Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 30 of 129
Found at i:6166356 original size:22 final size:22
Alignment explanation
Indices: 6166315--6166391 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
6166305 AGATTTTGAG
* * *
6166315 ATCTTTAAAACATCCGGACATA
1 ATCTTTAAAACCTTCAGACATA
*
6166337 ATCTTTAAAACCTTCAGACACA
1 ATCTTTAAAACCTTCAGACATA
* * *
6166359 ATCTCTAAGACCTTCAGATATA
1 ATCTTTAAAACCTTCAGACATA
*
6166381 ATCCTTAAAAC
1 ATCTTTAAAAC
6166392 TGTCGAACAT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.29
Consensus pattern (22 bp):
ATCTTTAAAACCTTCAGACATA
Found at i:6167399 original size:6 final size:6
Alignment explanation
Indices: 6167390--6167428 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
6167380 TTTTTTTCAT
*
6167390 TTTTCA TTTT-A TTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
6167429 ATAATTTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.15, C:0.03, G:0.10, T:0.72
Consensus pattern (6 bp):
TTTTGA
Found at i:6167404 original size:18 final size:18
Alignment explanation
Indices: 6167377--6167428 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
6167367 CGAGTCCACT
* *
6167377 ATTTTTTTTTCATTTTTC
1 ATTTTATTTTGATTTTTC
*
6167395 ATTTTATTTTGA-TTTTG
1 ATTTTATTTTGATTTTTC
6167412 ATTTTGATTTTGATTTT
1 ATTTT-ATTTTGATTTT
6167429 ATAATTTAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 9 0.31
18 17 0.59
19 3 0.10
ACGTcount: A:0.15, C:0.04, G:0.08, T:0.73
Consensus pattern (18 bp):
ATTTTATTTTGATTTTTC
Found at i:6170789 original size:36 final size:36
Alignment explanation
Indices: 6170742--6170811 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
6170732 TGGCCACCCT
*
6170742 GCCTACCTCGCTTGAGACGCTTGACGTGGATCGATG
1 GCCTACCTCGCTTGAGACGCTTGACATGGATCGATG
6170778 GCCTACCTCGCTTGAGACGCTTGACATGGATCGA
1 GCCTACCTCGCTTGAGACGCTTGACATGGATCGA
6170812 ACGGTTTAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.19, C:0.29, G:0.29, T:0.24
Consensus pattern (36 bp):
GCCTACCTCGCTTGAGACGCTTGACATGGATCGATG
Found at i:6171561 original size:48 final size:48
Alignment explanation
Indices: 6171499--6171676 Score: 153
Period size: 48 Copynumber: 3.8 Consensus size: 48
6171489 TTCGAGGCAT
* *
6171499 TTGGTGTGGATCGAACGGTTTAGAATTGGCTTTGATCCCTCGAGGTGC
1 TTGGCGTGGATCGAACGGTTTAGAACTGGCTTTGATCCCTCGAGGTGC
* * * * * **
6171547 TTGGCGTGGATCGAACGGTTTAGAGCTAGTTTTGATACCAC-TTGT-C
1 TTGGCGTGGATCGAACGGTTTAGAACTGGCTTTGATCCCTCGAGGTGC
* * * ** * * *
6171593 ATGGCGTGGATTGAACGGTTTTGAGTTGGTTTTGATCCTTCGAGGTGT
1 TTGGCGTGGATCGAACGGTTTAGAACTGGCTTTGATCCCTCGAGGTGC
* * * *
6171641 TTGGTGTTGATTGAATGGTTTAGAACTGGCTTTGAT
1 TTGGCGTGGATCGAACGGTTTAGAACTGGCTTTGAT
6171677 ACCACTTGTT
Statistics
Matches: 100, Mismatches: 28, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
46 34 0.34
47 4 0.04
48 62 0.62
ACGTcount: A:0.17, C:0.13, G:0.32, T:0.38
Consensus pattern (48 bp):
TTGGCGTGGATCGAACGGTTTAGAACTGGCTTTGATCCCTCGAGGTGC
Found at i:6171675 original size:94 final size:94
Alignment explanation
Indices: 6171504--6171690 Score: 248
Period size: 94 Copynumber: 2.0 Consensus size: 94
6171494 GGCATTTGGT
6171504 GTGGATCGAACGGTTTAGAATTGGCTTTGATCCCTCGAGGTGCTTGGCGTGGATCGAACGGTTTA
1 GTGGATCGAACGGTTTAGAATTGGCTTTGATCCCTCGAGGTGCTTGGCGTGGATCGAACGGTTTA
* *
6171569 GAGCTAGTTTTGATACCACTTGTCATGGC
66 GAACTAGCTTTGATACCACTTGTCATGGC
* * * * * * * * * *
6171598 GTGGATTGAACGGTTTTGAGTTGGTTTTGATCCTTCGAGGTGTTTGGTGTTGATTGAATGGTTTA
1 GTGGATCGAACGGTTTAGAATTGGCTTTGATCCCTCGAGGTGCTTGGCGTGGATCGAACGGTTTA
* *
6171663 GAACTGGCTTTGATACCACTTGTTATGG
66 GAACTAGCTTTGATACCACTTGTCATGG
6171691 GCTCAGACTT
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
94 79 1.00
ACGTcount: A:0.18, C:0.14, G:0.31, T:0.37
Consensus pattern (94 bp):
GTGGATCGAACGGTTTAGAATTGGCTTTGATCCCTCGAGGTGCTTGGCGTGGATCGAACGGTTTA
GAACTAGCTTTGATACCACTTGTCATGGC
Found at i:6181780 original size:27 final size:27
Alignment explanation
Indices: 6181740--6181802 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
6181730 TATGATTTAA
*
6181740 AAAATTAATAAAAAATTTATA-TTAAAT
1 AAAATTAAT-AAAAATTAATATTTAAAT
* *
6181767 AAAATTACTTAAAATTAATATTTAAAT
1 AAAATTAATAAAAATTAATATTTAAAT
**
6181794 TTAATTAAT
1 AAAATTAAT
6181803 GGTGTAATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (27 bp):
AAAATTAATAAAAATTAATATTTAAAT
Found at i:6182258 original size:16 final size:15
Alignment explanation
Indices: 6182231--6182260 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6182221 ACTGTTATTG
6182231 TATTTTTTTATTTTT
1 TATTTTTTTATTTTT
6182246 TATTTTATTTATTTT
1 TATTTT-TTTATTTT
6182261 ATGTTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TATTTTTTTATTTTT
Found at i:6182270 original size:9 final size:9
Alignment explanation
Indices: 6182225--6182269 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
6182215 GAACCCACTG
6182225 TTATTGTATT
1 TTATT-TATT
6182235 TT-TTTA-T
1 TTATTTATT
6182242 TT-TTTATT
1 TTATTTATT
6182250 TTATTTATT
1 TTATTTATT
6182259 TTATGTTATT
1 TTAT-TTATT
6182269 T
1 T
6182270 AGATATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.22
8 5 0.16
9 12 0.38
10 8 0.25
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (9 bp):
TTATTTATT
Found at i:6182331 original size:14 final size:13
Alignment explanation
Indices: 6182312--6182341 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
6182302 AAAAAAATAT
6182312 AAAAAATACAAACA
1 AAAAAATACAAA-A
6182326 AAAAAATACAAAA
1 AAAAAATACAAAA
6182339 AAA
1 AAA
6182342 GCAAGTAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAAAATACAAAA
Found at i:6183919 original size:29 final size:28
Alignment explanation
Indices: 6183880--6184321 Score: 106
Period size: 29 Copynumber: 15.4 Consensus size: 28
6183870 CTTCAATTAA
* *
6183880 AAAACCAAAACCTTAAATCTCAAAACCTT
1 AAAACTAAAACCTTAAATCTC-AAACCCT
* *
6183909 AAAATTGAAA-CTCTAAATCTCAAACCCT
1 AAAACTAAAACCT-TAAATCTCAAACCCT
*
6183937 AAAACTAAAACCTTAAA-CGCTAAACCCT
1 AAAACTAAAACCTTAAATCTC-AAACCCT
* * *
6183965 -AAATTCAAAACCCTAAAATC-CAAACCTT
1 AAAACT-AAAA-CCTTAAATCTCAAACCCT
* * * **
6183993 AAACCCAAAA-TTTAAAT-TCTAAAATC-
1 AAAACTAAAACCTTAAATCTC-AAACCCT
* *
6184019 AAAGCACT-AAA-CTATAAAGCCTTAAACCCT
1 AAA--ACTAAAACCT-TAAA-TCTCAAACCCT
* *
6184049 AAAA-TCGAAACCTTAAAACTCCAAACCCT
1 AAAACT-AAAACCTTAAATCT-CAAACCCT
* * * *
6184078 AAAATCGAAACCCTAAAACCTCAAACCCCT
1 AAAA-CTAAAACCTTAAATCTCAAA-CCCT
* * *
6184108 AAAATCGAAACCCTAAAATCTCAAACCCCT
1 AAAA-CTAAAACCTTAAATCTCAAA-CCCT
* ** * * **
6184138 AAAA-TCGAAACCCCAAACCTTAAACTTT
1 AAAACT-AAAACCTTAAATCTCAAACCCT
* *
6184166 AAAA-TCAAAACCCTAAAACTTCAAATCCCT
1 AAAACT-AAAACCTTAAATC-TCAAA-CCCT
* * * *
6184196 AAAATCGAAATCC-TAAAACTCCAAACTCT
1 AAAA-CTAAAACCTTAAATCT-CAAACCCT
* * *
6184225 AAAA-TCGAAACCTTAAACCTCAAACCTT
1 AAAACT-AAAACCTTAAATCTCAAACCCT
* * *
6184253 AAAA-TCGAAACCCTAAACCTCAAACCCCT
1 AAAACT-AAAACCTTAAATCTCAAA-CCCT
* *
6184282 AAAA-TCGAAACCTTAAACCTTTCAAACCCT
1 AAAACT-AAAACCTTAAA--TCTCAAACCCT
*
6184312 AAAATTAAAA
1 AAAACTAAAA
6184322 ACCTAATCCC
Statistics
Matches: 316, Mismatches: 63, Indels: 67
0.71 0.14 0.15
Matches are distributed among these distances:
26 9 0.03
27 14 0.04
28 100 0.32
29 101 0.32
30 81 0.26
31 11 0.03
ACGTcount: A:0.49, C:0.29, G:0.03, T:0.20
Consensus pattern (28 bp):
AAAACTAAAACCTTAAATCTCAAACCCT
Found at i:6183947 original size:14 final size:14
Alignment explanation
Indices: 6183880--6183982 Score: 57
Period size: 14 Copynumber: 7.3 Consensus size: 14
6183870 CTTCAATTAA
* *
6183880 AAAACCAAAACCTT
1 AAAACTAAAACCCT
* *
6183894 AAATCTCAAAACCTT
1 AAAACT-AAAACCCT
* * *
6183909 AAAATTGAAACTCT
1 AAAACTAAAACCCT
* *
6183923 AAATCTCAAACCCT
1 AAAACTAAAACCCT
*
6183937 AAAACTAAAACCTT
1 AAAACTAAAACCCT
*
6183951 AAACGCT-AAACCCT
1 AAA-ACTAAAACCCT
*
6183965 -AAATTCAAAACCCT
1 AAAACT-AAAACCCT
6183979 AAAA
1 AAAA
6183983 TCCAAACCTT
Statistics
Matches: 66, Mismatches: 18, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
12 1 0.02
13 2 0.03
14 46 0.70
15 17 0.26
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.20
Consensus pattern (14 bp):
AAAACTAAAACCCT
Found at i:6183948 original size:42 final size:43
Alignment explanation
Indices: 6183885--6184299 Score: 137
Period size: 42 Copynumber: 9.7 Consensus size: 43
6183875 ATTAAAAAAC
* * * *
6183885 CAAAACCTTAAATCTCAAAACCTTAAA-ATTGAAACTCTAAATCT
1 CAAAACCCTAAAACTCAAAACCTTAAACACT-AAACCCTAAAT-T
*
6183929 C-AAACCCTAAAACT-AAAACCTTAAACGCTAAACCCTAAATT
1 CAAAACCCTAAAACTCAAAACCTTAAACACTAAACCCTAAATT
* * ***
6183970 CAAAACCCTAAAA-TCCAAACCTTAAAC-CCAAAATTTAAATT
1 CAAAACCCTAAAACTCAAAACCTTAAACACTAAACCCTAAATT
* * * * *
6184011 CTAAAA-TC-AAAGCACTAAA-CTATAAAGC-CTTAAACCCTAAAAT
1 C-AAAACCCTAAAACTCAAAACCT-TAAA-CAC-TAAACCCTAAATT
* * * * * *
6184054 CGAAACCTTAAAACTCCAAACCCTAAA-ATCGAAACCCTAAAACCT
1 CAAAACCCTAAAACTCAAAACCTTAAACA-CTAAACCCT-AAA-TT
* * * *
6184099 CAAACCCCTAAAA-TCGAAACCCTAAA-ATCTCAAACCCCTAAAAT
1 CAAAACCCTAAAACTCAAAACCTTAAACA-CT-AAA-CCCTAAATT
* * * * * *
6184143 CGAAACCCCAAACCT-TAAACTTTAAA-ATCAAAACCCTAAAACTT
1 CAAAACCCTAAAACTCAAAACCTTAAACA-CTAAACCCT-AAA-TT
* * * * * * *
6184187 CAAATCCCTAAAA-TCGAAATCCTAAAACTCCAAACTCTAAAAT
1 CAAAACCCTAAAACTC-AAAACCTTAAACACTAAACCCTAAATT
* * * * *
6184230 CGAAACCTTAAACCTC-AAACCTTAAA-ATCGAAACCCTAAACCT
1 CAAAACCCTAAAACTCAAAACCTTAAACA-CTAAACCCTAAA-TT
* *
6184273 CAAACCCCTAAAA-TCGAAACCTTAAAC
1 CAAAACCCTAAAACTCAAAACCTTAAAC
6184300 CTTTCAAACC
Statistics
Matches: 274, Mismatches: 69, Indels: 56
0.69 0.17 0.14
Matches are distributed among these distances:
40 5 0.02
41 23 0.08
42 76 0.28
43 65 0.24
44 68 0.25
45 33 0.12
46 4 0.01
ACGTcount: A:0.48, C:0.29, G:0.03, T:0.20
Consensus pattern (43 bp):
CAAAACCCTAAAACTCAAAACCTTAAACACTAAACCCTAAATT
Found at i:6183989 original size:14 final size:14
Alignment explanation
Indices: 6183923--6183995 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 14
6183913 TTGAAACTCT
6183923 AAATCTCAAACCCTA
1 AAATC-CAAACCCTA
* * *
6183938 AAA-CTAAAACCTT
1 AAATCCAAACCCTA
6183951 AAA-CGCTAAACCCTA
1 AAATC-C-AAACCCTA
* *
6183966 AATTCAAAACCCTA
1 AAATCCAAACCCTA
*
6183980 AAATCCAAACCTTA
1 AAATCCAAACCCTA
6183994 AA
1 AA
6183996 CCCAAAATTT
Statistics
Matches: 44, Mismatches: 11, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
13 10 0.23
14 22 0.50
15 11 0.25
16 1 0.02
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (14 bp):
AAATCCAAACCCTA
Found at i:6184065 original size:14 final size:14
Alignment explanation
Indices: 6184042--6184298 Score: 200
Period size: 14 Copynumber: 17.7 Consensus size: 14
6184032 ATAAAGCCTT
6184042 AAACCCTAAAATCG
1 AAACCCTAAAATCG
* *
6184056 AAACCTTAAAACTCC
1 AAACCCTAAAA-TCG
6184071 AAACCCTAAAATCG
1 AAACCCTAAAATCG
6184085 AAACCCTAAAACCTC-
1 AAACCCTAAAA--TCG
6184100 AAACCCCTAAAATCG
1 AAA-CCCTAAAATCG
*
6184115 AAACCCTAAAATCTC
1 AAACCCTAAAATC-G
6184130 AAACCCCTAAAATCG
1 AAA-CCCTAAAATCG
* * *
6184145 AAACCC-CAAACCTT
1 AAACCCTAAAATC-G
** *
6184159 AAACTTTAAAATCA
1 AAACCCTAAAATCG
6184173 AAACCCTAAAACTTC-
1 AAACCCTAAAA--TCG
6184188 AAATCCCTAAAATCG
1 AAA-CCCTAAAATCG
* *
6184203 AAATCCTAAAACTCC
1 AAACCCTAAAA-TCG
*
6184218 AAACTCTAAAATCG
1 AAACCCTAAAATCG
* *
6184232 AAACCTTAAACCTC-
1 AAACCCTAAA-ATCG
*
6184246 AAACCTTAAAATCG
1 AAACCCTAAAATCG
*
6184260 AAACCCTAAACCTC-
1 AAACCCTAAA-ATCG
6184274 AAACCCCTAAAATCG
1 AAA-CCCTAAAATCG
*
6184289 AAACCTTAAA
1 AAACCCTAAA
6184299 CCTTTCAAAC
Statistics
Matches: 195, Mismatches: 29, Indels: 38
0.74 0.11 0.15
Matches are distributed among these distances:
13 6 0.03
14 100 0.51
15 59 0.30
16 30 0.15
ACGTcount: A:0.48, C:0.31, G:0.03, T:0.18
Consensus pattern (14 bp):
AAACCCTAAAATCG
Found at i:6184110 original size:30 final size:29
Alignment explanation
Indices: 6184033--6184316 Score: 319
Period size: 29 Copynumber: 9.7 Consensus size: 29
6184023 CACTAAACTA
* * *
6184033 TAAAGCCTTAAACCCTAAAATCGAAACCT
1 TAAAACCTCAAACCCTAAAATCGAAACCC
6184062 TAAAA-CTCCAAACCCTAAAATCGAAACCC
1 TAAAACCT-CAAACCCTAAAATCGAAACCC
6184091 TAAAACCTCAAACCCCTAAAATCGAAACCC
1 TAAAACCTCAAA-CCCTAAAATCGAAACCC
*
6184121 TAAAATCTCAAACCCCTAAAATCGAAACCC
1 TAAAACCTCAAA-CCCTAAAATCGAAACCC
* * ** *
6184151 -CAAACCTTAAACTTTAAAATCAAAACCC
1 TAAAACCTCAAACCCTAAAATCGAAACCC
* *
6184179 TAAAACTTCAAATCCCTAAAATCGAAATCC
1 TAAAACCTCAAA-CCCTAAAATCGAAACCC
*
6184209 TAAAA-CTCCAAACTCTAAAATCGAAA-CC
1 TAAAACCT-CAAACCCTAAAATCGAAACCC
* *
6184237 TTAAACCTCAAACCTTAAAATCGAAACCC
1 TAAAACCTCAAACCCTAAAATCGAAACCC
6184266 T-AAACCTCAAACCCCTAAAATCGAAA-CC
1 TAAAACCTCAAA-CCCTAAAATCGAAACCC
*
6184294 TTAAACCTTTCAAACCCTAAAAT
1 TAAAACC--TCAAACCCTAAAAT
6184317 TAAAAACCTA
Statistics
Matches: 220, Mismatches: 23, Indels: 23
0.83 0.09 0.09
Matches are distributed among these distances:
28 51 0.23
29 85 0.39
30 79 0.36
31 5 0.02
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.19
Consensus pattern (29 bp):
TAAAACCTCAAACCCTAAAATCGAAACCC
Found at i:6184336 original size:87 final size:86
Alignment explanation
Indices: 6184042--6184337 Score: 285
Period size: 88 Copynumber: 3.4 Consensus size: 86
6184032 ATAAAGCCTT
** * *
6184042 AAACCCTAAAA-TCGAAACCTTAAAACTCCAAACCCTAAAATCGAAACCCTAAAACCTCAAACCC
1 AAACCCTAAAATTAAAAACC-T-AAACCCCAAACCTTAAAATCGAAACCCTAAAACCTCAAACCC
* *
6184106 CTAAAATCGAAACCCTAAAATCTC
64 CTAAAATCGAAA-CCTAAACTTTC
** * * ** * * * *
6184130 AAACCCCTAAAATCGAAACCCCAAACCTTAAACTTTAAAATCAAAACCCTAAAACTTCAAATCCC
1 AAA-CCCTAAAATTAAAAACCTAAACCCCAAACCTTAAAATCGAAACCCTAAAACCTCAAACCCC
*
6184195 TAAAATCGAAATCCTAAAAC-TCC
65 TAAAATCGAAA-CCT-AAACTTTC
* ** *
6184218 AAACTCTAAAA-TCGAAACCTTAAACCTCAAACCTTAAAATCGAAACCCT-AAACCTCAAACCCC
1 AAACCCTAAAATTAAAAACC-TAAACCCCAAACCTTAAAATCGAAACCCTAAAACCTCAAACCCC
6184281 TAAAATCGAAACCTTAAACCTTTC
65 TAAAATCGAAACC-TAAA-CTTTC
*
6184305 AAACCCTAAAATTAAAAACCTAATCCCCAAACC
1 AAACCCTAAAATTAAAAACCTAAACCCCAAACC
6184338 CTAAGCTTTT
Statistics
Matches: 166, Mismatches: 34, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
85 5 0.03
86 29 0.17
87 55 0.33
88 62 0.37
89 11 0.07
90 4 0.02
ACGTcount: A:0.47, C:0.32, G:0.03, T:0.18
Consensus pattern (86 bp):
AAACCCTAAAATTAAAAACCTAAACCCCAAACCTTAAAATCGAAACCCTAAAACCTCAAACCCCT
AAAATCGAAACCTAAACTTTC
Found at i:6186051 original size:21 final size:21
Alignment explanation
Indices: 6186027--6186077 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
6186017 TTAAGTTAAT
6186027 GAAAATTATGGATAGATTCAA
1 GAAAATTATGGATAGATTCAA
6186048 GAAAATTATGGATAGATTCAA
1 GAAAATTATGGATAGATTCAA
*
6186069 GAAATTTAT
1 GAAAATTAT
6186078 TTTGACATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.47, C:0.04, G:0.18, T:0.31
Consensus pattern (21 bp):
GAAAATTATGGATAGATTCAA
Found at i:6190974 original size:22 final size:22
Alignment explanation
Indices: 6190949--6191011 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
6190939 CCAGTATAGC
6190949 TGGCACATAAGCCCAGATCAAA
1 TGGCACATAAGCCCAGATCAAA
* * * *
6190971 TGGCATATAAGCTCAGTTCAAT
1 TGGCACATAAGCCCAGATCAAA
6190993 TGGCACAATAAGCCCAGAT
1 TGGCAC-ATAAGCCCAGAT
6191012 TAGCTGGCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 23 0.70
23 10 0.30
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (22 bp):
TGGCACATAAGCCCAGATCAAA
Found at i:6191278 original size:33 final size:33
Alignment explanation
Indices: 6191203--6191449 Score: 159
Period size: 33 Copynumber: 7.5 Consensus size: 33
6191193 CTACATAAGA
* * * *
6191203 TTTAAGCCTAGTTTAAT-TGGCCCTCAATGAAA-
1 TTTAAGCCTAGTTT-ATCTAGCCATTAAAGAAAT
*
6191235 TTTAAACCTAGTTTATCTAGCCATTAAAGAAAT
1 TTTAAGCCTAGTTTATCTAGCCATTAAAGAAAT
* * *
6191268 TTTAAGCCTAGTTTAGT-TTGCCTTTAAAAAAAT
1 TTTAAGCCTAGTTTA-TCTAGCCATTAAAGAAAT
* *
6191301 TTTAAGCCTAGTTTAGT-TTGCC-TTCAAAAAAAT
1 TTTAAGCCTAGTTTA-TCTAGCCATT-AAAGAAAT
* *
6191334 TTTAAGCCTAGTTTATCT-GACCATTAATGAAGT
1 TTTAAGCCTAGTTTATCTAG-CCATTAAAGAAAT
* * * ** **
6191367 TTTACGCCCAGTTTATCTGGCC-CCAAATGAGGT
1 TTTAAGCCTAGTTTATCTAGCCATTAAA-GAAAT
* * * * *
6191400 TTTAAGCCCAGTTTAGCTAGTCATCAATGAAA-
1 TTTAAGCCTAGTTTATCTAGCCATTAAAGAAAT
*
6191432 TTTAAGCATAGTTTATCT
1 TTTAAGCCTAGTTTATCT
6191450 GGTCCTAAAA
Statistics
Matches: 176, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
31 2 0.01
32 45 0.26
33 122 0.69
34 7 0.04
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (33 bp):
TTTAAGCCTAGTTTATCTAGCCATTAAAGAAAT
Found at i:6191380 original size:99 final size:98
Alignment explanation
Indices: 6191203--6191381 Score: 243
Period size: 99 Copynumber: 1.8 Consensus size: 98
6191193 CTACATAAGA
**
6191203 TTTAAGCCTAGTTTAATTGGCCCTCAATGAAATTTAAACCTAGTTTATCTAGCCATTAAAGAAAT
1 TTTAAGCCTAGTTTAATTGGCCCTCAAAAAAATTTAAACCTAGTTTATCTAGCCATTAAAGAAAT
*
6191268 TTTAAGCCTAGTTTAGTTTGCCTTTAAAAAAAT
66 TTTAAGCCCAGTTTAGTTTGCCTTTAAAAAAAT
* * * * *
6191301 TTTAAGCCTAGTTTAGTTTGCCTTCAAAAAAATTTTAAGCCTAGTTTATCT-GACCATTAATGAA
1 TTTAAGCCTAGTTTAATTGGCCCTCAAAAAAA-TTTAAACCTAGTTTATCTAG-CCATTAAAGAA
* *
6191365 GTTTTACGCCCAGTTTA
64 ATTTTAAGCCCAGTTTA
6191382 TCTGGCCCCA
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
98 28 0.41
99 41 0.59
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (98 bp):
TTTAAGCCTAGTTTAATTGGCCCTCAAAAAAATTTAAACCTAGTTTATCTAGCCATTAAAGAAAT
TTTAAGCCCAGTTTAGTTTGCCTTTAAAAAAAT
Found at i:6192666 original size:22 final size:22
Alignment explanation
Indices: 6192641--6192714 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
6192631 GTCGATTCTG
6192641 TAAGACCTTCAAACATGATTTC
1 TAAGACCTTCAAACATGATTTC
* * * *
6192663 TAAGACTTTCAGATATAATCTT-
1 TAAGACCTTCAAACATGAT-TTC
* * * *
6192685 TAAAATCTCCAAGCATGATTTC
1 TAAGACCTTCAAACATGATTTC
6192707 TAAGACCT
1 TAAGACCT
6192715 CTGGACATAA
Statistics
Matches: 36, Mismatches: 14, Indels: 4
0.67 0.26 0.07
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.34
Consensus pattern (22 bp):
TAAGACCTTCAAACATGATTTC
Found at i:6192851 original size:36 final size:36
Alignment explanation
Indices: 6192793--6192876 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 36
6192783 GGTTGATTTT
* ** *
6192793 TAATTTTGATTTGTGGTGTTGTCCCGA-TCGATTCCA
1 TAATTTTGACTTGCAGTATTGT-CCGAGTCGATTCCA
* *
6192829 TAATTTTGACTTGCAGTATTGTCCTAGTTGATTCCA
1 TAATTTTGACTTGCAGTATTGTCCGAGTCGATTCCA
*
6192865 TAATTTCGACTT
1 TAATTTTGACTT
6192877 ACTGTGTTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 3 0.08
36 37 0.93
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.45
Consensus pattern (36 bp):
TAATTTTGACTTGCAGTATTGTCCGAGTCGATTCCA
Found at i:6192851 original size:71 final size:71
Alignment explanation
Indices: 6192722--6192861 Score: 158
Period size: 71 Copynumber: 2.0 Consensus size: 71
6192712 CCTCTGGACA
** * *
6192722 TAATTTCGATTCGTGGTGTTATCCCCATCAATTCTTTAATTTTGACTTATGATGTTGTCCCGGTT
1 TAATTTCGATTCGTGGTGTTATCCCCATCAATTCCATAATTTTGACTTATGATATTGTCCCAGTT
6192787 GATTTT
66 GATTTT
* * * * * *
6192793 TAATTTTGATTTGTGGTGTTGTCCCGATCGATTCCATAATTTTGAC-T-TGCAGTATTGTCCTAG
1 TAATTTCGATTCGTGGTGTTATCCCCATCAATTCCATAATTTTGACTTATG-A-TATTGTCCCAG
6192856 TTGATT
64 TTGATT
6192862 CCATAATTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
69 2 0.04
70 2 0.04
71 53 0.93
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.47
Consensus pattern (71 bp):
TAATTTCGATTCGTGGTGTTATCCCCATCAATTCCATAATTTTGACTTATGATATTGTCCCAGTT
GATTTT
Found at i:6192890 original size:36 final size:36
Alignment explanation
Indices: 6192822--6192890 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
6192812 TGTCCCGATC
* * *
6192822 GATTCCATAATTTTGACTTGCAGTATTGTCCTAGTT
1 GATTCCATAATTTCGACTTACAGTATTATCCTAGTT
* *
6192858 GATTCCATAATTTCGACTTACTGTGTTATCCTA
1 GATTCCATAATTTCGACTTACAGTATTATCCTA
6192891 ATCATTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.43
Consensus pattern (36 bp):
GATTCCATAATTTCGACTTACAGTATTATCCTAGTT
Found at i:6192970 original size:74 final size:74
Alignment explanation
Indices: 6192834--6192979 Score: 168
Period size: 74 Copynumber: 2.0 Consensus size: 74
6192824 TTCCATAATT
* * * *
6192834 TTGACTTGCAGTATTGTCCTAGTTGATTCCATAATTTCGACTTACTGTGTTATCCTAATCATTTT
1 TTGACTTGCAATATTATCCCAGTCGATTCCATAATTTCGACTTACTGTGTTATCCTAATCATTTT
*
6192899 TTTTACTTC
66 CTTTACTTC
* * * * * **
6192908 TTGACTTGCAATGTTATCCCAGTCGATTTCATAATTTTGACTTGC-GATGTTGTCCTGGTCATTT
1 TTGACTTGCAATATTATCCCAGTCGATTCCATAATTTCGACTTACTG-TGTTATCCTAATCATTT
6192972 TCTTTACT
65 TCTTTACT
6192980 ATTAAATTTA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
73 1 0.02
74 58 0.98
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (74 bp):
TTGACTTGCAATATTATCCCAGTCGATTCCATAATTTCGACTTACTGTGTTATCCTAATCATTTT
CTTTACTTC
Found at i:6195132 original size:14 final size:14
Alignment explanation
Indices: 6195090--6195181 Score: 80
Period size: 14 Copynumber: 6.4 Consensus size: 14
6195080 TCTTTAATTA
6195090 AAAAGTTAAAACCCT
1 AAAA-TTAAAACCCT
6195105 -AAATCTCAAAACCCT
1 AAAAT-T-AAAACCCT
*
6195120 AAAATTGAAACCCT
1 AAAATTAAAACCCT
* *
6195134 AAATTTAAAACCGT
1 AAAATTAAAACCCT
*
6195148 -AAATCCAAAACCCT
1 AAAAT-TAAAACCCT
*
6195162 AAATACTAAAACCCT
1 AAA-ATTAAAACCCT
6195177 AAAAT
1 AAAAT
6195182 CCAAACCTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
13 4 0.07
14 30 0.49
15 22 0.36
16 5 0.08
ACGTcount: A:0.52, C:0.24, G:0.03, T:0.21
Consensus pattern (14 bp):
AAAATTAAAACCCT
Found at i:6195174 original size:43 final size:43
Alignment explanation
Indices: 6195095--6195179 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
6195085 AATTAAAAAG
* *
6195095 TTAAAACCCTAAATCTCAAAACCCTAAAATTGAAACCCTAAAT
1 TTAAAACCCTAAATCTCAAAACCCTAAAACTAAAACCCTAAAT
*
6195138 TTAAAACCGTAAATC-CAAAACCCTAAATACTAAAACCCTAAA
1 TTAAAACCCTAAATCTCAAAACCCTAAA-ACTAAAACCCTAAA
6195180 ATCCAAACCT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 12 0.32
43 26 0.68
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (43 bp):
TTAAAACCCTAAATCTCAAAACCCTAAAACTAAAACCCTAAAT
Found at i:6195188 original size:43 final size:42
Alignment explanation
Indices: 6195097--6195201 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 42
6195087 TTAAAAAGTT
* * * *
6195097 AAAACCCTAAATCTCAAAACCCTAAAATTGAAACCCTAAATTT
1 AAAACCCTAAATC-CAAAACCCTAAAACTAAAACCCTAAAATC
*
6195140 AAAACCGTAAATCCAAAACCCTAAATACTAAAACCCTAAAATC
1 AAAACCCTAAATCCAAAACCCTAAA-ACTAAAACCCTAAAATC
* *
6195183 CAAACCTTAAATCCCAAAA
1 AAAACCCTAAAT-CCAAAA
6195202 TTTAAACCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 12 0.23
43 35 0.66
44 6 0.11
ACGTcount: A:0.51, C:0.28, G:0.02, T:0.19
Consensus pattern (42 bp):
AAAACCCTAAATCCAAAACCCTAAAACTAAAACCCTAAAATC
Found at i:6195199 original size:14 final size:14
Alignment explanation
Indices: 6195140--6195201 Score: 54
Period size: 14 Copynumber: 4.3 Consensus size: 14
6195130 CCCTAAATTT
*
6195140 AAAACCGTAAATCC
1 AAAACCTTAAATCC
* *
6195154 AAAACCCTAAATACT
1 AAAACCTTAAAT-CC
*
6195169 AAAACCCTAAAATCC
1 AAAA-CCTTAAATCC
6195184 -AAACCTTAAATCCC
1 AAAACCTTAAAT-CC
6195198 AAAA
1 AAAA
6195202 TTTAAACCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
13 7 0.18
14 16 0.42
15 9 0.24
16 6 0.16
ACGTcount: A:0.53, C:0.29, G:0.02, T:0.16
Consensus pattern (14 bp):
AAAACCTTAAATCC
Found at i:6195201 original size:21 final size:22
Alignment explanation
Indices: 6195168--6195215 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
6195158 CCCTAAATAC
6195168 TAAAACCCTAAAATCCAAACCT
1 TAAAACCCTAAAATCCAAACCT
* **
6195190 TAAATCCC-AAAATTTAAACCT
1 TAAAACCCTAAAATCCAAACCT
6195211 TAAAA
1 TAAAA
6195216 TCAAAGCACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAAACCCTAAAATCCAAACCT
Found at i:6195279 original size:29 final size:29
Alignment explanation
Indices: 6195240--6195489 Score: 185
Period size: 29 Copynumber: 8.7 Consensus size: 29
6195230 TATAAAGCCT
*
6195240 CAAACCCTAAAATCGAAACCTTAAAACTC
1 CAAATCCTAAAATCGAAACCTTAAAACTC
* **
6195269 CAAATCTTAAAATCGAAA-CTCCAAAC-C
1 CAAATCCTAAAATCGAAACCTTAAAACTC
* * *
6195296 TCAAATCTTAAAATCAAAATCC-TAAAACCTT
1 -CAAATCCTAAAATCGAAA-CCTTAAAA-CTC
* * *
6195327 AAAACCCTAAAATCAAAACCTTAAAACTC
1 CAAATCCTAAAATCGAAACCTTAAAACTC
**
6195356 CAAATCCTAAAATCGAAA-CTCCAAAC-C
1 CAAATCCTAAAATCGAAACCTTAAAACTC
* * ** *
6195383 TCAAAT-CTTAAATCAAAACCCCAAACCT-
1 -CAAATCCTAAAATCGAAACCTTAAAACTC
6195411 CAAA-CCTTAAAATCGAAACCTTAAAAC-C
1 CAAATCC-TAAAATCGAAACCTTAAAACTC
* *
6195439 TTAAATCCCTAAAATCGAAACCCTAAAACTC
1 -CAAAT-CCTAAAATCGAAACCTTAAAACTC
* *
6195470 CAAACCCTAAAATTGAAACC
1 CAAATCCTAAAATCGAAACC
6195490 CCAAACCTTA
Statistics
Matches: 173, Mismatches: 32, Indels: 32
0.73 0.14 0.14
Matches are distributed among these distances:
27 17 0.10
28 54 0.31
29 55 0.32
30 44 0.25
31 3 0.02
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (29 bp):
CAAATCCTAAAATCGAAACCTTAAAACTC
Found at i:6195327 original size:22 final size:23
Alignment explanation
Indices: 6195255--6195367 Score: 94
Period size: 22 Copynumber: 5.1 Consensus size: 23
6195245 CCTAAAATCG
* *
6195255 AAACCTTAAAACTCCAAATCTTA
1 AAACCTTAAAACTCAAAATCCTA
** * *
6195278 AAA--TCGAAACTCCAAA-CCTC
1 AAACCTTAAAACTCAAAATCCTA
*
6195298 AAATCTTAAAA-TCAAAATCCTA
1 AAACCTTAAAACTCAAAATCCTA
*
6195320 AAACCTTAAAACCCTAAAAT-C-A
1 AAACCTTAAAACTC-AAAATCCTA
*
6195342 AAACCTTAAAACTCCAAATCCTA
1 AAACCTTAAAACTCAAAATCCTA
6195365 AAA
1 AAA
6195368 TCGAAACTCC
Statistics
Matches: 71, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
20 5 0.07
21 20 0.28
22 32 0.45
23 9 0.13
24 5 0.07
ACGTcount: A:0.51, C:0.27, G:0.01, T:0.21
Consensus pattern (23 bp):
AAACCTTAAAACTCAAAATCCTA
Found at i:6195351 original size:87 final size:84
Alignment explanation
Indices: 6195241--6195459 Score: 323
Period size: 87 Copynumber: 2.6 Consensus size: 84
6195231 ATAAAGCCTC
*
6195241 AAACCCTAAAATCGAAACCTTAAAACTCCAAATCTTAAAATCGAAACTCCAAACCTCAAATCTTA
1 AAACCCTAAAATCGAAACCTTAAAACTCCAAATCCTAAAATCGAAACTCCAAACCTCAAATCTT-
*
6195306 AAATCAAAATCCTAAAACCTTA
65 AAATCAAAA-CCCAAAACC-TA
*
6195328 AAACCCTAAAATCAAAACCTTAAAACTCCAAATCCTAAAATCGAAACTCCAAACCTCAAATCTTA
1 AAACCCTAAAATCGAAACCTTAAAACTCCAAATCCTAAAATCGAAACTCCAAACCTCAAATCTTA
* *
6195393 AATCAAAACCCCAAACCTC
66 AATCAAAACCCAAAACCTA
* *
6195412 AAACCTTAAAATCGAAACCTTAAAAC-CTTAAATCCCTAAAATCGAAAC
1 AAACCCTAAAATCGAAACCTTAAAACTC-CAAAT-CCTAAAATCGAAAC
6195460 CCTAAAACTC
Statistics
Matches: 122, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
83 1 0.01
84 29 0.24
85 21 0.17
86 9 0.07
87 62 0.51
ACGTcount: A:0.49, C:0.28, G:0.02, T:0.20
Consensus pattern (84 bp):
AAACCCTAAAATCGAAACCTTAAAACTCCAAATCCTAAAATCGAAACTCCAAACCTCAAATCTTA
AATCAAAACCCAAAACCTA
Found at i:6195374 original size:21 final size:20
Alignment explanation
Indices: 6195350--6195389 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6195340 CAAAACCTTA
6195350 AAACTCCAAATCCTAAAATCG
1 AAACTCCAAA-CCTAAAATCG
*
6195371 AAACTCCAAACCTCAAATC
1 AAACTCCAAACCTAAAATC
6195390 TTAAATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.47, C:0.33, G:0.03, T:0.17
Consensus pattern (20 bp):
AAACTCCAAACCTAAAATCG
Found at i:6195490 original size:14 final size:14
Alignment explanation
Indices: 6195241--6195490 Score: 107
Period size: 14 Copynumber: 17.4 Consensus size: 14
6195231 ATAAAGCCTC
6195241 AAACCCTAAAATCG
1 AAACCCTAAAATCG
* *
6195255 AAACCTTAAAACTCC
1 AAACCCTAAAA-TCG
* *
6195270 AAATCTTAAAATCG
1 AAACCCTAAAATCG
*
6195284 AAACTCC-AAACCTC-
1 AAAC-CCTAAA-ATCG
* * *
6195298 AAATCTTAAAATCA
1 AAACCCTAAAATCG
* **
6195312 AAATCCTAAAACCTTA
1 AAACCCTAAAA--TCG
*
6195328 AAACCCTAAAATCA
1 AAACCCTAAAATCG
* *
6195342 AAACCTTAAAACTCC
1 AAACCCTAAAA-TCG
*
6195357 AAATCCTAAAATCG
1 AAACCCTAAAATCG
*
6195371 AAACTCC-AAACCTC-
1 AAAC-CCTAAA-ATCG
* * *
6195385 AAA-TCTTAAATCA
1 AAACCCTAAAATCG
* *
6195398 AAACCCCAAACCTC-
1 AAACCCTAAA-ATCG
*
6195412 AAACCTTAAAATCG
1 AAACCCTAAAATCG
* * *
6195426 AAACCTTAAAACCTT
1 AAACCCTAAAATC-G
6195441 AAATCCCTAAAATCG
1 AAA-CCCTAAAATCG
*
6195456 AAACCCTAAAACTCC
1 AAACCCTAAAA-TCG
*
6195471 AAACCCTAAAATTG
1 AAACCCTAAAATCG
6195485 AAACCC
1 AAACCC
6195491 CAAACCTTAA
Statistics
Matches: 179, Mismatches: 39, Indels: 36
0.70 0.15 0.14
Matches are distributed among these distances:
12 3 0.02
13 10 0.06
14 95 0.53
15 51 0.28
16 20 0.11
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (14 bp):
AAACCCTAAAATCG
Found at i:6195490 original size:29 final size:29
Alignment explanation
Indices: 6195240--6195574 Score: 207
Period size: 30 Copynumber: 11.8 Consensus size: 29
6195230 TATAAAGCCT
*
6195240 CAAACCCTAAAATCGAAACCTTAAAACTC
1 CAAACCCTAAAATCGAAACCCTAAAACTC
* * *
6195269 CAAATCTTAAAATCGAAACTCC-AAACCT-
1 CAAACCCTAAAATCGAAAC-CCTAAAACTC
* * * * *
6195297 CAAATCTTAAAATCAAAATCCTAAAACCTT
1 CAAACCCTAAAATCGAAACCCTAAAA-CTC
* * *
6195327 AAAACCCTAAAATCAAAACCTTAAAACTC
1 CAAACCCTAAAATCGAAACCCTAAAACTC
* *
6195356 CAAATCCTAAAATCGAAACTCC-AAACCT-
1 CAAACCCTAAAATCGAAAC-CCTAAAACTC
* * * * *
6195384 CAAA-TCTTAAATCAAAACCCCAAACCT-
1 CAAACCCTAAAATCGAAACCCTAAAACTC
* *
6195411 CAAACCTTAAAATCGAAACCTTAAAAC-C
1 CAAACCCTAAAATCGAAACCCTAAAACTC
*
6195439 TTAAATCCCTAAAATCGAAACCCTAAAACTC
1 -CAAA-CCCTAAAATCGAAACCCTAAAACTC
*
6195470 CAAACCCTAAAATTGAAA--C-----C-C
1 CAAACCCTAAAATCGAAACCCTAAAACTC
*
6195491 CAAACCTTAAAATCGAAACCCTAAAAC-C
1 CAAACCCTAAAATCGAAACCCTAAAACTC
* * * *
6195519 TCAAACCCCTAAAATCAAAATCTTAAACCCTC
1 -CAAA-CCCTAAAATCGAAACCCTAAA-ACTC
* * *
6195551 CAAACTCTAAAATCAAAAACCTAA
1 CAAACCCTAAAATCGAAACCCTAA
6195575 TCCCTAAACC
Statistics
Matches: 241, Mismatches: 43, Indels: 43
0.74 0.13 0.13
Matches are distributed among these distances:
21 17 0.07
22 1 0.00
23 1 0.00
26 2 0.01
27 24 0.10
28 41 0.17
29 67 0.28
30 81 0.34
31 6 0.02
32 1 0.00
ACGTcount: A:0.49, C:0.30, G:0.02, T:0.19
Consensus pattern (29 bp):
CAAACCCTAAAATCGAAACCCTAAAACTC
Found at i:6195493 original size:21 final size:21
Alignment explanation
Indices: 6195464--6195511 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
6195454 CGAAACCCTA
* *
6195464 AAACTCCAAACCCTAAAATTG
1 AAACCCCAAACCCTAAAATCG
*
6195485 AAACCCCAAACCTTAAAATCG
1 AAACCCCAAACCCTAAAATCG
6195506 AAACCC
1 AAACCC
6195512 TAAAACCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.48, C:0.33, G:0.04, T:0.15
Consensus pattern (21 bp):
AAACCCCAAACCCTAAAATCG
Found at i:6195508 original size:80 final size:81
Alignment explanation
Indices: 6195405--6195563 Score: 230
Period size: 80 Copynumber: 2.0 Consensus size: 81
6195395 TCAAAACCCC
* * * * *
6195405 AAACCTCAAACCTTAAAATCGAAACCTTAAAACCTTAAATCCCTAAAATCGAAACCCTAAA-ACT
1 AAACCCCAAACCTTAAAATCGAAACCCTAAAACCTCAAACCCCTAAAATCAAAACCCTAAACACT
6195469 CCAAACCCTAAAATTG
66 CCAAACCCTAAAATTG
* * *
6195485 AAACCCCAAACCTTAAAATCGAAACCCTAAAACCTCAAACCCCTAAAATCAAAATCTTAAACCCT
1 AAACCCCAAACCTTAAAATCGAAACCCTAAAACCTCAAACCCCTAAAATCAAAACCCTAAACACT
*
6195550 CCAAACTCTAAAAT
66 CCAAACCCTAAAAT
6195564 CAAAAACCTA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
80 54 0.78
81 15 0.22
ACGTcount: A:0.48, C:0.31, G:0.03, T:0.19
Consensus pattern (81 bp):
AAACCCCAAACCTTAAAATCGAAACCCTAAAACCTCAAACCCCTAAAATCAAAACCCTAAACACT
CCAAACCCTAAAATTG
Found at i:6198261 original size:2 final size:2
Alignment explanation
Indices: 6198254--6198293 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6198244 TCCTTTGCTA
6198254 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6198294 TCACGGCTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6202885 original size:111 final size:111
Alignment explanation
Indices: 6202691--6202904 Score: 349
Period size: 111 Copynumber: 1.9 Consensus size: 111
6202681 CCCTTACTGA
* * *
6202691 GAAAAGGCGTGTGGCTTTGACATGATGGCGCATTCCACAAAAGCCAAGAAAAAAAAAAGGGTCAA
1 GAAAAGGCGTGTGGCTTTAACATGATGGCGCATTCAACAAAAGCCAAGAAAAAAAAAAGGCTCAA
*
6202756 ACAATCGGAAAAAGAAGCCGCTCGAAGATAGAAAATCCTTAACAGG
66 ACAATCGGAAAAAGAAGCCACTCGAAGATAGAAAATCCTTAACAGG
* *
6202802 GAAAAGGCGTGTTGCTTTAACATGATGGCGCATTCAACAAAAGCCAA-AAAAAAGAAAGGCTCAA
1 GAAAAGGCGTGTGGCTTTAACATGATGGCGCATTCAACAAAAGCCAAGAAAAAAAAAAGGCTCAA
*
6202866 ACAATCGGAAAAAGAAAGCCACTCGAAGATAGGAAATCC
66 ACAATCGGAAAAAG-AAGCCACTCGAAGATAGAAAATCC
6202905 AGATTGAGAG
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
110 29 0.31
111 66 0.69
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.14
Consensus pattern (111 bp):
GAAAAGGCGTGTGGCTTTAACATGATGGCGCATTCAACAAAAGCCAAGAAAAAAAAAAGGCTCAA
ACAATCGGAAAAAGAAGCCACTCGAAGATAGAAAATCCTTAACAGG
Found at i:6205680 original size:13 final size:13
Alignment explanation
Indices: 6205649--6205681 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
6205639 TGTATATTGT
*
6205649 TATATAATATATA
1 TATATTATATATA
6205662 TATATTATATATA
1 TATATTATATATA
6205675 TATATTA
1 TATATTA
6205682 GATAACGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATTATATATA
Found at i:6217947 original size:61 final size:62
Alignment explanation
Indices: 6217877--6217994 Score: 166
Period size: 61 Copynumber: 1.9 Consensus size: 62
6217867 ATTTTTGGAA
* * * *
6217877 AAGTTTTAAAATTTTTTGAAAATCCAAAAATTTAAAAATTT-TCTAGAATTTCTTTTCCTAT
1 AAGTCTTAAAACTTTTTGAAAATCCAAAAATTTAAAAATTTATCGAGAATTTATTTTCCTAT
* * *
6217938 AAGTCTTAAAGCTTTTTGAAAATCTAAAAATTTAAAGATTTATCGAGAATTTATTTT
1 AAGTCTTAAAACTTTTTGAAAATCCAAAAATTTAAAAATTTATCGAGAATTTATTTT
6217995 TGAAAAACTT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
61 36 0.73
62 13 0.27
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (62 bp):
AAGTCTTAAAACTTTTTGAAAATCCAAAAATTTAAAAATTTATCGAGAATTTATTTTCCTAT
Found at i:6218022 original size:62 final size:61
Alignment explanation
Indices: 6217875--6218025 Score: 151
Period size: 61 Copynumber: 2.5 Consensus size: 61
6217865 TGATTTTTGG
* ** * * * *
6217875 AAAAGTTTTAAAATTTTTTGAAAATCCAAAAATTTAAAAATTTTCTAGAATTTCTTTTCCT
1 AAAAGTCTTAAAGCTTTTTGAAAATCTAAAAATTTAAAAATTTTCGAGAATTTATTTTCCA
* * **
6217936 ATAAGTCTTAAAGCTTTTTGAAAATCTAAAAATTTAAAGATTTATCGAGAATTTATTTTTGA
1 AAAAGTCTTAAAGCTTTTTGAAAATCTAAAAATTTAAAAATTT-TCGAGAATTTATTTTCCA
* * *
6217998 AAAACTTTTTGAAG-TTTTTGAAAATCTA
1 AAAA-GTCTTAAAGCTTTTTGAAAATCTA
6218026 TTTTTGAAAA
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
61 37 0.51
62 30 0.41
63 6 0.08
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (61 bp):
AAAAGTCTTAAAGCTTTTTGAAAATCTAAAAATTTAAAAATTTTCGAGAATTTATTTTCCA
Found at i:6218246 original size:24 final size:21
Alignment explanation
Indices: 6218219--6218269 Score: 50
Period size: 21 Copynumber: 2.3 Consensus size: 21
6218209 AAAAAAGATG
6218219 AAAGAGGAAGAAGAAGAACCAAA
1 AAAGAGGAA-AAGAAGAA-CAAA
* *
6218242 AAA-AGGAAAAGAGGAAGAAAA
1 AAAGAGGAAAAGAAGAA-CAAA
6218263 AAAGAGG
1 AAAGAGG
6218270 CATGAAGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 13 0.54
22 8 0.33
23 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.29, T:0.00
Consensus pattern (21 bp):
AAAGAGGAAAAGAAGAACAAA
Found at i:6233546 original size:36 final size:36
Alignment explanation
Indices: 6233499--6233571 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
6233489 GAACAGAGGG
6233499 TGGTTGTTTCTTTGGAAGGGCTATAATTGCTTTATA
1 TGGTTGTTTCTTTGGAAGGGCTATAATTGCTTTATA
6233535 TGGTTGTTTCTTTGGAAGGGCTATAATTGCTTTATA
1 TGGTTGTTTCTTTGGAAGGGCTATAATTGCTTTATA
6233571 T
1 T
6233572 ACTTTTGCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.19, C:0.08, G:0.25, T:0.48
Consensus pattern (36 bp):
TGGTTGTTTCTTTGGAAGGGCTATAATTGCTTTATA
Found at i:6234436 original size:24 final size:24
Alignment explanation
Indices: 6234386--6234436 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
6234376 AATTAATATA
*
6234386 TTAATATTAAAAGTCTTCTATATT
1 TTAATATTAAAAGTCTTCTATAAT
*
6234410 TTAATATTAAATA-TCTTTTATAAT
1 TTAATATTAAA-AGTCTTCTATAAT
6234434 TTA
1 TTA
6234437 GCTCAAGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (24 bp):
TTAATATTAAAAGTCTTCTATAAT
Found at i:6234680 original size:20 final size:20
Alignment explanation
Indices: 6234624--6234745 Score: 95
Period size: 20 Copynumber: 5.8 Consensus size: 20
6234614 TCATAAATAA
6234624 TAAATAATATTATAATATTATTT
1 TAAATAATA-T-TAATATTA-TT
*
6234647 TAATAATAAATATTAATATGATT
1 T-A-AAT-AATATTAATATTATT
**
6234670 TAAATAATATTTTTATTATT
1 TAAATAATATTAATATTATT
*
6234690 TTAAT-A-ATTAATATTATT
1 TAAATAATATTAATATTATT
* *
6234708 TAATATCATATTAATACTATT
1 TAA-ATAATATTAATATTATT
* *
6234729 TTAATAATATGAATATT
1 TAAATAATATTAATATT
6234746 TTATATATTT
Statistics
Matches: 80, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
18 12 0.15
19 3 0.04
20 28 0.35
21 16 0.20
22 1 0.01
23 4 0.05
24 8 0.10
25 4 0.05
26 4 0.05
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TAAATAATATTAATATTATT
Found at i:6234730 original size:39 final size:38
Alignment explanation
Indices: 6234658--6234745 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 38
6234648 AATAATAAAT
* ** *
6234658 ATTAATATGATTTAAATAATATTTTTATTATTTTAATA
1 ATTAATATTATTTAAATAATATTAATACTATTTTAATA
*
6234696 ATTAATATTATTTAATATCATATTAATACTATTTTAATA
1 ATTAATATTATTTAA-ATAATATTAATACTATTTTAATA
6234735 ATATGAATATT
1 AT-T-AATATT
6234746 TTATATATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 14 0.33
39 21 0.50
40 1 0.02
41 6 0.14
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (38 bp):
ATTAATATTATTTAAATAATATTAATACTATTTTAATA
Found at i:6234732 original size:11 final size:10
Alignment explanation
Indices: 6234630--6234770 Score: 50
Period size: 11 Copynumber: 14.0 Consensus size: 10
6234620 ATAATAAATA
*
6234630 ATATTATAAT
1 ATATTTTAAT
6234640 ATTATTTTAAT
1 A-TATTTTAAT
*
6234651 AATAAATATTAAT
1 -AT--ATTTTAAT
*
6234664 ATGATTTAAAT
1 AT-ATTTTAAT
*
6234675 AATATTTTTAT
1 -ATATTTTAAT
6234686 -TATTTTAAT
1 ATATTTTAAT
6234695 A-A--TTAAT
1 ATATTTTAAT
6234702 AT-TATTTAAT
1 ATAT-TTTAAT
*
6234712 ATCATATTAAT
1 AT-ATTTTAAT
6234723 ACTATTTTAAT
1 A-TATTTTAAT
* *
6234734 A-A-TATGA-
1 ATATTTTAAT
6234741 ATATTTT-AT
1 ATATTTTAAT
6234750 ATATTTTCTAAT
1 ATA-TTT-TAAT
6234762 AT-TTTTAAT
1 ATATTTTAAT
6234771 TTAAAATATA
Statistics
Matches: 99, Mismatches: 13, Indels: 39
0.66 0.09 0.26
Matches are distributed among these distances:
7 7 0.07
8 5 0.05
9 19 0.19
10 14 0.14
11 36 0.36
12 11 0.11
13 7 0.07
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (10 bp):
ATATTTTAAT
Found at i:6234908 original size:21 final size:21
Alignment explanation
Indices: 6234871--6234923 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
6234861 TAATAATATA
6234871 TATTTTCAATATAAAATATAAC
1 TATTTT-AATATAAAATATAAC
* *
6234893 TATTTTAATATCAAATATTAC
1 TATTTTAATATAAAATATAAC
6234914 TATTTTAATA
1 TATTTTAATA
6234924 CTATTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (21 bp):
TATTTTAATATAAAATATAAC
Found at i:6234966 original size:6 final size:6
Alignment explanation
Indices: 6234948--6234982 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
6234938 AAATAATATT
6234948 TTAATA TTAAATA TTAATA TTAATA TTAATA TTAA
1 TTAATA TT-AATA TTAATA TTAATA TTAATA TTAA
6234983 AAAATAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TTAATA
Found at i:6236121 original size:16 final size:17
Alignment explanation
Indices: 6236076--6236124 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
6236066 TTTTAAAATT
6236076 TTAAAAATA-TATTTTCTA
1 TTAAAAATATTA-TTT-TA
6236094 TTAAAAATATTATTTTA
1 TTAAAAATATTATTTTA
*
6236111 TTAATAA-ATTATTT
1 TTAAAAATATTATTT
6236125 CAAATAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 7 0.24
17 8 0.28
18 12 0.41
19 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATATTATTTTA
Found at i:6236150 original size:13 final size:13
Alignment explanation
Indices: 6236134--6236186 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
6236124 TCAAATAAAA
6236134 TTTAAAAATATAT
1 TTTAAAAATATAT
*
6236147 TTTAAATTATAATAT
1 TTTAAA-AAT-ATAT
*
6236162 TTTAAAAATAAAT
1 TTTAAAAATATAT
* *
6236175 TTGAAATATATA
1 TTTAAAAATATA
6236187 AAAAAGTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
13 18 0.56
14 4 0.12
15 10 0.31
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
TTTAAAAATATAT
Found at i:6236158 original size:27 final size:28
Alignment explanation
Indices: 6236128--6236189 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
6236118 ATTATTTCAA
* *
6236128 ATAAAATTTAAAAATATATTTTAAAT-T
1 ATAAAATTTAAAAATAAATTTGAAATAT
*
6236155 ATAATATTTTAAAAATAAATTTGAAATAT
1 ATAA-AATTTAAAAATAAATTTGAAATAT
6236184 ATAAAA
1 ATAAAA
6236190 AAGTTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.14
28 20 0.69
29 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (28 bp):
ATAAAATTTAAAAATAAATTTGAAATAT
Found at i:6237284 original size:2 final size:2
Alignment explanation
Indices: 6237277--6237304 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6237267 TCGAAGCTCG
6237277 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
6237305 CATTCTTTTA
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:6240206 original size:2 final size:2
Alignment explanation
Indices: 6240193--6240224 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6240183 AACATCCCTT
*
6240193 TG TG TG TT TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
6240225 GATTAATCTT
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:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:6241624 original size:16 final size:17
Alignment explanation
Indices: 6241603--6241637 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6241593 TAATAATTTA
*
6241603 AATTTTAA-TAATAGAT
1 AATTTTAATTAATAAAT
6241619 AATTTTAATTAATAAAT
1 AATTTTAATTAATAAAT
6241636 AA
1 AA
6241638 ATTATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AATTTTAATTAATAAAT
Found at i:6241644 original size:21 final size:20
Alignment explanation
Indices: 6241607--6241651 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
6241597 AATTTAAATT
*
6241607 TTAATAATAGATAATTTTAA
1 TTAATAATAAATAATTTTAA
* *
6241627 TTAATAAATAAATTATTTTAT
1 TTAAT-AATAAATAATTTTAA
6241648 TTAA
1 TTAA
6241652 ATTTTCGTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TTAATAATAAATAATTTTAA
Found at i:6241684 original size:5 final size:5
Alignment explanation
Indices: 6241672--6241710 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
6241662 ATATCAAATA
* * *
6241672 TTATT TAATT TAATA TTATT TTATT TTATT TTATT TTAT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTAT
6241711 CATAATCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (5 bp):
TTATT
Found at i:6241708 original size:15 final size:15
Alignment explanation
Indices: 6241668--6241710 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
6241658 GTACATATCA
*
6241668 AATATTATTTAATTT
1 AATATTATTTTATTT
6241683 AATATTATTTTATTT
1 AATATTATTTTATTT
* *
6241698 TATTTTATTTTAT
1 AATATTATTTTAT
6241711 CATAATCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
AATATTATTTTATTT
Found at i:6253068 original size:20 final size:22
Alignment explanation
Indices: 6253043--6253111 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 22
6253033 TATAAATTTT
6253043 TTATTA-AAT-TTTTTTAATTA
1 TTATTACAATATTTTTTAATTA
6253063 TTATTACAATAATTTTTTAATT-
1 TTATTACAAT-ATTTTTTAATTA
* **
6253085 TTAATTATAATAAATTTT-ATTA
1 TT-ATTACAATATTTTTTAATTA
6253107 TTATT
1 TTATT
6253112 TTTAATCTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
20 6 0.15
21 9 0.22
22 9 0.22
23 17 0.41
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (22 bp):
TTATTACAATATTTTTTAATTA
Found at i:6253082 original size:23 final size:23
Alignment explanation
Indices: 6253052--6253111 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
6253042 TTTATTAAAT
6253052 TTTTTTAATTATTATTACAATAA
1 TTTTTTAATTATTATTACAATAA
*
6253075 TTTTTTAATT-TTAATTATAATAA
1 TTTTTTAATTATT-ATTACAATAA
*
6253098 -ATTTT-ATTATTATT
1 TTTTTTAATTATTATT
6253112 TTTAATCTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 6 0.18
22 8 0.24
23 19 0.58
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTTTAATTATTATTACAATAA
Found at i:6259154 original size:17 final size:17
Alignment explanation
Indices: 6259093--6259155 Score: 58
Period size: 18 Copynumber: 3.7 Consensus size: 17
6259083 TTTAAAATTA
*
6259093 TTTGATA-AATAAAAAAA
1 TTTGATAGAA-AAAAAAT
*
6259110 TTT-ATAGAATAAAAAT
1 TTTGATAGAAAAAAAAT
* *
6259126 TTTAAAAGGAAAAAAAAT
1 TTTGATA-GAAAAAAAAT
6259144 TTTGATAGAAAA
1 TTTGATAGAAAA
6259156 TTTTATATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 11 0.30
17 12 0.32
18 14 0.38
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (17 bp):
TTTGATAGAAAAAAAAT
Found at i:6277349 original size:40 final size:40
Alignment explanation
Indices: 6277305--6277382 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
6277295 TTTATTTTTT
* *
6277305 TCATATTTTCAACAAAAATTATATTTTTATTTTAAAAAAA
1 TCATATTTTCAACAAAAACTATATTTTTATCTTAAAAAAA
* *
6277345 TCATATTTTTAATAAAAACTATATTTTTATCTTAAAAA
1 TCATATTTTCAACAAAAACTATATTTTTATCTTAAAAA
6277383 CCTCATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (40 bp):
TCATATTTTCAACAAAAACTATATTTTTATCTTAAAAAAA
Found at i:6277380 original size:20 final size:19
Alignment explanation
Indices: 6277318--6277383 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 19
6277308 TATTTTCAAC
*
6277318 AAAAATTATATTTTTATTTT
1 AAAAACTATATTTTTA-TTT
* *
6277338 AAAAAAATCATATTTTTA-AT
1 -AAAAACT-ATATTTTTATTT
6277358 AAAAACTATATTTTTATCTT
1 AAAAACTATATTTTTAT-TT
6277378 AAAAAC
1 AAAAAC
6277384 CTCATTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 9 0.24
19 6 0.16
20 8 0.21
21 6 0.16
22 9 0.24
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAAACTATATTTTTATTT
Found at i:6277428 original size:114 final size:110
Alignment explanation
Indices: 6277297--6277566 Score: 342
Period size: 114 Copynumber: 2.4 Consensus size: 110
6277287 TTTTATTTTT
* *
6277297 TATTTTTTTCATATTTTCAACAAAAATTATATTTTTATTTTAAAAAAATCATATTTTTAATAAAA
1 TATTTATTTCATATTTTCAACAAAAATTATATTTTTATTTTAAAAAAATCATATTTTCAATAAAA
* *
6277362 ACTATATTTTTATCTTAAAAACCTCATTTTTATTGAATTCTAAAAAA
66 ACTATATTTTTATCTTAAAAACATCATTTTTATTAAATT-T-AAAAA
* * *
6277409 TATATGTATTTCATATTTTCAACAAAAATTATATTTTTATTTTAAAAATATTATCTTTTCAATAA
1 TAT-T-TATTTCATATTTTCAACAAAAATTATATTTTTATTTTAAAAAAATCATATTTTCAATAA
* * * * * *
6277474 AAATTGTATTTTTATTTTAAAAGCATCATTTTTGTTAAATTTTAAAA
64 AAACTATATTTTTATCTTAAAAACATCATTTTTATTAAATTTAAAAA
* * * * *
6277521 TATTTTTTTTACATTTTCAACAAAAATTACATTTTTATCTTAAAAA
1 TATTTATTTCATATTTTCAACAAAAATTATATTTTTATTTTAAAAA
6277567 CACCAATTTT
Statistics
Matches: 138, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
110 37 0.27
111 1 0.01
112 10 0.07
113 2 0.01
114 88 0.64
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (110 bp):
TATTTATTTCATATTTTCAACAAAAATTATATTTTTATTTTAAAAAAATCATATTTTCAATAAAA
ACTATATTTTTATCTTAAAAACATCATTTTTATTAAATTTAAAAA
Found at i:6277457 original size:20 final size:20
Alignment explanation
Indices: 6277432--6277495 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
6277422 TATTTTCAAC
6277432 AAAAATTATATTTTTATTTT
1 AAAAATTATATTTTTATTTT
*
6277452 AAAAA-TATTATCTTTTCA--AT
1 AAAAATTA-TAT-TTTT-ATTTT
*
6277472 AAAAATTGTATTTTTATTTT
1 AAAAATTATATTTTTATTTT
6277492 AAAA
1 AAAA
6277496 GCATCATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
18 1 0.03
19 6 0.17
20 22 0.63
21 5 0.14
22 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (20 bp):
AAAAATTATATTTTTATTTT
Found at i:6277467 original size:22 final size:24
Alignment explanation
Indices: 6277422--6277467 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
6277412 ATGTATTTCA
6277422 TATTTTCAACAAAAATTATATTTT
1 TATTTTCAACAAAAATTATATTTT
* *
6277446 TATTTT-AA-AAATATTATCTTTT
1 TATTTTCAACAAAAATTATATTTT
6277468 CAATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 2 0.10
24 6 0.30
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (24 bp):
TATTTTCAACAAAAATTATATTTT
Found at i:6277546 original size:70 final size:73
Alignment explanation
Indices: 6277464--6277620 Score: 185
Period size: 70 Copynumber: 2.2 Consensus size: 73
6277454 AAATATTATC
* ** * * * * *
6277464 TTTTCAATAAAAATTGTATTTTTATTTTAAAAGCATCATTTTTGTTAAATTTT-AAAAT-ATTTT
1 TTTTCAACAAAAATTACATTTTTATCTTAAAAACACCAATTTTATTAAATTTTAAAAATAATTTT
*
6277527 TT-TTACA
66 TTATAACA
6277534 TTTTCAACAAAAATTACATTTTTATCTTAAAAACACCAATTTTATTAAATTTTGAAAAATAATTT
1 TTTTCAACAAAAATTACATTTTTATCTTAAAAACACCAATTTTATTAAATTTT-AAAAATAATTT
*
6277599 TTTATAATA
65 TTTATAACA
*
6277608 TTTTTAACAAAAA
1 TTTTCAACAAAAA
6277621 GTAAAAAACT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
70 45 0.62
72 5 0.07
73 7 0.10
74 15 0.21
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.48
Consensus pattern (73 bp):
TTTTCAACAAAAATTACATTTTTATCTTAAAAACACCAATTTTATTAAATTTTAAAAATAATTTT
TTATAACA
Found at i:6277797 original size:24 final size:26
Alignment explanation
Indices: 6277751--6277820 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
6277741 TAATATTGCG
* *
6277751 TTAAAAAATAATTTTATTTTAATA-TA
1 TTAAAAAATTA-TTTATTATAATATTA
*
6277777 TTAAAAAATTATTT-TTATAATATTT
1 TTAAAAAATTATTTATTATAATATTA
6277802 TATAAAAAATTATTATATT
1 T-TAAAAAATTATT-TATT
6277821 TTTAAGATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 7 0.19
25 5 0.14
26 22 0.59
27 1 0.03
28 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TTAAAAAATTATTTATTATAATATTA
Found at i:6279363 original size:32 final size:30
Alignment explanation
Indices: 6279327--6279395 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 30
6279317 ATAAAAATAT
*
6279327 TAAAAATACGTATATTAATATTATATTTTACA
1 TAAAAATACGTATATTAAT-TTATA-TTGACA
* *
6279359 TAAAATTTACGTATTTTAATTTATATTGACA
1 TAAAA-ATACGTATATTAATTTATATTGACA
6279390 TAAAAA
1 TAAAAA
6279396 ATATAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 10 0.31
32 10 0.31
33 12 0.38
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (30 bp):
TAAAAATACGTATATTAATTTATATTGACA
Found at i:6279397 original size:33 final size:33
Alignment explanation
Indices: 6279333--6279394 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
6279323 ATATTAAAAA
*
6279333 TACGTATATTAATATTATATTTTACATAAAATT
1 TACGTATATTAATATTATATTTGACATAAAATT
*
6279366 TACGTATTTTAAT-TTATA-TTGACATAAAA
1 TACGTATATTAATATTATATTTGACATAAAA
6279395 AATATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 10 0.37
32 5 0.19
33 12 0.44
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (33 bp):
TACGTATATTAATATTATATTTGACATAAAATT
Found at i:6281380 original size:23 final size:23
Alignment explanation
Indices: 6281339--6281382 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6281329 AAAATACTAA
* **
6281339 AAAAAAATATATATTAAACATTT
1 AAAAAAATAAATAAAAAACATTT
6281362 AAAAAAATAAATAAAAAACAT
1 AAAAAAATAAATAAAAAACAT
6281383 GCCAAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (23 bp):
AAAAAAATAAATAAAAAACATTT
Found at i:6285964 original size:8 final size:7
Alignment explanation
Indices: 6285936--6285961 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6285926 AAAAAGATCA
6285936 GAAAAGG
1 GAAAAGG
6285943 GAAAAGG
1 GAAAAGG
6285950 GAAAAGG
1 GAAAAGG
6285957 GAAAA
1 GAAAA
6285962 AGGACAAGGA
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:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (7 bp):
GAAAAGG
Found at i:6285970 original size:14 final size:14
Alignment explanation
Indices: 6285936--6285970 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6285926 AAAAAGATCA
*
6285936 GAAAAGGGAAAAGG
1 GAAAAGGGAAAAAG
6285950 GAAAAGGGAAAAAG
1 GAAAAGGGAAAAAG
*
6285964 GACAAGG
1 GAAAAGG
6285971 AGGGGAGGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.03, G:0.40, T:0.00
Consensus pattern (14 bp):
GAAAAGGGAAAAAG
Found at i:6287553 original size:117 final size:117
Alignment explanation
Indices: 6287316--6287716 Score: 569
Period size: 117 Copynumber: 3.4 Consensus size: 117
6287306 TTGTGTGGGA
* * *
6287316 AAAATTGATACTTTCAAGTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAGAAAAATTGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTTAAGGAAAATTGA
*
6287381 TACTTTCAACTTTTT-CTCAAAATATTTTTTTTTGAAACTTTGATTTCCAAGG
66 TACTTTCAACTTTTTCCTCAAAA-ATATTTTTTTGAAACTTTGATTTCCAAGG
** *
6287433 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTGAAAATTTATTTCTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTGAAAATTTATTTTTAAGGAAAATTG
* ** * *
6287498 ATACTTTCAACTTTTTCCT-AAAAATATTTGTCGGAAATTTTGATTTTCAAGG
65 ATACTTTCAACTTTTTCCTCAAAAATATTTTTTTGAAACTTTGATTTCCAAGG
*
6287550 AAAATTGATACTTTCAACTTTT-TTCCAAAAATATTTTCTTGAAAATTTATTTTTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTT-TTGAAAATTTATTTTTAAGGAAAATT
*
6287614 GATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTTGAAACCTTGATTTCCAAGG
64 GATACTTTCAACTTTTTCCTCAAAAATA-TTTTTTTGAAACTTTGATTTCCAAGG
6287668 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTGAAAATTT
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATA--TTTTTTGAAAATTT
6287717 TGATTTTCAT
Statistics
Matches: 251, Mismatches: 23, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
116 11 0.04
117 127 0.51
118 97 0.39
119 12 0.05
120 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (117 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTTAAGGAAAATTGA
TACTTTCAACTTTTTCCTCAAAAATATTTTTTTGAAACTTTGATTTCCAAGG
Found at i:6287767 original size:17 final size:16
Alignment explanation
Indices: 6287733--6287813 Score: 74
Period size: 17 Copynumber: 4.6 Consensus size: 16
6287723 TCATTTAAAG
6287733 AAAATAGAATAATAAAAAA
1 AAAATA-AA-AAT-AAAAA
6287752 ACAAATAAAAATAAAAA
1 A-AAATAAAAATAAAAA
6287769 AATAA-AAAAAGTAAAACA
1 AA-AATAAAAA-TAAAA-A
6287787 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAA-A
*
6287804 AAGATAAAAA
1 AAAATAAAAA
6287814 GAATATTAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.11
17 30 0.55
18 11 0.20
19 3 0.05
20 5 0.09
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (16 bp):
AAAATAAAAATAAAAA
Found at i:6287772 original size:26 final size:27
Alignment explanation
Indices: 6287733--6287796 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
6287723 TCATTTAAAG
* * * *
6287733 AAAATAGAATAATAAAAAAA-CAAATA
1 AAAATAAAAAAATAAAAAAAGAAAACA
6287759 AAAATAAAAAAATAAAAAAAGTAAAACA
1 AAAATAAAAAAATAAAAAAAG-AAAACA
6287787 AAAATAAAAA
1 AAAATAAAAA
6287797 TAAAATAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 18 0.56
28 14 0.44
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.12
Consensus pattern (27 bp):
AAAATAAAAAAATAAAAAAAGAAAACA
Found at i:6287772 original size:34 final size:34
Alignment explanation
Indices: 6287728--6287801 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 34
6287718 GATTTTCATT
* *
6287728 TAAAGAAAATAGAATAA-TAAAAAAACAAATAAAAA
1 TAAA-AAAATAAAAAAAGTAAAAAAA-AAATAAAAA
*
6287763 TAAAAAAATAAAAAAAGTAAAACAAAAATAAAAA
1 TAAAAAAATAAAAAAAGTAAAAAAAAAATAAAAA
6287797 TAAAA
1 TAAAA
6287802 TAAAGATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
34 24 0.69
35 11 0.31
ACGTcount: A:0.80, C:0.03, G:0.04, T:0.14
Consensus pattern (34 bp):
TAAAAAAATAAAAAAAGTAAAAAAAAAATAAAAA
Found at i:6287810 original size:11 final size:11
Alignment explanation
Indices: 6287743--6287812 Score: 63
Period size: 11 Copynumber: 6.2 Consensus size: 11
6287733 AAAATAGAAT
*
6287743 AATAAAAAAACA
1 AATAAAAATA-A
6287755 AATAAAAATAA
1 AATAAAAATAA
*
6287766 AA-AAATAAAAA
1 AATAAA-AATAA
6287777 AAGTAAAACA-AA
1 AA-TAAAA-ATAA
6287789 AATAAAAATAA
1 AATAAAAATAA
*
6287800 AATAAAGATAA
1 AATAAAAATAA
6287811 AA
1 AA
6287813 AGAATATTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
10 4 0.08
11 28 0.56
12 14 0.28
13 4 0.08
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.13
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:6287818 original size:26 final size:25
Alignment explanation
Indices: 6287729--6287818 Score: 73
Period size: 26 Copynumber: 3.6 Consensus size: 25
6287719 ATTTTCATTT
*
6287729 AAAGA-AAATAGAATAATAAA-AAAA
1 AAAGATAAAAAGAATAA-AAATAAAA
* *
6287753 CAA-ATAAAAATAA-AAAAATAAAA
1 AAAGATAAAAAGAATAAAAATAAAA
*
6287776 AAAG-TAAAACAAAAATAAAAATAAAA
1 AAAGAT-AAA-AAGAATAAAAATAAAA
6287802 TAAAGATAAAAAGAATA
1 -AAAGATAAAAAGAATA
6287819 TTAAATAATC
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
22 3 0.06
23 10 0.19
24 11 0.21
25 4 0.08
26 16 0.31
27 7 0.13
28 1 0.02
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.13
Consensus pattern (25 bp):
AAAGATAAAAAGAATAAAAATAAAA
Found at i:6287845 original size:4 final size:4
Alignment explanation
Indices: 6287836--6287879 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
6287826 ATCCTAATCT
* * *
6287836 AATA AATA AAAA AATA AATA AATAA AACA AATA AATA AAGA AAT
1 AATA AATA AATA AATA AATA AAT-A AATA AATA AATA AATA AAT
6287880 TCTGAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
4 30 0.91
5 3 0.09
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (4 bp):
AATA
Found at i:6287867 original size:13 final size:13
Alignment explanation
Indices: 6287839--6287874 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
6287829 CTAATCTAAT
*
6287839 AAATAAA-AAAAT
1 AAATAAATAAAAC
6287851 AAATAAATAAAAC
1 AAATAAATAAAAC
6287864 AAATAAATAAA
1 AAATAAATAAA
6287875 GAAATTCTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (13 bp):
AAATAAATAAAAC
Found at i:6287869 original size:17 final size:16
Alignment explanation
Indices: 6287728--6287874 Score: 81
Period size: 16 Copynumber: 9.0 Consensus size: 16
6287718 GATTTTCATT
6287728 TAAAGAAAATAGAAT-AA
1 TAAA-AAAATA-AATAAA
*
6287745 TAAAAAAACAAATAAAAA
1 TAAAAAAATAAAT--AAA
*
6287763 TAAAAAAATAAAAAAA
1 TAAAAAAATAAATAAA
*
6287779 GTAAAACAA-AAATAAA
1 -TAAAAAAATAAATAAA
* *
6287795 -AATAAAAT-AA-AGA
1 TAAAAAAATAAATAAA
*
6287808 TAAAAAGAAT-ATTAAA
1 TAAAAA-AATAAATAAA
*** *
6287824 TAATCCTAATCTAATAAA
1 TAA-AAAAAT-AAATAAA
6287842 TAAAAAAATAAATAAA
1 TAAAAAAATAAATAAA
6287858 TAAAACAAATAAATAAA
1 TAAAA-AAATAAATAAA
6287875 GAAATTCTGA
Statistics
Matches: 99, Mismatches: 19, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
13 2 0.02
14 11 0.11
15 7 0.07
16 33 0.33
17 25 0.25
18 21 0.21
ACGTcount: A:0.74, C:0.04, G:0.03, T:0.18
Consensus pattern (16 bp):
TAAAAAAATAAATAAA
Found at i:6288749 original size:19 final size:19
Alignment explanation
Indices: 6288725--6288761 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
6288715 ATAATTAGAA
6288725 AAGATAAATAAAAAAATAT
1 AAGATAAATAAAAAAATAT
6288744 AAGATAAATAAAAAAATA
1 AAGATAAATAAAAAAATA
6288762 ATAATAATAA
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:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (19 bp):
AAGATAAATAAAAAAATAT
Found at i:6288754 original size:4 final size:4
Alignment explanation
Indices: 6288728--6288979 Score: 80
Period size: 4 Copynumber: 65.2 Consensus size: 4
6288718 ATTAGAAAAG
* *
6288728 ATAA ATAA A-AA A-AT ATAA GATAA ATAA AAAA AT-A AT-A AT-A AT-A
1 ATAA ATAA ATAA ATAA ATAA -ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* * * * * *
6288771 ACAG ATAT ATAA TTAG ATAA AT-A A-AA ATACA A-AA ATAA ATAA A-AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA
6288816 ATAA A-ATA AT-A AT-A AT-A AT-A AT-A ATAA ATAA ATAA ATTATA ATATA
1 ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A-TA-A ATA-A
* * * *
6288862 AT-A ATAA ATAT ATAA CTAT ATAA ATAAA ATACA TATAA ATATTA ACAA
1 ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATA-A -ATAA ATA--A ATAA
* * * * *
6288910 A-AA A-AA ATAA A-AA ATAA ATAA ATAA ATAT ATAC ATAT ATTA ATAC
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
6288955 ATAGTA AT-A ATAA ATAA AT-A ATAA A
1 ATA--A ATAA ATAA ATAA ATAA ATAA A
6288980 ATACATAAAA
Statistics
Matches: 193, Mismatches: 30, Indels: 50
0.71 0.11 0.18
Matches are distributed among these distances:
3 58 0.30
4 105 0.54
5 20 0.10
6 10 0.05
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (4 bp):
ATAA
Found at i:6288764 original size:3 final size:3
Alignment explanation
Indices: 6288758--6288868 Score: 63
Period size: 3 Copynumber: 35.7 Consensus size: 3
6288748 TAAATAAAAA
* *
6288758 AAT AAT AAT AAT AAC AGAT ATAT AATT AGAT AAAT AAA AAT ACA- AA-
1 AAT AAT AAT AAT AAT A-AT A-AT AA-T A-AT -AAT AAT AAT A-AT AAT
6288804 AAT AAAT AA- AAT -AT AA- AAT AAT AAT AAT AAT AAT AAT AAAT AAAT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT
*
6288849 AAAT TAT AAT -AT AAT AAT AA
1 -AAT AAT AAT AAT AAT AAT AA
6288869 ATATATAACT
Statistics
Matches: 89, Mismatches: 7, Indels: 24
0.74 0.06 0.20
Matches are distributed among these distances:
2 11 0.12
3 51 0.57
4 25 0.28
5 2 0.02
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6288765 original size:30 final size:30
Alignment explanation
Indices: 6288693--6288762 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
6288683 ATTCCAAAAT
*
6288693 AAAAATCAAATAAAAAAAATAGATAATTAGA
1 AAAAAT-AAATAAAAAAAATAGATAAATAGA
*
6288724 AAAGATAAATAAAAAAATATAAGATAAATA-A
1 AAAAATAAATAAAAAAA-AT-AGATAAATAGA
6288755 AAAAATAA
1 AAAAATAA
6288763 TAATAATAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.32
31 15 0.44
32 8 0.24
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (30 bp):
AAAAATAAATAAAAAAAATAGATAAATAGA
Found at i:6288820 original size:65 final size:64
Alignment explanation
Indices: 6288715--6288836 Score: 165
Period size: 65 Copynumber: 1.9 Consensus size: 64
6288705 AAAAAAATAG
* *
6288715 ATAATTAGAAAAGATAAATAAAAAAATATAAGATAAATAAAAAAATAATAATAATAACAGATAT
1 ATAATTAGAAAAGAAAAATAAAAAAATATAAGAAAAATAAAAAAATAATAATAATAACAGATAT
* * * *
6288779 ATAATTAGATAAATAAAAATACAAAAATA-AATAAAATATAAAATAATAATAATAATAA
1 ATAATTAGA-AAAGAAAAATAAAAAAATATAAGAAAA-ATAAAAAAATAATAATAATAA
6288837 TAATAAATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 14 0.28
65 36 0.72
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (64 bp):
ATAATTAGAAAAGAAAAATAAAAAAATATAAGAAAAATAAAAAAATAATAATAATAACAGATAT
Found at i:6288857 original size:11 final size:12
Alignment explanation
Indices: 6288757--6288979 Score: 94
Period size: 12 Copynumber: 18.2 Consensus size: 12
6288747 ATAAATAAAA
6288757 AAATAATAATAAT
1 AAAT-ATAATAAT
*
6288770 AACAGATATATAATT
1 AA-ATATA-ATAA-T
*
6288785 AGATA-AATAA-
1 AAATATAATAAT
* *
6288795 AAATACAAAAAT
1 AAATATAATAAT
*
6288807 AAATAAAAT-AT
1 AAATATAATAAT
6288818 AAA-ATAATAAT
1 AAATATAATAAT
6288829 -AATAATAATAAT
1 AAAT-ATAATAAT
6288841 AAATA-AATAAATT
1 AAATATAAT-AA-T
6288854 ATAATATAATAAT
1 A-AATATAATAAT
6288867 AAATATATAACTATAT
1 -AA-ATATAA-TA-AT
*
6288883 AAATAAAATACAT
1 AAATATAATA-AT
* *
6288896 ATAA-ATATTAAC
1 A-AATATAATAAT
*
6288908 AAA-A-AAAAAT
1 AAATATAATAAT
6288918 AAA-A-AATAAAT
1 AAATATAAT-AAT
6288929 AAATA-AATATAT
1 AAATATAATA-AT
* *
6288941 ACATATATTAAT
1 AAATATAATAAT
*
6288953 ACATAGTAATAAT
1 AAATA-TAATAAT
6288966 AAATA-AATAAT
1 AAATATAATAAT
6288977 AAA
1 AAA
6288980 ATACATAAAA
Statistics
Matches: 166, Mismatches: 21, Indels: 48
0.71 0.09 0.20
Matches are distributed among these distances:
10 19 0.11
11 33 0.20
12 41 0.25
13 35 0.21
14 27 0.16
15 9 0.05
16 2 0.01
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (12 bp):
AAATATAATAAT
Found at i:6288857 original size:38 final size:38
Alignment explanation
Indices: 6288803--6288975 Score: 141
Period size: 41 Copynumber: 4.3 Consensus size: 38
6288793 AAAAATACAA
*
6288803 AAATAAATAAAATATAAAATAATAATAATAATAATAAT
1 AAATAAATAAATTATAAAATAATAATAATAATAATAAT
*
6288841 AAATAAATAAATTATAATATAATAATAAATATATAACTATAT
1 AAATAAATAAATTATAAAATAATAAT-AATA-ATAA-TA-AT
* * * * *
6288883 AAATAAAATACA-TATAAATATTAACAAAAAAAAATAAAAAAT
1 AAAT-AAATAAATTATAAA-A-TAA-TAATAATAAT-AATAAT
* * *
6288925 AAATAAATAAATATATACATATATTAATACATAGTAATAAT
1 AAATAAATAAAT-TATA-AAATAATAATA-ATAATAATAAT
6288966 AAATAAATAA
1 AAATAAATAA
6288976 TAAAATACAT
Statistics
Matches: 106, Mismatches: 16, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
38 24 0.23
39 4 0.04
40 4 0.04
41 26 0.25
42 22 0.21
43 15 0.14
44 9 0.08
45 2 0.02
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (38 bp):
AAATAAATAAATTATAAAATAATAATAATAATAATAAT
Found at i:6288868 original size:74 final size:75
Alignment explanation
Indices: 6288730--6288892 Score: 176
Period size: 74 Copynumber: 2.2 Consensus size: 75
6288720 TAGAAAAGAT
* *
6288730 AAATAAA-AAAATATAAGATAAATAAAAAAATAATAATAATAACAGATATATAATTAGATAAATA
1 AAATAAATAAAATATAAAATAAATAAAAAAATAATAATAATAACAAATATATAATTAGATAAATA
6288794 AAAATACAA-
66 AAAATACAAC
* *
6288803 AAATAAATAAAATATAAAAT-AATAATAATAATAATAATAAATAAATAAAT-TATAATATA-AT-
1 AAATAAATAAAATATAAAATAAATAA-AAAAATAATAAT-AAT-AACAAATATATAAT-TAGATA
* *
6288864 AATAAATATATAAC
62 AATAAAAATACAAC
*
6288878 TATATAAATAAAATA
1 -AAATAAATAAAATA
6288893 CATATAAATA
Statistics
Matches: 76, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
73 12 0.16
74 33 0.43
75 11 0.14
76 20 0.26
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (75 bp):
AAATAAATAAAATATAAAATAAATAAAAAAATAATAATAATAACAAATATATAATTAGATAAATA
AAAATACAAC
Found at i:6288982 original size:80 final size:84
Alignment explanation
Indices: 6288802--6288991 Score: 207
Period size: 86 Copynumber: 2.2 Consensus size: 84
6288792 TAAAAATACA
*
6288802 AAAATAAATAAAATATAAAATAATAATAATAATAATAATAAATAAATAAATTATAATATAATAAT
1 AAAAT-AATAAAATATAAAATAATAAAAATAATAATAATAAATAAATAAATTATAATATAATAAT
6288867 AAATATATAACTATATAAAT
65 AAATATATAACTATATAAAT
6288887 AAAATACATATAAATATTAACAA-AA-AAAAATAA-AA-AATAAATAAATAAATATATACATATA
1 AAAATA-ATA-AAATA-TAA-AATAATAAAAATAATAATAATAAATAAATAAAT-TATA-ATATA
* * *
6288948 TTAATACATA-GTAA-TA-ATAAAT
60 ATAATAAATATATAACTATATAAAT
6288970 -AAATAATAAAATACATAAAATA
1 AAAATAATAAAAT--ATAAAATA
6288992 CAAAAGAAAA
Statistics
Matches: 92, Mismatches: 4, Indels: 22
0.78 0.03 0.19
Matches are distributed among these distances:
80 6 0.07
81 7 0.08
82 6 0.07
83 6 0.07
84 18 0.20
85 17 0.18
86 25 0.27
87 5 0.05
88 2 0.02
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (84 bp):
AAAATAATAAAATATAAAATAATAAAAATAATAATAATAAATAAATAAATTATAATATAATAATA
AATATATAACTATATAAAT
Found at i:6289002 original size:80 final size:84
Alignment explanation
Indices: 6288838--6289003 Score: 193
Period size: 80 Copynumber: 2.0 Consensus size: 84
6288828 TAATAATAAT
6288838 AATAAATAAATAAATTATAATATAATAATAAATATATAACTATATAAATAAAATACATATAAATA
1 AATAAATAAATAAATTATAATATAATAATAAATATATAACTATATAAATAAAATACATATAAATA
* *
6288903 TTAACAAAAAAAAATAAAA
66 ATAACAAAAAAAAAGAAAA
* * *
6288922 AATAAATAAATAAATATATACATATATTAATACATA-GTAA-TA-ATAAAT-AAATA-ATA-AAA
1 AATAAATAAATAAAT-TATA-ATATAATAATAAATATATAACTATATAAATAAAATACATATAAA
* *
6288981 TACATAA-AATACAAAAGAAAA
64 TA-ATAACAAAAAAAAAGAAAA
6289002 AA
1 AA
6289004 AATAAAAATA
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
80 18 0.25
81 6 0.08
82 5 0.07
83 6 0.08
84 17 0.24
85 7 0.10
86 13 0.18
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.27
Consensus pattern (84 bp):
AATAAATAAATAAATTATAATATAATAATAAATATATAACTATATAAATAAAATACATATAAATA
ATAACAAAAAAAAAGAAAA
Found at i:6289184 original size:20 final size:20
Alignment explanation
Indices: 6289159--6289213 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
6289149 AACATTTTCA
6289159 TTTTTTTTTGTTTTTTGTGT
1 TTTTTTTTTGTTTTTTGTGT
* * *
6289179 TTTTTTGTTCTTTTTTTTGT
1 TTTTTTTTTGTTTTTTGTGT
6289199 TTTTTTTTTGTTTTT
1 TTTTTTTTTGTTTTT
6289214 GTCTTTTACT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (20 bp):
TTTTTTTTTGTTTTTTGTGT
Found at i:6289199 original size:29 final size:28
Alignment explanation
Indices: 6289160--6289220 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 28
6289150 ACATTTTCAT
6289160 TTTTTTTTGTTTTTTGTGTT-TTTTTGTTC
1 TTTTTTTTGTTTTTT-TGTTGTTTTTG-TC
*
6289189 TTTTTTTTGTTTTTTTTTTGTTTTTGTC
1 TTTTTTTTGTTTTTTTGTTGTTTTTGTC
6289217 TTTT
1 TTTT
6289221 ACTAAAGCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.85
Consensus pattern (28 bp):
TTTTTTTTGTTTTTTTGTTGTTTTTGTC
Found at i:6289321 original size:41 final size:41
Alignment explanation
Indices: 6289227--6289399 Score: 265
Period size: 41 Copynumber: 4.2 Consensus size: 41
6289217 TTTTACTAAA
* * *
6289227 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATT
*
6289270 ACTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
6289311 GCTCTTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
6289352 ACTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
6289393 GCTCCTC
1 GCTCCTC
6289400 AGTAAATCGC
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 88 0.74
42 3 0.03
43 28 0.24
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:6289371 original size:82 final size:84
Alignment explanation
Indices: 6289227--6289535 Score: 315
Period size: 82 Copynumber: 3.6 Consensus size: 84
6289217 TTTTACTAAA
6289227 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATTACTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATTACTCCTCTAAACAGAGGCACCA
6289292 CGACTTTGAAAAGTAAATT
66 CGACTTTGAAAAGTAAATT
* * *
6289311 GCTCTTCTAAACAGAGG-TACCACGACTTTGA-AAA-GTAAATTACTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCT-CAACGACTTTGAGAAACATAAATTACTCCTCTAAACAGAGGCACC
6289373 ACGACTTTGAAAAGTAAATT
65 ACGACTTTGAAAAGTAAATT
*** *** * *
6289393 GCTCCTCAGTAAATC-GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCT
1 GCTCCTC--TAAA-CAGAGGCTC--AAC----G-ACTTTGA----GAAACATAAATTACTCCTCT
6289457 AAACAGAGGCACCACGACTTTGAAAAGTAAATT
52 AAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * *
6289490 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-ATAAATTGCTCC
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATTACTCC
6289536 CTGACAATCA
Statistics
Matches: 185, Mismatches: 21, Indels: 40
0.75 0.09 0.16
Matches are distributed among these distances:
82 65 0.35
83 7 0.04
84 33 0.18
85 2 0.01
86 2 0.01
88 4 0.02
89 1 0.01
90 1 0.01
91 4 0.02
93 2 0.01
94 1 0.01
95 7 0.04
96 3 0.02
97 53 0.29
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (84 bp):
GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATTACTCCTCTAAACAGAGGCACCA
CGACTTTGAAAAGTAAATT
Found at i:6289405 original size:15 final size:15
Alignment explanation
Indices: 6289385--6289414 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6289375 GACTTTGAAA
*
6289385 AGTAAATTGCTCCTC
1 AGTAAATCGCTCCTC
6289400 AGTAAATCGCTCCTC
1 AGTAAATCGCTCCTC
6289415 TAAACAGAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (15 bp):
AGTAAATCGCTCCTC
Found at i:6289430 original size:56 final size:56
Alignment explanation
Indices: 6289344--6289455 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
6289334 GACTTTGAAA
* *
6289344 AGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTC
1 AGTAAATCACTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTC
*
6289400 AGTAAATCGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTC
1 AGTAAATCACTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTC
6289456 TAAACAGAGG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (56 bp):
AGTAAATCACTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTC
Found at i:6289459 original size:41 final size:41
Alignment explanation
Indices: 6289402--6289535 Score: 250
Period size: 41 Copynumber: 3.3 Consensus size: 41
6289392 TGCTCCTCAG
*
6289402 TAAATCGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA
*
6289443 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA
6289484 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA
6289525 TAAATTGCTCC
1 TAAATTGCTCC
6289536 CTGACAATCA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 90 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.22
Consensus pattern (41 bp):
TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA
Found at i:6289469 original size:97 final size:97
Alignment explanation
Indices: 6289303--6289496 Score: 343
Period size: 97 Copynumber: 2.0 Consensus size: 97
6289293 GACTTTGAAA
* * * *
6289303 AGTAAATTGCTCTTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTACTCCTCTAAACAGAG
1 AGTAAATCGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTACTCCTCTAAACAGAG
6289368 GCACCACGACTTTGAAAAGTAAATTGCTCCTC
66 GCACCACGACTTTGAAAAGTAAATTGCTCCTC
*
6289400 AGTAAATCGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAG
1 AGTAAATCGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTACTCCTCTAAACAGAG
6289465 GCACCACGACTTTGAAAAGTAAATTGCTCCTC
66 GCACCACGACTTTGAAAAGTAAATTGCTCCTC
6289497 TAAACAGAGG
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 92 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (97 bp):
AGTAAATCGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTACTCCTCTAAACAGAG
GCACCACGACTTTGAAAAGTAAATTGCTCCTC
Found at i:6289512 original size:138 final size:138
Alignment explanation
Indices: 6289271--6289535 Score: 485
Period size: 138 Copynumber: 1.9 Consensus size: 138
6289261 ACATAAATTA
* * *
6289271 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCTTCTAAACAGAGGTACCACGA
1 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
*
6289336 CTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCA
66 CTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCA
6289401 GTAAATCG
131 GTAAATCG
6289409 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
1 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
*
6289474 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCC
66 CTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCC
6289536 CTGACAATCA
Statistics
Matches: 122, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 122 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (138 bp):
CTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
CTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCA
GTAAATCG
Found at i:6293115 original size:32 final size:32
Alignment explanation
Indices: 6293069--6293186 Score: 100
Period size: 32 Copynumber: 3.6 Consensus size: 32
6293059 CTTTCAAAAT
6293069 AAAAATCAAATAAAAAAATAATAGATAATTAGA
1 AAAAAT-AAATAAAAAAATAATAGATAATTAGA
* *
6293102 AAAGATAAATAAAAAAAT-ATAGGATAAATA-A
1 AAAAATAAATAAAAAAATAATA-GATAATTAGA
* * *
6293133 AAAAAT-AATAATAATAACAGATATATAATTAGA
1 AAAAATAAATAA-AAAAATA-ATAGATAATTAGA
*
6293166 TAAATAA-AAATACAAAAATAA
1 -AAA-AATAAATAAAAAAATAA
6293187 ATAAAATATA
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
30 5 0.07
31 13 0.19
32 25 0.37
33 10 0.15
34 8 0.12
35 6 0.09
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (32 bp):
AAAAATAAATAAAAAAATAATAGATAATTAGA
Found at i:6293132 original size:4 final size:4
Alignment explanation
Indices: 6293071--6293383 Score: 61
Period size: 4 Copynumber: 77.8 Consensus size: 4
6293061 TTCAAAATAA
* * * *
6293071 AAAT CAAAT AAAA AAAT -AAT AGAT AATT AGAA- AAGAT AAAT AAAA AAAT
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AA-AT AAAT AAAT AAAT
* * * * * *
6293120 ATAGGAT AAAT AAAA AAAT -AAT -AAT -AAT -AAC AGAT ATAT AATT AGAT
1 A-A--AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
6293167 AAAT -AA- AAAT ACAA- AAAT AAAT AAA- ATAT AAA- ATAAT -AAT -AAT
1 AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT
* * *
6293210 -AAT -AAT AAAT AAAT AAATT ATAAT ATAAT -AAT AAAT ATAT AACT ATAT
1 AAAT AAAT AAAT AAAT AAA-T A-AAT A-AAT AAAT AAAT AAAT AAAT AAAT
* * * *
6293258 AAAT AAAAT ACATAT AAAT -ATT AACAG AAAA AAAT AAAT AAAT ATAT
1 AAAT -AAAT A-A-AT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT
* * * * * *
6293305 ACAT ATAT ACAT ATAT TAAT ACAT AGTAAT -AAT AAAT AAAT -AAT AAAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT A--AAT AAAT AAAT AAAT AAAT -AAAT
* * *
6293354 ACAT AAAAT ACAT AAAAT ACAAA AAAT AAA
1 AAAT -AAAT AAAT -AAAT A-AAT AAAT AAA
6293384 AATAAAAATA
Statistics
Matches: 228, Mismatches: 48, Indels: 65
0.67 0.14 0.19
Matches are distributed among these distances:
3 47 0.21
4 132 0.58
5 38 0.17
6 8 0.04
7 3 0.01
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:6293142 original size:3 final size:3
Alignment explanation
Indices: 6293136--6293243 Score: 57
Period size: 3 Copynumber: 34.7 Consensus size: 3
6293126 TAAATAAAAA
* *
6293136 AAT AAT AAT AAT AAC AGAT ATAT AATT AGAT AAAT AAA AAT ACA- AA-
1 AAT AAT AAT AAT AAT A-AT A-AT AA-T A-AT -AAT AAT AAT A-AT AAT
6293182 AAT AAAT AA- AAT -AT AA- AAT AAT AAT AAT AAT AAT AAAT AAAT AAAT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT -AAT
*
6293228 TAT AAT -AT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
6293244 ATATATAACT
Statistics
Matches: 86, Mismatches: 7, Indels: 24
0.74 0.06 0.21
Matches are distributed among these distances:
2 11 0.13
3 48 0.56
4 25 0.29
5 2 0.02
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6293183 original size:65 final size:64
Alignment explanation
Indices: 6293093--6293214 Score: 160
Period size: 65 Copynumber: 1.9 Consensus size: 64
6293083 AAAATAATAG
*
6293093 ATAATTAGAAAAGATAAATAAAAAAATATAGGAT-AAATA-AAAA-AATAATAATAATAACAGAT
1 ATAATTAGAAAAGAAAAATAAAAAAATA-A--ATAAAATATAAAATAATAATAATAATAACAGAT
6293155 AT
63 AT
* *
6293157 ATAATTAGATAAATAAAAATACAAAAATAAATAAAATATAAAATAATAATAATAATAA
1 ATAATTAGA-AAAGAAAAATAAAAAAATAAATAAAATATAAAATAATAATAATAATAA
6293215 TAAATAAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
62 2 0.04
63 5 0.10
64 14 0.27
65 30 0.59
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.25
Consensus pattern (64 bp):
ATAATTAGAAAAGAAAAATAAAAAAATAAATAAAATATAAAATAATAATAATAATAACAGATAT
Found at i:6293260 original size:38 final size:35
Alignment explanation
Indices: 6293106--6293396 Score: 136
Period size: 35 Copynumber: 7.9 Consensus size: 35
6293096 ATTAGAAAAG
** *
6293106 ATAAATAAA-AAAATATAGGATAAATAA-AAAAATA
1 ATAAATAAATAAAATATAAAAT-AATAATAATAATA
* *
6293140 AT-AAT-AATAACAGATATATAATTAGATAAATAAAAATA
1 ATAAATAAATAA-A-ATATA-AAATA-AT-AATAATAATA
*
6293178 CAAAAATAAATAAAATATAAAATAATAATAATAATA
1 -ATAAATAAATAAAATATAAAATAATAATAATAATA
* *
6293214 ATAAATAAATAAATTATAATATAATAATAAATATATA
1 ATAAATAAATAAAATATAAAATAATAAT-AATA-ATA
* * * * *
6293251 ACTATATAAATAAAATACATATAAATATTAACAGAAAAAA
1 A-TAAATAAATAAAAT--ATA-AAATAATAATA-ATAATA
* *
6293291 ATAAATAAATATATACATATATACATATATTAATACATAGTA
1 ATAAATAAATA-A-A-ATATA-A-A-ATAATAATA-ATAATA
6293333 AT-AATAAAT-AAATAATAAAATACATAA-AATACAT-
1 ATAAATAAATAAAAT-ATAAAATA-ATAATAATA-ATA
*
6293367 A-AAATACAA-AAAATA-AAAATAAAAATAATA
1 ATAAATA-AATAAAATATAAAATAATAATAATA
6293397 CAATGGAGTC
Statistics
Matches: 203, Mismatches: 25, Indels: 59
0.71 0.09 0.21
Matches are distributed among these distances:
32 5 0.02
33 15 0.07
34 12 0.06
35 42 0.21
36 20 0.10
37 11 0.05
38 27 0.13
39 16 0.08
40 17 0.08
41 23 0.11
42 15 0.07
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (35 bp):
ATAAATAAATAAAATATAAAATAATAATAATAATA
Found at i:6293370 original size:18 final size:17
Alignment explanation
Indices: 6293342--6293382 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
6293332 AATAATAAAT
*
6293342 AAATAATAAAATACATA
1 AAATAATAAAATACAAA
6293359 AAATACATAAAATACAAA
1 AAATA-ATAAAATACAAA
6293377 AAATAA
1 AAATAA
6293383 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (17 bp):
AAATAATAAAATACAAA
Found at i:6293385 original size:96 final size:91
Alignment explanation
Indices: 6293125--6293394 Score: 234
Period size: 96 Copynumber: 2.9 Consensus size: 91
6293115 AAAATATAGG
* * * * *
6293125 ATAAATAAA-AAA--ATAATAATAATAACAGATATATAATTAGATAAATAAAAATACA-AAAATA
1 ATAAATAAATAAATTATAAT-ATAATAATAAATAAATAACTAAATAAAT-AAAATACATAAAATA
6293186 AATAAAATATAAAATAAT-AAT-AATAATA
64 AA-AAAATA-AAAATAATAAATAAATAATA
* * *
6293214 ATAAATAAATAAATTATAATATAATAATAAATATATAACTATATAAATAAAATACATATAAATAT
1 ATAAATAAATAAATTATAATATAATAATAAATAAATAACTAAATAAATAAAATACATA-AAATAA
* * *
6293279 TAACAGAAAAA-AATAAATAAATATATA
65 AAAAATAAAAATAATAAATAAATA-ATA
* * * *
6293306 CATATATACATATATTAATACATAGTAATAATAAATAAATAA-TAAAATACATAAAATACATAAA
1 -ATAAATAAATAAATT-ATA-ATA-TAATAATAAATAAATAACT-AAATAAATAAAATACATAAA
6293370 ATACAAAAAATAAAAATAA-AAATAA
61 ATA-AAAAAATAAAAATAATAAATAA
6293395 TACAATGGAG
Statistics
Matches: 148, Mismatches: 18, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
89 12 0.08
90 18 0.12
91 33 0.22
92 13 0.09
93 12 0.08
94 3 0.02
95 9 0.06
96 46 0.31
97 2 0.01
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.27
Consensus pattern (91 bp):
ATAAATAAATAAATTATAATATAATAATAAATAAATAACTAAATAAATAAAATACATAAAATAAA
AAAATAAAAATAATAAATAAATAATA
Found at i:6293387 original size:15 final size:15
Alignment explanation
Indices: 6293342--6293396 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
6293332 AATAATAAAT
*
6293342 AAATAATAAAATACATA
1 AAATAATAAAA-ATA-A
6293359 AAATACAT-AAAATACA
1 AAATA-ATAAAAATA-A
6293375 AAA-AATAAAAATAA
1 AAATAATAAAAATAA
6293389 AAATAATA
1 AAATAATA
6293397 CAATGGAGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 6 0.18
15 11 0.33
16 6 0.18
17 8 0.24
18 2 0.06
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATAATAAAAATAA
Found at i:6308365 original size:16 final size:15
Alignment explanation
Indices: 6308346--6308376 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
6308336 TTGAAAACTT
6308346 CAAAATAAAAAAAAAA
1 CAAAA-AAAAAAAAAA
6308362 CAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAA
6308377 AAGGAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.03
Consensus pattern (15 bp):
CAAAAAAAAAAAAAA
Found at i:6308377 original size:16 final size:16
Alignment explanation
Indices: 6308346--6308377 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6308336 TTGAAAACTT
*
6308346 CAAAATAAAAAAAAAA
1 CAAAAAAAAAAAAAAA
6308362 CAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAA
6308378 AGGAATTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (16 bp):
CAAAAAAAAAAAAAAA
Found at i:6309037 original size:13 final size:13
Alignment explanation
Indices: 6309019--6309043 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6309009 TTCTGCTTTT
6309019 TAACTATAAAAAC
1 TAACTATAAAAAC
6309032 TAACTATAAAAA
1 TAACTATAAAAA
6309044 AAATGTCTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (13 bp):
TAACTATAAAAAC
Found at i:6310771 original size:13 final size:14
Alignment explanation
Indices: 6310749--6310777 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6310739 ATTTAAAAAA
6310749 TTTTGAAAAATCCT
1 TTTTGAAAAATCCT
6310763 TTTTGAAAAATCCT
1 TTTTGAAAAATCCT
6310777 T
1 T
6310778 GACAATCAAT
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:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (14 bp):
TTTTGAAAAATCCT
Found at i:6311043 original size:5 final size:5
Alignment explanation
Indices: 6311033--6311066 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
6311023 AACTTCATGT
*
6311033 TTTTA TTTTA TTTTA TTTTA TTTTT TATTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTT
6311067 GATTATCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:6311235 original size:105 final size:106
Alignment explanation
Indices: 6311111--6311302 Score: 250
Period size: 109 Copynumber: 1.8 Consensus size: 106
6311101 AAATAAATTT
*
6311111 AAATAAAAACCTTACCAACAGATT-GAAAGG-CAATCATTTT-TTT-AAATAGGGTTTTATCAAC
1 AAATAAAAACCTTACCAACAGATTAG-AAGGCCAAT-ATTTTATTTCAAATAAGGTTTTATCAAC
6311172 ATATTGAAAAA-ACTTATAATTTTTTTTATTTAAAAAAACATAA
64 ATATT-AAAAAGACTTATAATTTTTTTTATTTAAAAAAACATAA
* * *
6311215 AAATAAAAAATCTTACCAACATATTAGAGGGCCAATATTTTATTTCCGAAATAAGGTTTTATCAA
1 AAAT-AAAAACCTTACCAACAGATTAGAAGGCCAATATTTTATTT-C-AAATAAGGTTTTATCAA
*
6311280 CATATTAAAAAGCCTTATAATTT
63 CATATTAAAAAGACTTATAATTT
6311303 CTTTAAAAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
104 4 0.05
105 26 0.35
106 8 0.11
108 5 0.07
109 32 0.43
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (106 bp):
AAATAAAAACCTTACCAACAGATTAGAAGGCCAATATTTTATTTCAAATAAGGTTTTATCAACAT
ATTAAAAAGACTTATAATTTTTTTTATTTAAAAAAACATAA
Found at i:6313332 original size:55 final size:55
Alignment explanation
Indices: 6313272--6313382 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 55
6313262 GCTTTTATAC
* * *
6313272 AAGAAAAACTGATACTTTCAACTTTTC-CTAAAATGTTTTTGGAAATTTTATTTTT
1 AAGAAAAACTGATACTTTCAACTTTTCTCAAAAATATTTTTGAAAATTTT-TTTTT
* *
6313327 AAGAAAAATTGATACTTTCAACTTTTCTCAAAAATATTTTTTAAAATTTTTTTTT
1 AAGAAAAACTGATACTTTCAACTTTTCTCAAAAATATTTTTGAAAATTTTTTTTT
6313382 A
1 A
6313383 TTTTAGAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
55 32 0.64
56 18 0.36
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (55 bp):
AAGAAAAACTGATACTTTCAACTTTTCTCAAAAATATTTTTGAAAATTTTTTTTT
Found at i:6313456 original size:3 final size:3
Alignment explanation
Indices: 6313440--6313472 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
6313430 CAAATAATTC
6313440 TAA T-A TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
6313473 AATGAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Done.