Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 105 of 213
Found at i:29757318 original size:17 final size:18
Alignment explanation
Indices: 29757278--29757319 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
29757268 GAAAGCTGAA
* *
29757278 TCATCCTTTTATTTTTTT
1 TCATTCTTTTATTTTTGT
*
29757296 TTATTCTTTTA-TTTTGT
1 TCATTCTTTTATTTTTGT
29757313 TCATTCT
1 TCATTCT
29757320 ATAATTCTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (18 bp):
TCATTCTTTTATTTTTGT
Found at i:29757939 original size:16 final size:17
Alignment explanation
Indices: 29757908--29757942 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
29757898 TTCTTAATTC
29757908 TAGACATTATATATTTT
1 TAGACATTATATATTTT
*
29757925 TAGACTTTA-ATATTTT
1 TAGACATTATATATTTT
29757941 TA
1 TA
29757943 AAAATTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (17 bp):
TAGACATTATATATTTT
Found at i:29773288 original size:20 final size:20
Alignment explanation
Indices: 29773260--29773297 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
29773250 AATATCAAAA
*
29773260 TTTATTTAT-TTACAAATATT
1 TTTAATTATATTA-AAATATT
29773280 TTTAATTATATTAAAATA
1 TTTAATTATATTAAAATA
29773298 AAATAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTAATTATATTAAAATATT
Found at i:29774338 original size:27 final size:27
Alignment explanation
Indices: 29774309--29774360 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
29774299 AAATTTCAAA
*
29774309 AAAACAAATA-ATAAACAAAAATAAAT
1 AAAACAAATACAAAAACAAAAATAAAT
* *
29774335 AAAACCAATACAAAAACAAAATTAAA
1 AAAACAAATACAAAAACAAAAATAAA
29774361 AGTCCAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.13
Consensus pattern (27 bp):
AAAACAAATACAAAAACAAAAATAAAT
Found at i:29784586 original size:21 final size:22
Alignment explanation
Indices: 29784538--29784588 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
29784528 TTAATTATTG
29784538 TTAAAAAT-TTTAAAATATATA
1 TTAAAAATATTTAAAATATATA
*
29784559 TT-TAAATATTT-AAATATACT-
1 TTAAAAATATTTAAAATATA-TA
29784579 TTAAAAATAT
1 TTAAAAATAT
29784589 ATTTTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAAAAATATTTAAAATATATA
Found at i:29786063 original size:16 final size:16
Alignment explanation
Indices: 29786042--29786075 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29786032 AAAATAATTT
*
29786042 CTTGAAACTTCTATCC
1 CTTGAAACTTCCATCC
*
29786058 CTTGAAATTTCCATCC
1 CTTGAAACTTCCATCC
29786074 CT
1 CT
29786076 AAAATTTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.32, G:0.06, T:0.38
Consensus pattern (16 bp):
CTTGAAACTTCCATCC
Found at i:29790416 original size:25 final size:25
Alignment explanation
Indices: 29790382--29790431 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
29790372 CATAATATAA
29790382 GTCATTTGAATATTTACCGTTCCTT
1 GTCATTTGAATATTTACCGTTCCTT
29790407 GTCATTTGAATATTTACCGTTCCTT
1 GTCATTTGAATATTTACCGTTCCTT
29790432 CTCTTTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (25 bp):
GTCATTTGAATATTTACCGTTCCTT
Found at i:29790747 original size:45 final size:45
Alignment explanation
Indices: 29790683--29790925 Score: 299
Period size: 45 Copynumber: 5.4 Consensus size: 45
29790673 GATCAGAGTG
* * *
29790683 TGCCATGGTATCTTTCAACCATGGTCTTATTTACTCTCGTCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCTTGA
*
29790728 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCTTGG
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCTTGA
* * *
29790773 TGCCATGGTGTCTTTCAACCATTGTCATATTTATTCTCGTCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCTTGA
* * * * * *
29790818 TGCCATAGTGTCTTTCAAACATGGTCTTATTCATTTTCCATCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCT-CGTCTTGA
* ** *
29790864 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATT-TAATTTGTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCT-TGA
*
29790909 TGCCATAGCGTCTTTCA
1 TGCCATAGTGTCTTTCA
29790926 GTTGTGGTCT
Statistics
Matches: 173, Mismatches: 23, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
44 2 0.01
45 132 0.76
46 39 0.23
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCTTGA
Found at i:29796724 original size:27 final size:29
Alignment explanation
Indices: 29796672--29796725 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
29796662 GTATGTATAT
*
29796672 ATGTATATATATATATATGAAAATAAAAA
1 ATGTATATAGATATATATGAAAATAAAAA
*
29796701 ATGTATATAGAT-TATA-GAATATAAA
1 ATGTATATAGATATATATGAAAATAAA
29796726 GAATATATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 8 0.35
28 4 0.17
29 11 0.48
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (29 bp):
ATGTATATAGATATATATGAAAATAAAAA
Found at i:29798755 original size:129 final size:129
Alignment explanation
Indices: 29798527--29799468 Score: 1566
Period size: 129 Copynumber: 7.3 Consensus size: 129
29798517 ATGATTCATC
* * * * ** * *
29798527 GTTTTAATTCGCTCCATTGCAACTTTAGGGAGATAGGATTAG--TAGCTTCAGTCTGCTGCACTA
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTCTTCTGTCTGCTCCACTA
29798590 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
66 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
* * *
29798654 GTTTTAATCCGCTCCACTACAAATTCAGGGAGATAGGATTGGTTTTTCTTCTGTCTACTCCACTA
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTCTTCTGTCTGCTCCACTA
* *
29798719 CTGCTTAAGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCATAGGGAGATAAGATCTGTG
66 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
* * *
29798783 GTTTTAATCCGCTACAGTACAACTTCAGGGAGATAGGATTGGTTTTTCTTCTGTCTGCTCCACTA
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTCTTCTGTCTGCTCCACTA
*
29798848 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATG
66 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
* *
29798912 GTTTTAATTCGCTCCACTGGAACTTCAGGGAGATAGGATTGGTTTTTCTTCTGTCTGCTCCACTA
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTCTTCTGTCTGCTCCACTA
29798977 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
66 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
* * *
29799041 GTTTTAATCCACTCCACTGCAACTTCAGGGAGATATGATTGGTTTTTCTTCTGCCTGCTCCACTA
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTCTTCTGTCTGCTCCACTA
*
29799106 CTGCTTAGAGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
66 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
* *
29799170 GTTTTAATCCGCTCCACTGCAAATTTAGGGAGATAGGATTGGTTTTTCTTCTG-CTTGCTCCACT
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTCTTCTGTC-TGCTCCACT
*
29799234 ACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTGTG
65 ACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
*
29799299 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTCTTCTGCCTGCTCCACTA
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTCTTCTGTCTGCTCCACTA
* * **
29799364 CTGCTCAGGGAGATAAGACTTGATACGATCTGCTCCACTACTGCACAGGGAGATAAGATCTGTG
66 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
*
29799428 GTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTG
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTG
29799469 ATTTCTTTCA
Statistics
Matches: 767, Mismatches: 44, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
127 36 0.05
128 1 0.00
129 729 0.95
130 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (129 bp):
GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTCTTCTGTCTGCTCCACTA
CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
Found at i:29799108 original size:89 final size:86
Alignment explanation
Indices: 29798748--29799381 Score: 331
Period size: 89 Copynumber: 7.3 Consensus size: 86
29798738 TTGATGCGAT
* * *
29798748 CTGCTCCACTACTGCATAGGGAGATAAGATCTGTGGTTTTAATCCGCTACAGTACAACTTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTT-AGGG
* * *
29798813 AGATAGGATTGGTTTTTCTTCTGT
65 AGATAAGATT-GTTTTTCTTAT-C
* *** * **
29798837 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGCGATCTGCTCCACTACTGCTTAGGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTAGGGA
* * * *
29798899 GATAAGATCTATGGTTT-TAATT
66 GATAAGAT-TGT-TTTTCTTATC
**** * * ** **
29798921 C-GCTCCACTGGAACTTCAGGGAGATAGGAT-TG-GTTTTTCTTCTGTCTGCTCCACTACTGCTT
1 CTGCTCCACTACTGCTT-AGGGAGATAAGATCTGTGGTTTTAATC---C-GCTCCACTACAACTT
* * *
29798983 AGGGAGATAAGACTTG--ATGC-GAT-
61 AGGGAGATAAGA-TTGTTTTTCTTATC
* *
29799006 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTT-AGGG
* *
29799071 AGATATGATTGGTTTTTCTTCTGC
65 AGATAAGATT-GTTTTTCTTAT-C
* * *** * **
29799095 CTGCTCCACTACTGCTTAGAGAGATAAGA-CT-T-GATGCGATCTGCTCCACTACTGCTTAGGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTAGGGA
* *
29799157 GATAAGATCTGTGGTTT-TAATC
66 GATAAGAT-TGT-TTTTCTTATC
* *** * * ** **
29799179 C-GCTCCACTGCAAATTTAGGGAGATAGGAT-TG-GTTTTTCTTCTGCTTGCTCCACTACTGCTT
1 CTGCTCCACTAC-TGCTTAGGGAGATAAGATCTGTGGTTTTAATC--C--GCTCCACTACAACTT
* * *
29799241 AGGGAGATAAGACTTG--ATGC-GAT-
61 AGGGAGATAAGA-TTGTTTTTCTTATC
* *
29799264 CTGCTCCACTACTGCTCAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTT-AGGG
* *
29799329 AGATAGGATTGGTTTTTCTTCTGC
65 AGATAAGATT-GTTTTTCTTAT-C
*
29799353 CTGCTCCACTACTGCTCAGGGAGATAAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGA
29799382 CTTGATACGA
Statistics
Matches: 406, Mismatches: 95, Indels: 88
0.69 0.16 0.15
Matches are distributed among these distances:
83 47 0.12
84 54 0.13
85 65 0.16
86 74 0.18
87 18 0.04
88 4 0.01
89 142 0.35
90 2 0.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (86 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTAGGGA
GATAAGATTGTTTTTCTTATC
Found at i:29799573 original size:50 final size:49
Alignment explanation
Indices: 29799502--29800323 Score: 397
Period size: 50 Copynumber: 16.5 Consensus size: 49
29799492 GTCGGGGAAC
29799502 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
1 AAGATTCGCCGTTGTA-CTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* *
29799552 AAGATTCGCCATTGTGACTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
1 AAGATTCGCCGTTGT-ACTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * ** * * ** * * * *** **
29799602 AAGATTTGCCATTGCGGCTTCAGTCTTTTTAATTGTAATTTTAGGGAAAC
1 AAGATTCGCCGTTG-TACTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * * * * * *
29799652 GAGATTCGTCGTGGTAGTTTCAATTTGTTCCACTGCACCGTCAGGGAAGT
1 AAGATTCGCCGTTGTA-CTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * * ** * * * * *
29799702 AACATTCACCGTTGTGGCTTCAATCT-TTGTAATTGCAATGTCAGAGAA-C
1 AAGATTCGCCGTTGT-ACTTCAATCTGTT-CCACTGCACTGCCAGGGAAGT
*
29799751 AAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTGCAGC-GCCAGGGAAGT
1 AAGATTCGCCGTTGTA-CTTCAATCTGTTCCACTGCA-CTGCCAGGGAAGT
* * ** * * * **
29799801 AAGATTCGCCGTTCCG-GCTTCAATCTTTTTAATTGCAATGTCAGGGAAAC
1 AAGATTCGCCGTT--GTACTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * ** *
29799851 GAGATTCACCGTCATAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
1 AAGATTCGCCGTTGTA-CTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * * ** * * ** * * * *
29799901 AAAATTCACTGTTGCGGCTTCAATATTTTTAATTGCAATGTCAGGGAA-C
1 AAGATTCGCCGTTG-TACTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * *
29799950 AAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCA-TCACCAGGGAAGT
1 AAGATTCGCCGTTGTA-CTTCAATCTGTTCCACTGCACT-GCCAGGGAAGT
** * * *
29800000 AAGATTCGCCGTTGCGGCTTCAATCT-TT-AACTATG-A-TGTCAGGGAAAT
1 AAGATTCGCCGTTG-TACTTCAATCTGTTCCAC--TGCACTGCCAGGGAAGT
* ** *
29800048 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCACTAAGGG-AGT
1 AAGATTCGCCGTTGTA-CTTCAATCTGTTCCACTGCACTGC-CAGGGAAGT
* ** * * ** * * * *
29800098 AAAATTCGCCGTTGCGGCTTCAATATTTTTAATTGCAATGTCAAGGAAGT
1 AAGATTCGCCGTTG-TACTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * *
29800148 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGGGAGT
1 AAGATTCGCCGTTGTA-CTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * * ** * * * ** *
29800198 AAGATTCACCGTTGCAACTTCAATCTTTTTAATTGTAATGTTAGGGAAGC
1 AAGATTCGCCGTTG-TACTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * * *
29800248 AAGATTCGCCATTGTAGCTTTAATCTGTTCCACTGCACCGCCAAGGAAGT
1 AAGATTCGCCGTTGTA-CTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* *
29800298 AAGATTCACCGTTGCGACTTCAATCT
1 AAGATTCGCCGTTG-TACTTCAATCT
29800324 TTTTAACCGT
Statistics
Matches: 544, Mismatches: 195, Indels: 66
0.68 0.24 0.08
Matches are distributed among these distances:
48 35 0.06
49 78 0.14
50 423 0.78
51 7 0.01
52 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (49 bp):
AAGATTCGCCGTTGTACTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
Found at i:29799795 original size:199 final size:199
Alignment explanation
Indices: 29799552--29800329 Score: 1017
Period size: 199 Copynumber: 3.9 Consensus size: 199
29799542 CCAGGGAAGT
* * *
29799552 AAGATTCGCCATTGT-GACTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTTGCCATTG
1 AAGATTCGCCGTTGTAG-CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTG
* * * * ** * * *
29799616 CGGCTTCAGTCTTTTTAATTGTAATTTTAGGGAAACGAGATTCGTCGTGGTAGTTTCAATTTGTT
65 CGGCTTCAATCTTTTTAATTGTAATGTCAGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGTT
* * * * *
29799681 CCACTGCACCGTCAGGGAAGTAACATTCACCGTTGTGGCTTCAATCTTTGTAATTGCAATGTCAG
130 CCACTGCACCGCCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATATTTTTAATTGCAATGTCAG
29799746 AGAAC
195 AGAAC
* * *
29799751 AAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTGCAGCGCCAGGGAAGTAAGATTCGCCGTTCC
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGC
* * **
29799816 GGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACGAGATTCACCGTCATAGCTTCAATCTGTTC
66 GGCTTCAATCTTTTTAATTGTAATGTCAGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGTTC
* *
29799881 CACTGCACCGCCAGGGAAGTAAAATTCACTGTTGCGGCTTCAATATTTTTAATTGCAATGTCAGG
131 CACTGCACCGCCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATATTTTTAATTGCAATGTCAGA
29799946 GAAC
196 GAAC
* * * *
29799950 AAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCATCACCAGGGAAGTAAGATTCGCCGTTGC
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGC
* * * *
29800015 GGCTTCAATC--TTTAACTATGATGTCAGGGAAATAAGATTCACCGTTGTAGCTTCAATCTGTTC
66 GGCTTCAATCTTTTTAATTGTAATGTCAGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGTTC
* * *
29800078 CACTGCACCACTAAGGG-AGTAAAATTCGCCGTTGCGGCTTCAATATTTTTAATTGCAATGTCA-
131 CACTGCACCGC-CAGGGAAGTAAAATTCACCGTTGCGGCTTCAATATTTTTAATTGCAATGTCAG
*
29800141 AGGAAGT
195 A-GAA-C
* * *
29800148 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGGGAGTAAGATTCACCGTTGC
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGC
** * * * * *
29800213 AACTTCAATCTTTTTAATTGTAATGTTAGGGAAGCAAGATTCGCCATTGTAGCTTTAATCTGTTC
66 GGCTTCAATCTTTTTAATTGTAATGTCAGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGTTC
* * * *
29800278 CACTGCACCGCCAAGGAAGTAAGATTCACCGTTGCGACTTCAATCTTTTTAA
131 CACTGCACCGCCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATATTTTTAA
29800330 CCGTAATGCC
Statistics
Matches: 504, Mismatches: 68, Indels: 13
0.86 0.12 0.02
Matches are distributed among these distances:
197 102 0.20
198 70 0.14
199 246 0.49
200 86 0.17
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (199 bp):
AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGC
GGCTTCAATCTTTTTAATTGTAATGTCAGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGTTC
CACTGCACCGCCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATATTTTTAATTGCAATGTCAGA
GAAC
Found at i:29800337 original size:100 final size:100
Alignment explanation
Indices: 29799502--29800329 Score: 970
Period size: 100 Copynumber: 8.3 Consensus size: 100
29799492 GTCGGGGAAC
* ** * ** * * * ** *
29799502 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGTAAGATTCGCCATTGT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCGCCGTTGT
29799567 -GACTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
66 AG-CTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
** * * * * * * * *
29799602 AAGATTTGCCATTGCGGCTTCAGTCTTTTTAATTGTAATTTTAGGGAAACGAGATTCGTCGTGGT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCGCCGTTGT
* * *
29799667 AGTTTCAATTTGTTCCACTGCACCGTCAGGGAAGT
66 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
* * * * *
29799702 AACATTCACCGTTGTGGCTTCAATCTTTGTAATTGCAATGTCAGAG-AACAAGATTCGTCGTTGT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCGCCGTTGT
*
29799766 AGCTTCAATCTGTTCCACTGCAGCGCCAGGGAAGT
66 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
* * * * **
29799801 AAGATTCGCCGTTCCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACGAGATTCACCGTCAT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCGCCGTTGT
29799866 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
66 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
* * * *
29799901 AAAATTCACTGTTGCGGCTTCAATATTTTTAATTGCAATGTCAGGG-AACAAGATTCACCGTTGT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCGCCGTTGT
* * *
29799965 AGCTTCAATCTGATCCACTGCATCACCAGGGAAGT
66 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
* * *
29800000 AAGATTCGCCGTTGCGGCTTCAATC--TTTAACTATG--ATGTCAGGGAAATAAGATTCACCGTT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAA-T-TGCAATGTCAGGGAAACAAGATTCGCCGTT
* *
29800061 GTAGCTTCAATCTGTTCCACTGCACCACTAAGGG-AGT
64 GTAGCTTCAATCTGTTCCACTGCACCGC-CAGGGAAGT
* * * * **
29800098 AAAATTCGCCGTTGCGGCTTCAATATTTTTAATTGCAATGTCAAGGAAGTAAGATTCGCCGTTGT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCGCCGTTGT
* *
29800163 AGCTTCAATCTGTTCCACTGCACCGCTAGGGGAGT
66 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
** * * * *
29800198 AAGATTCACCGTTGCAACTTCAATCTTTTTAATTGTAATGTTAGGGAAGCAAGATTCGCCATTGT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCGCCGTTGT
* *
29800263 AGCTTTAATCTGTTCCACTGCACCGCCAAGGAAGT
66 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
*
29800298 AAGATTCACCGTTGCGACTTCAATCTTTTTAA
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAA
29800330 CCGTAATGCC
Statistics
Matches: 624, Mismatches: 93, Indels: 22
0.84 0.13 0.03
Matches are distributed among these distances:
97 14 0.02
98 70 0.11
99 166 0.27
100 373 0.60
101 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (100 bp):
AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCGCCGTTGT
AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
Found at i:29810180 original size:61 final size:60
Alignment explanation
Indices: 29810115--29810305 Score: 194
Period size: 61 Copynumber: 3.2 Consensus size: 60
29810105 ATTTTATAGT
*
29810115 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAA-ACTAAGAATTTTATTAA
* * * * * * * * * *
29810176 ATTATATATTTTTA-TTAAATTATATTTA-ATAATTATTATTTTAAA-TTA-TATTTTA-TAGT
1 ATTATATATTATGATTTTAA-TAAATTCATATAA-GAATA-TTTAAACTAAGAATTTTATTA-A
29810235 ATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAACACTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAA-ACTAAGAATTTTATTAA
29810296 ATTATATATT
1 ATTATATATT
29810306 TTTGTTAATT
Statistics
Matches: 99, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
58 7 0.07
59 28 0.28
60 19 0.19
61 38 0.38
62 7 0.07
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (60 bp):
ATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAAACTAAGAATTTTATTAA
Found at i:29810275 original size:59 final size:59
Alignment explanation
Indices: 29810092--29810275 Score: 187
Period size: 59 Copynumber: 3.1 Consensus size: 59
29810082 TAATAATAAT
*
29810092 TATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
1 TATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAATAAATTCATATAAGAA
* * * * * * * * * *
29810151 TA-TTTAATACTAAGAATTTTATTA-AATTATATATTTTTA-TTAAATTATATTTA-ATAATTAT
1 TATTTTAA-A-TTA-TATTTTA-TAGTATTATATATTATGATTTTAA-TAAATTCATATAA-GAA
29810212 TATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAATAAATTCATATAAGAA
1 TATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAATAAATTCATATAAGAA
29810271 TATTT
1 TATTT
29810276 AACACTAAGA
Statistics
Matches: 94, Mismatches: 21, Indels: 20
0.70 0.16 0.15
Matches are distributed among these distances:
58 7 0.07
59 33 0.35
60 19 0.20
61 28 0.30
62 7 0.07
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (59 bp):
TATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAATAAATTCATATAAGAA
Found at i:29810302 original size:59 final size:58
Alignment explanation
Indices: 29810119--29810302 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 58
29810109 TATAGTATTA
*
29810119 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAAT
1 TATATTATGATTTTAATAAATTCATATAAGAATATTTAA-ACTAAGAATTTTATTAAAT
* * * *
29810178 TATA-TAT--TTTTATTAAATT-ATATTTAATAATTATTATTTTAAA-TTA-TATTTTA-TAGTA
1 TATATTATGATTTTAATAAATTCATA--TAA-GA--A-TA-TTTAAACTAAGAATTTTATTA--A
*
29810236 TT
57 AT
29810238 ATATATTATGATTTTAATAAATTCATATAAGAATATTTAACACTAAGAATTTTATTAAAT
1 -TATATTATGATTTTAATAAATTCATATAAGAATATTTAA-ACTAAGAATTTTATTAAAT
29810298 TATAT
1 TATAT
29810303 ATTTTTGTTA
Statistics
Matches: 97, Mismatches: 10, Indels: 36
0.68 0.07 0.25
Matches are distributed among these distances:
55 3 0.03
56 11 0.11
57 3 0.03
58 11 0.11
59 18 0.19
60 10 0.10
61 13 0.13
62 11 0.11
63 3 0.03
64 11 0.11
65 3 0.03
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (58 bp):
TATATTATGATTTTAATAAATTCATATAAGAATATTTAAACTAAGAATTTTATTAAAT
Found at i:29810317 original size:103 final size:102
Alignment explanation
Indices: 29810185--29810423 Score: 306
Period size: 103 Copynumber: 2.4 Consensus size: 102
29810175 AATTATATAT
29810185 TTTTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
29810250 TTTAATAAATTCATATAAGAATATTTAACACTAAGAA
66 TTTAATAAATTCATATAAGAATATTTAACACTAAGAA
* ** *
29810287 TTTTATTAAATTATATATT-TTTGTTAATTATTTTAAATTATATTTTATAGTATTGTATATTATG
1 TTTTATTAAATTATAT-TTAATAATT-ATTATTTTAAATTATATTTTATAGTATTATATATTATG
* *** * * *
29810351 ATTTTAGTAAATTCATAT-ATTTTA-TTAA-ATTATATAT
64 ATTTTAATAAATTCATATAAGAATATTTAACACTA-AGAA
* *
29810388 TTTTATTAAATTATATTTAATAATAATTATATTAAA
1 TTTTATTAAATTATATTTAATAATTATTATTTTAAA
29810424 ATATGATTAA
Statistics
Matches: 117, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
100 15 0.13
101 24 0.21
102 22 0.19
103 56 0.48
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (102 bp):
TTTTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
TTTAATAAATTCATATAAGAATATTTAACACTAAGAA
Found at i:29810347 original size:120 final size:120
Alignment explanation
Indices: 29810071--29810333 Score: 455
Period size: 120 Copynumber: 2.2 Consensus size: 120
29810061 AAGTAGATTA
* *
29810071 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAAT
*
29810136 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAACACTAAGAATTTTATTAAATTATATATTTTTAT
29810191 TAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAAT
1 TAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAAT
*
29810256 AAATTCATATAAGAATATTTAACACTAAGAATTTTATTAAATTATATATTTTTGT
66 AAATTCATATAAGAATATTTAACACTAAGAATTTTATTAAATTATATATTTTTAT
29810311 T-AATTAT-TTT-A-AATTA-TATTTTA
1 TAAATTATATTTAATAATTATTATTTTA
29810334 TAGTATTGTA
Statistics
Matches: 139, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
115 7 0.05
116 5 0.04
117 1 0.01
118 3 0.02
119 6 0.04
120 117 0.84
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (120 bp):
TAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAAT
AAATTCATATAAGAATATTTAACACTAAGAATTTTATTAAATTATATATTTTTAT
Found at i:29810374 original size:18 final size:17
Alignment explanation
Indices: 29810351--29810403 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
29810341 GTATATTATG
*
29810351 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
29810369 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
29810386 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
29810404 TTAATAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:29810645 original size:46 final size:44
Alignment explanation
Indices: 29810562--29810654 Score: 132
Period size: 46 Copynumber: 2.1 Consensus size: 44
29810552 TTACAACATT
* *
29810562 ATTCCATTCAACTAAACAGAAGAATACTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATACTATTACGCCTCTATTCC
* *
29810606 ATTCCATTCAACCGAACAAAAGGATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAA-GAATA-CTATTACGCCTCTATTCC
29810652 ATT
1 ATT
29810655 ACAGCGAACC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 18 0.42
45 4 0.09
46 21 0.49
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (44 bp):
ATTCCATTCAACCAAACAAAAGAATACTATTACGCCTCTATTCC
Found at i:29820726 original size:41 final size:41
Alignment explanation
Indices: 29820669--29820774 Score: 185
Period size: 41 Copynumber: 2.6 Consensus size: 41
29820659 AATGAGATAA
* *
29820669 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
29820710 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
*
29820751 TTCGGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
29820775 AATTGCCAGT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
Found at i:29840197 original size:23 final size:22
Alignment explanation
Indices: 29840171--29840223 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
29840161 TTGAGAGTGA
*
29840171 AAAAGAAATT-GAAGAAAGAAGAG
1 AAAAGAAATTAGAA-AAAGAA-AC
29840194 AAAATG-AATTAGAAAAAGAAAC
1 AAAA-GAAATTAGAAAAAGAAAC
29840216 AAAAGAAA
1 AAAAGAAA
29840224 AAGACGTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 1 0.04
22 7 0.27
23 14 0.54
24 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAGAAATTAGAAAAAGAAAC
Found at i:29846333 original size:42 final size:42
Alignment explanation
Indices: 29846273--29846356 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
29846263 TCATACGAAG
* *
29846273 CAAATAGCAACGAGAGGTAGAAATAATATATTTATTTGTTAA
1 CAAATAGCAACGACAGGTAGAAACAATATATTTATTTGTTAA
29846315 CAAATAGCAACGACAGGTAGAAACAATATATTTATTTGTTAA
1 CAAATAGCAACGACAGGTAGAAACAATATATTTATTTGTTAA
29846357 AATATTAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (42 bp):
CAAATAGCAACGACAGGTAGAAACAATATATTTATTTGTTAA
Found at i:29846929 original size:14 final size:15
Alignment explanation
Indices: 29846898--29846931 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
29846888 TGACATGTGT
29846898 AAATATGTTTTAAAA
1 AAATATGTTTTAAAA
29846913 AAATATGTTTTAAAA
1 AAATATGTTTTAAAA
29846928 AAAT
1 AAAT
29846932 TCATATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
AAATATGTTTTAAAA
Found at i:29864763 original size:16 final size:15
Alignment explanation
Indices: 29864736--29864769 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
29864726 ATAACTAGTA
*
29864736 TATAATTATATTTAT
1 TATAATTATATTAAT
29864751 TATAATATATATTAAT
1 TATAAT-TATATTAAT
29864767 TAT
1 TAT
29864770 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:29867216 original size:19 final size:19
Alignment explanation
Indices: 29867192--29867230 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
29867182 GTTCGTATGG
29867192 TTAAACTTTAAAGTTTATA
1 TTAAACTTTAAAGTTTATA
29867211 TTAAACTTTAAAGTTTATA
1 TTAAACTTTAAAGTTTATA
29867230 T
1 T
29867231 ATATGAAATT
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:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
TTAAACTTTAAAGTTTATA
Found at i:29867562 original size:42 final size:43
Alignment explanation
Indices: 29867492--29867619 Score: 172
Period size: 42 Copynumber: 3.0 Consensus size: 43
29867482 TGAGTTTTCG
* * * *
29867492 TTCAACCCTTACGGGTTT-TCGTTCAGCTCTTTTGAGCTTCTGT
1 TTCAACCCTTATGGGTTTCT-TTTTAGCTCTTATGAGCTTCTGT
* *
29867535 TT-AACCCTTATGGGTTTCTTTTTAGCTCTTACGAGCTT-TAT
1 TTCAACCCTTATGGGTTTCTTTTTAGCTCTTATGAGCTTCTGT
29867576 TTCAACCCTTATGGGTTTCTTTTTAGCTCTTATGAGCTTCTGT
1 TTCAACCCTTATGGGTTTCTTTTTAGCTCTTATGAGCTTCTGT
29867619 T
1 T
29867620 CAGCCTTCGG
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 4 0.05
42 64 0.86
43 6 0.08
ACGTcount: A:0.14, C:0.22, G:0.16, T:0.48
Consensus pattern (43 bp):
TTCAACCCTTATGGGTTTCTTTTTAGCTCTTATGAGCTTCTGT
Found at i:29867616 original size:21 final size:21
Alignment explanation
Indices: 29867516--29867616 Score: 78
Period size: 21 Copynumber: 4.8 Consensus size: 21
29867506 GTTTTCGTTC
* *
29867516 AGCTCTTTTGAGCTTCTGTTT
1 AGCTCTTATGAGCTTCTTTTT
* * * *
29867537 AACCCTTATGGGTTTCTTTTT
1 AGCTCTTATGAGCTTCTTTTT
* *
29867558 AGCTCTTACGAGCTT-TATTTC
1 AGCTCTTATGAGCTTCT-TTTT
* * * *
29867579 AACCCTTATGGGTTTCTTTTT
1 AGCTCTTATGAGCTTCTTTTT
29867600 AGCTCTTATGAGCTTCT
1 AGCTCTTATGAGCTTCT
29867617 GTTCAGCCTT
Statistics
Matches: 56, Mismatches: 22, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
20 1 0.02
21 54 0.96
22 1 0.02
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.49
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTTTTT
Found at i:29869106 original size:25 final size:22
Alignment explanation
Indices: 29869058--29869106 Score: 53
Period size: 25 Copynumber: 2.1 Consensus size: 22
29869048 CATACTTCCA
**
29869058 GAACATAAAAAATTAGAATTTT
1 GAACATAAAAAATTAGAAAATT
29869080 GAACATAATAAAAGCTTAGAAAATT
1 GAACATAA-AAAA--TTAGAAAATT
29869105 GA
1 GA
29869107 GTAATAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 8 0.36
23 4 0.18
25 10 0.45
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (22 bp):
GAACATAAAAAATTAGAAAATT
Found at i:29874637 original size:43 final size:43
Alignment explanation
Indices: 29874548--29874673 Score: 141
Period size: 43 Copynumber: 2.9 Consensus size: 43
29874538 AGCTCGTACA
* *
29874548 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATACTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATACTG
*
29874591 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACATACT-G
* * * *
29874634 ATGCCGACATCCCAAACGTGGTCTTACACGAAAACACATA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATA
29874674 TCGGAGTCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
42 5 0.07
43 62 0.87
44 4 0.06
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATACTG
Found at i:29876860 original size:21 final size:21
Alignment explanation
Indices: 29876836--29876880 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
29876826 AGATAGGGAG
29876836 TGACACTTACAATTTCATTAT
1 TGACACTTACAATTTCATTAT
*
29876857 TGACACTTACAATTTTATTAT
1 TGACACTTACAATTTCATTAT
29876878 TGA
1 TGA
29876881 TAAAGGTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (21 bp):
TGACACTTACAATTTCATTAT
Found at i:29879811 original size:15 final size:15
Alignment explanation
Indices: 29879791--29879820 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
29879781 AATCGCTTGA
29879791 ACATGCTTTGTGAAT
1 ACATGCTTTGTGAAT
29879806 ACATGCTTTGTGAAT
1 ACATGCTTTGTGAAT
29879821 GCAACACAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (15 bp):
ACATGCTTTGTGAAT
Found at i:29880153 original size:88 final size:90
Alignment explanation
Indices: 29879938--29880153 Score: 233
Period size: 90 Copynumber: 2.4 Consensus size: 90
29879928 ACCAAAAATT
* * * * * * *
29879938 TTGCAGGTTAATACATTGCCAAATGGTTGTGAATACACAACATATTTGCAAATAAGAGCTTCTAG
1 TTGCAGATTAATACACTGCCAGATGGTTGTGAATACACAACATATTCGCAAATAAGAACTGCCAG
* *
29880003 ATATTGGATGGATGAACCAACGATG
66 AAAGTGGATGGATGAACCAACGATG
* * * *
29880028 TTGCAGGTTAATACACTACTAGATGGTTGTGAGTACACAACATATTCG-AAGATAAGAACTGCCA
1 TTGCAGATTAATACACTGCCAGATGGTTGTGAATACACAACATATTCGCAA-ATAAGAACTGCCA
* *
29880092 -AAAGTGGGTGGATGAACC-AC-CTG
65 GAAAGTGGATGGATGAACCAACGATG
* *
29880115 TTTTCAGATTTATACACTGCCAGATGGTTGTGAATACAC
1 -TTGCAGATTAATACACTGCCAGATGGTTGTGAATACAC
29880154 CATAGGGTTG
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
87 2 0.02
88 34 0.32
89 17 0.16
90 52 0.50
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (90 bp):
TTGCAGATTAATACACTGCCAGATGGTTGTGAATACACAACATATTCGCAAATAAGAACTGCCAG
AAAGTGGATGGATGAACCAACGATG
Found at i:29882418 original size:21 final size:21
Alignment explanation
Indices: 29882402--29882455 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
29882392 ATGAGGGTCT
*
29882402 ACACTCCCATGTGGAGGCTAC
1 ACACGCCCATGTGGAGGCTAC
* *
29882423 ACACGCCCATGTGAAGGCCAC
1 ACACGCCCATGTGGAGGCTAC
29882444 ACACGCCCATGT
1 ACACGCCCATGT
29882456 AAACAGCCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.26, C:0.37, G:0.22, T:0.15
Consensus pattern (21 bp):
ACACGCCCATGTGGAGGCTAC
Found at i:29886814 original size:20 final size:19
Alignment explanation
Indices: 29886773--29886814 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 19
29886763 GTCAAAATTA
29886773 TTCTAAGTGTTTAAAGCATT
1 TTCTAAGTGTTTAAAG-ATT
29886793 TTCTAAGCTGTTTGAAAG-TT
1 TTCTAAG-TGTTT-AAAGATT
29886813 TT
1 TT
29886815 GAAATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 11 0.55
21 5 0.25
22 4 0.20
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.48
Consensus pattern (19 bp):
TTCTAAGTGTTTAAAGATT
Found at i:29897183 original size:17 final size:17
Alignment explanation
Indices: 29897161--29897193 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29897151 TTATACTACA
29897161 AAATATTTATTATTAAT
1 AAATATTTATTATTAAT
*
29897178 AAATATTTTTTATTAA
1 AAATATTTATTATTAA
29897194 AACATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AAATATTTATTATTAAT
Found at i:29897263 original size:16 final size:16
Alignment explanation
Indices: 29897232--29897268 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
29897222 ATTTGAAGAA
29897232 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
29897248 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
29897264 TATTA
1 TATTA
29897269 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:29897277 original size:18 final size:19
Alignment explanation
Indices: 29897254--29897289 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
29897244 TTATTATTTT
*
29897254 TAAAATTTAT-TATTAAAA
1 TAAAATTGATATATTAAAA
29897272 TAAAATTGATATATTAAA
1 TAAAATTGATATATTAAA
29897290 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TAAAATTGATATATTAAAA
Found at i:29897322 original size:31 final size:30
Alignment explanation
Indices: 29897253--29897329 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 30
29897243 ATTATTATTT
29897253 TTAAAATTTATTATTAAAATAAAATTGATA
1 TTAAAATTTATTATTAAAATAAAATTGATA
*
29897283 TATTAAA-TTATTTATTAAAATAATGAATT-ATA
1 T-TAAAATTTA-TTATTAAAATAA--AATTGATA
29897315 TTAAAATTTTATTAT
1 TTAAAA-TTTATTAT
29897330 ATGATTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
30 4 0.10
31 20 0.51
32 8 0.21
33 7 0.18
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
TTAAAATTTATTATTAAAATAAAATTGATA
Found at i:29897426 original size:17 final size:18
Alignment explanation
Indices: 29897399--29897432 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29897389 TATATTAATA
*
29897399 TTTTAATAAATTTAAATG
1 TTTTAATAAATATAAATG
29897417 TTTTAA-AAATATAAAT
1 TTTTAATAAATATAAAT
29897433 AAAAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TTTTAATAAATATAAATG
Found at i:29903346 original size:21 final size:21
Alignment explanation
Indices: 29903320--29903360 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29903310 AGACGAGCAA
* *
29903320 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
29903341 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
29903361 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:29909433 original size:23 final size:23
Alignment explanation
Indices: 29909407--29909456 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
29909397 TTAATATTTA
29909407 TATTTGACTATTT-TATATATGTT
1 TATTT-ACTATTTGTATATATGTT
* * *
29909430 TATTTATTGTTTGTATATTTGTT
1 TATTTACTATTTGTATATATGTT
29909453 TATT
1 TATT
29909457 ATTCATGAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.66
Consensus pattern (23 bp):
TATTTACTATTTGTATATATGTT
Found at i:29913734 original size:40 final size:40
Alignment explanation
Indices: 29913613--29913752 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 40
29913603 AACTTTGAGT
* * *
29913613 CGATGAGACACTAGGTGTCAAATTATTACTTCGGATATATT
1 CGATGAGACATTGGGTGTCAAATTATTACTTCGGAT-TATC
* * * *
29913654 CGATGAGGCATTGTGTGTC-AA-T-TTACTTCGGTTTAGC
1 CGATGAGACATTGGGTGTCAAATTATTACTTCGGATTATC
*
29913691 CGATGAGACATTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACATTGGGTGTCAAATTATTACTTCGGATTATC
* * *
29913731 CGATGAGGCAGTGGGTGCCAAA
1 CGATGAGACATTGGGTGTCAAA
29913753 CTGGATTGTA
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
37 19 0.23
38 12 0.15
39 2 0.02
40 33 0.41
41 15 0.19
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (40 bp):
CGATGAGACATTGGGTGTCAAATTATTACTTCGGATTATC
Found at i:29924487 original size:27 final size:27
Alignment explanation
Indices: 29924457--29924517 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
29924447 TCATATTGCG
29924457 CCACAAAAAAGTTCCTTTCATAATTCA
1 CCACAAAAAAGTTCCTTTCATAATTCA
** * * *
29924484 CCACAAAGGATTTTCTTTCATATTTCA
1 CCACAAAAAAGTTCCTTTCATAATTCA
29924511 CCACAAA
1 CCACAAA
29924518 GGGTTTAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (27 bp):
CCACAAAAAAGTTCCTTTCATAATTCA
Found at i:29924529 original size:27 final size:27
Alignment explanation
Indices: 29924472--29924529 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
29924462 AAAAAGTTCC
**
29924472 TTTCATAATTCACCACAAAGGATTTTC
1 TTTCATAATTCACCACAAAGGATTTAA
* *
29924499 TTTCATATTTCACCACAAAGGGTTTAA
1 TTTCATAATTCACCACAAAGGATTTAA
29924526 TTTC
1 TTTC
29924530 CTTATGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.40
Consensus pattern (27 bp):
TTTCATAATTCACCACAAAGGATTTAA
Found at i:29939051 original size:23 final size:23
Alignment explanation
Indices: 29939008--29939054 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
29938998 TTTAGTAATA
*
29939008 AATATTTTATAGAATAAAATATG
1 AATATTTTATAAAATAAAATATG
*
29939031 AATATTTTATTAAAAT-TAATATG
1 AATATTTTA-TAAAATAAAATATG
29939054 A
1 A
29939055 GTTTTTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (23 bp):
AATATTTTATAAAATAAAATATG
Found at i:29958942 original size:21 final size:22
Alignment explanation
Indices: 29958909--29958951 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
29958899 CAAATTTCAG
*
29958909 AAATTGATATTT-ATTTTTTAA
1 AAATTGATATTTAATTATTTAA
* *
29958930 AAATTTATTTTTAATTATTTAA
1 AAATTGATATTTAATTATTTAA
29958952 TTTAAATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
AAATTGATATTTAATTATTTAA
Found at i:29962449 original size:94 final size:94
Alignment explanation
Indices: 29962315--29962502 Score: 252
Period size: 94 Copynumber: 2.0 Consensus size: 94
29962305 TATTTTTAAG
* * * *
29962315 GCTCGTTGATTTACGATCACAGTCTAAGTTCATTGATTTACAATTATGAACAAGTTT-TCCTGAG
1 GCTCGGTGATTTACAATCACAGCCTAAGTTCATTGATTTACAATCATGAACAA-TTTCTCCTGAG
29962379 TTTGCTGACTTACAATCACAACTCCAAATA
65 TTTGCTGACTTACAATCACAACTCCAAATA
* * * *
29962409 GCTCGGTGATTTACAATCACAGCCTAAGTTTATTGATTTACGATCATGAATAATTTCTCTTGAGT
1 GCTCGGTGATTTACAATCACAGCCTAAGTTCATTGATTTACAATCATGAACAATTTCTCCTGAGT
* * **
29962474 TTGTTGATTTATTATCACAACTCCAAATA
66 TTGCTGACTTACAATCACAACTCCAAATA
29962503 ACTCACTAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
93 3 0.04
94 78 0.96
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (94 bp):
GCTCGGTGATTTACAATCACAGCCTAAGTTCATTGATTTACAATCATGAACAATTTCTCCTGAGT
TTGCTGACTTACAATCACAACTCCAAATA
Found at i:29962491 original size:63 final size:63
Alignment explanation
Indices: 29962415--29962687 Score: 212
Period size: 63 Copynumber: 4.3 Consensus size: 63
29962405 AATAGCTCGG
* * * * *
29962415 TGATTTACAATCACAGCCTAAGTTTATTGATTTACGATCATGAATAATTTCTCTTGAGTTTGT
1 TGATTTACGATCACAACCTAAATTCATTAATTTACGATCATGAATAATTTCTCTTGAGTTTGT
** * * * * * * *
29962478 TGATTTATTATCACAACTCCAAATAACTCACTAATTTACGATCAT-AGTTGATAT-TATTAAGGC
1 TGATTTACGATCACAAC-CTAAAT---TCATTAATTTACGATCATGA-ATAATTTCTCTTGA-G-
29962541 TTT-T
59 TTTGT
* * * * * * *
29962545 TGATTTACGATCACAACCTAAGTTCATTGATTAACGATCATGAACAATTTCTCCTGAGTTCGC
1 TGATTTACGATCACAACCTAAATTCATTAATTTACGATCATGAATAATTTCTCTTGAGTTTGT
* *
29962608 TGATTTACGATCACAACCTAAATTCATTAATTTACGATCATGAATAATATT-TCCTGAGTTAGT
1 TGATTTACGATCACAACCTAAATTCATTAATTTACGATCATGAATAAT-TTCTCTTGAGTTTGT
* * *
29962671 GGATTCACAATCACAAC
1 TGATTTACGATCACAAC
29962688 TTAGGTACGA
Statistics
Matches: 161, Mismatches: 38, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
62 2 0.01
63 101 0.63
64 10 0.06
66 9 0.06
67 36 0.22
68 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (63 bp):
TGATTTACGATCACAACCTAAATTCATTAATTTACGATCATGAATAATTTCTCTTGAGTTTGT
Found at i:29962574 original size:27 final size:27
Alignment explanation
Indices: 29962544--29962647 Score: 73
Period size: 27 Copynumber: 3.5 Consensus size: 27
29962534 TTAAGGCTTT
29962544 TTGATTTACGATCACAACCTAAGTTCA
1 TTGATTTACGATCACAACCTAAGTTCA
* * *
29962571 TTGATTAACGATCATGAACAATTTCTCCTGAGTTCG
1 TTGATTTACGATC----ACAA-----CCTAAGTTCA
* *
29962607 CTGATTTACGATCACAACCTAAATTCA
1 TTGATTTACGATCACAACCTAAGTTCA
*
29962634 TTAATTTACGATCA
1 TTGATTTACGATCA
29962648 TGAATAATAT
Statistics
Matches: 58, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
27 31 0.53
31 4 0.07
32 4 0.07
36 19 0.33
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (27 bp):
TTGATTTACGATCACAACCTAAGTTCA
Found at i:29962594 original size:130 final size:126
Alignment explanation
Indices: 29962415--29962648 Score: 324
Period size: 130 Copynumber: 1.8 Consensus size: 126
29962405 AATAGCTCGG
* * * * * * *
29962415 TGATTTACAATCACAGCCTAAGTTTATTGATTTACGATCATGAATAATTTCTCTTGAGTTTGTTG
1 TGATTTACAATCACAACCTAAGTTCATTGATTAACGATCATGAACAATTTCTCCTGAGTTCGCTG
**
29962480 ATTTATTATCACAACTCCAAATAACTCACTAATTTACGATCATAGTTGATATTATTAAGGCTTTT
66 ATTTACGATCACAAC-CCAAAT---TCACTAATTTACGATCATAGTTGATATTATTAAGGCTTTT
*
29962545 TGATTTACGATCACAACCTAAGTTCATTGATTAACGATCATGAACAATTTCTCCTGAGTTCGCTG
1 TGATTTACAATCACAACCTAAGTTCATTGATTAACGATCATGAACAATTTCTCCTGAGTTCGCTG
* *
29962610 ATTTACGATCACAACCTAAATTCATTAATTTACGATCAT
66 ATTTACGATCACAACCCAAATTCACTAATTTACGATCAT
29962649 GAATAATATT
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
126 17 0.18
129 5 0.05
130 70 0.76
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (126 bp):
TGATTTACAATCACAACCTAAGTTCATTGATTAACGATCATGAACAATTTCTCCTGAGTTCGCTG
ATTTACGATCACAACCCAAATTCACTAATTTACGATCATAGTTGATATTATTAAGGCTTTT
Found at i:29970273 original size:16 final size:16
Alignment explanation
Indices: 29970254--29970287 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
29970244 TGAAATGAAT
*
29970254 ATGTGTAAATATGATA
1 ATGTGAAAATATGATA
29970270 ATGTGAAAATATGATA
1 ATGTGAAAATATGATA
29970286 AT
1 AT
29970288 TGGATATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (16 bp):
ATGTGAAAATATGATA
Found at i:29974500 original size:83 final size:85
Alignment explanation
Indices: 29974399--29974566 Score: 286
Period size: 85 Copynumber: 2.0 Consensus size: 85
29974389 AAGGGGATGT
*
29974399 GGATGAAGGGAGCTCTACATGTAGCAACAGA-G-GTGAGTTTAAGGCTAGCAATGGAGAAAAGAG
1 GGATGAAGGGAGCTCTACATGTAGCAACAGAGGTGTGAGTTTAAGGCTAACAATGGAGAAAAGAG
29974462 GAACTGGTAAGTCTCTTTAC
66 GAACTGGTAAGTCTCTTTAC
**
29974482 GGATGAAGGGAGCTCTACATGTAGCAGTAGAGGTGTGAGTTTAAGGCTAACAATGGAGAAAAGAG
1 GGATGAAGGGAGCTCTACATGTAGCAACAGAGGTGTGAGTTTAAGGCTAACAATGGAGAAAAGAG
*
29974547 GAACTGGTAAGTTTCTTTAC
66 GAACTGGTAAGTCTCTTTAC
29974567 CTCCCTCTAT
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
83 29 0.37
84 1 0.01
85 49 0.62
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.23
Consensus pattern (85 bp):
GGATGAAGGGAGCTCTACATGTAGCAACAGAGGTGTGAGTTTAAGGCTAACAATGGAGAAAAGAG
GAACTGGTAAGTCTCTTTAC
Found at i:29985610 original size:62 final size:57
Alignment explanation
Indices: 29985523--29985635 Score: 138
Period size: 62 Copynumber: 1.9 Consensus size: 57
29985513 TATATATACA
*
29985523 TTTTTTATAATATATATATACACACACTTTTCCA-AATTATTATAAATATATTTTCTGCAT
1 TTTTTTATAATACATATATACACACA-TTTT-CATAA-T-TTATAAATATATTTTCTGCAT
* *
29985583 TTTTCTTATATATACATATATATACACATTTTCATAATTTATTAATATATTTT
1 TTTT-TTATA-ATACATATATACACACATTTTCATAATTTATAAATATATTTT
29985636 ACTTGTATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
59 14 0.30
60 7 0.15
61 11 0.23
62 15 0.32
ACGTcount: A:0.36, C:0.12, G:0.01, T:0.51
Consensus pattern (57 bp):
TTTTTTATAATACATATATACACACATTTTCATAATTTATAAATATATTTTCTGCAT
Found at i:29985804 original size:19 final size:20
Alignment explanation
Indices: 29985769--29985813 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
29985759 TCATGTTTAT
29985769 ATATTTTATATAATATATAC
1 ATATTTTATATAATATATAC
* *
29985789 ATATTTTGTAAATATATATAC
1 ATATTTTATATA-ATATATAC
29985810 ATAT
1 ATAT
29985814 AATTTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (20 bp):
ATATTTTATATAATATATAC
Found at i:29990476 original size:41 final size:41
Alignment explanation
Indices: 29990431--29990531 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 41
29990421 GCTTAGCGCT
*
29990431 TAGCAGGCTTATTGCCGGTAAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTAAAACACTTCAGACTAAATGTC
* * * *
29990472 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTAAAACACTTCAGACTAAATGTC
29990513 TAGCAGGC-TAAGTGCCGGT
1 TAGCAGGCTTAA-TGCCGGT
29990532 GTACTGAATC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 3 0.06
41 51 0.94
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTAAAACACTTCAGACTAAATGTC
Found at i:29996801 original size:15 final size:15
Alignment explanation
Indices: 29996772--29996815 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
29996762 AAAGATGTGA
29996772 AAAAATG-AAAA-GG
1 AAAAATGAAAAATGG
29996785 AAAAATGAAAAATGG
1 AAAAATGAAAAATGG
29996800 AAAAA-GTAAAAATGG
1 AAAAATG-AAAAATGG
29996815 A
1 A
29996816 GAGGCTAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.25
14 5 0.18
15 16 0.57
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.11
Consensus pattern (15 bp):
AAAAATGAAAAATGG
Found at i:29998184 original size:88 final size:88
Alignment explanation
Indices: 29998075--29998386 Score: 498
Period size: 88 Copynumber: 3.5 Consensus size: 88
29998065 CTGAAGATAG
* *
29998075 CAGATCTTGCCTTCCTATACTGACAGAGAAGCAGATCGAAGATACCAGCCTTGTCTCCCTGGGCA
1 CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGTCTCCCTGGGCA
*
29998140 GTAGTGAAGTAGGTTGAAAATGA
66 GTAGTGGAGTAGGTTGAAAATGA
*
29998163 CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGTCTCCCTGGGTA
1 CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGTCTCCCTGGGCA
29998228 GTAGTGGAGTAGGTTGAAAATGA
66 GTAGTGGAGTAGGTTGAAAATGA
* *
29998251 CAGATATTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTATCTCCCTGGGCA
1 CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGTCTCCCTGGGCA
* * *
29998316 ATAGTGGAGTAGGTTAAAAATAA
66 GTAGTGGAGTAGGTTGAAAATGA
* * * * *
29998339 CAAATCTTGCCTTCTTGTACTGGCAGCGAAGTAGATCGAAGACACCAG
1 CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAG
29998387 TCTTATCACC
Statistics
Matches: 208, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 208 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGTCTCCCTGGGCA
GTAGTGGAGTAGGTTGAAAATGA
Found at i:29998479 original size:50 final size:50
Alignment explanation
Indices: 29998415--29998889 Score: 326
Period size: 50 Copynumber: 9.5 Consensus size: 50
29998405 GCAATTAAAA
* * *
29998415 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAGC
*** * * * * ** **
29998465 AGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAA
1 AGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAGC
* *
29998515 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTAATGGAGC
1 AGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAGC
* * * *** * * * * ** **
29998565 AGATTAAAGTCACAACAGCGGATCTGGTTTCCCCGACAGCGCAATTAAAA
1 AGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAGC
* * *
29998615 AGATTGAAGCCACAACGGCAGATCTTAATTCCCTGGCGGTGTAATGGAGC
1 AGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAGC
* *** * * * * ** **
29998665 AGATTGAAGTCATAACGGCAGATCTGGTTTCGCC-GACAGCGTAATTAAAA
1 AGATTGAAGTCACAACGGCAGATCTTACTTC-CCTGGCGGTGCAATGGAGC
*
29998715 AGATTGAA-TCCACAATGGCAGATCTTACTTCCCTGGCGGTGCAGA-GGAGC
1 AGATTGAAGT-CACAACGGCAGATCTTACTTCCCTGGCGGTGCA-ATGGAGC
* * *** * * * * ** **
29998765 AGATTGAAGTCACAACGGTAAATCTGGTTTCCCCGACAGCGCAATTAAAA
1 AGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAGC
* * * *
29998815 AGGTTGAAGCCACAACGGCAGATCTTACTTCCTTGGCGGTGTAATGGAGC
1 AGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAGC
*
29998865 AGATTGAAGTCACAACGGCGGATCT
1 AGATTGAAGTCACAACGGCAGATCT
29998890 GGTTTCCCCG
Statistics
Matches: 301, Mismatches: 118, Indels: 12
0.70 0.27 0.03
Matches are distributed among these distances:
49 4 0.01
50 293 0.97
51 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.22
Consensus pattern (50 bp):
AGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAGC
Found at i:29998575 original size:100 final size:100
Alignment explanation
Indices: 29998399--29998938 Score: 866
Period size: 100 Copynumber: 5.4 Consensus size: 100
29998389 TTATCACCTT
* * *
29998399 GACAGCGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAG
1 GACAGCGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTAATGGAG
29998464 CAGATTGAAGTCACAACGGCAGATCTGGTTTCCCC
66 CAGATTGAAGTCACAACGGCAGATCTGGTTTCCCC
29998499 GACAGCGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTAATGGAG
1 GACAGCGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTAATGGAG
* * *
29998564 CAGATTAAAGTCACAACAGCGGATCTGGTTTCCCC
66 CAGATTGAAGTCACAACGGCAGATCTGGTTTCCCC
*
29998599 GACAGCGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTAATTCCCTGGCGGTGTAATGGAG
1 GACAGCGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTAATGGAG
* *
29998664 CAGATTGAAGTCATAACGGCAGATCTGGTTTCGCC
66 CAGATTGAAGTCACAACGGCAGATCTGGTTTCCCC
* * * *
29998699 GACAGCGTAATTAAAAAGATTGAATCCACAATGGCAGATCTTACTTCCCTGGCGGTGCAGA-GGA
1 GACAGCGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTA-ATGGA
* *
29998763 GCAGATTGAAGTCACAACGGTAAATCTGGTTTCCCC
65 GCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCC
* *
29998799 GACAGCGCAATTAAAAAGGTTGAAGCCACAACGGCAGATCTTACTTCCTTGGCGGTGTAATGGAG
1 GACAGCGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTAATGGAG
*
29998864 CAGATTGAAGTCACAACGGCGGATCTGGTTTCCCC
66 CAGATTGAAGTCACAACGGCAGATCTGGTTTCCCC
* * *
29998899 GACAACGCAATTAAAAAAGATTAAAGCCACAACAGCAGAT
1 GACAGCGCAATT-AAAAAGATTGAAGCCACAACGGCAGAT
29998939 TTTTACCTCC
Statistics
Matches: 403, Mismatches: 34, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
99 1 0.00
100 377 0.94
101 25 0.06
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (100 bp):
GACAGCGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTAATGGAG
CAGATTGAAGTCACAACGGCAGATCTGGTTTCCCC
Found at i:30000749 original size:62 final size:58
Alignment explanation
Indices: 30000678--30000792 Score: 142
Period size: 62 Copynumber: 1.9 Consensus size: 58
30000668 ATATATATAC
*
30000678 TTTTTTTATAAATATATATATACACACACTTTTCCA-AATTATTATAAATATATTTTCTGCA
1 TTTTTTTATAAATACATATATACACACA-TTTT-CATAA-T-TTATAAATATATTTTCTGCA
* * *
30000739 TTTTTCTTATATATACATATATATACACATTTTCATAATTTATTAATATATTTT
1 TTTTT-TTATAAATACATATATACACACATTTTCATAATTTATAAATATATTTT
30000793 ACTTGTATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
59 14 0.29
60 3 0.06
61 11 0.23
62 20 0.42
ACGTcount: A:0.37, C:0.11, G:0.01, T:0.51
Consensus pattern (58 bp):
TTTTTTTATAAATACATATATACACACATTTTCATAATTTATAAATATATTTTCTGCA
Found at i:30000933 original size:10 final size:9
Alignment explanation
Indices: 30000910--30000946 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
30000900 TTTTCCCGTA
30000910 TTATATAAT
1 TTATATAAT
*
30000919 TTATATATGT
1 TTATATA-AT
30000929 TTATATAAT
1 TTATATAAT
30000938 TTATATAAT
1 TTATATAAT
30000947 ATATTCATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
TTATATAAT
Found at i:30000985 original size:21 final size:22
Alignment explanation
Indices: 30000931--30000986 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
30000921 ATATATGTTT
* *
30000931 ATATAATTTATATAATATATTC
1 ATATAATTTAAATAATATATAC
*
30000953 ATAT-TTTGTAAAT-ATATATAC
1 ATATAATT-TAAATAATATATAC
30000974 ATATAATTTAAAT
1 ATATAATTTAAAT
30000987 TAAAATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATAATTTAAATAATATATAC
Found at i:30003324 original size:19 final size:21
Alignment explanation
Indices: 30003286--30003325 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
30003276 CTTGTTTTGA
*
30003286 TTAAATAAATTATTTAAAATT
1 TTAAATAAATTATATAAAATT
30003307 TTAAA-AAA-TATATAAAATT
1 TTAAATAAATTATATAAAATT
30003326 GATTAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 3 0.17
21 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAATAAATTATATAAAATT
Found at i:30005376 original size:124 final size:125
Alignment explanation
Indices: 30005150--30005420 Score: 383
Period size: 124 Copynumber: 2.2 Consensus size: 125
30005140 TTATTTCGAG
* * **
30005150 TTGACGTTTCT-GGTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATCAGAGAAGAAATTGT
1 TTGACGTTTCTAAG-CAAATAGTATAAAATCACTGATACCAGGATGCTATCAGAGAAGAAATTGT
*
30005214 GAAATCGTGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGTCA-GAAATAA-T-TTTT
65 GAAATCGCGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGT-AGGAAATAATTATTTT
*
30005273 TTGACGTTTTCTAAGCAAATAGTATAAAATTACTGATACCAGGATGCTAT-ATGAGAAGAAATTG
1 TTGACG-TTTCTAAGCAAATAGTATAAAATCACTGATACCAGGATGCTATCA-GAGAAGAAATTG
*
30005337 TGAAATCGCGCCCTCGTGGACGCGATTTC-GCTACAGTTGGTCATGTAGGAAATAATTATTTT
64 TGAAATCGCGCCCTCGTGGACGCCATTTCGGC-ACAGTTGGTCATGTAGGAAATAATTATTTT
*
30005399 TTGACGTTTCTGAGCAAATAGT
1 TTGACGTTTCTAAGCAAATAGT
30005421 GTCAAATCGT
Statistics
Matches: 133, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
123 10 0.08
124 96 0.72
125 17 0.13
126 10 0.08
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTAAGCAAATAGTATAAAATCACTGATACCAGGATGCTATCAGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGTAGGAAATAATTATTTT
Found at i:30008581 original size:28 final size:28
Alignment explanation
Indices: 30008549--30009247 Score: 805
Period size: 28 Copynumber: 23.9 Consensus size: 28
30008539 GATTATCAAA
30008549 TTAGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAGG
* **
30008577 TTAGGGTTAGGGTTTTTAATTTAATTAAA
1 TTA-GGTTAGGGTTTTTAATTAAATTAGG
*
30008606 TTAGGATAGGGTTTTTAATTAAATTAAATTAGG
1 TTAGGTTAGGG--TTT--TT-AATTAAATTAGG
30008639 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTA-GGTTAGGGTTTTTAATTAAATTAGG
*
30008668 TTAGGCTAGGGTTTTTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAGG
30008696 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTA-GGTTAGGGTTTTTAATTAAATTAGG
30008725 TTAGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAGG
* **
30008753 TTAGGTTAGGGTTTTTAATTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAATTAGG
*
30008781 TTAGGATAGGGTTTTTAATTAAATTAAATTAGG
1 TTAGGTTAGGG--TTT--TT-AATTAAATTAGG
30008814 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTA-GGTTAGGGTTTTTAATTAAATTAGG
* *
30008843 TTAGGTTAGAGTTTTTAATTTAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAGG
* **
30008871 TTAGGGTTTAGGGTTTTTAATTTAATTAAA
1 TTA-GG-TTAGGGTTTTTAATTAAATTAGG
*
30008901 TTAGGATAGGGTTTTTAATTAAATCAAATTAGG
1 TTAGGTTAGGGTTTTTAA-T---T-AAATTAGG
*
30008934 TTAGGGTTAGAGTTTTTAATTAAATTAGG
1 TTA-GGTTAGGGTTTTTAATTAAATTAGG
30008963 TTAGGTTAGGGTTTTTAATT-AA--A--
1 TTAGGTTAGGGTTTTTAATTAAATTAGG
30008986 TTAGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAGG
*
30009014 TTAGGTTAGGGTTTTTAATTTAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAGG
* **
30009042 TTAGGGTTTAGGGTTTTTAATTTAATTAAA
1 TTA-GG-TTAGGGTTTTTAATTAAATTAGG
*
30009072 TTAGGATAGGGTTTTTAATTAAATTAAATTAGG
1 TTAGGTTAGGG--TTT--TT-AATTAAATTAGG
*
30009105 TTAGGGTTAGGATTTTTAATTAAATTAGG
1 TTA-GGTTAGGGTTTTTAATTAAATTAGG
*
30009134 TTAGGTTAGGGCTTTTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAGG
30009162 TTAGGTTAGGGTTTTTAATTAAATTAAATTAGG
1 TTAGGTTAGGG--TTT--TT-AATTAAATTAGG
* **
30009195 TTAGGGTTAGGGTTTTTAATTTAATTAAA
1 TTA-GGTTAGGGTTTTTAATTAAATTAGG
30009224 TTAGGTTAGGGTTTTTAATTAAAT
1 TTAGGTTAGGGTTTTTAATTAAAT
30009248 CAAATAATAT
Statistics
Matches: 584, Mismatches: 46, Indels: 82
0.82 0.06 0.12
Matches are distributed among these distances:
23 20 0.03
24 2 0.00
25 1 0.00
26 1 0.00
27 2 0.00
28 240 0.41
29 129 0.22
30 67 0.11
32 21 0.04
33 60 0.10
34 41 0.07
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (28 bp):
TTAGGTTAGGGTTTTTAATTAAATTAGG
Found at i:30008616 original size:57 final size:57
Alignment explanation
Indices: 30008546--30009252 Score: 820
Period size: 62 Copynumber: 12.1 Consensus size: 57
30008536 TAAGATTATC
*
30008546 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTTAATT
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
*
30008603 AAATTAGGATAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
1 AAATTAGGTTAGGG--TTT--TT-AATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
** *
30008665 AGGTTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
** *
30008722 AGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTAATT
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
*
30008778 AAATTAGGATAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
1 AAATTAGGTTAGGG--TTT--TT-AATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
** * * *
30008840 AGGTTAGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTAGGGTTTTTAATTTAATT
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAATTAAATT
* *
30008898 AAATTAGGATAGGGTTTTTAATTAAATCAAATTAGGTTAGGGTTAGAGTTTTTAATTAAATT
1 AAATTAGGTTAGGGTTTTTAA-T---T-AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
**
30008960 AGGTTAGGTTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTTAATTAAATT
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
** * *
30009011 AGGTTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTAGGGTTTTTAATTTAATT
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAATTAAATT
* *
30009069 AAATTAGGATAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAATT
1 AAATTAGGTTAGGG--TTT--TT-AATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
** *
30009131 AGGTTAGGTTAGGGCTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTAAATT
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
* ** *
30009187 AAATTAGGTTAGGGTTAGGGTTTTTAATTTAATTAAATTA-GGTTAGGGTTTTTAATTAAATC
1 -AA--A--TTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
30009249 AAAT
1 AAAT
30009253 AATATCAAAA
Statistics
Matches: 568, Mismatches: 47, Indels: 70
0.83 0.07 0.10
Matches are distributed among these distances:
51 44 0.08
52 5 0.01
54 2 0.00
56 58 0.10
57 120 0.21
58 76 0.13
59 5 0.01
60 13 0.02
61 23 0.04
62 192 0.34
63 30 0.05
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.46
Consensus pattern (57 bp):
AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
Found at i:30009012 original size:18 final size:21
Alignment explanation
Indices: 30008967--30009018 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 21
30008957 ATTAGGTTAG
30008967 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTAAA-TA
30008989 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
30009012 GGTTAGG
1 -GTTAGG
30009019 TTAGGGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTAAATA
Found at i:30009247 original size:62 final size:60
Alignment explanation
Indices: 30008549--30009245 Score: 684
Period size: 57 Copynumber: 11.8 Consensus size: 60
30008539 GATTATCAAA
**
30008549 TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAAATTA-GGTTAGGGTTTTTAA-TTAATTAAATTAGG
30008611 --A---TAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTAGGGTTT--TTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTT----TTTAATTAATTAAATTAGG
* **
30008668 TTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG--TTT--TTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAAATTA-GGTTAGGGTTTTTAATTAATTAAATTAGG
**
30008725 TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAA-TTAATTAAATTAGG
30008786 --A---TAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTAGGGTTT--TTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTT----TTTAATTAATTAAATTAGG
* * **
30008843 TTAGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAAATTA-GG-TTAGGGTTTTTAA-TTAATTAAATTAGG
*
30008906 --A---TAGGGTTTTTAATTAAATCAAATTAGGTTAGGGTTAGAGTTT--TTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTT----TTTAATTAATTAAATTAGG
30008963 TTAGGTTAGGG--TTT--TT-AATTAAATTAGGTTAGGG--TTT--TTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAATTAAATTAGG
* **
30009014 TTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAAATTA-GG-TTAGGGTTTTTAA-TTAATTAAATTAGG
30009077 --A---TAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTAGGATTT--TTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTT----TTTAATTAATTAAATTAGG
* **
30009134 TTAGGTTAGGGCTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATT-AATTAAATTAGG
*
30009195 TTAGGGTTAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTTTTAATTAA
1 TTA-GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAA
30009246 ATCAAATAAT
Statistics
Matches: 543, Mismatches: 29, Indels: 127
0.78 0.04 0.18
Matches are distributed among these distances:
51 28 0.05
53 3 0.01
55 2 0.00
56 75 0.14
57 149 0.27
58 56 0.10
59 5 0.01
60 24 0.04
61 33 0.06
62 122 0.22
63 38 0.07
64 8 0.01
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (60 bp):
TTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAATTAAATTAGG
Found at i:30011409 original size:14 final size:15
Alignment explanation
Indices: 30011392--30011425 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
30011382 AATATTTATC
30011392 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
30011406 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
30011421 TAAAA
1 TAAAA
30011426 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:30011558 original size:28 final size:28
Alignment explanation
Indices: 30011523--30011579 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
30011513 TTGAAAATAT
* *
30011523 TAAAAATA-TTAAAATTATTTTTAAAAAA
1 TAAAAATATTTAAAAGT-TTCTTAAAAAA
30011551 TAAAAATATTTAAAAGTTTCTTAAAAAA
1 TAAAAATATTTAAAAGTTTCTTAAAAAA
30011579 T
1 T
30011580 GAAATTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (28 bp):
TAAAAATATTTAAAAGTTTCTTAAAAAA
Found at i:30011560 original size:19 final size:21
Alignment explanation
Indices: 30011522--30011561 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
30011512 GTTGAAAATA
*
30011522 TTAAAAATATTAAAATTATTT
1 TTAAAAATATTAAAAATATTT
30011543 TTAAAAA-A-TAAAAATATTT
1 TTAAAAATATTAAAAATATTT
30011562 AAAAGTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAAATATTAAAAATATTT
Found at i:30011657 original size:21 final size:21
Alignment explanation
Indices: 30011613--30011661 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
30011603 TAATATGGAG
*
30011613 TTGAGAGATTTTTTGAAGGAAAT
1 TTGAG-GA-TTTTGGAAGGAAAT
30011636 TGTGAGGATTTTGGAAGG-AAT
1 T-TGAGGATTTTGGAAGGAAAT
30011657 TTGAG
1 TTGAG
30011662 AGTTTAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 9 0.38
23 3 0.12
24 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.37
Consensus pattern (21 bp):
TTGAGGATTTTGGAAGGAAAT
Found at i:30011693 original size:22 final size:22
Alignment explanation
Indices: 30011668--30011714 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
30011658 TGAGAGTTTA
*
30011668 AGAGAATTTTGGAAGGAATTTG
1 AGAGAATTTTGGAAGGAAATTG
* *
30011690 AGAGAATTTTTGAATGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
30011712 AGA
1 AGA
30011715 TGGGATTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:30011699 original size:52 final size:52
Alignment explanation
Indices: 30011616--30011714 Score: 126
Period size: 52 Copynumber: 1.9 Consensus size: 52
30011606 TATGGAGTTG
* * * * *
30011616 AGAGATTTTTTGAAGGAAATTGTGAGGATTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
* * *
30011668 AGAGAATTTTGGAAGGAATTTGAGAGAATTTTTGAATGAAATTGAGA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGA
30011715 TGGGATTTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.34
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
Found at i:30016487 original size:25 final size:25
Alignment explanation
Indices: 30016457--30016524 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
30016447 CGGTAAACAA
*
30016457 TAAGCTCTTCCGAGCTGAATAACGG
1 TAAGCTCTTACGAGCTGAATAACGG
* *
30016482 TAAGCTCTTTCGAGCTGCATAACGG
1 TAAGCTCTTACGAGCTGAATAACGG
*
30016507 TAAGCTCATACGAGCTGA
1 TAAGCTCTTACGAGCTGA
30016525 TTATTGATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (25 bp):
TAAGCTCTTACGAGCTGAATAACGG
Found at i:30023142 original size:58 final size:58
Alignment explanation
Indices: 30023052--30023172 Score: 233
Period size: 58 Copynumber: 2.1 Consensus size: 58
30023042 TTACATTGTG
*
30023052 TAATAAAGTAGAGATAATCACTTAGTTCAACTAGTAAGAACATGGATTTTCATCTAAT
1 TAATAAAGTAGAGATAATCACTTAGTTCAACTAGTAAGAACATGAATTTTCATCTAAT
30023110 TAATAAAGTAGAGATAATCACTTAGTTCAACTAGTAAGAACATGAATTTTCATCTAAT
1 TAATAAAGTAGAGATAATCACTTAGTTCAACTAGTAAGAACATGAATTTTCATCTAAT
30023168 TAATA
1 TAATA
30023173 CATGAACCTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (58 bp):
TAATAAAGTAGAGATAATCACTTAGTTCAACTAGTAAGAACATGAATTTTCATCTAAT
Found at i:30023772 original size:16 final size:16
Alignment explanation
Indices: 30023729--30023781 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
30023719 TTACCCTATA
30023729 AAAAATAAT-AATTTT
1 AAAAATAATAAATTTT
* *
30023744 AGTATATAA-AAATTTT
1 A-AAAATAATAAATTTT
30023760 AAAAATAATAAA--TT
1 AAAAATAATAAATTTT
30023774 AAAAATAA
1 AAAAATAA
30023782 CCAAATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 10 0.32
15 6 0.19
16 15 0.48
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
AAAAATAATAAATTTT
Found at i:30023778 original size:15 final size:15
Alignment explanation
Indices: 30023758--30023792 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
30023748 TATAAAAATT
*
30023758 TTAAAAATAA-TAAA
1 TTAAAAATAACCAAA
30023772 TTAAAAATAACCAAA
1 TTAAAAATAACCAAA
30023787 TTAAAA
1 TTAAAA
30023793 TAGTCAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TTAAAAATAACCAAA
Found at i:30026333 original size:29 final size:29
Alignment explanation
Indices: 30026300--30026372 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
30026290 AAATTGCATT
*
30026300 ATTATATTAATTATGTTAT-AAAAATAATA
1 ATTATATTAATTAT-ATATGAAAAATAATA
**
30026329 ATTATATTAATTATATATGTTAAATAATA
1 ATTATATTAATTATATATGAAAAATAATA
*
30026358 ATTATA-TATTTATAT
1 ATTATATTAATTATAT
30026373 TAAATCACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 11 0.28
29 28 0.72
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (29 bp):
ATTATATTAATTATATATGAAAAATAATA
Found at i:30026939 original size:12 final size:12
Alignment explanation
Indices: 30026924--30026957 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30026914 CTTAGGCTTT
30026924 ATAATAATAACA
1 ATAATAATAACA
* *
30026936 ATAACAACAACA
1 ATAATAATAACA
30026948 ATAATAATAA
1 ATAATAATAA
30026958 GAGTACTATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.21
Consensus pattern (12 bp):
ATAATAATAACA
Found at i:30028361 original size:56 final size:54
Alignment explanation
Indices: 30028291--30028413 Score: 131
Period size: 56 Copynumber: 2.2 Consensus size: 54
30028281 AAAGGGGTTT
30028291 TTTA-CAAAATTATTATAAAAAAATAAAAATAACCAAAATATTATAACTTTTTTTTA
1 TTTACCAAAA-TATTATAAAAAAATAAAAATAACCAAAATATTATAA--TTTTTTTA
**** *** * *
30028347 TTTACCAAAATATTATAAATTTTTTTTATTTACCAAAATATTATAATTTTTTTA
1 TTTACCAAAATATTATAAAAAAATAAAAATAACCAAAATATTATAATTTTTTTA
30028401 TTTACCAAAATAT
1 TTTACCAAAATAT
30028414 ACCAAAAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
54 21 0.37
56 31 0.54
57 5 0.09
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (54 bp):
TTTACCAAAATATTATAAAAAAATAAAAATAACCAAAATATTATAATTTTTTTA
Found at i:30028396 original size:26 final size:27
Alignment explanation
Indices: 30028322--30028413 Score: 159
Period size: 28 Copynumber: 3.4 Consensus size: 27
30028312 AATAAAAATA
30028322 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAA-TTTTTTTTATTT
30028350 ACCAAAATATTATAAATTTTTTTTATTT
1 ACCAAAATATTAT-AATTTTTTTTATTT
30028378 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTTATTT
30028404 ACCAAAATAT
1 ACCAAAATAT
30028414 ACCAAAAAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
26 21 0.33
27 2 0.03
28 38 0.60
29 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (27 bp):
ACCAAAATATTATAATTTTTTTTATTT
Found at i:30028755 original size:19 final size:19
Alignment explanation
Indices: 30028731--30028797 Score: 82
Period size: 19 Copynumber: 3.6 Consensus size: 19
30028721 ATAGATAAAA
*
30028731 TATTTTAATTTAACAACTC
1 TATTTTAATTTAATAACTC
* *
30028750 TATTTTAATGTAATAA-AC
1 TATTTTAATTTAATAACTC
* *
30028768 TATTCTCATTTAATAACTC
1 TATTTTAATTTAATAACTC
30028787 TATTTTAATTT
1 TATTTTAATTT
30028798 TAAAAAAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.36, C:0.12, G:0.01, T:0.51
Consensus pattern (19 bp):
TATTTTAATTTAATAACTC
Found at i:30028974 original size:82 final size:82
Alignment explanation
Indices: 30028881--30029045 Score: 321
Period size: 82 Copynumber: 2.0 Consensus size: 82
30028871 AAAAGGAAAA
*
30028881 AAATAATGGAAACATAAACTATTTTATCTATTTATAAATTTAATATGTTCTTAATAGACTTATAA
1 AAATAATGGAAACATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAA
30028946 CATAAACATGTTAGACT
66 CATAAACATGTTAGACT
30028963 AAATAATGGAAACATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAA
1 AAATAATGGAAACATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAA
30029028 CATAAACATGTTAGACT
66 CATAAACATGTTAGACT
30029045 A
1 A
30029046 TTTTAATTAA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.39
Consensus pattern (82 bp):
AAATAATGGAAACATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAA
CATAAACATGTTAGACT
Found at i:30029145 original size:19 final size:19
Alignment explanation
Indices: 30029114--30029172 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 19
30029104 ATTTTATATT
*
30029114 TTAAAAGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
30029133 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
30029151 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
30029170 TTA
1 TTA
30029173 CTTAATTAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.36
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:30029163 original size:18 final size:18
Alignment explanation
Indices: 30029114--30029164 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
30029104 ATTTTATATT
* *
30029114 TTAAAAGAAAATAGAGTTA
1 TTAAATGAAAATAG-TTTA
*
30029133 TTAAATGAGAATAGTTTA
1 TTAAATGAAAATAGTTTA
*
30029151 TTAAATTAAAATAG
1 TTAAATGAAAATAG
30029165 AGTTATTACT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (18 bp):
TTAAATGAAAATAGTTTA
Found at i:30029884 original size:27 final size:28
Alignment explanation
Indices: 30029854--30029918 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
30029844 TTTTTTTGGT
*
30029854 ATATTTTGGTAAAT-AAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
30029881 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
30029909 ATATTTTGGT
1 ATATTTTGGT
30029919 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 14 0.39
28 22 0.61
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.42
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:30031486 original size:54 final size:54
Alignment explanation
Indices: 30031369--30031492 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
30031359 AAGCTTTAAG
* * * * *
30031369 TCAGTGAGTTACACGGCCTAGCACACGGCCTGGCACATGGGCATGTGTGACAAC
1 TCAGTGAGTTACACGACCTAGCACACGACCTGGAACACGGGCATGTGGGACAAC
* * * *
30031423 TCAGAGAGTTACACGACCTAGCACACGACCTGGAACACGGGCTTGTGGGGCTAC
1 TCAGTGAGTTACACGACCTAGCACACGACCTGGAACACGGGCATGTGGGACAAC
*
30031477 TTAGTGAGTTACACGA
1 TCAGTGAGTTACACGA
30031493 GTGAGGACAC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (54 bp):
TCAGTGAGTTACACGACCTAGCACACGACCTGGAACACGGGCATGTGGGACAAC
Found at i:30035134 original size:16 final size:16
Alignment explanation
Indices: 30035095--30035134 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
30035085 CTTACTCCTT
*
30035095 CCCAATTGAAACCCAG
1 CCCAATTTAAACCCAG
*
30035111 CCCAATTTAAATCCAG
1 CCCAATTTAAACCCAG
30035127 CCCAATTT
1 CCCAATTT
30035135 TTTCTTAGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.35, G:0.07, T:0.23
Consensus pattern (16 bp):
CCCAATTTAAACCCAG
Found at i:30036286 original size:9 final size:9
Alignment explanation
Indices: 30036255--30036336 Score: 74
Period size: 9 Copynumber: 8.7 Consensus size: 9
30036245 TGTAGTGATT
30036255 TAATTTGGG
1 TAATTTGGG
*
30036264 TAATTCGGG
1 TAATTTGGG
*
30036273 CAATTTGGG
1 TAATTTGGG
*
30036282 TAATTTTCGGA
1 TAA-TTT-GGG
*
30036293 TAATTCGGG
1 TAATTTGGG
*
30036302 TAATTTGAG
1 TAATTTGGG
30036311 TAATTTTCGGG
1 TAA-TTT-GGG
*
30036322 TAATTCGGG
1 TAATTTGGG
30036331 TAATTT
1 TAATTT
30036337 TTAACAAAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
9 37 0.65
10 10 0.18
11 10 0.18
ACGTcount: A:0.24, C:0.07, G:0.27, T:0.41
Consensus pattern (9 bp):
TAATTTGGG
Found at i:30036297 original size:20 final size:20
Alignment explanation
Indices: 30036255--30036307 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
30036245 TGTAGTGATT
*
30036255 TAATTTGGGTAA--TTCGGG
1 TAATTTGGGTAATTTTCGGA
*
30036273 CAATTTGGGTAATTTTCGGA
1 TAATTTGGGTAATTTTCGGA
*
30036293 TAATTCGGGTAATTT
1 TAATTTGGGTAATTT
30036308 GAGTAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 11 0.38
20 18 0.62
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.42
Consensus pattern (20 bp):
TAATTTGGGTAATTTTCGGA
Found at i:30036298 original size:29 final size:29
Alignment explanation
Indices: 30036264--30036336 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
30036254 TTAATTTGGG
* *
30036264 TAATTCGGGCAATTTGGGTAATTTTCGGA
1 TAATTCGGGTAATTTGAGTAATTTTCGGA
*
30036293 TAATTCGGGTAATTTGAGTAATTTTCGGG
1 TAATTCGGGTAATTTGAGTAATTTTCGGA
30036322 TAATTCGGGTAATTT
1 TAATTCGGGTAATTT
30036337 TTAACAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.41
Consensus pattern (29 bp):
TAATTCGGGTAATTTGAGTAATTTTCGGA
Found at i:30036319 original size:20 final size:20
Alignment explanation
Indices: 30036296--30036337 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
30036286 TTTCGGATAA
*
30036296 TTCGGGTAATTTGAGTAATT
1 TTCGGGTAATTCGAGTAATT
*
30036316 TTCGGGTAATTCGGGTAATT
1 TTCGGGTAATTCGAGTAATT
30036336 TT
1 TT
30036338 TAACAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.45
Consensus pattern (20 bp):
TTCGGGTAATTCGAGTAATT
Found at i:30040817 original size:21 final size:21
Alignment explanation
Indices: 30040778--30040997 Score: 135
Period size: 21 Copynumber: 10.5 Consensus size: 21
30040768 AAGCCTGAAG
*
30040778 GCTGAACAG-AA-TACATAAGT
1 GCTGAACAGAAACT-CATAAGA
* * *
30040798 GCTAAACAGAAACCCATAAGG
1 GCTGAACAGAAACTCATAAGA
* * *
30040819 GTTGAACGGAAGCTCATAAGA
1 GCTGAACAGAAACTCATAAGA
30040840 GCTGAAC-GAAAGCTCATAAGA
1 GCTGAACAGAAA-CTCATAAGA
** *
30040861 GCTGAATGGAAGCTCATAAGA
1 GCTGAACAGAAACTCATAAGA
* *
30040882 GCTGAACAGAAACCCATAAGG
1 GCTGAACAGAAACTCATAAGA
* * * *
30040903 GTTAAACAGAAGCTCGTAAGA
1 GCTGAACAGAAACTCATAAGA
* * *
30040924 GCTGAACAGAAACCCATCAGG
1 GCTGAACAGAAACTCATAAGA
* * * *
30040945 GTTAAATAGAAGCTCA-ATAGA
1 GCTGAACAGAAACTCATA-AGA
*
30040966 GCTGAAC-GAAAACTCATATGA
1 GCTGAACAG-AAACTCATAAGA
* *
30040987 GTTAAACAGAA
1 GCTGAACAGAA
30040998 GCTTGTGAGA
Statistics
Matches: 147, Mismatches: 45, Indels: 15
0.71 0.22 0.07
Matches are distributed among these distances:
20 12 0.08
21 130 0.88
22 5 0.03
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (21 bp):
GCTGAACAGAAACTCATAAGA
Found at i:30040957 original size:84 final size:84
Alignment explanation
Indices: 30040791--30041018 Score: 255
Period size: 84 Copynumber: 2.7 Consensus size: 84
30040781 GAACAGAATA
* * * * * *
30040791 CATAAGTGCTAAACAGAAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAACGAAAGCTCA
1 CATAAGAGCTGAACAGAAACCCATAAGGGTTAAACAGAAGCTCGTAAGAGCTGAACGAAAGCCCA
* *
30040856 TAAGAGCTGAATGGAAGCT
66 TAAGAGCTAAATAGAAGCT
30040875 CATAAGAGCTGAACAGAAACCCATAAGGGTTAAACAGAAGCTCGTAAGAGCTGAACAGAAA-CCC
1 CATAAGAGCTGAACAGAAACCCATAAGGGTTAAACAGAAGCTCGTAAGAGCTGAAC-GAAAGCCC
* * *
30040939 ATCAGGGTTAAATAGAAGCT
65 ATAAGAGCTAAATAGAAGCT
* * * * * *
30040959 CA-ATAGAGCTGAAC-GAAAACTCATATGAGTTAAACAGAAGCTTGTGAGAGCTAAACGAAA
1 CATA-AGAGCTGAACAG-AAACCCATAAGGGTTAAACAGAAGCTCGTAAGAGCTGAACGAAA
30041019 AGTAAACATG
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
83 6 0.05
84 114 0.92
85 4 0.03
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.17
Consensus pattern (84 bp):
CATAAGAGCTGAACAGAAACCCATAAGGGTTAAACAGAAGCTCGTAAGAGCTGAACGAAAGCCCA
TAAGAGCTAAATAGAAGCT
Found at i:30040991 original size:42 final size:42
Alignment explanation
Indices: 30040791--30041000 Score: 219
Period size: 42 Copynumber: 5.0 Consensus size: 42
30040781 GAACAGAATA
* * * * *
30040791 CATAAGTGCTAAACAGAAACCCATAAGGGTTGAACGGAAGCT
1 CATAAGAGCTGAACAGAAACCCATAAGAGTTAAACAGAAGCT
* * * **
30040833 CATAAGAGCTGAAC-GAAAGCTCATAAGAGCTGAATGGAAGCT
1 CATAAGAGCTGAACAGAAA-CCCATAAGAGTTAAACAGAAGCT
*
30040875 CATAAGAGCTGAACAGAAACCCATAAGGGTTAAACAGAAGCT
1 CATAAGAGCTGAACAGAAACCCATAAGAGTTAAACAGAAGCT
* * * *
30040917 CGTAAGAGCTGAACAGAAACCCATCAGGGTTAAATAGAAGCT
1 CATAAGAGCTGAACAGAAACCCATAAGAGTTAAACAGAAGCT
* *
30040959 CA-ATAGAGCTGAAC-GAAAACTCATATGAGTTAAACAGAAGCT
1 CATA-AGAGCTGAACAG-AAACCCATAAGAGTTAAACAGAAGCT
30041001 TGTGAGAGCT
Statistics
Matches: 143, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
41 6 0.04
42 133 0.93
43 4 0.03
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (42 bp):
CATAAGAGCTGAACAGAAACCCATAAGAGTTAAACAGAAGCT
Found at i:30043128 original size:24 final size:25
Alignment explanation
Indices: 30043074--30043130 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
30043064 ATAAATTATT
* * *
30043074 AATATTAATTACTTAGAAATATTTA
1 AATATTAATTAATTACAAATATTAA
*
30043099 AA-ATTAATTAATT-CATATATTAA
1 AATATTAATTAATTACAAATATTAA
30043122 AATATTAAT
1 AATATTAAT
30043131 AATAAGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.33
24 16 0.59
25 2 0.07
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (25 bp):
AATATTAATTAATTACAAATATTAA
Found at i:30043650 original size:11 final size:11
Alignment explanation
Indices: 30043634--30043658 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30043624 TGTAAGAATA
30043634 AAAATATTGAT
1 AAAATATTGAT
30043645 AAAATATTGAT
1 AAAATATTGAT
30043656 AAA
1 AAA
30043659 GATTTTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (11 bp):
AAAATATTGAT
Found at i:30047986 original size:12 final size:12
Alignment explanation
Indices: 30047969--30047995 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30047959 CGAAAACAGG
30047969 CTTTTAGCGGCA
1 CTTTTAGCGGCA
30047981 CTTTTAGCGGCA
1 CTTTTAGCGGCA
30047993 CTT
1 CTT
30047996 GGAAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (12 bp):
CTTTTAGCGGCA
Found at i:30048196 original size:41 final size:41
Alignment explanation
Indices: 30048130--30048210 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
30048120 CTTACCTTTT
* *
30048130 GGGGCTTTAGCGGCGATTTTAAAAAAGTGCCGCTAATGCTC
1 GGGGCTTTAGAGGCGATTTTAAAAAAGCGCCGCTAATGCTC
* *
30048171 GGGGCTTTAGAGGCGTTTTTGAAAAAGCGCCGCTAATGCT
1 GGGGCTTTAGAGGCGATTTTAAAAAAGCGCCGCTAATGCT
30048211 GGAGGATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (41 bp):
GGGGCTTTAGAGGCGATTTTAAAAAAGCGCCGCTAATGCTC
Found at i:30049014 original size:15 final size:15
Alignment explanation
Indices: 30048994--30049023 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30048984 GGGGATTTAA
30048994 AGTTTAGGGGTTAGG
1 AGTTTAGGGGTTAGG
30049009 AGTTTAGGGGTTAGG
1 AGTTTAGGGGTTAGG
30049024 CATATTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (15 bp):
AGTTTAGGGGTTAGG
Found at i:30049138 original size:289 final size:293
Alignment explanation
Indices: 30048727--30049447 Score: 906
Period size: 289 Copynumber: 2.4 Consensus size: 293
30048717 AGACGTTAGG
* * * * * * * * *
30048727 GGTTAA-AAGTTAAGGATTTAAGGTTTAGGAATTTAGGGGTCGAGTTAAGATTTTGGGTGTTTAG
1 GGTTAAGAA-TTAGGGATTAAAAGTTTAGGGATTCAAGGGTCGAGTCAAGGTTTT--GAGTTTAG
*
30048791 ATTAAAT-TTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAA
63 ATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAA
* * * * * *
30048855 ATTTGTTTAGGGTTTTTGGTTTAGGGTATTTGATTTATTTAAGATTTAAAGCCGGTTTAGGAGTT
128 ATTTGTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAAGCAGGTTTAAGAGTG
* *
30048920 CATATTTTAAGGTTTAGGGAGTATAGGTGTAGGGATTATGGA-T-T-G-GGGATTATGGTTTAAT
193 CATATTTTAAGGTTTAGGGAGTATAGATGTAGGGATTATGGATTATGGAGGGATTATGGTTTAAG
* *
30048981 GG-TGGGGATTTAAAGTTTAGGGGTTAGGAGTT-TAGG
258 GGCT-GAGATTTAAAGTTTA-GGGTTAGGAGTTATAGC
* ** * * *
30049017 GGTTAGGCATATTATGGG-TTAAAAG-TTAGGGATT-TGGGGTCGGGTCAGGGTTTTGGGTTTAG
1 GGTTAAG-A-ATTA-GGGATTAAAAGTTTAGGGATTCAAGGGTCGAGTCAAGGTTTTGAGTTTAG
30049079 ATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAA
63 ATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAA
* *
30049144 ATTTGTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCATGTTTAAGAGTG
128 ATTTGTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAAGCAGGTTTAAGAGTG
*
30049209 CATATTTTAAGGTTTAGGGAGTATAGATTTAGGGATTATGGATTATGGATTAGGGATTATGGTTT
193 CATATTTTAAGGTTTAGGGAGTATAGATGTAGGGATTATGGATTATGG---AGGGATTATGGTTT
* *
30049274 AAGGGCTGAGATTTAAGGTTTAGGGTTAGGGGTTAGACGATAGC
255 AAGGGCTGAGATTTAAAGTTTAGGGTTAGGAGTT-----ATAGC
* * *
30049318 GGTTAAGAGTTAGGGATTCAAAGTTTAGGGATTCAAGGGTCGAGTTAAGGTTTTGAGTTTAGATT
1 GGTTAAGAATTAGGGATTAAAAGTTTAGGGATTCAAGGGTCGAGTCAAGGTTTTGAGTTTAGATT
30049383 AATTATTTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAAT
66 AATTA-TTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAAT
30049448 CAAATATATT
Statistics
Matches: 372, Mismatches: 36, Indels: 34
0.84 0.08 0.08
Matches are distributed among these distances:
288 13 0.03
289 154 0.41
290 21 0.06
291 9 0.02
292 10 0.03
293 3 0.01
295 11 0.03
296 30 0.08
297 1 0.00
298 3 0.01
299 9 0.02
300 10 0.03
301 39 0.10
302 59 0.16
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (293 bp):
GGTTAAGAATTAGGGATTAAAAGTTTAGGGATTCAAGGGTCGAGTCAAGGTTTTGAGTTTAGATT
AATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATT
TGTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAAGCAGGTTTAAGAGTGCAT
ATTTTAAGGTTTAGGGAGTATAGATGTAGGGATTATGGATTATGGAGGGATTATGGTTTAAGGGC
TGAGATTTAAAGTTTAGGGTTAGGAGTTATAGC
Found at i:30049253 original size:7 final size:7
Alignment explanation
Indices: 30049241--30049270 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
30049231 ATAGATTTAG
30049241 GGATTAT
1 GGATTAT
30049248 GGATTAT
1 GGATTAT
*
30049255 GGATTAG
1 GGATTAT
30049262 GGATTAT
1 GGATTAT
30049269 GG
1 GG
30049271 TTTAAGGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (7 bp):
GGATTAT
Found at i:30053637 original size:43 final size:43
Alignment explanation
Indices: 30053552--30053642 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
30053542 CTTTGAGTTC
* * * * *
30053552 ATTA-CAAGATTTCCTTGATTAAGTAAGTGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATGATATCTTTT
* *
30053594 ATTACCAAGATTTACTTGATTAAGAAAATGCATGGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATGATATCTTTT
30053637 ATTACC
1 ATTACC
30053643 TTGCAATGTG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 4 0.10
43 37 0.90
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATGATATCTTTT
Found at i:30054054 original size:43 final size:43
Alignment explanation
Indices: 30053993--30054302 Score: 329
Period size: 43 Copynumber: 7.3 Consensus size: 43
30053983 TAATTTTTTT
* * * * * *
30053993 TAAAGGTTATG-TTTTTAGCGGCGTTTTTGCGAGAAGCGCTGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* * *
30054035 TAAAGGCCACGATCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* * * * *
30054078 TAAAGGTCAAGATCTTTAGCGGTGTTTGTGATAAAAGTGCTGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* * * *
30054121 GAAAGGTCAAGATATTTAGCGGCGTTTGTGATAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* * *
30054164 TAAAGGTCATAATCTTTAGCGGTGTTCGTGAGAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* * * * *
30054207 TAAAGGTCATGTTCTTTAGCAGCGTTCGTGGGAAAAGCACCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* *
30054250 TGAAGGTCATGTTCTTTAGCGGCGTTT-TCGA-AAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGT-GAGAAAAGCGCCGC
*
30054292 TAAAGATCATG
1 TAAAGGTCATG
30054303 TTCTATTGTG
Statistics
Matches: 227, Mismatches: 39, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
42 28 0.12
43 199 0.88
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
Found at i:30062534 original size:20 final size:20
Alignment explanation
Indices: 30062490--30062527 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
30062480 ATAGATTGCA
*
30062490 GTTAAAAATTTAATAAATAG
1 GTTAAAAAGTTAATAAATAG
30062510 GTTAAAAAGTTAATAAAT
1 GTTAAAAAGTTAATAAAT
30062528 TTTTTAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (20 bp):
GTTAAAAAGTTAATAAATAG
Found at i:30064010 original size:16 final size:15
Alignment explanation
Indices: 30063985--30064014 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30063975 GTACGATGTA
30063985 TCCCCCCATTATGCG
1 TCCCCCCATTATGCG
30064000 TCCCACCCATTATGC
1 TCCC-CCCATTATGC
30064015 ATCTTCTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.17, C:0.47, G:0.10, T:0.27
Consensus pattern (15 bp):
TCCCCCCATTATGCG
Found at i:30068424 original size:20 final size:19
Alignment explanation
Indices: 30068373--30068430 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
30068363 AACTTTATCT
30068373 CTAAAAAATATTATAAAAAA
1 CTAAAAAATA-TATAAAAAA
* *
30068393 CTAAAGAATATATAATAAA
1 CTAAAAAATATATAAAAAA
30068412 CTTAAAAAATATA-AAAAAA
1 C-TAAAAAATATATAAAAAA
30068431 AATCAAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 14 0.42
20 19 0.58
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (19 bp):
CTAAAAAATATATAAAAAA
Found at i:30069165 original size:20 final size:19
Alignment explanation
Indices: 30069142--30069195 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
30069132 AAAGCATTTA
*
30069142 AAAATTTTA-AAAAGTTATT
1 AAAATTATATAAAA-TTATT
30069161 GAAAATTATATAAAATTATT
1 -AAAATTATATAAAATTATT
* *
30069181 AAAATGATAAAAAAT
1 AAAATTATATAAAAT
30069196 ATAAAAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.43
20 13 0.43
21 4 0.13
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (19 bp):
AAAATTATATAAAATTATT
Found at i:30069185 original size:9 final size:10
Alignment explanation
Indices: 30069025--30069184 Score: 76
Period size: 10 Copynumber: 16.5 Consensus size: 10
30069015 GATTTAAGCC
30069025 TAAAAATTAT
1 TAAAAATTAT
30069035 TAAAATATT-T
1 TAAAA-ATTAT
30069045 ATAAAAA-T-T
1 -TAAAAATTAT
*
30069054 TAGAAAATCA-
1 TA-AAAATTAT
*
30069064 TAAAAAATA-
1 TAAAAATTAT
* *
30069073 TATAATTTAT
1 TAAAAATTAT
30069083 T-AAAA-TAT
1 TAAAAATTAT
30069091 TATAAAATTA-
1 TA-AAAATTAT
30069101 TAAAATATTA-
1 TAAAA-ATTAT
30069111 TAAAAA-T-T
1 TAAAAATTAT
*
30069119 TAGAAATTAT
1 TAAAAATTAT
* **
30069129 AAAAAAGCATT
1 TAAAAATTA-T
30069140 TAAAAATT-T
1 TAAAAATTAT
30069149 TAAAAAGTTAT
1 TAAAAA-TTAT
*
30069160 TGAAAATTA-
1 TAAAAATTAT
30069169 TATAAAATTAT
1 TA-AAAATTAT
30069180 TAAAA
1 TAAAA
30069185 TGATAAAAAA
Statistics
Matches: 114, Mismatches: 18, Indels: 36
0.68 0.11 0.21
Matches are distributed among these distances:
8 12 0.11
9 32 0.28
10 46 0.40
11 24 0.21
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:30069193 original size:9 final size:9
Alignment explanation
Indices: 30069025--30069202 Score: 112
Period size: 9 Copynumber: 18.7 Consensus size: 9
30069015 GATTTAAGCC
30069025 TAAAAATTA
1 TAAAAATTA
30069034 TTAAAATATTTA
1 -TAAAA-A-TTA
30069046 TAAAAATT-
1 TAAAAATTA
*
30069054 TAGAAAATCA
1 TA-AAAATTA
*
30069064 TAAAAAATA
1 TAAAAATTA
* *
30069073 TATAATTTA
1 TAAAAATTA
30069082 TTAAAATATTA
1 -TAAAA-ATTA
30069093 T-AAAATTA
1 TAAAAATTA
30069101 TAAAATATTA
1 TAAAA-ATTA
30069111 TAAAAATT-
1 TAAAAATTA
*
30069119 TAGAAATTA
1 TAAAAATTA
30069128 TAAAAAAGCATT-
1 T--AAAA--ATTA
*
30069140 TAAAAATTT
1 TAAAAATTA
30069149 TAAAAAGTTA
1 TAAAAA-TTA
*
30069159 TTGAAAATTA
1 -TAAAAATTA
30069169 TATAAAATTA
1 TA-AAAATTA
* *
30069179 TTAAAATGA
1 TAAAAATTA
*
30069188 TAAAAAATA
1 TAAAAATTA
30069197 TAAAAA
1 TAAAAA
30069203 AGATTATAAT
Statistics
Matches: 133, Mismatches: 18, Indels: 35
0.72 0.10 0.19
Matches are distributed among these distances:
8 17 0.13
9 53 0.40
10 39 0.29
11 17 0.13
12 4 0.03
13 3 0.02
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.35
Consensus pattern (9 bp):
TAAAAATTA
Found at i:30069194 original size:19 final size:20
Alignment explanation
Indices: 30069149--30069195 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
30069139 TTAAAAATTT
* *
30069149 TAAAAAGTTATTGAAAATTA
1 TAAAAAATTATTGAAAATGA
*
30069169 TATAAAATTATT-AAAATGA
1 TAAAAAATTATTGAAAATGA
30069188 TAAAAAAT
1 TAAAAAAT
30069196 ATAAAAAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (20 bp):
TAAAAAATTATTGAAAATGA
Found at i:30080303 original size:39 final size:40
Alignment explanation
Indices: 30080099--30080321 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
30080089 TTGAATGCTG
* * * * * *
30080099 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
30080139 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
30080179 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
30080219 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
30080259 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
30080298 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30080322 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:30080341 original size:79 final size:80
Alignment explanation
Indices: 30080174--30080356 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
30080164 GTGCGAGATA
* * *
30080174 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
30080239 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
30080254 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
30080318 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
30080333 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
30080357 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:30098918 original size:10 final size:10
Alignment explanation
Indices: 30098890--30098923 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
30098880 AATAATTTTT
30098890 TTATTAAAAA
1 TTATTAAAAA
*
30098900 GTATCTAAAAA
1 TTAT-TAAAAA
30098911 TTATTAAAAA
1 TTATTAAAAA
30098921 TTA
1 TTA
30098924 CAAAGATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:30098948 original size:20 final size:21
Alignment explanation
Indices: 30098910--30098949 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
30098900 GTATCTAAAA
* *
30098910 ATTATTAAAAATTACAAAGAT
1 ATTATTAAAAAATAAAAAGAT
30098931 ATTA-TAAAAAATAAAAAGA
1 ATTATTAAAAAATAAAAAGA
30098950 AAATATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (21 bp):
ATTATTAAAAAATAAAAAGAT
Found at i:30099107 original size:29 final size:30
Alignment explanation
Indices: 30099072--30099130 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
30099062 TATGAGTTAA
30099072 TGTGCAATTGT-ATACAT-AAACTTTGATTT
1 TGTGCAATT-TCATACATAAAACTTTGATTT
*
30099101 TGTGCAATTTCATACATAAAATTTTGATTT
1 TGTGCAATTTCATACATAAAACTTTGATTT
30099131 GATCCAATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 1 0.04
29 15 0.56
30 11 0.41
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (30 bp):
TGTGCAATTTCATACATAAAACTTTGATTT
Found at i:30099139 original size:30 final size:29
Alignment explanation
Indices: 30099083--30099139 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
30099073 GTGCAATTGT
*
30099083 ATACATAAACTTTGATTTTGTGCAATTTC
1 ATACATAAACTTTGATTTTGTCCAATTTC
*
30099112 ATACATAAAATTTTGA-TTTGATCCAATT
1 ATACAT-AAACTTTGATTTTG-TCCAATT
30099140 CTTGTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (29 bp):
ATACATAAACTTTGATTTTGTCCAATTTC
Done.