1 GGGATGTTTTTTTGTTCTTGTACCATGAAGGAGTTGGAAATGTGGTAAAATACTGAGTGTTTGAG
* *
27836742 ATGTGTGGGAGGTTGTGGATGGTTT
66 ATGTGTGGGAGGTTGTGGACGATTT
27836767 GGG-TGTTT
1 GGGATGTTT
27836775 GGATCGAGTG
Statistics
Matches: 92, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
88 1 0.01
89 86 0.93
90 5 0.05
ACGTcount: A:0.20, C:0.05, G:0.35, T:0.40
Consensus pattern (90 bp):
GGGATGTTTTTTTGTTCTTGTACCATGAAGGAGTTGGAAATGTGGTAAAATACTGAGTGTTTGAG
ATGTGTGGGAGGTTGTGGACGATTT
Found at i:27841333 original size:39 final size:41
Alignment explanation
Indices: 27841262--27841481 Score: 134
Period size: 40 Copynumber: 5.5 Consensus size: 41
27841252 CTCGTTCAAG
* * * *
27841262 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* *
27841301 TGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* * * * * *
27841341 TGCCTTCGAGACTTAACCCGGAAT-TAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* * * * *
27841381 GGCCTTCGGGACTTAACCCAGAATTA-A-TAACTCGCACAAA
1 TGCCTTCGGGACTTAACCC-GGATTATAGAAACTCACACGAA
** ** *
27841421 TGCCTTC-GGATCTTAGTCCGGA-TATAGTCACTTAGCAC-AA
1 TGCCTTCGGGA-CTTAACCCGGATTATAGAAACTCA-CACGAA
* *
27841461 AGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAACCCGG
27841482 GCAGCATTCA
Statistics
Matches: 146, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
38 2 0.01
39 34 0.23
40 100 0.68
41 10 0.07
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
Found at i:27841354 original size:40 final size:39
Alignment explanation
Indices: 27841299--27841429 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 39
27841289 TAACTCATAC
* *
27841299 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* * *
27841339 AATGCCTTCGAGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
* *
27841379 AAGGCCTTCGGGACTTAACCCAGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
27841419 AATGCCTTCGG
1 AATGCCTTCGG
27841430 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:27841413 original size:80 final size:80
Alignment explanation
Indices: 27841297--27841475 Score: 215
Period size: 80 Copynumber: 2.2 Consensus size: 80
27841287 AGTAACTCAT
* * * *
27841297 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGAGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCAGATATTAAAACTCGCACAAATGCCTTCG-GATCTTAACCCG
*
27841361 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
27841376 ACAAAGGCCTTCGGGACTTAACCCAGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCAGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
27841440 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
27841457 ACAAAGCCTTCGGGACTTA
1 ACAAAGCCTTCGGGACTTA
27841476 GCCCGGGCAG
Statistics
Matches: 87, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 10 0.11
80 66 0.76
81 10 0.11
82 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCAGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:27848640 original size:39 final size:41
Alignment explanation
Indices: 27848569--27848787 Score: 134
Period size: 39 Copynumber: 5.5 Consensus size: 41
27848559 CTCGTTCAAG
* * * *
27848569 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* *
27848608 TGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* * * * *
27848648 TGCCTTC-GGACTTAACCCGGAAT-TAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* * * * * *
27848687 GGCCTTCAGGACTTAACCCGAATTA-A-TAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
** ** *
27848726 TGCCTTC-GGATCTTAGTCCGGA-TATAGTCACTTAGCAC-AA
1 TGCCTTCGGGA-CTTAACCCGGATTATAGAAACTCA-CACGAA
* *
27848766 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
27848788 CAGCATTCAA
Statistics
Matches: 147, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
38 7 0.05
39 84 0.57
40 50 0.34
41 6 0.04
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
Found at i:27848699 original size:79 final size:80
Alignment explanation
Indices: 27848604--27848787 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 80
27848594 AGTAACTCAT
* * *
27848604 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
27848667 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
* **
27848682 ACAAAGGCCTTCAGGACTTAACCC-GAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
27848746 GATATAGTCACTTAGC
65 GATATAGTCACTTAGC
*
27848762 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
27848788 CAGCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
77 4 0.04
78 27 0.30
79 46 0.51
80 12 0.13
81 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:27863569 original size:25 final size:25
Alignment explanation
Indices: 27863541--27863599 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
27863531 TGATGATGGA
27863541 AAAAAGGAAAAGAAAAAGAA-AAGAG
1 AAAAAGGAAAA-AAAAAGAAGAAGAG
*
27863566 AAAAA-GAAAAAGAAAGAAGAAGAG
1 AAAAAGGAAAAAAAAAGAAGAAGAG
*
27863590 GAAAAGGAAA
1 AAAAAGGAAA
27863600 GGCCAAGGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 7 0.23
24 14 0.47
25 9 0.30
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (25 bp):
AAAAAGGAAAAAAAAAGAAGAAGAG
Found at i:27863585 original size:13 final size:12
Alignment explanation
Indices: 27863541--27863586 Score: 65
Period size: 13 Copynumber: 3.7 Consensus size: 12
27863531 TGATGATGGA
*
27863541 AAAAAGGAAAAG
1 AAAAAGAAAAAG
27863553 AAAAAGAAAAGAG
1 AAAAAGAAAA-AG
27863566 AAAAAGAAAAAG
1 AAAAAGAAAAAG
27863578 AAAGAAGAA
1 AAA-AAGAA
27863587 GAGGAAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
12 14 0.45
13 17 0.55
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:27863586 original size:19 final size:20
Alignment explanation
Indices: 27863548--27863600 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
27863538 GGAAAAAAGG
27863548 AAAAGAAAAAGAAA-AGAGA
1 AAAAGAAAAAGAAAGAGAGA
27863567 AAAAGAAAAAGAAAGA-AGA
1 AAAAGAAAAAGAAAGAGAGA
* * *
27863586 AGAGGAAAAGGAAAG
1 AAAAGAAAAAGAAAG
27863601 GCCAAGGCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 29 0.97
20 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAAGAAAGAGAGA
Found at i:27863599 original size:6 final size:6
Alignment explanation
Indices: 27863541--27863586 Score: 65
Period size: 6 Copynumber: 7.3 Consensus size: 6
27863531 TGATGATGGA
*
27863541 AAAAAG GAAAAG AAAAAG AAAAGAG AAAAAG AAAAAG AAAGAAG AA
1 AAAAAG AAAAAG AAAAAG AAAA-AG AAAAAG AAAAAG AAA-AAG AA
27863587 GAGGAAAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
6 25 0.69
7 11 0.31
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:27865016 original size:44 final size:44
Alignment explanation
Indices: 27864953--27865117 Score: 215
Period size: 44 Copynumber: 4.0 Consensus size: 44
27864943 CGATGACCCC
27864953 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
*
27864997 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGTTTGAAAATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
* * *
27865041 AATCCTATCTCCTTGGTCAGTAGTGGAATA-G--G-----TG-A
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
*
27865076 A-TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGT
27865118 GAATCTTACT
Statistics
Matches: 105, Mismatches: 7, Indels: 19
0.80 0.05 0.15
Matches are distributed among these distances:
34 26 0.25
35 3 0.03
36 2 0.02
37 1 0.01
41 1 0.01
42 2 0.02
44 70 0.67
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (44 bp):
AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
Found at i:27865084 original size:34 final size:34
Alignment explanation
Indices: 27865041--27865107 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
27865031 GAAAATTGTA
* *
27865041 AATCCTATCTCCTTGGTCAGTAGTGGAATAGGTG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTG
27865075 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGT
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGT
27865108 TGAAGATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (34 bp):
AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTG
Found at i:27865312 original size:34 final size:34
Alignment explanation
Indices: 27865269--27865335 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
27865259 AGTGAAATAG
*
27865269 ATTGAAGCCAAAACGGCGAATCTTA-CTTCCCTGA
1 ATTGAAGCCAAAACGACGAATCTTATC-TCCCTGA
**
27865303 ATTGAAGCCACGACGACGAATCTTATCTCCCTG
1 ATTGAAGCCAAAACGACGAATCTTATCTCCCTG
27865336 GCGTTAAGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (34 bp):
ATTGAAGCCAAAACGACGAATCTTATCTCCCTGA
Found at i:27865443 original size:151 final size:151
Alignment explanation
Indices: 27865168--27865452 Score: 354
Period size: 151 Copynumber: 1.9 Consensus size: 151
27865158 CTGAGGGCAG
*
27865168 CGAATCTTATCTCCCTAGCATTAAGACTTGAAATAGCTGAAGCAGAGAGGATTAAAGCTGTGGGT
1 CGAATCTTATCTCCCTAGCATTAAGACTTGAAATAGCTGAAGCAGAGAGGATTAAAGCTGTGGGC
*** * * * *
27865233 AGTTAATCCTATCTCTTTGGCATTACAGTGAAATAGATTGAAGCCAAAACGGCGAATCTTACTTC
66 AACGAATCCTATCTCTTTGGCATTACAGTGAAACAGATTAAAGCCAAAACGACGAATCTTACTCC
27865298 CCTGAATTGAAGCCACGACGA
131 CCTGAATTGAAGCCACGACGA
* * * * * * ** * *
27865319 CGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGTTGAAGTGGAGCGGATTGAAGCTGTGGGC
1 CGAATCTTATCTCCCTAGCATTAAGACTTGAAATAGCTGAAGCAGAGAGGATTAAAGCTGTGGGC
* * ** * *
27865384 AACGAATCCTATCTCTTTGGCATTACAGTGGAGCAGATTAAAGCCGCAATGACGGATCTTACTCC
66 AACGAATCCTATCTCTTTGGCATTACAGTGAAACAGATTAAAGCCAAAACGACGAATCTTACTCC
27865449 CCTG
131 CCTG
27865453 GCGGTGTAGT
Statistics
Matches: 110, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
151 110 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (151 bp):
CGAATCTTATCTCCCTAGCATTAAGACTTGAAATAGCTGAAGCAGAGAGGATTAAAGCTGTGGGC
AACGAATCCTATCTCTTTGGCATTACAGTGAAACAGATTAAAGCCAAAACGACGAATCTTACTCC
CCTGAATTGAAGCCACGACGA
Found at i:27865673 original size:201 final size:201
Alignment explanation
Indices: 27865442--27865827 Score: 553
Period size: 201 Copynumber: 1.9 Consensus size: 201
27865432 ATGACGGATC
*
27865442 TTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAACTACGACGACGAATCTAGTTTCCCCAATAT
1 TTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAACTACGACGACGAATCTAGTTTCCCCAACAT
* * * *
27865507 TGCAATT-AAAAAGATTGAAGCCGC-AACGGCAAATTTTACTTCCCTGGCGGTGTAGTGGAGCAG
66 TGCAATTGAAAAAG-TTGAAGCCGCAAACGACAAATTTTACTTCCCTGGCAGTATAGTGGAACAG
* * *
27865570 ATTGAAGCTACGACGGTGAATCTCGTTTCCCGAACATTGCAAT-TAAAAAGATTGAAGCCACAAA
130 ACTGAAGCTACGACGG-CAATCTCGTTTCCCCAACATTGCAATGT-AAAAGATTGAAGCCACAAA
27865634 CAACGAATT
193 CAACGAATT
* * * *
27865643 TTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACAT
1 TTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAACTACGACGACGAATCTAGTTTCCCCAACAT
* *** * *
27865708 TGTAATTGAAGCCGTTGAAGCCGCAAATGACAAATTTTACTTCCCTGGTAGTATAGTGGAACAGA
66 TGCAATTGAAAAAGTTGAAGCCGCAAACGACAAATTTTACTTCCCTGGCAGTATAGTGGAACAGA
*
27865773 CTGAAGCTACGACGGCAATCTTGTTTCCCCAACATTGCAATGTAAAAGATTGAAG
131 CTGAAGCTACGACGGCAATCTCGTTTCCCCAACATTGCAATGTAAAAGATTGAAG
27865828 ATGGCAAGTC
Statistics
Matches: 163, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
201 111 0.68
202 52 0.32
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (201 bp):
TTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAACTACGACGACGAATCTAGTTTCCCCAACAT
TGCAATTGAAAAAGTTGAAGCCGCAAACGACAAATTTTACTTCCCTGGCAGTATAGTGGAACAGA
CTGAAGCTACGACGGCAATCTCGTTTCCCCAACATTGCAATGTAAAAGATTGAAGCCACAAACAA
CGAATT
Found at i:27865684 original size:101 final size:101
Alignment explanation
Indices: 27865442--27865827 Score: 528
Period size: 101 Copynumber: 3.8 Consensus size: 101
27865432 ATGACGGATC
* * * * *
27865442 TTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAACTACGACGACGAATCTAGTTTCCCCAATAT
1 TTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACAT
*
27865507 TGCAATTAAAAAGATTGAAGCCGC-AACGGCAAATT
66 TGCAATTAAAAAGATTGAAGCCGCAAACGACAAATT
* * *
27865542 TTACTTCCCTGGCGGTGTAGTGGAGCAGATTGAAGCTACGACGGTGAATCTCGTTTCCCGAACAT
1 TTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACAT
* * *
27865607 TGCAATTAAAAAGATTGAAGCCACAAACAACGAATT
66 TGCAATTAAAAAGATTGAAGCCGCAAACGACAAATT
27865643 TTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACAT
1 TTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACAT
* *** *
27865708 TGTAATTGAAGCCG-TTGAAGCCGCAAATGACAAATT
66 TGCAATT-AAAAAGATTGAAGCCGCAAACGACAAATT
** * * *
27865744 TTACTTCCCTGGTAGTATAGTGGAACAGACTGAAGCTACGACGGC-AATCTTGTTTCCCCAACAT
1 TTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACAT
27865808 TGCAATGT-AAAAGATTGAAG
66 TGCAAT-TAAAAAGATTGAAG
27865828 ATGGCAAGTC
Statistics
Matches: 250, Mismatches: 32, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
99 2 0.01
100 109 0.44
101 136 0.54
102 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (101 bp):
TTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACAT
TGCAATTAAAAAGATTGAAGCCGCAAACGACAAATT
Found at i:27866416 original size:19 final size:19
Alignment explanation
Indices: 27866392--27866483 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
27866382 AATCTTCAAG
*
27866392 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
*
27866411 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
27866430 GATATGCAATCTTAGGTAT
1 GATATGCAATCTTAGATAT
* *
27866449 GATATGTAATCTTAAATAT
1 GATATGCAATCTTAGATAT
27866468 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
27866484 ATATATGATT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 64 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:27866436 original size:38 final size:38
Alignment explanation
Indices: 27866392--27866506 Score: 158
Period size: 38 Copynumber: 2.9 Consensus size: 38
27866382 AATCTTCAAG
*
27866392 GATATGCAATTTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
* *
27866430 GATATGCAATCTTAGGTATGATATGTAATCTTAAATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
27866468 GATATGCAATCTTAGAATATATGATTTTGTAATCTTAGA
1 GATATGCAATCTTAG---ATATGA-TATGTAATCTTAGA
27866507 GATTTAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 50 0.75
41 5 0.07
42 12 0.18
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.41
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:27869599 original size:68 final size:68
Alignment explanation
Indices: 27869454--27869617 Score: 177
Period size: 68 Copynumber: 2.4 Consensus size: 68
27869444 TTAAAATTTC
* * * *
27869454 TTTAGAAGTAAAAGAATAAATAAGTGAATAATAGATAAAACAAATGTAAACATTATTAAATTTAA
1 TTTAAAAGTAAAAGAAT-AATAAATAAATAATAGATAAAACAAATGTAAACAATATTAAATTTAA
*
27869519 GCAT
65 ACAT
* ** ****
27869523 TTGAAAAGTAAAAGAATAATAAATAAATAAATAGATAAAGTAAATGTTCGTAATATT-AATTTAA
1 TTTAAAAGTAAAAGAATAATAAATAAAT-AATAGATAAAACAAATGTAAACAATATTAAATTTAA
*
27869587 ATAT
65 ACAT
*
27869591 TTTAAAAGTAAAAGAATGATAAATAAA
1 TTTAAAAGTAAAAGAATAATAAATAAA
27869618 AGTAAAAAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
68 43 0.54
69 36 0.46
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.30
Consensus pattern (68 bp):
TTTAAAAGTAAAAGAATAATAAATAAATAATAGATAAAACAAATGTAAACAATATTAAATTTAAA
CAT
Found at i:27871188 original size:45 final size:43
Alignment explanation
Indices: 27871077--27871192 Score: 110
Period size: 45 Copynumber: 2.6 Consensus size: 43
27871067 GCTTCGATCC
* * *
27871077 ACTCCACTGTAATTTCAGGGAGA-AGAGACTTGTAGCTTCAATCT
1 ACTCCACTG-AATTTCAGGGAGATA-AGAATTGTAACTTCAACCT
* * *
27871121 ACTCTACTAGAACTTT-AAGGAGATAAGAATTGGTAATTTCAACCT
1 ACTCCACT-GAA-TTTCAGGGAGATAAGAATT-GTAACTTCAACCT
27871166 ACTCCACTGCAATTTCAGGGAGATAAG
1 ACTCCACTG-AATTTCAGGGAGATAAG
27871193 GTTTGCAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
44 24 0.41
45 34 0.59
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (43 bp):
ACTCCACTGAATTTCAGGGAGATAAGAATTGTAACTTCAACCT
Found at i:27871551 original size:143 final size:143
Alignment explanation
Indices: 27871202--27872040 Score: 1114
Period size: 143 Copynumber: 5.9 Consensus size: 143
27871192 GGTTTGCAAA
* * * * *
27871202 TTGTAGCTTTAATATGTTCCACTGTAATGTTAGGGAAATAAGATTCGC--TCTTCAGTTTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
** * * *
27871265 ACTTTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATTTGCTCCACTACAACTACAGGAAGGTAA
66 ACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAGATAA
*
27871330 GATCTACCATAA-
131 GATCCACCATAAT
* * * * *
27871342 TTGTAGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAATATTCGTTGTCTTCAGTCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * * * **
27871407 ACTGCAACTTCAGGGAGATAAGGCTGGTGACATCAATCTACTCCACTGCAACTTCAAAAAGATAA
66 ACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAGATAA
*
27871472 GATCCGCCATAAT
131 GATCCACCATAAT
* * *
27871485 TTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAGATAAGATTCGTTGTCTTCAGTCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * * *
27871550 ACTGCAACTTTAGGGAGATAAGTCTGGTGGCTTCAATTTGCTCCACTACAACTTCAGAAAGATAA
66 ACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAGATAA
27871615 GATCCACCATAAT
131 GATCCACCATAAT
* * *
27871628 TTGTAGCTTTAAAT-TGTTCCACTACAACGCTAGGGAAATTAGATTCGCTGTCTTCAGTTTGCTC
1 TTGTAGCTTT-AATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTC
* * * * * *
27871692 CGCAGCAACTTTAGAGAGATAATGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATA
65 CACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAGATA
*
27871757 AGATCCACCGTAAT
130 AGATCCACCATAAT
* * ** *
27871771 TTATAGCTTTAATCTCTTCCACTGTTACGCTAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * * *
27871836 GCTGCAACTTCAGGGAGATAAGGTTGGTGGCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAA
66 ACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAGATAA
*
27871901 GATCCACCGTAAT
131 GATCCACCATAAT
* * * *
27871914 TTGTAACTTTAATATGTTCCACTGCAACG-TGAAGGAAATAAGATTCGCTATCTTCAGTCTGCTC
1 TTGTAGCTTTAATCTGTTCCACTGCAACGCT-AGGGAAATAAGATTCGCTGTCTTCAGTCTGCTC
*
27871978 CACTGCAACTTCAGTGAGATAAGGCTGGTGGCTTCAA-CTTGCTCCACTACAACTTCAGGAAGA
65 CACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATC-TGCTCCACTACAACTTCAGGAAGA
27872041 AAATATCTTC
Statistics
Matches: 617, Mismatches: 75, Indels: 11
0.88 0.11 0.02
Matches are distributed among these distances:
140 41 0.07
142 83 0.13
143 490 0.79
144 3 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (143 bp):
TTGTAGCTTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
ACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAGATAA
GATCCACCATAAT
Found at i:27875569 original size:7 final size:7
Alignment explanation
Indices: 27875557--27875594 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
27875547 AAGTTGGTTA
27875557 TTAGGGT
1 TTAGGGT
27875564 TTAGGGT
1 TTAGGGT
**
27875571 TTACAGT
1 TTAGGGT
27875578 TTAGGGT
1 TTAGGGT
27875585 TTAGGGT
1 TTAGGGT
27875592 TTA
1 TTA
27875595 CTATCAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.18, C:0.03, G:0.34, T:0.45
Consensus pattern (7 bp):
TTAGGGT
Found at i:27876455 original size:20 final size:23
Alignment explanation
Indices: 27876416--27876459 Score: 67
Period size: 20 Copynumber: 2.0 Consensus size: 23
27876406 GTAAATCATG
27876416 TTATTCTTAGATTATTGAATGTT
1 TTATTCTTAGATTATTGAATGTT
27876439 TTATTCTTA-A-T-TTGAATGTT
1 TTATTCTTAGATTATTGAATGTT
27876459 T
1 T
27876460 AAAACTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.48
21 1 0.05
22 1 0.05
23 9 0.43
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (23 bp):
TTATTCTTAGATTATTGAATGTT
Found at i:27882280 original size:168 final size:168
Alignment explanation
Indices: 27881997--27882336 Score: 572
Period size: 168 Copynumber: 2.0 Consensus size: 168
27881987 TGAAGTCCAT
* * * * *
27881997 AAAGTAAAGGTGGATGTAATTGAAAGATTACCAGCCCCAATTACTGTGAAAGGAGTTAGAAGTTT
1 AAAGAAAAGGTGGACGTAATTGAAAGATTACCAGCCCCAATGAATGTGAAAGGAGTCAGAAGTTT
*
27882062 CTTAGGCCATGCCGATTTTTACTGAAGGTTTATCAAGGATTTCTCAAAAATTTCTAAGCCGCTGT
66 CTTAGGCCATGCCGATTTTTACCGAAGGTTTATCAAGGATTTCTCAAAAATTTCTAAGCCGCTGT
*
27882127 GTTTGTTGTTAGAGAAAGATACAATGTTCAATTTCAAC
131 GTTTGTTGTTAGAGAAAGATACAATGTTCAATTTCAAA
*
27882165 AAAGAAAAGGTGGACGTAATTGAAAGATTACCGGCCCCAATGAATGTGAAAGGAGTCAGAAGTTT
1 AAAGAAAAGGTGGACGTAATTGAAAGATTACCAGCCCCAATGAATGTGAAAGGAGTCAGAAGTTT
* * * *
27882230 CTTAGGCCATGCCGGTTTTTACCGAAGGTTTATTAAGGATTTCTCAAAAATTTCTATGCCGTTGT
66 CTTAGGCCATGCCGATTTTTACCGAAGGTTTATCAAGGATTTCTCAAAAATTTCTAAGCCGCTGT
27882295 GTTTGTTGTTAGAGAAAGATACAATGTTCAATTTCAAA
131 GTTTGTTGTTAGAGAAAGATACAATGTTCAATTTCAAA
27882333 AAAG
1 AAAG
27882337 CATGTTTAGA
Statistics
Matches: 160, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
168 160 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (168 bp):
AAAGAAAAGGTGGACGTAATTGAAAGATTACCAGCCCCAATGAATGTGAAAGGAGTCAGAAGTTT
CTTAGGCCATGCCGATTTTTACCGAAGGTTTATCAAGGATTTCTCAAAAATTTCTAAGCCGCTGT
GTTTGTTGTTAGAGAAAGATACAATGTTCAATTTCAAA
Found at i:27885240 original size:165 final size:165
Alignment explanation
Indices: 27884963--27885292 Score: 543
Period size: 165 Copynumber: 2.0 Consensus size: 165
27884953 TTTTAATTGA
*
27884963 TGAAGAAGTGAAAGAGCGATTTGATTCAATCTTCAAGCATAAACCTATGATGCCGCAAAAAGGTT
1 TGAAAAAGTGAAAGAGCGATTTGATTCAATCTTCAAGCATAAACCTATGATGCCGCAAAAAGGTT
* *
27885028 TTAACCTAAAGAGCTATGATGTGATGGTTGTCCCTATGATAATTAGAAAGATAATCAATGCTTTC
66 TTAACCTAAAGAGCAATGATGTGATGGTTGTCCCTATGATAATTAGAAAGATAATCAATGCTCTC
* *
27885093 GAGTGGGAATGATTCTGTGATGCTCGTTCACTTCC
131 AAGTGGGAACGATTCTGTGATGCTCGTTCACTTCC
* * *
27885128 TGAAAAAGTGAAAGAGCGATTTGATTCAATCTTCAAGCATCAACTTATGATGCCGGAAAAAGGTT
1 TGAAAAAGTGAAAGAGCGATTTGATTCAATCTTCAAGCATAAACCTATGATGCCGCAAAAAGGTT
* * * *
27885193 TTAACCTAAAGAGCAATGATGTGATGGTTTTCCCTTTGCTAATTAGAAAGATAATCCATGCTCTC
66 TTAACCTAAAGAGCAATGATGTGATGGTTGTCCCTATGATAATTAGAAAGATAATCAATGCTCTC
*
27885258 AAGTGGGAACGATTTTGTGATGCTCGTTCACTTCC
131 AAGTGGGAACGATTCTGTGATGCTCGTTCACTTCC
27885293 CGATGATGAA
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
165 152 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (165 bp):
TGAAAAAGTGAAAGAGCGATTTGATTCAATCTTCAAGCATAAACCTATGATGCCGCAAAAAGGTT
TTAACCTAAAGAGCAATGATGTGATGGTTGTCCCTATGATAATTAGAAAGATAATCAATGCTCTC
AAGTGGGAACGATTCTGTGATGCTCGTTCACTTCC
Found at i:27891563 original size:23 final size:22
Alignment explanation
Indices: 27891502--27891563 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
27891492 GAGTAAAATA
*
27891502 ACAAGAAATATAAGAAATAACAT
1 ACAA-AAATATAAGAAATAACAG
*
27891525 ACAAAAAT-TGTA-AAATAACACG
1 ACAAAAATAT-AAGAAATAACA-G
27891547 ACAAAAATATAAGAAAT
1 ACAAAAATATAAGAAAT
27891564 TAAAGCGAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 9 0.28
22 14 0.44
23 9 0.28
ACGTcount: A:0.65, C:0.10, G:0.08, T:0.18
Consensus pattern (22 bp):
ACAAAAATATAAGAAATAACAG
Found at i:27891792 original size:17 final size:17
Alignment explanation
Indices: 27891772--27891818 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
27891762 TTAAATATCT
*
27891772 AAAATAAATAAACAAGA
1 AAAATAAATAAACAACA
* *
27891789 AAAATAAACAAACAACT
1 AAAATAAATAAACAACA
27891806 AAAATAAATAAAC
1 AAAATAAATAAAC
27891819 CAATAAGGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.74, C:0.11, G:0.02, T:0.13
Consensus pattern (17 bp):
AAAATAAATAAACAACA
Found at i:27894413 original size:27 final size:27
Alignment explanation
Indices: 27894352--27894418 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
27894342 TTACCGTATA
27894352 ACATAATTGTGGAAAGTCTGTCAAGACT
1 ACATAA-TGTGGAAAGTCTGTCAAGACT
* *
27894380 ATC-TAATGTGGAAAG-CTCGTGAGGACT
1 A-CATAATGTGGAAAGTCT-GTCAAGACT
*
27894407 ACATAATATGGA
1 ACATAATGTGGA
27894419 GAAAGTCCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
26 3 0.09
27 25 0.76
28 4 0.12
29 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (27 bp):
ACATAATGTGGAAAGTCTGTCAAGACT
Found at i:27897748 original size:42 final size:42
Alignment explanation
Indices: 27897679--27897827 Score: 167
Period size: 42 Copynumber: 3.6 Consensus size: 42
27897669 TCTCATGAGC
* * * *
27897679 TTCAGTT-AACTCATATGAGTTTCAGTTTAACCCTAATGGGT
1 TTCAGTTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
*
27897720 TTCAGTTCAGCTCTT-TCGAGCTTCAGTTTAACCCTTCTGGGT
1 TTCAGTTCAGCTCTTAT-GAGCTTCAGTTTAACCCTTATGGGT
* * *
27897762 TTCCGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGT
1 TTCAGTTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * * *
27897804 TTCTGTTTAGCACTTATGTGCTTC
1 TTCAGTTCAGCTCTTATGAGCTTC
27897828 TGTGCAGCCT
Statistics
Matches: 92, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
41 8 0.09
42 83 0.90
43 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (42 bp):
TTCAGTTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
Found at i:27897798 original size:21 final size:21
Alignment explanation
Indices: 27897737--27897830 Score: 62
Period size: 21 Copynumber: 4.5 Consensus size: 21
27897727 CAGCTCTTTC
* * *
27897737 GAGCTTCAGTTTAACCCTTCT
1 GAGCTTCTGTTCAACCCTTAT
* * * * *
27897758 GGGTTTCCGTTCAGCTCTTAT
1 GAGCTTCTGTTCAACCCTTAT
27897779 GAGCTTCTGTTCAACCCTTAT
1 GAGCTTCTGTTCAACCCTTAT
* * * * *
27897800 GGGTTTCTGTTTAGCACTTAT
1 GAGCTTCTGTTCAACCCTTAT
*
27897821 GTGCTTCTGT
1 GAGCTTCTGT
27897831 GCAGCCTTTA
Statistics
Matches: 54, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (21 bp):
GAGCTTCTGTTCAACCCTTAT
Found at i:27898838 original size:20 final size:22
Alignment explanation
Indices: 27898809--27898850 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
27898799 GTGTCCCTTA
27898809 ATTTTAAG-AAAATTT-TTGAG
1 ATTTTAAGAAAAATTTCTTGAG
*
27898829 ATTTTGAGAAAAATTTCTTGAG
1 ATTTTAAGAAAAATTTCTTGAG
27898851 TATCCAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 7 0.37
22 5 0.26
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (22 bp):
ATTTTAAGAAAAATTTCTTGAG
Found at i:27899492 original size:17 final size:18
Alignment explanation
Indices: 27899465--27899498 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27899455 TATTATAATA
*
27899465 ATAATTAAAATGAAAGAT
1 ATAATTAAAATAAAAGAT
27899483 ATAA-TAAAATAAAAGA
1 ATAATTAAAATAAAAGA
27899499 AAGTGGAGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (18 bp):
ATAATTAAAATAAAAGAT
Found at i:27899500 original size:21 final size:24
Alignment explanation
Indices: 27899458--27899501 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
27899448 TATATATTAT
27899458 TATAATAATAATTAAAATGAAAGA
1 TATAATAATAATTAAAATGAAAGA
27899482 TATAATAA-AA-TAAAA-GAAAG
1 TATAATAATAATTAAAATGAAAG
27899502 TGGAGACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 5 0.25
23 2 0.10
24 8 0.40
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (24 bp):
TATAATAATAATTAAAATGAAAGA
Found at i:27900275 original size:25 final size:25
Alignment explanation
Indices: 27900227--27900275 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
27900217 CATAATTGAA
* * *
27900227 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
27900252 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
27900276 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:27900731 original size:43 final size:43
Alignment explanation
Indices: 27900667--27900752 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
27900657 TATGTGATTG
27900667 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
* *
27900710 ATATTGAAATGGCAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
27900753 TGAGATATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.50, C:0.02, G:0.24, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:27900736 original size:16 final size:16
Alignment explanation
Indices: 27900672--27900736 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
27900662 GATTGATATT
*
27900672 GAAATGGCAAAGATGA
1 GAAATGGCAAATATGA
27900688 GAAAT-G--AATATGA
1 GAAATGGCAAATATGA
* *
27900701 G--ATGAGAAAATAT-T
1 GAAATG-GCAAATATGA
27900715 GAAATGGCAAATATGA
1 GAAATGGCAAATATGA
27900731 GAAATG
1 GAAATG
27900737 ATTATGAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
11 2 0.05
13 8 0.21
14 1 0.03
15 13 0.34
16 14 0.37
ACGTcount: A:0.51, C:0.03, G:0.26, T:0.20
Consensus pattern (16 bp):
GAAATGGCAAATATGA
Found at i:27902120 original size:49 final size:49
Alignment explanation
Indices: 27902048--27902144 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
27902038 TCTAGAAGGG
* *
27902048 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGAAATGT
*
27902097 ATAAATAGTGATAAGAGTGTAGACAGTGGAATACCAAGTTTAGAAATG
1 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGAAATG
27902145 CATAGCATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGAAATGT
Found at i:27903562 original size:86 final size:87
Alignment explanation
Indices: 27903395--27903645 Score: 425
Period size: 88 Copynumber: 2.9 Consensus size: 87
27903385 GGGGGGGGGA
* *
27903395 GGGGAAGCCGACAATTGAGGTCTATTGATGTTAACAA-CAAAAAACTCATTTTTCCAGGTTGATT
1 GGGGAAGCCGACAATTGAGGTCTATTGATGTTAACAATAAAAAAACCCATTTTTCCAGGTTGATT
27903459 TTGGGACGTGGGTAAATTA-GG
66 TTGGGACGTGGGTAAATTAGGG
* *
27903480 GGGGAAGCCGACAATTAAGGTCTATTGATGTTAACAATAAAAAAACCCATTTTTCCAAGTTGATT
1 GGGGAAGCCGACAATTGAGGTCTATTGATGTTAACAATAAAAAAACCCATTTTTCCAGGTTGATT
27903545 TTGGGACGTGGGTAAATTAGGG
66 TTGGGACGTGGGTAAATTAGGG
* *
27903567 GGTGGAAGCCGACAATTGAGGTCTATTGATGTTAACAATAAAAGAACCCCTTTTTCCAGGTTGAT
1 GG-GGAAGCCGACAATTGAGGTCTATTGATGTTAACAATAAAAAAACCCATTTTTCCAGGTTGAT
27903632 TTTGGGACGTGGGT
65 TTTGGGACGTGGGT
27903646 TTCAACATTG
Statistics
Matches: 155, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
85 36 0.23
86 43 0.28
87 4 0.03
88 72 0.46
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (87 bp):
GGGGAAGCCGACAATTGAGGTCTATTGATGTTAACAATAAAAAAACCCATTTTTCCAGGTTGATT
TTGGGACGTGGGTAAATTAGGG
Found at i:27904004 original size:16 final size:17
Alignment explanation
Indices: 27903973--27904005 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27903963 GTTATCCATA
*
27903973 AGGTTTTTTTTGTGTTT
1 AGGTTTTTGTTGTGTTT
27903990 AGGTTTTTGTT-TGTTT
1 AGGTTTTTGTTGTGTTT
27904006 TTTTAGAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.06, C:0.00, G:0.24, T:0.70
Consensus pattern (17 bp):
AGGTTTTTGTTGTGTTT
Found at i:27904555 original size:31 final size:30
Alignment explanation
Indices: 27904498--27904564 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
27904488 ATAAACTTAT
*
27904498 TAATTTGGTGCAATTGTACACATGAAACTC
1 TAATTTGGTGCAAATGTACACATGAAACTC
* * * *
27904528 TAATTGTGGTTCAAATGTATACTTGAAACTT
1 TAATT-TGGTGCAAATGTACACATGAAACTC
27904559 TAATTT
1 TAATTT
27904565 TGATTTGATC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (30 bp):
TAATTTGGTGCAAATGTACACATGAAACTC
Found at i:27904723 original size:22 final size:24
Alignment explanation
Indices: 27904697--27904742 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
27904687 ATAAGAATTG
27904697 GATCAAATT-CAATTT-TTTTTAT
1 GATCAAATTACAATTTATTTTTAT
* *
27904719 GATCACATTACTATTTATTTTTAT
1 GATCAAATTACAATTTATTTTTAT
27904743 AAAATATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 5 0.25
24 7 0.35
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.54
Consensus pattern (24 bp):
GATCAAATTACAATTTATTTTTAT
Found at i:27905906 original size:19 final size:19
Alignment explanation
Indices: 27905878--27905925 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
27905868 TTACAATGTT
*
27905878 AATAAGTTTTCTA-ATTTAA
1 AATATGTTTT-TATATTTAA
*
27905897 AATAT-TTTTTATTTTTAA
1 AATATGTTTTTATATTTAA
27905915 AATATGTTTTT
1 AATATGTTTTT
27905926 GATTATGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 14 0.56
19 9 0.36
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (19 bp):
AATATGTTTTTATATTTAA
Found at i:27908326 original size:13 final size:13
Alignment explanation
Indices: 27908310--27908342 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
27908300 TTATTTTAAA
27908310 ATTTTAAAAAAAT
1 ATTTTAAAAAAAT
*
27908323 ATTTTAAAAATAT
1 ATTTTAAAAAAAT
27908336 -TTTTAAA
1 ATTTTAAA
27908343 TTAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTTAAAAAAAT
Found at i:27923914 original size:7 final size:7
Alignment explanation
Indices: 27923902--27923927 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27923892 CAACAGGCCC
27923902 AAAACCT
1 AAAACCT
27923909 AAAACCT
1 AAAACCT
27923916 AAAACCT
1 AAAACCT
27923923 AAAAC
1 AAAAC
27923928 TTGAACCCCT
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:0.62, C:0.27, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAACCT
Found at i:27927009 original size:19 final size:19
Alignment explanation
Indices: 27926981--27927026 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
27926971 TAATATGTTA
*
27926981 TATAAGAAAATGATGAGAT
1 TATAAGAAAATGATGAAAT
*
27927000 TATGAGAAAATGATGAAAT
1 TATAAGAAAATGATGAAAT
27927019 TATAAGAA
1 TATAAGAA
27927027 GAAAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.20, T:0.26
Consensus pattern (19 bp):
TATAAGAAAATGATGAAAT
Found at i:27930332 original size:115 final size:115
Alignment explanation
Indices: 27930130--27930358 Score: 458
Period size: 115 Copynumber: 2.0 Consensus size: 115
27930120 GACTAGAAAT
27930130 TATGAAATCATAATAGAGGACCTAGATATGGAAAAAATGTATGGTACAAGAACCTTCTATACAAA
1 TATGAAATCATAATAGAGGACCTAGATATGGAAAAAATGTATGGTACAAGAACCTTCTATACAAA
27930195 TTGACCAATGATTTTCCGTAGTCATTAAATTGTATAGAGAAAACTAAACA
66 TTGACCAATGATTTTCCGTAGTCATTAAATTGTATAGAGAAAACTAAACA
27930245 TATGAAATCATAATAGAGGACCTAGATATGGAAAAAATGTATGGTACAAGAACCTTCTATACAAA
1 TATGAAATCATAATAGAGGACCTAGATATGGAAAAAATGTATGGTACAAGAACCTTCTATACAAA
27930310 TTGACCAATGATTTTCCGTAGTCATTAAATTGTATAGAGAAAACTAAAC
66 TTGACCAATGATTTTCCGTAGTCATTAAATTGTATAGAGAAAACTAAAC
27930359 TTAAATTAGC
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (115 bp):
TATGAAATCATAATAGAGGACCTAGATATGGAAAAAATGTATGGTACAAGAACCTTCTATACAAA
TTGACCAATGATTTTCCGTAGTCATTAAATTGTATAGAGAAAACTAAACA
Found at i:27935662 original size:42 final size:42
Alignment explanation
Indices: 27935615--27935695 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
27935605 AAGCTTTTCA
* *
27935615 AAGTTGGAATCTTCATTCTATTGATGTAATCAAAGAGTTAGG
1 AAGTTGGAATCTTCATTCTAATGATGCAATCAAAGAGTTAGG
*
27935657 AAGTTGGAATCTTCATTTTAATGATGCAATCAAAGAGTT
1 AAGTTGGAATCTTCATTCTAATGATGCAATCAAAGAGTT
27935696 TGATTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.36
Consensus pattern (42 bp):
AAGTTGGAATCTTCATTCTAATGATGCAATCAAAGAGTTAGG
Found at i:27941504 original size:33 final size:34
Alignment explanation
Indices: 27941458--27941770 Score: 139
Period size: 33 Copynumber: 8.7 Consensus size: 34
27941448 TTAACCGTTA
* *
27941458 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
*
27941492 TCGG-GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGAT
1 TCGGTGGAATCAGCACTTAGCAA---C---CAC---CAATGAT
27941534 AT-GGTGGAATCAGCACTTAGCAACCACCAATGAT
1 -TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
*
27941568 TCGG-GGAATCAACACTTAGCAACC-CC-----T
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
* * *
27941595 T-GGGGGAATTAGCACTTAGCAACCCCCTTCACATTTAAAGAT
1 TCGGTGGAATCAGCACTTAGCAA-CCAC--CA-A--T---GAT
*
27941637 ACGGTGGAATCAGCACTTAGCAACCACCAATGGA-
1 TCGGTGGAATCAGCACTTAGCAACCACCAAT-GAT
* *
27941671 TCGG-GGAATCAACACTTAGCAACCCCCTTTATATTTAAAGAT
1 TCGGTGGAATCAGCACTTAGCAACCACC---A-A--T---GAT
* * * *
27941713 ACGGTGGAATCAACATTTAGCAACCACCAATGAG
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
*
27941747 TC-GAGGAATCAGCACTTAGCAACC
1 TCGGTGGAATCAGCACTTAGCAACC
27941771 CCTTCATATT
Statistics
Matches: 216, Mismatches: 24, Indels: 79
0.68 0.08 0.25
Matches are distributed among these distances:
26 2 0.01
27 18 0.08
28 2 0.01
29 1 0.00
31 1 0.00
32 2 0.01
33 77 0.36
34 18 0.08
35 2 0.01
36 2 0.01
37 6 0.03
39 6 0.03
40 4 0.02
41 2 0.01
42 14 0.06
43 59 0.27
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (34 bp):
TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:27941660 original size:43 final size:42
Alignment explanation
Indices: 27941607--27941737 Score: 136
Period size: 43 Copynumber: 3.3 Consensus size: 42
27941597 GGGGAATTAG
*
27941607 CACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAG
1 CACTTAGCAACCCCCTTCA-ATTTAAAGATACGGTGGAATCAA
* *
27941650 CACTTAGCAA-CCAC--CAA--T--GGAT-CGG-GGAATCAA
1 CACTTAGCAACCCCCTTCAATTTAAAGATACGGTGGAATCAA
*
27941683 CACTTAGCAACCCCCTTTATATTTAAAGATACGGTGGAATCAA
1 CACTTAGCAACCCCCTTCA-ATTTAAAGATACGGTGGAATCAA
*
27941726 CATTTAGCAACC
1 CACTTAGCAACC
27941738 ACCAATGAGT
Statistics
Matches: 71, Mismatches: 7, Indels: 20
0.72 0.07 0.20
Matches are distributed among these distances:
33 17 0.24
34 6 0.08
35 3 0.04
36 1 0.01
37 2 0.03
39 2 0.03
40 2 0.03
41 3 0.04
42 6 0.08
43 29 0.41
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (42 bp):
CACTTAGCAACCCCCTTCAATTTAAAGATACGGTGGAATCAA
Found at i:27941675 original size:103 final size:103
Alignment explanation
Indices: 27941494--27941696 Score: 354
Period size: 103 Copynumber: 2.0 Consensus size: 103
27941484 CCAGTGATTC
* *
27941494 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
27941559 ACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTG
66 ACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTG
* *
27941597 GGGGAATTAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
27941662 ACCAATGGA-TCGGGGAATCAACACTTAGCAACCCC
66 ACCAAT-GATTCGGGGAATCAACACTTAGCAACCCC
27941697 CTTTATATTT
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
103 93 0.98
104 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTG
Found at i:27941694 original size:76 final size:76
Alignment explanation
Indices: 27941597--27941776 Score: 274
Period size: 76 Copynumber: 2.4 Consensus size: 76
27941587 CAACCCCTTG
* *
27941597 GGGGAATTAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAACACTTAGCAACC
27941662 ACCAATG-GATC
66 ACCAATGAG-TC
* * * *
27941673 GGGGAATCAACACTTAGCAACCCCCTTTATATTTAAAGATACGGTGGAATCAACATTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAACACTTAGCAACC
27941738 ACCAATGAGTC
66 ACCAATGAGTC
*
27941749 GAGGAATCAGCACTTAGCAA-CCCCTTCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCA
27941777 TATTCAATGT
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
75 7 0.07
76 86 0.91
77 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (76 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAACACTTAGCAACC
ACCAATGAGTC
Done.