Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 1 of 325
Found at i:9660 original size:13 final size:13
Alignment explanation
Indices: 9642--9667 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9632 ATGTATTGAA
9642 GTGAAGTACCAAT
1 GTGAAGTACCAAT
9655 GTGAAGTACCAAT
1 GTGAAGTACCAAT
9668 AGATTCAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
GTGAAGTACCAAT
Found at i:18937 original size:26 final size:26
Alignment explanation
Indices: 18901--18953 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
18891 CACCACTGAA
* *
18901 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
18927 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
18953 T
1 T
18954 TTTCATTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.34, G:0.21, T:0.17
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:19028 original size:70 final size:70
Alignment explanation
Indices: 18913--19062 Score: 230
Period size: 72 Copynumber: 2.1 Consensus size: 70
18903 GGGGAATCAT
* *
18913 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAA-CCCCTTTTCATTTCAAATATACAATGGA
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGGA
18977 TATCG
66 TATCG
***
18982 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
19047 GATATCG
64 GATATCG
19054 CACTTAGCA
1 CACTTAGCA
19063 CCACCAATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 16 0.22
70 20 0.27
71 7 0.10
72 30 0.41
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (70 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGGA
TATCG
Found at i:19098 original size:77 final size:71
Alignment explanation
Indices: 18913--19099 Score: 227
Period size: 72 Copynumber: 2.6 Consensus size: 71
18903 GGGGAATCAT
* *
18913 CACTTAGCAACCCCT-CGGGGAATCAGCACATAGCAA-CCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
18976 ATATCG
66 ATATCG
* ***
18982 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
19047 GATATCG
65 GATATCG
*
19054 CACTTAGC-ACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCC
1 CACTTAGCAACC-CC--T---CCGGGGAATCAGCACATAGCAACCCC
19100 TCGGGGAATC
Statistics
Matches: 101, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
69 15 0.15
70 20 0.20
71 10 0.10
72 31 0.31
74 1 0.01
77 24 0.24
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (71 bp):
CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:19105 original size:26 final size:26
Alignment explanation
Indices: 19075--19125 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
19065 ACCAATGAAC
*
19075 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
19101 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
19126 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:19165 original size:103 final size:103
Alignment explanation
Indices: 18981--19202 Score: 367
Period size: 103 Copynumber: 2.2 Consensus size: 103
18971 AATGGATATC
18981 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
19046 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACC-ATAAACCGGGGAATCA
19085 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
*
19149 GGATCA-CGCACATAGCACCACCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCATAAACCGGGGAATCA
**
19187 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
19203 TTTATATACA
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
102 28 0.25
103 66 0.59
104 18 0.16
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCATAAACCGGGGAATCA
Found at i:19560 original size:29 final size:29
Alignment explanation
Indices: 19527--19590 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
19517 TAATCCACCA
19527 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
19556 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
19586 CCCAA
1 CCCAA
19591 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:19564 original size:30 final size:30
Alignment explanation
Indices: 19534--19590 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19524 CCACCCAACT
19534 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
19563 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
19591 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:22316 original size:22 final size:23
Alignment explanation
Indices: 22291--22336 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
22281 CAACCAAATC
22291 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
22313 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
22336 A
1 A
22337 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:22342 original size:23 final size:23
Alignment explanation
Indices: 22298--22342 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22288 ATCAATTCAA
*
22298 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
22321 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
22343 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:26949 original size:76 final size:76
Alignment explanation
Indices: 26823--26979 Score: 269
Period size: 76 Copynumber: 2.1 Consensus size: 76
26813 TGATAATGGA
* * *
26823 AACCAAGTTTTAATTAGTAGCCTCTAATTTTAAAGTTCAATGGGTAAAAACAAGTTATCGTTATG
1 AACCAACTTTTAATTAGTAGCCTCTAATTTTAAAGTTCAATGAGTAAAAACAAGGTATCGTTATG
*
26888 TGTTTATGATG
66 TGTCTATGATG
26899 AACCAACTTTTAATTAGTAGCCTCTAATTTTAAAGTTCAATGAGTAAAAACAAGGTATCGTTATG
1 AACCAACTTTTAATTAGTAGCCTCTAATTTTAAAGTTCAATGAGTAAAAACAAGGTATCGTTATG
26964 TGTCTATGATG
66 TGTCTATGATG
*
26975 CACCA
1 AACCA
26980 TAAAAACTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (76 bp):
AACCAACTTTTAATTAGTAGCCTCTAATTTTAAAGTTCAATGAGTAAAAACAAGGTATCGTTATG
TGTCTATGATG
Found at i:27169 original size:47 final size:47
Alignment explanation
Indices: 27106--27197 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 47
27096 TTAAAGAAAC
*
27106 TCTATCTATATAAACATAAGAAGTAATGTCGCTTCAATAATAAGAAT
1 TCTATCTATATAAACATAAGAAGTAATGTCGCTTCAACAATAAGAAT
* ** *
27153 TCTATCTATATAAACATAATAAGTGGTGTTGCTTCAACAATAAGA
1 TCTATCTATATAAACATAAGAAGTAATGTCGCTTCAACAATAAGA
27198 GGTGGAATCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (47 bp):
TCTATCTATATAAACATAAGAAGTAATGTCGCTTCAACAATAAGAAT
Found at i:27441 original size:105 final size:105
Alignment explanation
Indices: 27258--27454 Score: 304
Period size: 105 Copynumber: 1.9 Consensus size: 105
27248 CCATATTAGT
**
27258 GCTAAAAGTGAACAACCTTTGACAAATCTATAAATGAATACTATGTGTAGTGTATTTCAACTTCT
1 GCTAAAAGTGAACAACCTTTGACAAAAATATAAATGAATACTATGTGTAGTGTATTTCAACTTCT
*
27323 AATACTAGGAGTTGTAGTTCAATTTTCAGACTCCAACTAA
66 AAAACTAGGAGTTGTAGTTCAATTTTCAGACTCCAACTAA
* * * *
27363 GCTAAAAGTGAACAACCTTTGATAAAAATATAATTGAATATTATGTGTGGTGTATTTCAACTTCT
1 GCTAAAAGTGAACAACCTTTGACAAAAATATAAATGAATACTATGTGTAGTGTATTTCAACTTCT
* * *
27428 AAAATTAGTAGTTGTAGTTTAATTTTC
66 AAAACTAGGAGTTGTAGTTCAATTTTC
27455 GGACCTCAAC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 82 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (105 bp):
GCTAAAAGTGAACAACCTTTGACAAAAATATAAATGAATACTATGTGTAGTGTATTTCAACTTCT
AAAACTAGGAGTTGTAGTTCAATTTTCAGACTCCAACTAA
Found at i:29536 original size:11 final size:11
Alignment explanation
Indices: 29520--29556 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
29510 TTTTAGTGTT
29520 TCGATTTTCAA
1 TCGATTTTCAA
29531 TCGATTTTCAA
1 TCGATTTTCAA
* *
29542 TCAATTTTCAT
1 TCGATTTTCAA
29553 TCGA
1 TCGA
29557 CGACTGTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (11 bp):
TCGATTTTCAA
Found at i:29888 original size:48 final size:48
Alignment explanation
Indices: 29809--29903 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
29799 TTATGATTGA
*
29809 TGACCTTAAGAAGTTATTTTGGTAGAGGAGGTCGAAAGAATAGTCTAC
1 TGACCTTAAGAAGTTATTTTGATAGAGGAGGTCGAAAGAATAGTCTAC
* * *
29857 TGACCTTAGGAAGTTGTTTTGATAGATGAGGTCGAAAGAATAGTCTA
1 TGACCTTAAGAAGTTATTTTGATAGAGGAGGTCGAAAGAATAGTCTA
29904 TGAGTATCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (48 bp):
TGACCTTAAGAAGTTATTTTGATAGAGGAGGTCGAAAGAATAGTCTAC
Found at i:32385 original size:18 final size:18
Alignment explanation
Indices: 32314--32385 Score: 65
Period size: 18 Copynumber: 4.0 Consensus size: 18
32304 CTTTATCAAT
32314 ATTATTCAGTAAC-GATCA
1 ATTATTCAGTAACAG-TCA
* * * *
32332 ATTGTTCAATGACAATCA
1 ATTATTCAGTAACAGTCA
* *
32350 GTTATTCAGTATCAGTCA
1 ATTATTCAGTAACAGTCA
*
32368 ATTATTCAGTAACTGTCA
1 ATTATTCAGTAACAGTCA
32386 GTATCATTTA
Statistics
Matches: 40, Mismatches: 13, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (18 bp):
ATTATTCAGTAACAGTCA
Found at i:33527 original size:23 final size:23
Alignment explanation
Indices: 33497--33545 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
33487 TATATATAAA
33497 AAAACATAT-AAAGAGTTT-AAAAT
1 AAAACATATGAAA-A-TTTGAAAAT
33520 AAAACATATGAAAATTTGAAAAT
1 AAAACATATGAAAATTTGAAAAT
33543 AAA
1 AAA
33546 TGATCCATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 3 0.12
23 18 0.75
24 3 0.12
ACGTcount: A:0.63, C:0.04, G:0.08, T:0.24
Consensus pattern (23 bp):
AAAACATATGAAAATTTGAAAAT
Found at i:33752 original size:25 final size:25
Alignment explanation
Indices: 33706--33753 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
33696 TTGGAAACAT
*
33706 TTTAAAATGAACATTATATAAAAAA
1 TTTAAAATGAACAATATATAAAAAA
* * *
33731 TTTAAAGTGAATAATATGTAAAA
1 TTTAAAATGAACAATATATAAAA
33754 TAGTAAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.33
Consensus pattern (25 bp):
TTTAAAATGAACAATATATAAAAAA
Found at i:33867 original size:49 final size:48
Alignment explanation
Indices: 33814--33910 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 48
33804 ATAAAGAGGG
* *
33814 TTTAAAATAAATAATATATATAATAGTTTA-ACTACATAATGTATATAAA
1 TTTAAAATAAATAATATATA-AA-AGTTTAGAATAAATAATGTATATAAA
*
33863 TTTAAAATAAATAATATGTAAAAGTTTAGAATAAATAATGTATATAAA
1 TTTAAAATAAATAATATATAAAAGTTTAGAATAAATAATGTATATAAA
33911 AAATCATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 6 0.14
48 19 0.43
49 19 0.43
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (48 bp):
TTTAAAATAAATAATATATAAAAGTTTAGAATAAATAATGTATATAAA
Found at i:33890 original size:24 final size:25
Alignment explanation
Indices: 33813--33910 Score: 112
Period size: 24 Copynumber: 4.0 Consensus size: 25
33803 AATAAAGAGG
33813 GTTTAAAATAAATAATATATATAATA
1 GTTTAAAATAAATAATATATATAA-A
* * *
33839 GTTT-AACTACATAATGTATATAAA
1 GTTTAAAATAAATAATATATATAAA
*
33863 -TTTAAAATAAATAATATGTA-AAA
1 GTTTAAAATAAATAATATATATAAA
* *
33886 GTTTAGAATAAATAATGTATATAAA
1 GTTTAAAATAAATAATATATATAAA
33911 AAATCATAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
23 6 0.10
24 30 0.51
25 19 0.32
26 4 0.07
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (25 bp):
GTTTAAAATAAATAATATATATAAA
Found at i:35087 original size:25 final size:23
Alignment explanation
Indices: 35048--35123 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
35038 TCTATTTCTA
* *
35048 TTTTCTGTTTGTTTCTTCCTTGT
1 TTTTTTGTTTTTTTCTTCCTTGT
* * *
35071 TTTTTTGCTTTTTTTTCCTGCTTCT
1 TTTTTTG--TTTTTTTCTTCCTTGT
* *
35096 TTTTTTGTTTTTTCCTTCTTTGT
1 TTTTTTGTTTTTTTCTTCCTTGT
35119 TTTTT
1 TTTTT
35124 CTTGTGTTTT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
23 22 0.54
25 19 0.46
ACGTcount: A:0.00, C:0.16, G:0.09, T:0.75
Consensus pattern (23 bp):
TTTTTTGTTTTTTTCTTCCTTGT
Found at i:35121 original size:22 final size:21
Alignment explanation
Indices: 35055--35123 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 21
35045 CTATTTTCTG
* *
35055 TTTGTTTCTTCCTTGTTTTTT
1 TTTGTTTTTTCCTTCTTTTTT
*
35076 TGCTT-TTTTTTCCTGCTTCTTTT
1 T--TTGTTTTTTCCTTCTT-TTTT
35099 TTTGTTTTTTCCTTCTTTGTTT
1 TTTGTTTTTTCCTTCTTT-TTT
35121 TTT
1 TTT
35124 CTTGTGTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
21 4 0.10
22 28 0.72
23 7 0.18
ACGTcount: A:0.00, C:0.16, G:0.09, T:0.75
Consensus pattern (21 bp):
TTTGTTTTTTCCTTCTTTTTT
Found at i:35128 original size:25 final size:24
Alignment explanation
Indices: 35056--35133 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 24
35046 TATTTTCTGT
* * *
35056 TTGTTTCTTCCTTGTT-TTTTTGC
1 TTGTTTTTTCCTTCTTGTTTTTTC
* *
35079 TT-TTTTTTCCTGCTT-CTTTTT-
1 TTGTTTTTTCCTTCTTGTTTTTTC
35100 TTGTTTTTTCCTTCTTTGTTTTTTC
1 TTGTTTTTTCCTTC-TTGTTTTTTC
*
35125 TTGTGTTTT
1 TTGTTTTTT
35134 GCGTGCTTTG
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
21 2 0.05
22 24 0.56
23 4 0.09
24 5 0.12
25 8 0.19
ACGTcount: A:0.00, C:0.15, G:0.10, T:0.74
Consensus pattern (24 bp):
TTGTTTTTTCCTTCTTGTTTTTTC
Found at i:36280 original size:27 final size:26
Alignment explanation
Indices: 36232--36390 Score: 176
Period size: 27 Copynumber: 5.9 Consensus size: 26
36222 GCGAGGCTGC
* *
36232 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGA-A
36259 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
36285 TAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
* *
36312 CAGATAATCGTGGCATAGCCACCAGAA
1 CAGAT-ATTGTGGCAGAGCCACCAGAA
* *
36339 TAGATATATGTGGCAGAGCCACCAGAG
1 CAGATAT-TGTGGCAGAGCCACCAGAA
*
36366 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
36391 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
26 9 0.08
27 99 0.88
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:36325 original size:54 final size:54
Alignment explanation
Indices: 36250--36390 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
36240 GTGACGAAGT
*
36250 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
*
36304 CACCAGATCAGATAATCGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
*
36358 CACCAGAGCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
36391 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
Found at i:36840 original size:8 final size:8
Alignment explanation
Indices: 36807--36843 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
36797 AAAACACCGA
36807 CTTTTCGG
1 CTTTTCGG
*
36815 CATTTCGG
1 CTTTTCGG
*
36823 CATTTCGG
1 CTTTTCGG
36831 CTTTTCGG
1 CTTTTCGG
36839 CTTTT
1 CTTTT
36844 GCCAATCTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.05, C:0.24, G:0.22, T:0.49
Consensus pattern (8 bp):
CTTTTCGG
Found at i:38049 original size:26 final size:26
Alignment explanation
Indices: 38018--38125 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
38008 TGAAATGCCC
*
38018 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
38044 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
38070 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
38096 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38122 ATCA
1 ATCA
38126 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:38738 original size:18 final size:18
Alignment explanation
Indices: 38701--38744 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
38691 ACTGTAACGG
* *
38701 TAACAGCAACAGTAATAA
1 TAACAGTAACAGTAACAA
*
38719 TAACAGTAACAGTAGCAA
1 TAACAGTAACAGTAACAA
*
38737 TAGCAGTA
1 TAACAGTA
38745 GCGGTACACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (18 bp):
TAACAGTAACAGTAACAA
Found at i:41750 original size:8 final size:8
Alignment explanation
Indices: 41708--41732 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
41698 ATATAGACTA
41708 AATAAAAT
1 AATAAAAT
41716 AATAAAAT
1 AATAAAAT
41724 AATAAAAT
1 AATAAAAT
41732 A
1 A
41733 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:41756 original size:29 final size:31
Alignment explanation
Indices: 41705--41777 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
41695 TATATATAGA
*
41705 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
41734 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
41765 CTAATT-AAATAAT
1 CTAATTAAAATAAT
41778 TTCATCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 6 0.17
31 10 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:44016 original size:27 final size:25
Alignment explanation
Indices: 43964--44016 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
43954 CAACTCTTCT
*
43964 AAAAGAAACTCAAGAGAAATTCTTA
1 AAAAGAAACTCAAGAGAAATTATTA
*
43989 AAAAGAAAACTCAAAGAGAATTTATTA
1 AAAAG-AAACTC-AAGAGAAATTATTA
44016 A
1 A
44017 CTCAAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 6 0.25
27 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.11, T:0.21
Consensus pattern (25 bp):
AAAAGAAACTCAAGAGAAATTATTA
Found at i:46504 original size:11 final size:11
Alignment explanation
Indices: 46488--46512 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46478 GAAGAATGAG
46488 TTTTTTTATTT
1 TTTTTTTATTT
46499 TTTTTTTATTT
1 TTTTTTTATTT
46510 TTT
1 TTT
46513 GACTTATATA
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:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:47003 original size:15 final size:15
Alignment explanation
Indices: 46983--47011 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46973 TATTCTAATG
46983 CCATTATTATTATTT
1 CCATTATTATTATTT
46998 CCATTATTATTATT
1 CCATTATTATTATT
47012 ATTATATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.59
Consensus pattern (15 bp):
CCATTATTATTATTT
Found at i:47304 original size:23 final size:24
Alignment explanation
Indices: 47278--47324 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
47268 CCGAATTATA
*
47278 TAAT-AAATATATATTTTTATTTT
1 TAATCAAATATATATTTTAATTTT
* *
47301 TAATCATATTTATATTTTAATTTT
1 TAATCAAATATATATTTTAATTTT
47325 AATTTTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TAATCAAATATATATTTTAATTTT
Found at i:47398 original size:40 final size:41
Alignment explanation
Indices: 47343--47429 Score: 122
Period size: 40 Copynumber: 2.1 Consensus size: 41
47333 TATAATCAAT
*
47343 TTTTATTATATTTTTTAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAATATATTTTTTAATTTGTGTATTGTTTTAAGAATTG
* * * *
47384 TTTTAATATATTTTTT-ATTTGTTTCTTGTTTTAATATTTG
1 TTTTAATATATTTTTTAATTTGTGTATTGTTTTAAGAATTG
47424 TTTTAA
1 TTTTAA
47430 ATGTATTTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 26 0.63
41 15 0.37
ACGTcount: A:0.23, C:0.01, G:0.09, T:0.67
Consensus pattern (41 bp):
TTTTAATATATTTTTTAATTTGTGTATTGTTTTAAGAATTG
Found at i:47672 original size:3 final size:3
Alignment explanation
Indices: 47657--47819 Score: 66
Period size: 3 Copynumber: 53.3 Consensus size: 3
47647 CCTCTACGTC
* * *
47657 TTA TTA ATA TTA TTA TTA TAA TCTCA TT- TTA TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
47703 TTA ATA -CA TTA TTA TTT TTA CTA -TA CTA TTA TTA TTCCC TT- TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A TTA TTA
* ** *
47747 TTA TATA TTA TTA TTG TTA TTA ACA -TA TTA TTA TTA TTAA TGTA TTG
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA
* * *
47794 TTA CTC TCTA TTA CTA TTA TTA TTA T
1 TTA TTA T-TA TTA TTA TTA TTA TTA T
47820 CTTAGTATTA
Statistics
Matches: 119, Mismatches: 28, Indels: 26
0.69 0.16 0.15
Matches are distributed among these distances:
2 8 0.07
3 96 0.81
4 10 0.08
5 5 0.04
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:47697 original size:14 final size:15
Alignment explanation
Indices: 47657--47718 Score: 76
Period size: 14 Copynumber: 4.3 Consensus size: 15
47647 CCTCTACGTC
*
47657 TTATTAATATTATTA
1 TTATTAATATCATTA
*
47672 TTA-TAATCTCATT-
1 TTATTAATATCATTA
*
47685 TTATTATTATCATTA
1 TTATTAATATCATTA
47700 TTATTAATA-CATTA
1 TTATTAATATCATTA
47714 TTATT
1 TTATT
47719 TTTACTATAC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
13 3 0.08
14 26 0.65
15 11 0.28
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATTAATATCATTA
Found at i:47718 original size:17 final size:17
Alignment explanation
Indices: 47696--47738 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
47686 TATTATTATC
*
47696 ATTATTATTAATACATT
1 ATTATTATTAATACACT
* * *
47713 ATTATTTTTACTATACT
1 ATTATTATTAATACACT
47730 ATTATTATT
1 ATTATTATT
47739 CCCTTTTTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTATTATTAATACACT
Found at i:47736 original size:23 final size:22
Alignment explanation
Indices: 47710--47785 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 22
47700 TTATTAATAC
47710 ATTATTATTTTTACTATACTATT
1 ATTATTATTTTTACTATA-TATT
* *
47733 ATTATTCCCTTTTT-TTATATATT
1 ATTATT--ATTTTTACTATATATT
* *
47756 ATTATTGTTATTAAC-ATATTATT
1 ATTATTATT-TTTACTATA-TATT
47779 ATTATTA
1 ATTATTA
47786 ATGTATTGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
21 2 0.05
22 5 0.12
23 26 0.62
24 4 0.10
25 5 0.12
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (22 bp):
ATTATTATTTTTACTATATATT
Found at i:47908 original size:11 final size:10
Alignment explanation
Indices: 47892--47947 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
47882 GTTTATTTGC
47892 TTATTACTTTA
1 TTATTA-TTTA
47903 TTATTAATTTA
1 TTATT-ATTTA
* *
47914 GTATTATTAA
1 TTATTATTTA
*
47924 TTATTAATTA
1 TTATTATTTA
47934 TTAATTA-TTA
1 TT-ATTATTTA
47944 TTAT
1 TTAT
47948 CGTTATTGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 2 0.05
10 18 0.47
11 17 0.45
12 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (10 bp):
TTATTATTTA
Found at i:47928 original size:7 final size:7
Alignment explanation
Indices: 47902--47947 Score: 60
Period size: 7 Copynumber: 6.7 Consensus size: 7
47892 TTATTACTTT
47902 ATTATTA
1 ATTATTA
*
47909 ATTTAGT-
1 A-TTATTA
47916 ATTATTA
1 ATTATTA
47923 ATTATTA
1 ATTATTA
47930 ATTATTA
1 ATTATTA
47937 ATTATT-
1 ATTATTA
47943 ATTAT
1 ATTAT
47948 CGTTATTGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 9 0.26
7 22 0.63
8 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (7 bp):
ATTATTA
Found at i:47940 original size:14 final size:13
Alignment explanation
Indices: 47900--47947 Score: 69
Period size: 14 Copynumber: 3.5 Consensus size: 13
47890 GCTTATTACT
47900 TTATTATTAATTTA
1 TTATTATTAA-TTA
*
47914 GTATTATTAATTA
1 TTATTATTAATTA
47927 TTAATTATTAATTA
1 TT-ATTATTAATTA
47941 TTATTAT
1 TTATTAT
47948 CGTTATTGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TTATTATTAATTA
Found at i:48044 original size:3 final size:3
Alignment explanation
Indices: 48038--48080 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
48028 TTGTTGTGTC
* * *
48038 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT TTT GTT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
48081 ATTTTAATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:48059 original size:15 final size:15
Alignment explanation
Indices: 48039--48080 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
48029 TGTTGTGTCA
48039 TTATTATTATTATTG
1 TTATTATTATTATTG
*
48054 TTATTATTATTATTT
1 TTATTATTATTATTG
*
48069 TTGTTATTATTA
1 TTATTATTATTA
48081 ATTTTAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (15 bp):
TTATTATTATTATTG
Found at i:48061 original size:18 final size:18
Alignment explanation
Indices: 48038--48080 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
48028 TTGTTGTGTC
48038 ATTATTATTATTATTGTT
1 ATTATTATTATTATTGTT
*
48056 ATTATTATTATTTTTGTT
1 ATTATTATTATTATTGTT
48074 ATTATTA
1 ATTATTA
48081 ATTTTAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (18 bp):
ATTATTATTATTATTGTT
Found at i:48085 original size:15 final size:15
Alignment explanation
Indices: 48039--48086 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
48029 TGTTGTGTCA
48039 TTATTATTATT-ATT
1 TTATTATTATTAATT
*
48053 GTTATTATTATTATTT
1 -TTATTATTATTAATT
*
48069 TTGTTATTATTAATT
1 TTATTATTATTAATT
48084 TTA
1 TTA
48087 ATTCTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 26 0.93
16 2 0.07
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (15 bp):
TTATTATTATTAATT
Found at i:49693 original size:47 final size:46
Alignment explanation
Indices: 49610--49728 Score: 123
Period size: 47 Copynumber: 2.5 Consensus size: 46
49600 CCCAGCCATG
* * * * **
49610 GTCTTACACAG-ATCACATATCACACTGATGCAATATCTCAGTTAT
1 GTCTTACACAGAAGCACATATCACACCGATACAATATCCCAAATAT
*
49655 AGTCTTACACAGAAGCACATATCACACCGATACCATATCCCAAATAT
1 -GTCTTACACAGAAGCACATATCACACCGATACAATATCCCAAATAT
* *
49702 GATCTTATACGGAAGCACATAATCACA
1 G-TCTTACACAGAAGCACAT-ATCACA
49729 TCATACCGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
46 12 0.20
47 43 0.70
48 6 0.10
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.25
Consensus pattern (46 bp):
GTCTTACACAGAAGCACATATCACACCGATACAATATCCCAAATAT
Found at i:49810 original size:47 final size:47
Alignment explanation
Indices: 49671--49810 Score: 127
Period size: 53 Copynumber: 2.9 Consensus size: 47
49661 ACACAGAAGC
* * * * * *
49671 ACATATCACACCGATACCATATCCCAAATATGATCTTATACGGAAGC
1 ACATATCACACCGATGCCATAGCCCAACTATGGTCTTATACGAAAGA
* * * *
49718 ACATAATCACATCATACCGATGCCATAGTCCAGCTATAGTTTTATACGAAAGA
1 ACAT-AT--CA-C--ACCGATGCCATAGCCCAACTATGGTCTTATACGAAAGA
*
49771 ACATATCACACCGATGTCATAGCCCAACTATGGTCTTATA
1 ACATATCACACCGATGCCATAGCCCAACTATGGTCTTATA
49811 TGGAAATCAA
Statistics
Matches: 72, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
47 30 0.42
48 2 0.03
49 1 0.01
50 4 0.06
51 1 0.01
52 2 0.03
53 32 0.44
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (47 bp):
ACATATCACACCGATGCCATAGCCCAACTATGGTCTTATACGAAAGA
Found at i:51673 original size:12 final size:12
Alignment explanation
Indices: 51656--51682 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
51646 TGCCCTTGCT
51656 ATGAATGTTTGG
1 ATGAATGTTTGG
51668 ATGAATGTTTGG
1 ATGAATGTTTGG
51680 ATG
1 ATG
51683 GGCTGTTGGT
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:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (12 bp):
ATGAATGTTTGG
Found at i:51765 original size:16 final size:16
Alignment explanation
Indices: 51740--51775 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
51730 GGTTCACCAC
51740 TGAA-TTTGCTGCCTA
1 TGAAGTTTGCTGCCTA
51755 TGAAGTTTGCTGCCTA
1 TGAAGTTTGCTGCCTA
51771 TGAAG
1 TGAAG
51776 CTTACAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (16 bp):
TGAAGTTTGCTGCCTA
Found at i:54170 original size:40 final size:40
Alignment explanation
Indices: 54126--54206 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
54116 TGAAAGAAAG
54126 GATATTTTTATAAGTATAAACACTAGTTGCAGCAACTGGT
1 GATATTTTTATAAGTATAAACACTAGTTGCAGCAACTGGT
54166 GATATTTTTATAAGTATAAACACTAGTTGCAGCAACTGGT
1 GATATTTTTATAAGTATAAACACTAGTTGCAGCAACTGGT
54206 G
1 G
54207 CTCAACCCTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (40 bp):
GATATTTTTATAAGTATAAACACTAGTTGCAGCAACTGGT
Found at i:61018 original size:21 final size:21
Alignment explanation
Indices: 60992--61046 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
60982 AATAGCGGTG
*
60992 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
* *
61013 GCGGTGAGATTGGGTATTGTA
1 GCGGTGAGATTAGGTACTGTA
61034 GCGGTGAGATTAG
1 GCGGTGAGATTAG
61047 AAACAGCAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.07, G:0.40, T:0.31
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:61182 original size:19 final size:18
Alignment explanation
Indices: 61158--61213 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
61148 TAGAAATTTT
61158 TAAAATTATTTAACAATTA
1 TAAAATTA-TTAACAATTA
*
61177 TAAAATTAATAA-ATGATTA
1 TAAAATTATTAACA--ATTA
61196 -AAAATTATT-ACAATTA
1 TAAAATTATTAACAATTA
61212 TA
1 TA
61214 TTTATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 4 0.13
17 3 0.10
18 12 0.39
19 12 0.39
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (18 bp):
TAAAATTATTAACAATTA
Found at i:69848 original size:27 final size:27
Alignment explanation
Indices: 69812--69882 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
69802 GTCCATAGTT
*
69812 AAACTATGGCGAAGTGATAAAGCGTGCC
1 AAAC-ATGGCGAAGTGATAAAGAGTGCC
69840 AAACATGGCGAAGTGATAAAGAGTGCC
1 AAACATGGCGAAGTGATAAAGAGTGCC
* *
69867 AAATATGGCAAAGTGA
1 AAACATGGCGAAGTGA
69883 AATGTGACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 36 0.90
28 4 0.10
ACGTcount: A:0.41, C:0.14, G:0.28, T:0.17
Consensus pattern (27 bp):
AAACATGGCGAAGTGATAAAGAGTGCC
Found at i:71216 original size:5 final size:5
Alignment explanation
Indices: 71190--71247 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
71180 ATGTGTTAAA
* *
71190 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
71239 ATATT ATAT
1 ATATT ATAT
71248 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:71226 original size:10 final size:9
Alignment explanation
Indices: 71191--71248 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
71181 TGTGTTAAAA
71191 TATATATAT
1 TATATATAT
*
71200 TAAAT-TAT
1 TATATATAT
71208 TAT-TATAT
1 TATATATAT
71216 TATAGTATAT
1 TATA-TATAT
71226 TATAT-TA-
1 TATATATAT
71233 TATATTATAT
1 TATA-TATAT
71243 TATATA
1 TATATA
71249 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:71238 original size:12 final size:12
Alignment explanation
Indices: 71193--71248 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
71183 TGTTAAAATA
*
71193 TATATATTAAAT
1 TATATATTATAT
71205 TAT-TATTATATT
1 TATATATTATA-T
71217 ATAGTATATTATAT
1 -TA-TATATTATAT
71231 TATATATTATAT
1 TATATATTATAT
71243 TATATA
1 TATATA
71249 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:72930 original size:39 final size:40
Alignment explanation
Indices: 72821--72930 Score: 98
Period size: 38 Copynumber: 2.8 Consensus size: 40
72811 ACCTCGAGTT
* * **
72821 GATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATTC
1 GATGAGACACTGGGTGTCA-AATATTACTTCGGATAGAGCC
** ** * *
72862 GATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GCC
1 GATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGCC
*
72900 GATGAGACACTGGGTGTCAAATATTGCTTCG
1 GATGAGACACTGGGTGTCAAATATTACTTCG
72931 AACTATCCGA
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
38 18 0.35
39 18 0.35
40 1 0.02
41 15 0.29
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGCC
Found at i:73097 original size:18 final size:19
Alignment explanation
Indices: 73076--73116 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
73066 AATGAAATGA
73076 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
73094 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
73113 GAAA
1 GAAA
73117 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:74507 original size:18 final size:18
Alignment explanation
Indices: 74484--74526 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
74474 GAATAGATTT
74484 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
74502 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
74520 TTAATTA
1 TTAATTA
74527 TACCTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:83195 original size:43 final size:43
Alignment explanation
Indices: 83147--83238 Score: 184
Period size: 43 Copynumber: 2.1 Consensus size: 43
83137 TCAAGACCAA
83147 TTGTTTGGAAGATGGGAAAAATCAAGAGTTAGAGTTTATTTAT
1 TTGTTTGGAAGATGGGAAAAATCAAGAGTTAGAGTTTATTTAT
83190 TTGTTTGGAAGATGGGAAAAATCAAGAGTTAGAGTTTATTTAT
1 TTGTTTGGAAGATGGGAAAAATCAAGAGTTAGAGTTTATTTAT
83233 TTGTTT
1 TTGTTT
83239 ATTTTGTTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.33, C:0.02, G:0.25, T:0.40
Consensus pattern (43 bp):
TTGTTTGGAAGATGGGAAAAATCAAGAGTTAGAGTTTATTTAT
Found at i:100018 original size:54 final size:52
Alignment explanation
Indices: 99947--100085 Score: 163
Period size: 53 Copynumber: 2.6 Consensus size: 52
99937 AAGCGATATT
* *
99947 CGTATAAGACCATAGCTGGGCTATGGCATCGGAAAACAACTGAT-AAGTGATTC
1 CGTATAAGACCACAGCTGGGCTATGGCATCGGAAAA-AACTGATAAAGCGA-TC
* * * ** *
100000 CTGTATAATACCACAGCTGGGCTATGGCTTTGGATTAAAGTGATACAAGCGATC
1 C-GTATAAGACCACAGCTGGGCTATGGCATCGGAAAAAACTGATA-AAGCGATC
100054 CGTATAAGACCACAGCTGGGCTATGGCATCGG
1 CGTATAAGACCACAGCTGGGCTATGGCATCGG
100086 TATGATATAT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
53 35 0.49
54 32 0.44
55 5 0.07
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (52 bp):
CGTATAAGACCACAGCTGGGCTATGGCATCGGAAAAAACTGATAAAGCGATC
Found at i:100066 original size:53 final size:53
Alignment explanation
Indices: 99927--100085 Score: 178
Period size: 54 Copynumber: 3.0 Consensus size: 53
99917 GGACCATGGC
* * *
99927 AACAAGTGATAAGCGATATTCGTATAAGACCATAGCTGGGCTATGGCATCGGAA
1 AACAACTGATAAGCGAT-TCCGTATAAGACCACAGCTGGGCTATGGCATCGGAA
* * * * *
99981 AACAACTGATAAGTGATTCCTGTATAATACCACAGCTGGGCTATGGCTTTGGAT
1 AACAACTGATAAGCGATTCC-GTATAAGACCACAGCTGGGCTATGGCATCGGAA
* *
100035 TA-AAGTGATACAAGCGA-TCCGTATAAGACCACAGCTGGGCTATGGCATCGG
1 AACAACTGAT--AAGCGATTCCGTATAAGACCACAGCTGGGCTATGGCATCGG
100086 TATGATATAT
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
53 36 0.41
54 47 0.53
55 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (53 bp):
AACAACTGATAAGCGATTCCGTATAAGACCACAGCTGGGCTATGGCATCGGAA
Found at i:102347 original size:21 final size:22
Alignment explanation
Indices: 102294--102352 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
102284 GATACCTATG
102294 CATAGTATATATATAAAAATGT
1 CATAGTATATATATAAAAATGT
102316 -ATACGTA-ATATAATAAAAAT-T
1 CATA-GTATATAT-ATAAAAATGT
102337 ACATAGTATATATATA
1 -CATAGTATATATATA
102353 TGTTAGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
21 8 0.25
22 17 0.53
23 7 0.22
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.36
Consensus pattern (22 bp):
CATAGTATATATATAAAAATGT
Found at i:102581 original size:18 final size:19
Alignment explanation
Indices: 102538--102583 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
102528 TAGCGTATAG
*
102538 GTAATTATATATAAAAAAT
1 GTAATAATATATAAAAAAT
*
102557 GTTATAATA-ATAATAAAA-
1 GTAATAATATATAA-AAAAT
102575 GTAATAATA
1 GTAATAATA
102584 CAATAGTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
GTAATAATATATAAAAAAT
Found at i:102647 original size:23 final size:22
Alignment explanation
Indices: 102608--102655 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
102598 ATGAAAGGTG
*
102608 TAATAATAATAACAATACAAAGA
1 TAATAATAATAACAATA-AAAAA
*
102631 TAATGATATATAA-AATAAAAAA
1 TAATAATA-ATAACAATAAAAAA
102653 TAA
1 TAA
102656 AAAAAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 7 0.32
23 11 0.50
24 4 0.18
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (22 bp):
TAATAATAATAACAATAAAAAA
Found at i:102744 original size:9 final size:11
Alignment explanation
Indices: 102721--102791 Score: 65
Period size: 11 Copynumber: 6.3 Consensus size: 11
102711 TATTAAAAGC
102721 ATATACATAAT
1 ATATACATAAT
102732 ATATACATAAT
1 ATATACATAAT
* *
102743 ATACAAAACAAAAT
1 AT---ATACATAAT
*
102757 ATACACATAAT
1 ATATACATAAT
102768 ATATTA-A-AAT
1 ATA-TACATAAT
102778 ATATACATAAT
1 ATATACATAAT
102789 ATA
1 ATA
102792 CTTAAAATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
9 2 0.04
10 7 0.14
11 30 0.61
12 1 0.02
14 9 0.18
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (11 bp):
ATATACATAAT
Found at i:102761 original size:23 final size:22
Alignment explanation
Indices: 102732--102792 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
102722 TATACATAAT
102732 ATATACATAATATACAAAACAAA
1 ATATACATAATATACAAAA-AAA
** *
102755 ATATACACATAATATA-TTAAAAT
1 ATAT--ACATAATATACAAAAAAA
102778 ATATACATAATATAC
1 ATATACATAATATAC
102793 TTAAAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 10 0.31
23 10 0.31
24 2 0.06
25 10 0.31
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (22 bp):
ATATACATAATATACAAAAAAA
Found at i:102778 original size:21 final size:22
Alignment explanation
Indices: 102752--102802 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 22
102742 TATACAAAAC
102752 AAAATATACACATAATATA-TT
1 AAAATATACACATAATATACTT
*
102773 AAAATATATACATAATATACTT
1 AAAATATACACATAATATACTT
102795 AAAATATA
1 AAAATATA
102803 TATAATGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATATACACATAATATACTT
Found at i:104097 original size:13 final size:13
Alignment explanation
Indices: 104079--104103 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104069 TGTTGGGTCA
104079 AAATTGGGCTTGC
1 AAATTGGGCTTGC
104092 AAATTGGGCTTG
1 AAATTGGGCTTG
104104 TACAGCTACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.32
Consensus pattern (13 bp):
AAATTGGGCTTGC
Found at i:104552 original size:44 final size:45
Alignment explanation
Indices: 104485--104860 Score: 171
Period size: 44 Copynumber: 8.6 Consensus size: 45
104475 AATTTTTAGC
* * * * *
104485 CTGTTACCCTACAGTTTAGGGGGTTAAGGCT-TGTCACATTTGAT
1 CTGTTACCCTACTGCTTAAGGGGTTAAGGTTCTGTCACATTCGAT
* * * * *
104529 CTGTTTCCCTACTGCTTAAGGGGTTAAGATT-TGTGA-ATTCAAC
1 CTGTTACCCTACTGCTTAAGGGGTTAAGGTTCTGTCACATTCGAT
* * * *
104572 CTGTTACCCTACTACTT-AGGGGTTTAAGG-TCTGT-AGATTTG-G
1 CTGTTACCCTACTGCTTAAGGGG-TTAAGGTTCTGTCACATTCGAT
* * * * *
104614 CTTGCTACACTACTGCTTAGGGGGTTAAAGTTCTGTCACCTTCGAT
1 C-TGTTACCCTACTGCTTAAGGGGTTAAGGTTCTGTCACATTCGAT
* * * * * * *
104660 CTGTTTCCCTACTACTT-AGCGGGTTAA-GATCTG-GAAATTCAAC
1 CTGTTACCCTACTGCTTAAG-GGGTTAAGGTTCTGTCACATTCGAT
**
104703 CTGTTACCCTACTGCTT-AGGGGTTTAAGGCCCT-TCGAC-TTCGAT
1 CTGTTACCCTACTGCTTAAGGGG-TTAAGGTTCTGTC-ACATTCGAT
* * * * *
104747 CTGCT-CCACTACTGCTT-AGAGAGATAA-GATCTG-CA-ATTCGGT
1 CTGTTACC-CTACTGCTTAAG-GGGTTAAGGTTCTGTCACATTCGAT
* *** *
104789 CTGTTACCCTACTGCTTAAGGGTTTAAGACCCT-TCGTC-TTCGAT
1 CTGTTACCCTACTGCTTAAGGGGTTAAGGTTCTGTC-ACATTCGAT
* * *
104833 CTGTTTCCCTACTACTTAGGGGGTTAAG
1 CTGTTACCCTACTGCTTAAGGGGTTAAG
104861 ATCTGGAAAT
Statistics
Matches: 246, Mismatches: 63, Indels: 46
0.69 0.18 0.13
Matches are distributed among these distances:
42 34 0.14
43 87 0.35
44 98 0.40
45 26 0.11
46 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (45 bp):
CTGTTACCCTACTGCTTAAGGGGTTAAGGTTCTGTCACATTCGAT
Found at i:104584 original size:43 final size:43
Alignment explanation
Indices: 104484--104899 Score: 167
Period size: 43 Copynumber: 9.6 Consensus size: 43
104474 TAATTTTTAG
* * ** *
104484 CCTGTTACCCTACAGTTTAGGGGGTTAAGGCTTGTCACATTTGA
1 CCTGTTACCCTACTGCTTA-GGGGTTAAGATTTGTCACATTCGA
* * * *
104528 TCTGTTTCCCTACTGCTTAAGGGGTTAAGATTTGTGA-ATTCAA
1 CCTGTTACCCTACTGCTT-AGGGGTTAAGATTTGTCACATTCGA
* * * * * *
104571 CCTGTTACCCTACTACTTAGGGGTTTAAGGTCTGT-AGATTTGG
1 CCTGTTACCCTACTGCTTAGGGG-TTAAGATTTGTCACATTCGA
* * * *
104614 CTTGCTACACTACTGCTTAGGGGGTTAA-AGTTCTGTCACCTTCGA
1 CCTGTTACCCTACTGCTTA-GGGGTTAAGA-TT-TGTCACATTCGA
* * * * * * *
104659 TCTGTTTCCCTACTACTTAGCGGGTTAAGATCTG-GAAATTCAA
1 CCTGTTACCCTACTGCTTAG-GGGTTAAGATTTGTCACATTCGA
***
104702 CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCT-TCGAC-TTCGA
1 CCTGTTACCCTACTGCTTAGGGG-TTAA-GATTTGTC-ACATTCGA
* * * * * *
104746 TCTGCT-CCACTACTGCTTAGAGAGATAAGATCTG-CA-ATTCGG
1 CCTGTTACC-CTACTGCTTAG-GGGTTAAGATTTGTCACATTCGA
* * *
104788 TCTGTTACCCTACTGCTTAAGGGTTTAAGACCCTTCGT--C-TTCGA
1 CCTGTTACCCTACTGCTT-AGGGGTTAAGA---TTTGTCACATTCGA
* * * * * * *
104832 TCTGTTTCCCTACTACTTAGGGGGTTAAGATCTG-GA-AATCCA
1 CCTGTTACCCTACTGCTTA-GGGGTTAAGATTTGTCACATTCGA
104874 GCCTGTTACCCTACTGCTTAGGGGTT
1 -CCTGTTACCCTACTGCTTAGGGGTT
104900 TTAGGCCCTT
Statistics
Matches: 273, Mismatches: 70, Indels: 60
0.68 0.17 0.15
Matches are distributed among these distances:
41 2 0.01
42 43 0.16
43 104 0.38
44 92 0.34
45 31 0.11
46 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (43 bp):
CCTGTTACCCTACTGCTTAGGGGTTAAGATTTGTCACATTCGA
Found at i:104672 original size:131 final size:132
Alignment explanation
Indices: 104500--104817 Score: 373
Period size: 131 Copynumber: 2.4 Consensus size: 132
104490 ACCCTACAGT
* * * *
104500 TTAGGGGGTTAAGGCT-TGTCACATTTGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATTTGTG
1 TTAGGGGGTTAAAGATCTGTCACATTCGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTG-G
* * * *
104564 -AATTCAACCTGTTACCCTACTACTTAGGGGTTTAAGG-TCTGTAGATTTGGCT-TGCTACACTA
65 AAATTCAACCTGTTACCCTACTACTTAGGGGTTTAAGGCCCT-TAGACTTCGATCTGCTACACTA
104626 CTGC
129 CTGC
* * *
104630 TTAGGGGGTTAAAGTTCTGTCACCTTCGATCTGTTTCCCTACTACTT-AGCGGGTTAAGATCTGG
1 TTAGGGGGTTAAAGATCTGTCACATTCGATCTGTTTCCCTACTGCTTAAG-GGGTTAAGATCTGG
* * *
104694 AAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGACTTCGATCTGCTCCACTAC
65 AAATTCAACCTGTTACCCTACTACTTAGGGGTTTAAGGCCCTTAGACTTCGATCTGCTACACTAC
104759 TGC
130 TGC
* * * * * *
104762 TTAGAGAGAT-AAGATCTG-CA-ATTCGGTCTGTTACCCTACTGCTTAAGGGTTTAAGA
1 TTAGGGGGTTAAAGATCTGTCACATTCGATCTGTTTCCCTACTGCTTAAGGGGTTAAGA
104818 CCCTTCGTCT
Statistics
Matches: 160, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
129 28 0.17
130 21 0.13
131 89 0.56
132 22 0.14
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (132 bp):
TTAGGGGGTTAAAGATCTGTCACATTCGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGGA
AATTCAACCTGTTACCCTACTACTTAGGGGTTTAAGGCCCTTAGACTTCGATCTGCTACACTACT
GC
Found at i:104775 original size:87 final size:87
Alignment explanation
Indices: 104653--105043 Score: 493
Period size: 86 Copynumber: 4.5 Consensus size: 87
104643 GTTCTGTCAC
* * *
104653 CTTCGATCTGTTTCCCTACTACTTAGCGGGTTAAGATCTGGAAATTCAACCTGTTACCCTACTGC
1 CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATTCAGCCTGTTACCCTACTGC
* *
104718 TTAGGGGTTTAAGGCCCTTCGA
66 TTAGGGGTTTAAGACCCTTCGT
* * * * * * *
104740 CTTCGATCTG-CTCCACTACTGCTTAGAGAGATAAGATCT-GCAATTCGGTCTGTTACCCTACTG
1 CTTCGATCTGTTTCC-CTACTGCTTAGGGGGTTAAGATCTGGAAATTCAGCCTGTTACCCTACTG
*
104803 CTTAAGGGTTTAAGACCCTTCGT
65 CTTAGGGGTTTAAGACCCTTCGT
* *
104826 CTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGGAAATCCAGCCTGTTACCCTACTGC
1 CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATTCAGCCTGTTACCCTACTGC
* *
104891 TTAGGGGTTTTAGGCCCTTCGT
66 TTAGGGGTTTAAGACCCTTCGT
* * * * * ** * *
104913 CTTCGATCTG-CTCCACTATTGCTTAGGGAGATAAGATCT-GCAATTTGGTCTGTTACCTTACTG
1 CTTCGATCTGTTTCC-CTACTGCTTAGGGGGTTAAGATCTGGAAATTCAGCCTGTTACCCTACTG
104976 CTTAGGGGTTTAAGACCCTTCGT
65 CTTAGGGGTTTAAGACCCTTCGT
*
104999 CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAAT
1 CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAAT
105044 GTTTATGCCA
Statistics
Matches: 255, Mismatches: 43, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
86 146 0.57
87 109 0.43
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (87 bp):
CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATTCAGCCTGTTACCCTACTGC
TTAGGGGTTTAAGACCCTTCGT
Found at i:104840 original size:173 final size:173
Alignment explanation
Indices: 104653--105043 Score: 674
Period size: 173 Copynumber: 2.3 Consensus size: 173
104643 GTTCTGTCAC
* *
104653 CTTCGATCTGTTTCCCTACTACTTAGCGGGTTAAGATCTGGAAATTCAACCTGTTACCCTACTGC
1 CTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGGAAATCCAACCTGTTACCCTACTGC
104718 TTAGGGGTTTAAGGCCCTTCGACTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGCAA
66 TTAGGGGTTTAAGGCCCTTCGACTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGCAA
104783 TTCGGTCTGTTACCCTACTGCTTAAGGGTTTAAGACCCTTCGT
131 TTCGGTCTGTTACCCTACTGCTTAAGGGTTTAAGACCCTTCGT
*
104826 CTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGGAAATCCAGCCTGTTACCCTACTGC
1 CTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGGAAATCCAACCTGTTACCCTACTGC
* * * *
104891 TTAGGGGTTTTAGGCCCTTCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAA
66 TTAGGGGTTTAAGGCCCTTCGACTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGCAA
* * *
104956 TTTGGTCTGTTACCTTACTGCTTAGGGGTTTAAGACCCTTCGT
131 TTCGGTCTGTTACCCTACTGCTTAAGGGTTTAAGACCCTTCGT
* *
104999 CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAAT
1 CTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGGAAAT
105044 GTTTATGCCA
Statistics
Matches: 206, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
173 206 1.00
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (173 bp):
CTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGGAAATCCAACCTGTTACCCTACTGC
TTAGGGGTTTAAGGCCCTTCGACTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGCAA
TTCGGTCTGTTACCCTACTGCTTAAGGGTTTAAGACCCTTCGT
Found at i:105135 original size:64 final size:64
Alignment explanation
Indices: 105046--105169 Score: 203
Period size: 64 Copynumber: 1.9 Consensus size: 64
105036 CTGTAAATGT
*
105046 TTATGCCAAATAATTAGGACGCTATGATTAAAATGAATCAAATGCTCCTAACTAAATGTGATGC
1 TTATGCCAAATAATTAGGACGCTATGATCAAAATGAATCAAATGCTCCTAACTAAATGTGATGC
* * * *
105110 TTATGTCAAATTATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
1 TTATGCCAAATAATTAGGACGCTATGATCAAAATGAATCAAATGCTCCTAACTAAATGTG
105170 TCACAAATGA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (64 bp):
TTATGCCAAATAATTAGGACGCTATGATCAAAATGAATCAAATGCTCCTAACTAAATGTGATGC
Found at i:116897 original size:21 final size:22
Alignment explanation
Indices: 116844--116902 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
116834 GATACCTATG
116844 CATAGTATATATATAAAAATGT
1 CATAGTATATATATAAAAATGT
116866 -ATACGTA-ATATAATAAAAAT-T
1 CATA-GTATATAT-ATAAAAATGT
116887 ACATAGTATATATATA
1 -CATAGTATATATATA
116903 TGTTAGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
21 8 0.25
22 17 0.53
23 7 0.22
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.36
Consensus pattern (22 bp):
CATAGTATATATATAAAAATGT
Found at i:117132 original size:18 final size:19
Alignment explanation
Indices: 117089--117134 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
117079 TAGCGTATAG
*
117089 GTAATTATATATAAAAAAT
1 GTAATAATATATAAAAAAT
*
117108 GTTATAATA-ATAATAAAA-
1 GTAATAATATATAA-AAAAT
117126 GTAATAATA
1 GTAATAATA
117135 CAATAGTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
GTAATAATATATAAAAAAT
Found at i:117283 original size:11 final size:11
Alignment explanation
Indices: 117269--117318 Score: 55
Period size: 11 Copynumber: 4.3 Consensus size: 11
117259 TATTAAAAGC
117269 ATATACATAAT
1 ATATACATAAT
117280 ATATACATAAT
1 ATATACATAAT
* *
117291 ATACAAAACAAAAT
1 AT---ATACATAAT
117305 ATATACATAAT
1 ATATACATAAT
117316 ATA
1 ATA
117319 CTTAAAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 23 0.72
14 9 0.28
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (11 bp):
ATATACATAAT
Found at i:120315 original size:15 final size:15
Alignment explanation
Indices: 120295--120336 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
120285 CAATTTTTTA
120295 TCAAAAAAAAATTGT
1 TCAAAAAAAAATTGT
*
120310 TC-AAAAAAAA-T-A
1 TCAAAAAAAAATTGT
120322 TCAAAAAAAAATTGT
1 TCAAAAAAAAATTGT
120337 ATATATTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
12 2 0.09
13 9 0.41
14 9 0.41
15 2 0.09
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.24
Consensus pattern (15 bp):
TCAAAAAAAAATTGT
Found at i:123544 original size:6 final size:6
Alignment explanation
Indices: 123498--123540 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
123488 AATCGTCCTC
* * *
123498 CGCCAT CGCCAT CGCAAT CGCCAT CGCCA- CGTCAT CGTCAT CG
1 CGCCAT CGCCAT CGCCAT CGCCAT CGCCAT CGCCAT CGCCAT CG
123541 TCATGGCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.19, C:0.44, G:0.19, T:0.19
Consensus pattern (6 bp):
CGCCAT
Found at i:124659 original size:6 final size:6
Alignment explanation
Indices: 124648--124730 Score: 96
Period size: 6 Copynumber: 13.8 Consensus size: 6
124638 CAACGATGGG
* * * *
124648 TCCGGT TCCGGT TCCGGT TCGGGT TCCGGT TCTGGT TCTGGT TCTGGT
1 TCCGGT TCCGGT TCCGGT TCCGGT TCCGGT TCCGGT TCCGGT TCCGGT
* *
124696 TCTGGT TCCGG- TCCTGGT TCCGAT TCCGGT TCCGG
1 TCCGGT TCCGGT TCC-GGT TCCGGT TCCGGT TCCGG
124731 CTCCAAGAAG
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
5 3 0.04
6 63 0.91
7 3 0.04
ACGTcount: A:0.01, C:0.28, G:0.34, T:0.37
Consensus pattern (6 bp):
TCCGGT
Found at i:134148 original size:23 final size:23
Alignment explanation
Indices: 134117--134160 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
134107 GTCTTATATG
134117 CTCAACTAGATTAAATTGGAGCT
1 CTCAACTAGATTAAATTGGAGCT
*
134140 CTCAGCTAGATTAAATTGGAG
1 CTCAACTAGATTAAATTGGAG
134161 GCTACGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (23 bp):
CTCAACTAGATTAAATTGGAGCT
Found at i:135119 original size:12 final size:13
Alignment explanation
Indices: 135094--135118 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
135084 AATTTTAATC
135094 AAATAAATTTTTT
1 AAATAAATTTTTT
135107 AAATAAATTTTT
1 AAATAAATTTTT
135119 ATACAATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATAAATTTTTT
Found at i:146986 original size:19 final size:20
Alignment explanation
Indices: 146962--146999 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
146952 GGTACCACCA
146962 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
146981 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
147000 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:147336 original size:93 final size:93
Alignment explanation
Indices: 147229--147399 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
147219 GCCCCTAAGT
* * * *
147229 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCGTCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
147294 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
147322 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
147387 CGAGTTCGGATGC
66 CGAGTTCGGATGC
147400 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:147396 original size:46 final size:46
Alignment explanation
Indices: 147224--147396 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
147214 AACCCGCCCC
* * * *
147224 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCGTCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
147270 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
147318 TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
147363 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
147397 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.57
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:147853 original size:30 final size:30
Alignment explanation
Indices: 147819--147878 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
147809 ATTTAATACG
147819 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
147849 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
147879 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:149800 original size:30 final size:30
Alignment explanation
Indices: 149733--149801 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
149723 GATGCAACTT
149733 AATAAGCAAATGCCTCTAAAATAATAACAAA
1 AATAA-CAAATGCCTCTAAAATAATAACAAA
** *
149764 TTTAACAAATGCCTTTAAAATAATAACAAA
1 AATAACAAATGCCTCTAAAATAATAACAAA
149794 AATAACAA
1 AATAACAA
149802 TAAAGTAAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 30 0.91
31 3 0.09
ACGTcount: A:0.58, C:0.14, G:0.04, T:0.23
Consensus pattern (30 bp):
AATAACAAATGCCTCTAAAATAATAACAAA
Found at i:151911 original size:50 final size:50
Alignment explanation
Indices: 151834--152009 Score: 235
Period size: 50 Copynumber: 3.5 Consensus size: 50
151824 TATGGCAACC
* * * *
151834 AGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAAGATAAGTGAA
1 AGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
* * *
151884 AGTGATAAGTAATAACTTCGGCAACACTAATCTGATCAAGGACAAGTGAA
1 AGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
* * *
151934 AGTGATAAGGGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGACA
1 AGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAGTGA-A
* *
151985 AGTGAAAAGTGGTAACTTCGGCTAC
1 AGTGATAAGTGATAACTTCGGCTAC
152010 CTGATCAGTG
Statistics
Matches: 108, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 86 0.80
51 22 0.20
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (50 bp):
AGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
Found at i:152023 original size:31 final size:31
Alignment explanation
Indices: 151985--152102 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
151975 ACAAATGACA
* *
151985 AGTGAAAAGTGGTAACTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
152016 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
152047 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
152078 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
152103 AAGTGACAAG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:152241 original size:49 final size:49
Alignment explanation
Indices: 152124--152261 Score: 174
Period size: 49 Copynumber: 2.8 Consensus size: 49
152114 GATTTTCGTG
* * *
152124 TAAGACCATATCTGGGATATGGCATCG--GTGTAATATATGCTACTGTA
1 TAAGACCATATCTGGGATATGGCATCGATATGTGATATGTGCTACTGTA
*
152171 TAAGACCATATCTGGGATATGGCATCGATATGTGATATGTGATTAC-GTA
1 TAAGACCATATCTGGGATATGGCATCGATATGTGATATGTG-CTACTGTA
* * *
152220 TAAGACCATAGCTGGGTTATGGCATCGATATATGAATATGTG
1 TAAGACCATATCTGGGATATGGCATCGATATGTG-ATATGTG
152262 TAAGACCATA
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
47 27 0.34
49 43 0.54
50 10 0.12
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (49 bp):
TAAGACCATATCTGGGATATGGCATCGATATGTGATATGTGCTACTGTA
Found at i:161601 original size:20 final size:20
Alignment explanation
Indices: 161576--161625 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
161566 TGGCTTAAAA
161576 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
161596 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
161613 GTGGTAGTGGATT
1 TTGGTAGTGGATT
161626 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:166240 original size:20 final size:20
Alignment explanation
Indices: 166215--166264 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
166205 TGGCTTAAAA
166215 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
166235 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
166252 GTGGTAGTGGATT
1 TTGGTAGTGGATT
166265 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:166926 original size:7 final size:7
Alignment explanation
Indices: 166914--166938 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
166904 AATATAAGGA
166914 TGAAAAT
1 TGAAAAT
166921 TGAAAAT
1 TGAAAAT
166928 TGAAAAT
1 TGAAAAT
166935 TGAA
1 TGAA
166939 TATAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (7 bp):
TGAAAAT
Found at i:176920 original size:6 final size:6
Alignment explanation
Indices: 176909--176941 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
176899 TAGTTGAGTA
*
176909 GAGCCT GAGCCT GAGCCT GAGCCT GTGCCT GAG
1 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAG
176942 TTTATTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.30, G:0.36, T:0.18
Consensus pattern (6 bp):
GAGCCT
Found at i:183553 original size:21 final size:21
Alignment explanation
Indices: 183527--183567 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
183517 ATCTGCTCAA
* *
183527 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
183548 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
183568 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:200201 original size:35 final size:35
Alignment explanation
Indices: 200162--200274 Score: 92
Period size: 35 Copynumber: 3.3 Consensus size: 35
200152 TAATCGTTTA
200162 ATGTTTGTGAATATATTTGATTAAGTTAAATAAAC
1 ATGTTTGTGAATATATTTGATTAAGTTAAATAAAC
* * ** * **
200197 ATGTTCGT-AA-ACATTAAATAAACG--AACATGTA-
1 ATGTTTGTGAATATATTTGATTAA-GTTAA-ATAAAC
* *
200229 ATGTTTGTAAATATATTTGATTAAATTAAATAAAC
1 ATGTTTGTGAATATATTTGATTAAGTTAAATAAAC
200264 ATGTTTGTGAA
1 ATGTTTGTGAA
200275 CATTAAATAA
Statistics
Matches: 55, Mismatches: 16, Indels: 14
0.65 0.19 0.16
Matches are distributed among these distances:
32 9 0.16
33 13 0.24
34 14 0.25
35 19 0.35
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.39
Consensus pattern (35 bp):
ATGTTTGTGAATATATTTGATTAAGTTAAATAAAC
Found at i:200242 original size:67 final size:67
Alignment explanation
Indices: 200160--200289 Score: 224
Period size: 67 Copynumber: 1.9 Consensus size: 67
200150 CATAATCGTT
* *
200160 TAATGTTTGTGAATATATTTGATTAAGTTAAATAAACATGTTCGTAAACATTAAATAAACGAACA
1 TAATGTTTGTAAATATATTTGATTAAATTAAATAAACATGTTCGTAAACATTAAATAAACGAACA
200225 TG
66 TG
* *
200227 TAATGTTTGTAAATATATTTGATTAAATTAAATAAACATGTTTGTGAACATTAAATAAACGAA
1 TAATGTTTGTAAATATATTTGATTAAATTAAATAAACATGTTCGTAAACATTAAATAAACGAA
200290 TATGGAACAC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (67 bp):
TAATGTTTGTAAATATATTTGATTAAATTAAATAAACATGTTCGTAAACATTAAATAAACGAACA
TG
Found at i:200305 original size:67 final size:67
Alignment explanation
Indices: 200171--200305 Score: 189
Period size: 67 Copynumber: 2.0 Consensus size: 67
200161 AATGTTTGTG
* * ****
200171 AATATATTTGATTAAGTTAAATAAACATGTTCGTAAACATTAAATAAACGAACATGTAATGTTTG
1 AATATATTTGATTAAATTAAATAAACATGTTCGTAAACATTAAATAAACGAACATGGAACACATG
200236 TA
66 TA
* * *
200238 AATATATTTGATTAAATTAAATAAACATGTTTGTGAACATTAAATAAACGAATATGGAACACATG
1 AATATATTTGATTAAATTAAATAAACATGTTCGTAAACATTAAATAAACGAACATGGAACACATG
200303 TA
66 TA
200305 A
1 A
200306 TTTTAAATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (67 bp):
AATATATTTGATTAAATTAAATAAACATGTTCGTAAACATTAAATAAACGAACATGGAACACATG
TA
Found at i:202930 original size:26 final size:24
Alignment explanation
Indices: 202901--202992 Score: 75
Period size: 26 Copynumber: 3.8 Consensus size: 24
202891 GAGTAAGATC
202901 AAATTAATAAAAATTATAAATATAAA
1 AAATTAATAAAAATTATAAATAT--A
* *
202927 AAATTATTAAAAATCA-AAAT-T-
1 AAATTAATAAAAATTATAAATATA
202948 AAATTAAT-AAAATATATAAACTATA
1 AAATTAATAAAAAT-TATAAA-TATA
* *
202973 CCAATTAAAAAAAATTATAA
1 -AAATTAATAAAAATTATAA
202993 TCTATAACCA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
20 5 0.09
21 8 0.15
22 3 0.06
23 1 0.02
24 2 0.04
25 4 0.08
26 25 0.47
27 5 0.09
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATTAATAAAAATTATAAATATA
Found at i:233277 original size:30 final size:28
Alignment explanation
Indices: 233223--233279 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
233213 AATTGTAGAA
*
233223 TAAATTGTAAATTTTGAGTATTAGGGAC
1 TAAATTGTAAATTTTGAATATTAGGGAC
233251 TAAATTGTGAAAATTTTAGAAT-TTAGGGA
1 TAAATTGT--AAATTTT-GAATATTAGGGA
233280 TTTAAGTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 8 0.32
30 14 0.56
31 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.39
Consensus pattern (28 bp):
TAAATTGTAAATTTTGAATATTAGGGAC
Found at i:234704 original size:21 final size:22
Alignment explanation
Indices: 234679--234725 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
234669 TTAGGATGAT
234679 TGTTTTGA-CATGTTTTGGATG
1 TGTTTTGATCATGTTTTGGATG
**
234700 TG-TTTGATTGTGTTTTGGATG
1 TGTTTTGATCATGTTTTGGATG
234721 TGTTT
1 TGTTT
234726 GAGTTGCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 15 0.68
22 2 0.09
ACGTcount: A:0.11, C:0.02, G:0.30, T:0.57
Consensus pattern (22 bp):
TGTTTTGATCATGTTTTGGATG
Found at i:234716 original size:11 final size:11
Alignment explanation
Indices: 234689--234725 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
234679 TGTTTTGACA
234689 TGTTTTGGATG
1 TGTTTTGGATG
234700 TG-TTT-GATTG
1 TGTTTTGGA-TG
234710 TGTTTTGGATG
1 TGTTTTGGATG
234721 TGTTT
1 TGTTT
234726 GAGTTGCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 2 0.09
10 7 0.30
11 12 0.52
12 2 0.09
ACGTcount: A:0.08, C:0.00, G:0.32, T:0.59
Consensus pattern (11 bp):
TGTTTTGGATG
Found at i:235881 original size:41 final size:41
Alignment explanation
Indices: 235775--235984 Score: 262
Period size: 41 Copynumber: 5.1 Consensus size: 41
235765 GCAAAAATTG
* *
235775 TAAAATACAGAGCAATAGCGGCGCTTTTGGTAAAACACCGC
1 TAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* *
235816 TAAAA-ACAGAGCAATAGCAGCGCTTTTGGTAAAACGCCAC
1 TAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* *
235856 TAAAAGACGGAGCAATAGCGGCGCTTTTGGTAAAACGTCGC
1 TAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* * * * *
235897 TAAAAGTCGGAGCATTAGCGGCGCTTTTTGTAAAACACCGC
1 TAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* * **
235938 TAAAA-ACCAGAGCATTAGCGGCACTTTTTATAAAACGCCGC
1 TAAAAGA-CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
235979 TAAAAG
1 TAAAAG
235985 TCATATAACC
Statistics
Matches: 149, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
40 37 0.25
41 112 0.75
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (41 bp):
TAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:236001 original size:18 final size:16
Alignment explanation
Indices: 235978--236061 Score: 52
Period size: 17 Copynumber: 5.3 Consensus size: 16
235968 TAAAACGCCG
235978 CTAAAAGTCATATAACCC
1 CTAAAA-TCATA-AACCC
*
235996 CTAAAATCATAAACCTA
1 CTAAAATCATAAACC-C
** *
236013 AAAAAATCATAAA-CA
1 CTAAAATCATAAACCC
236028 CT--AATC-TATAACCC
1 CTAAAATCATA-AACCC
*
236042 CTAAAATAATAAA-CC
1 CTAAAATCATAAACCC
236057 CTAAA
1 CTAAA
236062 CACTAAACTA
Statistics
Matches: 53, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
12 2 0.04
13 6 0.11
14 3 0.06
15 8 0.15
16 10 0.19
17 18 0.34
18 6 0.11
ACGTcount: A:0.54, C:0.24, G:0.01, T:0.21
Consensus pattern (16 bp):
CTAAAATCATAAACCC
Found at i:236018 original size:17 final size:18
Alignment explanation
Indices: 235998--236031 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
235988 TATAACCCCT
235998 AAAATCATAAAC-CTAAA
1 AAAATCATAAACACTAAA
236015 AAAATCATAAACACTAA
1 AAAATCATAAACACTAA
236032 TCTATAACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAATCATAAACACTAAA
Found at i:236503 original size:22 final size:21
Alignment explanation
Indices: 236451--236503 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
236441 TTTAATCATT
*
236451 TAAAGTTTAGATGATAGGGGG
1 TAAAGTTTAGATGATAAGGGG
236472 TAAA-TGTTAGA-GATTAAGGGG
1 TAAAGT-TTAGATGA-TAAGGGG
236493 TAGAAGTTTAG
1 TA-AAGTTTAG
236504 GGTTTATGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 3 0.11
21 17 0.63
22 6 0.22
23 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.34, T:0.30
Consensus pattern (21 bp):
TAAAGTTTAGATGATAAGGGG
Found at i:236608 original size:14 final size:14
Alignment explanation
Indices: 236498--236608 Score: 59
Period size: 14 Copynumber: 7.7 Consensus size: 14
236488 AGGGGTAGAA
236498 GTTTA-GGGTTTATG
1 GTTTATGGGTTTA-G
* *
236512 GTTTATGGCTTAAG
1 GTTTATGGGTTTAG
* *
236526 GTTTAGGGGTTAAG
1 GTTTATGGGTTTAG
*
236540 ATTTATGGGTTTACAG
1 GTTTATGGGTTT--AG
236556 G-TTATGGGATTTAG
1 GTTTATGGG-TTTAG
* *
236570 GATTTA-GGATATAG
1 G-TTTATGGGTTTAG
*
236584 GTGTTAGGGGTTTAG
1 GT-TTATGGGTTTAG
236599 GATTTA-GGGT
1 G-TTTATGGGT
236609 AATTAGTGTG
Statistics
Matches: 76, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
13 1 0.01
14 42 0.55
15 24 0.32
16 9 0.12
ACGTcount: A:0.22, C:0.02, G:0.35, T:0.41
Consensus pattern (14 bp):
GTTTATGGGTTTAG
Found at i:236746 original size:17 final size:17
Alignment explanation
Indices: 236720--236763 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
236710 AATCTATATA
* *
236720 TTAAATAATTTCAAATT
1 TTAAAAAATTTAAAATT
*
236737 TTAAAGAA-TTAAAATT
1 TTAAAAAATTTAAAATT
236753 TTAAAAAATTT
1 TTAAAAAATTT
236764 TCAAGATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAAAAATTTAAAATT
Found at i:236761 original size:26 final size:26
Alignment explanation
Indices: 236732--236781 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
236722 AAATAATTTC
236732 AAATTTTAAAGAATTAAAATTTTAAA
1 AAATTTTAAAGAATTAAAATTTTAAA
* * *
236758 AAATTTTCAAGATTTCAAATTTTA
1 AAATTTTAAAGAATTAAAATTTTA
236782 TGTAATTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (26 bp):
AAATTTTAAAGAATTAAAATTTTAAA
Found at i:242743 original size:25 final size:25
Alignment explanation
Indices: 242710--242760 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
242700 AGGGATGGGA
242710 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
242735 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
242760 A
1 A
242761 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:248046 original size:93 final size:92
Alignment explanation
Indices: 247887--248110 Score: 297
Period size: 93 Copynumber: 2.4 Consensus size: 92
247877 TTCGACATGA
* * * * * *
247887 TGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCATTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGTTGCCATGGTATCATTCAA
** * *
247951 CCATGGTCTTATTCATTTTCCCGTCACGT
65 CCATGGTCTTACACA-TTTCACATCACGT
* *
247980 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATGTCACGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGTTGCCATGGTATCATTCAAC
* *
248045 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCACATCACGT
248072 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
248111 ATCAGAGAGT
Statistics
Matches: 115, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
92 51 0.44
93 64 0.56
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGTTGCCATGGTATCATTCAAC
CATGGTCTTACACATTTCACATCACGT
Found at i:248115 original size:46 final size:46
Alignment explanation
Indices: 247887--248110 Score: 297
Period size: 46 Copynumber: 4.8 Consensus size: 46
247877 TTCGACATGA
* * * * * *
247887 TGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
* ** **
247933 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTTCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
*
247980 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
* *
248026 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
248072 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
248111 ATCAGAGAGT
Statistics
Matches: 160, Mismatches: 17, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
46 125 0.78
47 35 0.22
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
Found at i:250251 original size:11 final size:11
Alignment explanation
Indices: 250235--250286 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
250225 TATACTAAAT
250235 AAATAATAATA
1 AAATAATAATA
*
250246 AAATAAT-ATT
1 AAATAATAATA
* *
250256 AAATATCTCATA
1 AAATA-ATAATA
*
250268 AAATATTAATA
1 AAATAATAATA
250279 AAATAATA
1 AAATAATA
250287 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:251764 original size:45 final size:45
Alignment explanation
Indices: 251564--252083 Score: 276
Period size: 45 Copynumber: 11.6 Consensus size: 45
251554 TAATTTCAAC
* * * * * *
251564 CTGCTCCACTGCATCTTTAGGGAGATGAGGTTTGCGA-CTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGT
* * * *
251608 CTGCTCCACTGCAACTTTAGGGAGATGAGATTCGCCATAGTAACTTGA-T
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-C-TA-T--CTTCAGT
* * * * * * * *
251657 CCGAC-CTACTGCAACTTCAGAGG-TATAGGATTT-ATAGCTTTAAT
1 CTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGCTATCTTCAGT
* * * *
251701 CTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTGAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGT
* * * *
251746 CTGCTCCGCTGCAACTTCAAGGAAATGAGATTTGCTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGT
* * * * * **
251791 CTACTCCATTGCAAGTTCAGGGAGATAAGACTTG-TA-CTTTAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGT
* * *
251834 CTG-TCCTACTGCAACTTCAGGGGGATAAGGTTTGTTATCTTCAGT
1 CTGCTCC-ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGT
* * * * **
251879 CTACTCCACTGCAAGTTCAGGGAGATAAGACTTG-TA-CTTTAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGT
* * * *
251922 CTGCCCCACTGCAACTTCAGGGGGATAAGGTTTGTTATCTTC-GAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAG-T
*** * * * * *
251967 CCATTCCACTGTAACTTTAGGGAGATAAGATCTG-TAACTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGT
* ** * * * * * *
252011 CTACTCTGCTGAAACTTCAGAGAGACAAGATTTG--AGGCTTAAAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTA-TCTT-CAGT
252056 CTGCTCCACTGCAACTTCAGGGAGATAA
1 CTGCTCCACTGCAACTTCAGGGAGATAA
252084 AATCTACAAT
Statistics
Matches: 357, Mismatches: 97, Indels: 43
0.72 0.20 0.09
Matches are distributed among these distances:
42 3 0.01
43 67 0.19
44 100 0.28
45 152 0.43
46 6 0.02
49 22 0.06
50 7 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGT
Found at i:251853 original size:43 final size:42
Alignment explanation
Indices: 251795--251950 Score: 159
Period size: 43 Copynumber: 3.6 Consensus size: 42
251785 TTCAGTCTAC
* *
251795 TCCATTGCAAGTTCAGGGAGATAAGACTTGTACTTTAACCTG
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTACTTTAACCTG
* ** * ** *
251837 TCCTACTGCAACTTCAGGGGGATAAGGTTTGTTATCTTCAGTCTAC
1 TCC-ACTGCAACTTCAGGGAGATAAGACTTG-TA-CTTTAACCT-G
*
251883 TCCACTGCAAGTTCAGGGAGATAAGACTTGTACTTTAACCTG
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTACTTTAACCTG
* *
251925 CCCCACTGCAACTTCAGGGGGATAAG
1 -TCCACTGCAACTTCAGGGAGATAAG
251951 GTTTGTTATC
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
42 3 0.03
43 50 0.56
44 4 0.04
45 29 0.33
46 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (42 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTACTTTAACCTG
Found at i:251876 original size:88 final size:88
Alignment explanation
Indices: 251708--251996 Score: 346
Period size: 88 Copynumber: 3.3 Consensus size: 88
251698 AATCTGCTCT
* * * * ** * * * ** *
251708 ACTGCAACTTCAGAGAGATAAGATTTGCTATTTTGAGTCTGCTCCGCTGCAACTTCAAGGAAATG
1 ACTGCAAGTTCAGGGAGATAAGACTTG-TACTTT-AACCTGCCCCACTGCAACTTCAGGGGGATA
* *
251773 AGATTTGCTATCTTCAGTCTACTCC
64 AGGTTTGTTATCTTCAGTCTACTCC
* * *
251798 ATTGCAAGTTCAGGGAGATAAGACTTGTACTTTAACCTGTCCTACTGCAACTTCAGGGGGATAAG
1 ACTGCAAGTTCAGGGAGATAAGACTTGTACTTTAACCTGCCCCACTGCAACTTCAGGGGGATAAG
251863 GTTTGTTATCTTCAGTCTACTCC
66 GTTTGTTATCTTCAGTCTACTCC
251886 ACTGCAAGTTCAGGGAGATAAGACTTGTACTTTAACCTGCCCCACTGCAACTTCAGGGGGATAAG
1 ACTGCAAGTTCAGGGAGATAAGACTTGTACTTTAACCTGCCCCACTGCAACTTCAGGGGGATAAG
* *
251951 GTTTGTTATCTTC-GATCCATTCC
66 GTTTGTTATCTTCAG-TCTACTCC
* * *
251974 ACTGTAACTTTAGGGAGATAAGA
1 ACTGCAAGTTCAGGGAGATAAGA
251997 TCTGTAACTT
Statistics
Matches: 173, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
87 1 0.01
88 144 0.83
89 5 0.03
90 23 0.13
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (88 bp):
ACTGCAAGTTCAGGGAGATAAGACTTGTACTTTAACCTGCCCCACTGCAACTTCAGGGGGATAAG
GTTTGTTATCTTCAGTCTACTCC
Found at i:256243 original size:29 final size:29
Alignment explanation
Indices: 256210--256272 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
256200 TTTCCCAGCC
256210 TTGGGGAAAAAGTGTAAATATGTAAAAGT
1 TTGGGGAAAAAGTGTAAATATGTAAAAGT
* * * *
256239 TTGGGGCAAAAGTGTAATTTTGTCAAAGT
1 TTGGGGAAAAAGTGTAAATATGTAAAAGT
256268 TTGGG
1 TTGGG
256273 TCAAGGATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.32
Consensus pattern (29 bp):
TTGGGGAAAAAGTGTAAATATGTAAAAGT
Found at i:256790 original size:53 final size:53
Alignment explanation
Indices: 256607--256812 Score: 211
Period size: 55 Copynumber: 3.8 Consensus size: 53
256597 ATTAGGGTTT
* * *
256607 AAGGATACCATGTAAGCCCGTGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGC
* * * *
256662 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* *
256717 AAAGG-TCCCATGTAAGACCATGCCAA-AGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGA-CATGGCATTGGTAAGTTCATAAGGC
* * * *
256770 AAGGATACCACGTAAGACCATGACAAGTCATGGCAGTGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
256813 GTACCCGTTT
Statistics
Matches: 125, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
52 6 0.05
53 40 0.32
54 9 0.07
55 66 0.53
56 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Done.