Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 27 of 135
Found at i:10839447 original size:16 final size:16
Alignment explanation
Indices: 10839402--10839463 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 16
10839392 ATTGAAATTG
*
10839402 AATAAAGTTGTAATAA
1 AATAAAATTGTAATAA
* *
10839418 AATAGAATAGTAATAA
1 AATAAAATTGTAATAA
* *
10839434 AATAAAATTTTAATGA
1 AATAAAATTGTAATAA
* *
10839450 AACAAAACTGTAAT
1 AATAAAATTGTAAT
10839464 TAATAATTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.58, C:0.03, G:0.10, T:0.29
Consensus pattern (16 bp):
AATAAAATTGTAATAA
Found at i:10848441 original size:23 final size:23
Alignment explanation
Indices: 10848415--10848535 Score: 156
Period size: 23 Copynumber: 5.2 Consensus size: 23
10848405 ACACTAGCGC
10848415 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
10848438 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
10848461 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
10848486 GCTCTCCGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
10848509 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
10848532 GCTC
1 GCTC
10848536 AGTACTTTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
22 4 0.05
23 62 0.72
24 1 0.01
25 16 0.19
26 3 0.03
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:10848484 original size:48 final size:46
Alignment explanation
Indices: 10848415--10848535 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
10848405 ACACTAGCGC
* *
10848415 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT-GT
*
10848461 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
*
10848509 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
10848536 AGTACTTTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
Found at i:10848564 original size:39 final size:39
Alignment explanation
Indices: 10848500--10848574 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
10848490 TCCGATTAGC
*
10848500 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
10848539 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
10848575 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:10848569 original size:23 final size:23
Alignment explanation
Indices: 10848534--10848627 Score: 95
Period size: 23 Copynumber: 4.0 Consensus size: 23
10848524 CTTTGTGTGC
*
10848534 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
10848557 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
10848580 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
*
10848605 TCAGTACTTTG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
10848627 T
1 T
10848628 TGTTCCGTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.02
21 2 0.03
22 16 0.27
23 21 0.35
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:10854893 original size:23 final size:23
Alignment explanation
Indices: 10854867--10854987 Score: 156
Period size: 23 Copynumber: 5.2 Consensus size: 23
10854857 ACACTAGCGC
10854867 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
10854890 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
10854913 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
10854938 GCTCTCCGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
10854961 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
10854984 GCTC
1 GCTC
10854988 AGTACTTTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
22 4 0.05
23 62 0.72
24 1 0.01
25 16 0.19
26 3 0.03
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:10854936 original size:48 final size:46
Alignment explanation
Indices: 10854867--10854987 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
10854857 ACACTAGCGC
* *
10854867 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT-GT
*
10854913 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
*
10854961 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
10854988 AGTACTTTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
Found at i:10855016 original size:39 final size:39
Alignment explanation
Indices: 10854952--10855026 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
10854942 TCCGATTAGC
*
10854952 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
10854991 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
10855027 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:10855021 original size:23 final size:23
Alignment explanation
Indices: 10854986--10855079 Score: 95
Period size: 23 Copynumber: 4.0 Consensus size: 23
10854976 CTTTGTGTGC
*
10854986 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
10855009 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
10855032 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
*
10855057 TCAGTACTTTG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
10855079 T
1 T
10855080 TGTTCCGTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.02
21 2 0.03
22 16 0.27
23 21 0.35
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:10857167 original size:19 final size:20
Alignment explanation
Indices: 10857143--10857188 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
10857133 AAAAAAGTTG
* *
10857143 AAAAAAAGATTGGAAAAG-A
1 AAAAAAAGACTGAAAAAGCA
*
10857162 AAAAAAAGGCTGAAAAAGCA
1 AAAAAAAGACTGAAAAAGCA
10857182 AAAAAAA
1 AAAAAAA
10857189 AAAAAAGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.72, C:0.04, G:0.17, T:0.07
Consensus pattern (20 bp):
AAAAAAAGACTGAAAAAGCA
Found at i:10858751 original size:27 final size:27
Alignment explanation
Indices: 10858721--10858776 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
10858711 TCAAATAATT
10858721 TTCAAAA-ATTGA-AAATAATTTTTAAAA
1 TTCAAAATATTGATAAA-AA-TTTTAAAA
*
10858748 TTCAAAATATTTATAAAAATTTTAAAA
1 TTCAAAATATTGATAAAAATTTTAAAA
10858775 TT
1 TT
10858777 TGCATTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 17 0.65
28 6 0.23
29 3 0.12
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (27 bp):
TTCAAAATATTGATAAAAATTTTAAAA
Found at i:10858766 original size:19 final size:19
Alignment explanation
Indices: 10858713--10858768 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
10858703 AAAAAAAATC
*
10858713 AAATAATTTTCAAAAATTGA
1 AAATAATTTT-AAAAATTCA
*
10858733 AAATAATTTTTAAAATTCA
1 AAATAATTTTAAAAATTCA
10858752 AAAT-ATTTATAAAAATT
1 AAATAATTT-TAAAAATT
10858769 TTAAAATTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.12
19 18 0.56
20 10 0.31
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATAATTTTAAAAATTCA
Found at i:10861077 original size:19 final size:21
Alignment explanation
Indices: 10861049--10861091 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
10861039 TTTAGGTTTT
10861049 TTTAAAGAAA-ATTTT-ATAA
1 TTTAAAGAAACATTTTAATAA
* *
10861068 TTTAATGAAACCTTTTAATAA
1 TTTAAAGAAACATTTTAATAA
10861089 TTT
1 TTT
10861092 TATGGTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 4 0.20
21 7 0.35
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (21 bp):
TTTAAAGAAACATTTTAATAA
Found at i:10868233 original size:18 final size:18
Alignment explanation
Indices: 10868210--10868279 Score: 106
Period size: 18 Copynumber: 3.9 Consensus size: 18
10868200 AAAATGCAGG
*
10868210 AAATGATGTTAACATTTT
1 AAATGATGTTAACATTTC
*
10868228 AAATGATGTTAACACTTC
1 AAATGATGTTAACATTTC
10868246 AAATGATGTTCAA-ATTTC
1 AAATGATGTT-AACATTTC
10868264 AAATGATGTTAACATT
1 AAATGATGTTAACATT
10868280 GACGGAAACG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
17 2 0.04
18 43 0.91
19 2 0.04
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (18 bp):
AAATGATGTTAACATTTC
Found at i:10868802 original size:72 final size:72
Alignment explanation
Indices: 10868711--10869108 Score: 665
Period size: 72 Copynumber: 5.6 Consensus size: 72
10868701 AATGCTAAAC
* *
10868711 TAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTATG
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTATG
10868776 TGTAATT
66 TGTAATT
10868783 TAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTATG
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTATG
*
10868848 TGTAATC
66 TGTAATT
*
10868855 TAATTTTATC-ATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTATG
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTATG
*
10868919 TGCAATT
66 TGTAATT
** *
10868926 TAGTTTTATCAATAGTTGTTTATGTTTTATTCTTGGATATTGAATTTATGTTCCACTTATTTATG
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTATG
* *
10868991 TGCAATC
66 TGTAATT
*
10868998 TAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTATG
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTATG
*
10869063 TGTATTT
66 TGTAATT
*
10869070 TAGTTTTATCAATAGTTGTTTATGTTTGATT-TTGGATAT
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATAT
10869109 AAAATCTGTT
Statistics
Matches: 306, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
71 76 0.25
72 230 0.75
ACGTcount: A:0.23, C:0.06, G:0.16, T:0.56
Consensus pattern (72 bp):
TAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTATG
TGTAATT
Found at i:10868893 original size:143 final size:144
Alignment explanation
Indices: 10868714--10869108 Score: 695
Period size: 143 Copynumber: 2.8 Consensus size: 144
10868704 GCTAAACTAG
*
10868714 TTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTATGTGT
1 TTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTATGTGT
* *
10868779 AATTTAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATT
66 AATTTAGTTTTATCAATAGTTGTTTATGTTTGATTCTTGGATATTGAATTTATGTTCCACTTATT
*
10868844 TATGTGTAATCTAA
131 TATGTGCAATCTAA
* *
10868858 TTTTATC-ATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTATGTGC
1 TTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTATGTGT
*
10868922 AATTTAGTTTTATCAATAGTTGTTTATGTTTTATTCTTGGATATTGAATTTATGTTCCACTTATT
66 AATTTAGTTTTATCAATAGTTGTTTATGTTTGATTCTTGGATATTGAATTTATGTTCCACTTATT
*
10868987 TATGTGCAATCTAG
131 TATGTGCAATCTAA
10869001 TTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTATGTGT
1 TTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTATGTGT
*
10869066 ATTTTAGTTTTATCAATAGTTGTTTATGTTTGATT-TTGGATAT
66 AATTTAGTTTTATCAATAGTTGTTTATGTTTGATTCTTGGATAT
10869109 AAAATCTGTT
Statistics
Matches: 238, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
143 143 0.60
144 95 0.40
ACGTcount: A:0.23, C:0.06, G:0.16, T:0.56
Consensus pattern (144 bp):
TTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTATGTGT
AATTTAGTTTTATCAATAGTTGTTTATGTTTGATTCTTGGATATTGAATTTATGTTCCACTTATT
TATGTGCAATCTAA
Found at i:10869107 original size:215 final size:215
Alignment explanation
Indices: 10868711--10869108 Score: 672
Period size: 215 Copynumber: 1.9 Consensus size: 215
10868701 AATGCTAAAC
* * *
10868711 TAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTATG
1 TAGTTTTATCAATAGTTGTTTATGTTTGATTCTTGGATATTGAATTTATATTCCACTTATTTATG
* *
10868776 TGTAATTTAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTT
66 TGCAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTT
*
10868841 ATTTATGTGTAATCTAATTTTATCATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTT
131 ATTTATGTGTAATCTAATTTTATCATAGTTGTTTATGTTTGATTCTTGGATATTGAATTTATGTT
10868906 CTACTTATTTATGTGCAATT
196 CTACTTATTTATGTGCAATT
* *
10868926 TAGTTTTATCAATAGTTGTTTATGTTTTATTCTTGGATATTGAATTTATGTTCCACTTATTTATG
1 TAGTTTTATCAATAGTTGTTTATGTTTGATTCTTGGATATTGAATTTATATTCCACTTATTTATG
*
10868991 TGCAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTT
66 TGCAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTT
* * *
10869056 ATTTATGTGTATTTTAGTTTTATCAATAGTTGTTTATGTTTGATT-TTGGATAT
131 ATTTATGTGTAATCTAATTTTATC-ATAGTTGTTTATGTTTGATTCTTGGATAT
10869109 AAAATCTGTT
Statistics
Matches: 170, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
215 151 0.89
216 19 0.11
ACGTcount: A:0.23, C:0.06, G:0.16, T:0.56
Consensus pattern (215 bp):
TAGTTTTATCAATAGTTGTTTATGTTTGATTCTTGGATATTGAATTTATATTCCACTTATTTATG
TGCAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTT
ATTTATGTGTAATCTAATTTTATCATAGTTGTTTATGTTTGATTCTTGGATATTGAATTTATGTT
CTACTTATTTATGTGCAATT
Found at i:10870825 original size:14 final size:13
Alignment explanation
Indices: 10870807--10870847 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
10870797 ACAACTATGC
10870807 TAATATTTAAATA
1 TAATATTTAAATA
*
10870820 TAAATATTTAATTA
1 T-AATATTTAAATA
*
10870834 TTATATTTAAATA
1 TAATATTTAAATA
10870847 T
1 T
10870848 TTAAAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TAATATTTAAATA
Found at i:10870856 original size:9 final size:8
Alignment explanation
Indices: 10870808--10870934 Score: 60
Period size: 8 Copynumber: 16.8 Consensus size: 8
10870798 CAACTATGCT
10870808 AATATTTA
1 AATATTTA
10870816 AATA--TA
1 AATATTTA
10870822 AATATTTA
1 AATATTTA
*
10870830 ATTA-TT-
1 AATATTTA
10870836 -ATATTTA
1 AATATTTA
10870843 AATATTTA
1 AATATTTA
*
10870851 AA-ATATA
1 AATATTTA
*
10870858 ATCTATTTA
1 A-ATATTTA
*
10870867 AATTTTTA
1 AATATTTA
*
10870875 AATAATT-
1 AATATTTA
10870882 AATA-TTA
1 AATATTTA
* *
10870889 ATTACTTAGA
1 AATA-TT-TA
10870899 AATATTTA
1 AATATTTA
10870907 AA-A-TT-
1 AATATTTA
10870912 AATATTTCA
1 AATATTT-A
* *
10870921 TATATTAA
1 AATATTTA
10870929 AATATT
1 AATATT
10870935 AACAATAAGT
Statistics
Matches: 88, Mismatches: 16, Indels: 30
0.66 0.12 0.22
Matches are distributed among these distances:
5 4 0.05
6 13 0.15
7 17 0.19
8 37 0.42
9 13 0.15
10 4 0.05
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (8 bp):
AATATTTA
Found at i:10870907 original size:32 final size:31
Alignment explanation
Indices: 10870808--10870917 Score: 83
Period size: 32 Copynumber: 3.7 Consensus size: 31
10870798 CAACTATGCT
*
10870808 AATATTTAAAT-ATAAATATTTAAT-TATT--
1 AATATTTAAATAATTAATA-TTAATCTATTGA
* * *
10870836 -ATATTTAAATATTTAAAATATAATCTATTTA
1 AATATTTAAATAATTAATAT-TAATCTATTGA
*
10870867 AATTTTTAAATAATTAATATTAAT-TACTTAGA
1 AATATTTAAATAATTAATATTAATCTA-TT-GA
10870899 AATATTT-AA-AATTAATATT
1 AATATTTAAATAATTAATATT
10870918 TCATATATTA
Statistics
Matches: 66, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
27 11 0.17
28 8 0.12
29 4 0.06
30 12 0.18
31 8 0.12
32 23 0.35
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (31 bp):
AATATTTAAATAATTAATATTAATCTATTGA
Found at i:10871146 original size:88 final size:88
Alignment explanation
Indices: 10870997--10871174 Score: 356
Period size: 88 Copynumber: 2.0 Consensus size: 88
10870987 TTAACTAATT
10870997 TGAACATTATTTAAATGTATAATTATTACTTTATAGTACCATGTCTAAAATAGACATTTCATTTC
1 TGAACATTATTTAAATGTATAATTATTACTTTATAGTACCATGTCTAAAATAGACATTTCATTTC
10871062 TCAAAAGCACTTTTTGATAGTAA
66 TCAAAAGCACTTTTTGATAGTAA
10871085 TGAACATTATTTAAATGTATAATTATTACTTTATAGTACCATGTCTAAAATAGACATTTCATTTC
1 TGAACATTATTTAAATGTATAATTATTACTTTATAGTACCATGTCTAAAATAGACATTTCATTTC
10871150 TCAAAAGCACTTTTTGATAGTAA
66 TCAAAAGCACTTTTTGATAGTAA
10871173 TG
1 TG
10871175 TTAAACAATC
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 90 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (88 bp):
TGAACATTATTTAAATGTATAATTATTACTTTATAGTACCATGTCTAAAATAGACATTTCATTTC
TCAAAAGCACTTTTTGATAGTAA
Found at i:10871262 original size:14 final size:13
Alignment explanation
Indices: 10871237--10871261 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10871227 TTTTCCACCA
10871237 CACTTTTTAAAAG
1 CACTTTTTAAAAG
10871250 CACTTTTTAAAA
1 CACTTTTTAAAA
10871262 ACAATGCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
CACTTTTTAAAAG
Found at i:10871672 original size:24 final size:24
Alignment explanation
Indices: 10871636--10871690 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 24
10871626 GTAAAAGAGA
*
10871636 AAAAAAAGGTTAAAAGTACAT-AAAAG
1 AAAAAAA-GTTAAAA-TAC-TCAAAAC
10871662 AAAAAAA-TTAAAATACTCAAAAC
1 AAAAAAAGTTAAAATACTCAAAAC
10871685 AAAAAA
1 AAAAAA
10871691 TATAGTGATC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.04
23 13 0.48
24 6 0.22
26 7 0.26
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.15
Consensus pattern (24 bp):
AAAAAAAGTTAAAATACTCAAAAC
Found at i:10874400 original size:2 final size:2
Alignment explanation
Indices: 10874393--10874426 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10874383 ATGCATATTA
10874393 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10874427 ACACACACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:10883835 original size:16 final size:18
Alignment explanation
Indices: 10883809--10883841 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10883799 TTAATTTAAA
10883809 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
10883826 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
10883842 CCTAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:10884608 original size:12 final size:12
Alignment explanation
Indices: 10884591--10884625 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
10884581 ATCATTACTA
10884591 AATAAACGAGTC
1 AATAAACGAGTC
*
10884603 AATAAACGAGCC
1 AATAAACGAGTC
*
10884615 AATAGACGAGT
1 AATAAACGAGT
10884626 TTGTTTGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.49, C:0.17, G:0.20, T:0.14
Consensus pattern (12 bp):
AATAAACGAGTC
Found at i:10892389 original size:21 final size:21
Alignment explanation
Indices: 10892348--10892390 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10892338 AAGTATAATT
**
10892348 TCTACCGATACAAGTCATCCA
1 TCTACCGATACAAAACATCCA
10892369 TCTACCGATACTAAAAC-TCCA
1 TCTACCGATAC-AAAACATCCA
10892390 T
1 T
10892391 AGAGCTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.35, C:0.33, G:0.07, T:0.26
Consensus pattern (21 bp):
TCTACCGATACAAAACATCCA
Found at i:10892486 original size:21 final size:24
Alignment explanation
Indices: 10892436--10892492 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 24
10892426 CAAGTATGCA
10892436 AACTACCGATACTTCTATACATAC
1 AACTACCGATACTTCTATACATAC
**
10892460 AACTACCGATAC-TC-ATA-ATTT
1 AACTACCGATACTTCTATACATAC
10892481 AACTACCGATAC
1 AACTACCGATAC
10892493 AACTCAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 14 0.45
22 3 0.10
23 2 0.06
24 12 0.39
ACGTcount: A:0.39, C:0.28, G:0.05, T:0.28
Consensus pattern (24 bp):
AACTACCGATACTTCTATACATAC
Found at i:10892689 original size:39 final size:39
Alignment explanation
Indices: 10892635--10892714 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
10892625 AACTTTTAAC
10892635 TATGTATTCAAGACAACACCAATACAAGATTTATGTCAA
1 TATGTATTCAAGACAACACCAATACAAGATTTATGTCAA
10892674 TATGTATTCAAGACAACACCAATACAAGATTTATGTCAA
1 TATGTATTCAAGACAACACCAATACAAGATTTATGTCAA
10892713 TA
1 TA
10892715 CAAGGTACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (39 bp):
TATGTATTCAAGACAACACCAATACAAGATTTATGTCAA
Found at i:10904637 original size:21 final size:21
Alignment explanation
Indices: 10904608--10904648 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10904598 AATTATGTAA
10904608 TTTGAATTTATAAACTTTATG
1 TTTGAATTTATAAACTTTATG
* * *
10904629 TTTGGATTTCTAAATTTTAT
1 TTTGAATTTATAAACTTTAT
10904649 ATTTAAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (21 bp):
TTTGAATTTATAAACTTTATG
Found at i:10910558 original size:5 final size:5
Alignment explanation
Indices: 10910548--10910572 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10910538 TTTATGCAAA
10910548 ATCCT ATCCT ATCCT ATCCT ATCCT
1 ATCCT ATCCT ATCCT ATCCT ATCCT
10910573 CTCACATTCC
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:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (5 bp):
ATCCT
Found at i:10912160 original size:6 final size:6
Alignment explanation
Indices: 10912151--10912218 Score: 77
Period size: 6 Copynumber: 11.3 Consensus size: 6
10912141 TTTTAATTTT
*
10912151 ATTTAA ATTTAA ATTT-A TTTTAA ATTTAA ATTTAA TTATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA --ATTTAA ATTTAA
* *
10912199 CTTTGA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA AT
10912219 AAAAATTAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
5 8 0.15
6 39 0.74
8 6 0.11
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (6 bp):
ATTTAA
Found at i:10912172 original size:17 final size:16
Alignment explanation
Indices: 10912142--10912215 Score: 89
Period size: 17 Copynumber: 4.6 Consensus size: 16
10912132 TAAATTGATT
*
10912142 TTTAATTTTATTTAAA
1 TTTAAATTTATTTAAA
10912158 TTTAAATTTATTTTAAA
1 TTTAAATTTA-TTTAAA
*
10912175 TTTAAATTTAATT--A
1 TTTAAATTTATTTAAA
*
10912189 TTTAAATTTACTTTGAA
1 TTTAAATTTA-TTTAAA
10912206 TTTAAATTTA
1 TTTAAATTTA
10912216 AATAAAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
14 11 0.22
15 2 0.04
16 11 0.22
17 27 0.53
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:10912365 original size:13 final size:14
Alignment explanation
Indices: 10912328--10912375 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
10912318 TCCGTTTTCA
10912328 GCCCAATTACAAAG
1 GCCCAATTACAAAG
*
10912342 GCCCAATTACAAAT
1 GCCCAATTACAAAG
* *
10912356 GTCC-ATTAC-ATG
1 GCCCAATTACAAAG
10912368 GCCCAATT
1 GCCCAATT
10912376 GGCCCAAACC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 4 0.14
13 8 0.29
14 16 0.57
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.23
Consensus pattern (14 bp):
GCCCAATTACAAAG
Found at i:10914104 original size:30 final size:30
Alignment explanation
Indices: 10914063--10914290 Score: 291
Period size: 30 Copynumber: 7.6 Consensus size: 30
10914053 CCCTAAATTA
*
10914063 TCCAGAAATTACATTTTAACCCTAAAACTTT
1 TCCA-AAATTACATTTTAACCCCAAAACTTT
** *
10914094 TTTAAAATTACATTTTAACCCTAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
*
10914124 TCCAGAATTACATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
*
10914154 TCCAAAATTACATTTTGACCCCAAAAC-TT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
10914183 TCCAAAAATTACATTTTAACCCCAAAACTTT
1 TCC-AAAATTACATTTTAACCCCAAAACTTT
* *
10914214 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* * * *
10914244 ACCAAAATTACCATTTTACCCCCGAATCTTT
1 TCCAAAATTA-CATTTTAACCCCAAAACTTT
*
10914275 T--AAAATTCCATTTTAA
1 TCCAAAATTACATTTTAA
10914291 ACCCTGATTT
Statistics
Matches: 174, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
28 7 0.04
29 11 0.06
30 134 0.77
31 22 0.13
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (30 bp):
TCCAAAATTACATTTTAACCCCAAAACTTT
Found at i:10914311 original size:59 final size:59
Alignment explanation
Indices: 10914247--10914503 Score: 347
Period size: 59 Copynumber: 4.4 Consensus size: 59
10914237 AAACTTTACC
* * * *
10914247 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTAAACCCTGATTTCACCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
* * **
10914306 AAAATTACCATTTTGCCCCCAAAGCTTCTAAAATTCCA-TTTTAACCCCGATTTCACTA
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
* * *
10914364 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCATCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
* * * *
10914423 AAAATTACTACTTTACCCTCGAAGCTTCTAAAATTCCATTTTTTAACCCCGATTACACC-
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCA-TTTTTAACCCCGATTTCACCG
*
10914482 AAAATTACCATTTTCCCCCCGA
1 AAAATTACCATTTTACCCCCGA
10914504 GTATCCATAA
Statistics
Matches: 170, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
58 50 0.29
59 102 0.60
60 18 0.11
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
Found at i:10914353 original size:29 final size:29
Alignment explanation
Indices: 10914129--10914464 Score: 113
Period size: 30 Copynumber: 11.4 Consensus size: 29
10914119 ACTTTTCCAG
* * *
10914129 AATTA-CATTTTAACCCCAAAACTTTTCCAA
1 AATTACCATTTT-ACCCCCAAA-TCTTCTAA
* *
10914159 AATTA-CATTTTGA-CCCCAAAACTTTCCAAA
1 AATTACCATTTT-ACCCCCAAATC-TT-CTAA
* * *
10914189 AATTA-CATTTTAACCCCAAAACTTTTCCAA
1 AATTACCATTTT-ACCCCCAAA-TCTTCTAA
* * *
10914219 AATTA-TATTTTGA-CCCCAAAACTTTACCAA
1 AATTACCATTTT-ACCCCCAAATC-TT-CTAA
* *
10914249 AATTACCATTTTACCCCCGAATCTTTTAA
1 AATTACCATTTTACCCCCAAATCTTCTAA
** ** *
10914278 AATT-CCATTTTAAACCCTGAT-TTCACCGAA
1 AATTACCATTTTACCCCCAAATCTT---CTAA
* *
10914308 AATTACCATTTTGCCCCCAAAGCTTCTAA
1 AATTACCATTTTACCCCCAAATCTTCTAA
* *
10914337 AATT-CCATTTTAACCCC-GAT-TTCACTAAA
1 AATTACCATTTTACCCCCAAATCTT--CT-AA
* *
10914366 AATTACCATTTTACCCCCGAATCTTTTAA
1 AATTACCATTTTACCCCCAAATCTTCTAA
* ** * *
10914395 AATT-CCATTTTTAACCCCGATTTCATCGAA
1 AATTACCA-TTTT-ACCCCCAAATCTTCTAA
* * * * *
10914425 AATTACTACTTTACCCTCGAAGCTTCTAA
1 AATTACCATTTTACCCCCAAATCTTCTAA
10914454 AATT-CCATTTT
1 AATTACCATTTT
10914465 TTAACCCCGA
Statistics
Matches: 225, Mismatches: 59, Indels: 46
0.68 0.18 0.14
Matches are distributed among these distances:
26 2 0.01
27 3 0.01
28 34 0.15
29 58 0.26
30 89 0.40
31 35 0.16
32 4 0.02
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.35
Consensus pattern (29 bp):
AATTACCATTTTACCCCCAAATCTTCTAA
Found at i:10914383 original size:117 final size:117
Alignment explanation
Indices: 10914247--10914503 Score: 390
Period size: 117 Copynumber: 2.2 Consensus size: 117
10914237 AAACTTTACC
*
10914247 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTAAACCCTGATTTCACCGAAAATT
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTAAACCCCGATTTCACCGAAAATT
* * *
10914312 ACCATTTTGCCCCCAAAGCTTCTAAAATTCCA-TTTTAACCCCGATTTCACTA
66 ACCACTTTACCCCCAAAGCTTCTAAAATTCCATTTTTAACCCCGATTACAC-A
* *
10914364 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCATCGAAAATT
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTAAACCCCGATTTCACCGAAAATT
* * * *
10914429 ACTACTTTACCCTCGAAGCTTCTAAAATTCCATTTTTTAACCCCGATTACACC
66 ACCACTTTACCCCCAAAGCTTCTAAAATTCCA-TTTTTAACCCCGATTACACA
*
10914482 AAAATTACCATTTTCCCCCCGA
1 AAAATTACCATTTTACCCCCGA
10914504 GTATCCATAA
Statistics
Matches: 127, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
117 89 0.70
118 21 0.17
119 17 0.13
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (117 bp):
AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTAAACCCCGATTTCACCGAAAATT
ACCACTTTACCCCCAAAGCTTCTAAAATTCCATTTTTAACCCCGATTACACA
Found at i:10914427 original size:30 final size:29
Alignment explanation
Indices: 10914276--10914428 Score: 105
Period size: 29 Copynumber: 5.2 Consensus size: 29
10914266 CGAATCTTTT
* *
10914276 AAAATTCCATTTTAAACCCTGATTTCACCG
1 AAAATTCCATTTT-AACCCCGATTTCATCG
* * *** * *
10914306 AAAATTACCATTTT-GCCCCCAAAGCTTCT
1 AAAATT-CCATTTTAACCCCGATTTCATCG
*
10914335 AAAATTCCATTTTAACCCCGATTTCA-CTA
1 AAAATTCCATTTTAACCCCGATTTCATC-G
* * * **
10914364 AAAATTACCATTTTACCCCCGA-ATCTTTT
1 AAAATT-CCATTTTAACCCCGATTTCATCG
10914393 AAAATTCCATTTTTAACCCCGATTTCATCG
1 AAAATTCCA-TTTTAACCCCGATTTCATCG
10914423 AAAATT
1 AAAATT
10914429 ACTACTTTAC
Statistics
Matches: 90, Mismatches: 26, Indels: 14
0.69 0.20 0.11
Matches are distributed among these distances:
28 11 0.12
29 43 0.48
30 29 0.32
31 7 0.08
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAATTCCATTTTAACCCCGATTTCATCG
Found at i:10915725 original size:27 final size:26
Alignment explanation
Indices: 10915668--10915719 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
10915658 GGTTTCGTCA
*
10915668 ATTATTACTAAAATAAATTTGTTAAG
1 ATTATAACTAAAATAAATTTGTTAAG
* *
10915694 ATTATAACTCAAAATACATTTTTTAA
1 ATTATAACT-AAAATAAATTTGTTAA
10915720 AGTTATTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (26 bp):
ATTATAACTAAAATAAATTTGTTAAG
Found at i:10916945 original size:27 final size:27
Alignment explanation
Indices: 10916915--10916974 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
10916905 CTTGCAAGGT
* *
10916915 TTCTTTTATAGTTC-CTCATGAAGGCTA
1 TTCTTTTAGAGTTCGC-CACGAAGGCTA
10916942 TTCTTTTAGAGTTCGCCACGAAGGCTA
1 TTCTTTTAGAGTTCGCCACGAAGGCTA
10916969 TTCTTT
1 TTCTTT
10916975 CCTGTTGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (27 bp):
TTCTTTTAGAGTTCGCCACGAAGGCTA
Found at i:10917304 original size:27 final size:27
Alignment explanation
Indices: 10917274--10917340 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
10917264 TTCGCCACAG
10917274 AGGCTATTCTTTCAGAGTTCATCACGA
1 AGGCTATTCTTTCAGAGTTCATCACGA
*
10917301 AGGCTATTCTTTTAGAGTTCATCACGA
1 AGGCTATTCTTTCAGAGTTCATCACGA
*
10917328 AGTCTATTCTTTC
1 AGGCTATTCTTTC
10917341 TTGTCGTGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (27 bp):
AGGCTATTCTTTCAGAGTTCATCACGA
Found at i:10921592 original size:20 final size:20
Alignment explanation
Indices: 10921548--10921592 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
10921538 GTCGGTGTAG
10921548 TTTTTTTTTTCATATTTCAT
1 TTTTTTTTTTCATATTTCAT
*
10921568 ATTTTTTTTTCAT-TTT-AGT
1 TTTTTTTTTTCATATTTCA-T
10921587 TTTTTT
1 TTTTTT
10921593 ATTTAATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 9 0.41
20 12 0.55
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTTTTTTTCATATTTCAT
Found at i:10921604 original size:19 final size:19
Alignment explanation
Indices: 10921569--10921610 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
10921559 ATATTTCATA
* *
10921569 TTTTTTTTTCATTTTAG-T
1 TTTTTTTTTAATCTTAGAT
10921587 TTTTTTATTTAATCTTAGAT
1 TTTTTT-TTTAATCTTAGAT
10921607 TTTT
1 TTTT
10921611 CGATAATTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 9 0.45
20 5 0.25
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTTTTTTAATCTTAGAT
Found at i:10921983 original size:18 final size:20
Alignment explanation
Indices: 10921960--10921998 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
10921950 TAAAAATTAC
10921960 AGTTTT-TTT-TTAAAAAAA
1 AGTTTTCTTTCTTAAAAAAA
10921978 AGTTTTGCTTTCTTAAAAAAA
1 AGTTTT-CTTTCTTAAAAAAA
10921999 TAAAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (20 bp):
AGTTTTCTTTCTTAAAAAAA
Found at i:10922823 original size:10 final size:11
Alignment explanation
Indices: 10922798--10922822 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10922788 ACATACTTTT
10922798 AAAATTAATAA
1 AAAATTAATAA
10922809 AAAATTAATAA
1 AAAATTAATAA
10922820 AAA
1 AAA
10922823 TAGAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATTAATAA
Found at i:10923356 original size:10 final size:10
Alignment explanation
Indices: 10923341--10923374 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10923331 AGTAATTTCC
10923341 TAAAAAATAT
1 TAAAAAATAT
10923351 TAAAAAATCAT
1 TAAAAAAT-AT
*
10923362 AAAAAAATAT
1 TAAAAAATAT
10923372 TAA
1 TAA
10923375 GCATTATGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:10945319 original size:18 final size:19
Alignment explanation
Indices: 10945273--10945326 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
10945263 AAATTATTGC
10945273 AAATTATAAAAGATATAGA
1 AAATTATAAAAGATATAGA
* *
10945292 AAATTTTAAATG-TATA-A
1 AAATTATAAAAGATATAGA
*
10945309 AAACTTATAAAAAATATA
1 AAA-TTATAAAAGATATA
10945327 TAATTTATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 14 0.50
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (19 bp):
AAATTATAAAAGATATAGA
Found at i:10957404 original size:13 final size:13
Alignment explanation
Indices: 10957386--10957410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10957376 AAGTTGTGAT
10957386 TTTTTAATTTTAC
1 TTTTTAATTTTAC
10957399 TTTTTAATTTTA
1 TTTTTAATTTTA
10957411 TGTTAACTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTAATTTTAC
Found at i:10957468 original size:5 final size:5
Alignment explanation
Indices: 10957460--10957497 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
10957450 AGTTTAGTTA
*
10957460 TTTAT TTTAT TTTAT TTTAT TTGAAT TTTA- TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TT-TAT TTTAT TTTAT TTT
10957498 TTCACGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.14
5 21 0.72
6 4 0.14
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:10957489 original size:11 final size:10
Alignment explanation
Indices: 10957457--10957497 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
10957447 GTAAGTTTAG
10957457 TTATTT-ATT
1 TTATTTAATT
*
10957466 TTATTTTATT
1 TTATTTAATT
10957476 TTATTTGAATT
1 TTATTT-AATT
10957487 TTATTT-ATT
1 TTATTTAATT
10957496 TT
1 TT
10957498 TTCACGTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 11 0.38
10 9 0.31
11 9 0.31
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (10 bp):
TTATTTAATT
Found at i:10964815 original size:2 final size:2
Alignment explanation
Indices: 10964808--10964848 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
10964798 CAATGTACTT
10964808 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10964849 TGTCGCATTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:10968747 original size:29 final size:28
Alignment explanation
Indices: 10968694--10968757 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
10968684 ACGCCGCCAA
* *
10968694 AAAACATAGTATTTAGCGGCTCTTTTCTC
1 AAAA-ATAGTATTTAGAGGCGCTTTTCTC
*
10968723 ATAAAATAGTCTTTAGAGGCGCTTTTCTC
1 A-AAAATAGTATTTAGAGGCGCTTTTCTC
10968752 AAAAAT
1 AAAAAT
10968758 GCCGTTAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 5 0.16
29 23 0.74
30 3 0.10
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (28 bp):
AAAAATAGTATTTAGAGGCGCTTTTCTC
Found at i:10968897 original size:15 final size:15
Alignment explanation
Indices: 10968877--10968909 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10968867 TTTTCCTATA
10968877 AATTCAAATCCAACC
1 AATTCAAATCCAACC
*
10968892 AATTCAAATCCATCC
1 AATTCAAATCCAACC
10968907 AAT
1 AAT
10968910 AACTTCAAAT
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:0.45, C:0.30, G:0.00, T:0.24
Consensus pattern (15 bp):
AATTCAAATCCAACC
Found at i:10978256 original size:25 final size:23
Alignment explanation
Indices: 10978218--10978263 Score: 74
Period size: 25 Copynumber: 1.9 Consensus size: 23
10978208 TAATTAATAA
10978218 TATTATTATAATATAATAATATTT
1 TATTATTATAATATAA-AATATTT
10978242 TATTATTTATAATATAAAATAT
1 TATTA-TTATAATATAAAATAT
10978264 AAAAAGAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTATTATAATATAAAATATTT
Found at i:10979073 original size:10 final size:11
Alignment explanation
Indices: 10979041--10979074 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
10979031 TTTTATTTTT
10979041 ATGAGTTTTGA
1 ATGAGTTTTGA
10979052 ATGAGTTTTGA
1 ATGAGTTTTGA
10979063 ATGAG-TTTGA
1 ATGAGTTTTGA
10979073 AT
1 AT
10979075 TATTTAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 7 0.30
11 16 0.70
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.44
Consensus pattern (11 bp):
ATGAGTTTTGA
Found at i:10979583 original size:18 final size:19
Alignment explanation
Indices: 10979560--10979600 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10979550 AAATTTCCTT
10979560 ATTATGTGA-ATTAAATTA
1 ATTATGTGATATTAAATTA
* *
10979578 ATTATGTGATTTTAAATTG
1 ATTATGTGATATTAAATTA
10979597 ATTA
1 ATTA
10979601 AAAAGCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (19 bp):
ATTATGTGATATTAAATTA
Found at i:10982630 original size:14 final size:14
Alignment explanation
Indices: 10982611--10982644 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
10982601 AAAATGAAGA
10982611 CATTTTCCAAAAAT
1 CATTTTCCAAAAAT
*
10982625 CATTTTCCGAAAAT
1 CATTTTCCAAAAAT
10982639 CATTTT
1 CATTTT
10982645 AAGTCAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (14 bp):
CATTTTCCAAAAAT
Found at i:10984047 original size:25 final size:23
Alignment explanation
Indices: 10984019--10984074 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
10984009 ACTATTTAAA
10984019 ATATTAAAAAATTTACATATATTTT
1 ATATTAAAAAA-TTACATATA-TTT
* *
10984044 ATATT-AATAATTATATATATTT
1 ATATTAAAAAATTACATATATTT
10984066 ATAATTAAA
1 AT-ATTAAA
10984075 TTTAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 11 0.41
24 6 0.22
25 5 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATTAAAAAATTACATATATTT
Found at i:10990795 original size:6 final size:6
Alignment explanation
Indices: 10990784--10990808 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10990774 AACAACTCAT
10990784 AATCAC AATCAC AATCAC AATCAC A
1 AATCAC AATCAC AATCAC AATCAC A
10990809 CAGCATGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (6 bp):
AATCAC
Found at i:10992225 original size:24 final size:23
Alignment explanation
Indices: 10992181--10992225 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
10992171 AAAGTATTTT
* *
10992181 GATAAAAAAATATAAATTTAAGA
1 GATAAAAAAATAAAAAATTAAGA
10992204 GATAAAAGAAATAAAAAATTAA
1 GATAAAA-AAATAAAAAATTAA
10992226 ATGAATGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (23 bp):
GATAAAAAAATAAAAAATTAAGA
Found at i:10997467 original size:18 final size:18
Alignment explanation
Indices: 10997444--10997483 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
10997434 AGCAAGACTT
10997444 GCAGTGGTGGTGGCGGCA
1 GCAGTGGTGGTGGCGGCA
10997462 GCAGTGGTGGTGGCGGCA
1 GCAGTGGTGGTGGCGGCA
10997480 GCAG
1 GCAG
10997484 CAAGACACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.17, G:0.55, T:0.15
Consensus pattern (18 bp):
GCAGTGGTGGTGGCGGCA
Found at i:10999003 original size:26 final size:24
Alignment explanation
Indices: 10998947--10999003 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
10998937 ATTAAAAGAT
*
10998947 TTTAAAAATTTTTAATTTAGTTAA
1 TTTAAAAATTTTTAATTTAATTAA
*
10998971 TGGTTAAAACTTTTATAATTTTAATTAA
1 T--TTAAAAATTTT-TAA-TTTAATTAA
10998999 TTTAA
1 TTTAA
10999004 TTAATAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
24 1 0.04
26 14 0.52
27 3 0.11
28 9 0.33
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (24 bp):
TTTAAAAATTTTTAATTTAATTAA
Found at i:11000508 original size:23 final size:21
Alignment explanation
Indices: 11000466--11000515 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
11000456 ATATATATTG
11000466 AAATTTTAGTTTTTATTTTTA
1 AAATTTTAGTTTTTATTTTTA
* *
11000487 AAATTTTAATTTTATTATTTTTT
1 AAATTTT-AGTTT-TTATTTTTA
11000510 AAATTT
1 AAATTT
11000516 AAAAATGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.28
22 4 0.16
23 14 0.56
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
AAATTTTAGTTTTTATTTTTA
Found at i:11004472 original size:5 final size:5
Alignment explanation
Indices: 11004462--11004486 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11004452 AATTACTCTG
11004462 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
11004487 TTTATTTAAT
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):
AAATT
Found at i:11004516 original size:23 final size:22
Alignment explanation
Indices: 11004465--11004516 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
11004455 TACTCTGAAA
*
11004465 TTAAATTAAATTAAATTAAATT
1 TTAAATTTAATTAAATTAAATT
*
11004487 TT-TATTTAATATATAATT-AATT
1 TTAAATTTAAT-TA-AATTAAATT
11004509 TTAAATTT
1 TTAAATTT
11004517 TCATGATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 6 0.25
22 10 0.42
23 8 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTAAATTTAATTAAATTAAATT
Found at i:11006739 original size:21 final size:21
Alignment explanation
Indices: 11006713--11006757 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
11006703 GTTGCTGCCA
11006713 CCAGTTTTCAAACATCACAAT
1 CCAGTTTTCAAACATCACAAT
11006734 CCAGTTTTCAAACATCACAAT
1 CCAGTTTTCAAACATCACAAT
11006755 CCA
1 CCA
11006758 CACACTATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.27
Consensus pattern (21 bp):
CCAGTTTTCAAACATCACAAT
Found at i:11009259 original size:21 final size:21
Alignment explanation
Indices: 11009220--11009259 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11009210 TTGTATTTTC
* *
11009220 TTATAATTCTTAAATAAATTT
1 TTATAATTATTAAAGAAATTT
*
11009241 TTATAATTATTTAAGAAAT
1 TTATAATTATTAAAGAAAT
11009260 CATTCCAGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (21 bp):
TTATAATTATTAAAGAAATTT
Found at i:11014161 original size:6 final size:6
Alignment explanation
Indices: 11014152--11014203 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
11014142 GACAGGGACA
* *
11014152 TTGGCT TTGGCT TTGCCT TTGGCT TTGGCT TTGGCT GTGGCT TTGGCT
1 TTGGCT TTGGCT TTGGCT TTGGCT TTGGCT TTGGCT TTGGCT TTGGCT
11014200 TTGG
1 TTGG
11014204 GGTAAGGGCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.00, C:0.17, G:0.35, T:0.48
Consensus pattern (6 bp):
TTGGCT
Found at i:11023218 original size:53 final size:55
Alignment explanation
Indices: 11023115--11023218 Score: 140
Period size: 53 Copynumber: 1.9 Consensus size: 55
11023105 TGATTCCTTT
* * *
11023115 TTTTAAAGAAAGAGGAAGTTTAGATTTTTAAAAAATAAAAATATGTTTTTTAGTCC
1 TTTTAAAGAAAGA-GAAATTTAAATTTTTAAAAAATAAAAATATGATTTTTAGTCC
* *
11023171 TTTTAAAGAAA-A-AAATTTAAATTTTTAAAAAATAAAATTTTGATTTTT
1 TTTTAAAGAAAGAGAAATTTAAATTTTTAAAAAATAAAAATATGATTTTT
11023219 TAACTATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
53 31 0.72
55 1 0.02
56 11 0.26
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (55 bp):
TTTTAAAGAAAGAGAAATTTAAATTTTTAAAAAATAAAAATATGATTTTTAGTCC
Found at i:11025722 original size:21 final size:21
Alignment explanation
Indices: 11025684--11025723 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11025674 GACGAAGAAG
* * *
11025684 AAAAAAATTGATTTGAAGACA
1 AAAAAAATTCAATGGAAGACA
11025705 AAAAAAATTCAATGGAAGA
1 AAAAAAATTCAATGGAAGA
11025724 AAAGTTGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (21 bp):
AAAAAAATTCAATGGAAGACA
Found at i:11027835 original size:22 final size:22
Alignment explanation
Indices: 11027794--11027836 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11027784 ATGGACGAAG
* * *
11027794 AAAAAAAAATTGATTTGAAGAC
1 AAAAAAAAATTCAATGGAAGAC
11027816 AAAAAAAAATTCAATGGAAGA
1 AAAAAAAAATTCAATGGAAGA
11027837 AAAGTCAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.05, G:0.14, T:0.19
Consensus pattern (22 bp):
AAAAAAAAATTCAATGGAAGAC
Found at i:11027839 original size:20 final size:20
Alignment explanation
Indices: 11027790--11027839 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
11027780 TATTATGGAC
* * *
11027790 GAAGAAAAAAAAATTGATTT
1 GAAGAAAAAAAAATTCAATG
11027810 GAAGACAAAAAAAAATTCAATG
1 GAAG--AAAAAAAAATTCAATG
11027832 GAAGAAAA
1 GAAGAAAA
11027840 GTCAAAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 8 0.32
22 17 0.68
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (20 bp):
GAAGAAAAAAAAATTCAATG
Found at i:11030898 original size:23 final size:23
Alignment explanation
Indices: 11030847--11030891 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
11030837 GCTAGCGCGT
*
11030847 TTACTGTTTCGCACTTCGTGTGC
1 TTACTGTTTCGCACCTCGTGTGC
11030870 TTACTGTTTCGCACCTCGTGTG
1 TTACTGTTTCGCACCTCGTGTG
11030892 GCTACTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.09, C:0.27, G:0.22, T:0.42
Consensus pattern (23 bp):
TTACTGTTTCGCACCTCGTGTGC
Found at i:11030994 original size:26 final size:26
Alignment explanation
Indices: 11030948--11031020 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
11030938 CTACTGGATT
* *
11030948 GCACTGTGTGTGTTTATTGTTTCCCCA
1 GCACT-TGTGTGCTTACTGTTTCCCCA
*
11030975 GCACTTGTGTGCTTACTGTTTCTCCA
1 GCACTTGTGTGCTTACTGTTTCCCCA
*
11031001 ACACTTGTGTGCTTACTGTT
1 GCACTTGTGTGCTTACTGTT
11031021 AAGTACTTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 37 0.88
27 5 0.12
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (26 bp):
GCACTTGTGTGCTTACTGTTTCCCCA
Found at i:11035179 original size:2 final size:2
Alignment explanation
Indices: 11035172--11035205 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11035162 TTTTATGCAC
11035172 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
11035206 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11044236 original size:2 final size:2
Alignment explanation
Indices: 11044231--11044266 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11044221 ACACACACAC
11044231 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
11044267 TTTTTTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11046559 original size:7 final size:8
Alignment explanation
Indices: 11046545--11046595 Score: 57
Period size: 8 Copynumber: 6.0 Consensus size: 8
11046535 TTATTTTAGA
11046545 AAATTTTT
1 AAATTTTT
11046553 AAATTTTT
1 AAATTTTT
11046561 AAATTTTT
1 AAATTTTT
*
11046569 AACTTTTTT
1 AA-ATTTTT
11046578 ATATATTTTT
1 A-A-ATTTTT
*
11046588 ATATTTTT
1 AAATTTTT
11046596 TATAATTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 24 0.65
9 6 0.16
10 7 0.19
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (8 bp):
AAATTTTT
Found at i:11046568 original size:9 final size:9
Alignment explanation
Indices: 11046548--11046604 Score: 55
Period size: 8 Copynumber: 6.3 Consensus size: 9
11046538 TTTTAGAAAA
11046548 TTTTTAAA-
1 TTTTTAAAT
11046556 TTTTTAAA-
1 TTTTTAAAT
*
11046564 TTTTTAACT
1 TTTTTAAAT
*
11046573 TTTTTATAT
1 TTTTTAAAT
*
11046582 ATTTTTATAT
1 -TTTTTAAAT
11046592 TTTTTATAAT
1 TTTTTA-AAT
11046602 TTT
1 TTT
11046605 CTTTAAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 15 0.36
9 13 0.31
10 14 0.33
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:11046568 original size:17 final size:18
Alignment explanation
Indices: 11046546--11046604 Score: 77
Period size: 19 Copynumber: 3.3 Consensus size: 18
11046536 TATTTTAGAA
11046546 AATTTTTAAA-TTTTTA-
1 AATTTTTAAATTTTTTAT
*
11046562 AATTTTTAACTTTTTTAT
1 AATTTTTAAATTTTTTAT
*
11046580 ATATTTTTATATTTTTTAT
1 A-ATTTTTAAATTTTTTAT
11046599 AATTTT
1 AATTTT
11046605 CTTTAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 9 0.24
17 6 0.16
18 6 0.16
19 16 0.43
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
AATTTTTAAATTTTTTAT
Found at i:11046648 original size:20 final size:21
Alignment explanation
Indices: 11046619--11046690 Score: 84
Period size: 20 Copynumber: 3.7 Consensus size: 21
11046609 AAAAATATAA
*
11046619 ATTTTAAATTTTTTATAAA-T
1 ATTTTGAATTTTTTATAAATT
11046639 ATTTTGAA--TTTTA-AAAGTT
1 ATTTTGAATTTTTTATAAA-TT
11046658 ATTTTG-ATTTTTT-TAAATT
1 ATTTTGAATTTTTTATAAATT
11046677 ATTTTGAATTTTTT
1 ATTTTGAATTTTTT
11046691 TTGTAATTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
17 3 0.07
18 6 0.13
19 15 0.33
20 21 0.47
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (21 bp):
ATTTTGAATTTTTTATAAATT
Found at i:11046689 original size:19 final size:19
Alignment explanation
Indices: 11046619--11046690 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
11046609 AAAAATATAA
* *
11046619 ATTTTAAATTTTTTATAAAT
1 ATTTTGAATTTTTTA-AATT
*
11046639 ATTTTGAA-TTTTAAAAGTT
1 ATTTTGAATTTTTTAAA-TT
*
11046658 ATTTTGATTTTTTTAAATT
1 ATTTTGAATTTTTTAAATT
11046677 ATTTTGAATTTTTT
1 ATTTTGAATTTTTT
11046691 TTGTAATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 2 0.05
19 28 0.64
20 14 0.32
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (19 bp):
ATTTTGAATTTTTTAAATT
Found at i:11048505 original size:21 final size:21
Alignment explanation
Indices: 11048476--11048515 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11048466 CAACATGGCA
*
11048476 AGTTGATTGGCCACGTCAGCT
1 AGTTAATTGGCCACGTCAGCT
*
11048497 AGTTAATTGGTCACGTCAG
1 AGTTAATTGGCCACGTCAG
11048516 TTGTCCCGTT
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:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (21 bp):
AGTTAATTGGCCACGTCAGCT
Found at i:11053447 original size:29 final size:29
Alignment explanation
Indices: 11053410--11053476 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
11053400 TATTTTAATT
*
11053410 ATATATTTTTGGAAAATAAATTGTGTTATA
1 ATATTTTTTTGGAAAA-AAATTGTGTTATA
* * *
11053440 ATTTTTTTTTGGTAGAAAATTGTGTTATA
1 ATATTTTTTTGGAAAAAAATTGTGTTATA
11053469 A-ATTTTTT
1 ATATTTTTT
11053477 ATTTAACCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 6 0.19
29 14 0.44
30 12 0.38
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (29 bp):
ATATTTTTTTGGAAAAAAATTGTGTTATA
Found at i:11053780 original size:38 final size:38
Alignment explanation
Indices: 11053738--11053858 Score: 154
Period size: 38 Copynumber: 3.0 Consensus size: 38
11053728 TTTAAGGACG
11053738 AAATATTATAATTTATATATTTATTTAAAGTATAACCC
1 AAATATTATAATTTATATATTTATTTAAAGTATAACCC
*
11053776 AAATATT-TAGAGTATTATTTATAGTTTGAACTTAAAGTATAACCC
1 AAATATTATA-A-T-TTA--TATA-TTT--ATTTAAAGTATAACCC
11053821 AAATATTATAATTTATATATTTATTTAAAGTATAACCC
1 AAATATTATAATTTATATATTTATTTAAAGTATAACCC
11053859 GATTGCTTAT
Statistics
Matches: 72, Mismatches: 2, Indels: 18
0.78 0.02 0.20
Matches are distributed among these distances:
37 2 0.03
38 23 0.32
39 1 0.01
40 6 0.08
41 4 0.06
42 4 0.06
43 6 0.08
44 1 0.01
45 23 0.32
46 2 0.03
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (38 bp):
AAATATTATAATTTATATATTTATTTAAAGTATAACCC
Found at i:11063043 original size:17 final size:18
Alignment explanation
Indices: 11063008--11063050 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
11062998 ATATGGGACA
11063008 AAAATGAGAATGAATGTG
1 AAAATGAGAATGAATGTG
11063026 AAAAT-AGAATTGAA-GTG
1 AAAATGAGAA-TGAATGTG
11063043 AAATATGA
1 AAA-ATGA
11063051 TTTTTACCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 10 0.45
18 11 0.50
19 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (18 bp):
AAAATGAGAATGAATGTG
Found at i:11066073 original size:133 final size:133
Alignment explanation
Indices: 11065901--11066150 Score: 410
Period size: 133 Copynumber: 1.9 Consensus size: 133
11065891 TTCACAGTAC
* *
11065901 GAATTTTTGAAACCAATGGAAGACTGAGATTCACCTGCACAACAAATCAGGCAAATTGTCCTCTT
1 GAATTTTCGAAACCAATGGAAGACTGAGATTCACCTGCACAACAAACCAGGCAAATTGTCCTCTT
* * *
11065966 GTTCCCTTGTTAGTTTAAACATCAATTTTAACAACCCTCCCAATCAGACTACTGAGTATTCGCAA
66 GTTCCCTCGTTAGTTTAAACATCAATTTTAACAACCCTCCCAACCAAACTACTGAGTATTCGCAA
11066031 TAT
131 TAT
* * *
11066034 GAATTTTCGAGACCAATGGAAGATTGAGATTCACCTGCACAGCAAACCAGGCAAATTGTCCTCTT
1 GAATTTTCGAAACCAATGGAAGACTGAGATTCACCTGCACAACAAACCAGGCAAATTGTCCTCTT
* *
11066099 GTTTCCTCGTTAGTTTGAACATCAATTTTAACAACCCTCCCAACCAAACTAC
66 GTTCCCTCGTTAGTTTAAACATCAATTTTAACAACCCTCCCAACCAAACTAC
11066151 CAATTTCTTA
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
133 107 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (133 bp):
GAATTTTCGAAACCAATGGAAGACTGAGATTCACCTGCACAACAAACCAGGCAAATTGTCCTCTT
GTTCCCTCGTTAGTTTAAACATCAATTTTAACAACCCTCCCAACCAAACTACTGAGTATTCGCAA
TAT
Found at i:11068495 original size:33 final size:33
Alignment explanation
Indices: 11068423--11068506 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 33
11068413 ATTATATTAT
* * *
11068423 TGTTTTGATACTT-TTTTTTACTGTTTTGATTGT
1 TGTTTTGAT-GTTATTTTTTACTGTTTTGAGTGC
11068456 TGTTTTGATGTTATTTTTTACTGTTTTG-GTGC
1 TGTTTTGATGTTATTTTTTACTGTTTTGAGTGC
*
11068488 TGTTTTTGTTGTTATTTTT
1 TG-TTTTGATGTTATTTTT
11068507 GTTGTTGTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
32 6 0.13
33 39 0.87
ACGTcount: A:0.10, C:0.05, G:0.18, T:0.68
Consensus pattern (33 bp):
TGTTTTGATGTTATTTTTTACTGTTTTGAGTGC
Found at i:11069714 original size:28 final size:27
Alignment explanation
Indices: 11069673--11069757 Score: 75
Period size: 28 Copynumber: 3.1 Consensus size: 27
11069663 TAAAATGGTA
*
11069673 TTTTT-TTTATTTTAAATGTTTTTTTAT
1 TTTTTATTTAATTT-AATGTTTTTTTAT
* *
11069700 TTTTTATTTAATTTAAT-TTATTTCAT
1 TTTTTATTTAATTTAATGTTTTTTTAT
** *
11069726 TTTATTAATTTAAAATAATGATTTTTTAT
1 TTT-TT-ATTTAATTTAATGTTTTTTTAT
11069755 TTT
1 TTT
11069758 GAATTTTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 10 0.22
27 10 0.22
28 17 0.37
29 9 0.20
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTTTATTTAATTTAATGTTTTTTTAT
Found at i:11069994 original size:15 final size:16
Alignment explanation
Indices: 11069964--11069996 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11069954 AAAATTTAAG
11069964 TATCAAATTAAAAAAA
1 TATCAAATTAAAAAAA
*
11069980 TATCAAGTTAAAAAAA
1 TATCAAATTAAAAAAA
11069996 T
1 T
11069997 TTAAATACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (16 bp):
TATCAAATTAAAAAAA
Found at i:11071965 original size:343 final size:345
Alignment explanation
Indices: 11071339--11072763 Score: 1665
Period size: 343 Copynumber: 4.0 Consensus size: 345
11071329 AGCTGCAATT
* * *
11071339 CAATGGTTTTAATGGATTCAACTGAGGCTGTCTTTTTAATTAAATGCTTATAA-TTTGAGATTCT
1 CAATGGTTTTAATGGATTCAACTGAGGCTGTCTTTTTAATTAAATGCTTTTAACTTGGTGATTCT
* *
11071403 TGGGTTTGGGTTTGATTGAGTTTAACTATACTCTAAACCTTTCGCCATTAATTTCGGTTTAGGGT
66 TGGGTTAGGGTTTGATTGAGTTTAACTATACTCTAAACCTTTTGCCATTAATTTCGGTTTAGGGT
* * * *
11071468 CTGAAAAACTTGTATATTCAAGTGTTTTCATCAGCTTCTTCTCTTTGGGTGTTAAATCATTCATG
131 CTGAAAAACTTGTATAGTCAAGTGTTTTCATCAGTTTCTTCTCTTGGGGTGTTACATCATTCATG
*
11071533 AAACTACTGAATTTTTCTGGGGCTTTGTTTTAGATGGTTTCATGAAAATAACAACTTTTGTAAAT
196 AAACTACTGAATTTTTCTGGGGCTTTGTTTTAGATGGTTTCATGAAAATATCAACTTTTGTAAAT
* *
11071598 TGTGTTATATTTACAATGTATATATATTTCCAGTGAGCCAATAATGATATAATCCTCTTTGGATG
261 TGTGTTATATTTACAATATATATATATTTCCAGTGAGCCAATAATGATATAATCCACTTTGGATG
11071663 AGGTGCAGTGGAGCCAAG-A
326 AGGTGCAGTGGAGCCAAGAA
* *
11071682 -AATGGTTTTAATGGATTCAACTGAGGCTTTCTTTTTAATTAAATTCTTTTAACTTGGTGATTCT
1 CAATGGTTTTAATGGATTCAACTGAGGCTGTCTTTTTAATTAAATGCTTTTAACTTGGTGATTCT
* * *
11071746 TGGGTTAGGGTTTGATTGAGTTTAATTATACTCTAAACCTTTTGCTATTAATTTCGGTGTAGGGT
66 TGGGTTAGGGTTTGATTGAGTTTAACTATACTCTAAACCTTTTGCCATTAATTTCGGTTTAGGGT
* * * *
11071811 TTGAAAAACTTGTATTGTCAAGTGTTTTCATCAGTTTCTTCTCTTGGTGTGTTTCATCATTCATG
131 CTGAAAAACTTGTATAGTCAAGTGTTTTCATCAGTTTCTTCTCTTGGGGTGTTACATCATTCATG
11071876 AAACTACTGAA-TTTTCTTGGGGCTTTGTTTTAGATGGTTTCATGAAAATATCAACTTTTGTAAA
196 AAACTACTGAATTTTTC-TGGGGCTTTGTTTTAGATGGTTTCATGAAAATATCAACTTTTGTAAA
* *
11071940 TTGTGTTATATTTACAATGTATATATATTTCCAGTGAGCCAATGATGATATAATCCACTTTGGAT
260 TTGTGTTATATTTACAATATATATATATTTCCAGTGAGCCAATAATGATATAATCCACTTTGGAT
* *
11072005 GAAGTGCAGTGGAGCTAAGAA
325 GAGGTGCAGTGGAGCCAAGAA
** * *
11072026 CGAACCTACTTTGTAGAAGCTGCAATTCAA-TGGTTTTAATGGATTCAACTGAGGCTGCCTTTTT
1 C-AA--TGGTTT-T--AA--TG-GATTCAACT-G-----A-GG------CT---G-T-CTTTT-T
* ** ** * * *
11072090 AATTAAATGCTTTTAACATGGTGCGTCTTTTGTTTGGGTTTGATTGAGTTTAACTATACCCTGAA
38 AATTAAATGCTTTTAACTTGGTGATTCTTGGGTTAGGGTTTGATTGAGTTTAACTATACTCTAAA
* * * *
11072155 CCTTTTGCCATTAATTTTGGTTCAGGGTCTGAAAAACTTGTATAGCCAAGTGTTTTCATC---TG
103 CCTTTTGCCATTAATTTCGGTTTAGGGTCTGAAAAACTTGTATAGTCAAGTGTTTTCATCAGTTT
* * *
11072217 C-T-TCTTGGGGTGTTACATCATTCATGAAATTACTGAATTTTCCTGGGGCTTTGTTTTAGGTGG
168 CTTCTCTTGGGGTGTTACATCATTCATGAAACTACTGAATTTTTCTGGGGCTTTGTTTTAGATGG
* *
11072280 TTTCATG-AAA-ATGAACTTTTGTAAATTGTGTTATATTTACAATATATATATATATTTCAAGTG
233 TTTCATGAAAATATCAACTTTTGTAAATTGTGTTATATTTAC-A-ATATATATATATTTCCAGTG
*
11072343 AGCCAATAATGATATAATCCACTTTGGATGAGGTGCATTGGAGCCAAGAACGAACCTGGTAGAAG
296 AGCCAATAATGATATAATCCACTTTGGATGAGGTGCA---GTG----G-A-G--CC------AA-
11072408 CTGCAA
343 --G-AA
* * *
11072414 TTCAATGGTTTTAATGGATTCAACTGAGGCTGTCTTTTTAATTAAGTTCTTTCAACTTGGTGATT
1 --CAATGGTTTTAATGGATTCAACTGAGGCTGTCTTTTTAATTAAATGCTTTTAACTTGGTGATT
* * *
11072479 CTTGGGTTAGGGTTTGATTGAGTTTAATTGTACTCTAAACCTTTTGCTATTAATTTCGGTTTAGG
64 CTTGGGTTAGGGTTTGATTGAGTTTAACTATACTCTAAACCTTTTGCCATTAATTTCGGTTTAGG
* *
11072544 GTTTG-AAAACTTTGTATAGTTAAAAGTGTTTTCATCAGTTTCTTCTCTTGGGGTGTTACATCAT
129 GTCTGAAAAAC-TTGTATAG-T-CAAGTGTTTTCATCAGTTTCTTCTCTTGGGGTGTTACATCAT
*
11072608 TCATGAAACTACTGAATTTTTCTGGGGCTTTGTTTTAGATGGTTTCTTGAAAATAAT-AACTTTT
191 TCATGAAACTACTGAATTTTTCTGGGGCTTTGTTTTAGATGGTTTCATGAAAAT-ATCAACTTTT
* * *
11072672 GTAAATTGTGTTATATTTACAATATTTATATAGTTCCAGTGAGCCAA-AGATGATATAATCAACT
255 GTAAATTGTGTTATATTTACAATATATATATATTTCCAGTGAGCCAATA-ATGATATAATCCACT
* *
11072736 TTGTATGAGGAGCAGTGGAGCCAAGAA
319 TTGGATGAGGTGCAGTGGAGCCAAGAA
11072763 C
1 C
11072764 GAAACTACTT
Statistics
Matches: 918, Mismatches: 93, Indels: 138
0.80 0.08 0.12
Matches are distributed among these distances:
342 54 0.06
343 263 0.29
344 1 0.00
346 2 0.00
347 1 0.00
348 4 0.00
349 3 0.00
350 1 0.00
351 2 0.00
353 5 0.01
354 7 0.01
359 3 0.00
360 2 0.00
361 1 0.00
362 6 0.01
363 89 0.10
364 4 0.00
365 43 0.05
366 7 0.01
367 113 0.12
368 7 0.01
369 6 0.01
370 116 0.13
371 8 0.01
372 136 0.15
373 2 0.00
374 1 0.00
375 3 0.00
376 2 0.00
378 1 0.00
381 7 0.01
382 3 0.00
384 4 0.00
386 1 0.00
387 5 0.01
388 2 0.00
389 2 0.00
390 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.41
Consensus pattern (345 bp):
CAATGGTTTTAATGGATTCAACTGAGGCTGTCTTTTTAATTAAATGCTTTTAACTTGGTGATTCT
TGGGTTAGGGTTTGATTGAGTTTAACTATACTCTAAACCTTTTGCCATTAATTTCGGTTTAGGGT
CTGAAAAACTTGTATAGTCAAGTGTTTTCATCAGTTTCTTCTCTTGGGGTGTTACATCATTCATG
AAACTACTGAATTTTTCTGGGGCTTTGTTTTAGATGGTTTCATGAAAATATCAACTTTTGTAAAT
TGTGTTATATTTACAATATATATATATTTCCAGTGAGCCAATAATGATATAATCCACTTTGGATG
AGGTGCAGTGGAGCCAAGAA
Found at i:11073920 original size:18 final size:18
Alignment explanation
Indices: 11073899--11073935 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11073889 ATCGGGTCTC
11073899 GTTATGTTAAATAATTGA
1 GTTATGTTAAATAATTGA
11073917 GTTATGTTAAATAATTGA
1 GTTATGTTAAATAATTGA
11073935 G
1 G
11073936 AATGAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (18 bp):
GTTATGTTAAATAATTGA
Found at i:11081165 original size:52 final size:48
Alignment explanation
Indices: 11081069--11081218 Score: 174
Period size: 52 Copynumber: 3.0 Consensus size: 48
11081059 TAATCACTTG
* * * * *
11081069 AATATTAATTTAATATAATACTTATTAAGATAAATATTAGATTAATTTT
1 AATATTAAATTAATAAAATA-TTATTAAAATAATTATTAAATTAATTTT
* * *
11081118 AATATTAAATTAATAGATTATTTACCTATAAAATAATTATTAAATTAAATTT
1 AATATTAAATTAATAAAATA-TTA--T-TAAAATAATTATTAAATTAATTTT
11081170 AATATTAAATTAATAAAATATTATTAAAATAATTATTAAATTAAATTTT
1 AATATTAAATTAATAAAATATTATTAAAATAATTATTAAATT-AATTTT
11081219 TATAAAATTT
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
48 18 0.21
49 26 0.30
51 4 0.05
52 38 0.44
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (48 bp):
AATATTAAATTAATAAAATATTATTAAAATAATTATTAAATTAATTTT
Found at i:11081206 original size:12 final size:12
Alignment explanation
Indices: 11081146--11081209 Score: 60
Period size: 12 Copynumber: 5.3 Consensus size: 12
11081136 TATTTACCTA
11081146 TAAAATAATTAT
1 TAAAATAATTAT
* *
11081158 TAAATTAAAT-T
1 TAAAATAATTAT
* *
11081169 TAATATTAAATTAA
1 TAA-AAT-AATTAT
11081183 TAAAAT-ATTAT
1 TAAAATAATTAT
11081194 TAAAATAATTAT
1 TAAAATAATTAT
11081206 TAAA
1 TAAA
11081210 TTAAATTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
11 14 0.33
12 20 0.48
13 5 0.12
14 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAAAATAATTAT
Found at i:11081941 original size:89 final size:90
Alignment explanation
Indices: 11081732--11081942 Score: 245
Period size: 89 Copynumber: 2.4 Consensus size: 90
11081722 AAAAAGTAAT
*
11081732 TAATTTTTTTT-CTCTCAATTGG-TACTTGAACTATCAAAATGCATTAAAAAAAATTTCAAATTT
1 TAATTTTTTTTGCTCTCAATTGGATACTTGAACTATCAAAATGCATTAAAAAAAATCTCAAATTT
*
11081795 TTCAGAAAAATCAATTAAACCGCTA
66 TTCAAAAAAATCAATTAAACCGCTA
* * * **
11081820 TAATTTTTTTTTGCTCTCAATTGGATAATTGAATTTTCAAAATGCA-TAAAAAAGGTCCTCAAAT
1 TAA-TTTTTTTTGCTCTCAATTGGATACTTGAACTATCAAAATGCATTAAAAAAAAT-CTCAAA-
**
11081884 TTTTTCAAAAAAAGT-AATTAAGTC-CT-
63 TTTTTCAAAAAAA-TCAATTAAACCGCTA
* *
11081910 TGATTTTTTTTGCACTCAATTGGATACTTGAAC
1 TAATTTTTTTTGCTCTCAATTGGATACTTGAAC
11081943 CACCATTTTT
Statistics
Matches: 104, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
88 3 0.03
89 35 0.34
90 21 0.20
91 25 0.24
92 19 0.18
93 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (90 bp):
TAATTTTTTTTGCTCTCAATTGGATACTTGAACTATCAAAATGCATTAAAAAAAATCTCAAATTT
TTCAAAAAAATCAATTAAACCGCTA
Found at i:11081972 original size:20 final size:19
Alignment explanation
Indices: 11081947--11082015 Score: 75
Period size: 21 Copynumber: 3.4 Consensus size: 19
11081937 TTGAACCACC
11081947 ATTTTTTTATGTATTTTATA
1 ATTTTTTTATG-ATTTTATA
* *
11081967 ATTTTTTTTATAAAAATTTATA
1 A-TTTTTTTAT--GATTTTATA
11081989 ATTTTTTTATGATTTTTATA
1 ATTTTTTTATGA-TTTTATA
11082009 ATTTTTT
1 ATTTTTT
11082016 CTTTTAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 1 0.02
20 14 0.34
21 18 0.44
22 8 0.20
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
ATTTTTTTATGATTTTATA
Found at i:11082006 original size:9 final size:9
Alignment explanation
Indices: 11081992--11082091 Score: 52
Period size: 9 Copynumber: 11.6 Consensus size: 9
11081982 ATTTATAATT
*
11081992 TTTTTATGA
1 TTTTTATAA
11082001 TTTTTATAA
1 TTTTTATAA
11082010 -TTTT-T--
1 TTTTTATAA
*
11082015 TCTTT-TAA
1 TTTTTATAA
*
11082023 TTATTAATAA
1 TT-TTTATAA
*
11082033 ATT-TATAA
1 TTTTTATAA
11082041 TTTTTATTAAA
1 TTTTTA-T-AA
* *
11082052 ATTTAATAA
1 TTTTTATAA
11082061 TTTTTATAA
1 TTTTTATAA
*
11082070 TTTTTAT-T
1 TTTTTATAA
*
11082078 TTTTTATAG
1 TTTTTATAA
11082087 TTTTT
1 TTTTT
11082092 TGTCACATGT
Statistics
Matches: 69, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
6 4 0.06
7 1 0.01
8 18 0.26
9 34 0.49
10 6 0.09
11 6 0.09
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:11082051 original size:18 final size:20
Alignment explanation
Indices: 11082031--11082067 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11082021 AATTATTAAT
11082031 AAATTT-ATAATTTTTATTA
1 AAATTTAATAATTTTTATTA
11082050 AAATTTAATAATTTTTAT
1 AAATTTAATAATTTTTAT
11082068 AATTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
AAATTTAATAATTTTTATTA
Found at i:11088751 original size:38 final size:38
Alignment explanation
Indices: 11088693--11088766 Score: 123
Period size: 38 Copynumber: 1.9 Consensus size: 38
11088683 GGTGTGATAA
11088693 TAAATATAAGTTAGCTTGAGATGTTGAATAAAAAATAT
1 TAAATATAAGTTAGCTTGAGATGTTGAATAAAAAATAT
*
11088731 TAAATATAAGTTTG-TCTGAGATGTTGAATAAAAAAT
1 TAAATATAAGTTAGCT-TGAGATGTTGAATAAAAAAT
11088767 GAAGTAAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 1 0.03
38 33 0.97
ACGTcount: A:0.46, C:0.03, G:0.16, T:0.35
Consensus pattern (38 bp):
TAAATATAAGTTAGCTTGAGATGTTGAATAAAAAATAT
Found at i:11092757 original size:15 final size:15
Alignment explanation
Indices: 11092737--11092775 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
11092727 AGCCAAATCA
*
11092737 ATGATGCTGATGCTG
1 ATGATGATGATGCTG
* *
11092752 ATGATGATGATACAG
1 ATGATGATGATGCTG
11092767 ATGATGATG
1 ATGATGATG
11092776 GTAATTATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (15 bp):
ATGATGATGATGCTG
Found at i:11093345 original size:4 final size:4
Alignment explanation
Indices: 11093336--11093360 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11093326 TTGGATTTCC
11093336 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
11093361 AATAGGGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:11093917 original size:28 final size:27
Alignment explanation
Indices: 11093886--11093941 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
11093876 TATCATATTG
*
11093886 AATAAATTTTA-AATATAAAATATTCATC
1 AATAAATTTCACAA-ATAAAA-ATTCATC
11093914 AATAAATTTCACAAATAAAAATTCATC
1 AATAAATTTCACAAATAAAAATTCATC
11093941 A
1 A
11093942 TTCAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 8 0.31
28 16 0.62
29 2 0.08
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (27 bp):
AATAAATTTCACAAATAAAAATTCATC
Found at i:11095449 original size:18 final size:18
Alignment explanation
Indices: 11095426--11095465 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
11095416 GAGTTACATT
*
11095426 ATTTAAATAAAGTCCCAG
1 ATTTAAATAAAGTCCCAA
11095444 ATTTAAATAAAGTCCCAA
1 ATTTAAATAAAGTCCCAA
11095462 ATTT
1 ATTT
11095466 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (18 bp):
ATTTAAATAAAGTCCCAA
Found at i:11101332 original size:22 final size:22
Alignment explanation
Indices: 11101307--11101356 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
11101297 ACTATTTTTC
*
11101307 ATTATTTTTTTACCATTTCATT
1 ATTATTTTGTTACCATTTCATT
* * *
11101329 ATTATATTGTTACTATTTCGTT
1 ATTATTTTGTTACCATTTCATT
*
11101351 GTTATT
1 ATTATT
11101357 ATTTGGATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.10, G:0.06, T:0.62
Consensus pattern (22 bp):
ATTATTTTGTTACCATTTCATT
Found at i:11103872 original size:28 final size:25
Alignment explanation
Indices: 11103837--11103902 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
11103827 TCAAAAAGGC
11103837 CTCAAATAATAATTTATTAAAAAAA
1 CTCAAATAATAATTTATTAAAAAAA
*
11103862 CTCAAATAATAATTTATTAAAAAAG
1 CTCAAATAATAATTTATTAAAAAAA
*
11103887 CTTAAATAATAATTTA
1 CTCAAATAATAATTTA
11103903 AAAAGAAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (25 bp):
CTCAAATAATAATTTATTAAAAAAA
Found at i:11107514 original size:17 final size:17
Alignment explanation
Indices: 11107492--11107542 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
11107482 TTTATTTTTT
11107492 ATATAAAAAATTAAAAA
1 ATATAAAAAATTAAAAA
* * *
11107509 ATAT-AATACTTCAAAA
1 ATATAAAAAATTAAAAA
11107525 ATAATAAAAATATTAAAA
1 AT-ATAAAAA-ATTAAAA
11107543 TAAATACTTC
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
16 11 0.44
17 6 0.24
18 3 0.12
19 5 0.20
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (17 bp):
ATATAAAAAATTAAAAA
Found at i:11115257 original size:32 final size:32
Alignment explanation
Indices: 11115216--11115295 Score: 119
Period size: 30 Copynumber: 2.6 Consensus size: 32
11115206 TTTTATATTG
11115216 GTATTTCAGCTAAAAAAAAGTAGTTGATAAAA
1 GTATTTCAGCTAAAAAAAAGTAGTTGATAAAA
*
11115248 GTATTTCAGCT--AAAAAGGTAGTTGATAAAA
1 GTATTTCAGCTAAAAAAAAGTAGTTGATAAAA
* *
11115278 TTATTTAAGCTAAAAAAA
1 GTATTTCAGCTAAAAAAA
11115296 GTGGCTGATT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 27 0.63
32 16 0.37
ACGTcount: A:0.49, C:0.06, G:0.15, T:0.30
Consensus pattern (32 bp):
GTATTTCAGCTAAAAAAAAGTAGTTGATAAAA
Found at i:11118090 original size:49 final size:49
Alignment explanation
Indices: 11118002--11118103 Score: 127
Period size: 49 Copynumber: 2.1 Consensus size: 49
11117992 ACTTGAACCT
* * *
11118002 GTGATCGCATAACCACTGTCAGCTAGACTCCCGAGTTATACTTCAACTC
1 GTGACCGCATAACCACTGTCAACTAGACTCCCGACTTATACTTCAACTC
* *
11118051 GTGACCGCATAACCA-TCGTCAACTAGGACT-CCTACTTATACTTCAACTT
1 GTGACCGCATAACCACT-GTCAACTA-GACTCCCGACTTATACTTCAACTC
11118100 GTGA
1 GTGA
11118104 TTATATAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
48 1 0.02
49 41 0.89
50 4 0.09
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (49 bp):
GTGACCGCATAACCACTGTCAACTAGACTCCCGACTTATACTTCAACTC
Found at i:11121031 original size:8 final size:8
Alignment explanation
Indices: 11121018--11121045 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
11121008 TTTGATTTTG
11121018 ATTTATAT
1 ATTTATAT
11121026 ATTTATAT
1 ATTTATAT
11121034 ATTTATAT
1 ATTTATAT
11121042 ATTT
1 ATTT
11121046 TTTAGTGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
ATTTATAT
Found at i:11123598 original size:14 final size:15
Alignment explanation
Indices: 11123579--11123620 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
11123569 TCATTTGTTG
11123579 ATATATTTTTATA-A
1 ATATATTTTTATATA
11123593 ATATATTTTTAATATA
1 ATATATTTTT-ATATA
*
11123609 AAATATTTTTAT
1 ATATATTTTTAT
11123621 TCACTCACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 10 0.40
15 5 0.20
16 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATATTTTTATATA
Found at i:11123610 original size:17 final size:16
Alignment explanation
Indices: 11123581--11123619 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
11123571 ATTTGTTGAT
*
11123581 ATATTTTT-ATA-AAT
1 ATATTTTTAATATAAA
11123595 ATATTTTTAATATAAA
1 ATATTTTTAATATAAA
11123611 ATATTTTTA
1 ATATTTTTA
11123620 TTCACTCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 3 0.14
16 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATTTTTAATATAAA
Found at i:11131177 original size:24 final size:25
Alignment explanation
Indices: 11131133--11131182 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
11131123 ATGTATAATA
11131133 TTTTTTAAAAAAGTTTAAAAATATT
1 TTTTTTAAAAAAGTTTAAAAATATT
*
11131158 TTTTTTATAAAA-TTCTAAAATATAT
1 TTTTTTAAAAAAGTT-TAAAA-ATAT
11131183 AATTTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 2 0.09
25 16 0.73
26 4 0.18
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
TTTTTTAAAAAAGTTTAAAAATATT
Found at i:11131220 original size:20 final size:17
Alignment explanation
Indices: 11131186--11131244 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 17
11131176 AATATATAAT
11131186 TTAAAAT-TT-TAAAAA
1 TTAAAATATTATAAAAA
11131201 TTCAAAATAATATATAAAAA
1 TT-AAAAT-AT-TATAAAAA
*
11131221 TTGAAAATGTTATAAAAA
1 TT-AAAATATTATAAAAA
11131239 TTAAAA
1 TTAAAA
11131245 AAAAGTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
15 2 0.05
16 5 0.14
17 4 0.11
18 11 0.30
19 2 0.05
20 13 0.35
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (17 bp):
TTAAAATATTATAAAAA
Found at i:11131247 original size:20 final size:19
Alignment explanation
Indices: 11131195--11131247 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
11131185 TTTAAAATTT
*
11131195 TAAAAATTCAAAATAATATA
1 TAAAAATT-AAAAAAATATA
* **
11131215 TAAAAATTGAAAATGT-TA
1 TAAAAATTAAAAAAATATA
11131233 TAAAAATTAAAAAAA
1 TAAAAATTAAAAAAA
11131248 AGTATTTAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 14 0.54
19 4 0.15
20 8 0.31
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
TAAAAATTAAAAAAATATA
Found at i:11136661 original size:18 final size:18
Alignment explanation
Indices: 11136622--11136677 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
11136612 AATTTTAAAG
*
11136622 AAAATAAATTTAATT-ATTT
1 AAAA-AAATTTAATTCA-AT
11136641 AAAAAAATTTAATTCAAT
1 AAAAAAATTTAATTCAAT
*
11136659 AAAAAAACTT--TTCAAT
1 AAAAAAATTTAATTCAAT
11136675 AAA
1 AAA
11136678 CTATGAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 9 0.26
18 20 0.59
19 5 0.15
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAAAATTTAATTCAAT
Found at i:11139210 original size:19 final size:19
Alignment explanation
Indices: 11139186--11139223 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
11139176 ATTTGATTAC
11139186 TTTTTTAAA-AATTTATAAT
1 TTTTTTAAATAATTT-TAAT
11139205 TTTTTTAAATAATTTTAAT
1 TTTTTTAAATAATTTTAAT
11139224 GATTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTTAAATAATTTTAAT
Found at i:11139229 original size:19 final size:20
Alignment explanation
Indices: 11139188--11139238 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
11139178 TTGATTACTT
**
11139188 TTTTAAA-AATTTATAATTT
1 TTTTAAATAATTTATAATGA
11139207 TTTTAAATAATTT-TAATGA
1 TTTTAAATAATTTATAATGA
*
11139226 TTTTTAAT-ATTTA
1 TTTTAAATAATTTA
11139239 AAATTAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 4 0.15
19 18 0.67
20 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTAAATAATTTATAATGA
Found at i:11139229 original size:20 final size:19
Alignment explanation
Indices: 11139187--11139232 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
11139177 TTTGATTACT
*
11139187 TTTTTAAAAATTTATAATT
1 TTTTTAAAAATTTATAATA
11139206 TTTTTAAATAATTT-TAATGA
1 TTTTTAAA-AATTTATAAT-A
11139226 TTTTTAA
1 TTTTTAA
11139233 TATTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTTAAAAATTTATAATA
Found at i:11142909 original size:5 final size:5
Alignment explanation
Indices: 11142899--11142937 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
11142889 TTCCTTTTAC
*
11142899 CTTCT CTTCT CTTCT CTTCT CTTCT CTTCT TTTCT CTTC
1 CTTCT CTTCT CTTCT CTTCT CTTCT CTTCT CTTCT CTTC
11142938 AAGTACTCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
CTTCT
Found at i:11147130 original size:24 final size:24
Alignment explanation
Indices: 11147096--11147142 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
11147086 ATAAATTTAA
*
11147096 AATTATATTAATATTAAATAAAAT
1 AATTATATTAATATTAAAAAAAAT
*
11147120 AATTATGTTAATATTAAAAAAAA
1 AATTATATTAATATTAAAAAAAA
11147143 CCTTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AATTATATTAATATTAAAAAAAAT
Done.