Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_pilon, whole genome shotgun sequence
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: 3376434
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 18
Found at i:3181784 original size:31 final size:29
Alignment explanation
Indices: 3181697--3181785 Score: 115
Period size: 31 Copynumber: 2.9 Consensus size: 29
3181687 AGAGTCGAGG
*
3181697 GTTACCTATGTCTTTCGAGACATATGAACT
1 GTTACCTATGTC-TTCGAGACATATGGACT
*
3181727 GTTTACCTATGTCTTCGGGACATATGGACAT
1 G-TTACCTATGTCTTCGAGACATATGGAC-T
*
3181758 GTTACCTATGTTCTTCGAAACATATGGA
1 GTTACCTATG-TCTTCGAGACATATGGA
3181786 TAGTTCCTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
30 24 0.46
31 28 0.54
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (29 bp):
GTTACCTATGTCTTCGAGACATATGGACT
Found at i:3182662 original size:173 final size:173
Alignment explanation
Indices: 3182364--3182714 Score: 670
Period size: 173 Copynumber: 2.0 Consensus size: 173
3182354 GTATTTTGTT
3182364 GGGTCAAAAGTGTTGGCATGTAGAAATGTGTAATCTACAATGTTCTGATCAATTTTGTAATGTTT
1 GGGTCAAAAGTGTTGGCATGTAGAAATGTGTAATCTACAATGTTCTGATCAATTTTGTAATGTTT
3182429 TGAACTTAACTATGTAATAGCTTTTGTGTTAATAAAGTTTAAATTTCATACAGTTTTTATGAATG
66 TGAACTTAACTATGTAATAGCTTTTGTGTTAATAAAGTTTAAATTTCATACAGTTTTTATGAATG
3182494 CATATGCTTTGAAAAGTCAATGTGACACCTCGGACTCGTATCC
131 CATATGCTTTGAAAAGTCAATGTGACACCTCGGACTCGTATCC
3182537 GGGT-AAAAGTGTTGGCATGTAGAAATGTGTAATCTACAAATGTTCTGATCAATTTTGTAATGTT
1 GGGTCAAAAGTGTTGGCATGTAGAAATGTGTAATCTAC-AATGTTCTGATCAATTTTGTAATGTT
3182601 TTGAACTTAACTATGTAAATAGCTTTTGTGTTAATAAAGTTTAAATTTCATACAG-TTTTATGAA
65 TTGAACTTAACTATGT-AATAGCTTTTGTGTTAATAAAGTTTAAATTTCATACAGTTTTTATGAA
3182665 TGCATATGCTTTGAAAAGTCAATGTGACACCTCGGACTCGTATCC
129 TGCATATGCTTTGAAAAGTCAATGTGACACCTCGGACTCGTATCC
3182710 GGGTC
1 GGGTC
3182715 GGGTACGGGT
Statistics
Matches: 175, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
172 33 0.19
173 104 0.59
174 38 0.22
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.38
Consensus pattern (173 bp):
GGGTCAAAAGTGTTGGCATGTAGAAATGTGTAATCTACAATGTTCTGATCAATTTTGTAATGTTT
TGAACTTAACTATGTAATAGCTTTTGTGTTAATAAAGTTTAAATTTCATACAGTTTTTATGAATG
CATATGCTTTGAAAAGTCAATGTGACACCTCGGACTCGTATCC
Found at i:3185055 original size:16 final size:17
Alignment explanation
Indices: 3185023--3185056 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3185013 TTAAATACTA
*
3185023 TGATTACATTATATTAC
1 TGATTAAATTATATTAC
3185040 TGATTAAATT-TATTAC
1 TGATTAAATTATATTAC
3185056 T
1 T
3185057 TCATATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (17 bp):
TGATTAAATTATATTAC
Found at i:3187697 original size:24 final size:24
Alignment explanation
Indices: 3187665--3187714 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
3187655 ACCTAACAAT
3187665 ACTGAAATTAAGAAAATAATATAA
1 ACTGAAATTAAGAAAATAATATAA
3187689 ACTGAAATTAAGAAAATAATATAA
1 ACTGAAATTAAGAAAATAATATAA
3187713 AC
1 AC
3187715 CAACAGGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.24
Consensus pattern (24 bp):
ACTGAAATTAAGAAAATAATATAA
Found at i:3187859 original size:2 final size:2
Alignment explanation
Indices: 3187852--3187915 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
3187842 GTAGACAACA
3187852 AT AT AT AT AT AT AT A- AT AT AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3187892 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
3187916 TATTTTAAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 58 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3188440 original size:5 final size:5
Alignment explanation
Indices: 3188424--3188502 Score: 56
Period size: 5 Copynumber: 15.6 Consensus size: 5
3188414 AAGAGAAAAG
* * * *
3188424 AAATAA AAATA ATATA AAATA AAATG AAATG AAATA CAATTA AGAA-A
1 AAAT-A AAATA AAATA AAATA AAATA AAATA AAATA -AAATA A-AATA
*
3188471 ATATTA AAATA AAA-A AAATA AAA-A AAATA AAA
1 A-AATA AAATA AAATA AAATA AAATA AAATA AAA
3188503 AAATTTAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
4 8 0.14
5 40 0.68
6 11 0.19
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:3188511 original size:10 final size:9
Alignment explanation
Indices: 3188476--3188505 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
3188466 AGAAAATATT
3188476 AAAATAAAA
1 AAAATAAAA
3188485 AAAATAAAA
1 AAAATAAAA
3188494 AAAATAAAA
1 AAAATAAAA
3188503 AAA
1 AAA
3188506 TTTAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAATAAAA
Found at i:3188592 original size:3 final size:3
Alignment explanation
Indices: 3188584--3188610 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3188574 AATAAATGAG
3188584 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
3188611 ATATGAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3189288 original size:14 final size:14
Alignment explanation
Indices: 3189269--3189296 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3189259 ATTTGTTGTG
3189269 TGTGTTCGATGATC
1 TGTGTTCGATGATC
3189283 TGTGTTCGATGATC
1 TGTGTTCGATGATC
3189297 GTTCTGTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.29, T:0.43
Consensus pattern (14 bp):
TGTGTTCGATGATC
Found at i:3189893 original size:33 final size:36
Alignment explanation
Indices: 3189815--3189899 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 36
3189805 AAAAACATTG
* * *
3189815 TTTTCAAAACCATACAATATATATTTCAAAAAATTAA
1 TTTTCAAAACTATATAACATATATTTC-AAAAATTAA
*
3189852 TTTT-AAAACTATATAACATAT-TTTC-AAAA-TCA
1 TTTTCAAAACTATATAACATATATTTCAAAAATTAA
3189884 TTTTCAAAACTATATA
1 TTTTCAAAACTATATA
3189900 TTATATACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
32 6 0.14
33 15 0.35
35 4 0.09
36 14 0.33
37 4 0.09
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (36 bp):
TTTTCAAAACTATATAACATATATTTCAAAAATTAA
Found at i:3189900 original size:35 final size:35
Alignment explanation
Indices: 3189815--3190302 Score: 291
Period size: 37 Copynumber: 13.7 Consensus size: 35
3189805 AAAAACATTG
* *
3189815 TTTTCAAAACCATACA-ATATATA-TTTCAAAAAATTAA
1 TTTTCAAAACTATATATATATATATTTTC--AAAA-T-A
*
3189852 TTTT-AAAAC--TATATA-ACATATTTTCAAAATCA
1 TTTTCAAAACTATATATATATATATTTTCAAAAT-A
*
3189884 TTTTCAAAACTATATATTATATACATATTTTTAAAATATA
1 TTTTCAAAACTATATA-TATAT--ATA-TTTTCAAA-ATA
* * *
3189924 TTTTAAAAATTATATATATATATATTTTTTCAAAATG
1 TTTTCAAAACTATATATATATATA--TTTTCAAAATA
* * *
3189961 TTTTTAAAACTATAT-TATATATGTTTTCAAAATGT
1 TTTTCAAAACTATATATATATATATTTTCAAAAT-A
* * * *
3189996 TTTTAAAAAACTATATTTATATATGTTTTCAAAATG
1 TTTT-CAAAACTATATATATATATATTTTCAAAATA
*
3190032 TTTTC-AAACTATATAACATATATATGTTTTCAAAA-A
1 TTTTCAAAACTATAT---ATATATATATTTTCAAAATA
* *
3190068 TGTCTCCAAAATTATATA-ATATATATTTTTCAAAAACTA
1 T-T-TTCAAAACTATATATATATATA-TTTTC-AAAA-TA
* * * *
3190107 TATTATTATATA-TATATATATATATATATTAAAAATA
1 T-TT-TCA-AAACTATATATATATATATTTTCAAAATA
* *
3190144 TTTTCCAAAAGTATATATATATATTTTTTC-AAAT-
1 TTTT-CAAAACTATATATATATATATTTTCAAAATA
* * *
3190178 GTTTCAAAACTATATA-ATATATATTTTCGAAACA
1 TTTTCAAAACTATATATATATATATTTTCAAAATA
* * *
3190212 GTTTTAAAAAC--TATAT-GATATATTTTCAAAATG
1 -TTTTCAAAACTATATATATATATATTTTCAAAATA
3190245 TTTTCAAAACTATA-ATA-AT-TA--TTCAAAAATAA
1 TTTTCAAAACTATATATATATATATTTTC-AAAAT-A
3190277 TTTTCAAAACTATATGATATATATAT
1 TTTTCAAAACTATAT-ATATATATAT
3190303 ATATATATAT
Statistics
Matches: 363, Mismatches: 44, Indels: 88
0.73 0.09 0.18
Matches are distributed among these distances:
30 3 0.01
31 5 0.01
32 42 0.12
33 44 0.12
34 34 0.09
35 36 0.10
36 56 0.15
37 66 0.18
38 15 0.04
39 29 0.08
40 31 0.09
41 2 0.01
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (35 bp):
TTTTCAAAACTATATATATATATATTTTCAAAATA
Found at i:3189969 original size:110 final size:108
Alignment explanation
Indices: 3189852--3190227 Score: 319
Period size: 108 Copynumber: 3.5 Consensus size: 108
3189842 AAAAAATTAA
* *
3189852 TTTT-AAAACTATAT-A-ACATATTTTCAAAATCATTTTCAAAACTATATATTATATACATATTT
1 TTTTCAAAACTATATAATATATATTTTCAAAATCATTTTAAAAACTATATATTATATA-ATATTT
3189914 TTAAAATATATTTTAAAAATTATATATATATATATTTTTTCAAAATG
65 TTAAAA-ATATTTT-AAAA-TATATATATATATATTTTTTCAAAATG
* * * ** *
3189961 TTTTTAAAACTATATTATATATGTTTTCAAAATGTTTTTAAAAAACTATAT-TTATAT-AT-GTT
1 TTTTCAAAACTATATAATATATATTTTCAAAATCATTTT-AAAAACTATATATTATATAATATTT
* * * * *
3190023 TTCAAAATGTTTTCAAACTATATAACATATATATGTTTTCAAAAATG
65 TTAAAAATATTTT-AAAATATAT-ATATATATATTTTTTC-AAAATG
* * * * * **
3190070 TCTCCAAAATTATATAATATATATTTTTCAAAAACTATATT-ATTA-TATATA-TATATATATAT
1 TTTTCAAAACTATATAATATATA-TTTTCAAAATC-ATTTTAAAAACTATATATTATATA-ATAT
* *
3190132 ATATTAAAAATATTTTCCAAAA-GTATATATATATATTTTTTC-AAATG
63 -TTTTAAAAATATTTT--AAAATATATATATATATATTTTTTCAAAATG
*
3190179 -TTTCAAAACTATATAATATATATTTTCGAAA-CAGTTTTAAAAACTATAT
1 TTTTCAAAACTATATAATATATATTTTCAAAATCA-TTTTAAAAACTATAT
3190228 GATATATTTT
Statistics
Matches: 211, Mismatches: 39, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
105 1 0.00
106 4 0.02
107 15 0.07
108 57 0.27
109 41 0.19
110 23 0.11
111 18 0.09
112 38 0.18
113 14 0.07
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (108 bp):
TTTTCAAAACTATATAATATATATTTTCAAAATCATTTTAAAAACTATATATTATATAATATTTT
TAAAAATATTTTAAAATATATATATATATATTTTTTCAAAATG
Found at i:3190300 original size:2 final size:2
Alignment explanation
Indices: 3190287--3190355 Score: 122
Period size: 2 Copynumber: 34.5 Consensus size: 2
3190277 TTTTCAAAAC
3190287 TA TA TGA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3190329 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3190356 TTTTTCGAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.02
2 62 0.95
3 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3190386 original size:39 final size:38
Alignment explanation
Indices: 3190343--3190431 Score: 117
Period size: 38 Copynumber: 2.3 Consensus size: 38
3190333 TATATATATA
* * ***
3190343 TATATATATATATTTTTTCGAAATCCGTTTTCTAAAAAT
1 TATATATATATATTTTTTCAAAAACAAATTTC-AAAAAT
3190382 TATATAT-TATATTTTTTCAAAAACAAATTTCAAAAAT
1 TATATATATATATTTTTTCAAAAACAAATTTCAAAAAT
3190419 TATATATATATAT
1 TATATATATATAT
3190432 ACAAAAATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
37 13 0.30
38 24 0.55
39 7 0.16
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (38 bp):
TATATATATATATTTTTTCAAAAACAAATTTCAAAAAT
Found at i:3190671 original size:48 final size:48
Alignment explanation
Indices: 3190600--3190694 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
3190590 AATATCCTCC
3190600 CTTGTGGAGTTGAAAATTGACTCTGATATTGCAATTAGGAGTAACTCA
1 CTTGTGGAGTTGAAAATTGACTCTGATATTGCAATTAGGAGTAACTCA
3190648 CTTGTGGAGTTGAAAATTGACTCTGATATTGCAATTAGGAGTAACTC
1 CTTGTGGAGTTGAAAATTGACTCTGATATTGCAATTAGGAGTAACTC
3190695 CCTGTTAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.34
Consensus pattern (48 bp):
CTTGTGGAGTTGAAAATTGACTCTGATATTGCAATTAGGAGTAACTCA
Found at i:3191122 original size:150 final size:151
Alignment explanation
Indices: 3190828--3191122 Score: 337
Period size: 150 Copynumber: 2.0 Consensus size: 151
3190818 GTCAACTATG
* * * * * *
3190828 GTCTTCTTCTTTGTTTAAAGACCTTGGTTTGAAATTCGACTGGAAAGTAGTTCCTCGATACTACC
1 GTCTTCTTCTTTGCTTAAAGACATCGGTTTGAAATTCGACTCGAAAGTAGTTACTCGATACTACA
* ** * * * * * *
3190893 ATGTGGTTGATAGGCTTTCAAGCTGAATGGAATCGAACTCGAGAGTTTTCGTTGACATATAGCTT
66 ATGCGGTTGATACACTCTCAAGCTGAATGGAATCGAACTCGAGAGTCTCCATTGACAGATAGCCT
*
3190958 TCTTGACTTAAGCTAACCCAT
131 TCTCGACTTAAGCTAACCCAT
* *
3190979 GTCTTCTTC-TTGACTTAAAGACATCGGTTT-AAACTTCGA-TCGAAAGTAGTTATTCGCTACTA
1 GTCTTCTTCTTTG-CTTAAAGACATCGGTTTGAAA-TTCGACTCGAAAGTAGTTACTCGATACTA
* *
3191041 TAATGCGGTTGATACACTCTCAAGCTGAATGGAATTGAACTCGA-AGTCTCCATTGACAGATAGT
64 CAATGCGGTTGATACACTCTCAAGCTGAATGGAATCGAACTCGAGAGTCTCCATTGACAGATAG-
* *
3191105 CCTTCTCGCCTTGAGCTA
128 CCTTCTCGACTTAAGCTA
3191123 TGCTGTAAGT
Statistics
Matches: 119, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
149 15 0.13
150 76 0.64
151 28 0.24
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (151 bp):
GTCTTCTTCTTTGCTTAAAGACATCGGTTTGAAATTCGACTCGAAAGTAGTTACTCGATACTACA
ATGCGGTTGATACACTCTCAAGCTGAATGGAATCGAACTCGAGAGTCTCCATTGACAGATAGCCT
TCTCGACTTAAGCTAACCCAT
Found at i:3191556 original size:85 final size:85
Alignment explanation
Indices: 3191373--3192060 Score: 734
Period size: 85 Copynumber: 8.1 Consensus size: 85
3191363 CTTCTCGACT
* *
3191373 TATGCTGTAAATTTAATATGCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTGTTA---ACAG
1 TATGCTGTAAATTTGATATTCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTT-TTATTGACAG
*
3191435 ATAGCCCTTCTCGCCTTGAGC
65 ATAACCCTTCTCGCCTTGAGC
* * * ** *
3191456 TATGCTGTAAATTTGATATACCATTGAGCTAAATGTAATGGAACTCGAAGGTTTTTATTGACAAA
1 TATGCTGTAAATTTGATATTCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTTTATTGACAGA
* * *
3191521 TAACTCTTCTTGCCTTGAGT
66 TAACCCTTCTCGCCTTGAGC
* *
3191541 TATGCTATAAATTTGATATGT-CCTTGAGCTGAATGTAATCAAACTCGAAGG--TTTGTTGACAG
1 TATGCTGTAAATTTGATAT-TCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTTTATTGACAG
*
3191603 ATAGCCCTTCTCGCCTTGAGC
65 ATAACCCTTCTCGCCTTGAGC
* * * * *
3191624 TATGATGTAAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTATTGAAAAA
1 TATGCTGTAAATTTGATATTCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTTTATTGACAGA
* * * *
3191689 TAAACCTTTTCACCTTGAGT
66 TAACCCTTCTCGCCTTGAGC
* * *
3191709 TATGCTGTAAATTTGATATGT-CCTTGAGTTGAATGTAATCAAACTAGAAGG--TTTATTGACAT
1 TATGCTGTAAATTTGATAT-TCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTTTATTGACAG
*
3191771 ATATCCCTTCTCGCCTTGAGC
65 ATAACCCTTCTCGCCTTGAGC
* * * ** *
3191792 TATTCTGTAAATTTGATATTCCCTTGAGCTGAATATAATCGAACTCGAAGGTTTTGGTTGACATA
1 TATGCTGTAAATTTGATATTCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTTTATTGACAGA
* *
3191857 TAACTCTTCTCACCTTGAGC
66 TAACCCTTCTCGCCTTGAGC
* * * * * * * * *
3191877 TAT-CATGTATATTTGATATGCCCTTTAGCTTAATGTAATCGAGCTCAAAGGTTTTTTACTGGCA
1 TATGC-TGTAAATTTGATATTCCCTTGAGCTGAATGTAATCAAACTCGAAGG-TTTTTATTGACA
** * *
3191941 GATAGTCTTTCTCGCCTTGAGT
64 GATAACCCTTCTCGCCTTGAGC
* * *
3191963 TATGCTGCAAATTTGATATGT-CCTTGAGCTGAATATAATCAAACTCGAAGGTTTTTTACTGGA-
1 TATGCTGTAAATTTGATAT-TCCCTTGAGCTGAATGTAATCAAACTCGAAGG-TTTTTA-TTGAC
* *
3192026 AGATAGCCCTTCTTGCCTTGAGC
63 AGATAACCCTTCTCGCCTTGAGC
3192049 TATGCTGTAAAT
1 TATGCTGTAAAT
3192061 AGTTTCTTTA
Statistics
Matches: 497, Mismatches: 92, Indels: 29
0.80 0.15 0.05
Matches are distributed among these distances:
82 4 0.01
83 189 0.38
84 1 0.00
85 202 0.41
86 99 0.20
87 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (85 bp):
TATGCTGTAAATTTGATATTCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTTTATTGACAGA
TAACCCTTCTCGCCTTGAGC
Found at i:3191605 original size:168 final size:168
Alignment explanation
Indices: 3191372--3192060 Score: 857
Period size: 168 Copynumber: 4.1 Consensus size: 168
3191362 CCTTCTCGAC
* *
3191372 TTATGCTGTAAATTTAATATGCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTGTTAACAGAT
1 TTATGCTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTGTTGACAGAT
* * * * *
3191437 AGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATACCATTGAGCTAAATGTAATGGAACTC
66 AGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATTCCCTTGAGCTGAATATAATCGAACTC
*
3191502 GAAGGTTTTTATTGACAAATAACTCTTCTTGCCTTGAG
131 GAAGGTTTTTATTGACAAATAACTCTTCTTACCTTGAG
* *
3191540 TTATGCTATAAATTTGATATGTCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTGTTGACAGAT
1 TTATGCTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTGTTGACAGAT
* * *
3191605 AGCCCTTCTCGCCTTGAGCTATGATGTAAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTC
66 AGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATTCCCTTGAGCTGAATATAATCGAACTC
*
3191670 GAAGGTTTTTATTGAAAAATAAAC-CTT-TTCACCTTGAG
131 GAAGGTTTTTATTGACAAAT-AACTCTTCTT-ACCTTGAG
* * * * *
3191708 TTATGCTGTAAATTTGATATGTCCTTGAGTTGAATGTAATCAAACTAGAAGGTTTATTGACATAT
1 TTATGCTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTGTTGACAGAT
* *
3191773 ATCCCTTCTCGCCTTGAGCTATTCTGTAAATTTGATATTCCCTTGAGCTGAATATAATCGAACTC
66 AGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATTCCCTTGAGCTGAATATAATCGAACTC
** * *
3191838 GAAGGTTTTGGTTGACATATAACTCTTCTCACCTTGAG
131 GAAGGTTTTTATTGACAAATAACTCTTCTTACCTTGAG
* * * * * * * * *
3191876 CTAT-CATGTATATTTGATATGCCCTTTAGCTTAATGTAATCGAGCTCAAAGGTTTTTTACTGGC
1 TTATGC-TGTAAATTTGATATGCCCTTGAGCTGAATGTAATCAAACTCGAAGG-TTTGT--TGAC
* * * * *
3191940 AGATAGTCTTTCTCGCCTTGAGTTATGCTGCAAATTTGATATGT-CCTTGAGCTGAATATAATCA
62 AGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATAT-TCCCTTGAGCTGAATATAATCG
* * * * *
3192004 AACTCGAAGGTTTTTTACTGGA-AGATAGCCCTTCTTGCCTTGAG
126 AACTCGAAGG-TTTTTA-TTGACAAATAACTCTTCTTACCTTGAG
*
3192048 CTATGCTGTAAAT
1 TTATGCTGTAAAT
3192061 AGTTTCTTTA
Statistics
Matches: 454, Mismatches: 55, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
167 6 0.01
168 337 0.74
169 8 0.02
171 67 0.15
172 32 0.07
173 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (168 bp):
TTATGCTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTGTTGACAGAT
AGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATTCCCTTGAGCTGAATATAATCGAACTC
GAAGGTTTTTATTGACAAATAACTCTTCTTACCTTGAG
Found at i:3193669 original size:95 final size:97
Alignment explanation
Indices: 3193480--3193680 Score: 291
Period size: 95 Copynumber: 2.1 Consensus size: 97
3193470 GGATAGCTCA
* * *
3193480 ATATTATAATCACCTTTATCAGGCTAGCTGAACCTTATCCATAAAGCCGGGATGTTTAACTAATT
1 ATATTATAATCACCTTTATCAAGCTAGCTGAACCTTATCCATAAAGCCGGGACGTTTAACCAATT
* *
3193545 ACTTTAGAGGGACAACTCAAGCTTTATTGTAG
66 ACTCTAAAGGGACAACTCAAGCTTTATTGTAG
* *
3193577 ATATTATAATCACC-TTATCAAGCTAGCTGAATCTTATCCATAAAGTCGGG-CGTTTAACCAATT
1 ATATTATAATCACCTTTATCAAGCTAGCTGAACCTTATCCATAAAGCCGGGACGTTTAACCAATT
* * *
3193640 GCTCTAAAGGGACAGCTCAAGCTTTATTGTAT
66 ACTCTAAAGGGACAACTCAAGCTTTATTGTAG
3193672 ATA-TATAAT
1 ATATTATAAT
3193681 TATAATATGG
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
94 6 0.06
95 41 0.44
96 33 0.35
97 14 0.15
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (97 bp):
ATATTATAATCACCTTTATCAAGCTAGCTGAACCTTATCCATAAAGCCGGGACGTTTAACCAATT
ACTCTAAAGGGACAACTCAAGCTTTATTGTAG
Found at i:3198729 original size:14 final size:15
Alignment explanation
Indices: 3198712--3198751 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 15
3198702 AACATTAATA
3198712 AATAATAAA-TATAT
1 AATAATAAATTATAT
3198726 AATAATAATATTATAT
1 AATAATAA-ATTATAT
3198742 ATATAATAAA
1 A-ATAATAAA
3198752 AAATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 8 0.35
15 1 0.04
16 7 0.30
17 7 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAATAAATTATAT
Found at i:3198824 original size:35 final size:35
Alignment explanation
Indices: 3198784--3198872 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
3198774 AATTATATAT
* * *
3198784 ATATATTATCAAAACATTGTTTTTAAAACCATACA
1 ATATATTTTCAAAACATTATTTTTAAAACCATAAA
* * *
3198819 ATATATTTTCAAAAAATTATTTTTGAAACTATAAA
1 ATATATTTTCAAAACATTATTTTTAAAACCATAAA
*
3198854 ACATATTTTCAAAATCATT
1 ATATATTTTCAAAA-CATT
3198873 TTCAAAACTA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 42 0.93
36 3 0.07
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.40
Consensus pattern (35 bp):
ATATATTTTCAAAACATTATTTTTAAAACCATAAA
Found at i:3198874 original size:33 final size:34
Alignment explanation
Indices: 3198759--3198884 Score: 101
Period size: 35 Copynumber: 3.6 Consensus size: 34
3198749 AAAAAATAAA
* * * * *
3198759 AAAAATCATTTTTAGAATTATATATATATATTATC
1 AAAAATCATTTTTAAAACTATA-AAACATATTTTC
** * * *
3198794 AAAACATTGTTTTTAAAACCATACAATATATTTTC
1 AAAA-ATCATTTTTAAAACTATAAAACATATTTTC
* *
3198829 AAAAAATTATTTTTGAAACTATAAAACATATTTTC
1 -AAAAATCATTTTTAAAACTATAAAACATATTTTC
*
3198864 -AAAATCATTTTCAAAACTATA
1 AAAAATCATTTTTAAAACTATA
3198885 TTTATACATT
Statistics
Matches: 73, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
33 18 0.25
35 38 0.52
36 17 0.23
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.40
Consensus pattern (34 bp):
AAAAATCATTTTTAAAACTATAAAACATATTTTC
Found at i:3198895 original size:22 final size:21
Alignment explanation
Indices: 3198869--3198909 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
3198859 TTTTCAAAAT
3198869 CATTTTCAAAACTATATTTATA
1 CATTTTCAAAA-TATATTTATA
*
3198891 CATTTTCAAAATATTTTTA
1 CATTTTCAAAATATATTTA
3198910 AAAATGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (21 bp):
CATTTTCAAAATATATTTATA
Found at i:3198924 original size:34 final size:34
Alignment explanation
Indices: 3198858--3198924 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
3198848 TATAAAACAT
*
3198858 ATTTTCAAAATCATTTTCAAAACTATATTTATAC
1 ATTTTCAAAATCATTTTCAAAAATATATTTATAC
* *
3198892 ATTTTCAAAAT-ATTTTTAAAAATGTATATTATA
1 ATTTTCAAAATCATTTTCAAAAATATAT-TTATA
3198925 TATATATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 13 0.45
34 16 0.55
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.46
Consensus pattern (34 bp):
ATTTTCAAAATCATTTTCAAAAATATATTTATAC
Found at i:3198931 original size:46 final size:43
Alignment explanation
Indices: 3198881--3198974 Score: 116
Period size: 46 Copynumber: 2.1 Consensus size: 43
3198871 TTTTCAAAAC
* * *
3198881 TATATTTATACATTTTCAAAATATTTTTAAAAATGTATATTATATA
1 TATATATATACATATTCAAAATA-TTTTAAAAA-CTATA-TATATA
* *
3198927 TATATATATATATATTCACAATATTTTAAAAACTATATATATA
1 TATATATATACATATTCAAAATATTTTAAAAACTATATATATA
3198970 TATAT
1 TATAT
3198975 GTTTTCAAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 11 0.26
44 4 0.09
45 9 0.21
46 19 0.44
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (43 bp):
TATATATATACATATTCAAAATATTTTAAAAACTATATATATA
Found at i:3198964 original size:35 final size:35
Alignment explanation
Indices: 3198925--3199040 Score: 101
Period size: 35 Copynumber: 3.3 Consensus size: 35
3198915 GTATATTATA
*
3198925 TATATATATATATATATTCACAATATTTTAAAAAC
1 TATATATATATATATATTCACAAAATTTTAAAAAC
* ** * **
3198960 TATATATATATATATGTTTTCAAGATGTTTTTAAA-
1 TATATATATATATATATTCACAAAAT-TTTAAAAAC
* * * *
3198995 TATATATATACATGTTTTCA-AAAAGTTTTCAAAAC
1 TATATATATATATATATTCACAAAA-TTTTAAAAAC
3199030 TATATATATAT
1 TATATATATAT
3199041 GTTTTCAAAA
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
34 9 0.14
35 48 0.76
36 6 0.10
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (35 bp):
TATATATATATATATATTCACAAAATTTTAAAAAC
Found at i:3198998 original size:33 final size:33
Alignment explanation
Indices: 3198961--3199051 Score: 130
Period size: 33 Copynumber: 2.8 Consensus size: 33
3198951 TTTAAAAACT
* * *
3198961 ATATATATATATATGTTTTCAAGATGTTTTTAA
1 ATATATATATATATGTTTTCAAAAAGTTTTCAA
*
3198994 ATATATATATACATGTTTTCAAAAAGTTTTCAA
1 ATATATATATATATGTTTTCAAAAAGTTTTCAA
3199027 A-ACTATATATATATGTTTTCAAAAA
1 ATA-TATATATATATGTTTTCAAAAA
3199052 CTATATTATA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
32 1 0.02
33 51 0.98
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.45
Consensus pattern (33 bp):
ATATATATATATATGTTTTCAAAAAGTTTTCAA
Found at i:3199055 original size:23 final size:24
Alignment explanation
Indices: 3199019--3199074 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 24
3199009 TTTTCAAAAA
3199019 GTTTTC-AAAACTATA-TATATAT
1 GTTTTCAAAAACTATATTATATAT
3199041 GTTTTCAAAAACTATATTATATAT
1 GTTTTCAAAAACTATATTATATAT
*
3199065 ATTTT-AAAAA
1 GTTTTCAAAAA
3199075 TATTTTCCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 6 0.19
23 14 0.45
24 11 0.35
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (24 bp):
GTTTTCAAAAACTATATTATATAT
Found at i:3199162 original size:38 final size:36
Alignment explanation
Indices: 3199042--3199174 Score: 139
Period size: 38 Copynumber: 3.7 Consensus size: 36
3199032 TATATATATG
*
3199042 TTTTCAAAAACTATAT-TATATATATTTT-AAAAATA
1 TTTTCAAAAACTATATAT-TATATTTTTTCAAAAATA
* * *
3199077 TTTTCCAAAACTATATATTATATTTTTTCAAAATTCG
1 TTTTCAAAAACTATATATTATATTTTTTCAAAAAT-A
*
3199114 TTTTCTAAAAATTATATATTATATTTTTTCAAAAAAATA
1 TTTTC-AAAAACTATATATTATATTTTTTC--AAAAATA
*
3199153 TTTTCAAAAA-T-TATACTATATT
1 TTTTCAAAAACTATATATTATATT
3199175 GATATATATA
Statistics
Matches: 83, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
35 24 0.29
36 16 0.19
37 6 0.07
38 27 0.33
39 5 0.06
40 5 0.06
ACGTcount: A:0.43, C:0.08, G:0.01, T:0.48
Consensus pattern (36 bp):
TTTTCAAAAACTATATATTATATTTTTTCAAAAATA
Found at i:3199183 original size:2 final size:2
Alignment explanation
Indices: 3199176--3199206 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3199166 TACTATATTG
3199176 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3199207 ATAAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3199445 original size:50 final size:50
Alignment explanation
Indices: 3199363--3199458 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
3199353 GCTTCAGTCT
* *** * *
3199363 GAGCTGGCGCCACGTCAAGAAAGGTGTGGATCGTCATCTGCGCCTTATCC
1 GAGCTGACGCCACGTCAAGAAAGGTACAGATCGCCATCCGCGCCTTATCC
3199413 GAGCTGACGCCACGTCAAGAAAGGTACAGATCGCCATCCGCGCCTT
1 GAGCTGACGCCACGTCAAGAAAGGTACAGATCGCCATCCGCGCCTT
3199459 CGCGAGTTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.23, C:0.30, G:0.28, T:0.19
Consensus pattern (50 bp):
GAGCTGACGCCACGTCAAGAAAGGTACAGATCGCCATCCGCGCCTTATCC
Found at i:3205193 original size:187 final size:187
Alignment explanation
Indices: 3204879--3205252 Score: 732
Period size: 187 Copynumber: 2.0 Consensus size: 187
3204869 TGCATTTATT
3204879 CATTCATTATCCTAGAGTGCTAGTAGTTTAAAAGGGACCGGATCTGCATGGCTTAAATCCAATAT
1 CATTCATTATCCTAGAGTGCTAGTAGTTTAAAAGGGACCGGATCTGCATGGCTTAAATCCAATAT
3204944 CTGAAGTGCAGTCACCACCTGGATATCTCATCTCATGTGCCAATGAAGGACCATCTGGTTCAGCT
66 CTGAAGTGCAGTCACCACCTGGATATCTCATCTCATGTGCCAATGAAGGACCATCTGGTTCAGCT
3205009 CCAAAGTCCACAAAAAAGTTCGGGTTTACCTTAAGA-CACCTTTTTCGGTGTCGACA
131 CCAAAGTCCACAAAAAAGTTCGGGTTTACCTTAAGACCACCTTTTTCGGTGTCGACA
3205065 CATTCATTATCCTAGAGTGCTAGTAGTTTAAAAGGGACCGGATCTGCATGGCTTAAATCCAAATA
1 CATTCATTATCCTAGAGTGCTAGTAGTTTAAAAGGGACCGGATCTGCATGGCTTAAATCC-AATA
3205130 TCTGAAGTGCAGTCACCACCTGGATATCTCATCTCATGTGCCAATGAAGGACCATCTGGTTCAGC
65 TCTGAAGTGCAGTCACCACCTGGATATCTCATCTCATGTGCCAATGAAGGACCATCTGGTTCAGC
3205195 TCCAAAGTCCACAAAAAAGTTCGGGTTTACCTTAAGACCACCTTTTTCGGTGTCGACA
130 TCCAAAGTCCACAAAAAAGTTCGGGTTTACCTTAAGACCACCTTTTTCGGTGTCGACA
3205253 TCGATCTGCA
Statistics
Matches: 186, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
186 60 0.32
187 106 0.57
188 20 0.11
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (187 bp):
CATTCATTATCCTAGAGTGCTAGTAGTTTAAAAGGGACCGGATCTGCATGGCTTAAATCCAATAT
CTGAAGTGCAGTCACCACCTGGATATCTCATCTCATGTGCCAATGAAGGACCATCTGGTTCAGCT
CCAAAGTCCACAAAAAAGTTCGGGTTTACCTTAAGACCACCTTTTTCGGTGTCGACA
Found at i:3205884 original size:2 final size:2
Alignment explanation
Indices: 3205873--3205918 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
3205863 TCTCTAACTG
3205873 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3205914 TA TA T
1 TA TA T
3205919 TTCTTCTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3208735 original size:56 final size:56
Alignment explanation
Indices: 3208659--3208771 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
3208649 AACTATGAAG
* *
3208659 AAGAAAAACCCCACAGCCACACAATTTTCTCTTCATGCAAAAATGAATCAAATCAA
1 AAGAAAAACCCCACACCCACACAAATTTCTCTTCATGCAAAAATGAATCAAATCAA
* * *
3208715 AAGAAGAACCCCATACCCACAGAAATTTCTCTTCATGCAAAAATGAATCAAATCAA
1 AAGAAAAACCCCACACCCACACAAATTTCTCTTCATGCAAAAATGAATCAAATCAA
3208771 A
1 A
3208772 CAACCCAGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.47, C:0.26, G:0.08, T:0.19
Consensus pattern (56 bp):
AAGAAAAACCCCACACCCACACAAATTTCTCTTCATGCAAAAATGAATCAAATCAA
Found at i:3209811 original size:59 final size:59
Alignment explanation
Indices: 3209719--3209831 Score: 208
Period size: 59 Copynumber: 1.9 Consensus size: 59
3209709 TTGTCTAAAT
* *
3209719 TTATTGATTAATGAGTCTATGAGTATAATATTAAAGTTTAATAATATTTCAATCGATAA
1 TTATTGATCAATGAGTCTATGAGCATAATATTAAAGTTTAATAATATTTCAATCGATAA
3209778 TTATTGATCAATGAGTCTATGAGCATAATATTAAAGTTTAATAATATTTCAATC
1 TTATTGATCAATGAGTCTATGAGCATAATATTAAAGTTTAATAATATTTCAATC
3209832 TTCAAACTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (59 bp):
TTATTGATCAATGAGTCTATGAGCATAATATTAAAGTTTAATAATATTTCAATCGATAA
Found at i:3211443 original size:2 final size:2
Alignment explanation
Indices: 3211438--3211468 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3211428 AAAAAAATGA
3211438 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3211469 AGTATTTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3213735 original size:27 final size:27
Alignment explanation
Indices: 3213686--3213793 Score: 137
Period size: 27 Copynumber: 4.0 Consensus size: 27
3213676 TCTTTTACAA
* *
3213686 CATAAAGATATTTTTTTTAATTTTACCC
1 CATAAGGATA-TTTTTGTAATTTTACCC
*
3213714 CATAAGGATATTTTTGTAATTTTGCCC
1 CATAAGGATATTTTTGTAATTTTACCC
*
3213741 CATAAAGG-TATTTTCGTAATTTTACCC
1 CAT-AAGGATATTTTTGTAATTTTACCC
* *
3213768 TATAAGGGTATTTTTGTAATTTTACC
1 CATAAGGATATTTTTGTAATTTTACC
3213794 TAAATATTGT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.06
27 54 0.76
28 13 0.18
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (27 bp):
CATAAGGATATTTTTGTAATTTTACCC
Found at i:3215454 original size:17 final size:17
Alignment explanation
Indices: 3215428--3215467 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
3215418 AACTTAGGTT
*
3215428 AGCTCATTACAGAGAGG
1 AGCTCGTTACAGAGAGG
3215445 AGCTCGTTACAGAGAGG
1 AGCTCGTTACAGAGAGG
*
3215462 AACTCG
1 AGCTCG
3215468 ACCTTGGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.20, G:0.30, T:0.17
Consensus pattern (17 bp):
AGCTCGTTACAGAGAGG
Found at i:3216580 original size:35 final size:35
Alignment explanation
Indices: 3216534--3216601 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
3216524 CCTTAGATCC
3216534 ATAAGGAATTACAAGTTTGATC-AGTCTGAACCTAT
1 ATAAGGAATTACAAGTTTGATCGAG-CTGAACCTAT
*
3216569 ATAAGGAATTACCAGTTTGATCGAGCTGAACCT
1 ATAAGGAATTACAAGTTTGATCGAGCTGAACCT
3216602 GTAGAGACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 29 0.94
36 2 0.06
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (35 bp):
ATAAGGAATTACAAGTTTGATCGAGCTGAACCTAT
Found at i:3218608 original size:21 final size:19
Alignment explanation
Indices: 3218580--3218625 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
3218570 TCATTGAATC
3218580 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
3218600 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
3218619 ACTTAGT
1 A-TTAGT
3218626 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:3219345 original size:27 final size:27
Alignment explanation
Indices: 3219324--3219403 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
3219314 TTTTTACAAT
*
3219324 ATAAGGTTATTTTTGTAATTTTACCTC
1 ATAAGGATATTTTTGTAATTTTACCTC
* *
3219351 ATAAAGATAATTTTGTAATTTTACCTC
1 ATAAGGATATTTTTGTAATTTTACCTC
**
3219378 ATAAGGATATTTTCATAATTTTACCT
1 ATAAGGATATTTTTGTAATTTTACCT
3219404 AACATAAGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (27 bp):
ATAAGGATATTTTTGTAATTTTACCTC
Found at i:3225271 original size:17 final size:17
Alignment explanation
Indices: 3225249--3225282 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3225239 CTTCACATAA
3225249 CCAAAGAAATTACGAAT
1 CCAAAGAAATTACGAAT
3225266 CCAAAGAAATTACGAAT
1 CCAAAGAAATTACGAAT
3225283 GTCACCATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.12, T:0.18
Consensus pattern (17 bp):
CCAAAGAAATTACGAAT
Found at i:3226378 original size:29 final size:27
Alignment explanation
Indices: 3226318--3226387 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
3226308 GAAGATGAAG
3226318 AAATGAGAGAGAAAAAGTAAAAGTTAA
1 AAATGAGAGAGAAAAAGTAAAAGTTAA
* * *
3226345 GAATGAAAGAGAAAAATTAAAAGTTAAAA
1 AAATGAGAGAGAAAAAGTAAAAGTT--AA
3226374 AAATGAGAG-GAAAA
1 AAATGAGAGAGAAAA
3226388 TGGGTGATAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 22 0.61
28 5 0.14
29 9 0.25
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.14
Consensus pattern (27 bp):
AAATGAGAGAGAAAAAGTAAAAGTTAA
Found at i:3231323 original size:2 final size:2
Alignment explanation
Indices: 3231316--3231340 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3231306 TATTAAAGAA
3231316 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3231341 ATAATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3231424 original size:18 final size:17
Alignment explanation
Indices: 3231403--3231445 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
3231393 ATATATACAT
3231403 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
3231421 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
3231438 ATAA-AATA
1 ATAATAATA
3231446 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:3231868 original size:37 final size:37
Alignment explanation
Indices: 3231802--3231906 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
3231792 GTGCTTGTGG
* * * * *
3231802 ATCCTATCTTTAAGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
3231839 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
*
3231876 ATCATATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
3231907 GACGAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:3232755 original size:105 final size:105
Alignment explanation
Indices: 3232449--3232974 Score: 749
Period size: 105 Copynumber: 5.0 Consensus size: 105
3232439 GCATTGTTCC
* * * *
3232449 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAATCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACA
* * * * *
3232513 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
3232555 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGA-A-T--GAAATT-TTGTTGACTAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* * *
3232615 CAGAGGTCCCTTCATCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
3232655 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
3232720 CAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
3232760 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
3232825 CAGCGGTCCCTTCGTCGTGAACTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
3232865 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAA
* * * * *
3232930 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
3232971 GAGT
1 GAGT
3232975 GTCACGATAT
Statistics
Matches: 379, Mismatches: 34, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
100 80 0.21
101 1 0.00
102 7 0.02
104 5 0.01
105 202 0.53
106 84 0.22
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:3233234 original size:36 final size:36
Alignment explanation
Indices: 3233179--3233248 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
3233169 GGAGAGAAAT
* *
3233179 TGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAGC
1 TGTCTCAAGCGAGACAAAATTCATTTCAAGGGAAGC
*
3233215 TGTCTCAAGCGAGATAAAATTCATTTCAAGGGAA
1 TGTCTCAAGCGAGACAAAATTCATTTCAAGGGAA
3233249 ATGTTTATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTCATTTCAAGGGAAGC
Found at i:3233309 original size:39 final size:40
Alignment explanation
Indices: 3233247--3233328 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 40
3233237 ATTTCAAGGG
* * *
3233247 AAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACA
1 AAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAAA
* * *
3233287 AAAT-TTTCTGTTTCGAGGGAAACTATCTCAAGAGAGAAA
1 AAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAAA
3233326 AAA
1 AAA
3233329 AATCATTTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 32 0.89
40 4 0.11
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (40 bp):
AAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAAA
Found at i:3233363 original size:105 final size:104
Alignment explanation
Indices: 3233248--3233458 Score: 377
Period size: 105 Copynumber: 2.0 Consensus size: 104
3233238 TTTCAAGGGA
*
3233248 AATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTAT
1 AATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGAGAAACTAT
*
3233313 CTCAAGAGAGAAAAAAAATCATTTCAAGGGAAATGTTTTC
66 CTCAAGAGAG-AAAAAAATAATTTCAAGGGAAATGTTTTC
3233353 AATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGAGAAACTAT
1 AATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGAGAAACTAT
* *
3233418 CTCAGGAGAGAAAAAATTAATTTCAAGGGAAATGTTTTC
66 CTCAAGAGAGAAAAAAATAATTTCAAGGGAAATGTTTTC
3233457 AA
1 AA
3233459 GAGAAACTGT
Statistics
Matches: 102, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
104 29 0.28
105 73 0.72
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (104 bp):
AATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGAGAAACTAT
CTCAAGAGAGAAAAAAATAATTTCAAGGGAAATGTTTTC
Found at i:3233415 original size:39 final size:39
Alignment explanation
Indices: 3233361--3233435 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
3233351 TCAATGTTTA
* *
3233361 TGTTTCAAGAGAAACTGTCTCAAGG-GAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
*
3233400 TGTTTCGAGAGAAACTATCTCAGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATT
3233436 AATTTCAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 3 0.09
39 29 0.91
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
Found at i:3233502 original size:195 final size:194
Alignment explanation
Indices: 3233149--3233513 Score: 536
Period size: 195 Copynumber: 1.9 Consensus size: 194
3233139 TTCGTTAAAT
** * * *
3233149 TGTTTTCAAAGTTTATGTTTGGAGAGAAATTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAG
1 TGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGAGAAA
* * * *
3233214 CTGTCTCAAGCGAGATAAAATTCATTTCAAGGGAAATGTTTATGTTTCAAGAGAAACTGTCTCAA
66 CTATCTCAAGAGAGAAAAAATTAATTTCAAGGGAAATG--T-TGTTTCAAGAGAAACTGTCTCAA
*
3233279 GGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAAGAGAGAAAAAAAATCATTTCAAGGGA
128 GGGAGACAAAATTTTCTGTTTCGAGGGAAAATATCTCAAGAGAGAAAAAAAATCATTTCAAGGGA
3233344 AA
193 AA
* *
3233346 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGAG
1 TGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA--TTC-GTTTCAAGAG
*
3233411 AAACTATCTCAGGAGAGAAAAAATTAATTTCAAGGGAAATG-T-TTTCAAGAGAAACTGTCTCAA
63 AAACTATCTCAAGAGAGAAAAAATTAATTTCAAGGGAAATGTTGTTTCAAGAGAAACTGTCTCAA
*
3233474 GGGAGACAAAATTTTCTGTTTTGAGGGAAAATATCTCAAG
128 GGGAGACAAAATTTTCTGTTTCGAGGGAAAATATCTCAAG
3233514 CAAGATAAAA
Statistics
Matches: 151, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
195 59 0.39
196 1 0.01
197 45 0.30
199 3 0.02
200 43 0.28
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.30
Consensus pattern (194 bp):
TGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGAGAAA
CTATCTCAAGAGAGAAAAAATTAATTTCAAGGGAAATGTTGTTTCAAGAGAAACTGTCTCAAGGG
AGACAAAATTTTCTGTTTCGAGGGAAAATATCTCAAGAGAGAAAAAAAATCATTTCAAGGGAAA
Found at i:3233615 original size:36 final size:36
Alignment explanation
Indices: 3233575--3233688 Score: 106
Period size: 36 Copynumber: 3.2 Consensus size: 36
3233565 CTTTCGATTG
* *
3233575 AAAACGGTCTCAAGCGAGACAAATCTTGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
* * * ** * *
3233611 AAAACAATCTTGAA-TGAAATGAATCTTCTTTCAAGA
1 AAAACAGTC-TCAAGTGAGACAAATCTTGTTTTAAGA
*
3233647 AAAACAGTCTCAAGTGAGACAAAGT-ATGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAA-TCTTGTTTTAAGA
3233683 AAAACA
1 AAAACA
3233689 AATTTGAGTG
Statistics
Matches: 58, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
35 3 0.05
36 51 0.88
37 4 0.07
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (36 bp):
AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
Found at i:3233677 original size:72 final size:75
Alignment explanation
Indices: 3233529--3233689 Score: 197
Period size: 72 Copynumber: 2.2 Consensus size: 75
3233519 TAAAATCTTC
* * * * *
3233529 TTAAAAAAAACAGTCTTGAGTGAAATGAAATGCCTTCTTTCGATTGAAAACGGTCTCAAGCGAGA
1 TTAAGAAAAACAATCTTGAATGAAATGAAAT-CCTTCTTTCGATAGAAAACAGTCTCAAGCGAGA
*
3233594 CAAATCTTGTT
65 CAAATCATGTT
*
3233605 TTAAGAAAAACAATCTTGAATGAAATG-AAT-CTTCTTTC-A-AGAAAAACAGTCTCAAGTGAGA
1 TTAAGAAAAACAATCTTGAATGAAATGAAATCCTTCTTTCGATAG-AAAACAGTCTCAAGCGAGA
3233666 CAAAGT-ATGTT
65 CAAA-TCATGTT
3233677 TTAAGAAAAACAA
1 TTAAGAAAAACAA
3233690 ATTTGAGTGA
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
71 1 0.01
72 39 0.51
73 9 0.12
75 3 0.04
76 24 0.32
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (75 bp):
TTAAGAAAAACAATCTTGAATGAAATGAAATCCTTCTTTCGATAGAAAACAGTCTCAAGCGAGAC
AAATCATGTT
Found at i:3235153 original size:183 final size:183
Alignment explanation
Indices: 3234843--3235379 Score: 941
Period size: 183 Copynumber: 2.9 Consensus size: 183
3234833 ATCAGGTTTA
* *
3234843 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGAAAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* ** *
3234908 GCCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGATTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
* *
3234972 TTCCTCTATAACCAATTGCCTTAGTGGGATAGCTCAGCTTTAGAGGGATAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
3235026 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
3235091 GCCAAGTGTCCGAACAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
3235156 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
3235209 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGTAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
3235274 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
* * *
3235339 TCCTCTATAATCAATTGCCTTAGTGGAATAACTCAACTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
3235380 CGGATTTAAT
Statistics
Matches: 339, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
183 338 1.00
184 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:3239453 original size:2 final size:2
Alignment explanation
Indices: 3239448--3239475 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3239438 AAAAAAGAAA
3239448 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3239476 CAAAGTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3239692 original size:24 final size:21
Alignment explanation
Indices: 3239665--3239723 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
3239655 TTTTTAAAAA
3239665 AATAATAATAATATAATAATAAT
1 AATAA-AATAATATAA-AATAAT
3239688 GAATAAAA-AA-ATGAAAATAAT
1 -AATAAAATAATAT-AAAATAAT
3239709 AA-AAAATAATATAAA
1 AATAAAATAATATAAA
3239724 GTTATAAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
19 4 0.12
20 7 0.22
21 10 0.31
22 4 0.12
23 2 0.06
24 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.25
Consensus pattern (21 bp):
AATAAAATAATATAAAATAAT
Found at i:3239707 original size:32 final size:31
Alignment explanation
Indices: 3239659--3239718 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
3239649 ACAAGGTTTT
*
3239659 TAAAAAAATAATAATAATATAATAATAATGAA
1 TAAAAAAATAATAATAATA-AAAAATAATGAA
3239691 TAAAAAAATGAA-AATAATAAAAAATAAT
1 TAAAAAAAT-AATAATAATAAAAAATAAT
3239719 ATAAAGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 8 0.31
32 16 0.62
33 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (31 bp):
TAAAAAAATAATAATAATAAAAAATAATGAA
Found at i:3240006 original size:18 final size:18
Alignment explanation
Indices: 3239965--3240003 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
3239955 ATATATACAT
*
3239965 ATAATAATAATAACATGA
1 ATAATAAAAATAACATGA
3239983 ATAATAAAAATAA-ATGA
1 ATAATAAAAATAACATGA
3240000 ATAA
1 ATAA
3240004 ATATCCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAATAAAAATAACATGA
Found at i:3240429 original size:37 final size:37
Alignment explanation
Indices: 3240363--3240467 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
3240353 GTGCTTGTGG
* * * * *
3240363 ATCCTATCTTTAAGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
3240400 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
3240437 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
3240468 GACGAAAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:3244965 original size:14 final size:14
Alignment explanation
Indices: 3244946--3244974 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3244936 TTAAGCAAGT
3244946 TGGTTGCAATCAAA
1 TGGTTGCAATCAAA
3244960 TGGTTGCAATCAAA
1 TGGTTGCAATCAAA
3244974 T
1 T
3244975 AGAGGTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (14 bp):
TGGTTGCAATCAAA
Found at i:3246695 original size:61 final size:61
Alignment explanation
Indices: 3246619--3246769 Score: 293
Period size: 61 Copynumber: 2.5 Consensus size: 61
3246609 GGCATTTCAA
*
3246619 AAGTACAAAGTAACATTTCAAGAGTTTTCTATAAAATATCATCTATGTTAACCCATCCACT
1 AAGTAGAAAGTAACATTTCAAGAGTTTTCTATAAAATATCATCTATGTTAACCCATCCACT
3246680 AAGTAGAAAGTAACATTTCAAGAGTTTTCTATAAAATATCATCTATGTTAACCCATCCACT
1 AAGTAGAAAGTAACATTTCAAGAGTTTTCTATAAAATATCATCTATGTTAACCCATCCACT
3246741 AAGTAGAAAGTAACATTTCAAGAGTTTTC
1 AAGTAGAAAGTAACATTTCAAGAGTTTTC
3246770 CACCATTAAT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
61 89 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (61 bp):
AAGTAGAAAGTAACATTTCAAGAGTTTTCTATAAAATATCATCTATGTTAACCCATCCACT
Found at i:3259371 original size:17 final size:17
Alignment explanation
Indices: 3259349--3259387 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
3259339 CTACTCTACT
3259349 TTATTCACAATATTTAA
1 TTATTCACAATATTTAA
3259366 TTATTCACAATATTTAA
1 TTATTCACAATATTTAA
3259383 TTATT
1 TTATT
3259388 AGTATGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTCACAATATTTAA
Found at i:3259554 original size:12 final size:13
Alignment explanation
Indices: 3259533--3259611 Score: 57
Period size: 12 Copynumber: 6.6 Consensus size: 13
3259523 GAAAATAATG
3259533 TAAC-AAAGAAAA
1 TAACAAAAGAAAA
*
3259545 -AAGAAAAGAAAA
1 TAACAAAAGAAAA
*
3259557 TAACAAAAGAAAG
1 TAACAAAAGAAAA
3259570 T---AAAA-AAAA
1 TAACAAAAGAAAA
*
3259579 TAACAAAAGCCAAA
1 TAACAAAAG-AAAA
*
3259593 -AATAAAA-AAAA
1 TAACAAAAGAAAA
3259604 TAACAAAA
1 TAACAAAA
3259612 AAATAATATA
Statistics
Matches: 51, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
9 4 0.08
10 4 0.08
11 5 0.10
12 18 0.35
13 17 0.33
14 3 0.06
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (13 bp):
TAACAAAAGAAAA
Found at i:3259565 original size:25 final size:24
Alignment explanation
Indices: 3259514--3259611 Score: 87
Period size: 25 Copynumber: 4.0 Consensus size: 24
3259504 TATAAAAGAT
**
3259514 AGAATAAAAGAAAATAATGTAAC-AA
1 AGAA-AAAAGAAAA-AAAATAACAAA
3259539 AGAAAAAAGAAAAGAAAATAACAAA
1 AGAAAAAAGAAAA-AAAATAACAAA
3259564 AG---AAAGTAAAAAAAATAACAAA
1 AGAAAAAAG-AAAAAAAATAACAAA
* *
3259586 AGCCAAAAATAAAAAAAATAACAAA
1 AG-AAAAAAGAAAAAAAATAACAAA
3259611 A
1 A
3259612 AAATAATATA
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
22 17 0.27
23 4 0.06
24 15 0.24
25 24 0.38
26 3 0.05
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (24 bp):
AGAAAAAAGAAAAAAAATAACAAA
Found at i:3259569 original size:29 final size:30
Alignment explanation
Indices: 3259519--3259576 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
3259509 AAGATAGAAT
***
3259519 AAAAGAAAATAATGTAACAAAG-AAAAAAG
1 AAAAGAAAATAACAAAACAAAGTAAAAAAG
*
3259548 AAAAGAAAATAACAAAAGAAAGTAAAAAA
1 AAAAGAAAATAACAAAACAAAGTAAAAAA
3259577 AATAACAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (30 bp):
AAAAGAAAATAACAAAACAAAGTAAAAAAG
Found at i:3261298 original size:32 final size:32
Alignment explanation
Indices: 3261257--3261341 Score: 89
Period size: 32 Copynumber: 2.7 Consensus size: 32
3261247 TATCGTACCG
* *
3261257 CTCATAGTGATGATATGTTATATATCACATCA
1 CTCAAAGTGATGATATGATATATATCACATCA
* * * * * *
3261289 CTTAAAGTGATGACACGATATATATTATATTA
1 CTCAAAGTGATGATATGATATATATCACATCA
*
3261321 CTCAAAATGATGATATGATAT
1 CTCAAAGTGATGATATGATAT
3261342 GTGTTCTTTC
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (32 bp):
CTCAAAGTGATGATATGATATATATCACATCA
Found at i:3267689 original size:12 final size:12
Alignment explanation
Indices: 3267672--3267696 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3267662 ATAAAGATAA
3267672 ATGACGTTGGAC
1 ATGACGTTGGAC
3267684 ATGACGTTGGAC
1 ATGACGTTGGAC
3267696 A
1 A
3267697 ACTATCATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (12 bp):
ATGACGTTGGAC
Found at i:3271364 original size:27 final size:27
Alignment explanation
Indices: 3271334--3271388 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
3271324 ACTCCGGGAG
* *
3271334 CTAGTTCTTCCCGTGCTCCTCCTGCTC
1 CTAGTTCTTCCCGTGCTCCACCTCCTC
*
3271361 CTAGTTCTTCTCGTGCTCCACCTCCTC
1 CTAGTTCTTCCCGTGCTCCACCTCCTC
3271388 C
1 C
3271389 GGCACCAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.05, C:0.45, G:0.13, T:0.36
Consensus pattern (27 bp):
CTAGTTCTTCCCGTGCTCCACCTCCTC
Found at i:3276929 original size:22 final size:22
Alignment explanation
Indices: 3276903--3276963 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 22
3276893 ATAGGGCAGA
3276903 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCCTTGAAG
* * *
3276925 GGGAACCGATTCCCCTTTTGAAG
1 GGGAATCGATACCCC-CTTGAAG
3276948 GGGAATCGATACCCCC
1 GGGAATCGATACCCCC
3276964 CTGGGGTTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.20
Consensus pattern (22 bp):
GGGAATCGATACCCCCTTGAAG
Found at i:3280809 original size:13 final size:13
Alignment explanation
Indices: 3280791--3280815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3280781 AGGGGGAGTA
3280791 ATTTCAAAACTTG
1 ATTTCAAAACTTG
3280804 ATTTCAAAACTT
1 ATTTCAAAACTT
3280816 ATTAGAAAAT
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:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
ATTTCAAAACTTG
Found at i:3282323 original size:7 final size:7
Alignment explanation
Indices: 3282311--3282346 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
3282301 TAAAATATAT
3282311 ATATTTA
1 ATATTTA
3282318 ATATTTA
1 ATATTTA
3282325 ATATATTAA
1 ATAT-TT-A
3282334 ATATTTA
1 ATATTTA
3282341 ATATTT
1 ATATTT
3282347 TCGATTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 18 0.67
8 4 0.15
9 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATATTTA
Found at i:3282330 original size:16 final size:16
Alignment explanation
Indices: 3282309--3282344 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
3282299 TTTAAAATAT
*
3282309 ATATATTTAATATTTA
1 ATATATTAAATATTTA
3282325 ATATATTAAATATTTA
1 ATATATTAAATATTTA
3282341 ATAT
1 ATAT
3282345 TTTCGATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATATTAAATATTTA
Found at i:3282341 original size:23 final size:22
Alignment explanation
Indices: 3282298--3282346 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
3282288 ACTGGTTAGA
*
3282298 ATTTAAAATATATATATTTAAT
1 ATTTAAAATATAAATATTTAAT
*
3282320 ATTTAATATATTAAATATTTAAT
1 ATTTAAAATA-TAAATATTTAAT
3282343 ATTT
1 ATTT
3282347 TCGATTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTAAAATATAAATATTTAAT
Found at i:3285691 original size:21 final size:21
Alignment explanation
Indices: 3285667--3285706 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3285657 ATTATTACTC
*
3285667 CTTTTCATTTTGA-CAATCAAT
1 CTTTTAATTTT-ATCAATCAAT
3285688 CTTTTAATTTTATCAATCA
1 CTTTTAATTTTATCAATCA
3285707 GACCACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.30, C:0.17, G:0.03, T:0.50
Consensus pattern (21 bp):
CTTTTAATTTTATCAATCAAT
Found at i:3287136 original size:253 final size:249
Alignment explanation
Indices: 3286688--3287170 Score: 567
Period size: 256 Copynumber: 1.9 Consensus size: 249
3286678 AGTAAACAAT
* *
3286688 TTCATTACCAACTTGTTTAGTTGCCTATTGTTGTTGGGCGGGGATCGGTTGAAACATCAAAACCA
1 TTCATTACCAACTCGTTTAGTTGCCTATTGTTGTTGGGCAGGGATCGGTTGAAACATCAAAACCA
* * * * * * *
3286753 AGAGGAATCAATGAATAAAAAATAACTAAAGGTTTCATTACATACAAATTGTCGTATGAATGAAC
66 AGAGGAATCAAGGAATAAAAAATAACCAAAGGTTTAATTACAGACAAACTGTCATATGAAAGAAC
* * * *
3286818 GGACATTAAATCTATGCACTTCAACATTTCTTTATCTATATTGCTTAACATGTAAGTTCATCCCA
131 GCACATTAAACCTATGCACTTCAACATTTCATTATCTAAATTGCTT---ATGTAAGTTCATCCCA
* * *
3286883 GAACCTCGATATAAACAGGGTGCAGGCATATAAATTTTATTCTAGCAAAGCAAACGAA
193 GAAACTCGATATAAACA-GGTGCAAGAATATAAATTTTATTCTAGCAAAGCAAACGAA
* * *
3286941 TTCATTATCAACTCGTTTAGTTGCCTACTGTTGTTGTTGGGTAGGGATTGGTTGAAACATCAAAA
1 TTCATTACCAACTCGTTTAGTTGCCTA---TTGTTGTTGGGCAGGGATCGGTTGAAACATCAAAA
* ** * * * *
3287006 CCACGAGGAATGGAGGAATAGAAACA-AACCAAAGATTTTAATTACCGACAAGCTGTCATATGAA
63 CCAAGAGGAATCAAGGAATA-AAAAATAACCAAAG-GTTTAATTACAGACAAACTGTCATATGAA
* * * *
3287070 AGAATGCACATTAGACCTCTGCACTTCATCATTTCATTATC-AAATTGCATT-TGTAAGTTCATC
126 AGAACGCACATTAAACCTATGCACTTCAACATTTCATTATCTAAATTGC-TTATGTAAGTTCATC
* *
3287133 CCAGAAAGTCGATATAATCAGGTGCAAGAATATAAATT
190 CCAGAAACTCGATATAAACAGGTGCAAGAATATAAATT
3287171 AGAGAAAATA
Statistics
Matches: 192, Mismatches: 32, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
252 16 0.08
253 54 0.28
256 61 0.32
257 61 0.32
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (249 bp):
TTCATTACCAACTCGTTTAGTTGCCTATTGTTGTTGGGCAGGGATCGGTTGAAACATCAAAACCA
AGAGGAATCAAGGAATAAAAAATAACCAAAGGTTTAATTACAGACAAACTGTCATATGAAAGAAC
GCACATTAAACCTATGCACTTCAACATTTCATTATCTAAATTGCTTATGTAAGTTCATCCCAGAA
ACTCGATATAAACAGGTGCAAGAATATAAATTTTATTCTAGCAAAGCAAACGAA
Found at i:3287329 original size:21 final size:21
Alignment explanation
Indices: 3287300--3287501 Score: 119
Period size: 21 Copynumber: 9.8 Consensus size: 21
3287290 TCCACTATCA
*
3287300 CAAATTCGCGTTGCGATAGTT
1 CAAAATCGCGTTGCGATAGTT
* *
3287321 GAAAATCGCGTTGCGAT-TTT
1 CAAAATCGCGTTGCGATAGTT
* **
3287341 CCATTTCGCGTTGCGATAG-T
1 CAAAATCGCGTTGCGATAGTT
* * *
3287361 CTACAGTCGCGTTGCGAT-TTT
1 C-AAAATCGCGTTGCGATAGTT
* **
3287382 CCATTTCGCGTTGCGATAGTT
1 CAAAATCGCGTTGCGATAGTT
* *
3287403 GAAAATCGCGTTGCGAT-TTT
1 CAAAATCGCGTTGCGATAGTT
* **
3287423 CCATTTCGCGTTGCGATAGTT
1 CAAAATCGCGTTGCGATAGTT
* * *
3287444 GAAAATCGCATTGCGAT-TTT
1 CAAAATCGCGTTGCGATAGTT
* **
3287464 CCATTTCGCGTTGCGATAG-T
1 CAAAATCGCGTTGCGATAGTT
* *
3287484 CTACAGTCGCGTTGCGAT
1 C-AAAATCGCGTTGCGAT
3287502 TTTCCGTTTC
Statistics
Matches: 130, Mismatches: 44, Indels: 14
0.69 0.23 0.07
Matches are distributed among these distances:
20 60 0.46
21 70 0.54
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (21 bp):
CAAAATCGCGTTGCGATAGTT
Found at i:3287441 original size:82 final size:82
Alignment explanation
Indices: 3287304--3287549 Score: 388
Period size: 82 Copynumber: 3.0 Consensus size: 82
3287294 CTATCACAAA
3287304 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTC
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTC
3287369 GCGTTGCGATTTTCCAT
66 GCGTTGCGATTTTCCAT
* *
3287386 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAGT
*
3287450 CGCATTGCGATTTTCCAT
65 CGCGTTGCGATTTTCCAT
* * *
3287468 TTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCGTTTCGCGTTGCGATAGTCTACAGT
1 TTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGT
*
3287532 TGTCGTTGCGATTTTCCA
65 CG-CGTTGCGATTTTCCA
3287550 AATTCGTTGC
Statistics
Matches: 150, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
81 1 0.01
82 133 0.89
83 16 0.11
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (82 bp):
TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTC
GCGTTGCGATTTTCCAT
Found at i:3287531 original size:41 final size:41
Alignment explanation
Indices: 3287304--3287524 Score: 356
Period size: 41 Copynumber: 5.4 Consensus size: 41
3287294 CTATCACAAA
3287304 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
* *
3287345 TTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCAT
3287386 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
*
3287427 TTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
* * *
3287468 TTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCGT
1 TTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCAT
3287509 TTCGCGTTGCGATAGT
1 TTCGCGTTGCGATAGT
3287525 CTACAGTTGT
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
40 1 0.01
41 165 0.98
42 2 0.01
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (41 bp):
TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
Found at i:3287558 original size:123 final size:122
Alignment explanation
Indices: 3287302--3287559 Score: 403
Period size: 123 Copynumber: 2.1 Consensus size: 122
3287292 CACTATCACA
*
3287302 AATTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
1 AATTC-CGTTGCGATAGTTGAAAATCGCATTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
3287367 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCC
65 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCC
*
3287425 ATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
1 AATTC-CGTTGCGATAGTTGAAAATCGCATTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
* * * *
3287490 TCGCGTTGCGATTTTCCGTTTCGCGTTGCGATAGTCT-ACAGTTGTCGTTGCGATTTTCC
65 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTCC
3287549 AAATT-CGTTGC
1 -AATTCCGTTGC
3287560 AGTTGTCGTT
Statistics
Matches: 125, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
123 107 0.86
124 15 0.12
125 3 0.02
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (122 bp):
AATTCCGTTGCGATAGTTGAAAATCGCATTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGT
CGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCC
Found at i:3287559 original size:41 final size:40
Alignment explanation
Indices: 3287308--3287549 Score: 301
Period size: 41 Copynumber: 5.9 Consensus size: 40
3287298 CACAAATTCG
* *
3287308 CGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCATTTC
1 CGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCATTTC
3287348 GCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATTTC
1 -CGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATTTC
* *
3287389 GCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCATTTC
1 -CGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCATTTC
* * *
3287430 GCGTTGCGATAGT-TGAAAATCGCATTGCGATTTTCCATTTC
1 -CGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCATTTC
*
3287471 GCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCGTTTC
1 -CGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATTTC
*
3287512 GCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCA
1 -CGTTGCGATAGTCTACAGTCG-CGTTGCGATTTTCCA
3287550 AATTCGTTGC
Statistics
Matches: 186, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
40 1 0.01
41 169 0.91
42 16 0.09
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.37
Consensus pattern (40 bp):
CGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATTTC
Found at i:3287563 original size:31 final size:31
Alignment explanation
Indices: 3287528--3287589 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
3287518 CGATAGTCTA
3287528 CAGTTGTCGTTGCGATTTTCCAAATTCGTTG
1 CAGTTGTCGTTGCGATTTTCCAAATTCGTTG
3287559 CAGTTGTCGTTGCGATTTTCCAAATTCGTTG
1 CAGTTGTCGTTGCGATTTTCCAAATTCGTTG
3287590 TGATAGTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (31 bp):
CAGTTGTCGTTGCGATTTTCCAAATTCGTTG
Found at i:3287683 original size:6 final size:6
Alignment explanation
Indices: 3287672--3287714 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
3287662 GACACGTATT
3287672 ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
3287715 CGAGACGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.27
6 27 0.73
ACGTcount: A:0.30, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:3287990 original size:6 final size:6
Alignment explanation
Indices: 3287979--3288011 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
3287969 TCTCGTCTCG
3287979 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
3288012 AATACGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:3288155 original size:41 final size:41
Alignment explanation
Indices: 3288104--3288228 Score: 207
Period size: 41 Copynumber: 3.0 Consensus size: 41
3288094 ACAACGAATT
3288104 TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAA
* *
3288145 TGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAA
*
3288186 TGGAAAATCACAACGCGACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAA
3288227 TG
1 TG
3288229 CAACACGAAT
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
40 1 0.01
41 75 0.97
42 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (41 bp):
TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAA
Found at i:3288156 original size:20 final size:20
Alignment explanation
Indices: 3288104--3288203 Score: 85
Period size: 20 Copynumber: 4.9 Consensus size: 20
3288094 ACAACGAATT
*
3288104 TGGAAAATCGCAACGCG-AC
1 TGGAAAATCGCAACGCGAAA
**
3288123 TGTAGACTATCGCAACGCGAAA
1 TG--GAAAATCGCAACGCGAAA
**
3288145 TGGAAAATCGCAACGCGATT
1 TGGAAAATCGCAACGCGAAA
** *
3288165 TTCAACTATCGCAACGCGAAA
1 TGGAA-AATCGCAACGCGAAA
*
3288186 TGGAAAATCACAACGCGA
1 TGGAAAATCGCAACGCGA
3288204 CTGTAGACTA
Statistics
Matches: 61, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
19 2 0.03
20 28 0.46
21 28 0.46
22 3 0.05
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
TGGAAAATCGCAACGCGAAA
Found at i:3288284 original size:20 final size:20
Alignment explanation
Indices: 3288261--3288366 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
3288251 AGATCGCGTT
*
3288261 GCGATTTCAACTATCGCAAC
1 GCGATTGCAACTATCGCAAC
* * *
3288281 GCGAAATGGAA-AATCGCAAC
1 GCG-ATTGCAACTATCGCAAC
*
3288301 GCGATCTCCAACTATCGCAAC
1 GCGAT-TGCAACTATCGCAAC
* * * *
3288322 GCGAAATGGAA-AAACGCAAC
1 GCG-ATTGCAACTATCGCAAC
* *
3288342 GCGATTTTCAACTATCGCAAT
1 GCGA-TTGCAACTATCGCAAC
3288363 GCGA
1 GCGA
3288367 AATGCAACGT
Statistics
Matches: 61, Mismatches: 19, Indels: 11
0.67 0.21 0.12
Matches are distributed among these distances:
19 2 0.03
20 30 0.49
21 28 0.46
22 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (20 bp):
GCGATTGCAACTATCGCAAC
Found at i:3288318 original size:41 final size:41
Alignment explanation
Indices: 3288268--3288370 Score: 170
Period size: 41 Copynumber: 2.5 Consensus size: 41
3288258 GTTGCGATTT
*
3288268 CAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTC
1 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
* *
3288309 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATTTT
1 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
*
3288350 CAACTATCGCAATGCGAAATG
1 CAACTATCGCAACGCGAAATG
3288371 CAACGTGAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (41 bp):
CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
Found at i:3288346 original size:101 final size:101
Alignment explanation
Indices: 3288159--3288346 Score: 265
Period size: 101 Copynumber: 1.9 Consensus size: 101
3288149 AAATCGCAAC
**
3288159 GCGATTTTCAACTATCGCAACGCGAAATGGAAAATCACAACGCGACTGTAGACTATCGCAACGCG
1 GCGATTTTCAACTATCGCAACGCGAAATGGAAAATCACAACGCGACTCCAGACTATCGCAACGCG
* * *
3288224 AAATGCAACACGAATTTGCGATGATGGAGATCGCGTT
66 AAATGAAAAACGAA-TCGCGATGATGGAGATCGCGTT
*
3288261 GCGA-TTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCA-ACTATCGCAACGC
1 GCGATTTTCAACTATCGCAACGCGAAATGGAAAATCACAACGCGA-CTCCAGACTATCGCAACGC
3288324 GAAATGGAAAAACGCAA-CGCGAT
65 GAAAT-GAAAAACG-AATCGCGAT
3288347 TTTCAACTAT
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
101 62 0.81
102 13 0.17
103 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.18
Consensus pattern (101 bp):
GCGATTTTCAACTATCGCAACGCGAAATGGAAAATCACAACGCGACTCCAGACTATCGCAACGCG
AAATGAAAAACGAATCGCGATGATGGAGATCGCGTT
Found at i:3288374 original size:21 final size:21
Alignment explanation
Indices: 3288110--3288374 Score: 104
Period size: 21 Copynumber: 13.0 Consensus size: 21
3288100 AATTTGGAAA
* *
3288110 ATCGCAACGCG-ACTGTAGACT
1 ATCGCAACGCGAAATGCA-ACT
* *
3288131 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAAATGCAACT
** *
3288151 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
* *
3288172 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAAATGCAACT
* * *
3288192 ATCACAACGCG-ACTGTAGACT
1 ATCGCAACGCGAAATGCA-ACT
3288213 ATCGCAACGCGAAATGCAAC-
1 ATCGCAACGCGAAATGCAACT
* * * *
3288233 A-CG-AATTTGCGATGATG-GA-G
1 ATCGCAA--CGCGA-AATGCAACT
*** * *
3288253 ATCGCGTTGCG-ATTTCAACT
1 ATCGCAACGCGAAATGCAACT
* *
3288273 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAAATGCAACT
** *
3288293 ATCGCAACGCGATCTCCAACT
1 ATCGCAACGCGAAATGCAACT
* *
3288314 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAAATGCAACT
* ** *
3288334 AACGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
*
3288355 ATCGCAATGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
3288375 GTGAATTTGC
Statistics
Matches: 170, Mismatches: 58, Indels: 32
0.65 0.22 0.12
Matches are distributed among these distances:
18 3 0.02
19 7 0.04
20 74 0.44
21 78 0.46
22 8 0.05
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:3288384 original size:142 final size:142
Alignment explanation
Indices: 3288128--3288399 Score: 431
Period size: 142 Copynumber: 1.9 Consensus size: 142
3288118 GCGACTGTAG
* *
3288128 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAA
*
3288193 TCACAACGCGACTGTAGACTATCGCAACGCGAAATGCAACACGAATTTGCGAT-GATGGAGATCG
66 ACACAACGCGACTGTAGACTATCGCAACGCGAAATGCAACACGAATTTGCGATAG-TGGAGATCG
3288257 CGTTGCGATTTCA
130 CGTTGCGATTTCA
3288270 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAA
* * * * **
3288335 ACGCAACGCGATTTTCA-ACTATCGCAATGCGAAATGCAACGTGAATTTGCGATAGTGGAGATCG
66 ACACAACGCGACTGT-AGACTATCGCAACGCGAAATGCAACACGAATTTGCGATAGTGGAGATCG
3288399 C
130 C
3288400 AATGCGAATT
Statistics
Matches: 119, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
142 117 0.98
143 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (142 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAA
ACACAACGCGACTGTAGACTATCGCAACGCGAAATGCAACACGAATTTGCGATAGTGGAGATCGC
GTTGCGATTTCA
Found at i:3302842 original size:9 final size:9
Alignment explanation
Indices: 3302828--3302852 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3302818 ATTTTATTTG
3302828 ATATTTTTT
1 ATATTTTTT
3302837 ATATTTTTT
1 ATATTTTTT
3302846 ATATTTT
1 ATATTTT
3302853 AAGTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATATTTTTT
Found at i:3309151 original size:21 final size:21
Alignment explanation
Indices: 3309126--3309168 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3309116 CCCAGAATAG
*
3309126 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
3309147 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
3309168 A
1 A
3309169 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:3309230 original size:21 final size:21
Alignment explanation
Indices: 3309204--3309247 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
3309194 CTGTTGAACA
3309204 GGGGGGGAATCGGTACCCCCT
1 GGGGGGGAATCGGTACCCCCT
3309225 GGGGGGGAATCGGTACCCCCT
1 GGGGGGGAATCGGTACCCCCT
3309246 GG
1 GG
3309248 ACATTCTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.27, G:0.45, T:0.14
Consensus pattern (21 bp):
GGGGGGGAATCGGTACCCCCT
Found at i:3309305 original size:21 final size:20
Alignment explanation
Indices: 3309281--3309356 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 20
3309271 AAAACCTGCA
3309281 GGGGTATCTGTACCCCCTGGG
1 GGGGTATCTGTA-CCCCTGGG
3309302 GGGGTATCTGTA-CCC----
1 GGGGTATCTGTACCCCTGGG
3309317 -GGGTATCTGTACCCCTGGG
1 GGGGTATCTGTACCCCTGGG
* *
3309336 GGGGAATCTATACCCCCTGGG
1 GGGGTATCTGTA-CCCCTGGG
3309357 CAATCTTGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
14 11 0.24
15 3 0.07
19 3 0.07
20 9 0.20
21 20 0.43
ACGTcount: A:0.13, C:0.28, G:0.36, T:0.24
Consensus pattern (20 bp):
GGGGTATCTGTACCCCTGGG
Found at i:3309322 original size:14 final size:14
Alignment explanation
Indices: 3309303--3309330 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3309293 CCCCCTGGGG
3309303 GGGTATCTGTACCC
1 GGGTATCTGTACCC
3309317 GGGTATCTGTACCC
1 GGGTATCTGTACCC
3309331 CTGGGGGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (14 bp):
GGGTATCTGTACCC
Found at i:3309337 original size:34 final size:35
Alignment explanation
Indices: 3309282--3309350 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 35
3309272 AAACCTGCAG
* *
3309282 GGGTATCTGTACCCCCTGGGGGGGTATCTGTACCC
1 GGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
3309317 GGGTATCTGTA-CCCCTGGGGGGGAATCTATACCC
1 GGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
3309351 CCTGGGCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 21 0.66
35 11 0.34
ACGTcount: A:0.14, C:0.28, G:0.33, T:0.25
Consensus pattern (35 bp):
GGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
Found at i:3309478 original size:29 final size:31
Alignment explanation
Indices: 3309446--3309504 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 31
3309436 AAACTTTGAA
3309446 TAAATTCAATT-AAGTCCAAAAA-CATTTTT
1 TAAATTCAATTCAAGTCCAAAAACCATTTTT
3309475 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATTCAAGTCCAAAAACCATTTT
3309505 GCCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTT
Found at i:3312621 original size:20 final size:22
Alignment explanation
Indices: 3312596--3312635 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3312586 AGTCGTATAT
3312596 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
3312616 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
3312636 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:3312688 original size:21 final size:21
Alignment explanation
Indices: 3312663--3312705 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3312653 CCCAGAATAG
*
3312663 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
3312684 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
3312705 A
1 A
3312706 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:3312769 original size:22 final size:22
Alignment explanation
Indices: 3312741--3312785 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
3312731 CTGTTGAACA
3312741 GGGGGGGAATCGGTACCCCCTG
1 GGGGGGGAATCGGTACCCCCTG
3312763 GGGGGGGAATCGGTACCCCCTG
1 GGGGGGGAATCGGTACCCCCTG
3312785 G
1 G
3312786 ACATTCTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.27, G:0.47, T:0.13
Consensus pattern (22 bp):
GGGGGGGAATCGGTACCCCCTG
Found at i:3312844 original size:21 final size:21
Alignment explanation
Indices: 3312819--3312897 Score: 98
Period size: 21 Copynumber: 4.0 Consensus size: 21
3312809 AAAACCTGCA
3312819 GGGGGTATCTGTACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
3312840 GGGGGTATCTGTA--CCC---
1 GGGGGTATCTGTACCCCCTGG
3312856 -GGGGTATCTGTACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
* *
3312876 GGGGGAATCTATACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
3312897 G
1 G
3312898 CAATCTTGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
15 12 0.24
17 3 0.06
19 3 0.06
21 32 0.64
ACGTcount: A:0.13, C:0.28, G:0.37, T:0.23
Consensus pattern (21 bp):
GGGGGTATCTGTACCCCCTGG
Found at i:3312860 original size:36 final size:36
Alignment explanation
Indices: 3312820--3312891 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
3312810 AAACCTGCAG
* *
3312820 GGGGTATCTGTACCCCCTGGGGGGGTATCTGTACCC
1 GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
3312856 GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
1 GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
3312892 CCTGGGCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.14, C:0.28, G:0.35, T:0.24
Consensus pattern (36 bp):
GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
Found at i:3312861 original size:15 final size:15
Alignment explanation
Indices: 3312841--3312870 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3312831 ACCCCCTGGG
3312841 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
3312856 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
3312871 CCTGGGGGGG
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:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:3313019 original size:29 final size:31
Alignment explanation
Indices: 3312987--3313046 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
3312977 AAACTTTGAA
3312987 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
3313016 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
3313047 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:3313404 original size:3 final size:3
Alignment explanation
Indices: 3313396--3313443 Score: 69
Period size: 3 Copynumber: 15.3 Consensus size: 3
3313386 TTATATGTTA
*
3313396 ATT ATT ATT ATT ATT ATT ATT ATT ATAA ATT ATT ATT ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT A-TT ATT
3313443 A
1 A
3313444 CAAACCCATA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 36 0.88
4 5 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:3321278 original size:62 final size:62
Alignment explanation
Indices: 3321206--3321392 Score: 288
Period size: 62 Copynumber: 3.0 Consensus size: 62
3321196 TCGATATGAG
3321206 TTTTT-AAAGAAACTAAGTCT-ACTTTTCAGAGGTTTCTTGACATGATGTTTTCAAAAGAATT
1 TTTTTAAAAGAAACTAAGTCTGA-TTTTCAGAGGTTTCTTGACATGATGTTTTCAAAAGAATT
* *
3321267 TTTTTAAAAGAAACTAAGTCTGATTTTCAAAGGTTTTTTGACATGATGTTTTCAAAAGAATT
1 TTTTTAAAAGAAACTAAGTCTGATTTTCAGAGGTTTCTTGACATGATGTTTTCAAAAGAATT
* * * * *
3321329 TTTTTAAAAGAAACTAGGTTTGATTTTCAGAGGTTTCTTTACATTATGTTTTCAAATGAATT
1 TTTTTAAAAGAAACTAAGTCTGATTTTCAGAGGTTTCTTGACATGATGTTTTCAAAAGAATT
3321391 TT
1 TT
3321393 GAAAGAAGCT
Statistics
Matches: 115, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
61 5 0.04
62 109 0.95
63 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (62 bp):
TTTTTAAAAGAAACTAAGTCTGATTTTCAGAGGTTTCTTGACATGATGTTTTCAAAAGAATT
Found at i:3321426 original size:59 final size:61
Alignment explanation
Indices: 3321206--3321426 Score: 208
Period size: 62 Copynumber: 3.6 Consensus size: 61
3321196 TCGATATGAG
* * *
3321206 TTTTT-AAAGAAACTAAG-TCTACTTTTCAGAGGTTTC-TTGACATGATGTTTTCAAAAGAA
1 TTTTTAAAAGAAACTAGGTTCGA-TTTTCAGAAGTTTCTTTGACATGATGTTTTCAAAAGAA
*
3321265 TTTTTTTAAAAGAAACTAAG-TCTGATTTTCA-AAGGTTT-TTTGACATGATGTTTTCAAAAGAA
1 --TTTTTAAAAGAAACTAGGTTC-GATTTTCAGAA-GTTTCTTTGACATGATGTTTTCAAAAGAA
* * * *
3321327 TTTTTTTAAAAGAAACTAGGTTTGATTTTCAGAGGTTTCTTT-ACATTATGTTTTCAAATGAA
1 --TTTTTAAAAGAAACTAGGTTCGATTTTCAGAAGTTTCTTTGACATGATGTTTTCAAAAGAA
* * *
3321389 -TTTTGAAAGAAGCTATGTTCGATTTT-AGGAAGTTTCTT
1 TTTTTAAAAGAAACTAGGTTCGATTTTCA-GAAGTTTCTT
3321427 GATGAACTTT
Statistics
Matches: 140, Mismatches: 12, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
58 1 0.01
59 31 0.22
61 6 0.04
62 96 0.69
63 6 0.04
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (61 bp):
TTTTTAAAAGAAACTAGGTTCGATTTTCAGAAGTTTCTTTGACATGATGTTTTCAAAAGAA
Found at i:3321601 original size:57 final size:57
Alignment explanation
Indices: 3321533--3321641 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 57
3321523 CTTGACATGA
*
3321533 TAATCTTTAAAGAAGCTAAGCCTAATTT-TCAAGGGTTTCTTAATGATTACTTCCAAT
1 TAATCTTTAAAGAAGCTAAGCCTAATTTGT-AAGGGTTTCTTAATGATAACTTCCAAT
* * * *
3321590 TAATTTTTAAAGAAGTTAAGCCTAATTTGTAGGGGTTTCTTGATGATAACTT
1 TAATCTTTAAAGAAGCTAAGCCTAATTTGTAAGGGTTTCTTAATGATAACTT
3321642 TAAATGAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
57 45 0.98
58 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (57 bp):
TAATCTTTAAAGAAGCTAAGCCTAATTTGTAAGGGTTTCTTAATGATAACTTCCAAT
Found at i:3322535 original size:240 final size:236
Alignment explanation
Indices: 3321689--3322531 Score: 1152
Period size: 240 Copynumber: 3.5 Consensus size: 236
3321679 TTTCTTGATG
*
3321689 AGTAAGTCCCTCGGGCCATCAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAG
1 AGTAAGTCCCTCGGGCCATCAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGATCATCTATAAG
*
3321754 TATTTCGAGAAAGATAATAAGTCATTCGAGCCATCAACAAGACCTTTGGGCATGATGTTTTCAAA
66 TATTTCGAGAAAGATAATAAGTCATTCGGGCCATCAACAAGACCTTTGGGCATGATGTTTTCAAA
* *
3321819 TGATTTTCT-AAAAAAGAGAAAGTGATTTCCAAAGTTTATCATTTAAATCTTTTCTGAAAATTGA
131 TGATTTT-TGAAAAATGAGAAAGTGATTTCCAAAGTTTATCATTTAAATCTTTTCTAAAAATTGA
3321883 TTTTTTT-AAAGTAAGAAAACGATTTCCAAAGTTTCTTACTT
195 TTTTTTTAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTT
* *
3321924 AGTAAGTCCCTCGGGCCATCAAGTCTTTCGAGCATGGTGCTTAAATCCTTCGGGTCATCTATAAG
1 AGTAAGTCCCTCGGGCCATCAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGATCATCTATAAG
*
3321989 TATTTCGAGAAAGATAATAAGTCATTCGTGCCATCAACAAGACCTTTGGGCATGATGTTTTCAAA
66 TATTTCGAGAAAGATAATAAGTCATTCGGGCCATCAACAAGACCTTTGGGCATGATGTTTTCAAA
* *
3322054 TGATTTTCGGAAAATGAGAAAGTGATTTCCAAAGTTTATCATTTAAATCTTTTCTAAAAATTGAT
131 TGATTTTTGAAAAATGAGAAAGTGATTTCCAAAGTTTATCATTTAAATCTTTTCTAAAAATTGAT
3322119 TTTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTT
196 TTTTTT-AAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTT
* * * * ** *
3322161 AGTAAGTCCTTTGGGCCATAAATAAGTCTTTCGAGCATGATGTTTAAATCCTTCAAATTATCTAT
1 AGTAAGTCCCTCGGGCCAT---CAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGATCATCTAT
* * * * * * * *
3322226 AAGTCTTTTGAGGAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGCAAGATGTTTTC
63 AAGTATTTCGAGAAAGATAATAAGTCATTCGGGCCATCAACAAGACCTTTGGGCATGATGTTTTC
* * * * *
3322291 ATATGATTTTTGAAAAATGAGAAAGTGGTTTCCAAAGTTTCTCATTTAAATATTTTCTAAAAAAT
128 AAATGATTTTTGAAAAATGAGAAAGTGATTTCCAAAGTTTATCATTTAAATCTTTTCTAAAAATT
*
3322356 GATTTTTTTAAAAAAGTAA-AAAACAATTTCCAAAGTTTCTTACTT
193 GATTTTTTT--AAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTT
* * * * *
3322401 ATTAAGTCCTTCGAGCCATCAGTAGGTCTTTCGAGCATGATGCCTAAATCCTTCGGATCATCTAA
1 AGTAAGTCCCTCGGGCCATCA--A-GTCTTTCGAGCATGATGCTTAAATCCTTCGGATCATCTAT
** * * * ** *** * *
3322466 AAGCCTTTCGAGTAAGATGATAAGTCCTTCGGGGAATCTGTAAGACCTTCGGGCATGATTTTTTC
63 AAGTATTTCGAGAAAGATAATAAGTCATTCGGGCCATCAACAAGACCTTTGGGCATGATGTTTTC
3322531 A
128 A
3322532 TATGGTGTTG
Statistics
Matches: 545, Mismatches: 53, Indels: 15
0.89 0.09 0.02
Matches are distributed among these distances:
235 194 0.36
237 52 0.10
239 1 0.00
240 290 0.53
241 8 0.01
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (236 bp):
AGTAAGTCCCTCGGGCCATCAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGATCATCTATAAG
TATTTCGAGAAAGATAATAAGTCATTCGGGCCATCAACAAGACCTTTGGGCATGATGTTTTCAAA
TGATTTTTGAAAAATGAGAAAGTGATTTCCAAAGTTTATCATTTAAATCTTTTCTAAAAATTGAT
TTTTTTAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTT
Found at i:3322571 original size:10 final size:10
Alignment explanation
Indices: 3322558--3322600 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
3322548 AAAGAAATAG
3322558 AAAAAAAGGA
1 AAAAAAAGGA
*
3322568 AAAAAATGAGA
1 AAAAAAAG-GA
*
3322579 AAAAAAAAGA
1 AAAAAAAGGA
*
3322589 AAAAAAATGA
1 AAAAAAAGGA
3322599 AA
1 AA
3322601 GAAACCATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 20 0.71
11 8 0.29
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (10 bp):
AAAAAAAGGA
Found at i:3322579 original size:20 final size:20
Alignment explanation
Indices: 3322542--3322594 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
3322532 TATGGTGTTG
*
3322542 AAAAAA-AAAGAAATAG-AA
1 AAAAAAGAAAAAAATAGAAA
*
3322560 AAAAAGGAAAAAAATGAGAAA
1 AAAAAAGAAAAAAAT-AGAAA
3322581 AAAAAAGAAAAAAA
1 AAAAAAGAAAAAAA
3322595 ATGAAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 5 0.17
19 7 0.24
20 2 0.07
21 15 0.52
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (20 bp):
AAAAAAGAAAAAAATAGAAA
Found at i:3322618 original size:32 final size:32
Alignment explanation
Indices: 3322547--3322624 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
3322537 TGTTGAAAAA
* **
3322547 AAAAGAAATAG-AAAAAAAGGAAAAAAATGAG
1 AAAAGAAAAAGAAAAAAAAGGAAAAAAACCAG
* * *
3322578 AAAA-AAAAAGAAAAAAAATGAAAGAAACCAT
1 AAAAGAAAAAGAAAAAAAAGGAAAAAAACCAG
3322609 AAAAGAAAAAGAAAAA
1 AAAAGAAAAAGAAAAA
3322625 TAATAAATTC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
30 5 0.13
31 23 0.59
32 11 0.28
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.05
Consensus pattern (32 bp):
AAAAGAAAAAGAAAAAAAAGGAAAAAAACCAG
Found at i:3323264 original size:3 final size:3
Alignment explanation
Indices: 3323256--3323302 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
3323246 CTATGATATG
* *
3323256 TTA TTA TTA TTA TTA TAAA ATA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
3323303 CAAACCCATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 34 0.89
4 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:3325149 original size:37 final size:36
Alignment explanation
Indices: 3325086--3325173 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 36
3325076 TTATGCTATC
* *
3325086 TTTTTAGTTTTGCTCTTTTAATTATGTTT-TCTTCTG
1 TTTTTAGTTTTACTCTTTTAACTATGTTTAT-TTCTG
* *
3325122 TTTTTAGTTTATACTCTTTTCACTATGTTTATTTTTG
1 TTTTTAGTTT-TACTCTTTTAACTATGTTTATTTCTG
* *
3325159 TTTTTACTTGTACTC
1 TTTTTAGTTTTACTC
3325174 CTTTCACAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
36 15 0.34
37 28 0.64
38 1 0.02
ACGTcount: A:0.14, C:0.12, G:0.09, T:0.65
Consensus pattern (36 bp):
TTTTTAGTTTTACTCTTTTAACTATGTTTATTTCTG
Found at i:3326929 original size:59 final size:59
Alignment explanation
Indices: 3326835--3326977 Score: 250
Period size: 59 Copynumber: 2.4 Consensus size: 59
3326825 CTTATTATGG
*
3326835 CACACTTCTACCAACCCTATAAAAAGCTGATAACTACCCACCCCTCAGCAGCACGCTTT
1 CACACTTCTACCAACCCTATAAAAAGCTGACAACTACCCACCCCTCAGCAGCACGCTTT
**
3326894 CACACTTCTACCAACCCTATAACCAGCTGACAACTACCCACCCCTCAGCAGCACGCTTT
1 CACACTTCTACCAACCCTATAAAAAGCTGACAACTACCCACCCCTCAGCAGCACGCTTT
*
3326953 CACACCTCTACCAACCCTATAAAAA
1 CACACTTCTACCAACCCTATAAAAA
3326978 ATGGACTTGT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 78 1.00
ACGTcount: A:0.33, C:0.41, G:0.07, T:0.19
Consensus pattern (59 bp):
CACACTTCTACCAACCCTATAAAAAGCTGACAACTACCCACCCCTCAGCAGCACGCTTT
Found at i:3327107 original size:29 final size:29
Alignment explanation
Indices: 3327005--3327109 Score: 120
Period size: 29 Copynumber: 3.6 Consensus size: 29
3326995 TATTAGAACT
* * *
3327005 ATAATTTGTTTTATTATCTGTCTAAAAGGT
1 ATAA-TTGTTTTATTCTCTTTCTAAAAGGA
* * * * *
3327035 GTAATTATTTTATTGTCTTTCTAGAAGGG
1 ATAATTGTTTTATTCTCTTTCTAAAAGGA
3327064 ATAATTGTTTTATTCTCTTTCTAAAAGGA
1 ATAATTGTTTTATTCTCTTTCTAAAAGGA
*
3327093 ATATTTGTTTTATTCTC
1 ATAATTGTTTTATTCTC
3327110 AATTCTGTGA
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
29 60 0.95
30 3 0.05
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (29 bp):
ATAATTGTTTTATTCTCTTTCTAAAAGGA
Found at i:3328038 original size:23 final size:22
Alignment explanation
Indices: 3328008--3328078 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 22
3327998 TTTCATCTTG
3328008 AAAAAATAATATTAAAAATATTT
1 AAAAAATAATATT-AAAATATTT
* *
3328031 AAAAAATAAATATTCAAATATAT
1 AAAAAAT-AATATTAAAATATTT
3328054 AAAAATATAA-A-TAAAATA-TT
1 AAAAA-ATAATATTAAAATATTT
3328074 AAAAA
1 AAAAA
3328079 TGGGAAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 6 0.14
21 6 0.14
22 1 0.02
23 21 0.50
24 8 0.19
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAAAATAATATTAAAATATTT
Found at i:3328093 original size:17 final size:18
Alignment explanation
Indices: 3328066--3328102 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
3328056 AAATATAAAT
3328066 AAAATATTAAAAATGGGA
1 AAAATATTAAAAATGGGA
3328084 AAAATA-TAAAAATGGGA
1 AAAATATTAAAAATGGGA
3328101 AA
1 AA
3328103 CTATGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19
Consensus pattern (18 bp):
AAAATATTAAAAATGGGA
Found at i:3328603 original size:2 final size:2
Alignment explanation
Indices: 3328596--3328658 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
3328586 ATCCGGCCTA
3328596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3328638 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
3328659 AATAAAAGTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.