Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 67 of 172
Found at i:21999893 original size:82 final size:81
Alignment explanation
Indices: 21999780--21999935 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21999770 AAATTGTACA
* *
21999780 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21999844 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21999861 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21999926 TGCGAGTTGA
65 TGCGAATTGA
21999936 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21999947 original size:82 final size:81
Alignment explanation
Indices: 21999776--21999956 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21999766 GATTAAATTG
* *
21999776 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21999841 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21999857 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21999921 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21999939 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21999957 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22008919 original size:16 final size:17
Alignment explanation
Indices: 22008887--22008920 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22008877 TATATACTTA
22008887 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
22008904 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
22008920 T
1 T
22008921 TGAACCTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:22010469 original size:24 final size:26
Alignment explanation
Indices: 22010414--22010471 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
22010404 GTTGTCTTTG
* *
22010414 TATAAAAGTAAAATGATTTATTACAT
1 TATAAAATTAAAATGATTTATTAAAT
*
22010440 T-CAAAATTAAAAT-ATTTA-TAAAT
1 TATAAAATTAAAATGATTTATTAAAT
22010463 TATAAAATT
1 TATAAAATT
22010472 CAAACTTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 5 0.19
24 11 0.41
25 10 0.37
26 1 0.04
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (26 bp):
TATAAAATTAAAATGATTTATTAAAT
Found at i:22022502 original size:221 final size:221
Alignment explanation
Indices: 22022119--22022784 Score: 1197
Period size: 221 Copynumber: 3.0 Consensus size: 221
22022109 CAACTAGCAG
* * *
22022119 TCTAGTATACAGATGGCACCTCACGAGGCACTGTATGGTTATAAGTGTCGCACTCCCTTATGCTA
1 TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
*
22022184 GACTGAGTTGGGTGAACGACGTATTCTGGGTATGGAGTTGGTTTTTGAGACTGAGGACAAGGTCC
66 GACTGAGTTGGGTGAACGACGTATTCTGGGTCTGGAGTTGGTTTTTGAGACTGAGGACAAGGTCC
*
22022249 TTTTGATTCGAGATCGGTTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATTTGAAGCGT
131 TTTTGATTCGAGATCGGCTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATTTGAAGCGT
22022314 CGAGAGATAGAATATTCCGTGAGAGA
196 CGAGAGATAGAATATTCCGTGAGAGA
22022340 TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
1 TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
22022405 GACTGAGTTGGGTGAACGACGTATTCTGGGTCTGGAGTTGGTTTTTGAGACTGAGGACAAGGTCC
66 GACTGAGTTGGGTGAACGACGTATTCTGGGTCTGGAGTTGGTTTTTGAGACTGAGGACAAGGTCC
* *
22022470 TTTTGATTCGAGATCGGCTGAAAGCAGCTTCTGATAAGGAGAAGTCATATACAGATTTGAAGCGT
131 TTTTGATTCGAGATCGGCTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATTTGAAGCGT
*
22022535 CGAGAAATAGAATATTCCGTGAGAGA
196 CGAGAGATAGAATATTCCGTGAGAGA
*
22022561 TCTAGTATACAGATGGCACCTTACGAGGCACGGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
1 TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
* * *
22022626 GACTGAGTTGGGTGAACGACGTATTCTGGGTCTAGAGTTGGTTTCTGAGACTGAGGACAAGGTAC
66 GACTGAGTTGGGTGAACGACGTATTCTGGGTCTGGAGTTGGTTTTTGAGACTGAGGACAAGGTCC
*
22022691 TTTTGATTCGAGATCGGCTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATCTGAAGCGT
131 TTTTGATTCGAGATCGGCTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATTTGAAGCGT
* *
22022756 CGAGAGATAGAATATTCTGTGGGAGA
196 CGAGAGATAGAATATTCCGTGAGAGA
22022782 TCT
1 TCT
22022785 TGTTTTCCTT
Statistics
Matches: 427, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
221 427 1.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (221 bp):
TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
GACTGAGTTGGGTGAACGACGTATTCTGGGTCTGGAGTTGGTTTTTGAGACTGAGGACAAGGTCC
TTTTGATTCGAGATCGGCTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATTTGAAGCGT
CGAGAGATAGAATATTCCGTGAGAGA
Found at i:22026029 original size:16 final size:17
Alignment explanation
Indices: 22025998--22026030 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22025988 TTCATAACTG
22025998 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
22026015 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
22026031 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:22029757 original size:22 final size:23
Alignment explanation
Indices: 22029722--22029776 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
22029712 TAAAATATAT
* *
22029722 ATAAATATATAATAAAAAATTCA
1 ATAAAAATAAAATAAAAAATTCA
* *
22029745 A-AAAAATAAAATATATAATTCA
1 ATAAAAATAAAATAAAAAATTCA
22029767 ATAAAAATAA
1 ATAAAAATAA
22029777 TAATTTTCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATAAAATAAAAAATTCA
Found at i:22030015 original size:28 final size:27
Alignment explanation
Indices: 22029984--22030052 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 27
22029974 ATTTTTGAAT
* *
22029984 TTTTTAAAATTTTTTAACTTTTTTTTTA
1 TTTTTAAAATTTTGTAAC-TATTTTTTA
*
22030012 TTTTTGTAAA-TTTGTAACTATTTTTTA
1 TTTTT-AAAATTTTGTAACTATTTTTTA
*
22030039 TTGGTTAAAATTTT
1 TT-TTTAAAATTTT
22030053 AAAATATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
27 13 0.39
28 17 0.52
29 3 0.09
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (27 bp):
TTTTTAAAATTTTGTAACTATTTTTTA
Found at i:22030090 original size:18 final size:19
Alignment explanation
Indices: 22030047--22030094 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
22030037 TATTGGTTAA
22030047 AATTTTAAAATATTTTTTG
1 AATTTTAAAATATTTTTTG
* *
22030066 AAATTTAAACTATTTTTT-
1 AATTTTAAAATATTTTTTG
*
22030084 ATTTTTAAAAT
1 AATTTTAAAAT
22030095 TTGATTTATC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
AATTTTAAAATATTTTTTG
Found at i:22044961 original size:6 final size:6
Alignment explanation
Indices: 22044951--22044988 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
22044941 TAGAAAGGGT
*
22044951 GGAGAT GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GG
1 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GG
22044989 GGAGTATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.66, T:0.03
Consensus pattern (6 bp):
GGAGAG
Found at i:22045384 original size:23 final size:23
Alignment explanation
Indices: 22045340--22045384 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22045330 TTATATTTTA
*
22045340 ATAATTAATTAAATAAATTATTT
1 ATAATTAATTAAATAAAATATTT
*
22045363 ATAATTGATT-AATACAAATATT
1 ATAATTAATTAAATA-AAATATT
22045385 AGACTGACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
ATAATTAATTAAATAAAATATTT
Found at i:22048793 original size:43 final size:42
Alignment explanation
Indices: 22048735--22048885 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 42
22048725 CAATGCCAAC
**
22048735 GTCCCAGACTTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACAGGGTCTTACATGTAATCAAATATCGATGCCA-T
* * *
22048778 GTCCTAGACAGGGTCTTACATGAAATTAAATA-CGATGCCGAT
1 GTCCCAGACAGGGTCTTACATGTAATCAAATATCGATGCC-AT
* * * *
22048820 GTCCCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC
1 GTCCCAGACAGGGTCTTACATGT-AATCA-AATATCGATGCC-AT
*
22048864 GTCCCAGA-TGCGGTCTTACATG
1 GTCCCAGACAG-GGTCTTACATG
22048886 AAAACACATA
Statistics
Matches: 87, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.31
43 32 0.37
44 28 0.32
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACATGTAATCAAATATCGATGCCAT
Found at i:22052659 original size:49 final size:49
Alignment explanation
Indices: 22052581--22052796 Score: 187
Period size: 49 Copynumber: 4.5 Consensus size: 49
22052571 GATGCTGACA
*
22052581 CCATGTCCCAGACATAGTCTTACACTGGCTTTCATATAGCGAGGCCGATG
1 CCATGTCCCAGACA-GGTCTTACACTGGCTTTCATATAGCGAGGCCGATG
* * * *
22052631 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTTTCATATAGCGAG-GCCGATG
* * * * **
22052680 CCATGTCCCAGACAGGTCTTACACT-G-ATACAGA-A-C-AAGCTAATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTTTCATATAGCGAGGCCGATG
* * * *
22052724 CCATATCCCAGACAGGTTTTACACTAGCTTGT-ATATCGCGAGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTT-TCATATAGCGAGGCCGATG
* * *
22052773 -TATGTCCCAGACATGCCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
22052797 AGCTCTCGTC
Statistics
Matches: 130, Mismatches: 28, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
44 27 0.21
45 2 0.02
46 4 0.03
47 2 0.02
48 22 0.17
49 59 0.45
50 14 0.11
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (49 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTTTCATATAGCGAGGCCGATG
Found at i:22054842 original size:75 final size:75
Alignment explanation
Indices: 22054762--22054964 Score: 228
Period size: 75 Copynumber: 2.7 Consensus size: 75
22054752 TTTGCCCTTG
* * * *
22054762 CTAGTCAAATAAACCAACATATATAATGATATGCCCAGCATTAGTCAGATACACTGGCAAAAGTT
1 CTAGTCAAATAAACCAACAAATATAATGATGTGCCCAGCATTAGTCAGATAAACTGACAAAAGTT
22054827 GTG-CTCAGCA
66 GTGCCT-AGCA
* * * * * * *
22054837 CTAGTCAGATAAACCGATAAACATAATGATGTGCCCAACATTATTCAGATAAACTGACGAAAGTT
1 CTAGTCAAATAAACCAACAAATATAATGATGTGCCCAGCATTAGTCAGATAAACTGACAAAAGTT
*
22054902 GTGCCTAGCG
66 GTGCCTAGCA
** * * * *
22054912 CTAGTCGTATAAACCAACAGATATAATGATGTGCCTAGCACTAGTTAGATAAA
1 CTAGTCAAATAAACCAACAAATATAATGATGTGCCCAGCATTAGTCAGATAAA
22054965 TTAACGATAT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
75 102 0.98
76 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (75 bp):
CTAGTCAAATAAACCAACAAATATAATGATGTGCCCAGCATTAGTCAGATAAACTGACAAAAGTT
GTGCCTAGCA
Found at i:22056576 original size:48 final size:48
Alignment explanation
Indices: 22056490--22056771 Score: 393
Period size: 48 Copynumber: 5.9 Consensus size: 48
22056480 CATTAGGGTT
22056490 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * * *
22056538 ATATAAGATTCCATCTAAGACCATGTCTTGGACATGGCATTGGCATTG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
22056586 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * * *
22056634 ATATAAGATTCCATCTAAGACCATGTCTTGGACATGGCATTGGCATTG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* *
22056682 ATATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* ** * * * *
22056730 ATATGTGATTTCGTGTAACACCATGTCTGGGACCTGACATTG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTG
22056772 ATATGAGACA
Statistics
Matches: 203, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 203 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
Found at i:22056771 original size:96 final size:96
Alignment explanation
Indices: 22056490--22056733 Score: 470
Period size: 96 Copynumber: 2.5 Consensus size: 96
22056480 CATTAGGGTT
22056490 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATAAGATTCCATCTA
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATAAGATTCCATCTA
22056555 AGACCATGTCTTGGACATGGCATTGGCATTG
66 AGACCATGTCTTGGACATGGCATTGGCATTG
22056586 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATAAGATTCCATCTA
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATAAGATTCCATCTA
22056651 AGACCATGTCTTGGACATGGCATTGGCATTG
66 AGACCATGTCTTGGACATGGCATTGGCATTG
* *
22056682 ATATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATAT
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAT
22056734 GTGATTTCGT
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 146 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (96 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATAAGATTCCATCTA
AGACCATGTCTTGGACATGGCATTGGCATTG
Found at i:22059162 original size:32 final size:32
Alignment explanation
Indices: 22059101--22059189 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 32
22059091 ACTAAGTGTG
**
22059101 TATATATGTGTAGTTGGATAAAGTTGAATGTC
1 TATATATGTGTAGTTGGATAAAGCCGAATGTC
*
22059133 TATATATGTGT-GATTGGATATAA-CCGAATGTG
1 TATATATGTGTAG-TTGGATA-AAGCCGAATGTC
* * * *
22059165 TATCTAGGTGTAGTTTGATATAGCC
1 TATATATGTGTAGTTGGATAAAGCC
22059190 TATTAAGATG
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
31 2 0.04
32 41 0.89
33 3 0.07
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (32 bp):
TATATATGTGTAGTTGGATAAAGCCGAATGTC
Found at i:22059361 original size:26 final size:27
Alignment explanation
Indices: 22059332--22059400 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
22059322 TTTGAGGGAT
*
22059332 GCACTAAGTGTGCGAGTTAGA-TT-TAA
1 GCACTAAGTGTGCGAATTA-ATTTCTAA
* *
22059358 GCACTATGTGTGTGAATTAATTTCTAA
1 GCACTAAGTGTGCGAATTAATTTCTAA
*
22059385 GCATTAAGTGTGCGAA
1 GCACTAAGTGTGCGAA
22059401 ATCAGTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
25 1 0.03
26 18 0.51
27 16 0.46
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAATTTCTAA
Found at i:22067787 original size:12 final size:12
Alignment explanation
Indices: 22067770--22067794 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22067760 AACATGACCA
22067770 AAACACATATTT
1 AAACACATATTT
22067782 AAACACATATTT
1 AAACACATATTT
22067794 A
1 A
22067795 GCAATATGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
AAACACATATTT
Found at i:22068488 original size:7 final size:7
Alignment explanation
Indices: 22068478--22068509 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
22068468 GCACAATACA
22068478 CAATGAG
1 CAATGAG
22068485 CAATGAG
1 CAATGAG
22068492 CAATGAG
1 CAATGAG
*
22068499 CAATAAG
1 CAATGAG
22068506 CAAT
1 CAAT
22068510 TTTATTGGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (7 bp):
CAATGAG
Found at i:22069110 original size:88 final size:88
Alignment explanation
Indices: 22068956--22069133 Score: 279
Period size: 88 Copynumber: 2.0 Consensus size: 88
22068946 ATCGGAAGTA
22068956 ATCATTTCCACTTTCTCTACTAATTTTCAGTTTTTTGGAATATAAAAGATATTATTTGGGAGGTT
1 ATCATTTCCACTTTCTCTACTAATTTTCAGTTTTTTGGAATATAAAAGATATTATTTGGGAGGTT
* *
22069021 TTGTTTTCTATAGTTCAAAATCG
66 TTGTTGTCGATAGTTCAAAATCG
* * *
22069044 ATCATTTCCACTTTCTCTACTAATTTT-TGTTCTTTTGGAATATGAAAGATATT-TTTTGGAGAG
1 ATCATTTCCACTTTCTCTACTAATTTTCAGTT-TTTTGGAATATAAAAGATATTATTTGGGAG-G
22069107 TTTTGTTGTCGATAGTTCAAAATCG
64 TTTTGTTGTCGATAGTTCAAAATCG
22069132 AT
1 AT
22069134 TTTTATGAAG
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
87 10 0.12
88 73 0.88
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (88 bp):
ATCATTTCCACTTTCTCTACTAATTTTCAGTTTTTTGGAATATAAAAGATATTATTTGGGAGGTT
TTGTTGTCGATAGTTCAAAATCG
Found at i:22071358 original size:5 final size:5
Alignment explanation
Indices: 22071348--22071372 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
22071338 AGGGAAAAAT
22071348 TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA
22071373 ACTACACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:22078803 original size:21 final size:21
Alignment explanation
Indices: 22078773--22078817 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
22078763 ACTTGTTTAA
22078773 AAAAAATGTTTTAATCAATTT
1 AAAAAATGTTTTAATCAATTT
* * *
22078794 AAAAATTGTTTTACTCGATTT
1 AAAAAATGTTTTAATCAATTT
22078815 AAA
1 AAA
22078818 CATTTTCACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (21 bp):
AAAAAATGTTTTAATCAATTT
Found at i:22078836 original size:21 final size:22
Alignment explanation
Indices: 22078812--22078852 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22078802 TTTTACTCGA
22078812 TTTAAACAT-TTTCACTTGATT
1 TTTAAACATGTTTCACTTGATT
*
22078833 TTTAAACTTGTTTCACTTGA
1 TTTAAACATGTTTCACTTGA
22078853 GTTAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.51
Consensus pattern (22 bp):
TTTAAACATGTTTCACTTGATT
Found at i:22079004 original size:16 final size:17
Alignment explanation
Indices: 22078964--22078996 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22078954 CTTCATCGAT
*
22078964 TCTTTGTTCAAAAATAA
1 TCTTTATTCAAAAATAA
22078981 TCTTTATTCAAAAATA
1 TCTTTATTCAAAAATA
22078997 TTTTTATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (17 bp):
TCTTTATTCAAAAATAA
Found at i:22096536 original size:40 final size:40
Alignment explanation
Indices: 22096438--22096740 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
22096428 TCCTCGTTCA
* * * * *
22096438 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
22096477 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
22096517 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
22096557 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
22096597 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
22096637 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
22096677 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
22096717 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22096741 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:22102139 original size:138 final size:138
Alignment explanation
Indices: 22101967--22102221 Score: 386
Period size: 138 Copynumber: 1.8 Consensus size: 138
22101957 GTGTAATAGT
* * *
22101967 TTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTCACTATTGTAATTTCATT-TCGACCCA
1 TTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTCACCATTGTAATTTCATTCT-GAACCA
** *
22102031 CTGTTACTTCAGGGGTATAGGAATTGTATCTTCAATCCGATCCACTGCAACTTTAAGGATATAGG
65 CTGCAACTTCAGGGGTATAGGAATCGTATCTTCAATCCGATCCACTGCAACTTTAAGGATATAGG
22102096 ATTTGCAGC
130 ATTTGCAGC
* * * *
22102105 TTCATCTTGCTCCACTGCAACTTTAGGGGGATAAGATTCGCCATTGTAATTTCATTCTGAACCAC
1 TTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTCACCATTGTAATTTCATTCTGAACCAC
* *
22102170 TGCAACTTCAGGGGTATAGGAATCGTATCTTCAATTCGGTCCACTGCAACTT
66 TGCAACTTCAGGGGTATAGGAATCGTATCTTCAATCCGATCCACTGCAACTT
22102222 CAGGGAGATA
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
138 103 0.99
139 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (138 bp):
TTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTCACCATTGTAATTTCATTCTGAACCAC
TGCAACTTCAGGGGTATAGGAATCGTATCTTCAATCCGATCCACTGCAACTTTAAGGATATAGGA
TTTGCAGC
Found at i:22102170 original size:94 final size:93
Alignment explanation
Indices: 22102072--22102795 Score: 652
Period size: 94 Copynumber: 7.8 Consensus size: 93
22102062 TCAATCCGAT
* * * * *
22102072 CCACTGCAACTTTAAGGATATAGGATTTGCAGCTTCATCTTGCTCCACTGCAACTTTAGGGGGAT
1 CCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
* * * *
22102137 AAGATTCGCCATTGTAATTTCATTCTGAA-
66 AAGATTCGCTATGGTAACTTCA-TC-CAAC
* * * * * *
22102166 CCACTGCAACTTCAGGGGTATAGGAATCGTATCTTCAAT-TCGGTCCACTGCAACTTCAGGGAGA
1 CCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAGGGAGA
* * *
22102230 TAAGATTCGTCGT-T-ATAATTTCATTCCGAC
65 TAAGATTCG-C-TATGGTAACTTCA-TCCAAC
* * * * *
22102260 CCATTACAACTACAAGGGTATAGGAATTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGAT
1 CCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
* *
22102325 AAGATTCGCTATGGTAACCTTGATCCGAC
66 AAGATTCGCTATGGTAA-CTTCATCCAAC
* * * *
22102354 CTATTGCAACTTCAAGGGTATAGGATTTGTATCTTCATCTTGC-CCTACTGCAACTTCAAGGAGA
1 CCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCC-ACTGCAACTTCAGGGAGA
*
22102418 TAAGATTCTCTATGGTAACTTCAATCCAAC
65 TAAGATTCGCTATGGTAACTTC-ATCCAAC
* * *
22102448 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGTAGAT
1 CCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
* * * *
22102513 AAGATTTGCTATTGTAACTTTGATCCAAT
66 AAGATTCGCTATGGTAAC-TTCATCCAAC
* ** * * ** * *
22102542 CTACTGCCTCTT-TAGGAATATAATATTTGTAGCTTCATCTTGCTCCATTGCAACTTCAGGAAGA
1 CCACTGCAACTTCAAGG-GTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGA
22102606 TAAGATTCGCTATGGTAACTTCAATCCAAC
65 TAAGATTCGCTATGGTAACTTC-ATCCAAC
* * * * * * *
22102636 CCATTGTAACTTCAGGGGTATAGGATTTGTGGCTTCATCTTGCTCCACTGTAACTTTAAGGAGAT
1 CCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
*** *
22102701 AAGATTTATTATGGTAGA-TTCAATCTAA-
66 AAGATTCGCTATGGTA-ACTTC-ATCCAAC
* * **
22102729 --A---C--CTTCAAGGGTATAAGATTTGTAGCTTCATCTTACTTTACAT-CAACTTCAGGGAGA
1 CCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCAC-TGCAACTTCAGGGAGA
22102786 TAAGATTCGC
65 TAAGATTCGC
22102796 CATTGTGGTT
Statistics
Matches: 516, Mismatches: 97, Indels: 42
0.79 0.15 0.06
Matches are distributed among these distances:
86 51 0.10
87 1 0.00
91 1 0.00
92 1 0.00
93 14 0.03
94 434 0.84
95 14 0.03
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (93 bp):
CCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
AAGATTCGCTATGGTAACTTCATCCAAC
Found at i:22102499 original size:44 final size:44
Alignment explanation
Indices: 22102036--22102503 Score: 155
Period size: 44 Copynumber: 10.1 Consensus size: 44
22102026 ACCCACTGTT
* * * *
22102036 ACTTCAGGGGTATAGGAATTGTATCTTCAATC-CGATCCACTGCA
1 ACTTCAGGGGTATAGGATTTGTAGCTTC-ATCTTGCTCCACTGCA
* * * *
22102080 ACTTTAAGGATATAGGATTTGCAGCTTCATCTTGCTCCACTGCA
1 ACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCA
* * * ** **
22102124 ACTTTAGGGGGATAAGATTCGCCATTGTAATTTCAT-TCTGAACCACTGCA
1 ACTTCAGGGGTATAGGA-T-----TTGTAGCTTCATCT-TGCTCCACTGCA
* * * * *
22102174 ACTTCAGGGGTATAGGAATCGTATCTTCAAT-TCGGTCCACTGCA
1 ACTTCAGGGGTATAGGATTTGTAGCTTC-ATCTTGCTCCACTGCA
* * * * * * *
22102218 ACTTCAGGGAG-ATAAGATTCGTCGTTATAATTTCATTCCGAC-CCATTACA
1 ACTTCAGGG-GTATAGGATTTGTAGCT-TCA--TC-TT--G-CTCCACTGCA
* * * *
22102268 ACTACAAGGGTATAGGAATTGTAGCTTCATCTTGCTCCACTACA
1 ACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCA
* * * * * *
22102312 ACTTCAGGGAG-ATAAGATTCGCTATG-GTAACCTTGATCCGACCTATTGCA
1 ACTTCAGGG-GTATAGGATTTG-TA-GCTTCATCTTGCTCC-A-C---TGCA
* *
22102362 ACTTCAAGGGTATAGGATTTGTATCTTCATCTTGC-CCTACTGCA
1 ACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCC-ACTGCA
* * * ***
22102406 ACTTCAAGGAG-ATAAGATTCTCTATGGTAACTTCAATCCAAC-CCACTGCA
1 ACTTC-AGGGGTATAGGA---T-T-T-GTAGCTTC-ATCTTGCTCCACTGCA
22102456 ACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCA
1 ACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCA
22102500 ACTT
1 ACTT
22102504 TAGGTAGATA
Statistics
Matches: 306, Mismatches: 78, Indels: 80
0.66 0.17 0.17
Matches are distributed among these distances:
43 8 0.03
44 136 0.44
45 22 0.07
46 6 0.02
47 6 0.02
48 5 0.02
49 18 0.06
50 99 0.32
51 6 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
ACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCA
Found at i:22102884 original size:44 final size:44
Alignment explanation
Indices: 22102810--22102917 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 44
22102800 GTGGTTTGAT
* * *
22102810 TCTGACCCACTGTAACTT-AAGGAGTCTAAGAATTATAACTTTAA
1 TCTGATCCACTGCAACTTCAAGGAGTATAAGAATTATAAC-TTAA
* * * *
22102854 TCTGATCCACTGCAACTTCAAGGA-TATAAGATTTGTAGCTTCA
1 TCTGATCCACTGCAACTTCAAGGAGTATAAGAATTATAACTTAA
*
22102897 TCTTGCTCCACTGCAACTTCA
1 TC-TGATCCACTGCAACTTCA
22102918 GGAAGATAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 5 0.09
44 44 0.81
45 5 0.09
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (44 bp):
TCTGATCCACTGCAACTTCAAGGAGTATAAGAATTATAACTTAA
Found at i:22102892 original size:138 final size:136
Alignment explanation
Indices: 22102731--22103211 Score: 518
Period size: 138 Copynumber: 3.5 Consensus size: 136
22102721 CAATCTAAAC
* * **
22102731 CTTCAAGGGTATAAGATTTGTAGCTTCATCTTACTTTACAT-CAACTTCAGGGAGATAAGATTCG
1 CTTCAAGGATATAAGATTTGTAGCTTCATCTTGCTCCAC-TGCAACTTCAGGGAGATAAGATTCG
* * * * * *
22102795 CCATTGTGGTTTGATTCTGACCCACTGTAACTTAAGGAGTCTAAGAATTATAACTTTAATCTGAT
65 CCATTGTAGTTT-ATTCTGACCTACTGTAACTTAAGGGGTATAAGAATTGTATCTTTAATC-GAT
22102860 CCACTGCAA
128 CCACTGCAA
*
22102869 CTTCAAGGATATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGAAGATAAGATTC-C
1 CTTCAAGGATATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
* * * * * * *
22102933 TTATTATAGTTTCATT-TCGACCTATTGCAACTTCAGGGGTATATGATTTGTATCTTTAATCGAT
66 -CATTGTAGTTT-ATTCT-GACCTACTGTAACTTAAGGGGTATAAGAATTGTATCTTTAATCGAT
* **
22102997 CCAATAAAA
128 CCACTGCAA
* * * *
22103006 CTTCAAGGATATAAGATTAGTAGCTTCATCTTGCTCCATTGCAACTTTAGGGAGATAAGATTTGC
1 CTTCAAGGATATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
* * * * * *
22103071 CATGGTAACTTTAATCTGACCTACTGTAACTTTAGGGGTATAAAAATTGTATCTTCAATACGATC
66 CATTGT-AGTTTATTCTGACCTACTGTAACTTAAGGGGTATAAGAATTGTATCTTTAAT-CGATC
*
22103136 CACTGCAT
129 CACTGCAA
* * * * * * *
22103144 CTTCAGGGATATAGGATTTGTAGATTCATCTTGCTCCACTACAACTTTAGAGAGATAAGATTTGC
1 CTTCAAGGATATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
22103209 CAT
66 CAT
22103212 GGTAATATCT
Statistics
Matches: 286, Mismatches: 50, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
137 110 0.38
138 176 0.62
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (136 bp):
CTTCAAGGATATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
CATTGTAGTTTATTCTGACCTACTGTAACTTAAGGGGTATAAGAATTGTATCTTTAATCGATCCA
CTGCAA
Found at i:22103289 original size:90 final size:94
Alignment explanation
Indices: 22103135--22103340 Score: 226
Period size: 90 Copynumber: 2.2 Consensus size: 94
22103125 TCAATACGAT
* * *
22103135 CCACTGCATC-TTCAGGG-ATATAGGATTTGTAGATTCATCTTGCTCCACTACAACTTTAGAGAG
1 CCACTGCAACTTTAAGGGTATATAGGATTTGTAGATTCATCTTGCTCCACTACAACTTCAGAGAG
* * *
22103198 ATAAGATTTGCCATGGTAA-T-ATCTGAC
66 ATAAGACTCGCCATAGTAACTAATCTGAC
* * * * * *
22103225 CCACTGCAGCTTTAAGGGTATA-AGG-TTTGTAGCTTCATTTTGCTGCACTGCAACTTCAGGGAG
1 CCACTGCAACTTTAAGGGTATATAGGATTTGTAGATTCATCTTGCTCCACTACAACTTCAGAGAG
*
22103288 ATAAGACTCGCTATAGTAACTTCAATCTGAC
66 ATAAGACTCGCCATAGTAAC-T-AATCTGAC
*
22103319 CCACTGCAACTTTAAAGGTATA
1 CCACTGCAACTTTAAGGGTATA
22103341 GGATTTACTA
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
90 56 0.58
91 9 0.09
92 4 0.04
94 27 0.28
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (94 bp):
CCACTGCAACTTTAAGGGTATATAGGATTTGTAGATTCATCTTGCTCCACTACAACTTCAGAGAG
ATAAGACTCGCCATAGTAACTAATCTGAC
Found at i:22117034 original size:26 final size:26
Alignment explanation
Indices: 22116986--22117044 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
22116976 AAAGAAATAC
22116986 TATT-TTTTTATAATAACTATT-AAA
1 TATTATTTTTATAATAACTATTAAAA
* *
22117010 TATTATTTTTAATAATAATTGTTAAAA
1 TATTATTTTT-ATAATAACTATTAAAA
*
22117037 TACTATTT
1 TATTATTT
22117045 AATATTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 4 0.14
25 5 0.17
26 10 0.34
27 10 0.34
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (26 bp):
TATTATTTTTATAATAACTATTAAAA
Found at i:22117043 original size:27 final size:26
Alignment explanation
Indices: 22116980--22117044 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
22116970 GATTCAAAAG
*
22116980 AAATACTATTTTTTTATAATAACTATT
1 AAATACTA-TTTTTAATAATAACTATT
* * *
22117007 AAATATTATTTTTAATAATAATTGTT
1 AAATACTATTTTTAATAATAACTATT
22117033 AAAATACTATTT
1 -AAATACTATTT
22117045 AATATTTTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 15 0.47
27 17 0.53
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (26 bp):
AAATACTATTTTTAATAATAACTATT
Found at i:22120974 original size:44 final size:44
Alignment explanation
Indices: 22120918--22121004 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
22120908 AATATATGTG
* * *
22120918 AGGCATCTGAGCTCATTGAGTTGGTTCGAGTTCATTATGGATGC
1 AGGCATCCGAGCTCATTGAGTTGGTCCGAGTTCACTATGGATGC
*
22120962 AGGCATCCGAGCTCGTTGAGTTGGTCCGAGTTCACTATGGATG
1 AGGCATCCGAGCTCATTGAGTTGGTCCGAGTTCACTATGGATG
22121005 TCTACATGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (44 bp):
AGGCATCCGAGCTCATTGAGTTGGTCCGAGTTCACTATGGATGC
Found at i:22124882 original size:26 final size:26
Alignment explanation
Indices: 22124853--22124907 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
22124843 TCACCATTTT
* *
22124853 TTTGAAAGTCATAAGTGTGGAAGACA
1 TTTGAAAGTCATAAGAGAGGAAGACA
*
22124879 TTTGAAAGTCATGAGAGAGGAAGACA
1 TTTGAAAGTCATAAGAGAGGAAGACA
22124905 TTT
1 TTT
22124908 AAGGAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.27
Consensus pattern (26 bp):
TTTGAAAGTCATAAGAGAGGAAGACA
Found at i:22127223 original size:21 final size:21
Alignment explanation
Indices: 22127197--22127237 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
22127187 AAGAAGTGAA
22127197 TGAATGAATAATGATCATGAC
1 TGAATGAATAATGATCATGAC
*
22127218 TGAATGAATCATGATCATGA
1 TGAATGAATAATGATCATGA
22127238 GTTTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (21 bp):
TGAATGAATAATGATCATGAC
Found at i:22129516 original size:17 final size:18
Alignment explanation
Indices: 22129494--22129533 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
22129484 AGGCCAATTT
*
22129494 GGGCATGTGGGCC-ACAC
1 GGGCATGTAGGCCTACAC
*
22129511 GGGCATGTAGGCCTATAC
1 GGGCATGTAGGCCTACAC
22129529 GGGCA
1 GGGCA
22129534 AGACACACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (18 bp):
GGGCATGTAGGCCTACAC
Found at i:22132579 original size:30 final size:30
Alignment explanation
Indices: 22132542--22132648 Score: 92
Period size: 30 Copynumber: 3.6 Consensus size: 30
22132532 TTCCCGAGCC
22132542 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * ** * * **
22132572 TACGGGCAAAA-TTTGAGTTAAG-GACTGTTT
1 TAGGGGCAAAAGTGT-AAATATGCAAAAG-TT
*
22132602 TGGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
*
22132632 TAGGGGCAAAATTGTAA
1 TAGGGGCAAAAGTGTAA
22132649 TTTTTCCAAA
Statistics
Matches: 54, Mismatches: 19, Indels: 8
0.67 0.23 0.10
Matches are distributed among these distances:
29 4 0.07
30 46 0.85
31 4 0.07
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:22133445 original size:68 final size:67
Alignment explanation
Indices: 22133373--22133522 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
22133363 CATCATGTGT
* * * *
22133373 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
22133435 ATGTAG
62 ATGTAG
** * *
22133441 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
22133506 AG
66 AG
22133508 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
22133523 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:22133478 original size:64 final size:64
Alignment explanation
Indices: 22133397--22133580 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
22133387 AGACATTATG
* *
22133397 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
22133461 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
22133526 AA
63 AA
* * * *
22133528 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
22133581 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:22141768 original size:26 final size:26
Alignment explanation
Indices: 22141739--22141807 Score: 111
Period size: 26 Copynumber: 2.7 Consensus size: 26
22141729 AGAGCAACCA
* * *
22141739 CCAATTCCCCTGCTGTAGCCTCGAAG
1 CCAATTACCCTACTGCAGCCTCGAAG
22141765 CCAATTACCCTACTGCAGCCTCGAAG
1 CCAATTACCCTACTGCAGCCTCGAAG
22141791 CCAATTACCCTACTGCA
1 CCAATTACCCTACTGCA
22141808 TCTCCAAGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.25, C:0.39, G:0.14, T:0.22
Consensus pattern (26 bp):
CCAATTACCCTACTGCAGCCTCGAAG
Found at i:22141822 original size:26 final size:26
Alignment explanation
Indices: 22141741--22141824 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
22141731 AGCAACCACC
* * * * *
22141741 AATTCCCCTGCTGTAGCCTCGAAGCC
1 AATTACCCTACTGCAGCCTCCAAGCA
* *
22141767 AATTACCCTACTGCAGCCTCGAAGCC
1 AATTACCCTACTGCAGCCTCCAAGCA
*
22141793 AATTACCCTACTGCA-TCTCCAAGTCA
1 AATTACCCTACTGCAGCCTCCAAG-CA
22141819 AATTAC
1 AATTAC
22141825 TTTTATTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
25 6 0.12
26 45 0.88
ACGTcount: A:0.27, C:0.36, G:0.13, T:0.24
Consensus pattern (26 bp):
AATTACCCTACTGCAGCCTCCAAGCA
Found at i:22146842 original size:61 final size:58
Alignment explanation
Indices: 22146770--22146897 Score: 150
Period size: 60 Copynumber: 2.2 Consensus size: 58
22146760 TTAAATATAA
* *** * * *
22146770 AAAAATTAATAAATTTAACCTTCAGTGTTTACAAAATTTGTCATTTTAGTT-TGAATTCT
1 AAAAATTAATAAAATTAACC-TCAACATTTACAAAATTCGTCAATTTAATTCT-AATTCT
22146829 AACAAATTCAATAAAATTAACCTCAACATTTACAAAATTCGTCAATTTAATTCTAATTCT
1 AA-AAATT-AATAAAATTAACCTCAACATTTACAAAATTCGTCAATTTAATTCTAATTCT
22146889 AAAAATTAA
1 AAAAATTAA
22146898 AGAAAAAGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
58 2 0.03
59 7 0.12
60 37 0.63
61 13 0.22
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (58 bp):
AAAAATTAATAAAATTAACCTCAACATTTACAAAATTCGTCAATTTAATTCTAATTCT
Found at i:22149036 original size:27 final size:27
Alignment explanation
Indices: 22148995--22149123 Score: 158
Period size: 27 Copynumber: 4.8 Consensus size: 27
22148985 ACCAGATGCA
22148995 ATAT-TGTGGCAGAGCCACCAGAACAG
1 ATATATGTGGCAGAGCCACCAGAACAG
*
22149021 ATATATGTGGCAGAGCCACCAGATCAG
1 ATATATGTGGCAGAGCCACCAGAACAG
*
22149048 ATA-ATCGTGGCATAGCCACCAGAACAG
1 ATATAT-GTGGCAGAGCCACCAGAACAG
*
22149075 ATATATATGGCAGAGCCACCA-AATCAG
1 ATATATGTGGCAGAGCCACCAGAA-CAG
* *
22149102 ATA-ATTATGGCATAGCCACCAG
1 ATATA-TGTGGCAGAGCCACCAG
22149124 GACGCTTCCT
Statistics
Matches: 91, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
26 9 0.10
27 80 0.88
28 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.18
Consensus pattern (27 bp):
ATATATGTGGCAGAGCCACCAGAACAG
Found at i:22149065 original size:54 final size:54
Alignment explanation
Indices: 22148984--22149123 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 54
22148974 GTGACGAAGT
* *
22148984 CACCAGATGCA-AT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
*
22149037 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
* *
22149091 CACCAAATCAGATAATTATGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
22149124 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
52 2 0.03
53 10 0.13
54 67 0.85
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
Found at i:22150745 original size:60 final size:62
Alignment explanation
Indices: 22150650--22150783 Score: 245
Period size: 60 Copynumber: 2.2 Consensus size: 62
22150640 AAGAAAAGAA
*
22150650 AAAAAAATATGCACATAAAAAAACAACAACGAAATCATCAAAACAATACAAGATTATATGCT
1 AAAATAATATGCACATAAAAAAACAACAACGAAATCATCAAAACAATACAAGATTATATGCT
22150712 AAAATAATATGCACA-AAAAAAA-AACAACGAAATCATCAAAACAATACAAGATTATATGCT
1 AAAATAATATGCACATAAAAAAACAACAACGAAATCATCAAAACAATACAAGATTATATGCT
22150772 AAAATAATATGC
1 AAAATAATATGC
22150784 TCTTATTTCT
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
60 50 0.70
61 7 0.10
62 14 0.20
ACGTcount: A:0.60, C:0.15, G:0.07, T:0.19
Consensus pattern (62 bp):
AAAATAATATGCACATAAAAAAACAACAACGAAATCATCAAAACAATACAAGATTATATGCT
Found at i:22152326 original size:44 final size:44
Alignment explanation
Indices: 22152268--22152491 Score: 270
Period size: 44 Copynumber: 5.1 Consensus size: 44
22152258 AAGAACACCG
* * * ** *
22152268 ATCTGTTATTTTTGATCTGCTCTCTGCAAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCAGCTACAGAGATGCCAA
* * * *
22152312 ATCTGTCATCTTTGATCTGCTCTCTTGACA-ATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTC-CG-CAGCTACAGAGATGCCAA
* * * *
22152357 ATCCGTTATCTTCGATCTGCTCTCCGCTGCTACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCAGCTACAGAGATGCCAA
* *
22152401 ATCTGTTATCTTCGATCTACTCTCCGCTGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCAGCTACAGAGATGCCAA
*
22152445 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCAGCTACAGAGATGCCAA
22152489 ATC
1 ATC
22152492 ATCTTGGATT
Statistics
Matches: 160, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
43 1 0.01
44 120 0.75
45 37 0.23
46 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCAGCTACAGAGATGCCAA
Found at i:22152573 original size:88 final size:87
Alignment explanation
Indices: 22152453--22152642 Score: 308
Period size: 88 Copynumber: 2.2 Consensus size: 87
22152443 AAATCTGTTA
* * *
22152453 TCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTGGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCCGCCGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACA
22152518 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
22152540 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCCGCC-GATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
* *
22152605 ACGTGAAAGTCAAATCAGCTCTG
65 ACGTGAAAGCCAAATCAGCTATG
* *
22152628 TCTCCGATCAGCTCC
1 TCTTCGATCTGCTCC
22152643 TTGTAAGCAC
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
87 19 0.20
88 76 0.80
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (87 bp):
TCTTCGATCTGCTCCCCGCCGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACA
CGTGAAAGCCAAATCAGCTATG
Found at i:22152905 original size:138 final size:138
Alignment explanation
Indices: 22152657--22154042 Score: 2324
Period size: 138 Copynumber: 10.0 Consensus size: 138
22152647 AAGCACAAGA
22152657 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
1 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
* * * * * * *
22152722 TTAAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCTTTAATCTACTTCACTGCAA
66 TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAA
*
22152787 CTTCAAGG
131 CTTCAGGG
* * *
22152795 AGATAAGACTTGTAACTTCGAACTGCACTACTGTAACTTCAGAGAGATAAGATCTGTAATTTAGC
1 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
* * * *
22152860 TTCAATCTGTTCTACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTACTCCAGTGTAA
66 TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAA
22152925 CTTCAGGG
131 CTTCAGGG
*
22152933 AGATAAGACTTGTAACTTTGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
1 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
* * * *
22152998 TTCAATCTGTTCCACTGCAACGTCAGGGAAATATGATTTTCTATCTTTAGTCTGCTCCACTGCAA
66 TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAA
22153063 CTTCAGGG
131 CTTCAGGG
*
22153071 AGATAAGACTTGTAACTTCGACCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
1 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
* * *
22153136 TTCAATCTGTTCCATTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTGCTCCACTGCAA
66 TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAA
22153201 CTTCAGGG
131 CTTCAGGG
*
22153209 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGA-CTTGTAACTTAG
1 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATC-TGTAATTTAG
22153273 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
65 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
*
22153338 ACTTCAAGG
130 ACTTCAGGG
*
22153347 AGATAAGACTTGTAACTTTGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
1 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
* *
22153412 TTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCAA
66 TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAA
22153477 CTTCAGGG
131 CTTCAGGG
22153485 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
1 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
* * * *
22153550 TTAAATCTGTTCCACTGCAACTTTAGGGAAATATGATTTGCTATATTCAGTCTGCTCCACTGCAA
66 TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAA
22153615 CTTCAGGG
131 CTTCAGGG
* *
22153623 AGATAAGACTTGTAACTTCGACCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGT
1 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
*
22153688 TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTCAGTCTGCTCCACTGCAA
66 TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAA
*
22153753 CTTCAAGG
131 CTTCAGGG
* *
22153761 AGATAAGACTTGTAACTTTGACCTGCTCTACTGCAACTTCAGAGTGATAAGATCTGTAATTTAGC
1 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
* * * *
22153826 TTCAATTTATTCCACTGCAACTTCAGGAAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCAA
66 TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAA
22153891 CTTCAGGG
131 CTTCAGGG
* *
22153899 AGATAAGACTTGTAACTTCGACCTGCTTTACTGCAACTTCAGAGAGATAAGATTTGTAATTTAGC
1 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
* * *
22153964 TTCAATCTATTCCACTGCAACTTCAGGGAAATACGATTTGCTATCTTCAGGCTGCTCCACTGCAA
66 TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAA
22154029 CTTCAGGG
131 CTTCAGGG
22154037 AGATAA
1 AGATAA
22154043 AATTTGTGAA
Statistics
Matches: 1170, Mismatches: 76, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
137 1 0.00
138 1168 1.00
139 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (138 bp):
AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAA
CTTCAGGG
Found at i:22157983 original size:19 final size:19
Alignment explanation
Indices: 22157959--22158025 Score: 107
Period size: 19 Copynumber: 3.5 Consensus size: 19
22157949 GGGAAAATCT
*
22157959 AATGCAAATGATGCAATAC
1 AATGCAAATGATGCAATGC
*
22157978 AATGCATATGATGCAATGC
1 AATGCAAATGATGCAATGC
*
22157997 AATGCACATGATGCAATGC
1 AATGCAAATGATGCAATGC
22158016 AATGCAAATG
1 AATGCAAATG
22158026 CATGGGATGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.22
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:22157996 original size:5 final size:5
Alignment explanation
Indices: 22157969--22158027 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
22157959 AATGCAAATG
*
22157969 ATGCA ATACA ATGCA TATG-- ATGCA ATGCA ATGCA CATG-- ATGCA ATGCA
1 ATGCA ATGCA ATGCA -ATGCA ATGCA ATGCA ATGCA -ATGCA ATGCA ATGCA
22158017 ATGCAA ATGCA
1 ATGC-A ATGCA
22158028 TGGGATGAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
3 6 0.13
5 28 0.62
6 11 0.24
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
ATGCA
Found at i:22158038 original size:24 final size:24
Alignment explanation
Indices: 22157988--22158041 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
22157978 AATGCATATG
*
22157988 ATGCAATGCAATGCACATGATGCA
1 ATGCAATGCAATGCACAGGATGCA
**
22158012 ATGCAATGCAAATGCATGGGATG-A
1 ATGCAATGC-AATGCACAGGATGCA
22158036 ATGCAA
1 ATGCAA
22158042 AGGAAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (24 bp):
ATGCAATGCAATGCACAGGATGCA
Found at i:22158039 original size:38 final size:38
Alignment explanation
Indices: 22157959--22158042 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
22157949 GGGAAAATCT
*
22157959 AATGCAAATGATGCAATACAATGCATATGATGCAATGC
1 AATGCAAATGATGCAATACAATGCAAATGATGCAATGC
* * **
22157997 AATGCACATGATGCAATGCAATGCAAATGCATGGGATG-
1 AATGCAAATGATGCAATACAATGCAAATG-ATGCAATGC
22158035 AATGCAAA
1 AATGCAAA
22158043 GGAAAGAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 33 0.85
39 6 0.15
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (38 bp):
AATGCAAATGATGCAATACAATGCAAATGATGCAATGC
Found at i:22161648 original size:12 final size:11
Alignment explanation
Indices: 22161619--22161648 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
22161609 TTGTAAACAA
22161619 AAATAAAAAAG
1 AAATAAAAAAG
22161630 AAATAAAAAAG
1 AAATAAAAAAG
22161641 AAACTAAA
1 AAA-TAAA
22161649 GAACAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (11 bp):
AAATAAAAAAG
Found at i:22161717 original size:13 final size:14
Alignment explanation
Indices: 22161690--22161722 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
22161680 GAAATCCACC
22161690 TTTTCTTTGTGTTT
1 TTTTCTTTGTGTTT
*
22161704 TTTTCTTT-TTTTT
1 TTTTCTTTGTGTTT
22161717 TTTTCT
1 TTTTCT
22161723 GAAATCCTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (14 bp):
TTTTCTTTGTGTTT
Found at i:22163193 original size:26 final size:26
Alignment explanation
Indices: 22163162--22163321 Score: 266
Period size: 26 Copynumber: 6.2 Consensus size: 26
22163152 TGAAATGCCC
*
22163162 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
**
22163188 ATCATGGAACATTTACCTAACCCACC
1 ATCATGGAACATTTACCTAACCCATT
*
22163214 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
22163240 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
22163266 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
22163292 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22163318 ATCA
1 ATCA
22163322 ATTTGTACCA
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 123 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:22169450 original size:13 final size:13
Alignment explanation
Indices: 22169432--22169457 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22169422 ATCTTTGTAC
22169432 GGTAAATATTTTA
1 GGTAAATATTTTA
22169445 GGTAAATATTTTA
1 GGTAAATATTTTA
22169458 AAAATTCAAC
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:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
GGTAAATATTTTA
Found at i:22170083 original size:11 final size:10
Alignment explanation
Indices: 22170034--22170095 Score: 51
Period size: 11 Copynumber: 6.3 Consensus size: 10
22170024 TATAAGATTT
22170034 AAAATTAT-A
1 AAAATTATAA
22170043 AAAATATATAA
1 AAAAT-TATAA
*
22170054 AAACTTCATAA
1 AAAATT-ATAA
*
22170065 ACAA--ATAA
1 AAAATTATAA
22170073 AAAA-TATATA
1 AAAATTATA-A
22170083 AAAATTATAA
1 AAAATTATAA
22170093 AAA
1 AAA
22170096 TGTATTGCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
8 7 0.16
9 8 0.19
10 13 0.30
11 15 0.35
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAATTATAA
Found at i:22170095 original size:9 final size:9
Alignment explanation
Indices: 22170034--22170096 Score: 65
Period size: 9 Copynumber: 6.6 Consensus size: 9
22170024 TATAAGATTT
22170034 AAAATTATA
1 AAAATTATA
22170043 AAAATATATA
1 AAAAT-TATA
22170053 AAAACTTCATA
1 AAAA-TT-ATA
*
22170064 AACAAATA-A
1 AA-AATTATA
22170073 AAAATATATA
1 AAAAT-TATA
22170083 AAAATTATA
1 AAAATTATA
22170092 AAAAT
1 AAAAT
22170097 GTATTGCATT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
8 2 0.04
9 19 0.41
10 16 0.35
11 7 0.15
12 2 0.04
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAATTATA
Found at i:22172469 original size:121 final size:121
Alignment explanation
Indices: 22172255--22172499 Score: 472
Period size: 121 Copynumber: 2.0 Consensus size: 121
22172245 AGTCGAAGTA
22172255 AGATGAGAAGTTTACTGATTGTTTTAACCAACAACGGTGTTGTTGGTAGAGGACAGACTCTTTGT
1 AGATGAGAAGTTTACTGATTGTTTTAACCAACAACGGTGTTGTTGGTAGAGGACAGACTCTTTGT
* *
22172320 TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGGGAGAGAGAG
66 TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
22172376 AGATGAGAAGTTTACTGATTGTTTTAACCAACAACGGTGTTGTTGGTAGAGGACAGACTCTTTGT
1 AGATGAGAAGTTTACTGATTGTTTTAACCAACAACGGTGTTGTTGGTAGAGGACAGACTCTTTGT
22172441 TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
66 TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
22172497 AGA
1 AGA
22172500 CACAGCCTGA
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 122 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (121 bp):
AGATGAGAAGTTTACTGATTGTTTTAACCAACAACGGTGTTGTTGGTAGAGGACAGACTCTTTGT
TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
Found at i:22176718 original size:30 final size:29
Alignment explanation
Indices: 22176678--22176736 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
22176668 TAAAAAAAAG
22176678 TAAATTTTTTTTGAAATCAAGAACAAACC
1 TAAATTTTTTTTGAAATCAAGAACAAACC
22176707 TAAATTTTTTTTGAAATCAAGAACAAACC
1 TAAATTTTTTTTGAAATCAAGAACAAACC
22176736 T
1 T
22176737 GCGCAAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.36
Consensus pattern (29 bp):
TAAATTTTTTTTGAAATCAAGAACAAACC
Found at i:22179218 original size:28 final size:30
Alignment explanation
Indices: 22179171--22179228 Score: 86
Period size: 28 Copynumber: 2.0 Consensus size: 30
22179161 TATTTTATTA
22179171 TTAATTTTGTTATTATTTTA-AAGGCATTTG
1 TTAATTTTGTTATTATTTTAGAA-GCATTTG
22179201 TTAATTTT-TT-TTATTTTAGAAGCATTTG
1 TTAATTTTGTTATTATTTTAGAAGCATTTG
22179229 CTTGTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 15 0.56
29 4 0.15
30 8 0.30
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.59
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAGAAGCATTTG
Found at i:22180203 original size:18 final size:18
Alignment explanation
Indices: 22180180--22180223 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
22180170 CCACGTTAGT
*
22180180 AAAAAAAGTATATTTT-CA
1 AAAAAAAATAT-TTTTACA
*
22180198 AAAAAAAATCTTTTTACA
1 AAAAAAAATATTTTTACA
22180216 AAAAAAAA
1 AAAAAAAA
22180224 AAAAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAAAAAATATTTTTACA
Found at i:22180711 original size:17 final size:18
Alignment explanation
Indices: 22180672--22180712 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
22180662 TATTATTGAA
22180672 AATAAAATAAAATAAATT
1 AATAAAATAAAATAAATT
* *
22180690 -TTAAAAT-ATATAAATT
1 AATAAAATAAAATAAATT
22180706 AATAAAA
1 AATAAAA
22180713 AAATTACATC
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAAATAAAATAAATT
Found at i:22180854 original size:27 final size:29
Alignment explanation
Indices: 22180800--22180890 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 29
22180790 TTTATATATT
* **
22180800 TATATTTATTATAAATTTTAGTTCTTTTA
1 TATATTTATTATAAATTTAAACTCTTTTA
22180829 TATATTT-TTATAAATTTAAACT-TTTTA
1 TATATTTATTATAAATTTAAACTCTTTTA
* * * * *
22180856 T-TACTATATTATATATTTTAATTTTTTTA
1 TATA-TTTATTATAAATTTAAACTCTTTTA
22180885 TATATT
1 TATATT
22180891 CTTCAAAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
26 2 0.04
27 8 0.16
28 24 0.48
29 14 0.28
30 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (29 bp):
TATATTTATTATAAATTTAAACTCTTTTA
Found at i:22197809 original size:39 final size:38
Alignment explanation
Indices: 22197754--22197874 Score: 179
Period size: 39 Copynumber: 3.1 Consensus size: 38
22197744 ACCCGAATAT
** *
22197754 TTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATA
1 TTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATA
* *
22197792 TATTTCTAGCATATAGCCTGCGGATCTCATGTCCGGATA
1 T-TTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATA
22197831 TTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATA
1 -TTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATA
22197870 TTTTC
1 TTTTC
22197875 AATCTCATAC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 6 0.08
39 67 0.91
40 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (38 bp):
TTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATA
Found at i:22204893 original size:19 final size:19
Alignment explanation
Indices: 22204866--22204902 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22204856 TTTTGGATAC
*
22204866 TATTGACATGTCAGTAAGT
1 TATTCACATGTCAGTAAGT
22204885 TATTCACATGTCAGTAAG
1 TATTCACATGTCAGTAAG
22204903 CCCGGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (19 bp):
TATTCACATGTCAGTAAGT
Found at i:22218406 original size:57 final size:57
Alignment explanation
Indices: 22218337--22218467 Score: 158
Period size: 57 Copynumber: 2.3 Consensus size: 57
22218327 TCGATTTTGA
*
22218337 AAATGGCACTTAGTGTGCGAGTTA-CTGAGGACGACACTTAGTGTGCGAAACATCCAG
1 AAATGGCACTTAGTGTGCGAATTATC-GAGGACGACACTTAGTGTGCGAAACATCCAG
* * * * * *
22218394 AAATGGCTCTTAGTGAGCGAATTATCGAGGATGGCACTTAGTGTGCGAGATATCCAG
1 AAATGGCACTTAGTGTGCGAATTATCGAGGACGACACTTAGTGTGCGAAACATCCAG
* *
22218451 -GACGGCACTTAGTGTGC
1 AAATGGCACTTAGTGTGC
22218468 AATACATCCG
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
56 13 0.21
57 48 0.77
58 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (57 bp):
AAATGGCACTTAGTGTGCGAATTATCGAGGACGACACTTAGTGTGCGAAACATCCAG
Found at i:22218436 original size:28 final size:28
Alignment explanation
Indices: 22218339--22218467 Score: 118
Period size: 28 Copynumber: 4.6 Consensus size: 28
22218329 GATTTTGAAA
* *
22218339 ATGGCACTTAGTGTGCGAGTTA-CTGAGG
1 ATGGCACTTAGTGTGCGAATTATC-CAGG
* * ** *
22218367 ACGACACTTAGTGTGCGAAACATCCAGAA
1 ATGGCACTTAGTGTGCGAATTATCCAG-G
* * *
22218396 ATGGCTCTTAGTGAGCGAATTATCGAGG
1 ATGGCACTTAGTGTGCGAATTATCCAGG
22218424 ATGGCACTTAGTGTGCGAGA-TATCCAGG
1 ATGGCACTTAGTGTGCGA-ATTATCCAGG
*
22218452 ACGGCACTTAGTGTGC
1 ATGGCACTTAGTGTGC
22218468 AATACATCCG
Statistics
Matches: 79, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
28 57 0.72
29 22 0.28
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAATTATCCAGG
Found at i:22220609 original size:40 final size:40
Alignment explanation
Indices: 22220532--22220758 Score: 239
Period size: 40 Copynumber: 5.7 Consensus size: 40
22220522 GATGTTCGGG
* * * * *
22220532 CTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATATCCGGA
1 CTAAGTCCCGAAGGCATTTGTACGA-GTTACTAAATCCGGA
*
22220572 CTAAGAT-CCGAAGGCATTTGTATGAGTTACTAAATCCGGA
1 CTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAATCCGGA
* *
22220612 CTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATTCAGG-
1 CTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA-TCCGGA
* *
22220652 TTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGG
1 CTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGA
* * *
22220692 TTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGG
1 CTAAGTCCCGAAGGCATTTGTACGAGTTACTA-AATCCGGA
* *
22220732 CTATGTCCCGAAGGCATTTGAACGAGT
1 CTAAGTCCCGAAGGCATTTGTACGAGT
22220759 AGCTATATCC
Statistics
Matches: 164, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 5 0.03
40 146 0.89
41 13 0.08
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
CTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGA
Found at i:22220770 original size:80 final size:80
Alignment explanation
Indices: 22220528--22220758 Score: 281
Period size: 80 Copynumber: 2.9 Consensus size: 80
22220518 GAATGATGTT
* * * * *
22220528 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATATCCGGACTAAGAT-CCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTATAACCGGGCTAAG-TCCCGAAGGCATTT
*
22220591 GTATGAGTTACTAAATC
64 GTACGAGTTACTAAATC
* * * *
22220608 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATTCAGGTTAAGTCCCGAAGGCATTT
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTT
22220671 GTACGAGTTACTAAATC
64 GTACGAGTTACTAAATC
* * *
22220688 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGT
22220753 ACGAGT
66 ACGAGT
22220759 AGCTATATCC
Statistics
Matches: 128, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
79 3 0.02
80 114 0.89
81 11 0.09
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGT
ACGAGTTACTAAATC
Found at i:22239212 original size:3 final size:3
Alignment explanation
Indices: 22239204--22239236 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
22239194 AAACATACTA
*
22239204 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22239237 CAAAACATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22246042 original size:57 final size:57
Alignment explanation
Indices: 22245972--22246099 Score: 152
Period size: 57 Copynumber: 2.3 Consensus size: 57
22245962 GTCGATTTTG
* *
22245972 AAAATGGCACTTAGTGTGCGAGTTA-CTGAGGACAACACTTAGTGTGCGAAACATCCA
1 AAAATGGCACTTAGTGAGCGAATTATC-GAGGACAACACTTAGTGTGCGAAACATCCA
* *** *
22246029 AAAATGGCTCTTAGTGAGCGAATTATCGAGGATGGCACTTAGTGTGCGAGACATCC-
1 AAAATGGCACTTAGTGAGCGAATTATCGAGGACAACACTTAGTGTGCGAAACATCCA
**
22246085 AGGATGGCACTTAGT
1 AAAATGGCACTTAGT
22246100 TTGCAATACA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
56 12 0.20
57 47 0.78
58 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (57 bp):
AAAATGGCACTTAGTGAGCGAATTATCGAGGACAACACTTAGTGTGCGAAACATCCA
Found at i:22246072 original size:28 final size:28
Alignment explanation
Indices: 22246007--22246099 Score: 89
Period size: 28 Copynumber: 3.3 Consensus size: 28
22245997 CTGAGGACAA
* * **
22246007 CACTTAGTGTGCGAAACATCCAAAAATGG
1 CACTTAGTGAGCGAGACATCC-AGGATGG
* * *
22246036 CTCTTAGTGAGCGA-ATTATCGAGGATGG
1 CACTTAGTGAGCGAGA-CATCCAGGATGG
*
22246064 CACTTAGTGTGCGAGACATCCAGGATGG
1 CACTTAGTGAGCGAGACATCCAGGATGG
22246092 CACTTAGT
1 CACTTAGT
22246100 TTGCAATACA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
28 36 0.69
29 16 0.31
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (28 bp):
CACTTAGTGAGCGAGACATCCAGGATGG
Found at i:22246110 original size:28 final size:28
Alignment explanation
Indices: 22246057--22246112 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
22246047 CGAATTATCG
*
22246057 AGGATGGCACTTAGTGTGCGAGACATCC
1 AGGATGGCACTTAGTGTGCAAGACATCC
* *
22246085 AGGATGGCACTTAGTTTGCAATACATCC
1 AGGATGGCACTTAGTGTGCAAGACATCC
22246113 GTGAAGGTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (28 bp):
AGGATGGCACTTAGTGTGCAAGACATCC
Found at i:22251319 original size:46 final size:46
Alignment explanation
Indices: 22251266--22251402 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
22251256 TATATATACA
* * * *
22251266 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
22251312 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
22251358 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCAGATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
22251403 ATACATGTTC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:22251438 original size:47 final size:47
Alignment explanation
Indices: 22251376--22251567 Score: 249
Period size: 47 Copynumber: 4.1 Consensus size: 47
22251366 ACACATTTCG
* * * * **
22251376 CATTAGCCATTCGGCCTTACCAGATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * * * *
22251423 CATCGGCCCTTCGGCCTTATCTCATATATGCATGTTTACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
22251470 CATTGGTCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
22251517 CATTGGCCATTCGGCCTTATCACACATACGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
22251564 CATT
1 CATT
22251568 AAAATCCTAA
Statistics
Matches: 127, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 127 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:22255967 original size:12 final size:12
Alignment explanation
Indices: 22255950--22255980 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
22255940 ATTTATTTGA
*
22255950 CATTCATGCATT
1 CATTCATGCATC
22255962 CATTCATGCATC
1 CATTCATGCATC
22255974 CATTCAT
1 CATTCAT
22255981 TTATTGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (12 bp):
CATTCATGCATC
Found at i:22259860 original size:91 final size:91
Alignment explanation
Indices: 22259705--22259887 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
22259695 TACATTCACT
22259705 CTTTATCATTTAAATGAATATCAATGAAGATGCATTTTATCACGATCTTTCGCATTATCACTAAT
1 CTTTATCATTTAAATGAATATCAATGAAGATGCATTTTATCACGATCTTTCGCATTATCACTAAT
22259770 TTCATAATCATCTACTCATTTTATAG
66 TTCATAATCATCTACTCATTTTATAG
22259796 CTTTATCATTTAAATGAATATCAATGAAGATGCATTTTATCACGATCTTTCGCATTATCACTAAT
1 CTTTATCATTTAAATGAATATCAATGAAGATGCATTTTATCACGATCTTTCGCATTATCACTAAT
*
22259861 TTCATAATCATCTCCTCATTTTATAG
66 TTCATAATCATCTACTCATTTTATAG
22259887 C
1 C
22259888 CTATCTGTAC
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (91 bp):
CTTTATCATTTAAATGAATATCAATGAAGATGCATTTTATCACGATCTTTCGCATTATCACTAAT
TTCATAATCATCTACTCATTTTATAG
Found at i:22263409 original size:42 final size:42
Alignment explanation
Indices: 22263355--22263438 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
22263345 AAGAAAGCAT
* *
22263355 TCTCGGGTGGAGCTTTGATTCTCACTTAGATGGATGGGAAAG
1 TCTCGGGTGGAGCTCTGATTCTCACTGAGATGGATGGGAAAG
22263397 TCTCGGGTGGAGCTCTGATTCTCACTGAGATGGATGGGAAAG
1 TCTCGGGTGGAGCTCTGATTCTCACTGAGATGGATGGGAAAG
22263439 AGTTACCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.21, C:0.15, G:0.35, T:0.29
Consensus pattern (42 bp):
TCTCGGGTGGAGCTCTGATTCTCACTGAGATGGATGGGAAAG
Found at i:22264517 original size:76 final size:75
Alignment explanation
Indices: 22264424--22264577 Score: 229
Period size: 76 Copynumber: 2.0 Consensus size: 75
22264414 TTTATTTCTG
* * *
22264424 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGT-ATTTT
1 TTTCAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGACACATTAAGGTAATTTT
22264488 CAATTTCTACT
66 -AATTTCTACT
* *
22264499 TTTCAAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTAAGGTAATTT
1 TTTC-AAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGACACATTAAGGTAATTT
*
22264564 TAATTTCTGCT
65 TAATTTCTACT
22264575 TTT
1 TTT
22264578 AAATTTATAT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
75 4 0.06
76 62 0.87
77 5 0.07
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (75 bp):
TTTCAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGACACATTAAGGTAATTTT
AATTTCTACT
Found at i:22265289 original size:85 final size:85
Alignment explanation
Indices: 22265146--22266172 Score: 1254
Period size: 85 Copynumber: 12.3 Consensus size: 85
22265136 NNNNNNNNNN
22265146 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
1 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
22265211 GAGTTGAGCCTCAGGACACG
66 GAGTTGAGCCTCAGGACACG
22265231 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
1 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
22265296 GAGTTGAGCCTCAGGACACG
66 GAGTTGAGCCTCAGGACACG
22265316 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
1 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
22265381 GAGTTGAGCCTCAGGACACG
66 GAGTTGAGCCTCAGGACACG
22265401 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
1 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
22265466 GAGTTGAGCCTCAGGACACG
66 GAGTTGAGCCTCAGGACACG
22265486 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
1 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
22265551 GAGTTGAGCCTCAGGACACG
66 GAGTTGAGCCTCAGGACACG
** **
22265571 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTGCGAGAGGT
1 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
22265636 GAGTTGAGCCTCAGGACACG
66 GAGTTGAGCCTCAGGACACG
* ** **
22265656 CTGAGGTATTTTCAA---------TT---TCTATTTTTCAAAAATCAACTCATATTGCGAGAGGT
1 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
22265709 GAGTTGAGCCTCAGGACACG
66 GAGTTGAGCCTCAGGACACG
**
22265729 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAGGT
1 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
22265794 GAGTTGAGCCTCAGGACACG
66 GAGTTGAGCCTCAGGACACG
* * **
22265814 CTGAGGTAATT-TCAATTTCTGT-TGTC-A---A------AAAAATCAACTCATATTGCGAGAAA
1 CTGAGGT-ATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAA
*
22265867 TGAGTTGAGCCTCAAGACACG
65 TGAGTTGAGCCTCAGGACACG
* * * **
22265888 CTGAGGTATTTTCAA----T-T-TTT--ATC----TTTCAAAAAATCAACTCATATTGTAAGAGG
1 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTC-AAAAATCAACTCATATTATGAGAAA
*
22265941 TGAGTTGAGCCTCAAGG-CAGG
65 TGAGTTGAGCCTC-AGGACACG
* * * * *
22265962 TTTAGGTAATT-TCAATTTCTGCT-TTTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTG
1 CTGAGGT-ATTGTCAATTTTTG-TGTTTCAA--TCTATTTTTC---AAAAA-TCAACTCATATTA
* **
22266025 CGAGAGGTGAGTTGAGCCTCAGGACACG
58 TGAGAAATGAGTTGAGCCTCAGGACACG
* * *
22266053 CTGAGGTAATT-TCAATTTCTGCT-TTTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTG
1 CTGAGGT-ATTGTCAATTTTTG-TGTTTCAA--TCTATTTTTC---AAAAA-TCAACTCATATTA
* * *
22266116 CGAGAAATGAGTTGAGCCTCAAGACATG
58 TGAGAAATGAGTTGAGCCTCAGGACACG
* *
22266144 CTGAGGTATTTTCAATTTTTGTCTTTCAA
1 CTGAGGTATTGTCAATTTTTGTGTTTCAA
22266173 AAAATCAACT
Statistics
Matches: 864, Mismatches: 35, Indels: 80
0.88 0.04 0.08
Matches are distributed among these distances:
68 1 0.00
69 3 0.00
70 1 0.00
73 73 0.08
74 98 0.11
75 5 0.01
76 2 0.00
78 1 0.00
80 5 0.01
82 3 0.00
83 1 0.00
84 4 0.00
85 506 0.59
86 3 0.00
88 4 0.00
90 13 0.02
91 141 0.16
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (85 bp):
CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
GAGTTGAGCCTCAGGACACG
Found at i:22265597 original size:255 final size:253
Alignment explanation
Indices: 22265146--22266419 Score: 1309
Period size: 255 Copynumber: 5.1 Consensus size: 253
22265136 NNNNNNNNNN
*
22265146 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
1 CTGAGGTATTTTCAATTTTTGT-TTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
22265211 GAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAAT
65 GAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAAT
*
22265276 CAACTCATATTATGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGT-ATTGTCAATTTTTGTGT
130 CAACTCATATTATGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCAATTTCTGT-T
** *
22265340 TTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAATGAGTTGAGCCTCAGGACACG
193 TTCAATCTATTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
*
22265401 CTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
1 CTGAGGTATTTTCAATTTTTGT-TTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAAT
22265466 GAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAAT
65 GAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAAT
*
22265531 CAACTCATATTATGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGT-ATTGTCAATTTTTGTGT
130 CAACTCATATTATGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCAATTTCTGT-T
** *
22265595 TTCAATCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
193 TTCAATCTATTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
** **
22265656 CTGAGGTATTTTCAA--------TT---TCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTG
1 CTGAGGTATTTTCAATTTTTGTTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAATG
22265710 AGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATC
66 AGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATC
** *
22265775 AACTCATATTATGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
131 AACTCATATTATGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTC
22265840 -A---A------AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
196 AATCTATTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
* * **
22265888 CTGAGGTATTTTCAA----T-TTTT--ATC----TTTCAAAAAATCAACTCATATTGTAAGAGGT
1 CTGAGGTATTTTCAATTTTTGTTTTCAATCTATTTTTC-AAAAATCAACTCATATTATGAGAAAT
* * * * *
22265942 GAGTTGAGCCTCAAGG-CAGGTTTAGGTAATT-TCAATTTCTGCT-TTTCAATTTATATTTTTCA
65 GAGTTGAGCCTC-AGGACACGCTGAGGT-ATTGTCAATTTTTG-TGTTTCAA--TCTATTTTTC-
** **
22266004 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
124 --AAAAA-TCAACTCATATTATGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
*
22266069 TTCTGCTTTTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC
186 TTCTG-TTTTCAA--TCTATTTTTC---AAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCC
*
22266134 TCAAGACATG
244 TCAAGACACG
* * ** ** *
22266144 CTGAGGTATTTTCAATTTTTGTCTT---TC-A------AAAAATCAACTCATACTGCGAGAGGTA
1 CTGAGGTATTTTCAATTTTTGTTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAATG
* * * * *
22266199 AGTTGAGCCTCAAGG-CACGTTGAGTTAATT-TCAATTTCTGCT-TTTAAATTTATATTTTTCAA
66 AGTTGAGCCTC-AGGACACGCTGAGGT-ATTGTCAATTTTTG-TGTTTCAA--TCTATTTTTC--
** ** * *
22266261 AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTTAATTT
124 AAAAA-TCAACTCATATTATGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
* *** ** *** * * *
22266326 CTGTTGTCAAAAAAAATAAAAAAAATCAACTCGTATTGCGA-AAGACGAGTTGAGCCTCAGGTCA
188 CTGTTTTCAATCTATTTTTCAAAAATCAACTCATATTGCGAGAA-ATGAGTTGAGCCTCAAG--A
22266390 CACG
250 CACG
* *
22266394 CCGAGGTATTTTCAATTTCTGTTTTC
1 CTGAGGTATTTTCAATTTTTGTTTTC
22266420 CAATTTTTGC
Statistics
Matches: 924, Mismatches: 53, Indels: 88
0.87 0.05 0.08
Matches are distributed among these distances:
232 62 0.07
233 59 0.06
234 7 0.01
235 11 0.01
236 2 0.00
238 6 0.01
239 60 0.06
240 4 0.00
241 2 0.00
242 3 0.00
243 152 0.16
244 3 0.00
246 3 0.00
247 2 0.00
248 30 0.03
249 5 0.01
250 26 0.03
252 3 0.00
254 6 0.01
255 338 0.37
256 134 0.15
260 3 0.00
261 3 0.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (253 bp):
CTGAGGTATTTTCAATTTTTGTTTTCAATCTATTTTTCAAAAATCAACTCATATTATGAGAAATG
AGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATC
AACTCATATTATGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTC
AATCTATTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
Found at i:22265719 original size:73 final size:73
Alignment explanation
Indices: 22265600--22265990 Score: 453
Period size: 74 Copynumber: 5.2 Consensus size: 73
22265590 TGTGTTTCAA
22265600 TCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
1 TCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
22265665 TTTCAATT
66 TTTCAATT
22265673 TCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
1 TCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
*
22265738 TGTCAATTTTTGTGTTT
66 TTTCAA---------TT
**
22265755 CAATCTATTTTTCAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 ---TCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
22265820 TAATTTCAATT
63 TATTTTCAATT
* * ** *
22265831 TCT-GTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
1 TCTATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
22265895 ATTTTCAATT
64 ATTTTCAATT
* * ** * * *
22265905 TTTATCTTTCAAAAAATCAACTCATATTGTAAGAGGTGAGTTGAGCCTCAAGG-CAGGTTTAGGT
1 TCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGT
*
22265969 AATTTCAATT
64 ATTTTCAATT
**
22265979 TCTGCTTTTCAA
1 TCTATTTTTCAA
22265991 TTTATATTTT
Statistics
Matches: 272, Mismatches: 30, Indels: 32
0.81 0.09 0.10
Matches are distributed among these distances:
72 4 0.01
73 75 0.28
74 117 0.43
75 5 0.02
76 2 0.01
82 2 0.01
85 67 0.25
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (73 bp):
TCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
TTTCAATT
Found at i:22266172 original size:91 final size:91
Alignment explanation
Indices: 22265896--22266161 Score: 394
Period size: 91 Copynumber: 3.0 Consensus size: 91
22265886 CGCTGAGGTA
* * ** *
22265896 TTTTCAATTTTTATCTTTC--AAAAAA-TCAACTCATATTGTAAGAGGTGAGTTGAGCCTCAAGG
1 TTTTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
* * *
22265958 CAGGTTTAGGTAATTTCAATTTCTGC
66 CACGCTGAGGTAATTTCAATTTCTGC
*
22265984 TTTTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 TTTTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
22266049 CACGCTGAGGTAATTTCAATTTCTGC
66 CACGCTGAGGTAATTTCAATTTCTGC
**
22266075 TTTTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
1 TTTTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
* *
22266140 CATGCTGAGGTATTTTCAATTT
66 CACGCTGAGGTAATTTCAATTT
22266162 TTGTCTTTCA
Statistics
Matches: 161, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
88 17 0.11
90 6 0.04
91 138 0.86
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (91 bp):
TTTTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
CACGCTGAGGTAATTTCAATTTCTGC
Found at i:22266183 original size:165 final size:168
Alignment explanation
Indices: 22266003--22266473 Score: 571
Period size: 165 Copynumber: 2.8 Consensus size: 168
22265993 TATATTTTTC
22266003 AAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 AAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
**
22266068 TTTCTGCTTTTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGC
65 TTTCTGCTTTTCAATTTATATTTTTC-AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
*
22266133 CTCAAGACATGCTGAGGT-ATTTTCAA-TT-T-TTGTC-TT
129 CTCAAGACATGCTGAGGTAATTTT-AATTTCTGTTGTCAAT
** * * * *
22266169 TCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGG-CACGTTGAGTTAATTTCAA
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATTTCAA
*
22266233 TTTCTGCTTTTAAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 TTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
22266298 TCAGGACATGCTGAGGTAATTTTAATTTCTGTTGTCAAAAAAAAT
130 TCAAGACATGCTGAGGTAATTTTAATTTCTGTTGTC------AAT
* * ** * *
22266343 AAAAAAAATCAACTCGTATTGCGAAAGACGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCA
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCA
* *** *
22266408 ATTTCTG-TTTTCCAATTTTTGCCTTTCAAAAAAA-TCGACTCATATTGCGAGAGGTGAGTTGAG
64 ATTTCTGCTTTT-CAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAG
22266471 CCT
128 CCT
22266474 TGGCTCACGC
Statistics
Matches: 260, Mismatches: 29, Indels: 23
0.83 0.09 0.07
Matches are distributed among these distances:
164 55 0.21
165 80 0.31
166 10 0.04
167 5 0.02
173 3 0.01
174 34 0.13
175 35 0.13
176 38 0.15
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (168 bp):
AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
TTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAAGACATGCTGAGGTAATTTTAATTTCTGTTGTCAAT
Found at i:22266203 original size:74 final size:75
Alignment explanation
Indices: 22266096--22266235 Score: 192
Period size: 74 Copynumber: 1.9 Consensus size: 75
22266086 TATTTTTCAA
* * * *
22266096 AAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
1 AAAAAATTCAACTCATACTGCGAGAAATAAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
22266161 TTTGTCTTTC
66 TTTGTCTTTC
** * * *
22266171 AAAAAA-TCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAATTTCAATT
1 AAAAAATTCAACTCATACTGCGAGAAATAAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
22266235 T
66 T
22266236 CTGCTTTTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
74 50 0.89
75 6 0.11
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (75 bp):
AAAAAATTCAACTCATACTGCGAGAAATAAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
TTTGTCTTTC
Found at i:22266376 original size:84 final size:85
Alignment explanation
Indices: 22266259--22266416 Score: 221
Period size: 84 Copynumber: 1.9 Consensus size: 85
22266249 TATATTTTTC
* * ** * *
22266259 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACATGCTGAGGTAATTTT-A
1 AAAAAAAATCAACTCATATTGCGAAAGACGAGTTGAGCCTCAGGCACACGCCGAGGT-ATTTTCA
22266322 ATTTCTGTTGTCAAAAAAAAT
65 ATTTCTGTTGTCAAAAAAAAT
*
22266343 AAAAAAAATCAACTCGTATTGCGAAAGACGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCA
1 AAAAAAAATCAACTCATATTGCGAAAGACGAGTTGAGCCTCAGG-CACACGCCGAGGTATTTTCA
22266408 ATTTCTGTT
65 ATTTCTGTT
22266417 TTCCAATTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
84 39 0.61
85 5 0.08
86 20 0.31
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.28
Consensus pattern (85 bp):
AAAAAAAATCAACTCATATTGCGAAAGACGAGTTGAGCCTCAGGCACACGCCGAGGTATTTTCAA
TTTCTGTTGTCAAAAAAAAT
Found at i:22266467 original size:91 final size:88
Alignment explanation
Indices: 22266152--22266509 Score: 318
Period size: 91 Copynumber: 4.0 Consensus size: 88
22266142 TGCTGAGGTA
* * *
22266152 TTTTCAATTTTTGTCTTTC-AAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGG-C
1 TTTTCAATTTTTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGAC
* * *
22266215 ACGTTGAGTTAATTTCAATTTCTG
65 ACGCTGAGGTATTTTCAATTTCTG
* * *
22266239 CTTTTAAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 -TTTTCAATTTTTATCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
22266304 CATGCTGAGGTAATTTT-AATTTCTG
64 CACGCTGAGGT-ATTTTCAATTTCTG
* * **** * * * **
22266329 TTGTCAA----AAAAAATAAAAAAAATCAACTCGTATTGCGAAAGACGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTTTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
*
22266390 CACGCCGAGGTATTTTCAATTTCTG
64 CACGCTGAGGTATTTTCAATTTCTG
** * *
22266415 TTTTCCAATTTTTGCCTTTCAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCT
1 TTTT-CAATTTTTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
* *
22266479 CACGCGCTGAGCTATTTTCAATTTCTG
63 -ACACGCTGAGGTATTTTCAATTTCTG
22266506 TTTT
1 TTTT
22266510 TATTGTCTAT
Statistics
Matches: 216, Mismatches: 41, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
84 32 0.15
85 14 0.06
86 21 0.10
87 3 0.01
88 15 0.07
89 14 0.06
90 49 0.23
91 68 0.31
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (88 bp):
TTTTCAATTTTTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTATTTTCAATTTCTG
Found at i:22267155 original size:40 final size:40
Alignment explanation
Indices: 22267109--22267193 Score: 170
Period size: 40 Copynumber: 2.1 Consensus size: 40
22267099 ACATCTACCC
22267109 AAACCCATTACAAAACCCAAATATTAAACCCAATTCAAAA
1 AAACCCATTACAAAACCCAAATATTAAACCCAATTCAAAA
22267149 AAACCCATTACAAAACCCAAATATTAAACCCAATTCAAAA
1 AAACCCATTACAAAACCCAAATATTAAACCCAATTCAAAA
22267189 AAACC
1 AAACC
22267194 TACCCCCCCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.55, C:0.28, G:0.00, T:0.16
Consensus pattern (40 bp):
AAACCCATTACAAAACCCAAATATTAAACCCAATTCAAAA
Found at i:22277930 original size:12 final size:13
Alignment explanation
Indices: 22277914--22277947 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
22277904 GGCATCTTAA
22277914 AAAAAGAGAAAAG
1 AAAAAGAGAAAAG
*
22277927 -AAAAGAAAAAAG
1 AAAAAGAGAAAAG
22277939 AAAAAGAGA
1 AAAAAGAGA
22277948 GAGGGATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAAGAGAAAAG
Found at i:22278959 original size:76 final size:75
Alignment explanation
Indices: 22278806--22278959 Score: 236
Period size: 76 Copynumber: 2.0 Consensus size: 75
22278796 TTTATTTCTG
* * * *
22278806 TTTCAAAAAAATCAACTCATATTTCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGACACATTGAGGTAATTTC
*
22278871 AATTTCTGCT
66 AATTTCTACT
* *
22278881 TTTCAAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGGTAATTT
1 TTTC-AAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGACACATTGAGGTAATTT
22278946 CAATTTCTACT
65 CAATTTCTACT
22278957 TTT
1 TTT
22278960 AAATTTATAT
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 4 0.06
76 67 0.94
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (75 bp):
TTTCAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGACACATTGAGGTAATTTC
AATTTCTACT
Found at i:22279292 original size:73 final size:73
Alignment explanation
Indices: 22278978--22279521 Score: 489
Period size: 73 Copynumber: 7.0 Consensus size: 73
22278968 ATTTTTCAAA
*
22278978 AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* *
22279043 TTG-TTGTC
65 CTGTTTTTC
** * *
22279051 AAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCA
1 -----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
* **
22279116 ATTTTTGTCTTTAAAA
61 ATTTCTGT-TTT--TC
* ** * *
22279132 AAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAGTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA-G--G--T--A---T
*
22279197 TGTTCAATTTATGTTTTTC
56 T-TTCAATTTCTGTTTTTC
*
22279216 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTCC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
22279281 TGTTTTTC
66 TGTTTTTC
* * * * *
22279289 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA----
*
22279354 TGTGTTTCAATCTATTTTTC
62 -----TT---TCTGTTTTTC
* ** * *
22279374 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
22279439 TGTTTGTC
66 TGTTTTTC
* *
22279447 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTTCAATTT
*
22279511 CTGCTTTTC
65 CTGTTTTTC
22279520 AA
1 AA
22279522 TTTATATTTT
Statistics
Matches: 391, Mismatches: 47, Indels: 61
0.78 0.09 0.12
Matches are distributed among these distances:
73 142 0.36
74 5 0.01
76 49 0.13
77 59 0.15
78 5 0.01
79 4 0.01
81 2 0.01
82 2 0.01
83 2 0.01
84 45 0.12
85 60 0.15
86 5 0.01
87 11 0.03
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTC
Found at i:22279672 original size:164 final size:161
Alignment explanation
Indices: 22279055--22280079 Score: 1003
Period size: 164 Copynumber: 6.4 Consensus size: 161
22279045 GTTGTCAAAA
** * * *
22279055 AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
* * * *
22279120 TTGTCTT-TAAAAAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
66 CTGT-TTGT-CAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
* * *
22279184 TAGTTTCAATTTT-TGTTCAATTTATGTTTTTC
129 TATTTTCAATTTTGTTTTCAATTTATATTTTTC
* *
22279216 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
* * ** ** * *
22279280 CTGTTTTTC--AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGTA
66 CTGTTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA
* *
22279343 TTGTCAATTTTTGTGTTTCAA--TCTATTTTTC
131 TTTTCAA-TTTTGT-TTTCAATTTATATTTTTC
* **
22279374 -AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
* ** * *
22279438 TTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTA
66 CTGTTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA
*
22279501 ATTTCAATTTCTGCTTTTCAATTTATATTTTTC
131 TTTTCAATTT-TG-TTTTCAATTTATATTTTTC
***
22279534 AAAAAAATTCAACTCATATTATTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
*
22279599 TTCTG-TTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGG
64 TTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
*
22279663 TATTTTCAA-TTT-TTGTC----------TTTC
129 TATTTTCAATTTTGTTTTCAATTTATATTTTTC
* * * *
22279684 AAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGG-CACGTTGAGTTAATTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATTTCAATT
* * **
22279748 TCTGCTTTTAAATTTATATTTTTCAAAAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
65 TCTG--------------TTTGTCAAAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTC
* *
22279813 AAGGCACGCTGAGGTAATTTCAATTTCTGCTTTTCAATTTATATTTTTC
115 AAGACACGCTGAGGTATTTTCAATTT-TG-TTTTCAATTTATATTTTTC
* *
22279862 AAAAAAATTCAACTCATATTGCGAGAGGCGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAAT
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
*
22279927 TT-T-TATTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAG
64 TTCTGT-TTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
*
22279990 GTATTTTCAA-TTT-TTGTC----------TTTC
128 GTATTTTCAATTTTGTTTTCAATTTATATTTTTC
* * * *
22280012 AAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGG-CACGTTGAGTTAATTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATTTCAATT
22280076 TCTG
65 TCTG
22280080 CTTTTAAATT
Statistics
Matches: 730, Mismatches: 83, Indels: 113
0.79 0.09 0.12
Matches are distributed among these distances:
148 100 0.14
149 19 0.03
150 8 0.01
157 53 0.07
158 140 0.19
159 4 0.01
160 85 0.12
162 12 0.02
163 72 0.10
164 156 0.21
165 13 0.02
166 1 0.00
168 4 0.01
178 4 0.01
179 10 0.01
180 49 0.07
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (161 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
CTGTTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA
TTTTCAATTTTGTTTTCAATTTATATTTTTC
Found at i:22279754 original size:238 final size:237
Alignment explanation
Indices: 22279374--22280002 Score: 796
Period size: 238 Copynumber: 2.6 Consensus size: 237
22279364 TCTATTTTTC
*
22279374 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
* *
22279439 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATT
66 TGTTTGTCAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGGTAATT
* **
22279504 TCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTATTAGAGGTGAGTTG
131 TCAATTTCTGCTTTTAAATTTATATTTTTCAAAAAAATTCAACTCATATTACGAGAGGTGAGTTG
22279569 AGCCTC-AGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAA
196 AGCCTCAAGG-CACGCTGAGGTAATTTCAATTTCTGTTGTCAA
* * *
22279611 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
*
22279676 TGTCTT-TCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAA
66 TGT-TTGTC-AAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGGTAA
* *
22279740 TTTCAATTTCTGCTTTTAAATTTATATTTTTCAAAAAAATTCAACTTATATTGCGAGAGGTGAGT
129 TTTCAATTTCTGCTTTTAAATTTATATTTTTCAAAAAAATTCAACTCATATTACGAGAGGTGAGT
*
22279805 TGAGCCTCAAGGCACGCTGAGGTAATTTCAATTTCTGCTTTTCAATTTATATTTTTCAA
194 TGAGCCTCAAGGCACGCTGAGGTAATTTCAATTTCTG---------------TTGTCAA
* *** * *
22279864 AAAAATTCAACTCATATTGCGAGAGGCGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTT
1 AAAAA-TCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
* * ** * * * *
22279929 TT-ATTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTA
65 TTGTTTGTC--AAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGGTA
*
22279993 TTTTCAATTT
128 ATTTCAATTT
22280003 TTGTCTTTCA
Statistics
Matches: 341, Mismatches: 30, Indels: 25
0.86 0.08 0.06
Matches are distributed among these distances:
237 66 0.19
238 147 0.43
239 3 0.01
252 2 0.01
253 13 0.04
254 110 0.32
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (237 bp):
AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
TGTTTGTCAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGGTAATT
TCAATTTCTGCTTTTAAATTTATATTTTTCAAAAAAATTCAACTCATATTACGAGAGGTGAGTTG
AGCCTCAAGGCACGCTGAGGTAATTTCAATTTCTGTTGTCAA
Found at i:22279795 original size:90 final size:90
Alignment explanation
Indices: 22279680--22279928 Score: 396
Period size: 90 Copynumber: 2.8 Consensus size: 90
22279670 AATTTTTGTC
* * * *
22279680 TTTC-AAAAAA-TCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAATTT
1 TTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTT
22279743 CAATTTCTGCTTTTAAATTTATATT
66 CAATTTCTGCTTTTAAATTTATATT
*
22279768 TTTCAAAAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTT
1 TTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTT
*
22279833 CAATTTCTGCTTTTCAATTTATATT
66 CAATTTCTGCTTTTAAATTTATATT
* *
22279858 TTTCAAAAAAATTCAACTCATATTGCGAGAGGCGAGTTGAGCCT-TAGGACACGCTGAGGTAATT
1 TTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGCTGAGGTAATT
22279922 TCAATTT
65 TCAATTT
22279929 TTATTGTCAA
Statistics
Matches: 149, Mismatches: 9, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
88 4 0.03
89 9 0.06
90 136 0.91
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (90 bp):
TTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTT
CAATTTCTGCTTTTAAATTTATATT
Found at i:22279841 original size:328 final size:328
Alignment explanation
Indices: 22279447--22280248 Score: 1335
Period size: 328 Copynumber: 2.5 Consensus size: 328
22279437 TTTGTTTGTC
* *
22279447 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATTT
1 AAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTTCAATTT
** *
22279511 CTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTATTAGAGGTGAGTTGAGCCTCA
66 CTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTACGAGAGGCGAGTTGAGCCTCA
*
22279576 GGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGT
131 GGACACGCTGAGGTAATTTCAATTTCTATTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGT
22279641 TGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAATCAACTCATACTGCGA
196 TGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAATCAACTCATACTGCGA
22279706 GAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAATTTCAATTTCTGCTTTTAAATTTATATTTTT
261 GAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAATTTCAATTTCTGCTTTTAAATTTATATTTTT
22279771 CAA
326 CAA
22279774 AAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTTCAATTT
1 AAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTTCAATTT
* *
22279839 CTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGCGAGTTGAGCCTTA
66 CTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTACGAGAGGCGAGTTGAGCCTCA
*
22279904 GGACACGCTGAGGTAATTTCAATTTTTATTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGT
131 GGACACGCTGAGGTAATTTCAATTTCTATTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGT
22279969 TGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAATCAACTCATACTGCGA
196 TGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAATCAACTCATACTGCGA
22280034 GAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAATTTCAATTTCTGCTTTTAAATTTATATTTTT
261 GAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAATTTCAATTTCTGCTTTTAAATTTATATTTTT
22280099 CAA
326 CAA
*
22280102 AAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-AGGACATGCTGAGGTAATTTCAATT
1 AAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGCTGAGGTAATTTCAATT
* * * *
22280166 TCTG-TTGTCAA---A-A------AAAAAAA-TCAACTCGTATTGCGAGAGACGAGTTGAGCCTC
65 TCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTACGAGAGGCGAGTTGAGCCTC
* *
22280219 AGGTCACACGCCGAGGTATTTTCAATTTCT
130 AGG--ACACGCTGAGGTAATTTCAATTTCT
22280249 GTTTTTCAAT
Statistics
Matches: 454, Mismatches: 17, Indels: 17
0.93 0.03 0.03
Matches are distributed among these distances:
316 33 0.07
317 7 0.02
318 22 0.05
323 1 0.00
324 1 0.00
327 14 0.03
328 376 0.83
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (328 bp):
AAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTTCAATTT
CTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTACGAGAGGCGAGTTGAGCCTCA
GGACACGCTGAGGTAATTTCAATTTCTATTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGT
TGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAATCAACTCATACTGCGA
GAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAATTTCAATTTCTGCTTTTAAATTTATATTTTT
CAA
Found at i:22280046 original size:238 final size:241
Alignment explanation
Indices: 22279768--22280257 Score: 734
Period size: 238 Copynumber: 2.0 Consensus size: 241
22279758 AATTTATATT
* * *
22279768 TTTCAAAAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTT
1 TTTC-AAAAAATTCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGCTGAGGTAATTT
*
22279833 CAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGCGAGTTGA
65 CAATTTCTGCTTTTAAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGCGAGTTGA
* *
22279898 GCCTTAGGACACGCTGAGGTAATTTCAATTTTTATTGTC-AAAAAAATCAACTCATATTGCGAGA
130 GCCTCAGGACACGCTGAGGTAATTTCAATTTCTATTGTCAAAAAAAATCAACTCATATTGCGAGA
* * * *
22279962 AATGAGTTGAGCCTCAAG-ACATGCTGAGGTATTTTCAATTTTTGTC
195 AACGAGTTGAGCCTCAAGCACACGCCGAGGTATTTTCAATTTCTGTC
* *
22280008 TTTCAAAAAA-TCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAATTTC
1 TTTCAAAAAATTCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGCTGAGGTAATTTC
* *
22280072 AATTTCTGCTTTTAAATTTATATTTTTCAAAAAAATTCAACTTATATTGCGAGAGGTGAGTTGAG
66 AATTTCTGCTTTTAAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGCGAGTTGAG
* * *
22280137 CCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAAAATCAACTCGTATTGCGA
131 CCTCAGGACACGCTGAGGTAATTTCAATTTCTATTGTC---AAAAAAAATCAACTCATATTGCGA
* * *
22280202 GAGACGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTT
193 GAAACGAGTTGAGCCTCAAG-CACACGCCGAGGTATTTTCAATTTCTGTC
22280252 TTTCAA
1 TTTCAA
22280258 TTTTTGCCTT
Statistics
Matches: 224, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
238 145 0.65
239 6 0.03
240 4 0.02
242 39 0.17
244 30 0.13
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (241 bp):
TTTCAAAAAATTCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGCTGAGGTAATTTC
AATTTCTGCTTTTAAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGCGAGTTGAG
CCTCAGGACACGCTGAGGTAATTTCAATTTCTATTGTCAAAAAAAATCAACTCATATTGCGAGAA
ACGAGTTGAGCCTCAAGCACACGCCGAGGTATTTTCAATTTCTGTC
Found at i:22280121 original size:164 final size:163
Alignment explanation
Indices: 22279607--22280306 Score: 680
Period size: 164 Copynumber: 4.2 Consensus size: 163
22279597 ATTTCTGTTG
*
22279607 TCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAA
22279672 TTTTTGTCTTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGT
66 TTTTTGTCTTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGT
22279737 TAATTTCAATTTCTGCTTTTAAATTTATATTTT
131 TAATTTCAATTTCTGCTTTTAAATTTATATTTT
* ** * *
22279770 TCAAAAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTTCA
1 TCAAAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCA
* * **
22279835 ATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGCGAGTTGAGC
65 A-TT-T--TTGTC----------TTTC-AAAAAA-TCAACTCATACTGCGAGAGGTAAGTTGAGC
* * * *
22279900 CT-TAGGACACGCTGAGGTAATTTCAA----------T---TTT-TA-TTG
114 CTCAAGG-CACGTTGAGTTAATTTCAATTTCTGCTTTTAAATTTATATTTT
*
22279935 TCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAA
22280000 TTTTTGTCTTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGT
66 TTTTTGTCTTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGT
22280065 TAATTTCAATTTCTGCTTTTAAATTTATATTTT
131 TAATTTCAATTTCTGCTTTTAAATTTATATTTT
* ** *
22280098 TCAAAAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCA
1 TCAAAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCA
* * * * ***
22280163 ATTTCTGT-TGTCAAAAAAAAAAATCAACTCGTATTGCGAGAGACGAGTTGAGCCTC-AGGTCAC
65 ATTTTTGTCTTTC-----AAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGG---C
** * * * * * ***
22280226 ACGCCGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCCTT
122 ACGTTGAGTTAATTTCAATTTCTGCTTTTAAATTTATATTTT
* **
22280268 TCAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGC
1 TCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
22280307 TTTGGCTCAA
Statistics
Matches: 442, Mismatches: 52, Indels: 80
0.77 0.09 0.14
Matches are distributed among these distances:
148 46 0.10
149 9 0.02
150 4 0.01
158 1 0.00
160 4 0.01
161 3 0.01
162 3 0.01
163 25 0.06
164 157 0.36
165 13 0.03
166 3 0.01
167 6 0.01
168 38 0.09
169 28 0.06
170 43 0.10
178 4 0.01
179 9 0.02
180 46 0.10
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (163 bp):
TCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAA
TTTTTGTCTTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGT
TAATTTCAATTTCTGCTTTTAAATTTATATTTT
Found at i:22280123 original size:90 final size:88
Alignment explanation
Indices: 22280008--22280306 Score: 244
Period size: 90 Copynumber: 3.5 Consensus size: 88
22279998 AATTTTTGTC
* *
22280008 TTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGG-CACGTTGAGTTAATTTC
1 TTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTC-AGGACACGCTGAGGTAATTTC
22280072 AATTTCTGCTTTTAAATTTATATT
65 AATTTCTGCTTTTAAATTTATATT
* * * *
22280096 TTTCAAAAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTT
1 TTTC-AAAAAA-TCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTT
*
22280161 CAATTTCTG-TTGTCAAA---A-A--
64 CAATTTCTGCTT-TTAAATTTATATT
* * *** * *
22280180 ----AAAAAATCAACTCGTATTGCGAGAGACGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTT
1 TTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAGG--ACACGCTGAGGTAATTT
* * * ***
22280241 CAATTTCTGTTTTTCAATTTTTGCC
64 CAATTTCTGCTTTTAAATTTATATT
* * *
22280266 TTTCAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTC-AAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGC
22280307 TTTGGCTCAA
Statistics
Matches: 171, Mismatches: 22, Indels: 33
0.76 0.10 0.15
Matches are distributed among these distances:
78 32 0.19
79 6 0.04
80 26 0.15
81 2 0.01
86 1 0.01
87 1 0.01
88 4 0.02
89 11 0.06
90 56 0.33
91 32 0.19
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (88 bp):
TTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
ATTTCTGCTTTTAAATTTATATT
Found at i:22280190 original size:78 final size:79
Alignment explanation
Indices: 22280100--22280251 Score: 216
Period size: 78 Copynumber: 1.9 Consensus size: 79
22280090 TATATTTTTC
* * ** * *
22280100 AAAAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACATGCTGAGGTAATTTCAA
1 AAAAAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAA
22280164 TTTCTGTTGTCAAA
66 TTTCTGTTGTCAAA
* *
22280178 AAAAAAAATCAACTCGTATTGCGAGAGACGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCA
1 AAAAAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCA
22280243 ATTTCTGTT
65 ATTTCTGTT
22280252 TTTCAATTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
78 39 0.61
80 25 0.39
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (79 bp):
AAAAAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAA
TTTCTGTTGTCAAA
Found at i:22281198 original size:54 final size:55
Alignment explanation
Indices: 22281127--22281238 Score: 208
Period size: 54 Copynumber: 2.1 Consensus size: 55
22281117 ATAGAAAAAG
22281127 AAATAATAGAAAATCATGTAAAAGATGGCTATAAAAAGCCATTCAAAAATAATGT
1 AAATAATAGAAAATCATGTAAAAGATGGCTATAAAAAGCCATTCAAAAATAATGT
*
22281182 AAAT-ATAGAAAATCATGTAAAAGATGGCTATAAAAAGCCATTCAAAAATCATGT
1 AAATAATAGAAAATCATGTAAAAGATGGCTATAAAAAGCCATTCAAAAATAATGT
22281236 AAA
1 AAA
22281239 GGGGGGGATT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 52 0.93
55 4 0.07
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.23
Consensus pattern (55 bp):
AAATAATAGAAAATCATGTAAAAGATGGCTATAAAAAGCCATTCAAAAATAATGT
Found at i:22281228 original size:25 final size:25
Alignment explanation
Indices: 22281146--22281228 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
22281136 AAAATCATGT
22281146 AAAAGATGGCTATAAAAAGCCATTC
1 AAAAGATGGCTATAAAAAGCCATTC
* ** *
22281171 AAAAATAATGTAAATATAGAAAA-TCATGT-
1 -AAAA-GATG--GCTATA-AAAAGCCAT-TC
22281200 AAAAGATGGCTATAAAAAGCCATTC
1 AAAAGATGGCTATAAAAAGCCATTC
22281225 AAAA
1 AAAA
22281229 ATCATGTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 15
0.65 0.12 0.23
Matches are distributed among these distances:
24 5 0.12
25 11 0.26
26 4 0.10
27 6 0.14
28 4 0.10
29 7 0.17
30 5 0.12
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.22
Consensus pattern (25 bp):
AAAAGATGGCTATAAAAAGCCATTC
Found at i:22282111 original size:15 final size:17
Alignment explanation
Indices: 22282083--22282114 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
22282073 TTGTATATAT
22282083 TATATTTATATTATGTA
1 TATATTTATATTATGTA
22282100 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
22282115 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:22282763 original size:17 final size:17
Alignment explanation
Indices: 22282718--22282763 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
22282708 AAAAATTCAG
* *
22282718 GTTTCAAAAATGTTCGT
1 GTTTTAAAAATTTTCGT
*
22282735 GTTTTTAAAATTTTCGT
1 GTTTTAAAAATTTTCGT
22282752 GTTTTAAAAATT
1 GTTTTAAAAATT
22282764 CTCATTTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (17 bp):
GTTTTAAAAATTTTCGT
Found at i:22284601 original size:24 final size:24
Alignment explanation
Indices: 22284574--22284627 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
22284564 TCAAATGCAT
22284574 CCTCAACCAC-CAATGTATCACCCA
1 CCTCAACCACTC-ATGTATCACCCA
* * * *
22284598 CCTCCACCTCTCATGTATCATCCT
1 CCTCAACCACTCATGTATCACCCA
22284622 CCTCAA
1 CCTCAA
22284628 ATATATCCTC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.26, C:0.46, G:0.04, T:0.24
Consensus pattern (24 bp):
CCTCAACCACTCATGTATCACCCA
Found at i:22286354 original size:13 final size:13
Alignment explanation
Indices: 22286336--22286362 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22286326 AAAAAAAAAA
22286336 ACATTTTCATTTC
1 ACATTTTCATTTC
22286349 ACATTTTCATTTC
1 ACATTTTCATTTC
22286362 A
1 A
22286363 TTTGTCTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (13 bp):
ACATTTTCATTTC
Found at i:22286744 original size:23 final size:26
Alignment explanation
Indices: 22286717--22286763 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
22286707 TTATTACAAA
22286717 TTATA-ATTTA-AAAA-AAATAAATT
1 TTATAGATTTAGAAAATAAATAAATT
*
22286740 TTATAGTTTTAGAAAATAAATAAA
1 TTATAGATTTAGAAAATAAATAAA
22286764 AAATTTCTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 4 0.20
25 4 0.20
26 7 0.35
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (26 bp):
TTATAGATTTAGAAAATAAATAAATT
Found at i:22287943 original size:6 final size:6
Alignment explanation
Indices: 22287932--22287964 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
22287922 CTATTTATAC
22287932 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
22287965 TCACATGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:22290603 original size:106 final size:106
Alignment explanation
Indices: 22290418--22290630 Score: 279
Period size: 106 Copynumber: 2.0 Consensus size: 106
22290408 AAAATGAGCA
* *
22290418 TTCTTATTTTCGAGAATTCAAGACATCGTGCCCTAACTTACAGGACATGATTTTCTTCCCGAATA
1 TTCTTATTTTAGAGAATTCAAGACATCGTGCCCAAACTTACAGGACATGATTTTCTTCCCGAATA
* * *
22290483 GCTCGAAATACGAAGATATTCTTCATAAAATTTGATTTAAT
66 ACTCAAAATACGAAGACATTCTTCATAAAATTTGATTTAAT
* * *
22290524 TTCTTATTTTTAG-GAATTCTAA-ACATTGTGTCCAAACTTAC-GAGACATGATTTTCTTCTCGA
1 TTCTTA-TTTTAGAGAATTC-AAGACATCGTGCCCAAACTTACAG-GACATGATTTTCTTCCCGA
* * *
22290586 TTAACTCAAAATACGAAGGCATTTTTCATAAAATTTGATTTAAT
63 ATAACTCAAAATACGAAGACATTCTTCATAAAATTTGATTTAAT
22290630 T
1 T
22290631 AGCAATATTT
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
105 1 0.01
106 85 0.91
107 7 0.08
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (106 bp):
TTCTTATTTTAGAGAATTCAAGACATCGTGCCCAAACTTACAGGACATGATTTTCTTCCCGAATA
ACTCAAAATACGAAGACATTCTTCATAAAATTTGATTTAAT
Found at i:22293669 original size:16 final size:16
Alignment explanation
Indices: 22293650--22293680 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22293640 ACATATATAC
*
22293650 AAAATTTAAATACATA
1 AAAATTTAAACACATA
22293666 AAAATTTAAACACAT
1 AAAATTTAAACACAT
22293681 TCATACCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATTTAAACACATA
Found at i:22294436 original size:15 final size:14
Alignment explanation
Indices: 22294395--22294442 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
22294385 TGTTTTGTAT
22294395 AAACTTAATTAATC
1 AAACTTAATTAATC
* *
22294409 AAAATTAATTTAATT
1 AAACTTAA-TTAATC
22294424 AAACTTTAATTAATC
1 AAAC-TTAATTAATC
22294439 AAAC
1 AAAC
22294443 CATAATCACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 7 0.25
15 17 0.61
16 4 0.14
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (14 bp):
AAACTTAATTAATC
Found at i:22296337 original size:15 final size:15
Alignment explanation
Indices: 22296317--22296358 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
22296307 CGATAACAAA
22296317 AATAATAATATAAAT
1 AATAATAATATAAAT
**
22296332 AATAATAGCATAAAT
1 AATAATAATATAAAT
*
22296347 GATAATAATATA
1 AATAATAATATA
22296359 TATGGTATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (15 bp):
AATAATAATATAAAT
Found at i:22296787 original size:22 final size:21
Alignment explanation
Indices: 22296738--22296792 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
22296728 AGATGAAAAA
*
22296738 AAATGTATATAATATGGTATT
1 AAATGTATATAATATAGTATT
*
22296759 AATATGTGTATAATATAGTATTT
1 AA-ATGTATATAATATAGTA-TT
22296782 AAATGTATATA
1 AAATGTATATA
22296793 CATAATGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 23 0.79
23 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
AAATGTATATAATATAGTATT
Found at i:22297966 original size:87 final size:87
Alignment explanation
Indices: 22297749--22297993 Score: 264
Period size: 87 Copynumber: 2.8 Consensus size: 87
22297739 TTTGATCTGC
* * *
22297749 TTCCCTACTGCTTAGGGTGATAAGATCTTATGAACGTCAGCTTGTTACCCTACTGCTTAGGGAGT
1 TTCCCTACTGCTTAGGG-GATAAGATC-TATAAACTTCAGCTTGTTACCCTACTGCTTAGGGGGT
* * ** * * *
22297814 TAAAGCTCGTTGCCTTTGGTCTGT
64 TAAAGCCCATCACCTTCGATCTAT
* * *
22297838 TTCCCTACTGCTTA-GGGATTCAAGGTCTGTAAA-TAT-GGCTTGTTACCCTACTGCTTAGGGGG
1 TTCCCTACTGCTTAGGGGA-T-AAGATCTATAAACT-TCAGCTTGTTACCCTACTGCTTAGGGGG
* *
22297900 TT-TAGCCCATCATCTTCGATCTAT
63 TTAAAGCCCATCACCTTCGATCTAT
*
22297924 TTCCCTACTGCTTAGGGCGATAATATCTATAAACTTCAGCTTGTTACCCTACTGCTTAGGGGGTT
1 TTCCCTACTGCTTAGGG-GATAAGATCTATAAACTTCAGCTTGTTACCCTACTGCTTAGGGGGTT
22297989 AAAGC
65 AAAGC
22297994 TTGGTGGTTT
Statistics
Matches: 128, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
86 37 0.29
87 59 0.46
88 13 0.10
89 19 0.15
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (87 bp):
TTCCCTACTGCTTAGGGGATAAGATCTATAAACTTCAGCTTGTTACCCTACTGCTTAGGGGGTTA
AAGCCCATCACCTTCGATCTAT
Found at i:22298152 original size:44 final size:44
Alignment explanation
Indices: 22298102--22298210 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 44
22298092 CAGCCTATTA
* * *
22298102 CCCTACTGCTTAGGGGGTTAAGGCCCATCTTCTTTAATCCGTTT
1 CCCTACTGCTTAGGGGGTTAAGGACCATCATCTTCAATCCGTTT
* * * * *
22298146 CCCTACTGCTTAGGGTGATAA-GATCATCATCTTCGATCTGTTT
1 CCCTACTGCTTAGGGGGTTAAGGACCATCATCTTCAATCCGTTT
22298189 CCCTACTGCTTAGGGGGTTAAG
1 CCCTACTGCTTAGGGGGTTAAG
22298211 ATCTGTAGAT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 35 0.65
44 19 0.35
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (44 bp):
CCCTACTGCTTAGGGGGTTAAGGACCATCATCTTCAATCCGTTT
Found at i:22298238 original size:45 final size:44
Alignment explanation
Indices: 22298090--22298255 Score: 140
Period size: 45 Copynumber: 3.8 Consensus size: 44
22298080 ATCTGTGATT
* ** * *
22298090 TTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGCCCATCTTC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTATCATC
* * * * *
22298134 TTTAATCC-GTTTCCCTACTGCTTAGGGTGATAAGATC-ATCATC
1 -TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTATCATC
* * * *
22298177 TTC-GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAGATC
1 TTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGATCTAT-CATC
* *
22298222 TTCAGCCTGTTACCCTACTACTTAGGGGATTAAG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
22298256 GCTTGGTGGT
Statistics
Matches: 96, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
42 3 0.03
43 32 0.33
44 24 0.25
45 36 0.38
46 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (44 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTATCATC
Found at i:22298374 original size:44 final size:44
Alignment explanation
Indices: 22298319--22298737 Score: 322
Period size: 44 Copynumber: 9.5 Consensus size: 44
22298309 TCTTTTGATC
* *
22298319 TGTTTCCCTACTGCTTAGGGTGATAAGATCTATGAACTTTAGCT
1 TGTTACCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCT
* * * * * *
22298363 TGTTACCCTACTGCTTAGGGGGTTAAAGCTCGT-CG--CCTTCGAT
1 TGTTACCCTACTGCTTAGGGGGAT-AAGATC-TATGAACTTTAGCT
*
22298406 CTGTTTCCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCT
1 -TGTTACCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCT
* * * * * *
22298451 TGTTACCCTACTGCTTAGGGGGTTAAAGCTCGT-CG--CCTTCGAT
1 TGTTACCCTACTGCTTAGGGGGAT-AAGATC-TATGAACTTTAGCT
*
22298494 CTGTTTCCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCT
1 -TGTTACCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCT
* * * * * *
22298539 TGTTACCCTACTGCTTAGGGGGTTAAAGCTCGT-CG--CCTTCGAT
1 TGTTACCCTACTGCTTAGGGGGAT-AAGATC-TATGAACTTTAGCT
*
22298582 CTGTTTCCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCT
1 -TGTTACCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCT
* * * * * *
22298627 TGTTACCCTACTGCTTAGGGGGTTAAAGCTCGT-CG--CCTTCGAT
1 TGTTACCCTACTGCTTAGGGGGAT-AAGATC-TATGAACTTTAGCT
* * * * *
22298670 CTGTTTCCCTACTGCTTAGGGGGATAAGATCTGTAAATCTTCAGCC
1 -TGTTACCCTACTGCTTAGGGGGATAAGATCTATGAA-CTTTAGCT
*
22298716 TGTTACCCTACTGTTTAGGGGG
1 TGTTACCCTACTGCTTAGGGGG
22298738 TTAATGCTTG
Statistics
Matches: 288, Mismatches: 62, Indels: 49
0.72 0.16 0.12
Matches are distributed among these distances:
42 4 0.01
43 43 0.15
44 175 0.61
45 59 0.20
46 7 0.02
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.34
Consensus pattern (44 bp):
TGTTACCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCT
Found at i:22298416 original size:88 final size:88
Alignment explanation
Indices: 22298315--22298829 Score: 852
Period size: 88 Copynumber: 5.8 Consensus size: 88
22298305 GCCGTCTTTT
*
22298315 GATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTATGAACTTTAGCTTGTTACCCTACTGCTTA
1 GATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCTTGTTACCCTACTGCTTA
22298380 GGGGGTTAAAGCTCGTCGCCTTC
66 GGGGGTTAAAGCTCGTCGCCTTC
22298403 GATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCTTGTTACCCTACTGCTTA
1 GATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCTTGTTACCCTACTGCTTA
22298468 GGGGGTTAAAGCTCGTCGCCTTC
66 GGGGGTTAAAGCTCGTCGCCTTC
22298491 GATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCTTGTTACCCTACTGCTTA
1 GATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCTTGTTACCCTACTGCTTA
22298556 GGGGGTTAAAGCTCGTCGCCTTC
66 GGGGGTTAAAGCTCGTCGCCTTC
22298579 GATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCTTGTTACCCTACTGCTTA
1 GATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCTTGTTACCCTACTGCTTA
22298644 GGGGGTTAAAGCTCGTCGCCTTC
66 GGGGGTTAAAGCTCGTCGCCTTC
* * * * *
22298667 GATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGTTT
1 GATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTATGAA-CTTTAGCTTGTTACCCTACTGCTT
* * **
22298732 AGGGGGTTAATGCTTGTCATCTTC
65 AGGGGGTTAAAGCTCGTCGCCTTC
* ** * * * *
22298756 GATCTGTTTCCCTACTGCTTAGGGGGGTTAAGATCTGCGAA-TTCAACCTATTACCCTACTGCTT
1 GATCTGTTTCCCTACTGCTTA-GGGGGATAAGATCTATGAACTTTAGCTTGTTACCCTACTGCTT
22298820 AGGGGGTTAA
65 AGGGGGTTAA
22298830 GGTCTGGTGA
Statistics
Matches: 409, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
88 331 0.81
89 62 0.15
90 16 0.04
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (88 bp):
GATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGCTTGTTACCCTACTGCTTA
GGGGGTTAAAGCTCGTCGCCTTC
Done.