Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 77 of 120
Found at i:22486025 original size:103 final size:103
Alignment explanation
Indices: 22485846--22486052 Score: 405
Period size: 103 Copynumber: 2.0 Consensus size: 103
22485836 CAAATCTCAA
22485846 GTGGGGAAGTAATCAAGGAGGTGCAAATCAAGCCCAAACTCGACAAAATCCTCCTTACCAACCTC
1 GTGGGGAAGTAATCAAGGAGGTGCAAATCAAGCCCAAACTCGACAAAATCCTCCTTACCAACCTC
22485911 CCTCATCACAACAAAGAGCCGTGAGAAATGACCATGTT
66 CCTCATCACAACAAAGAGCCGTGAGAAATGACCATGTT
22485949 GTGGGGAAGTAATCAAGGAGGTGCAAATCAAGCCCAAACTCGACAAAATCCTCCTTACCAACCTC
1 GTGGGGAAGTAATCAAGGAGGTGCAAATCAAGCCCAAACTCGACAAAATCCTCCTTACCAACCTC
*
22486014 CCTCATCACAACAAAGAGCCGTGGGAAATGACCATGTT
66 CCTCATCACAACAAAGAGCCGTGAGAAATGACCATGTT
22486052 G
1 G
22486053 CATGTGGTAA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.17
Consensus pattern (103 bp):
GTGGGGAAGTAATCAAGGAGGTGCAAATCAAGCCCAAACTCGACAAAATCCTCCTTACCAACCTC
CCTCATCACAACAAAGAGCCGTGAGAAATGACCATGTT
Found at i:22496865 original size:30 final size:30
Alignment explanation
Indices: 22496830--22496886 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
22496820 AGAAGTATGT
*
22496830 TTTCAATTTTTCATTTGTGTAAAAACAATG
1 TTTCAATTTTTCATTTATGTAAAAACAATG
22496860 TTTCAATTTTTCATTTATGTAAAAACA
1 TTTCAATTTTTCATTTATGTAAAAACA
22496887 TTTTTCTCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (30 bp):
TTTCAATTTTTCATTTATGTAAAAACAATG
Found at i:22496892 original size:29 final size:30
Alignment explanation
Indices: 22496829--22496892 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
22496819 GAGAAGTATG
*
22496829 TTTTCAATTTTTCATTTGTGTAAAAACAAT
1 TTTTCAATTTTTCATTTATGTAAAAACAAT
*
22496859 GTTTCAATTTTTCATTTATGTAAAAAC-AT
1 TTTTCAATTTTTCATTTATGTAAAAACAAT
22496888 TTTTC
1 TTTTC
22496893 TCAGAATGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.52
Consensus pattern (30 bp):
TTTTCAATTTTTCATTTATGTAAAAACAAT
Found at i:22498688 original size:20 final size:20
Alignment explanation
Indices: 22498652--22498777 Score: 77
Period size: 19 Copynumber: 6.4 Consensus size: 20
22498642 TGTGTTACAA
22498652 AAAAATTGTAAA-AATAATATTT
1 AAAAATTGTAAATAAT--TA-TT
22498674 AAAAATTGTAAATAATTATT
1 AAAAATTGTAAATAATTATT
* * *
22498694 AAGTATTTTTAAA-AA-TATTT
1 AA-AAATTGTAAATAATTA-TT
* *
22498714 TAAAATTGTAAAAAATTATT
1 AAAAATTGTAAATAATTATT
* *
22498734 AAAAATTAT-AA-AA-CATT
1 AAAAATTGTAAATAATTATT
* *
22498751 AAAATTTGTAAA-AATTAAT
1 AAAAATTGTAAATAATTATT
22498770 AAAAATTG
1 AAAAATTG
22498778 ACAAATTTAT
Statistics
Matches: 82, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
17 10 0.12
18 6 0.07
19 20 0.24
20 20 0.24
21 11 0.13
22 12 0.15
23 3 0.04
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAAATTGTAAATAATTATT
Found at i:22498767 original size:16 final size:17
Alignment explanation
Indices: 22498731--22498768 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
22498721 GTAAAAAATT
22498731 ATTAAAAATTATAAAAC
1 ATTAAAAATTATAAAAC
* *
22498748 ATTAAAATTTGTAAAA-
1 ATTAAAAATTATAAAAC
22498764 ATTAA
1 ATTAA
22498769 TAAAAATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (17 bp):
ATTAAAAATTATAAAAC
Found at i:22500356 original size:17 final size:17
Alignment explanation
Indices: 22500321--22500353 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22500311 AAAAAAAAGA
22500321 AATTGTAAATAATAATT
1 AATTGTAAATAATAATT
*
22500338 AATTTTAAA-AATAATT
1 AATTGTAAATAATAATT
22500354 TAAAAATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AATTGTAAATAATAATT
Found at i:22500615 original size:11 final size:11
Alignment explanation
Indices: 22500596--22500636 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
22500586 AATTATGTAC
22500596 AATTTTTTAAT
1 AATTTTTTAAT
*
22500607 AATTATTT-A-
1 AATTTTTTAAT
*
22500616 AAGTTTTTAAT
1 AATTTTTTAAT
22500627 AATTTTTTAA
1 AATTTTTTAA
22500637 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
9 6 0.25
10 2 0.08
11 16 0.67
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (11 bp):
AATTTTTTAAT
Found at i:22500624 original size:20 final size:20
Alignment explanation
Indices: 22500585--22500637 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
22500575 TTTGAATTGT
* *
22500585 TAATTATGTACAATTTTTTAA
1 TAATTATTTA-AAGTTTTTAA
22500606 TAATTATTTAAAGTTTTTAA
1 TAATTATTTAAAGTTTTTAA
*
22500626 TAATTTTTTAAA
1 TAATTATTTAAA
22500638 AAAATTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (20 bp):
TAATTATTTAAAGTTTTTAA
Found at i:22500703 original size:19 final size:19
Alignment explanation
Indices: 22500681--22500736 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
22500671 TTTTTACAAT
22500681 TTTAAAATATTTTTAATAA
1 TTTAAAATATTTTTAATAA
* *
22500700 TTT-AAATGTTTTTTTATAA
1 TTTAAAAT-ATTTTTAATAA
*
22500719 TTTATATATATTTTTAAT
1 TTTA-AAATATTTTTAAT
22500737 TTTTTTACTA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 4 0.14
19 15 0.52
20 7 0.24
21 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTAAAATATTTTTAATAA
Found at i:22500704 original size:39 final size:39
Alignment explanation
Indices: 22500659--22500736 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
22500649 ATGTTCTATC
*
22500659 ATTTTAATAATTTTTTTACAATTT-TAAAATATTTTTAATA
1 ATTTAAAT-ATTTTTTTACAATTTAT-AAATATTTTTAATA
* * *
22500699 ATTTAAATGTTTTTTTATAATTTATATATATTTTTAAT
1 ATTTAAATATTTTTTTACAATTTATAAATATTTTTAAT
22500737 TTTTTTACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 25 0.76
40 8 0.24
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (39 bp):
ATTTAAATATTTTTTTACAATTTATAAATATTTTTAATA
Found at i:22500748 original size:18 final size:19
Alignment explanation
Indices: 22500727--22500769 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
22500717 AATTTATATA
22500727 TATTTTTAA-TTTTTTTAC
1 TATTTTTAATTTTTTTTAC
*
22500745 TA-TTGTAATTTTTTTTAC
1 TATTTTTAATTTTTTTTAC
*
22500763 AATTTTT
1 TATTTTT
22500770 TGATCTAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 5 0.25
18 12 0.60
19 3 0.15
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (19 bp):
TATTTTTAATTTTTTTTAC
Found at i:22503553 original size:2 final size:2
Alignment explanation
Indices: 22503546--22503576 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22503536 TTTAATATTT
22503546 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22503577 TTAGAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22504933 original size:109 final size:109
Alignment explanation
Indices: 22504742--22504959 Score: 400
Period size: 109 Copynumber: 2.0 Consensus size: 109
22504732 TAGCATTGTT
*
22504742 TTTATAAATACTGGAAAATCTTTTGTTAGATGAAAAGAAAGATTTTGAACTGTGAGTTCTTTAGC
1 TTTATAAATACTGGAAAATCTTTTGTTAGATGAAAAGAAAGATTTTGAACTGCGAGTTCTTTAGC
*
22504807 AAAACCCCATTCAATACTTGTTATATCAAATGGTTCATGATCAA
66 AAAACCCCATTCAATACTTGTTATATCAAATAGTTCATGATCAA
*
22504851 TTTATAAATGCTGGAAAATCTTTTGTTAGATGAAAAGAAAGATTTTGAACTGCGAGTTCTTTAGC
1 TTTATAAATACTGGAAAATCTTTTGTTAGATGAAAAGAAAGATTTTGAACTGCGAGTTCTTTAGC
*
22504916 AAAACCTCATTCAATACTTGTTATATCAAATAGTTCATGATCAA
66 AAAACCCCATTCAATACTTGTTATATCAAATAGTTCATGATCAA
22504960 GTCTAAATTT
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
109 105 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (109 bp):
TTTATAAATACTGGAAAATCTTTTGTTAGATGAAAAGAAAGATTTTGAACTGCGAGTTCTTTAGC
AAAACCCCATTCAATACTTGTTATATCAAATAGTTCATGATCAA
Found at i:22515261 original size:20 final size:21
Alignment explanation
Indices: 22515218--22515261 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
22515208 TTCGCATACC
* **
22515218 TATAATTTTTAAAAATATTCT
1 TATAATTTTCAAAAATATGAT
22515239 TATAATTTTCAAAAATA-GAT
1 TATAATTTTCAAAAATATGAT
22515259 TAT
1 TAT
22515262 GATATTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (21 bp):
TATAATTTTCAAAAATATGAT
Found at i:22516534 original size:22 final size:22
Alignment explanation
Indices: 22516506--22516551 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
22516496 TTTTATTTAA
22516506 GTCCTCTACCAACCTTCTGGAC
1 GTCCTCTACCAACCTTCTGGAC
*
22516528 GTCCTCTACCAACCTTGTGGAC
1 GTCCTCTACCAACCTTCTGGAC
22516550 GT
1 GT
22516552 TTGTAGCCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.37, G:0.17, T:0.28
Consensus pattern (22 bp):
GTCCTCTACCAACCTTCTGGAC
Found at i:22519024 original size:29 final size:29
Alignment explanation
Indices: 22518960--22519026 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
22518950 TAAGTCAGAA
* * *
22518960 ATATATATATATATATATATAATTAGTAT
1 ATATATAAATATAGATATAAAATTAGTAT
* * *
22518989 ATGTATAAATATAGATATAAAATTTGTTT
1 ATATATAAATATAGATATAAAATTAGTAT
22519018 ATATATAAA
1 ATATATAAA
22519027 AATTCTATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (29 bp):
ATATATAAATATAGATATAAAATTAGTAT
Found at i:22519025 original size:17 final size:17
Alignment explanation
Indices: 22518998--22519041 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
22518988 TATGTATAAA
* * *
22518998 TATAGATATAAAATTTG
1 TATATATATAAAAATTC
*
22519015 TTTATATATAAAAATTC
1 TATATATATAAAAATTC
22519032 TATATATATA
1 TATATATATA
22519042 TATCAGTATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (17 bp):
TATATATATAAAAATTC
Found at i:22519110 original size:30 final size:30
Alignment explanation
Indices: 22519076--22519185 Score: 100
Period size: 30 Copynumber: 3.6 Consensus size: 30
22519066 ATATCTAAAT
*
22519076 AAAAAATA-GTATATATATGTATATATATAA
1 AAAAAATATGTATATAAATGTATA-ATATAA
*
22519106 AAAAAA-GTGTATATAACATTGTATAAGTATAA
1 AAAAAATATGTATATAA-A-TGTATAA-TATAA
* * *
22519138 AAAATATATGTTTA-AAATATATAATATAA
1 AAAAAATATGTATATAAATGTATAATATAA
*
22519167 AAAAAGATATGTATGTAAA
1 AAAAA-ATATGTATATAAA
22519186 AGTACCAATC
Statistics
Matches: 64, Mismatches: 9, Indels: 13
0.74 0.10 0.15
Matches are distributed among these distances:
29 9 0.14
30 26 0.41
31 6 0.09
32 18 0.28
33 5 0.08
ACGTcount: A:0.56, C:0.01, G:0.09, T:0.34
Consensus pattern (30 bp):
AAAAAATATGTATATAAATGTATAATATAA
Found at i:22528414 original size:35 final size:35
Alignment explanation
Indices: 22528375--22528443 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
22528365 CCAAATCCAT
*
22528375 TTTAAATTTATTTTAAGA-TTAAATTTGTTTTCAAG
1 TTTAAATTTATTTTAA-ATTTAAATTTATTTTCAAG
22528410 TTTAAATTTATTTTAAATTTAAATTTATTTTCAA
1 TTTAAATTTATTTTAAATTTAAATTTATTTTCAA
22528444 CTCTTCCCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 1 0.03
35 31 0.97
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (35 bp):
TTTAAATTTATTTTAAATTTAAATTTATTTTCAAG
Found at i:22528416 original size:18 final size:17
Alignment explanation
Indices: 22528375--22528440 Score: 96
Period size: 17 Copynumber: 3.8 Consensus size: 17
22528365 CCAAATCCAT
22528375 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAG
* *
22528392 ATTAAATTTGTTTTCAAG
1 TTTAAATTTATTTT-AAG
*
22528410 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAG
22528427 TTTAAATTTATTTT
1 TTTAAATTTATTTT
22528441 CAACTCTTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
17 28 0.65
18 15 0.35
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTAAATTTATTTTAAG
Found at i:22534044 original size:22 final size:22
Alignment explanation
Indices: 22534018--22534101 Score: 93
Period size: 22 Copynumber: 3.8 Consensus size: 22
22534008 GTGTTATCAA
*
22534018 AAAAAAAGAGAGAGAAAGAAAG
1 AAAAAAAGAGAAAGAAAGAAAG
22534040 AAAAAAAGAGAAAGAAAGAAAAAAG
1 AAAAAAAGAGAAAGAAAG---AAAG
*
22534065 GAAAAAAGAGAAAGAAA-AAAGG
1 AAAAAAAGAGAAAGAAAGAAA-G
22534087 AAAAAAA-AG-AAGAAA
1 AAAAAAAGAGAAAGAAA
22534102 AATGGGTCGA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
20 6 0.11
21 5 0.09
22 24 0.44
25 20 0.36
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (22 bp):
AAAAAAAGAGAAAGAAAGAAAG
Found at i:22534047 original size:8 final size:8
Alignment explanation
Indices: 22534030--22534103 Score: 55
Period size: 8 Copynumber: 9.1 Consensus size: 8
22534020 AAAAAGAGAG
*
22534030 AGAAAGAA
1 AGAAAAAA
22534038 AGAAAAAA
1 AGAAAAAA
22534046 AGAGAAAGAA
1 AGA-AAA-AA
22534056 AG-AAAAA
1 AGAAAAAA
*
22534063 AGGAAAAA
1 AGAAAAAA
*
22534071 AG--AGAA
1 AGAAAAAA
22534077 AGAAAAAA
1 AGAAAAAA
*
22534085 GGAAAAAAA
1 AG-AAAAAA
22534094 AGAAGAAAA
1 AGAA-AAAA
22534103 A
1 A
22534104 TGGGTCGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
6 5 0.09
7 4 0.07
8 26 0.48
9 15 0.28
10 4 0.07
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:22534051 original size:14 final size:14
Alignment explanation
Indices: 22534034--22534084 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
22534024 AGAGAGAGAA
22534034 AGAAAGAAAAAAAG
1 AGAAAGAAAAAAAG
*
22534048 AGAAAG-AAAGAA-
1 AGAAAGAAAAAAAG
*
22534060 A-AAAGGAAAAAAG
1 AGAAAGAAAAAAAG
22534073 AGAAAGAAAAAA
1 AGAAAGAAAAAA
22534085 GGAAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 4 0.13
12 6 0.19
13 6 0.19
14 15 0.48
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAAAAAG
Found at i:22534051 original size:18 final size:18
Alignment explanation
Indices: 22534028--22534103 Score: 73
Period size: 18 Copynumber: 4.1 Consensus size: 18
22534018 AAAAAAAGAG
22534028 AGAGAAAGAAAGAAAAAA
1 AGAGAAAGAAAGAAAAAA
22534046 AGAGAAAGAAAGAAAAAA
1 AGAGAAAGAAAGAAAAAA
* *
22534064 GGAAAAAAGAGAAAGAAAAAA
1 --AGAGAA-AGAAAGAAAAAA
* *
22534085 GGA-AAAAAAAGAAGAAAA
1 AGAGAAAGAAAGAA-AAAA
22534103 A
1 A
22534104 TGGGTCGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
17 7 0.15
18 24 0.50
19 1 0.02
20 4 0.08
21 12 0.25
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (18 bp):
AGAGAAAGAAAGAAAAAA
Found at i:22534086 original size:21 final size:21
Alignment explanation
Indices: 22534050--22534103 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
22534040 AAAAAAAGAG
22534050 AAAGAAAGAAAAAAGGAAAAA
1 AAAGAAAGAAAAAAGGAAAAA
*
22534071 AGAGAAAGAAAAAAGGAAAAA
1 AAAGAAAGAAAAAAGGAAAAA
22534092 AAAG-AAGAAAAA
1 AAAGAAAGAAAAA
22534104 TGGGTCGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 8 0.26
21 23 0.74
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAGAAAGAAAAAAGGAAAAA
Found at i:22535014 original size:7 final size:7
Alignment explanation
Indices: 22534997--22535075 Score: 76
Period size: 7 Copynumber: 11.3 Consensus size: 7
22534987 TTCAATGAAT
22534997 AAAAGAA
1 AAAAGAA
22535004 AAGAA-AA
1 AA-AAGAA
22535011 AAGAAGAA
1 AA-AAGAA
*
22535019 GAAAGAGA
1 AAAAGA-A
22535027 AAAAG-A
1 AAAAGAA
22535033 AAAAG-A
1 AAAAGAA
22535039 AAAAGAA
1 AAAAGAA
22535046 AACAA-AA
1 AA-AAGAA
*
22535053 AAGAGAA
1 AAAAGAA
22535060 AAAAGAA
1 AAAAGAA
22535067 AAAAGAA
1 AAAAGAA
22535074 AA
1 AA
22535076 TGAGAGGTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
6 13 0.21
7 37 0.60
8 12 0.19
ACGTcount: A:0.81, C:0.01, G:0.18, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:22535020 original size:6 final size:6
Alignment explanation
Indices: 22534997--22535075 Score: 79
Period size: 6 Copynumber: 12.5 Consensus size: 6
22534987 TTCAATGAAT
* *
22534997 AAAAG- AAAAGAA AAAAGA AGAAGA AAGAGA AAAAGA AAAAGA AAAAGA
1 AAAAGA AAAAG-A AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
*
22535045 AAACAAA AAAGAGAA AAAAGAA AAAAGA AAA
1 AAA-AGA AAA-AG-A AAAAG-A AAAAGA AAA
22535076 TGAGAGGTCG
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
5 5 0.08
6 34 0.54
7 20 0.32
8 4 0.06
ACGTcount: A:0.81, C:0.01, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:22536369 original size:206 final size:206
Alignment explanation
Indices: 22536015--22536813 Score: 1350
Period size: 206 Copynumber: 3.9 Consensus size: 206
22536005 TATACCAACT
* * * *
22536015 CAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAACAGGTCAAAGCAATAAATGGTTAA
1 CAAATCTTCGAACCCCAGCTTCCTAATGAGACACTGAGAAGCAGGTCGAAGCAATAAATGGTTAG
*
22536080 CTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAAT
66 CTTCCTGATGAAACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAAT
22536145 TAAAACAAGTGATGCGGTCATCTTCTTGATGAAACACTGAGAAGAAGACCAAATCAAACCCACGC
131 TAAAACAAGTGATGCGGTCATCTTCTTGATGAAACACTGAGAAGAAGACCAAATCAAACCCACGC
22536210 TTAAATACGAG
196 TTAAATACGAG
*
22536221 CAAATCTTCGAACCCCAGCTTCCTAATGAGACATTGAGAAGCAGGTCGAAGCAATAAATGGTTAG
1 CAAATCTTCGAACCCCAGCTTCCTAATGAGACACTGAGAAGCAGGTCGAAGCAATAAATGGTTAG
22536286 CTTCCTGATGAAACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAAT
66 CTTCCTGATGAAACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAAT
22536351 TAAAACAAGTGATGCGGTCATCTTCTTGATGAAACACTGAGAAGAAGACCAAATCAAACCCACGC
131 TAAAACAAGTGATGCGGTCATCTTCTTGATGAAACACTGAGAAGAAGACCAAATCAAACCCACGC
22536416 TTAAATACGAG
196 TTAAATACGAG
*
22536427 CAAATCTTCGAACCCCAGCTTCCTAATGAGACATTGAGAAGCAGGTCGAAGCAATAAATGGTTAG
1 CAAATCTTCGAACCCCAGCTTCCTAATGAGACACTGAGAAGCAGGTCGAAGCAATAAATGGTTAG
*
22536492 CTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAAT
66 CTTCCTGATGAAACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAAT
* * * *
22536557 TAAAACAAGTAATGCGGTCATCTTCTTGATGAGACATTGAGAAGAAGACCAAATCAAACCCAGGC
131 TAAAACAAGTGATGCGGTCATCTTCTTGATGAAACACTGAGAAGAAGACCAAATCAAACCCACGC
* *
22536622 -TCAATGCGAG
196 TTAAATACGAG
* * *
22536632 CAAATCTTCGAACCCCAGCTTCTTGATGAGACACTAAGAAGCAGGTCGAAGCAATAAATGGTTAG
1 CAAATCTTCGAACCCCAGCTTCCTAATGAGACACTGAGAAGCAGGTCGAAGCAATAAATGGTTAG
* *
22536697 CTTCCTCAT-AAGACACTGAGAAATGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAA
66 CTTCCTGATGAA-ACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAA
* * * * * *
22536761 TTAAAACAAGTGACGCGATCGTCTTCCTGATGAAATACTGAGAAGAAGGCCAA
130 TTAAAACAAGTGATGCGGTCATCTTCTTGATGAAACACTGAGAAGAAGACCAA
22536814 GCCAATGAAA
Statistics
Matches: 563, Mismatches: 29, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
204 1 0.00
205 172 0.31
206 390 0.69
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (206 bp):
CAAATCTTCGAACCCCAGCTTCCTAATGAGACACTGAGAAGCAGGTCGAAGCAATAAATGGTTAG
CTTCCTGATGAAACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAAT
TAAAACAAGTGATGCGGTCATCTTCTTGATGAAACACTGAGAAGAAGACCAAATCAAACCCACGC
TTAAATACGAG
Found at i:22537165 original size:35 final size:34
Alignment explanation
Indices: 22537126--22537218 Score: 125
Period size: 35 Copynumber: 2.7 Consensus size: 34
22537116 CCAAACCCAT
**
22537126 TTTAAATTTATTTTAAGA-TTAAATTTGTTTTAAAG
1 TTTAAATTTATTTTAA-ATTTAAATTTAATTT-AAG
*
22537161 TTTAAATTTATTTTAAATTTAAATTTAATTTGAG
1 TTTAAATTTATTTTAAATTTAAATTTAATTTAAG
22537195 TTTAAATTTATTTTCAAATTTAAA
1 TTTAAATTTATTTT-AAATTTAAA
22537219 ATTATTATAA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
34 17 0.32
35 36 0.68
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAATTTAATTTAAG
Found at i:22537190 original size:5 final size:6
Alignment explanation
Indices: 22537154--22537218 Score: 55
Period size: 6 Copynumber: 11.0 Consensus size: 6
22537144 TTAAATTTGT
* * *
22537154 TTTAAA GTTTAAA TTT-AT TTTAAA TTTAAA TTT-AA TTTGAG TTTAAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
22537201 TTT-AT TTTCAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA
22537219 ATTATTATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
5 13 0.28
6 24 0.51
7 10 0.21
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:22537200 original size:52 final size:52
Alignment explanation
Indices: 22537126--22537234 Score: 148
Period size: 52 Copynumber: 2.1 Consensus size: 52
22537116 CCAAACCCAT
* * * *
22537126 TTTAAATTTATTTTAAGATTAAATTTGTTTT-AAAGTTTAAATTTATTTTAAA
1 TTTAAATTTAATTTAAGATTAAATTTATTTTCAAA-TTTAAAATTATTATAAA
* *
22537178 TTTAAATTTAATTTGAGTTTAAATTTATTTTCAAATTTAAAATTATTATAAA
1 TTTAAATTTAATTTAAGATTAAATTTATTTTCAAATTTAAAATTATTATAAA
22537230 TTTAA
1 TTTAA
22537235 TTAAAATGTC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
52 47 0.94
53 3 0.06
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (52 bp):
TTTAAATTTAATTTAAGATTAAATTTATTTTCAAATTTAAAATTATTATAAA
Found at i:22537213 original size:12 final size:11
Alignment explanation
Indices: 22537161--22537216 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
22537151 TGTTTTAAAG
22537161 TTTAAATTTAT
1 TTTAAATTTAT
*
22537172 TTTAAATTTAAA
1 TTTAAATTT-AT
*
22537184 TTT-AATTTGAG
1 TTTAAATTT-AT
22537195 TTTAAATTTAT
1 TTTAAATTTAT
22537206 TTTCAAATTTA
1 TTT-AAATTTA
22537217 AAATTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
11 22 0.58
12 16 0.42
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:22537232 original size:17 final size:17
Alignment explanation
Indices: 22537126--22537234 Score: 130
Period size: 17 Copynumber: 6.3 Consensus size: 17
22537116 CCAAACCCAT
22537126 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
*
22537144 -TTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
22537160 GTTTAAATTTATTTTAAA
1 -TTTAAATTTATTTTAAA
* * *
22537178 TTTAAATTTAATTTGAG
1 TTTAAATTTATTTTAAA
22537195 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTT-AAA
* *
22537213 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
22537230 TTTAA
1 TTTAA
22537235 TTAAAATGTC
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
16 1 0.01
17 49 0.63
18 28 0.36
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:22537234 original size:35 final size:33
Alignment explanation
Indices: 22537126--22537234 Score: 121
Period size: 35 Copynumber: 3.2 Consensus size: 33
22537116 CCAAACCCAT
*
22537126 TTTAAATTTATTTTAAGA-TTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAA-ATTTAAATTT-ATTTAAA
* *
22537160 GTTTAAATTTATTTTAAATTTAAATTTAATTTGAG
1 -TTTAAATTTATTTTAAATTTAAATTT-ATTTAAA
*
22537195 TTTAAATTTATTTTCAAATTTAAAATTATTATAAA
1 TTTAAATTTATTTT-AAATTTAAATTTATT-TAAA
22537230 TTTAA
1 TTTAA
22537235 TTAAAATGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
34 18 0.28
35 46 0.72
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (33 bp):
TTTAAATTTATTTTAAATTTAAATTTATTTAAA
Found at i:22543885 original size:15 final size:17
Alignment explanation
Indices: 22543865--22543901 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
22543855 ATTTGTTACT
22543865 TTTATA-TATT-CTAGA
1 TTTATACTATTACTAGA
22543880 TTTATACTATTACTAGA
1 TTTATACTATTACTAGA
*
22543897 ATTAT
1 TTTAT
22543902 TAGAACTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 4 0.21
17 9 0.47
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (17 bp):
TTTATACTATTACTAGA
Found at i:22570458 original size:24 final size:24
Alignment explanation
Indices: 22570431--22570477 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
22570421 AGAGTTTGCC
*
22570431 TGAAATAAATAAACAGAGTTTAAT
1 TGAAACAAATAAACAGAGTTTAAT
* *
22570455 TGAAACAAATATATAGAGTTTAA
1 TGAAACAAATAAACAGAGTTTAA
22570478 CTGGAAGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.53, C:0.04, G:0.13, T:0.30
Consensus pattern (24 bp):
TGAAACAAATAAACAGAGTTTAAT
Found at i:22572437 original size:17 final size:18
Alignment explanation
Indices: 22572410--22572443 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
22572400 CATTGTTAAC
22572410 AAATATCTTTATAACATA
1 AAATATCTTTATAACATA
22572428 AAAT-TCTTTATAACAT
1 AAATATCTTTATAACAT
22572444 GGATAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATATCTTTATAACATA
Found at i:22573665 original size:19 final size:19
Alignment explanation
Indices: 22573636--22573679 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
22573626 GAGATTGAAT
22573636 ATTATAATAGTTAGATTAAA
1 ATTA-AATAGTTAGATTAAA
22573656 ATTAAATAGTTAGATTAAA
1 ATTAAATAGTTAGATTAAA
22573675 ATTAA
1 ATTAA
22573680 TAATGAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (19 bp):
ATTAAATAGTTAGATTAAA
Found at i:22574611 original size:3 final size:3
Alignment explanation
Indices: 22574603--22574700 Score: 74
Period size: 3 Copynumber: 32.0 Consensus size: 3
22574593 AAAAACGTCA
* * *
22574603 AAT AAT AAT AAT AAT AAT AAGT AAT ATT AAT AAC AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
** ** *
22574649 AAT TTT AAT AAT AATT TTT AAT ATT AAT AAT AATT AAT GAAT AA- AA-
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AA-T AAT -AAT AAT AAT
22574695 AAT AAT
1 AAT AAT
22574701 CGAAGAGCCA
Statistics
Matches: 74, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
2 4 0.05
3 60 0.81
4 10 0.14
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:22575836 original size:31 final size:30
Alignment explanation
Indices: 22575795--22575873 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
22575785 AAAGGTCCCT
* *
22575795 AAACTATCCAAAAATTATCCTTTGACCCCC
1 AAACTTTCCAAAAATTATACTTTGACCCCC
* *
22575825 AAACTTCTCC-AAAATTATATTTTGACCCCT
1 AAACTT-TCCAAAAATTATACTTTGACCCCC
* *
22575855 GAACTTTCTAAAAATTATA
1 AAACTTTCCAAAAATTATA
22575874 TTTTTACTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 2 0.05
30 36 0.88
31 3 0.07
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (30 bp):
AAACTTTCCAAAAATTATACTTTGACCCCC
Found at i:22575907 original size:29 final size:29
Alignment explanation
Indices: 22575855--22576118 Score: 104
Period size: 29 Copynumber: 9.1 Consensus size: 29
22575845 TTTGACCCCT
** *
22575855 GAACTTTCTAAAAATTATATTTTTACTTTC
1 GAACTTTCTAAAAATTCCATTTTTAC-CTC
22575885 GAACTTTCT-AAAATTCCATTTTTGACCTC
1 GAACTTTCTAAAAATTCCATTTTT-ACCTC
* * * *
22575914 G-ATTTTTTCAAAATTACCATTTTTACCCCC
1 GAACTTTCTAAAAATT-CCATTTTTA-CCTC
*
22575944 GAACTTTC-GAAAATTCCATTTTTACC-C
1 GAACTTTCTAAAAATTCCATTTTTACCTC
* ** * *
22575971 TATTTTTC-CAAAATTACCA-TTATACCCTC
1 GAACTTTCTAAAAATT-CCATTTTTA-CCTC
** * *
22576000 GAAC-TTCCCAAAATTCCATTTTTGGCTTC
1 GAACTTTCTAAAAATTCCATTTTT-ACCTC
* *
22576029 GATA-TTTC-CAAAATTACCA-TTTTACCCTT
1 GA-ACTTTCTAAAAATT-CCATTTTTA-CCTC
* *
22576058 GAAC-TTCCAAAAATTCCATTGTTGACC-C
1 GAACTTTCTAAAAATTCCATT-TTTACCTC
**
22576086 TGATTTTTCTAAAAATTACCA-TTTTACCCTC
1 -GAACTTTCTAAAAATT-CCATTTTTA-CCTC
22576117 GA
1 GA
22576119 GTGTCCAAAA
Statistics
Matches: 180, Mismatches: 30, Indels: 48
0.70 0.12 0.19
Matches are distributed among these distances:
27 16 0.09
28 25 0.14
29 77 0.43
30 54 0.30
31 8 0.04
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.41
Consensus pattern (29 bp):
GAACTTTCTAAAAATTCCATTTTTACCTC
Found at i:22575936 original size:30 final size:28
Alignment explanation
Indices: 22575889--22576077 Score: 120
Period size: 29 Copynumber: 6.6 Consensus size: 28
22575879 ACTTTCGAAC
* *
22575889 TTTCTAAAATTCCATTTTTGACCTCGATT
1 TTTCCAAAATTCCATTTTT-ACCTCGATA
* *
22575918 TTTTCAAAATTACCATTTTTACCCCCGA-A
1 TTTCCAAAATT-CCATTTTTA-CCTCGATA
* * *
22575947 CTTTCGAAAATTCCATTTTTACC-CTATT
1 -TTTCCAAAATTCCATTTTTACCTCGATA
*
22575975 TTTCCAAAATTACCA-TTATACCCTCGA-A
1 TTTCCAAAATT-CCATTTTTA-CCTCGATA
* * *
22576003 CTTCCCAAAATTCCATTTTTGGCTTCGATA
1 -TTTCCAAAATTCCATTTTT-ACCTCGATA
*
22576033 TTTCCAAAATTACCA-TTTTACCCTTGA-A
1 TTTCCAAAATT-CCATTTTTA-CCTCGATA
*
22576061 CTTCCAAAAATTCCATT
1 TTTCC-AAAATTCCATT
22576078 GTTGACCCTG
Statistics
Matches: 124, Mismatches: 21, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
27 16 0.13
28 18 0.15
29 64 0.52
30 26 0.21
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (28 bp):
TTTCCAAAATTCCATTTTTACCTCGATA
Found at i:22576013 original size:115 final size:117
Alignment explanation
Indices: 22575805--22576118 Score: 325
Period size: 115 Copynumber: 2.7 Consensus size: 117
22575795 AAACTATCCA
* * * ** **
22575805 AAAATTATCC-TTTGACCCCCAAACTTCTCCAAAATTATATT-TTGACCCCTGAACTTTCTAAAA
1 AAAATTA-CCATTTTACCCCCGAACTTC-CAAAAATTCCATTGTTGA-CCCTGATTTTTCTAAAA
* * ** * * * *
22575868 ATTA-TATTTTTACTTTCGAACTTTCTAAAATTCCATTTTTGACCTCGATTTTTTC
63 ATTACCA-TTATACCCTCGAACTTCCCAAAATTCCATTTTTGACCTCGATATTTCC
* * * *
22575923 AAAATTACCATTTTTACCCCCGAACTTTCGAAAATTCCATT-TTTACCCT-ATTTTTC-CAAAAT
1 AAAATTACCA-TTTTACCCCCGAACTTCCAAAAATTCCATTGTTGACCCTGATTTTTCTAAAAAT
* *
22575985 TACCATTATACCCTCGAACTTCCCAAAATTCCATTTTTGGCTTCGATATTTCC
65 TACCATTATACCCTCGAACTTCCCAAAATTCCATTTTTGACCTCGATATTTCC
**
22576038 AAAATTACCATTTTACCCTTGAACTTCCAAAAATTCCATTGTTGACCCTGATTTTTCTAAAAATT
1 AAAATTACCATTTTACCCCCGAACTTCCAAAAATTCCATTGTTGACCCTGATTTTTCTAAAAATT
*
22576103 ACCATTTTACCCTCGA
66 ACCATTATACCCTCGA
22576119 GTGTCCAAAA
Statistics
Matches: 163, Mismatches: 27, Indels: 13
0.80 0.13 0.06
Matches are distributed among these distances:
114 26 0.16
115 63 0.39
116 13 0.08
117 27 0.17
118 20 0.12
119 14 0.09
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.39
Consensus pattern (117 bp):
AAAATTACCATTTTACCCCCGAACTTCCAAAAATTCCATTGTTGACCCTGATTTTTCTAAAAATT
ACCATTATACCCTCGAACTTCCCAAAATTCCATTTTTGACCTCGATATTTCC
Found at i:22576055 original size:58 final size:57
Alignment explanation
Indices: 22575883--22576118 Score: 285
Period size: 58 Copynumber: 4.1 Consensus size: 57
22575873 ATTTTTACTT
* * *
22575883 TCGAACTTTCTAAAATTCCATTTTTGACCTCGATTTTTTCAAAATTACCATTTTTACCC
1 TCGAACTTCCAAAAATTCCATTTTTGACC-CGATTTTTCCAAAATTACCA-TTTTACCC
* * * * *
22575942 CCGAACTTTCGAAAATTCCATTTTT-ACCCTATTTTTCCAAAATTACCATTATACCC
1 TCGAACTTCCAAAAATTCCATTTTTGACCCGATTTTTCCAAAATTACCATTTTACCC
* * * *
22575998 TCGAACTTCCCAAAATTCCATTTTTGGCTTCGATATTTCCAAAATTACCATTTTACCC
1 TCGAACTTCCAAAAATTCCATTTTTGAC-CCGATTTTTCCAAAATTACCATTTTACCC
* * *
22576056 TTGAACTTCCAAAAATTCCATTGTTGACCCTGATTTTTCTAAAAATTACCATTTTACCC
1 TCGAACTTCCAAAAATTCCATTTTTGACCC-GATTTTTC-CAAAATTACCATTTTACCC
22576115 TCGA
1 TCGA
22576119 GTGTCCAAAA
Statistics
Matches: 152, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
56 29 0.19
57 20 0.13
58 59 0.39
59 44 0.29
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.39
Consensus pattern (57 bp):
TCGAACTTCCAAAAATTCCATTTTTGACCCGATTTTTCCAAAATTACCATTTTACCC
Found at i:22576128 original size:29 final size:27
Alignment explanation
Indices: 22576034--22576138 Score: 81
Period size: 28 Copynumber: 3.7 Consensus size: 27
22576024 GCTTCGATAT
22576034 TTCC-AAAATTACCATTTTACCCTTGAAC
1 TTCCAAAAATTACCATTTTACCC-TG-AC
*
22576062 TTCCAAAAATT-CCATTGTTGACCCTGATTT
1 TTCCAAAAATTACCATT-TT-ACCCTGA--C
* *
22576092 TTCTAAAAATTACCATTTTACCCTCGAG
1 TTCCAAAAATTACCATTTTACCCT-GAC
*
22576120 TGTCC-AAAATTACCGTTTT
1 T-TCCAAAAATTACCATTTT
22576139 GCCCCCCGAA
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
28 24 0.38
29 17 0.27
30 18 0.28
31 5 0.08
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
TTCCAAAAATTACCATTTTACCCTGAC
Found at i:22576133 original size:28 final size:27
Alignment explanation
Indices: 22575922--22576138 Score: 109
Period size: 29 Copynumber: 7.6 Consensus size: 27
22575912 TCGATTTTTT
*
22575922 CAAAATTACCATTTTTACCCCCGAACTTTC
1 CAAAATTACCA-TTTTACCCTCG-AC-TTC
* ****
22575952 GAAAATT-CCATTTTTACCCTATTTTTC
1 CAAAATTACCA-TTTTACCCTCGACTTC
*
22575979 CAAAATTACCATTATACCCTCGAACTTCC
1 CAAAATTACCATTTTACCCTCG-ACTT-C
** * *
22576008 CAAAATT-CCATTTTTGGCTTCGATATTTC
1 CAAAATTACCA-TTTTACCCTCG--ACTTC
*
22576037 CAAAATTACCATTTTACCCTTGAACTTC
1 CAAAATTACCATTTTACCCTCG-ACTTC
*
22576065 CAAAAATT-CCATTGTTGACCCT-GATTTTTC
1 C-AAAATTACCATT-TT-ACCCTCGA--CTTC
* *
22576095 TAAAAATTACCATTTTACCCTCGAGTGTC
1 -CAAAATTACCATTTTACCCTCGACT-TC
*
22576124 CAAAATTACCGTTTT
1 CAAAATTACCATTTT
22576139 GCCCCCCGAA
Statistics
Matches: 143, Mismatches: 29, Indels: 32
0.70 0.14 0.16
Matches are distributed among these distances:
27 17 0.12
28 33 0.23
29 58 0.41
30 30 0.21
31 5 0.03
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.38
Consensus pattern (27 bp):
CAAAATTACCATTTTACCCTCGACTTC
Found at i:22581503 original size:7 final size:7
Alignment explanation
Indices: 22581491--22581521 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
22581481 CGAGGAAAAG
22581491 GAGGTGA
1 GAGGTGA
22581498 GAGGTGA
1 GAGGTGA
22581505 GAGGTGA
1 GAGGTGA
22581512 GAGGTGA
1 GAGGTGA
22581519 GAG
1 GAG
22581522 CTGGAAGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.58, T:0.13
Consensus pattern (7 bp):
GAGGTGA
Found at i:22582633 original size:15 final size:15
Alignment explanation
Indices: 22582613--22582645 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
22582603 GTCACATTCC
*
22582613 AAAAATTGGGTTAGT
1 AAAAATTGGGTTAAT
22582628 AAAAATTGGGTTAAT
1 AAAAATTGGGTTAAT
22582643 AAA
1 AAA
22582646 TCAAGAGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.30
Consensus pattern (15 bp):
AAAAATTGGGTTAAT
Found at i:22586349 original size:52 final size:52
Alignment explanation
Indices: 22586269--22586455 Score: 234
Period size: 52 Copynumber: 3.6 Consensus size: 52
22586259 TAAATGAAAA
* *
22586269 AGGTCTGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
22586321 AGGTCCGATGGCTATGTGCCATCGTGAGTATATGAATCCTTTACGGATTAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * * *
22586373 AGGTCCGATGACTATATGTTATCCTGAGCATAT-AGATCCTTTTACGGATT-TA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGA-ATCC-TTTACGGATTATG
* *
22586425 AGGTCCGATAACTTTGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
22586456 TAAATGGGAA
Statistics
Matches: 114, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
51 1 0.01
52 103 0.90
53 10 0.09
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.35
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:22588442 original size:22 final size:21
Alignment explanation
Indices: 22588406--22588452 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
22588396 TGATCTAAGG
* *
22588406 AAAAATAAAAGAAATAGAATT
1 AAAAATAAAAAAAATAGAACT
22588427 AAAAATAAAATAAAATAGAACT
1 AAAAATAAAA-AAAATAGAACT
22588449 AAAA
1 AAAA
22588453 GAAATAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.17
Consensus pattern (21 bp):
AAAAATAAAAAAAATAGAACT
Found at i:22589291 original size:19 final size:19
Alignment explanation
Indices: 22589267--22589309 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
22589257 AAACATAAAT
22589267 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
22589286 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
22589305 TAAAT
1 TAAAT
22589310 CTTTATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:22590081 original size:104 final size:103
Alignment explanation
Indices: 22589907--22590098 Score: 235
Period size: 104 Copynumber: 1.8 Consensus size: 103
22589897 ATATATTGGA
* * * *
22589907 CCTTTTGACGCGAAATGAAATGACACCCAATCACTCCATCCCGGTTACTCAGCCCAACATGCTCT
1 CCTTTTGACGCGAAATGAAATGAAAACCAAACACTCCACCCCGGTTACTCAGCCCAACA-GCTCT
* *
22589972 CAATTTTTTTCTTCT-TTTATTTTTGTAGAATGCATTAGC
65 CAATTTATTTATT-TATTTATTTTTGTAGAATGCATTAGC
* * * * *
22590011 CCTTTTGATGCGAAGTGAAATGAAAACCAAACACTCCACCCCGGTTACTCAGTCTAACA-CATTT
1 CCTTTTGACGCGAAATGAAATGAAAACCAAACACTCCACCCCGGTTACTCAGCCCAACAGC-TCT
22590075 CGAATTTATTTATTTATTTATTTT
65 C-AATTTATTTATTTATTTATTTT
22590099 ATTCGGGTTA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
102 1 0.01
103 4 0.05
104 69 0.93
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (103 bp):
CCTTTTGACGCGAAATGAAATGAAAACCAAACACTCCACCCCGGTTACTCAGCCCAACAGCTCTC
AATTTATTTATTTATTTATTTTTGTAGAATGCATTAGC
Found at i:22590753 original size:4 final size:4
Alignment explanation
Indices: 22590744--22590798 Score: 58
Period size: 4 Copynumber: 13.5 Consensus size: 4
22590734 TCTTGGACAA
* * *
22590744 AAAT AAAT AAAT AAAT AAAT AAAAT AAGAT AGA- AAAT AAAA AAAT AAAA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AA-AT AAAT AAAT AAAT AAAT AAAT
22590793 AAAT AA
1 AAAT AA
22590799 TTGGGTTGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 2 0.05
4 33 0.79
5 7 0.17
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:22594849 original size:21 final size:21
Alignment explanation
Indices: 22594825--22594864 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22594815 ATAGATGCCT
*
22594825 CAGTTTTCTTTTAAAAATCCA
1 CAGTTTGCTTTTAAAAATCCA
*
22594846 CAGTTTGCTTTTAGAAATC
1 CAGTTTGCTTTTAAAAATC
22594865 TATAGATTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (21 bp):
CAGTTTGCTTTTAAAAATCCA
Found at i:22594874 original size:21 final size:21
Alignment explanation
Indices: 22594832--22594875 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
22594822 CCTCAGTTTT
*
22594832 CTTTTAAAAATCCACAGTTTG
1 CTTTTAAAAATCCACAGATTG
* * *
22594853 CTTTTAGAAATCTATAGATTG
1 CTTTTAAAAATCCACAGATTG
22594874 CT
1 CT
22594876 GCTGAAATTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (21 bp):
CTTTTAAAAATCCACAGATTG
Found at i:22596459 original size:21 final size:22
Alignment explanation
Indices: 22596413--22596473 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
22596403 TGATCTAAGG
* *
22596413 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAACT
22596434 AAAAATAAAAGAAAATAGAACT
1 AAAAATAAAAGAAAATAGAACT
*
22596456 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
22596474 GAAAGTCGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.31
22 23 0.66
23 1 0.03
ACGTcount: A:0.72, C:0.03, G:0.11, T:0.13
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAACT
Found at i:22596464 original size:15 final size:16
Alignment explanation
Indices: 22596439--22596468 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22596429 GAATTAAAAA
22596439 TAAAAGAAAATAGAAC
1 TAAAAGAAAATAGAAC
22596455 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
22596469 AATAGGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.03, G:0.13, T:0.13
Consensus pattern (16 bp):
TAAAAGAAAATAGAAC
Found at i:22596505 original size:14 final size:14
Alignment explanation
Indices: 22596486--22596520 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
22596476 AAGTCGAAGT
22596486 AAATAAATAGCATA
1 AAATAAATAGCATA
22596500 AAATAAATAGCATA
1 AAATAAATAGCATA
22596514 AAATAAA
1 AAATAAA
22596521 CAAGTTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (14 bp):
AAATAAATAGCATA
Found at i:22597296 original size:19 final size:19
Alignment explanation
Indices: 22597272--22597314 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
22597262 AAACATAAAT
22597272 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
22597291 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
22597310 TAAAT
1 TAAAT
22597315 TCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:22599003 original size:2 final size:2
Alignment explanation
Indices: 22598927--22598990 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
22598917 ACATTAAACA
22598927 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22598969 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
22598991 GCATTTTATA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22602055 original size:14 final size:14
Alignment explanation
Indices: 22602036--22602090 Score: 69
Period size: 14 Copynumber: 4.0 Consensus size: 14
22602026 AAACTCAAAA
22602036 CTCGAACCCTAAAC
1 CTCGAACCCTAAAC
22602050 CTCGAA-CCTCAAA-
1 CTCGAACCCT-AAAC
*
22602063 CTTGAACCCTAAAC
1 CTCGAACCCTAAAC
*
22602077 CTCGAACTCTAAAC
1 CTCGAACCCTAAAC
22602091 TTAGGATTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 11 0.31
14 24 0.69
ACGTcount: A:0.36, C:0.38, G:0.07, T:0.18
Consensus pattern (14 bp):
CTCGAACCCTAAAC
Found at i:22602092 original size:27 final size:27
Alignment explanation
Indices: 22602009--22602092 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
22601999 TACTATGAAC
* * * *
22602009 CTTGAACCTTAAATCTCAAACTCAAAA
1 CTTGAACCCTAAACCTCGAACTCTAAA
*
22602036 CTCGAACCCTAAACCTCGAAC-CTCAAA
1 CTTGAACCCTAAACCTCGAACTCT-AAA
22602063 CTTGAACCCTAAACCTCGAACTCTAAA
1 CTTGAACCCTAAACCTCGAACTCTAAA
22602090 CTT
1 CTT
22602093 AGGATTTGAG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.02
27 46 0.94
28 2 0.04
ACGTcount: A:0.38, C:0.33, G:0.06, T:0.23
Consensus pattern (27 bp):
CTTGAACCCTAAACCTCGAACTCTAAA
Found at i:22604747 original size:26 final size:25
Alignment explanation
Indices: 22604717--22604804 Score: 90
Period size: 27 Copynumber: 3.4 Consensus size: 25
22604707 TAAGATCACT
22604717 ATATAAAAATTTTCAATAAATAAAAA
1 ATATAAAAATTTT-AATAAATAAAAA
*
22604743 ATATATAAAATTATTAA-ATATTAAAATA
1 ATATA-AAAATT-TTAATA-AATAAAA-A
* *
22604771 ATATAAATATTTTAAAAAATAAAAA
1 ATATAAAAATTTTAATAAATAAAAA
22604796 ATA-AAAAAT
1 ATATAAAAAT
22604805 AATATGAGCG
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
24 5 0.09
25 4 0.08
26 16 0.30
27 20 0.38
28 8 0.15
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (25 bp):
ATATAAAAATTTTAATAAATAAAAA
Found at i:22604748 original size:28 final size:27
Alignment explanation
Indices: 22604716--22604798 Score: 82
Period size: 28 Copynumber: 3.1 Consensus size: 27
22604706 TTAAGATCAC
22604716 TATATAAAAATTTTCAATAAATAAAAAA
1 TATATAAAAATTTT-AATAAATAAAAAA
* *
22604744 TATAT-AAAA--TTATTAAATATTAAAA
1 TATATAAAAATTTTAATAAATA-AAAAA
* *
22604769 TAATATAAATATTTTAAAAAATAAAAAA
1 T-ATATAAAAATTTTAATAAATAAAAAA
22604797 TA
1 TA
22604799 AAAAATAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
24 7 0.16
25 7 0.16
26 4 0.09
27 8 0.18
28 10 0.23
29 8 0.18
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (27 bp):
TATATAAAAATTTTAATAAATAAAAAA
Found at i:22604761 original size:17 final size:17
Alignment explanation
Indices: 22604741--22604781 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
22604731 AATAAATAAA
*
22604741 AAATATATAAAATTAT-T
1 AAATAT-TAAAATAATAT
22604758 AAATATTAAAATAATAT
1 AAATATTAAAATAATAT
22604775 AAATATT
1 AAATATT
22604782 TTAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATTAAAATAATAT
Found at i:22605058 original size:5 final size:5
Alignment explanation
Indices: 22605048--22605081 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
22605038 AATGGTGGAG
22605048 TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
22605082 GATATAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:22605226 original size:30 final size:30
Alignment explanation
Indices: 22605191--22605259 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
22605181 ATTTAATTAA
*
22605191 AAAAAGTTACAATTTGA-TTATTAAACTATT
1 AAAAAGTTAC-ATTTAAGTTATTAAACTATT
* * *
22605221 CAAAAGTTTTCATTTAAGTTATTGAACTATT
1 AAAAAG-TTACATTTAAGTTATTAAACTATT
22605252 AAAAAGTT
1 AAAAAGTT
22605260 TTTATTTAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (30 bp):
AAAAAGTTACATTTAAGTTATTAAACTATT
Found at i:22605249 original size:31 final size:31
Alignment explanation
Indices: 22605208--22605276 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
22605198 TACAATTTGA
* *
22605208 TTATTAAACTATTCAAAAGTTTTCATTTAAG
1 TTATTGAACTATTAAAAAGTTTTCATTTAAG
*
22605239 TTATTGAACTATTAAAAAGTTTTTATTTAAG
1 TTATTGAACTATTAAAAAGTTTTCATTTAAG
*
22605270 TCATTGA
1 TTATTGA
22605277 GTTGTTAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (31 bp):
TTATTGAACTATTAAAAAGTTTTCATTTAAG
Found at i:22609551 original size:30 final size:30
Alignment explanation
Indices: 22609517--22609578 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
22609507 ATAACGAAGC
*
22609517 TGTGGAGCTTAATAGATTTTAATTTCACCT
1 TGTGGAGCTTAATAGATCTTAATTTCACCT
22609547 TGTGGAGCTTAATAGATCTTAATTTCACCT
1 TGTGGAGCTTAATAGATCTTAATTTCACCT
22609577 TG
1 TG
22609579 CCATGCAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (30 bp):
TGTGGAGCTTAATAGATCTTAATTTCACCT
Found at i:22617338 original size:60 final size:60
Alignment explanation
Indices: 22617245--22617363 Score: 238
Period size: 60 Copynumber: 2.0 Consensus size: 60
22617235 ATATTTTTCT
22617245 TCTTTGAAATATTTAAATGATCAAGAAGAATGTTTTAGTTCATATGTTAGATAGGGTCAC
1 TCTTTGAAATATTTAAATGATCAAGAAGAATGTTTTAGTTCATATGTTAGATAGGGTCAC
22617305 TCTTTGAAATATTTAAATGATCAAGAAGAATGTTTTAGTTCATATGTTAGATAGGGTCA
1 TCTTTGAAATATTTAAATGATCAAGAAGAATGTTTTAGTTCATATGTTAGATAGGGTCA
22617364 TTGAAGAGTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (60 bp):
TCTTTGAAATATTTAAATGATCAAGAAGAATGTTTTAGTTCATATGTTAGATAGGGTCAC
Found at i:22617898 original size:14 final size:14
Alignment explanation
Indices: 22617863--22617898 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
22617853 AAAATAATCA
22617863 TTTCTCTTATTTTTT
1 TTTC-CTTATTTTTT
22617878 TTT-CTTATTTTTT
1 TTTCCTTATTTTTT
22617891 TTTCCTTA
1 TTTCCTTA
22617899 CCAAGCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 13 0.65
14 4 0.20
15 3 0.15
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTCCTTATTTTTT
Found at i:22620995 original size:158 final size:158
Alignment explanation
Indices: 22620720--22621010 Score: 440
Period size: 158 Copynumber: 1.8 Consensus size: 158
22620710 GAAATGGGCC
* * *
22620720 TGCTCACATGAGCTGTAGGTCGAGATGTTAACCTACACGATGCTGCTCACACTAGCTGTGGAGAA
1 TGCTCACACGAGCCGTAGGTCAAGATGTTAACCTACACGATGCTGCTCACACTAGCTGTGGAGAA
* * * * * * *
22620785 TCCGTAACAAATGTCGGATCTTAACCATCGGTAAGACATCTAAGATCAGCACCCATATAACCTGT
66 TCCGCAACAAATGCCAGATCTCAACCATCGATAAGACATATAAGAACAGCACCCATATAACCTGT
22620850 AATGCTCAAACGAGTTGTGAAGTGGGTT
131 AATGCTCAAACGAGTTGTGAAGTGGGTT
* *
22620878 TGCTCACACGAGCCGTGGGTCAAGATGTTAAGCTACACGATGCTGCTCACA-TGAGCTGTGGAGA
1 TGCTCACACGAGCCGTAGGTCAAGATGTTAACCTACACGATGCTGCTCACACT-AGCTGTGGAGA
* *
22620942 ATCTGCAACAAATGCCAGATCTCAACCATCGATAGGACATATAAGAACAGCACCCATATAACCTG
65 ATCCGCAACAAATGCCAGATCTCAACCATCGATAAGACATATAAGAACAGCACCCATATAACCTG
22621007 TAAT
130 TAAT
22621011 TCCAGAAATC
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
157 1 0.01
158 117 0.99
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (158 bp):
TGCTCACACGAGCCGTAGGTCAAGATGTTAACCTACACGATGCTGCTCACACTAGCTGTGGAGAA
TCCGCAACAAATGCCAGATCTCAACCATCGATAAGACATATAAGAACAGCACCCATATAACCTGT
AATGCTCAAACGAGTTGTGAAGTGGGTT
Found at i:22639467 original size:22 final size:22
Alignment explanation
Indices: 22639415--22639461 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
22639405 ATTTATGTTG
22639415 ATTTAAATAATTGAATGAAATT
1 ATTTAAATAATTGAATGAAATT
22639437 ATTTAAATAATTGAATGAAATT
1 ATTTAAATAATTGAATGAAATT
22639459 ATT
1 ATT
22639462 ATAATAGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (22 bp):
ATTTAAATAATTGAATGAAATT
Found at i:22640795 original size:21 final size:21
Alignment explanation
Indices: 22640769--22640818 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
22640759 TTTTTAGTAC
* * *
22640769 CGGTAGAAGCATGATTTGTTT
1 CGGTAGAAGCATCACTTGTAT
*
22640790 CGGTAGAAGCTTCACTTGTAT
1 CGGTAGAAGCATCACTTGTAT
22640811 CGGTAGAA
1 CGGTAGAA
22640819 CTGTCATAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (21 bp):
CGGTAGAAGCATCACTTGTAT
Found at i:22645233 original size:29 final size:30
Alignment explanation
Indices: 22645180--22645238 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
22645170 GAATTGGATT
* *
22645180 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
*
22645210 AAATC-AAAGTTCATGTATACAATTACACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
22645239 TTAAACCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTACACA
Found at i:22647175 original size:20 final size:20
Alignment explanation
Indices: 22647131--22647175 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
22647121 AAGTATTTTA
*
22647131 TAAAAAAATAATAAAATA-T
1 TAAAAAAATAATAAAAAATT
*
22647150 TAAAAAAACATATAAAAAATT
1 TAAAAAAATA-ATAAAAAATT
22647171 TAAAA
1 TAAAA
22647176 TTATTTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
20 7 0.32
21 6 0.27
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAAAAATAATAAAAAATT
Found at i:22650919 original size:22 final size:23
Alignment explanation
Indices: 22650881--22650934 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
22650871 AAAATTAAAT
*
22650881 TATAATTTTTATTATAATAAAAA
1 TATAATTTTTATAATAATAAAAA
* *
22650904 TATAATTTTTA-AATAATTAAAT
1 TATAATTTTTATAATAATAAAAA
*
22650926 TAAAATTTT
1 TATAATTTT
22650935 ATCATTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TATAATTTTTATAATAATAAAAA
Found at i:22650924 original size:23 final size:24
Alignment explanation
Indices: 22650873--22650924 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
22650863 AAGAAGTGAA
* *
22650873 AATT-AAATTATAATTTTTATTAT
1 AATTAAAAATATAATTTTTATAAT
22650896 AA-TAAAAATATAATTTTTA-AAT
1 AATTAAAAATATAATTTTTATAAT
22650918 AATTAAA
1 AATTAAA
22650925 TTAAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
AATTAAAAATATAATTTTTATAAT
Found at i:22650973 original size:81 final size:79
Alignment explanation
Indices: 22650875--22651028 Score: 218
Period size: 81 Copynumber: 1.9 Consensus size: 79
22650865 GAAGTGAAAA
* *
22650875 TTAAATTATAATTTTTATTATAATAAAAATATAATTTTTAAATAATTAAATTAAAATTTTATCAT
1 TTAAATTATAATTTTTATAATAATAAAAATATAATTTTTAAA-AATTAAATAAAAATTTTATCAT
22650940 TTTAAAGGGGTCGAAG
65 TTT-AAGGGGTCGAAG
* * * * * *
22650956 TTAAATTGTTATTTTTATAATAGTAAAAATGTAATTTTTAAAAGTTAAATAAAAATTTTATTATT
1 TTAAATTATAATTTTTATAATAATAAAAATATAATTTTTAAAAATTAAATAAAAATTTTATCATT
22651021 TTAAGGGG
66 TTAAGGGG
22651029 CCAAAGTGTA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
79 6 0.09
80 22 0.34
81 37 0.57
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.45
Consensus pattern (79 bp):
TTAAATTATAATTTTTATAATAATAAAAATATAATTTTTAAAAATTAAATAAAAATTTTATCATT
TTAAGGGGTCGAAG
Found at i:22651004 original size:22 final size:23
Alignment explanation
Indices: 22650953--22651004 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
22650943 AAAGGGGTCG
* *
22650953 AAGTT-AAATTGTTATTTTTATA
1 AAGTTAAAAATGTAATTTTTATA
22650975 ATAG-TAAAAATGTAATTTTTA-A
1 A-AGTTAAAAATGTAATTTTTATA
22650997 AAGTTAAA
1 AAGTTAAA
22651005 TAAAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 2 0.08
22 8 0.32
23 15 0.60
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (23 bp):
AAGTTAAAAATGTAATTTTTATA
Found at i:22651756 original size:30 final size:31
Alignment explanation
Indices: 22651705--22651772 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
22651695 GATTTCAATT
* *
22651705 CAGTCACTTAACTTTTGAAAAA-TAACAAAA
1 CAGTCACTTAACTTATCAAAAAGTAACAAAA
* *
22651735 CAGTCAC-TAACATTATCAAAAAGTGACAAAT
1 CAGTCACTTAAC-TTATCAAAAAGTAACAAAA
22651766 CAGTCAC
1 CAGTCAC
22651773 CCATGAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 4 0.12
30 15 0.47
31 13 0.41
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.24
Consensus pattern (31 bp):
CAGTCACTTAACTTATCAAAAAGTAACAAAA
Found at i:22651989 original size:174 final size:174
Alignment explanation
Indices: 22651697--22652031 Score: 463
Period size: 174 Copynumber: 1.9 Consensus size: 174
22651687 ATCACTCTGA
* * ** *
22651697 TTTCAATTCAGTCACTTAACTTTTGAAAAATAACAAAACAGTCACTAACATTATCAAAAAGTGAC
1 TTTCAATTCAATCACTCAACTTTCAAAAAATAACAAAACAATCACTAACATTATCAAAAAGTGAC
* * * * * *
22651762 AAATCAGTCACCCATGAACATTTTCTGTTACAAGCCTAACGGGACAAGTGACGTGGCCAGTTAAC
66 AAATCAGTCACCCATAAACATTTCCTGTTACAAGCCTAACGAGACAAGTGACGTGACAAGTAAAC
22651827 TAGCTGACGTGGCCAGTTAACTTGCCACGTTGGACTAGGCAAAG
131 TAGCTGACGTGGCCAGTTAACTTGCCACGTTGGACTAGGCAAAG
* * * *
22651871 TTTCAATTCAATCACTCAACTTTCAAAAAATAACAAATCAATTACTAACGTTATCGAAAAGTGAC
1 TTTCAATTCAATCACTCAACTTTCAAAAAATAACAAAACAATCACTAACATTATCAAAAAGTGAC
* * * * * *
22651936 AAATCGGTCACTCATAAACATTTCCTGTTACAGGCCTAATGAGACAGGTGACGTGACAAGTAAAT
66 AAATCAGTCACCCATAAACATTTCCTGTTACAAGCCTAACGAGACAAGTGACGTGACAAGTAAAC
* *
22652001 TAGCTGATGTGGCTAGTTAACTTGCCACGTT
131 TAGCTGACGTGGCCAGTTAACTTGCCACGTT
22652032 AAATGAGGCA
Statistics
Matches: 138, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
174 138 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (174 bp):
TTTCAATTCAATCACTCAACTTTCAAAAAATAACAAAACAATCACTAACATTATCAAAAAGTGAC
AAATCAGTCACCCATAAACATTTCCTGTTACAAGCCTAACGAGACAAGTGACGTGACAAGTAAAC
TAGCTGACGTGGCCAGTTAACTTGCCACGTTGGACTAGGCAAAG
Found at i:22672463 original size:31 final size:31
Alignment explanation
Indices: 22672428--22672489 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
22672418 ACTCCATCTC
22672428 ACTCCCTTATTTCTCCTTCTCTCACCATCCT
1 ACTCCCTTATTTCTCCTTCTCTCACCATCCT
22672459 ACTCCCTTATTTCTCCTTCTCTCACCATCCT
1 ACTCCCTTATTTCTCCTTCTCTCACCATCCT
22672490 TTTCTCTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.13, C:0.45, G:0.00, T:0.42
Consensus pattern (31 bp):
ACTCCCTTATTTCTCCTTCTCTCACCATCCT
Found at i:22675858 original size:21 final size:20
Alignment explanation
Indices: 22675830--22675871 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
22675820 TTATCATGAA
*
22675830 GGTTTCCTTCTTCTTATGGT
1 GGTTTCCTTCTCCTTATGGT
*
22675850 GGTTGTCCTTCTCCTTTTGGT
1 GGTT-TCCTTCTCCTTATGGT
22675871 G
1 G
22675872 TTAATGTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.02, C:0.21, G:0.24, T:0.52
Consensus pattern (20 bp):
GGTTTCCTTCTCCTTATGGT
Found at i:22681563 original size:14 final size:15
Alignment explanation
Indices: 22681539--22681569 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
22681529 GAGTTGTTTG
22681539 AAAGCATAAAAATAA
1 AAAGCATAAAAATAA
22681554 AAAG-ATAAAAATAA
1 AAAGCATAAAAATAA
22681568 AA
1 AA
22681570 TAAAGTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.13
Consensus pattern (15 bp):
AAAGCATAAAAATAA
Found at i:22684409 original size:18 final size:19
Alignment explanation
Indices: 22684372--22684409 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
22684362 TTCTTCTTCA
*
22684372 CTTTCTTTCCCTTGTGCCT
1 CTTTCTTTCCCTTGTCCCT
*
22684391 CTTTCTTT-TCTTGTCCCT
1 CTTTCTTTCCCTTGTCCCT
22684409 C
1 C
22684410 GAACCAATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.37, G:0.08, T:0.55
Consensus pattern (19 bp):
CTTTCTTTCCCTTGTCCCT
Found at i:22686540 original size:15 final size:16
Alignment explanation
Indices: 22686511--22686540 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22686501 AACAACACGA
22686511 CGAAAAGTGAAATAAC
1 CGAAAAGTGAAATAAC
22686527 CGAAAAGT-AAATAA
1 CGAAAAGTGAAATAA
22686541 AATAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.10, G:0.17, T:0.13
Consensus pattern (16 bp):
CGAAAAGTGAAATAAC
Found at i:22686547 original size:15 final size:16
Alignment explanation
Indices: 22686535--22686564 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22686525 ACCGAAAAGT
22686535 AAAT-AAAATAAAATA
1 AAATAAAAATAAAATA
22686550 AAATAAAAATAAAAT
1 AAATAAAAATAAAAT
22686565 GCGTCGACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAATAAAAATAAAATA
Found at i:22686548 original size:10 final size:11
Alignment explanation
Indices: 22686535--22686564 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
22686525 ACCGAAAAGT
22686535 AAATAAAAT-A
1 AAATAAAATAA
22686545 AAATAAAATAA
1 AAATAAAATAA
22686556 AAATAAAAT
1 AAATAAAAT
22686565 GCGTCGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:22686560 original size:6 final size:5
Alignment explanation
Indices: 22686535--22686564 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
22686525 ACCGAAAAGT
22686535 AAATA AAATA AAATA AAATAA AAATA AAAT
1 AAATA AAATA AAATA AAAT-A AAATA AAAT
22686565 GCGTCGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:22694704 original size:23 final size:23
Alignment explanation
Indices: 22694677--22694723 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
22694667 TCAATATGCT
*
22694677 AGGTATGAAACCGATAGATCACA
1 AGGTATGAAACCGAAAGATCACA
*
22694700 AGGTATGAAATCGAAAGATCACA
1 AGGTATGAAACCGAAAGATCACA
22694723 A
1 A
22694724 AACAATGTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (23 bp):
AGGTATGAAACCGAAAGATCACA
Found at i:22701300 original size:27 final size:25
Alignment explanation
Indices: 22701268--22701320 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 25
22701258 CAGGTCCTTA
*
22701268 TTCTTC-TCCTTCAATCTCTTTCTCTGC
1 TTCTTCATCC-TCAAGCT-TTTC-CTGC
22701295 TTCTTCATCCTCAAGCTTTTCCTGC
1 TTCTTCATCCTCAAGCTTTTCCTGC
22701320 T
1 T
22701321 CAATTGTGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.21
26 4 0.17
27 12 0.50
28 3 0.12
ACGTcount: A:0.09, C:0.36, G:0.06, T:0.49
Consensus pattern (25 bp):
TTCTTCATCCTCAAGCTTTTCCTGC
Found at i:22718327 original size:88 final size:88
Alignment explanation
Indices: 22718229--22718405 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
22718219 ATACAAGTGA
22718229 TTGGTTAGGAGCATGAATAATAGGTTGATTGAGTTTTCTTGATAAATTTTGCATGATGATGAGGA
1 TTGGTTAGGAGCATGAATAATAGGTTGATTGAGTTTTCTTGATAAATTTTGCATGATGATGAGGA
22718294 ATTTTACATTTTTGAGGATGAGT
66 ATTTTACATTTTTGAGGATGAGT
22718317 TTGGTTAGGAGCATGAATAATAGGTTGATTGAGTTTTCTTGATAAATTTTGCATGATGATGAGGA
1 TTGGTTAGGAGCATGAATAATAGGTTGATTGAGTTTTCTTGATAAATTTTGCATGATGATGAGGA
22718382 ATTTTACATTTTTGAGGATGAGT
66 ATTTTACATTTTTGAGGATGAGT
22718405 T
1 T
22718406 CTATAGGTTA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.41
Consensus pattern (88 bp):
TTGGTTAGGAGCATGAATAATAGGTTGATTGAGTTTTCTTGATAAATTTTGCATGATGATGAGGA
ATTTTACATTTTTGAGGATGAGT
Found at i:22718906 original size:22 final size:22
Alignment explanation
Indices: 22718842--22718908 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
22718832 AGATTTAGCC
*
22718842 AAAGAAGAGAAAA-ACAAGAG-A
1 AAAGAACA-AAAAGACAAGAGTA
*
22718863 AAAGAACAAAAAGAAAATGAGTA
1 AAAGAACAAAAAGACAA-GAGTA
*
22718886 AAAGCACAAAAAGACAAGAGTA
1 AAAGAACAAAAAGACAAGAGTA
22718908 A
1 A
22718909 GAAAAAGTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
20 4 0.10
21 10 0.26
22 9 0.23
23 16 0.41
ACGTcount: A:0.69, C:0.07, G:0.19, T:0.04
Consensus pattern (22 bp):
AAAGAACAAAAAGACAAGAGTA
Found at i:22719061 original size:24 final size:24
Alignment explanation
Indices: 22719034--22719082 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
22719024 TCTCCTAAAT
22719034 GGAGAAATAAGGTAGGCGAGA-GAA
1 GGAGAAATAAGG-AGGCGAGATGAA
*
22719058 GGAGAAATAAGGAGGTGAGATGAA
1 GGAGAAATAAGGAGGCGAGATGAA
22719082 G
1 G
22719083 TGGGATGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.45, C:0.02, G:0.43, T:0.10
Consensus pattern (24 bp):
GGAGAAATAAGGAGGCGAGATGAA
Found at i:22725140 original size:26 final size:26
Alignment explanation
Indices: 22725084--22725140 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
22725074 ATTACACCCA
*
22725084 AGAA-TGTCGCTGCATGAACATGTAC
1 AGAATTGTCGCTGCATAAACATGTAC
* * *
22725109 AAAATTGTCGCTGCATAAACGTGTCC
1 AGAATTGTCGCTGCATAAACATGTAC
22725135 AGAATT
1 AGAATT
22725141 ACGCCCAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 3 0.12
26 23 0.88
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (26 bp):
AGAATTGTCGCTGCATAAACATGTAC
Found at i:22734252 original size:21 final size:22
Alignment explanation
Indices: 22734226--22734267 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
22734216 AATCAAAAAG
22734226 AAAAGAAAAATGAGT-AGAAAT
1 AAAAGAAAAATGAGTAAGAAAT
**
22734247 AAAAGAATCATGAGTAAGAAA
1 AAAAGAAAAATGAGTAAGAAA
22734268 ATATGTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.02, G:0.19, T:0.14
Consensus pattern (22 bp):
AAAAGAAAAATGAGTAAGAAAT
Found at i:22753540 original size:21 final size:21
Alignment explanation
Indices: 22753516--22753558 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
22753506 TTGGGACACC
*
22753516 CATTCTTAGCCACGGGACGCA
1 CATTCTTAGACACGGGACGCA
22753537 CATTCTTAGACACGGGACGCA
1 CATTCTTAGACACGGGACGCA
22753558 C
1 C
22753559 TTTTATTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.33, G:0.23, T:0.19
Consensus pattern (21 bp):
CATTCTTAGACACGGGACGCA
Found at i:22766042 original size:3 final size:3
Alignment explanation
Indices: 22766028--22766183 Score: 64
Period size: 3 Copynumber: 53.7 Consensus size: 3
22766018 CAGCCAGCAA
* *
22766028 AAT AAT AGT AAT AAT AGA- AAT AAT AAT AAT AAT GAT AA- AA- AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ** *
22766071 GAG AAT AAT AAC AAT AACT AAT AAT AAA AAT AA- AGC AA- AAC AA-
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
22766114 AAC AA- AAC AAT AAA AAT AA- AAT GAA- AAT GAA- AAT AAGT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT AA-T AAT -AAT
*
22766159 AAT AAT AAT AAT AAC AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
22766184 AAACTAATCA
Statistics
Matches: 119, Mismatches: 18, Indels: 32
0.70 0.11 0.19
Matches are distributed among these distances:
2 20 0.17
3 85 0.71
4 14 0.12
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (3 bp):
AAT
Found at i:22766179 original size:17 final size:17
Alignment explanation
Indices: 22766145--22766183 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
22766135 TGAAAATGAA
*
22766145 AATAAGTAATAAATAAT
1 AATAAGTAATAAAAAAT
22766162 AATAA-TAATAACAAAAT
1 AATAAGTAATAA-AAAAT
22766179 AATAA
1 AATAA
22766184 AAACTAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
AATAAGTAATAAAAAAT
Found at i:22772627 original size:6 final size:6
Alignment explanation
Indices: 22772612--22772688 Score: 50
Period size: 6 Copynumber: 12.0 Consensus size: 6
22772602 AAATTCAAAC
**
22772612 TTTA-T TTTATT TTTATT TTTATCTT TTTATT TTTATT CTTTCAAAC TTTA-T
1 TTTATT TTTATT TTTATT TTTA--TT TTTATT TTTATT -TTT--ATT TTTATT
*
22772663 TTTATT TCTATTTT TTTATT TTTATT
1 TTTATT T-T-TATT TTTATT TTTATT
22772689 CTTTCAAACA
Statistics
Matches: 58, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
5 8 0.14
6 31 0.53
7 5 0.09
8 13 0.22
9 1 0.02
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:22772640 original size:14 final size:15
Alignment explanation
Indices: 22772621--22772652 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
22772611 CTTTATTTTA
22772621 TTTTTATTTTTA-TC
1 TTTTTATTTTTATTC
22772635 TTTTTATTTTTATTC
1 TTTTTATTTTTATTC
22772650 TTT
1 TTT
22772653 CAAACTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTATTTTTATTC
Found at i:22772645 original size:46 final size:47
Alignment explanation
Indices: 22772594--22772688 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 47
22772584 TTTTTCTAAA
* *
22772594 ATTTTTTA-AAATTCAAACTTTATTTTATTTTTATTTTTATCTTTTT
1 ATTTTTTATAAATTCAAACTTTATTTTATTTCTATTTTTATATTTTT
*** *
22772640 A-TTTTTATTCTTTCAAACTTTATTTTATTTCTATTTTTTTATTTTT
1 ATTTTTTATAAATTCAAACTTTATTTTATTTCTATTTTTATATTTTT
22772686 ATT
1 ATT
22772689 CTTTCAAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
45 6 0.15
46 34 0.83
47 1 0.02
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.69
Consensus pattern (47 bp):
ATTTTTTATAAATTCAAACTTTATTTTATTTCTATTTTTATATTTTT
Found at i:22772666 original size:40 final size:41
Alignment explanation
Indices: 22772617--22772697 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 41
22772607 CAAACTTTAT
*
22772617 TTTATTTTTATTTTTATCTTTTTATTTTTATTCTTTCAAAC
1 TTTATTTTTATTTCTATCTTTTTATTTTTATTCTTTCAAAC
*
22772658 TTTA-TTTTATTTCTATTTTTTTATTTTTATTCTTTCAAAC
1 TTTATTTTTATTTCTATCTTTTTATTTTTATTCTTTCAAAC
22772698 AACTCTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 34 0.89
41 4 0.11
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (41 bp):
TTTATTTTTATTTCTATCTTTTTATTTTTATTCTTTCAAAC
Found at i:22777943 original size:32 final size:29
Alignment explanation
Indices: 22777871--22777943 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
22777861 CACTTATTTT
* *
22777871 AATGTGGTACCTGAAGTTTCAAAATGTCC
1 AATGTGGTACCTGAAGTTTCAAAATATAC
*
22777900 AATGTGCTACCTGAAGTTT-AATTACATTATAC
1 AATGTGGTACCTGAAGTTTCAA--A-A-TATAC
22777932 AATGTGGTACCT
1 AATGTGGTACCT
22777944 ATCGATAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 2 0.06
29 18 0.50
30 1 0.03
31 1 0.03
32 14 0.39
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (29 bp):
AATGTGGTACCTGAAGTTTCAAAATATAC
Found at i:22785063 original size:23 final size:23
Alignment explanation
Indices: 22785022--22785067 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
22785012 TCTTCACATA
22785022 TTTTCTTACTCATGATTCTCTTTT
1 TTTTCTTACTCATGATTCT-TTTT
**
22785046 TTTTC-TACTCATTTTTCTTTTT
1 TTTTCTTACTCATGATTCTTTTT
22785068 GATATTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 11 0.55
24 5 0.25
ACGTcount: A:0.11, C:0.20, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTCTTACTCATGATTCTTTTT
Found at i:22785064 original size:21 final size:23
Alignment explanation
Indices: 22785022--22785067 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 23
22785012 TCTTCACATA
22785022 TTTTCTTACTCATGATTCTCTTTT
1 TTTTCTTACTCAT-ATTCTCTTTT
*
22785046 TTTTC-TACTCAT-TTTTCTTTT
1 TTTTCTTACTCATATTCTCTTTT
22785067 T
1 T
22785068 GATATTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
23 7 0.33
24 5 0.24
ACGTcount: A:0.11, C:0.20, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTCTTACTCATATTCTCTTTT
Found at i:22789651 original size:29 final size:29
Alignment explanation
Indices: 22789608--22789664 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
22789598 CATTTTAGGT
22789608 AAACAATGACAGAAACATTTTAGGCAAAC
1 AAACAATGACAGAAACATTTTAGGCAAAC
**
22789637 AAACAATGATGGAAACATTTTAGGCAAA
1 AAACAATGACAGAAACATTTTAGGCAAA
22789665 AAATGACGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (29 bp):
AAACAATGACAGAAACATTTTAGGCAAAC
Found at i:22789670 original size:25 final size:25
Alignment explanation
Indices: 22789598--22789680 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 25
22789588 ACAAATGTTT
* * *
22789598 CATTTTAGGTAAACAATGACAGAAA
1 CATTTTAGGCAAAAAATGACGGAAA
*
22789623 CATTTTAGGCAAACAAACAATGATGGAAA
1 CATTTTAGGC--A-AAA-AATGACGGAAA
*
22789652 CATTTTAGGCAAAAAATGACGAAAA
1 CATTTTAGGCAAAAAATGACGGAAA
22789677 CATT
1 CATT
22789681 AGGACAAGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
25 22 0.46
26 3 0.06
27 2 0.04
28 2 0.04
29 19 0.40
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.23
Consensus pattern (25 bp):
CATTTTAGGCAAAAAATGACGGAAA
Found at i:22790717 original size:89 final size:89
Alignment explanation
Indices: 22790607--22790896 Score: 314
Period size: 89 Copynumber: 3.2 Consensus size: 89
22790597 ATACGAGGTC
* * * *
22790607 AAAACATAATTTTGTAAAAGTTTAGGGGTAAAAAATGTAATTTTAGGAAA-ATTAAGGGTTAAAA
1 AAAATATAATTTTG-AAAAGTTTAGGGGT-AAAAATGTAATTTTGGGAAAGTTTAAGGGTCAAAA
* * *
22790671 TGTGATTTTAGAGAAGTTTA-GGGTT
64 TGTAATTTTAAAAAAGTTTAGGGGTT
* * * * * * *
22790696 AAATTATGATTTTAGAGAAGTTTAGAGGTCAAAATATAATTTTGGGAAAGTTTAAGGGTCAAAAC
1 AAAATATAATTTT-GAAAAGTTTAGGGGTAAAAATGTAATTTTGGGAAAGTTTAAGGGTCAAAAT
* *
22790761 ATAATTTTAAAAAATTTTAGGGGTT
65 GTAATTTTAAAAAAGTTTAGGGGTT
* * *
22790786 AAAATATAATTTTGAAAAATTTAAGGGTTAAAATGTAATTTTGGGAAAGTTTAAGGGTCAAAATG
1 AAAATATAATTTTGAAAAGTTTAGGGGTAAAAATGTAATTTTGGGAAAGTTTAAGGGTCAAAATG
* * *
22790851 TAATTTTAAAAAAATTTAGGTGTC
66 TAATTTTAAAAAAGTTTAGGGGTT
* *
22790875 AAAATCTAATTTTTAAGAAGTT
1 AAAATATAATTTTGAA-AAGTT
22790897 CGGGCTTAAT
Statistics
Matches: 165, Mismatches: 32, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
88 17 0.10
89 127 0.77
90 21 0.13
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.36
Consensus pattern (89 bp):
AAAATATAATTTTGAAAAGTTTAGGGGTAAAAATGTAATTTTGGGAAAGTTTAAGGGTCAAAATG
TAATTTTAAAAAAGTTTAGGGGTT
Found at i:22790876 original size:30 final size:29
Alignment explanation
Indices: 22790603--22790887 Score: 216
Period size: 30 Copynumber: 9.6 Consensus size: 29
22790593 AAAAATACGA
*
22790603 GGTCAAAACATAATTTT-GTAAAAGTTTAGG
1 GGTCAAAATATAATTTTAG-AAAAGTTTA-G
* * *
22790633 GGTAAAAAATGTAATTTTAGGAAAA-TTAAG
1 GGT-CAAAATATAATTTTA-GAAAAGTTTAG
* * * *
22790663 GGTTAAAATGTGATTTTAGAGAAGTTTAG
1 GGTCAAAATATAATTTTAGAAAAGTTTAG
* * * *
22790692 GGTTAAATTATGATTTTAGAGAAGTTTAG
1 GGTCAAAATATAATTTTAGAAAAGTTTAG
* *
22790721 AGGTCAAAATATAATTTTGGGAAAGTTTAAG
1 -GGTCAAAATATAATTTTAGAAAAGTTT-AG
* * *
22790752 GGTCAAAACATAATTTTAAAAAATTTTAGG
1 GGTCAAAATATAATTTTAGAAAAGTTTA-G
* *
22790782 GGTTAAAATATAATTTT-GAAAAATTTAAG
1 GGTCAAAATATAATTTTAGAAAAGTTT-AG
* * * *
22790811 GGTTAAAATGTAATTTTGGGAAAGTTTAAG
1 GGTCAAAATATAATTTTAGAAAAGTTT-AG
* * *
22790841 GGTCAAAATGTAATTTTAAAAAAATTTAG
1 GGTCAAAATATAATTTTAGAAAAGTTTAG
*
22790870 GTGTCAAAATCTAATTTT
1 G-GTCAAAATATAATTTT
22790888 TAAGAAGTTC
Statistics
Matches: 211, Mismatches: 34, Indels: 20
0.80 0.13 0.08
Matches are distributed among these distances:
28 4 0.02
29 72 0.34
30 114 0.54
31 16 0.08
32 4 0.02
33 1 0.00
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.36
Consensus pattern (29 bp):
GGTCAAAATATAATTTTAGAAAAGTTTAG
Found at i:22790896 original size:60 final size:59
Alignment explanation
Indices: 22790603--22790896 Score: 179
Period size: 59 Copynumber: 4.9 Consensus size: 59
22790593 AAAAATACGA
* * * * * * **
22790603 GGTCAAAACATAATTTTGTAAAAGTTTAGGGGTAAAAAATGTAA-TTTTAGGAAAATTAAG
1 GGTCAAAATATAATTTTG-AAAAATTTAAGGGT-CAAAATCTAATTTTTAAGAAGTTTAAG
* * * * * * * * *
22790663 GGTTAAAATGTGATTTTAGAGAAGTTT-AGGGTTAAATTATGA-TTTTAGAGAAGTTT-AG
1 GGTCAAAATATAATTTT-GAAAAATTTAAGGGTCAAAATCTAATTTTTA-AGAAGTTTAAG
* * * * * *
22790721 AGGTCAAAATATAATTTTGGGAAAGTTTAAGGGTCAAAA-CATAATTTTAAAAAATTTTAGG
1 -GGTCAAAATATAATTTT-GAAAAATTTAAGGGTCAAAATC-TAATTTTTAAGAAGTTTAAG
* * * **
22790782 GGTTAAAATATAATTTTGAAAAATTTAAGGGTTAAAATGTAA-TTTTGGGAAAGTTTAAG
1 GGTCAAAATATAATTTTGAAAAATTTAAGGGTCAAAATCTAATTTTTAAG-AAGTTTAAG
* *
22790841 GGTCAAAATGTAATTTTAAAAAAATTT-AGGTGTCAAAATCTAATTTTTAAGAAGTT
1 GGTCAAAATATAATTTT-GAAAAATTTAAGG-GTCAAAATCTAATTTTTAAGAAGTT
22790897 CGGGCTTAAT
Statistics
Matches: 177, Mismatches: 45, Indels: 24
0.72 0.18 0.10
Matches are distributed among these distances:
58 16 0.09
59 75 0.42
60 75 0.42
61 11 0.06
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.36
Consensus pattern (59 bp):
GGTCAAAATATAATTTTGAAAAATTTAAGGGTCAAAATCTAATTTTTAAGAAGTTTAAG
Found at i:22792374 original size:11 final size:11
Alignment explanation
Indices: 22792358--22792383 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22792348 AATTTTAAAA
22792358 TTTATTTTGGG
1 TTTATTTTGGG
22792369 TTTATTTTGGG
1 TTTATTTTGGG
22792380 TTTA
1 TTTA
22792384 AATGTCGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (11 bp):
TTTATTTTGGG
Found at i:22793025 original size:39 final size:38
Alignment explanation
Indices: 22792975--22793555 Score: 311
Period size: 39 Copynumber: 14.9 Consensus size: 38
22792965 AGGGATTGCC
*
22792975 TGATAGTAATCTGCCCCAGGCTCGGGGTAAAAGATCGAA
1 TGAT-GTAATCTGCCCCAGGCTCGGGGTAAAAGATCGGA
* * * * * * *
22793014 TAACTGCAATCTGCCCTAGGCTCGAGGTAAGAGATTGGC
1 TGA-TGTAATCTGCCCCAGGCTCGGGGTAAAAGATCGGA
* * * * * * *
22793053 TAATGGTGATCTGTCCCAAGCTCAGGGTAAGAGATCGGT
1 TGAT-GTAATCTGCCCCAGGCTCGGGGTAAAAGATCGGA
* *
22793092 TGATGGTGATCTG-CCCAGGCTCGGGGTAAAAGATTGGA
1 TGAT-GTAATCTGCCCCAGGCTCGGGGTAAAAGATCGGA
* * * * * **
22793130 TGGTTGTAATCTACCCCAGTCTCGGGGTAAGAGATTGCC
1 T-GATGTAATCTGCCCCAGGCTCGGGGTAAAAGATCGGA
* * * * *
22793169 TGATGGTGATCTGACCCAGGCTCGAGGTAAAAAATCAGA
1 TGAT-GTAATCTGCCCCAGGCTCGGGGTAAAAGATCGGA
* * * * * * *
22793208 TGGCTGCAATCTACCTCAGGCTCGGGGTAAGAGATTGGC
1 T-GATGTAATCTGCCCCAGGCTCGGGGTAAAAGATCGGA
* * *
22793247 TGATGGTAAGCTGCCCCAAGCTTGGGGTAAAAGATCGGA
1 TGAT-GTAATCTGCCCCAGGCTCGGGGTAAAAGATCGGA
* * * * * * *
22793286 GGTCTGCAATCTGCCCCAGGCTCGAGGTAAGAGATTGGC
1 TG-ATGTAATCTGCCCCAGGCTCGGGGTAAAAGATCGGA
* * * ** **
22793325 TGATGGTGATCTGCCCTAAGCTCCAGGTAAAAGATCTAA
1 TGAT-GTAATCTGCCCCAGGCTCGGGGTAAAAGATCGGA
* * * * * *
22793364 GTGCTGCAATCTACCCCAGGCTCGGGGTAAGAGATTGGC
1 -TGATGTAATCTGCCCCAGGCTCGGGGTAAAAGATCGGA
* * *
22793403 T-ATTAGTGATCTGCCCCAAGCTCAGGGTAAAAGATCGGA
1 TGA-T-GTAATCTGCCCCAGGCTCGGGGTAAAAGATCGGA
* ** * * *
22793442 TGGCTGTAATCTGCCCCAGGCTTAGGGTAAGAGATTGGC
1 T-GATGTAATCTGCCCCAGGCTCGGGGTAAAAGATCGGA
* * *
22793481 TGATAGTGATCTGCCTCAGGCTTGGGGTAAAAGATCGGA
1 TGAT-GTAATCTGCCCCAGGCTCGGGGTAAAAGATCGGA
* * * * * *
22793520 TGACTATGATCTGCCCCATGATCGAGGTAAGAGATC
1 TGA-TGTAATCTGCCCCAGGCTCGGGGTAAAAGATC
22793556 AGAATCTTCA
Statistics
Matches: 397, Mismatches: 129, Indels: 32
0.71 0.23 0.06
Matches are distributed among these distances:
38 37 0.09
39 351 0.88
40 9 0.02
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (38 bp):
TGATGTAATCTGCCCCAGGCTCGGGGTAAAAGATCGGA
Found at i:22793300 original size:194 final size:195
Alignment explanation
Indices: 22792923--22793323 Score: 470
Period size: 194 Copynumber: 2.1 Consensus size: 195
22792913 GATTTTTTTT
* ** *
22792923 GTAAGAGATTGGATAGTTGCAATCTGCCCTTGTCGCGGGGCAAGGGATTGCCTGATAGTAATCTG
1 GTAAGAGATTGGATAGTTGCAATCTACCCCAGTCGCGGGGCAAGAGATTGCCTGATAGTAATCTG
* * * *
22792988 CCCCAGGCTCGGGGTAAAAGATCGAATAACTGCAATCTGCCCTAGGCTCGAGGTAAGAGATTGGC
66 ACCCAGGCTCGAGGTAAAAAATCGAATAACTGCAATCTACCCTAGGCTCGAGGTAAGAGATTGGC
* * * * * * *
22793053 TAATGGTGATCTGTCCCAAGCTCAGGGTAAGAGATCGGTTGATGGTGATCTG-CCCAGGCTCGGG
131 TAATGGTAAGCTGCCCCAAGCTCAGGGTAAAAGATCGGTAGATGCTGATCTGCCCCAGGCTCGAG
* * * * * * *
22793117 GTAAAAGATTGGATGGTTGTAATCTACCCCAGTCTCGGGGTAAGAGATTGCCTGATGGTGATCTG
1 GTAAGAGATTGGATAGTTGCAATCTACCCCAGTCGCGGGGCAAGAGATTGCCTGATAGTAATCTG
** *
22793182 ACCCAGGCTCGAGGTAAAAAATC-AGATGGCTGCAATCTA-CCTCAGGCTCGGGGTAAGAGATTG
66 ACCCAGGCTCGAGGTAAAAAATCGA-ATAACTGCAATCTACCCT-AGGCTCGAGGTAAGAGATTG
* ** *
22793245 GCTGATGGTAAGCTGCCCCAAGCTTGGGGTAAAAGATCGG-AGGT-CTGCAATCTGCCCCAGGCT
129 GCTAATGGTAAGCTGCCCCAAGCTCAGGGTAAAAGATCGGTAGATGCTG--ATCTGCCCCAGGCT
22793308 CGAG
192 CGAG
22793312 GTAAGAGATTGG
1 GTAAGAGATTGG
22793324 CTGATGGTGA
Statistics
Matches: 172, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
192 2 0.01
193 6 0.03
194 142 0.83
195 22 0.13
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (195 bp):
GTAAGAGATTGGATAGTTGCAATCTACCCCAGTCGCGGGGCAAGAGATTGCCTGATAGTAATCTG
ACCCAGGCTCGAGGTAAAAAATCGAATAACTGCAATCTACCCTAGGCTCGAGGTAAGAGATTGGC
TAATGGTAAGCTGCCCCAAGCTCAGGGTAAAAGATCGGTAGATGCTGATCTGCCCCAGGCTCGAG
Found at i:22793532 original size:78 final size:77
Alignment explanation
Indices: 22793061--22793554 Score: 517
Period size: 78 Copynumber: 6.4 Consensus size: 77
22793051 GCTAATGGTG
* * * * * *
22793061 ATCTGTCCCAAGCTCAGGGTAAGAGATCGGTTGATGGTGATCTGCCCAGGCTCGGGGTAAAAGAT
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCAAGCTCGGGGTAAAAGAT
* *
22793126 TGGATGGTTGTA
66 CGGATGGCTGTA
* * * * * *
22793138 ATCTACCCCAGTCTCGGGGTAAGAGATTGCCTGATGGTGATCTGACCCAGGCTCGAGGTAAAAAA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG-CCCAAGCTCGGGGTAAAAGA
* *
22793203 TCAGATGGCTGCA
65 TCGGATGGCTGTA
* * * * *
22793216 ATCTACCTCAGGCTCGGGGTAAGAGATTGGCTGATGGTAAGCTGCCCCAAGCTTGGGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG-CCCAAGCTCGGGGTAAAAGA
*
22793281 TCGGA-GGTCTGCA
65 TCGGATGG-CTGTA
* **
22793294 ATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCCAGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCC-AAGCTCGGGGTAAAAGA
* * *
22793359 TC-TAAGTGCTGCA
65 TCGGATG-GCTGTA
* * *
22793372 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCT-ATTAGTGATCTGCCCCAAGCTCAGGGTAAAAG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA-TGGTGATCTG-CCCAAGCTCGGGGTAAAAG
22793436 ATCGGATGGCTGTA
64 ATCGGATGGCTGTA
** * * *
22793450 ATCTGCCCCAGGCTTAGGGTAAGAGATTGGCTGATAGTGATCTGCCTCAGGCTTGGGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCC-CAAGCTCGGGGTAAAAGA
* * *
22793515 TCGGATGACTATG
65 TCGGATGGCTGTA
* * *
22793528 ATCTGCCCCATGATCGAGGTAAGAGAT
1 ATCTGCCCCAGGCTCGGGGTAAGAGAT
22793555 CAGAATCTTC
Statistics
Matches: 351, Mismatches: 56, Indels: 19
0.82 0.13 0.04
Matches are distributed among these distances:
77 45 0.13
78 299 0.85
79 7 0.02
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (77 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCAAGCTCGGGGTAAAAGAT
CGGATGGCTGTA
Found at i:22805350 original size:28 final size:30
Alignment explanation
Indices: 22805251--22805472 Score: 208
Period size: 30 Copynumber: 7.5 Consensus size: 30
22805241 GGTCAAAACA
* *
22805251 TAATTTTAGAA-AAGTTTAGGGGTAAAAATG
1 TAATTTT-GAAGAAGTTTAAGGGTTAAAATG
*
22805281 TAATTTT-AGGAAAG-TTAAGGGTTAAAATG
1 TAATTTTGAAG-AAGTTTAAGGGTTAAAATG
*
22805310 TAATTTTGGAGAAGTTTAA-GGTT-AAATG
1 TAATTTTGAAGAAGTTTAAGGGTTAAAATG
* * ** *
22805338 TGATTTTTAAGAAGTTTGGGGGTCAAAATG
1 TAATTTTGAAGAAGTTTAAGGGTTAAAATG
* *
22805368 TAATTTTG-AGAAAGTTTAAGGGTCAAAATA
1 TAATTTTGAAG-AAGTTTAAGGGTTAAAATG
* *
22805398 TAATTTTAGAA-AACTTTAGGGGTTAAAATG
1 TAATTTT-GAAGAAGTTTAAGGGTTAAAATG
**
22805428 TAATTTTGAA-AAACTTAAGGGTTAAAATG
1 TAATTTTGAAGAAGTTTAAGGGTTAAAATG
*
22805457 TAATTTTCAAGAAGTT
1 TAATTTTGAAGAAGTT
22805473 CGAGGCTTAA
Statistics
Matches: 156, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
28 20 0.13
29 60 0.38
30 74 0.47
31 1 0.01
32 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (30 bp):
TAATTTTGAAGAAGTTTAAGGGTTAAAATG
Found at i:22831132 original size:22 final size:23
Alignment explanation
Indices: 22831106--22831149 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
22831096 AAATTGTTAA
*
22831106 AATTGTCAATGTAA-TAAAAGTT
1 AATTGTCAATGCAACTAAAAGTT
*
22831128 AATTGTCAGTGCAACTAAAAGT
1 AATTGTCAATGCAACTAAAAGT
22831150 AATCCAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (23 bp):
AATTGTCAATGCAACTAAAAGTT
Found at i:22843783 original size:29 final size:29
Alignment explanation
Indices: 22843750--22843845 Score: 75
Period size: 31 Copynumber: 3.2 Consensus size: 29
22843740 AATAGAATGA
22843750 GTTAGAATGATGTTTTAATATTTATAAGG
1 GTTAGAATGATGTTTTAATATTTATAAGG
* * * ** ** * *
22843779 GTTAGTATTTAGGGTTCAAATAAAATAGAATGA
1 GTTAG-AATGA-TGTTTTAAT-ATTTATAA-GG
22843812 GTTAGAATGATGTTTTAATATTTATAAGG
1 GTTAGAATGATGTTTTAATATTTATAAGG
22843841 GTTAG
1 GTTAG
22843846 TATTTAGGGT
Statistics
Matches: 45, Mismatches: 18, Indels: 8
0.63 0.25 0.11
Matches are distributed among these distances:
29 11 0.24
30 8 0.18
31 12 0.27
32 8 0.18
33 6 0.13
ACGTcount: A:0.36, C:0.01, G:0.22, T:0.41
Consensus pattern (29 bp):
GTTAGAATGATGTTTTAATATTTATAAGG
Found at i:22843827 original size:62 final size:62
Alignment explanation
Indices: 22843730--22843856 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
22843720 TTTTTGATGA
22843730 GTTCAAATAAAATAGAATGAGTTAGAATGATGTTTTAATATTTATAAGGGTTAGTATTTAGG
1 GTTCAAATAAAATAGAATGAGTTAGAATGATGTTTTAATATTTATAAGGGTTAGTATTTAGG
22843792 GTTCAAATAAAATAGAATGAGTTAGAATGATGTTTTAATATTTATAAGGGTTAGTATTTAGG
1 GTTCAAATAAAATAGAATGAGTTAGAATGATGTTTTAATATTTATAAGGGTTAGTATTTAGG
22843854 GTT
1 GTT
22843857 TTAGGGTGTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.39
Consensus pattern (62 bp):
GTTCAAATAAAATAGAATGAGTTAGAATGATGTTTTAATATTTATAAGGGTTAGTATTTAGG
Done.