Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold329
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: 4121247
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 5938 characters in sequence are not A, C, G, or T
File 14 of 25
Found at i:2126398 original size:7 final size:7
Alignment explanation
Indices: 2126386--2126414 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
2126376 TTTGGATTTA
2126386 AAAAAAG
1 AAAAAAG
2126393 AAAAAAG
1 AAAAAAG
2126400 AAAAAAG
1 AAAAAAG
2126407 AAAAAAG
1 AAAAAAG
2126414 A
1 A
2126415 GGGGTGCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:2126802 original size:20 final size:20
Alignment explanation
Indices: 2126779--2126837 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
2126769 AAGTACCTAG
*
2126779 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
* * *
2126799 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATGTATCA
*
2126819 ATGTATTGATACATGTATC
1 ATGTATCGATACATGTATC
2126838 GATACATTGA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:2127816 original size:20 final size:21
Alignment explanation
Indices: 2127784--2127822 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2127774 AGCCTTTGAC
*
2127784 CATGCATTTTTTATTATGTTT
1 CATGCATTTTTTAATATGTTT
2127805 CATGCA-TTTTTAATATGT
1 CATGCATTTTTTAATATGT
2127823 CCAGCGTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (21 bp):
CATGCATTTTTTAATATGTTT
Found at i:2140752 original size:8 final size:8
Alignment explanation
Indices: 2140739--2140823 Score: 86
Period size: 8 Copynumber: 10.8 Consensus size: 8
2140729 TTTATACCAA
2140739 AAAAAAAC
1 AAAAAAAC
*
2140747 AAAAAAATA
1 AAAAAAA-C
2140756 AAAAAAAC
1 AAAAAAAC
2140764 AAAAAAA-
1 AAAAAAAC
*
2140771 AGCAAAAAC
1 A-AAAAAAC
2140780 AAAAAAAC
1 AAAAAAAC
2140788 AAAAAAAC
1 AAAAAAAC
2140796 -AAAAAAC
1 AAAAAAAC
* *
2140803 CAAGAAA-
1 AAAAAAAC
*
2140810 AAAATAAC
1 AAAAAAAC
2140818 AAAAAA
1 AAAAAA
2140824 CAGAAAAGGG
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
7 12 0.19
8 43 0.68
9 8 0.13
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:2140813 original size:1 final size:1
Alignment explanation
Indices: 2140737--2140801 Score: 58
Period size: 1 Copynumber: 65.0 Consensus size: 1
2140727 CTTTTATACC
* * * ** * * *
2140737 AAAAAAAAACAAAAAAATAAAAAAAACAAAAAAAAGCAAAAACAAAAAAACAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2140802 CCAAGAAAAA
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.88, C:0.09, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:2140830 original size:8 final size:7
Alignment explanation
Indices: 2140740--2140830 Score: 66
Period size: 7 Copynumber: 12.9 Consensus size: 7
2140730 TTATACCAAA
2140740 AAAAAAC
1 AAAAAAC
2140747 AAAAAA-
1 AAAAAAC
2140753 ATAAAAA-
1 A-AAAAAC
2140760 AAACAAA-
1 AAA-AAAC
*
2140767 AAAAAGC
1 AAAAAAC
2140774 -AAAAAC
1 AAAAAAC
2140780 AAAAAAAC
1 -AAAAAAC
2140788 AAAAAAAC
1 -AAAAAAC
2140796 AAAAAACC
1 AAAAAA-C
2140804 AAGAAAA-
1 AA-AAAAC
*
2140811 AAATAAC
1 AAAAAAC
2140818 AAAAAAC
1 AAAAAAC
*
2140825 AGAAAA
1 AAAAAA
2140831 GGGTCCAGAT
Statistics
Matches: 71, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
6 13 0.18
7 37 0.52
8 17 0.24
9 4 0.06
ACGTcount: A:0.84, C:0.11, G:0.03, T:0.02
Consensus pattern (7 bp):
AAAAAAC
Found at i:2142116 original size:28 final size:28
Alignment explanation
Indices: 2142043--2142727 Score: 850
Period size: 28 Copynumber: 23.9 Consensus size: 28
2142033 CGTTCATCTC
* **
2142043 TTCAAAGCCCACAAGTCAGAGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
2142071 TTCAAA-CCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2142098 TTCAAAGCCCACAAGTCAGTGGCACACT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
2142126 TTCAAAACCCACAAGTCAATGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2142154 TTCAAAGCCCAAAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** *
2142182 TTCAAAGCCCATGAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
*
2142212 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
2142240 TTTAAAGCCCATAAGTCAGTAGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
2142268 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2142296 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * * * *
2142325 TTCAAAGTCCACAAGTTACTGCCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2142353 TTCAAAGCCCACAAGTCATTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
2142381 TTCAAAGCCCATACAAGTCAGTGGCACCCT
1 TTCAAAGCCC--ACAAGTCAGTGGCACCCT
2142411 TTCAAAGCCCACGCAAGTCAGTGGCACCCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCT
*
2142441 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
2142470 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
2142498 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2142526 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
2142554 TTCCAAGCCTACAAATTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
2142582 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2142610 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * * *
2142639 TTCAAAACCCACAAGCCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CAC-CCT
* *
2142669 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
*
2142701 TTCAAAGCCCACATAAGTTAGTGGCAC
1 TTCAAAGCCCAC--AAGTCAGTGGCAC
2142728 TTTTCTTTAA
Statistics
Matches: 576, Mismatches: 65, Indels: 29
0.86 0.10 0.04
Matches are distributed among these distances:
27 24 0.04
28 348 0.60
29 72 0.12
30 96 0.17
31 2 0.00
32 33 0.06
34 1 0.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:2148104 original size:112 final size:113
Alignment explanation
Indices: 2147874--2148123 Score: 298
Period size: 112 Copynumber: 2.2 Consensus size: 113
2147864 TGGTTTGCCT
* * *
2147874 AAAAA-TTTCAAAACTAATAGGGTACATGCCTAATTTTCCTAAGCACGAATGGATCAGATCGTAT
1 AAAAATTTTCAAAACTAATAGGATACATGCCTAATTTTCCTAAGCACAAATAGATCAGATCGTAT
* ** * *
2147938 AAAATATGAATTTTTTTAGAATCAGAAAAATTTGATGTTGTTGGGCTC
66 AAAATATGAATTCTTCAAAAATCAGAAAAATTTGATGCTGTTGGGCTC
* * * *
2147986 -AAAATTTTCAAAACTCATAGGATGC-TGCCCT-ATTTTCCTAAGCATAAATAGATCGGAAT-GT
1 AAAAATTTTCAAAACTAATAGGATACATG-CCTAATTTTCCTAAGCACAAATAGATCAG-ATCGT
*
2148047 ATAAAATATGAATTCCTTCAAAAATTA-AACAAATTTGATGCTGTT-GGCTC
64 ATAAAATATGAATT-CTTCAAAAATCAGAA-AAATTTGATGCTGTTGGGCTC
2148097 AAAAATTTTCAAAACTAATAGGATACA
1 AAAAATTTTCAAAACTAATAGGATACA
2148124 CGCCCCGTTT
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
111 50 0.43
112 66 0.57
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (113 bp):
AAAAATTTTCAAAACTAATAGGATACATGCCTAATTTTCCTAAGCACAAATAGATCAGATCGTAT
AAAATATGAATTCTTCAAAAATCAGAAAAATTTGATGCTGTTGGGCTC
Found at i:2157010 original size:79 final size:79
Alignment explanation
Indices: 2156874--2157071 Score: 218
Period size: 79 Copynumber: 2.5 Consensus size: 79
2156864 GAGATAATAA
* * * * *** * *
2156874 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCAAATTATGAGAAATCAAT-A
*
2156939 -TTAGAAAAAAAAAT
65 TTTAGAAAAAAAAAC
*
2156953 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCAAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCAAATTATGAGAAATCAATAT
* * * *
2157018 TTTGAGAATAAAGC
66 TTAGAAAAAAAAAC
* * *
2157032 CGGGGTTGGAGTATCTCCTCGGAAGTAACGGGGTTGGAGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGT
2157072 GTCCTCGATT
Statistics
Matches: 99, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 1 0.01
79 98 0.99
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCAAATTATGAGAAATCAATAT
TTAGAAAAAAAAAC
Found at i:2157190 original size:184 final size:182
Alignment explanation
Indices: 2156981--2157369 Score: 545
Period size: 183 Copynumber: 2.1 Consensus size: 182
2156971 TCGAAAATAA
**
2156981 CGGGGTTGGAGTATCCCAAATTATGAGAAA-TCAATATTTT-GAGAATAAAGCCGGGGTTGGAGT
1 CGGGGTTGGAGTATCCCCGATTATGA-AAAGTCAATATTTTGGA-AATAAAGCCGGGGTTGGAGT
* *
2157044 ATCTCCTCG-GAAGTAACGGGGTTGGAGTGTCCTCGATTATGAA-AATTTGGT-ATTTTTGGAAA
64 ATC-CC-CGAG-AGTAACGGGGTTGGAGTGTCCCCGATTATGAAGAAATTGGTGATTTTTGGAAA
*
2157106 TAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAAC
126 TAAAATCGGAGTTGGAGTATCCCCGATTAAA-G-AAAATTAGTGTTTTGAAAATAAAAC
*
2157165 CGGGGTTGGAGTATCCCCGATTATGAAAAGTCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAGTCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* * *
2157230 CCCCGATGATTAACGGGGTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAA
66 CCCCGA-GAGTAACGGGGTTGGAGTGTCCCCGATTATGAAGAAATTGGTGATTTTTGGAAATAAA
* *
2157295 ATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAAT
130 ATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGTGTTTTGAAAATAAAAC
* * *
2157348 CGGAGTTGGAATATTCCCGATT
1 CGGGGTTGGAGTATCCCCGATT
2157370 GTGGAGAATT
Statistics
Matches: 185, Mismatches: 14, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
182 2 0.01
183 76 0.41
184 65 0.35
185 42 0.23
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (182 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAGTCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCGAGAGTAACGGGGTTGGAGTGTCCCCGATTATGAAGAAATTGGTGATTTTTGGAAATAAAA
TCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGTGTTTTGAAAATAAAAC
Found at i:2157220 original size:51 final size:51
Alignment explanation
Indices: 2157060--2157236 Score: 210
Period size: 51 Copynumber: 3.4 Consensus size: 51
2157050 TCGGAAGTAA
* * *
2157060 CGGGGTTGGAGTGTCCTCGATTATGAAAATTTGGTATTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAAT
* * * * *
2157112 CGGAGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGGAAATAAAAT
* *** *
2157165 CGGGGTTGGAGTATCCCCGATTATGAAAAGTCAATATTTTGGAAATAAAGT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
2157216 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2157237 GATTAACGGG
Statistics
Matches: 105, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
51 41 0.39
52 19 0.18
53 34 0.32
54 11 0.10
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
Found at i:2157305 original size:132 final size:129
Alignment explanation
Indices: 2157116--2157368 Score: 321
Period size: 132 Copynumber: 1.9 Consensus size: 129
2157106 TAAAATCGGA
*
2157116 GTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCC
1 GTTGGAGTATCCCCGATT--AGGAAAAATTGGTGTTTTGAAAATAAAACCGGAGTTGGAGTATCC
* * * *
2157181 CCGATTAT-GAAAAGTCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATCCCCGATGATTAACG
64 CCGATTATAGAAAA-TCAATATTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATGATTAACG
2157245 GG
128 GG
* * *
2157247 GTTGGAGTGTCCCCGATT-GTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTAT
1 GTTGGAGTATCCCCGATTAG-GAA-AAATTGGTG--TTTTGAAAATAAAACCGGAGTTGGAGTAT
* * * *
2157311 CCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATTCCCGAT
62 CCCCGATTATAGAAAATCAATATTTTGAAAATAAAATCGGAGTTGGAATATCCCCGAT
2157369 TGTGGAGAAT
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
128 1 0.01
129 3 0.03
130 9 0.09
131 17 0.16
132 70 0.67
133 5 0.05
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (129 bp):
GTTGGAGTATCCCCGATTAGGAAAAATTGGTGTTTTGAAAATAAAACCGGAGTTGGAGTATCCCC
GATTATAGAAAATCAATATTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATGATTAACGGG
Found at i:2157350 original size:51 final size:53
Alignment explanation
Indices: 2157247--2157369 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 53
2157237 GATTAACGGG
* * * *
2157247 GTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGA
2157301 GTTGGAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGA
* *
2157352 GTTGGAATATTCCCGATT
1 GTTGGAGTATCCCCGATT
2157370 GTGGAGAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
51 34 0.55
52 2 0.03
53 8 0.13
54 18 0.29
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
Found at i:2159741 original size:20 final size:20
Alignment explanation
Indices: 2159716--2159788 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
2159706 AAATTTCCAA
2159716 ATGTATCGATACAAAGATCC
1 ATGTATCGATACAAAGATCC
2159736 ATGTATCGATACAAAGATCC
1 ATGTATCGATACAAAGATCC
* ***
2159756 ATGTATCGATACACAGAAAA
1 ATGTATCGATACAAAGATCC
2159776 ATGTATCGATACA
1 ATGTATCGATACA
2159789 TTTCCTTGGC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (20 bp):
ATGTATCGATACAAAGATCC
Found at i:2159832 original size:19 final size:18
Alignment explanation
Indices: 2159808--2159875 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2159798 CAGTAGCTAA
2159808 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2159827 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2159842 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2159859 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2159876 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2159848 original size:13 final size:13
Alignment explanation
Indices: 2159830--2159854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2159820 ACAATACTTA
2159830 TGTATCGATACAT
1 TGTATCGATACAT
2159843 TGTATCGATACA
1 TGTATCGATACA
2159855 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2159852 original size:32 final size:32
Alignment explanation
Indices: 2159811--2159873 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2159801 TAGCTAATTA
*
2159811 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2159843 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2159874 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2161142 original size:166 final size:162
Alignment explanation
Indices: 2160862--2161363 Score: 609
Period size: 165 Copynumber: 3.0 Consensus size: 162
2160852 GGTGTCTACA
* * *
2160862 AAAATAAATAAATTTTTCAAAACTAATTTACTATGAATCAAATGACGATATTTGATCAATTTTAA
1 AAAATAAATAAATTTTTCAAAACTAATTTACTATGAATTAAATGATGATATTTGATGAATTTTAA
* ** * *
2160927 AAATCAAAAACCAAGAAAAATCTCCCTAAAAATATTTACAAAATAGAAAATTATACATTTCGAAA
66 AAATCATAAACCAAGAAAAATCTCCC-AAAAATATTTACGGAGTAGAAAACT-T-CATTTCGAAA
2160992 AAGGAGAATTTCAAAGAAAAAAATAAAAAACTTATG
128 AAGGAGAATTTCAAAG-AAAAAATAAAAAACTTATG
* * * * * *
2161028 AAAATAAATGAATTTTTTAAAAATGATTTACTATAAATTAAGTGATGATATTTGATGAATTTTAA
1 AAAATAAATAAATTTTTCAAAACTAATTTACTATGAATTAAATGATGATATTTGATGAATTTTAA
* * * *
2161093 AAATTATAAACCAAGAAAAGTCCTCCCAAAAATATTTACGGAGTAGAAAACTCCGTATT-GCAGA
66 AAATCATAAACCAAGAAAAAT-CTCCCAAAAATATTTACGGAGTAGAAAACTTCAT-TTCG-A-A
* * *
2161157 ACAGGAAAATTTCAAAGAAAAAATGAAAAACTTATG
127 AAAGGAGAATTTCAAAGAAAAAATAAAAAACTTATG
* *
2161193 AAAATAAATAAATTTTTCAAAACTAACTTATTATGAATTAAATGATGATATTTGATGAATTTTAA
1 AAAATAAATAAATTTTTCAAAACTAATTTACTATGAATTAAATGATGATATTTGATGAATTTTAA
* *
2161258 AAATCATAAACCAAGAAAAATCTCTCCGAAAACATTTACGGAGT-GAAAACTTCGTATTTCGAAA
66 AAATCATAAACCAAGAAAAATCTC-CCAAAAATATTTACGGAGTAGAAAACTTC--ATTTCGAAA
* *
2161322 ACAAGAGAATTTC-AAGAAATAATAAAAAA-TTCATG
128 A-AGGAGAATTTCAAAGAAAAAATAAAAAACTT-ATG
2161357 -AAATAAA
1 AAAATAAA
2161364 AGTGATTTTC
Statistics
Matches: 286, Mismatches: 40, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
163 9 0.03
164 33 0.12
165 126 0.44
166 113 0.40
167 5 0.02
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (162 bp):
AAAATAAATAAATTTTTCAAAACTAATTTACTATGAATTAAATGATGATATTTGATGAATTTTAA
AAATCATAAACCAAGAAAAATCTCCCAAAAATATTTACGGAGTAGAAAACTTCATTTCGAAAAAG
GAGAATTTCAAAGAAAAAATAAAAAACTTATG
Found at i:2166627 original size:87 final size:84
Alignment explanation
Indices: 2166495--2166750 Score: 264
Period size: 87 Copynumber: 2.9 Consensus size: 84
2166485 TTTTAGGAAG
* * *
2166495 AATGGGATTGGAGTATCCTCTCGAAATAAGAGGATAAAGTTTCCCCAAGATTAAAATTATATGAA
1 AATGGG-TTGGAGTATCCTCTTGAAATAATAGGATAGAGTTTCCCCAAGA-TAAAATTATATGAA
*
2166560 GAAAAGTTTGAATTTTGTTAGA
64 GAAAAGTTTGAATTTTATTA-A
*
2166582 ACAT-GGTTGGAGTATCCT-TGTGAAATAATAGGGATAGAGTTTCCCCAAGGATAAAATGATATG
1 A-ATGGGTTGGAGTATCCTCT-TGAAATAATA-GGATAGAGTTTCCCCAA-GATAAAATTATATG
* *
2166645 AAGGAAAGTTCGAATTTTATTAA
62 AAGAAAAGTTTGAATTTTATTAA
** * ** * *
2166668 AATGGGGTTAAAGTATTCTCTTGAAATAATAAGGATAGAGTTTTCCTAAAAATAAAATTATACGA
1 AAT-GGGTTGGAGTATCCTCTTGAAATAAT-AGGATAGAG-TTTCCCCAAGATAAAATTATATG-
*
2166733 AAGAAAATTTTGAATTTT
62 AAGAAAAGTTTGAATTTT
2166751 TTTTGTTTGA
Statistics
Matches: 141, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
85 3 0.02
86 22 0.16
87 88 0.62
88 28 0.20
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (84 bp):
AATGGGTTGGAGTATCCTCTTGAAATAATAGGATAGAGTTTCCCCAAGATAAAATTATATGAAGA
AAAGTTTGAATTTTATTAA
Found at i:2168175 original size:13 final size:13
Alignment explanation
Indices: 2168157--2168182 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2168147 AATTTTTTGG
2168157 TGTATCGATACAT
1 TGTATCGATACAT
2168170 TGTATCGATACAT
1 TGTATCGATACAT
2168183 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2168922 original size:24 final size:24
Alignment explanation
Indices: 2168894--2168939 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
2168884 TTTAGCAAAT
2168894 TCACGCATTCTCCCCTTTTATTTC
1 TCACGCATTCTCCCCTTTTATTTC
2168918 TCACGCATTCTCCCCTTTTATT
1 TCACGCATTCTCCCCTTTTATT
2168940 AAAGAAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.13, C:0.37, G:0.04, T:0.46
Consensus pattern (24 bp):
TCACGCATTCTCCCCTTTTATTTC
Found at i:2170803 original size:13 final size:13
Alignment explanation
Indices: 2170785--2170822 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2170775 ATAATCCCCC
*
2170785 TGTATCGATACAG
1 TGTATCGATACAA
2170798 TGTATCGATACAA
1 TGTATCGATACAA
2170811 TGTATCGATACA
1 TGTATCGATACA
2170823 TTGAATTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2175094 original size:20 final size:20
Alignment explanation
Indices: 2175052--2175090 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2175042 CGTGTGAATG
* *
2175052 TATCGATACAATTTTTGATA
1 TATCGATACAATATTTGAAA
2175072 TATCGATAC-ATATTTGAAA
1 TATCGATACAATATTTGAAA
2175091 ATATAGCTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TATCGATACAATATTTGAAA
Found at i:2175160 original size:13 final size:13
Alignment explanation
Indices: 2175142--2175167 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2175132 AATTTTTTGG
2175142 TGTATCGATACAT
1 TGTATCGATACAT
2175155 TGTATCGATACAT
1 TGTATCGATACAT
2175168 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2179650 original size:52 final size:52
Alignment explanation
Indices: 2179565--2179689 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
2179555 ATATGAAAAG
* *
2179565 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
2179617 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
2179669 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2179690 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:2179702 original size:52 final size:51
Alignment explanation
Indices: 2179565--2179709 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
2179555 ATATGAAAAG
*
2179565 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
2179617 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
2179669 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2179710 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:2179716 original size:13 final size:13
Alignment explanation
Indices: 2179698--2179722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2179688 CAAAGATCAG
2179698 TGTATCGATACAA
1 TGTATCGATACAA
2179711 TGTATCGATACA
1 TGTATCGATACA
2179723 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2179805 original size:33 final size:33
Alignment explanation
Indices: 2179763--2179832 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2179753 GACAGTAGCT
2179763 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
2179796 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
2179829 TACA
1 TACA
2179833 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:2179806 original size:13 final size:13
Alignment explanation
Indices: 2179788--2179812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2179778 CAAAAAAATA
2179788 TGTATCGATACAT
1 TGTATCGATACAT
2179801 TGTATCGATACA
1 TGTATCGATACA
2179813 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2180344 original size:15 final size:15
Alignment explanation
Indices: 2180306--2180344 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
2180296 AATAACTATA
*
2180306 TAATTTAAATATAAT
1 TAATTTAAATAAAAT
**
2180321 TAAAGTAAATAAAAT
1 TAATTTAAATAAAAT
2180336 TAATTTAAA
1 TAATTTAAA
2180345 AACTACTAAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
TAATTTAAATAAAAT
Found at i:2191767 original size:29 final size:28
Alignment explanation
Indices: 2191705--2191769 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
2191695 ATTTATTATT
** *
2191705 TAAATAATAAAATTATTTTTATTAAATT
1 TAAATAATAAAATTATTGATATTAAATA
*
2191733 TTAATAATGAAAATATATTGATATT-AATA
1 TAAATAAT-AAAAT-TATTGATATTAAATA
2191762 TAAATAAT
1 TAAATAAT
2191770 TTTTAAGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 7 0.23
29 15 0.50
30 8 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (28 bp):
TAAATAATAAAATTATTGATATTAAATA
Found at i:2193271 original size:16 final size:17
Alignment explanation
Indices: 2193244--2193275 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2193234 TTTTAAAGAT
2193244 TATTTATTTAAAAAAAA
1 TATTTATTTAAAAAAAA
2193261 TATTT-TTTAAAAAAA
1 TATTTATTTAAAAAAA
2193276 TTAATATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TATTTATTTAAAAAAAA
Found at i:2193297 original size:20 final size:21
Alignment explanation
Indices: 2193273--2193322 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
2193263 TTTTTTAAAA
*
2193273 AAATTAATATAAT-TTTTATT
1 AAATTAATATAATAATTTATT
* *
2193293 GAATTAA-AGAATAATTTATT
1 AAATTAATATAATAATTTATT
2193313 AAATTAATAT
1 AAATTAATAT
2193323 TTTTTTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
19 4 0.17
20 18 0.78
21 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
AAATTAATATAATAATTTATT
Found at i:2193990 original size:1 final size:1
Alignment explanation
Indices: 2193984--2194009 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
2193974 TGGCCACCAG
2193984 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
2194010 GGTAGGGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2199986 original size:15 final size:14
Alignment explanation
Indices: 2199966--2200033 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 14
2199956 CATGTTAAAT
*
2199966 ATTTTTTAAGTATGA
1 ATTTTTTAAGT-TTA
* *
2199981 ATTTTTAAAATTTA
1 ATTTTTTAAGTTTA
2199995 AGTTTTTTAAGTTTTA
1 A-TTTTTTAAG-TTTA
*
2200011 ATTTTTTTTAGTTTA
1 A-TTTTTTAAGTTTA
2200026 GATTTTTT
1 -ATTTTTT
2200034 TAAATTTCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
14 3 0.07
15 26 0.60
16 14 0.33
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (14 bp):
ATTTTTTAAGTTTA
Found at i:2201820 original size:16 final size:16
Alignment explanation
Indices: 2201796--2201901 Score: 113
Period size: 16 Copynumber: 6.4 Consensus size: 16
2201786 AAATTGTTAT
* *
2201796 AATTAAAATAATTTTA
1 AATTTAAATTATTTTA
*
2201812 AATTTAAATAATTTTAA
1 AATTTAAATTATTTT-A
*
2201829 AATTTAAATCATTTTA
1 AATTTAAATTATTTTA
2201845 AATTTAAAAATTATTTTA
1 AATTT--AAATTATTTTA
*
2201863 TATTTAAATTATTTTA
1 AATTTAAATTATTTTA
* *
2201879 ATTTTAAATTTTTTTA
1 AATTTAAATTATTTTA
*
2201895 TATTTAA
1 AATTTAA
2201902 TTACTTTCAT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
16 49 0.63
17 15 0.19
18 14 0.18
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTTAAATTATTTTA
Found at i:2201919 original size:32 final size:32
Alignment explanation
Indices: 2201852--2201921 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
2201842 TTAAATTTAA
* **
2201852 AAATTATTTTATATTTAAATTATTTTAATTTT
1 AAATTATTTTATATTTAAATTACTTTAATAAT
* *
2201884 AAATTTTTTTATATTT-AATTACTTTCATAAAT
1 AAATTATTTTATATTTAAATTACTTTAAT-AAT
2201916 AAATTA
1 AAATTA
2201922 AATTTGAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (32 bp):
AAATTATTTTATATTTAAATTACTTTAATAAT
Found at i:2202407 original size:25 final size:25
Alignment explanation
Indices: 2202374--2202434 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
2202364 ATTAAATTTT
2202374 AAATA-TTTTAATTTATATATATAA
1 AAATATTTTTAATTTATATATATAA
* *
2202398 AATTTTTTTTAATTTATATATATAA
1 AAATATTTTTAATTTATATATATAA
2202423 AAATATTTTTAA
1 AAATATTTTTAA
2202435 ATATAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 3 0.09
25 29 0.91
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
AAATATTTTTAATTTATATATATAA
Found at i:2202445 original size:19 final size:20
Alignment explanation
Indices: 2202408--2202456 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
2202398 AATTTTTTTT
*
2202408 AATTTATATATATAAAAATA
1 AATTTAAATATATAAAAATA
**
2202428 TTTTTAAATATA-AAAAATA
1 AATTTAAATATATAAAAATA
2202447 AATTTAAATA
1 AATTTAAATA
2202457 AATTTTATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTTAAATATATAAAAATA
Found at i:2202591 original size:32 final size:31
Alignment explanation
Indices: 2202555--2202623 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 31
2202545 AATTAAAACT
* *
2202555 TTTAATAATTATTAAATTGATGAATAATTATA
1 TTTAATAATTATAAAATTGAT-AAAAATTATA
* *
2202587 TTTAATATTTATAAAATTTATAAAAATTATA
1 TTTAATAATTATAAAATTGATAAAAATTATA
2202618 TTTAAT
1 TTTAAT
2202624 TTATCAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 15 0.45
32 18 0.55
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (31 bp):
TTTAATAATTATAAAATTGATAAAAATTATA
Found at i:2203516 original size:28 final size:27
Alignment explanation
Indices: 2203479--2203535 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
2203469 AATAATTTTA
*
2203479 AATAAATATATAAGTGATTTATTGAAAT
1 AATAAATATATAAATGATTTATT-AAAT
* *
2203507 AATAATTATATAAATGATTTGTTAAAT
1 AATAAATATATAAATGATTTATTAAAT
2203534 AA
1 AA
2203536 AAAAAAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (27 bp):
AATAAATATATAAATGATTTATTAAAT
Found at i:2205376 original size:19 final size:19
Alignment explanation
Indices: 2205354--2205395 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2205344 TCTTTTTTTC
* * *
2205354 TCTTCTCTAATTTTATCTT
1 TCTTCTATAATTCTATATT
2205373 TCTTCTATAATTCTATATT
1 TCTTCTATAATTCTATATT
2205392 TCTT
1 TCTT
2205396 AACTTTAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (19 bp):
TCTTCTATAATTCTATATT
Found at i:2207239 original size:111 final size:111
Alignment explanation
Indices: 2207038--2207260 Score: 349
Period size: 111 Copynumber: 2.0 Consensus size: 111
2207028 CGATAAAGTT
*
2207038 GTTTATGACAGAATTGATGCGGCACTCCAAGATTTGAAATTGTAGGGCATGATTGTAGTCCCACT
1 GTTTATGACAGAATTGATGCGGCACTCCAAGATTTGAAATTGTAGGGCATGATTATAGTCCCACT
* * *
2207103 TAACCCTTTGCATACAGTTCAAATTATATATAACAGAAGTAAGGAG
66 TAACCCTTTACATACAGTCCAAATTATATATAACAAAAGTAAGGAG
* * *
2207149 GTTTATGATAGAATTGATGCGGCACTCCAAGATTTGAAATTGTGGGGCATGATTATAGTCTCACT
1 GTTTATGACAGAATTGATGCGGCACTCCAAGATTTGAAATTGTAGGGCATGATTATAGTCCCACT
* *
2207214 TGA-CCTTCTACATACAGTCCCAATTATATATAACAAAAGTAAGGAG
66 TAACCCTT-TACATACAGTCCAAATTATATATAACAAAAGTAAGGAG
2207260 G
1 G
2207261 AACAAAGGTT
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
110 4 0.04
111 98 0.96
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (111 bp):
GTTTATGACAGAATTGATGCGGCACTCCAAGATTTGAAATTGTAGGGCATGATTATAGTCCCACT
TAACCCTTTACATACAGTCCAAATTATATATAACAAAAGTAAGGAG
Found at i:2213162 original size:16 final size:15
Alignment explanation
Indices: 2213137--2213166 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2213127 TCTTCTTCTT
2213137 CTTCTTCTTTTTTTA
1 CTTCTTCTTTTTTTA
2213152 CTTCATTCTTTTTTT
1 CTTC-TTCTTTTTTT
2213167 TTTCTATCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (15 bp):
CTTCTTCTTTTTTTA
Found at i:2213169 original size:19 final size:18
Alignment explanation
Indices: 2213134--2213168 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2213124 TTCTCTTCTT
2213134 CTTCTTCTTCTTTTTTTA
1 CTTCTTCTTCTTTTTTTA
2213152 CTTCATTCTT-TTTTTTT
1 CTTC-TTCTTCTTTTTTT
2213169 TCTATCCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (18 bp):
CTTCTTCTTCTTTTTTTA
Found at i:2220764 original size:27 final size:25
Alignment explanation
Indices: 2220719--2220786 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
2220709 TAGGCACTAA
*
2220719 AACTTGTGGCTTTTTAAAGATGCCACTG
1 AACTTGTGGC-TTTGAAAG-T-CCACTG
2220747 -ACTTGTCGGCTTTGAAAGTCCACTG
1 AACTTGT-GGCTTTGAAAGTCCACTG
*
2220772 AATTTGTGGGCTTTG
1 AACTTGT-GGCTTTG
2220787 CAAAAGAGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
25 6 0.17
26 13 0.37
27 13 0.37
28 3 0.09
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (25 bp):
AACTTGTGGCTTTGAAAGTCCACTG
Found at i:2220904 original size:28 final size:28
Alignment explanation
Indices: 2220872--2220952 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
2220862 CATCGACTCG
2220872 TGTGGGTTTTGAAAGGATGCCACTAACT
1 TGTGGGTTTTGAAAGGATGCCACTAACT
* ***
2220900 TGTGGGCTTTGAACA-GAGTGCCAACTGGTT
1 TGTGGGTTTTGAA-AGGA-TGCC-ACTAACT
*
2220930 TGTGGAGTTTTGAAAGGGTGCCA
1 TGTGG-GTTTTGAAAGGATGCCA
2220953 GACCTGACTT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
28 14 0.33
29 6 0.14
30 14 0.33
31 8 0.19
ACGTcount: A:0.22, C:0.14, G:0.33, T:0.31
Consensus pattern (28 bp):
TGTGGGTTTTGAAAGGATGCCACTAACT
Found at i:2221216 original size:26 final size:26
Alignment explanation
Indices: 2221135--2221345 Score: 163
Period size: 29 Copynumber: 7.5 Consensus size: 26
2221125 AGTAAGCGCC
2221135 GACTTGTGGGACGTTGAAATGGTGCCACT
1 GACTTGTGGG-C-TTGAAA-GGTGCCACT
2221164 GACTTGTGGGCCTGTGAAAAGAGTGCCACT
1 GACTTGTGGG-CT-TG-AAAG-GTGCCACT
**
2221194 GAAGTGTGGGCTTGAAAGGTGCCACT
1 GACTTGTGGGCTTGAAAGGTGCCACT
* *
2221220 GACGTGTGGGGCTTAAAAAGAGTGCCACT
1 GACTTGT-GGGCTT-GAAAG-GTGCCACT
* * *
2221249 GATTTGTGGGCTTGAAGGGTGCAACT
1 GACTTGTGGGCTTGAAAGGTGCCACT
*
2221275 GACTTGTGGGCTTTGGAAAAAAGTGCCACT
1 GACTTGTGGGC-TT-G--AAAGGTGCCACT
* *
2221305 GATTTGT-GGCTTTGAAAAGAGTGCCACG
1 GACTTGTGGGC-TTG-AAAG-GTGCCACT
*
2221333 GACTTATGGGCTT
1 GACTTGTGGGCTT
2221346 TTGAAAAAGG
Statistics
Matches: 151, Mismatches: 19, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
26 31 0.21
27 19 0.13
28 29 0.19
29 38 0.25
30 34 0.23
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (26 bp):
GACTTGTGGGCTTGAAAGGTGCCACT
Found at i:2221257 original size:55 final size:56
Alignment explanation
Indices: 2221138--2221342 Score: 213
Period size: 55 Copynumber: 3.6 Consensus size: 56
2221128 AAGCGCCGAC
* * *
2221138 TTGTGGGACGTTGAAATGGTGCCACTGACTTGTGGGCCTGTGAAAAGAGTGCCACTGAA
1 TTGTGGG-CGTTGAAA-GGTGCCACTGACTTGTGGGGCT-TAAAAAGAGTGCCACTGAT
* *
2221197 GTGTGGGC-TTGAAAGGTGCCACTGACGTGTGGGGCTTAAAAAGAGTGCCACTGAT
1 TTGTGGGCGTTGAAAGGTGCCACTGACTTGTGGGGCTTAAAAAGAGTGCCACTGAT
* *
2221252 TTGTGGGC-TTGAAGGGTGCAACTGACTTGT-GGGCTTTGGAAAAA-AGTGCCACTGAT
1 TTGTGGGCGTTGAAAGGTGCCACTGACTTGTGGGGC-TT--AAAAAGAGTGCCACTGAT
* * *
2221308 TTGT-GGCTTTGAAAAGAGTGCCACGGACTTATGGG
1 TTGTGGGCGTTG-AAAG-GTGCCACTGACTTGTGGG
2221343 CTTTTGAAAA
Statistics
Matches: 126, Mismatches: 13, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
54 4 0.03
55 48 0.38
56 39 0.31
57 14 0.11
58 13 0.10
59 8 0.06
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (56 bp):
TTGTGGGCGTTGAAAGGTGCCACTGACTTGTGGGGCTTAAAAAGAGTGCCACTGAT
Found at i:2221344 original size:29 final size:29
Alignment explanation
Indices: 2220672--2221352 Score: 293
Period size: 30 Copynumber: 23.3 Consensus size: 29
2220662 GGGCTTTTTT
* * *
2220672 TTTG-AAAGGGTGGCACGGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
2220700 TTTTGAAAATAG-G-CACTAAAACTTGT-GGC
1 -TTTGAAAAGAGTGCCACT--GACTTGTGGGC
** *
2220729 TTTTTAAAGA-TGCCACTGACTTGTCGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
2220757 TTTG--AA-AGT-CCACTGAATTTGTGGGC
1 TTTGAAAAGAGTGCCACTG-ACTTGTGGGC
* * *
2220783 TTTGCAAAAGAGTGGCCATTGATTTATAGGGGC
1 TTTG-AAAAGAGT-GCCACTGACTTGT--GGGC
* * *
2220816 -TTG-AAAGGGTGCCAGCTGACGTGTTGAGC
1 TTTGAAAAGAGTGCCA-CTGACTTG-TGGGC
*
2220845 TATTGAAGAAGAGTTGCCA-TCGACTCGTGTGGGT
1 T-TTGAA-AAGAG-TGCCACT-GACT--TGTGGGC
* *
2220879 TTTGAAAGGA-TGCCACTAACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* ** *
2220907 TTTGAACAGAGTGCCAACTGGTTTGTGGAGT
1 TTTGAAAAGAGTGCC-ACTGACTTGTGG-GC
* *
2220938 TTTG-AAAGGGTGCCAGACCTGACTTGCAT-GAC
1 TTTGAAAAGAGTGCC--A-CTGACTTG--TGGGC
* *
2220970 --TG-AAAGGGTGTCCACTGACTTAT-GGC
1 TTTGAAAAGAGTG-CCACTGACTTGTGGGC
* *
2220996 TTTTGAAAGGATGCCGCCACGTGACTT-TGTGGC
1 -TTTGAAAAGA-G-TGCCAC-TGACTTGTG-GGC
* *
2221029 TATTG--AAGGGTG-CACTAACTT-TGGGC
1 T-TTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
2221055 TTTGAAAAGAGTGCCACTAAATAG-GTGGC
1 TTTGAAAAGAGTGCCACTGACTTGTG-GGC
2221084 TTTGAAAAGAGTTGCCA-TCGACGTGTGTGGGC
1 TTTGAAAAGAG-TGCCACT-GAC-T-TGTGGGC
2221116 TTTGAAAAGAGTAAGCGC-C-GACTTGTGGGAC
1 TTTGAAAAGAGT--GC-CACTGACTTGTGGG-C
* *
2221147 GTTGAAATG-GTGCCACTGACTTGTGGGCC
1 TTTGAAAAGAGTGCCACTGACTTGTGGG-C
* **
2221176 TGTGAAAAGAGTGCCACTGAAGTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
2221205 -TTG-AAAG-GTGCCACTGACGTGTGGGGC
1 TTTGAAAAGAGTGCCACTGACTTGT-GGGC
* *
2221232 -TTAAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
2221260 -TTG--AAGGGTGCAACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
2221286 TTTGGAAAAAAGTGCCACTGATTTGT-GGC
1 TTT-GAAAAGAGTGCCACTGACTTGTGGGC
* *
2221315 TTTGAAAAGAGTGCCACGGACTTATGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
2221344 TTTTGAAAA
1 -TTTGAAAA
2221353 AGGTGAAACA
Statistics
Matches: 501, Mismatches: 79, Indels: 143
0.69 0.11 0.20
Matches are distributed among these distances:
25 10 0.02
26 56 0.11
27 32 0.06
28 83 0.17
29 84 0.17
30 115 0.23
31 37 0.07
32 45 0.09
33 26 0.05
34 11 0.02
35 2 0.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (29 bp):
TTTGAAAAGAGTGCCACTGACTTGTGGGC
Found at i:2222688 original size:1 final size:1
Alignment explanation
Indices: 2222684--2222731 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
2222674 AGTTTTGTTG
* * * * *
2222684 TTTTTATTTTTTTTGTTTTTGTTTTTTTTTTTGTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2222732 GGGTGTTAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.02, C:0.00, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:2222697 original size:18 final size:17
Alignment explanation
Indices: 2222676--2222732 Score: 71
Period size: 18 Copynumber: 3.3 Consensus size: 17
2222666 TTTTGCTTAG
2222676 TTTTGTTGTTTTTATTTT
1 TTTTGTTGTTTTT-TTTT
*
2222694 TTTTGTTTTTGTTTTTTT
1 TTTTGTTGTT-TTTTTTT
*
2222712 TTTTGTT-TTGTTTTTT
1 TTTTGTTGTTTTTTTTT
2222728 TTTTG
1 TTTTG
2222733 GGTGTTAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
16 11 0.31
17 2 0.06
18 20 0.56
19 3 0.08
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (17 bp):
TTTTGTTGTTTTTTTTT
Found at i:2222701 original size:23 final size:22
Alignment explanation
Indices: 2222665--2222731 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
2222655 TTTTTTGCTA
* *
2222665 TTTTTGCTTAGTTTTGTTGTTTT
1 TTTTTGTTTTGTTTTGTT-TTTT
2222688 TATTTT-TTTTGTTTTTGTTTTTT
1 T-TTTTGTTTTG-TTTTGTTTTTT
2222711 TTTTTGTTTTGTTTT-TTTTTT
1 TTTTTGTTTTGTTTTGTTTTTT
2222732 GGGTGTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
21 6 0.15
22 8 0.21
23 14 0.36
24 11 0.28
ACGTcount: A:0.03, C:0.01, G:0.12, T:0.84
Consensus pattern (22 bp):
TTTTTGTTTTGTTTTGTTTTTT
Found at i:2222710 original size:17 final size:17
Alignment explanation
Indices: 2222676--2222732 Score: 73
Period size: 17 Copynumber: 3.3 Consensus size: 17
2222666 TTTTGCTTAG
2222676 TTTTGTTGTTT-TTATTTT
1 TTTTGTT-TTTGTT-TTTT
2222694 TTTTGTTTTTGTTTTTT
1 TTTTGTTTTTGTTTTTT
2222711 TTTT-TGTTTTGTTTTTT
1 TTTTGT-TTTTGTTTTTT
2222728 TTTTG
1 TTTTG
2222733 GGTGTTAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.03
17 26 0.72
18 9 0.25
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (17 bp):
TTTTGTTTTTGTTTTTT
Found at i:2222725 original size:15 final size:15
Alignment explanation
Indices: 2222676--2222730 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
2222666 TTTTGCTTAG
*
2222676 TTTTGTTGTTTT-TAT
1 TTTTTTTGTTTTGT-T
2222691 TTTTTTTGTTTTTGTTTT
1 TTTTTTTG-TTTTG--TT
2222709 TTTTTTTGTTTTGTT
1 TTTTTTTGTTTTGTT
2222724 TTTTTTT
1 TTTTTTT
2222731 TGGGTGTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
15 16 0.46
16 4 0.11
17 5 0.14
18 9 0.26
19 1 0.03
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (15 bp):
TTTTTTTGTTTTGTT
Found at i:2222729 original size:9 final size:9
Alignment explanation
Indices: 2222653--2222731 Score: 63
Period size: 9 Copynumber: 8.7 Consensus size: 9
2222643 CACCTTTTAC
2222653 TTTTTTTTG
1 TTTTTTTTG
* *
2222662 CTATTTTTG
1 TTTTTTTTG
**
2222671 CTTAGTTTTG
1 -TTTTTTTTG
* *
2222681 TTGTTTTTA
1 TTTTTTTTG
2222690 TTTTTTTTG
1 TTTTTTTTG
2222699 TTTTTGTTT-
1 TTTTT-TTTG
2222708 TTTTTTTTG
1 TTTTTTTTG
2222717 TTTTGTTTT-
1 TTTT-TTTTG
2222726 TTTTTT
1 TTTTTT
2222732 GGGTGTTAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
8 5 0.09
9 38 0.67
10 14 0.25
ACGTcount: A:0.04, C:0.03, G:0.11, T:0.82
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:2226410 original size:14 final size:14
Alignment explanation
Indices: 2226391--2226417 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2226381 TTCTTCTTTC
2226391 TTCAAAATCACTTA
1 TTCAAAATCACTTA
2226405 TTCAAAATCACTT
1 TTCAAAATCACTT
2226418 CACAGCGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (14 bp):
TTCAAAATCACTTA
Found at i:2232460 original size:11 final size:11
Alignment explanation
Indices: 2232439--2232482 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
2232429 CCTTTACACC
2232439 CAAAA-AAAAA
1 CAAAACAAAAA
2232449 CAAAACAAAAA
1 CAAAACAAAAA
2232460 CAAAACAAAAAA
1 CAAAAC-AAAAA
*
2232472 AAAAACAAAAA
1 CAAAACAAAAA
2232483 ACTAAGAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
10 5 0.16
11 16 0.52
12 10 0.32
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAACAAAAA
Found at i:2232470 original size:12 final size:12
Alignment explanation
Indices: 2232443--2232484 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
2232433 TACACCCAAA
2232443 AAAAAACAAAAC
1 AAAAAACAAAAC
2232455 -AAAAACAAAAC
1 AAAAAACAAAAC
*
2232466 AAAAAAAAAAAC
1 AAAAAACAAAAC
2232478 AAAAAAC
1 AAAAAAC
2232485 TAAGAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 11 0.41
12 16 0.59
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAACAAAAC
Found at i:2232483 original size:11 final size:11
Alignment explanation
Indices: 2232440--2232506 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 11
2232430 CTTTACACCC
2232440 AAAAAAAAACA
1 AAAAAAAAACA
*
2232451 AAACAAAAACA
1 AAAAAAAAACA
*
2232462 AAACAAAAAAAA
1 AAA-AAAAAACA
2232474 AAACAAAAAACTA
1 AAA-AAAAAAC-A
2232487 AGAAAAAAATAGCA
1 A-AAAAAAA-A-CA
2232501 AAAAAA
1 AAAAAA
2232507 GAAAAGGGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
11 13 0.28
12 16 0.34
13 12 0.26
14 5 0.11
15 1 0.02
ACGTcount: A:0.84, C:0.10, G:0.03, T:0.03
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:2233764 original size:29 final size:29
Alignment explanation
Indices: 2233722--2234597 Score: 1030
Period size: 28 Copynumber: 30.2 Consensus size: 29
2233712 AATGTTCATC
*
2233722 CTTTTCAAAGCCCATAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
2233751 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
2233780 TTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2233808 CCTTTCAAAGCCCACAAATCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
2233837 CTTTTTAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
2233865 CTTTTCAAAGCCCACAATTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
2233894 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2233922 CATTTCAAAGCCCACAAGTCAGCGCCTACT
1 CTTTTCAAAGCCCACAAGTCAGTGGC-ACT
2233952 CTTTTCAAAGCCCACACAAGTC-GATGGCAACT
1 CTTTTCAAAG-CC-CACAAGTCAG-TGGC-ACT
* *
2233984 CTTTTCAAAGCCCACAATTTAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
2234013 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
2234041 CCTTTCAAAGCCCACAAGTCAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2234069 CCTTTCAAAGCCCATAAGTCAGTGACAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2234097 CCTTTCAAAGCTCATGCAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCA--CAAGTCAGTGGCACT
* * **
2234127 CCTTTCAAAGCTCACAAACCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
2234156 CTTTTCAAAGCCCACAAGTTAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2234184 CCTTTCAAAACCCACACGAGTC-GATGGCAACT
1 CTTTTCAAAGCCCACA--AGTCAG-TGGC-ACT
2234216 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
2234244 CCTTTCAAAGCCCATAAATCAATGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
2234273 CTTTTCAAAGCCCACAAATCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2234301 CCTTTCAAAGCCGACAAGTTAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
2234330 CTTTTCAAAGCCCACAAGTTAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
2234358 ATTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2234386 CCTTTCAAAGCCCACGTAAGTTAGTGGCAC-
1 CTTTTCAAAGCCCAC--AAGTCAGTGGCACT
* *
2234416 CCTTTCAAAGCCCACAAGTTAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
2234445 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2234473 CCTTTCAAAGCCCACAAGGCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
2234501 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
** *
2234530 CTTTTCAAAGCCCACACGAGTTGGTGGTAACT
1 CTTTTCAAAGCCCACA--AGTCAGTGG-CACT
* *
2234562 CCTTTCAAAGCCCACACAAGTTAGTGGCACT
1 CTTTTCAAAG-CC-CACAAGTCAGTGGCACT
*
2234593 ATTTT
1 CTTTT
2234598 TTTTAAAAAA
Statistics
Matches: 742, Mismatches: 74, Indels: 60
0.85 0.08 0.07
Matches are distributed among these distances:
28 317 0.43
29 253 0.34
30 87 0.12
31 21 0.03
32 58 0.08
33 2 0.00
34 4 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (29 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:2233835 original size:57 final size:58
Alignment explanation
Indices: 2233722--2234597 Score: 1030
Period size: 57 Copynumber: 15.1 Consensus size: 58
2233712 AATGTTCATC
* *
2233722 CTTTTCAAAGCCCATAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2233780 TTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAATCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2233837 CTTTTTAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAATTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2233894 CTTTTCAAAGCCCACAAGTCAGTGGCAC-CATTTCAAAGCCCACAAGTCAGCGCCTACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGC-ACT
* *
2233952 CTTTTCAAAGCCCACACAAGTC-GATGGCAACTCTTTTCAAAGCCCACAATTTAGTGGCACT
1 CTTTTCAAAG-CC-CACAAGTCAG-TGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2234013 CTTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* * * * *
2234069 CCTTTCAAAGCCCATAAGTCAGTGACAC-CCTTTCAAAGCTCATGCAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA--CAAGTCAGTGGCACT
* * ** *
2234127 CCTTTCAAAGCTCACAAACCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2234184 CCTTTCAAAACCCACACGAGTC-GATGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACA--AGTCAG-TGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* * * * *
2234244 CCTTTCAAAGCCCATAAATCAATGGCACTCTTTTCAAAGCCCACAAATCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
2234301 CCTTTCAAAGCCGACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2234358 ATTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACGTAAGTTAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC--AAGTCAGTGGCACT
* *
2234416 CCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2234473 CCTTTCAAAGCCCACAAGGCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
** * * *
2234530 CTTTTCAAAGCCCACACGAGTTGGTGGTAACTCCTTTCAAAGCCCACACAAGTTAGTGGCACT
1 CTTTTCAAAGCCCACA--AGTCAGTGG-CACTCTTTTCAAAG-CC-CACAAGTCAGTGGCACT
*
2234593 ATTTT
1 CTTTT
2234598 TTTTAAAAAA
Statistics
Matches: 717, Mismatches: 71, Indels: 55
0.85 0.08 0.07
Matches are distributed among these distances:
56 79 0.11
57 336 0.47
58 122 0.17
59 52 0.07
60 60 0.08
61 25 0.03
62 23 0.03
63 20 0.03
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (58 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:2235185 original size:20 final size:20
Alignment explanation
Indices: 2235157--2235231 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
2235147 TTTTACCCAG
2235157 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2235177 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
2235197 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
2235217 ATGTATCGATACATT
1 ATGTATCGATACATT
2235232 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2235217 original size:40 final size:39
Alignment explanation
Indices: 2235157--2235234 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
2235147 TTTTACCCAG
*
2235157 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
2235197 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
2235235 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:2239499 original size:42 final size:42
Alignment explanation
Indices: 2239440--2239519 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
2239430 GGAGCAGTAA
2239440 ATCTAGTCTATGAAAGGCTTAATAGAGTTTTGGCAGCGAAAG
1 ATCTAGTCTATGAAAGGCTTAATAGAGTTTTGGCAGCGAAAG
*
2239482 ATCTAGTCTATGAAAGGCTTGATAGAGTTTTGGCAGCG
1 ATCTAGTCTATGAAAGGCTTAATAGAGTTTTGGCAGCG
2239520 GAAAAATGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (42 bp):
ATCTAGTCTATGAAAGGCTTAATAGAGTTTTGGCAGCGAAAG
Found at i:2244490 original size:52 final size:52
Alignment explanation
Indices: 2244405--2244529 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
2244395 ATATGAAAAG
* *
2244405 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
2244457 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
2244509 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2244530 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:2244542 original size:52 final size:51
Alignment explanation
Indices: 2244405--2244549 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
2244395 ATATGAAAAG
*
2244405 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
2244457 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
2244509 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2244550 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:2244556 original size:13 final size:13
Alignment explanation
Indices: 2244538--2244562 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2244528 CAAAGATCAG
2244538 TGTATCGATACAA
1 TGTATCGATACAA
2244551 TGTATCGATACA
1 TGTATCGATACA
2244563 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2244662 original size:33 final size:33
Alignment explanation
Indices: 2244602--2244671 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
2244592 GGCAGTAGCT
* *
2244602 TACATTGTATCGATACAAAAAAATATGTATTGA
1 TACATTGTATCAATACAAAAAAATATGTATCGA
* ***
2244635 TACATTGTATCAATACAACATTTTATGTATCGA
1 TACATTGTATCAATACAAAAAAATATGTATCGA
2244668 TACA
1 TACA
2244672 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (33 bp):
TACATTGTATCAATACAAAAAAATATGTATCGA
Found at i:2245800 original size:49 final size:49
Alignment explanation
Indices: 2245591--2246486 Score: 1149
Period size: 49 Copynumber: 18.7 Consensus size: 49
2245581 AAAAGGATGT
*
2245591 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
2245643 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
2245686 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
2245734 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
2245783 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * **
2245832 CAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGAAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
2245881 CAATATGCTGATTCAAGGCCAGCGATATCGGGCTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
2245924 CAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * * * *
2245973 CAATATGCTGATTCAAGGCCAGCGATATCGGGCTTAAAGGTGAAGGGGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
2246022 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
2246071 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G-A--TGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
2246114 CAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
2246163 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
2246212 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
2246261 CAATATGCTGATTCAAGGCTAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
2246304 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
2246353 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
2246402 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
2246451 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
2246487 GAAGGGTTGC
Statistics
Matches: 734, Mismatches: 85, Indels: 53
0.84 0.10 0.06
Matches are distributed among these distances:
43 147 0.20
44 2 0.00
45 4 0.01
46 1 0.00
47 5 0.01
48 50 0.07
49 493 0.67
52 32 0.04
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:2245950 original size:190 final size:190
Alignment explanation
Indices: 2245591--2246491 Score: 1355
Period size: 190 Copynumber: 4.7 Consensus size: 190
2245581 AAAAGGATGT
* * * * * *
2245591 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT-G--AAGGTGCCAATGTGCTGAGT
* * * *
2245656 CAAGGCCAGCTATATTGGAC-T-----TAAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATT
63 CAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT
*
2245715 GGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
128 GGACTT--A-A--AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
2245780 TGC
188 TGC
*
2245783 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAA
* * * * *
2245848 GGCTAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGG
66 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
* * *
2245913 CTTAAAGGTGCCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
131 CTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
2245973 CAATATGCTGATTCAAGGCCAGCGATATCGGGCTTAAAGGTGAAGGGGCCAATGTGCTGAGTCAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAA
*
2246038 GGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
66 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
* *
2246103 CTTAAAGATGCCAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
131 CTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
2246163 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAA
*
2246228 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGA
66 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
*
2246293 CTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
131 CTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
2246353 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAA
* *
2246418 GGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGG
66 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
2246483 CTTAGAAGG
131 CTTA-AAGG
2246492 GTTGCCACCG
Statistics
Matches: 649, Mismatches: 53, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
189 36 0.06
190 533 0.82
191 5 0.01
192 37 0.06
193 1 0.00
195 37 0.06
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (190 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAA
GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
CTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:2245968 original size:141 final size:143
Alignment explanation
Indices: 2245582--2246486 Score: 1042
Period size: 141 Copynumber: 6.3 Consensus size: 143
2245572 AAGATGAGAA
* *
2245582 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----AT---AAAGGTGCCAAT
* *
2245647 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGTCAATGTGCTGATTCAAGGCC
58 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCC
2245706 AGCTACATTGGACTTAAAGAT
123 AGCTACATTGGACTTAAAGAT
* *
2245727 -GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----ATAAAGGTGCCAATATGC
* * *
2245791 TGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCTAGCT
62 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
*
2245856 ACATTGGACTTAAAGAA
127 ACATTGGACTTAAAGAT
* * * * * *
2245873 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGGC-T-TAAAGGTGCCAATGTGCTGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTATAAAGGTGCCAATATGCTGAT
* * * * * * *
2245936 TTAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATAT
66 TCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACAT
* * *
2246001 CGGGCTTAAAGGT
131 TGGACTTAAAGAT
* * * *
2246014 GAAGGGGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----ATAAAGGTGCCAATATGC
*
2246079 TGATTCAAGGCCAGCTATATTGGACTT-AA-A-G-A--TGCCAATGTGTTGAGTCAAGGCCAGCT
62 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
2246138 ACATTGGACTTAAAGAT
127 ACATTGGACTTAAAGAT
* *
2246155 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----ATAAAGGTGCCAATATGC
* * * * * *
2246220 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCT
62 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
*
2246285 ATATTGGAC-T-----T
127 ACATTGGACTTAAAGAT
*
2246296 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----ATAAAGGTGCCAATATGC
2246361 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
62 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
*
2246426 ACATTGGTCTTAAAGAT
127 ACATTGGACTTAAAGAT
* * *
2246443 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
2246487 GAAGGGTTGC
Statistics
Matches: 658, Mismatches: 77, Indels: 52
0.84 0.10 0.07
Matches are distributed among these distances:
140 42 0.06
141 367 0.56
142 4 0.01
143 45 0.07
144 4 0.01
145 2 0.00
146 48 0.07
147 146 0.22
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (143 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTATAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACAT
TGGACTTAAAGAT
Found at i:2246665 original size:33 final size:33
Alignment explanation
Indices: 2246486--2246686 Score: 281
Period size: 31 Copynumber: 6.2 Consensus size: 33
2246476 TATTGGGCTT
2246486 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
2246519 AG-AGGGTTGCCATCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
2246550 AG-GGGGTTGCC-CTCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCAC-CGACTTGTGTGGGCTTTAG
* *
2246581 AG-GGGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
2246613 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
* *
2246647 AGAAGGTTTGCCATCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
2246680 -GAAGGGT
1 AGAAGGGT
2246687 GAAAGATGCC
Statistics
Matches: 154, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
31 56 0.36
32 37 0.24
33 30 0.19
34 31 0.20
ACGTcount: A:0.15, C:0.17, G:0.38, T:0.30
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:2246768 original size:71 final size:68
Alignment explanation
Indices: 2246688--2247108 Score: 392
Period size: 71 Copynumber: 6.4 Consensus size: 68
2246678 AGGAAGGGTG
*
2246688 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAACAAG-GTGCCACAGAGTTGTGGGCTTTAAAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAA-AAGAGTGCCAC-GAGTTGTGGGCTTTAAAA
2246751 AGGAAAA
64 AGG--AA
* * * *
2246758 AAAGAGTGCCACGGAGTTGTGGGCTT-AGAAGGAAAGAG-G-CACG-G-T-T-GGC--T-AGAA-
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGAGTGCCACGAGTTGTGGGCTTTAAAAAG
2246812 G--
66 GAA
* * *
2246813 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTT--AAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGAGTGCCACG-AGTTGTGGGCTTTAAAAA
2246876 GG-A
65 GGAA
*
2246879 AAAGAGTGCCACGGAGTCGTGGACTT-AAAAG----G-GTGCCACGGAGTTGTGGGCTTTAAAAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGAGTGCCAC-GAGTTGTGGGCTTTAAAAA
2246938 GGGAA
65 -GGAA
*
2246943 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA-AGGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAGA-GTGCCAC-GAGTTGTGGGCTTT-AA
*
2247007 AAGGGAA
62 AAAGGAA
* * *
2247014 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAG-AAAAGAGTGCCAC-GAGTTGTGGGCTTTAAA
*
2247079 CA-GAA
63 AAGGAA
2247084 AAAG-GTGCCACGGAGTTGTGGACTT
1 AAAGAGTGCCACGGAGTTGTGGACTT
2247109 TGAGACAAAA
Statistics
Matches: 297, Mismatches: 24, Indels: 62
0.78 0.06 0.16
Matches are distributed among these distances:
55 26 0.09
56 8 0.03
57 1 0.00
58 4 0.01
59 1 0.00
60 24 0.08
61 4 0.01
62 4 0.01
63 8 0.03
64 26 0.09
65 8 0.03
66 30 0.10
67 1 0.00
68 5 0.02
69 21 0.07
70 18 0.06
71 79 0.27
72 29 0.10
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.20
Consensus pattern (68 bp):
AAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGAGTGCCACGAGTTGTGGGCTTTAAAAAG
GAA
Found at i:2246775 original size:38 final size:35
Alignment explanation
Indices: 2246688--2247109 Score: 361
Period size: 33 Copynumber: 12.8 Consensus size: 35
2246678 AGGAAGGGTG
* *
2246688 AAAGA-TGCCACGAAGTTGTGGAC-TTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
2246721 CAAG-GTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA-G--AA
* *
2246758 AAAGAGTGCCACGGAGTTGTGGGC-TT-AGAAG-G
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
*
2246790 AAAGAG-G-CAC-G-G-T-T-GGC--TAGAAGA-AA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTA-AAAAGAA
* * *
2246816 GA---GTGCCACGGAGTTGTGGGC-TT-AGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
2246846 AAAGAGTGCCACGTAGTTGTGGGCTTT--AAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
2246879 AAAGAGTGCCACGGAGTCGTGGAC-TT-AAAAG--
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
2246910 ---G-GTGCCACGGAGTTGTGGGCTTTAAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA--GAA
2246943 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
*
2246978 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAA
*
2247014 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * *
2247049 AAAGTGTGCCACAGAGTTGTGGGCTTTAAACAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
*
2247084 AAAG-GTGCCACGGAGTTGTGGACTTT
1 AAAGAGTGCCACGGAGTTGTGGGCTTT
2247110 GAGACAAAAT
Statistics
Matches: 323, Mismatches: 30, Indels: 71
0.76 0.07 0.17
Matches are distributed among these distances:
23 1 0.00
24 2 0.01
25 6 0.02
26 5 0.02
27 19 0.06
28 5 0.02
29 8 0.02
30 8 0.02
31 3 0.01
32 8 0.02
33 66 0.20
34 51 0.16
35 53 0.16
36 15 0.05
37 55 0.17
38 18 0.06
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.20
Consensus pattern (35 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
Found at i:2246916 original size:27 final size:28
Alignment explanation
Indices: 2246878--2246936 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
2246868 GCTTTAAAGG
2246878 AAAAGAGTGCCACGGAGTCGTGGAC-TT
1 AAAAGAGTGCCACGGAGTCGTGGACTTT
* * *
2246905 AAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGAGTGCCACGGAGTCGTGGACTTT
2246933 AAAA
1 AAAA
2246937 AGGGAAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.31, C:0.15, G:0.34, T:0.20
Consensus pattern (28 bp):
AAAAGAGTGCCACGGAGTCGTGGACTTT
Found at i:2246955 original size:37 final size:34
Alignment explanation
Indices: 2246905--2247109 Score: 293
Period size: 35 Copynumber: 5.8 Consensus size: 34
2246895 TCGTGGACTT
*
2246905 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA--G
2246941 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
*
2246976 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AG
*
2247012 AAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
* *
2247047 AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAACAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
*
2247082 AAAAAGGTGCCACGGAGTTGTGGACTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT
2247110 GAGACAAAAT
Statistics
Matches: 157, Mismatches: 8, Indels: 10
0.90 0.05 0.06
Matches are distributed among these distances:
34 42 0.27
35 51 0.32
36 16 0.10
37 48 0.31
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
Found at i:2247084 original size:106 final size:107
Alignment explanation
Indices: 2246905--2247111 Score: 344
Period size: 106 Copynumber: 1.9 Consensus size: 107
2246895 TCGTGGACTT
* * *
2246905 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA-GGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
*
2246970 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGA
65 AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGGGA
*
2247013 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA-GAAAAAGTGTGCCACAGAGTTGTGGGCTTTA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
*
2247077 AACAGAAAAAGGTGCCACGGAGTTGTGGACTTTGA
66 AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGA
2247112 GACAAAATGC
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
106 62 0.67
108 31 0.33
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (107 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGGGA
Found at i:2247167 original size:62 final size:63
Alignment explanation
Indices: 2247055--2247233 Score: 195
Period size: 62 Copynumber: 2.8 Consensus size: 63
2247045 AGAAAAAGTG
* * * * * *
2247055 TGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAGACA-A-A
1 TGCCACTGAGTCGTGGACTTT-AA-AGGAAAAGATGCCACTGAGTTGTGGACTTTGAG-CAGAGA
2247118 A
63 A
* *
2247119 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTTGTGGACTTTGAGCAGAGAA
* * *
2247182 TGCCACTGAGTCATGGACTTT-GA-GAAGAGATTGCCACTGAGTTGTGGACTTT
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA-TGCCACTGAGTTGTGGACTTT
2247234 AAAAAGGTAT
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
61 8 0.08
62 51 0.51
63 23 0.23
64 18 0.18
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTTGTGGACTTTGAGCAGAGAA
Found at i:2247189 original size:31 final size:31
Alignment explanation
Indices: 2247089--2247233 Score: 170
Period size: 31 Copynumber: 4.7 Consensus size: 31
2247079 CAGAAAAAGG
* * *
2247089 TGCCACGGAGTTGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
* *
2247119 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA-
1 TGCCACTGAGTCGTGGACTTT-GA-GAAGAGAT
*
2247151 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
2247182 TGCCACTGAGTCATGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
2247213 TGCCACTGAGTTGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
2247234 AAAAAGGTAT
Statistics
Matches: 100, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
30 24 0.24
31 51 0.51
32 24 0.24
33 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:2248182 original size:16 final size:16
Alignment explanation
Indices: 2248163--2248194 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2248153 TTCCTCTCTT
*
2248163 TTTTTTTTCTTTTTTG
1 TTTTGTTTCTTTTTTG
2248179 TTTTGTTTCTTTTTTG
1 TTTTGTTTCTTTTTTG
2248195 GAAAAGAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.84
Consensus pattern (16 bp):
TTTTGTTTCTTTTTTG
Found at i:2248450 original size:7 final size:7
Alignment explanation
Indices: 2248432--2248464 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
2248422 GCCTTTGCAC
2248432 TTTT-TT
1 TTTTGTT
2248438 TTTTGTT
1 TTTTGTT
*
2248445 TGTTGTT
1 TTTTGTT
2248452 TTTTGTT
1 TTTTGTT
2248459 TTTTGT
1 TTTTGT
2248465 GTTTACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (7 bp):
TTTTGTT
Found at i:2248467 original size:19 final size:18
Alignment explanation
Indices: 2248432--2248468 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2248422 GCCTTTGCAC
2248432 TTTTTTTTTTGTTTGTTG
1 TTTTTTTTTTGTTTGTTG
*
2248450 TTTTTTGTTT-TTTG-TG
1 TTTTTTTTTTGTTTGTTG
2248466 TTT
1 TTT
2248469 ACTTTTGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 4 0.22
18 9 0.50
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTTGTTTGTTG
Found at i:2255475 original size:52 final size:52
Alignment explanation
Indices: 2255390--2255514 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
2255380 ATATGAAAAG
* *
2255390 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
2255442 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
2255494 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2255515 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:2255527 original size:52 final size:51
Alignment explanation
Indices: 2255390--2255534 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
2255380 ATATGAAAAG
*
2255390 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
2255442 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
2255494 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2255535 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:2255541 original size:13 final size:13
Alignment explanation
Indices: 2255523--2255547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2255513 CAAAGATCAG
2255523 TGTATCGATACAA
1 TGTATCGATACAA
2255536 TGTATCGATACA
1 TGTATCGATACA
2255548 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2255629 original size:33 final size:33
Alignment explanation
Indices: 2255587--2255656 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
2255577 GGCAGTAGCT
*
2255587 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCAATACAAAAAAATATGTATCGA
* ***
2255620 TACATTGTATCAATACAACATTTTATGTATCGA
1 TACATTGTATCAATACAAAAAAATATGTATCGA
2255653 TACA
1 TACA
2255657 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.34
Consensus pattern (33 bp):
TACATTGTATCAATACAAAAAAATATGTATCGA
Found at i:2256251 original size:2 final size:2
Alignment explanation
Indices: 2256244--2256313 Score: 115
Period size: 2 Copynumber: 35.5 Consensus size: 2
2256234 TGTTTAATTT
*
2256244 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2256285 TA TA TA TA TA TA TA TT TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2256314 TATTACATAG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:2258084 original size:36 final size:36
Alignment explanation
Indices: 2258037--2258111 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
2258027 CTCTTATGGT
2258037 AAGGACATCATTATGATAGTTGTGGATAGGTTGAGC
1 AAGGACATCATTATGATAGTTGTGGATAGGTTGAGC
*
2258073 AAGGACATCATTATGATAGTTGTTGATAGGTTGAGC
1 AAGGACATCATTATGATAGTTGTGGATAGGTTGAGC
2258109 AAG
1 AAG
2258112 TATGCACATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (36 bp):
AAGGACATCATTATGATAGTTGTGGATAGGTTGAGC
Found at i:2266629 original size:24 final size:24
Alignment explanation
Indices: 2266557--2266616 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
2266547 TATTTTATGA
* **
2266557 ATAAATAAAATCAATA-AAATATAG
1 ATAAATAAAATTAATACAAA-ATTT
* *
2266581 AAAAATTAAATTAATACAAAATTT
1 ATAAATAAAATTAATACAAAATTT
2266605 ATAAATAAAATT
1 ATAAATAAAATT
2266617 TATATAACAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 25 0.89
25 3 0.11
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (24 bp):
ATAAATAAAATTAATACAAAATTT
Found at i:2269213 original size:14 final size:15
Alignment explanation
Indices: 2269194--2269223 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2269184 AAGTGGGCAA
2269194 AAAATA-TATATTTT
1 AAAATATTATATTTT
2269208 AAAATATTATATTTT
1 AAAATATTATATTTT
2269223 A
1 A
2269224 GAAAGAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAAATATTATATTTT
Found at i:2269354 original size:14 final size:15
Alignment explanation
Indices: 2269316--2269353 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
2269306 AAGTGATAAG
*
2269316 TAGTTTTTTAGTGAA
1 TAGTTTTTTAATGAA
2269331 TAGTTTTTTAATGAA
1 TAGTTTTTTAATGAA
2269346 TAGTTTTT
1 TAGTTTTT
2269354 ATTCAAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (15 bp):
TAGTTTTTTAATGAA
Found at i:2269582 original size:13 final size:13
Alignment explanation
Indices: 2269564--2269592 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2269554 TATTTATATC
2269564 ATATCTATTAACT
1 ATATCTATTAACT
2269577 ATATCTATTAACT
1 ATATCTATTAACT
2269590 ATA
1 ATA
2269593 AAGTTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (13 bp):
ATATCTATTAACT
Found at i:2272791 original size:29 final size:28
Alignment explanation
Indices: 2272713--2272881 Score: 117
Period size: 29 Copynumber: 6.0 Consensus size: 28
2272703 GGGCCATTTT
* *
2272713 AGGGTCAATGTGTAATTTTG-AAAGTTTA
1 AGGGTCAAAGTATAATTTTGAAAAG-TTA
* * *
2272741 AGGAT-AAATTATAATTTAGAAAAGTTCA
1 AGGGTCAAAGTATAATTTTGAAAAGTT-A
*
2272769 AGGGTCAAAGGATAATTTTGAAAAGTTTA
1 AGGGTCAAAGTATAATTTTGAAAAG-TTA
* * * * *
2272798 AAGGTTAAAGTTTAATTTTGAACAGTTG
1 AGGGTCAAAGTATAATTTTGAAAAGTTA
*** ** *
2272826 AGGGATCAAAACGTAATTTCAAAAAGTTT
1 AGGG-TCAAAGTATAATTTTGAAAAGTTA
* *
2272855 AGGGTCAAAATATAATTTTAAAAAGTT
1 AGGGTCAAAGTATAATTTTGAAAAGTT
2272882 TAAAAGTTAA
Statistics
Matches: 109, Mismatches: 27, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
27 12 0.11
28 38 0.35
29 57 0.52
30 2 0.02
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.34
Consensus pattern (28 bp):
AGGGTCAAAGTATAATTTTGAAAAGTTA
Found at i:2272843 original size:58 final size:57
Alignment explanation
Indices: 2272724--2272855 Score: 137
Period size: 58 Copynumber: 2.3 Consensus size: 57
2272714 GGGTCAATGT
*
2272724 GTAATTTTG-AAAGTTT-AAGGATAAATTATAATTTAGAAAAGTTCAAGGGTCAAAG
1 GTAATTTTGAAAAGTTTAAAGGATAAATTATAATTTAGAAAAGTTCAAGGGTCAAAC
* * * *
2272779 GATAATTTTGAAAAGTTTAAAGGTTAAAGTT-TAATTTTGAACAGTT-GAGGGATCAAAAC
1 G-TAATTTTGAAAAGTTTAAAGGATAAA-TTATAATTTAGAAAAGTTCAAGGG-TC-AAAC
**
2272838 GTAATTTCAAAAAGTTTA
1 GTAATTTTGAAAAGTTTA
2272856 GGGTCAAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
55 1 0.02
56 8 0.12
57 11 0.17
58 38 0.59
59 6 0.09
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.34
Consensus pattern (57 bp):
GTAATTTTGAAAAGTTTAAAGGATAAATTATAATTTAGAAAAGTTCAAGGGTCAAAC
Found at i:2272964 original size:82 final size:83
Alignment explanation
Indices: 2272858--2273027 Score: 247
Period size: 82 Copynumber: 2.0 Consensus size: 83
2272848 AAAGTTTAGG
* * *
2272858 GTCAAAATATAATTTTAAAAAGTTTAAA-AGTTAATGTGTAATTT-TAAAAAGTCTAGGAGCTTG
1 GTCAAAATATAATTTTAAAAAGTTTAAAGA-TTAATGTGTAATTTCAAAAAAGTCTAAGAGCTTA
2272921 GTAGC-ATTTTTCTAATCAA
65 GTAGCAATTTTT-TAATCAA
* *
2272940 GTCAAAATGTAATTTTAGAAAGTTTAAAGATTAATGTGTAATTTCAAAAAAGTCTAAGAGCTTAG
1 GTCAAAATATAATTTTAAAAAGTTTAAAGATTAATGTGTAATTTCAAAAAAGTCTAAGAGCTTAG
2273005 TAGCAAATTTTTTAATCAA
66 TAGC-AATTTTTTAATCAA
2273024 GTCA
1 GTCA
2273028 CGCGTTTGTT
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
82 40 0.51
83 22 0.28
84 11 0.14
85 6 0.08
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (83 bp):
GTCAAAATATAATTTTAAAAAGTTTAAAGATTAATGTGTAATTTCAAAAAAGTCTAAGAGCTTAG
TAGCAATTTTTTAATCAA
Found at i:2273239 original size:29 final size:28
Alignment explanation
Indices: 2273120--2273253 Score: 87
Period size: 29 Copynumber: 4.7 Consensus size: 28
2273110 GGTCAAAGGA
* * *
2273120 TAATTTTGAAAAGTTTAAAGGCTAAAGT-T
1 TAATTTTAAAAAGTTT-AAGGTTAAA-TAG
* * *
2273149 TAATTTTGAAAAGTTCAAGGGTCAAA-ACG
1 TAATTTTAAAAAGTTTAA-GGTTAAATA-G
2273178 TAATTTTAAAAAGTTTAAGGTTAAAATA-
1 TAATTTTAAAAAGTTTAAGGTT-AAATAG
* *
2273206 AAATTTTAAAAAGTTTAGGGGTT-AATGAG
1 TAATTTTAAAAAGTTTA-AGGTTAAAT-AG
* *
2273235 TAATTTCAAAAAGTCTAAG
1 TAATTTTAAAAAGTTTAAG
2273254 AGCTTAGTAG
Statistics
Matches: 84, Mismatches: 13, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
27 3 0.04
28 23 0.27
29 57 0.68
30 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.17, T:0.34
Consensus pattern (28 bp):
TAATTTTAAAAAGTTTAAGGTTAAATAG
Found at i:2273314 original size:83 final size:83
Alignment explanation
Indices: 2273207--2273366 Score: 259
Period size: 83 Copynumber: 1.9 Consensus size: 83
2273197 GTTAAAATAA
* * *
2273207 AATTTTAAAAAGTTTAGGGGTTAATGAGTAATTTCAAAAAGTCTAAGAGCTTAGTAGC-AATTTT
1 AATTTTAAAAAGTTTAGAGATTAATGAGTAATTTCAAAAAGTCTAAAAGCTTAGTAGCAAATTTT
*
2273271 TTCAATCAAGTCAAAATGT
66 CT-AATCAAGTCAAAATGT
*
2273290 AATTTTAAAAAGTTTAGAGATTAATGTGTAATTTCAAAAAGTCTAAAAGCTTAGTAGCAAATTTT
1 AATTTTAAAAAGTTTAGAGATTAATGAGTAATTTCAAAAAGTCTAAAAGCTTAGTAGCAAATTTT
2273355 CTAATCAAGTCA
66 CTAATCAAGTCA
2273367 CATGTTTGTT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
83 64 0.90
84 7 0.10
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (83 bp):
AATTTTAAAAAGTTTAGAGATTAATGAGTAATTTCAAAAAGTCTAAAAGCTTAGTAGCAAATTTT
CTAATCAAGTCAAAATGT
Found at i:2273381 original size:339 final size:339
Alignment explanation
Indices: 2272761--2273439 Score: 1067
Period size: 339 Copynumber: 2.0 Consensus size: 339
2272751 ATAATTTAGA
* * *
2272761 AAAGTTCAAGGGTCAAAGGATAATTTTGAAAAGTTTAAAGGTTAAAGTTTAATTTTGAACAGTTG
1 AAAGTTCAAGGGTCAAAGGATAATTTTGAAAAGTTTAAAGGCTAAAGTTTAATTTTGAAAAGTTA
* *
2272826 AGGGATCAAAACGTAATTTCAAAAAGTTTAGGGTCAAAATATAATTTTAAAAAGTTTAAAAGTTA
66 AGGGATCAAAACGTAATTTCAAAAAGTTTAAGGTCAAAATAAAATTTTAAAAAGTTTAAAAGTTA
* * * *
2272891 ATGTGTAATTTTAAAAAGTCTAGGAGCTTGGTAGCATTTTTCTAATCAAGTCAAAATGTAATTTT
131 ATGAGTAATTTCAAAAAGTCTAAGAGCTTAGTAGCATTTTTCTAATCAAGTCAAAATGTAATTTT
* * *
2272956 AGAAAGTTTAAAGATTAATGTGTAATTTCAAAAAAGTCTAAGAGCTTAGTAGCAAATTTTTTAAT
196 AAAAAGTTTAAAGATTAATGTGTAATTTCAAAAAAGTCTAAAAGCTTAGTAGCAAATTTTCTAAT
* * * * *
2273021 CAAGTCACGCGTTTGTTTTTAAGTTACCTACGTAAAATGTGTTTGATGTTTTCATAATGGTTTCG
261 CAAGTCACACGTTTGTTTTTAAATTACCTACATAAAATGTGTTTGATGTTTTCATAATAGTTTAG
*
2273086 TATCTTTTAGGGTT
326 TATCTTTTAGAGTT
2273100 AAAGTTCAAGGGTCAAAGGATAATTTTGAAAAGTTTAAAGGCTAAAGTTTAATTTTGAAAAGTTC
1 AAAGTTCAAGGGTCAAAGGATAATTTTGAAAAGTTTAAAGGCTAAAGTTTAATTTTGAAAAGTT-
* * ***
2273165 AAGGG-TCAAAACGTAATTTTAAAAAGTTTAAGGTTAAAATAAAATTTTAAAAAGTTTAGGGGTT
65 AAGGGATCAAAACGTAATTTCAAAAAGTTTAAGGTCAAAATAAAATTTTAAAAAGTTTAAAAGTT
2273229 AATGAGTAATTTCAAAAAGTCTAAGAGCTTAGTAGCAATTTTT-TCAATCAAGTCAAAATGTAAT
130 AATGAGTAATTTCAAAAAGTCTAAGAGCTTAGTAGC-ATTTTTCT-AATCAAGTCAAAATGTAAT
*
2273293 TTTAAAAAGTTTAGAGATTAATGTGTAATTTC-AAAAAGTCTAAAAGCTTAGTAGCAAATTTTCT
193 TTTAAAAAGTTTAAAGATTAATGTGTAATTTCAAAAAAGTCTAAAAGCTTAGTAGCAAATTTTCT
* *
2273357 AATCAAGTCACATGTTTGTTTTTAAATTACCTACATAAGATGTGTTTGATGTTTTCATAATAGTT
258 AATCAAGTCACACGTTTGTTTTTAAATTACCTACATAAAATGTGTTTGATGTTTTCATAATAGTT
*
2273422 TAGTGTCTTTTAGAGTT
323 TAGTATCTTTTAGAGTT
2273439 A
1 A
2273440 TCGGGATATT
Statistics
Matches: 310, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
339 251 0.81
340 59 0.19
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (339 bp):
AAAGTTCAAGGGTCAAAGGATAATTTTGAAAAGTTTAAAGGCTAAAGTTTAATTTTGAAAAGTTA
AGGGATCAAAACGTAATTTCAAAAAGTTTAAGGTCAAAATAAAATTTTAAAAAGTTTAAAAGTTA
ATGAGTAATTTCAAAAAGTCTAAGAGCTTAGTAGCATTTTTCTAATCAAGTCAAAATGTAATTTT
AAAAAGTTTAAAGATTAATGTGTAATTTCAAAAAAGTCTAAAAGCTTAGTAGCAAATTTTCTAAT
CAAGTCACACGTTTGTTTTTAAATTACCTACATAAAATGTGTTTGATGTTTTCATAATAGTTTAG
TATCTTTTAGAGTT
Found at i:2275168 original size:80 final size:80
Alignment explanation
Indices: 2274887--2275160 Score: 279
Period size: 80 Copynumber: 3.4 Consensus size: 80
2274877 ATCCCCTTAG
* * * * *
2274887 AGATGAAAAATTCAGTGTTTTAGAAGTAAAAACAGGGTTAAAGTATCCTCTCAAAGATGGCGGGG
1 AGATGAAAAATTCGGTGTTTTAGAAGTAAAAACAGGGTTGAAGTATCCCCTCAGAGATGGTGGGG
2274952 TTGGAGTATCCCCGA
66 TTGGAGTATCCCCGA
* * ** * * * *
2274967 AGATGAAAAATTTGGTGTTGTAGAAGTAAAAACAGAATTGGAA-TATCACATCGGAGGTGGTGGG
1 AGATGAAAAATTCGGTGTTTTAGAAGTAAAAACAGGGTT-GAAGTATCCCCTCAGAGATGGTGGG
* *
2275031 GTTGAAGTATCCTCGA
65 GTTGGAGTATCCCCGA
* * * *
2275047 AAATTAAAAAAAATT-TGTGTTTT-GAAAGTAAAAAC-GAGGTTGAAGTATCCCCTCAGAGATAG
1 AGA-T--GAAAAATTCGGTGTTTTAG-AAGTAAAAACAG-GGTTGAAGTATCCCCTCAGAGATGG
2275109 TGGGGTTGGAGTATCCCCGA
61 TGGGGTTGGAGTATCCCCGA
2275129 AGATGAAAAATTCGGTGTTTT-GAAAGTAAAAA
1 AGATGAAAAATTCGGTGTTTTAG-AAGTAAAAA
2275161 TGGGGTTGGA
Statistics
Matches: 155, Mismatches: 31, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
79 7 0.05
80 82 0.53
81 9 0.06
82 50 0.32
83 7 0.05
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (80 bp):
AGATGAAAAATTCGGTGTTTTAGAAGTAAAAACAGGGTTGAAGTATCCCCTCAGAGATGGTGGGG
TTGGAGTATCCCCGA
Found at i:2276836 original size:2 final size:2
Alignment explanation
Indices: 2276829--2276869 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2276819 AGCTATATTC
2276829 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2276870 AGGCATTTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2279013 original size:19 final size:19
Alignment explanation
Indices: 2278987--2279025 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
2278977 ATTCAATGAG
*
2278987 ATGCTGG-ACATGTTAAAA
1 ATGCTGGAACATATTAAAA
2279005 ATGCATGGAACATATTAAAA
1 ATGC-TGGAACATATTAAAA
2279025 A
1 A
2279026 AACGCATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (19 bp):
ATGCTGGAACATATTAAAA
Found at i:2279941 original size:31 final size:31
Alignment explanation
Indices: 2279906--2279981 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
2279896 TTTTAACTAG
*
2279906 ATGTATCGATACATCTGGGTAAAAAGACAAA
1 ATGTATTGATACATCTGGGTAAAAAGACAAA
*
2279937 ATGTATTGATACATCTGGGTAAAAAGACAGA
1 ATGTATTGATACATCTGGGTAAAAAGACAAA
2279968 ATGTATTGATACAT
1 ATGTATTGATACAT
2279982 TTTCAATGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.28
Consensus pattern (31 bp):
ATGTATTGATACATCTGGGTAAAAAGACAAA
Found at i:2281308 original size:79 final size:79
Alignment explanation
Indices: 2281126--2281530 Score: 365
Period size: 79 Copynumber: 5.1 Consensus size: 79
2281116 ATTAGGGTTG
* * * * * * * *
2281126 GAGTATCCCTTCAGAAA-TGGTAGGGCTAGAGTATCCCCT-AAGATGAAAATTCTGATGTTTTGG
1 GAGTATCCCTT-TGAAATTGATAGGGTTGGAGTAT-CCCTGATGGTGAAAAATC-GATATTTTGG
* *
2281189 AAGTAAAAATGGGGTTA
63 AAGTAAAAACGGGATTA
* * *
2281206 GAGTATTCCTTCGAAAATT-ATGGGGTTGGAGTATCCCTGATGGTGAAAAATCGATATTTTGGAA
1 GAGTATCCCTTTG-AAATTGATAGGGTTGGAGTATCCCTGATGGTGAAAAATCGATATTTTGGAA
*
2281270 GTAAAAACGGGATTG
65 GTAAAAACGGGATTA
* * * * *
2281285 GAGTATCCCTTTGAAATTGATGGGGTTGGAATATCCCCGATGGTGAAAAATTGATATTTTGTAAG
1 GAGTATCCCTTTGAAATTGATAGGGTTGGAGTATCCCTGATGGTGAAAAATCGATATTTTGGAAG
* *
2281350 TAAAAACGGGGTTG
66 TAAAAACGGGATTA
* * * * *
2281364 GAGTAT-CCTCTCAGAATTGATAGAGTTGGAGTATCTCC-GATGGT-AAATAATCAATATTTTAG
1 GAGTATCCCTTTGA-AATTGATAGGGTTGGAGTATC-CCTGATGGTGAAA-AATCGATATTTTGG
**
2281426 AAGTAAAAACAAGATTA
63 AAGTAAAAACGGGATTA
* * ** * * * *
2281443 GAGTGTCCTTTTGAAATTGATAGGGTTAAAGTATCCCTGATAGTGAAAATTTGATATTTTGAAAG
1 GAGTATCCCTTTGAAATTGATAGGGTTGGAGTATCCCTGATGGTGAAAAATCGATATTTTGGAAG
2281508 TAAAAACGAGG-TTA
66 TAAAAACG-GGATTA
2281522 GAGTATCCC
1 GAGTATCCC
2281531 CAATATTGAA
Statistics
Matches: 264, Mismatches: 50, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
78 15 0.06
79 204 0.77
80 44 0.17
81 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.31
Consensus pattern (79 bp):
GAGTATCCCTTTGAAATTGATAGGGTTGGAGTATCCCTGATGGTGAAAAATCGATATTTTGGAAG
TAAAAACGGGATTA
Found at i:2281361 original size:158 final size:159
Alignment explanation
Indices: 2281126--2281527 Score: 451
Period size: 158 Copynumber: 2.5 Consensus size: 159
2281116 ATTAGGGTTG
* * * * * * *
2281126 GAGTATCCCTTCAGAAA-TGGTAGGGCTAGAGTATCCCCTA-AGATGAAAATTCTGATGTTTTGG
1 GAGTATCCCTT-TGAAATTGATAGGGTTAAAGTATCCCCGATAG-TGAAAATT-TGATATTTTGA
* * *
2281189 AAGTAAAAATGGGGTTAGAGTATTCCT-TCGAAAATT-ATGGGGTTGGAGTATC-CCTGATGGTG
63 AAGTAAAAACGGGGTTAGAGTATTCCTCTC-AAAATTGATAGAGTTGGAGTATCTCC-GATGGT-
* * ** *
2281251 AAA-AATCGATATTTTGGAAGTAAAAACGGGATTG
125 AAATAATCAATATTTTAGAAGTAAAAACAAGATTA
* * * * *
2281285 GAGTATCCCTTTGAAATTGATGGGGTTGGAA-TATCCCCGATGGTGAAAAATTGATATTTTGTAA
1 GAGTATCCCTTTGAAATTGATAGGGTT-AAAGTATCCCCGATAGTGAAAATTTGATATTTTGAAA
* *
2281349 GTAAAAACGGGGTTGGAGTA-TCCTCTCAGAATTGATAGAGTTGGAGTATCTCCGATGGTAAATA
65 GTAAAAACGGGGTTAGAGTATTCCTCTCAAAATTGATAGAGTTGGAGTATCTCCGATGGTAAATA
2281413 ATCAATATTTTAGAAGTAAAAACAAGATTA
130 ATCAATATTTTAGAAGTAAAAACAAGATTA
* * *
2281443 GAGTGTCCTTTTGAAATTGATAGGGTTAAAGTATCCCTGATAGTGAAAATTTGATATTTTGAAAG
1 GAGTATCCCTTTGAAATTGATAGGGTTAAAGTATCCCCGATAGTGAAAATTTGATATTTTGAAAG
*
2281508 TAAAAACGAGGTTAGAGTAT
66 TAAAAACGGGGTTAGAGTAT
2281528 CCCCAATATT
Statistics
Matches: 203, Mismatches: 31, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
157 14 0.07
158 152 0.75
159 35 0.17
160 2 0.01
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (159 bp):
GAGTATCCCTTTGAAATTGATAGGGTTAAAGTATCCCCGATAGTGAAAATTTGATATTTTGAAAG
TAAAAACGGGGTTAGAGTATTCCTCTCAAAATTGATAGAGTTGGAGTATCTCCGATGGTAAATAA
TCAATATTTTAGAAGTAAAAACAAGATTA
Found at i:2281527 original size:51 final size:51
Alignment explanation
Indices: 2281466--2281579 Score: 165
Period size: 51 Copynumber: 2.2 Consensus size: 51
2281456 AAATTGATAG
* ** *
2281466 GGTTAAAGTATCCCTGATAGTGAAAATTTGATATTTTGAAAGTAAAAACGA
1 GGTTAGAGTATCCCCAATAGTGAAAAATTGATATTTTGAAAGTAAAAACGA
* *
2281517 GGTTAGAGTATCCCCAATATTGAAAAATTGATATTTTGAAAGTAAAAATGA
1 GGTTAGAGTATCCCCAATAGTGAAAAATTGATATTTTGAAAGTAAAAACGA
*
2281568 GGTTGGAGTATC
1 GGTTAGAGTATC
2281580 TTCTAGGAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (51 bp):
GGTTAGAGTATCCCCAATAGTGAAAAATTGATATTTTGAAAGTAAAAACGA
Found at i:2281727 original size:79 final size:78
Alignment explanation
Indices: 2281537--2281940 Score: 483
Period size: 79 Copynumber: 5.1 Consensus size: 78
2281527 TCCCCAATAT
* * *
2281537 TGAAAAATTGATATTTTGAAAGTAAAAATGAGGTTGGAGTATCTTCT-AGGAATTGATGGGGTTG
1 TGAAAAATTGATATTTTGAAAGTAAAAATGGGGTTGGAGTATCCTCTCA-GAATTAATGGGGTTG
*
2281601 GAGTATCCCGATAG
65 GAGTATCCCGATGG
* *
2281615 TGAAAAATAT-ATATTTT-AGAAGTAAAAATGGGGTTGGAGTATCCTTTCAGAACTAATGGGGTT
1 TGAAAAAT-TGATATTTTGA-AAGTAAAAATGGGGTTGGAGTATCCTCTCAGAATTAATGGGGTT
2281678 GGAGTATTCCCGATGG
64 GGAGTA-TCCCGATGG
* *
2281694 TGAAAAATTGATATTTTGAAAGTAAAAACGGGGTTGAAGTATCCTCTCAGAATTAATGGGGTTTG
1 TGAAAAATTGATATTTTGAAAGTAAAAATGGGGTTGGAGTATCCTCTCAGAATTAATGGGG-TTG
* *
2281759 GAGTATCATCGATAG
65 GAGTATC-CCGATGG
* * * * * **
2281774 TGAAAAATCGATATTTTGGAAGTAAAAATAGGGTTGGAGTATCCCCTCAGAATTGATAAGGTTGG
1 TGAAAAATTGATATTTTGAAAGTAAAAATGGGGTTGGAGTATCCTCTCAGAATTAATGGGGTTGG
2281839 AGTATCCCTGATGG
66 AGTATCCC-GATGG
** * * * *
2281853 TGAAAAATCAATATTTGGAAAGTAAAAACGGGGTTGGAGTATCCTCTC-GAACATAATGGGATTG
1 TGAAAAATTGATATTTTGAAAGTAAAAATGGGGTTGGAGTATCCTCTCAGAA-TTAATGGGGTTG
*
2281917 GAATATTCCCGATGG
65 GAGTA-TCCCGATGG
2281932 TGAAAAATT
1 TGAAAAATT
2281941 TGATGCTTTT
Statistics
Matches: 279, Mismatches: 36, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
77 1 0.00
78 63 0.23
79 145 0.52
80 70 0.25
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.30
Consensus pattern (78 bp):
TGAAAAATTGATATTTTGAAAGTAAAAATGGGGTTGGAGTATCCTCTCAGAATTAATGGGGTTGG
AGTATCCCGATGG
Found at i:2281838 original size:159 final size:158
Alignment explanation
Indices: 2281537--2281939 Score: 519
Period size: 159 Copynumber: 2.6 Consensus size: 158
2281527 TCCCCAATAT
* * * *
2281537 TGAAAAATTGATATTTTGAAAGTAAAAATGAGGTTGGAGTATCTTCT-AGGAATTGATGGGGTTG
1 TGAAAAATTGATATTTTGAAAGTAAAAACGGGGTTGGAGTATCCTCTCAGGAATTAATGGGGTTG
* * **
2281601 GAGTATCCCGATAGTGAAAAATATATATTTTAGAAGTAAAAATGGGGTTGGAGTATCCTTTCAGA
66 GAGTATCCCGATAGTGAAAAATAGATATTTTAGAAGTAAAAATAGGGTTGGAGTATCCCCTCAGA
**
2281666 ACTAATGGGGTTGGAGTATTCCC-GATGG
131 ACTAATAAGGTTGGAGTA-TCCCTGATGG
*
2281694 TGAAAAATTGATATTTTGAAAGTAAAAACGGGGTTGAAGTATCCTCTCA-GAATTAATGGGGTTT
1 TGAAAAATTGATATTTTGAAAGTAAAAACGGGGTTGGAGTATCCTCTCAGGAATTAATGGGG-TT
* * *
2281758 GGAGTATCATCGATAGTGAAAAATCGATATTTTGGAAGTAAAAATAGGGTTGGAGTATCCCCTCA
65 GGAGTATC-CCGATAGTGAAAAATAGATATTTTAGAAGTAAAAATAGGGTTGGAGTATCCCCTCA
* *
2281823 GAATTGATAAGGTTGGAGTATCCCTGATGG
129 GAACTAATAAGGTTGGAGTATCCCTGATGG
** * * *
2281853 TGAAAAATCAATATTTGGAAAGTAAAAACGGGGTTGGAGTATCCTCTC--GAACATAATGGGATT
1 TGAAAAATTGATATTTTGAAAGTAAAAACGGGGTTGGAGTATCCTCTCAGGAA-TTAATGGGGTT
* *
2281916 GGAATATTCCCGATGGTGAAAAAT
65 GGAGTA-TCCCGATAGTGAAAAAT
2281940 TTGATGCTTT
Statistics
Matches: 215, Mismatches: 25, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
157 54 0.25
158 38 0.18
159 123 0.57
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.30
Consensus pattern (158 bp):
TGAAAAATTGATATTTTGAAAGTAAAAACGGGGTTGGAGTATCCTCTCAGGAATTAATGGGGTTG
GAGTATCCCGATAGTGAAAAATAGATATTTTAGAAGTAAAAATAGGGTTGGAGTATCCCCTCAGA
ACTAATAAGGTTGGAGTATCCCTGATGG
Found at i:2283455 original size:20 final size:20
Alignment explanation
Indices: 2283413--2283486 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
2283403 GACATGGTCT
**
2283413 TGTATCGATACATTTCAGATA
1 TGTATCGATACA-TTCACTTA
2283434 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
** * *
2283454 TGTATTAATATATTCACTATT
1 TGTATCGATACATTCACT-TA
2283475 TGTATCGATACA
1 TGTATCGATACA
2283487 AATTGTAGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 21 0.49
21 22 0.51
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:2284220 original size:37 final size:36
Alignment explanation
Indices: 2284179--2284295 Score: 101
Period size: 37 Copynumber: 3.2 Consensus size: 36
2284169 GCTTTGAAAA
2284179 GAAAAAAAGAAAGGGATGCCACCAACTTGTGTGGGTT
1 GAAAAAAAGAAAGGG-TGCCACCAACTTGTGTGGGTT
* * * *** *
2284216 GAAAAAGAGAAAAAGGTGCCATCAACTTGTACAGGCT
1 GAAAAAAAG-AAAGGGTGCCACCAACTTGTGTGGGTT
** *
2284253 -CTAAAAAGAAAGGGGTGCCACCAACTTGTGTAGGCTT
1 GAAAAAAAGAAA-GGGTGCCACCAACTTGTGT-GGGTT
2284290 GAAAAA
1 GAAAAA
2284296 GAAAAAAAAA
Statistics
Matches: 57, Mismatches: 19, Indels: 7
0.69 0.23 0.08
Matches are distributed among these distances:
35 3 0.05
36 20 0.35
37 26 0.46
38 8 0.14
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.18
Consensus pattern (36 bp):
GAAAAAAAGAAAGGGTGCCACCAACTTGTGTGGGTT
Found at i:2284221 original size:36 final size:35
Alignment explanation
Indices: 2284181--2284299 Score: 105
Period size: 36 Copynumber: 3.3 Consensus size: 35
2284171 TTTGAAAAGA
2284181 AAAAAAGAAAGGGATGCCACCAACTTGTGTGGGTTG
1 AAAAAAGAAAGGG-TGCCACCAACTTGTGTGGGTTG
* * *** * *
2284217 AAAAAGAGAAAAAGGTGCCATCAACTTGTACAGGCTC
1 AAAAA-AG-AAAGGGTGCCACCAACTTGTGTGGGTTG
* *
2284254 TAAAAAGAAAGGGGTGCCACCAACTTGTGTAGGCTTG
1 AAAAAAGAAA-GGGTGCCACCAACTTGTGT-GGGTTG
2284291 -AAAAAGAAA
1 AAAAAAGAAA
2284300 AAAAAAGAAA
Statistics
Matches: 63, Mismatches: 16, Indels: 8
0.72 0.18 0.09
Matches are distributed among these distances:
35 3 0.05
36 31 0.49
37 24 0.38
38 5 0.08
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (35 bp):
AAAAAAGAAAGGGTGCCACCAACTTGTGTGGGTTG
Found at i:2284365 original size:70 final size:67
Alignment explanation
Indices: 2284266--2284556 Score: 280
Period size: 62 Copynumber: 4.4 Consensus size: 67
2284256 AAAAGAAAGG
* *
2284266 GGTGCCACCAACTTGTGTAGGCTTGAAAAAGAAAAA-AAAAGAAAGGTGTCCTACTCTTTGAGGA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGAAAAGAAA----TCCTACTCTTTGAGGA
2284330 CTAAAA
62 CTAAAA
* * * * * * *
2284336 GGTGCCACGAGCTAGTGTGGGCTTTAAAAAGAAAAAGGAAAGACATCTTGCTCTTTGAGGACTAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGAAAAGAAATCCTACTCTTTGAGGACTAA
2284401 AA
66 AA
* * ** *
2284403 GGTGCCACCAACTTGTGCGAGCTTTAAAAAGAAAAAG----G-CGTCCTACTCTTTAAGGACTAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGAAAAGAAATCCTACTCTTTGAGGACTAA
2284463 AA
66 AA
* * * ** *
2284465 GGTGTCACCAACTTGTGTGAGCTTGAAAAAG-----GAAAAGGCATCCTACTTTTTGAGGACTAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGAAAAGAAATCCTACTCTTTGAGGACTAA
2284525 AA
66 AA
*
2284527 TGTGCCACCAACTTGTGTGGGCTTTAAAAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAA
2284557 AGGTTGCCAC
Statistics
Matches: 187, Mismatches: 28, Indels: 20
0.80 0.12 0.09
Matches are distributed among these distances:
57 1 0.01
61 1 0.01
62 95 0.51
63 1 0.01
67 52 0.28
70 31 0.17
71 6 0.03
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (67 bp):
GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGAAAAGAAATCCTACTCTTTGAGGACTAA
AA
Found at i:2284462 original size:129 final size:125
Alignment explanation
Indices: 2284298--2284557 Score: 324
Period size: 129 Copynumber: 2.0 Consensus size: 125
2284288 TTGAAAAAGA
* * * * * *
2284298 AAAAAAAAGAAAGGTGTCCTACTCTTTGAGGACTAAAAGGTGCCACGAGCTAGTGTGGGCTTTAA
1 AAAAAAAAGAAAGGCGTCCTACTCTTTAAGGACTAAAAGGTGCCACCAACTAGTGTGAGCTTGAA
* *
2284363 AAAGAAAAAGGAAAGACATCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGCGAGCTTT
66 AAAGAAAAA-G---G-CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGCGAGCTTT
* * *
2284428 AAAAAGAA-AAAGGCGTCCTACTCTTTAAGGACTAAAAGGTGTCACCAACTTGTGTGAGCTTGAA
1 AAAAAAAAGAAAGGCGTCCTACTCTTTAAGGACTAAAAGGTGCCACCAACTAGTGTGAGCTTGAA
* * * * *
2284492 AAAGGAAAAGGCATCCTACTTTTTGAGGACTAAAATGTGCCACCAACTTGTGTGGGCTTT
66 AAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGCGAGCTTT
2284552 AAAAAA
1 AAAAAA
2284558 GGTTGCCACC
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
124 48 0.42
125 1 0.01
128 1 0.01
129 56 0.50
130 7 0.06
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (125 bp):
AAAAAAAAGAAAGGCGTCCTACTCTTTAAGGACTAAAAGGTGCCACCAACTAGTGTGAGCTTGAA
AAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGCGAGCTTT
Found at i:2284477 original size:62 final size:62
Alignment explanation
Indices: 2284314--2284556 Score: 306
Period size: 62 Copynumber: 3.8 Consensus size: 62
2284304 AAGAAAGGTG
* * * *
2284314 TCCTACTCTTTGAGGACTAAAAGGTGCCACGAGCTAGTGTGGGCTTTAAAAAGAAAAAGGAAAGA
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAAGAAAAA-G---G-
2284379 CA
61 CA
* * * *
2284381 TCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGCGAGCTTTAAAAAGAAAAAGGCG
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAAGAAAAAGGCA
* * * *
2284443 TCCTACTCTTTAAGGACTAAAAGGTGTCACCAACTTGTGTGAGCTTGAAAAAGGAAAAGGCA
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAAGAAAAAGGCA
* * *
2284505 TCCTACTTTTTGAGGACTAAAATGTGCCACCAACTTGTGTGGGCTTTAAAAA
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAA
2284557 AGGTTGCCAC
Statistics
Matches: 154, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
62 101 0.66
63 1 0.01
66 1 0.01
67 51 0.33
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (62 bp):
TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAAGAAAAAGGCA
Found at i:2287778 original size:10 final size:10
Alignment explanation
Indices: 2287763--2287787 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2287753 CTAAATCTCA
2287763 TTCATCACTG
1 TTCATCACTG
2287773 TTCATCACTG
1 TTCATCACTG
2287783 TTCAT
1 TTCAT
2287788 GTATCAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.28, G:0.08, T:0.44
Consensus pattern (10 bp):
TTCATCACTG
Found at i:2287806 original size:22 final size:22
Alignment explanation
Indices: 2287775--2287856 Score: 55
Period size: 22 Copynumber: 3.8 Consensus size: 22
2287765 CATCACTGTT
2287775 CATCACTGTTCATGTATCAATG
1 CATCACTGTTCATGTATCAATG
* *
2287797 CATCATTGTT-A---ATCATTG
1 CATCACTGTTCATGTATCAATG
* * * *
2287815 TTTAGCACTGTTCATGTATCGATA
1 --CATCACTGTTCATGTATCAATG
*
2287839 CATCATTGTTCATGTATC
1 CATCACTGTTCATGTATC
2287857 GATATAAGTG
Statistics
Matches: 43, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
18 6 0.14
20 7 0.16
21 2 0.05
22 24 0.56
24 4 0.09
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (22 bp):
CATCACTGTTCATGTATCAATG
Found at i:2288353 original size:36 final size:34
Alignment explanation
Indices: 2288308--2288400 Score: 113
Period size: 36 Copynumber: 2.8 Consensus size: 34
2288298 CTAAGTGATT
2288308 GAGAG-GTTCTATCTTAGCCTTTGAAAAAGATAGG
1 GAGAGAGTTCTATCTTAGCC-TTGAAAAAGATAGG
*
2288342 GAGAGAAGTTCTATCTTAGCCCGTG-AAAAGATAGG
1 GAGAG-AGTTCTATCTTAG-CCTTGAAAAAGATAGG
*
2288377 GAG-G-TTTCTATCTTAGCCTTGAAA
1 GAGAGAGTTCTATCTTAGCCTTGAAA
2288401 GATAGTGTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
31 4 0.08
32 13 0.25
34 6 0.12
35 13 0.25
36 14 0.27
37 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (34 bp):
GAGAGAGTTCTATCTTAGCCTTGAAAAAGATAGG
Found at i:2290625 original size:79 final size:79
Alignment explanation
Indices: 2290494--2290663 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
2290484 ACGACGGGGA
* * *
2290494 TGGAGTA-CCCTTGATTATGGAAAATCGGTGTTCTGGAAATAAAATCGAGGTTGGAGTATCCCCT
1 TGGAGTATCCC-TAATTATAGAAAATCGGTGTTCTGAAAATAAAATCGAGGTTGGAGTATCCCCT
***
2290558 TGGAAAGAAC-AGGGT
65 CAAAAAGAACGA-GGT
* *
2290573 TGGAGTATCCCTAATTATAGAAAATTGGTGTTTTGAAAATAAAATC-AGGGTTGGAGTATCCCCT
1 TGGAGTATCCCTAATTATAGAAAATCGGTGTTCTGAAAATAAAATCGA-GGTTGGAGTATCCCCT
*
2290637 CAAAAATAACGAGGT
65 CAAAAAGAACGAGGT
2290652 TGGAGTATCCCT
1 TGGAGTATCCCT
2290664 GCGAAAATAA
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 74 0.94
80 4 0.05
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
TGGAGTATCCCTAATTATAGAAAATCGGTGTTCTGAAAATAAAATCGAGGTTGGAGTATCCCCTC
AAAAAGAACGAGGT
Found at i:2290655 original size:28 final size:29
Alignment explanation
Indices: 2290621--2290691 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 29
2290611 ATAAAATCAG
2290621 GGTTGGAGTATCCCCT-CAAAAATAACGA
1 GGTTGGAGTATCCCCTGCAAAAATAACGA
* *
2290649 GGTTGGAGTAT-CCCTGCGAAAATAACGG
1 GGTTGGAGTATCCCCTGCAAAAATAACGA
2290677 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2290692 GATTGTGAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 4 0.10
28 32 0.82
29 3 0.08
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (29 bp):
GGTTGGAGTATCCCCTGCAAAAATAACGA
Found at i:2290821 original size:79 final size:80
Alignment explanation
Indices: 2290649--2290821 Score: 278
Period size: 79 Copynumber: 2.2 Consensus size: 80
2290639 AAAATAACGA
* *
2290649 GGTTGGAGTAT-CCCTGCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCCATATTT
1 GGTTGGAGTATCCCCTGCGAAAATAACGGGGTTAGAGTATCCCCGATTGTGAGAAATCAATATTT
2290713 TAGGAATAAAACCGG
66 TAGGAATAAAACCGG
* * *
2290728 GGTTGGAGTATCCCCT-CGGAAATAACGGTGTTAGAGTATCCTCGATTGTGAGAAATCAATATTT
1 GGTTGGAGTATCCCCTGCGAAAATAACGGGGTTAGAGTATCCCCGATTGTGAGAAATCAATATTT
*
2290792 TAGGAATAAAGCCGG
66 TAGGAATAAAACCGG
2290807 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2290822 GATTGTGAGA
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
79 83 0.95
80 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.27
Consensus pattern (80 bp):
GGTTGGAGTATCCCCTGCGAAAATAACGGGGTTAGAGTATCCCCGATTGTGAGAAATCAATATTT
TAGGAATAAAACCGG
Done.