Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 137 of 145
Found at i:45658258 original size:106 final size:108
Alignment explanation
Indices: 45658135--45658328 Score: 320
Period size: 106 Copynumber: 1.8 Consensus size: 108
45658125 AAATTATGAA
* ** **
45658135 AAATATTTAAAAATATAGGAAATTATTAAAATTGTTCTTAAAATTTACAAAATATTATAAA-AAA
1 AAATATTTAAAAATATAGAAAACAATTAAAATTGTTAGTAAAATTTACAAAATATTATAAATAAA
45658199 ATTAAATTTTG-AAAAGAAGAAGAAGAAGAAATCATTAGTCGT
66 ATTAAATTTTGAAAAAGAAGAAGAAGAAGAAATCATTAGTCGT
45658241 AAATATTTAAAAATATAGAAAACAATTAAAATTGTTAGTAAAATTTACAAAATATTATAAATAAA
1 AAATATTTAAAAATATAGAAAACAATTAAAATTGTTAGTAAAATTTACAAAATATTATAAATAAA
*
45658306 ATTGAATTTTGAAAAAGAAGAAG
66 ATTAAATTTTGAAAAAGAAGAAG
45658329 TCGTAACTAT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
106 56 0.70
107 13 0.16
108 11 0.14
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (108 bp):
AAATATTTAAAAATATAGAAAACAATTAAAATTGTTAGTAAAATTTACAAAATATTATAAATAAA
ATTAAATTTTGAAAAAGAAGAAGAAGAAGAAATCATTAGTCGT
Found at i:45661954 original size:6 final size:6
Alignment explanation
Indices: 45661945--45662123 Score: 94
Period size: 6 Copynumber: 29.8 Consensus size: 6
45661935 CAAGTGTGAG
* * * * *
45661945 TGAGAA TGAGAA TGAGAG TGA-AA GTGTGAG TGAGAA TAAGAA TGAGAG
1 TGAGAA TGAGAA TGAGAA TGAGAA -TGAGAA TGAGAA TGAGAA TGAGAA
* * * * * * *
45661993 TGAGAA TGAGAT TGAGAA TGAGAG TGTGAG TGAGAG TGAGAA TAAGAG
1 TGAGAA TGAGAA TGAGAA TGAGAA TGAGAA TGAGAA TGAGAA TGAGAA
* ** ** * *
45662041 CGAGAA TGAGTT TGAGAA TGAGAGTA TGAG-- TGAGGG TGAGAG TGAGAG
1 TGAGAA TGAGAA TGAGAA TGAGA--A TGAGAA TGAGAA TGAGAA TGAGAA
* * * * *
45662089 TGAGAA TGAGAG TGTGAG CGAGAA TGTGAA TGAGA
1 TGAGAA TGAGAA TGAGAA TGAGAA TGAGAA TGAGA
45662124 TTCAGCATCC
Statistics
Matches: 131, Mismatches: 36, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
4 4 0.03
5 1 0.01
6 120 0.92
7 1 0.01
8 5 0.04
ACGTcount: A:0.39, C:0.01, G:0.40, T:0.20
Consensus pattern (6 bp):
TGAGAA
Found at i:45661958 original size:30 final size:30
Alignment explanation
Indices: 45661917--45662030 Score: 140
Period size: 30 Copynumber: 3.8 Consensus size: 30
45661907 ATCGAGATGA
* *
45661917 AGAACGAGAATGAGAGTGCAAGTGTGAGTG
1 AGAATGAGAATGAGAGTGAAAGTGTGAGTG
45661947 AGAATGAGAATGAGAGTGAAAGTGTGAGTG
1 AGAATGAGAATGAGAGTGAAAGTGTGAGTG
* * *
45661977 AGAATAAGAATGAGAGTGAGAA-TGAGATTG
1 AGAATGAGAATGAGAGTGA-AAGTGTGAGTG
* * *
45662007 AGAATGAGAGTGTGAGTGAGAGTG
1 AGAATGAGAATGAGAGTGAAAGTG
45662031 AGAATAAGAG
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
29 1 0.01
30 70 0.96
31 2 0.03
ACGTcount: A:0.39, C:0.02, G:0.39, T:0.19
Consensus pattern (30 bp):
AGAATGAGAATGAGAGTGAAAGTGTGAGTG
Found at i:45661960 original size:12 final size:12
Alignment explanation
Indices: 45661922--45662102 Score: 159
Period size: 12 Copynumber: 15.1 Consensus size: 12
45661912 GATGAAGAAC
45661922 GAGAATGAGAGT
1 GAGAATGAGAGT
* *
45661934 GCA-AGTGTGAGT
1 G-AGAATGAGAGT
*
45661946 GAGAATGAGAAT
1 GAGAATGAGAGT
* *
45661958 GAGAGTGAAAGT
1 GAGAATGAGAGT
* * *
45661970 GTGAGTGAGAAT
1 GAGAATGAGAGT
*
45661982 AAGAATGAGAGT
1 GAGAATGAGAGT
*
45661994 GAGAATGAGATT
1 GAGAATGAGAGT
45662006 GAGAATGAGAGT
1 GAGAATGAGAGT
* *
45662018 GTGAGTGAGAGT
1 GAGAATGAGAGT
* *
45662030 GAGAATAAGAGC
1 GAGAATGAGAGT
**
45662042 GAGAATGAGTTT
1 GAGAATGAGAGT
45662054 GAGAATGAGAGT
1 GAGAATGAGAGT
* *
45662066 -ATGAGTGAGGGT
1 GA-GAATGAGAGT
*
45662078 GAGAGTGAGAGT
1 GAGAATGAGAGT
45662090 GAGAATGAGAGT
1 GAGAATGAGAGT
45662102 G
1 G
45662103 TGAGCGAGAA
Statistics
Matches: 131, Mismatches: 34, Indels: 8
0.76 0.20 0.05
Matches are distributed among these distances:
11 2 0.02
12 127 0.97
13 2 0.02
ACGTcount: A:0.38, C:0.01, G:0.41, T:0.20
Consensus pattern (12 bp):
GAGAATGAGAGT
Found at i:45661998 original size:48 final size:48
Alignment explanation
Indices: 45661942--45662099 Score: 217
Period size: 48 Copynumber: 3.3 Consensus size: 48
45661932 GTGCAAGTGT
* * * * *
45661942 GAGTGAGAATGAGAATGAGAGTGAAAGTGTGAGTGAGAATAAGAATGA
1 GAGTGAGAATGAGATTGAGAATGAGAGTGTGAGTGAGAGTGAGAATGA
*
45661990 GAGTGAGAATGAGATTGAGAATGAGAGTGTGAGTGAGAGTGAGAATAA
1 GAGTGAGAATGAGATTGAGAATGAGAGTGTGAGTGAGAGTGAGAATGA
* * * * *
45662038 GAGCGAGAATGAGTTTGAGAATGAGAGTATGAGTGAGGGTGAGAGTGA
1 GAGTGAGAATGAGATTGAGAATGAGAGTGTGAGTGAGAGTGAGAATGA
45662086 GAGTGAGAATGAGA
1 GAGTGAGAATGAGA
45662100 GTGTGAGCGA
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 96 1.00
ACGTcount: A:0.39, C:0.01, G:0.41, T:0.20
Consensus pattern (48 bp):
GAGTGAGAATGAGATTGAGAATGAGAGTGTGAGTGAGAGTGAGAATGA
Found at i:45662033 original size:30 final size:30
Alignment explanation
Indices: 45661917--45662123 Score: 127
Period size: 30 Copynumber: 7.3 Consensus size: 30
45661907 ATCGAGATGA
* * *
45661917 AGAACGAGAATGAGAGTGCAAGTGTGAGTG
1 AGAATGAGAATGAGAGTGTAAGTGAGAGTG
* *
45661947 AGAATGAGAATGAGAGTGAAAGTGTGAGTG
1 AGAATGAGAATGAGAGTGTAAGTGAGAGTG
*
45661977 AGAATAAGAATGAGAGTG--A--GA-A-TG
1 AGAATGAGAATGAGAGTGTAAGTGAGAGTG
* *
45662001 AGATTGAGAATGAGAGTGTGAGTGAGAGTG
1 AGAATGAGAATGAGAGTGTAAGTGAGAGTG
* * **
45662031 AGAAT---AA-GAGCGAG-AA-TGAGTTTG
1 AGAATGAGAATGAGAGTGTAAGTGAGAGTG
* *
45662055 AGAATGAGAGT-ATGAGTG-AGGGTGAGAGTG
1 AGAATGAGAATGA-GAGTGTA-AGTGAGAGTG
* * * *
45662085 AGAGTGAGAATGAGAGTGTGAGCGAGAATG
1 AGAATGAGAATGAGAGTGTAAGTGAGAGTG
*
45662115 TGAATGAGA
1 AGAATGAGA
45662124 TTCAGCATCC
Statistics
Matches: 136, Mismatches: 26, Indels: 30
0.71 0.14 0.16
Matches are distributed among these distances:
24 29 0.21
25 2 0.01
26 7 0.05
27 4 0.03
28 7 0.05
29 1 0.01
30 85 0.62
31 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.40, T:0.19
Consensus pattern (30 bp):
AGAATGAGAATGAGAGTGTAAGTGAGAGTG
Found at i:45665930 original size:39 final size:40
Alignment explanation
Indices: 45665844--45665931 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
45665834 AATTCTTTAC
* *
45665844 TTCAGTAATTTCACAATTCAATGCATTATGCATAACAATA
1 TTCAGTATTTTCACAATTCAATGCATAATGCATAACAATA
*
45665884 TTCAGTATTTTCACAATTCACT-CAGTAAT-CA-AGACAATA
1 TTCAGTATTTTCACAATTCAATGCA-TAATGCATA-ACAATA
45665923 TTCAGTATT
1 TTCAGTATT
45665932 CCATAATTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 1 0.02
39 19 0.44
40 23 0.53
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (40 bp):
TTCAGTATTTTCACAATTCAATGCATAATGCATAACAATA
Found at i:45666666 original size:11 final size:11
Alignment explanation
Indices: 45666652--45666677 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
45666642 CTTTTTCTTC
45666652 TTTCTCCCCTG
1 TTTCTCCCCTG
45666663 TTTCTCCCCTG
1 TTTCTCCCCTG
45666674 TTTC
1 TTTC
45666678 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:45684550 original size:16 final size:18
Alignment explanation
Indices: 45684517--45684550 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
45684507 TCATTTTAGT
45684517 TCTCTATTTAATTATTTA
1 TCTCTATTTAATTATTTA
45684535 TCTCT-TTTAA-TATTTA
1 TCTCTATTTAATTATTTA
45684551 AACTTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (18 bp):
TCTCTATTTAATTATTTA
Found at i:45685878 original size:18 final size:21
Alignment explanation
Indices: 45685855--45685894 Score: 59
Period size: 18 Copynumber: 2.0 Consensus size: 21
45685845 TCATAACTTT
45685855 AATAAGT-TATT-TTT-TATA
1 AATAAGTATATTATTTGTATA
45685873 AATAAGTATATTATTTGTATA
1 AATAAGTATATTATTTGTATA
45685894 A
1 A
45685895 TATATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 4 0.21
20 3 0.16
21 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
AATAAGTATATTATTTGTATA
Found at i:45688539 original size:2 final size:2
Alignment explanation
Indices: 45688532--45688563 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
45688522 ATAAAGTTGG
*
45688532 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45688564 GGATCTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45690608 original size:29 final size:29
Alignment explanation
Indices: 45690576--45690634 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
45690566 TATCCATCTA
45690576 TATTTTATACTATTATTTAAGCCTGAGAT
1 TATTTTATACTATTATTTAAGCCTGAGAT
45690605 TATTTTATACTATTATTTAAGCCTGAGAT
1 TATTTTATACTATTATTTAAGCCTGAGAT
45690634 T
1 T
45690635 GAGTTGGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (29 bp):
TATTTTATACTATTATTTAAGCCTGAGAT
Found at i:45691952 original size:324 final size:325
Alignment explanation
Indices: 45691351--45692003 Score: 1299
Period size: 324 Copynumber: 2.0 Consensus size: 325
45691341 TATATATATA
45691351 TATATATTCTATTTGCTTCTGTAATATCATATTTATGTTTTTTCTTTTCCATGTCTAGTACTTTT
1 TATATATTCTATTTGCTTCTGTAATATCATATTTATGTTTTTTCTTTTCCATGTCTAGTACTTTT
45691416 AGCGGATAAAAATTACAATGCCTAATTTATTAATTTAGTTTATTTATTAATTCAAAGATAAAGTA
66 AGCGGATAAAAATTACAATGCCTAATTTATTAATTTAGTTTATTTATTAATTCAAAGATAAAGTA
45691481 GTGATTTATGAACCTTTTTTTTTTGGTACATGTGTTTTATGAACTGTAATGAGCAAATAAAGGGA
131 GTGATTTATGAACCTTTTTTTTTTGGTACATGTGTTTTATGAACTGTAATGAGCAAATAAAGGGA
45691546 GGAAAAAGGGCTGTTCTTGCTGGATGATTCCTTCGGTGGTTGGAGAGGGGACAAAGGTTTCTTCA
196 GGAAAAAGGGCTGTTCTTGCTGGATGATTCCTTCGGTGGTTGGAGAGGGGACAAAGGTTTCTTCA
45691611 ATGATTTGAATGTTGACATACTATTTATAATATGCACTGTTGGATGGATTATGATCACCACTATC
261 ATGATTTGAATGTTGACATACTATTTATAATATGCACTGTTGGATGGATTATGATCACCACTATC
45691676 TATATATTCTA-TTGCTTCTGTAATATCATATTTATGTTTTTTCTTTTCCATGTCTAGTACTTTT
1 TATATATTCTATTTGCTTCTGTAATATCATATTTATGTTTTTTCTTTTCCATGTCTAGTACTTTT
45691740 AGCGGATAAAAATTACAATGCCTAATTTATTAATTTAGTTTATTTATTAATTCAAAGATAAAGTA
66 AGCGGATAAAAATTACAATGCCTAATTTATTAATTTAGTTTATTTATTAATTCAAAGATAAAGTA
45691805 GTGATTTATGAACCTTTTTTTTTTGGTACATGTGTTTTATGAACTGTAATGAGCAAATAAAGGGA
131 GTGATTTATGAACCTTTTTTTTTTGGTACATGTGTTTTATGAACTGTAATGAGCAAATAAAGGGA
45691870 GGAAAAAGGGCTGTTCTTGCTGGATGATTCCTTCGGTGGTTGGAGAGGGGACAAAGGTTTCTTCA
196 GGAAAAAGGGCTGTTCTTGCTGGATGATTCCTTCGGTGGTTGGAGAGGGGACAAAGGTTTCTTCA
45691935 ATGATTTGAATGTTGACATACTATTTATAATATGCACTGTTGGATGGATTATGATCACCACTATC
261 ATGATTTGAATGTTGACATACTATTTATAATATGCACTGTTGGATGGATTATGATCACCACTATC
45692000 TATA
1 TATA
45692004 ATTATCAGTT
Statistics
Matches: 328, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
324 317 0.97
325 11 0.03
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.41
Consensus pattern (325 bp):
TATATATTCTATTTGCTTCTGTAATATCATATTTATGTTTTTTCTTTTCCATGTCTAGTACTTTT
AGCGGATAAAAATTACAATGCCTAATTTATTAATTTAGTTTATTTATTAATTCAAAGATAAAGTA
GTGATTTATGAACCTTTTTTTTTTGGTACATGTGTTTTATGAACTGTAATGAGCAAATAAAGGGA
GGAAAAAGGGCTGTTCTTGCTGGATGATTCCTTCGGTGGTTGGAGAGGGGACAAAGGTTTCTTCA
ATGATTTGAATGTTGACATACTATTTATAATATGCACTGTTGGATGGATTATGATCACCACTATC
Found at i:45694883 original size:24 final size:22
Alignment explanation
Indices: 45694835--45694889 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
45694825 CTTCAGTANT
45694835 TTTTATTTTTAAATTTTAATTAA
1 TTTTATTTTTAAATTTT-ATTAA
45694858 TTTTATTTGTTAAATATTT-TTCAA
1 TTTTATTT-TTAAAT-TTTATT-AA
45694882 -TTTATTTT
1 TTTTATTTT
45694890 GTATTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 1 0.03
23 17 0.59
24 8 0.28
25 3 0.10
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTATTTTTAAATTTTATTAA
Found at i:45699708 original size:43 final size:43
Alignment explanation
Indices: 45699659--45699746 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
45699649 ATCCTTCAAA
45699659 AACAGATGAAGAGTCGGAGTAAAATAGTTTTAATCCATATGAG
1 AACAGATGAAGAGTCGGAGTAAAATAGTTTTAATCCATATGAG
*
45699702 AACAGATGAAGAGTCGGAGTAATATAGTTTTAATCCATATGAG
1 AACAGATGAAGAGTCGGAGTAAAATAGTTTTAATCCATATGAG
45699745 AA
1 AA
45699747 ACAGGCAAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (43 bp):
AACAGATGAAGAGTCGGAGTAAAATAGTTTTAATCCATATGAG
Found at i:45701561 original size:18 final size:18
Alignment explanation
Indices: 45701535--45701605 Score: 99
Period size: 18 Copynumber: 3.9 Consensus size: 18
45701525 TGTTCGTTCT
45701535 AGGATTTCTCCTCCTCCC
1 AGGATTTCTCCTCCTCCC
*
45701553 AGGACTTCTCCTCCT-CC
1 AGGATTTCTCCTCCTCCC
*
45701570 TGGCATTTCTCCTCCTCCC
1 AGG-ATTTCTCCTCCTCCC
*
45701589 AGGATTTCTCCTTCTCC
1 AGGATTTCTCCTCCTCC
45701606 AATTATTTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
17 4 0.09
18 38 0.83
19 4 0.09
ACGTcount: A:0.10, C:0.44, G:0.11, T:0.35
Consensus pattern (18 bp):
AGGATTTCTCCTCCTCCC
Found at i:45701614 original size:36 final size:36
Alignment explanation
Indices: 45701538--45701618 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
45701528 TCGTTCTAGG
**
45701538 ATTTCTCCTCCTCCCAGGACTTCTCCTCCTCCTGGC
1 ATTTCTCCTCCTCCCAGGACTTCTCCTCCTCCAAGC
* * **
45701574 ATTTCTCCTCCTCCCAGGATTTCTCCTTCTCCAATT
1 ATTTCTCCTCCTCCCAGGACTTCTCCTCCTCCAAGC
45701610 ATTTCTCCT
1 ATTTCTCCT
45701619 TCCATGTTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.11, C:0.42, G:0.07, T:0.40
Consensus pattern (36 bp):
ATTTCTCCTCCTCCCAGGACTTCTCCTCCTCCAAGC
Found at i:45701920 original size:1 final size:1
Alignment explanation
Indices: 45701914--45701947 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
45701904 TAAATAAACC
45701914 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
45701948 CTTTACTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:45703282 original size:21 final size:23
Alignment explanation
Indices: 45703245--45703291 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
45703235 TTTTAAAAAA
*
45703245 TTTAAAAATATTGTTTT-CAATT
1 TTTAAAAATAATGTTTTACAATT
*
45703267 TTTAAAAATAAT-TTTTATAATT
1 TTTAAAAATAATGTTTTACAATT
45703289 TTT
1 TTT
45703292 TTGAATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTAAAAATAATGTTTTACAATT
Found at i:45711058 original size:23 final size:22
Alignment explanation
Indices: 45711006--45711061 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
45710996 CACCTCTACT
*
45711006 TTTATTTTTAGGAATTTAATTTA
1 TTTATTTTTAGGAATTTAA-TAA
45711029 TTTATTTTTAGGAATTTAA-AA
1 TTTATTTTTAGGAATTTAATAA
*
45711050 TTTCAATTTTAG
1 TTT-ATTTTTAG
45711062 TTGTTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 4 0.13
22 7 0.23
23 19 0.63
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (22 bp):
TTTATTTTTAGGAATTTAATAA
Found at i:45711727 original size:17 final size:17
Alignment explanation
Indices: 45711702--45711736 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
45711692 TAATCCACAA
45711702 ATTGGTATTTAAGCTAT
1 ATTGGTATTTAAGCTAT
*
45711719 ATTGTTATTTAAGCTAT
1 ATTGGTATTTAAGCTAT
45711736 A
1 A
45711737 CCCTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.49
Consensus pattern (17 bp):
ATTGGTATTTAAGCTAT
Found at i:45717404 original size:26 final size:28
Alignment explanation
Indices: 45717375--45717439 Score: 71
Period size: 32 Copynumber: 2.2 Consensus size: 28
45717365 TGATTGAAAT
*
45717375 TAAATTA-TCAATA-AATTATAAAGATA
1 TAAATTATTCAAAATAATTATAAAGATA
45717401 TAAATTAGACTTTCAAAATAATTATAAAGATA
1 TAAATT--A--TTCAAAATAATTATAAAGATA
45717433 TAAATTA
1 TAAATTA
45717440 ATATAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
26 6 0.19
28 1 0.03
30 1 0.03
31 5 0.16
32 19 0.59
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (28 bp):
TAAATTATTCAAAATAATTATAAAGATA
Found at i:45718218 original size:93 final size:93
Alignment explanation
Indices: 45718121--45718519 Score: 764
Period size: 93 Copynumber: 4.3 Consensus size: 93
45718111 TGTTAACACA
* *
45718121 GTATACAAGAATGATCCACCCACCAGTC-TAGTTGAAACTTAAATATAATGGTTGTAACCTGTCT
1 GTATACAAGAATTATCCACCCACCATTCTTA-TTGAAACTTAAATATAATGGTTGTAACCTGTCT
45718185 GCAGAAAAATGCATATATAGACAAATATG
65 GCAGAAAAATGCATATATAGACAAATATG
45718214 GTATACAAGAATTATCCACCCACCATTCTTATTGAAACTTAAATATAATGGTTGTAACCTGTCTG
1 GTATACAAGAATTATCCACCCACCATTCTTATTGAAACTTAAATATAATGGTTGTAACCTGTCTG
45718279 CAGAAAAATGCATATATAGACAAATATG
66 CAGAAAAATGCATATATAGACAAATATG
45718307 GTATACAAGAATTATCCACCCACCATTCTTATTGAAACTTAAATATAATGGTTGTAACCTGTCTG
1 GTATACAAGAATTATCCACCCACCATTCTTATTGAAACTTAAATATAATGGTTGTAACCTGTCTG
45718372 CAGAAAAATGCATATATAGACAAATATG
66 CAGAAAAATGCATATATAGACAAATATG
45718400 GTATACAAGAATTATCCACCCACCATTCTTATTGAAACTTAAATATAATGGTTGTAACCTGTCTG
1 GTATACAAGAATTATCCACCCACCATTCTTATTGAAACTTAAATATAATGGTTGTAACCTGTCTG
45718465 CAGAAAAATGCATATATAGACAAATATG
66 CAGAAAAATGCATATATAGACAAATATG
45718493 GTATACAAGAATTATCCACCCACCATT
1 GTATACAAGAATTATCCACCCACCATT
45718520 TACATAAATT
Statistics
Matches: 303, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
93 301 0.99
94 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (93 bp):
GTATACAAGAATTATCCACCCACCATTCTTATTGAAACTTAAATATAATGGTTGTAACCTGTCTG
CAGAAAAATGCATATATAGACAAATATG
Found at i:45718860 original size:93 final size:93
Alignment explanation
Indices: 45718763--45718952 Score: 346
Period size: 93 Copynumber: 2.0 Consensus size: 93
45718753 TGTTAACACA
45718763 GTATACAAGAATGATCCACCCACCAGTC-TAGTTGAAACTTAAATATAATGGTTGTAACCTGTCT
1 GTATACAAGAATGATCCACCCACCAGTCTTA-TTGAAACTTAAATATAATGGTTGTAACCTGTCT
45718827 GCAGAAAAATGCATATATAGACAAATATG
65 GCAGAAAAATGCATATATAGACAAATATG
* *
45718856 GTATACAAGAATTATCCACCCACCATTCTTATTGAAACTTAAATATAATGGTTGTAACCTGTCTG
1 GTATACAAGAATGATCCACCCACCAGTCTTATTGAAACTTAAATATAATGGTTGTAACCTGTCTG
45718921 CAGAAAAATGCATATATAGACAAATATG
66 CAGAAAAATGCATATATAGACAAATATG
45718949 GTAT
1 GTAT
45718953 CACAGCTTTT
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
93 92 0.98
94 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (93 bp):
GTATACAAGAATGATCCACCCACCAGTCTTATTGAAACTTAAATATAATGGTTGTAACCTGTCTG
CAGAAAAATGCATATATAGACAAATATG
Found at i:45732959 original size:18 final size:18
Alignment explanation
Indices: 45732936--45733030 Score: 59
Period size: 19 Copynumber: 4.8 Consensus size: 18
45732926 TTTAAAATTT
45732936 TATTTTAATATACATTAA
1 TATTTTAATATACATTAA
*
45732954 TATTTTTAA-ATACATGCTTA
1 TA-TTTTAATATACAT--TAA
* *
45732974 TATTTTCATATTAAATTTAAA
1 TATTTTAATA-TACA-TT-AA
45732995 TTTTATTTTAATATACATTAA
1 ---TATTTTAATATACATTAA
45733016 TATTTTTAA-ATACAT
1 TA-TTTTAATATACAT
45733031 GCTTATATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 22
0.68 0.07 0.25
Matches are distributed among these distances:
18 16 0.27
19 17 0.28
20 6 0.10
21 6 0.10
22 3 0.05
23 3 0.05
24 9 0.15
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (18 bp):
TATTTTAATATACATTAA
Found at i:45733007 original size:62 final size:63
Alignment explanation
Indices: 45732921--45733046 Score: 245
Period size: 62 Copynumber: 2.0 Consensus size: 63
45732911 TTTAATATTC
45732921 TTAAATTTAAAATTTTATTTTAATATACATTAATATTTTTAAATACATGCTTATATTTTCATA
1 TTAAATTTAAAATTTTATTTTAATATACATTAATATTTTTAAATACATGCTTATATTTTCATA
45732984 TTAAATTT-AAATTTTATTTTAATATACATTAATATTTTTAAATACATGCTTATATTTTCATA
1 TTAAATTTAAAATTTTATTTTAATATACATTAATATTTTTAAATACATGCTTATATTTTCATA
45733046 T
1 T
45733047 GCTTGTTATA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
62 55 0.87
63 8 0.13
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (63 bp):
TTAAATTTAAAATTTTATTTTAATATACATTAATATTTTTAAATACATGCTTATATTTTCATA
Found at i:45741622 original size:45 final size:48
Alignment explanation
Indices: 45741553--45741660 Score: 159
Period size: 45 Copynumber: 2.2 Consensus size: 48
45741543 GCTTTCCCTG
*
45741553 GTGGTTGGGGTGCTTCTGGAACTGAAAGTGG-A-GG-TGGCAGCGGCA
1 GTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAATGGATGGCAGCGGCA
45741598 GTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAGCGGCA
1 GTGGCTGGGGTGCTTCTGGAACTGAAAGTGG-AATGG--ATGGCAGCGGCA
45741649 GTGGCTGGGGTG
1 GTGGCTGGGGTG
45741661 GCAGTGGCGG
Statistics
Matches: 56, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
45 30 0.54
47 1 0.02
48 2 0.04
51 23 0.41
ACGTcount: A:0.19, C:0.14, G:0.46, T:0.21
Consensus pattern (48 bp):
GTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAATGGATGGCAGCGGCA
Found at i:45741663 original size:27 final size:27
Alignment explanation
Indices: 45741632--45741687 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
45741622 AAAGTGGAAA
45741632 TGGCAATGGCAGCGGCAGTGGCTGGGG
1 TGGCAATGGCAGCGGCAGTGGCTGGGG
* * * *
45741659 TGGCAGTGGCGGTGGCAGTGGTTGGGG
1 TGGCAATGGCAGCGGCAGTGGCTGGGG
45741686 TG
1 TG
45741688 CTTCTGGAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.11, C:0.14, G:0.55, T:0.20
Consensus pattern (27 bp):
TGGCAATGGCAGCGGCAGTGGCTGGGG
Found at i:45741665 original size:15 final size:15
Alignment explanation
Indices: 45741645--45741687 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
45741635 CAATGGCAGC
45741645 GGCAGTGGCTGGGGT
1 GGCAGTGGCTGGGGT
45741660 GGCAGTGGC---GGT
1 GGCAGTGGCTGGGGT
*
45741672 GGCAGTGGTTGGGGT
1 GGCAGTGGCTGGGGT
45741687 G
1 G
45741688 CTTCTGGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
12 11 0.46
15 13 0.54
ACGTcount: A:0.07, C:0.12, G:0.60, T:0.21
Consensus pattern (15 bp):
GGCAGTGGCTGGGGT
Found at i:45741714 original size:78 final size:78
Alignment explanation
Indices: 45741594--45741739 Score: 256
Period size: 78 Copynumber: 1.9 Consensus size: 78
45741584 AGGTGGCAGC
45741594 GGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAGCGGCAGTGGCTGGGG
1 GGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAGCGGCAGTGGCTGGGG
45741659 TGGCAGTGGCGGT
66 TGGCAGTGGCGGT
* ** *
45741672 GGCAGTGGTTGGGGTGCTTCTGGAACTGAAAGTGGAGGTGGCAATGGCAGCGGCAGTGGTTGGGG
1 GGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAGCGGCAGTGGCTGGGG
45741737 TGG
66 TGG
45741740 TGGTAGTGGA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.17, C:0.14, G:0.49, T:0.21
Consensus pattern (78 bp):
GGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAGCGGCAGTGGCTGGGG
TGGCAGTGGCGGT
Found at i:45745959 original size:19 final size:19
Alignment explanation
Indices: 45745921--45745964 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
45745911 AAAATGACAA
45745921 AAAATTTCTTTAAAATAAT
1 AAAATTTCTTTAAAATAAT
* *
45745940 ATAATTTACTTTATAA-AAT
1 AAAATTT-CTTTAAAATAAT
45745959 AAAATT
1 AAAATT
45745965 ATTGTGCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATTTCTTTAAAATAAT
Found at i:45749852 original size:2 final size:2
Alignment explanation
Indices: 45749845--45749882 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
45749835 GAATGAAATT
45749845 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45749883 ATGAGACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45752749 original size:15 final size:15
Alignment explanation
Indices: 45752730--45752759 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45752720 AACCTTTTAT
45752730 ATTTTT-TAATTTTG
1 ATTTTTATAATTTTG
45752744 ATTTTTATAATTTTG
1 ATTTTTATAATTTTG
45752759 A
1 A
45752760 ATTGTTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
ATTTTTATAATTTTG
Found at i:45754381 original size:32 final size:30
Alignment explanation
Indices: 45754313--45754387 Score: 80
Period size: 32 Copynumber: 2.5 Consensus size: 30
45754303 CTTTTTTTAG
* *
45754313 CTTTAAAGGG-CCCAAAATTTTTTTATCAA
1 CTTTTAAGGGACCTAAAATTTTTTTATCAA
* *
45754342 CTCTTAAGGGACCTAAAATTTTTTTTCTCCAA
1 CTTTTAAGGGACCTAAAA-TTTTTTTAT-CAA
*
45754374 CTTTTAAGGAACCT
1 CTTTTAAGGGACCT
45754388 CAAACGCTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 8 0.22
30 6 0.16
31 8 0.22
32 15 0.41
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.39
Consensus pattern (30 bp):
CTTTTAAGGGACCTAAAATTTTTTTATCAA
Found at i:45759286 original size:3 final size:3
Alignment explanation
Indices: 45759239--45759273 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
45759229 TAAAATGCAC
*
45759239 TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
45759274 TGATGCAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:45763085 original size:62 final size:57
Alignment explanation
Indices: 45762998--45763129 Score: 165
Period size: 62 Copynumber: 2.2 Consensus size: 57
45762988 TTCAAAAATA
* * *
45762998 ATATTATTTTAATAGTTTAACATTAAATTTAATTTTATGTTTATCTTGTAGATAAATATT
1 ATATTATTTTAATAGTTTAACATTAAATTTAATCTAATATTTATC-T-T-GATAAATATT
* *
45763058 TTATTATTTTAATAAGATTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATT
1 ATATTATTTTAAT-AG-TTTAACATTAAATTTAATCTAATATTTATCTTGATAAATATT
*
45763117 ATATTATATTAAT
1 ATATTATTTTAAT
45763130 TGAATATTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
59 21 0.33
60 13 0.21
61 3 0.05
62 26 0.41
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (57 bp):
ATATTATTTTAATAGTTTAACATTAAATTTAATCTAATATTTATCTTGATAAATATT
Found at i:45772034 original size:17 final size:17
Alignment explanation
Indices: 45771987--45772034 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
45771977 TGATTTGATA
45771987 AAAAATAAATATAATATT
1 AAAAATAAATA-AATATT
**
45772005 AAATTTAAATAAATATT
1 AAAAATAAATAAATATT
*
45772022 AAAAATAATTAAA
1 AAAAATAAATAAA
45772035 AAATAATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATAAATAAATATT
Found at i:45773501 original size:3 final size:3
Alignment explanation
Indices: 45773495--45773523 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
45773485 TTTATTTATC
45773495 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
45773524 GTTCTTGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:45776580 original size:3 final size:3
Alignment explanation
Indices: 45776569--45776613 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
45776559 ATTGGAAAAA
*
45776569 AAG ATG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
45776614 TGTTGGTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:45780334 original size:19 final size:19
Alignment explanation
Indices: 45780312--45780348 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
45780302 TACTTGAAAA
45780312 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
45780331 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
45780349 AGATAAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:45781292 original size:70 final size:69
Alignment explanation
Indices: 45781206--45781377 Score: 188
Period size: 70 Copynumber: 2.5 Consensus size: 69
45781196 ATCTAAGTGT
* * ** *
45781206 ATTGTATATTATTATTTTAGATTTATCATGT-TTTACTATTTTTAATTTATCAATATTATTATTT
1 ATTGTATACTATTATTTTAGATTTATCATGTATAT-CTATTTCAAATTTATCAATAATA-T-TTT
45781270 TAAATTC
63 TAAATTC
* *
45781277 ATTGT-TAAC-ATTATTTTAAATTTATCATGTATATCTATTTCAAATTTATCATTAATATTTTTA
1 ATTGTAT-ACTATTATTTTAGATTTATCATGTATATCTATTTCAAATTTATCAATAATATTTTTA
*
45781340 AATTT
65 AATTC
* * *
45781345 ATTGTATGCTATTATTTTGGATTTATCACGTAT
1 ATTGTATACTATTATTTTAGATTTATCATGTAT
45781378 GATTATTCTA
Statistics
Matches: 85, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
68 15 0.18
69 22 0.26
70 40 0.47
71 8 0.09
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (69 bp):
ATTGTATACTATTATTTTAGATTTATCATGTATATCTATTTCAAATTTATCAATAATATTTTTAA
ATTC
Found at i:45781334 original size:24 final size:23
Alignment explanation
Indices: 45781215--45781346 Score: 108
Period size: 23 Copynumber: 5.7 Consensus size: 23
45781205 TATTGTATAT
* **
45781215 TATTATTTTAGATTTATCATGTTT
1 TATTATTTTAAATTTATCAT-TAA
* * * *
45781239 TACTATTTTTAATTTATCAATAT
1 TATTATTTTAAATTTATCATTAA
* **
45781262 TATTATTTTAAATTCATTGTTAA
1 TATTATTTTAAATTTATCATTAA
*
45781285 CATTATTTTAAATTTATCATGT-A
1 TATTATTTTAAATTTATCAT-TAA
*
45781308 TATCTATTTCAAATTTATCATTAA
1 TAT-TATTTTAAATTTATCATTAA
45781332 TA-T-TTTTAAATTTAT
1 TATTATTTTAAATTTAT
45781347 TGTATGCTAT
Statistics
Matches: 86, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
21 11 0.13
22 1 0.01
23 38 0.44
24 36 0.42
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATTTTAAATTTATCATTAA
Found at i:45781462 original size:69 final size:67
Alignment explanation
Indices: 45781205--45781464 Score: 181
Period size: 69 Copynumber: 3.7 Consensus size: 67
45781195 TATCTAAGTG
* * * * * *
45781205 TATTGTATATTATTATTTTAGATTTATCATGTTTTACTATT-TTTAATTTATCAAT-ATTATTAT
1 TATTGTAT-CTATTATTTTAAATTTATCATGTATTA-T-TTATTTAAATTATC-ATCA-AAAT-T
45781268 TTTAAATT
60 TTTAAATT
* * * * *
45781276 CATTGTTAAC-ATTATTTTAAATTTATCATGTA-TATCTATTTCAAATTTATCATTAATATTTTT
1 TATTG-TATCTATTATTTTAAATTTATCATGTATTATTTATTT-AAA-TTATCATCAAAATTTTT
45781339 AAATT
63 AAATT
** * *
45781344 TATTGTATGCTATTATTTTGGATTTATCACGTATGA-TTATTCTAGAATTATCATCAAAATTTTT
1 TATTGTAT-CTATTATTTTAAATTTATCATGTATTATTTATT-TA-AATTATCATCAAAATTTTT
45781408 AAATTT
63 AAA-TT
* * *
45781414 TATATGTAT-TATTATTTCAAATTTATTATATATTATTTATTGTAAATTATC
1 TAT-TGTATCTATTATTTTAAATTTATCATGTATTATTTATT-TAAATTATC
45781465 CAATTCATTT
Statistics
Matches: 149, Mismatches: 27, Indels: 28
0.73 0.13 0.14
Matches are distributed among these distances:
67 3 0.02
68 18 0.12
69 75 0.50
70 42 0.28
71 9 0.06
72 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (67 bp):
TATTGTATCTATTATTTTAAATTTATCATGTATTATTTATTTAAATTATCATCAAAATTTTTAAA
TT
Found at i:45781463 original size:24 final size:23
Alignment explanation
Indices: 45781405--45781463 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
45781395 CATCAAAATT
45781405 TTTAAATT-TTATATGTATTATTA
1 TTTAAATTATTATA-GTATTATTA
45781428 TTTCAAATTTATTATA-TATTATTTA
1 TTT-AAA-TTATTATAGTATTA-TTA
45781453 TTGTAAATTAT
1 TT-TAAATTAT
45781464 CCAATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 12 0.39
25 10 0.32
26 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTAAATTATTATAGTATTATTA
Found at i:45781537 original size:23 final size:23
Alignment explanation
Indices: 45781510--45781554 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
45781500 AATTGTACAT
*
45781510 TCATATATATTATTTGTTTTAAC
1 TCATATATATTATTTATTTTAAC
*
45781533 TCATATATATTGTTTATTTTAA
1 TCATATATATTATTTATTTTAA
45781555 AATTTTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
TCATATATATTATTTATTTTAAC
Found at i:45783073 original size:16 final size:16
Alignment explanation
Indices: 45783052--45783087 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45783042 AGACGAAAAT
* *
45783052 GAAAGAAAGGAAAGGG
1 GAAAGAAAAGAAAAGG
45783068 GAAAGAAAAGAAAAGG
1 GAAAGAAAAGAAAAGG
45783084 GAAA
1 GAAA
45783088 AACTAGAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAGAAAAGG
Found at i:45783541 original size:40 final size:40
Alignment explanation
Indices: 45783497--45783574 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
45783487 AATTGAATCG
* *
45783497 AAGTGAAATT-ATTTGAACTGTGTATTGACTAGAAAGTGGA
1 AAGTGAAATTGAATTGAACTGTG-ATTGAATAGAAAGTGGA
* *
45783537 AAGTGAAATTGAATTGAATTGTGATTGAATTGAAAGTG
1 AAGTGAAATTGAATTGAACTGTGATTGAATAGAAAGTG
45783575 AATTTGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 23 0.70
41 10 0.30
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (40 bp):
AAGTGAAATTGAATTGAACTGTGATTGAATAGAAAGTGGA
Found at i:45784675 original size:2 final size:2
Alignment explanation
Indices: 45784668--45784694 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45784658 AGAAACTATT
45784668 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
45784695 TATTAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45792511 original size:44 final size:44
Alignment explanation
Indices: 45792387--45792511 Score: 137
Period size: 44 Copynumber: 2.8 Consensus size: 44
45792377 TGGTAGATTT
* * * *
45792387 AATCTGAC-CCACTGCAACTTCAGAGG-TATAGGATTTGTCGCTTT
1 AATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGTAGCTTC
* * *
45792431 AATCTGCTCCACTGTAACTACAGGGAGATGAGATTTGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
* *
45792475 AATTTGCTCCACTGCAACTTCAGGGAGATAATATTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
45792512 CTATAGTAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 3 0.04
44 64 0.96
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
Found at i:45798042 original size:4 final size:4
Alignment explanation
Indices: 45798033--45798063 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
45798023 ATGACGGCAT
*
45798033 GTAG GTAG GTAG GTAG GTAG GTAG GCAG GTA
1 GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTA
45798064 CAACACTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.03, G:0.48, T:0.23
Consensus pattern (4 bp):
GTAG
Found at i:45798524 original size:24 final size:24
Alignment explanation
Indices: 45798471--45798524 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
45798461 AATTAGTAAG
* *
45798471 CCAAATAAACTATGCTAATAAATG
1 CCAAATAAACTATACTAATAAATA
* * *
45798495 CTAAATATATTATACTAATAAATA
1 CCAAATAAACTATACTAATAAATA
45798519 CCAAAT
1 CCAAAT
45798525 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.30
Consensus pattern (24 bp):
CCAAATAAACTATACTAATAAATA
Found at i:45799959 original size:21 final size:21
Alignment explanation
Indices: 45799935--45799974 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45799925 TGACATTAAA
* *
45799935 TACTATAGTGGTGAGATTAGT
1 TACTATAGTGATAAGATTAGT
45799956 TACTATAGTGATAAGATTA
1 TACTATAGTGATAAGATTA
45799975 AAATCAGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.38
Consensus pattern (21 bp):
TACTATAGTGATAAGATTAGT
Found at i:45801002 original size:44 final size:43
Alignment explanation
Indices: 45800887--45801088 Score: 117
Period size: 44 Copynumber: 4.6 Consensus size: 43
45800877 TAACATCACT
* * *
45800887 CGAAGCAGATCGAAGATACAAACCTTGCCTCTCT-CGGTTG-TAG
1 CGAAGCAGATCGAAGACACAAACCTTGCCT-TCTGC-ATTGACAG
* * * * * * *
45800930 TGGAGCTGGTTGAAGACAACAGATCTTGCCTTCATGCATTGACAG
1 CGAAGCAGATCGAAGAC-ACAAACCTTGCCTTC-TGCATTGACAG
* * *
45800975 CGAAGCAGATCAAAGACACAAACCTTGCCTCTCT-CGGTAGTA-A-
1 CGAAGCAGATCGAAGACACAAACCTTGCCT-TCTGC-ATTG-ACAG
* * * * * *
45801018 CGGAGCTGGTTGAAGATAACAAATCTTGCCTTCCTGCATTGACAG
1 CGAAGCAGATCGAAGA-CACAAACCTTGCCTT-CTGCATTGACAG
45801063 CGAAGCAGATCGAAGACACAAACCTT
1 CGAAGCAGATCGAAGACACAAACCTT
45801089 ATCTCCCTAA
Statistics
Matches: 112, Mismatches: 35, Indels: 23
0.66 0.21 0.14
Matches are distributed among these distances:
43 27 0.24
44 55 0.49
45 30 0.27
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (43 bp):
CGAAGCAGATCGAAGACACAAACCTTGCCTTCTGCATTGACAG
Found at i:45801131 original size:88 final size:88
Alignment explanation
Indices: 45800887--45801088 Score: 332
Period size: 88 Copynumber: 2.3 Consensus size: 88
45800877 TAACATCACT
* *
45800887 CGAAGCAGATCGAAGATACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAG
1 CGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAA
45800952 ATCTTGCCTTCATGCATTGACAG
66 ATCTTGCCTTCATGCATTGACAG
* * ** *
45800975 CGAAGCAGATCAAAGACACAAACCTTGCCTCTCTCGGTAGTAACGGAGCTGGTTGAAGATAACAA
1 CGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAA
*
45801040 ATCTTGCCTTCCTGCATTGACAG
66 ATCTTGCCTTCATGCATTGACAG
45801063 CGAAGCAGATCGAAGACACAAACCTT
1 CGAAGCAGATCGAAGACACAAACCTT
45801089 ATCTCCCTAA
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 105 1.00
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (88 bp):
CGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAA
ATCTTGCCTTCATGCATTGACAG
Found at i:45802716 original size:3 final size:3
Alignment explanation
Indices: 45802708--45802751 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
45802698 ATGTTTTCAA
45802708 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
45802752 ACTCTTTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:45804788 original size:13 final size:13
Alignment explanation
Indices: 45804770--45804794 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45804760 TATCGCAAAG
45804770 AAAAATAAAAAAT
1 AAAAATAAAAAAT
45804783 AAAAATAAAAAA
1 AAAAATAAAAAA
45804795 CACACAGATT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:45805691 original size:11 final size:11
Alignment explanation
Indices: 45805675--45805700 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
45805665 CTTTCTCTCA
45805675 AAAAAAATTAC
1 AAAAAAATTAC
45805686 AAAAAAATTAC
1 AAAAAAATTAC
45805697 AAAA
1 AAAA
45805701 TATTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATTAC
Found at i:45806582 original size:11 final size:11
Alignment explanation
Indices: 45806566--45806591 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
45806556 CTTTCTCTCA
45806566 AAAAAAATTAC
1 AAAAAAATTAC
45806577 AAAAAAATTAC
1 AAAAAAATTAC
45806588 AAAA
1 AAAA
45806592 TATTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATTAC
Found at i:45807378 original size:891 final size:891
Alignment explanation
Indices: 45805657--45807439 Score: 3550
Period size: 891 Copynumber: 2.0 Consensus size: 891
45805647 AAAATTGAGC
45805657 AAATAGATCTTTCTCTCAAAAAAAATTACAAAAAAATTACAAAATATTTATAAAAATTTAAGAAT
1 AAATAGATCTTTCTCTCAAAAAAAATTACAAAAAAATTACAAAATATTTATAAAAATTTAAGAAT
45805722 TTAAATATTTTAAAAATATATATTAAAAACTCAAAAGAATATATATAAAAATTAGAAAACTCTAA
66 TTAAATATTTTAAAAATATATATTAAAAACTCAAAAGAATATATATAAAAATTAGAAAACTCTAA
45805787 AATTATCATTTTTGGGACCTAAATAAGTTAATTAATAATTCAATTTTATAATACTATTTTTACTC
131 AATTATCATTTTTGGGACCTAAATAAGTTAATTAATAATTCAATTTTATAATACTATTTTTACTC
45805852 TTTTTTTTAATGAATTAAAAAAAATAAATGATTTCAAAGTTATGTGTTTTAATATAGAATTAGTT
196 TTTTTTTTAATGAATTAAAAAAAATAAATGATTTCAAAGTTATGTGTTTTAATATAGAATTAGTT
45805917 AAATTGTAAAAATATTTTAATTTTTTCACTCGATCCGATCGAACGCTCACTCCTAGTGGTCGATG
261 AAATTGTAAAAATATTTTAATTTTTTCACTCGATCCGATCGAACGCTCACTCCTAGTGGTCGATG
45805982 TTCATCCGCATATATCTTTTGTCTCTAACCAGAAAAGATCTCTTCCAAAATGAAACTCTTAAATT
326 TTCATCCGCATATATCTTTTGTCTCTAACCAGAAAAGATCTCTTCCAAAATGAAACTCTTAAATT
45806047 GGAGCGTGTCATATTTACTACAGGCCGTTTATGATAGAATCGGACCATTTAACTTTGAAATCACT
391 GGAGCGTGTCATATTTACTACAGGCCGTTTATGATAGAATCGGACCATTTAACTTTGAAATCACT
45806112 CACGTAATGCATGTTATTCGGAAGGTTATCGATAAATATCGTTGCAACACCTTGAAGTTCGCCAC
456 CACGTAATGCATGTTATTCGGAAGGTTATCGATAAATATCGTTGCAACACCTTGAAGTTCGCCAC
45806177 TCCATTTTTCTATTGTGCGCTCTCCTTTGATTATAACAATCCAGAACCTTCCTTACTCTAACTTA
521 TCCATTTTTCTATTGTGCGCTCTCCTTTGATTATAACAATCCAGAACCTTCCTTACTCTAACTTA
45806242 TAAAATTAAAAAGACTCTATAGGACGAAATAAGACTTTATTTATTTATTTATTATTACACTAGAA
586 TAAAATTAAAAAGACTCTATAGGACGAAATAAGACTTTATTTATTTATTTATTATTACACTAGAA
45806307 TTTCACACATAGCAAACGCACACTATATAGGAGATGCATAAGAAAACAGCGGTAGGTAGATATAA
651 TTTCACACATAGCAAACGCACACTATATAGGAGATGCATAAGAAAACAGCGGTAGGTAGATATAA
45806372 GTCAACAGGCTGTCAAATTTATTCTAGTAGTAGTGCAAAACATAAGCACATTACTGACAGCCTGA
716 GTCAACAGGCTGTCAAATTTATTCTAGTAGTAGTGCAAAACATAAGCACATTACTGACAGCCTGA
45806437 GCACCAGCATTTTGATCAGAAATTTAAGCAAAGCCACCCAAGAAAAGTGTGTTTGTATTCTCATC
781 GCACCAGCATTTTGATCAGAAATTTAAGCAAAGCCACCCAAGAAAAGTGTGTTTGTATTCTCATC
45806502 ACTGCAATAAAGGCAAGGGTTCTGCTCGAATCCATTGTTCTTCAAA
846 ACTGCAATAAAGGCAAGGGTTCTGCTCGAATCCATTGTTCTTCAAA
45806548 AAATAGATCTTTCTCTCAAAAAAAATTACAAAAAAATTACAAAATATTTATAAAAATTTAAGAAT
1 AAATAGATCTTTCTCTCAAAAAAAATTACAAAAAAATTACAAAATATTTATAAAAATTTAAGAAT
45806613 TTAAATATTTTAAAAATATATATTAAAAACTCAAAAAGAATAT-TATAAAAATTAGAAAACTCTA
66 TTAAATATTTTAAAAATATATATTAAAAACTC-AAAAGAATATATATAAAAATTAGAAAACTCTA
45806677 AAATTATCATTTTTGGGACCTAAATAAGTTAATTAATAATTCAATTTTATAATACTATTTTTACT
130 AAATTATCATTTTTGGGACCTAAATAAGTTAATTAATAATTCAATTTTATAATACTATTTTTACT
45806742 CTTTTTTTTAATGAATTAAAAAAAATAAATGATTTCAAAGTTATGTGTTTTAATATAGAATTAGT
195 CTTTTTTTTAATGAATTAAAAAAAATAAATGATTTCAAAGTTATGTGTTTTAATATAGAATTAGT
45806807 TAAATTGTAAAAATATTTTAATTTTTTCACTCGATCCGATCGAACGCTCACTCCTAGTGGTCGAT
260 TAAATTGTAAAAATATTTTAATTTTTTCACTCGATCCGATCGAACGCTCACTCCTAGTGGTCGAT
45806872 GTTCATCCGCATATATCTTTTGTCTCTAACCAGAAAAGATCTCTTCCAAAATGAAACTCTTAAAT
325 GTTCATCCGCATATATCTTTTGTCTCTAACCAGAAAAGATCTCTTCCAAAATGAAACTCTTAAAT
45806937 TGGAGCGTGTCATATTTACTACAGGCCGTTTATGATAGAATCGGACCATTTAACTTTGAAATCAC
390 TGGAGCGTGTCATATTTACTACAGGCCGTTTATGATAGAATCGGACCATTTAACTTTGAAATCAC
45807002 TCACGTAATGCATGTTATTCGGAAGGTTATCGATAAATATCGTTGCAACACCTTGAAGTTCGCCA
455 TCACGTAATGCATGTTATTCGGAAGGTTATCGATAAATATCGTTGCAACACCTTGAAGTTCGCCA
45807067 CTCCATTTTTCTATTGTGCGCTCTCCTTTGATTATAACAATCCAGAACCTTCCTTACTCTAACTT
520 CTCCATTTTTCTATTGTGCGCTCTCCTTTGATTATAACAATCCAGAACCTTCCTTACTCTAACTT
45807132 ATAAAATTAAAAAGACTCTATAGGACGAAATAAGACTTTATTTATTTATTTATTATTACACTAGA
585 ATAAAATTAAAAAGACTCTATAGGACGAAATAAGACTTTATTTATTTATTTATTATTACACTAGA
45807197 ATTTCACACATAGCAAACGCACACTATATAGGAGATGCATAAGAAAACAGCGGTAGGTAGATATA
650 ATTTCACACATAGCAAACGCACACTATATAGGAGATGCATAAGAAAACAGCGGTAGGTAGATATA
45807262 AGTCAACAGGCTGTCAAATTTATTCTAGTAGTAGTGCAAAACATAAGCACATTACTGACAGCCTG
715 AGTCAACAGGCTGTCAAATTTATTCTAGTAGTAGTGCAAAACATAAGCACATTACTGACAGCCTG
45807327 AGCACCAGCATTTTGATCAGAAATTTAAGCAAAGCCACCCAAGAAAAGTGTGTTTGTATTCTCAT
780 AGCACCAGCATTTTGATCAGAAATTTAAGCAAAGCCACCCAAGAAAAGTGTGTTTGTATTCTCAT
45807392 CACTGCAATAAAGGCAAGGGTTCTGCTCGAATCCATTGTTCTTCAAA
845 CACTGCAATAAAGGCAAGGGTTCTGCTCGAATCCATTGTTCTTCAAA
45807439 A
1 A
45807440 TCTTGGCAGC
Statistics
Matches: 891, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
891 881 0.99
892 10 0.01
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.34
Consensus pattern (891 bp):
AAATAGATCTTTCTCTCAAAAAAAATTACAAAAAAATTACAAAATATTTATAAAAATTTAAGAAT
TTAAATATTTTAAAAATATATATTAAAAACTCAAAAGAATATATATAAAAATTAGAAAACTCTAA
AATTATCATTTTTGGGACCTAAATAAGTTAATTAATAATTCAATTTTATAATACTATTTTTACTC
TTTTTTTTAATGAATTAAAAAAAATAAATGATTTCAAAGTTATGTGTTTTAATATAGAATTAGTT
AAATTGTAAAAATATTTTAATTTTTTCACTCGATCCGATCGAACGCTCACTCCTAGTGGTCGATG
TTCATCCGCATATATCTTTTGTCTCTAACCAGAAAAGATCTCTTCCAAAATGAAACTCTTAAATT
GGAGCGTGTCATATTTACTACAGGCCGTTTATGATAGAATCGGACCATTTAACTTTGAAATCACT
CACGTAATGCATGTTATTCGGAAGGTTATCGATAAATATCGTTGCAACACCTTGAAGTTCGCCAC
TCCATTTTTCTATTGTGCGCTCTCCTTTGATTATAACAATCCAGAACCTTCCTTACTCTAACTTA
TAAAATTAAAAAGACTCTATAGGACGAAATAAGACTTTATTTATTTATTTATTATTACACTAGAA
TTTCACACATAGCAAACGCACACTATATAGGAGATGCATAAGAAAACAGCGGTAGGTAGATATAA
GTCAACAGGCTGTCAAATTTATTCTAGTAGTAGTGCAAAACATAAGCACATTACTGACAGCCTGA
GCACCAGCATTTTGATCAGAAATTTAAGCAAAGCCACCCAAGAAAAGTGTGTTTGTATTCTCATC
ACTGCAATAAAGGCAAGGGTTCTGCTCGAATCCATTGTTCTTCAAA
Found at i:45807588 original size:24 final size:24
Alignment explanation
Indices: 45807561--45807608 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
45807551 GTTATAACTT
45807561 TTTTTTTATTTACCAAAATATATA
1 TTTTTTTATTTACCAAAATATATA
45807585 TTTTTTTATTTACCAAAATATATA
1 TTTTTTTATTTACCAAAATATATA
45807609 AAAAAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTTTTTATTTACCAAAATATATA
Found at i:45807861 original size:10 final size:11
Alignment explanation
Indices: 45807837--45807866 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
45807827 GTTACTGCGT
45807837 AAAAGAAGAGA
1 AAAAGAAGAGA
*
45807848 AAAAGAGGAGA
1 AAAAGAAGAGA
45807859 AAAAGAAG
1 AAAAGAAG
45807867 GTATTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:45808001 original size:3 final size:3
Alignment explanation
Indices: 45807995--45808023 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
45807985 ATTATTATTA
45807995 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
45808024 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:45813936 original size:22 final size:22
Alignment explanation
Indices: 45813910--45813972 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
45813900 CCTTCCTTCC
45813910 CTCTTCTTCTTCTTCTTTTTTT
1 CTCTTCTTCTTCTTCTTTTTTT
* *
45813932 CTCTTCTCCTTTCTT-TTTCTTT
1 CTCTTCTTC-TTCTTCTTTTTTT
45813954 C-CTTC-T-TTCTTTCTTTTTT
1 CTCTTCTTCTTC-TTCTTTTTT
45813973 CTTATCCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.09
19 2 0.06
20 5 0.15
21 4 0.12
22 15 0.44
23 5 0.15
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (22 bp):
CTCTTCTTCTTCTTCTTTTTTT
Found at i:45813954 original size:4 final size:4
Alignment explanation
Indices: 45813922--45814093 Score: 119
Period size: 4 Copynumber: 42.8 Consensus size: 4
45813912 CTTCTTCTTC
* * *
45813922 TTCT TTTT TTCT CTTC- TCCT TTC- TT-T TTCT TTCC TTCT TTCT TTCT
1 TTCT TTCT TTCT -TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
*
45813968 TT-T TTCT TATCCT TTCCT TT-T CTTC- TTCT TTCT TTCT TTCT TTTT
1 TTCT TTCT T-T-CT TT-CT TTCT -TTCT TTCT TTCT TTCT TTCT TTCT
* *
45814013 TTCT CTTC- TCCT TTCCTT TTCT TTCC TTC- TT-T TTCT TTCT TTCAT
1 TTCT -TTCT TTCT TT-C-T TTCT TTCT TTCT TTCT TTCT TTCT TTC-T
* *
45814058 CTCCT TTCT TTCT TTTT TTCT TTCT TTCT TTCT TTC
1 -TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
45814094 CCTCTCCTTC
Statistics
Matches: 135, Mismatches: 15, Indels: 36
0.73 0.08 0.19
Matches are distributed among these distances:
3 19 0.14
4 91 0.67
5 17 0.13
6 8 0.06
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (4 bp):
TTCT
Found at i:45813967 original size:34 final size:34
Alignment explanation
Indices: 45813921--45814102 Score: 97
Period size: 34 Copynumber: 5.6 Consensus size: 34
45813911 TCTTCTTCTT
*
45813921 CTTCTTTTTTTCTCTTCTCCTTTCTTTTTCTTTC
1 CTTCTTTCTTTCTCTTCTCCTTTCTTTTTCTTTC
* * * * *
45813955 CTTCTTTCTTTCT-TTTTTCTTATCCTTTCCTTTT
1 CTTCTTTCTTTCTCTTCTCCTT-TCTTTTTCTTTC
*
45813989 CTTC-TTCTTTCT-TTCTTTCTTT-TTTTCTCTTCTC
1 CTTCTTTCTTTCTCTTC-TCCTTTCTTTT-TCTT-TC
*
45814023 C-T-TTCCTTT-TCTT-TCC-TTCTTTTTCTTTC
1 CTTCTTTCTTTCTCTTCTCCTTTCTTTTTCTTTC
* * *
45814052 TTTCATCTCCTT-TCTT-T-C-TT-TTTTTCTTTC
1 CTTC-TTTCTTTCTCTTCTCCTTTCTTTTTCTTTC
* *
45814082 TTTCTTTCTTTC-CCTCTCCTT
1 CTTCTTTCTTTCTCTTCTCCTT
45814103 CTGGTCCCCC
Statistics
Matches: 115, Mismatches: 19, Indels: 30
0.70 0.12 0.18
Matches are distributed among these distances:
29 9 0.08
30 22 0.19
31 10 0.09
32 14 0.12
33 28 0.24
34 32 0.28
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (34 bp):
CTTCTTTCTTTCTCTTCTCCTTTCTTTTTCTTTC
Found at i:45814009 original size:49 final size:48
Alignment explanation
Indices: 45813942--45814055 Score: 149
Period size: 49 Copynumber: 2.4 Consensus size: 48
45813932 CTCTTCTCCT
* * * *
45813942 TTCTTTTTCTTTCCTTCTTTCTTTCT-TTTTTCTTATCCTTTCCTTTTC
1 TTCTTTTTCTTTCTTTCTTTCTTTCTCTTCTCCTT-TCCTTTCCTTTCC
* *
45813990 TTCTTCTTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCC
1 TTCTT-TTTCTTTCTTTCTTTCTTTCTCTTCTCCTTTCCTTTCCTTTCC
45814039 TTCTTTTTCTTTCTTTC
1 TTCTTTTTCTTTCTTTC
45814056 ATCTCCTTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
48 17 0.29
49 35 0.60
50 6 0.10
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (48 bp):
TTCTTTTTCTTTCTTTCTTTCTTTCTCTTCTCCTTTCCTTTCCTTTCC
Found at i:45814026 original size:44 final size:42
Alignment explanation
Indices: 45813915--45814092 Score: 194
Period size: 41 Copynumber: 4.4 Consensus size: 42
45813905 CTTCCCTCTT
*
45813915 CTTC-TTC-TTCTTTTTTTCTCTTCTCCTTTCTTTTTCTTTC
1 CTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
*
45813955 CTTCTTTCTTTC--TTTTT-TCTTATCCTTTCCTTTTCTTCTTC
1 CTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTC-T-TTC
*
45813996 TTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
* * *
45814038 CTTC-TT-TTTCTTTCTTTCATCTCCTTTCTTT-CTTTT-TTTC
1 CTTCTTTCTTTCTTTTTTTC-TCTTC-TCCTTTCCTTTTCTTTC
*
45814078 TTTCTTTCTTTCTTT
1 CTTCTTTCTTTCTTT
45814093 CCCTCTCCTT
Statistics
Matches: 118, Mismatches: 9, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
39 16 0.14
40 28 0.24
41 30 0.25
42 21 0.18
43 6 0.05
44 17 0.14
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (42 bp):
CTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
Found at i:45814078 original size:30 final size:30
Alignment explanation
Indices: 45813999--45814085 Score: 106
Period size: 30 Copynumber: 2.8 Consensus size: 30
45813989 CTTCTTCTTT
* *
45813999 CTTTCTTTCTTTTTTTC--TCTTCTCCTTTC
1 CTTTCTTTCTTTTTTTCTTTCTT-TCATCTC
45814028 CTTTTCTTTCCTTCTTTTTCTTTCTTTCATCTC
1 C-TTTCTTT-CTT-TTTTTCTTTCTTTCATCTC
45814061 CTTTCTTTCTTTTTTTCTTTCTTTC
1 CTTTCTTTCTTTTTTTCTTTCTTTC
45814086 TTTCTTTCCC
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
29 1 0.02
30 21 0.41
31 6 0.12
32 13 0.25
33 6 0.12
34 4 0.08
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (30 bp):
CTTTCTTTCTTTTTTTCTTTCTTTCATCTC
Found at i:45814173 original size:27 final size:27
Alignment explanation
Indices: 45814135--45814204 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
45814125 CCCCCATAAA
45814135 CATTGGTGCCGCCAATGG-TATTGGCAC
1 CATTGGTGCCGCCAATGGCTA-TGGCAC
*
45814162 CATTAGTGCCGCCAATGGCTATGGCAC
1 CATTGGTGCCGCCAATGGCTATGGCAC
*
45814189 CTTTGGTGCCGCCAAT
1 CATTGGTGCCGCCAAT
45814205 CCCATTGGCG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
27 37 0.95
28 2 0.05
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.26
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCTATGGCAC
Found at i:45814213 original size:27 final size:27
Alignment explanation
Indices: 45814135--45814213 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
45814125 CCCCCATAAA
*
45814135 CATTGGTGCCGCCAATGGTATTGGCAC
1 CATTGGTGCCGCCAATGGCATTGGCAC
*
45814162 CATTAGTGCCGCCAATGGC-TATGGCAC
1 CATTGGTGCCGCCAATGGCAT-TGGCAC
* **
45814189 CTTTGGTGCCGCCAATCCCATTGGC
1 CATTGGTGCCGCCAATGGCATTGGC
45814214 GTGACCAAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
26 1 0.02
27 42 0.95
28 1 0.02
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.25
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCATTGGCAC
Found at i:45814302 original size:21 final size:24
Alignment explanation
Indices: 45814277--45814324 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
45814267 TGGTTTTTTT
45814277 TATA-TATTTTGGTAAATAAAAAA
1 TATATTATTTTGGTAAATAAAAAA
45814300 TATATTTATTTTGGTAAATAAAAAA
1 TATA-TTATTTTGGTAAATAAAAAA
45814325 AGTTATAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 4 0.17
25 19 0.83
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (24 bp):
TATATTATTTTGGTAAATAAAAAA
Found at i:45814337 original size:27 final size:25
Alignment explanation
Indices: 45814277--45814343 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
45814267 TGGTTTTTTT
*
45814277 TATATATTTTGGTAAATAAAAAATA
1 TATACATTTTGGTAAATAAAAAATA
**
45814302 TATTTATTTTGGTAAATAAAAAA-A
1 TATACATTTTGGTAAATAAAAAATA
45814326 GTTATAACATTTTGGTAA
1 --TAT-ACATTTTGGTAA
45814344 TTTTTTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 1 0.03
25 22 0.61
26 3 0.08
27 10 0.28
ACGTcount: A:0.46, C:0.01, G:0.10, T:0.42
Consensus pattern (25 bp):
TATACATTTTGGTAAATAAAAAATA
Found at i:45815334 original size:4 final size:4
Alignment explanation
Indices: 45815325--45815367 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
45815315 ATGACGGCAT
*
45815325 GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTAG GCAG GTA
1 GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTA
45815368 CAACACTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.26, C:0.02, G:0.49, T:0.23
Consensus pattern (4 bp):
GTAG
Found at i:45816696 original size:118 final size:119
Alignment explanation
Indices: 45816476--45816716 Score: 475
Period size: 118 Copynumber: 2.0 Consensus size: 119
45816466 AACTAATTTA
45816476 TTAAAGGTATTGAAGTTATTTTTGCATTGATGATCGAATCTTTGAATCAAACAAAGATTTTACTT
1 TTAAAGGTATTGAAGTTATTTTTGCATTGATGATCGAATCTTTGAATCAAACAAAGATTTTACTT
45816541 CTAGCTAGAGTTTCTTCTCATTAATTTTCTTTTATAATTTATTTTTACTTTGTT
66 CTAGCTAGAGTTTCTTCTCATTAATTTTCTTTTATAATTTATTTTTACTTTGTT
45816595 TTAAAGGTATT-AAGTTATTTTTGCATTGATGATCGAATCTTTGAATCAAACAAAGATTTTACTT
1 TTAAAGGTATTGAAGTTATTTTTGCATTGATGATCGAATCTTTGAATCAAACAAAGATTTTACTT
45816659 CTAGCTAGAGTTTCTTCTCATTAATTTTCTTTTATAATTTATTTTTACTTTGTT
66 CTAGCTAGAGTTTCTTCTCATTAATTTTCTTTTATAATTTATTTTTACTTTGTT
45816713 TTAA
1 TTAA
45816717 TTTTAATTTT
Statistics
Matches: 122, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
118 111 0.91
119 11 0.09
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (119 bp):
TTAAAGGTATTGAAGTTATTTTTGCATTGATGATCGAATCTTTGAATCAAACAAAGATTTTACTT
CTAGCTAGAGTTTCTTCTCATTAATTTTCTTTTATAATTTATTTTTACTTTGTT
Found at i:45816729 original size:13 final size:13
Alignment explanation
Indices: 45816711--45816735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45816701 TTTTACTTTG
45816711 TTTTAATTTTAAT
1 TTTTAATTTTAAT
45816724 TTTTAATTTTAA
1 TTTTAATTTTAA
45816736 AATCTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:45818718 original size:23 final size:22
Alignment explanation
Indices: 45818683--45818746 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 22
45818673 ATAAAATCTC
* * *
45818683 AAATGTATATTTTAAATGTTTT
1 AAATATATTTTTTAAATATTTT
45818705 ATAATATTATTTTTTAAATATTTT
1 A-AATA-TATTTTTTAAATATTTT
45818729 AAATATATTTTTCTAAAT
1 AAATATATTTTT-TAAAT
45818747 TTAAATATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 8 0.22
23 12 0.33
24 16 0.44
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (22 bp):
AAATATATTTTTTAAATATTTT
Found at i:45822376 original size:20 final size:20
Alignment explanation
Indices: 45822351--45822389 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
45822341 ATGTAGTTAA
45822351 CATTATTTATAAATATATTT
1 CATTATTTATAAATATATTT
45822371 CATTATTTATAAATATATT
1 CATTATTTATAAATATATT
45822390 ATTTGAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
CATTATTTATAAATATATTT
Found at i:45824565 original size:22 final size:22
Alignment explanation
Indices: 45824537--45824580 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
45824527 AATAATATAC
*
45824537 AATAAATTTAAACAATGTTAAT
1 AATAAATATAAACAATGTTAAT
* *
45824559 AATAAATATAAATAATTTTAAT
1 AATAAATATAAACAATGTTAAT
45824581 TTTAAAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
AATAAATATAAACAATGTTAAT
Found at i:45829781 original size:25 final size:24
Alignment explanation
Indices: 45829740--45829791 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
45829730 TCCTTGCTAC
45829740 TGTTAACTATTGTTTGCTATTATAT
1 TGTTAACTATTGTTTGCTATTAT-T
*
45829765 TGTT-ACTATTTTGTTGCTATTATT
1 TGTTAACTATTGT-TTGCTATTATT
45829789 TGT
1 TGT
45829792 ATATTGTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.19, C:0.08, G:0.13, T:0.60
Consensus pattern (24 bp):
TGTTAACTATTGTTTGCTATTATT
Found at i:45829815 original size:19 final size:17
Alignment explanation
Indices: 45829793--45829827 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
45829783 ATTATTTGTA
45829793 TATTGTATAATTATTGCTT
1 TATTGT-TAATT-TTGCTT
45829812 TATTGTTAATTTTGCT
1 TATTGTTAATTTTGCT
45829828 ACTATTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.60
Consensus pattern (17 bp):
TATTGTTAATTTTGCTT
Found at i:45829833 original size:18 final size:19
Alignment explanation
Indices: 45829793--45829833 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
45829783 ATTATTTGTA
*
45829793 TATTGTATAATTATTGCTT
1 TATTGTATAATTATTGCTC
45829812 TATTGT-TAATT-TTGCTAC
1 TATTGTATAATTATTGCT-C
45829830 TATT
1 TATT
45829834 TTCAATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.59
Consensus pattern (19 bp):
TATTGTATAATTATTGCTC
Found at i:45832035 original size:21 final size:22
Alignment explanation
Indices: 45831996--45832044 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 22
45831986 TTAAATGATT
45831996 TTATTTATATTTTTAATTA-TA
1 TTATTTATATTTTTAATTAGTA
45832017 TTATTTATA-TTTTATATTAGTTA
1 TTATTTATATTTTTA-ATTAG-TA
45832040 TTATT
1 TTATT
45832045 GATTTAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.20
21 13 0.52
23 7 0.28
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTTATATTTTTAATTAGTA
Found at i:45835235 original size:23 final size:22
Alignment explanation
Indices: 45835200--45835282 Score: 82
Period size: 24 Copynumber: 3.7 Consensus size: 22
45835190 ATAAAATCTC
* * *
45835200 AAATGTATATTTTAAATGTTTT
1 AAATATATTTTTTAAATATTTT
45835222 ATAATATTATTTTTTAAATATTTT
1 A-AATA-TATTTTTTAAATATTTT
45835246 AAATATATTTTTCT-AA-A-TTT
1 AAATATATTTTT-TAAATATTTT
45835266 AAATATTATTTTTTAAA
1 AAATA-TATTTTTTAAA
45835283 AAATAATATG
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
20 9 0.17
21 10 0.19
22 10 0.19
23 8 0.15
24 16 0.30
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (22 bp):
AAATATATTTTTTAAATATTTT
Found at i:45835266 original size:20 final size:20
Alignment explanation
Indices: 45835219--45835282 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 20
45835209 TTTTAAATGT
45835219 TTTATAATATTATTTTTTAAATA
1 TTTA-AATATTATTTTTT-AA-A
45835242 TTTTAAATA-TATTTTTCTAAA
1 -TTTAAATATTATTTTT-TAAA
45835263 TTTAAATATTATTTTTTAAA
1 TTTAAATATTATTTTTTAAA
45835283 AAATAATATG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
20 12 0.32
21 8 0.21
22 9 0.24
23 5 0.13
24 4 0.11
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTAAATATTATTTTTTAAA
Found at i:45837110 original size:7 final size:7
Alignment explanation
Indices: 45837098--45837123 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
45837088 TGGCCTCTCC
45837098 TTTTTCT
1 TTTTTCT
45837105 TTTTTCT
1 TTTTTCT
45837112 TTTTTCT
1 TTTTTCT
45837119 TTTTT
1 TTTTT
45837124 ATTATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:45842060 original size:43 final size:43
Alignment explanation
Indices: 45842013--45842107 Score: 163
Period size: 43 Copynumber: 2.2 Consensus size: 43
45842003 TGCAAGACAA
45842013 GGTCTTACACGTAAACACAAGTCGATGCCAACATCCCAGACGT
1 GGTCTTACACGTAAACACAAGTCGATGCCAACATCCCAGACGT
* * *
45842056 GGTCTTACACGTAATCACAAGTCGATGTCAACGTCCCAGACGT
1 GGTCTTACACGTAAACACAAGTCGATGCCAACATCCCAGACGT
45842099 GGTCTTACA
1 GGTCTTACA
45842108 GAAAATCACA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
GGTCTTACACGTAAACACAAGTCGATGCCAACATCCCAGACGT
Found at i:45848561 original size:21 final size:20
Alignment explanation
Indices: 45848514--45848558 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 20
45848504 CAAACCCCAC
45848514 CTTCTTAAATAGAATGTTCTT
1 CTTCTTAAATA-AATGTTCTT
45848535 CTTCTTAAAT-AATGTTCTT
1 CTTCTTAAATAAATGTTCTT
45848554 CTTCT
1 CTTCT
45848559 CTTTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.58
21 10 0.42
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.51
Consensus pattern (20 bp):
CTTCTTAAATAAATGTTCTT
Found at i:45848665 original size:18 final size:19
Alignment explanation
Indices: 45848644--45848685 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
45848634 ATTTGGGTAA
45848644 AATCGA-AAAAATTCGGTT
1 AATCGATAAAAATTCGGTT
*
45848662 AATCTATAAAAATTCGGTT
1 AATCGATAAAAATTCGGTT
45848681 AATCG
1 AATCG
45848686 GTCGGTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (19 bp):
AATCGATAAAAATTCGGTT
Found at i:45848956 original size:9 final size:9
Alignment explanation
Indices: 45848944--45848981 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
45848934 AAATATAATT
45848944 TTCGGTTAA
1 TTCGGTTAA
*
45848953 TTCGGGTAA
1 TTCGGTTAA
45848962 TTCGGTTAA
1 TTCGGTTAA
45848971 TTCGGTTAA
1 TTCGGTTAA
45848980 TT
1 TT
45848982 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.21, C:0.11, G:0.24, T:0.45
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:45849341 original size:25 final size:23
Alignment explanation
Indices: 45849324--45849369 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
45849314 TAAAACCAAT
*
45849324 AATAAATAAA-ACAAATAAAATA
1 AATAAATAAAGACAAATAAAAAA
45849346 AATAAATAAAGGACAAATAAAAAA
1 AATAAATAAA-GACAAATAAAAAA
45849370 CTTAAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
24 11 0.52
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.15
Consensus pattern (23 bp):
AATAAATAAAGACAAATAAAAAA
Found at i:45850805 original size:20 final size:20
Alignment explanation
Indices: 45850780--45850818 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
45850770 ATGTATTTAA
45850780 CATTATTTATAAATATATTT
1 CATTATTTATAAATATATTT
45850800 CATTATTTATAAATATATT
1 CATTATTTATAAATATATT
45850819 ATTTGAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
CATTATTTATAAATATATTT
Found at i:45854067 original size:13 final size:13
Alignment explanation
Indices: 45854049--45854076 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45854039 GCACGTTCCC
45854049 TGCATGGCCACCT
1 TGCATGGCCACCT
45854062 TGCATGGCCACCT
1 TGCATGGCCACCT
45854075 TG
1 TG
45854077 GCTGCTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.36, G:0.25, T:0.25
Consensus pattern (13 bp):
TGCATGGCCACCT
Found at i:45855216 original size:21 final size:21
Alignment explanation
Indices: 45855184--45855224 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
45855174 AGGCTCGAGG
45855184 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
45855205 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
45855225 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:45858559 original size:13 final size:13
Alignment explanation
Indices: 45858541--45858568 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45858531 GCACGTTCCC
45858541 TGCATGGCCACCT
1 TGCATGGCCACCT
45858554 TGCATGGCCACCT
1 TGCATGGCCACCT
45858567 TG
1 TG
45858569 GCTGCTGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.36, G:0.25, T:0.25
Consensus pattern (13 bp):
TGCATGGCCACCT
Found at i:45859333 original size:22 final size:22
Alignment explanation
Indices: 45859297--45859364 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
45859287 GGCCCGGCCC
*
45859297 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATAACAAAA
*
45859319 ATTTATTTTAAAAATAATAAAA
1 ATTTATTTTAAAAATAACAAAA
** *
45859341 AAGTATTTTAAAATTAA-AAAA
1 ATTTATTTTAAAAATAACAAAA
45859362 ATT
1 ATT
45859365 AAAAAATAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
21 5 0.13
22 27 0.71
23 6 0.16
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (22 bp):
ATTTATTTTAAAAATAACAAAA
Found at i:45859448 original size:104 final size:104
Alignment explanation
Indices: 45859335--45859543 Score: 357
Period size: 104 Copynumber: 2.0 Consensus size: 104
45859325 TTTAAAAATA
* *
45859335 ATAAAAAAGTATTTTAAAATTAAAAAAATTAAAAAATAAATATATTTATTATATCGAGCCGGGCT
1 ATAAAAAAGTATTTTAAAATTAAAAAAATTAAAAAATAAATATATTTATTATATCGAGCCAGGCC
* *
45859400 GGGCCGGGCCC-AGGCCAAAAAAGTGGTGGCCGAGGCCCG
66 GGGCCGGACCCGA-GCCAAAAAAGTGGTGCCCGAGGCCCG
*
45859439 ATAAAAAAGTATTTTAAAATTAAAAAAATTAAAAAATAAATATATTTATTATATCGGGCCAGGCC
1 ATAAAAAAGTATTTTAAAATTAAAAAAATTAAAAAATAAATATATTTATTATATCGAGCCAGGCC
45859504 GGGCCGGACCCGAGCCAAAAAAGTGGTGCCCGAGGCCCG
66 GGGCCGGACCCGAGCCAAAAAAGTGGTGCCCGAGGCCCG
45859543 A
1 A
45859544 CCCGTTTTCT
Statistics
Matches: 99, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 98 0.99
105 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (104 bp):
ATAAAAAAGTATTTTAAAATTAAAAAAATTAAAAAATAAATATATTTATTATATCGAGCCAGGCC
GGGCCGGACCCGAGCCAAAAAAGTGGTGCCCGAGGCCCG
Found at i:45861760 original size:45 final size:43
Alignment explanation
Indices: 45861710--45861821 Score: 125
Period size: 43 Copynumber: 2.5 Consensus size: 43
45861700 TCTCTGATTA
* ** *
45861710 TTAGCACGTTGGTGCTCTCTGATTTTAGCACGTCAGTGTTCTCTG
1 TTAGCACGTTAGTGCTCTCTG--TTTAGCACACCAGTGCTCTCTG
* * *
45861755 TTAGCACGTCAGTGCTCTTTGTTTAGCACACCTGTGCTCTCTG
1 TTAGCACGTTAGTGCTCTCTGTTTAGCACACCAGTGCTCTCTG
*
45861798 TATAGCACTTTAGTGCTCTCTGTT
1 T-TAGCACGTTAGTGCTCTCTGTT
45861822 CATTAGTGCA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
43 19 0.34
44 19 0.34
45 18 0.32
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.40
Consensus pattern (43 bp):
TTAGCACGTTAGTGCTCTCTGTTTAGCACACCAGTGCTCTCTG
Found at i:45861783 original size:22 final size:22
Alignment explanation
Indices: 45861710--45861821 Score: 109
Period size: 22 Copynumber: 5.0 Consensus size: 22
45861700 TCTCTGATTA
**
45861710 TTAGCACGTTGGTGCTCTCTGATT
1 TTAGCACGTCAGTGCTCTCTG--T
*
45861734 TTAGCACGTCAGTGTTCTCTG-
1 TTAGCACGTCAGTGCTCTCTGT
*
45861755 TTAGCACGTCAGTGCTCTTTGT
1 TTAGCACGTCAGTGCTCTCTGT
** *
45861777 TTAGCACACCTGTGCTCTCTGT
1 TTAGCACGTCAGTGCTCTCTGT
* * *
45861799 ATAGCACTTTAGTGCTCTCTGT
1 TTAGCACGTCAGTGCTCTCTGT
45861821 T
1 T
45861822 CATTAGTGCA
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
21 19 0.26
22 35 0.49
24 18 0.25
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.40
Consensus pattern (22 bp):
TTAGCACGTCAGTGCTCTCTGT
Found at i:45868273 original size:22 final size:26
Alignment explanation
Indices: 45868247--45868300 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
45868237 TTATAAATTC
45868247 AATTTAAAAG-ATA-TT-AT-ACAAT
1 AATTTAAAAGCATATTTAATAACAAT
*
45868269 AATTT-CAAGCATATTTAATAACAAT
1 AATTTAAAAGCATATTTAATAACAAT
45868294 AATTTAA
1 AATTTAA
45868301 TCATACAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
23 2 0.08
24 2 0.08
25 10 0.40
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (26 bp):
AATTTAAAAGCATATTTAATAACAAT
Found at i:45869546 original size:179 final size:180
Alignment explanation
Indices: 45869245--45869604 Score: 713
Period size: 179 Copynumber: 2.0 Consensus size: 180
45869235 TTTTTTAAAA
45869245 ATATTTATTATAAAATGCTTTTTGGAAAGTTATCTTATAGAATATATTTTTTTTTACCTCGACAC
1 ATATTTATTATAAAATGCTTTTTGGAAAGTTATCTTATAGAATATATTTTTTTTTACCTCGACAC
45869310 CGATAGATGTCGAATTTAGTGATGTTTATTGTACCACCAAGTTTTTGTGTCATTGGAATTAGAGT
66 CGATAGATGTCGAATTTAGTGATGTTTATTGTACCACCAAGTTTTTGTGTCATTGGAATTAGAGT
45869375 AATTATTTTGAAATTATTACAACACATTAACACCCAGAATCTTAAACCGT
131 AATTATTTTGAAATTATTACAACACATTAACACCCAGAATCTTAAACCGT
45869425 ATATTTATTA-AAAATGCTTTTTGGAAAGTTATCTTATAGAATATATTTTTTTTTACCTCGACAC
1 ATATTTATTATAAAATGCTTTTTGGAAAGTTATCTTATAGAATATATTTTTTTTTACCTCGACAC
45869489 CGATAGATGTCGAATTTAGTGATGTTTATTGTACCACCAAGTTTTTGTGTCATTGGAATTAGAGT
66 CGATAGATGTCGAATTTAGTGATGTTTATTGTACCACCAAGTTTTTGTGTCATTGGAATTAGAGT
45869554 AATTATTTTGAAATTATTACAACACATTAACACCCAGAATCTTAAACCGT
131 AATTATTTTGAAATTATTACAACACATTAACACCCAGAATCTTAAACCGT
45869604 A
1 A
45869605 ATAATATGAT
Statistics
Matches: 180, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
179 170 0.94
180 10 0.06
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (180 bp):
ATATTTATTATAAAATGCTTTTTGGAAAGTTATCTTATAGAATATATTTTTTTTTACCTCGACAC
CGATAGATGTCGAATTTAGTGATGTTTATTGTACCACCAAGTTTTTGTGTCATTGGAATTAGAGT
AATTATTTTGAAATTATTACAACACATTAACACCCAGAATCTTAAACCGT
Found at i:45870358 original size:44 final size:44
Alignment explanation
Indices: 45870308--45870394 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
45870298 CCCCATCCTC
45870308 GTTGTTTGGTTTCCAAGTTGTGACCCAAAGTCAAGATTGATTTG
1 GTTGTTTGGTTTCCAAGTTGTGACCCAAAGTCAAGATTGATTTG
*
45870352 GTTGTTTGGTTTTCAAGTTGTGACCCAAAGTCAAGATTGATTT
1 GTTGTTTGGTTTCCAAGTTGTGACCCAAAGTCAAGATTGATTT
45870395 TAAAATTTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (44 bp):
GTTGTTTGGTTTCCAAGTTGTGACCCAAAGTCAAGATTGATTTG
Found at i:45870593 original size:9 final size:9
Alignment explanation
Indices: 45870569--45870644 Score: 89
Period size: 9 Copynumber: 8.4 Consensus size: 9
45870559 TTTAGTTAAA
*
45870569 AATTAATCG
1 AATTAACCG
*
45870578 AACTAACCG
1 AATTAACCG
45870587 AATTAACCG
1 AATTAACCG
* *
45870596 AATTACCCA
1 AATTAACCG
*
45870605 AATTAACCA
1 AATTAACCG
*
45870614 AATTATCCG
1 AATTAACCG
*
45870623 AATTAATCG
1 AATTAACCG
45870632 AATTAACCG
1 AATTAACCG
45870641 AATT
1 AATT
45870645 GAATCACTAC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:45870792 original size:18 final size:18
Alignment explanation
Indices: 45870753--45870792 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45870743 TATGATTGAG
**
45870753 TTGGGTTGGGTTGGGTAA
1 TTGGGTTGGGTTGAATAA
*
45870771 TTGGGTTGGGTTGAATAC
1 TTGGGTTGGGTTGAATAA
45870789 TTGG
1 TTGG
45870793 ATTTGGATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.12, C:0.03, G:0.45, T:0.40
Consensus pattern (18 bp):
TTGGGTTGGGTTGAATAA
Found at i:45871524 original size:43 final size:43
Alignment explanation
Indices: 45871474--45871624 Score: 124
Period size: 43 Copynumber: 3.3 Consensus size: 43
45871464 AAAAAATTAG
45871474 ATTAGGGTTTAGTGTTCAGGGTTTTTAATGAAAAATCAAATAA
1 ATTAGGGTTTAGTGTTCAGGGTTTTTAATGAAAAATCAAATAA
* * ** * ** *
45871517 ATTAGGGTTTAG-GATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAG
1 ATTAGGGTTTAGTG-TT-C-AGGGT-TTTTAA-T-GAAA----AATCAAA-TAA
45871570 ATTAGGGTTTAGTGTTCAGGGTTTTTAATGAAAAATCAAATAA
1 ATTAGGGTTTAGTGTTCAGGGTTTTTAATGAAAAATCAAATAA
45871613 ATTAGGGTTTAG
1 ATTAGGGTTTAG
45871625 GATTACTTGA
Statistics
Matches: 80, Mismatches: 16, Indels: 24
0.67 0.13 0.20
Matches are distributed among these distances:
42 1 0.01
43 28 0.35
44 6 0.08
45 3 0.04
46 4 0.05
47 1 0.01
48 6 0.08
49 1 0.01
50 4 0.05
51 3 0.04
52 6 0.08
53 16 0.20
54 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.38
Consensus pattern (43 bp):
ATTAGGGTTTAGTGTTCAGGGTTTTTAATGAAAAATCAAATAA
Found at i:45871524 original size:96 final size:96
Alignment explanation
Indices: 45871408--45871714 Score: 499
Period size: 96 Copynumber: 3.2 Consensus size: 96
45871398 TTTTAAAGAA
* * * * * * *
45871408 AAAAATTAAATAAATAAGGGTCTAGGGTTTCTTAATTAAATTAATTATAAATTTTAAAAAAATTA
1 AAAAATCAAATAAATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTA
45871473 GATTAGGGTTTAGTGTTCAGGGTTTTTAATG
66 GATTAGGGTTTAGTGTTCAGGGTTTTTAATG
45871504 AAAAATCAAATAAATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTA
1 AAAAATCAAATAAATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTA
45871569 GATTAGGGTTTAGTGTTCAGGGTTTTTAATG
66 GATTAGGGTTTAGTGTTCAGGGTTTTTAATG
45871600 AAAAATCAAATAAATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTA
1 AAAAATCAAATAAATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTA
* * *
45871665 GATTGGGGTTTAGTATTTAGGGTTTTTAA-G
66 GATTAGGGTTTAGTGTTCAGGGTTTTTAATG
45871695 AAAAAATCAAATAAAATTAG
1 -AAAAATCAAAT-AAATTAG
45871715 TTGTTATTCG
Statistics
Matches: 199, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
95 1 0.01
96 191 0.96
97 7 0.04
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.38
Consensus pattern (96 bp):
AAAAATCAAATAAATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTA
GATTAGGGTTTAGTGTTCAGGGTTTTTAATG
Found at i:45871579 original size:53 final size:53
Alignment explanation
Indices: 45871517--45871677 Score: 155
Period size: 53 Copynumber: 3.2 Consensus size: 53
45871507 AATCAAATAA
45871517 ATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAG
1 ATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAG
* * ** * ** *
45871570 ATTAGGGTTTAGTG-TT-C-AGGGT-TTTTAA-T-GAAA----AATCAAA-TAA
1 ATTAGGGTTTAG-GATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAG
45871613 ATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAG
1 ATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAG
*
45871666 ATTGGGGTTTAG
1 ATTAGGGTTTAG
45871678 TATTTAGGGT
Statistics
Matches: 79, Mismatches: 17, Indels: 24
0.66 0.14 0.20
Matches are distributed among these distances:
42 1 0.01
43 16 0.20
44 6 0.08
45 3 0.04
46 4 0.05
47 1 0.01
48 6 0.08
49 1 0.01
50 4 0.05
51 3 0.04
52 6 0.08
53 27 0.34
54 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.39
Consensus pattern (53 bp):
ATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAG
Found at i:45873167 original size:45 final size:45
Alignment explanation
Indices: 45873103--45873392 Score: 429
Period size: 45 Copynumber: 6.4 Consensus size: 45
45873093 TTGTTGGATA
* *
45873103 GAAGATATCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
45873148 GAAGATAGCAGGTCTTGTCTTCTTGTATTGGTAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
45873193 GAAGATAGCAAATCTTGTCTTCCTGTATTGGCATG-GAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCA-GCGAAGTAGATC
*
45873238 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGGGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
45873283 GAAGATAGCAGATCTTGTCTTCCTGTATTAGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
45873328 GAAGATAGCAAATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
45873373 GAAGATTGTAGATCATGTCT
1 GAAGATAGCAGATCTTGTCT
45873393 CCCTAAGCAG
Statistics
Matches: 223, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
44 1 0.00
45 221 0.99
46 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:45873700 original size:132 final size:132
Alignment explanation
Indices: 45873373--45873700 Score: 491
Period size: 132 Copynumber: 2.5 Consensus size: 132
45873363 AAAGTAGATT
45873373 GAAGATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAA-G-ATGATAAATCTTATC
1 GAAGATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCA-G-TAAATCTTATC
* *
45873436 TTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGTAGCAGTGGAGTA
64 TTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGCAGTGGAGTA
*
45873501 GGTT
129 GGTC
* * * *
45873505 GAAGATTGTAAATCATGTCTCCCTAAGCAGTAGTGGAGCAGATGGAAGGCAGCAAATCCTATCTT
1 GAAGATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCAGTAAATCTTATCTT
45873570 CCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCCT-TCTCCCTGAGCAGCAGTGGAGTAG
66 CCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAAT-CCTATCTCCCTGAGCAGCAGTGGAGTAG
45873634 GTC
130 GTC
* * * * * *
45873637 GAAGATTGTAGATCATGTATCCTTAAACAGTAATAGAGCAGATCGAAGGCAGTGAATCTTATCT
1 GAAGATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCAGTAAATCTTATCT
45873701 CTTTGGCGTT
Statistics
Matches: 176, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
132 170 0.97
133 5 0.03
134 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
GAAGATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCAGTAAATCTTATCTT
CCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGCAGTGGAGTAGG
TC
Found at i:45874179 original size:19 final size:19
Alignment explanation
Indices: 45874155--45874208 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
45874145 CTTGAAAAAG
*
45874155 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAA
45874174 GATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATAA
45874193 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
45874209 AGATAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAGATAA
Found at i:45875172 original size:24 final size:21
Alignment explanation
Indices: 45875129--45875183 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
45875119 TTAACATTAC
*
45875129 TTTAAATTTATCTTGTATATCT
1 TTTAAATTTATCTTGAATAT-T
45875151 ATTTCAAATTTATCATT-AATATT
1 -TTT-AAATTTATC-TTGAATATT
45875174 TTTAAATTTA
1 TTTAAATTTA
45875184 GTATATACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 7 0.24
22 3 0.10
23 4 0.14
24 13 0.45
25 2 0.07
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTAAATTTATCTTGAATATT
Found at i:45875301 original size:24 final size:23
Alignment explanation
Indices: 45875243--45875301 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
45875233 CATCAAAATT
45875243 TTTAAATT-TTATATGTATTATTA
1 TTTAAATTATTATA-GTATTATTA
45875266 TTTCAAATTTATTATA-TATTATTTA
1 TTT-AAA-TTATTATAGTATTA-TTA
45875291 TTGTAAATTAT
1 TT-TAAATTAT
45875302 CCAATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 12 0.39
25 10 0.32
26 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTAAATTATTATAGTATTATTA
Found at i:45877575 original size:19 final size:20
Alignment explanation
Indices: 45877533--45877576 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
45877523 ATGATGTTAT
45877533 TTATATTTTCAATTATATTAA
1 TTATATTTT-AATTATATTAA
* *
45877554 TTATATTTT-ATTTTATTTA
1 TTATATTTTAATTATATTAA
45877573 TTAT
1 TTAT
45877577 TGATTTAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATATTTTAATTATATTAA
Found at i:45878598 original size:23 final size:23
Alignment explanation
Indices: 45878584--45878628 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
45878574 TTTCTTTTCT
45878584 TTTGTTTTATAATTTATTTTTAC
1 TTTGTTTTATAATTTATTTTTAC
*
45878607 TTTGTTTTA-ATTTTAATTTTTA
1 TTTGTTTTATAATTT-ATTTTTA
45878629 ATTTTAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTGTTTTATAATTTATTTTTAC
Found at i:45878629 original size:13 final size:13
Alignment explanation
Indices: 45878611--45878635 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45878601 TTTTACTTTG
45878611 TTTTAATTTTAAT
1 TTTTAATTTTAAT
45878624 TTTTAATTTTAA
1 TTTTAATTTTAA
45878636 ACTCTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:45878909 original size:27 final size:29
Alignment explanation
Indices: 45878837--45878905 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
45878827 GAAGGCCTTA
* * * * *
45878837 AAACACAGAGACATACGATCGTAATACGC
1 AAACACACACACAGACGATAGTAATAAGC
45878866 AAACACACACACAGACGATAGTAATAAGC
1 AAACACACACACAGACGATAGTAATAAGC
45878895 AAACACACACA
1 AAACACACACA
45878906 GACGCAGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.51, C:0.26, G:0.13, T:0.10
Consensus pattern (29 bp):
AAACACACACACAGACGATAGTAATAAGC
Found at i:45882996 original size:30 final size:30
Alignment explanation
Indices: 45882962--45883068 Score: 187
Period size: 30 Copynumber: 3.6 Consensus size: 30
45882952 TGGTGGTTGC
45882962 TCTGGGTGATATGAACTCGAACCGCCTATG
1 TCTGGGTGATATGAACTCGAACCGCCTATG
*
45882992 TCTGGGTGATATGAACTCGAACCGCCTACG
1 TCTGGGTGATATGAACTCGAACCGCCTATG
*
45883022 TCTGGGTGATATGAACTCGAACCGCCCATG
1 TCTGGGTGATATGAACTCGAACCGCCTATG
*
45883052 TCTGAGTGATATGAACT
1 TCTGGGTGATATGAACT
45883069 GCTCTGCGAC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 73 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (30 bp):
TCTGGGTGATATGAACTCGAACCGCCTATG
Found at i:45888941 original size:23 final size:22
Alignment explanation
Indices: 45888913--45888988 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 22
45888903 ATACAATAAA
45888913 TTTAAAATTATATATTTAAAATT
1 TTTAAAA-TATATATTTAAAATT
**
45888936 TTTAAAA-ATAATATTATAAAACA
1 TTTAAAATAT-ATATT-TAAAATT
** *
45888959 TTTAAAATATGCATTTCAAATT
1 TTTAAAATATATATTTAAAATT
45888981 TTATAAAA
1 TT-TAAAA
45888989 CTAATAATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
21 2 0.05
22 11 0.26
23 27 0.64
24 2 0.05
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (22 bp):
TTTAAAATATATATTTAAAATT
Found at i:45888988 original size:46 final size:47
Alignment explanation
Indices: 45888912--45889003 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 47
45888902 AATACAATAA
* *
45888912 ATTTAAAATTATATATTTAAAATTTTTAAAAATAAT-ATTATAAAAC
1 ATTTAAAATTATACATTTAAAATTTTTAAAAATAATAATAATAAAAC
* * *
45888958 ATTTAAAA-TATGCATTTCAAATTTTATAAAACTAATAATAATAAAA
1 ATTTAAAATTATACATTTAAAATTTT-TAAAAATAATAATAATAAAA
45889004 TAAAATAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
45 14 0.36
46 17 0.44
47 8 0.21
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (47 bp):
ATTTAAAATTATACATTTAAAATTTTTAAAAATAATAATAATAAAAC
Found at i:45889096 original size:17 final size:16
Alignment explanation
Indices: 45889062--45889120 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
45889052 AACTTAAAAA
* *
45889062 GAAAAACAAAAAAAAAT
1 GAAAAA-AATAAAGAAT
45889079 GAAAAAGAATAAAGAAT
1 GAAAAA-AATAAAGAAT
* *
45889096 GAGAAAAAGTAACGAAT
1 GA-AAAAAATAAAGAAT
45889113 GAAAAAAA
1 GAAAAAAA
45889121 AATAGCCTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
16 5 0.14
17 26 0.74
18 4 0.11
ACGTcount: A:0.73, C:0.03, G:0.15, T:0.08
Consensus pattern (16 bp):
GAAAAAAATAAAGAAT
Found at i:45891931 original size:3 final size:3
Alignment explanation
Indices: 45891923--45891967 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
45891913 AGGAATATTG
* *
45891923 TAA TAA TAA TAA TAA TAA T-A TAA TAA TAT TAA TAA TAT TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
45891968 CATATTATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Done.