Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 71 of 150
Found at i:21256362 original size:11 final size:11
Alignment explanation
Indices: 21256346--21256393 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
21256336 GATGATGATG
21256346 ATTTTAAAATC
1 ATTTTAAAATC
21256357 ATTTTAATAAT-
1 ATTTTAA-AATC
* *
21256368 TTTTTAAAATA
1 ATTTTAAAATC
21256379 ATTTTAAAATC
1 ATTTTAAAATC
21256390 ATTT
1 ATTT
21256394 GTTGATATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 3 0.09
11 26 0.81
12 3 0.09
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTTTAAAATC
Found at i:21260525 original size:16 final size:16
Alignment explanation
Indices: 21260504--21260537 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
21260494 AAGAACATAG
21260504 AAAATGAAACAAAGGA
1 AAAATGAAACAAAGGA
*
21260520 AAAATGAAATAAAGGA
1 AAAATGAAACAAAGGA
21260536 AA
1 AA
21260538 TTTAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.18, T:0.09
Consensus pattern (16 bp):
AAAATGAAACAAAGGA
Found at i:21262643 original size:5 final size:5
Alignment explanation
Indices: 21262635--21262668 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
21262625 AGTTAAATAT
21262635 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
21262669 TATCACACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:21263975 original size:5 final size:5
Alignment explanation
Indices: 21263965--21263989 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21263955 GGGGTAGGAC
21263965 ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT
21263990 TCGTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATGAT
Found at i:21270924 original size:9 final size:9
Alignment explanation
Indices: 21270895--21270931 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
21270885 TGAGTTTTCG
21270895 AATTCGAAT
1 AATTCGAAT
*
21270904 AACTCGAAT
1 AATTCGAAT
21270913 AATTCGAAT
1 AATTCGAAT
*
21270922 AATTCAAAT
1 AATTCGAAT
21270931 A
1 A
21270932 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:21271454 original size:19 final size:17
Alignment explanation
Indices: 21271416--21271479 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
21271406 TAGTAATAAT
*
21271416 TTTAT-TTATATATACTA
1 TTTATATTAT-TATATTA
21271433 TTTATATTATTATATTAAA
1 TTTATATTATTATATT--A
*
21271452 TTTCACATT-TTATATTA
1 TTT-ATATTATTATATTA
21271469 TTTATATTATT
1 TTTATATTATT
21271480 GAATTGTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
16 4 0.10
17 16 0.41
18 4 0.10
19 11 0.28
20 4 0.10
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATATTATTATATTA
Found at i:21271969 original size:5 final size:5
Alignment explanation
Indices: 21271959--21271984 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
21271949 TTCGAAAATT
21271959 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
21271985 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:21273333 original size:3 final size:3
Alignment explanation
Indices: 21273325--21273383 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
21273315 TGATTTTGGT
21273325 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21273373 TTA TTA TTA TT
1 TTA TTA TTA TT
21273384 TTTGCCTCTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:21278325 original size:24 final size:25
Alignment explanation
Indices: 21278298--21278352 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
21278288 ATTTTTAATC
21278298 GTTAA-CCGAACCGAAATTTTTTCG
1 GTTAATCCGAACCGAAATTTTTTCG
* ***
21278322 GTTAATTCGGTTCGAAATTTTTTCG
1 GTTAATCCGAACCGAAATTTTTTCG
21278347 GTTAAT
1 GTTAAT
21278353 TTGGTCGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (25 bp):
GTTAATCCGAACCGAAATTTTTTCG
Found at i:21278423 original size:9 final size:9
Alignment explanation
Indices: 21278409--21278466 Score: 82
Period size: 9 Copynumber: 6.4 Consensus size: 9
21278399 TTTGGTTAAA
21278409 AATTAACCG
1 AATTAACCG
*
21278418 AATTAACCT
1 AATTAACCG
21278427 AATT-ACCTG
1 AATTAACC-G
21278436 AATTAACCG
1 AATTAACCG
*
21278445 AATTACCCG
1 AATTAACCG
21278454 AATTAACCG
1 AATTAACCG
21278463 AATT
1 AATT
21278467 GAATCACTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 3 0.07
9 37 0.86
10 3 0.07
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:21279999 original size:25 final size:25
Alignment explanation
Indices: 21279968--21280020 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
21279958 AATTTTTTAT
* **
21279968 TTTTATAATTTTATTTTTTTAAATA
1 TTTTATAATTATAAATTTTTAAATA
*
21279993 TTTTATAATTATAAATTTTTGAATA
1 TTTTATAATTATAAATTTTTAAATA
21280018 TTT
1 TTT
21280021 GGAAAAATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTTATAATTATAAATTTTTAAATA
Found at i:21280429 original size:24 final size:24
Alignment explanation
Indices: 21280353--21280421 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 24
21280343 TCATTGTTCT
*
21280353 AAATATTAAAAAAATTATAATTATA
1 AAATATT-CAAAAATTATAATTATA
21280378 AAATATTCAAAAAATTATAATTATA
1 AAATATTC-AAAAATTATAATTATA
21280403 AAATATTCAAAAATTATAA
1 AAATATTCAAAAATTATAA
21280422 AAGTAAAACA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
24 11 0.26
25 31 0.74
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATATTCAAAAATTATAATTATA
Found at i:21295254 original size:55 final size:55
Alignment explanation
Indices: 21295171--21295276 Score: 176
Period size: 55 Copynumber: 1.9 Consensus size: 55
21295161 TCGTTGGATG
* * *
21295171 ATAAATCATCACTTTTAATTTGATTAGTGCTTATGAATAATTAATTTGCAAGATA
1 ATAAATCATCACTTTTAATTAGAATAGTGCTCATGAATAATTAATTTGCAAGATA
*
21295226 ATAAATCATCACTTTTAATTAGAATAGTGCTCATTAATAATTAATTTGCAA
1 ATAAATCATCACTTTTAATTAGAATAGTGCTCATGAATAATTAATTTGCAA
21295277 TCTGTAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (55 bp):
ATAAATCATCACTTTTAATTAGAATAGTGCTCATGAATAATTAATTTGCAAGATA
Found at i:21300132 original size:55 final size:55
Alignment explanation
Indices: 21300037--21300146 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 55
21300027 GTATTCATTG
* * * *
21300037 GATGATAAATCATCACTTTTAATTTGATTATTGCTTATGAATAATTAATTTGCAA
1 GATGATAAATCATCACTTTTAACTTGAATAGTGCTCATGAATAATTAATTTGCAA
21300092 GATGATAAATCATCACTTTTAACTTGAATAGTGCTCATGAATAATTAATTTGCAA
1 GATGATAAATCATCACTTTTAACTTGAATAGTGCTCATGAATAATTAATTTGCAA
21300147 TCTATAATTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAACTTGAATAGTGCTCATGAATAATTAATTTGCAA
Found at i:21303930 original size:46 final size:46
Alignment explanation
Indices: 21303863--21304115 Score: 442
Period size: 46 Copynumber: 5.6 Consensus size: 46
21303853 TTTGAGTACT
21303863 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
21303909 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
21303954 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
21304000 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
21304046 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
21304091 TCTGATC-TGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
21304116 ATCATACGTA
Statistics
Matches: 201, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
43 12 0.06
44 4 0.02
45 63 0.31
46 122 0.61
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:21304018 original size:91 final size:92
Alignment explanation
Indices: 21303863--21304115 Score: 442
Period size: 91 Copynumber: 2.8 Consensus size: 92
21303853 TTTGAGTACT
21303863 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
21303928 GATAAGTGGTAGC-CTAGCTACACTTA
66 GATAAGTGGTAGCTCTAGCTACACTTA
21303954 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
21304019 GATAAGTGGTAGCTTTAGCTACACTTA
66 GATAAGTGGTAGCTCTAGCTACACTTA
* * *
21304046 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATC-TGGGAC-AAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
21304108 GATAAGTG
66 GATAAGTG
21304116 ATCATACGTA
Statistics
Matches: 157, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
89 12 0.08
90 4 0.03
91 97 0.62
92 44 0.28
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (92 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGGTAGCTCTAGCTACACTTA
Found at i:21304917 original size:23 final size:21
Alignment explanation
Indices: 21304881--21304929 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 21
21304871 ATAAATAAAA
21304881 TAAAATAAATATATTAAATA-T
1 TAAAATAAATATA-TAAATATT
21304902 TAAAATAAAATGATATAAATATT
1 TAAAAT-AAAT-ATATAAATATT
21304925 TAAAA
1 TAAAA
21304930 AGAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.24
22 10 0.40
23 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
TAAAATAAATATATAAATATT
Found at i:21304920 original size:22 final size:22
Alignment explanation
Indices: 21304881--21304929 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 22
21304871 ATAAATAAAA
21304881 TAAAATAAATATATTAAATA-T
1 TAAAATAAATATATTAAATATT
21304902 TAAAATAAA-ATGATATAAATATT
1 TAAAATAAATAT-AT-TAAATATT
21304925 TAAAA
1 TAAAA
21304930 AGAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.08
21 11 0.44
22 6 0.24
23 6 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAAATAAATATATTAAATATT
Found at i:21311093 original size:31 final size:31
Alignment explanation
Indices: 21311032--21311093 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
21311022 TTTAATATAT
*
21311032 ATATACATTATTTAGTTTAAATTGTCTTTTA
1 ATATACATTATTTAGTTTAAATTATCTTTTA
* *
21311063 ATATATATTATTTAGTTTAAATTATTTTTTA
1 ATATACATTATTTAGTTTAAATTATCTTTTA
21311094 TATGTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (31 bp):
ATATACATTATTTAGTTTAAATTATCTTTTA
Found at i:21311096 original size:28 final size:30
Alignment explanation
Indices: 21311031--21311103 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 30
21311021 TTTTAATATA
* *
21311031 TATATACATTATTTAGTTTAAATTGTCTTT
1 TATATATATTATTTAGTTTAAATTATCTTT
21311061 TAATATATATTATTTAGTTTAAATTAT-TTT
1 T-ATATATATTATTTAGTTTAAATTATCTTT
*
21311091 T-TATATGTTATTT
1 TATATATATTATTT
21311104 CAAAATTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 11 0.28
30 5 0.13
31 23 0.59
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (30 bp):
TATATATATTATTTAGTTTAAATTATCTTT
Found at i:21315885 original size:27 final size:30
Alignment explanation
Indices: 21315850--21315930 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 30
21315840 ATTCATAGAA
* *
21315850 TAAAAATATAAATTACTATCATATAATAAT
1 TAAATATATAAAATACTATCATATAATAAT
*
21315880 T-TATATATAAAATA-TAT-ATATAATAA-
1 TAAATATATAAAATACTATCATATAATAAT
*
21315906 T-AATGTATGAAAATACTATCATATA
1 TAAATATAT-AAAATACTATCATATA
21315931 TTTCTTTAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
26 6 0.14
27 15 0.35
28 6 0.14
29 15 0.35
30 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.38
Consensus pattern (30 bp):
TAAATATATAAAATACTATCATATAATAAT
Found at i:21316129 original size:24 final size:23
Alignment explanation
Indices: 21316051--21316138 Score: 83
Period size: 24 Copynumber: 3.8 Consensus size: 23
21316041 AAAGAAAATA
* *
21316051 ATATATGATAAATCTAAATAATG
1 ATATATGATAAATTTAAATTATG
*
21316074 --ATATGATAAGTTTAAAATTAT-
1 ATATATGATAAATTT-AAATTATG
* *
21316095 AGTACAGGATAAATTTTAAATTATG
1 A-TATATGATAAA-TTTAAATTATG
21316120 ATATATGATAAATTTAAAT
1 ATATATGATAAATTTAAAT
21316139 AGTACTTATG
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
21 11 0.22
22 6 0.12
23 7 0.14
24 23 0.45
25 4 0.08
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (23 bp):
ATATATGATAAATTTAAATTATG
Found at i:21316151 original size:22 final size:21
Alignment explanation
Indices: 21316123--21316199 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 21
21316113 AATTATGATA
21316123 TATGATAAATTTAAATAGTACT
1 TATGAT-AATTTAAATAGTACT
21316145 TATGATAATTTAAAATAGTA--
1 TATGATAATTT-AAATAGTACT
* **
21316165 TATGAT-ATTAAAATAAAACT
1 TATGATAATTTAAATAGTACT
*
21316185 AATGATAAATTTAAA
1 TATGAT-AATTTAAA
21316200 ACAATGTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.13
19 3 0.07
20 11 0.24
21 5 0.11
22 20 0.44
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.38
Consensus pattern (21 bp):
TATGATAATTTAAATAGTACT
Found at i:21317207 original size:13 final size:14
Alignment explanation
Indices: 21317190--21317225 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
21317180 TTTTTCTCTG
21317190 CTCTTTTTTTATTT
1 CTCTTTTTTTATTT
*
21317204 -TCTTTTTCTATTT
1 CTCTTTTTTTATTT
21317217 CTCTTTTTT
1 CTCTTTTTT
21317226 GTTTGTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (14 bp):
CTCTTTTTTTATTT
Found at i:21318180 original size:117 final size:117
Alignment explanation
Indices: 21317968--21318183 Score: 360
Period size: 117 Copynumber: 1.8 Consensus size: 117
21317958 GGGGGATAAG
* ** * *
21317968 ATTAGTGGCTTCAATATACTCCACTGTAACCTGAGGGAGGTAAAATCTGCCACCTTCGATCTACT
1 ATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAAGTAAAATCCGCCACCTTCGATCTACT
*
21318033 CCACTACTGCTTAGGGAGATAAGATTTGTAATCTGCTGACTAGGGAGGTAGA
66 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTGCTGACTAGGGAGGTAGA
* *
21318085 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAAGTAAAATCCGCCATCTTCGATCTACT
1 ATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAAGTAAAATCCGCCACCTTCGATCTACT
21318150 CCACTACTGCTTAGGGAGATAAGATCTGTAATCT
66 CCACTACTGCTTAGGGAGATAAGATCTGTAATCT
21318184 TCAATCTATT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 91 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (117 bp):
ATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAAGTAAAATCCGCCACCTTCGATCTACT
CCACTACTGCTTAGGGAGATAAGATCTGTAATCTGCTGACTAGGGAGGTAGA
Found at i:21318311 original size:132 final size:132
Alignment explanation
Indices: 21318065--21318807 Score: 1233
Period size: 132 Copynumber: 5.6 Consensus size: 132
21318055 GATTTGTAAT
* * * *
21318065 CTGCTGACTAGGGAGGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAAGTAAAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
*
21318130 TCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
66 TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
21318195 CA
131 CA
* * *
21318197 CTGTTGCCCAGGGA-AGTAGAATTACTGACTTCAATGTACTCCACTGTAACCACAAGGAGGTAAA
1 CTGCTGCCCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAA
* * ** *
21318261 ATCTGCCCTCTTTGATCTACTCCACTACTGCTTAAAGAGATAAGATCTGTAATCTTTAATCTATT
65 ATCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATT
21318326 CCA
130 CCA
*
21318329 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACT-TAACCACAGGGAGTTAAAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
21318393 TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
66 TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
21318458 CA
131 CA
*
21318460 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCATTGTAACCACAGGGAGGTAAAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
* * * *
21318525 TCCGCCATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGTATTCTTTAATCTATTC
66 TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
21318590 CA
131 CA
*
21318592 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
21318657 T-TCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATT
66 TCT-GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATT
21318721 CCA
130 CCA
*
21318724 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACGCCACTGTAACCACAGGGAGGT-AAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
**
21318788 TCCACCATCTTCGATCTACT
66 TCTGCCATCTTCGATCTACT
21318808 TCGCTGTCAA
Statistics
Matches: 568, Mismatches: 38, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
131 143 0.25
132 424 0.75
133 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (132 bp):
CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
CA
Found at i:21318549 original size:263 final size:263
Alignment explanation
Indices: 21318065--21318807 Score: 1251
Period size: 263 Copynumber: 2.8 Consensus size: 263
21318055 GATTTGTAAT
* * * *
21318065 CTGCTGACTAGGGAGGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAAGTAAAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGG-AGTAAAA
*
21318130 TCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
65 TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
* * *
21318195 CACTGTTGCCCAGGGA-AGTAGAATTACTGACTTCAATGTACTCCACTGTAACCACAAGGAGGTA
130 CACTGCTGCCCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTA
* * * *
21318259 AAATCTGCCCTCTTTGATCTACTCCACTACTGCTTAAAGAGATAAGATCTGTAATCTTTAATCTA
194 AAATCCGCCATCTTCGATCTACTCCACTACTACTTAAAGAGATAAGATCTGTAATCTTTAATCTA
21318324 TTCCA
259 TTCCA
21318329 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACT-TAACCACAGGGAGTTAAAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAG-TAAAA
21318393 TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
65 TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
*
21318458 CACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCATTGTAACCACAGGGAGGTAA
130 CACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAA
** *
21318523 AATCCGCCATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGTATTCTTTAATCTAT
195 AATCCGCCATCTTCGATCTACTCCACTACTACTTAAAGAGATAAGATCTGTAATCTTTAATCTAT
21318588 TCCA
260 TCCA
21318592 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGA-GTAAAA
21318657 T-TCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATT
65 TCT-GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATT
*
21318721 CCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACGCCACTGTAACCACAGGGAGGT-
129 CCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTA
*
21318785 AAATCCACCATCTTCGATCTACT
194 AAATCCGCCATCTTCGATCTACT
21318808 TCGCTGTCAA
Statistics
Matches: 456, Mismatches: 18, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
262 2 0.00
263 269 0.59
264 184 0.40
265 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (263 bp):
CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGTAAAAT
CTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCC
ACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAA
ATCCGCCATCTTCGATCTACTCCACTACTACTTAAAGAGATAAGATCTGTAATCTTTAATCTATT
CCA
Found at i:21318587 original size:395 final size:395
Alignment explanation
Indices: 21318065--21318807 Score: 1249
Period size: 395 Copynumber: 1.9 Consensus size: 395
21318055 GATTTGTAAT
* *
21318065 CTGCTGACTAGGGAGGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAAGTAAAA
1 CTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAAGTAAAA
*
21318130 TCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
66 TCCGCCATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
* *
21318195 CACTGTTGCCCAGGGA-AGTAGAATTACTGACTTCAATGTACTCCACTGTAACCACAAGGAGGTA
131 CACTGCTGCCCAGGGAGA-TAGAATTACTGACTTCAATGTACTCCACTATAACCACAAGGAGGTA
* * *
21318259 AAA-TCTGCCCTCTTTGATCTACTCCACTACTGCTTAAAGAGATAAGATCTGTAATCTTTAATCT
195 AAATTC-GCCATCTTCGATCTACTCCACTACTGCTTAAAGAGATAAGATCTGTAATCTTCAATCT
*
21318323 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACT-TAACCACAGGGAG
259 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACGCCACTGTAACCACAGGGAG
* **
21318387 TTAAAATCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
324 GT-AAATCCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
21318452 CTATTCCA
388 CTATTCCA
* * *
21318460 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCATTGTAACCACAGGGAGGTAAAA
1 CTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAAGTAAAA
* *
21318525 TCCGCCATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGTATTCTTTAATCTATTC
66 TCCGCCATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
* *
21318590 CACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAA
131 CACTGCTGCCCAGGGAGATAGAATTACTGACTTCAATGTACTCCACTATAACCACAAGGAGGTAA
**
21318655 AATTCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTAT
196 AATTCGCCATCTTCGATCTACTCCACTACTGCTTAAAGAGATAAGATCTGTAATCTTCAATCTAT
21318720 TCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACGCCACTGTAACCACAGGGAGGT
261 TCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACGCCACTGTAACCACAGGGAGGT
21318785 AAATCCACCATCTTCGATCTACT
326 AAATCCACCATCTTCGATCTACT
21318808 TCGCTGTCAA
Statistics
Matches: 324, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
395 307 0.95
396 17 0.05
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (395 bp):
CTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAAGTAAAA
TCCGCCATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
CACTGCTGCCCAGGGAGATAGAATTACTGACTTCAATGTACTCCACTATAACCACAAGGAGGTAA
AATTCGCCATCTTCGATCTACTCCACTACTGCTTAAAGAGATAAGATCTGTAATCTTCAATCTAT
TCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACGCCACTGTAACCACAGGGAGGT
AAATCCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTA
TTCCA
Found at i:21320074 original size:42 final size:42
Alignment explanation
Indices: 21320015--21320097 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
21320005 CGATCCGATC
21320015 AAGATACAAGCTGCTCTAATCACTTCATGCCCCATTCTGATT
1 AAGATACAAGCTGCTCTAATCACTTCATGCCCCATTCTGATT
*
21320057 AAGATACAAGTTGCTCTAATCACTTCATGCCCCATTCTGAT
1 AAGATACAAGCTGCTCTAATCACTTCATGCCCCATTCTGAT
21320098 CAATATTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (42 bp):
AAGATACAAGCTGCTCTAATCACTTCATGCCCCATTCTGATT
Found at i:21320203 original size:7 final size:7
Alignment explanation
Indices: 21320184--21320233 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
21320174 TTAGCCTCTC
21320184 CATTTTT
1 CATTTTT
21320191 -ACTTTTT
1 CA-TTTTT
21320198 CATTTTTT
1 CA-TTTTT
*
21320206 CACTTTT
1 CATTTTT
21320213 CA-TTTT
1 CATTTTT
21320219 CATTTTT
1 CATTTTT
21320226 CATCTTTT
1 CAT-TTTT
21320234 TTTTTTGCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
6 7 0.19
7 18 0.49
8 12 0.32
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:21320218 original size:21 final size:21
Alignment explanation
Indices: 21320194--21320233 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
21320184 CATTTTTACT
21320194 TTTTCATTTTTTCA-CTTTTCA
1 TTTTCA-TTTTTCATCTTTTCA
21320215 TTTTCATTTTTCATCTTTT
1 TTTTCATTTTTCATCTTTT
21320234 TTTTTTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCATTTTTCATCTTTTCA
Found at i:21320239 original size:21 final size:21
Alignment explanation
Indices: 21320187--21320239 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
21320177 GCCTCTCCAT
21320187 TTTTACTTTTTCATTTTTTCAC
1 TTTT-CTTTTTCATTTTTTCAC
*
21320209 TTTTCATTTTCA-TTTTTCATC
1 TTTTCTTTTTCATTTTTTCA-C
*
21320230 TTTTTTTTTT
1 TTTTCTTTTT
21320240 GCAATTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.26
21 16 0.59
22 4 0.15
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTCTTTTTCATTTTTTCAC
Found at i:21325459 original size:27 final size:30
Alignment explanation
Indices: 21325424--21325504 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 30
21325414 ATTCATAGAA
* *
21325424 TAAAAATATAAATTACTATCATATAATAAT
1 TAAATATATAAAATACTATCATATAATAAT
*
21325454 T-TATATATAAAATA-TAT-ATATAATAA-
1 TAAATATATAAAATACTATCATATAATAAT
*
21325480 T-AATGTATGAAAATACTATCATATA
1 TAAATATAT-AAAATACTATCATATA
21325505 TTTCTTTAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
26 6 0.14
27 15 0.35
28 6 0.14
29 15 0.35
30 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.38
Consensus pattern (30 bp):
TAAATATATAAAATACTATCATATAATAAT
Found at i:21325703 original size:24 final size:24
Alignment explanation
Indices: 21325625--21325705 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 24
21325615 AAAGAAAATA
* *
21325625 ATATATGATAAA-TCTAAATAATG
1 ATATATGATAAATTTTAAATTATG
* *
21325648 --ATATGATAAGTTTAAAATTAT-
1 ATATATGATAAATTTTAAATTATG
* *
21325669 AGTACAGGATAAATTTTAAATTATG
1 A-TATATGATAAATTTTAAATTATG
21325694 ATATATGATAAA
1 ATATATGATAAA
21325706 CTTAAATAGT
Statistics
Matches: 43, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
21 9 0.21
22 7 0.16
24 26 0.60
25 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.37
Consensus pattern (24 bp):
ATATATGATAAATTTTAAATTATG
Found at i:21325734 original size:22 final size:22
Alignment explanation
Indices: 21325709--21325774 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 22
21325699 TGATAAACTT
21325709 AAATAGTACTTATGATAATTTA
1 AAATAGTACTTATGATAATTTA
21325731 AAATAGTA--TATGAT-A-TTA
1 AAATAGTACTTATGATAATTTA
** *
21325749 AAATAAAACTAATGATAAATTTA
1 AAATAGTACTTATGAT-AATTTA
21325772 AAA
1 AAA
21325775 CAATGTTAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
18 9 0.25
19 1 0.03
20 11 0.31
22 9 0.25
23 6 0.17
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.35
Consensus pattern (22 bp):
AAATAGTACTTATGATAATTTA
Found at i:21326782 original size:14 final size:15
Alignment explanation
Indices: 21326764--21326800 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
21326754 TTTTTCTCTG
21326764 CTCTTTTTTCTATTT
1 CTCTTTTTTCTATTT
*
21326779 -TC-TTTTTCTGTTT
1 CTCTTTTTTCTATTT
21326792 CTCTTTTTT
1 CTCTTTTTT
21326801 GTTTGCTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 10 0.53
14 4 0.21
15 5 0.26
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.76
Consensus pattern (15 bp):
CTCTTTTTTCTATTT
Found at i:21329045 original size:7 final size:7
Alignment explanation
Indices: 21329035--21329080 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
21329025 AAAAAAAGAG
21329035 ATGAAAA
1 ATGAAAA
21329042 ATG-AAA
1 ATGAAAA
21329048 ATGAAAA
1 ATGAAAA
21329055 ATGAAAAAA
1 ATG--AAAA
21329064 ATGAAAA
1 ATGAAAA
21329071 A-GTAAAA
1 ATG-AAAA
21329078 ATG
1 ATG
21329081 GAGAGGCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.21
7 19 0.56
8 1 0.03
9 7 0.21
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:21329051 original size:13 final size:13
Alignment explanation
Indices: 21329035--21329061 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21329025 AAAAAAAGAG
21329035 ATGAAAAATGAAA
1 ATGAAAAATGAAA
21329048 ATGAAAAATGAAA
1 ATGAAAAATGAAA
21329061 A
1 A
21329062 AAATGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:21329063 original size:22 final size:23
Alignment explanation
Indices: 21329038--21329080 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
21329028 AAAAGAGATG
*
21329038 AAAAATGAAAATG-AAAAATGAA
1 AAAAATGAAAAAGTAAAAATGAA
21329060 AAAAATGAAAAAGTAAAAATG
1 AAAAATGAAAAAGTAAAAATG
21329081 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (23 bp):
AAAAATGAAAAAGTAAAAATGAA
Found at i:21330592 original size:128 final size:128
Alignment explanation
Indices: 21330363--21331043 Score: 1114
Period size: 128 Copynumber: 5.3 Consensus size: 128
21330353 AAAACCTAGC
*
21330363 TCCCTGACCAGCAGTGGAATAGGTTGGTAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGC
1 TCCCTGATCAGCAGTGGAATAGGTTGG-AAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGC
*
21330428 AGATCGAAAGA-GGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATA
65 AGATC-AAAGACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATA
* *
21330492 TCCCTGATCAACAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCA
1 TCCCTGATCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCA
* **
21330557 GATCGAAAG-CGACAAATCTTATCTTCAAAAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATA
66 GATC-AAAGACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATA
* *
21330620 TCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCA
1 TCCCTGATCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCA
* * *
21330685 GATCAAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAAATTTAAGCCACAAGTCCTATG
66 GATCAAAGACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATA
* *
21330748 TCCCTGATCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGAAGCA
1 TCCCTGATCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCA
* * *
21330813 GATCAAAGACGGCAAATCTTATCTTCTAGTGTAAGGAAGCAGATTTAAGACACAAGTCCTATG
66 GATCAAAGACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATA
* * *
21330876 TCTCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGTA
1 TCCCTGATCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCA
*
21330941 GATCAAAGATGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATA
66 GATCAAAGACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATA
*
21331004 TCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAGATC
1 TCCCTGATCAGCAGTGGAATAGGTT-GGAAATTACAGATC
21331044 CTATCTCCAT
Statistics
Matches: 516, Mismatches: 33, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
127 4 0.01
128 473 0.92
129 39 0.08
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (128 bp):
TCCCTGATCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCA
GATCAAAGACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATA
Found at i:21331146 original size:41 final size:39
Alignment explanation
Indices: 21331127--21331407 Score: 125
Period size: 44 Copynumber: 6.7 Consensus size: 39
21331117 TCGCATCAGG
*
21331127 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAA
* * *
21331166 TCTTATCTCCCTGAGGTTACAGCGGAGTAGACTGAAGCCAGAAA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCG-A---AG-AA
* * * **
21331210 TCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCCGGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAA----G-AA
* * * * * * * ***
21331254 TCCTATTTCCTTAATATTATAGTGGAGCGAATTAAAATAAATG-A
1 TCTTATCTCCCTGAGATTACAGTGGA--G---TAGACCGAA-GAA
* * * * * *
21331298 TCTTATCTCTCTGAAATTACAGTAGAGTAAATCGCATCAG-G
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCG-A--AGAA
* *
21331339 TCTTATCTCCCTGAGATTACAGTGGAATAAACCGAAGAAA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAG-AA
21331379 TCTTATCTCCCTGAGATTACAGTGGAGTA
1 TCTTATCTCCCTGAGATTACAGTGGAGTA
21331408 CATTGAATCA
Statistics
Matches: 184, Mismatches: 39, Indels: 37
0.71 0.15 0.14
Matches are distributed among these distances:
38 2 0.01
39 34 0.18
40 32 0.17
41 30 0.16
42 2 0.01
43 3 0.02
44 74 0.40
46 2 0.01
49 5 0.03
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (39 bp):
TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAA
Found at i:21331175 original size:39 final size:42
Alignment explanation
Indices: 21331127--21331235 Score: 134
Period size: 39 Copynumber: 2.6 Consensus size: 42
21331117 TCGCATCAGG
*
21331127 TCTTATCTCCCTGAGATTACAGTGGAATAGACCG-A-AG-AA
1 TCTTATCTCCCTGAGATTACAGCGGAATAGACCGAACAGAAA
* * *
21331166 TCTTATCTCCCTGAGGTTACAGCGGAGTAGACTGAAGCCAGAAA
1 TCTTATCTCCCTGAGATTACAGCGGAATAGACCGAA--CAGAAA
*
21331210 TCTTATCTCCCTAAGATTACAGCGGA
1 TCTTATCTCCCTGAGATTACAGCGGA
21331236 GCAGATTGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 30 0.51
40 1 0.02
43 2 0.03
44 26 0.44
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (42 bp):
TCTTATCTCCCTGAGATTACAGCGGAATAGACCGAACAGAAA
Found at i:21331230 original size:44 final size:43
Alignment explanation
Indices: 21331127--21331248 Score: 144
Period size: 44 Copynumber: 2.9 Consensus size: 43
21331117 TCGCATCAGG
* * *
21331127 TCTTATCTCCCTGAGATTACAGTGGAATAGACCG-A---AGAA
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGACTGAAGCCAGAA
*
21331166 TCTTATCTCCCTGAGGTTACAGCGGAGTAGACTGAAGCCAGAAA
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGACTGAAGCCAG-AA
* * *
21331210 TCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCC
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGACTGAAGCC
21331249 GGTAATCCTA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
39 30 0.43
40 1 0.01
43 2 0.03
44 37 0.53
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGCGGAGTAGACTGAAGCCAGAA
Found at i:21333301 original size:31 final size:31
Alignment explanation
Indices: 21333240--21333301 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
21333230 ATATATATAT
*
21333240 ATATACATTATTTAGTTTAAATTGTCTTTTA
1 ATATACATTATTTAGTTTAAATTATCTTTTA
* *
21333271 ATATATATTATTTAGTTTAAATTATTTTTTA
1 ATATACATTATTTAGTTTAAATTATCTTTTA
21333302 TATGTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (31 bp):
ATATACATTATTTAGTTTAAATTATCTTTTA
Found at i:21333304 original size:28 final size:30
Alignment explanation
Indices: 21333239--21333311 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 30
21333229 TATATATATA
* *
21333239 TATATACATTATTTAGTTTAAATTGTCTTT
1 TATATATATTATTTAGTTTAAATTATCTTT
21333269 TAATATATATTATTTAGTTTAAATTAT-TTT
1 T-ATATATATTATTTAGTTTAAATTATCTTT
*
21333299 T-TATATGTTATTT
1 TATATATATTATTT
21333312 CAAAATTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 11 0.28
30 5 0.13
31 23 0.59
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (30 bp):
TATATATATTATTTAGTTTAAATTATCTTT
Found at i:21337759 original size:60 final size:59
Alignment explanation
Indices: 21337684--21337882 Score: 199
Period size: 60 Copynumber: 3.3 Consensus size: 59
21337674 TCAAAGTGGA
* * * * *
21337684 AACAATTGGCTAGTTCAAAGAATAACTTGGACAAAAAAAAAAGGTTCAAGCCCTTATG-G-G
1 AACAATTGTCAAGTTC-AGGAATAACTTAGATAAAAAAAAAA-GTT-AAGCCCTTATGTGAG
* *
21337744 AACAATTGTCAAGTTCAGGAACTAACTTAGATAAAAAAATAATTTAA-CCCTTAATGTGAG
1 AACAATTGTCAAGTTCAGGAA-TAACTTAGATAAAAAAAAAAGTTAAGCCCTT-ATGTGAG
* *
21337804 AACAATTG-CAAGTTCAGGAATAAACTTAGATAAAAGAAAAAAAGTTTAGCCCTCCATGTGAG
1 AACAATTGTCAAGTTCAGGAAT-AACTTAGAT-AAA-AAAAAAAGTTAAGCCCT-TATGTGAG
*
21337866 AACCATTGTCAAGTTCA
1 AACAATTGTCAAGTTCA
21337883 AGCCCCAAAA
Statistics
Matches: 117, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
57 5 0.04
58 6 0.05
59 28 0.24
60 43 0.37
61 9 0.08
62 18 0.15
63 8 0.07
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.25
Consensus pattern (59 bp):
AACAATTGTCAAGTTCAGGAATAACTTAGATAAAAAAAAAAGTTAAGCCCTTATGTGAG
Found at i:21337823 original size:59 final size:63
Alignment explanation
Indices: 21337743--21337882 Score: 191
Period size: 62 Copynumber: 2.3 Consensus size: 63
21337733 GCCCTTATGG
* *
21337743 GAACAATTGTCAAGTTCAGGAACT-AACTTAGAT-AAA-AAAATAA-TTTAACCCTTAATGTGA
1 GAACAATTGTCAAGTTCAGGAA-TAAACTTAGATAAAAGAAAAAAAGTTTAACCCTCAATGTGA
* *
21337803 GAACAATTG-CAAGTTCAGGAATAAACTTAGATAAAAGAAAAAAAGTTTAGCCCTCCATGTGA
1 GAACAATTGTCAAGTTCAGGAATAAACTTAGATAAAAGAAAAAAAGTTTAACCCTCAATGTGA
*
21337865 GAACCATTGTCAAGTTCA
1 GAACAATTGTCAAGTTCA
21337883 AGCCCCAAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
58 1 0.01
59 21 0.30
60 12 0.17
61 6 0.09
62 22 0.31
63 8 0.11
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.26
Consensus pattern (63 bp):
GAACAATTGTCAAGTTCAGGAATAAACTTAGATAAAAGAAAAAAAGTTTAACCCTCAATGTGA
Found at i:21337952 original size:16 final size:17
Alignment explanation
Indices: 21337931--21337969 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
21337921 AATCATTTTA
*
21337931 TTTATATTGTGT-TTGT
1 TTTATATTGTGTGTTGC
*
21337947 TTTATATTTTGTGTTGC
1 TTTATATTGTGTGTTGC
21337964 TTTATA
1 TTTATA
21337970 ATTATTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.67
Consensus pattern (17 bp):
TTTATATTGTGTGTTGC
Found at i:21338030 original size:37 final size:36
Alignment explanation
Indices: 21337968--21338046 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 36
21337958 TGTTGCTTTA
21337968 TAATTATTTATCTTATGTTATGTTTA-TATCATGCAT
1 TAATTATTTATCTTATGTTATGTTTACTATCATG-AT
*
21338004 TAATTATTTAATCTTGTGTT-TAGTTTACTATCATGAT
1 TAATTATTT-ATCTTATGTTAT-GTTTACTATCATGAT
21338041 TCAATT
1 T-AATT
21338047 TAAAGAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
36 10 0.26
37 17 0.45
38 11 0.29
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (36 bp):
TAATTATTTATCTTATGTTATGTTTACTATCATGAT
Found at i:21341171 original size:17 final size:17
Alignment explanation
Indices: 21341149--21341195 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
21341139 GTTCATATGA
*
21341149 AATAACAGTTTATACAT
1 AATAACAGTTCATACAT
21341166 AATAACAGTTCATACA-
1 AATAACAGTTCATACAT
*
21341182 ATTTAACAGTTCAT
1 A-ATAACAGTTCAT
21341196 TCAGTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 1 0.04
17 26 0.96
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (17 bp):
AATAACAGTTCATACAT
Found at i:21341622 original size:79 final size:79
Alignment explanation
Indices: 21341491--21341649 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
21341481 ACACATCTCT
21341491 AGGCCATAATGCTCATCACAGAAAAAAGGGTGAGTACTCACAATCTTATGGCATGCCAACTATAT
1 AGGCCATAATGCTCATCACAGAAAAAAGGGTGAGTACTCACAATCTTATGGCATGCCAACTATAT
21341556 CCAATGGTTCCATA
66 CCAATGGTTCCATA
21341570 AGGCCATAATGCTCATCACAGAAAAAAGGGTGAGTACTCACAATCTTATGGCATGCCAACTATAT
1 AGGCCATAATGCTCATCACAGAAAAAAGGGTGAGTACTCACAATCTTATGGCATGCCAACTATAT
21341635 CCAATGGTTCCATA
66 CCAATGGTTCCATA
21341649 A
1 A
21341650 AGTCACAATG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.24
Consensus pattern (79 bp):
AGGCCATAATGCTCATCACAGAAAAAAGGGTGAGTACTCACAATCTTATGGCATGCCAACTATAT
CCAATGGTTCCATA
Found at i:21342002 original size:36 final size:36
Alignment explanation
Indices: 21341940--21342009 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
21341930 AATTAATGCA
*
21341940 ATTCGCCATATTAATACAGATTACCAAATTAACACG
1 ATTCGCCATAATAATACAGATTACCAAATTAACACG
* *
21341976 ATTCGCCATAATAATATA-ATTCACCAAGTTAACA
1 ATTCGCCATAATAATACAGATT-ACCAAATTAACA
21342010 TGGTTCACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 3 0.10
36 27 0.90
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (36 bp):
ATTCGCCATAATAATACAGATTACCAAATTAACACG
Found at i:21342368 original size:36 final size:36
Alignment explanation
Indices: 21342321--21342399 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 36
21342311 TAAACAATGC
21342321 ATATATA--TAATATATATAATACCAAAATCCATTA
1 ATATATACTTAATATATATAATACCAAAATCCATTA
*
21342355 ATATATACTTAATATATATAATACCAAAATCCATTC
1 ATATATACTTAATATATATAATACCAAAATCCATTA
21342391 ATATATACT
1 ATATATACT
21342400 GTTGACACCA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
34 7 0.17
36 35 0.83
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (36 bp):
ATATATACTTAATATATATAATACCAAAATCCATTA
Found at i:21342395 original size:21 final size:20
Alignment explanation
Indices: 21342333--21342395 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 20
21342323 ATATATAATA
21342333 TATATAATACCAAAATCCAT
1 TATATAATACCAAAATCCAT
**
21342353 TA-ATATATA-CTTAAT--A-
1 TATATA-ATACCAAAATCCAT
21342369 TATATAATACCAAAATCCAT
1 TATATAATACCAAAATCCAT
21342389 TCATATA
1 T-ATATA
21342396 TACTGTTGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 13
0.65 0.08 0.27
Matches are distributed among these distances:
16 5 0.16
17 8 0.25
19 8 0.25
20 6 0.19
21 5 0.16
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (20 bp):
TATATAATACCAAAATCCAT
Found at i:21344539 original size:44 final size:44
Alignment explanation
Indices: 21344484--21344889 Score: 163
Period size: 44 Copynumber: 9.3 Consensus size: 44
21344474 GCTCCACTAC
* *
21344484 TGCTTAGGGAGATAAGATTTACAATCTTCGACCTACTCCGCTGT
1 TGCTCAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGT
** ***** * * * **
21344528 TGCTCAGGGAGAT-AGGGCTGGTGCCTTCGATCTGCTCCACTAC
1 TGCTCAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGT
*
21344571 TGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGT
1 TGCTCAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGT
** ***** * * * **
21344615 TGCTCAGGGAGAT-AGGGCTGGTGCCTTCGATCTGCTCCACTAC
1 TGCTCAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGT
* * * * **
21344658 TGCTTAGGGAGATAAGATCTACAATATTTGACCTACTCTGCTAC
1 TGCTCAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGT
* * ** *** * * * * **
21344702 TGTTCAGAGAGAT-AGGGCTGGTACCTTCGATCTGCTCCACTAC
1 TGCTCAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGT
* * *
21344745 TGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCTGC
1 TGCTCAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGT
* * ** ***** * * ** *
21344789 TGATCAAGGAGAT-AGGGCTGGTGCCTTCGATCTGCTCCATTAT
1 TGCTCAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGT
* * * **
21344832 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTAC
1 TGCTCAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGT
*
21344876 TGCTCATGGAGATA
1 TGCTCAGGGAGATA
21344890 GGACTGATTA
Statistics
Matches: 241, Mismatches: 117, Indels: 8
0.66 0.32 0.02
Matches are distributed among these distances:
43 113 0.47
44 128 0.53
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (44 bp):
TGCTCAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGT
Found at i:21344605 original size:87 final size:87
Alignment explanation
Indices: 21344459--21344891 Score: 686
Period size: 87 Copynumber: 5.0 Consensus size: 87
21344449 TTAGAGGTAT
* *
21344459 TGGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTACAATCTTCGACCTACTCCG
1 TGGTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCG
*
21344524 CTGTTGCTCAGGGAGATAGGGC
66 CTGCTGCTCAGGGAGATAGGGC
21344546 TGGTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCG
1 TGGTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCG
*
21344611 CTGTTGCTCAGGGAGATAGGGC
66 CTGCTGCTCAGGGAGATAGGGC
* * *
21344633 TGGTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATATTTGACCTACTCTG
1 TGGTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCG
* * *
21344698 CTACTGTTCAGAGAGATAGGGC
66 CTGCTGCTCAGGGAGATAGGGC
* *
21344720 TGGTACCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCG
1 TGGTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCG
* *
21344785 CTGCTGATCAAGGAGATAGGGC
66 CTGCTGCTCAGGGAGATAGGGC
* * * *
21344807 TGGTGCCTTCGATCTGCTCCATTATTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCA
1 TGGTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCG
* *
21344872 CTACTGCTCATGGAGATAGG
66 CTGCTGCTCAGGGAGATAGG
21344892 ACTGATTATG
Statistics
Matches: 321, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 321 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (87 bp):
TGGTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCG
CTGCTGCTCAGGGAGATAGGGC
Found at i:21354502 original size:9 final size:9
Alignment explanation
Indices: 21354488--21354518 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21354478 GTTAAATGAA
21354488 TCGAGTTAT
1 TCGAGTTAT
*
21354497 TCGAGTTAA
1 TCGAGTTAT
21354506 TCGAGTTAT
1 TCGAGTTAT
21354515 TCGA
1 TCGA
21354519 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:21354588 original size:9 final size:9
Alignment explanation
Indices: 21354571--21354607 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
21354561 TGAGTTTTCG
21354571 AATTCGAAT
1 AATTCGAAT
*
21354580 AACTCGAAT
1 AATTCGAAT
21354589 AATTCGAAT
1 AATTCGAAT
21354598 AATTCGAAT
1 AATTCGAAT
21354607 A
1 A
21354608 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:21354852 original size:30 final size:31
Alignment explanation
Indices: 21354816--21354876 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
21354806 AAAACTTTTA
*
21354816 TTTTCCCCAAAAATTTTTACTCCC-TCCCAT
1 TTTTCCCCAAAAACTTTTACTCCCTTCCCAT
* *
21354846 TTTTCCCCTAAAACTTTTATTCCCTTCCCAT
1 TTTTCCCCAAAAACTTTTACTCCCTTCCCAT
21354877 CCCACCTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCCAAAAACTTTTACTCCCTTCCCAT
Found at i:21355153 original size:17 final size:17
Alignment explanation
Indices: 21355133--21355179 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
21355123 CACATTTTAT
21355133 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
*
21355150 ATTATTT-TGTCATATTGA
1 ATTATTTATAT--TATTGA
21355168 A-TATTTATATTA
1 ATTATTTATATTA
21355180 AAACTGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
16 4 0.16
17 12 0.48
18 9 0.36
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.57
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:21356544 original size:26 final size:26
Alignment explanation
Indices: 21356505--21356581 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
21356495 TGGAGGAAGT
*
21356505 ATACTGTTACTGGCAGCTTTACTGCG
1 ATACTATTACTGGCAGCTTTACTGCG
* *
21356531 ATACTATTATTGGCAGCTTCACTGCG
1 ATACTATTACTGGCAGCTTTACTGCG
* *
21356557 ATACTATTGCTGGCAGCTTTGCTGC
1 ATACTATTACTGGCAGCTTTACTGC
21356582 AATATTGGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTACTGCG
Found at i:21369105 original size:23 final size:23
Alignment explanation
Indices: 21368993--21369098 Score: 119
Period size: 23 Copynumber: 4.7 Consensus size: 23
21368983 ACCTGATCAG
*
21368993 TATAAGACACAT-AAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
** * * *
21369015 -A-ACGACACACGAGGTGCTTAA
1 TATACGACACATAAAGTGCCTGA
*
21369036 AATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
21369059 TATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
*
21369082 TTTACGACACATAAAGT
1 TATACGACACATAAAGT
21369099 AGCTGATCGG
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
20 7 0.10
21 8 0.12
22 1 0.01
23 53 0.77
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (23 bp):
TATACGACACATAAAGTGCCTGA
Found at i:21370232 original size:18 final size:18
Alignment explanation
Indices: 21370194--21370232 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
21370184 TTTGTTTCGT
*
21370194 TTTTATTTCTTTACTTTC
1 TTTTATTTCTTTACTTGC
21370212 TTTTATTTACTTTA-TTGC
1 TTTTATTT-CTTTACTTGC
21370230 TTT
1 TTT
21370233 AATTATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTATTTCTTTACTTGC
Found at i:21371270 original size:15 final size:16
Alignment explanation
Indices: 21371252--21371285 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21371242 AGATCAAATT
*
21371252 AATTAA-CTAAGTGCA
1 AATTAATCTAAATGCA
21371267 AATTAATCTAAATGCA
1 AATTAATCTAAATGCA
21371283 AAT
1 AAT
21371286 AAAATGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (16 bp):
AATTAATCTAAATGCA
Found at i:21372910 original size:213 final size:212
Alignment explanation
Indices: 21372538--21372970 Score: 839
Period size: 213 Copynumber: 2.0 Consensus size: 212
21372528 ATGTATGATT
21372538 TAAATAAGCTCCCACACTTATTAATTCAATGGTCTCACTACAACAATTAAAGCACAAAAATTACT
1 TAAA-AAGCTCCCACACTTATTAATTCAATGGTCTCACTACAACAATTAAAGCACAAAAATTACT
21372603 ATGTAACAGAAGATAGTTAAATTATGCAAAATTTAATTCATAAATTCATAAAATTATATACTTTA
65 ATGTAACAGAAGATAGTTAAATTATGCAAAATTTAATTCATAAATTCATAAAATTATATACTTTA
21372668 CTAAAATTATGCTTATTGTCTCAATATGAAAAAAAAATCACCCAATTAAATATCCAAATTCTTGA
130 CTAAAATTATGCTTATTGTCTCAATATG-AAAAAAAATCACCCAATTAAATATCCAAATTCTTGA
21372733 TATTAACATAAATTCTAAG
194 TATTAACATAAATTCTAAG
21372752 TAAAAAGCTCCCACACTTATTAATTCAATGGTCTCACTACAACAATTAAAGCACAAAAATTACTA
1 TAAAAAGCTCCCACACTTATTAATTCAATGGTCTCACTACAACAATTAAAGCACAAAAATTACTA
*
21372817 TGTAACATAAGATAGTTAAATTATGCAAAATTTAATTCATAAATTCATAAAATTATATACTTTAC
66 TGTAACAGAAGATAGTTAAATTATGCAAAATTTAATTCATAAATTCATAAAATTATATACTTTAC
21372882 TAAAATTATGCTTATTGTCTCAATATGAAAAAAAATCACCCAATTAAATATCCAAATTCTTGATA
131 TAAAATTATGCTTATTGTCTCAATATGAAAAAAAATCACCCAATTAAATATCCAAATTCTTGATA
21372947 TTAACATAAATTCTAAG
196 TTAACATAAATTCTAAG
21372964 TAAAAAG
1 TAAAAAG
21372971 GTGATATACA
Statistics
Matches: 218, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
212 62 0.28
213 152 0.70
214 4 0.02
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (212 bp):
TAAAAAGCTCCCACACTTATTAATTCAATGGTCTCACTACAACAATTAAAGCACAAAAATTACTA
TGTAACAGAAGATAGTTAAATTATGCAAAATTTAATTCATAAATTCATAAAATTATATACTTTAC
TAAAATTATGCTTATTGTCTCAATATGAAAAAAAATCACCCAATTAAATATCCAAATTCTTGATA
TTAACATAAATTCTAAG
Found at i:21375679 original size:84 final size:80
Alignment explanation
Indices: 21375581--21375759 Score: 216
Period size: 84 Copynumber: 2.2 Consensus size: 80
21375571 AAAGGGAAAG
* * *
21375581 TCAAATATGGGAAATAAAAGAAAATAACAACTAT-GTAAAATAGAGATATGAAAGGGAATTGAAT
1 TCAAATATGGGAAATAAAAGAAAATAACAAATATAG-AAAATAGACATAT-AAAGAG-ATT-AAT
*
21375645 ATTTTATGAAAAATAGATAA
62 ATTTTATG-AAAATAGAGAA
* * * *
21375665 TCAAATATGAGAAATGAAAGAGAATAACAAATATAGAAAATAGACATATAAAGAGATTTATATTT
1 TCAAATATGGGAAATAAAAGAAAATAACAAATATAGAAAATAGACATATAAAGAGATTAATATTT
*
21375730 TATGGAAATAGAGAA
66 TATGAAAATAGAGAA
*
21375745 TCCAATATGGGAAAT
1 TCAAATATGGGAAAT
21375760 GAANNNNNNN
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
80 22 0.27
81 10 0.12
82 3 0.04
83 5 0.06
84 42 0.51
85 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.17, T:0.25
Consensus pattern (80 bp):
TCAAATATGGGAAATAAAAGAAAATAACAAATATAGAAAATAGACATATAAAGAGATTAATATTT
TATGAAAATAGAGAA
Found at i:21377321 original size:13 final size:13
Alignment explanation
Indices: 21377303--21377328 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21377293 TTTATAACTA
21377303 TCTCTGTTGATTT
1 TCTCTGTTGATTT
21377316 TCTCTGTTGATTT
1 TCTCTGTTGATTT
21377329 CCTTGAACTC
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:0.08, C:0.15, G:0.15, T:0.62
Consensus pattern (13 bp):
TCTCTGTTGATTT
Found at i:21380755 original size:9 final size:9
Alignment explanation
Indices: 21380741--21380795 Score: 92
Period size: 9 Copynumber: 6.1 Consensus size: 9
21380731 GTAGTGATTC
21380741 AATTCGGTT
1 AATTCGGTT
21380750 AATTCGGTT
1 AATTCGGTT
*
21380759 AATTCAGTT
1 AATTCGGTT
21380768 AATTCGGTT
1 AATTCGGTT
*
21380777 AATTCGGCT
1 AATTCGGTT
21380786 AATTCGGTT
1 AATTCGGTT
21380795 A
1 A
21380796 TTTTTTAACC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:21381962 original size:27 final size:29
Alignment explanation
Indices: 21381921--21381994 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 29
21381911 AATCGTAAAA
* *
21381921 AAATATA-AAAAAATTGTAAAAT-TAATA-
1 AAATATAGAAACAATTATAAAATAT-ATAG
21381948 AAA-ATAGAAACAATTATAAAATATATAG
1 AAATATAGAAACAATTATAAAATATATAG
21381976 AAATATAGAAA-AATATATA
1 AAATATAGAAACAAT-TATA
21381995 TAATTTTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 3 0.08
27 19 0.47
28 7 0.17
29 11 0.28
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.27
Consensus pattern (29 bp):
AAATATAGAAACAATTATAAAATATATAG
Found at i:21382043 original size:19 final size:21
Alignment explanation
Indices: 21382021--21382066 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
21382011 TAAGAAAATG
21382021 ATAAAAAAT-GT-AAAGAATT
1 ATAAAAAATCGTGAAAGAATT
*
21382040 AT-AAAATTCGTGAAAGAATT
1 ATAAAAAATCGTGAAAGAATT
21382060 ATAAAAA
1 ATAAAAA
21382067 TTATCATACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 5 0.22
19 4 0.17
20 10 0.43
21 4 0.17
ACGTcount: A:0.61, C:0.02, G:0.11, T:0.26
Consensus pattern (21 bp):
ATAAAAAATCGTGAAAGAATT
Found at i:21382290 original size:28 final size:26
Alignment explanation
Indices: 21382259--21382348 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 26
21382249 AAAAGTTTAT
** *
21382259 TATTTTTTATTTTTTTACGTTTTATA
1 TATTTTTTATTTTTTTAAATTTTAAA
*
21382285 TATATTTCTATTTTTATTAAATTTTAAA
1 TAT-TTTTTATTTTT-TTAAATTTTAAA
21382313 TATTTTTAATATTTTTTATTAAATTTTAAA
1 TATTTTT--TA-TTTTT-TTAAATTTTAAA
21382343 T-TTTTT
1 TATTTTT
21382349 ATAACTTTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
26 3 0.06
27 13 0.24
28 12 0.22
29 7 0.13
30 19 0.35
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (26 bp):
TATTTTTTATTTTTTTAAATTTTAAA
Found at i:21382339 original size:20 final size:19
Alignment explanation
Indices: 21382316--21382368 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
21382306 TTTTAAATAT
21382316 TTTTAATATTTTTTATTAAA
1 TTTTAATATTTTTTA-TAAA
*
21382336 TTTTAA-ATTTTTTATAAC
1 TTTTAATATTTTTTATAAA
*
21382354 TTTTATTGATTTTTT
1 TTTTAAT-ATTTTTT
21382369 TATATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 8 0.28
19 8 0.28
20 13 0.45
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTAATATTTTTTATAAA
Found at i:21382376 original size:9 final size:9
Alignment explanation
Indices: 21382254--21382378 Score: 58
Period size: 9 Copynumber: 13.3 Consensus size: 9
21382244 TTTATAAAAG
21382254 TTTATTATTT
1 TTTA-TATTT
21382264 TTTAT-TTT
1 TTTATATTT
**
21382272 TTTACGTTT
1 TTTATATTT
*
21382281 TATATATATT
1 TTTATAT-TT
*
21382291 TCTAT-TTT
1 TTTATATTT
*
21382299 TATTAAATTT
1 T-TTATATTT
**
21382309 TAAATATTT
1 TTTATATTT
*
21382318 TTAATATTT
1 TTTATATTT
**
21382327 TTTATTAAAT
1 TTTA-TATTT
*
21382337 TTTAAATTT
1 TTTATATTT
21382346 TTTATAACTTT
1 TTTAT-A-TTT
21382357 TATTGAT-TTT
1 T-TT-ATATTT
21382367 TTTATATTT
1 TTTATATTT
21382376 TTT
1 TTT
21382379 TGTCATATGT
Statistics
Matches: 87, Mismatches: 18, Indels: 21
0.69 0.14 0.17
Matches are distributed among these distances:
8 12 0.14
9 41 0.47
10 26 0.30
11 4 0.05
12 2 0.02
13 2 0.02
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTATATTT
Found at i:21382696 original size:84 final size:85
Alignment explanation
Indices: 21382543--21382708 Score: 210
Period size: 84 Copynumber: 2.0 Consensus size: 85
21382533 TTTGAAAAAT
* * * * * * *
21382543 TTTGAGGGTCTTTTTTATGCATTTTGACAATTCAAGTACCCAATTAAATGGAAAAAAAAACAAGG
1 TTTGAAGGCCTTTTTAATACATTTTGAAAATTAAAATACCCAATTAAATGGAAAAAAAAACAAGG
21382608 GCTTAATTTTT-TTTTTAAG
66 GCTTAATTTTTCTTTTTAAG
* * **
21382627 TTTGAAGGCCTTTTTAATACATTTTGAAAATTAAAATACCCAATTGAATGG-AAAAAAGAGTAGG
1 TTTGAAGGCCTTTTTAATACATTTTGAAAATTAAAATACCCAATTAAATGGAAAAAAAAACAAGG
21382691 AGCTTAATTTTTCTTTTT
66 -GCTTAATTTTTCTTTTT
21382709 TTTTTTAAGT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
83 10 0.14
84 54 0.78
85 5 0.07
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (85 bp):
TTTGAAGGCCTTTTTAATACATTTTGAAAATTAAAATACCCAATTAAATGGAAAAAAAAACAAGG
GCTTAATTTTTCTTTTTAAG
Found at i:21385105 original size:33 final size:33
Alignment explanation
Indices: 21385068--21385186 Score: 152
Period size: 33 Copynumber: 3.6 Consensus size: 33
21385058 AAACGCACGG
*
21385068 TTTTGTGAAATGATAACAAATATCAGCTTTTCA
1 TTTTGTAAAATGATAACAAATATCAGCTTTTCA
* * *
21385101 TTTTGTAAAATTATAACAAAT-TACAAC-TTTAA
1 TTTTGTAAAATGATAACAAATAT-CAGCTTTTCA
*
21385133 TTTTGTAAAATGATAACAAATATCAGATTTTCA
1 TTTTGTAAAATGATAACAAATATCAGCTTTTCA
* *
21385166 TTTTGTGAAATTATAACAAAT
1 TTTTGTAAAATGATAACAAAT
21385187 TACAACTGTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
32 27 0.37
33 46 0.63
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (33 bp):
TTTTGTAAAATGATAACAAATATCAGCTTTTCA
Found at i:21385149 original size:65 final size:65
Alignment explanation
Indices: 21385068--21385193 Score: 225
Period size: 65 Copynumber: 1.9 Consensus size: 65
21385058 AAACGCACGG
* *
21385068 TTTTGTGAAATGATAACAAATATCAGCTTTTCATTTTGTAAAATTATAACAAATTACAACTTTAA
1 TTTTGTAAAATGATAACAAATATCAGATTTTCATTTTGTAAAATTATAACAAATTACAACTTTAA
*
21385133 TTTTGTAAAATGATAACAAATATCAGATTTTCATTTTGTGAAATTATAACAAATTACAACT
1 TTTTGTAAAATGATAACAAATATCAGATTTTCATTTTGTAAAATTATAACAAATTACAACT
21385194 GTCGAAACCA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (65 bp):
TTTTGTAAAATGATAACAAATATCAGATTTTCATTTTGTAAAATTATAACAAATTACAACTTTAA
Found at i:21386208 original size:18 final size:18
Alignment explanation
Indices: 21386187--21386241 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
21386177 AAAACAGAAA
21386187 ATAAAAAAATGTATAAAT
1 ATAAAAAAATGTATAAAT
* **
21386205 ATAAATAAATAAATAAAT
1 ATAAAAAAATGTATAAAT
*
21386223 ACAAAGAAAA-GTA-AAAT
1 ATAAA-AAAATGTATAAAT
21386240 AT
1 AT
21386242 TGAAAGTAAG
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
17 5 0.18
18 20 0.71
19 3 0.11
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (18 bp):
ATAAAAAAATGTATAAAT
Found at i:21387925 original size:143 final size:143
Alignment explanation
Indices: 21387667--21387934 Score: 421
Period size: 143 Copynumber: 1.9 Consensus size: 143
21387657 TCCTAACCAA
*
21387667 CTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAAATAAG
1 CTGCAACTTCAAGGAGAGAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAAATAAG
*
21387732 ATCCACCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCTAGGGAAATAAGATTCGCTGTCT
66 ATCCACCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
21387797 TCAGTCTGCTCCG
131 TCAGTCTGCTCCG
* * * * *
21387810 CTGCAACTTC-AGGAAGAGAAGGCTGGTGGTTTCAATCTGCTCCATTGTAACTTCAGGAAGATAA
1 CTGCAACTTCAAGG-AGAGAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAAATAA
* * * *
21387874 TATCCGCCATAATTTGTAGCTTTAATTTGTTCCACTGCAACGCCAGGGAAATAAGATTCGC
65 GATCCACCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGC
21387935 CATGATGACT
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
142 3 0.03
143 110 0.97
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (143 bp):
CTGCAACTTCAAGGAGAGAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAAATAAG
ATCCACCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
TCAGTCTGCTCCG
Found at i:21388859 original size:32 final size:33
Alignment explanation
Indices: 21388817--21388879 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
21388807 GGCCTCTCCT
**
21388817 TTTTCATTTTCTTT-TTTTTTTTTTCTGTTTTCA
1 TTTTCATTTTCTTTACCTTTTTTTT-TGTTTTCA
21388850 TTTTC-TTTTCTTTACCTTTTTTTTTGTTTT
1 TTTTCATTTTCTTTACCTTTTTTTTTGTTTT
21388880 TTTAAAGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.05, C:0.13, G:0.03, T:0.79
Consensus pattern (33 bp):
TTTTCATTTTCTTTACCTTTTTTTTTGTTTTCA
Found at i:21388874 original size:27 final size:26
Alignment explanation
Indices: 21388815--21388874 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
21388805 TTGGCCTCTC
**
21388815 CTTTTTCATTTTCTTTTTTTTTTTTT
1 CTTTTTCATTTTCTTTTTTTCCTTTT
21388841 CTGTTTTCATTTTCTTTTCTTTACCTTTT
1 CT-TTTTCATTTTCTTTT-TTT-CCTTTT
21388870 -TTTTT
1 CTTTTT
21388875 GTTTTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 4 0.14
29 4 0.14
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (26 bp):
CTTTTTCATTTTCTTTTTTTCCTTTT
Found at i:21393557 original size:15 final size:14
Alignment explanation
Indices: 21393516--21393553 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
21393506 AAGATATATA
21393516 AATAAATA-GTAAT
1 AATAAATATGTAAT
*
21393529 AATAATAAATGTAAT
1 AATAA-ATATGTAAT
21393544 AATAAATATG
1 AATAAATATG
21393554 GTAAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 5 0.24
14 6 0.29
15 10 0.48
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (14 bp):
AATAAATATGTAAT
Found at i:21397017 original size:22 final size:22
Alignment explanation
Indices: 21396989--21397094 Score: 140
Period size: 22 Copynumber: 4.8 Consensus size: 22
21396979 TTTATTGTTC
*
21396989 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
21397011 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
21397033 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
21397055 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
21397077 AAACATGAGAGCTTAGTA
1 AAACATGAGAGCTTAGTA
21397095 TTTTATTTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 73 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:21399883 original size:15 final size:15
Alignment explanation
Indices: 21399863--21399892 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21399853 CAACACCCTG
21399863 ATTTTAGACCCTAAT
1 ATTTTAGACCCTAAT
*
21399878 ATTTTAGATCCTAAT
1 ATTTTAGACCCTAAT
21399893 TGAAGGATTC
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:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (15 bp):
ATTTTAGACCCTAAT
Found at i:21406062 original size:19 final size:19
Alignment explanation
Indices: 21406038--21406110 Score: 110
Period size: 19 Copynumber: 3.8 Consensus size: 19
21406028 AATCTTCAGG
21406038 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21406057 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* ** *
21406076 AATATATAATCTTAAATAT
1 GATATGCAATCTTAGATAT
21406095 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
21406111 CGACATGATT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:21406315 original size:45 final size:45
Alignment explanation
Indices: 21406251--21406337 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
21406241 AAGAGAAAAA
*
21406251 AAAAAAGGGGGAATAAAAAAAGAGAACGATTGACAGTTTTTTTTT
1 AAAAAAGGAGGAATAAAAAAAGAGAACGATTGACAGTTTTTTTTT
*
21406296 AAAAAAGGAGGAATAAAAAAAGAGAACGATTGGCAGTTTTTT
1 AAAAAAGGAGGAATAAAAAAAGAGAACGATTGACAGTTTTTT
21406338 AAAGGTGGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.48, C:0.05, G:0.23, T:0.24
Consensus pattern (45 bp):
AAAAAAGGAGGAATAAAAAAAGAGAACGATTGACAGTTTTTTTTT
Found at i:21406390 original size:21 final size:19
Alignment explanation
Indices: 21406349--21406391 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
21406339 AAGGTGGTTT
* *
21406349 ATTATTTTTTTTTCTTTCG
1 ATTATTTTTTCTTATTTCG
21406368 ATTATTTTTTACTTATTTACG
1 ATTATTTTTT-CTTATTT-CG
21406389 ATT
1 ATT
21406392 TTAAAAAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 5 0.25
21 5 0.25
ACGTcount: A:0.19, C:0.09, G:0.05, T:0.67
Consensus pattern (19 bp):
ATTATTTTTTCTTATTTCG
Found at i:21406722 original size:33 final size:34
Alignment explanation
Indices: 21406664--21406731 Score: 86
Period size: 33 Copynumber: 2.0 Consensus size: 34
21406654 TTACAGTTCA
* *
21406664 AATTAGTCTTTTTTCATTTTCTTTATTTTTTATT
1 AATTAGTCTTTTTTCATTTTCTTTATATTTAATT
*
21406698 AATTAGT-TTTTTT-ATTCTTTTTTATATTTAATT
1 AATTAGTCTTTTTTCATT-TTCTTTATATTTAATT
21406731 A
1 A
21406732 TTTTAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 3 0.10
33 20 0.67
34 7 0.23
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (34 bp):
AATTAGTCTTTTTTCATTTTCTTTATATTTAATT
Found at i:21406845 original size:22 final size:20
Alignment explanation
Indices: 21406814--21406856 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
21406804 TTATTTTTTA
*
21406814 TTTATTTATATGTAATTATATT
1 TTTATCTATATGT-A-TATATT
21406836 TTTATCTATATGTATATATT
1 TTTATCTATATGTATATATT
21406856 T
1 T
21406857 ATTTTAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 1 0.05
22 12 0.60
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTATCTATATGTATATATT
Found at i:21406952 original size:23 final size:22
Alignment explanation
Indices: 21406926--21406973 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
21406916 AACATATATA
21406926 TTTT-AAAATGCAAATATATATTT
1 TTTTAAAAATGCAAAT-T-TATTT
21406949 TTTTAAAAAATGCAAATTTATTT
1 TTTT-AAAAATGCAAATTTATTT
21406972 TT
1 TT
21406974 ATATACTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 11 0.48
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (22 bp):
TTTTAAAAATGCAAATTTATTT
Found at i:21412505 original size:2 final size:2
Alignment explanation
Indices: 21412498--21412538 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
21412488 AATTAACTTT
21412498 TA 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 TA T
21412539 GCATGCACGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21422104 original size:3 final size:3
Alignment explanation
Indices: 21422098--21422151 Score: 65
Period size: 3 Copynumber: 17.3 Consensus size: 3
21422088 ATTGAATTGC
*
21422098 ATT ATT ATT A-T ATT ATCT ATT ATTT ATT ATAT ATT ATT ATT ATT AAT
1 ATT ATT ATT ATT ATT AT-T ATT A-TT ATT AT-T ATT ATT ATT ATT ATT
21422145 ATT ATT A
1 ATT ATT A
21422152 CTTCCATACG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
2 2 0.04
3 34 0.76
4 9 0.20
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:21422296 original size:27 final size:25
Alignment explanation
Indices: 21422226--21422298 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 25
21422216 ATTGTACATG
* *
21422226 TATATATTTTATATATTTTATTATTA
1 TATATATCTTATA-ATTTTTTTATTA
*
21422252 T-TTTATCTTCATAA-TTTTTTATTA
1 TATATATCTT-ATAATTTTTTTATTA
21422276 TATATATACTTATACATTTTTTT
1 TATATAT-CTTATA-ATTTTTTT
21422299 CTATTTTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
24 10 0.26
25 14 0.37
26 8 0.21
27 6 0.16
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (25 bp):
TATATATCTTATAATTTTTTTATTA
Found at i:21427372 original size:3 final size:3
Alignment explanation
Indices: 21427364--21427400 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
21427354 GAATGATCAC
21427364 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
21427401 AAGAACATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:21431165 original size:30 final size:30
Alignment explanation
Indices: 21431130--21431299 Score: 161
Period size: 30 Copynumber: 5.7 Consensus size: 30
21431120 TAAAAATTTG
21431130 CATTTTGACCCCTAAACTTTTCTAAAATTA
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
*
21431160 CATTTTGACCCCTAAAC-TTTCTCGAAATTA
1 CATTTTGACCCCTAAACTTTTCT-AAAATTA
* **
21431190 TATTTCAACCCCTAAACTTTTCT-AAATTA
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
* *
21431219 CATTTTGACCCTTAAAC-TTTCTTGAAATTA
1 CATTTTGACCCCTAAACTTTTC-TAAAATTA
* * * * *
21431249 CATTTTAACCCTTGAACTTTATC-AGAATGA
1 CATTTTGACCCCTAAACTTT-TCTAAAATTA
*
21431279 CACTTTTG-CCCCAAAACTTTT
1 CA-TTTTGACCCCTAAACTTTT
21431300 GCTGTGTTTA
Statistics
Matches: 116, Mismatches: 17, Indels: 15
0.78 0.11 0.10
Matches are distributed among these distances:
28 4 0.03
29 26 0.22
30 73 0.63
31 11 0.09
32 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.39
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTTCTAAAATTA
Found at i:21431235 original size:59 final size:60
Alignment explanation
Indices: 21431137--21431298 Score: 204
Period size: 59 Copynumber: 2.7 Consensus size: 60
21431127 TTGCATTTTG
*
21431137 ACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCGAAATTATATTTCA
1 ACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCGAAATTACATTTCA
* * *
21431197 ACCCCTAAACTTTTCT-AAATTACATTTTGACCCTTAAACTTTCTTGAAATTACATTTTA
1 ACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCGAAATTACATTTCA
* * * * *
21431256 ACCCTTGAACTTTATC-AGAATGACACTTTTG-CCCCAAAACTTT
1 ACCCCTAAACTTT-TCTAAAATTACA-TTTTGACCCCTAAACTTT
21431299 TGCTGTGTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
59 50 0.56
60 34 0.38
61 5 0.06
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (60 bp):
ACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCGAAATTACATTTCA
Found at i:21431489 original size:10 final size:11
Alignment explanation
Indices: 21431469--21431494 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21431459 AGCAAGAAAC
21431469 AAAAACAAAAA
1 AAAAACAAAAA
21431480 AAAAACAAAAA
1 AAAAACAAAAA
21431491 AAAA
1 AAAA
21431495 TTTCAAAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:21431676 original size:22 final size:22
Alignment explanation
Indices: 21431642--21431701 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
21431632 AAAAACAAAG
*
21431642 AAAAA-AACAAGCAAAAG-AGA
1 AAAAAGAAAAAGCAAAAGAAGA
*
21431662 AAAAGAGAAAGAGC-AAAGAAGA
1 AAAA-AGAAAAAGCAAAAGAAGA
*
21431684 AAAAAGAAAAAGGAAAAG
1 AAAAAGAAAAAGCAAAAG
21431702 GGGGAGAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 4 0.12
21 12 0.38
22 16 0.50
ACGTcount: A:0.73, C:0.05, G:0.22, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAGCAAAAGAAGA
Found at i:21431804 original size:4 final size:4
Alignment explanation
Indices: 21431795--21431869 Score: 52
Period size: 4 Copynumber: 19.5 Consensus size: 4
21431785 CTGATCGGGG
* * * **
21431795 AAGA AAGA AAGG AAGA AAAA GAAGA AGGA AAG- AAGA AA-A GGGA AAG-
1 AAGA AAGA AAGA AAGA AAGA -AAGA AAGA AAGA AAGA AAGA AAGA AAGA
21431841 AAGA AAGA AAGA ACA-A AAGA AA-A AAGA AA
1 AAGA AAGA AAGA A-AGA AAGA AAGA AAGA AA
21431870 AACTTAAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
3 11 0.20
4 39 0.72
5 4 0.07
ACGTcount: A:0.72, C:0.01, G:0.27, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:21431840 original size:25 final size:25
Alignment explanation
Indices: 21431812--21431859 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
21431802 AAAGGAAGAA
* *
21431812 AAAGAAGAAGGAAAGAAGAAAAGGG
1 AAAGAAGAAAGAAAGAACAAAAGGG
21431837 AAAGAAGAAAGAAAGAACAAAAG
1 AAAGAAGAAAGAAAGAACAAAAG
21431860 AAAAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (25 bp):
AAAGAAGAAAGAAAGAACAAAAGGG
Found at i:21431870 original size:7 final size:7
Alignment explanation
Indices: 21431810--21431871 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
21431800 AGAAAGGAAG
21431810 AAAAAGA
1 AAAAAGA
* *
21431817 AGAAGGA
1 AAAAAGA
*
21431824 AAGAAGA
1 AAAAAGA
**
21431831 AAAGGGA
1 AAAAAGA
*
21431838 AAGAAGA
1 AAAAAGA
21431845 AAGAAAGA
1 AA-AAAGA
21431853 ACAAAAGA
1 A-AAAAGA
21431861 AAAAAGA
1 AAAAAGA
21431868 AAAA
1 AAAA
21431872 CTTAAAAACA
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
7 29 0.71
8 11 0.27
9 1 0.02
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:21432549 original size:20 final size:21
Alignment explanation
Indices: 21432515--21432561 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
21432505 TTCCCGTGTT
* *
21432515 AAAAAATTTCGAGTTTTGA-A
1 AAAAAATTTCAAGTTTTCACA
*
21432535 AAAAAATTTTAAGTTTTCACA
1 AAAAAATTTCAAGTTTTCACA
21432556 AAAAAA
1 AAAAAA
21432562 AAGAAGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (21 bp):
AAAAAATTTCAAGTTTTCACA
Found at i:21432675 original size:37 final size:37
Alignment explanation
Indices: 21432568--21432833 Score: 237
Period size: 37 Copynumber: 7.2 Consensus size: 37
21432558 AAAAAAGAAG
* * *
21432568 AAAAAATTTTCGTGTTACAAAGAA-TTTCATGTTTTC
1 AAAAAATTTTCGTGTTTCAAAAAATTTTCGTGTTTTC
* * *
21432604 AAAAAATTCTCGTGCTT--AAAAATTTTCGTCTTTTC
1 AAAAAATTTTCGTGTTTCAAAAAATTTTCGTGTTTTC
*
21432639 AAAAAATTTTCGTATTTCAAAAAATTTTC-TCGTTTTC
1 AAAAAATTTTCGTGTTTCAAAAAATTTTCGT-GTTTTC
*
21432676 AAAAATATCTTTCGTGTTTCAAAGAA-TTTCGTGTTTTC
1 AAAAA-AT-TTTCGTGTTTCAAAAAATTTTCGTGTTTTC
* * * *
21432714 AAAAAATTTTCTCATGCTT--AAAAATTTTTGTATTTTC
1 AAAAAA-TTT-TCGTGTTTCAAAAAATTTTCGTGTTTTC
21432751 AAAAAAATTTCTCGTGTTT--AAAAATTTTCGTGTTTTC
1 -AAAAAATTT-TCGTGTTTCAAAAAATTTTCGTGTTTTC
* *
21432788 AAAAAAAAAATGTTCTTGTTTCAAAAAATTTT-GTGTTTTC
1 ----AAAAAATTTTCGTGTTTCAAAAAATTTTCGTGTTTTC
21432828 AAAAAA
1 AAAAAA
21432834 AAAATTGTGT
Statistics
Matches: 191, Mismatches: 23, Indels: 32
0.78 0.09 0.13
Matches are distributed among these distances:
34 4 0.02
35 24 0.13
36 25 0.13
37 59 0.31
38 30 0.16
39 23 0.12
40 17 0.09
41 9 0.05
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.44
Consensus pattern (37 bp):
AAAAAATTTTCGTGTTTCAAAAAATTTTCGTGTTTTC
Found at i:21432707 original size:17 final size:18
Alignment explanation
Indices: 21432568--21432833 Score: 174
Period size: 18 Copynumber: 14.3 Consensus size: 18
21432558 AAAAAAGAAG
*
21432568 AAAAAATTTTCGTGTTAC
1 AAAAAATTTTCGTGTTTC
* *
21432586 AAAGAA-TTTCATGTTTTC
1 AAAAAATTTTCGTG-TTTC
* *
21432604 AAAAAATTCTCGTGCTT-
1 AAAAAATTTTCGTGTTTC
*
21432621 -AAAAATTTTCGTCTTTTC
1 AAAAAATTTTCGT-GTTTC
*
21432639 AAAAAATTTTCGTATTTC
1 AAAAAATTTTCGTGTTTC
21432657 AAAAAATTTTC-TCGTTTTC
1 AAAAAATTTTCGT-G-TTTC
21432676 AAAAATATCTTTCGTGTTTC
1 AAAAA-AT-TTTCGTGTTTC
*
21432696 AAAGAA-TTTCGTGTTTTC
1 AAAAAATTTTCGTG-TTTC
* *
21432714 AAAAAATTTTCTCATGCTT-
1 AAAAAA-TTT-TCGTGTTTC
* *
21432733 -AAAAATTTTTGTATTTTC
1 AAAAAATTTTCGT-GTTTC
21432751 AAAAAAATTTCTCGTGTTT-
1 -AAAAAATTT-TCGTGTTTC
21432770 -AAAAATTTTCGTGTTTTC
1 AAAAAATTTTCGTG-TTTC
* *
21432788 AAAAAAAAAATGTTCTTGTTTC
1 ----AAAAAATTTTCGTGTTTC
21432810 AAAAAATTTT-GTGTTTTC
1 AAAAAATTTTCGTG-TTTC
21432828 AAAAAA
1 AAAAAA
21432834 AAAATTGTGT
Statistics
Matches: 195, Mismatches: 26, Indels: 54
0.71 0.09 0.20
Matches are distributed among these distances:
16 18 0.09
17 34 0.17
18 63 0.32
19 27 0.14
20 25 0.13
21 12 0.06
22 5 0.03
23 11 0.06
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.44
Consensus pattern (18 bp):
AAAAAATTTTCGTGTTTC
Found at i:21432794 original size:75 final size:74
Alignment explanation
Indices: 21432568--21432793 Score: 236
Period size: 75 Copynumber: 3.1 Consensus size: 74
21432558 AAAAAAGAAG
* * * * *
21432568 AAAAAATTTTCGTGTTACAAAGAA-TTTCAT-GTTTTC-AAAAAA-TTCTCGTGCTTAAAAATTT
1 AAAAAATTTTCGTATTTCAAAAAATTTTC-TCATTTTCAAAAAAATTTCTCGTGTTTAAAAATTT
*
21432629 TCGTCTTTTC
65 TCGTGTTTTC
* *
21432639 AAAAAATTTTCGTATTTCAAAAAATTTTCTCGTTTTCAAAAATATCTT-TCGTGTTTCAAAGAA-
1 AAAAAATTTTCGTATTTCAAAAAATTTTCTCATTTTCAAAAAAAT-TTCTCGTGTTT-AAA-AAT
21432702 TTTCGTGTTTTC
63 TTTCGTGTTTTC
* *
21432714 AAAAAATTTTC-TCATGCTT-AAAAATTTTTGT-ATTTTCAAAAAAATTTCTCGTGTTTAAAAAT
1 AAAAAATTTTCGT-AT--TTCAAAAAATTTTCTCATTTTCAAAAAAATTTCTCGTGTTTAAAAAT
21432776 TTTCGTGTTTTC
63 TTTCGTGTTTTC
21432788 AAAAAA
1 AAAAAA
21432794 AAAATGTTCT
Statistics
Matches: 133, Mismatches: 10, Indels: 21
0.81 0.06 0.13
Matches are distributed among these distances:
71 22 0.17
72 10 0.08
73 7 0.05
74 31 0.23
75 49 0.37
76 12 0.09
77 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (74 bp):
AAAAAATTTTCGTATTTCAAAAAATTTTCTCATTTTCAAAAAAATTTCTCGTGTTTAAAAATTTT
CGTGTTTTC
Found at i:21432904 original size:19 final size:18
Alignment explanation
Indices: 21432862--21432896 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21432852 TTCTCCCGTT
21432862 TTAAAATTTTTCGTGTTG
1 TTAAAATTTTTCGTGTTG
*
21432880 TCAAAATTTTTCGTGTT
1 TTAAAATTTTTCGTGTT
21432897 TTATAAAAAA
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:0.23, C:0.09, G:0.14, T:0.54
Consensus pattern (18 bp):
TTAAAATTTTTCGTGTTG
Found at i:21434625 original size:16 final size:16
Alignment explanation
Indices: 21434604--21434635 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21434594 TTCACTTGTC
*
21434604 ATTCATTCATTCATTG
1 ATTCATTCATGCATTG
21434620 ATTCATTCATGCATTG
1 ATTCATTCATGCATTG
21434636 CATGTACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (16 bp):
ATTCATTCATGCATTG
Found at i:21438618 original size:1 final size:1
Alignment explanation
Indices: 21438614--21438719 Score: 86
Period size: 1 Copynumber: 106.0 Consensus size: 1
21438604 AAAAAGGAAC
* * * * * * * * *
21438614 AAAAAAAACAAATAAAAAAACAAAAAAAAACAAAAAAACAAAAACAAAAACAAAAACAAAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
21438679 AAAAAAAAATAAAAAAAAAACAAAGAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21438720 TCAAGATGAA
Statistics
Matches: 77, Mismatches: 28, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:21438651 original size:30 final size:31
Alignment explanation
Indices: 21438614--21438713 Score: 114
Period size: 30 Copynumber: 3.2 Consensus size: 31
21438604 AAAAAGGAAC
21438614 AAAAAAAACAAATAAAAAAACAAAAA-AAAA
1 AAAAAAAACAAATAAAAAAACAAAAACAAAA
*
21438644 CAAAAAAACAAA-AACAAAAACAAAAACAAAA
1 AAAAAAAACAAATAA-AAAAACAAAAACAAAA
* * *
21438675 AAACAAAAAAAAATAAAAAAAAAACAAAGAAAA
1 AAA-AAAAACAAATAAAAAAACAA-AAACAAAA
*
21438708 GAAAAA
1 AAAAAA
21438714 GAAAAATCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
29 2 0.03
30 22 0.37
31 6 0.10
32 18 0.31
33 11 0.19
ACGTcount: A:0.87, C:0.09, G:0.02, T:0.02
Consensus pattern (31 bp):
AAAAAAAACAAATAAAAAAACAAAAACAAAA
Found at i:21438657 original size:36 final size:36
Alignment explanation
Indices: 21438617--21438719 Score: 124
Period size: 36 Copynumber: 2.9 Consensus size: 36
21438607 AAGGAACAAA
21438617 AAAAACAAATAA-AAAAACAAAAAAA-AACAAAAAAAC
1 AAAAACAAA-AACAAAAACAAAAAAACAA-AAAAAAAC
*
21438653 AAAAACAAAAACAAAAACAAAAAAACAAAAAAAAAT
1 AAAAACAAAAACAAAAACAAAAAAACAAAAAAAAAC
*
21438689 AAAAA-AAAAACAAAGAA-AAGAAAAAGAAAAA
1 AAAAACAAAAACAAA-AACAA-AAAAACAAAAA
21438720 TCAAGATGAA
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
35 13 0.21
36 46 0.75
37 2 0.03
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (36 bp):
AAAAACAAAAACAAAAACAAAAAAACAAAAAAAAAC
Found at i:21438675 original size:44 final size:45
Alignment explanation
Indices: 21438611--21438695 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 45
21438601 TAAAAAAAGG
*
21438611 AACAAAAAAAACAAATAAAAAAACAAAAAAAAACAAAAAAACAAA
1 AACAAAAAAAACAAACAAAAAAACAAAAAAAAACAAAAAAACAAA
* *
21438656 AACAAAAACAA-AAACAAAAAAACAAAAAAAAATAAAAAAA
1 AACAAAAAAAACAAACAAAAAAACAAAAAAAAACAAAAAAA
21438696 AAACAAAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 27 0.73
45 10 0.27
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (45 bp):
AACAAAAAAAACAAACAAAAAAACAAAAAAAAACAAAAAAACAAA
Found at i:21438713 original size:44 final size:43
Alignment explanation
Indices: 21438601--21438719 Score: 134
Period size: 44 Copynumber: 2.7 Consensus size: 43
21438591 ATATTATGCT
** * *
21438601 TAAAAAAAGGAACAAAAAAAACAAATAAAAAAACAAAAAAAAA
1 TAAAAAAACAAACAAAAAAAAAAAACAAAAAAACAAAAAAAAA
*
21438644 CAAAAAAACAAA-AACAAAAACAAAAACAAAAAAACAAAAAAAAA
1 TAAAAAAACAAACAA-AAAAA-AAAAACAAAAAAACAAAAAAAAA
*
21438688 TAAAAAAA-AAACAAAGAAAAGAAAAAGAAAAA
1 TAAAAAAACAAACAAA-AAAA-AAAAACAAAAA
21438720 TCAAGATGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
42 2 0.03
43 18 0.28
44 44 0.69
ACGTcount: A:0.85, C:0.08, G:0.04, T:0.03
Consensus pattern (43 bp):
TAAAAAAACAAACAAAAAAAAAAAACAAAAAAACAAAAAAAAA
Found at i:21439856 original size:74 final size:74
Alignment explanation
Indices: 21439576--21440478 Score: 976
Period size: 74 Copynumber: 11.9 Consensus size: 74
21439566 TCAAGAATTA
* * * *
21439576 TATTTTTCAATTTCT-TTTTACAAAAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTAAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGG
*
21439640 TCGCATGCCGAGG
64 T--CACGCCGAGG
*
21439653 TATTTCTTTTAAATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG
1 TA--T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG
** *
21439717 ACCATGCCGAGG
63 GTCACGCCGAGG
*
21439729 TATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 TA--T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG
21439794 GTCACGCCGAGG
63 GTCACGCCGAGG
* * * **
21439806 TATTTTTCAATTCCTGTTTTTCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGACC
1 TATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTC
*
21439871 ATGCCGAGG
66 ACGCCGAGG
*
21439880 TATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGA
1 TA--T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG
* *
21439945 GTCATGTCGAGG
63 GTCACGCCGAGG
* * * * * *
21439957 TATTTTTCAATTTCTGTTTTTCAAAAATTAACTCATATTACGAGAGGTGAGTTGAGCCTAGAGTC
1 TATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTC
*
21440022 ACGTCGAGG
66 ACGCCGAGG
* * *
21440031 TATTTTTCAATTTCTG-TTTTCTAAAAATCAACTCATATTGCGAGAAATGGGTTGAGCCTCGGGT
1 TATTTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGT
*
21440095 CGCACGCTGAGG
65 --CACGCCGAGG
*
21440107 TA-TTTTAAATTTCTGTTTTTTAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
1 TATTTTTAAATTTCTG-TTTTT---CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
* ***
21440171 AGTCATATCGAGG
62 GGTCACGCCGAGG
* * *
21440184 TATTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGA-TAGATGAGTTGAGCCTCGGGT
1 TATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGG-
*
21440248 TGCACGCTGAGG
64 T-CACGCCGAGG
* * * * * *
21440260 TA-TTTTAAGTTTCTGTTTTTCAAAAACCAACTCATATTGCTAGAGGAGAGTTGAGCCTTGGGTC
1 TATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTC
21440324 ACGTGCCGAGG
66 AC--GCCGAGG
* *
21440335 AATTTCTTTTAAATTT-TCGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 --TAT-TTTTAAATTTCT-GTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
* *
21440399 AGTTGCACGCTGAGG
62 -GGT-CACGCCGAGG
* * * * *
21440414 T-GTTTTAATTTTCTGTTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGGT
1 TATTTTTAAATTTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGT
21440478 C
65 C
21440479 GCATGTCGAG
Statistics
Matches: 713, Mismatches: 82, Indels: 65
0.83 0.10 0.08
Matches are distributed among these distances:
73 10 0.01
74 220 0.31
75 82 0.12
76 92 0.13
77 142 0.20
78 49 0.07
79 97 0.14
80 18 0.03
81 3 0.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (74 bp):
TATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTC
ACGCCGAGG
Found at i:21440184 original size:153 final size:150
Alignment explanation
Indices: 21439599--21440472 Score: 1045
Period size: 151 Copynumber: 5.7 Consensus size: 150
21439589 CTTTTTACAA
* * *
21439599 AAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-GCACGCTGAGGTA--T-TTTTA
*
21439664 AATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGACCATGCCGA
62 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAG-TCATGCCGA
21439727 GGTATTTCTTTTAAATTTCTGTTTTTC
126 GGTA--TCTTTTAAATTTCTGTTTTTC
* *
21439754 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-CACGCCGAGGTATTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTGCACGCTGAGGTATTTTTAAATT
* * *
21439818 CCTGTTTTTCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCG-GACCATGCCGAGGTA
66 TCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAG-TCATGCCGAGGTA
21439882 TTTCTTTTAAATTTCTGTTTTTC
130 --TCTTTTAAATTTCTGTTTTTC
* * * *
21439905 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGT-CATG-TCGAGGTATTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTGCACGCT-GAGGTATTTTTAAAT
* * * * * *
21439968 TTCTGTTTTTCAAAAATTAACTCATATTACGAGAGGTGAGTTGAGCCTAGAGTCACGTCGAGGTA
65 TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCATGCCGAGGTA
*
21440033 T-TTTTCAATTTCTG-TTTTC
130 TCTTTTAAATTTCTGTTTTTC
** *
21440052 TAAAAATCAACTCATATTGCGAGAAATGGGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTAAA
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-GCACGCTGAGGTATTTTTAAA
* **
21440116 TTTCTGTTTTTTAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCATATCG
64 TTTCTG-TTTTT---CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCATGCCG
* *
21440181 AGGTAT-TTTTCAATTTCTATTTTTC
125 AGGTATCTTTTAAATTTCTGTTTTTC
* * *
21440206 AAAAATCAACTCATATTGCGATAGATGAGTTGAGCCTCGGGTTGCACGCTGAGGTA-TTTTAAGT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-TGCACGCTGAGGTATTTTTAAAT
* * * * * *
21440270 TTCTGTTTTTCAAAAACCAACTCATATTGCTAGAGGAGAGTTGAGCCTTGGGTCACGTGCCGAGG
65 TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCA--TGCCGAGG
*
21440335 AATTTCTTTTAAATTT-TCGTTTTTC
128 --TATCTTTTAAATTTCT-GTTTTTC
* * *
21440360 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTTGCACGCTGAGGT-GTTTTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GGTGCACGCTGAGGTATTTTTAAAT
* *
21440424 TTCTGTTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT
65 TTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
21440473 TGGGTCGCAT
Statistics
Matches: 642, Mismatches: 54, Indels: 46
0.87 0.07 0.06
Matches are distributed among these distances:
147 5 0.01
148 51 0.08
149 51 0.08
150 24 0.04
151 203 0.32
152 6 0.01
153 138 0.21
154 83 0.13
155 81 0.13
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (150 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTGCACGCTGAGGTATTTTTAAATT
TCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCATGCCGAGGTAT
CTTTTAAATTTCTGTTTTTC
Found at i:21440712 original size:29 final size:31
Alignment explanation
Indices: 21440679--21440756 Score: 126
Period size: 30 Copynumber: 2.6 Consensus size: 31
21440669 AAAAATTTGT
21440679 ATTTTGACCCCTAAACTTTTC-T-AAATTAC
1 ATTTTGACCCCTAAACTTTTCTTAAAATTAC
21440708 ATTTTGACCCCTAAAC-TTTCTTAAAATTAC
1 ATTTTGACCCCTAAACTTTTCTTAAAATTAC
*
21440738 ATTTTAACCCCTAAACTTT
1 ATTTTGACCCCTAAACTTT
21440757 ATCAGAATGA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
28 4 0.09
29 17 0.38
30 22 0.49
31 2 0.04
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (31 bp):
ATTTTGACCCCTAAACTTTTCTTAAAATTAC
Found at i:21441157 original size:22 final size:22
Alignment explanation
Indices: 21441123--21441182 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
21441113 AAAAACAAAG
*
21441123 AAAAA-AACAAGCAAAAG-AGA
1 AAAAAGAAAAAGCAAAAGAAGA
*
21441143 AAAAGAGAAAGAGC-AAAGAAGA
1 AAAA-AGAAAAAGCAAAAGAAGA
*
21441165 AAAAAGAAAAAGGAAAAG
1 AAAAAGAAAAAGCAAAAG
21441183 GGGGAGAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 4 0.12
21 12 0.38
22 16 0.50
ACGTcount: A:0.73, C:0.05, G:0.22, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAGCAAAAGAAGA
Found at i:21441298 original size:14 final size:13
Alignment explanation
Indices: 21441279--21441353 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 13
21441269 ATCGGGGAAG
21441279 AAAGAAAGGAAGAA
1 AAAGAAA-GAAGAA
21441293 AAAG-AAGAAGGAA
1 AAAGAAAGAA-GAA
21441306 AGAAGAAAAGGGGAAGAA
1 A-AAG-AAA---GAAGAA
*
21441324 GAAAGAAAGAAAAA
1 -AAAGAAAGAAGAA
*
21441338 AAAGAAAAAAGAA
1 AAAGAAAGAAGAA
21441351 AAA
1 AAA
21441354 CTTAAAAACA
Statistics
Matches: 50, Mismatches: 3, Indels: 17
0.71 0.04 0.24
Matches are distributed among these distances:
12 3 0.06
13 20 0.40
14 12 0.24
16 2 0.04
17 3 0.06
18 6 0.12
19 4 0.08
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAGAA
Found at i:21441343 original size:31 final size:30
Alignment explanation
Indices: 21441286--21441345 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
21441276 AAGAAAGAAA
*
21441286 GGAAGAAAAAGAAGAAGGAAAGAAGAAAAGG
1 GGAAGAAAAAGAAGAA-GAAAAAAGAAAAGG
21441317 GGAAGAAGAAAGAAAGAA-AAAAAAGAAAA
1 GGAAGAA-AAAG-AAGAAGAAAAAAGAAAA
21441346 AAGAAAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 17 0.65
32 4 0.15
33 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (30 bp):
GGAAGAAAAAGAAGAAGAAAAAAGAAAAGG
Found at i:21442077 original size:17 final size:16
Alignment explanation
Indices: 21442052--21442128 Score: 66
Period size: 17 Copynumber: 4.5 Consensus size: 16
21442042 AAAGGAAGAA
21442052 AAAAATTTCGTGTTAC
1 AAAAATTTCGTGTTAC
*
21442068 AAAGAATTTCGTGTTCTC
1 AAA-AATTTCGTGTT-AC
21442086 AAAAAATTCTCGTGCTTA-
1 -AAAAATT-TCGTG-TTAC
* *
21442104 AAAATTTTCGTGTTTTC
1 AAAAATTTCGTG-TTAC
21442121 AAAAATTT
1 AAAAATTT
21442129 TTCGTATTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
16 10 0.20
17 24 0.49
18 5 0.10
19 8 0.16
20 2 0.04
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (16 bp):
AAAAATTTCGTGTTAC
Found at i:21442189 original size:17 final size:17
Alignment explanation
Indices: 21442051--21442204 Score: 139
Period size: 18 Copynumber: 8.5 Consensus size: 17
21442041 AAAAGGAAGA
*
21442051 AAAAAATTTCGTGTTAC
1 AAAAAATTTCGTGTTTC
*
21442068 AAAGAATTTCGTGTTCTC
1 AAAAAATTTCGTGTT-TC
*
21442086 AAAAAATTCTCGTGCTT-
1 AAAAAATT-TCGTGTTTC
*
21442103 AAAAATTTTCGTGTTTTC
1 AAAAAATTTCGTG-TTTC
* *
21442121 AAAAATTTTTCGTATTTC
1 AAAAA-ATTTCGTGTTTC
*
21442139 AAAAAATTTTCGCGTTTTC
1 AAAAAA-TTTCGTG-TTTC
21442158 AAAAATATCTTTCGTGTTTC
1 AAAAA-A--TTTCGTGTTTC
*
21442178 AAAGAATTTCGTGTTTTC
1 AAAAAATTTCGTG-TTTC
21442196 AAAAAATTT
1 AAAAAATTT
21442205 TCTCATGCTT
Statistics
Matches: 113, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.04
17 30 0.27
18 40 0.35
19 23 0.20
20 9 0.08
21 6 0.05
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (17 bp):
AAAAAATTTCGTGTTTC
Found at i:21442255 original size:18 final size:18
Alignment explanation
Indices: 21442229--21442315 Score: 54
Period size: 17 Copynumber: 4.6 Consensus size: 18
21442219 TTTTTTGTAT
21442229 TTTCAAAAAAATTTCTCGTG
1 TTTC-AAAAAATTT-TCGTG
21442249 TTT--AAAAATTTTCGTG
1 TTTCAAAAAATTTTCGTG
* *
21442265 TTTTCAAAAAAAAAATGTTCTTG
1 -TTTC----AAAAAATTTTCGTG
*
21442288 TTTC-AAAAATTTTTGTG
1 TTTCAAAAAATTTTCGTG
21442305 TTTTCAAAAAA
1 -TTTCAAAAAA
21442316 AAAAAATGTG
Statistics
Matches: 53, Mismatches: 5, Indels: 19
0.69 0.06 0.25
Matches are distributed among these distances:
16 5 0.09
17 21 0.40
18 4 0.08
19 5 0.09
20 3 0.06
22 4 0.08
23 11 0.21
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (18 bp):
TTTCAAAAAATTTTCGTG
Done.