Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 80 of 189
Found at i:22239367 original size:76 final size:77
Alignment explanation
Indices: 22239229--22239387 Score: 205
Period size: 76 Copynumber: 2.1 Consensus size: 77
22239219 AAACCGCCAT
* * * *
22239229 TAATGCCGCTAAAGCTCAACAAAAAAAATGACATCGTTTTGCTCAACTTTTTTATGGTGTTTTCC
1 TAATGCCGCCAAAGCTCAACAAAAAAAATGACATCGTTTTGCTCAAATTTTTTACGGCGTTTTCC
22239294 AAAAAGCGCCGC
66 AAAAAGCGCCGC
* * * *
22239306 TAATGCCGCCAAAGCTC-ACCAAGAGAATGACGAT-GTTTTGCTCAAATTTTTTGCGGCGTTTTC
1 TAATGCCGCCAAAGCTCAACAAAAAAAATGAC-ATCGTTTTGCTCAAATTTTTTACGGCGTTTTC
* *
22239369 CAAGACGCGCCGC
65 CAAAAAGCGCCGC
22239382 TAATGC
1 TAATGC
22239388 TTGACCTATA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
76 53 0.75
77 18 0.25
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (77 bp):
TAATGCCGCCAAAGCTCAACAAAAAAAATGACATCGTTTTGCTCAAATTTTTTACGGCGTTTTCC
AAAAAGCGCCGC
Found at i:22240824 original size:6 final size:6
Alignment explanation
Indices: 22240813--22240842 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
22240803 TTTGATAGAT
22240813 TTAATA TTAATA TTAATA TTAATA TTAATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA
22240843 CTTATCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:22240958 original size:21 final size:23
Alignment explanation
Indices: 22240934--22240976 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
22240924 ATAAATATTC
22240934 TATT-AATTAA-ATAAGATTTAA
1 TATTAAATTAATATAAGATTTAA
*
22240955 TATTAAATTAATATAATATTTA
1 TATTAAATTAATATAAGATTTA
22240977 TCAAGTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTAAATTAATATAAGATTTAA
Found at i:22245960 original size:23 final size:23
Alignment explanation
Indices: 22245930--22245975 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
22245920 CAACCAATTT
22245930 CTAGCTATGAACTAGTTATAGTC
1 CTAGCTATGAACTAGTTATAGTC
22245953 CTAGCTATGAACTAGTTATAGTC
1 CTAGCTATGAACTAGTTATAGTC
22245976 TTTTTGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (23 bp):
CTAGCTATGAACTAGTTATAGTC
Found at i:22246324 original size:4 final size:4
Alignment explanation
Indices: 22246315--22246342 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
22246305 TATGCATTGA
22246315 CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT
22246343 TTTAATGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:22253186 original size:19 final size:20
Alignment explanation
Indices: 22253146--22253190 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
22253136 ATCAACCTTT
22253146 AATCAAGTTAAAATGGTTTC
1 AATCAAGTTAAAATGGTTTC
* *
22253166 AATCAAGTTAGAAT-TTTTC
1 AATCAAGTTAAAATGGTTTC
22253185 AATCAA
1 AATCAA
22253191 AATTAAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (20 bp):
AATCAAGTTAAAATGGTTTC
Found at i:22253990 original size:20 final size:20
Alignment explanation
Indices: 22253965--22254004 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
22253955 ACTTTAAATT
22253965 CAAGTTAAAATAATTTTAAC
1 CAAGTTAAAATAATTTTAAC
*
22253985 CAAGTTAAAATGATTTTAAC
1 CAAGTTAAAATAATTTTAAC
22254005 AAATCAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (20 bp):
CAAGTTAAAATAATTTTAAC
Found at i:22255495 original size:15 final size:17
Alignment explanation
Indices: 22255475--22255511 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
22255465 TATAAAATCA
22255475 ATAATATA-ATATAA-T
1 ATAATATATATATAATT
*
22255490 ATAATATATTTATAATT
1 ATAATATATATATAATT
22255507 ATAAT
1 ATAAT
22255512 TATTTTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATATATATATAATT
Found at i:22260881 original size:30 final size:30
Alignment explanation
Indices: 22260846--22260909 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
22260836 GGCTCGATCA
*
22260846 AAATTTAATTTAAAATAT-AAAAATATTTTT
1 AAATTTAAATTAAAATATAAAAAATA-TTTT
* *
22260876 AAATTTAAATTGAATTATAAAAAATATTTT
1 AAATTTAAATTAAAATATAAAAAATATTTT
22260906 AAAT
1 AAAT
22260910 ATTTTATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 23 0.77
31 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (30 bp):
AAATTTAAATTAAAATATAAAAAATATTTT
Found at i:22263081 original size:20 final size:19
Alignment explanation
Indices: 22263051--22263088 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
22263041 TATTATCCAT
*
22263051 ATAGAATGTTGTTATATAA
1 ATAGAATGTTGGTATATAA
22263070 ATAGATATGTTGGTATATA
1 ATAGA-ATGTTGGTATATA
22263089 TTATAGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (19 bp):
ATAGAATGTTGGTATATAA
Found at i:22263133 original size:58 final size:58
Alignment explanation
Indices: 22263013--22263144 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 58
22263003 TGGAAGATGT
* * * *
22263013 TAGATATGTTGCTATATATTATAAATTTTATTATCCATATAGAATGTTGTTATATAAA
1 TAGATATGTTGCTATATATTATAAATTTTAGTATCCATATAAAATATTGTCATATAAA
* * *** * *
22263071 TAGATATGTTGGTATATATTATAGATTTTAGTATTTGTATAAAATATTGTCATTTAAG
1 TAGATATGTTGCTATATATTATAAATTTTAGTATCCATATAAAATATTGTCATATAAA
*
22263129 TAGATATGTTGTTATA
1 TAGATATGTTGCTATA
22263145 ATAAGATTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.48
Consensus pattern (58 bp):
TAGATATGTTGCTATATATTATAAATTTTAGTATCCATATAAAATATTGTCATATAAA
Found at i:22263352 original size:43 final size:39
Alignment explanation
Indices: 22263302--22263403 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 39
22263292 TATTGAAATT
* *
22263302 CCAACTTTGTAACTAAATACT-TTGTAATTGTGCGTAGGTGTAC
1 CCAACTTTGTAACCAAATACTATT-T-A-TATGCG-A-GTGTAC
*
22263345 CCAACTTTATAACCAAATACTCATTTATATGCGAGTGTAC
1 CCAACTTTGTAACCAAATACT-ATTTATATGCGAGTGTAC
22263385 CCAACTTTGTAACCAAATA
1 CCAACTTTGTAACCAAATA
22263404 GTAAAATTTC
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
40 24 0.45
41 1 0.02
42 5 0.09
43 20 0.38
44 1 0.02
45 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (39 bp):
CCAACTTTGTAACCAAATACTATTTATATGCGAGTGTAC
Found at i:22263479 original size:39 final size:38
Alignment explanation
Indices: 22263383--22263480 Score: 117
Period size: 38 Copynumber: 2.6 Consensus size: 38
22263373 ATGCGAGTGT
22263383 ACCCAACTTTGTAACCAAATAGTAAAATTTCTACTGAA
1 ACCCAACTTTGTAACCAAATAGTAAAATTTCTACTGAA
** * *
22263421 ATTCAACTTTGTAACCAAATATTAAAA-TTCTTATTGAAA
1 ACCCAACTTTGTAACCAAATAGTAAAATTTC-TACTG-AA
* *
22263460 ACCCAATTTTGTAATCAAATA
1 ACCCAACTTTGTAACCAAATA
22263481 CTTTGTAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
37 3 0.06
38 28 0.56
39 19 0.38
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (38 bp):
ACCCAACTTTGTAACCAAATAGTAAAATTTCTACTGAA
Found at i:22264120 original size:80 final size:81
Alignment explanation
Indices: 22264010--22264209 Score: 267
Period size: 80 Copynumber: 2.5 Consensus size: 81
22264000 CAAAGTTAAG
* * *
22264010 TTTCCAATAGAAATTTTAGTTTTTGGTTACAAAGTTGGACACAGTCACACACAATTACAAAGTAT
1 TTTCCAATA-AAAATTTAGTTTTTCGTTACAAAGTTGGACACACTCACACACAATTACAAAGTAT
** *
22264075 TTGGTTACAAACTT-GA
65 TTAATTACAAAATTGGA
* *
22264091 TTTCCAATAAAAATTTAGTTTTTCGTTACAAAGTTGGATACACTCACGCACAATTACAAAGTATT
1 TTTCCAATAAAAATTTAGTTTTTCGTTACAAAGTTGGACACACTCACACACAATTACAAAGTATT
22264156 TAATTACAAAATTGGA
66 TAATTACAAAATTGGA
* * * *
22264172 TCTCCAATAGAAACTTAGTTTTTTTGTTACAAAGTTGG
1 TTTCCAATAAAAATTTAG-TTTTTCGTTACAAAGTTGG
22264210 CTTTCCAATA
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
80 61 0.58
81 26 0.25
82 18 0.17
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (81 bp):
TTTCCAATAAAAATTTAGTTTTTCGTTACAAAGTTGGACACACTCACACACAATTACAAAGTATT
TAATTACAAAATTGGA
Found at i:22264325 original size:21 final size:21
Alignment explanation
Indices: 22264299--22264341 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
22264289 GGTTCGCTGT
*
22264299 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
22264320 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
22264341 A
1 A
22264342 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:22264341 original size:16 final size:16
Alignment explanation
Indices: 22264322--22264354 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
22264312 TGTATTGGAT
*
22264322 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
22264338 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
22264354 T
1 T
22264355 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:22264399 original size:45 final size:44
Alignment explanation
Indices: 22264333--22264427 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
22264323 GGATTAGAGG
* *
22264333 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
22264378 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
22264422 TGTAAT
1 TGTAAT
22264428 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:22264610 original size:18 final size:17
Alignment explanation
Indices: 22264589--22264623 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22264579 TTATTATTTA
*
22264589 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
22264607 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22264624 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22264617 original size:28 final size:27
Alignment explanation
Indices: 22264547--22264619 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
22264537 TTTATTATCA
*
22264547 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
22264575 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
22264602 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
22264620 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:22264811 original size:18 final size:17
Alignment explanation
Indices: 22264790--22264824 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22264780 TTATTATTTA
*
22264790 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
22264808 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22264825 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22264818 original size:28 final size:27
Alignment explanation
Indices: 22264747--22264820 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
22264737 TATTTATTAT
*
22264747 CAAAATAAATAATTTAATCATATTTAAA
1 CAAAATATATAATTTAAT-ATATTTAAA
* * *
22264775 CATAAT-TATTATTTAATATATTTTAAT
1 CAAAATATATAATTTAATATA-TTTAAA
*
22264802 TAAAATATATAATTTAATA
1 CAAAATATATAATTTAATA
22264821 AAATTCTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.08
27 18 0.49
28 16 0.43
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (27 bp):
CAAAATATATAATTTAATATATTTAAA
Found at i:22264823 original size:201 final size:202
Alignment explanation
Indices: 22264477--22264881 Score: 803
Period size: 201 Copynumber: 2.0 Consensus size: 202
22264467 GAATACCCTT
22264477 AGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTTAT
1 AGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTTAT
22264542 TATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTATTTAATATATTTTAATTAAAAT
66 TATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTATTTAATATATTTTAATTAAAAT
22264607 ATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAAATTATTTTATTTAAAT
131 ATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAAATTATTTTATTTAAAT
22264672 TTTAATA
196 TTTAATA
22264679 AGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTTAT
1 AGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTTAT
22264744 TATC-AAAATAAATAATTTAATCATATTTAAACATAATTATTATTTAATATATTTTAATTAAAAT
66 TATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTATTTAATATATTTTAATTAAAAT
22264808 ATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAAATTATTTTATTTAAAT
131 ATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAAATTATTTTATTTAAAT
22264873 TTTAATA
196 TTTAATA
22264880 AG
1 AG
22264882 ATTAATATCA
Statistics
Matches: 203, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
201 134 0.66
202 69 0.34
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (202 bp):
AGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTTAT
TATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTATTTAATATATTTTAATTAAAAT
ATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAAATTATTTTATTTAAAT
TTTAATA
Found at i:22264919 original size:144 final size:146
Alignment explanation
Indices: 22264710--22264980 Score: 476
Period size: 144 Copynumber: 1.9 Consensus size: 146
22264700 ATGATTATTG
22264710 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAATAAATAATTTAATCATATTTAAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAATAAATAATTTAATCATATTTAAA
*
22264775 CATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCA
64 CATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCA
22264840 GAAATTTGTTTTGGTAAA
129 GAAATTTGTTTTGGTAAA
*
22264858 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATGATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAA-AATAAATAATTTAATCATATTTAAAC
22264920 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
65 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
22264981 ATATTCTTAT
Statistics
Matches: 120, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
143 6 0.05
144 86 0.72
147 23 0.19
148 5 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (146 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAATAAATAATTTAATCATATTTAAACA
TAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGA
AATTTGTTTTGGTAAA
Found at i:22264955 original size:18 final size:17
Alignment explanation
Indices: 22264934--22264968 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22264924 TTATTATTAA
*
22264934 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
22264952 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22264969 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22265055 original size:129 final size:130
Alignment explanation
Indices: 22264917--22265150 Score: 425
Period size: 129 Copynumber: 1.8 Consensus size: 130
22264907 ATCATATTTA
* *
22264917 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
22264982 TATTCTTATATGAATTTACTCAAACCATAAT-TATTATTAAATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATTAAATATGATACTGTAAAATATAAAAT
22265046 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
22265111 TATTCTTATATGAATTTACTCAAATCATAATATATGATTA
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATTA
22265151 TAACTAATAT
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
129 93 0.93
130 7 0.07
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (130 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATTAAATATGATACTGTAAAATATAAAAT
Found at i:22265084 original size:18 final size:17
Alignment explanation
Indices: 22265063--22265097 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22265053 TTATTATTAA
22265063 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
22265081 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
22265098 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:22265160 original size:17 final size:16
Alignment explanation
Indices: 22265138--22265184 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
22265128 ACTCAAATCA
22265138 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
22265155 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
22265169 TAAATATATGATTTAA
1 T-AATATATGATTTAA
22265185 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:22265185 original size:17 final size:17
Alignment explanation
Indices: 22265157--22265190 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22265147 ATTATAACTA
*
22265157 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
22265174 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
22265191 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:22265333 original size:93 final size:91
Alignment explanation
Indices: 22265223--22265416 Score: 284
Period size: 92 Copynumber: 2.1 Consensus size: 91
22265213 GATTATAGTT
* *
22265223 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTA-ATATAATTAT-ATAATAATATATAATTTC
* *
22265286 ATAAAATTCTTGATAATAAAAATTTTCTTA
63 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
22265316 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAGTGATATATAATTTCATA
1 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
22265381 AAATTCTTAATAATAAAATGTTCTTA
66 AAATTCTTAATAATAAAATGTTCTTA
22265407 TATGAATTTA
1 TATGAATTTA
22265417 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 21 0.23
92 40 0.43
93 29 0.31
94 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
AAATTCTTAATAATAAAATGTTCTTA
Found at i:22266827 original size:11 final size:11
Alignment explanation
Indices: 22266813--22266839 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
22266803 AAAAATCAAT
22266813 ACAAAAGTTTC
1 ACAAAAGTTTC
22266824 ACAAAAGTTTC
1 ACAAAAGTTTC
22266835 ACAAA
1 ACAAA
22266840 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:22273793 original size:13 final size:13
Alignment explanation
Indices: 22273775--22273801 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22273765 ATAGGTGATA
22273775 TGTGTGAAAATTT
1 TGTGTGAAAATTT
22273788 TGTGTGAAAATTT
1 TGTGTGAAAATTT
22273801 T
1 T
22273802 ATCGTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:22277657 original size:41 final size:42
Alignment explanation
Indices: 22277598--22277727 Score: 160
Period size: 41 Copynumber: 3.2 Consensus size: 42
22277588 CTGATACGCT
** * *
22277598 TATAGTCTAATTCCGTTCACCGGCACTTAGCCTGCTAGG-CT
1 TATAGTCCGATTCAGTTCACCGGCACTTAGCCTGCTAGGACG
* *
22277639 TGTAG-CCTGATTTAGTTCACCGGCACTTAGCCTGCT-GGACG
1 TATAGTCC-GATTCAGTTCACCGGCACTTAGCCTGCTAGGACG
*
22277680 TATAGTCCGATTCAATTCACCGGCACTTAGCCTGCTA-GACG
1 TATAGTCCGATTCAGTTCACCGGCACTTAGCCTGCTAGGACG
22277721 TATAGTC
1 TATAGTC
22277728 TGAACAATTT
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
40 3 0.04
41 71 0.93
42 2 0.03
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.30
Consensus pattern (42 bp):
TATAGTCCGATTCAGTTCACCGGCACTTAGCCTGCTAGGACG
Found at i:22277740 original size:41 final size:40
Alignment explanation
Indices: 22277613--22277745 Score: 149
Period size: 41 Copynumber: 3.2 Consensus size: 40
22277603 TCTAATTCCG
* * * * * *
22277613 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTTAG
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGA-TCAA
* *
22277654 TTCACCGGCACTTAGCCTGCTGGACGTATAGTCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGA-TCAA
*
22277695 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGAACAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGATCAA
*
22277735 TTTCACTGGCA
1 -TTCACCGGCA
22277746 ATAAATCCGA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 3 0.04
41 76 0.96
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.29
Consensus pattern (40 bp):
TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGATCAA
Found at i:22285722 original size:22 final size:22
Alignment explanation
Indices: 22285697--22285743 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
22285687 GCAACGAAAG
22285697 TAAGATTATTAAATATAAATAA
1 TAAGATTATTAAATATAAATAA
22285719 TAAGATTATTAAATATAAATAA
1 TAAGATTATTAAATATAAATAA
22285741 TAA
1 TAA
22285744 TGAAAATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
TAAGATTATTAAATATAAATAA
Found at i:22286209 original size:16 final size:16
Alignment explanation
Indices: 22286185--22286215 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22286175 TATGTACCAA
*
22286185 AAATTTAAATAAATAT
1 AAATATAAATAAATAT
22286201 AAATATAAATAAATA
1 AAATATAAATAAATA
22286216 GATAACAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATAAATAAATAT
Found at i:22287876 original size:46 final size:46
Alignment explanation
Indices: 22287843--22288137 Score: 135
Period size: 46 Copynumber: 6.4 Consensus size: 46
22287833 ATCTGCTTCG
22287843 CTGCCAAATACAGGAAGATAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGATAAGATCTGCAATCTTCAATCTATTCCA
* * * ** * *
22287889 CTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCA
1 CTGCCAAATACAGGAAGATA-AGATCTGCAATCTTCAATCTATTCCA
* * * * *
22287934 CTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGATAAGATCTG-CA------ATCTTCAATCTATTCCA
* * * ** * *
22287984 CTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCA
1 CTGCCAAATACAGGAAGATA-AGATCTGCAATCTTCAATCTATTCCA
* * * * * * * * *
22288029 CTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTT-CG
1 CTGCCAAATACAGGAAGATAAGATCTGCAATCTTCAATCT-ATTCCA
**
22288072 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGATAAGATCTGCAATCTTCAATCTATTCCA
* *
22288118 CTGCTAAATACAGGGAGATA
1 CTGCCAAATACAGGAAGATA
22288138 GAGTTATCGG
Statistics
Matches: 175, Mismatches: 53, Indels: 42
0.65 0.20 0.16
Matches are distributed among these distances:
41 6 0.03
42 19 0.11
43 16 0.09
44 1 0.01
45 36 0.21
46 62 0.35
47 4 0.02
50 16 0.09
52 3 0.02
53 9 0.05
54 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGATAAGATCTGCAATCTTCAATCTATTCCA
Found at i:22287964 original size:134 final size:133
Alignment explanation
Indices: 22287724--22287970 Score: 352
Period size: 134 Copynumber: 1.8 Consensus size: 133
22287714 CTGCTTAGGG
* * *** *
22287724 AGATAAGATCTGTAATCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAATTACCAGCTTCAA
1 AGATAAGATCTGCAATCTTCAATCTATTCCACTGAAACACAGGGAGATAGAATTACCAGCTTCAA
* *
22287789 TGTACTCTACTGTAGTCACAGGGCGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATAC
66 TGTACTCCACTGTAGT-ACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATAC
22287854 AGGA
130 AGGA
* * * *
22287858 AGATAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
1 AGATAAGATCTGCAATCTTCAATCTATTCCACTG--AAACACAGGGAGATAGAATTACCAGCTTC
22287923 AATGTACTCCACTGTAGT-CAGGGAGGTAAAATCTGCCATCTTCGATCT
64 AATGTACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTCGATCT
22287971 TCAATCTATT
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
134 61 0.62
136 38 0.38
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (133 bp):
AGATAAGATCTGCAATCTTCAATCTATTCCACTGAAACACAGGGAGATAGAATTACCAGCTTCAA
TGTACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACA
GGA
Found at i:22287984 original size:95 final size:95
Alignment explanation
Indices: 22287872--22288065 Score: 388
Period size: 95 Copynumber: 2.0 Consensus size: 95
22287862 AAGATCTGCA
22287872 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
22287937 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
22287967 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
22288032 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
22288062 ATCT
1 ATCT
22288066 GCTTCGCTGC
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 99 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCG
Found at i:22288132 original size:134 final size:134
Alignment explanation
Indices: 22287967--22288240 Score: 530
Period size: 134 Copynumber: 2.0 Consensus size: 134
22287957 GCCATCTTCG
22287967 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
22288032 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
*
22288097 TGCA
131 TACA
*
22288101 ATCTTCAATCTATTCCACTGCTAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
22288166 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
22288231 TACA
131 TACA
22288235 ATCTTC
1 ATCTTC
22288241 GATCCACTTC
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 138 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TACA
Found at i:22288146 original size:229 final size:230
Alignment explanation
Indices: 22287763--22288199 Score: 786
Period size: 229 Copynumber: 1.9 Consensus size: 230
22287753 CACTGTTGCC
* *
22287763 CAGGGAGATAGAATTACCAGCTTCAATGTACTCTACTGTAGTCACAGGGCGGTAAAATCTGCCAT
1 CAGGGAGATAGAATTACCAGCTTCAATGTACTCCACTGTAGT-ACAGGGAGGTAAAATCTGCCAT
*
22287828 CTTCGATCTGCTTCGCTGCCAAATACAGGAAGATAAGATCTGCAATCTTCAATCTATTCCACTGC
65 CTTCGATCTGCTTCGCTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCACTGC
22287893 CAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTG
130 CAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTG
22287958 CCATCTTCGATCTTCAATCTATTCCACTGCCAAATA
195 CCATCTTCGATCTTCAATCTATTCCACTGCCAAATA
* * *
22287994 CAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT-CAGGGAGGTAAAATCTGCCATC
1 CAGGGAGATAGAATTACCAGCTTCAATGTACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATC
* *
22288058 TTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCT
66 TTCGATCTGCTTCGCTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCACTGCC
22288123 AAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGC
131 AAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGC
22288188 CATCTTCGATCT
196 CATCTTCGATCT
22288200 GCTTCGCTGC
Statistics
Matches: 198, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
229 160 0.81
231 38 0.19
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (230 bp):
CAGGGAGATAGAATTACCAGCTTCAATGTACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATC
TTCGATCTGCTTCGCTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCACTGCC
AAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGC
CATCTTCGATCTTCAATCTATTCCACTGCCAAATA
Found at i:22288304 original size:88 final size:89
Alignment explanation
Indices: 22288182--22288762 Score: 511
Period size: 88 Copynumber: 6.6 Consensus size: 89
22288172 GGGAGGTAAA
* * * * * * *
22288182 ATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCGATCCA
1 ATCTGCTATCTTCGATCTACTTCAC-GCC-AATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* *
22288247 CTTC-CTACCAATATAGGAAGATAGG
64 CTTCACTACCAATATAGGAAGACAAG
* * * *
22288272 ACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGGTCTACT
1 ATCTGCTATCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACT
* * *
22288337 TCGCCACCAATATGGGAAGACAAG
66 TCACTACCAATATAGGAAGACAAG
* * * * * * *
22288361 ATCTG-TATCATCGATCCACTTC-CTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTAC
1 ATCTGCTATCTTCGATCTACTTCAC-GCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * *
22288424 TTCAC-GCCAATACATGAAGACAAG
65 TTCACTACCAATATAGGAAGACAAG
* * * * *
22288448 ATCTGATTTCTTCGATCTACTTCGCCACCAATA-TGGAAAGACAAGATCTGC-ATCTTCGATCTA
1 ATCTGCTATCTTCGATCTACTTC-ACGCCAATACAGG-AAGACAAGATCTGCTATCTTCGATCTA
* * * *
22288511 CTTCAC-GCCAATACATGAAGATAAG
64 CTTCACTACCAATATAGGAAGACAAG
* * * * * * ** *
22288536 ATCTACTTTTTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCGTT-GATCCA
1 ATCTGCTATCTTCGATCTACTTC-ACGCCAATACAGGAAGACAAGATCTGCTATC-TTCGATCTA
*
22288599 CTTC-CTACCAATATAGGAAGACAGG
64 CTTCACTACCAATATAGGAAGACAAG
* * * * * *
22288624 ACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACT
1 ATCTGCTATCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACT
* *
22288689 TC-CTACCAATATAGGAAGATAGG
66 TCACTACCAATATAGGAAGACAAG
* *
22288712 ATCTGCT-TCCTTCGATCTACTTCACGCCAATACATGAAGGCAAGATCTGCT
1 ATCTGCTAT-CTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCT
22288763 TTAATGACTT
Statistics
Matches: 410, Mismatches: 69, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
87 46 0.11
88 295 0.72
89 47 0.11
90 22 0.05
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (89 bp):
ATCTGCTATCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACT
TCACTACCAATATAGGAAGACAAG
Found at i:22288388 original size:132 final size:132
Alignment explanation
Indices: 22288224--22288558 Score: 483
Period size: 132 Copynumber: 2.5 Consensus size: 132
22288214 TACAGGAAGG
* * * *
22288224 CAAGATCTACAATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATC
1 CAAGATCTGC-ATCATCGATCCACTTCCTACCAATATAGGAAGATAAGACCTACTATCTTCGATC
* * *
22288289 TACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGGTCTACTTCGCCACCAATATGGGA
65 TACTTCACGCCAATACATGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATATGGAA
22288354 AGA
130 AGA
* * *
22288357 CAAGATCTGTATCATCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCT
1 CAAGATCTGCATCATCGATCCACTTCCTACCAATATAGGAAGATAAGACCTACTATCTTCGATCT
22288422 ACTTCACGCCAATACATGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATATGGAAA
66 ACTTCACGCCAATACATGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATATGGAAA
22288487 GA
131 GA
* * * * * * * *
22288489 CAAGATCTGCATCTTCGATCTACTTCAC-GCCAATACATGAAGATAAGATCTACTTTTTTCGATC
1 CAAGATCTGCATCATCGATCCACTTC-CTACCAATATAGGAAGATAAGACCTACTATCTTCGATC
22288553 TACTTC
65 TACTTC
22288559 GCCACCAGTA
Statistics
Matches: 180, Mismatches: 21, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
132 171 0.95
133 9 0.05
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (132 bp):
CAAGATCTGCATCATCGATCCACTTCCTACCAATATAGGAAGATAAGACCTACTATCTTCGATCT
ACTTCACGCCAATACATGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATATGGAAA
GA
Found at i:22288606 original size:220 final size:219
Alignment explanation
Indices: 22288236--22288764 Score: 835
Period size: 220 Copynumber: 2.4 Consensus size: 219
22288226 AGATCTACAA
* *
22288236 TCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCA
1 TCTTCGATCTACTTCCTACCAATATAGGAAGATAGGATCTGC-ATCTTCGATCTACTTCACGCCA
*
22288301 ATACATGAAGACAAGATCTGCTTTCTTCGGTCTACTTCGCCACCAATATGGGAAGACAAGATCTG
65 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
*
22288366 TATCATCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGC
130 CATCATCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGC
22288431 CAATACATGAAGACAAGATCTGATT
195 CAATACATGAAGACAAGATCTGATT
* * *
22288456 TCTTCGATCTACTTCGCCACCAATAT-GGAAAGACAAGATCTGCATCTTCGATCTACTTCACGCC
1 TCTTCGATCTACTTC-CTACCAATATAGG-AAGATAGGATCTGCATCTTCGATCTACTTCACGCC
* * * *
22288520 AATACATGAAGATAAGATCTACTTTTTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
64 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCT
* * * **
22288585 GCATCGTTGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTTTGATCTACTTCACG
129 GCATCATCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACG
*
22288650 CCAATACATGAAGACAAGATCTGCTT
194 CCAATACATGAAGACAAGATCTGATT
* *
22288676 TCTTTGATCTACTTCCTACCAATATAGGAAGATAGGATCTGCTTCCTTCGATCTACTTCACGCCA
1 TCTTCGATCTACTTCCTACCAATATAGGAAGATAGGATCTGCAT-CTTCGATCTACTTCACGCCA
*
22288741 ATACATGAAGGCAAGATCTGCTTT
65 ATACATGAAGACAAGATCTGCTTT
22288765 AATGACTTCA
Statistics
Matches: 280, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
219 22 0.08
220 238 0.85
221 20 0.07
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (219 bp):
TCTTCGATCTACTTCCTACCAATATAGGAAGATAGGATCTGCATCTTCGATCTACTTCACGCCAA
TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC
ATCATCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCC
AATACATGAAGACAAGATCTGATT
Found at i:22288743 original size:132 final size:131
Alignment explanation
Indices: 22288277--22288734 Score: 503
Period size: 132 Copynumber: 3.5 Consensus size: 131
22288267 ATAGGACCTG
* * * * *
22288277 CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGGTCTACTTCGCC
1 CTATCTTTGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTTCCTTCGATCTACTTCGCC
* * * * * *
22288342 ACCAATATGGGAAGACAAGATCTGTATCATCGATCCACTTC-CTACCAATATAGGAAGACAAGAC
66 ACCAATAT-GGAAGACAAGATCTGTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGAT
22288406 CTA
129 CTA
* * * *
22288409 CTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGATTTCTTCGATCTACTTCGCC
1 CTATCTTTGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTTCCTTCGATCTACTTCGCC
* *
22288474 ACCAATATGGAAAGACAAGATCTGCATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATC
66 ACCAATATGG-AAGACAAGATCTGTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
22288539 TA
130 TA
* * * ** * * *
22288541 CT-TTTTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTT-GATCCACTTC-
1 CTATCTTT-GATCTACTTC-ACACCAATACAGGAAGACAAGATCTGCTTCCTTCGATCTACTTCG
* * * *
22288603 CTACCAATATAGGAAGACAGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAG
64 CCACCAATAT-GGAAGACAAGATCTG-TATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
*
22288668 ATCTG
127 ATCTA
* * * *
22288673 CTTTCTTTGATCTACTTC-CTACCAATATAGGAAGATAGGATCTGCTTCCTTCGATCTACTTC
1 CTATCTTTGATCTACTTCAC-ACCAATACAGGAAGACAAGATCTGCTTCCTTCGATCTACTTC
22288735 ACGCCAATAC
Statistics
Matches: 279, Mismatches: 38, Indels: 18
0.83 0.11 0.05
Matches are distributed among these distances:
130 1 0.00
131 51 0.18
132 199 0.71
133 28 0.10
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (131 bp):
CTATCTTTGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTTCCTTCGATCTACTTCGCC
ACCAATATGGAAGACAAGATCTGTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
A
Found at i:22290357 original size:26 final size:26
Alignment explanation
Indices: 22290302--22290361 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
22290292 TTATTTTTGG
* *
22290302 TTTTTTTTGCTTTTTATTTTTTAGTT
1 TTTTTTTTGCTTTTTACTTTTTAGTC
*
22290328 TTTTTTTTGCTTTTTGCTTTTT-GCTC
1 TTTTTTTTGCTTTTTACTTTTTAG-TC
22290354 TTTTTTTT
1 TTTTTTTT
22290362 CCCTCCACTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 1 0.03
26 29 0.97
ACGTcount: A:0.03, C:0.08, G:0.08, T:0.80
Consensus pattern (26 bp):
TTTTTTTTGCTTTTTACTTTTTAGTC
Found at i:22291713 original size:62 final size:62
Alignment explanation
Indices: 22291631--22291755 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
22291621 CTAAACTCGA
* *
22291631 CGTACTTTTGGATTTTAGGAAATTTATTATATAAAATGAAATGTAATGTTGATGCATGAATG
1 CGTACTTTTGAATTTTAGGAAATTTATTATATAAAATGAAATGTAACGTTGATGCATGAATG
* **
22291693 CGTATTTTTGAATTTTAGGAAATTTATTATATGCAATGAAATGTAACGTTGATGCATGAATG
1 CGTACTTTTGAATTTTAGGAAATTTATTATATAAAATGAAATGTAACGTTGATGCATGAATG
22291755 C
1 C
22291756 AAAAAAAAGA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.40
Consensus pattern (62 bp):
CGTACTTTTGAATTTTAGGAAATTTATTATATAAAATGAAATGTAACGTTGATGCATGAATG
Found at i:22293898 original size:16 final size:16
Alignment explanation
Indices: 22293874--22293904 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22293864 ATATGTACCG
*
22293874 AAATTTAAATAAATAT
1 AAATATAAATAAATAT
22293890 AAATATAAATAAATA
1 AAATATAAATAAATA
22293905 GATAACAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATAAATAAATAT
Found at i:22294140 original size:161 final size:167
Alignment explanation
Indices: 22293823--22294151 Score: 559
Period size: 161 Copynumber: 2.0 Consensus size: 167
22293813 TATATAGGTA
22293823 TGTACATAAGTTGTAGAATATATAAAAATATATAAGTATATATATGTACCGAAATTTAAATAAAT
1 TGTACATAAGTTGTAGAATATATAAAAATATATAAGTATATATATGTACCGAAATTT-AATAAAT
22293888 ATAAATATAAATAAATAGATAACAATAATAATAGTAATGTAATATAATAGTATAATAATATTAAA
65 ATAAATATAAATAAATAGATAACAATAATAATAGTAATGTAATATAATAGTATAATAATATTAAA
22293953 ATAACTAATTTAATGATAAAATAACTAAAATAACAAAT
130 ATAACTAATTTAATGATAAAATAACTAAAATAACAAAT
22293991 TGTACATAAGTTGTAGAATATATAAAAATATAT-AGTATATATATGTACCGAAAATTT-AT-AAT
1 TGTACATAAGTTGTAGAATATATAAAAATATATAAGTATATATATGTACCG-AAATTTAATAAAT
22294053 AT-AATATAAATAAAATAGATAACAATAAT-A-A-T-ATGTAAT-TAATAGTAATAATAATATTA
65 ATAAATATAAAT-AAATAGATAACAATAATAATAGTAATGTAATATAATAGT-ATAATAATATTA
22294112 AAATAACTAATTTAATGATAAAATAACTAAAATAACAAAT
128 AAATAACTAATTTAATGATAAAATAACTAAAATAACAAAT
22294152 AAGGGATTAA
Statistics
Matches: 158, Mismatches: 0, Indels: 13
0.92 0.00 0.08
Matches are distributed among these distances:
160 7 0.04
161 59 0.37
162 1 0.01
163 1 0.01
164 10 0.06
165 22 0.14
166 2 0.01
167 17 0.11
168 39 0.25
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (167 bp):
TGTACATAAGTTGTAGAATATATAAAAATATATAAGTATATATATGTACCGAAATTTAATAAATA
TAAATATAAATAAATAGATAACAATAATAATAGTAATGTAATATAATAGTATAATAATATTAAAA
TAACTAATTTAATGATAAAATAACTAAAATAACAAAT
Found at i:22295476 original size:33 final size:29
Alignment explanation
Indices: 22295438--22295509 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 29
22295428 CTATAAGTGT
22295438 CGAATGCACATATTCACTTATACCCACCTATGC
1 CGAATGCACATA-T-A--TATACCCACCTATGC
*
22295471 CGAATGCATACATATATATATCCACCTATGC
1 CGAATGC--ACATATATATACCCACCTATGC
22295502 CGAATGCA
1 CGAATGCA
22295510 TACATATACA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
29 1 0.03
31 21 0.58
33 8 0.22
34 1 0.03
35 5 0.14
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.26
Consensus pattern (29 bp):
CGAATGCACATATATATACCCACCTATGC
Found at i:22295499 original size:31 final size:31
Alignment explanation
Indices: 22295456--22295517 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
22295446 CATATTCACT
22295456 TATACCCACCTATGCCGAATGCATACATATA
1 TATACCCACCTATGCCGAATGCATACATATA
*
22295487 TATATCCACCTATGCCGAATGCATACATATA
1 TATACCCACCTATGCCGAATGCATACATATA
22295518 CACACTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.27
Consensus pattern (31 bp):
TATACCCACCTATGCCGAATGCATACATATA
Found at i:22295770 original size:41 final size:41
Alignment explanation
Indices: 22295711--22295904 Score: 248
Period size: 41 Copynumber: 4.7 Consensus size: 41
22295701 TTGATTAACT
* * *
22295711 GGCACTTCA-CCTGATAGGCTTATAGTCTAATTCCGTTCACC
1 GGCACTT-AGCCTGCTAGGCTTATAGTCTGATTCAGTTCACC
* *
22295752 GGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAGTTCACC
1 GGCACTTAGCCTGCTAGGCTTATAGTCTGATTCAGTTCACC
* *
22295793 GGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAGTTCACC
1 GGCACTTAGCCTGCTAGGCTTATAGTCTGATTCAGTTCACC
* * *
22295834 GGCACTTAGCCTGCT-GGACATATAGTCCGATTCAATTCACC
1 GGCACTTAGCCTGCTAGG-CTTATAGTCTGATTCAGTTCACC
* *
22295875 GGCACTTAGCCTGCTAGACGTATAGTCTGA
1 GGCACTTAGCCTGCTAGGCTTATAGTCTGA
22295905 ACAATTCCAC
Statistics
Matches: 135, Mismatches: 15, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
40 3 0.02
41 131 0.97
42 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (41 bp):
GGCACTTAGCCTGCTAGGCTTATAGTCTGATTCAGTTCACC
Found at i:22302859 original size:17 final size:16
Alignment explanation
Indices: 22302837--22302869 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
22302827 GGAAGTCGTG
22302837 ATAATTATACATTTAAA
1 ATAATTATA-ATTTAAA
22302854 ATAATTATAATTTAAA
1 ATAATTATAATTTAAA
22302870 TTTATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAATTATAATTTAAA
Found at i:22302882 original size:22 final size:23
Alignment explanation
Indices: 22302837--22302882 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
22302827 GGAAGTCGTG
*
22302837 ATAATTATACATTTAAAATAATT
1 ATAATTATAAATTTAAAATAATT
* *
22302860 ATAATT-TAAATTTATAATTATT
1 ATAATTATAAATTTAAAATAATT
22302882 A
1 A
22302883 GCTAAAAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAATTATAAATTTAAAATAATT
Found at i:22309015 original size:12 final size:14
Alignment explanation
Indices: 22308993--22309031 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
22308983 AGGAAAATTT
*
22308993 TAATAATAATATAAA
1 TAATAAT-ATATACA
*
22309008 TGATAATATATACA
1 TAATAATATATACA
22309022 TAATAATATA
1 TAATAATATA
22309032 CAAAAGTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
TAATAATATATACA
Found at i:22311456 original size:39 final size:39
Alignment explanation
Indices: 22311413--22311490 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
22311403 ACTATAGAGT
*
22311413 ACCATCTCGATAAGGCTAATATTGTGGCTGATGCTCTTA
1 ACCATCCCGATAAGGCTAATATTGTGGCTGATGCTCTTA
22311452 ACCATCCCGATAAGGCTAATATTGTGGCTGATGCTCTTA
1 ACCATCCCGATAAGGCTAATATTGTGGCTGATGCTCTTA
22311491 GTCGTAGAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (39 bp):
ACCATCCCGATAAGGCTAATATTGTGGCTGATGCTCTTA
Found at i:22314163 original size:29 final size:29
Alignment explanation
Indices: 22314121--22314185 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
22314111 ATGTGATGAG
* * *
22314121 CCACACGGCTGTGTGCCAGGTCTTGTGGA
1 CCACACGACCGTGTGCCAGGTCTTGTGAA
*
22314150 CCACACGACCGTGTGCTAGGTCTTGTGAA
1 CCACACGACCGTGTGCCAGGTCTTGTGAA
*
22314179 CTACACG
1 CCACACG
22314186 GGCCAGCCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.18, C:0.29, G:0.29, T:0.23
Consensus pattern (29 bp):
CCACACGACCGTGTGCCAGGTCTTGTGAA
Found at i:22315670 original size:23 final size:24
Alignment explanation
Indices: 22315644--22315720 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 24
22315634 AATTAAAAAT
*
22315644 AATAAATTTTTAATT-TTTAATTA
1 AATAAATTTATAATTATTTAATTA
*
22315667 AATAAA-TTATATTTATTTAATTA
1 AATAAATTTATAATTATTTAATTA
22315690 AATATAATTTAT--TTATTTAA-TA
1 AATA-AATTTATAATTATTTAATTA
*
22315712 AATATATTT
1 AATAAATTT
22315721 TAAAAATCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 4 0.08
22 12 0.25
23 26 0.54
24 2 0.04
25 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
AATAAATTTATAATTATTTAATTA
Found at i:22315699 original size:19 final size:19
Alignment explanation
Indices: 22315659--22315709 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
22315649 ATTTTTAATT
* *
22315659 TTTAATTAAATAAATTATA
1 TTTATTTAATTAAATTATA
22315678 TTTATTTAATTAAA-TATAA
1 TTTATTTAATTAAATTAT-A
*
22315697 TTTATTTATTTAA
1 TTTATTTAATTAA
22315710 TAAATATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 3 0.11
19 25 0.89
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTATTTAATTAAATTATA
Found at i:22318284 original size:19 final size:19
Alignment explanation
Indices: 22318260--22318298 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
22318250 TTCAAAATGA
22318260 AAACTCATATTTTAAAGTT
1 AAACTCATATTTTAAAGTT
22318279 AAACTCATATTTTAAAGTT
1 AAACTCATATTTTAAAGTT
22318298 A
1 A
22318299 TGGCAAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (19 bp):
AAACTCATATTTTAAAGTT
Found at i:22324605 original size:6 final size:6
Alignment explanation
Indices: 22324594--22324647 Score: 58
Period size: 6 Copynumber: 8.8 Consensus size: 6
22324584 AGGCAACCCA
*
22324594 ATTTTT ATTTTT ATTTTT ATTTTT A-CTTT ATTTATT ACTTTATT -TTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTT-TT A-TTT-TT ATTTTT
22324643 ATTTT
1 ATTTT
22324648 ACTTATTTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
5 6 0.14
6 27 0.64
7 3 0.07
8 6 0.14
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:22324623 original size:17 final size:17
Alignment explanation
Indices: 22324597--22324655 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
22324587 CAACCCAATT
22324597 TTTATTTTTATTTTTA-
1 TTTATTTTTATTTTTAC
22324613 TTT-TTACTTTATTTATTAC
1 TTTATT--TTTATTT-TTAC
*
22324632 TTTATTTTTTTATTTTAC
1 TTTATTTTTAT-TTTTAC
22324650 -TTATTT
1 TTTATTT
22324656 GGATATTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
15 2 0.06
16 3 0.08
17 13 0.36
18 11 0.31
19 5 0.14
20 2 0.06
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTTATTTTTAC
Found at i:22334615 original size:57 final size:57
Alignment explanation
Indices: 22334545--22334665 Score: 179
Period size: 57 Copynumber: 2.1 Consensus size: 57
22334535 TAAACGCAAC
* * *
22334545 CACGATAAGTAAATAAAATATTTTCTAAATTCAGTCACTATAATAAATTACATAAAA
1 CACGATAAATAAATAAAATATTCTCTAAATTCAATCACTATAATAAATTACATAAAA
* * * *
22334602 CATGATAAATAAATAAAATGTTCTCTAAATTCAATCACTGTAATAAATTACTTAAAA
1 CACGATAAATAAATAAAATATTCTCTAAATTCAATCACTATAATAAATTACATAAAA
22334659 CACGATA
1 CACGATA
22334666 CGGTAAGAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.50, C:0.13, G:0.06, T:0.31
Consensus pattern (57 bp):
CACGATAAATAAATAAAATATTCTCTAAATTCAATCACTATAATAAATTACATAAAA
Found at i:22335237 original size:19 final size:20
Alignment explanation
Indices: 22335199--22335237 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22335189 AAAAAGAAAG
**
22335199 TTCAAAAAATTATGAGATAA
1 TTCAAAAAATTAACAGATAA
22335219 TTCAAAAAATTAACA-ATAA
1 TTCAAAAAATTAACAGATAA
22335238 AAAATGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (20 bp):
TTCAAAAAATTAACAGATAA
Found at i:22335507 original size:24 final size:24
Alignment explanation
Indices: 22335477--22335525 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
22335467 ATAGTGATAA
*
22335477 AATCTTTCACCATCCTTAAAATAT
1 AATCTTTCACCATCCCTAAAATAT
22335501 AATCTTTCACCATCCCTAAAATAT
1 AATCTTTCACCATCCCTAAAATAT
22335525 A
1 A
22335526 GAAATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.35
Consensus pattern (24 bp):
AATCTTTCACCATCCCTAAAATAT
Found at i:22338698 original size:46 final size:46
Alignment explanation
Indices: 22338632--22338839 Score: 341
Period size: 46 Copynumber: 4.6 Consensus size: 46
22338622 TTTGAGTACT
* *
22338632 TCTGATC-AGTGGCAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
22338677 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
* *
22338723 TCTGATCAAATGACAAAGTAATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
22338769 TCTTATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
22338815 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
22338840 ATCATACGTA
Statistics
Matches: 153, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
44 12 0.08
45 12 0.08
46 129 0.84
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
Found at i:22341971 original size:12 final size:11
Alignment explanation
Indices: 22341924--22341951 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
22341914 CAAAAGTAAT
22341924 AAAAAATTCAA
1 AAAAAATTCAA
22341935 AAAAAATTCAA
1 AAAAAATTCAA
22341946 AAAAAA
1 AAAAAA
22341952 ATATAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAATTCAA
Found at i:22349202 original size:160 final size:161
Alignment explanation
Indices: 22348882--22349204 Score: 621
Period size: 160 Copynumber: 2.0 Consensus size: 161
22348872 AAAACAAGTG
22348882 AAATGACATAATCGGTAAAAATTATTATTGTTCATAAGTGCATGTTAGAGCAAGAATTTGATGTT
1 AAATGACATAATCGGTAAAAATTATTATTGTTCATAAGTGCATGTTAGAGCAAGAATTTGATGTT
*
22348947 GCTATAGAAGGGAAAAATATTCAGCATGTTATAAATCATAAGAAAAAGGAATAAATTTTAATTTC
66 GCTATAGAAGGGAAAAATATTCAACATGTTATAAATCATAAGAAAAAGGAATAAATTTTAATTTC
22349012 CGAACCTAGGGGAAAAATTGTAATTTTGTGA
131 CGAACCTAGGGGAAAAATTGTAATTTTGTGA
22349043 AAATGACATAATCGGTAAAAATTATTATTGTTCATAAGTGCATGTTAGAGCAAGAATTTGATGTT
1 AAATGACATAATCGGTAAAAATTATTATTGTTCATAAGTGCATGTTAGAGCAAGAATTTGATGTT
*
22349108 GCTATAGAAGGG-AAAATATTCAACATGTTATAAATCATAAGAAAAAGGAATAAATTTTAATTTT
66 GCTATAGAAGGGAAAAATATTCAACATGTTATAAATCATAAGAAAAAGGAATAAATTTTAATTTC
22349172 CGAACCTAGGGGAAAAATTGTAATTTTGTGA
131 CGAACCTAGGGGAAAAATTGTAATTTTGTGA
22349203 AA
1 AA
22349205 CTTTAGGGGC
Statistics
Matches: 160, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
160 83 0.52
161 77 0.48
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (161 bp):
AAATGACATAATCGGTAAAAATTATTATTGTTCATAAGTGCATGTTAGAGCAAGAATTTGATGTT
GCTATAGAAGGGAAAAATATTCAACATGTTATAAATCATAAGAAAAAGGAATAAATTTTAATTTC
CGAACCTAGGGGAAAAATTGTAATTTTGTGA
Found at i:22349492 original size:50 final size:51
Alignment explanation
Indices: 22349399--22349536 Score: 156
Period size: 50 Copynumber: 2.7 Consensus size: 51
22349389 GTGAAGTTGC
* **
22349399 TAGGTCACGTGTGTAGTACTATGTGC-AGACTACTACGTGTACCAGAAT-G-A
1 TAGGTCACGTGTGTAGTACTATGTGCAAG-CTACTATGCATACCA-AATAGCA
* * *
22349449 TAGGTCGCATGTGTAGTACTATGTGCAAGCTACTATGCATACCAAATAGCT
1 TAGGTCACGTGTGTAGTACTATGTGCAAGCTACTATGCATACCAAATAGCA
* * *
22349500 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTATG
1 TAGGTCACGTGTGTAGTACTATGTGCAAGCTACTATG
22349537 TGAACCGGGT
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
49 3 0.04
50 37 0.50
51 34 0.46
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (51 bp):
TAGGTCACGTGTGTAGTACTATGTGCAAGCTACTATGCATACCAAATAGCA
Found at i:22352506 original size:37 final size:37
Alignment explanation
Indices: 22352465--22352541 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
22352455 GGAAAGCTTG
*
22352465 TTTTACAAATTCCAAAATCATTTTCATTTCCTTCTTC
1 TTTTACAAATTCCAAAATCATTTTCATTTCCTTCTCC
*
22352502 TTTTACAAATTCCAAAATCATTTTCTTTTCCTTCTCC
1 TTTTACAAATTCCAAAATCATTTTCATTTCCTTCTCC
22352539 TTT
1 TTT
22352542 CTCTTCAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.51
Consensus pattern (37 bp):
TTTTACAAATTCCAAAATCATTTTCATTTCCTTCTCC
Found at i:22362922 original size:3 final size:3
Alignment explanation
Indices: 22362914--22362988 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
22362904 AAAGAACACA
22362914 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
22362962 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
22362989 GGACTTGAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22364912 original size:16 final size:17
Alignment explanation
Indices: 22364879--22364913 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
22364869 TAAACATCTT
22364879 ATTAAAATAATATTTTA
1 ATTAAAATAATATTTTA
*
22364896 ATTAAGATAAT-TTTTA
1 ATTAAAATAATATTTTA
22364912 AT
1 AT
22364914 AAATTATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
ATTAAAATAATATTTTA
Found at i:22368117 original size:16 final size:16
Alignment explanation
Indices: 22368096--22368130 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
22368086 ATTTCAAGTC
22368096 TTACAGCCTATTAATT
1 TTACAGCCTATTAATT
22368112 TTACAGCCTATTAATT
1 TTACAGCCTATTAATT
22368128 TTA
1 TTA
22368131 GTCAAAGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (16 bp):
TTACAGCCTATTAATT
Found at i:22375551 original size:5 final size:5
Alignment explanation
Indices: 22375541--22375574 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
22375531 CAAAAAGACA
22375541 AAGAG AAGAG AAGAG AAGAG AGAGAG AAAGAG AA
1 AAGAG AAGAG AAGAG AAGAG A-AGAG -AAGAG AA
22375575 TTGGAAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 18 0.67
6 8 0.30
7 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
AAGAG
Found at i:22375744 original size:23 final size:25
Alignment explanation
Indices: 22375712--22375775 Score: 78
Period size: 23 Copynumber: 2.6 Consensus size: 25
22375702 TATAAAAACC
* * *
22375712 AAAACGCACCGTTTAATTAAA-TC-
1 AAAACACACCGTTTAACTAAAGACA
*
22375735 AATACACACCGTTTAACTAAAGACA
1 AAAACACACCGTTTAACTAAAGACA
22375760 AAAACACACCGTTTAA
1 AAAACACACCGTTTAA
22375776 GCTAGCCAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 18 0.53
24 1 0.03
25 15 0.44
ACGTcount: A:0.47, C:0.23, G:0.08, T:0.22
Consensus pattern (25 bp):
AAAACACACCGTTTAACTAAAGACA
Found at i:22377582 original size:27 final size:27
Alignment explanation
Indices: 22377546--22377614 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
22377536 AAATTAAAAA
*
22377546 TTACCAAAATGT-TATAACTTTTTTTAT
1 TTACCAAAATATATATAA-TTTTTTTAT
22377573 TTACCAAAATATATATAATTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTAT
22377600 TTACCAAAATATATA
1 TTACCAAAATATATA
22377615 AAAAAAACAG
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 35 0.88
28 5 0.12
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.48
Consensus pattern (27 bp):
TTACCAAAATATATATAATTTTTTTAT
Found at i:22377709 original size:27 final size:27
Alignment explanation
Indices: 22377671--22377748 Score: 138
Period size: 27 Copynumber: 2.9 Consensus size: 27
22377661 TCCCTGGGTG
22377671 AAGGGAACCCTGTTGGCGGCACCAAAC
1 AAGGGAACCCTGTTGGCGGCACCAAAC
22377698 AAGGGAACCCTGTTGGCGGCACCAAAC
1 AAGGGAACCCTGTTGGCGGCACCAAAC
**
22377725 AAGGGTTCCCTGTTGGCGGCACCA
1 AAGGGAACCCTGTTGGCGGCACCA
22377749 CCCTTGAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.26, C:0.29, G:0.31, T:0.14
Consensus pattern (27 bp):
AAGGGAACCCTGTTGGCGGCACCAAAC
Found at i:22377828 original size:10 final size:10
Alignment explanation
Indices: 22377797--22377868 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
22377787 AGGAGAGGGG
*
22377797 AAGAAGAAGA
1 AAGAAAAAGA
22377807 AAGAAAGGAAGA
1 AAGAAA--AAGA
22377819 AAGAAAAAGA
1 AAGAAAAAGA
* *
22377829 AGGAAAAGGA
1 AAGAAAAAGA
22377839 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
22377853 AAGAAAAAGA
1 AAGAAAAAGA
*
22377863 AGGAAA
1 AAGAAA
22377869 GGAGAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 28 0.56
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:22377840 original size:28 final size:28
Alignment explanation
Indices: 22377800--22377904 Score: 108
Period size: 28 Copynumber: 3.6 Consensus size: 28
22377790 AGAGGGGAAG
22377800 AAGAA-GAAA-GAAAGG-AAGAAAGAAA
1 AAGAAGGAAAGGAAAGGAAAGAAAGAAA
22377825 AAGAAGGAAAAGGAAAGGAGAGGAAAGAAAGAAA
1 AAGAAGG-AAAGG--A--A-AGGAAAGAAAGAAA
*
22377859 AAGAAGGAAAGGAGAGGAAAGAAAGAAA
1 AAGAAGGAAAGGAAAGGAAAGAAAGAAA
* *
22377887 AATAAGGAAAGAAAAGGA
1 AAGAAGGAAAGGAAAGGA
22377905 GAGGAGAAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
25 5 0.07
26 1 0.01
27 3 0.04
28 30 0.45
30 1 0.01
31 1 0.01
32 1 0.01
33 8 0.12
34 17 0.25
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (28 bp):
AAGAAGGAAAGGAAAGGAAAGAAAGAAA
Found at i:22377903 original size:10 final size:10
Alignment explanation
Indices: 22377817--22377904 Score: 62
Period size: 10 Copynumber: 9.2 Consensus size: 10
22377807 AAGAAAGGAA
*
22377817 GAAAGAAAAA
1 GAAAGAAAAG
*
22377827 GAAGGAAAAG
1 GAAAGAAAAG
* *
22377837 GAAAGGAGAG
1 GAAAGAAAAG
22377847 GAAAG-AAA-
1 GAAAGAAAAG
22377855 GAAA-AAGAAG
1 GAAAGAA-AAG
* *
22377865 GAAAGGAGAG
1 GAAAGAAAAG
22377875 GAAAG-AAA-
1 GAAAGAAAAG
22377883 GAAA-AATAAG
1 GAAAGAA-AAG
22377893 GAAAGAAAAG
1 GAAAGAAAAG
22377903 GA
1 GA
22377905 GAGGAGAAGA
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
8 10 0.16
9 8 0.13
10 40 0.66
11 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:22377952 original size:30 final size:29
Alignment explanation
Indices: 22377832--22377960 Score: 88
Period size: 30 Copynumber: 4.3 Consensus size: 29
22377822 AAAAAGAAGG
* *
22377832 AAAAGGAAAGGAGAGGA-AAGA-AAGAAAA
1 AAAAGAAAAGAAGAGGAGAAGAGAA-AAAA
* * *
22377860 AGAAGGAAAGGAGAGGA-AAGAAAGAAAAATA
1 AAAAGAAAAGAAGAGGAGAAG--AGAAAAA-A
*
22377891 AGGAAAGAAAAGGAGAGGAGAAGAGAAAAAA
1 A--AAAGAAAAGAAGAGGAGAAGAGAAAAAA
22377922 AAAAGAAGAAGAAGAGG-GAAG-GAAGGAAAA
1 AAAAGAA-AAGAAGAGGAGAAGAGAA--AAAA
22377952 AAAAGAAAA
1 AAAAGAAAA
22377961 TAAGGTAATT
Statistics
Matches: 87, Mismatches: 4, Indels: 19
0.79 0.04 0.17
Matches are distributed among these distances:
28 22 0.25
29 12 0.14
30 23 0.26
31 6 0.07
32 7 0.08
33 14 0.16
34 3 0.03
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.01
Consensus pattern (29 bp):
AAAAGAAAAGAAGAGGAGAAGAGAAAAAA
Found at i:22377953 original size:33 final size:32
Alignment explanation
Indices: 22377796--22377955 Score: 103
Period size: 33 Copynumber: 4.8 Consensus size: 32
22377786 AAGGAGAGGG
* * *
22377796 GAAGAAGAAGAAAGAAAGGAAGAAAGAAAAAGAA
1 GAAGAA-AAGGAAGGAAGGAA-AAAAAAAAAGAA
* *
22377830 G--GAAAAGGAAAGGAGAGGAAAGAAAGAAA-AA
1 GAAGAAAAGG-AAGGA-AGGAAAAAAAAAAAGAA
* * * *
22377861 GAAGGAAAGGAGAGGAAAGAAAGAAAAATAAGGA
1 GAAGAAAAGGA-AGGAAGGAAA-AAAAAAAAGAA
*
22377895 -AAGAAAAGGAGAGGAGAAGAGAAAAAAAAAAGAA
1 GAAGAAAAGGA-AGGA-AGGA-AAAAAAAAAAGAA
*
22377929 GAAGAAGAGGGAAGGAAGGAAAAAAAA
1 GAAGAA-AAGGAAGGAAGGAAAAAAAA
22377956 GAAAATAAGG
Statistics
Matches: 99, Mismatches: 16, Indels: 23
0.72 0.12 0.17
Matches are distributed among these distances:
31 6 0.06
32 19 0.19
33 41 0.41
34 18 0.18
35 11 0.11
36 4 0.04
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (32 bp):
GAAGAAAAGGAAGGAAGGAAAAAAAAAAAGAA
Found at i:22378663 original size:18 final size:19
Alignment explanation
Indices: 22378640--22378691 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
22378630 AAAATATATA
**
22378640 TAATATTTTGGTATTTTT-
1 TAATATTTTAATATTTTTG
22378658 TAATATTTTAATATTTTTG
1 TAATATTTTAATATTTTTG
* *
22378677 TAATGTTTTATTATT
1 TAATATTTTAATATT
22378692 GGTTTTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (19 bp):
TAATATTTTAATATTTTTG
Found at i:22378749 original size:28 final size:28
Alignment explanation
Indices: 22378716--22378782 Score: 93
Period size: 27 Copynumber: 2.4 Consensus size: 28
22378706 ATAAAAAAAA
*
22378716 TTACCAAAATATTATA-ACTTTTTTTTAT
1 TTACCAAAATATTATATA-GTTTTTTTAT
*
22378744 TTACCAAAA-AATATATAGTTTTTTTAT
1 TTACCAAAATATTATATAGTTTTTTTAT
22378771 TTACCAAAATAT
1 TTACCAAAATAT
22378783 ATCAAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 23 0.68
28 11 0.32
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.48
Consensus pattern (28 bp):
TTACCAAAATATTATATAGTTTTTTTAT
Found at i:22378812 original size:15 final size:15
Alignment explanation
Indices: 22378788--22378822 Score: 54
Period size: 14 Copynumber: 2.3 Consensus size: 15
22378778 AATATATCAA
22378788 AAAAAGTAAAAAAAAC
1 AAAAAGT-AAAAAAAC
22378804 AAAAA-TAAAAAAAC
1 AAAAAGTAAAAAAAC
22378818 AAAAA
1 AAAAA
22378823 AACACACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.68
15 1 0.05
16 5 0.26
ACGTcount: A:0.86, C:0.06, G:0.03, T:0.06
Consensus pattern (15 bp):
AAAAAGTAAAAAAAC
Found at i:22382298 original size:18 final size:18
Alignment explanation
Indices: 22382272--22382309 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
22382262 ATCCCAATGA
*
22382272 TCGCCACCACATTCTTCT
1 TCGCAACCACATTCTTCT
22382290 TCGCAACCACATTCTTCT
1 TCGCAACCACATTCTTCT
22382308 TC
1 TC
22382310 ACCACCAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.42, G:0.05, T:0.34
Consensus pattern (18 bp):
TCGCAACCACATTCTTCT
Found at i:22382316 original size:18 final size:18
Alignment explanation
Indices: 22382275--22382316 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
22382265 CCAATGATCG
*
22382275 CCACCACATTCTTCTTCG
1 CCACCACATTCTTCTTCA
*
22382293 CAACCACATTCTTCTTCA
1 CCACCACATTCTTCTTCA
22382311 CCACCA
1 CCACCA
22382317 ACCATATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACATTCTTCTTCA
Found at i:22382952 original size:12 final size:12
Alignment explanation
Indices: 22382919--22383088 Score: 68
Period size: 12 Copynumber: 13.9 Consensus size: 12
22382909 ATTTAACCAC
*
22382919 TAATCCTAATAA
1 TAATACTAATAA
*
22382931 CTAACA-TAATAA
1 -TAATACTAATAA
*
22382943 TAATATTAATAA
1 TAATACTAATAA
22382955 TTTTATATAC-AA-AA
1 ---TA-ATACTAATAA
22382969 TAATACTAACTAA
1 TAATACTAA-TAA
*
22382982 -AATTATTAATAA
1 TAA-TACTAATAA
*
22382994 CTAACTA-TAAAAA
1 -TAA-TACTAATAA
*
22383007 TAATACTAAT-T
1 TAATACTAATAA
** *
22383018 TTTTACTAACAA
1 TAATACTAATAA
22383030 TAATACTAAGTAA
1 TAATACTAA-TAA
*
22383043 -CAT-CTTAATAA
1 TAATAC-TAATAA
*
22383054 TAATAATAATAA
1 TAATACTAATAA
*
22383066 TAATAATAATAA
1 TAATACTAATAA
*
22383078 TAATAATAATA
1 TAATACTAATA
22383089 CTATAAAATT
Statistics
Matches: 121, Mismatches: 19, Indels: 35
0.69 0.11 0.20
Matches are distributed among these distances:
10 4 0.03
11 21 0.17
12 66 0.55
13 17 0.14
14 6 0.05
15 4 0.03
16 3 0.02
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.35
Consensus pattern (12 bp):
TAATACTAATAA
Found at i:22383056 original size:3 final size:3
Alignment explanation
Indices: 22383048--22383088 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
22383038 AGTAACATCT
22383048 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
22383089 CTATAAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22383279 original size:13 final size:11
Alignment explanation
Indices: 22383253--22383293 Score: 59
Period size: 10 Copynumber: 3.9 Consensus size: 11
22383243 AAAAAAATAC
22383253 CTTATTTTTCT
1 CTTATTTTTCT
22383264 CTTATTTTTCT
1 CTTATTTTTCT
*
22383275 C-TCTTTTTCT
1 CTTATTTTTCT
22383285 CTT-TTTTTC
1 CTTATTTTTC
22383294 CGCAGCACCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 15 0.54
11 13 0.46
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (11 bp):
CTTATTTTTCT
Found at i:22383411 original size:27 final size:27
Alignment explanation
Indices: 22383373--22383441 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
22383363 ATAACACGAG
22383373 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGAACCCTTGTT
**
22383400 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGAACCCTTGTT
22383427 TGGTGCCGCCAACAG
1 TGGTGCCGCCAACAG
22383442 TGTTGGTGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.23
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGAACCCTTGTT
Found at i:22401550 original size:23 final size:23
Alignment explanation
Indices: 22401524--22401574 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
22401514 ATATCTCGTT
* *
22401524 TGTAATATCTCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
22401547 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
22401570 AGTAA
1 TGTAA
22401575 GAAAGCAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:22403637 original size:11 final size:11
Alignment explanation
Indices: 22403621--22403652 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
22403611 GACAAGGAAA
22403621 GAAACAAAATG
1 GAAACAAAATG
22403632 GAAACAAAATG
1 GAAACAAAATG
22403643 GAAACAAAAT
1 GAAACAAAAT
22403653 CAAAGATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.66, C:0.09, G:0.16, T:0.09
Consensus pattern (11 bp):
GAAACAAAATG
Found at i:22416136 original size:25 final size:25
Alignment explanation
Indices: 22416095--22416142 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
22416085 TGAATTTTTT
22416095 TGTTCTTGTAATACTTTATTCTTTGC
1 TGTTCTTGTAATACTTT-TTCTTTGC
22416121 TGTTCTTG-AATACTTTTTCTTT
1 TGTTCTTGTAATACTTTTTCTTT
22416143 TCAAGACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 6 0.27
25 8 0.36
26 8 0.36
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.60
Consensus pattern (25 bp):
TGTTCTTGTAATACTTTTTCTTTGC
Found at i:22417087 original size:44 final size:44
Alignment explanation
Indices: 22416995--22417698 Score: 566
Period size: 44 Copynumber: 16.0 Consensus size: 44
22416985 TAAAAAGAAA
* * * * * *
22416995 GCAGATCTTGTCTTCATGTATTAG-CGTGAAGTAGATCGAAGGT
1 GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
* *
22417038 AGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT
1 -GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
* * ** * * *
22417083 GCAGAGCTTGTCTTCCCATGCTGGTGGCAAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG-AT
** * * * *
22417128 ATAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
* * * *
22417171 AGCAGGTCATGTCTTCCTATATTGGTAG-AAAGTGGATCGAAGAT
1 -GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
* * * *
22417215 ACAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG-AT
* * * *
22417260 GCAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCAAAGAT
1 GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
* * * *
22417303 AGCAGGTCCTGTCTTCCTATATTGGTA-AGAAGTGGATCGAAGAT
1 -GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
* *
22417347 GCAGATCTTGTCTTCAC-ATACTGGTGGCGAAGTAGATCGAAGAAAT
1 GCAGATCTTGTCTTC-CTATATTGGTAGCGAAGTAGATCGAAG--AT
* * * *
22417393 -CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
* * * *
22417435 AACAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT
1 -GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
* * * * * * *
22417479 GCACATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAAAA
1 GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
* * * * * *
22417523 GCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCAAAGACA
1 GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGA-T
* * * * *
22417567 GTAGATCATGTTTTCCTATATTGGTAGTGAAGTGGATCGAAGAT
1 GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
* * * * *
22417611 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG-AT
* * * *
22417656 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
22417699 AGCAAATTTT
Statistics
Matches: 514, Mismatches: 126, Indels: 41
0.75 0.19 0.06
Matches are distributed among these distances:
42 2 0.00
43 77 0.15
44 324 0.63
45 109 0.21
46 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (44 bp):
GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
Found at i:22417275 original size:132 final size:132
Alignment explanation
Indices: 22416989--22417702 Score: 1151
Period size: 132 Copynumber: 5.4 Consensus size: 132
22416979 GCTGGTTAAA
* * *
22416989 AAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGGTAGCAGATCCTGTCTTC
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
* * *
22417054 CTATATTGGTAGCGAAGTGGATCGAAGATGCAGAGCTTGTCTTCCCATGCTGGTGGCAAAGTAGA
66 CTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
22417119 TCG
130 TCG
** *
22417122 AAGAAAATAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCATGTCTTC
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
* * *
22417187 CTATATTGGTAGAAAGTGGATCGAAGATACAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGAT
66 CTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
22417252 CG
131 CG
* *
22417254 AAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTC
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
* *
22417319 CTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCACATACTGGTGGCGAAGTAGAT
66 CTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
22417384 CG
131 CG
* *
22417386 AAGAAATCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTGTCTTC
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
* *
22417451 CTATATTGGTAGGAAGTGGATCGAAGATGCACATCTTGTCTTCCCATACTAGTGGCGAAGTAGAT
66 CTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
22417516 CG
131 CG
* * * * * * *
22417518 AA-AAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGACAGTAGATCATGTTTTC
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
*
22417582 CTATATTGGTAGTGAAGTGGATCGAAGATACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
66 CTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
22417647 TCG
130 TCG
22417650 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
22417703 AATTTTATTC
Statistics
Matches: 533, Mismatches: 46, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
131 65 0.12
132 351 0.66
133 117 0.22
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (132 bp):
AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
CTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
CG
Found at i:22419104 original size:27 final size:27
Alignment explanation
Indices: 22419074--22419136 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
22419064 TATTTGTAAT
22419074 TATTTTTTATTTATATATACATATGTA
1 TATTTTTTATTTATATATACATATGTA
* * * *
22419101 TATTTGTTGTTTTTATATACATATTTA
1 TATTTTTTATTTATATATACATATGTA
22419128 T-TTTTTTAT
1 TATTTTTTAT
22419137 AAGTAATGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (27 bp):
TATTTTTTATTTATATATACATATGTA
Found at i:22419547 original size:26 final size:28
Alignment explanation
Indices: 22419499--22419553 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
22419489 CTTTGCTCGC
22419499 TATTTATTTATGTTTACATTCATGTATTTT
1 TATTTATTTA-GTTTACA-TCATGTATTTT
*
22419529 TATTTATTTA-TTTAC-TCATTTATTT
1 TATTTATTTAGTTTACATCATGTATTT
22419554 GATATTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 9 0.38
28 5 0.21
30 10 0.42
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (28 bp):
TATTTATTTAGTTTACATCATGTATTTT
Found at i:22425606 original size:20 final size:19
Alignment explanation
Indices: 22425568--22425619 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
22425558 GTAAAATTTC
*
22425568 TAAAAATAAATAAATAATA
1 TAAATATAAATAAATAATA
*
22425587 TAAATATAATATATATAATA
1 TAAATATAA-ATAAATAATA
*
22425607 AAAATATAAATAA
1 TAAATATAAATAA
22425620 TAAAAAACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAATATAAATAAATAATA
Found at i:22425624 original size:15 final size:15
Alignment explanation
Indices: 22425594--22425625 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22425584 ATATAAATAT
*
22425594 AATATATATAATAAA
1 AATATAAATAATAAA
22425609 AATATAAATAATAAA
1 AATATAAATAATAAA
22425624 AA
1 AA
22425626 ACCAGTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATAAATAATAAA
Found at i:22429316 original size:24 final size:24
Alignment explanation
Indices: 22429286--22429344 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
22429276 GCTATCTGGT
* *
22429286 GCTACCCGTTAATTGCTTTTCGGA
1 GCTACCCGTTAATTGCTCTTCAGA
*
22429310 GCTACCCATTAATTGCTCTTCAGA
1 GCTACCCGTTAATTGCTCTTCAGA
*
22429334 GCTACTCGTTA
1 GCTACCCGTTA
22429345 TAGGCTCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (24 bp):
GCTACCCGTTAATTGCTCTTCAGA
Found at i:22429386 original size:25 final size:24
Alignment explanation
Indices: 22429358--22429425 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
22429348 GCTCTTTGTG
* *
22429358 AGCTTCCCATTATATTGCTAGAATA
1 AGCTTCCCATTATAATGCT-CAATA
* * * *
22429383 AGCTTCCCGTTACAAGGCTCAATG
1 AGCTTCCCATTATAATGCTCAATA
*
22429407 AGCTTCCCATTATAGTGCT
1 AGCTTCCCATTATAATGCT
22429426 TGAGAGAGAG
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
24 18 0.55
25 15 0.45
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (24 bp):
AGCTTCCCATTATAATGCTCAATA
Found at i:22438137 original size:31 final size:28
Alignment explanation
Indices: 22438099--22438174 Score: 107
Period size: 31 Copynumber: 2.6 Consensus size: 28
22438089 ATCAACTTAA
22438099 GAAAAAGTGTCAAGTTTAGGTACCAAATTAG
1 GAAAAAGTGTCAAGTTTAGGTACC-AA--AG
* *
22438130 GAAAAAGTGTCAAGTTTGGGTGCCAAAG
1 GAAAAAGTGTCAAGTTTAGGTACCAAAG
22438158 GAAAAAGTGTCAAGTTT
1 GAAAAAGTGTCAAGTTT
22438175 GAGTGCCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 19 0.44
30 2 0.05
31 22 0.51
ACGTcount: A:0.39, C:0.09, G:0.26, T:0.25
Consensus pattern (28 bp):
GAAAAAGTGTCAAGTTTAGGTACCAAAG
Found at i:22438168 original size:28 final size:28
Alignment explanation
Indices: 22438099--22438184 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
22438089 ATCAACTTAA
* *
22438099 GAAAAAGTGTCAAGTTTAGGTACCAAATTAG
1 GAAAAAGTGTCAAGTTTGGGTGCC-AA--AG
22438130 GAAAAAGTGTCAAGTTTGGGTGCCAAAG
1 GAAAAAGTGTCAAGTTTGGGTGCCAAAG
*
22438158 GAAAAAGTGTCAAGTTTGAGTGCCAAA
1 GAAAAAGTGTCAAGTTTGGGTGCCAAA
22438185 TTGGACCAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 28 0.54
30 2 0.04
31 22 0.42
ACGTcount: A:0.40, C:0.10, G:0.27, T:0.23
Consensus pattern (28 bp):
GAAAAAGTGTCAAGTTTGGGTGCCAAAG
Found at i:22438382 original size:15 final size:15
Alignment explanation
Indices: 22438348--22438423 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
22438338 TTAGATTTAG
*
22438348 ATTTTAGATTTT-AG
1 ATTTTAGATTTTAAA
22438362 ATTTTAGATTTTAAA
1 ATTTTAGATTTTAAA
* *
22438377 ATTTTATATTTGAAA
1 ATTTTAGATTTTAAA
*
22438392 CTTTT-G-TTTTATAA
1 ATTTTAGATTTTA-AA
*
22438406 ATTTATA-ATTTTCAA
1 ATTT-TAGATTTTAAA
22438421 ATT
1 ATT
22438424 CTCTGTAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
13 4 0.08
14 17 0.35
15 24 0.49
16 4 0.08
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.57
Consensus pattern (15 bp):
ATTTTAGATTTTAAA
Found at i:22438387 original size:7 final size:7
Alignment explanation
Indices: 22438331--22438374 Score: 74
Period size: 7 Copynumber: 6.6 Consensus size: 7
22438321 TGAATTTGAA
22438331 TTTAGA-
1 TTTAGAT
22438337 TTTAGA-
1 TTTAGAT
22438343 TTTAGAT
1 TTTAGAT
22438350 TTTAGAT
1 TTTAGAT
22438357 TTTAGAT
1 TTTAGAT
22438364 TTTAGAT
1 TTTAGAT
22438371 TTTA
1 TTTA
22438375 AAATTTTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 12 0.32
7 25 0.68
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
TTTAGAT
Found at i:22442930 original size:21 final size:21
Alignment explanation
Indices: 22442884--22442941 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
22442874 GAGTACATTG
22442884 TAAACAGAAGCCCA-AA-TGC
1 TAAACAGAAGCCCATAAGTGC
** *
22442903 TGCACAGAAGCACATAAGTGC
1 TAAACAGAAGCCCATAAGTGC
*
22442924 TAAACAGAAACCCATAAG
1 TAAACAGAAGCCCATAAG
22442942 GGTTGAACGG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.47, C:0.24, G:0.17, T:0.12
Consensus pattern (21 bp):
TAAACAGAAGCCCATAAGTGC
Found at i:22442969 original size:21 final size:21
Alignment explanation
Indices: 22442901--22442971 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
22442891 AAGCCCAAAT
* *
22442901 GCTGCACAGAAGCACATAAGT
1 GCTGAACAGAAGCACATAAGA
* * * *
22442922 GCTAAACAGAAACCCATAAGG
1 GCTGAACAGAAGCACATAAGA
* * *
22442943 GTTGAACGGAAGCTCATAAGA
1 GCTGAACAGAAGCACATAAGA
22442964 GCTGAACA
1 GCTGAACA
22442972 AAAACCCAGA
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.14
Consensus pattern (21 bp):
GCTGAACAGAAGCACATAAGA
Found at i:22443034 original size:42 final size:41
Alignment explanation
Indices: 22442909--22443044 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 41
22442899 ATGCTGCACA
* * * * *
22442909 GAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGAACG
1 GAAGCTCATAAGAGCTGAACAGAAACCCATAA-GGTTAAACT
* *
22442951 GAAGCTCATAAGAGCTGAACAAAAACCCAGAAGGATTAAACT
1 GAAGCTCATAAGAGCTGAACAGAAACCCATAAGG-TTAAACT
*
22442993 GAAGCTCGA-AAGAGCTGAACTGAAACCCATTAAGGTTAAACT
1 GAAGCTC-ATAAGAGCTGAACAGAAACCCA-TAAGGTTAAACT
* *
22443035 AAAACTCATA
1 GAAGCTCATA
22443045 TGAGTTGATT
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
41 3 0.04
42 70 0.90
43 5 0.06
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (41 bp):
GAAGCTCATAAGAGCTGAACAGAAACCCATAAGGTTAAACT
Found at i:22451481 original size:25 final size:25
Alignment explanation
Indices: 22451441--22451499 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
22451431 TGAAAATGGG
*
22451441 GAGTTTTGGGTATTAGTTAAACGGT
1 GAGTTTTGGATATTAGTTAAACGGT
* *
22451466 GAGTTTTGGATGTTAGTTAGACGGT
1 GAGTTTTGGATATTAGTTAAACGGT
22451491 GAGTTTTGG
1 GAGTTTTGG
22451500 GGTGTTAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.20, C:0.03, G:0.36, T:0.41
Consensus pattern (25 bp):
GAGTTTTGGATATTAGTTAAACGGT
Found at i:22453571 original size:25 final size:25
Alignment explanation
Indices: 22453501--22453573 Score: 94
Period size: 25 Copynumber: 2.9 Consensus size: 25
22453491 GTTTTTCAGT
*
22453501 TAACACCTCAAAACTCACCGTCTAAC
1 TAACACC-CAAAACTCACCGTTTAAC
*
22453527 TAACATCCAAAACTCACCGTTTAAC
1 TAACACCCAAAACTCACCGTTTAAC
*
22453552 TAATACCCAAAACTTC-CCGTTT
1 TAACACCCAAAAC-TCACCGTTT
22453574 TCATTAACTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 34 0.81
26 8 0.19
ACGTcount: A:0.37, C:0.34, G:0.04, T:0.25
Consensus pattern (25 bp):
TAACACCCAAAACTCACCGTTTAAC
Found at i:22463639 original size:24 final size:25
Alignment explanation
Indices: 22463612--22463658 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22463602 AGATCGGTGG
22463612 CGAC-ACCAATTTTCGTTTTCAAGT
1 CGACTACCAATTTTCGTTTTCAAGT
* *
22463636 CGACTACTAATTTTTGTTTTCAA
1 CGACTACCAATTTTCGTTTTCAA
22463659 AAAAATGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.43
Consensus pattern (25 bp):
CGACTACCAATTTTCGTTTTCAAGT
Found at i:22473807 original size:49 final size:50
Alignment explanation
Indices: 22473716--22473814 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 50
22473706 AAGGAGAAGG
* * *
22473716 GACCAAGGTGAAAACCCGCAAAGGGCACTTTGATTTCTAAAAA-AAAAAA
1 GACCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCAAAAAATAAAAAA
* *
22473765 GACCAATGTGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAATAAAAAA
1 GACCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCAAAAAATAAAAAA
22473815 TAAACCAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 38 0.86
50 6 0.14
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.15
Consensus pattern (50 bp):
GACCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCAAAAAATAAAAAA
Found at i:22475488 original size:130 final size:130
Alignment explanation
Indices: 22475323--22475562 Score: 403
Period size: 130 Copynumber: 1.8 Consensus size: 130
22475313 GGAAGCAGTT
*
22475323 TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGAAAAATTTTATCTTTCCAATGA-AGTAG
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGAAAAATCTTATCTTTCCAA-GACAGTAG
* *
22475387 GGAAGCAGATTTAAGTCACTAGCCTTATCTCCCTGAGCAGCAGTGGTAGGTAGAAAATTACAGAT
65 GGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAACAGTGGTAGGTAGAAAATTACAGAT
22475452 C
130 C
**
22475453 TTATCTCCCTAAGCAGTAGTGGAGCAGAT-AGAAGACGGCAAATCTTATCTTTCCAAGACAGTAG
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCA-AAGACGAAAAATCTTATCTTTCCAAGACAGTAG
22475517 GGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAACAGTGG
65 GGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAACAGTGG
22475563 AGTCCTGAGC
Statistics
Matches: 103, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
129 3 0.03
130 100 0.97
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (130 bp):
TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGAAAAATCTTATCTTTCCAAGACAGTAGG
GAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAACAGTGGTAGGTAGAAAATTACAGATC
Found at i:22476758 original size:132 final size:134
Alignment explanation
Indices: 22476576--22476858 Score: 491
Period size: 132 Copynumber: 2.1 Consensus size: 134
22476566 TTTTTCTTTC
22476576 GTCTCTTTTTTATTCAAACACAGTAAAAGAGAAGGGGTTAGAAAGCTTATCTGGACGTCGGACCT
1 GTCTCTTTTTTATT-AAACACAGTAAAAGAGAAGGGGTTAGAAAGCTTATCTGGACGTCGGACCT
*
22476641 CGCTCTCTTCATCGAAATCGAAGTTTGAGAGGGGGTGGGTAGTTTTGCGGCAGAAGGAAAAGGGC
65 CGCTCTCTTCATCGAAATCGAAGTTTGAGAGGGGGTGGGTAGTTTTGCGGCAAAAGGAAAAGGGC
22476706 CTAGG
130 CTAGG
22476711 GTCTCTTTTTTATTAAA-A-AGTAAAAGAGAAGGGGTTAGAAAGCTTATCTGGACGTCGGACCTC
1 GTCTCTTTTTTATTAAACACAGTAAAAGAGAAGGGGTTAGAAAGCTTATCTGGACGTCGGACCTC
* *
22476774 GCTCTCTTCGTTGAAATCGAAGTTTGAGAGGGGGTGGGTAGTTTTGCGGCAAAAGGAAAAGGGCC
66 GCTCTCTTCATCGAAATCGAAGTTTGAGAGGGGGTGGGTAGTTTTGCGGCAAAAGGAAAAGGGCC
22476839 TAGG
131 TAGG
*
22476843 GT-TCTTTCTTTTTTAA
1 GTCTCTTT-TTTATTAA
22476859 TTTTTGTTTT
Statistics
Matches: 143, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
131 5 0.03
132 120 0.84
133 1 0.01
134 3 0.02
135 14 0.10
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (134 bp):
GTCTCTTTTTTATTAAACACAGTAAAAGAGAAGGGGTTAGAAAGCTTATCTGGACGTCGGACCTC
GCTCTCTTCATCGAAATCGAAGTTTGAGAGGGGGTGGGTAGTTTTGCGGCAAAAGGAAAAGGGCC
TAGG
Found at i:22483187 original size:25 final size:25
Alignment explanation
Indices: 22483159--22483265 Score: 160
Period size: 25 Copynumber: 4.3 Consensus size: 25
22483149 GGACACACCA
* * *
22483159 CAGCTCGCATGAGCTTCCTGATACT
1 CAGCTCGCATGAGCTTCCCGTTATT
*
22483184 CAGCTCGCATGAGCTTCCTGTTATT
1 CAGCTCGCATGAGCTTCCCGTTATT
*
22483209 TAGCTCGCATGAGCTTCCCGTTATT
1 CAGCTCGCATGAGCTTCCCGTTATT
*
22483234 CAGCTCGCATGAGATTCCCGTTATT
1 CAGCTCGCATGAGCTTCCCGTTATT
22483259 CAGCTCG
1 CAGCTCG
22483266 AAAAAGCTGA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 76 1.00
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.32
Consensus pattern (25 bp):
CAGCTCGCATGAGCTTCCCGTTATT
Found at i:22487172 original size:21 final size:21
Alignment explanation
Indices: 22487148--22487189 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
22487138 CTAGTTTATT
22487148 TTGAATATAATTATATTTAAA
1 TTGAATATAATTATATTTAAA
*
22487169 TTGAATGTAATTATATTTAAA
1 TTGAATATAATTATATTTAAA
22487190 CTAGCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (21 bp):
TTGAATATAATTATATTTAAA
Found at i:22488179 original size:41 final size:41
Alignment explanation
Indices: 22488134--22488260 Score: 209
Period size: 41 Copynumber: 3.1 Consensus size: 41
22488124 TTTATTGTCA
* *
22488134 GTGAAATAATTCAGACTTTATGTCTAGCAGGCTTGATGCCG
1 GTGAAATTATTCAGACTATATGTCTAGCAGGCTTGATGCCG
22488175 GTGAAATTATTCAGACTATATGTCTAGCAGGCTTGATGCCG
1 GTGAAATTATTCAGACTATATGTCTAGCAGGCTTGATGCCG
* * *
22488216 GTGAAATTATTCAGACTATACGTCTAGCAAGCTTAATGCCG
1 GTGAAATTATTCAGACTATATGTCTAGCAGGCTTGATGCCG
22488257 GTGA
1 GTGA
22488261 TACATTTCGG
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 81 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (41 bp):
GTGAAATTATTCAGACTATATGTCTAGCAGGCTTGATGCCG
Found at i:22488283 original size:82 final size:82
Alignment explanation
Indices: 22488134--22488289 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 82
22488124 TTTATTGTCA
* * * * * **
22488134 GTGAAATAATTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAATTATTCAGACTATATGTC
1 GTGAAATAATTCAGACTATACGTCTAGCAAGCTTAATGCCGGTGAAATTATTCAGACAATAAATC
22488199 TAGCAGGCTTGATGCCG
66 TAGCAGGCTTGATGCCG
* *
22488216 GTGAAATTATTCAGACTATACGTCTAGCAAGCTTAATGCCGGTGATACA-T-TTCGGACAATAAA
1 GTGAAATAATTCAGACTATACGTCTAGCAAGCTTAATGCCGGTGA-A-ATTATTCAGACAATAAA
*
22488279 TCTAGTAGGCT
64 TCTAGCAGGCT
22488290 AAAAGCCGGT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
82 59 0.95
83 2 0.03
84 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (82 bp):
GTGAAATAATTCAGACTATACGTCTAGCAAGCTTAATGCCGGTGAAATTATTCAGACAATAAATC
TAGCAGGCTTGATGCCG
Found at i:22495728 original size:41 final size:41
Alignment explanation
Indices: 22495683--22495808 Score: 126
Period size: 41 Copynumber: 3.1 Consensus size: 41
22495673 TTTATTGTCA
* * *
22495683 GTGAAATAATTCAGACTTTATGTCTAGCAGGCTTGATGCCG
1 GTGAAATAATTCAGACTATACGTCTAGCAGGCTTAATGCCG
* *
22495724 GTGAAATTATTCAGACTATACGTCTAGCAGGCTTAATGCTG
1 GTGAAATAATTCAGACTATACGTCTAGCAGGCTTAATGCCG
* * * * * * * * *
22495765 ATGATACATTTCGGACAATAAGTCTAGCAGGCTAAAAGCCG
1 GTGAAATAATTCAGACTATACGTCTAGCAGGCTTAATGCCG
22495806 GTG
1 GTG
22495809 TACTGAATCA
Statistics
Matches: 68, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (41 bp):
GTGAAATAATTCAGACTATACGTCTAGCAGGCTTAATGCCG
Found at i:22498306 original size:25 final size:25
Alignment explanation
Indices: 22498278--22498326 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
22498268 TGATACTCAG
*
22498278 CTCGCATGAGCTTCCCATTATTCAA
1 CTCGCATGACCTTCCCATTATTCAA
*
22498303 CTCGCATGACCTTCCCGTTATTCA
1 CTCGCATGACCTTCCCATTATTCA
22498327 GCTCAGAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (25 bp):
CTCGCATGACCTTCCCATTATTCAA
Done.