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 51 of 120
Found at i:14803300 original size:17 final size:16
Alignment explanation
Indices: 14803280--14803322 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
14803270 CTCCCTTGAC
*
14803280 CTTTAACTTTCCATCTT
1 CTTTAACTTT-CATATT
14803297 CTTTAACCTTTCATATT
1 CTTTAA-CTTTCATATT
14803314 CTTGTAACT
1 CTT-TAACT
14803323 ATTTTTTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.21, C:0.26, G:0.02, T:0.51
Consensus pattern (16 bp):
CTTTAACTTTCATATT
Found at i:14803898 original size:19 final size:19
Alignment explanation
Indices: 14803874--14803963 Score: 67
Period size: 19 Copynumber: 4.8 Consensus size: 19
14803864 TTAAATTTTT
14803874 TAAAAATGTAAAAAAATGA
1 TAAAAATGTAAAAAAATGA
* * *
14803893 TAAAAATATATAAAGATG-
1 TAAAAATGTAAAAAAATGA
* * *
14803911 TAAAATTTTAAAAAAGT-A
1 TAAAAATGTAAAAAAATGA
* * * *
14803929 AAAAAATATTAAACAAATTA
1 TAAAAAT-GTAAAAAAATGA
14803949 TAAAAATGTAAAAAA
1 TAAAAATGTAAAAAA
14803964 TATAGAATTA
Statistics
Matches: 53, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
18 17 0.32
19 29 0.55
20 7 0.13
ACGTcount: A:0.67, C:0.01, G:0.07, T:0.26
Consensus pattern (19 bp):
TAAAAATGTAAAAAAATGA
Found at i:14803951 original size:46 final size:45
Alignment explanation
Indices: 14803871--14803961 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 45
14803861 ATATTAAATT
* *
14803871 TTTTAAAAATGTAAAAAAATGATAAAAATATATAAAGATGTAAAA
1 TTTTAAAAAAGTAAAAAAATGATAAAAATATATAAAAATGTAAAA
14803916 TTTTAAAAAAGTAAAAAAAT-ATTAAACAA-ATTATAAAAATGTAAAA
1 TTTTAAAAAAGTAAAAAAATGA-TAAA-AATA-TATAAAAATGTAAAA
14803962 AATATAGAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
44 1 0.02
45 24 0.59
46 16 0.39
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.29
Consensus pattern (45 bp):
TTTTAAAAAAGTAAAAAAATGATAAAAATATATAAAAATGTAAAA
Found at i:14803955 original size:20 final size:19
Alignment explanation
Indices: 14803912--14803955 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
14803902 ATAAAGATGT
*
14803912 AAAATTTTAAAAAAGTAAA
1 AAAATATTAAAAAAGTAAA
* *
14803931 AAAATATTAAACAAATTATA
1 AAAATATTAAA-AAAGTAAA
14803951 AAAAT
1 AAAAT
14803956 GTAAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAATATTAAAAAAGTAAA
Found at i:14803977 original size:17 final size:18
Alignment explanation
Indices: 14803947--14803997 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
14803937 TTAAACAAAT
* *
14803947 TATAAAAATGTAAAAA-A
1 TATAAAATTATAAAAACA
*
14803964 TATAGAATTATAAAAACTA
1 TATAAAATTATAAAAAC-A
14803983 TATAAAATTATAAAA
1 TATAAAATTATAAAA
14803998 TATTAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 13 0.46
19 15 0.54
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
TATAAAATTATAAAAACA
Found at i:14804002 original size:10 final size:9
Alignment explanation
Indices: 14803943--14804002 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
14803933 AATATTAAAC
14803943 AAATTATAA
1 AAATTATAA
14803952 AAATGTA-AA
1 AAAT-TATAA
14803961 AAA-TAT-A
1 AAATTATAA
*
14803968 GAATTATAA
1 AAATTATAA
*
14803977 AAACTATATA
1 AAATTATA-A
14803987 AAATTATAA
1 AAATTATAA
14803996 AATATTA
1 AA-ATTA
14804003 ATTATAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
7 5 0.12
8 3 0.07
9 19 0.46
10 14 0.34
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (9 bp):
AAATTATAA
Found at i:14806427 original size:26 final size:26
Alignment explanation
Indices: 14806398--14806449 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
14806388 GTAAGTATTT
14806398 CATACTTAGTTTTTATATTTTCTAAC
1 CATACTTAGTTTTTATATTTTCTAAC
*
14806424 CATATTTAGTTTTTATATTTTCTAAC
1 CATACTTAGTTTTTATATTTTCTAAC
14806450 TCCTTACAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.13, G:0.04, T:0.56
Consensus pattern (26 bp):
CATACTTAGTTTTTATATTTTCTAAC
Found at i:14822256 original size:21 final size:21
Alignment explanation
Indices: 14822229--14822284 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
14822219 CTTGGGAAAG
*
14822229 TTCTACCAATACATGTGTA-AC
1 TTCTACCAATACAAGT-TATAC
*
14822250 TTTTACCGAA-ACAAGTTATAC
1 TTCTACC-AATACAAGTTATAC
14822271 TTCTACCAATACAA
1 TTCTACCAATACAA
14822285 AAAACTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 4 0.14
21 23 0.79
22 2 0.07
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (21 bp):
TTCTACCAATACAAGTTATAC
Found at i:14827514 original size:15 final size:15
Alignment explanation
Indices: 14827496--14827574 Score: 52
Period size: 15 Copynumber: 5.3 Consensus size: 15
14827486 TTGCAACGCA
*
14827496 AGTGTTCGCAACATC
1 AGTGTTCGCAACATG
* ***
14827511 AGTGTTTGCATTGTG
1 AGTGTTCGCAACATG
*
14827526 TGTGTTCGCAACATG
1 AGTGTTCGCAACATG
** * *
14827541 AGTGTTCATAGC-TCT
1 AGTGTTCGCAACAT-G
14827556 AGTGTTCGCAACATG
1 AGTGTTCGCAACATG
14827571 AGTG
1 AGTG
14827575 CTCGTATCTT
Statistics
Matches: 43, Mismatches: 19, Indels: 4
0.65 0.29 0.06
Matches are distributed among these distances:
14 1 0.02
15 41 0.95
16 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (15 bp):
AGTGTTCGCAACATG
Found at i:14827561 original size:30 final size:31
Alignment explanation
Indices: 14827496--14827574 Score: 101
Period size: 30 Copynumber: 2.6 Consensus size: 31
14827486 TTGCAACGCA
* * *
14827496 AGTGTTCGCAACATCAGTGTTTGCATTGTGT
1 AGTGTTCGCAACATGAGTGTTTGCATAGTCT
14827527 -GTGTTCGCAACATGAGTG-TT-CATAGCTCT
1 AGTGTTCGCAACATGAGTGTTTGCATAG-TCT
14827556 AGTGTTCGCAACATGAGTG
1 AGTGTTCGCAACATGAGTG
14827575 CTCGTATCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 4 0.09
29 4 0.09
30 35 0.81
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (31 bp):
AGTGTTCGCAACATGAGTGTTTGCATAGTCT
Found at i:14828296 original size:21 final size:22
Alignment explanation
Indices: 14828258--14828334 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 22
14828248 CCTGCAACTT
* *
14828258 CTACCAATACAAGC-ATACAAA
1 CTACCGATACATGCAATACAAA
14828279 CTACCGATACAT-CAATACACTTAA
1 CTACCGATACATGCAATACA---AA
* *
14828303 CTACCGATACTTGCAAT-CCAA
1 CTACCGATACATGCAATACAAA
*
14828324 CTACCAATACA
1 CTACCGATACA
14828335 ACTCAAGTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 1 0.02
21 26 0.58
24 14 0.31
25 4 0.09
ACGTcount: A:0.43, C:0.31, G:0.05, T:0.21
Consensus pattern (22 bp):
CTACCGATACATGCAATACAAA
Found at i:14830558 original size:44 final size:44
Alignment explanation
Indices: 14830494--14830577 Score: 159
Period size: 44 Copynumber: 1.9 Consensus size: 44
14830484 ACCATAAACA
*
14830494 ACTTCAAATGGTGAATGCTTGGTGGCCGAATGTACAGAACAGTT
1 ACTTCAAATGGTGAAAGCTTGGTGGCCGAATGTACAGAACAGTT
14830538 ACTTCAAATGGTGAAAGCTTGGTGGCCGAATGTACAGAAC
1 ACTTCAAATGGTGAAAGCTTGGTGGCCGAATGTACAGAAC
14830578 GATTGTAAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (44 bp):
ACTTCAAATGGTGAAAGCTTGGTGGCCGAATGTACAGAACAGTT
Found at i:14832431 original size:16 final size:16
Alignment explanation
Indices: 14832412--14832465 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 16
14832402 TCTTCTCTCT
*
14832412 TTTTTCTCTCAAGTTC
1 TTTTTCTCTCAATTTC
14832428 TTTTTCTCTTTCAATTTC
1 TTTTTCTC--TCAATTTC
14832446 TTTTTCTCTC-ATTTC
1 TTTTTCTCTCAATTTC
14832461 TTTTT
1 TTTTT
14832466 TTCTTCTCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
15 10 0.29
16 10 0.29
18 15 0.43
ACGTcount: A:0.09, C:0.22, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTTCTCTCAATTTC
Found at i:14832467 original size:18 final size:20
Alignment explanation
Indices: 14832446--14832491 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
14832436 TTTCAATTTC
14832446 TTTTTCTCTC-ATTTCTTTT
1 TTTTTCTCTCTATTTCTTTT
14832465 TTTCTTCTCTCTATTTCTTTT
1 TTT-TTCTCTCTATTTCTTTT
14832486 ATTTTT
1 -TTTTT
14832492 AGCTTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.12
20 7 0.29
21 11 0.46
22 3 0.12
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTCTCTCTATTTCTTTT
Found at i:14833365 original size:3 final size:3
Alignment explanation
Indices: 14833352--14833403 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
14833342 TTCAACTAGC
*
14833352 TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
14833400 TCT T
1 TCT T
14833404 TAATATAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:14834981 original size:15 final size:15
Alignment explanation
Indices: 14834960--14834998 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
14834950 GCAACGTTCA
*
14834960 TGCTCGCATTATTCG
1 TGCTCGCATTACTCG
* *
14834975 TGTTCGCACTACTCG
1 TGCTCGCATTACTCG
14834990 TGCTCGCAT
1 TGCTCGCAT
14834999 CATAGGGTAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.13, C:0.31, G:0.21, T:0.36
Consensus pattern (15 bp):
TGCTCGCATTACTCG
Found at i:14835842 original size:41 final size:41
Alignment explanation
Indices: 14835796--14835877 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
14835786 TGTTTTGGAG
14835796 AATGTTTTCCTTTAGGAATTCATTTTCCACCAAACAAATAC
1 AATGTTTTCCTTTAGGAATTCATTTTCCACCAAACAAATAC
14835837 AATGTTTTCCTTTAGGAATTCATTTTCCACCAAACAAATAC
1 AATGTTTTCCTTTAGGAATTCATTTTCCACCAAACAAATAC
14835878 CGTAAAACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (41 bp):
AATGTTTTCCTTTAGGAATTCATTTTCCACCAAACAAATAC
Found at i:14840187 original size:16 final size:16
Alignment explanation
Indices: 14840165--14840196 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
14840155 TAGACTTGAT
14840165 TTATATAT-AT-GTTG
1 TTATATATAATAGTTG
14840179 TTATATATAATAGTTG
1 TTATATATAATAGTTG
14840195 TT
1 TT
14840197 GTTGACATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (16 bp):
TTATATATAATAGTTG
Found at i:14840341 original size:16 final size:16
Alignment explanation
Indices: 14840320--14840398 Score: 95
Period size: 16 Copynumber: 4.6 Consensus size: 16
14840310 GTGTTTTCTA
14840320 GCTTTGTGCCTAGTAG
1 GCTTTGTGCCTAGTAG
*
14840336 GCTTTGTGCCTGTGTTTTCAG
1 GCTTTGTGCCT-AG---T-AG
14840357 GCTTTGTGCCTAGTAG
1 GCTTTGTGCCTAGTAG
*
14840373 GCTTTGTGCCTAGCAG
1 GCTTTGTGCCTAGTAG
14840389 GCTTTGTGCC
1 GCTTTGTGCC
14840399 GGTGATCCAA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
16 38 0.69
17 2 0.04
20 2 0.04
21 13 0.24
ACGTcount: A:0.09, C:0.22, G:0.30, T:0.39
Consensus pattern (16 bp):
GCTTTGTGCCTAGTAG
Found at i:14840359 original size:73 final size:74
Alignment explanation
Indices: 14840240--14840376 Score: 231
Period size: 73 Copynumber: 1.9 Consensus size: 74
14840230 TTTGCACAAA
*
14840240 TTTTCAAGCTTTGTGCCTGGTAGGCTTCGTGCCGGTGTTTTCAGGCTTTGTG-CTAGTAGGCTTC
1 TTTTCAAGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAGGCTTTGTGCCTAGTAGGCTTC
14840304 ATGCCGGTG
66 ATGCCGGTG
* * *
14840313 TTTTCTAGCTTTGTGCCTAGTAGGCTTTGTGCCTGTGTTTTCAGGCTTTGTGCCTAGTAGGCTT
1 TTTTCAAGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAGGCTTTGTGCCTAGTAGGCTT
14840377 TGTGCCTAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
73 48 0.81
74 11 0.19
ACGTcount: A:0.09, C:0.20, G:0.29, T:0.42
Consensus pattern (74 bp):
TTTTCAAGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAGGCTTTGTGCCTAGTAGGCTTC
ATGCCGGTG
Found at i:14840383 original size:37 final size:37
Alignment explanation
Indices: 14840240--14840382 Score: 209
Period size: 37 Copynumber: 3.9 Consensus size: 37
14840230 TTTGCACAAA
* *
14840240 TTTTCAAGCTTTGTGCCTGGTAGGCTTCGTGCCGGTG
1 TTTTCAGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTG
*
14840277 TTTTCAGGCTTTGTG-CTAGTAGGCTTCATGCCGGTG
1 TTTTCAGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTG
* *
14840313 TTTTCTA-GCTTTGTGCCTAGTAGGCTTTGTGCCTGTG
1 TTTTC-AGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTG
*
14840350 TTTTCAGGCTTTGTGCCTAGTAGGCTTTGTGCC
1 TTTTCAGGCTTTGTGCCTAGTAGGCTTCGTGCC
14840383 TAGCAGGCTT
Statistics
Matches: 97, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
36 33 0.34
37 64 0.66
ACGTcount: A:0.09, C:0.20, G:0.29, T:0.41
Consensus pattern (37 bp):
TTTTCAGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTG
Found at i:14850089 original size:24 final size:24
Alignment explanation
Indices: 14850061--14850111 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
14850051 AGAAATAATC
* *
14850061 TTTCATTTAAACTTTATTTATTTG
1 TTTCAATTAAACTATATTTATTTG
*
14850085 TTTCAATTAAACTATGTTTATTTG
1 TTTCAATTAAACTATATTTATTTG
14850109 TTT
1 TTT
14850112 GAGTCAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTCAATTAAACTATATTTATTTG
Found at i:14850120 original size:24 final size:24
Alignment explanation
Indices: 14850077--14850123 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
14850067 TTAAACTTTA
*
14850077 TTTATTTGTTTCAATTAAACTATG
1 TTTATTTGTTTCAATCAAACTATG
* *
14850101 TTTATTTGTTTGAGTCAAACTAT
1 TTTATTTGTTTCAATCAAACTAT
14850124 TATTAGTCTA
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:0.28, C:0.09, G:0.11, T:0.53
Consensus pattern (24 bp):
TTTATTTGTTTCAATCAAACTATG
Found at i:14852044 original size:24 final size:24
Alignment explanation
Indices: 14852016--14852078 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
14852006 AGAAATAATC
14852016 TTTCAGTTAAACTCTATTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
* * *
14852040 TTTCAATTAAACTCTTTTTTTTTG
1 TTTCAGTTAAACTCTATTTATTTG
* *
14852064 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
14852079 TATTAGTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.24, C:0.14, G:0.08, T:0.54
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTATTTG
Found at i:14852265 original size:15 final size:17
Alignment explanation
Indices: 14852247--14852282 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
14852237 CGGGGTTCAA
14852247 TTTTTA-TCTTCA-TCT
1 TTTTTACTCTTCATTCT
14852262 TTTTTACTCTTCATTCT
1 TTTTTACTCTTCATTCT
14852279 TTTT
1 TTTT
14852283 CCATTATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 6 0.32
17 7 0.37
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTACTCTTCATTCT
Found at i:14854869 original size:14 final size:14
Alignment explanation
Indices: 14854849--14854889 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
14854839 ATTGATTTAA
*
14854849 AAATTAATATAAAT
1 AAATTAATTTAAAT
* *
14854863 TAATTAATTTAAGT
1 AAATTAATTTAAAT
14854877 AAATTAATTTAAA
1 AAATTAATTTAAA
14854890 ATTTGATTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
AAATTAATTTAAAT
Found at i:14855714 original size:12 final size:12
Alignment explanation
Indices: 14855697--14855731 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
14855687 CCGGCCGTCC
14855697 ATATTAATTTTT
1 ATATTAATTTTT
14855709 ATATT-ATTTTT
1 ATATTAATTTTT
14855720 ATA-TAATTTTT
1 ATATTAATTTTT
14855731 A
1 A
14855732 AATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 16 0.73
12 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:14855884 original size:30 final size:30
Alignment explanation
Indices: 14855848--14855941 Score: 172
Period size: 30 Copynumber: 3.2 Consensus size: 30
14855838 TAACTTAACA
14855848 AACAAATACCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
*
14855878 AACAAATACCTATAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
14855908 AACAAATACCTCTAAAATAATAA-AAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
14855937 AACAA
1 AACAA
14855942 TAAAATAAGT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
29 11 0.18
30 51 0.82
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAATAACAAAATT
Found at i:14856053 original size:14 final size:13
Alignment explanation
Indices: 14856028--14856052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14856018 GGAAGAAAGC
14856028 AGCATTAAAAAAT
1 AGCATTAAAAAAT
14856041 AGCATTAAAAAA
1 AGCATTAAAAAA
14856053 ACAAAAAAAA
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:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (13 bp):
AGCATTAAAAAAT
Found at i:14862336 original size:25 final size:24
Alignment explanation
Indices: 14862282--14862337 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
14862272 AATAGGTTAT
* *
14862282 TTATTATTTTTCTAATATTATATA
1 TTATAATTTTTCTAATATCATATA
*
14862306 TTATAATTTTTACTAAT-TCATATT
1 TTATAATTTTT-CTAATATCATATA
14862330 TTAATAAT
1 TT-ATAAT
14862338 AATTATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATAATTTTTCTAATATCATATA
Found at i:14862380 original size:38 final size:37
Alignment explanation
Indices: 14862329--14862400 Score: 117
Period size: 38 Copynumber: 1.9 Consensus size: 37
14862319 TAATTCATAT
*
14862329 TTTAATAATAATTATATTAAAAATATTATTAAATTGTA
1 TTTAATAATAATTATATT-AAAATATAATTAAATTGTA
*
14862367 TTTAATAATAATTATGTTAAAATATAATTAAATT
1 TTTAATAATAATTATATTAAAATATAATTAAATT
14862401 AATTAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 15 0.47
38 17 0.53
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (37 bp):
TTTAATAATAATTATATTAAAATATAATTAAATTGTA
Found at i:14862627 original size:16 final size:16
Alignment explanation
Indices: 14862606--14862642 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
14862596 TGAATTACTG
14862606 ATTACAG-TCCTATTCC
1 ATTACAGCT-CTATTCC
14862622 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
14862638 ATTAC
1 ATTAC
14862643 TGCGAACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:14864028 original size:17 final size:17
Alignment explanation
Indices: 14864008--14864066 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
14863998 TATTTTAAAA
*
14864008 TTAATTTTAAATTCTAT
1 TTAAATTTAAATTCTAT
14864025 TTAAATTTAAATT-TATT
1 TTAAATTTAAATTCTA-T
*
14864042 TTAAGTTTAAATTC-AT
1 TTAAATTTAAATTCTAT
14864058 TTAAATTTA
1 TTAAATTTA
14864067 TTTTAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 11 0.30
17 26 0.70
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (17 bp):
TTAAATTTAAATTCTAT
Found at i:14864044 original size:11 final size:11
Alignment explanation
Indices: 14863996--14864077 Score: 62
Period size: 11 Copynumber: 7.4 Consensus size: 11
14863986 TTGGATTTTG
14863996 TTTATTTTAAAA
1 TTTATTTT-AAA
*
14864008 TTAATTTTAAA
1 TTTATTTTAAA
14864019 TTCTA-TTTAAA
1 TT-TATTTTAAA
* *
14864030 TTTAAATTT-AT
1 TTT-ATTTTAAA
*
14864041 TTTAAGTTTAAA
1 TTT-ATTTTAAA
*
14864053 TTCA-TTTAAA
1 TTTATTTTAAA
14864063 TTTATTTTAAA
1 TTTATTTTAAA
14864074 TTTA
1 TTTA
14864078 AAAATGATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
10 10 0.17
11 34 0.59
12 14 0.24
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.57
Consensus pattern (11 bp):
TTTATTTTAAA
Found at i:14864065 original size:6 final size:6
Alignment explanation
Indices: 14864001--14864079 Score: 53
Period size: 6 Copynumber: 14.0 Consensus size: 6
14863991 TTTTGTTTAT
* * * *
14864001 TTTAAA ATTAAT TTTAAA TTCT--A TTTAAA TTTAAA TTT-AT TTTAAG
1 TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
14864047 TTTAAA -TT-CA TTTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
14864080 AATGATATTA
Statistics
Matches: 55, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
4 2 0.04
5 15 0.27
6 37 0.67
7 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:14865937 original size:60 final size:60
Alignment explanation
Indices: 14865866--14866150 Score: 358
Period size: 60 Copynumber: 4.7 Consensus size: 60
14865856 AAATTGTCCA
* * *
14865866 AAAATTATATTTTAACCCTAAAAC-TTTCTAAAAATTACATTTTGACCATAAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTC-AAAAATTACATTTTAACCATAAAACTTTTCC
** * * * *
14865926 AAAATTATATTTTGACCTTAAAACTTTTCCAAAATTATATTTTAACCAAAAAAC-TTTCTA
1 AAAATTATATTTTGACCCCAAAACTTTTCAAAAATTACATTTTAACCATAAAACTTTTC-C
** *
14865986 AAAATTATATTTTGACCCCAAAACTTTTCAAAAATTACATTTTAACCCCAAAACCTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTCAAAAATTACATTTTAACCATAAAACTTTTCC
* * * * * *
14866046 AAAATTACATTTTGACCCCAAAACCTTTCCAAAATTACATTTTGACCCTAAAACTTTTCT
1 AAAATTATATTTTGACCCCAAAACTTTTCAAAAATTACATTTTAACCATAAAACTTTTCC
*
14866106 AAAATTATATTTTGACCCCAAAACTTTTCAGAAATTACCATTTTA
1 AAAATTATATTTTGACCCCAAAACTTTTCAAAAATTA-CATTTTA
14866151 CCCCCAATCT
Statistics
Matches: 195, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
59 4 0.02
60 177 0.91
61 14 0.07
ACGTcount: A:0.40, C:0.20, G:0.02, T:0.37
Consensus pattern (60 bp):
AAAATTATATTTTGACCCCAAAACTTTTCAAAAATTACATTTTAACCATAAAACTTTTCC
Found at i:14866020 original size:90 final size:90
Alignment explanation
Indices: 14865866--14866142 Score: 378
Period size: 90 Copynumber: 3.1 Consensus size: 90
14865856 AAATTGTCCA
* * *
14865866 AAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCATAAAACTTTTCCAAAAT
1 AAAATTATATTTTAACCCAAAAACTTTCTAAAAATTACATTTTGACCCTAAAACTTTTCAAAAAT
**
14865931 TATATTTTGACCTTAAAACTTTTCC
66 TATATTTTGACCCCAAAACTTTTCC
* * *
14865956 AAAATTATATTTTAACCAAAAAACTTTCTAAAAATTATATTTTGACCCCAAAACTTTTCAAAAAT
1 AAAATTATATTTTAACCCAAAAACTTTCTAAAAATTACATTTTGACCCTAAAACTTTTCAAAAAT
* * *
14866021 TACATTTTAACCCCAAAACCTTTCC
66 TATATTTTGACCCCAAAACTTTTCC
* * * * *
14866046 AAAATTACATTTTGACCCCAAAACCTTTC-CAAAATTACATTTTGACCCTAAAACTTTTCTAAAA
1 AAAATTATATTTT-AACCCAAAAACTTTCTAAAAATTACATTTTGACCCTAAAACTTTTCAAAAA
14866110 TTATATTTTGACCCCAAAACTTTT-C
65 TTATATTTTGACCCCAAAACTTTTCC
14866135 AGAAATTA
1 A-AAATTA
14866143 CCATTTTACC
Statistics
Matches: 163, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
89 2 0.01
90 149 0.91
91 12 0.07
ACGTcount: A:0.41, C:0.20, G:0.03, T:0.36
Consensus pattern (90 bp):
AAAATTATATTTTAACCCAAAAACTTTCTAAAAATTACATTTTGACCCTAAAACTTTTCAAAAAT
TATATTTTGACCCCAAAACTTTTCC
Found at i:14866133 original size:30 final size:30
Alignment explanation
Indices: 14865866--14866142 Score: 317
Period size: 30 Copynumber: 9.2 Consensus size: 30
14865856 AAATTGTCCA
* * *
14865866 AAAATTATATTTTAACCCTAAAAC-TTTCTA
1 AAAATTATATTTTGACCCCAAAACTTTTC-C
* **
14865896 AAAATTACATTTTGACCATAAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTCC
**
14865926 AAAATTATATTTTGACCTTAAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTCC
* ** *
14865956 AAAATTATATTTTAACCAAAAAAC-TTTCTA
1 AAAATTATATTTTGACCCCAAAACTTTTC-C
*
14865986 AAAATTATATTTTGACCCCAAAACTTTTCA
1 AAAATTATATTTTGACCCCAAAACTTTTCC
* * *
14866016 AAAATTACATTTTAACCCCAAAACCTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTCC
* *
14866046 AAAATTACATTTTGACCCCAAAACCTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTCC
* * *
14866076 AAAATTACATTTTGACCCTAAAACTTTTCT
1 AAAATTATATTTTGACCCCAAAACTTTTCC
14866106 AAAATTATATTTTGACCCCAAAACTTTT-C
1 AAAATTATATTTTGACCCCAAAACTTTTCC
14866135 AGAAATTA
1 A-AAATTA
14866143 CCATTTTACC
Statistics
Matches: 219, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.02
30 206 0.94
31 8 0.04
ACGTcount: A:0.41, C:0.20, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATTATATTTTGACCCCAAAACTTTTCC
Found at i:14866184 original size:60 final size:57
Alignment explanation
Indices: 14865875--14866184 Score: 221
Period size: 60 Copynumber: 5.2 Consensus size: 57
14865865 AAAAATTATA
* * * * ** * *
14865875 TTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCATAAAACTTTTCCAAAATTAT
1 TTTTGACCCCAAAACTTT-TCAAAATTACATTTTAACCCCAAAAC-TTTCCTAAATCAT
** * ** *
14865934 ATTTTGACCTTAAAACTTTTCCAAAATTATATTTTAACCAAAAAACTTT-CTAAAAATTAT
1 -TTTTGACCCCAAAACTTTT-CAAAATTACATTTTAACCCCAAAACTTTCCT--AAATCAT
*
14865994 ATTTTGACCCCAAAACTTTTCAAAAATTACATTTTAACCCCAAAACCTTTCCAAAATTACA-
1 -TTTTGACCCCAAAACTTTTC-AAAATTACATTTTAACCCCAAAA-CTTTCCTAAA-T-CAT
* * * * *
14866055 TTTTGACCCCAAAACCTTTCCAAAATTACATTTTGACCCTAAAACTTTTCTAAAATTAT
1 TTTTGACCCCAAAA-CTTTTCAAAATTACATTTTAACCCCAAAACTTTCCT-AAATCAT
* * *
14866114 ATTTTGACCCCAAAACTTTTCAGAAATTACCATTTT-ACCCCCAATCTTCCCTAAATCCCAT
1 -TTTTGACCCCAAAACTTTTCA-AAATTA-CATTTTAACCCCAAAACTTTCCTAAAT--CAT
*
14866175 TTTTAACCCC
1 TTTTGACCCC
14866185 GATTTCACCA
Statistics
Matches: 206, Mismatches: 28, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
58 2 0.01
59 21 0.10
60 163 0.79
61 18 0.09
62 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (57 bp):
TTTTGACCCCAAAACTTTTCAAAATTACATTTTAACCCCAAAACTTTCCTAAATCAT
Found at i:14866204 original size:59 final size:58
Alignment explanation
Indices: 14866140--14866448 Score: 248
Period size: 59 Copynumber: 5.3 Consensus size: 58
14866130 TTTTCAGAAA
* * *
14866140 TTACCATTTTACCCCCAATCTTCCCTAAATCCCATTTTTAACCCCGATTTCACCAAAAC
1 TTACCATTTTACCCCCAA-CTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAC
* * * * * * ** * *
14866199 CTACCATTTTGCCTTCGAACTTTCCAAAATTTCATTTTTGA-CCTTATTTTTACCAAAAT
1 TTACCATTTTACC-CCCAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCACCAAAAC
* * * *
14866258 TTACCATTTTACCCTCAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCACCAAAAC
1 TTACCATTTTACCC-CCAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAC
* * * * * ** ** *
14866317 TTACCGTTTTGCCTCCGAACTTTCCAAAATTTCATTTTTGA-CCTTATTTTTGCCAAAAT
1 TTACCATTTTACC-CCCAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCACCAAAAC
* * *
14866376 TTACCATTTTATTCCCCAAACTTTCC-AAATTCCATTTTTAGCCCCGATTTCA-CAAAAA
1 TTACCATTTTA--CCCCCAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAC
14866434 TTACCATTTTACCCC
1 TTACCATTTTACCCC
14866449 TAAAAACCCA
Statistics
Matches: 191, Mismatches: 50, Indels: 21
0.73 0.19 0.08
Matches are distributed among these distances:
56 4 0.02
58 22 0.12
59 143 0.75
60 20 0.10
61 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.04, T:0.38
Consensus pattern (58 bp):
TTACCATTTTACCCCCAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAC
Found at i:14866263 original size:118 final size:118
Alignment explanation
Indices: 14866140--14866443 Score: 486
Period size: 118 Copynumber: 2.6 Consensus size: 118
14866130 TTTTCAGAAA
* *
14866140 TTACCATTTTACCCCCAATCTTCCCTAAATCCCATTTTTAACCCCGATTTCACCAAAACCTACCA
1 TTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCACCAAAACTTACCA
*
14866205 TTTTGCCTTCGAACTTTCCAAAATTTCATTTTTGACCTTATTTTTACCAAAAT
66 TTTTGCCTCCGAACTTTCCAAAATTTCATTTTTGACCTTATTTTTACCAAAAT
* *
14866258 TTACCATTTTACCCTCAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCACCAAAACTTACCG
1 TTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCACCAAAACTTACCA
*
14866323 TTTTGCCTCCGAACTTTCCAAAATTTCATTTTTGACCTTATTTTTGCCAAAAT
66 TTTTGCCTCCGAACTTTCCAAAATTTCATTTTTGACCTTATTTTTACCAAAAT
* * * * *
14866376 TTACCATTTTATTCCCCAAACTTTCC-AAATTCCATTTTTAGCCCCGATTTCA-CAAAAATTACC
1 TTACCATTTTA-CCCCCAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCACCAAAACTTACC
14866439 ATTTT
65 ATTTT
14866444 ACCCCTAAAA
Statistics
Matches: 172, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
117 14 0.08
118 147 0.85
119 11 0.06
ACGTcount: A:0.28, C:0.30, G:0.04, T:0.38
Consensus pattern (118 bp):
TTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCACCAAAACTTACCA
TTTTGCCTCCGAACTTTCCAAAATTTCATTTTTGACCTTATTTTTACCAAAAT
Found at i:14878385 original size:68 final size:68
Alignment explanation
Indices: 14878205--14878748 Score: 883
Period size: 69 Copynumber: 7.9 Consensus size: 68
14878195 ATCATTTCCA
* *
14878205 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
14878270 G-C
66 GTC
* *
14878272 AAATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 --ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
*
14878337 ATGTC
64 ACGTC
* *
14878342 ATCCCCTTGAAATTGAAGTAGAGTGAATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
*
14878407 GCC
66 GTC
*
14878410 AATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 -ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
14878475 CGTC
65 CGTC
*
14878479 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
14878544 GTC
66 GTC
* *
14878547 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTTAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
14878612 GTC
66 GTC
* *
14878615 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
14878680 CGTC
65 CGTC
* * *
14878684 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
14878749 GATTATTTCC
Statistics
Matches: 453, Mismatches: 19, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
68 219 0.48
69 233 0.51
70 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (68 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
GTC
Found at i:14878456 original size:137 final size:136
Alignment explanation
Indices: 14878205--14878748 Score: 908
Period size: 137 Copynumber: 4.0 Consensus size: 136
14878195 ATCATTTCCA
* *
14878205 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
*
14878270 GCAAATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
66 GC-CATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
*
14878335 CAATGTC
130 CAACGTC
* *
14878342 ATCCCCTTGAAATTGAAGTAGAGTGAATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
*
14878407 GCCAATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
66 GCC-ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
14878472 CAACGTC
130 CAACGTC
*
14878479 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
* * *
14878544 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTTAAGTAAGAGC
66 GCCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC
14878609 AACGTC
131 AACGTC
* *
14878615 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
* * *
14878680 CGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGA
65 CGCCATCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
14878745 GCAA
129 GCAA
14878749 GATTATTTCC
Statistics
Matches: 386, Mismatches: 18, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
136 87 0.23
137 260 0.67
138 39 0.10
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (136 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
GCCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC
AACGTC
Found at i:14878666 original size:38 final size:37
Alignment explanation
Indices: 14878212--14878741 Score: 242
Period size: 37 Copynumber: 15.4 Consensus size: 37
14878202 CCAATCCGCT
14878212 TGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTC
1 TGAAATTGAAGTAGAGTTGGATAACA-GTCTTCATCTC
* * *
14878249 TGAAATTGAAGTAAGAGCAAT-G-CAA-A-TC--C-GCT-
1 TGAAATTGAAGT-AGAG--TTGGATAACAGTCTTCATCTC
*
14878281 TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTC
1 TGAAATTGAAGTAGAGTTGGATAACA-GTCTTCATCTC
* * * * **
14878318 TGAAATTGAAGTA-AG--AG-CAA-TGTCATCCCCT-
1 TGAAATTGAAGTAGAGTTGGATAACAGTCTTCATCTC
*
14878349 TGAAATTGAAGTAGAG-TGAATAACACGTCTTCATCTC
1 TGAAATTGAAGTAGAGTTGGATAACA-GTCTTCATCTC
** ** * *
14878386 TGAAATTGAAGTAAGAG--CAATGCCAATC--C-GCT-
1 TGAAATTGAAGT-AGAGTTGGATAACAGTCTTCATCTC
14878418 TGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTC
1 TGAAATTGAAGTAGAGTTGGATAACA-GTCTTCATCTC
* * * **
14878455 TGAAATTGAAGTA-AG--AG-CAAC-GTCATCCCCT-
1 TGAAATTGAAGTAGAGTTGGATAACAGTCTTCATCTC
*
14878486 TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTC
1 TGAAATTGAAGTAGAGTTGGATAACA-GTCTTCATCTC
* * * **
14878523 TGAAATTGAAGTA-AG--AG-CAAC-GTCATCCCCT-
1 TGAAATTGAAGTAGAGTTGGATAACAGTCTTCATCTC
*
14878554 TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTC
1 TGAAATTGAAGTAGAGTTGGATAACA-GTCTTCATCTC
* * * * *
14878591 TGAAATTTAAGTA-AG--AG-CAAC-GTCATCCTCT-
1 TGAAATTGAAGTAGAGTTGGATAACAGTCTTCATCTC
14878622 TGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTC
1 TGAAATTGAAGTAGAGTTGGATAAC-AGTCTTCATCTC
* * * *
14878660 TGAAATTGAAGTA-AG--AG-CAAC-GTCATCCTCT-
1 TGAAATTGAAGTAGAGTTGGATAACAGTCTTCATCTC
* *
14878691 TGAAATTGAAGTAGAGTTGGATAACACGCCTTTATCTC
1 TGAAATTGAAGTAGAGTTGGATAACA-GTCTTCATCTC
14878729 TGAAATTGAAGTA
1 TGAAATTGAAGTA
14878742 AGAGCAAGAT
Statistics
Matches: 367, Mismatches: 74, Indels: 103
0.67 0.14 0.19
Matches are distributed among these distances:
28 1 0.00
29 1 0.00
30 2 0.01
31 73 0.20
32 72 0.20
33 10 0.03
34 26 0.07
35 12 0.03
36 35 0.10
37 96 0.26
38 35 0.10
39 2 0.01
40 1 0.00
41 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (37 bp):
TGAAATTGAAGTAGAGTTGGATAACAGTCTTCATCTC
Found at i:14879148 original size:27 final size:27
Alignment explanation
Indices: 14879112--14879176 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
14879102 TTCTATTTAA
*
14879112 ATTTAAATTTATTTTAAGTTTAAATTC
1 ATTTAAATTTATTTTAAATTTAAATTC
*
14879139 ATTTAAATTTATTTTAAATTTAAATTT
1 ATTTAAATTTATTTTAAATTTAAATTC
*
14879166 AATTAAATTTA
1 ATTTAAATTTA
14879177 AAAATGATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
ATTTAAATTTATTTTAAATTTAAATTC
Found at i:14879159 original size:17 final size:16
Alignment explanation
Indices: 14879091--14879178 Score: 87
Period size: 17 Copynumber: 5.7 Consensus size: 16
14879081 TATTTTAAAA
*
14879091 TTAATTTTAAATTCTAT
1 TTAAATTTAAATT-TAT
14879108 TTAAATTTAAATTTATT
1 TTAAATTTAAATTTA-T
* *
14879125 TTAAGTTTAAATTCAT
1 TTAAATTTAAATTTAT
14879141 TTAAATTT--A--T-T
1 TTAAATTTAAATTTAT
*
14879152 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAT
14879168 TTAAATTTAAA
1 TTAAATTTAAA
14879179 AATGATATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
11 9 0.15
13 1 0.02
14 1 0.02
15 1 0.02
16 21 0.36
17 26 0.44
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:14879169 original size:11 final size:11
Alignment explanation
Indices: 14879079--14879178 Score: 73
Period size: 11 Copynumber: 9.0 Consensus size: 11
14879069 TTGGATTTTG
*
14879079 TTTATTTTAAA
1 TTTAATTTAAA
*
14879090 ATTAATTTTAAA
1 TTTAA-TTTAAA
14879102 TTCT-ATTTAAA
1 TT-TAATTTAAA
*
14879113 TTTAAATTT-AT
1 TTT-AATTTAAA
14879124 TTTAAGTTTAAA
1 TTTAA-TTTAAA
*
14879136 -TTCATTTAAA
1 TTTAATTTAAA
*
14879146 TTTATTTTAAA
1 TTTAATTTAAA
14879157 TTTAAATTT-AA
1 TTT-AATTTAAA
*
14879168 TTAAATTTAAA
1 TTTAATTTAAA
14879179 AATGATATTA
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
10 14 0.20
11 38 0.54
12 17 0.24
13 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:14879177 original size:6 final size:6
Alignment explanation
Indices: 14879084--14879178 Score: 71
Period size: 6 Copynumber: 17.0 Consensus size: 6
14879074 TTTTGTTTAT
* * * *
14879084 TTTAAA ATTAAT TTTAAA TTCT--A TTTAAA TTTAAA TTT-AT TTTAAG
1 TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
14879130 TTTAAA -TT-CA TTTAAA TTT-AT TTTAAA TTTAAA TTT-AA -TTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
14879173 TTTAAA
1 TTTAAA
14879179 AATGATATTA
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
4 4 0.06
5 19 0.28
6 45 0.65
7 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:14881015 original size:30 final size:30
Alignment explanation
Indices: 14880978--14881275 Score: 393
Period size: 30 Copynumber: 9.9 Consensus size: 30
14880968 CTAAATTGTC
* *
14880978 CAAAAATTATATTTTAACCCCAAAAC-TTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
* *
14881007 CTAAAAATTACATTTTGACCACAAAAATTTT
1 C-AAAAATTACATTTTGACCCCAAAACTTTT
* *
14881038 CCAAAATTATATTTTGACCCCAAAACTTTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
* * *
14881068 CCAAAATTACATTTTAACCCTAAAACTTTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
*
14881098 CAAAAATTACATTTTGACCCTAAAACTTTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
* *
14881128 CCAAAATTACATTTTGACCCCAAAACCTTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
* *
14881158 CCAAAATTACATTTTGACCCCAAAACCTTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
*
14881188 CTAAAATTACATTTTGACCCCAAAACTTTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
* * *
14881218 CTAAAATTATATTTTGACCCTAAAACTTTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
*
14881248 CAAAAATTACCATTTT-ACCCCCAAACTT
1 CAAAAATTA-CATTTTGACCCCAAAACTT
14881276 CCCTAAATCC
Statistics
Matches: 242, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
29 1 0.00
30 232 0.96
31 9 0.04
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.35
Consensus pattern (30 bp):
CAAAAATTACATTTTGACCCCAAAACTTTT
Found at i:14881334 original size:59 final size:59
Alignment explanation
Indices: 14881248--14881556 Score: 194
Period size: 59 Copynumber: 5.3 Consensus size: 59
14881238 TAAAACTTTT
* * * *
14881248 CAAAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTTAACCATGATTTCAC
1 CAAAACTTACCGTTTTGCCTCCAAACTTCCCTAAATCCCATTTTTAACCATGATTTCAC
* *** * * ** * * * *
14881307 CAAAACCTACCGTTTTGCCTTTGAACTTTCCAAAATTTCATTTTTGACCTTGTTTTTAC
1 CAAAACTTACCGTTTTGCCTCCAAACTTCCCTAAATCCCATTTTTAACCATGATTTCAC
* * * * **
14881366 CAAAATTTACCATTTTACCCCCAAACTTCCCTAAATCCC-TTTTTAACCCCGATTTCAC
1 CAAAACTTACCGTTTTGCCTCCAAACTTCCCTAAATCCCATTTTTAACCATGATTTCAC
* * * ** * * * **
14881424 CAAAACTTACCGTTTTGCCTCCGAACTTTCCAAAATTTCATTTTTGACCTTGTTTTTGC
1 CAAAACTTACCGTTTTGCCTCCAAACTTCCCTAAATCCCATTTTTAACCATGATTTCAC
* * * * * * **
14881483 CAAAATTTACCATTTTATTCC-CCAAACTTTCC-AAATTCCATTTTTAGCCCCGATTTCA-
1 CAAAACTTACC-GTTT-TGCCTCCAAACTTCCCTAAATCCCATTTTTAACCATGATTTCAC
* *
14881541 CAAAAATTACCATTTT
1 CAAAACTTACCGTTTT
14881557 ACCCCTAAAA
Statistics
Matches: 185, Mismatches: 62, Indels: 9
0.72 0.24 0.04
Matches are distributed among these distances:
56 1 0.01
57 3 0.02
58 54 0.29
59 111 0.60
60 13 0.07
61 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.05, T:0.38
Consensus pattern (59 bp):
CAAAACTTACCGTTTTGCCTCCAAACTTCCCTAAATCCCATTTTTAACCATGATTTCAC
Found at i:14881376 original size:118 final size:118
Alignment explanation
Indices: 14881248--14881546 Score: 467
Period size: 117 Copynumber: 2.5 Consensus size: 118
14881238 TAAAACTTTT
* **
14881248 CAAAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTTAACCATGATTTCACCAAAAC
1 CAAAATTTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCACCAAAAC
**
14881313 CTACCGTTTTGCCTTTGAACTTTCCAAAATTTCATTTTTGACCTTGTTTTTAC
66 CTACCGTTTTGCCTCCGAACTTTCCAAAATTTCATTTTTGACCTTGTTTTTAC
14881366 CAAAATTTACCATTTTACCCCCAAACTTCCCTAAATCCC-TTTTTAACCCCGATTTCACCAAAAC
1 CAAAATTTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCACCAAAAC
* *
14881430 TTACCGTTTTGCCTCCGAACTTTCCAAAATTTCATTTTTGACCTTGTTTTTGC
66 CTACCGTTTTGCCTCCGAACTTTCCAAAATTTCATTTTTGACCTTGTTTTTAC
* * * * *
14881483 CAAAATTTACCATTTTATTCCCCAAACTTTCC-AAATTCCATTTTTAGCCCCGATTTCACAAAAA
1 CAAAATTTACCATTTTA-CCCCCAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCACCAAAA
14881547 TTACCATTTT
Statistics
Matches: 167, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
117 95 0.57
118 72 0.43
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.37
Consensus pattern (118 bp):
CAAAATTTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCACCAAAAC
CTACCGTTTTGCCTCCGAACTTTCCAAAATTTCATTTTTGACCTTGTTTTTAC
Found at i:14883770 original size:16 final size:16
Alignment explanation
Indices: 14883749--14883785 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
14883739 GGTTGGGATA
14883749 AATAGAATAG-GACTGT
1 AATAGAATAGAGA-TGT
14883765 AATAGAATAGAGATGT
1 AATAGAATAGAGATGT
14883781 AATAG
1 AATAG
14883786 TAATTCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.49, C:0.03, G:0.24, T:0.24
Consensus pattern (16 bp):
AATAGAATAGAGATGT
Found at i:14884143 original size:20 final size:20
Alignment explanation
Indices: 14884118--14884159 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
14884108 AACAAATAAT
*
14884118 TCTTATAAGGTTCTTAAAAA
1 TCTTATAAGGTTATTAAAAA
14884138 TCTTATAAGGTTATTAAAAA
1 TCTTATAAGGTTATTAAAAA
14884158 TC
1 TC
14884160 AAGAGTGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
TCTTATAAGGTTATTAAAAA
Found at i:14893162 original size:59 final size:59
Alignment explanation
Indices: 14893074--14893489 Score: 529
Period size: 59 Copynumber: 7.1 Consensus size: 59
14893064 CCGATCCAAT
* *
14893074 ATCGTGCAAAAGATCTTTTAACAGGCAGTTCAGAATTGAAAGCGAACATGAGCTGTCCA
1 ATCGTGCAAAAGATCTTTTAACAGGCAGTTCAGAATCGAAAGCGAACATGAGCAGTCCA
* * * * *
14893133 ATTGTGCAAAAGATCTTCTAACAGGCAGTTCAGAATCGAAAGCGAACATGCA-AAATCCG
1 ATCGTGCAAAAGATCTTTTAACAGGCAGTTCAGAATCGAAAGCGAACATG-AGCAGTCCA
* * *
14893192 ATCGTG-AGAAAGATCTTTTAACAGGCCGTTCAGAATCGAAA-CTGAGCATGAGCAGTCCG
1 ATCGTGCA-AAAGATCTTTTAACAGGCAGTTCAGAATCGAAAGC-GAACATGAGCAGTCCA
* * * *
14893251 ATCATGCGAAAGATCTTTTAACAGGCAGTTCAGAATCGAAA-CTGAATATGAGTAGTCCA
1 ATCGTGCAAAAGATCTTTTAACAGGCAGTTCAGAATCGAAAGC-GAACATGAGCAGTCCA
* * * *
14893310 ATTGTGCGAAAGATC--TTAACAGGTAGTTCAGAATCGAAACCGAACATGAGCAGTCCA
1 ATCGTGCAAAAGATCTTTTAACAGGCAGTTCAGAATCGAAAGCGAACATGAGCAGTCCA
*
14893367 ATCGTGTAAAAGATCTTTTAACAGGCAGTTCAGAATCGAAAGCGAACATGAGCAGTCCA
1 ATCGTGCAAAAGATCTTTTAACAGGCAGTTCAGAATCGAAAGCGAACATGAGCAGTCCA
* * * * * *
14893426 ATCATGCGAAAGTTCTTTTAACAGGCAGTTCAGAATTGAAACCGAACACGAGCAGTCCA
1 ATCGTGCAAAAGATCTTTTAACAGGCAGTTCAGAATCGAAAGCGAACATGAGCAGTCCA
14893485 ATCGT
1 ATCGT
14893490 ATGGTTAGAG
Statistics
Matches: 311, Mismatches: 38, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
57 49 0.16
58 4 0.01
59 257 0.83
60 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (59 bp):
ATCGTGCAAAAGATCTTTTAACAGGCAGTTCAGAATCGAAAGCGAACATGAGCAGTCCA
Found at i:14893400 original size:175 final size:176
Alignment explanation
Indices: 14893082--14893486 Score: 579
Period size: 175 Copynumber: 2.3 Consensus size: 176
14893072 ATATCGTGCA
14893082 AAAGATCTTTTAACAGGCAGTTCAGAATTGAAAGCGAACATGAGCT-GTCCAATTGTGCAAAAGA
1 AAAGATCTTTTAACAGGCAGTTCAGAATTGAAA-CGAACATGAG-TAGTCCAATTGTGCAAAAGA
* *
14893146 TCTTCTAACAGGCAGTTCAGAATCGAAAGCGAACATGCAAAATCCGATCGTGAGAAAGATCTTTT
64 TCTTCTAACAGGCAGTTCAGAATCGAAACCGAACATGCAAAATCCAATCGTGAGAAAGATCTTTT
* * *
14893211 AACAGGCCGTTCAGAATCGAAA-CTGAGCATGAGCAGTCCGATCATGCG
129 AACAGGCAGTTCAGAATCGAAAGC-GAACATGAGCAGTCCAATCATGCG
* * *
14893259 AAAGATCTTTTAACAGGCAGTTCAGAATCGAAACTGAATATGAGTAGTCCAATTGTGCGAAAGAT
1 AAAGATCTTTTAACAGGCAGTTCAGAATTGAAAC-GAACATGAGTAGTCCAATTGTGCAAAAGAT
* * *
14893324 C-T-TAACAGGTAGTTCAGAATCGAAACCGAACATG-AGCAGTCCAATCGTGTA-AAAGATCTTT
65 CTTCTAACAGGCAGTTCAGAATCGAAACCGAACATGCA-AAATCCAATCGTG-AGAAAGATCTTT
14893385 TAACAGGCAGTTCAGAATCGAAAGCGAACATGAGCAGTCCAATCATGCG
128 TAACAGGCAGTTCAGAATCGAAAGCGAACATGAGCAGTCCAATCATGCG
* * *
14893434 AAAGTTCTTTTAACAGGCAGTTCAGAATTGAAACCGAACACGAGCAGTCCAAT
1 AAAGATCTTTTAACAGGCAGTTCAGAATTGAAA-CGAACATGAGTAGTCCAAT
14893487 CGTATGGTTA
Statistics
Matches: 206, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
174 1 0.00
175 140 0.68
176 6 0.03
177 59 0.29
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (176 bp):
AAAGATCTTTTAACAGGCAGTTCAGAATTGAAACGAACATGAGTAGTCCAATTGTGCAAAAGATC
TTCTAACAGGCAGTTCAGAATCGAAACCGAACATGCAAAATCCAATCGTGAGAAAGATCTTTTAA
CAGGCAGTTCAGAATCGAAAGCGAACATGAGCAGTCCAATCATGCG
Found at i:14894186 original size:17 final size:18
Alignment explanation
Indices: 14894160--14894193 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14894150 AAGAAAAATA
14894160 TTTAAATTAAAT-TTCAT
1 TTTAAATTAAATGTTCAT
*
14894177 TTTAATTTAAATGTTCA
1 TTTAAATTAAATGTTCA
14894194 ATTACAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTAAATTAAATGTTCAT
Found at i:14896988 original size:34 final size:33
Alignment explanation
Indices: 14896950--14897018 Score: 77
Period size: 34 Copynumber: 2.0 Consensus size: 33
14896940 ATTACGTATT
14896950 TAAAACATAATAATATACAAA-AACTAATAAAATA
1 TAAAACAT-ATAATATA-AAACAACTAATAAAATA
* * *
14896984 TAAAATATATAATTTAAAACTAACTAATAATATA
1 TAAAACATATAATATAAAAC-AACTAATAAAATA
14897018 T
1 T
14897019 GAAATATGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
32 3 0.10
33 7 0.23
34 20 0.67
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (33 bp):
TAAAACATATAATATAAAACAACTAATAAAATA
Found at i:14908213 original size:50 final size:49
Alignment explanation
Indices: 14908134--14908278 Score: 146
Period size: 50 Copynumber: 2.9 Consensus size: 49
14908124 TAGTGAAATG
* * * *
14908134 AACCGCGGTACCATAAAGATTTGAAGGGAAAGATTGAGGCCGTAACGGCG
1 AACC-CGGTACCTTAAAGATATGAAGGGAAAGATTGAGGTCGTAACGGCA
* * * * * *
14908184 AACCTGGTACCTTATAAGATGTGATGGGAAAGGTTGAGGTCGCAACGGTA
1 AACCCGGTACCTTA-AAGATATGAAGGGAAAGATTGAGGTCGTAACGGCA
* * * *
14908234 AACCCAGTACCTTAAAAACATGACGGGAAAGATTGAGGTCGTAAC
1 AACCCGGTACCTTAAAGATATGAAGGGAAAGATTGAGGTCGTAAC
14908279 AGTGAATCTT
Statistics
Matches: 77, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
49 33 0.43
50 44 0.57
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.19
Consensus pattern (49 bp):
AACCCGGTACCTTAAAGATATGAAGGGAAAGATTGAGGTCGTAACGGCA
Found at i:14908537 original size:41 final size:41
Alignment explanation
Indices: 14908479--14908577 Score: 153
Period size: 41 Copynumber: 2.4 Consensus size: 41
14908469 AAACTATATC
*
14908479 ATTCCAGTTTTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
1 ATTCCAG-TCTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
*
14908521 ATTCCAGTCTTTTACCCTTTATCAAGAAGGGCAGATTGAAG
1 ATTCCAGTCTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
* *
14908562 ATTCCAATCTCTTACC
1 ATTCCAGTCTTTTACC
14908578 TTGAGCTTAG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 46 0.87
42 7 0.13
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (41 bp):
ATTCCAGTCTTTTACCCTTAATCAAGAAGGGCAGATTGAAG
Found at i:14908623 original size:39 final size:38
Alignment explanation
Indices: 14908564--14909101 Score: 272
Period size: 39 Copynumber: 13.8 Consensus size: 38
14908554 GATTGAAGAT
* ** *
14908564 TCCAATCTCTTACCTTGAGCTTAGGGCAGATTACAGCCA
1 TCCAATCTTTTACCCCGAGCTTGGGGCAGATTACA-CCA
*
14908603 TCCGATCTTTTACCCCGAGCTTGGGGCAGA-T-CACCA
1 TCCAATCTTTTACCCCGAGCTTGGGGCAGATTACACCA
* * * **
14908639 TTAGCCAATCTCTTACCCCAAGCTTGGGGTAGATTGTAGCCA
1 -T--CCAATCTTTTACCCCGAGCTTGGGGCAGATTACA-CCA
* * * * * *
14908681 TTCAATCTTTTACCTCGAGCCTAGGGCAGATCACCATCA
1 TCCAATCTTTTACCCCGAGCTTGGGGCAGATTA-CACCA
* * * * *
14908720 GCCAATATCTTACCCCGAGCTTGGGGTAGATTGCAACCA
1 TCCAATCTTTTACCCCGAGCTTGGGGCAGATTAC-ACCA
* * * * * * *
14908759 TCCGATCATTTACCCTGAGCTTGGAGCATATCACTATCA
1 TCCAATCTTTTACCCCGAGCTTGGGGCAGATTAC-ACCA
* * * *** *
14908798 ACCAATCTCTTACCCCGAGCCTGAAACAGATTGCAACCA
1 TCCAATCTTTTACCCCGAGCTTGGGGCAGATTAC-ACCA
* * * * * * *
14908837 TCCGATCTTTTACCCCGAGCCTAGGGTAAATCACCATCA
1 TCCAATCTTTTACCCCGAGCTTGGGGCAGATTA-CACCA
* * * * * *
14908876 GCCAATCTCTTACCTCGAGCTTAGGGTAGATTGCAACCA
1 TCCAATCTTTTACCCCGAGCTTGGGGCAGATTAC-ACCA
** * * * *
14908915 TCTGATCATTTACCCCGAGCTTGGGGCATATCACTATCA
1 TCCAATCTTTTACCCCGAGCTTGGGGCAGATTAC-ACCA
* * * * *
14908954 ACCAATCTCTTACCCCGAGCCTGGAGCAGATTGCAGCCA
1 TCCAATCTTTTACCCCGAGCTTGGGGCAGATTACA-CCA
* * * *
14908993 TCCGATCTTTTACCCCGAGCCTGGAGG-AGATCACCATCA
1 TCCAATCTTTTACCCCGAGCTTGG-GGCAGATTA-CACCA
* * * * **
14909032 ACCAATCTCTTACACCTAGCTTGGGGCAGATTGTAGCCA
1 TCCAATCTTTTACCCCGAGCTTGGGGCAGATTACA-CCA
* *
14909071 TCCGATCTTTTACCCCAAGCTTGGGGCAGAT
1 TCCAATCTTTTACCCCGAGCTTGGGGCAGAT
14909102 CATCATTGGC
Statistics
Matches: 359, Mismatches: 125, Indels: 30
0.70 0.24 0.06
Matches are distributed among these distances:
36 3 0.01
37 3 0.01
38 7 0.02
39 335 0.93
40 6 0.02
41 2 0.01
42 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (38 bp):
TCCAATCTTTTACCCCGAGCTTGGGGCAGATTACACCA
Found at i:14908652 original size:78 final size:77
Alignment explanation
Indices: 14908565--14909333 Score: 694
Period size: 78 Copynumber: 9.7 Consensus size: 77
14908555 ATTGAAGATT
** *
14908565 CCAATCTCTTACCTTGAGCTTAGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGGGGC
1 CCAATCTCTTACCCCGAGCTT-GGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGC
*
14908630 AGATCACCATTAG
65 AGATCACCATCAG
* * * * * * * *
14908643 CCAATCTCTTACCCCAAGCTTGGGGTAGATTGTAGCCATTCAATCTTTTACCTCGAGCCTAGGGC
1 CCAATCTCTTACCCCGAGCTT-GGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGC
14908708 AGATCACCATCAG
65 AGATCACCATCAG
* * * * * *
14908721 CCAATATCTTACCCCGAGCTTGGGGTAGATTGCAACCATCCGATCATTTACCCTGAGCTTGGAGC
1 CCAATCTCTTACCCCGAGCTT-GGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGC
* * *
14908786 ATATCACTATCAA
65 AGATCACCATCAG
* ** * * * *
14908799 CCAATCTCTTACCCCGAGCCTGAAACAGATTGCAACCATCCGATCTTTTACCCCGAGCCTAGGGT
1 CCAATCTCTTACCCCGAGCTTG-GGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGC
*
14908864 AAATCACCATCAG
65 AGATCACCATCAG
* * * * *
14908877 CCAATCTCTTACCTCGAGCTTAGGGTAGATTGCAACCATCTGATCATTTACCCCGAGCTTGGGGC
1 CCAATCTCTTACCCCGAGCTT-GGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGC
* * *
14908942 ATATCACTATCAA
65 AGATCACCATCAG
* *
14908955 CCAATCTCTTACCCCGAGCCTGGAGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTGGAGG
1 CCAATCTCTTACCCCGAGCTTGG-GCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGG-GG
*
14909020 -AGATCACCATCAA
64 CAGATCACCATCAG
* * * *
14909033 CCAATCTCTTACACCTAGCTTGGGGCAGATTGTAGCCATCCGATCTTTTACCCCAAGCTTGGGGC
1 CCAATCTCTTACCCCGAGCTT-GGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGC
* **
14909098 AGATCATCATTGG
65 AGATCACCATCAG
** * * * * ** **
14909111 CCAATCTCTTACCTTGATCATGGGATAGATTGAAAATCATCCGATCTTTTACCCCGAGCTTGGTT
1 CCAATCTCTTACCCCGAGCTTGGG-CAGATTG-CAGCCATCCGATCTTTTACCCCGAGCTTGGGG
* * *
14909176 TAGATTACTATCAG
64 CAGATCACCATCAG
* ** *
14909190 CCAATCTCTTACCCCGAGCCTGAGGCTGCTTGAAGCAGATTACAGCCATCTTATCTTTTACCCTG
1 CCAATCTCTTACCCCGAG-CT-----TG---G--GCAGATTGCAGCCATCCGATCTTTTACCCCG
*
14909255 AGCTTGGGGCAGATCATCATCAG
55 AGCTTGGGGCAGATCACCATCAG
* * * * * *
14909278 CCAATCTCTTACCCCGATCATGGGCAGATTGAAAACCATCCGATCTCTTGCCCCGA
1 CCAATCTCTTACCCCGAGCTTGGGCAGATTG-CAGCCATCCGATCTTTTACCCCGA
14909334 TAATGGGGCA
Statistics
Matches: 550, Mismatches: 121, Indels: 40
0.77 0.17 0.06
Matches are distributed among these distances:
77 15 0.03
78 416 0.76
79 55 0.10
80 1 0.00
82 2 0.00
85 2 0.00
87 1 0.00
88 52 0.09
89 5 0.01
90 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (77 bp):
CCAATCTCTTACCCCGAGCTTGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGCA
GATCACCATCAG
Found at i:14909354 original size:40 final size:39
Alignment explanation
Indices: 14909281--14909369 Score: 142
Period size: 40 Copynumber: 2.3 Consensus size: 39
14909271 TCATCAGCCA
* *
14909281 ATCTCTTACCCCGATCATGGGCAGATTGAAAACCATCCG
1 ATCTCTTACCCCGATAATGGGCAAATTGAAAACCATCCG
*
14909320 ATCTCTTGCCCCGATAATGGGGCAAATTGAAAACCATCCG
1 ATCTCTTACCCCGATAAT-GGGCAAATTGAAAACCATCCG
14909360 ATCTCTTACC
1 ATCTCTTACC
14909370 TAGATCATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.36
40 29 0.64
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (39 bp):
ATCTCTTACCCCGATAATGGGCAAATTGAAAACCATCCG
Found at i:14909366 original size:167 final size:167
Alignment explanation
Indices: 14909057--14909369 Score: 376
Period size: 167 Copynumber: 1.9 Consensus size: 167
14909047 CTAGCTTGGG
** **
14909057 GCAGATTGTAGCCATCCGATCTTTTACCCCAAGCTTGGGGCAGATCATCATTGGCCAATCTCTTA
1 GCAGATTACAGCCATCCGATCTTTTACCCCAAGCTTGGGGCAGATCATCATCAGCCAATCTCTTA
** * * * ** *** * ** *
14909122 CCTTGATCATGGGATAGATTGAAAATCATCCGATCTTTTACCCCGAGCTTGGTTTAGATTACTAT
66 CCCCGATCATGGGACAGATTGAAAACCATCCGATCTCTTACCCCGAGAATGGGGCAAATTAAAAC
14909187 CAGCCAATCTCTTACCCCGAGCCTGAGGCTGCTTGAA
131 CAGCCAATCTCTTACCCCGAGCCTGAGGCTGCTTGAA
** **
14909224 GCAGATTACAGCCATCTTATCTTTTACCCTGAGCTTGGGGCAGATCATCATCAGCCAATCTCTTA
1 GCAGATTACAGCCATCCGATCTTTTACCCCAAGCTTGGGGCAGATCATCATCAGCCAATCTCTTA
* *
14909289 CCCCGATCATGGG-CAGATTGAAAACCATCCGATCTCTTGCCCCGATAATGGGGCAAATTGAAAA
66 CCCCGATCATGGGACAGATTGAAAACCATCCGATCTCTTACCCCGAGAATGGGGCAAATT-AAAA
* *
14909353 CCATCCGATCTCTTACC
130 CCAGCCAATCTCTTACC
14909370 TAGATCATGA
Statistics
Matches: 119, Mismatches: 26, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
166 35 0.29
167 84 0.71
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (167 bp):
GCAGATTACAGCCATCCGATCTTTTACCCCAAGCTTGGGGCAGATCATCATCAGCCAATCTCTTA
CCCCGATCATGGGACAGATTGAAAACCATCCGATCTCTTACCCCGAGAATGGGGCAAATTAAAAC
CAGCCAATCTCTTACCCCGAGCCTGAGGCTGCTTGAA
Found at i:14911895 original size:221 final size:220
Alignment explanation
Indices: 14911499--14911939 Score: 575
Period size: 221 Copynumber: 2.0 Consensus size: 220
14911489 GTAAAATTCT
* * * *
14911499 TTATTTTGTGATGTGAAAAGTAAAGTCTTAATTTATTAGGTGCGGTTTTCTTTGAATCGAAATAT
1 TTATTTCGTGATGTGAAAAGTAAAGTCTTAACTTACTAGGTGCGATTTTCTTTGAATCGAAATAT
* * * * *
14911564 TCGAATGCTTTCCTCTCTAAAAAAATAATAATACATGAAATTTGAGAATACGGAATGCTTATTAT
66 TCGAATACTTTCCTCTCTAAAAAAATAACAATACATGAAATTTAAAAATACGGAATGCTTATGAT
* * * *
14911629 TTTTGAAAACATGAGTTGTCGTGTCCTAACTTATTGGACCCGACTTCCTTTCTCGATTTTTCAAA
131 TTTTGAAAACATGAGGTGTCGCGCCCTAACTTACTGGACCCGACTTCCTTTCTCGA-TTTTCAAA
*
14911694 ATAACAAGTCTTCCTCACACAGTTCG
195 ATAACAAGTCTTCCTCACAAAGTTCG
* ** *
14911720 TTATTTCGTGATTTGAAAAGTCGAG-CGTTAACTTACTAGGTGCGATTTTTTTTCGAATCGAAAT
1 TTATTTCGTGATGTGAAAAGTAAAGTC-TTAACTTACTAGGTGCGATTTTCTTT-GAATCGAAAT
* * * *
14911784 ATTCGAATACTTTTCTCTCTAAAAAAATAAGCAA-ACATGAGATTTAAAAAATA-GGAATGTTTG
64 ATTCGAATACTTTCCTCTCTAAAAAAATAA-CAATACATGAAATTT-AAAAATACGGAATGCTTA
*
14911847 TGA-TTTTGAAAACGTGAGGTGTCGCGCCCTAACTTACTGGACCCGACTTCCTTTCTCGATTTTC
127 TGATTTTTGAAAACATGAGGTGTCGCGCCCTAACTTACTGGACCCGACTTCCTTTCTCGATTTTC
* * *
14911911 AAAATGACGAGTCTTCCTCGCAAAGTTCG
192 AAAATAACAAGTCTTCCTCACAAAGTTCG
14911940 ACTTCTGAAA
Statistics
Matches: 190, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
220 31 0.16
221 94 0.49
222 58 0.31
223 7 0.04
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (220 bp):
TTATTTCGTGATGTGAAAAGTAAAGTCTTAACTTACTAGGTGCGATTTTCTTTGAATCGAAATAT
TCGAATACTTTCCTCTCTAAAAAAATAACAATACATGAAATTTAAAAATACGGAATGCTTATGAT
TTTTGAAAACATGAGGTGTCGCGCCCTAACTTACTGGACCCGACTTCCTTTCTCGATTTTCAAAA
TAACAAGTCTTCCTCACAAAGTTCG
Found at i:14914663 original size:180 final size:178
Alignment explanation
Indices: 14914336--14914671 Score: 521
Period size: 178 Copynumber: 1.9 Consensus size: 178
14914326 CTTATAAACC
* * *
14914336 AAACTTTTTTTCACCATAATGATTTAATTCTTATTATACCCAATGATGTAAGTCATATCCTAAAT
1 AAACTTTTCTTCACCATAATGATTTAATTCTTATTATACCCAATGATATAAGTCACATCCTAAAT
* **
14914401 GTAAAAATAGAGGGGGCATACTCCCTTCTCCATCGAGAGAGATGATATTATTTCAAATACAATGC
66 GTAAAAATAAAGGGGGCATACTCCCTTCTCCATCGAGAGAGATGATATTATCCCAAATACAATGC
*
14914466 ATAATATAAGTAATTAACCAAATTTGTCTCTTCTTCTCTTTATGAGTT
131 ATAATATAAGGAATTAACCAAATTTGTCTCTTCTTCTCTTTATGAGTT
* * * *
14914514 AAACTTTTCTTCACCATAATGGTTTAGTTCTTATTATTA-CCAATGATATAAGTCGCATTCTAAA
1 AAACTTTTCTTCACCATAATGATTTAATTCTTATTA-TACCCAATGATATAAGTCACATCCTAAA
* *
14914578 TGTAGAAATAAAAGGGGGCATACTCCCTTTCTCCATCTAGAGAGATGATATTATCCCAAATACAA
65 TGTAAAAAT-AAAGGGGGCATACTCCC-TTCTCCATCGAGAGAGATGATATTATCCCAAATACAA
14914643 TGCATAATATAAGGAATTAACCAAATTTG
128 TGCATAATATAAGGAATTAACCAAATTTG
14914672 CTTGATGTAG
Statistics
Matches: 142, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
178 62 0.44
179 18 0.13
180 62 0.44
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (178 bp):
AAACTTTTCTTCACCATAATGATTTAATTCTTATTATACCCAATGATATAAGTCACATCCTAAAT
GTAAAAATAAAGGGGGCATACTCCCTTCTCCATCGAGAGAGATGATATTATCCCAAATACAATGC
ATAATATAAGGAATTAACCAAATTTGTCTCTTCTTCTCTTTATGAGTT
Found at i:14915825 original size:158 final size:158
Alignment explanation
Indices: 14915563--14915874 Score: 446
Period size: 158 Copynumber: 2.0 Consensus size: 158
14915553 ATTTATTTAA
*
14915563 TATAAAAATAAATTGAAGTATTTATGTCTTTAAATGTATATGATTAAATCAAAATTAAAGTTTCA
1 TATAAAAATAAATTGAAGTATTTATGTCTTTAAATATATATGATTAAATCAAAATTAAAGTTTCA
* *
14915628 AGTATACATCCAAACTACAATTAAAATTTCACGATCATAATTGTACCAAATTAAAGTTCATATAT
66 AGTATACATCCAAACCACAATTAAAATTTCACGATCATAATTGTACCAAATTAAAGCTCATATAT
* *
14915693 ACAATTGCACATTAAATTAAAGTTCGTG
131 ACAATTACACATTAAATCAAAGTTCGTG
* * * *
14915721 TATAAAAATAAATTGATGTATTTATTTCTTTAAATATGTGTGATTAAATCAAAATTAAAGTTTCA
1 TATAAAAATAAATTGAAGTATTTATGTCTTTAAATATATATGATTAAATCAAAATTAAAGTTTCA
* *** * * * *
14915786 AGTATACGTTTGAGCCATAATTAAAGTTTCGCG-TGCATAATTGTACCAAATTAAAGCTCATATA
66 AGTATACATCCAAACCACAATTAAAATTTCACGAT-CATAATTGTACCAAATTAAAGCTCATATA
*
14915850 TACAATTACACATTAAGTCAAAGTT
130 TACAATTACACATTAAATCAAAGTT
14915875 TATATATAAT
Statistics
Matches: 135, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
157 1 0.01
158 134 0.99
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.36
Consensus pattern (158 bp):
TATAAAAATAAATTGAAGTATTTATGTCTTTAAATATATATGATTAAATCAAAATTAAAGTTTCA
AGTATACATCCAAACCACAATTAAAATTTCACGATCATAATTGTACCAAATTAAAGCTCATATAT
ACAATTACACATTAAATCAAAGTTCGTG
Found at i:14916102 original size:20 final size:20
Alignment explanation
Indices: 14916077--14916116 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14916067 GAGGCAGGGT
14916077 AAAACTGATTTTAGATGACA
1 AAAACTGATTTTAGATGACA
14916097 AAAACTGATTTTAGATGACA
1 AAAACTGATTTTAGATGACA
14916117 TGTGATGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (20 bp):
AAAACTGATTTTAGATGACA
Found at i:14916768 original size:23 final size:22
Alignment explanation
Indices: 14916742--14916811 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
14916732 TTCATTTAAT
14916742 TTAATCAAACATGTTCACGAACA
1 TTAATCAAA-ATGTTCACGAACA
* * *
14916765 TTAAACAAATACGTTCATGAACA
1 TTAATCAAA-ATGTTCACGAACA
*
14916788 TATAATTGAAAATGTTCACGAACA
1 T-TAA-TCAAAATGTTCACGAACA
14916812 ATGTTAATAA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
23 20 0.54
24 14 0.38
25 3 0.08
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (22 bp):
TTAATCAAAATGTTCACGAACA
Found at i:14919611 original size:16 final size:16
Alignment explanation
Indices: 14919585--14919641 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
14919575 TATAATTGTA
14919585 AATATTAATTTTAATTT
1 AATA-TAATTTTAATTT
* *
14919602 TATATAATTTT-A-TA
1 AATATAATTTTAATTT
*
14919616 AATAAAATTTTAATTT
1 AATATAATTTTAATTT
14919632 AATATAATTT
1 AATATAATTT
14919642 CTATAAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
14 10 0.31
15 2 0.06
16 17 0.53
17 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATATAATTTTAATTT
Found at i:14919627 original size:30 final size:31
Alignment explanation
Indices: 14919591--14919649 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
14919581 TGTAAATATT
*
14919591 AATTTTAATTTTATATAATTT-TATAAATAA
1 AATTTTAATTTAATATAATTTCTATAAATAA
14919621 AATTTTAATTTAATATAATTTCTATAAAT
1 AATTTTAATTTAATATAATTTCTATAAAT
14919650 TATTAACACA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (31 bp):
AATTTTAATTTAATATAATTTCTATAAATAA
Found at i:14919990 original size:18 final size:18
Alignment explanation
Indices: 14919967--14920009 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
14919957 TATTCAGTTG
14919967 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
14919985 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
14920003 TAATTAA
1 TAATTAA
14920010 AAATTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:14920362 original size:30 final size:31
Alignment explanation
Indices: 14920319--14920377 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
14920309 TGTATTAATA
**
14920319 ATTTACAAGAATTAAATTAAATTAAAATTTT
1 ATTTACAAGAATTAAACAAAATTAAAATTTT
* *
14920350 ATTTATAA-AATTACACAAAATTAAAATT
1 ATTTACAAGAATTAAACAAAATTAAAATT
14920378 AATGTTTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (31 bp):
ATTTACAAGAATTAAACAAAATTAAAATTTT
Found at i:14921958 original size:12 final size:13
Alignment explanation
Indices: 14921934--14921975 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
14921924 AGTAATATAG
14921934 AATAAATAAATAA
1 AATAAATAAATAA
14921947 AATAAA-AAATAA
1 AATAAATAAATAA
* *
14921959 CACAAATAAA-AA
1 AATAAATAAATAA
14921971 AATAA
1 AATAA
14921976 TAATGGTAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (13 bp):
AATAAATAAATAA
Found at i:14923020 original size:12 final size:12
Alignment explanation
Indices: 14923005--14923130 Score: 74
Period size: 12 Copynumber: 11.3 Consensus size: 12
14922995 AAATAATAGA
14923005 AAAAATAGCAAC
1 AAAAATAGCAAC
* *
14923017 AAAAATAACAAT
1 AAAAATAGCAAC
14923029 AAAAATAGC-AC
1 AAAAATAGCAAC
* *
14923040 CAAAATAGTAA-
1 AAAAATAGCAAC
14923051 AAAAATAGC-AC
1 AAAAATAGCAAC
* *
14923062 CAAAACAGCAAC
1 AAAAATAGCAAC
* * *
14923074 CAAAACAGTAA-
1 AAAAATAGCAAC
*
14923085 AAAAA-A-CATC
1 AAAAATAGCAAC
14923095 -AAAATAGC-A-
1 AAAAATAGCAAC
14923104 AAAAATAGCAAC
1 AAAAATAGCAAC
* *
14923116 CAAAACAGCAA-
1 AAAAATAGCAAC
14923127 AAAA
1 AAAA
14923131 CAGCACCAAA
Statistics
Matches: 87, Mismatches: 18, Indels: 19
0.70 0.15 0.15
Matches are distributed among these distances:
9 5 0.06
10 11 0.13
11 31 0.36
12 40 0.46
ACGTcount: A:0.67, C:0.17, G:0.07, T:0.09
Consensus pattern (12 bp):
AAAAATAGCAAC
Found at i:14923057 original size:22 final size:22
Alignment explanation
Indices: 14922994--14923066 Score: 92
Period size: 24 Copynumber: 3.2 Consensus size: 22
14922984 AACAACAGCA
*
14922994 AAAATAATAGAAAAAATAGCAACA
1 AAAATAATA-AAAAAATAGC-ACC
*
14923018 AAAATAACAATAAAAATAGCACC
1 AAAATAATAA-AAAAATAGCACC
*
14923041 AAAATAGTAAAAAAATAGCACC
1 AAAATAATAAAAAAATAGCACC
14923063 AAAA
1 AAAA
14923067 CAGCAACCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
22 16 0.36
23 11 0.25
24 17 0.39
ACGTcount: A:0.68, C:0.12, G:0.07, T:0.12
Consensus pattern (22 bp):
AAAATAATAAAAAAATAGCACC
Found at i:14923128 original size:21 final size:21
Alignment explanation
Indices: 14923063--14923143 Score: 92
Period size: 22 Copynumber: 3.8 Consensus size: 21
14923053 AAATAGCACC
*
14923063 AAAACAGCAACCAAAACAGTAA
1 AAAACAGC-ACCAAAACAGCAA
* * *
14923085 AAAA-AACATCAAAATAGCAA
1 AAAACAGCACCAAAACAGCAA
*
14923105 AAAATAGCAACCAAAACAGCAA
1 AAAACAGC-ACCAAAACAGCAA
14923127 AAAACAGCACCAAAACA
1 AAAACAGCACCAAAACA
14923144 ACAAGATAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
20 14 0.29
21 13 0.27
22 22 0.45
ACGTcount: A:0.65, C:0.22, G:0.07, T:0.05
Consensus pattern (21 bp):
AAAACAGCACCAAAACAGCAA
Found at i:14934222 original size:6 final size:6
Alignment explanation
Indices: 14934211--14934240 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
14934201 GTTTATAGAC
14934211 TTTATA TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA
14934241 AATGATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTATA
Found at i:14948001 original size:16 final size:16
Alignment explanation
Indices: 14947960--14947998 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
14947950 TATAAGAGCA
*
14947960 AAAATATATAACAAAT
1 AAAATAAATAACAAAT
*
14947976 AAAATGAATAACAAAT
1 AAAATAAATAACAAAT
14947992 -AAATAAA
1 AAAATAAA
14947999 ATATAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAATAAATAACAAAT
Found at i:14948022 original size:25 final size:26
Alignment explanation
Indices: 14947972--14948032 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
14947962 AATATATAAC
* *
14947972 AAATA-AAATGAATAACAAATAAATA
1 AAATATAAATAAAAAACAAATAAATA
*
14947997 AAATATAAATAAAAAAC-AATAGATA
1 AAATATAAATAAAAAACAAATAAATA
14948022 AAA-ATTAAATA
1 AAATA-TAAATA
14948033 CTAAATAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 21 0.68
26 9 0.29
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.21
Consensus pattern (26 bp):
AAATATAAATAAAAAACAAATAAATA
Found at i:14949922 original size:25 final size:24
Alignment explanation
Indices: 14949884--14949944 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
14949874 TATTTTTTAT
* * *
14949884 TTTTATTAGGAATTCTTATAAATTA
1 TTTTGTTAGTAATTATTAT-AATTA
*
14949909 TTTTGTTAGTAATTATTATAATTT
1 TTTTGTTAGTAATTATTATAATTA
14949933 TTTTGTTTAGTA
1 TTTTG-TTAGTA
14949945 GAGAAAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 9 0.29
25 22 0.71
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.59
Consensus pattern (24 bp):
TTTTGTTAGTAATTATTATAATTA
Found at i:14950089 original size:25 final size:25
Alignment explanation
Indices: 14950042--14950187 Score: 73
Period size: 25 Copynumber: 5.9 Consensus size: 25
14950032 TGTTTTTAAT
*
14950042 TTATTTTAAAGTTATTT-TGTTAGTAA
1 TTATTATAAA-TTATTTGT-TTAGTAA
14950068 TTATTATAAATTATTTGTTTAGTTTAA
1 TTATTATAAATTATTTGTTTAG--TAA
**
14950095 TT-TTAT-TGTTATTTG-TTA-TGAA
1 TTATTATAAATTATTTGTTTAGT-AA
*
14950117 TGTAATT-T---TT-TTTGTTT-TTAA
1 T-T-ATTATAAATTATTTGTTTAGTAA
*
14950138 TTTATTTTAAAGTTATTT-TGTTAGTAA
1 -TTATTATAAA-TTATTTGT-TTAGTAA
14950165 TTATTATAAATTATTTGTTTAGT
1 TTATTATAAATTATTTGTTTAGT
14950188 TTAATATTTA
Statistics
Matches: 96, Mismatches: 5, Indels: 39
0.69 0.04 0.28
Matches are distributed among these distances:
20 3 0.03
21 9 0.09
22 9 0.09
23 1 0.01
24 4 0.04
25 33 0.34
26 29 0.30
27 8 0.08
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (25 bp):
TTATTATAAATTATTTGTTTAGTAA
Found at i:14950158 original size:97 final size:98
Alignment explanation
Indices: 14949983--14950242 Score: 441
Period size: 97 Copynumber: 2.6 Consensus size: 98
14949973 AGAAAGGTTA
*
14949983 GTTTAGTTTAATGTTTATTGTGATTTGTTATGAATGTAATTTTTTTTGTTGTTTTTAATTTATTT
1 GTTTAGTTTAATATTTATTGTGATTTGTTATGAATGTAA--TTTTTT-TTGTTTTTAATTTATTT
14950048 TAAAGTTATTTTGTTAGTAATTATTATAAATTATTT
63 TAAAGTTATTTTGTTAGTAATTATTATAAATTATTT
*
14950084 GTTTAGTTTAAT-TTTATTGTTATTTGTTATGAATGTAATTTTTTTTGTTTTTAATTTATTTTAA
1 GTTTAGTTTAATATTTATTGTGATTTGTTATGAATGTAATTTTTTTTGTTTTTAATTTATTTTAA
14950148 AGTTATTTTGTTAGTAATTATTATAAATTATTT
66 AGTTATTTTGTTAGTAATTATTATAAATTATTT
* * *
14950181 GTTTAGTTTAATATTTATTATGATTTGTTACGAATGTAATTTTTTTTGTTTTTTATTTATTT
1 GTTTAGTTTAATATTTATTGTGATTTGTTATGAATGTAATTTTTTTTGTTTTTAATTTATTT
14950243 GACAAATGTT
Statistics
Matches: 153, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
97 65 0.42
98 51 0.33
100 25 0.16
101 12 0.08
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.63
Consensus pattern (98 bp):
GTTTAGTTTAATATTTATTGTGATTTGTTATGAATGTAATTTTTTTTGTTTTTAATTTATTTTAA
AGTTATTTTGTTAGTAATTATTATAAATTATTT
Found at i:14951357 original size:183 final size:180
Alignment explanation
Indices: 14951051--14951406 Score: 550
Period size: 183 Copynumber: 2.0 Consensus size: 180
14951041 TGCTCAGATT
** * **
14951051 TTCGGGTAAGCATATATTTAGTTGATTTGTTTTAGGGTTCATAAGAAATTGGGAATTTTTTATTT
1 TTCGGGTAAGCATATATTTAGGCGATTTATTTTAGAATTCATAAGAAATTGGGAATTTTTTATTT
* *
14951116 TTTTTATTATTGTGTCGGTTGGATTAAATTGATGCTACAATTCGTCATAACATTAGATTTTTGAG
66 TTTTTATTATTGTGTCGATTGGACTAAATTGATGCTACAATTCGTCATAACATTAGATTTTTGAG
* *
14951181 TGAATTGTAGGGTTTATATAATAAAAAGCTGAATTTTTTTGTGTATTTGTA
131 TGAATTGTAGGGTTTATATAATAAAAAG-TCAAATTTTTTGTGTATTTGTA
* *
14951232 TTCGGGTAAGCATATATTTAGGCGATTTATTTTAGAATTCATAAGAAATTGGGGATTTTTTTTTA
1 TTCGGGTAAGCATATATTTAGGCGATTTATTTTAGAATTCATAAGAAATT-GGGAATTTTTTAT-
* * * *
14951297 TTTTTTTATTATTGTGTTGATTGGACTAAATTGGTGCTACAATTCGTCGTAGCATTAGATTTTTG
64 TTTTTTTATTATTGTGTCGATTGGACTAAATTGATGCTACAATTCGTCATAACATTAGATTTTTG
14951362 AGTGAATTGTAGGGTTTATATAATAAAAAGTCAAATTTTTTGTGT
129 AGTGAATTGTAGGGTTTATATAATAAAAAGTCAAATTTTTTGTGT
14951407 GAATTGTAGG
Statistics
Matches: 158, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
181 45 0.28
182 24 0.15
183 89 0.56
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.46
Consensus pattern (180 bp):
TTCGGGTAAGCATATATTTAGGCGATTTATTTTAGAATTCATAAGAAATTGGGAATTTTTTATTT
TTTTTATTATTGTGTCGATTGGACTAAATTGATGCTACAATTCGTCATAACATTAGATTTTTGAG
TGAATTGTAGGGTTTATATAATAAAAAGTCAAATTTTTTGTGTATTTGTA
Found at i:14952532 original size:158 final size:158
Alignment explanation
Indices: 14952324--14952783 Score: 681
Period size: 158 Copynumber: 2.9 Consensus size: 158
14952314 TATGCCATCC
* *
14952324 TTTTTTGGCTTCTAGTTCTCATACTCGTACCAGACTAAGAGAAAAAAATCAGAACTCC-AAATTA
1 TTTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGACAAAAAAATCAGAAC-CCTAAATTA
* * * *
14952388 GATTTAAATAATTTAGAATTGACATTAAAAAAATGTTTACGATATACCTATGATCCAATTGTGTT
65 GATTTAAATATTTTAGAATTGACATTAAAAAAGTGTTTACGATATACCTGTGATCCAGTTGTGTT
* *
14952453 AGGTTGAATGCATGGTGTTCTGTTATTCT
130 AGGTTGAATGCATGGTGTTATGTTATTAT
*
14952482 TTTTTTGGCTTCTAGTTCGT-GTACTTGTACCAGACTAAGACAAAAAAATCAGAACCCTAAATTA
1 TTTTTTGGCTTCTAGTTC-TCGTACTCGTACCAGACTAAGACAAAAAAATCAGAACCCTAAATTA
*
14952546 GATTTAAATATTTTAGAATTGACATTAAAAAAGTGTTTACGATAAACCTGTGATCCAGTTGTGTT
65 GATTTAAATATTTTAGAATTGACATTAAAAAAGTGTTTACGATATACCTGTGATCCAGTTGTGTT
* * *
14952611 AGGCTAAATGCATGGTGTTATGTTGTTAT
130 AGGTTGAATGCATGGTGTTATGTTATTAT
* *
14952640 TTTTTTTGCTTCTAGTTCTCGTACTCGTACCAGACTAAAACAAAAAAAATCAGAACCCTAAATTA
1 TTTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGAC-AAAAAAATCAGAACCCTAAATTA
* * ** * *
14952705 GATTTAAATATTTTGGAATTGACAGTGGAAAAGTGTTTACAATATACCTGTGATCTAGTTGTGTT
65 GATTTAAATATTTTAGAATTGACATTAAAAAAGTGTTTACGATATACCTGTGATCCAGTTGTGTT
*
14952770 AGGTCGAATGCATG
130 AGGTTGAATGCATG
14952784 ATCTTTTGTT
Statistics
Matches: 272, Mismatches: 26, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
157 3 0.01
158 176 0.65
159 93 0.34
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (158 bp):
TTTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGACAAAAAAATCAGAACCCTAAATTAG
ATTTAAATATTTTAGAATTGACATTAAAAAAGTGTTTACGATATACCTGTGATCCAGTTGTGTTA
GGTTGAATGCATGGTGTTATGTTATTAT
Found at i:14954720 original size:36 final size:36
Alignment explanation
Indices: 14954673--14954747 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
14954663 CCCATGATCA
14954673 TCACTATCAAAATAGTCAGTCTCATTTCCATCTTCT
1 TCACTATCAAAATAGTCAGTCTCATTTCCATCTTCT
14954709 TCACTATCAAAATAGTCAGTCTCATTTCCATCTTCT
1 TCACTATCAAAATAGTCAGTCTCATTTCCATCTTCT
14954745 TCA
1 TCA
14954748 TTACCTTCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.28, C:0.28, G:0.05, T:0.39
Consensus pattern (36 bp):
TCACTATCAAAATAGTCAGTCTCATTTCCATCTTCT
Found at i:14955078 original size:57 final size:57
Alignment explanation
Indices: 14955010--14955157 Score: 147
Period size: 57 Copynumber: 2.6 Consensus size: 57
14955000 TTCTTCAACA
* * * *
14955010 CTACTTAAACCTCCATCACTCTCACCACCTTCACTG-TAAGAAACATCAACACCCT-C
1 CTACCTAAACCTTCATCACCCTCACCACCTTCACTGCCAA-AAACATCAACACCCTCC
* * * * * * * *
14955066 TTCACCTAAACCTTCTTCACCCTTACAACCTTTACTGCCAACAACCTCAACACTCTCC
1 CT-ACCTAAACCTTCATCACCCTCACCACCTTCACTGCCAAAAACATCAACACCCTCC
*
14955124 CTACCTAAACCTTCAGCACCCTCACCACCTTCAC
1 CTACCTAAACCTTCATCACCCTCACCACCTTCAC
14955158 CACCCAAACC
Statistics
Matches: 71, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
56 1 0.01
57 66 0.93
58 4 0.06
ACGTcount: A:0.29, C:0.44, G:0.03, T:0.24
Consensus pattern (57 bp):
CTACCTAAACCTTCATCACCCTCACCACCTTCACTGCCAAAAACATCAACACCCTCC
Found at i:14955153 original size:81 final size:78
Alignment explanation
Indices: 14955084--14955311 Score: 278
Period size: 81 Copynumber: 2.8 Consensus size: 78
14955074 AACCTTCTTC
* * *
14955084 ACCCTTACAACCTTTACTGCCAACAACCTCAACACTCTCCCTACCTAAACCTTCAGCACCCTCAC
1 ACCCTTACCACCTTTACTGCCAACAACCTCAACACCCTCCC-ACCTAAACCTTCACCACCCTCAC
*
14955149 CACCTTCACC-ACCCAA
65 CACC-T-ACCTA-CCTA
* * *
14955165 ACCCTCACCACCTTTACTGACAACAATCTCAACACCCTCCCACCTAAACCTTCACCACCCTCACC
1 ACCCTTACCACCTTTACTGCCAACAACCTCAACACCCTCCCACCTAAACCTTCACCACCCTCACC
*
14955230 ATCCTTCCTACCTA
66 A-CCTACCTACCTA
* * *
14955244 AGCCTTCACCACCTTTACTACCAACAAACCTCAACACCCCTCCCACCTAAACCTTTACCACCCTC
1 ACCCTT-ACCACCTTTACTGCCAAC-AACCTCAACA-CCCTCCCACCTAAACCTTCACCACCCTC
14955309 ACC
63 ACC
14955312 CTCACCCTTA
Statistics
Matches: 128, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
79 9 0.07
80 42 0.33
81 47 0.37
82 30 0.23
ACGTcount: A:0.29, C:0.49, G:0.02, T:0.20
Consensus pattern (78 bp):
ACCCTTACCACCTTTACTGCCAACAACCTCAACACCCTCCCACCTAAACCTTCACCACCCTCACC
ACCTACCTACCTA
Found at i:14956143 original size:15 final size:15
Alignment explanation
Indices: 14956085--14956143 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
14956075 AAACCATAAA
*
14956085 CAAAAAAACCAAAACT
1 CAAAAAACCCAAAA-T
*
14956101 C-AAAAACCCTAAAT
1 CAAAAAACCCAAAAT
*
14956115 -AAAAATCCCTAAAAT
1 CAAAAAACCC-AAAAT
14956130 CAAAAAACCCAAAA
1 CAAAAAACCCAAAA
14956144 AAATCCCCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
14 8 0.23
15 18 0.51
16 9 0.26
ACGTcount: A:0.64, C:0.25, G:0.00, T:0.10
Consensus pattern (15 bp):
CAAAAAACCCAAAAT
Found at i:14958945 original size:66 final size:66
Alignment explanation
Indices: 14958862--14959023 Score: 227
Period size: 66 Copynumber: 2.5 Consensus size: 66
14958852 TCCTTTCGAG
* * *
14958862 CCCATTACCACTGCAGTACTCCACTCATTCTGGACCATTAACATCGTAATACTCCACTT-CTTCC
1 CCCATTACCACTACAGTACTCCACTCATTCTGGACCATTAACACCGCAATACTCCACTTCCTT-C
14958926 AA
65 AA
* * * *
14958928 CCCATTACCACCACAGTACTCCACTCATTCTGGCCCATTAACACCGCAGTACTCTACTTCCTTCA
1 CCCATTACCACTACAGTACTCCACTCATTCTGGACCATTAACACCGCAATACTCCACTTCCTTCA
*
14958993 G
66 A
*
14958994 CCTATTACCACTACAGTACTCCACTCATTC
1 CCCATTACCACTACAGTACTCCACTCATTC
14959024 CGATTCATTA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
66 82 0.96
67 3 0.04
ACGTcount: A:0.26, C:0.39, G:0.07, T:0.28
Consensus pattern (66 bp):
CCCATTACCACTACAGTACTCCACTCATTCTGGACCATTAACACCGCAATACTCCACTTCCTTCA
A
Found at i:14958948 original size:33 final size:34
Alignment explanation
Indices: 14958828--14959051 Score: 127
Period size: 33 Copynumber: 6.7 Consensus size: 34
14958818 ATATATTTAG
* * * * * *
14958828 CCCATTACCACCATAGTGCTCCACTCCTTTCGAG
1 CCCATTACCACCACAGTACTCCACTTCATTCCAA
** **
14958862 CCCATTACCACTGCAGTACTCCAC-TCATTCTGGA
1 CCCATTACCACCACAGTACTCCACTTCATTC-CAA
* * ** *
14958896 -CCATTAACATCGTAATACTCCACTTC-TTCCAA
1 CCCATTACCACCACAGTACTCCACTTCATTCCAA
***
14958928 CCCATTACCACCACAGTACTCCAC-TCATTCTGG
1 CCCATTACCACCACAGTACTCCACTTCATTCCAA
* * * * *
14958961 CCCATTAACACCGCAGTACTCTACTTCCTT-CAG
1 CCCATTACCACCACAGTACTCCACTTCATTCCAA
* * *
14958994 CCTATTACCACTACAGTACTCCAC-TCATTCCGA
1 CCCATTACCACCACAGTACTCCACTTCATTCCAA
** * *
14959027 TTCATTACCACCAGAATACTCCACT
1 CCCATTACCACCACAGTACTCCACT
14959052 CTTTCAGGGC
Statistics
Matches: 140, Mismatches: 43, Indels: 14
0.71 0.22 0.07
Matches are distributed among these distances:
32 7 0.05
33 106 0.76
34 27 0.19
ACGTcount: A:0.26, C:0.39, G:0.08, T:0.27
Consensus pattern (34 bp):
CCCATTACCACCACAGTACTCCACTTCATTCCAA
Found at i:14959033 original size:66 final size:65
Alignment explanation
Indices: 14958846--14959051 Score: 209
Period size: 66 Copynumber: 3.1 Consensus size: 65
14958836 CACCATAGTG
* * * * * *
14958846 CTCCACTCCTTTCGAGCCCATTACCACTGCAGTACTCCACTCATTCTGGACCATTAACATCGTAA
1 CTCCACTTC-TTCCAGCCCATTACCACTACAGTACTCCACTCATTC-CGACCATTAACACCGCAA
14958911 TA
64 TA
* * * * *
14958913 CTCCACTTCTTCCAACCCATTACCACCACAGTACTCCACTCATTCTGGCCCATTAACACCGCAGT
1 CTCCACTTCTTCCAGCCCATTACCACTACAGTACTCCACTCATTC-CGACCATTAACACCGCAAT
14958978 A
65 A
* * * *
14958979 CTCTACTTCCTT-CAGCCTATTACCACTACAGTACTCCACTCATTCCGATTCATTACCACCAG-A
1 CTCCACTT-CTTCCAGCCCATTACCACTACAGTACTCCACTCATTCCGA-CCATTAACACC-GCA
14959042 ATA
63 ATA
14959045 CTCCACT
1 CTCCACT
14959052 CTTTCAGGGC
Statistics
Matches: 117, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
65 1 0.01
66 104 0.89
67 12 0.10
ACGTcount: A:0.26, C:0.39, G:0.08, T:0.28
Consensus pattern (65 bp):
CTCCACTTCTTCCAGCCCATTACCACTACAGTACTCCACTCATTCCGACCATTAACACCGCAATA
Found at i:14959474 original size:3 final size:3
Alignment explanation
Indices: 14959460--14959500 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
14959450 TTTCTGTCGT
*
14959460 TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
14959501 GTTTTTTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:14960371 original size:3 final size:3
Alignment explanation
Indices: 14960363--14960415 Score: 79
Period size: 3 Copynumber: 17.3 Consensus size: 3
14960353 ATCTCAAAAG
* *
14960363 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA ATA AAA AGAA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA
14960409 AGA AGA A
1 AGA AGA A
14960416 ACGATAGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:14962024 original size:15 final size:15
Alignment explanation
Indices: 14962001--14962031 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14961991 TTATATTTAA
*
14962001 TTTATATTTATCTTT
1 TTTAGATTTATCTTT
14962016 TTTAGATTTATCTTT
1 TTTAGATTTATCTTT
14962031 T
1 T
14962032 AGAGTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.71
Consensus pattern (15 bp):
TTTAGATTTATCTTT
Found at i:14968134 original size:7 final size:7
Alignment explanation
Indices: 14968122--14968180 Score: 64
Period size: 7 Copynumber: 8.4 Consensus size: 7
14968112 AAATTATCGA
14968122 GAGAATT
1 GAGAATT
14968129 GAGAATT
1 GAGAATT
*
14968136 GAGAATA
1 GAGAATT
*
14968143 GATAATT
1 GAGAATT
*
14968150 GATAATT
1 GAGAATT
*
14968157 GAGTATT
1 GAGAATT
*
14968164 AAGAATT
1 GAGAATT
*
14968171 AAGAATT
1 GAGAATT
14968178 GAG
1 GAG
14968181 TTTAAATTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.31
Consensus pattern (7 bp):
GAGAATT
Found at i:14970573 original size:20 final size:21
Alignment explanation
Indices: 14970539--14970577 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
14970529 GTACTTATTT
14970539 TATTTATAATATAATTATTAA
1 TATTTATAATATAATTATTAA
*
14970560 TATTTAT-ATTTAATTATT
1 TATTTATAATATAATTATT
14970578 TGTAACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTATAATATAATTATTAA
Found at i:14975240 original size:28 final size:26
Alignment explanation
Indices: 14975209--14975273 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 26
14975199 ATTATTATTT
**
14975209 TTTATGTATTTTTTGTTTAATTTATTCA
1 TTTATGTATTTTTT-TTTAA-AAATTCA
*
14975237 TTTATCTA--TTTTTTTAAAAATTCA
1 TTTATGTATTTTTTTTTAAAAATTCA
14975261 TTTATGTATTTTT
1 TTTATGTATTTTT
14975274 AATTATATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
24 12 0.39
25 5 0.16
26 7 0.23
28 7 0.23
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (26 bp):
TTTATGTATTTTTTTTTAAAAATTCA
Found at i:14978183 original size:16 final size:15
Alignment explanation
Indices: 14978162--14978204 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14978152 TGATAAACTG
14978162 AAAAATTAAGTATTA
1 AAAAATTAAGTATTA
* *
14978177 AAAAAATAAGTGA-TG
1 AAAAATTAAGT-ATTA
14978192 AAAAATTAAGTAT
1 AAAAATTAAGTAT
14978205 CGACTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (15 bp):
AAAAATTAAGTATTA
Found at i:14979942 original size:17 final size:18
Alignment explanation
Indices: 14979920--14979954 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
14979910 TGATTGAAAA
*
14979920 ATAAAAGAAATG-TATTT
1 ATAAAAAAAATGATATTT
14979937 ATAAAAAAAATGATATTT
1 ATAAAAAAAATGATATTT
14979955 TTGTTGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (18 bp):
ATAAAAAAAATGATATTT
Found at i:14980281 original size:22 final size:21
Alignment explanation
Indices: 14980256--14980314 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
14980246 ATTTAAGTTA
14980256 TAAAATTGTTTGATATATTATT
1 TAAAATTGTTTGATATATTA-T
* * *
14980278 TAAAATTAATTAAGAAATATTAT
1 TAAAATT-GTT-TGATATATTAT
14980301 T-AAATTGTTTGATA
1 TAAAATTGTTTGATA
14980315 AATAAAAGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
20 3 0.10
21 2 0.07
22 12 0.41
23 4 0.14
24 8 0.28
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (21 bp):
TAAAATTGTTTGATATATTAT
Found at i:14980317 original size:22 final size:22
Alignment explanation
Indices: 14980253--14980318 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
14980243 AAAATTTAAG
*
14980253 TTATAAAATTGTTTGAT--ATA
1 TTATTAAATTGTTTGATAAATA
** * *
14980273 TTATTTAAAATTAATTAAGAAATA
1 TTA-TT-AAATTGTTTGATAAATA
14980297 TTATTAAATTGTTTGATAAATA
1 TTATTAAATTGTTTGATAAATA
14980319 AAAGTTTTAA
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
20 3 0.09
21 1 0.03
22 21 0.64
23 2 0.06
24 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (22 bp):
TTATTAAATTGTTTGATAAATA
Found at i:14983538 original size:20 final size:20
Alignment explanation
Indices: 14983504--14983543 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14983494 TTACCGGTAG
*
14983504 AACTTCACTTATACCTATAC
1 AACTTCACTTATACCGATAC
* *
14983524 AACTTCAGTTTTACCGATAC
1 AACTTCACTTATACCGATAC
14983544 CTTGAAGACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (20 bp):
AACTTCACTTATACCGATAC
Found at i:14985049 original size:28 final size:28
Alignment explanation
Indices: 14985017--14985110 Score: 100
Period size: 29 Copynumber: 3.3 Consensus size: 28
14985007 AAAAAAATTA
14985017 ACAAGATGGGTATTG-AAAAATAATTTTG
1 ACAAGATGGGT-TTGAAAAAATAATTTTG
* *
14985045 ACAAGATGGATTCTGAAAAAATAAATTTG
1 ACAAGATGGGTT-TGAAAAAATAATTTTG
*** *
14985074 ATGTGATGTGTTTTGAAAAAATAATTTTG
1 ACAAGATG-GGTTTGAAAAAATAATTTTG
14985103 ACAAGATG
1 ACAAGATG
14985111 AAATTTTTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
27 1 0.02
28 12 0.23
29 37 0.70
30 3 0.06
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (28 bp):
ACAAGATGGGTTTGAAAAAATAATTTTG
Found at i:14985074 original size:29 final size:28
Alignment explanation
Indices: 14984995--14985110 Score: 96
Period size: 29 Copynumber: 4.1 Consensus size: 28
14984985 ATTGTTTAAT
*
14984995 ATGGTTCTGGAAAAAA-AAA-TTAACAAG
1 ATGGTTCT-GAAAAAATAAATTTGACAAG
*
14985022 ATGGGTAT-TG-AAAAATAATTTTGACAAG
1 AT-GGT-TCTGAAAAAATAAATTTGACAAG
***
14985050 ATGGATTCTGAAAAAATAAATTTGATGTG
1 ATGG-TTCTGAAAAAATAAATTTGACAAG
* *
14985079 ATGTGTTTTGAAAAAATAATTTTGACAAG
1 ATG-GTTCTGAAAAAATAAATTTGACAAG
14985108 ATG
1 ATG
14985111 AAATTTTTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 14
0.74 0.12 0.15
Matches are distributed among these distances:
26 5 0.07
27 8 0.11
28 16 0.23
29 40 0.57
30 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.32
Consensus pattern (28 bp):
ATGGTTCTGAAAAAATAAATTTGACAAG
Found at i:14990180 original size:17 final size:17
Alignment explanation
Indices: 14990160--14990216 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
14990150 TAATCGTCAC
14990160 TAATATTATTTGGTTTG
1 TAATATTATTTGGTTTG
*
14990177 TAATATTCCATTTGTTTTG
1 TAATATT--ATTTGGTTTG
* *
14990196 -AATATTTTTTTGGTATG
1 TAATA-TTATTTGGTTTG
14990213 TAAT
1 TAAT
14990217 CGTCGCTATC
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
17 14 0.44
18 7 0.22
19 11 0.34
ACGTcount: A:0.25, C:0.04, G:0.14, T:0.58
Consensus pattern (17 bp):
TAATATTATTTGGTTTG
Found at i:14991291 original size:59 final size:59
Alignment explanation
Indices: 14991199--14991431 Score: 387
Period size: 59 Copynumber: 4.0 Consensus size: 59
14991189 CAATTAAATG
* *
14991199 ACTTCTATCTTATTAAATGATACAATATAAAAATAATGTGTACAAAAATATTCAAAAGA
1 ACTTCTATTTTATTAAATCATACAATATAAAAATAATGTGTACAAAAATATTCAAAAGA
* *
14991258 ACTTCTATTTTATTAAATGATACAATATAAAAATAACGTGTACAAAAATATTCAAAAGA
1 ACTTCTATTTTATTAAATCATACAATATAAAAATAATGTGTACAAAAATATTCAAAAGA
* * *
14991317 ACTTCTAATTTATTAAATCATACAATATAAAAATAATGTATACAAAAATATTCAAAATA
1 ACTTCTATTTTATTAAATCATACAATATAAAAATAATGTGTACAAAAATATTCAAAAGA
*
14991376 ACTTTTATTTTATTAAATCATACAATATAAAAATAATGTGTAC-AAAATATTCAAAA
1 ACTTCTATTTTATTAAATCATACAATATAAAAATAATGTGTACAAAAATATTCAAAA
14991432 TAACATCAAT
Statistics
Matches: 164, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
58 13 0.08
59 151 0.92
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.34
Consensus pattern (59 bp):
ACTTCTATTTTATTAAATCATACAATATAAAAATAATGTGTACAAAAATATTCAAAAGA
Found at i:14991548 original size:33 final size:33
Alignment explanation
Indices: 14991506--14991568 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
14991496 ATTGCTTCTT
*
14991506 GGTTCAGCTTCCGGTTGGGGTTGTGGTTGTTCA
1 GGTTCAGCTTCCGGATGGGGTTGTGGTTGTTCA
* *
14991539 GGTTCAGCTTTCGGATGGGGTTGTTGTTGT
1 GGTTCAGCTTCCGGATGGGGTTGTGGTTGT
14991569 GGGTGTAGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.06, C:0.13, G:0.40, T:0.41
Consensus pattern (33 bp):
GGTTCAGCTTCCGGATGGGGTTGTGGTTGTTCA
Found at i:14993518 original size:25 final size:25
Alignment explanation
Indices: 14993490--14993539 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
14993480 CATGATTTTT
14993490 GTGTTGTTAAACTTAGCATGGTTTA
1 GTGTTGTTAAACTTAGCATGGTTTA
14993515 GTGTTGTTAAACTTAGCATGGTTTA
1 GTGTTGTTAAACTTAGCATGGTTTA
14993540 TTCTATGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (25 bp):
GTGTTGTTAAACTTAGCATGGTTTA
Found at i:14994281 original size:26 final size:26
Alignment explanation
Indices: 14994202--14994289 Score: 115
Period size: 26 Copynumber: 3.4 Consensus size: 26
14994192 CAATGAATAT
* *
14994202 ATATATAGCAGGCTTTGAGCCGGTGA
1 ATATATAGCAGGCCTTGAGCTGGTGA
* *
14994228 ATGTATAGCAGGCCTTGAGCTGGCGA
1 ATATATAGCAGGCCTTGAGCTGGTGA
14994254 ATATATAGCAGGCCTTGA-CTTGGTGA
1 ATATATAGCAGGCCTTGAGC-TGGTGA
*
14994280 ATATTTAGCA
1 ATATATAGCA
14994290 AGTACTATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
25 1 0.02
26 53 0.98
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (26 bp):
ATATATAGCAGGCCTTGAGCTGGTGA
Found at i:14996194 original size:20 final size:20
Alignment explanation
Indices: 14996169--14996206 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14996159 ACTATTTCTT
14996169 AAAAATAGTAAT-AAAAAATA
1 AAAAATAG-AATCAAAAAATA
14996189 AAAAATAGAATCAAAAAA
1 AAAAATAGAATCAAAAAA
14996207 AATTTAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (20 bp):
AAAAATAGAATCAAAAAATA
Found at i:14999392 original size:84 final size:84
Alignment explanation
Indices: 14999278--14999442 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
14999268 TCTAAAATCC
* * *
14999278 CCAAATCGTGATATACCCAAATCATGAAATCCCTAAATCCA-TAACA-TCCAAAATCTTCATT-A
1 CCAAATCATGAAATACCCAAATCATGAAATCCCTAAAT-CATTAACATTCCAAAATATTC-TTGA
14999340 AATCCCTAAAATCTTTTACAAA
64 AATCCCTAAAA-CTTTTACAAA
* * * * * *
14999362 CCAAATCATGAAATCCCCAAATCTTTAAATCCTTAAATCATTAGCATTCCGAAATATTCTTGAAA
1 CCAAATCATGAAATACCCAAATCATGAAATCCCTAAATCATTAACATTCCAAAATATTCTTGAAA
14999427 TCCCTAAAACTTTTAC
66 TCCCTAAAACTTTTAC
14999443 GAAATATTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
83 2 0.03
84 45 0.65
85 22 0.32
ACGTcount: A:0.41, C:0.25, G:0.04, T:0.30
Consensus pattern (84 bp):
CCAAATCATGAAATACCCAAATCATGAAATCCCTAAATCATTAACATTCCAAAATATTCTTGAAA
TCCCTAAAACTTTTACAAA
Found at i:15004947 original size:24 final size:24
Alignment explanation
Indices: 15004886--15004948 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
15004876 TAGACTAATA
* *
15004886 AGAGTTTGACTCAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAT
** *
15004910 AGAGTTTAGTTGAAACAATTAAAT
1 AGAGTTTAACTGAAACAAATAAAT
15004934 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
15004949 GATTATTTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.29
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAT
Found at i:15006899 original size:24 final size:24
Alignment explanation
Indices: 15006881--15006949 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
15006871 AGTTTGACTC
*
15006881 AAACAAATAAACAAAGTTTAATTG
1 AAACAAATAAACAAAGTTTAATTA
* *
15006905 AAACACATAAACAGAGTTTAATTA
1 AAACAAATAAACAAAGTTTAATTA
*
15006929 AAACAATTAAACAAAGTTTAA
1 AAACAAATAAACAAAGTTTAA
15006950 CTGAAAGATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.58, C:0.10, G:0.07, T:0.25
Consensus pattern (24 bp):
AAACAAATAAACAAAGTTTAATTA
Found at i:15010437 original size:38 final size:38
Alignment explanation
Indices: 15010377--15010489 Score: 136
Period size: 38 Copynumber: 3.0 Consensus size: 38
15010367 GGTTTTTCGG
* *
15010377 TATTTATCGAGCTTAGTACCTAGCAGGCTTCGTGCCAA
1 TATTTATCGGGCTTAGTGCCTAGCAGGCTTCGTGCCAA
* * * * **
15010415 TATTTATTGGGCTTCGTGCCTAGCAGGCTTCATGTCGG
1 TATTTATCGGGCTTAGTGCCTAGCAGGCTTCGTGCCAA
* *
15010453 TGTTTATCGGGCTTAGTGCCTAGCAGGCTTAGTGCCA
1 TATTTATCGGGCTTAGTGCCTAGCAGGCTTCGTGCCA
15010490 GTGTATCAAT
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.34
Consensus pattern (38 bp):
TATTTATCGGGCTTAGTGCCTAGCAGGCTTCGTGCCAA
Found at i:15025171 original size:23 final size:23
Alignment explanation
Indices: 15025138--15025488 Score: 468
Period size: 23 Copynumber: 15.3 Consensus size: 23
15025128 TATATCTATA
*
15025138 CTTAAACATTAATGTGATTTGTG
1 CTTAAATATTAATGTGATTTGTG
* * *
15025161 TTTAAATATTAATATGATTTATG
1 CTTAAATATTAATGTGATTTGTG
*
15025184 ATTAAATATTAATGTGATTTGTG
1 CTTAAATATTAATGTGATTTGTG
* * *
15025207 TTTAAGTATTAATGTGATTTATG
1 CTTAAATATTAATGTGATTTGTG
*
15025230 CTTAAATATTAATATGATTTGTG
1 CTTAAATATTAATGTGATTTGTG
* * *
15025253 CTCAAATACTAATGTGATTTATG
1 CTTAAATATTAATGTGATTTGTG
* *
15025276 CTTAAATATTAATGTGATTTATT
1 CTTAAATATTAATGTGATTTGTG
* * *
15025299 ATTAAATATTATTGTAATTTGTG
1 CTTAAATATTAATGTGATTTGTG
*
15025322 CTTAAATATTAATATGATTTGTG
1 CTTAAATATTAATGTGATTTGTG
*
15025345 CTCAAATATTAATGTGATTTGTG
1 CTTAAATATTAATGTGATTTGTG
*
15025368 CTTAAATATTAATATGATTTGTG
1 CTTAAATATTAATGTGATTTGTG
* *
15025391 CTCAAATATTAATGTGATTTATG
1 CTTAAATATTAATGTGATTTGTG
*
15025414 CTCAAATATTAATGTGATTTGTG
1 CTTAAATATTAATGTGATTTGTG
* *
15025437 CTTAAATATTAATATGATTTATG
1 CTTAAATATTAATGTGATTTGTG
*
15025460 ATTAAATATTAATGTGATTTGTG
1 CTTAAATATTAATGTGATTTGTG
15025483 CTTAAA
1 CTTAAA
15025489 GAATTAGGAT
Statistics
Matches: 283, Mismatches: 45, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 283 1.00
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
CTTAAATATTAATGTGATTTGTG
Found at i:15027982 original size:28 final size:28
Alignment explanation
Indices: 15027869--15027987 Score: 116
Period size: 28 Copynumber: 4.2 Consensus size: 28
15027859 AAAGAAGTTA
* * **
15027869 TTGTGGCTGACTTTGTTAAAGGAAGCAT
1 TTGTGGCTGACTCTATTAAAGGAAGCCC
* * * * *
15027897 TTATGGTTGACTTTGTTAAAGGAAGCCT
1 TTGTGGCTGACTCTATTAAAGGAAGCCC
15027925 TTGT-GCTTGACTCTATTAAAGGAAGCCC
1 TTGTGGC-TGACTCTATTAAAGGAAGCCC
*
15027953 TTGTGGCTGACTCTATTAAA-GAATGTCC
1 TTGTGGCTGACTCTATTAAAGGAA-GCCC
15027981 TTGTGGC
1 TTGTGGC
15027988 GCATATGATA
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.05
28 73 0.92
29 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (28 bp):
TTGTGGCTGACTCTATTAAAGGAAGCCC
Found at i:15034465 original size:12 final size:12
Alignment explanation
Indices: 15034448--15034486 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
15034438 TTACAAAATC
15034448 ATAGGCTGATTT
1 ATAGGCTGATTT
* *
15034460 ATAGGCTAATTA
1 ATAGGCTGATTT
*
15034472 ATAGGTTGATTT
1 ATAGGCTGATTT
15034484 ATA
1 ATA
15034487 TTGTATTTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (12 bp):
ATAGGCTGATTT
Found at i:15035134 original size:16 final size:16
Alignment explanation
Indices: 15035110--15035141 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15035100 TCCTTACAAA
*
15035110 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
15035126 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
15035142 AAAAATTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:15037610 original size:37 final size:37
Alignment explanation
Indices: 15037555--15037632 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
15037545 GCCACACTTA
* *
15037555 AAAGGATATTTGATATCCATAGGCACCATTACAAAAC
1 AAAGAATATTTGATATCCAAAGGCACCATTACAAAAC
* *
15037592 AAAGAATATTTTATATCCAAAGGCACCCTTACAAAAC
1 AAAGAATATTTGATATCCAAAGGCACCATTACAAAAC
15037629 AAAG
1 AAAG
15037633 TAAGCAGAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (37 bp):
AAAGAATATTTGATATCCAAAGGCACCATTACAAAAC
Found at i:15043467 original size:18 final size:19
Alignment explanation
Indices: 15043432--15043470 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
15043422 AATAAATATA
15043432 AATACAATTTAAATTTAAT
1 AATACAATTTAAATTTAAT
15043451 AATA-AATTGTAAA-TTAAT
1 AATACAATT-TAAATTTAAT
15043469 AA
1 AA
15043471 AAACAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
AATACAATTTAAATTTAAT
Done.