Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 37 of 292
Found at i:9995068 original size:21 final size:24
Alignment explanation
Indices: 9995019--9995074 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 24
9995009 AAAAGGTTAT
*
9995019 AATTAAAAAATTATAATTTTTAAAA
1 AATTTAAAAATTATAATTTTT-AAA
9995044 AATTTAAAAA-TAT-ATTTTT-AA
1 AATTTAAAAATTATAATTTTTAAA
9995065 AATTTAAAAA
1 AATTTAAAAA
9995075 AGTGAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 12 0.40
23 6 0.20
24 3 0.10
25 9 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
AATTTAAAAATTATAATTTTTAAA
Found at i:9995905 original size:20 final size:21
Alignment explanation
Indices: 9995870--9995908 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9995860 ATTTTTATAT
*
9995870 ATTTTTAATATCTTTATTTTA
1 ATTTTTAATATATTTATTTTA
9995891 ATTTTTAATA-ATTTATTT
1 ATTTTTAATATATTTATTT
9995909 GCTTTGAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTAATATATTTATTTTA
Found at i:9996166 original size:25 final size:23
Alignment explanation
Indices: 9996137--9996196 Score: 84
Period size: 25 Copynumber: 2.5 Consensus size: 23
9996127 TGATAAAATC
9996137 ATTTTTATTTTTTAAAATTTAAA
1 ATTTTTATTTTTTAAAATTTAAA
*
9996160 GAGTTTTTATTTTTTTAAATTTAAA
1 -A-TTTTTATTTTTTAAAATTTAAA
*
9996185 ATTTTCATTTTT
1 ATTTTTATTTTT
9996197 ATGTTCTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 10 0.30
24 2 0.06
25 21 0.64
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (23 bp):
ATTTTTATTTTTTAAAATTTAAA
Found at i:9999882 original size:20 final size:20
Alignment explanation
Indices: 9999857--9999904 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
9999847 TGCGCCTCCC
9999857 TCAGAATCGACTGCCTCAAA
1 TCAGAATCGACTGCCTCAAA
9999877 TCAGAATCGACTGCCTCAAA
1 TCAGAATCGACTGCCTCAAA
*
9999897 TTAGAATC
1 TCAGAATC
9999905 ATTTGGTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (20 bp):
TCAGAATCGACTGCCTCAAA
Found at i:10001414 original size:42 final size:42
Alignment explanation
Indices: 10001354--10001461 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
10001344 TGACATTAGG
* * *
10001354 GTTATGAG-TTTTCATGTAAGACCAT-TTCTAGGATATGGCATC
1 GTTATGAGATTTT-GTGTAAGACCATGTT-TAGGACATGACATC
*
10001396 GTTATGAGATTTTGTGTAAGACCATGTTTGGGACATGACATC
1 GTTATGAGATTTTGTGTAAGACCATGTTTAGGACATGACATC
* * *
10001438 GATATGAGA-ATGGTGTAAGACCAT
1 GTTATGAGATTTTGTGTAAGACCAT
10001462 AGCTGGGCTA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
41 13 0.23
42 38 0.67
43 6 0.11
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (42 bp):
GTTATGAGATTTTGTGTAAGACCATGTTTAGGACATGACATC
Found at i:10009060 original size:41 final size:42
Alignment explanation
Indices: 10008959--10009112 Score: 150
Period size: 42 Copynumber: 3.7 Consensus size: 42
10008949 ATAAGTTTAT
** * ** *
10008959 GTGTAAGACCATATTTGGGATATGGCATCTTTATGAGATTTC
1 GTGTAAGACCATAGCTAGGATATGGCATCGATATGAGATATC
*
10009001 GTGTAAGACCAT-GTCTAGGACATGGCATCGATATGAGA-ATC
1 GTGTAAGACCATAG-CTAGGATATGGCATCGATATGAGATATC
* **
10009042 GTGTAAGACCATAGCTAGGGTATTGGCATCGATATGAGATCCC
1 GTGTAAGACCATAGCTAGGATA-TGGCATCGATATGAGATATC
* * * *
10009085 ATGTAAGCCCATATCTGGGATATGGCAT
1 GTGTAAGACCATAGCTAGGATATGGCAT
10009113 TGGAATGATT
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 20 0.22
42 54 0.59
43 18 0.20
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGCTAGGATATGGCATCGATATGAGATATC
Found at i:10009110 original size:84 final size:83
Alignment explanation
Indices: 10008959--10009112 Score: 184
Period size: 84 Copynumber: 1.8 Consensus size: 83
10008949 ATAAGTTTAT
* * ** ** * *
10008959 GTGTAAGACCATATTTGGGATATGGCATCTTTATGAGATTTCGTGTAAGACCATGTCTAGGACAT
1 GTGTAAGACCATACTAGGGATATGGCATCGATATGAGATCCCATGTAAGACCATATCTAGGACAT
10009024 GGCATCGATATGAGAATC
66 GGCATCGATATGAGAATC
* * *
10009042 GTGTAAGACCATAGCTAGGG-TATTGGCATCGATATGAGATCCCATGTAAGCCCATATCTGGGAT
1 GTGTAAGACCATA-CTAGGGATA-TGGCATCGATATGAGATCCCATGTAAGACCATATCTAGGAC
10009106 ATGGCAT
64 ATGGCAT
10009113 TGGAATGATT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
83 15 0.26
84 43 0.74
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (83 bp):
GTGTAAGACCATACTAGGGATATGGCATCGATATGAGATCCCATGTAAGACCATATCTAGGACAT
GGCATCGATATGAGAATC
Found at i:10020498 original size:42 final size:42
Alignment explanation
Indices: 10020451--10020557 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
10020441 TATTGGTCTC
10020451 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
10020493 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
10020535 GGCACTAAGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
10020558 ATTTGTACAG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:10020623 original size:27 final size:28
Alignment explanation
Indices: 10020566--10020635 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
10020556 AAATTTGTAC
**
10020566 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
10020594 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
10020621 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
10020636 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:10028519 original size:42 final size:42
Alignment explanation
Indices: 10028472--10028578 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
10028462 TATTGGTCTC
10028472 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
10028514 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
10028556 AGCACTAAGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
10028579 ATTTGTACAG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:10028644 original size:27 final size:28
Alignment explanation
Indices: 10028587--10028656 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
10028577 AAATTTGTAC
**
10028587 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
10028615 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
10028642 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
10028657 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:10030708 original size:13 final size:13
Alignment explanation
Indices: 10030692--10030717 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10030682 ATTTTCCAAA
10030692 AAAACCATTTGTT
1 AAAACCATTTGTT
10030705 AAAACCATTTGTT
1 AAAACCATTTGTT
10030718 TGCGTAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:10031605 original size:31 final size:32
Alignment explanation
Indices: 10031567--10031642 Score: 127
Period size: 31 Copynumber: 2.4 Consensus size: 32
10031557 CACACGTCCC
*
10031567 TGTGGCCCATACGCCCAAATTGG-CTTGCCCG
1 TGTGGCCCACACGCCCAAATTGGCCTTGCCCG
*
10031598 TGTGGCCCACATGCCCAAATTGGCCTTGCCCG
1 TGTGGCCCACACGCCCAAATTGGCCTTGCCCG
10031630 TGTGGCCCACACG
1 TGTGGCCCACACG
10031643 GCTTAGCCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 21 0.51
32 20 0.49
ACGTcount: A:0.16, C:0.37, G:0.26, T:0.21
Consensus pattern (32 bp):
TGTGGCCCACACGCCCAAATTGGCCTTGCCCG
Found at i:10035227 original size:11 final size:12
Alignment explanation
Indices: 10035211--10035239 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
10035201 AATTTGTGAG
10035211 TTATAAAAA-TA
1 TTATAAAAAGTA
10035222 TTATAAAAAGTA
1 TTATAAAAAGTA
10035234 TTATAA
1 TTATAA
10035240 TATACTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (12 bp):
TTATAAAAAGTA
Found at i:10039194 original size:46 final size:46
Alignment explanation
Indices: 10039139--10039319 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
10039129 TAGGATGGTT
10039139 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
10039185 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
10039231 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
10039278 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10039320 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:10039300 original size:93 final size:93
Alignment explanation
Indices: 10039141--10039311 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
10039131 GGATGGTTGA
* *
10039141 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10039206 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
10039234 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10039299 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
10039312 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:10042309 original size:15 final size:15
Alignment explanation
Indices: 10042270--10042348 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
10042260 GTATCTTGGG
*
10042270 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
10042285 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
10042300 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
10042314 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
10042329 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
10042343 TTTCTT
1 TTTCTT
10042349 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:10042333 original size:29 final size:29
Alignment explanation
Indices: 10042261--10042347 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
10042251 CATAGTATCG
* * * *
10042261 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
10042291 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
10042320 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
10042348 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:10044772 original size:46 final size:46
Alignment explanation
Indices: 10044717--10044897 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
10044707 TAGGATGGTT
10044717 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
10044763 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
10044809 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
10044856 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10044898 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:10044878 original size:93 final size:93
Alignment explanation
Indices: 10044719--10044889 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
10044709 GGATGGTTGA
* *
10044719 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10044784 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
10044812 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10044877 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
10044890 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:10051868 original size:29 final size:31
Alignment explanation
Indices: 10051819--10051877 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
10051809 AATGTGTATC
* *
10051819 TATTTATTTGATGGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATGTGGAGATAG
10051848 TATTTATTATAATAGAT-AAATGTGGAGATA
1 TATTTATT-TAATAGATGAAATGTGGAGATA
10051878 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAG
Found at i:10053773 original size:28 final size:27
Alignment explanation
Indices: 10053710--10053779 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
10053700 ATAGTGAGTC
10053710 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
10053737 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
10053765 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10053780 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:10061680 original size:28 final size:27
Alignment explanation
Indices: 10061617--10061686 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
10061607 ATAGTGAGTC
10061617 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
10061644 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
10061672 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10061687 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:10069956 original size:29 final size:31
Alignment explanation
Indices: 10069907--10069965 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
10069897 AATGTGTATC
* *
10069907 TATTTATTTGATGGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATGTGGAGATAG
10069936 TATTTATTATAATAGAT-AAATGTGGAGATA
1 TATTTATT-TAATAGATGAAATGTGGAGATA
10069966 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAG
Found at i:10073627 original size:57 final size:58
Alignment explanation
Indices: 10073515--10073628 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 58
10073505 GAAATGGTGA
* * **
10073515 AAATGGAGAAACGAGAAACATTTGGAAATGATTATGGTTTTCTCCAACATGAAAATGG
1 AAATGGAGAAACGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAACCAAAATGG
* *
10073573 AAATGGAGAAATG-GAATCATTTGGAAATGAATATGGTTTTCTCCAAAACCAAAATG
1 AAATGGAGAAACGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAACCAAAATG
10073629 AAAAAGAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 38 0.76
58 12 0.24
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (58 bp):
AAATGGAGAAACGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAACCAAAATGG
Found at i:10076978 original size:26 final size:26
Alignment explanation
Indices: 10076949--10077001 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
10076939 GTGAGTTCCA
10076949 AAACATAATGAGTACATAGAAGTCTT
1 AAACATAATGAGTACATAGAAGTCTT
10076975 AAACATAATGAGTACATAGAAGTCTT
1 AAACATAATGAGTACATAGAAGTCTT
10077001 A
1 A
10077002 CTCTTAACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.26
Consensus pattern (26 bp):
AAACATAATGAGTACATAGAAGTCTT
Found at i:10111766 original size:157 final size:157
Alignment explanation
Indices: 10111480--10111781 Score: 595
Period size: 157 Copynumber: 1.9 Consensus size: 157
10111470 GTACAGATTC
10111480 AACTTTCTTTTCTGATACTCTTGAATCAATCACATATGCAAAATAAGCTTCACAACCCTTTCTCA
1 AACTTTCTTTTCTGATACTCTTGAATCAATCACATATGCAAAATAAGCTTCACAACCCTTTCTCA
*
10111545 AGATACTCAAAGCTTTCATTGCAGATATCACAGCTGGTAGTCCATTTAGATCACTAGGCTCAATT
66 AGATACTCAAAGCTTTCATTGCAGATATCACAGCTGGTAGTCCATTTAGATCACTAGACTCAATT
10111610 CAAATTATCTCATCAGAAAAAAAAATA
131 CAAATTATCTCATCAGAAAAAAAAATA
10111637 AACTTTCTTTTCTGATACTCTTGAATCAATCACATATGCAAAATAAGCTTCACAACCCTTTCTCA
1 AACTTTCTTTTCTGATACTCTTGAATCAATCACATATGCAAAATAAGCTTCACAACCCTTTCTCA
10111702 AGATACTCAAAGCTTTCATTGCAGATATCACAGCTGGTAGTCCATTTAGATCACTAGACTCAATT
66 AGATACTCAAAGCTTTCATTGCAGATATCACAGCTGGTAGTCCATTTAGATCACTAGACTCAATT
10111767 CAAATTATCTCATCA
131 CAAATTATCTCATCA
10111782 TTCTTACACC
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (157 bp):
AACTTTCTTTTCTGATACTCTTGAATCAATCACATATGCAAAATAAGCTTCACAACCCTTTCTCA
AGATACTCAAAGCTTTCATTGCAGATATCACAGCTGGTAGTCCATTTAGATCACTAGACTCAATT
CAAATTATCTCATCAGAAAAAAAAATA
Found at i:10118520 original size:18 final size:19
Alignment explanation
Indices: 10118499--10118542 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
10118489 TTATTCAATT
10118499 TATTTTATTT-TATATAAA
1 TATTTTATTTATATATAAA
* *
10118517 TATTTTTATTTATATTTATA
1 TA-TTTTATTTATATATAAA
10118537 TATTTT
1 TATTTT
10118543 TGTTCGCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 12 0.55
20 8 0.36
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTTATTTATATATAAA
Found at i:10118541 original size:20 final size:19
Alignment explanation
Indices: 10118501--10118543 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
10118491 ATTCAATTTA
10118501 TTTTATTTTATATAAATAT
1 TTTTATTTTATATAAATAT
* *
10118520 TTTTATTTATATTTATATAT
1 TTTTATTT-TATATAAATAT
10118540 TTTT
1 TTTT
10118544 GTTCGCTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATTTTATATAAATAT
Found at i:10120406 original size:28 final size:32
Alignment explanation
Indices: 10120352--10120417 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 32
10120342 ATTAAAAAAT
10120352 AAAAATAAAAATAAAGAGTCTTTCAAAT-TAA
1 AAAAATAAAAATAAAGAGTCTTTCAAATATAA
10120383 AAAAAT-AAAA-AAAGA-T-TTTGCAAATATAA
1 AAAAATAAAAATAAAGAGTCTTT-CAAATATAA
10120412 ACAAAA
1 A-AAAA
10120418 ATTTCAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
27 3 0.09
28 6 0.19
29 9 0.28
30 8 0.25
31 6 0.19
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (32 bp):
AAAAATAAAAATAAAGAGTCTTTCAAATATAA
Found at i:10125772 original size:43 final size:43
Alignment explanation
Indices: 10125720--10125818 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
10125710 TTTCGAAAAA
* * *
10125720 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACACTTTTCTCAC
*
10125763 AAACGCCGCTAAAGATCATGACCTTTAGCGACACTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACACTTTTCTCAC
*
10125806 AAACGCTGCTAAA
1 AAACGCCGCTAAA
10125819 AATAATGATT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGACACTTTTCTCAC
Found at i:10126168 original size:17 final size:18
Alignment explanation
Indices: 10126141--10126174 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10126131 ATGCCAAAAT
10126141 GTTGAACTCCATATTCCA
1 GTTGAACTCCATATTCCA
10126159 GTTG-ACTCCATATTCC
1 GTTGAACTCCATATTCC
10126175 CCACAAGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (18 bp):
GTTGAACTCCATATTCCA
Found at i:10128436 original size:23 final size:21
Alignment explanation
Indices: 10128409--10128465 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
10128399 AAGCCAAATT
10128409 ATGCAGTTATATCGTGTCTCC
1 ATGCAGTTATATCGTGTCTCC
***
10128430 ACTTGCAAACATATCGTGTCTCC
1 A--TGCAGTTATATCGTGTCTCC
*
10128453 AAGCAGTTATATC
1 ATGCAGTTATATC
10128466 TACGTAATAG
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
21 9 0.33
23 18 0.67
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (21 bp):
ATGCAGTTATATCGTGTCTCC
Found at i:10130393 original size:18 final size:18
Alignment explanation
Indices: 10130370--10130413 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
10130360 AGGGATTTTG
* *
10130370 GGGGAAATTTAG-GGATT
1 GGGGAAATGTAGAGAATT
10130387 AGGGGAAATGTAGAGAATT
1 -GGGGAAATGTAGAGAATT
10130406 GGGGAAAT
1 GGGGAAAT
10130414 CAATTTTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.41, T:0.23
Consensus pattern (18 bp):
GGGGAAATGTAGAGAATT
Found at i:10130748 original size:75 final size:76
Alignment explanation
Indices: 10130599--10130745 Score: 228
Period size: 76 Copynumber: 2.0 Consensus size: 76
10130589 TTTATATTTA
* *
10130599 TTTTATTATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCACACTAATCTTTTAATTTTCATAT
1 TTTTATAATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCACACTAATCTCTTAATTTTCATAT
10130664 TTATTTTTATT
66 TTATTTTTATT
* *
10130675 TTTTATAATAGTGTTTTTTGTGGTTGTTTTTT-TAAAAACGC-CACTAATCTCTTAATTTTCATA
1 TTTTATAATAGTGTTTTTTGTGG-CGTTTTTTAAAAAAACGCACACTAATCTCTTAATTTTCATA
10130738 -TTATTTTT
65 TTTATTTTT
10130746 TATGTTAATA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
74 8 0.12
75 21 0.32
76 30 0.45
77 7 0.11
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.56
Consensus pattern (76 bp):
TTTTATAATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCACACTAATCTCTTAATTTTCATAT
TTATTTTTATT
Found at i:10131039 original size:21 final size:21
Alignment explanation
Indices: 10131015--10131062 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
10131005 AACCGATATC
* *
10131015 CCTTAACCCTTAAAACCTAAA
1 CCTTAACACATAAAACCTAAA
**
10131036 CCTTAACACATAACTCCTAAA
1 CCTTAACACATAAAACCTAAA
10131057 CCTTAA
1 CCTTAA
10131063 ACCTAACACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (21 bp):
CCTTAACACATAAAACCTAAA
Found at i:10131069 original size:27 final size:27
Alignment explanation
Indices: 10131027--10131085 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
10131017 TTAACCCTTA
10131027 AAACCTAAACCTTAACACATAACTCC-T
1 AAACCTAAACCTTAACACATAA-TCCAT
10131054 AAACCTTAAACC-TAACACATAATCCAT
1 AAACC-TAAACCTTAACACATAATCCAT
10131081 AAACC
1 AAACC
10131086 ATAATCCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 3 0.10
27 21 0.70
28 6 0.20
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.20
Consensus pattern (27 bp):
AAACCTAAACCTTAACACATAATCCAT
Found at i:10131090 original size:14 final size:14
Alignment explanation
Indices: 10131071--10131099 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10131061 AAACCTAACA
10131071 CATAATCCATAAAC
1 CATAATCCATAAAC
10131085 CATAATCCATAAAC
1 CATAATCCATAAAC
10131099 C
1 C
10131100 TTAAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (14 bp):
CATAATCCATAAAC
Found at i:10131164 original size:22 final size:21
Alignment explanation
Indices: 10131128--10131189 Score: 97
Period size: 22 Copynumber: 2.9 Consensus size: 21
10131118 AACATAAACC
10131128 CCTAACCCTATCCCCTTAACA
1 CCTAACCCTATCCCCTTAACA
*
10131149 CCTAACCCTTATCCCCTTAACG
1 CCTAACCC-TATCCCCTTAACA
*
10131171 CCTAACCCTATCCTCTTAA
1 CCTAACCCTATCCCCTTAA
10131190 AACTTGTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 18 0.47
22 20 0.53
ACGTcount: A:0.26, C:0.45, G:0.02, T:0.27
Consensus pattern (21 bp):
CCTAACCCTATCCCCTTAACA
Found at i:10131361 original size:21 final size:20
Alignment explanation
Indices: 10131307--10131378 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
10131297 CCATAAACAC
10131307 TAAACTCTAAACCCTTAACCCT
1 TAAACTCT-AACCCTTAA-CCT
* * *
10131329 TAACCCCAAACCCTTACACCT
1 TAAACTCTAACCCTTA-ACCT
10131350 TAAACTCTAACCC-TAACCAT
1 TAAACTCTAACCCTTAACC-T
10131370 TAAAC-CTAA
1 TAAACTCTAA
10131379 TTAATCATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 7 0.17
20 8 0.19
21 21 0.50
22 6 0.14
ACGTcount: A:0.39, C:0.38, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAACTCTAACCCTTAACCT
Found at i:10131478 original size:46 final size:45
Alignment explanation
Indices: 10131426--10131518 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 45
10131416 CTTCAAATAC
*
10131426 TAGTTAACTCTTAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTT-AACCA
10131472 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAACCA
10131517 TA
1 TA
10131519 AACCATAACT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 7 0.15
46 39 0.85
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (45 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAACCA
Found at i:10131491 original size:25 final size:25
Alignment explanation
Indices: 10131364--10131495 Score: 82
Period size: 25 Copynumber: 5.4 Consensus size: 25
10131354 CTCTAACCCT
10131364 AACCATTAAACC-TAATTAA-TCATA
1 AACC-TTAAACCATAATTAACTCATA
* * *
10131388 ATCCCTAAACCCATAATTCA-TCATA
1 AACCTTAAA-CCATAATTAACTCATA
* * *
10131413 AACCTTCAAA-TACTAGTTAACTCTTA
1 AACCTT-AAACCA-TAATTAACTCATA
*
10131439 AACCTTAAACCCT-A--AAC-CATA
1 AACCTTAAACCATAATTAACTCATA
* * *
10131460 TATCTTAAACCATAGTTAACTCATA
1 AACCTTAAACCATAATTAACTCATA
10131485 AACCTTAAACC
1 AACCTTAAACC
10131496 CTAAACCATA
Statistics
Matches: 79, Mismatches: 19, Indels: 19
0.68 0.16 0.16
Matches are distributed among these distances:
21 13 0.16
22 3 0.04
23 4 0.05
24 9 0.11
25 37 0.47
26 13 0.16
ACGTcount: A:0.43, C:0.27, G:0.02, T:0.29
Consensus pattern (25 bp):
AACCTTAAACCATAATTAACTCATA
Found at i:10131825 original size:35 final size:39
Alignment explanation
Indices: 10131752--10131874 Score: 137
Period size: 35 Copynumber: 3.2 Consensus size: 39
10131742 AAAAGCGCAA
* * *
10131752 TAATGCTCTGGTTTTTAACGGCGTTTTTCCAAAAGCGCCGC
1 TAATGCT-TGGTTTTTAGCGGC-ATTTTGCAAAAGCGCCGC
*
10131793 TACT-C-TGG-TTTTAGC-GCATTTTGCAAAAGCGCCGC
1 TAATGCTTGGTTTTTAGCGGCATTTTGCAAAAGCGCCGC
* *
10131828 TAATGCTTGGTTTTTAGCGGCGTTTTGCCAAAAGTGCCGC
1 TAATGCTTGGTTTTTAGCGGCATTTTG-CAAAAGCGCCGC
10131868 TAATGCT
1 TAATGCT
10131875 CTATAACGCC
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
35 19 0.27
36 3 0.04
37 9 0.13
38 10 0.14
39 7 0.10
40 19 0.27
41 3 0.04
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.34
Consensus pattern (39 bp):
TAATGCTTGGTTTTTAGCGGCATTTTGCAAAAGCGCCGC
Found at i:10131840 original size:75 final size:78
Alignment explanation
Indices: 10131691--10131869 Score: 215
Period size: 75 Copynumber: 2.3 Consensus size: 78
10131681 AGACTTTACG
* *
10131691 CGGCGTTTTTCC-AAAGAGCCGCTAAGCTCTGGTTTTCGCGGCGTTTTTTCCAAAAGCGCAATAA
1 CGGCGTTTTTCCAAAAGAGCCGCT-AGCTCTGGTTTTAGCGGCG-ATTTTCCAAAAGCGCAATAA
10131755 TGCTCTGGTTTTTAA
64 TGCTCTGGTTTTTAA
* * **
10131770 CGGCGTTTTTCCAAAAGCGCCGCTA-CTCTGGTTTTAGC-GC-ATTTTGCAAAAGCGCCGCTAAT
1 CGGCGTTTTTCCAAAAGAGCCGCTAGCTCTGGTTTTAGCGGCGATTTTCCAAAAGCG-CAATAAT
*
10131832 GCT-TGGTTTTTAG
65 GCTCTGGTTTTTAA
* *
10131845 CGGCGTTTTGCCAAAAGTGCCGCTA
1 CGGCGTTTTTCCAAAAGAGCCGCTA
10131870 ATGCTCTATA
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
75 44 0.49
76 8 0.09
77 2 0.02
78 12 0.13
79 13 0.15
80 10 0.11
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (78 bp):
CGGCGTTTTTCCAAAAGAGCCGCTAGCTCTGGTTTTAGCGGCGATTTTCCAAAAGCGCAATAATG
CTCTGGTTTTTAA
Found at i:10131867 original size:40 final size:40
Alignment explanation
Indices: 10131685--10131876 Score: 204
Period size: 40 Copynumber: 4.9 Consensus size: 40
10131675 GGGGTTAGAC
*
10131685 TTTACGCGGCGTTTTTCC-AAAGAGCCGCTAA-GCTCTGGT
1 TTTA-GCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* **
10131724 TTTCGCGGCGTTTTTTCCAAAAGCG-CAATAATGCTCTGGTT
1 TTTAGCGGCG-TTTTTCCAAAAGCGCCGCTAATGCTCTGG-T
*
10131765 TTTAACGGCGTTTTTCCAAAAGCGCCGCT-A--CTCTGGT
1 TTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* *
10131802 TTTAGC-GC-ATTTTGCAAAAGCGCCGCTAATGCT-TGGTT
1 TTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGG-T
* *
10131840 TTTAGCGGCGTTTTGCCAAAAGTGCCGCTAATGCTCT
1 TTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCT
10131877 ATAACGCCGC
Statistics
Matches: 126, Mismatches: 15, Indels: 22
0.77 0.09 0.13
Matches are distributed among these distances:
35 17 0.13
36 3 0.02
37 9 0.07
38 21 0.17
39 16 0.13
40 48 0.38
41 12 0.10
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.33
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:10133454 original size:22 final size:19
Alignment explanation
Indices: 10133392--10133445 Score: 94
Period size: 18 Copynumber: 2.9 Consensus size: 19
10133382 ATAATCTTCA
10133392 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
10133411 ATGAT-TGCAATC-TAGAT
1 ATGATATGCAATCTTAGAT
10133428 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
10133446 AGATATGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.30
18 14 0.42
19 9 0.27
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:10133473 original size:23 final size:22
Alignment explanation
Indices: 10133392--10133454 Score: 70
Period size: 18 Copynumber: 3.2 Consensus size: 22
10133382 ATAATCTTCA
10133392 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
10133411 ATGAT-TGCAATC-T---AGAT
1 ATGATATGCAATCTTAGAAGAT
10133428 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
10133450 ATGAT
1 ATGAT
10133455 TTTGTAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.26
18 14 0.36
19 6 0.15
22 9 0.23
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:10133757 original size:15 final size:16
Alignment explanation
Indices: 10133729--10133759 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10133719 GTTCCCTGAT
10133729 TTTTTAATATATTTTA
1 TTTTTAATATATTTTA
10133745 TTTTTAATA-ATTTTA
1 TTTTTAATATATTTTA
10133760 GTATCATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTAATATATTTTA
Found at i:10136518 original size:21 final size:21
Alignment explanation
Indices: 10136494--10136549 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
10136484 GACCATTGTT
**
10136494 TCTAATCTCACTTCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
10136515 TCTAATCTTACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
10136536 ACTAATCTCACCGC
1 TCTAATCTCACCGC
10136550 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.32, G:0.07, T:0.32
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:10141326 original size:40 final size:40
Alignment explanation
Indices: 10141281--10141448 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
10141271 CGGAATACAA
10141281 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
10141321 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
10141361 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
10141401 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
10141441 CCGGATAT
1 CCGGATAT
10141449 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:10149277 original size:40 final size:40
Alignment explanation
Indices: 10149232--10149399 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
10149222 CGGAATACAA
10149232 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
10149272 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
10149312 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
10149352 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
10149392 CCGGATAT
1 CCGGATAT
10149400 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:10154634 original size:17 final size:17
Alignment explanation
Indices: 10154596--10154635 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
10154586 TCTTTTATTA
*
10154596 AGTTTTTAAGACTCATT
1 AGTTTTTAAGACTCAAT
* *
10154613 CGTTTTTAAGATTCAAT
1 AGTTTTTAAGACTCAAT
10154630 AGTTTT
1 AGTTTT
10154636 CCTTTTTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (17 bp):
AGTTTTTAAGACTCAAT
Found at i:10183074 original size:24 final size:24
Alignment explanation
Indices: 10183042--10183094 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
10183032 GTTTATTATA
*
10183042 ACACTTTCTATAATATTTTATAAC
1 ACACATTCTATAATATTTTATAAC
10183066 ACACATTCTATAATATTTTATAAC
1 ACACATTCTATAATATTTTATAAC
10183090 ACACA
1 ACACA
10183095 AATTACTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.40
Consensus pattern (24 bp):
ACACATTCTATAATATTTTATAAC
Found at i:10185860 original size:5 final size:6
Alignment explanation
Indices: 10185830--10185868 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
10185820 AAAAAATCTT
10185830 TAAAAA TCAAAAA GTAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA T-AAAAA -TAAAAA TAAAAA TAAAAA TAAAAA T
10185869 GATTTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 20 0.65
7 10 0.32
8 1 0.03
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:10186962 original size:111 final size:111
Alignment explanation
Indices: 10186763--10186982 Score: 370
Period size: 111 Copynumber: 2.0 Consensus size: 111
10186753 TCAATTCGTT
* * *
10186763 TTTTATCTCTCACCAGACCAATACCCTAATTGGTTCTCAATCTAACTAGTCGGTCTGGTCCGGTT
1 TTTTATCTCTCACCAAACCAATACCCTAATTGCTCCTCAATCTAACTAGTCGGTCTGGTCCGGTT
*
10186828 TAGTCAATATTGAATTTTAAAATTTTTGTTTATTTTTGCAAAATCG
66 TAGTCAACATTGAATTTTAAAATTTTTGTTTATTTTTGCAAAATCG
*
10186874 TTTTATCTCTCACCAAACCAATACCC-ATATTGCTCCTTAATCTAACTAGTCGGTCTGGTCCGGT
1 TTTTATCTCTCACCAAACCAATACCCTA-ATTGCTCCTCAATCTAACTAGTCGGTCTGGTCCGGT
*
10186938 TTAGTCAACATTGAATTTTGAAATTTTTGTTTATTTTTGCAAAAT
65 TTAGTCAACATTGAATTTTAAAATTTTTGTTTATTTTTGCAAAAT
10186983 TGCTTTTTTA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
110 1 0.01
111 101 0.99
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (111 bp):
TTTTATCTCTCACCAAACCAATACCCTAATTGCTCCTCAATCTAACTAGTCGGTCTGGTCCGGTT
TAGTCAACATTGAATTTTAAAATTTTTGTTTATTTTTGCAAAATCG
Found at i:10186983 original size:21 final size:18
Alignment explanation
Indices: 10186953--10187005 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 18
10186943 CAACATTGAA
*
10186953 TTTTGAAATTTTTGTTTAT
1 TTTTAAAATTTTT-TTTAT
10186972 TTTTGCAAAATTGCTTTTTTAT
1 TTTT--AAAATT--TTTTTTAT
10186994 TTTTAAAATTTT
1 TTTTAAAATTTT
10187006 AAAGACTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
18 2 0.07
19 4 0.14
20 6 0.21
21 5 0.17
22 9 0.31
23 3 0.10
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.64
Consensus pattern (18 bp):
TTTTAAAATTTTTTTTAT
Found at i:10187047 original size:25 final size:25
Alignment explanation
Indices: 10186992--10187050 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
10186982 TTGCTTTTTT
* * * *
10186992 ATTTTTAAAATTTTAAAGACTTTTTA
1 ATTTTT-AAATTTTAAAAAATTATAA
*
10187018 TTTTTTAAATTTTAAAAAATTATAA
1 ATTTTTAAATTTTAAAAAATTATAA
10187043 ATTTTTAA
1 ATTTTTAA
10187051 TTATATTCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTTTTAAATTTTAAAAAATTATAA
Found at i:10190829 original size:20 final size:20
Alignment explanation
Indices: 10190802--10190843 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
10190792 ATAAATTCAG
10190802 AGTTTTTTTTT-TCAAGTAT
1 AGTTTTTTTTTATCAAGTAT
10190821 AGTTTTTTTTTATCAAGTAT
1 AGTTTTTTTTTATCAAGTAT
10190841 AGT
1 AGT
10190844 CTCTATCAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.24, C:0.05, G:0.12, T:0.60
Consensus pattern (20 bp):
AGTTTTTTTTTATCAAGTAT
Found at i:10198782 original size:45 final size:45
Alignment explanation
Indices: 10198688--10198824 Score: 134
Period size: 45 Copynumber: 3.0 Consensus size: 45
10198678 TCGTAGAAGA
* ** * ***
10198688 TTCATGGATATGACAGACTCATACACACGGATTCATAGAAGATGG
1 TTCATGGATATGACAGACTTATACATGCGAATTCATAGAAGAAAC
* *
10198733 TTCATAGATATGACAGACTTATCCATGCGAATTCATAGAAGAAAC
1 TTCATGGATATGACAGACTTATACATGCGAATTCATAGAAGAAAC
* * *
10198778 TTCATGGATA-AAGCA-AATTCAAACATGCGAATTCATAGAAGAAAC
1 TTCATGGATATGA-CAGACTT-ATACATGCGAATTCATAGAAGAAAC
10198823 TT
1 TT
10198825 TATGATCATA
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
44 4 0.05
45 72 0.95
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.26
Consensus pattern (45 bp):
TTCATGGATATGACAGACTTATACATGCGAATTCATAGAAGAAAC
Found at i:10198838 original size:45 final size:45
Alignment explanation
Indices: 10198756--10198879 Score: 155
Period size: 45 Copynumber: 2.8 Consensus size: 45
10198746 CAGACTTATC
*
10198756 CATGCGAATTCATAGAAGAAACTTCATGGAT-AAAGCAAATTCAAA
1 CATGCGAATTCATAGAAGAAACTTCAT-GATCATAGCAAATTCAAA
* **
10198801 CATGCGAATTCATAGAAGAAACTTTATGATCATAGCAAATTCATT
1 CATGCGAATTCATAGAAGAAACTTCATGATCATAGCAAATTCAAA
* *
10198846 CATAC-AGATTCATAAAAG-AACTTCATGATCATAG
1 CATGCGA-ATTCATAGAAGAAACTTCATGATCATAG
10198880 TAGATTCATA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
44 19 0.27
45 51 0.73
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.27
Consensus pattern (45 bp):
CATGCGAATTCATAGAAGAAACTTCATGATCATAGCAAATTCAAA
Found at i:10198887 original size:44 final size:45
Alignment explanation
Indices: 10198763--10198897 Score: 150
Period size: 45 Copynumber: 3.0 Consensus size: 45
10198753 ATCCATGCGA
* * * *
10198763 ATTCATAGAAGAAACTTCATGGAT-AAAGCAAATTCAAACATGC-G
1 ATTCATAAAAGAAACTTCAT-GATCATAGCAAATTCATACATACAG
* * *
10198807 AATTCATAGAAGAAACTTTATGATCATAGCAAATTCATTCATACAG
1 -ATTCATAAAAGAAACTTCATGATCATAGCAAATTCATACATACAG
* *
10198853 ATTCATAAAAG-AACTTCATGATCATAGTAGATTCATACATACAG
1 ATTCATAAAAGAAACTTCATGATCATAGCAAATTCATACATACAG
10198897 A
1 A
10198898 CTTTTGCGTA
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
44 33 0.42
45 44 0.56
46 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (45 bp):
ATTCATAAAAGAAACTTCATGATCATAGCAAATTCATACATACAG
Found at i:10199537 original size:2 final size:2
Alignment explanation
Indices: 10199530--10199557 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10199520 TACAATATTG
10199530 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10199558 CAAGAACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10204302 original size:78 final size:77
Alignment explanation
Indices: 10204145--10204295 Score: 187
Period size: 78 Copynumber: 1.9 Consensus size: 77
10204135 TGAATATTTC
* *
10204145 AAATCCTAAGATTACATTATTATGCCCCGCAAGAATGACAGTCATGAAAGCAGCAATCTTGAATT
1 AAATCCTAAGATTACATTATTATGCCCCACAAGAATGACAGTCATGAAAGCAACAATCTTGAATT
*
10204210 GATGGTGACAAA
66 GATGATGACAAA
* * * ** * *
10204222 AAATCCTAAGATTACGTTATTATGCTCTCACAAGATTGATGGTCA-GTAGAGCAACAATCTTGGA
1 AAATCCTAAGATTACATTATTATGC-CCCACAAGAATGACAGTCATG-AAAGCAACAATCTTGAA
10204286 TTGATGATGA
64 TTGATGATGA
10204296 TGAAAAAAGC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
77 25 0.40
78 37 0.60
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (77 bp):
AAATCCTAAGATTACATTATTATGCCCCACAAGAATGACAGTCATGAAAGCAACAATCTTGAATT
GATGATGACAAA
Found at i:10216972 original size:20 final size:19
Alignment explanation
Indices: 10216938--10216977 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
10216928 TAGTTTTTCC
*
10216938 TAAAAAATATATAAATTTA
1 TAAAAAATATATAAAATTA
*
10216957 TAAAATATATTATAAAATTA
1 TAAAAAATA-TATAAAATTA
10216977 T
1 T
10216978 TTCATGTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAAAATATATAAAATTA
Found at i:10217376 original size:18 final size:19
Alignment explanation
Indices: 10217355--10217394 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
10217345 ATAATAACAT
* *
10217355 AAATTTATAAAA-TATTAA
1 AAATATATAAAAGTAGTAA
10217373 AAATATATAAAAGTAGTAA
1 AAATATATAAAAGTAGTAA
10217392 AAA
1 AAA
10217395 ACACACACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAATATATAAAAGTAGTAA
Found at i:10218351 original size:20 final size:20
Alignment explanation
Indices: 10218328--10218418 Score: 76
Period size: 21 Copynumber: 4.5 Consensus size: 20
10218318 TTAATACTTG
10218328 TAAGGATTTATCAATATTTC
1 TAAGGATTTATCAATATTTC
* *
10218348 TAA-GATTTTTGCCAATATTCC
1 TAAGGATTTAT--CAATATTTC
* * *
10218369 TAAGGCTTTACCAAAATTTC
1 TAAGGATTTATCAATATTTC
* *
10218389 TAAAGGATTTAACAATGTTTC
1 T-AAGGATTTATCAATATTTC
*
10218410 TAAAGATTT
1 TAAGGATTT
10218419 CCCTTGGTGC
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
19 6 0.11
20 18 0.33
21 27 0.49
22 4 0.07
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (20 bp):
TAAGGATTTATCAATATTTC
Found at i:10225819 original size:17 final size:20
Alignment explanation
Indices: 10225797--10225839 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
10225787 TTGTATTTAT
10225797 TATTTAA-AA-TTT-TGATG
1 TATTTAATAAGTTTATGATG
*
10225814 TATTTAATAAGTTTATGTTG
1 TATTTAATAAGTTTATGATG
10225834 TATTTA
1 TATTTA
10225840 TATTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 3 0.14
20 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.56
Consensus pattern (20 bp):
TATTTAATAAGTTTATGATG
Found at i:10227142 original size:12 final size:12
Alignment explanation
Indices: 10227127--10227159 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
10227117 CAACTATAAA
*
10227127 CCCAAAACTTAG
1 CCCAAAACATAG
10227139 CCCAAAACATAG
1 CCCAAAACATAG
10227151 CCCAAAACA
1 CCCAAAACA
10227160 CTAACCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.48, C:0.36, G:0.06, T:0.09
Consensus pattern (12 bp):
CCCAAAACATAG
Found at i:10227234 original size:25 final size:25
Alignment explanation
Indices: 10227205--10227259 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
10227195 AACCCTAATC
*
10227205 CCACCTACTCCACCACCCTTGTTGG
1 CCACCTACTCCACCACCATTGTTGG
10227230 CCACCTACTCCACCACCATTGTTGG
1 CCACCTACTCCACCACCATTGTTGG
10227255 CCACC
1 CCACC
10227260 CACCTTGGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.18, C:0.49, G:0.11, T:0.22
Consensus pattern (25 bp):
CCACCTACTCCACCACCATTGTTGG
Found at i:10227698 original size:3 final size:3
Alignment explanation
Indices: 10227687--10227770 Score: 68
Period size: 3 Copynumber: 27.3 Consensus size: 3
10227677 TTTATTTTTT
* *
10227687 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
10227731 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
10227771 ATATGCCCTC
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
2 5 0.07
3 53 0.79
4 7 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:10227747 original size:21 final size:18
Alignment explanation
Indices: 10227687--10227770 Score: 77
Period size: 21 Copynumber: 4.7 Consensus size: 18
10227677 TTTATTTTTT
*
10227687 TTATT-TTATTATTTTTA
1 TTATTATTATTATTTATA
* *
10227704 CTATTA-T-TTATAT-TA
1 TTATTATTATTATTTATA
*
10227719 TTATTATTATTATTTCTCA
1 TTATTATTATTATTTAT-A
10227738 TGTATATATTATTATTTATA
1 T-TAT-TATTATTATTTATA
10227758 TTATTATTATTAT
1 TTATTATTATTAT
10227771 ATATGCCCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
15 7 0.13
16 6 0.11
17 10 0.18
18 10 0.18
19 5 0.09
20 5 0.09
21 12 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTATTATTTATA
Found at i:10227792 original size:42 final size:42
Alignment explanation
Indices: 10227705--10227812 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
10227695 TTATTTTTAC
** **
10227705 TATTATTTATATTATTATTATTATTATTTCTCATGTATATAT
1 TATTATTTATATTATTATTATTATTATCCCTCATCCATATAT
10227747 TATTATTTATATTATTATTATTATATATGCCCTC-TCC--ATA-
1 TATTATTTATATTATTATTATTAT-TAT-CCCTCATCCATATAT
* *
10227787 T-TTATTTATATTATTACTATCATTAT
1 TATTATTTATATTATTATTATTATTAT
10227813 TGTTACTTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.05
39 20 0.34
40 1 0.02
41 3 0.05
42 24 0.41
43 4 0.07
44 3 0.05
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (42 bp):
TATTATTTATATTATTATTATTATTATCCCTCATCCATATAT
Found at i:10228150 original size:2 final size:2
Alignment explanation
Indices: 10228145--10228192 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
10228135 GTATTTCTAT
*
10228145 TA TA TA CA 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 TA TA
10228187 TA TA TA
1 TA TA TA
10228193 GTATTATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10239279 original size:21 final size:21
Alignment explanation
Indices: 10239253--10239293 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10239243 AGACAAGCGA
* *
10239253 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
10239274 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
10239294 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:10254532 original size:21 final size:19
Alignment explanation
Indices: 10254498--10254536 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
10254488 TTAAAAAAAA
*
10254498 TTAAAATCATAAAAGATATT
1 TTAAAATAATAAAA-ATATT
10254518 TTAAAATTAATAAAAATAT
1 TTAAAA-TAATAAAAATAT
10254537 ATACATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (19 bp):
TTAAAATAATAAAAATATT
Found at i:10254626 original size:9 final size:10
Alignment explanation
Indices: 10254602--10254638 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
10254592 TTAACAATGG
10254602 TAAAAATTAT
1 TAAAAATTAT
10254612 TAAAAATTAT
1 TAAAAATTAT
10254622 TAAAAATTAT
1 TAAAAATTAT
*
10254632 AAAAAAT
1 TAAAAAT
10254639 AAATTTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:10254666 original size:24 final size:25
Alignment explanation
Indices: 10254612--10254673 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
10254602 TAAAAATTAT
*
10254612 TAAAAATTATTAAAAATTATAAAAA
1 TAAAAATTATTAAAAATAATAAAAA
*
10254637 -ATAAATT-TGTAAAAA-AATAAAAA
1 TAAAAATTAT-TAAAAATAATAAAAA
10254660 TAAAAATTA-TAAAA
1 TAAAAATTATTAAAA
10254674 TTCAAGGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (25 bp):
TAAAAATTATTAAAAATAATAAAAA
Found at i:10256513 original size:171 final size:171
Alignment explanation
Indices: 10256228--10256560 Score: 508
Period size: 171 Copynumber: 1.9 Consensus size: 171
10256218 TCATACCATA
*
10256228 ATCCCAAGAGCAATACAATGACATGAAATCAATCTCCCTACCAAATGAAAACTAGAGGTGCTATA
1 ATCCCAAGAACAATACAATGACATGAAATCAATCTCCCTACCAAATGAAAACTAGAGGTGCTATA
* * *
10256293 GACCCTGTTACACTAACCTCAATAAAAAACACTTTTTTAAGTGAAATTTCTCCACACCAAGATGG
66 GACCCTATTACACTAACCCCAATAAAAAACACTTCTTTAAGTGAAATTTCTCCACACCAAGATGG
*
10256358 CTCAATTGAATTATTATTCAATAGGCCACCCAAAACATGAC
131 CTCAATTGAATTAATATTCAATAGGCCACCCAAAACATGAC
*
10256399 ATCCCAAGAACAATACAATGACATGAAATCAATCTCCTTACCAAATGAAAACTAGAAGGTGCT-T
1 ATCCCAAGAACAATACAATGACATGAAATCAATCTCCCTACCAAATGAAAACTAG-AGGTGCTAT
* * * * *
10256463 AG-CCCTTATTGCACTAACCCCAATTAGAAACACTTCTTTAAGTGAAATTTCTCGACATCAAGAT
65 AGACCC-TATTACACTAACCCCAATAAAAAACACTTCTTTAAGTGAAATTTCTCCACACCAAGAT
* * *
10256527 GGCTTAGTTGAATTAATATTTAATAGGCCACCCA
129 GGCTCAATTGAATTAATATTCAATAGGCCACCCA
10256561 GAATGACCCC
Statistics
Matches: 146, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
170 3 0.02
171 136 0.93
172 7 0.05
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (171 bp):
ATCCCAAGAACAATACAATGACATGAAATCAATCTCCCTACCAAATGAAAACTAGAGGTGCTATA
GACCCTATTACACTAACCCCAATAAAAAACACTTCTTTAAGTGAAATTTCTCCACACCAAGATGG
CTCAATTGAATTAATATTCAATAGGCCACCCAAAACATGAC
Found at i:10258710 original size:13 final size:13
Alignment explanation
Indices: 10258692--10258717 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10258682 AGCAACACGG
10258692 TGCTTAGTAAGTT
1 TGCTTAGTAAGTT
10258705 TGCTTAGTAAGTT
1 TGCTTAGTAAGTT
10258718 CATTCGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
TGCTTAGTAAGTT
Found at i:10259489 original size:18 final size:18
Alignment explanation
Indices: 10259466--10259528 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
10259456 GGTGCCAACT
10259466 ATAAAAAATAATATTTTA
1 ATAAAAAATAATATTTTA
*
10259484 AT-AAAAATCAATAAATTTA
1 ATAAAAAAT-AAT-ATTTTA
*
10259503 A-AAATAATAATATTTTA
1 ATAAAAAATAATATTTTA
10259520 ATATAAAAA
1 ATA-AAAAA
10259529 AGGATGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
17 12 0.33
18 9 0.25
19 15 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAAAAATAATATTTTA
Found at i:10259511 original size:15 final size:17
Alignment explanation
Indices: 10259485--10259517 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10259475 AATATTTTAA
10259485 TAAAAATCAATAA-ATT
1 TAAAAATCAATAATATT
10259501 TAAAAAT-AATAATATT
1 TAAAAATCAATAATATT
10259517 T
1 T
10259518 TAATATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAAATCAATAATATT
Found at i:10259739 original size:8 final size:8
Alignment explanation
Indices: 10259726--10259753 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
10259716 ACATTAAAAT
10259726 ATTTATTA
1 ATTTATTA
10259734 ATTTATTA
1 ATTTATTA
10259742 ATTTATTA
1 ATTTATTA
10259750 ATTT
1 ATTT
10259754 TCATTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
ATTTATTA
Found at i:10260251 original size:2 final size:2
Alignment explanation
Indices: 10260244--10260282 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10260234 TATTTATAAT
10260244 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10260283 GGTATATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10264518 original size:16 final size:17
Alignment explanation
Indices: 10264486--10264518 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10264476 TATATATGTA
10264486 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
10264503 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
10264519 CTATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:10265686 original size:18 final size:18
Alignment explanation
Indices: 10265663--10265697 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10265653 TATTTCAATC
10265663 AATATAATAATAAATATT
1 AATATAATAATAAATATT
*
10265681 AATATAATAATTAATAT
1 AATATAATAATAAATAT
10265698 ATTTAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATAATAATAAATATT
Found at i:10269156 original size:26 final size:26
Alignment explanation
Indices: 10269120--10269203 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
10269110 CATGAAATTC
10269120 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
10269146 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
10269172 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
10269198 TTATCA
1 TTATCA
10269204 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10272188 original size:44 final size:43
Alignment explanation
Indices: 10272123--10272304 Score: 224
Period size: 44 Copynumber: 4.2 Consensus size: 43
10272113 GTTTATTTAA
* *
10272123 AAAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTTTT
1 AAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTCTT
* * *
10272167 ACAAACGCCGCTAAAAACCATGACCTTTAG-GAGCACTTTTC-T
1 AAAAACGCCGCTAAAGACCATGACCTTTAGCG-GCGCTTTTCTT
* **
10272209 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAA
1 AAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTT-CTT
* *
10272253 AAAAACGCCGCTAAAGACAATGACCTTTAGCGGCGCTTTTCTC
1 AAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTT
*
10272296 ACAAACGCC
1 AAAAACGCC
10272305 ACTAGAAATC
Statistics
Matches: 119, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
42 35 0.29
43 16 0.13
44 68 0.57
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTT
Found at i:10272276 original size:86 final size:87
Alignment explanation
Indices: 10272123--10272304 Score: 242
Period size: 86 Copynumber: 2.1 Consensus size: 87
10272113 GTTTATTTAA
* * **** * *
10272123 AAAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTTTTACAAACGCCGCTAAAAACCAT
1 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAAAAAAACGCCGCTAAAAACAAT
10272188 GACCTTTAG-GAGCACTTTTCT-
66 GACCTTTAGCG-GCACTTTTCTC
*
10272209 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAAAAAAACGCCGCTAAAGACAAT
1 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAAAAAAACGCCGCTAAAAACAAT
*
10272274 GACCTTTAGCGGCGCTTTTCTC
66 GACCTTTAGCGGCACTTTTCTC
*
10272296 ACAAACGCC
1 AAAAACGCC
10272305 ACTAGAAATC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
86 74 0.89
87 9 0.11
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (87 bp):
AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAAAAAAACGCCGCTAAAAACAAT
GACCTTTAGCGGCACTTTTCTC
Found at i:10277045 original size:7 final size:7
Alignment explanation
Indices: 10277033--10277131 Score: 58
Period size: 7 Copynumber: 13.9 Consensus size: 7
10277023 ACTAATTAAT
10277033 CTAAACC
1 CTAAACC
10277040 CTAAACC
1 CTAAACC
*
10277047 TCTTAACC
1 -CTAAACC
* *
10277055 CTTATCC
1 CTAAACC
*
10277062 CATAAACA
1 C-TAAACC
*
10277070 CTAACCC
1 CTAAACC
10277077 CTAAACC
1 CTAAACC
*
10277084 CTTAACC
1 CTAAACC
*
10277091 CCAAACC
1 CTAAACC
*
10277098 CTTACACC
1 C-TAAACC
*
10277106 TTAAACTC
1 CTAAAC-C
10277114 C--AACC
1 CTAAACC
*
10277119 CTAACCC
1 CTAAACC
10277126 CTAAAC
1 CTAAAC
10277132 TCATAATTCA
Statistics
Matches: 68, Mismatches: 18, Indels: 12
0.69 0.18 0.12
Matches are distributed among these distances:
5 2 0.03
6 3 0.04
7 48 0.71
8 15 0.22
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:10277096 original size:14 final size:15
Alignment explanation
Indices: 10277033--10277101 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
10277023 ACTAATTAAT
* *
10277033 CTAAACCCTAAACCT
1 CTAAACCCTTAACCC
* *
10277048 CTTAACCCTTATCCC
1 CTAAACCCTTAACCC
* *
10277063 ATAAACAC-TAACCC
1 CTAAACCCTTAACCC
10277077 CTAAACCCTTAACCC
1 CTAAACCCTTAACCC
10277092 C-AAACCCTTA
1 CTAAACCCTTA
10277102 CACCTTAAAC
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
14 20 0.47
15 23 0.53
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (15 bp):
CTAAACCCTTAACCC
Found at i:10277111 original size:15 final size:14
Alignment explanation
Indices: 10277033--10277111 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
10277023 ACTAATTAAT
*
10277033 CTAAACCCTAAACC
1 CTAAACCCTTAACC
* *
10277047 TCTTAACCCTTATCC
1 -CTAAACCCTTAACC
*
10277062 CATAAACAC-TAACCC
1 C-TAAACCCTTAA-CC
10277077 CTAAACCCTTAACC
1 CTAAACCCTTAACC
*
10277091 CCAAACCCTTACACC
1 CTAAACCCTTA-ACC
*
10277106 TTAAAC
1 CTAAAC
10277112 TCCAACCCTA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
14 21 0.42
15 29 0.58
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.22
Consensus pattern (14 bp):
CTAAACCCTTAACC
Found at i:10277212 original size:46 final size:46
Alignment explanation
Indices: 10277160--10277253 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
10277150 CTTCAAATAC
* *
10277160 TAGTTAACTCCTAAACCTTAAACCCTAAACTATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
10277206 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
10277252 TA
1 TA
10277254 AACCTTAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:10277257 original size:21 final size:21
Alignment explanation
Indices: 10277176--10277257 Score: 83
Period size: 21 Copynumber: 3.7 Consensus size: 21
10277166 ACTCCTAAAC
* *
10277176 CTTAAACCCTAAACTATATAT
1 CTTAAACCATAAACCATATAT
* *
10277197 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
10277222 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
10277243 CTTAAACCATAAACC
1 CTTAAACCATAAACC
10277258 TTAAACTATA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 29 0.59
22 3 0.06
24 3 0.06
25 14 0.29
ACGTcount: A:0.44, C:0.27, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:10277268 original size:14 final size:14
Alignment explanation
Indices: 10277171--10277268 Score: 61
Period size: 14 Copynumber: 6.7 Consensus size: 14
10277161 AGTTAACTCC
* *
10277171 TAAACCTTAAACCC
1 TAAACCATAAACCT
* * *
10277185 TAAACTATATATCT
1 TAAACCATAAACCT
*
10277199 TAAACCATAGTTAACTCA
1 TAAACCATA---AAC-CT
* *
10277217 TAAACCTTAAACCC
1 TAAACCATAAACCT
* *
10277231 TAAACCATATATCT
1 TAAACCATAAACCT
10277245 TAAACCATAAACCT
1 TAAACCATAAACCT
*
10277259 TAAACTATAA
1 TAAACCATAA
10277269 TGATAACTAA
Statistics
Matches: 62, Mismatches: 18, Indels: 8
0.70 0.20 0.09
Matches are distributed among these distances:
14 49 0.79
15 3 0.05
17 1 0.02
18 9 0.15
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (14 bp):
TAAACCATAAACCT
Found at i:10277321 original size:14 final size:14
Alignment explanation
Indices: 10277277--10277324 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
10277267 AATGATAACT
10277277 AATTCGATATTTTA
1 AATTCGATATTTTA
**
10277291 AATTC-A-AAATT-
1 AATTCGATATTTTA
10277302 AATTCGATATTTTA
1 AATTCGATATTTTA
10277316 AATTCGATA
1 AATTCGATA
10277325 CTATCTCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
11 5 0.19
12 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (14 bp):
AATTCGATATTTTA
Found at i:10277513 original size:41 final size:41
Alignment explanation
Indices: 10277451--10277700 Score: 369
Period size: 41 Copynumber: 6.1 Consensus size: 41
10277441 GTTATATGAC
*
10277451 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* *
10277492 TTTTAGCGGCGTTTTTTCAAAAGCGCCG-TAAATGCTTTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCT-AATGCTCTGGT
10277533 TTTTAGCGGCGTTTTTCCAAAAGCG-CGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* *
10277573 TTTTAGCGGCTTTTTTCCAAAAGCGCCACTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * * *
10277614 TTTTAGTGACGTTTTCCCAAAAGCGCCGTTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* *
10277655 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCTGTGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTG-GT
10277697 TTTT
1 TTTT
10277701 CAATTTTTGC
Statistics
Matches: 187, Mismatches: 18, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
40 37 0.20
41 144 0.77
42 6 0.03
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:10277668 original size:122 final size:124
Alignment explanation
Indices: 10277451--10277700 Score: 387
Period size: 122 Copynumber: 2.0 Consensus size: 124
10277441 GTTATATGAC
* * **
10277451 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTTCAAAAGC
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCACTAATGCTCTGGTTTTTAGCGACGTTTTCCCAAAAGC
* *
10277516 GCCGTAAATGCTTTGGTTTTTAGCGGCGTTTTTCCAAAAGCG-CGCTAATGCTCTG-GT
66 GCCGTAAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGTGT
* * *
10277573 TTTTAGCGGCTTTTTTCCAAAAGCGCCACTAATGCTCTGGTTTTTAGTGACGTTTTCCCAAAAGC
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCACTAATGCTCTGGTTTTTAGCGACGTTTTCCCAAAAGC
* *
10277638 GCCGTTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCTGTGT
66 GCCGTAAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGTGT
10277697 TTTT
1 TTTT
10277701 CAATTTTTGC
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
122 97 0.84
123 12 0.10
124 6 0.05
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.37
Consensus pattern (124 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCACTAATGCTCTGGTTTTTAGCGACGTTTTCCCAAAAGC
GCCGTAAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGTGT
Found at i:10278797 original size:43 final size:42
Alignment explanation
Indices: 10278715--10278843 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 42
10278705 ATTTGCGGCA
* * * *
10278715 TTGTGGGAAAAGGGCCGGTAAAG-CATGACTTTTAGCGGCGT
1 TTGTTGGAAAAGCGCCGCTAAAGTCATGGCTTTTAGCGGCGT
10278756 TTGTTGGAAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGT
1 TTGTTGGAAAAGCGCCGCTAAA-GTCATGGCTTTTAGCGGCGT
* *
10278799 TTG-TGAGGAAAGTGCCGCTAAAAGTCATGGCTTTTAGCGGCGT
1 TTGTTG-GAAAAGCGCCGCT-AAAGTCATGGCTTTTAGCGGCGT
10278842 TT
1 TT
10278844 TTTTCACAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
41 19 0.24
42 3 0.04
43 53 0.68
44 3 0.04
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.28
Consensus pattern (42 bp):
TTGTTGGAAAAGCGCCGCTAAAGTCATGGCTTTTAGCGGCGT
Found at i:10278861 original size:43 final size:42
Alignment explanation
Indices: 10278734--10278862 Score: 118
Period size: 43 Copynumber: 3.0 Consensus size: 42
10278724 AAGGGCCGGT
* * * *
10278734 AAAG-CATGACTTTTAGCGGCGTTTGTTGGAAAAGCGCCGCTA
1 AAAGTCATGGCTTTTAGCGGCGTTTTTTTGAAAA-CGTCGCTA
* * ** *
10278776 AAGGTCATGGCTTTTAGCGGCGTTTGTGAGGAAA-GTGCCGCTA
1 AAAGTCATGGCTTTTAGCGGCGTTTTTTTGAAAACGT--CGCTA
*
10278819 AAAGTCATGGCTTTTAGCGGCGTTTTTTTCACAAACGTCGCTA
1 AAAGTCATGGCTTTTAGCGGCGTTTTTTTGA-AAACGTCGCTA
10278862 A
1 A
10278863 TTTTGACAGA
Statistics
Matches: 70, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
42 3 0.04
43 61 0.87
44 3 0.04
45 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (42 bp):
AAAGTCATGGCTTTTAGCGGCGTTTTTTTGAAAACGTCGCTA
Found at i:10279251 original size:21 final size:21
Alignment explanation
Indices: 10279225--10279269 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
10279215 CTCTGCTCTG
10279225 CTCTG-CTGCCATCGCTGCTGC
1 CTCTGCCT-CCATCGCTGCTGC
*
10279246 CTCTGCCTCCCTCGCTGCTGC
1 CTCTGCCTCCATCGCTGCTGC
10279267 CTC
1 CTC
10279270 CGCTCTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.02, C:0.49, G:0.20, T:0.29
Consensus pattern (21 bp):
CTCTGCCTCCATCGCTGCTGC
Found at i:10279705 original size:13 final size:14
Alignment explanation
Indices: 10279679--10279707 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10279669 ACTAACGACG
10279679 AATTAAACCATTAT
1 AATTAAACCATTAT
10279693 AATTAAA-CATTAT
1 AATTAAACCATTAT
10279706 AA
1 AA
10279708 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:10284919 original size:2 final size:2
Alignment explanation
Indices: 10284907--10284940 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
10284897 ACTTTAATAC
* *
10284907 AT AT TT AT AT AT AT AT AT AT AT AT CT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10284941 CCCTTTCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:10286965 original size:24 final size:24
Alignment explanation
Indices: 10286933--10286980 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
10286923 TTAATTTCGG
10286933 CTATTACTAATATAAACATTCACA
1 CTATTACTAATATAAACATTCACA
10286957 CTATTACTAATATAAACATTCACA
1 CTATTACTAATATAAACATTCACA
10286981 AATCATATTC
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:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (24 bp):
CTATTACTAATATAAACATTCACA
Found at i:10288845 original size:9 final size:9
Alignment explanation
Indices: 10288824--10288944 Score: 72
Period size: 9 Copynumber: 13.6 Consensus size: 9
10288814 TATGTATTAC
*
10288824 GTAAGTTAA
1 GTAAGTTAT
10288833 GTAAGCTT-T
1 GTAAG-TTAT
10288842 GTAAGTTAT
1 GTAAGTTAT
10288851 GTAAGTTAT
1 GTAAGTTAT
* *
10288860 GTTA-TGAT
1 GTAAGTTAT
* *
10288868 ATACATTTAT
1 GTA-AGTTAT
*
10288878 GTAAGGTAT
1 GTAAGTTAT
10288887 GTAAGTTAT
1 GTAAGTTAT
* *
10288896 GATATGATAT
1 G-TAAGTTAT
* *
10288906 AT-ATTTAT
1 GTAAGTTAT
10288914 GT-A-TTAT
1 GTAAGTTAT
*
10288921 GTAAGTTGT
1 GTAAGTTAT
10288930 GTAAGTTAT
1 GTAAGTTAT
10288939 GATAAG
1 G-TAAG
10288945 ATATATATTT
Statistics
Matches: 85, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
7 6 0.07
8 12 0.14
9 50 0.59
10 17 0.20
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.44
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:10288888 original size:36 final size:36
Alignment explanation
Indices: 10288841--10288916 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
10288831 AAGTAAGCTT
* *
10288841 TGTAAGTTATGTAAGTTATGTTATGATATACATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATACATTTA
*
10288877 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATACATTTA
10288913 TGTA
1 TGTA
10288917 TTATGTAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.46
Consensus pattern (36 bp):
TGTAAGGTATGTAAGTTATGATATGATATACATTTA
Found at i:10288977 original size:44 final size:43
Alignment explanation
Indices: 10288874--10289001 Score: 204
Period size: 44 Copynumber: 3.0 Consensus size: 43
10288864 TGATATACAT
* *
10288874 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
*
10288917 TTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTGGA-GTA
1 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTT--ATGTA
10288961 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATG
1 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATG
10289002 AAATATATTT
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
42 1 0.01
43 36 0.46
44 40 0.51
45 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (43 bp):
TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
Found at i:10289007 original size:13 final size:13
Alignment explanation
Indices: 10288985--10289014 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10288975 TAAGTTATGA
*
10288985 TATGATATATATT
1 TATGAAATATATT
10288998 TATGAAATATATT
1 TATGAAATATATT
10289011 TATG
1 TATG
10289015 TATTATGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (13 bp):
TATGAAATATATT
Found at i:10289021 original size:56 final size:56
Alignment explanation
Indices: 10288958--10289092 Score: 234
Period size: 56 Copynumber: 2.4 Consensus size: 56
10288948 TATATTTGGA
*
10288958 GTATTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGAAATATATTTAT
1 GTATTATGTAAGTTGTGTAAGTTATAATATGATATATATTTATGAAATATATTTAT
* *
10289014 GTATTATGTTAGTTGTGTAAGTTATAATATGATATATATTTATGATATATATTTAT
1 GTATTATGTAAGTTGTGTAAGTTATAATATGATATATATTTATGAAATATATTTAT
*
10289070 GTATTATGTAAGTTTTGTAAGTT
1 GTATTATGTAAGTTGTGTAAGTT
10289093 TTGTAAGTTA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.50
Consensus pattern (56 bp):
GTATTATGTAAGTTGTGTAAGTTATAATATGATATATATTTATGAAATATATTTAT
Found at i:10289059 original size:13 final size:13
Alignment explanation
Indices: 10289041--10289070 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
10289031 TAAGTTATAA
10289041 TATGATATATATT
1 TATGATATATATT
10289054 TATGATATATATT
1 TATGATATATATT
10289067 TATG
1 TATG
10289071 TATTATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (13 bp):
TATGATATATATT
Found at i:10289090 original size:9 final size:9
Alignment explanation
Indices: 10289076--10289101 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
10289066 TTATGTATTA
10289076 TGTAAGTTT
1 TGTAAGTTT
10289085 TGTAAGTTT
1 TGTAAGTTT
10289094 TGTAAGTT
1 TGTAAGTT
10289102 ATTATATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (9 bp):
TGTAAGTTT
Found at i:10289111 original size:65 final size:69
Alignment explanation
Indices: 10288985--10289116 Score: 182
Period size: 65 Copynumber: 2.0 Consensus size: 69
10288975 TAAGTTATGA
* * *
10288985 TATGATATATATTTATGAAATATATTTATGTATTATGTTAGTTGTGTAAGTTATAATATGATATA
1 TATGATATATATTTATGAAATATATGTAAGTATTATGTAAGTTGTGTAAGTTATAATATGATATA
10289050 TATT
66 TATT
* * *
10289054 TATGATATATATTTATG-TAT-TATGTAAGT-TT-TGTAAGTTTTGTAAGTTATTATATGATATA
1 TATGATATATATTTATGAAATATATGTAAGTATTATGTAAGTTGTGTAAGTTATAATATGATATA
10289115 TA
66 TA
10289117 ATAAACATTA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 29 0.51
66 2 0.04
67 7 0.12
68 2 0.04
69 17 0.30
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.52
Consensus pattern (69 bp):
TATGATATATATTTATGAAATATATGTAAGTATTATGTAAGTTGTGTAAGTTATAATATGATATA
TATT
Found at i:10289247 original size:45 final size:44
Alignment explanation
Indices: 10289197--10289282 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 44
10289187 TCCAAAATAT
* *
10289197 GTAATTT-AAAAAATTGTGTCGTGATTAAATTGCAAAATATGTGTC
1 GTAATTTAAAAAAATTGTGTCCTGATT-AA-TCCAAAATATGTGTC
10289242 GTAATTTAAAAAAATTGTGTCCTGATTAATCCAAAATATGT
1 GTAATTTAAAAAAATTGTGTCCTGATTAATCCAAAATATGT
10289283 AATTTAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
44 11 0.29
45 9 0.24
46 18 0.47
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (44 bp):
GTAATTTAAAAAAATTGTGTCCTGATTAATCCAAAATATGTGTC
Found at i:10289545 original size:37 final size:37
Alignment explanation
Indices: 10289501--10289591 Score: 104
Period size: 36 Copynumber: 2.5 Consensus size: 37
10289491 AAATTATATT
*
10289501 AATTGATAAATATTGAAATAT-TG-AAAT-ATATTTAA
1 AATTGATAAATATTGAAATATAAGTAAATCAT-TTTAA
10289536 AATGTTGAT-AA-A-TGAAATATAAGTAAATCATTTTAA
1 AA--TTGATAAATATTGAAATATAAGTAAATCATTTTAA
10289572 AATTGATAAATATTGAAATA
1 AATTGATAAATATTGAAATA
10289592 CATTAAAGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
34 13 0.28
35 6 0.13
36 14 0.30
37 14 0.30
ACGTcount: A:0.52, C:0.01, G:0.10, T:0.37
Consensus pattern (37 bp):
AATTGATAAATATTGAAATATAAGTAAATCATTTTAA
Found at i:10293546 original size:26 final size:26
Alignment explanation
Indices: 10293517--10293569 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
10293507 TCAAACATGC
10293517 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
10293543 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
10293569 A
1 A
10293570 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:10295125 original size:26 final size:26
Alignment explanation
Indices: 10295042--10295117 Score: 143
Period size: 26 Copynumber: 2.9 Consensus size: 26
10295032 CATGAAATTC
10295042 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
10295068 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
10295094 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
10295118 TTTTATCAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10295763 original size:114 final size:114
Alignment explanation
Indices: 10295608--10296201 Score: 498
Period size: 114 Copynumber: 5.2 Consensus size: 114
10295598 TAACATTTGC
* * *
10295608 GGCG-TTTTCTCCTAGCGCCGC--A-GGCAAACAAATTGCGGCGTTTTAACAT-AAACGCCACTA
1 GGCGTTTTTCCCCTAGCGCCGCTAATGGCAAAC-TATTGCGGCGTTTTAACCTAAAACGCCACTA
* * *
10295668 AAAATCAAACAAAACGACGCCGTTTTGATATAAATAGAATAAACTTTAGT
65 AAAATCAAAGAAAACGACGCCGTTTTGATATAAACAGAATAACCTTTAGT
*
10295718 GGCGTTTTTCCCCTAGCGCCGCTAATGGCAAATCAATTGCGGCG-TTTAACCCTAAAACGCCACT
1 GGCGTTTTTCCCCTAGCGCCGCTAATGGCAAA-CTATTGCGGCGTTTTAA-CCTAAAACGCCACT
* * * * *
10295782 AAAAATCCAAAAAAAATGACGGCGTTTTCATATAAACAGAATAACATTTAGT
64 AAAAAT-CAAAGAAAACGACGCCGTTTTGATATAAACAGAATAACCTTTAGT
* * * * * *
10295834 GGCGTTTTATCTCCAAGCGCCGCTAAAGGCGAAACTATTGCGGTGTTTTACCCTAAAATGCCACT
1 GGCGTTTT-TCCCCTAGCGCCGCTAATGGC-AAACTATTGCGGCGTTTTAACCTAAAACGCCACT
* * * * ** * *
10295899 AAGAATCGAATAAAACTACATCGTTTTGATATAAACAAAATAACCATTAGT
64 AAAAATCAAAGAAAACGACGCCGTTTTGATATAAACAGAATAACCTTTAGT
* * * * * *
10295950 GGCGTTTATACCCTAGCGCCACTAAAT--CAAACCTATTGTGGTGTTTTAACCAAAAACGCCACT
1 GGCGTTTTTCCCCTAGCGCCGCT-AATGGCAAA-CTATTGCGGCGTTTTAACCTAAAACGCCACT
* * * * *
10296013 AAAAATTC-ATGAAAACTACACCGTTTTGATATAAACAAAATAACCATTAGT
64 AAAAA-TCAAAGAAAACGACGCCGTTTTGATATAAACAGAATAACCTTTAGT
* * ** * * * *
10296064 GGCATTTATAACCTTGCGCCACTAAAT--CAATCCTATTGTGGCGTTTTAACCTAAAACGCCACT
1 GGCGTTTTTCCCCTAGCGCCGCT-AATGGCAA-ACTATTGCGGCGTTTTAACCTAAAACGCCACT
** * * *
10296127 AAAAATCCAAAGAAAACGGTGTCGTCTTG-TAT-AATAGAATAACCTTTAGCT
64 AAAAAT-CAAAGAAAACGACGCCGTTTTGATATAAACAGAATAACCTTTAG-T
*
10296178 -CCGTTTATT-CCCTAGCGCCGCTAA
1 GGCGTTT-TTCCCCTAGCGCCGCTAA
10296202 ATCCAATATT
Statistics
Matches: 402, Mismatches: 63, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
110 4 0.01
111 16 0.04
112 2 0.00
113 38 0.09
114 157 0.39
115 43 0.11
116 90 0.22
117 45 0.11
118 7 0.02
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (114 bp):
GGCGTTTTTCCCCTAGCGCCGCTAATGGCAAACTATTGCGGCGTTTTAACCTAAAACGCCACTAA
AAATCAAAGAAAACGACGCCGTTTTGATATAAACAGAATAACCTTTAGT
Found at i:10296621 original size:22 final size:23
Alignment explanation
Indices: 10296594--10296646 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
10296584 CTTAATCTCC
10296594 AACCCTTAAAC-CATACA-CCATA
1 AACCCTTAAACTCATA-ATCCATA
10296616 AACCC-TAAACTCATAATCCATA
1 AACCCTTAAACTCATAATCCATA
10296638 AA-CCTTAAA
1 AACCCTTAAA
10296647 ATAGTAACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (23 bp):
AACCCTTAAACTCATAATCCATA
Found at i:10296624 original size:7 final size:7
Alignment explanation
Indices: 10296600--10296709 Score: 55
Period size: 7 Copynumber: 15.4 Consensus size: 7
10296590 CTCCAACCCT
10296600 TAAACCA
1 TAAACCA
*
10296607 TACACCA
1 TAAACCA
*
10296614 TAAACCC
1 TAAACCA
10296621 TAAACTCA
1 TAAAC-CA
*
10296629 TAATCCA
1 TAAACCA
*
10296636 TAAACCT
1 TAAACCA
10296643 TAAA--A
1 TAAACCA
10296648 TAGTAACTCA
1 TA--AAC-CA
* **
10296658 TACACTT
1 TAAACCA
10296665 TAAA-CA
1 TAAACCA
10296671 CTAAACCA
1 -TAAACCA
* *
10296679 TATACCT
1 TAAACCA
10296686 TAAACCA
1 TAAACCA
*
10296693 TAAACCC
1 TAAACCA
*
10296700 TAAACTA
1 TAAACCA
10296707 TAA
1 TAA
10296710 TAATTATTAG
Statistics
Matches: 74, Mismatches: 21, Indels: 16
0.67 0.19 0.14
Matches are distributed among these distances:
5 2 0.03
7 60 0.81
8 9 0.12
10 3 0.04
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (7 bp):
TAAACCA
Found at i:10296943 original size:15 final size:15
Alignment explanation
Indices: 10296923--10296954 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10296913 TATAATAATA
*
10296923 ATTTAGATTTATCTT
1 ATTTAGATTTATATT
10296938 ATTTAGATTTATATT
1 ATTTAGATTTATATT
10296953 AT
1 AT
10296955 AAAAAAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (15 bp):
ATTTAGATTTATATT
Found at i:10297025 original size:7 final size:7
Alignment explanation
Indices: 10297015--10297062 Score: 71
Period size: 7 Copynumber: 6.9 Consensus size: 7
10297005 AACCCTTAAC
10297015 CCCAAAT
1 CCCAAAT
10297022 CCCAAAT
1 CCCAAAT
10297029 CCCAAAT
1 CCCAAAT
10297036 CCCAAA-
1 CCCAAAT
10297042 CCCTAAAT
1 CCC-AAAT
*
10297050 CACAAAT
1 CCCAAAT
10297057 CCCAAA
1 CCCAAA
10297063 CCATAAATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 3 0.08
7 32 0.86
8 2 0.05
ACGTcount: A:0.46, C:0.42, G:0.00, T:0.12
Consensus pattern (7 bp):
CCCAAAT
Done.