Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 57 of 128
Found at i:17946804 original size:10 final size:10
Alignment explanation
Indices: 17946789--17946813 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17946779 ATGCCATCAC
17946789 ACATATATAT
1 ACATATATAT
17946799 ACATATATAT
1 ACATATATAT
17946809 ACATA
1 ACATA
17946814 AGATTTCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (10 bp):
ACATATATAT
Found at i:17949542 original size:13 final size:13
Alignment explanation
Indices: 17949524--17949551 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17949514 GTCATACAAC
17949524 TCTTTATCATAGG
1 TCTTTATCATAGG
17949537 TCTTTATCATAGG
1 TCTTTATCATAGG
17949550 TC
1 TC
17949552 GAATAGTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.46
Consensus pattern (13 bp):
TCTTTATCATAGG
Found at i:17955931 original size:27 final size:28
Alignment explanation
Indices: 17955899--17955952 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
17955889 ATATCGTGTT
* *
17955899 AATTAAT-TATTCGAAATCTTTCAAAAC
1 AATTAATCTATGCGAAAGCTTTCAAAAC
*
17955926 AATTAATCTATGCGAAAGCTTTTAAAA
1 AATTAATCTATGCGAAAGCTTTCAAAA
17955953 TAGATGGCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.35
Consensus pattern (28 bp):
AATTAATCTATGCGAAAGCTTTCAAAAC
Found at i:17957187 original size:177 final size:177
Alignment explanation
Indices: 17956884--17957239 Score: 658
Period size: 177 Copynumber: 2.0 Consensus size: 177
17956874 ACACGTTTGG
17956884 ACCGACGCACCTAAGTGGCTCACATGGCCCACTCAGCCCGGCCTACGAATTATACATGGCCAGCT
1 ACCGACGCACCTAAGTGGCTCACATGGCCCACTCAGCCCGGCCTACGAATTATACATGGCCAGCT
*
17956949 TCGTCGATCTCACGCCCATGTTCTGTCACACGGGCAGCCACACGCCCGTGTGGCGTCGACAGCCT
66 TCGTCGATCTCACGCCCATGTTCTGTCACACGGGCAGCCACACGCCCGTGTGGCATCGACAGCCT
* *
17957014 CACTTTTCGGCTTTTCACCGCTATCCATTTTTCAGAGTTACGTTTAC
131 CACTTTTCAGCTTTTCACCGCAATCCATTTTTCAGAGTTACGTTTAC
** *
17957061 ACCGACGCGTCTAAGTGGCTCACATGGCCCACTCAGCCCGGCCTACGAATTGTACATGGCCAGCT
1 ACCGACGCACCTAAGTGGCTCACATGGCCCACTCAGCCCGGCCTACGAATTATACATGGCCAGCT
17957126 TCGTCGATCTCACGCCCATGTTCTGTCACACGGGCAGCCACACGCCCGTGTGGCATCGACAGCCT
66 TCGTCGATCTCACGCCCATGTTCTGTCACACGGGCAGCCACACGCCCGTGTGGCATCGACAGCCT
17957191 CACTTTTCAGCTTTTCACCGCAATCCATTTTTCAGAGTTACGTTTAC
131 CACTTTTCAGCTTTTCACCGCAATCCATTTTTCAGAGTTACGTTTAC
17957238 AC
1 AC
17957240 ACCTTTTATG
Statistics
Matches: 173, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
177 173 1.00
ACGTcount: A:0.20, C:0.35, G:0.21, T:0.25
Consensus pattern (177 bp):
ACCGACGCACCTAAGTGGCTCACATGGCCCACTCAGCCCGGCCTACGAATTATACATGGCCAGCT
TCGTCGATCTCACGCCCATGTTCTGTCACACGGGCAGCCACACGCCCGTGTGGCATCGACAGCCT
CACTTTTCAGCTTTTCACCGCAATCCATTTTTCAGAGTTACGTTTAC
Found at i:17958633 original size:470 final size:469
Alignment explanation
Indices: 17957290--17958694 Score: 2314
Period size: 469 Copynumber: 3.0 Consensus size: 469
17957280 TAATACCTAC
* *
17957290 AATTGAACATTTCAACCTAATTATTAATCTCAACTCATGATTACCACAACAACACAAAGCCGAAT
1 AATTGAACATTTCAACTTAATTATTAATCTCAACTCATGATTAGCACAACAACACAAAGCCGAAT
* *
17957355 GTACTCCCAAATCAATCGCATGATACCTACCTTATAAACCACGGACGTTTCCCTCTATAATTCAG
66 GTACTTCCAAATCAATCGCATGATACCTACCTTATGAACCACGGACGTTTCCCTCTATAATTCAG
*
17957420 TACCAGCCCAGCCCTTCACTCCAGACTTTCAGCTGTTATCACAGTTAACAAAA-GTCCCCAATTA
131 TACCAGCCCAGCCCTTCACTCCAGACTTTCAGCTGTCATCACAGTTAACAAAAGGTCCCCAATTA
* *
17957484 CTTATTTAAAAACC-GAACATTTAAAATACCATTAATAATCTTAAATCAACGATTTAAGTAAGAC
196 CTTATTTAAAAACCAG-ACATTTAAAACACCATTAATAATATTAAATCAACGATTTAAGTAAGAC
* * * * *
17957548 CCCTATTCTGAAGGCGATTCAATACGCATGATTCACTTACAAACGATAAACATTGTCCTTAACGC
260 CCCCATTTTGAAGGCAATTCAATACGCATGATTCACTTACCAATGATAAACATTGTCCTTAACGC
* * *
17957613 TCCAACCTCAGTAGTAGCACAAACTGATCACTACCTTTAGCCTACCACAAGTACAACAATCCCCT
325 TCCAACCTCAGCAGTAGCACAAACTGATCACTGCCTTTCGCCTACCACAAGTACAACAATCCCCT
17957678 TAGTCACCAACCAAGAAACAAAAGACAAGAGGTAGAAACATTACTTACCGAACGCACAACAACAA
390 TAGTCACCAACCAAGAAACAAAAGACAAGAGGTAGAAACATTACTTACCGAACGCACAACAACAA
*
17957743 AACGGAAATGACGGG
455 AACGGGAATGACGGG
* * *
17957758 AATTGAGCATTTCAACTTAATTATTAATCTCAACTCAAGATTAGCACAACAACACAAAGCCCAAT
1 AATTGAACATTTCAACTTAATTATTAATCTCAACTCATGATTAGCACAACAACACAAAGCCGAAT
*
17957823 GTACTTCCAAATCAATCGCATGATACCTACCTTATGAACCGCGGACGTTTCCCTCTATAATTCAG
66 GTACTTCCAAATCAATCGCATGATACCTACCTTATGAACCACGGACGTTTCCCTCTATAATTCAG
*
17957888 CACCAGCCCAGCCCTTCACTCCAGACTTTCAGCTGTCATCACTA-TTAACAAAAGGTCCCCAATT
131 TACCAGCCCAGCCCTTCACTCCAGACTTTCAGCTGTCATCAC-AGTTAACAAAAGGTCCCCAATT
* *
17957952 ACTTATTTAAAAATCAAACATTTAAAACACCATTAATAATATTAAATCAACGATTTAAGTAAGAC
195 ACTTATTTAAAAACCAGACATTTAAAACACCATTAATAATATTAAATCAACGATTTAAGTAAGAC
* *
17958017 CCCCATTTCGAAGG-AGATTCAATACGCATGATTCACTTACCAATGATAAACATTGTCCTTAACA
260 CCCCATTTTGAAGGCA-ATTCAATACGCATGATTCACTTACCAATGATAAACATTGTCCTTAACG
*
17958081 CTCCAACCTCAGCAGTAGCACAAACCGATCACTGCCTTTCGCCTACCACAAGTACAACAATCCCC
324 CTCCAACCTCAGCAGTAGCACAAACTGATCACTGCCTTTCGCCTACCACAAGTACAACAATCCCC
* * * * * * *
17958146 TTAGTCACCAACCAAGAAAAAAAAGAAAAAAGGCAAAAACATTACTTATCGAACGTACAACAACA
389 TTAGTCACCAACCAAGAAACAAAAGACAAGAGGTAGAAACATTACTTACCGAACGCACAACAACA
*
17958211 AAATGGGAATGACGGG
454 AAACGGGAATGACGGG
* * *
17958227 AATTGAACACTTCAACTTACTTGTTAATCTCAACTCATGATTAGCACAACAACACAAAGCCGAAT
1 AATTGAACATTTCAACTTAATTATTAATCTCAACTCATGATTAGCACAACAACACAAAGCCGAAT
* *
17958292 GTACTTCCAAAGCAATCGCATGATACCTACCTTATGAACCACGGACGTTTCCCTCTATAATTTAG
66 GTACTTCCAAATCAATCGCATGATACCTACCTTATGAACCACGGACGTTTCCCTCTATAATTCAG
* *
17958357 TACCAGCCCAGCCCTTCACTCCAGACTTTCAGCTGTCATTACAGTTAACAAAAAGGTCCCTAATT
131 TACCAGCCCAGCCCTTCACTCCAGACTTTCAGCTGTCATCACAGTTAAC-AAAAGGTCCCCAATT
*
17958422 ACTTATTTAAAAACCAGACATTTAAAACACCATTAATAATTTTAAATCAACGATTTAAGTAAGAC
195 ACTTATTTAAAAACCAGACATTTAAAACACCATTAATAATATTAAATCAACGATTTAAGTAAGAC
* *
17958487 CCCCGTTTTGAAGGCAATTCAATACGCATGATTCACTTACCAATGATAAACATTGTCTTTAACGC
260 CCCCATTTTGAAGGCAATTCAATACGCATGATTCACTTACCAATGATAAACATTGTCCTTAACGC
* *
17958552 TCCAACCTCAGCAGTAGCACAAACTAATCACTGTCTTTCGCCTACCACAAGTACAACAATCCCCT
325 TCCAACCTCAGCAGTAGCACAAACTGATCACTGCCTTTCGCCTACCACAAGTACAACAATCCCCT
* *
17958617 TAGTCACCAACCAAGAAACAAAAGACAAGAGGTGGAAACATTACTTACCAAACGCACAACAACAA
390 TAGTCACCAACCAAGAAACAAAAGACAAGAGGTAGAAACATTACTTACCGAACGCACAACAACAA
17958682 AACGGGAATGACG
455 AACGGGAATGACG
17958695 AGTTGCGGCA
Statistics
Matches: 864, Mismatches: 66, Indels: 12
0.92 0.07 0.01
Matches are distributed among these distances:
468 172 0.20
469 426 0.49
470 265 0.31
471 1 0.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (469 bp):
AATTGAACATTTCAACTTAATTATTAATCTCAACTCATGATTAGCACAACAACACAAAGCCGAAT
GTACTTCCAAATCAATCGCATGATACCTACCTTATGAACCACGGACGTTTCCCTCTATAATTCAG
TACCAGCCCAGCCCTTCACTCCAGACTTTCAGCTGTCATCACAGTTAACAAAAGGTCCCCAATTA
CTTATTTAAAAACCAGACATTTAAAACACCATTAATAATATTAAATCAACGATTTAAGTAAGACC
CCCATTTTGAAGGCAATTCAATACGCATGATTCACTTACCAATGATAAACATTGTCCTTAACGCT
CCAACCTCAGCAGTAGCACAAACTGATCACTGCCTTTCGCCTACCACAAGTACAACAATCCCCTT
AGTCACCAACCAAGAAACAAAAGACAAGAGGTAGAAACATTACTTACCGAACGCACAACAACAAA
ACGGGAATGACGGG
Found at i:17964235 original size:25 final size:25
Alignment explanation
Indices: 17964207--17964255 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
17964197 TTAAGTGTTT
*
17964207 TCAGTACAGT-CTATCTATAGTAGTC
1 TCAGTACA-TACTACCTATAGTAGTC
*
17964232 TCAGTATATACTACCTATAGTAGT
1 TCAGTACATACTACCTATAGTAGT
17964256 TCCAGGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (25 bp):
TCAGTACATACTACCTATAGTAGTC
Found at i:17964265 original size:25 final size:25
Alignment explanation
Indices: 17964221--17964269 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
17964211 TACAGTCTAT
*
17964221 CTATAGTAGTCTCAGTATATACTAC
1 CTATAGTAGTCTCAGGATATACTAC
17964246 CTATAGTAGT-TCCAGGATATACTA
1 CTATAGTAGTCT-CAGGATATACTA
17964270 TCAACAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (25 bp):
CTATAGTAGTCTCAGGATATACTAC
Found at i:17965532 original size:31 final size:31
Alignment explanation
Indices: 17965494--17965554 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
17965484 AGCCTCCATG
** *
17965494 CCCATGTTGCCGGCTCGTGTGGGCCCACATA
1 CCCATGTTGCCAACTCGTGTAGGCCCACATA
*
17965525 CCCATGTTGTCAACTCGTGTAGGCCCACAT
1 CCCATGTTGCCAACTCGTGTAGGCCCACAT
17965555 GCCCGTATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.16, C:0.34, G:0.25, T:0.25
Consensus pattern (31 bp):
CCCATGTTGCCAACTCGTGTAGGCCCACATA
Found at i:17967901 original size:26 final size:27
Alignment explanation
Indices: 17967850--17967902 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
17967840 ACCATAGCAC
* * *
17967850 AAATCAGTCATTTACCGTCGATGGGCA
1 AAATCAGTCATTTACCCTCCAAGGGCA
17967877 AAAT-AGTCATTTACCCTCCAAGGGCA
1 AAATCAGTCATTTACCCTCCAAGGGCA
17967903 TTACGGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTCCAAGGGCA
Found at i:17969218 original size:18 final size:18
Alignment explanation
Indices: 17969197--17969232 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17969187 CTCCCCCTTA
17969197 AAACTCCTTGAAAATCTC
1 AAACTCCTTGAAAATCTC
*
17969215 AAACTCTTTGAAAATCTC
1 AAACTCCTTGAAAATCTC
17969233 CACAACAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.31
Consensus pattern (18 bp):
AAACTCCTTGAAAATCTC
Found at i:17972198 original size:27 final size:27
Alignment explanation
Indices: 17972167--17972218 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
17972157 CCTTTAAACT
*
17972167 TTATTTTATGTTTCCTCGACTTAAATG
1 TTATTTTATGTTTCCTCAACTTAAATG
17972194 TTATTTTATGTTTCCTCAACTTAAA
1 TTATTTTATGTTTCCTCAACTTAAA
17972219 GATTTTGGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.15, G:0.08, T:0.52
Consensus pattern (27 bp):
TTATTTTATGTTTCCTCAACTTAAATG
Found at i:17972869 original size:25 final size:25
Alignment explanation
Indices: 17972841--17972904 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
17972831 TCCTTCCCCA
17972841 ATAATATGCCACATAGGTCTTTC-AG
1 ATAATATGCCACATAGG-CTTTCTAG
* * *
17972866 ATAACT-CGCCATAAAGGCTTTCTAG
1 ATAA-TATGCCACATAGGCTTTCTAG
*
17972891 ACAATATGCCACAT
1 ATAATATGCCACAT
17972905 TTTTCTTTCA
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
24 6 0.21
25 22 0.76
26 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (25 bp):
ATAATATGCCACATAGGCTTTCTAG
Found at i:17973206 original size:24 final size:24
Alignment explanation
Indices: 17973139--17973206 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
17973129 CATTTTCTCG
*
17973139 TGTTTATTGTCCCAATA-GACCTCA
1 TGTTTACTGTCCCAA-AGGACCTCA
* **
17973163 TGTTTACTGTACCAGTGGACCTCA
1 TGTTTACTGTCCCAAAGGACCTCA
17973187 TGTTTA-TGATCCCAAAGGAC
1 TGTTTACTG-TCCCAAAGGAC
17973207 TACATTTTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.06
24 33 0.94
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.34
Consensus pattern (24 bp):
TGTTTACTGTCCCAAAGGACCTCA
Found at i:17978198 original size:45 final size:45
Alignment explanation
Indices: 17978147--17978294 Score: 115
Period size: 45 Copynumber: 3.2 Consensus size: 45
17978137 CAAACTCTAC
17978147 ACTTATCCATCTTATACACATATCACCCCGACTGGTGGATCTCAG
1 ACTTATCCATCTTATACACATATCACCCCGACTGGTGGATCTCAG
* ** ** * *
17978192 ACTTATCATCATACTTCAAATCTA-AT-TACACAACCATACT--TCAAACTCTAC
1 ACTTATC--CAT-CTT-ATA-C-ACATAT-CAC--CCCGACTGGTGGATCTC-AG
17978243 ACTTATCCATCTTATACACATATCACCCCGACTGGTGGATCTCAG
1 ACTTATCCATCTTATACACATATCACCCCGACTGGTGGATCTCAG
17978288 ACTTATC
1 ACTTATC
17978295 ATCATACTTC
Statistics
Matches: 75, Mismatches: 14, Indels: 28
0.64 0.12 0.24
Matches are distributed among these distances:
44 5 0.07
45 16 0.21
46 11 0.15
47 6 0.08
48 6 0.08
49 6 0.08
50 11 0.15
51 9 0.12
52 5 0.07
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.30
Consensus pattern (45 bp):
ACTTATCCATCTTATACACATATCACCCCGACTGGTGGATCTCAG
Found at i:17978291 original size:96 final size:96
Alignment explanation
Indices: 17978127--17978320 Score: 379
Period size: 96 Copynumber: 2.0 Consensus size: 96
17978117 GTTGGCATAT
17978127 AACCATACGTCAAACTCTACACTTATCCATCTTATACACATATCACCCCGACTGGTGGATCTCAG
1 AACCATACGTCAAACTCTACACTTATCCATCTTATACACATATCACCCCGACTGGTGGATCTCAG
17978192 ACTTATCATCATACTTCAAATCTAATTACAC
66 ACTTATCATCATACTTCAAATCTAATTACAC
*
17978223 AACCATACTTCAAACTCTACACTTATCCATCTTATACACATATCACCCCGACTGGTGGATCTCAG
1 AACCATACGTCAAACTCTACACTTATCCATCTTATACACATATCACCCCGACTGGTGGATCTCAG
17978288 ACTTATCATCATACTTCAAATCTAATTACAC
66 ACTTATCATCATACTTCAAATCTAATTACAC
17978319 AA
1 AA
17978321 ATTTTTTGTA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.34, C:0.30, G:0.07, T:0.29
Consensus pattern (96 bp):
AACCATACGTCAAACTCTACACTTATCCATCTTATACACATATCACCCCGACTGGTGGATCTCAG
ACTTATCATCATACTTCAAATCTAATTACAC
Found at i:17984091 original size:30 final size:31
Alignment explanation
Indices: 17984047--17984107 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
17984037 TAGTAAAAAT
*
17984047 AAAATTATATTTTAACTTCTTT-AAAATTATA
1 AAAATTATAATTTAA-TTCTTTAAAAATTATA
*
17984078 AAAATT-TAATTTAATTTTTTAAAAATTATA
1 AAAATTATAATTTAATTCTTTAAAAATTATA
17984108 TAGATATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 5 0.19
30 16 0.59
31 6 0.22
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (31 bp):
AAAATTATAATTTAATTCTTTAAAAATTATA
Found at i:17984196 original size:41 final size:42
Alignment explanation
Indices: 17984118--17984202 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
17984108 TAGATATAAA
* *
17984118 TTATTAAAAATTAAAATTTTATTTCAACTCTACTAAAAAGTT
1 TTATTAAAAATTAAAATTTTATTTCAACTCCACTAAAAAATT
* ** *
17984160 TTATTAAAATTTAAAATTTTATTTCGGC-CCAGTAAAAAATT
1 TTATTAAAAATTAAAATTTTATTTCAACTCCACTAAAAAATT
17984201 TT
1 TT
17984203 CTGACTTCCC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 12 0.32
42 25 0.68
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (42 bp):
TTATTAAAAATTAAAATTTTATTTCAACTCCACTAAAAAATT
Found at i:17998283 original size:29 final size:29
Alignment explanation
Indices: 17998217--17998283 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
17998207 CGATTTCGCG
*
17998217 AAAAATGGCCCATTCTGGTAAATAATAAA
1 AAAAACGGCCCATTCTGGTAAATAATAAA
* *
17998246 AAAATCGGCCCATT-TCGGTAAA-ATTTAAA
1 AAAAACGGCCCATTCT-GGTAAATA-ATAAA
17998275 AAAAACGGC
1 AAAAACGGC
17998284 TTTTATTGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.22
Consensus pattern (29 bp):
AAAAACGGCCCATTCTGGTAAATAATAAA
Found at i:18002938 original size:13 final size:13
Alignment explanation
Indices: 18002917--18002968 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
18002907 GGGTTCACAC
*
18002917 GGCCGTGTGGCCA
1 GGCCATGTGGCCA
*
18002930 GGCCATGTGACTCACA
1 GGCCATGTG--GC-CA
18002946 CGGCCATGTGGCCA
1 -GGCCATGTGGCCA
18002960 GGCCATGTG
1 GGCCATGTG
18002969 ACTCACACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 17 0.53
14 2 0.06
15 2 0.06
16 2 0.06
17 9 0.28
ACGTcount: A:0.15, C:0.31, G:0.37, T:0.17
Consensus pattern (13 bp):
GGCCATGTGGCCA
Found at i:18002947 original size:30 final size:30
Alignment explanation
Indices: 18002911--18002979 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
18002901 ACTATAGGGT
*
18002911 TCACACGGCCGTGTGGCCAGGCCATGTGAC
1 TCACACGGCCATGTGGCCAGGCCATGTGAC
18002941 TCACACGGCCATGTGGCCAGGCCATGTGAC
1 TCACACGGCCATGTGGCCAGGCCATGTGAC
18002971 TCACACGGC
1 TCACACGGC
18002980 TAAGACACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.19, C:0.35, G:0.30, T:0.16
Consensus pattern (30 bp):
TCACACGGCCATGTGGCCAGGCCATGTGAC
Found at i:18002952 original size:17 final size:17
Alignment explanation
Indices: 18002930--18002979 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
18002920 CGTGTGGCCA
18002930 GGCCATGTGACTCACAC
1 GGCCATGTGACTCACAC
*
18002947 GGCCATGTG--GC-CA-
1 GGCCATGTGACTCACAC
18002960 GGCCATGTGACTCACAC
1 GGCCATGTGACTCACAC
18002977 GGC
1 GGC
18002980 TAAGACACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 9 0.33
14 2 0.07
15 2 0.07
16 2 0.07
17 12 0.44
ACGTcount: A:0.20, C:0.34, G:0.30, T:0.16
Consensus pattern (17 bp):
GGCCATGTGACTCACAC
Found at i:18004333 original size:79 final size:79
Alignment explanation
Indices: 18004238--18004397 Score: 293
Period size: 79 Copynumber: 2.0 Consensus size: 79
18004228 AATATATTTA
*
18004238 TTCATAACATAGGTAAGTTCAACCATAACATACGTAATTTCTCATATATAAGTACATTATTCAAC
1 TTCATAACATAGGTAAGTTCAACCATAACATACGCAATTTCTCATATATAAGTACATTATTCAAC
*
18004303 TCATCAATCCTTTT
66 TCAGCAATCCTTTT
*
18004317 TTCATAACATAGGTAAGTTCAACCATAACATACGCAATTTCTCATATATAGGTACATTATTCAAC
1 TTCATAACATAGGTAAGTTCAACCATAACATACGCAATTTCTCATATATAAGTACATTATTCAAC
18004382 TCAGCAATCCTTTT
66 TCAGCAATCCTTTT
18004396 TT
1 TT
18004398 TATCATATTA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (79 bp):
TTCATAACATAGGTAAGTTCAACCATAACATACGCAATTTCTCATATATAAGTACATTATTCAAC
TCAGCAATCCTTTT
Found at i:18004369 original size:39 final size:39
Alignment explanation
Indices: 18004246--18004370 Score: 114
Period size: 39 Copynumber: 3.2 Consensus size: 39
18004236 TATTCATAAC
*
18004246 ATAGGTAAGTTCAACCATAACATACGTAATTTCTCATAT
1 ATAGGTAAGTTCAACCATAACATACGCAATTTCTCATAT
* * * * * *
18004285 ATAAGTACATTATTCAACTCATCA-AT-C-C-TTTTTTCATAAC
1 ATAGGTA-A--GTTCAAC-CATAACATACGCAATTTCTCAT-AT
18004325 ATAGGTAAGTTCAACCATAACATACGCAATTTCTCATAT
1 ATAGGTAAGTTCAACCATAACATACGCAATTTCTCATAT
18004364 ATAGGTA
1 ATAGGTA
18004371 CATTATTCAA
Statistics
Matches: 64, Mismatches: 13, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
36 4 0.06
37 8 0.12
38 1 0.02
39 23 0.36
40 15 0.23
41 1 0.02
42 8 0.12
43 4 0.06
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (39 bp):
ATAGGTAAGTTCAACCATAACATACGCAATTTCTCATAT
Found at i:18004918 original size:21 final size:21
Alignment explanation
Indices: 18004892--18004951 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
18004882 CGAACACACC
18004892 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
*
18004913 AACAGAAGCTCAAAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
*
18004934 AACAGAAGCTCGTAAGAG
1 AACAGAAGCTCATAAGAG
18004952 TTGATCCACC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.48, C:0.18, G:0.22, T:0.12
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:18007103 original size:2 final size:2
Alignment explanation
Indices: 18007096--18007125 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18007086 NNNNNNTGTT
18007096 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18007126 ATTTGATTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18007785 original size:22 final size:22
Alignment explanation
Indices: 18007760--18007807 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
18007750 CCAAAATAAA
* *
18007760 AAATTGATC-TAATAAATCAATT
1 AAATTGAACATAA-AAACCAATT
18007782 AAATTGAACATAAAAACCAATT
1 AAATTGAACATAAAAACCAATT
18007804 AAAT
1 AAAT
18007808 AAAAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.29
Consensus pattern (22 bp):
AAATTGAACATAAAAACCAATT
Found at i:18012075 original size:30 final size:31
Alignment explanation
Indices: 18012013--18012084 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
18012003 ACTGTGGGTG
*
18012013 GAGGAAACAATCAAACAAGCCAAAGAAAAAA
1 GAGGAAGCAATCAAACAAGCCAAAGAAAAAA
18012044 GAGGAAGCAATCAAACAAGCCAAAG-AAAAA
1 GAGGAAGCAATCAAACAAGCCAAAGAAAAAA
18012074 GAGGAAGCAAT
1 GAGGAAGCAAT
18012085 AACACACTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 16 0.40
31 24 0.60
ACGTcount: A:0.60, C:0.15, G:0.21, T:0.04
Consensus pattern (31 bp):
GAGGAAGCAATCAAACAAGCCAAAGAAAAAA
Found at i:18012380 original size:23 final size:23
Alignment explanation
Indices: 18012341--18012652 Score: 186
Period size: 23 Copynumber: 13.7 Consensus size: 23
18012331 TTTCCAGCAC
* *
18012341 TTAAACACTTCAATTTACATCAA
1 TTAAACACCTCAATTTACAACAA
* *
18012364 TTGAGCACCTCAATTTACAGA-AA
1 TTAAACACCTCAATTTACA-ACAA
*
18012387 TTAAACACTTCAATTTACAACAA
1 TTAAACACCTCAATTTACAACAA
* * *
18012410 TTAAACACCTCAACTTACAGCAC
1 TTAAACACCTCAATTTACAACAA
* * *
18012433 TTTAACATCC-CAATTAACAACAT
1 TTAAACA-CCTCAATTTACAACAA
* * *
18012456 TTATACACCTCAA-TTACAGCGA
1 TTAAACACCTCAATTTACAACAA
* * *
18012478 -TAAACATCTCAAATT-CTAGCAA
1 TTAAACACCTCAATTTAC-AACAA
* ** **** *
18012500 CTAAACAATTCAATTTGTTGCAC
1 TTAAACACCTCAATTTACAACAA
* * *
18012523 TTAAACACTTCAATTTACATCAT
1 TTAAACACCTCAATTTACAACAA
* * * *
18012546 TTGAGCACCTCCATTTACAGCAA
1 TTAAACACCTCAATTTACAACAA
* *
18012569 TTAAACACTTCAATTTACAACAT
1 TTAAACACCTCAATTTACAACAA
* *
18012592 TTAAACACCTCAACTTACAACAC
1 TTAAACACCTCAATTTACAACAA
* * *
18012615 TTTAACATCC-CAATTAACAACAT
1 TTAAACA-CCTCAATTTACAACAA
*
18012638 TTATACACCTCAATT
1 TTAAACACCTCAATT
18012653 ACAGTGATAA
Statistics
Matches: 220, Mismatches: 59, Indels: 20
0.74 0.20 0.07
Matches are distributed among these distances:
21 11 0.05
22 16 0.07
23 189 0.86
24 4 0.02
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.30
Consensus pattern (23 bp):
TTAAACACCTCAATTTACAACAA
Found at i:18012393 original size:46 final size:46
Alignment explanation
Indices: 18012335--18012656 Score: 235
Period size: 46 Copynumber: 7.1 Consensus size: 46
18012325 ACATAGTTTC
* * * *
18012335 CAGCACTTAAACACTTCAATTTACATCAATTGAGCACCTCAATTTA
1 CAGCAATTAAACACTTCAATTTACAACAATTAAACACCTCAATTTA
* *
18012381 CAGAAATTAAACACTTCAATTTACAACAATTAAACACCTCAACTTA
1 CAGCAATTAAACACTTCAATTTACAACAATTAAACACCTCAATTTA
* * * * * *
18012427 CAGCACTTTAACA-TCCCAATTAACAACATTTATACACCTCAA-TTA
1 CAGCAATTAAACACT-TCAATTTACAACAATTAAACACCTCAATTTA
* * * * ** *
18012472 CAGCGA-TAAACA-TCTCAAATT-CTAGCAACTAAACAATTCAATTTG
1 CAGCAATTAAACACT-TCAATTTAC-AACAATTAAACACCTCAATTTA
** * * * * * *
18012517 TTGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCCATTTA
1 CAGCAATTAAACACTTCAATTTACAACAATTAAACACCTCAATTTA
* *
18012563 CAGCAATTAAACACTTCAATTTACAACATTTAAACACCTCAACTTA
1 CAGCAATTAAACACTTCAATTTACAACAATTAAACACCTCAATTTA
* * * * * * *
18012609 CAACACTTTAACA-TCCCAATTAACAACATTTATACACCTCAA-TTA
1 CAGCAATTAAACACT-TCAATTTACAACAATTAAACACCTCAATTTA
18012654 CAG
1 CAG
18012657 TGATAAACAT
Statistics
Matches: 214, Mismatches: 55, Indels: 15
0.75 0.19 0.05
Matches are distributed among these distances:
43 1 0.00
44 23 0.11
45 18 0.08
46 170 0.79
47 2 0.01
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.29
Consensus pattern (46 bp):
CAGCAATTAAACACTTCAATTTACAACAATTAAACACCTCAATTTA
Found at i:18012644 original size:182 final size:182
Alignment explanation
Indices: 18012337--18012694 Score: 637
Period size: 182 Copynumber: 2.0 Consensus size: 182
18012327 ATAGTTTCCA
18012337 GCACTTAAACACTTCAATTTACATCAATTGAGCACCTCAATTTACAGAAATTAAACACTTCAATT
1 GCACTTAAACACTTCAATTTACATCAATTGAGCACCTCAATTTACAGAAATTAAACACTTCAATT
*
18012402 TACAACAATTAAACACCTCAACTTACAGCACTTTAACATCCCAATTAACAACATTTATACACCTC
66 TACAACAATTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTC
18012467 AATTACAGCGATAAACATCTCAAATTCT-AGCAACTAAACAATTCAATTTGTT
131 AATTACAGCGATAAACATCTC-AATTCTCAGCAACTAAACAATTCAATTTGTT
* * *
18012519 GCACTTAAACACTTCAATTTACATCATTTGAGCACCTCCATTTACAGCAATTAAACACTTCAATT
1 GCACTTAAACACTTCAATTTACATCAATTGAGCACCTCAATTTACAGAAATTAAACACTTCAATT
*
18012584 TACAACATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTC
66 TACAACAATTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTC
* *
18012649 AATTACAGTGATAAACATCTCAATTCTCAGCAACTAAACACTTCAA
131 AATTACAGCGATAAACATCTCAATTCTCAGCAACTAAACAATTCAA
18012695 ATTGCAGTAC
Statistics
Matches: 168, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
181 6 0.04
182 162 0.96
ACGTcount: A:0.41, C:0.26, G:0.04, T:0.29
Consensus pattern (182 bp):
GCACTTAAACACTTCAATTTACATCAATTGAGCACCTCAATTTACAGAAATTAAACACTTCAATT
TACAACAATTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTC
AATTACAGCGATAAACATCTCAATTCTCAGCAACTAAACAATTCAATTTGTT
Found at i:18013221 original size:15 final size:15
Alignment explanation
Indices: 18013197--18013227 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18013187 GTTTTAAGAT
18013197 AACATAAATACTTAC
1 AACATAAATACTTAC
*
18013212 AACATGAATACTTAC
1 AACATAAATACTTAC
18013227 A
1 A
18013228 TTTTAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (15 bp):
AACATAAATACTTAC
Found at i:18017834 original size:15 final size:16
Alignment explanation
Indices: 18017814--18017849 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
18017804 AAACAAAAAT
18017814 AAAAATAA-AATAAAG
1 AAAAATAATAATAAAG
*
18017829 AAAAATAATAATAATG
1 AAAAATAATAATAAAG
18017845 AAAAA
1 AAAAA
18017850 ACTATCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (16 bp):
AAAAATAATAATAAAG
Found at i:18018550 original size:45 final size:45
Alignment explanation
Indices: 18018486--18019024 Score: 601
Period size: 45 Copynumber: 12.1 Consensus size: 45
18018476 GTTTTTTTTG
*
18018486 TCTTTGATGTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
18018531 TCTTTGATCTACTTTGCTGCCAATATAGGAAGATAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
18018576 TCTTTGATCTACTTCGCTGCCGATATAGGAAGACAAGAGCTACTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * **
18018621 TCTTCGATCTACTT--C-ACAAATATTGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
18018663 TCTTTGATCTA-TTCCGTTGCCAATACAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTT-CGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
18018708 TCTTCGATCTATTTCGCTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
18018753 TCTTTGATCTATTTCGCTGCCAATACAGGAGGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * * * * * * *
18018798 T-TTTCAACCTACTCCACTGCTACT-CAGGGAGATAGGA-CTTG-TGA
1 TCTTT-GATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCT-A
* * * *
18018842 -CTTCGATCTACTTCGCTGTCAGTATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
18018886 TCTTTGATCTACTTCACTGCCAATACAGAAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
*
18018931 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
18018976 TCTTTGATCTACTTCGCTACCAGTATAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
18019021 TCTT
1 TCTT
18019025 CAGTCTGCTC
Statistics
Matches: 411, Mismatches: 70, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.00
42 31 0.08
43 15 0.04
44 29 0.07
45 332 0.81
46 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
Found at i:18018876 original size:133 final size:135
Alignment explanation
Indices: 18018486--18019024 Score: 563
Period size: 132 Copynumber: 4.0 Consensus size: 135
18018476 GTTTTTTTTG
* * * ** * ***
18018486 TCTTTGATGTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTTGCTGC
1 TCTTTGATCTACTTCACTGCCAATACAGAAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
* * * * *
18018551 CAATATAGGAAGATAAGATCTGCTATCTTTGATCTACTTCGCTGCC-GATATAGGAAGACAAGAG
66 CAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAG-TATAGGAAGACAAGAT
*
18018615 CTACTA
130 CTGCTA
* * ** * ** * * **
18018621 TCTTCGATCTACTTCA---CAAATATTGGAAGACAAGATCTGCTATCTTTGATCTATTCCGTTGC
1 TCTTTGATCTACTTCACTGCCAATACAGAAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
* * *
18018683 CAATACAGGAAGACAAGATCTGTTATCTTCGATCTATTTCGCTACCAATATAGGAAGACAAGATC
66 CAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAGTATAGGAAGACAAGATC
18018748 TGCTA
131 TGCTA
* * * * * *
18018753 TCTTTGATCTATTTCGCTGCCAATACAGGAGGACAAGATCTGTTATTTTCAACCTACTCCACTGC
1 TCTTTGATCTACTTCACTGCCAATACAGAAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
* * * * * **
18018818 TACT-CAGGGAGATAGGA-CTTG-TGA-CTTCGATCTACTTCGCTGTCAGTATAGGAAGACAAGA
66 CAATACAGGAAGACAAGATC-TGCT-ATCTTCGATCTACTTCGCTACCAGTATAGGAAGACAAGA
18018879 TCTGCTA
129 TCTGCTA
* * * *
18018886 TCTTTGATCTACTTCACTGCCAATACAGAAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
1 TCTTTGATCTACTTCACTGCCAATACAGAAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
*
18018951 CAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTACCAGTATAGGAAGACAAGATC
66 CAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAGTATAGGAAGACAAGATC
*
18019016 TGTTA
131 TGCTA
18019021 TCTT
1 TCTT
18019025 CAGTCTGCTC
Statistics
Matches: 332, Mismatches: 62, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
132 112 0.34
133 99 0.30
134 26 0.08
135 95 0.29
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (135 bp):
TCTTTGATCTACTTCACTGCCAATACAGAAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
CAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAGTATAGGAAGACAAGATC
TGCTA
Found at i:18019051 original size:90 final size:91
Alignment explanation
Indices: 18018486--18019099 Score: 604
Period size: 90 Copynumber: 6.9 Consensus size: 91
18018476 GTTTTTTTTG
* **
18018486 TCTT-TGATGTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTTGCTG
1 TCTTCTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACTG
*
18018550 CCAATATAGGAAGATAAGATCTGCTA
66 CCAATATAGGAAGACAAGATCTGCTA
* * * * *
18018576 TCTT-TGATCTACTTCGCTGCCGATATAGGAAGACAAGAGCTACTATCTTCGATCTACTTCA---
1 TCTTCTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACTG
* *
18018637 CAAATATTGGAAGACAAGATCTGCTA
66 CCAATATAGGAAGACAAGATCTGCTA
* * * * *
18018663 TCTT-TGATCTA-TTCCGTTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTATTTCGCT
1 TCTTCTGATCTACTT-CGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT
*
18018726 ACCAATATAGGAAGACAAGATCTGCTA
65 GCCAATATAGGAAGACAAGATCTGCTA
* * * * * *
18018753 TCTT-TGATCTATTTCGCTGCCAATACAGGAGGACAAGATCTGTTAT-TTTCAACCTACTCCACT
1 TCTTCTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTT-GATCTACTTCACT
* * * * * *
18018816 GCTACT-CAGGGAGATAGGA-CTTG-TGA
65 GCCAATATAGGAAGACAAGATC-TGCT-A
* * *
18018842 -CTTC-GATCTACTTCGCTGTCAGTATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACTG
1 TCTTCTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACTG
* *
18018905 CCAATACAGAAAGACAAGATCTGCTA
66 CCAATATAGGAAGACAAGATCTGCTA
* *
18018931 TCTTC-GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTA
1 TCTTCTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACTG
* *
18018995 CCAGTATAGGAAGACAAGATCTGTTA
66 CCAATATAGGAAGACAAGATCTGCTA
* * * * * * * *
18019021 TCTTCAG-TCTGCTCCGGTG-CAACT-CAAGGAAGTC-AGA-CTAG-TGTTTTTGATCCACTTCA
1 TCTTCTGATCTACTTCGCTGCCAA-TAC-AGGAAGACAAGATCT-GCTATCTTTGATCTACTTCA
18019080 CTGCCAATATAGGAAGACAA
63 CTGCCAATATAGGAAGACAA
18019100 TATTTGTTAT
Statistics
Matches: 436, Mismatches: 70, Indels: 38
0.80 0.13 0.07
Matches are distributed among these distances:
86 2 0.00
87 73 0.17
88 88 0.20
89 37 0.08
90 233 0.53
91 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (91 bp):
TCTTCTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACTG
CCAATATAGGAAGACAAGATCTGCTA
Found at i:18019093 original size:223 final size:222
Alignment explanation
Indices: 18018486--18019099 Score: 724
Period size: 223 Copynumber: 2.8 Consensus size: 222
18018476 GTTTTTTTTG
* * *
18018486 TCTTTGATGTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTTGCTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGC
* * * * * *
18018551 CAATATAGGAAGATAAGATCTGCTATCTT-TGATCTACTTCGCTGCCGA-T-ATAGGAAGACAAG
66 CAATATAGGAAGACAAGATCTGTTATCTTCAG-TCTACTCCGCTG-CAACTCA-AGGAAGTC-AG
* * * *
18018613 AGCTACTATCTTCGATCTACTTCA---CAAATATTGGAAGACAAGATCTGCTATCTTTGATCTAT
127 A-CTAGTGTCTTCGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATCTTTGATCTAT
* *
18018675 TCCGTTGCCAATACAGGAAGACAAGATCTGTTA
191 TCCG-TGCCAATACAGAAAGACAAGATCTGCTA
* * * *
18018708 TCTTCGATCTATTTCGCTACCAATATAGGAAGACAAGATCTGCTATCTTTGATCTATTTCGCTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGC
* * * ** * * *
18018773 CAATACAGGAGGACAAGATCTGTTATTTTCAACCTACTCCACTGCTACTC-AGGGAGAT-AGGAC
66 CAATATAGGAAGACAAGATCTGTTATCTTCAGTCTACTCCGCTGCAACTCAAGGAAG-TCA-GAC
* * * * *
18018836 TTGTGACTTCGATCTACTTCGCTGTCAGTATAGGAAGACAAGATCTGCTATCTTTGATCTACTTC
129 TAGTGTCTTCGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATCTTTGATCTA-TTC
18018901 AC-TGCCAATACAGAAAGACAAGATCTGCTA
193 -CGTGCCAATACAGAAAGACAAGATCTGCTA
*
18018931 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTAC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGC
* * *
18018996 CAGTATAGGAAGACAAGATCTGTTATCTTCAGTCTGCTCCGGTGCAACTCAAGGAAGTCAGACTA
66 CAATATAGGAAGACAAGATCTGTTATCTTCAGTCTACTCCGCTGCAACTCAAGGAAGTCAGACTA
* * *
18019061 GTGTTTTTGATCCACTTCACTGCCAATATAGGAAGACAA
131 GTGTCTTCGATCTACTTCACTGCCAATATAGGAAGACAA
18019100 TATTTGTTAT
Statistics
Matches: 325, Mismatches: 55, Indels: 23
0.81 0.14 0.06
Matches are distributed among these distances:
220 18 0.06
221 9 0.03
222 92 0.28
223 196 0.60
224 9 0.03
225 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (222 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGC
CAATATAGGAAGACAAGATCTGTTATCTTCAGTCTACTCCGCTGCAACTCAAGGAAGTCAGACTA
GTGTCTTCGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATCTTTGATCTATTCCGT
GCCAATACAGAAAGACAAGATCTGCTA
Found at i:18020162 original size:26 final size:27
Alignment explanation
Indices: 18020133--18020188 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
18020123 AGTGTCTTGA
18020133 AAAGAAAAAAGTATTCCAAGAAC-AAC
1 AAAGAAAAAAGTATTCCAAGAACAAAC
* *
18020159 AAAGAATAAAGTATTTCAAGAACAAAC
1 AAAGAAAAAAGTATTCCAAGAACAAAC
18020186 AAA
1 AAA
18020189 TTCAGTACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.62, C:0.12, G:0.11, T:0.14
Consensus pattern (27 bp):
AAAGAAAAAAGTATTCCAAGAACAAAC
Found at i:18024357 original size:16 final size:16
Alignment explanation
Indices: 18024333--18024367 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18024323 TTCTATAATG
*
18024333 AAATATCATGCAGTCA
1 AAATATCATGCAGCCA
*
18024349 AAATGTCATGCAGCCA
1 AAATATCATGCAGCCA
18024365 AAA
1 AAA
18024368 CAAAACACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (16 bp):
AAATATCATGCAGCCA
Found at i:18025805 original size:23 final size:21
Alignment explanation
Indices: 18025757--18025805 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
18025747 TAATATGAAT
*
18025757 TATATGTATATGTATGTACAA
1 TATATGTATATATATGTACAA
*
18025778 AATATGTATATATATAAGTACAA
1 TATATGTATATATAT--GTACAA
18025801 TATAT
1 TATAT
18025806 AAGTAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
23 10 0.43
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (21 bp):
TATATGTATATATATGTACAA
Found at i:18041422 original size:2 final size:2
Alignment explanation
Indices: 18041415--18041445 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18041405 GGTGCTAAAG
18041415 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 T
18041446 CTTTGATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18041820 original size:4 final size:4
Alignment explanation
Indices: 18041811--18042114 Score: 482
Period size: 4 Copynumber: 76.0 Consensus size: 4
18041801 CATTGCCACT
*
18041811 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA CACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
18041859 CACA TACA TACA TACA CACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
18041907 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
18041955 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
18042003 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * * * *
18042051 TACA TACA TACG TACG TACG TAAA CACA TACA TACG TACG TACG TACG
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
18042099 TAAA CACA TACA TACA
1 TACA TACA TACA TACA
18042115 GATGTATGTA
Statistics
Matches: 282, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 282 1.00
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.23
Consensus pattern (4 bp):
TACA
Found at i:18042139 original size:12 final size:12
Alignment explanation
Indices: 18042136--18042184 Score: 71
Period size: 12 Copynumber: 4.1 Consensus size: 12
18042126 ACATACACAC
*
18042136 ACACACATACGT
1 ACACACATACAT
**
18042148 ACACACATATGT
1 ACACACATACAT
18042160 ACACACATACAT
1 ACACACATACAT
18042172 ACACACATACAT
1 ACACACATACAT
18042184 A
1 A
18042185 AATGCCTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.47, C:0.31, G:0.04, T:0.18
Consensus pattern (12 bp):
ACACACATACAT
Found at i:18042143 original size:14 final size:14
Alignment explanation
Indices: 18042124--18042178 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
18042114 AGATGTATGT
18042124 ACACATACACACAC
1 ACACATACACACAC
**
18042138 ACACATACGTACAC
1 ACACATACACACAC
* **
18042152 ACATATGTACACAC
1 ACACATACACACAC
*
18042166 ATACATACACACA
1 ACACATACACACA
18042179 TACATAAATG
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.47, C:0.35, G:0.04, T:0.15
Consensus pattern (14 bp):
ACACATACACACAC
Found at i:18043339 original size:29 final size:31
Alignment explanation
Indices: 18043297--18043373 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
18043287 TTTACCTCAG
*
18043297 GTTACATTTTAGTCACTTATGTT-T-GAAAT
1 GTTACATTTTAGTCACTTACGTTATCGAAAT
* *
18043326 GTTACATTTTAGTCACTTACGTTATCGTATT
1 GTTACATTTTAGTCACTTACGTTATCGAAAT
*
18043357 GTAACATTTTAGTCACT
1 GTTACATTTTAGTCACT
18043374 GAGCCGTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 22 0.52
30 1 0.02
31 19 0.45
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.47
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTACGTTATCGAAAT
Found at i:18044510 original size:31 final size:29
Alignment explanation
Indices: 18044475--18044551 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
18044465 TTAATAGCTT
* *
18044475 AGTGACTAAAATGTTACAATACGATAACGTA
1 AGTGACTAAAATGTAACAATAC-A-AACATA
* * *
18044506 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAATACAAACATA
18044535 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
18044552 CTGAGGCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 21 0.52
30 1 0.03
31 18 0.45
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAATACAAACATA
Found at i:18046908 original size:6 final size:6
Alignment explanation
Indices: 18046897--18046930 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
18046887 TTTTTCTTTC
18046897 TATGGT TATGGT TATGGT TATGGT TATGGT TATG
1 TATGGT TATGGT TATGGT TATGGT TATGGT TATG
18046931 TTTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (6 bp):
TATGGT
Found at i:18052303 original size:14 final size:15
Alignment explanation
Indices: 18052284--18052315 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18052274 GTGGTTATAG
18052284 TTAAAATA-ATAAAA
1 TTAAAATAGATAAAA
18052298 TTAAAATAGATAAAA
1 TTAAAATAGATAAAA
18052313 TTA
1 TTA
18052316 TGATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
TTAAAATAGATAAAA
Found at i:18067746 original size:12 final size:13
Alignment explanation
Indices: 18067729--18067757 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
18067719 CTTATACATG
18067729 AATAAATAAA-GC
1 AATAAATAAATGC
18067741 AATAAATAAATGC
1 AATAAATAAATGC
18067754 AATA
1 AATA
18067758 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:18070291 original size:20 final size:20
Alignment explanation
Indices: 18070266--18070342 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
18070256 AAGACGATGA
18070266 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
*
18070286 ACCATTCCATTTATTTACTT
1 ACCATTCCATTTACTTACTT
*
18070306 TCCACTT-CATTTACTTACTT
1 ACCA-TTCCATTTACTTACTT
* *
18070326 TCCATTCTATTTACTTA
1 ACCATTCCATTTACTTA
18070343 GCATAAGCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.04
20 47 0.92
21 2 0.04
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.49
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:18078345 original size:38 final size:37
Alignment explanation
Indices: 18078301--18078373 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
18078291 AGGTGTGGAA
*
18078301 TTGAATTGAATAT-TGACTTAGAAA-TGGAAAAGTGAATT
1 TTGAATTGAAT-TGTGA-TT-GAAAGTGAAAAAGTGAATT
18078339 TTGAATTGAATTGTGATTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATTGTGATTGAAAGTGAAAAAGTGAA
18078374 ATTATGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 14 0.44
38 14 0.44
ACGTcount: A:0.42, C:0.01, G:0.23, T:0.33
Consensus pattern (37 bp):
TTGAATTGAATTGTGATTGAAAGTGAAAAAGTGAATT
Found at i:18083864 original size:23 final size:23
Alignment explanation
Indices: 18083833--18083883 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
18083823 ACCTACTTTC
* *
18083833 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
*
18083856 TTACAGTAGTAATTTTTGGGATA
1 TTACAGTAGTAATTTTCGGGATA
18083879 TTACA
1 TTACA
18083884 TAATGTGGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:18086735 original size:26 final size:26
Alignment explanation
Indices: 18086655--18086735 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
18086645 GATGGTCACG
18086655 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
18086681 CGTGTA-T-CGGATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
18086706 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
18086732 TGTG
1 TGTG
18086736 AACCGAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:18086793 original size:45 final size:45
Alignment explanation
Indices: 18086742--18086831 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
18086732 TGTGAACCGA
* *
18086742 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACTAG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACTAG
18086787 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACTAG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACTAG
18086832 GTATATGTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACTAG
Found at i:18090171 original size:23 final size:23
Alignment explanation
Indices: 18090141--18090184 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
18090131 TAGGAAGCCA
*
18090141 TGGGAGAAGCTTCAACGTTCGGC
1 TGGGAGAAGCTTCAACATTCGGC
18090164 TGGGAGAAGCTTCAACATTCG
1 TGGGAGAAGCTTCAACATTCG
18090185 ACTAAGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (23 bp):
TGGGAGAAGCTTCAACATTCGGC
Found at i:18093041 original size:389 final size:390
Alignment explanation
Indices: 18092312--18093091 Score: 1553
Period size: 389 Copynumber: 2.0 Consensus size: 390
18092302 CTTGGCTGTG
18092312 TGACCCAAGTCAGTGAGTTACACGGGCACAAAAACGGGCTGGGACACAACCTTGTGTCCTTACTT
1 TGACCCAAGTCAGTGAGTTACACGGGCACAAAAACGGGCTGGGACACAACCTTGTGTCCTTACTT
18092377 CGAATGCCCATATGGCTGTGTGACCTTTGCAGTTTTGAAAATTTTCTTTTTTTCCTGAAAAATTC
66 CGAATGCCCATATGGCTGTGTGACCTTTGCAGTTTTGAAAATTTTCTTTTTTTCCTGAAAAATTC
18092442 TCTAATTTTCCGGTTTAGTCCTAGCTTGTTTCTAACGTGTTTTTAGGGCCTCCAGGTTTCGTATA
131 TCTAATTTTCCGGTTTAGTCCTAGCTTGTTTCTAACGTGTTTTTAGGGCCTCCAGGTTTCGTATA
18092507 AGGCAATATTAATGATTTGGTTTGATTTTAATATGTTTATTGAGATTATATGTAATTTTTATAAA
196 AGGCAATATTAATGATTTGGTTTGATTTTAATATGTTTATTGAGATTATATGTAATTTTTATAAA
18092572 TATGTGTTCGTTTGAATTGTAAACTTCAGTAATGCTCCGTAACCCTAGTCCAGCGACGGATACAG
261 TATGTGTTCGTTTGAATTGTAAACTTCAGTAATGCTCCGTAACCCTAGTCCAGCGACGGATACAG
18092637 GTTAGGGGTGTTACAAATTTGCAGCAATAACTAATTACAAGAGCTATATGGTAATTTTCTCTTCT
326 GTTAGGGGTGTTACAAATTTGCAGCAATAACTAATTACAAGAGCTATATGGTAATTTTCTCTTCT
18092702 TGACCCAAGTC-GTGAGTTACACGGGCACAAAAACGGGCTGGGACACAACCTTGTGTCCTTACTT
1 TGACCCAAGTCAGTGAGTTACACGGGCACAAAAACGGGCTGGGACACAACCTTGTGTCCTTACTT
18092766 CGAATGCCCATATGGCTGTGTGACCTTTGCAGTTTTGAAAATTTTCTTTTTTTCCTGAAAAATTC
66 CGAATGCCCATATGGCTGTGTGACCTTTGCAGTTTTGAAAATTTTCTTTTTTTCCTGAAAAATTC
18092831 TCTAATTTTCCGGTTTAGTCCTAGCTTGTTTCTAACGTGTTTTTAGGGCCTCCAGGTTTCGTATA
131 TCTAATTTTCCGGTTTAGTCCTAGCTTGTTTCTAACGTGTTTTTAGGGCCTCCAGGTTTCGTATA
18092896 AGGCAATATTAATGATTTGGTTTGATTTTAATATGTTTATTGAGATTATATGTAATTTTTATAAA
196 AGGCAATATTAATGATTTGGTTTGATTTTAATATGTTTATTGAGATTATATGTAATTTTTATAAA
18092961 TATGTGTTCGTTTGAATTGTAAACTTCAGTAATGCTCCGTAACCCTAGTCCAGCGACGGATACAG
261 TATGTGTTCGTTTGAATTGTAAACTTCAGTAATGCTCCGTAACCCTAGTCCAGCGACGGATACAG
18093026 GTTAGGGGTGTTACAAATTTGCAGCAATAACTAATTACAAGAGCTATATGGTAATTTTCTCTTCT
326 GTTAGGGGTGTTACAAATTTGCAGCAATAACTAATTACAAGAGCTATATGGTAATTTTCTCTTCT
18093091 T
1 T
18093092 CTCGATTTCC
Statistics
Matches: 390, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
389 379 0.97
390 11 0.03
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (390 bp):
TGACCCAAGTCAGTGAGTTACACGGGCACAAAAACGGGCTGGGACACAACCTTGTGTCCTTACTT
CGAATGCCCATATGGCTGTGTGACCTTTGCAGTTTTGAAAATTTTCTTTTTTTCCTGAAAAATTC
TCTAATTTTCCGGTTTAGTCCTAGCTTGTTTCTAACGTGTTTTTAGGGCCTCCAGGTTTCGTATA
AGGCAATATTAATGATTTGGTTTGATTTTAATATGTTTATTGAGATTATATGTAATTTTTATAAA
TATGTGTTCGTTTGAATTGTAAACTTCAGTAATGCTCCGTAACCCTAGTCCAGCGACGGATACAG
GTTAGGGGTGTTACAAATTTGCAGCAATAACTAATTACAAGAGCTATATGGTAATTTTCTCTTCT
Found at i:18099515 original size:31 final size:31
Alignment explanation
Indices: 18099474--18099693 Score: 332
Period size: 31 Copynumber: 7.1 Consensus size: 31
18099464 AGATCCGTAC
*
18099474 TTTTTCGGGACTGGCGGGATATTATTGACGA
1 TTTTTTGGGACTGGCGGGATATTATTGACGA
18099505 TTTTTTGGGACTGGCGGGATATTATTGACGA
1 TTTTTTGGGACTGGCGGGATATTATTGACGA
* *
18099536 TTTTTTAGAACTGGCGGGATATTATTGACGA
1 TTTTTTGGGACTGGCGGGATATTATTGACGA
*
18099567 TTTTTCGGGACTGGCGGGATATTATTGACGA
1 TTTTTTGGGACTGGCGGGATATTATTGACGA
* *
18099598 TTTTTTAGAACTGGCGGGATATTATTGACGA
1 TTTTTTGGGACTGGCGGGATATTATTGACGA
*
18099629 TTTTTCGGGACTGGCGGGATATTATTGACGA
1 TTTTTTGGGACTGGCGGGATATTATTGACGA
* * * * *
18099660 TTTTTTAGAACTGGCAGGATATTATCGACAA
1 TTTTTTGGGACTGGCGGGATATTATTGACGA
18099691 TTT
1 TTT
18099694 GTAGAGGGTT
Statistics
Matches: 171, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 171 1.00
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.38
Consensus pattern (31 bp):
TTTTTTGGGACTGGCGGGATATTATTGACGA
Found at i:18099571 original size:62 final size:62
Alignment explanation
Indices: 18099483--18099693 Score: 386
Period size: 62 Copynumber: 3.4 Consensus size: 62
18099473 CTTTTTCGGG
*
18099483 ACTGGCGGGATATTATTGACGATTTTTTGGGACTGGCGGGATATTATTGACGATTTTTTAGA
1 ACTGGCGGGATATTATTGACGATTTTTCGGGACTGGCGGGATATTATTGACGATTTTTTAGA
18099545 ACTGGCGGGATATTATTGACGATTTTTCGGGACTGGCGGGATATTATTGACGATTTTTTAGA
1 ACTGGCGGGATATTATTGACGATTTTTCGGGACTGGCGGGATATTATTGACGATTTTTTAGA
18099607 ACTGGCGGGATATTATTGACGATTTTTCGGGACTGGCGGGATATTATTGACGATTTTTTAGA
1 ACTGGCGGGATATTATTGACGATTTTTCGGGACTGGCGGGATATTATTGACGATTTTTTAGA
* * *
18099669 ACTGGCAGGATATTATCGACAATTT
1 ACTGGCGGGATATTATTGACGATTT
18099694 GTAGAGGGTT
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 145 1.00
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.37
Consensus pattern (62 bp):
ACTGGCGGGATATTATTGACGATTTTTCGGGACTGGCGGGATATTATTGACGATTTTTTAGA
Found at i:18103632 original size:42 final size:42
Alignment explanation
Indices: 18103585--18103774 Score: 163
Period size: 42 Copynumber: 4.5 Consensus size: 42
18103575 CCGTTAAAGG
* * *
18103585 TCATGTTCTTTAGCAGCGCTTAGGAAAAAAC-GTCGCTAAAAA
1 TCATGTTCTTTAGCGGCGCTTA-CAAAAAACTGCCGCTAAAAA
**
18103627 TCATGTTCTTTAGCGGCGC-TACAAAAAACTTGCCGCTAAATG
1 TCATGTTCTTTAGCGGCGCTTACAAAAAAC-TGCCGCTAAAAA
** * *
18103669 TCATGTTCTTTAGCGGCGCTTTTAAAATAAATGCCACTAAAGAA
1 TCATGTTCTTTAGCGGCGCTTACAAAA-AACTGCCGCTAAA-AA
* * ** * **
18103713 -CATGGTCTATAGCGGCGCAAACCAACAAAC-GCCGCTAAAGC
1 TCATGTTCTTTAGCGGCGCTTA-CAAAAAACTGCCGCTAAAAA
18103754 TCATGTTCTTTAGCGGCGCTT
1 TCATGTTCTTTAGCGGCGCTT
18103775 TTTAAAAATG
Statistics
Matches: 115, Mismatches: 26, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
40 7 0.06
41 2 0.02
42 69 0.60
43 32 0.28
44 5 0.04
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (42 bp):
TCATGTTCTTTAGCGGCGCTTACAAAAAACTGCCGCTAAAAA
Found at i:18104183 original size:21 final size:21
Alignment explanation
Indices: 18104158--18104209 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
18104148 TTTCTTTTGA
*
18104158 ACCTCTGCTTCTCTCGCT-CC
1 ACCTCTGCTTCCCTCGCTGCC
18104178 AGCCTCTGCTTCCCTCGCTGCC
1 A-CCTCTGCTTCCCTCGCTGCC
*
18104200 ACCTATGCTT
1 ACCTCTGCTT
18104210 TAAGTTGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 24 0.86
22 3 0.11
ACGTcount: A:0.08, C:0.46, G:0.13, T:0.33
Consensus pattern (21 bp):
ACCTCTGCTTCCCTCGCTGCC
Found at i:18107014 original size:24 final size:23
Alignment explanation
Indices: 18106987--18107035 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
18106977 TGCTATCAAC
*
18106987 AAACAAGGCTCATCTTTTTTTTTA
1 AAACAA-GCTCATCTTTTTTTCTA
* *
18107011 AAACTAGCTCTTCTTTTTTTCTA
1 AAACAAGCTCATCTTTTTTTCTA
18107034 AA
1 AA
18107036 CCATTTGCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (23 bp):
AAACAAGCTCATCTTTTTTTCTA
Found at i:18108349 original size:14 final size:14
Alignment explanation
Indices: 18108330--18108357 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18108320 ATCTTAGGGA
18108330 TTTGGGGGAGAATG
1 TTTGGGGGAGAATG
18108344 TTTGGGGGAGAATG
1 TTTGGGGGAGAATG
18108358 GGATTTTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.50, T:0.29
Consensus pattern (14 bp):
TTTGGGGGAGAATG
Found at i:18108700 original size:148 final size:148
Alignment explanation
Indices: 18108524--18108827 Score: 430
Period size: 148 Copynumber: 2.1 Consensus size: 148
18108514 AAACTAAAAC
* * *
18108524 TTGTGGCGCTTAGAGTAAAAACGCCACTAATAACATGGACAAAACAACACCGTTATAAGATAACC
1 TTGTGGCGCTTACACTAAAAACGCCACTAATAACATGGAAAAAACAACACCGTTATAAGATAACC
* * * *
18108589 TTAAACATTTTTAAGGCGTTTTATCAAAAGTGCCACTAATAAAAATAGGAAACGACGCCGTTACC
66 TTAAACATTTTTAAGACGCTTTAGCAAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTACC
18108654 TCAAC-CACTAATAAATAT
131 TCAACTC-CTAATAAATAT
***
18108672 TTGTGGCGCTTACACTAAAAACGCCACTAATAACATGGAAAAAATGGCACCGTTATAAGATAACC
1 TTGTGGCGCTTACACTAAAAACGCCACTAATAACATGGAAAAAACAACACCGTTATAAGATAACC
** * * * *
18108737 TTAAACATTTTTGCGACGCTTTAGCTAAAGCGCGACTAATAAAAATAGGAAACGACGCCTTTTCC
66 TTAAACATTTTTAAGACGCTTTAGCAAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTACC
*
18108802 TCAACTCGTAATAAATAT
131 TCAACTCCTAATAAATAT
*
18108820 TTGCGGCG
1 TTGTGGCG
18108828 TTTCTAAAAT
Statistics
Matches: 137, Mismatches: 18, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
148 136 0.99
149 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (148 bp):
TTGTGGCGCTTACACTAAAAACGCCACTAATAACATGGAAAAAACAACACCGTTATAAGATAACC
TTAAACATTTTTAAGACGCTTTAGCAAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTACC
TCAACTCCTAATAAATAT
Found at i:18108862 original size:148 final size:146
Alignment explanation
Indices: 18108571--18108871 Score: 356
Period size: 148 Copynumber: 2.0 Consensus size: 146
18108561 GACAAAACAA
* * * *
18108571 CACCGTTATAAGATAACCTTAAACATTTTTAAGGCGTTTTATCAAAAGTGCCACTAATAAAAATA
1 CACCGTTATAAGATAACCTTAAACATTTTTAAGACGCTTTAGCAAAAGCGCCACTAATAAAAATA
*
18108636 GGAAACGACGCCGTTACCTCAACCACTAATAAATATTTGTGGCGCTTACACTAAAAACGCCACTA
66 GGAAACGACGCCGTTACCTCAACCACTAATAAATATTTGCGGCGCTTA-ACTAAAAACGCCACTA
* *** *
18108701 ATAACATGGAAAAAATGG
130 AGAA-AACAAAAAAACGG
** * *
18108719 CACCGTTATAAGATAACCTTAAACATTTTTGCGACGCTTTAGCTAAAGCGCGACTAATAAAAATA
1 CACCGTTATAAGATAACCTTAAACATTTTTAAGACGCTTTAGCAAAAGCGCCACTAATAAAAATA
* * * * *
18108784 GGAAACGACGCCTTTTCCTCAACTC-GTAATAAATATTTGCGGCG-TT-TCTAAAATGCGCCACT
66 GGAAACGACGCCGTTACCTCAAC-CACTAATAAATATTTGCGGCGCTTAACTAAAA-ACGCCACT
18108846 AAAAGAAAACAAAAAAACGG
129 --AAGAAAACAAAAAAACGG
18108866 CACCGT
1 CACCGT
18108872 CTTTGTTACA
Statistics
Matches: 130, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
145 6 0.05
146 7 0.05
147 17 0.13
148 99 0.76
149 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (146 bp):
CACCGTTATAAGATAACCTTAAACATTTTTAAGACGCTTTAGCAAAAGCGCCACTAATAAAAATA
GGAAACGACGCCGTTACCTCAACCACTAATAAATATTTGCGGCGCTTAACTAAAAACGCCACTAA
GAAAACAAAAAAACGG
Found at i:18109117 original size:15 final size:16
Alignment explanation
Indices: 18109088--18109120 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18109078 ATTTAACCCA
*
18109088 TTTTGATATATATATT
1 TTTTGAAATATATATT
18109104 TTTTGAAATA-ATATT
1 TTTTGAAATATATATT
18109119 TT
1 TT
18109121 ATATTTATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTTGAAATATATATT
Found at i:18109190 original size:23 final size:21
Alignment explanation
Indices: 18109151--18109211 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 21
18109141 TATATTTTAA
18109151 AAAATCTAACCCTAAA-CCTT
1 AAAATCTAACCCTAAACCCTT
18109171 AAAATCGTAAGCCACTAAACCCTT
1 AAAATC-TAA-CC-CTAAACCCTT
**
18109195 AAACCCTAAACCCTAAA
1 AAAATCT-AACCCTAAA
18109212 ACTAACAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 6 0.18
21 3 0.09
22 7 0.21
23 8 0.24
24 10 0.29
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.20
Consensus pattern (21 bp):
AAAATCTAACCCTAAACCCTT
Found at i:18109285 original size:28 final size:28
Alignment explanation
Indices: 18109253--18109312 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
18109243 AATATACCAT
*
18109253 AAACCTTAAA-TCAGAAATCCTAAACCCC
1 AAACCTAAAACTC-GAAATCCTAAACCCC
* *
18109281 AAACCTAAAACTCTAAATCGTAAACCCC
1 AAACCTAAAACTCGAAATCCTAAACCCC
18109309 AAAC
1 AAAC
18109313 TGTAATCCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.48, C:0.32, G:0.03, T:0.17
Consensus pattern (28 bp):
AAACCTAAAACTCGAAATCCTAAACCCC
Found at i:18109495 original size:20 final size:20
Alignment explanation
Indices: 18109457--18109513 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
18109447 TCTTCAATTT
18109457 CCAAACT-AAACCCTAAAACC
1 CCAAACTCAAA-CCTAAAACC
* *
18109477 CTAAACTCAAACCTTAAACC
1 CCAAACTCAAACCTAAAACC
18109497 CCAAACTCAAACTCTAA
1 CCAAACTCAAAC-CTAA
18109514 CACATAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 25 0.81
21 6 0.19
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.16
Consensus pattern (20 bp):
CCAAACTCAAACCTAAAACC
Found at i:18109700 original size:21 final size:21
Alignment explanation
Indices: 18109674--18109747 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
18109664 ACCTTTAAAT
18109674 CCCCTAACCCCTAAAGCATAA
1 CCCCTAACCCCTAAAGCATAA
* *
18109695 CCCCTAACCCAT-AA--AT-C
1 CCCCTAACCCCTAAAGCATAA
18109712 CCCCTAACCCCTAAAGCATAA
1 CCCCTAACCCCTAAAGCATAA
*
18109733 CACCTAACCCCTAAA
1 CCCCTAACCCCTAAA
18109748 CCTCAAATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 11 0.25
18 4 0.09
20 4 0.09
21 25 0.57
ACGTcount: A:0.38, C:0.45, G:0.03, T:0.15
Consensus pattern (21 bp):
CCCCTAACCCCTAAAGCATAA
Found at i:18109725 original size:38 final size:37
Alignment explanation
Indices: 18109669--18109747 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 37
18109659 ACTTAACCTT
*
18109669 TAAATCCCCTAACCCCTAAAGCATAACCCCTAACCCA
1 TAAATCCCCTAACCCCTAAAGCATAACACCTAACCCA
*
18109706 TAAATCCCCCTAACCCCTAAAGCATAACACCTAACCCC
1 TAAAT-CCCCTAACCCCTAAAGCATAACACCTAACCCA
18109744 TAAA
1 TAAA
18109748 CCTCAAATCC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 5 0.13
38 34 0.87
ACGTcount: A:0.39, C:0.42, G:0.03, T:0.16
Consensus pattern (37 bp):
TAAATCCCCTAACCCCTAAAGCATAACACCTAACCCA
Found at i:18109731 original size:24 final size:21
Alignment explanation
Indices: 18109714--18109774 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
18109704 CATAAATCCC
*
18109714 CCTAACCCCTAAAGCATAACA
1 CCTAACCCCTAAACCATAACA
18109735 CCTAACCCCTAAACC-TCAA-A
1 CCTAACCCCTAAACCAT-AACA
*
18109755 TCCTAAACCCTAAATCCATA
1 -CCTAACCCCTAAA-CCATA
18109775 TCCCGACCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 2 0.06
21 28 0.82
22 3 0.09
23 1 0.03
ACGTcount: A:0.41, C:0.39, G:0.02, T:0.18
Consensus pattern (21 bp):
CCTAACCCCTAAACCATAACA
Found at i:18110162 original size:72 final size:73
Alignment explanation
Indices: 18110003--18110172 Score: 202
Period size: 72 Copynumber: 2.3 Consensus size: 73
18109993 AGCATTAGCT
* * * *
18110003 GCGCTTTTTTAAAAACGCCGCTAAATCACCGAAAAGGTCCAGAAATGGCGCCATTGGGCTTAGTT
1 GCGCTTTTATAAAAACGCCGCTAAATCACCCAAAAGCTCCAGAAATGGCGACATTGGGCTTAGTT
*
18110068 TTTTTGCG
66 TTTCTGCG
* *** *
18110076 GCGATTTCCCAAAAACGCCGCTAAATC-CCCAAAAGCT-CAGAAATCGGTGACATTGGGCTTA-T
1 GCGCTTTTATAAAAACGCCGCTAAATCACCCAAAAGCTCCAGAAAT-GGCGACATTGGGCTTAGT
18110138 GTTTTCTGCG
65 -TTTTCTGCG
*
18110148 GCGCTTTTATAAAAACGCCACTAAA
1 GCGCTTTTATAAAAACGCCGCTAAA
18110173 GCCCTGAGCA
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
71 8 0.10
72 50 0.62
73 23 0.28
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (73 bp):
GCGCTTTTATAAAAACGCCGCTAAATCACCCAAAAGCTCCAGAAATGGCGACATTGGGCTTAGTT
TTTCTGCG
Found at i:18110275 original size:113 final size:113
Alignment explanation
Indices: 18110081--18110375 Score: 448
Period size: 113 Copynumber: 2.6 Consensus size: 113
18110071 TTGCGGCGAT
* * * * *
18110081 TTCCC-AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAATCGGTGACATTGGGCTTATGTTTTCT
1 TTCCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGCCGTTGGGCTTATGTTTTTT
* * *
18110145 GCGGCGCTTTTATAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGC
66 GCGGCGCTTTCACAAAAACGCCACTAAAGCCCTGAGCATTAGCGACGC
* * * *
18110193 TTCCCTAAAAACACTGCTAAATCCCTGAAAGCTCAGAAAACGGTGCCGTTGGGCTTATTTTTTTT
1 TTCCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGCCGTTGGGCTTATGTTTTTT
* *
18110258 GCGGCGCTTTCACAAAAACGTCGCTAAAGCCCTGAGCATTAGCGACGC
66 GCGGCGCTTTCACAAAAACGCCACTAAAGCCCTGAGCATTAGCGACGC
*
18110306 TTCCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGCCGTTTGGCTTATGTTTTTT
1 TTCCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGCCGTTGGGCTTATGTTTTTT
18110371 GCGGC
66 GCGGC
18110376 TCGCGCTTTA
Statistics
Matches: 163, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
112 5 0.03
113 158 0.97
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (113 bp):
TTCCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGCCGTTGGGCTTATGTTTTTT
GCGGCGCTTTCACAAAAACGCCACTAAAGCCCTGAGCATTAGCGACGC
Found at i:18110496 original size:73 final size:72
Alignment explanation
Indices: 18110311--18110537 Score: 267
Period size: 73 Copynumber: 3.1 Consensus size: 72
18110301 GACGCTTCCC
* *
18110311 TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGCCGTTTGGCTTATGTTTTTTGCGGC
1 TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTTGGCTTAGGTTTTTTGC-G-
18110376 TCGCGCTTTAT
64 --GCGCTTTAT
* * * *
18110387 TAAAAACGCCTCTAAATCCCCGAAATCTCAAAAAACGGCGCCGTTGGGCTTAGGTTTTTTTGCGG
1 TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTTGGCTTAGG-TTTTTTGCGG
*
18110452 CGCTTTCT
65 CGCTTTAT
* * * ** * *
18110460 TGAAAACGACGCTAAATCCCCAAAAGCTTGGTAAACGGCGTCGTTTGGCTTAGG-TTTTTGCGGC
1 TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTTGGCTTAGGTTTTTTGCGGC
18110524 GCTTTAT
66 GCTTTAT
*
18110531 GAAAAAC
1 TAAAAAC
18110538 ACCGTTAATT
Statistics
Matches: 129, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
71 21 0.16
73 51 0.40
76 49 0.38
77 8 0.06
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (72 bp):
TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTTGGCTTAGGTTTTTTGCGGC
GCTTTAT
Found at i:18114034 original size:23 final size:23
Alignment explanation
Indices: 18113999--18114042 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18113989 AATTGAAAAT
* *
18113999 GTAATATCTCGAAAAATACTACC
1 GTAATACCCCGAAAAATACTACC
*
18114022 GTAATACCCCGAAAATTACTA
1 GTAATACCCCGAAAAATACTA
18114043 TAGTAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.25
Consensus pattern (23 bp):
GTAATACCCCGAAAAATACTACC
Found at i:18114048 original size:23 final size:23
Alignment explanation
Indices: 18113999--18114048 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
18113989 AATTGAAAAT
* * *
18113999 GTAATATCTCGAAAAATACTACC
1 GTAATACCCCGAAAAATACTACA
* *
18114022 GTAATACCCCGAAAATTACTATA
1 GTAATACCCCGAAAAATACTACA
18114045 GTAA
1 GTAA
18114049 GAAAGTAGGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (23 bp):
GTAATACCCCGAAAAATACTACA
Found at i:18124144 original size:14 final size:14
Alignment explanation
Indices: 18124125--18124158 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18124115 AATTTAATCT
18124125 AAATGAAAAGTATG
1 AAATGAAAAGTATG
*
18124139 AAATGAAATGTATG
1 AAATGAAAAGTATG
*
18124153 AGATGA
1 AAATGA
18124159 GTTTAACAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (14 bp):
AAATGAAAAGTATG
Found at i:18124979 original size:16 final size:16
Alignment explanation
Indices: 18124937--18124972 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
18124927 GCTAGGCAAA
*
18124937 GAAAGAAGGAAGAAAAT
1 GAAAGAATGAA-AAAAT
18124954 GAAAGAATGAAAAAAT
1 GAAAGAATGAAAAAAT
18124970 GAA
1 GAA
18124973 TGGATGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.67, C:0.00, G:0.25, T:0.08
Consensus pattern (16 bp):
GAAAGAATGAAAAAAT
Found at i:18138065 original size:34 final size:34
Alignment explanation
Indices: 18138022--18138097 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
18138012 AAAATGTACA
* *
18138022 TACAGTAGGATAATTTTTAAAGTTTAGTTTATTT
1 TACATTAGGAAAATTTTTAAAGTTTAGTTTATTT
*
18138056 TACATTAGGAAAATTTTTAAAGTTTAGTTTGTTT
1 TACATTAGGAAAATTTTTAAAGTTTAGTTTATTT
18138090 TACATTAG
1 TACATTAG
18138098 AAACGGAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (34 bp):
TACATTAGGAAAATTTTTAAAGTTTAGTTTATTT
Found at i:18143337 original size:15 final size:15
Alignment explanation
Indices: 18143317--18143360 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
18143307 TGTTATATAC
* *
18143317 TGAAACTTTAGAATG
1 TGAAACTATAGAATA
*
18143332 TGAAACTATAGACTA
1 TGAAACTATAGAATA
18143347 TGAAACTATA-AATA
1 TGAAACTATAGAATA
18143361 GTGGGAACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 3 0.12
15 22 0.88
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.30
Consensus pattern (15 bp):
TGAAACTATAGAATA
Found at i:18148596 original size:10 final size:10
Alignment explanation
Indices: 18148581--18148628 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
18148571 TAGCATAAAG
18148581 AATTTTAATT
1 AATTTTAATT
*
18148591 AATTTTATAATA
1 AA-TTT-TAATT
18148603 AATTTTAATT
1 AATTTTAATT
*
18148613 TATTTTAATT
1 AATTTTAATT
*
18148623 TATTTT
1 AATTTT
18148629 CGACAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 21 0.64
11 6 0.18
12 6 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
AATTTTAATT
Found at i:18169754 original size:48 final size:49
Alignment explanation
Indices: 18169680--18169783 Score: 138
Period size: 48 Copynumber: 2.1 Consensus size: 49
18169670 TATTGAGGTT
* *
18169680 ATGAGAGGTCCCACGTAAGACAATGTC-GGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACAATGTCGGGACATGGCATGGGCACCGAG
* * * *
18169728 ATGAGAGGTCCCCCGTAAGGCCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACAATGTC-GGGACATGGCATGGGCACCGAG
18169778 ATGAGA
1 ATGAGA
18169784 ACTCCCATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
48 24 0.50
50 24 0.50
ACGTcount: A:0.26, C:0.23, G:0.34, T:0.17
Consensus pattern (49 bp):
ATGAGAGGTCCCACGTAAGACAATGTCGGGACATGGCATGGGCACCGAG
Found at i:18169807 original size:50 final size:50
Alignment explanation
Indices: 18169688--18169862 Score: 153
Period size: 50 Copynumber: 3.6 Consensus size: 50
18169678 TTATGAGAGG
* * * * **
18169688 TCCCACGTAAGACAATGTC--GGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAAC
** * * *
18169736 TCCCCCGTAAGGCCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAAC
* * * * *
18169786 TCCCATGTAAAACCATATCTGGGATATGACATTGGCA--GTACAGGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ACATGAGAAC
18169834 ATCCCATGTAAGACCATGTCTGGGACATG
1 -TCCCATGTAAGACCATGTCTGGGACATG
18169863 ACTTTGACAT
Statistics
Matches: 102, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
48 20 0.20
49 29 0.28
50 53 0.52
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAAC
Found at i:18170099 original size:20 final size:20
Alignment explanation
Indices: 18170074--18170112 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
18170064 TGAGTTATTT
18170074 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
18170094 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
18170113 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:18176477 original size:25 final size:25
Alignment explanation
Indices: 18176440--18176487 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18176430 TCAAATAAAT
** *
18176440 AAAAATATGAAAACATAAATCAACA
1 AAAAATAAAAAAAAATAAATCAACA
18176465 AAAAATAAAAAAAAATAAATCAA
1 AAAAATAAAAAAAAATAAATCAA
18176488 TATATACATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (25 bp):
AAAAATAAAAAAAAATAAATCAACA
Found at i:18177675 original size:18 final size:18
Alignment explanation
Indices: 18177637--18177672 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18177627 TTATTATTTT
*
18177637 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
18177655 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
18177673 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:18179010 original size:3 final size:3
Alignment explanation
Indices: 18179002--18179030 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18178992 CTCTATGGGG
18179002 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
18179031 AGGATCCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:18189281 original size:45 final size:44
Alignment explanation
Indices: 18189183--18189281 Score: 103
Period size: 45 Copynumber: 2.2 Consensus size: 44
18189173 TTTTTACCAA
* * * *
18189183 AAACCAAA-CCATTTCGTACCAAAACTTATATCATTTCGTACTT
1 AAACCAAACCCATTTCGTACCAAAACCTATACCATTCCCTACTT
* *
18189226 ACACCAAAACCCATTTCGTGCCAAAACCTATACCATTCCCTAAC-T
1 AAACC-AAACCCATTTCGTACCAAAACCTATACCATTCCCT-ACTT
18189271 AAACCTAAACC
1 AAACC-AAACC
18189282 ATATTTGACG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
43 4 0.09
44 3 0.07
45 36 0.80
46 2 0.04
ACGTcount: A:0.38, C:0.32, G:0.04, T:0.25
Consensus pattern (44 bp):
AAACCAAACCCATTTCGTACCAAAACCTATACCATTCCCTACTT
Found at i:18197861 original size:21 final size:20
Alignment explanation
Indices: 18197837--18197876 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
18197827 AATTTGACAG
*
18197837 CTTGTCTGCATTATCTGGTGA
1 CTTGTCCGCATTAT-TGGTGA
18197858 CTTGTCCGCATTATTGGTG
1 CTTGTCCGCATTATTGGTG
18197877 TGTTATTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.12, C:0.20, G:0.25, T:0.42
Consensus pattern (20 bp):
CTTGTCCGCATTATTGGTGA
Found at i:18198940 original size:15 final size:15
Alignment explanation
Indices: 18198920--18198963 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
18198910 TGTTATATAC
* *
18198920 TGAAACTTTAGAATG
1 TGAAACTATAGAATA
*
18198935 TGAAACTATAGACTA
1 TGAAACTATAGAATA
18198950 TGAAACTATA-AATA
1 TGAAACTATAGAATA
18198964 GTGGGAACTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 3 0.12
15 22 0.88
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.30
Consensus pattern (15 bp):
TGAAACTATAGAATA
Found at i:18205693 original size:10 final size:10
Alignment explanation
Indices: 18205678--18205758 Score: 72
Period size: 10 Copynumber: 7.7 Consensus size: 10
18205668 TTAGCATATA
18205678 TAATTTTAAT
1 TAATTTTAAT
*
18205688 TAATTTTATAAA
1 TAA-TTT-TAAT
*
18205700 AAATTTTAAT
1 TAATTTTAAT
*
18205710 TAATTTTATAAA
1 TAA-TTT-TAAT
* *
18205722 AAAATTTAAT
1 TAATTTTAAT
18205732 TAATTTTAAT
1 TAATTTTAAT
18205742 TAATTTTAAT
1 TAATTTTAAT
*
18205752 TTATTTT
1 TAATTTT
18205759 CGACAAATTC
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
10 35 0.62
11 11 0.20
12 10 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TAATTTTAAT
Found at i:18205704 original size:22 final size:22
Alignment explanation
Indices: 18205679--18205739 Score: 113
Period size: 22 Copynumber: 2.8 Consensus size: 22
18205669 TAGCATATAT
18205679 AATTTTAATTAATTTTATAAAA
1 AATTTTAATTAATTTTATAAAA
18205701 AATTTTAATTAATTTTATAAAA
1 AATTTTAATTAATTTTATAAAA
*
18205723 AAATTTAATTAATTTTA
1 AATTTTAATTAATTTTA
18205740 ATTAATTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATTTTAATTAATTTTATAAAA
Found at i:18205714 original size:32 final size:31
Alignment explanation
Indices: 18205678--18205758 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 31
18205668 TTAGCATATA
18205678 TAATTTTAATTAATTTTATAAAAAATTTTAAT
1 TAATTTTAATTAATTTT-TAAAAAATTTTAAT
** ** **
18205710 TAATTTTATAAAAAAATTTAATTAATTTTAAT
1 TAATTTTA-ATTAATTTTTAAAAAATTTTAAT
*
18205742 TAATTTTAATTTATTTT
1 TAATTTTAATTAATTTT
18205759 CGACAAATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
31 4 0.11
32 28 0.76
33 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
TAATTTTAATTAATTTTTAAAAAATTTTAAT
Found at i:18215859 original size:50 final size:50
Alignment explanation
Indices: 18215784--18215907 Score: 122
Period size: 50 Copynumber: 2.5 Consensus size: 50
18215774 TATTGAGGTT
* ** *
18215784 ATGAGAGGTCCCACGTAAAACCATGTATTGGACATGGTGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAAACCATGTATGGGACATGGCATGGGCACCGAG
* * * * * *
18215834 ATGAGATGTCCCCCGTAAGATCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAAACCATGTATGGGACATGGCATGGGCACCGAG
** * *
18215884 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCACGTAAAACCAT
18215908 ATCTGGGATA
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAAACCATGTATGGGACATGGCATGGGCACCGAG
Found at i:18215913 original size:50 final size:50
Alignment explanation
Indices: 18215825--18215970 Score: 145
Period size: 50 Copynumber: 2.9 Consensus size: 50
18215815 ACATGGTGTT
* ** ** * *
18215825 GGCACCGAGATGAGATGTCCCCCGTAAGATCATGTCTGGGACATGGCATG
1 GGCACCGACATGAGAACTCCCATGTAAGACCATGTCTGGGACATGACATG
* * * *
18215875 GGCACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGACATT
1 GGCACCGACATGAGAACTCCCATGTAAGACCATGTCTGGGACATGACATG
*
18215925 GGCA--GTACAGGA-AACATCCCATGTAAGACCATGTCTGGGACATGAC
1 GGCACCG-ACATGAGAAC-TCCCATGTAAGACCATGTCTGGGACATGAC
18215971 TTTGGCATGT
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
48 4 0.05
49 32 0.40
50 44 0.55
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (50 bp):
GGCACCGACATGAGAACTCCCATGTAAGACCATGTCTGGGACATGACATG
Found at i:18216433 original size:35 final size:35
Alignment explanation
Indices: 18216387--18216458 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
18216377 ATTTAAGAAC
18216387 ATGTTTTGGTGTTATGTATGCCTAAATGATAGTTA
1 ATGTTTTGGTGTTATGTATGCCTAAATGATAGTTA
18216422 ATGTTTTGGTGTTATGTATGCCTAAATGATAGTTA
1 ATGTTTTGGTGTTATGTATGCCTAAATGATAGTTA
18216457 AT
1 AT
18216459 ACAAAGAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.46
Consensus pattern (35 bp):
ATGTTTTGGTGTTATGTATGCCTAAATGATAGTTA
Found at i:18234101 original size:50 final size:50
Alignment explanation
Indices: 18234008--18234114 Score: 117
Period size: 50 Copynumber: 2.1 Consensus size: 50
18233998 TTAGGGAAAC
* * * * * *
18234008 AAGATTCGCCGTCGTAGCTTCAATCTGTTCCATTACACCGCCAAGGA-AGT
1 AAGATTCACCGTCGCAGCTTCAATCTGCTCCACTACAACGCCAAAGAGA-T
* * *
18234058 AAGATTCACCGTTGCAGCTTCAATCTGCTCCACTATAATGCCAAAGAGAT
1 AAGATTCACCGTCGCAGCTTCAATCTGCTCCACTACAACGCCAAAGAGAT
18234108 AAGATTC
1 AAGATTC
18234115 GCTGCCTACA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 46 0.98
51 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
AAGATTCACCGTCGCAGCTTCAATCTGCTCCACTACAACGCCAAAGAGAT
Found at i:18234352 original size:44 final size:44
Alignment explanation
Indices: 18234286--18234661 Score: 439
Period size: 44 Copynumber: 8.7 Consensus size: 44
18234276 GCTATTTGCC
* * * *
18234286 ACCTACTCCACTACTG-CTCAGGGAGATAGGGTTCACGATCTTCA
1 ACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTCA
*
18234330 ACCTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATCTTCA
* * * *
18234374 ATCTATTCCAATGCT-ACCCAGGGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTGA-CCAGGGAGATAGGATTCACAATCTTCA
* *
18234418 ACCTATTCCACTGCTGACCAGGGAGATAGGATTTACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* * * *
18234462 ACCCATTCCACTACTGTCTAGGGAGATAGGATT--C--T-TT-A
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* * * *
18234500 ATCTATTCCACT-CTTGCCCAAGGAGATAGGATTCTCAATCTTCA
1 ACCTATTCCACTGC-TGACCAGGGAGATAGGATTCACAATCTTCA
* *
18234544 ACCTATTCCACTGCCGACCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* *
18234588 ACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
18234632 ACCTATTCCACTGCTGACCAGGGAGATAGG
1 ACCTATTCCACTGCTGACCAGGGAGATAGG
18234662 GTTGGGGTCA
Statistics
Matches: 285, Mismatches: 34, Indels: 26
0.83 0.10 0.08
Matches are distributed among these distances:
37 1 0.00
38 27 0.09
39 2 0.01
40 2 0.01
42 2 0.01
43 4 0.01
44 243 0.85
45 4 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
Found at i:18234508 original size:38 final size:38
Alignment explanation
Indices: 18234456--18234534 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
18234446 GGATTTACAA
* * *
18234456 TCTTTAACCCATTCCACTAC-TGTCTAGGGAGATAGGAT
1 TCTTTAACCCATTCCACT-CTTGCCCAAGGAGATAGGAT
* *
18234494 TCTTTAATCTATTCCACTCTTGCCCAAGGAGATAGGAT
1 TCTTTAACCCATTCCACTCTTGCCCAAGGAGATAGGAT
18234532 TCT
1 TCT
18234535 CAATCTTCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 1 0.03
38 34 0.97
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (38 bp):
TCTTTAACCCATTCCACTCTTGCCCAAGGAGATAGGAT
Found at i:18234527 original size:170 final size:170
Alignment explanation
Indices: 18234332--18234661 Score: 477
Period size: 170 Copynumber: 1.9 Consensus size: 170
18234322 GATCTTCAAC
* * *
18234332 CTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAATCTTCAATCTATTCCAATG-CTACCCAG
1 CTATTCCACTGCTGACCAAGGAGATAGGATCCT-CAATCTTCAACCTATTCCAATGCCGA-CCAG
* *
18234395 GGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTTACAATCTT
64 GGAGATAGAATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTT
* *
18234460 TAACCCATTCCACTACTGTCTAGGGAGATAGGATTCTTTAAT
129 TAACCCATTCCACTACTGACCAGGGAGATAGGATTCTTTAAT
* * *
18234502 CTATTCCACT-CTTGCCCAAGGAGATAGGATTCTCAATCTTCAACCTATTCCACTGCCGACCAGG
1 CTATTCCACTGC-TGACCAAGGAGATAGGATCCTCAATCTTCAACCTATTCCAATGCCGACCAGG
* * *
18234566 GAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTT
65 GAGATAGAATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* *
18234631 AACCTATTCCACTGCTGACCAGGGAGATAGG
130 AACCCATTCCACTACTGACCAGGGAGATAGG
18234662 GTTGGGGTCA
Statistics
Matches: 142, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
169 1 0.01
170 137 0.96
171 4 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (170 bp):
CTATTCCACTGCTGACCAAGGAGATAGGATCCTCAATCTTCAACCTATTCCAATGCCGACCAGGG
AGATAGAATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
ACCCATTCCACTACTGACCAGGGAGATAGGATTCTTTAAT
Found at i:18234554 original size:126 final size:126
Alignment explanation
Indices: 18234286--18234621 Score: 442
Period size: 126 Copynumber: 2.6 Consensus size: 126
18234276 GCTATTTGCC
* * * * * *
18234286 ACCTACTCCACTACTG-CTCAGGGAGATAGGGTTCACGATCTTCAACCTATTCCACTGCTGACCA
1 ACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCA
*
18234350 GGGAGATAGGACCTACAATCTTCAATCTATTCCAATGCTACCCAGGGAGATAGAATTCTCAATCT
65 GGGAGATAGGA--T----TCTTCAATCTATTCCAATGCTACCCAAGGAGATAGAATTCTCAATCT
18234415 TCA
124 TCA
* * * *
18234418 ACCTATTCCACTGCTGACCAGGGAGATAGGATTTACAATCTTTAACCCATTCCACTACTGTCTAG
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAG
* * * *
18234483 GGAGATAGGATTCTTTAATCTATTCCACT-CTTGCCCAAGGAGATAGGATTCTCAATCTTCA
66 GGAGATAGGATTCTTCAATCTATTCCAATGC-TACCCAAGGAGATAGAATTCTCAATCTTCA
*
18234544 ACCTATTCCACTGCCGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAG
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAG
18234609 GGAGATAGGATTC
66 GGAGATAGGATTC
18234622 ACAATCTTTA
Statistics
Matches: 182, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
125 1 0.01
126 116 0.64
130 1 0.01
132 63 0.35
133 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (126 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAG
GGAGATAGGATTCTTCAATCTATTCCAATGCTACCCAAGGAGATAGAATTCTCAATCTTCA
Found at i:18234741 original size:88 final size:88
Alignment explanation
Indices: 18234675--18235227 Score: 777
Period size: 88 Copynumber: 6.3 Consensus size: 88
18234665 GGGGTCATCA
** * * * *
18234675 ATCTGCTTCGCTGTCGGTGCAAGAAGGCAATATCTGCTATTTTTAACCTGCTCCGTTGCAACCCA
1 ATCTGCTTCATTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
*
18234740 GGAAGGCAAGGCTGGTGTCTTCG
66 GGGAGGCAAGGCTGGTGTCTTCG
* * * *
18234763 ATCTGCTTAATTGTCTGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTACTCTGCTGCAACCCA
1 ATCTGCTTCATTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
* *
18234828 GGTAGGCAAGGCTGGTGACTTCG
66 GGGAGGCAAGGCTGGTGTCTTCG
* *
18234851 ATCTGCTTCTTTGTCGGTGGAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
1 ATCTGCTTCATTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
*
18234916 GGGAGGCAAGGCTGGTGACTTCG
66 GGGAGGCAAGGCTGGTGTCTTCG
* * ** *
18234939 ATCTGTTTAATTGTTTGTGCAGGAAGGCAAGATCTGCTATTTTTAGCTTGCTCCGCTGCAACCCA
1 ATCTGCTTCATTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
18235004 GGGAGGCAAGGCTGGTGTCTT-G
66 GGGAGGCAAGGCTGGTGTCTTCG
* * * *
18235026 ATCTACTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCC-ATGCAACCCT
1 ATCTGCTTCATTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
*
18235090 GGGAGGCAAGGCTGGTGACTTCG
66 GGGAGGCAAGGCTGGTGTCTTCG
* * * * * * *
18235113 ATCTACTCCGTTGTCGGTGTAGGAAGGCAAGATCTACTATTTTTAGCCTGCTCCACTGCAACCTA
1 ATCTGCTTCATTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
18235178 GGGAGGCAAGGCTGGTGTCTTCG
66 GGGAGGCAAGGCTGGTGTCTTCG
* *
18235201 ATCTGCCTCACTGTCGGTGCAGGAAGG
1 ATCTGCTTCATTGTCGGTGCAGGAAGG
18235228 GAATATCTCT
Statistics
Matches: 413, Mismatches: 50, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
86 28 0.07
87 100 0.24
88 285 0.69
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (88 bp):
ATCTGCTTCATTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
GGGAGGCAAGGCTGGTGTCTTCG
Found at i:18235223 original size:262 final size:263
Alignment explanation
Indices: 18234675--18235227 Score: 822
Period size: 262 Copynumber: 2.1 Consensus size: 263
18234665 GGGGTCATCA
* * * *
18234675 ATCTGCTTCGCTGTCGGTGCAAGAAGGCAATATCTGCTATTTTTAACCTGCTCCGTTGCAACCCA
1 ATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
* *
18234740 GGAAGGCAAGGCTGGTGTCTTCGATCTGCTTAATTGTCTGTGCAGGAAGGCAAGATCTGCTATTT
66 GGAAGGCAAGGCTGGTGTCTTCGATCTACTTAATTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
* * * *
18234805 TTAGCCTACTCTGCTGCAACCCAGGTAGGCAAGGCTGGTGACTTCGATCTGCTTCTTTGTCGGTG
131 TTAGCCTACTC-GCTGCAACCCAGGGAGGCAAGGCTGGTGACTTCGATCTACTCCGTTGTCGGTG
* *
18234870 GAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGAC
195 GAGGAAGGCAAGATCTACTATTTTTAGCCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGAC
18234935 TTCG
260 TTCG
* * * ** * *
18234939 ATCTGTTTAATTGTTTGTGCAGGAAGGCAAGATCTGCTATTTTTAGCTTGCTCCGCTGCAACCCA
1 ATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
* **
18235004 GGGAGGCAAGGCTGGTGTCTT-GATCTACTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
66 GGAAGGCAAGGCTGGTGTCTTCGATCTACTTAATTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
* *
18235068 TTAGCCTGCTC-CATGCAACCCTGGGAGGCAAGGCTGGTGACTTCGATCTACTCCGTTGTCGGTG
131 TTAGCCTACTCGC-TGCAACCCAGGGAGGCAAGGCTGGTGACTTCGATCTACTCCGTTGTCGGTG
* * *
18235132 TAGGAAGGCAAGATCTACTATTTTTAGCCTGCTCCACTGCAACCTAGGGAGGCAAGGCTGGTGTC
195 GAGGAAGGCAAGATCTACTATTTTTAGCCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGAC
18235197 TTCG
260 TTCG
*
18235201 ATCTGCCTCACTGTCGGTGCAGGAAGG
1 ATCTGCTTCACTGTCGGTGCAGGAAGG
18235228 GAATATCTCT
Statistics
Matches: 255, Mismatches: 33, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
261 1 0.00
262 131 0.51
263 49 0.19
264 74 0.29
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (263 bp):
ATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
GGAAGGCAAGGCTGGTGTCTTCGATCTACTTAATTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
TTAGCCTACTCGCTGCAACCCAGGGAGGCAAGGCTGGTGACTTCGATCTACTCCGTTGTCGGTGG
AGGAAGGCAAGATCTACTATTTTTAGCCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGACT
TCG
Found at i:18236460 original size:16 final size:15
Alignment explanation
Indices: 18236410--18236460 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
18236400 TGGCCTCTCA
18236410 TTTTC-TTTTCTTTT
1 TTTTCTTTTTCTTTT
*
18236424 TTTGGCTTTTTCTTTCT
1 TTT-TCTTTTTCTTT-T
18236441 TTTTCTTTTTTCTTTT
1 TTTTC-TTTTTCTTTT
18236457 TTTT
1 TTTT
18236461 GAAATATTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 3 0.10
15 1 0.03
16 14 0.45
17 13 0.42
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTTCTTTT
Found at i:18242215 original size:19 final size:19
Alignment explanation
Indices: 18242191--18242228 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18242181 TTAGCATTAA
18242191 AATATTAATATTGATATTT
1 AATATTAATATTGATATTT
18242210 AATATTAATATTGATATTT
1 AATATTAATATTGATATTT
18242229 TCAATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
AATATTAATATTGATATTT
Found at i:18242307 original size:18 final size:18
Alignment explanation
Indices: 18242269--18242304 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18242259 TTATTATTTT
*
18242269 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
18242287 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
18242305 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:18243166 original size:16 final size:17
Alignment explanation
Indices: 18243141--18243173 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18243131 AAATAAAAAT
18243141 TCCTAAT-AAAACCTAA
1 TCCTAATAAAAACCTAA
*
18243157 TCCTATTAAAAACCTAA
1 TCCTAATAAAAACCTAA
18243174 GAGCGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (17 bp):
TCCTAATAAAAACCTAA
Found at i:18243620 original size:3 final size:3
Alignment explanation
Indices: 18243612--18243661 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
18243602 GGTCTCTTTT
* *
18243612 TTC TTC TTC TTT TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
18243660 TT
1 TT
18243662 TTTCAGAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:18244423 original size:25 final size:25
Alignment explanation
Indices: 18244365--18244418 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
18244355 TAATTAGTAT
* *
18244365 AAAATATT-AATAATTCAATAATTTG
1 AAAA-ATTAAATAATTAAATAAATTG
18244390 AAAAATTAAATAATTAAATAAAATTG
1 AAAAATTAAATAATTAAAT-AAATTG
18244416 AAA
1 AAA
18244419 TTTAAGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 14 0.56
26 8 0.32
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (25 bp):
AAAAATTAAATAATTAAATAAATTG
Found at i:18247175 original size:49 final size:50
Alignment explanation
Indices: 18247108--18247224 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 50
18247098 CAAAGCTATG
* * * * *
18247108 TCCCTGACATAGTCTTACATGGGATGTT-TCTTGTA-CTGCCAATGCCATA
1 TCCCAGACATGGTCTTACATGAGA-GTTCTCATATAGCTGCCAATGCCATA
* * * *
18247157 TCCCAGATATGGTCTTACATGAGAGTTCTCATATAGTTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTGCCAATGCCATA
18247207 TCCCAGACATGGTCTTAC
1 TCCCAGACATGGTCTTAC
18247225 GGGTGACATG
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
48 3 0.05
49 25 0.45
50 28 0.50
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTGCCAATGCCATA
Found at i:18247329 original size:50 final size:50
Alignment explanation
Indices: 18247254--18247517 Score: 429
Period size: 50 Copynumber: 5.2 Consensus size: 50
18247244 ATATAACTAA
*
18247254 GGACCTCTCATCTTGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
18247304 GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
*
18247354 GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTTACATG
1 GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
18247404 GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
* * *
18247454 AGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 GGACCTCTC---ATCTC---GGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
18247510 GGACCTCT
1 GGACCTCT
18247518 TTACTCAAAT
Statistics
Matches: 201, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
50 155 0.77
53 5 0.02
56 41 0.20
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (50 bp):
GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
Found at i:18256706 original size:45 final size:45
Alignment explanation
Indices: 18256616--18256706 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 45
18256606 AAAAACGAAA
* * * *
18256616 CCATTTCATACCAAAACTTATACCATTTCGTACTTACACCAAAAC
1 CCATTTCATACCAAAACCTATACCATTCCCTACTTAAACCAAAAC
* * *
18256661 CCATTTCGTGCCAAAACCTATACCATTCCCTAAC-TAAACCTAAAC
1 CCATTTCATACCAAAACCTATACCATTCCCT-ACTTAAACCAAAAC
18256706 C
1 C
18256707 AGATTCGATC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
45 36 0.95
46 2 0.05
ACGTcount: A:0.36, C:0.34, G:0.03, T:0.26
Consensus pattern (45 bp):
CCATTTCATACCAAAACCTATACCATTCCCTACTTAAACCAAAAC
Found at i:18257043 original size:19 final size:18
Alignment explanation
Indices: 18257002--18257046 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
18256992 ATTAAACGAA
* *
18257002 ATAAAAAAATTTTGTGAT
1 ATAAAAAAATTTCGAGAT
18257020 ATAAAAAAATATTCGAGAT
1 ATAAAAAAAT-TTCGAGAT
*
18257039 TTAAAAAA
1 ATAAAAAA
18257047 TATGATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (18 bp):
ATAAAAAAATTTCGAGAT
Found at i:18259174 original size:16 final size:16
Alignment explanation
Indices: 18259138--18259193 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 16
18259128 ATTGTAAAAG
*
18259138 AAAATGAAAACAGAGTGA
1 AAAAAGAAAACA-A-TGA
18259156 AAAAAGAAAACAATG-
1 AAAAAGAAAACAATGA
*
18259171 AAAAAGATAAAGAATGTA
1 AAAAAGA-AAACAATG-A
18259189 AAAAA
1 AAAAA
18259194 TTGAGTGTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 7 0.21
16 9 0.27
17 1 0.03
18 16 0.48
ACGTcount: A:0.70, C:0.04, G:0.16, T:0.11
Consensus pattern (16 bp):
AAAAAGAAAACAATGA
Found at i:18263380 original size:22 final size:22
Alignment explanation
Indices: 18263354--18263400 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
18263344 TCATTTTTTT
18263354 TACCAAAAAC-CAAACCATTTCG
1 TACC-AAAACTCAAACCATTTCG
* *
18263376 TACCAAAACTTATACCATTTCG
1 TACCAAAACTCAAACCATTTCG
18263398 TAC
1 TAC
18263401 TTGCACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.40, C:0.30, G:0.04, T:0.26
Consensus pattern (22 bp):
TACCAAAACTCAAACCATTTCG
Found at i:18266268 original size:3 final size:3
Alignment explanation
Indices: 18266260--18266297 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
18266250 TTGTCCTTCT
18266260 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18266298 CCCTCAACCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18267366 original size:32 final size:32
Alignment explanation
Indices: 18267311--18267452 Score: 153
Period size: 32 Copynumber: 4.5 Consensus size: 32
18267301 GAATGCCTAC
* *
18267311 AAGCCATAAGT-ACAGTAATATGATTGACACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
* **
18267342 AAGCCATCAGTAGCAGCGATATGATCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
* * * *
18267374 CAGGCATCAGTAACGGTAATATGATTGGA-ACA
1 AAGCCATCAGTAACAGTAATATGA-TCGACACA
* *
18267406 AAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
*
18267438 AAGCCATCAATAACA
1 AAGCCATCAGTAACA
18267453 TCGCAGCAAA
Statistics
Matches: 90, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
31 12 0.13
32 75 0.83
33 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGACACA
Found at i:18267636 original size:24 final size:24
Alignment explanation
Indices: 18267609--18267657 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
18267599 AGTCATACAA
*
18267609 ATCACAGAAAAATCAGTCATTTAC
1 ATCACAGAAAAATCAATCATTTAC
* **
18267633 ATCACGGGCAAATCAATCATTTAC
1 ATCACAGAAAAATCAATCATTTAC
18267657 A
1 A
18267658 CTCGAGGGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.24
Consensus pattern (24 bp):
ATCACAGAAAAATCAATCATTTAC
Found at i:18267681 original size:26 final size:26
Alignment explanation
Indices: 18267615--18267692 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 26
18267605 ACAAATCACA
*
18267615 GAAAAATCAGTCATTTACA-TCACGG
1 GAAAAATCAGTCATTTACACTCAGGG
* *
18267640 G-CAAATCAATCATTTACACTCGAGGG
1 GAAAAATCAGTCATTTACACTC-AGGG
*
18267666 GAAAAAT-AGTCATTTACCCTCTAGGG
1 GAAAAATCAGTCATTTACACTC-AGGG
18267692 G
1 G
18267693 CATTACAGTC
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
24 15 0.35
25 3 0.07
26 21 0.49
27 4 0.09
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (26 bp):
GAAAAATCAGTCATTTACACTCAGGG
Found at i:18267805 original size:54 final size:53
Alignment explanation
Indices: 18267678--18267874 Score: 189
Period size: 54 Copynumber: 3.7 Consensus size: 53
18267668 AAAATAGTCA
* * ***
18267678 TTTACCCTCTAGGGGCATTAC-AGTCATTTTACCCTACAGGGCATTATAGTTAT
1 TTTACCCTATAGGGGCATTACGA-TCATTTTACCCTACAGGGCATTACAACCAT
* * * *
18267731 TGTACCCTATAAGGGAATTACGATCATTTTACCTTACAGGGGCATTACAACCAT
1 TTTACCCTATAGGGGCATTACGATCATTTTACCCTACA-GGGCATTACAACCAT
* * * ***
18267785 TTTACCCAATAGGGGCATTACGATCATTTTACCCTATGAGGGTATTACGGTCAT
1 TTTACCCTATAGGGGCATTACGATCATTTTACCCTA-CAGGGCATTACAACCAT
* * * *
18267839 TTTACCCTATGGGGGTATTACGGTTATTTTACCCTA
1 TTTACCCTATAGGGGCATTACGATCATTTTACCCTA
18267875 TGGGGGTATT
Statistics
Matches: 117, Mismatches: 24, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
53 31 0.26
54 85 0.73
55 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (53 bp):
TTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGCATTACAACCAT
Found at i:18267840 original size:81 final size:81
Alignment explanation
Indices: 18267678--18267898 Score: 232
Period size: 81 Copynumber: 2.7 Consensus size: 81
18267668 AAAATAGTCA
* * * *
18267678 TTTACCCT-CTAGGGGCATTACAGTCATTTTACCCTACA-GGGCATTA-TAGTTATTGTACCCTA
1 TTTACCCTAC-AGGGGCATTACAGTCATTTTACCCTATAGGGGCATTACGA-TCATTATACCCTA
18267740 TAAGGGAATTACGATCAT
64 TAAGGGAATTACGATCAT
* ** * * *
18267758 TTTACCTTACAGGGGCATTACAACCATTTTACCCAATAGGGGCATTACGATCATTTTACCCTATG
1 TTTACCCTACAGGGGCATTACAGTCATTTTACCCTATAGGGGCATTACGATCATTATACCCTATA
* *
18267823 AGGGTATTACGGTCAT
66 AGGGAATTACGATCAT
** * * * * *
18267839 TTTACCCTATGGGGGTATTACGGTTATTTTACCCTATGGGGGTATTACGATCATTATACC
1 TTTACCCTACAGGGGCATTACAGTCATTTTACCCTATAGGGGCATTACGATCATTATACC
18267899 TATTTTATGG
Statistics
Matches: 115, Mismatches: 23, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
80 31 0.27
81 83 0.72
82 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (81 bp):
TTTACCCTACAGGGGCATTACAGTCATTTTACCCTATAGGGGCATTACGATCATTATACCCTATA
AGGGAATTACGATCAT
Done.