Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 3 of 318
Found at i:714258 original size:7 final size:7
Alignment explanation
Indices: 714248--714282 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
714238 GACTCTGAAT
714248 CCTAAAC
1 CCTAAAC
714255 CCTAAAC
1 CCTAAAC
*
714262 CCTAAAT
1 CCTAAAC
714269 CCTAAAC
1 CCTAAAC
*
714276 CTTAAAC
1 CCTAAAC
714283 TCGAACCACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (7 bp):
CCTAAAC
Found at i:718486 original size:15 final size:16
Alignment explanation
Indices: 718466--718498 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
718456 ATCTAAAAAA
718466 AAATTA-ATTTTTTTT
1 AAATTACATTTTTTTT
718481 AAATTAGCATTTTTTTT
1 AAATTA-CATTTTTTTT
718498 A
1 A
718499 CAAATTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (16 bp):
AAATTACATTTTTTTT
Found at i:728415 original size:210 final size:209
Alignment explanation
Indices: 728047--728474 Score: 795
Period size: 210 Copynumber: 2.0 Consensus size: 209
728037 CATGCAAATG
728047 AAAAAAAGGGATAAAATATTTCTAAAGTTGGCATGATACCAGAAGCAAATCAAGCATAAATACTG
1 AAAAAAAGGGATAAAATATTTCTAAAGTTGGCATGATACCAGAAGCAAATCAAGCATAAATACTG
728112 CTGGCACATGAAAATCGAAGTAAAATCCATTGAAGAAAAACATACATTATAGAAATATTTAAGGA
66 CTGGCACATGAAAATCGAAGTAAAATCCATTGAAGAAAAACATACATTATAGAAATATTTAAGGA
* *
728177 CATGACAAAGCCAAACTTCAATTTAACATTAGTCACT-CTCACTAGTTTCATTTAACGTTTATTT
131 CATGACAAAGCCAAACTTCAAATTAACATTAGTCA-TGCCCACTAGTTTCATTTAACGTTTATTT
728241 ATTATCAGCAGCAGA
195 ATTATCAGCAGCAGA
728256 AAAACAAAGGGATAAAATATTTCTAAAGTTGGCATGATACCAGAAGCAAATCAAGCATAAATACT
1 AAAA-AAAGGGATAAAATATTTCTAAAGTTGGCATGATACCAGAAGCAAATCAAGCATAAATACT
*
728321 GCTGGCACATGAAAATCGAAGTAAAATCCATTGAAGAAAAACATATATTATAGAAATATTTAAGG
65 GCTGGCACATGAAAATCGAAGTAAAATCCATTGAAGAAAAACATACATTATAGAAATATTTAAGG
728386 ACATGACAAAGCCAAACTTCAAATTAACATTAGTCATGCCCACTAGTTTCATTTAACGTTTATTT
130 ACATGACAAAGCCAAACTTCAAATTAACATTAGTCATGCCCACTAGTTTCATTTAACGTTTATTT
728451 ATTATCAGCAGCAGA
195 ATTATCAGCAGCAGA
728466 AAAAGAAAG
1 AAAA-AAAG
728475 CTGGGAGTGA
Statistics
Matches: 213, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
209 5 0.02
210 208 0.98
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.26
Consensus pattern (209 bp):
AAAAAAAGGGATAAAATATTTCTAAAGTTGGCATGATACCAGAAGCAAATCAAGCATAAATACTG
CTGGCACATGAAAATCGAAGTAAAATCCATTGAAGAAAAACATACATTATAGAAATATTTAAGGA
CATGACAAAGCCAAACTTCAAATTAACATTAGTCATGCCCACTAGTTTCATTTAACGTTTATTTA
TTATCAGCAGCAGA
Found at i:742980 original size:7 final size:7
Alignment explanation
Indices: 742968--743015 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
742958 TGGGGTTCTA
742968 TATTTTT
1 TATTTTT
742975 TATTTTT
1 TATTTTT
* *
742982 AATATTT
1 TATTTTT
* *
742989 AAATTTT
1 TATTTTT
742996 TATTTTTT
1 TA-TTTTT
743004 TATTTTT
1 TATTTTT
743011 TATTT
1 TATTT
743016 ATTGAAAGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 28 0.82
8 6 0.18
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TATTTTT
Found at i:748376 original size:30 final size:30
Alignment explanation
Indices: 748340--748402 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
748330 GATTCGAAAC
* *
748340 TTAGCATCATCGGTCCAACCTCAATCTGCA
1 TTAGCATCATCAGTCCAACCTCAATCTCCA
748370 TTAGCATCATCAGTCCAACCTCAATCTCCA
1 TTAGCATCATCAGTCCAACCTCAATCTCCA
748400 TTA
1 TTA
748403 TTGCAAGGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.29
Consensus pattern (30 bp):
TTAGCATCATCAGTCCAACCTCAATCTCCA
Found at i:751123 original size:12 final size:12
Alignment explanation
Indices: 751106--751199 Score: 76
Period size: 12 Copynumber: 8.1 Consensus size: 12
751096 TTTTTTGTTG
*
751106 TTTATATTTTTA
1 TTTATATTATTA
751118 TTTATATTATTA
1 TTTATATTATTA
*
751130 -TTAGTATCATTA
1 TTTA-TATTATTA
751142 --T-TATTATTA
1 TTTATATTATTA
751151 -TTATTATTATTA
1 TTTA-TATTATTA
751163 -TTATTATTATTA
1 TTTA-TATTATTA
*
751175 TTAATATTATTA
1 TTTATATTATTA
751187 -TTATTATTATTA
1 TTTA-TATTATTA
751199 T
1 T
751200 CTCCGTTACT
Statistics
Matches: 70, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
9 7 0.10
10 1 0.01
11 6 0.09
12 54 0.77
13 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:751250 original size:20 final size:21
Alignment explanation
Indices: 751227--751266 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
751217 TTTTTATATT
*
751227 ACTATTATTGTTA-TATTATC
1 ACTATTATTCTTACTATTATC
*
751247 ACTATTTTTCTTACTATTAT
1 ACTATTATTCTTACTATTAT
751267 TATTACTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (21 bp):
ACTATTATTCTTACTATTATC
Found at i:751286 original size:3 final size:3
Alignment explanation
Indices: 751122--751271 Score: 133
Period size: 3 Copynumber: 49.7 Consensus size: 3
751112 TTTTTATTTA
* *
751122 TAT TAT TAT TAG TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
751170 TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT CTCCGT TAC TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -T--AT TAT TAT TAT TAT
* * * * * * * *
751218 TTT TA- TAT TAC TAT TAT TGT TA- TAT TAT CAC TAT TTT TCT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
751264 TAT TAT TA
1 TAT TAT TA
751272 CTACAACTAT
Statistics
Matches: 117, Mismatches: 25, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
2 4 0.03
3 110 0.94
4 1 0.01
5 1 0.01
6 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:751567 original size:17 final size:17
Alignment explanation
Indices: 751545--751591 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
751535 CAACATATAC
751545 TATTATTATTAATGTAT
1 TATTATTATTAATGTAT
* *
751562 TATTATT-TTCTATTTAT
1 TATTATTATT-AATGTAT
*
751579 TACTATTATTAAT
1 TATTATTATTAAT
751592 ATATATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 2 0.08
17 20 0.83
18 2 0.08
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (17 bp):
TATTATTATTAATGTAT
Found at i:751697 original size:15 final size:15
Alignment explanation
Indices: 751679--751716 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
751669 CCCACTTAGC
751679 TATTATTACTATTAT
1 TATTATTACTATTAT
*
751694 TATTTTTACTATTAT
1 TATTATTACTATTAT
*
751709 AATTATTA
1 TATTATTA
751717 TTAATCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTACTATTAT
Found at i:752751 original size:25 final size:23
Alignment explanation
Indices: 752722--752786 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
752712 AATAAAAAAT
*
752722 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
752747 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
752768 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
752787 AAAAATGAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:752785 original size:19 final size:20
Alignment explanation
Indices: 752748--752786 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
752738 TCAAATACAT
752748 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
752768 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
752787 AAAAATGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:754421 original size:15 final size:15
Alignment explanation
Indices: 754401--754430 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
754391 ATAGATTTGG
*
754401 AATTTTTTGTATTTT
1 AATTTTCTGTATTTT
754416 AATTTTCTGTATTTT
1 AATTTTCTGTATTTT
754431 TTGAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (15 bp):
AATTTTCTGTATTTT
Found at i:755601 original size:6 final size:6
Alignment explanation
Indices: 755592--755634 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
755582 AACTCATTCT
* * *
755592 CACCGC CACCGC CACCGC CATCGC CATCTC CACCGC CACCGC C
1 CACCGC CACCGC CACCGC CACCGC CACCGC CACCGC CACCGC C
755635 TCTAGGGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.16, C:0.63, G:0.14, T:0.07
Consensus pattern (6 bp):
CACCGC
Found at i:760070 original size:21 final size:21
Alignment explanation
Indices: 760041--760086 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
760031 TTAGTTTTTT
* *
760041 TTATTGTATATTATATTATGA
1 TTATAGTATATAATATTATGA
* *
760062 TTATAGTATATAATTTTATGG
1 TTATAGTATATAATATTATGA
760083 TTAT
1 TTAT
760087 CGATTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.57
Consensus pattern (21 bp):
TTATAGTATATAATATTATGA
Found at i:761768 original size:139 final size:142
Alignment explanation
Indices: 761508--761958 Score: 519
Period size: 139 Copynumber: 3.2 Consensus size: 142
761498 CAATGGCAGA
* ** *
761508 AAGGGCGCAAAGCCAAGCTAGAACCCCTAA-ATTGTCTTGCATTCGAAAGAGGT-TTT-TTGTAT
1 AAGGGCGCAAAGCCGAGCTAGAA-CCCTAATATTGTCTTGCATTCG-AAGATTTCTTTCTTGTGT
* * * * * *
761570 GTGTTTCTC-TGTCGAAAGGGTT-TAAGACATTTTTGTAGTAGAGCTAAATTCTCTAGGCAATGG
64 CTCTTTCTCAT-TCAAAAGGGTTCT-GGACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGG
*
761633 CAGAACTAGTGTTGTT
127 CACAACTAGTGTTGTT
* * * * *
761649 AAAGGTGCAAAGCCAAGCTAGAATCTTAATATTGTCTTGCATTCG-A-A-TT-TTTC-TGTGTCT
1 AAGGGCGCAAAGCCGAGCTAGAACCCTAATATTGTCTTGCATTCGAAGATTTCTTTCTTGTGTCT
* *
761709 CTCTCTCTCATTCAAAAGGGTTC-GTGATATTTTTGTACTAGCGCTAAATTCACTAGGCAATGGC
66 CT-T-TCTCATTCAAAAGGGTTCTG-GACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGGC
761773 ACAACTAGTGTTGTT
128 ACAACTAGTGTTGTT
*
761788 AAGGGCGCAAAGCCGAGCTAGAACCCTAATATTGTCTTGCATTTGAAAGGATTTCTTTCTTGTGT
1 AAGGGCGCAAAGCCGAGCTAGAACCCTAATATTGTCTTGCATTCG-AA-GATTTCTTTCTTGTGT
* * * * * *
761853 GTGTTTCTCATTCGAAAGGGTTCTGGACATTTTTGTACTAAAGCTAAATTCATTAGGCAATGTCA
64 CTCTTTCTCATTCAAAAGGGTTCTGGACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGGCA
761918 CAACTAGTGTTGTT
129 CAACTAGTGTTGTT
761932 AAGGGCGCAAAGCCGAGCTAGAACCCT
1 AAGGGCGCAAAGCCGAGCTAGAACCCT
761959 TACATTGTTT
Statistics
Matches: 266, Mismatches: 29, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
137 10 0.04
138 2 0.01
139 103 0.39
140 5 0.02
141 37 0.14
143 1 0.00
144 95 0.36
145 6 0.02
146 7 0.03
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (142 bp):
AAGGGCGCAAAGCCGAGCTAGAACCCTAATATTGTCTTGCATTCGAAGATTTCTTTCTTGTGTCT
CTTTCTCATTCAAAAGGGTTCTGGACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGGCACA
ACTAGTGTTGTT
Found at i:761914 original size:144 final size:142
Alignment explanation
Indices: 761508--762014 Score: 577
Period size: 144 Copynumber: 3.6 Consensus size: 142
761498 CAATGGCAGA
** *
761508 AAGGGCGCAAAGCCAAGCTAGAACCCCTAA-ATTGTCTTGCATTCGAAAGAGGTTTT-TTGTATG
1 AAGGGCGCAAAGCCAAGCTAGAA-CCCTAATATTGTCTTGCATTCGAAAGATTTTTTCTTGTGTG
* *
761571 TGTTTCTC-TGTCGAAAGGGTT-TAAGACATTTTTGTAGTAGAGCTAAATTC-TCTAGGCAATGG
65 TGTTTCTCAT-TCGAAAGGGTTCT-GGACATTTTTGTACTAGAGCTAAATTCAT-TAGGCAATGG
*
761633 CAGAACTAGTGTTGTT
127 CACAACTAGTGTTGTT
* * * * *
761649 AAAGGTGCAAAGCCAAGCTAGAATCTTAATATTGTCTTGCATTCG--A-A-TTTTTC-TGTGTCT
1 AAGGGCGCAAAGCCAAGCTAGAACCCTAATATTGTCTTGCATTCGAAAGATTTTTTCTTGTGTGT
* * * * *
761709 CTCTCTCTCATTCAAAAGGGTTC-GTGATATTTTTGTACTAGCGCTAAATTCACTAGGCAATGGC
66 GT-T-TCTCATTCGAAAGGGTTCTG-GACATTTTTGTACTAGAGCTAAATTCATTAGGCAATGGC
761773 ACAACTAGTGTTGTT
128 ACAACTAGTGTTGTT
* *
761788 AAGGGCGCAAAGCCGAGCTAGAACCCTAATATTGTCTTGCATTTGAAAGGATTTCTTTCTTGTGT
1 AAGGGCGCAAAGCCAAGCTAGAACCCTAATATTGTCTTGCATTCGAAA-GATTT-TTTCTTGTGT
* *
761853 GTGTTTCTCATTCGAAAGGGTTCTGGACATTTTTGTACTAAAGCTAAATTCATTAGGCAATGTCA
64 GTGTTTCTCATTCGAAAGGGTTCTGGACATTTTTGTACTAGAGCTAAATTCATTAGGCAATGGCA
761918 CAACTAGTGTTGTT
129 CAACTAGTGTTGTT
* * * * * * * *
761932 AAGGGCGCAAAGCCGAGCTAGAACCCTTACATTGTTTTGGATTTGAAAGGGTTTTTTCTTTTATG
1 AAGGGCGCAAAGCCAAGCTAGAACCCTAATATTGTCTTGCATTCGAAA-GATTTTTTC--TTGTG
761997 TGTGTTTCTCATTCGAAA
63 TGTGTTTCTCATTCGAAA
762015 TGTTTCGAAA
Statistics
Matches: 313, Mismatches: 35, Indels: 32
0.82 0.09 0.08
Matches are distributed among these distances:
137 10 0.03
138 2 0.01
139 102 0.33
140 5 0.02
141 37 0.12
143 5 0.02
144 117 0.37
145 28 0.09
146 7 0.02
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (142 bp):
AAGGGCGCAAAGCCAAGCTAGAACCCTAATATTGTCTTGCATTCGAAAGATTTTTTCTTGTGTGT
GTTTCTCATTCGAAAGGGTTCTGGACATTTTTGTACTAGAGCTAAATTCATTAGGCAATGGCACA
ACTAGTGTTGTT
Found at i:772644 original size:49 final size:49
Alignment explanation
Indices: 772568--772665 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 49
772558 TTTTAATTAT
* *
772568 TTTAAAGCCCTAAATCCCCAAAATCCAATCTATAAACTCTAATATTCAA
1 TTTAAAGCCCTAAATCCCCAAAATCCAATCTAAAAACCCTAATATTCAA
* * *
772617 TTTAAAGGCCC-AAATCTCCAAATTCCAATCTAAAAACCCTAATCTTCAA
1 TTTAAA-GCCCTAAATCCCCAAAATCCAATCTAAAAACCCTAATATTCAA
772666 CCCCTCCTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 39 0.91
50 4 0.09
ACGTcount: A:0.42, C:0.28, G:0.03, T:0.28
Consensus pattern (49 bp):
TTTAAAGCCCTAAATCCCCAAAATCCAATCTAAAAACCCTAATATTCAA
Found at i:778219 original size:22 final size:23
Alignment explanation
Indices: 778194--778239 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
778184 AATTTAGCAC
778194 TCAATATTTAC-ATT-TTTTTTCT
1 TCAAT-TTTACTATTATTTTTTCT
*
778216 TCAATTTTACTCTTATTTTTTCT
1 TCAATTTTACTATTATTTTTTCT
778239 T
1 T
778240 TCTTTAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 7 0.33
23 9 0.43
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (23 bp):
TCAATTTTACTATTATTTTTTCT
Found at i:784497 original size:15 final size:16
Alignment explanation
Indices: 784479--784514 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
784469 TCTTTAAAAT
*
784479 TTTAAGTTATTTT-AG
1 TTTAAGTAATTTTGAG
784494 TTTAAGTAATTTTGAG
1 TTTAAGTAATTTTGAG
784510 TTTAA
1 TTTAA
784515 ATCGTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.56
Consensus pattern (16 bp):
TTTAAGTAATTTTGAG
Found at i:791970 original size:26 final size:24
Alignment explanation
Indices: 791936--791984 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
791926 TAAATAAAAA
* *
791936 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
791962 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
791985 TTAAAACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:792009 original size:19 final size:20
Alignment explanation
Indices: 791966--792009 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
791956 AAATACATTT
*
791966 AAAAACATAAAAACAAATAT
1 AAAAACATAAAAACAAATAA
* *
791986 TAAAACA-AGAAACAAATAA
1 AAAAACATAAAAACAAATAA
792005 AAAAA
1 AAAAA
792010 TGAGACTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.77, C:0.09, G:0.02, T:0.11
Consensus pattern (20 bp):
AAAAACATAAAAACAAATAA
Found at i:792102 original size:23 final size:24
Alignment explanation
Indices: 792076--792121 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
792066 TTATATTAAA
792076 ATTAAAAAT-AAAATATAAATATG
1 ATTAAAAATAAAAATATAAATATG
*
792099 ATTAAAAATAAAAATATATATAT
1 ATTAAAAATAAAAATATAAATAT
792122 TTAGTATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
ATTAAAAATAAAAATATAAATATG
Found at i:793704 original size:22 final size:21
Alignment explanation
Indices: 793665--793729 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
793655 TAATATGACT
* * *
793665 ATATAAAAAATATAAAAAATA
1 ATATAAATATTATTAAAAATA
793686 AT-TAAATATTAAATT-AAAATA
1 ATATAAATATT--ATTAAAAATA
*
793707 ATATAAATATTTTTAAAAATA
1 ATATAAATATTATTAAAAATA
793728 AT
1 AT
793730 GTGGCGGGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 8 0.22
21 18 0.50
22 10 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATATAAATATTATTAAAAATA
Found at i:797297 original size:31 final size:31
Alignment explanation
Indices: 797171--797300 Score: 104
Period size: 31 Copynumber: 4.3 Consensus size: 31
797161 GTCATATACC
* * *
797171 ATTTGATACCTGAGTTTAGCTTCAATGTTCA
1 ATTTGGTACCTGAGATTGGCTTCAATGTTCA
* * * *
797202 ATTTGGTACTTGAGTTTGGCTTCCATGTTTA
1 ATTTGGTACCTGAGATTGGCTTCAATGTTCA
* ** ****
797233 ATTTGGTAGCTGAGATT-TTTTC--CCCCCA
1 ATTTGGTACCTGAGATTGGCTTCAATGTTCA
*
797261 ATTTGGTACCTGAGATTGGCATCAATGTTCA
1 ATTTGGTACCTGAGATTGGCTTCAATGTTCA
797292 ATTTGGTAC
1 ATTTGGTAC
797301 TTGGATCAAA
Statistics
Matches: 73, Mismatches: 23, Indels: 6
0.72 0.23 0.06
Matches are distributed among these distances:
28 17 0.23
29 2 0.03
30 3 0.04
31 51 0.70
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.42
Consensus pattern (31 bp):
ATTTGGTACCTGAGATTGGCTTCAATGTTCA
Found at i:801189 original size:15 final size:16
Alignment explanation
Indices: 801152--801190 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
801142 TTTAATCCTC
801152 TTAAAA-TAAAAAAAA
1 TTAAAATTAAAAAAAA
*
801167 TTAAAATTAATAAAAA
1 TTAAAATTAAAAAAAA
801183 -TAAAATTA
1 TTAAAATTA
801191 TACTTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TTAAAATTAAAAAAAA
Found at i:801580 original size:21 final size:22
Alignment explanation
Indices: 801550--801602 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
801540 TATTCGAAAA
*
801550 GTTAATAAATTAATTT-TTTTT
1 GTTAAAAAATTAATTTATTTTT
801571 GTTAAAAAATTAATTTATTTTT
1 GTTAAAAAATTAATTTATTTTT
*
801593 ATTAATAAAA
1 GTTAA-AAAA
801603 ATTAGTATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 15 0.54
22 9 0.32
23 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
GTTAAAAAATTAATTTATTTTT
Found at i:801695 original size:20 final size:20
Alignment explanation
Indices: 801661--801701 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
801651 GTATATCTCT
*
801661 TTTTAACATATAAAATTAAA
1 TTTTAACATATAAAAATAAA
801681 TTTTAACA-ATAAAAAATAAA
1 TTTTAACATAT-AAAAATAAA
801701 T
1 T
801702 AAGCTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTTAACATATAAAAATAAA
Found at i:801902 original size:20 final size:20
Alignment explanation
Indices: 801877--801914 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
801867 TAAAGATCAA
* *
801877 ATTAAATTAGTCCAATTACT
1 ATTAAATAAATCCAATTACT
801897 ATTAAATAAATCCAATTA
1 ATTAAATAAATCCAATTA
801915 TTAAAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (20 bp):
ATTAAATAAATCCAATTACT
Found at i:810912 original size:11 final size:11
Alignment explanation
Indices: 810896--810920 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
810886 ACCCAATGTT
810896 TATATAATCAC
1 TATATAATCAC
810907 TATATAATCAC
1 TATATAATCAC
810918 TAT
1 TAT
810921 CTTTAAAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (11 bp):
TATATAATCAC
Found at i:811225 original size:166 final size:165
Alignment explanation
Indices: 810938--811305 Score: 443
Period size: 166 Copynumber: 2.2 Consensus size: 165
810928 GACCACCCGC
* * * *
810938 TGTGATTCCATCATGCATTCATTATTATGTGGAGAGAGATAATTACTCACTTTATCCTTTATTTA
1 TGTGATTCCATCATGCATGC---ATTACGTAGAGAGAGATAATTACTCACTTTATCCTTTATTCA
* * *
811003 CATAGTTGAGGTTGAATTTCCACCTACGAGACTGAAACATATTTTATGATCAACGAATTATTTAT
63 CATAGTTGAGGTTCAATTTCCACCTACAAGACTGAAACATATTTTATGATCAACGAATTACTTAT
* * * ** * * *
811068 TTGACGACTAGTCGCGGAAATTTAAAGTTTAACAACCA
128 TTAAAGACCACCCACGAAAATTTAAAATTTAACAACCA
*
811106 TGTGATTCCATCATGCATGCATTACGTAGAGAGAGATAATTACTCACTTTATCCTTTATTCACGT
1 TGTGATTCCATCATGCATGCATTACGTAGAGAGAGATAATTACTCACTTTATCCTTTATTCACAT
* * *
811171 -GATTGAGGATTCAATCTT-CACCTATAAGATTGAAACATATTTTATGATCAACGAATTACTTCT
66 AG-TTGAGG-TTCAAT-TTCCACCTACAAGACTGAAACATATTTTATGATCAACGAATTACTTAT
* * * *
811234 TTAAATACCACCCATGAAAATTTAAAATTTAATAATCA
128 TTAAAGACCACCCACGAAAATTTAAAATTTAACAACCA
* *
811272 CGTGATTCCATCATGTATGCATTACGTAGAGAGA
1 TGTGATTCCATCATGCATGCATTACGTAGAGAGA
811306 TGCTTGAAAA
Statistics
Matches: 172, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
164 1 0.01
165 47 0.27
166 103 0.60
167 2 0.01
168 19 0.11
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.35
Consensus pattern (165 bp):
TGTGATTCCATCATGCATGCATTACGTAGAGAGAGATAATTACTCACTTTATCCTTTATTCACAT
AGTTGAGGTTCAATTTCCACCTACAAGACTGAAACATATTTTATGATCAACGAATTACTTATTTA
AAGACCACCCACGAAAATTTAAAATTTAACAACCA
Found at i:813195 original size:2 final size:2
Alignment explanation
Indices: 813188--813228 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
813178 CCAATGTAAC
* * *
813188 AT AT AT AT AT AT GT AT GT AT AT AC 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 AT AT AT AT AT A
813229 GATGAGGCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:817072 original size:283 final size:280
Alignment explanation
Indices: 816560--817079 Score: 727
Period size: 283 Copynumber: 1.8 Consensus size: 280
816550 TTATTACAAT
*
816560 ACACACTTTGGGTTGTGTTTTTTTTAAGCTGTTTAATTGGTCCCCCATGTTTGATTTTCTACTGG
1 ACACACTTTGGGTTGTGTTTTTTTTAAGCTGTTTAATCGGTCCCCCATGTTTGATTTTCTACTGG
*
816625 TTTATTGTATTCTTCTTTGTAGCAAGCACAATTCTTTTTTTCTCCAAGATTGATGTTTTATGCTG
66 TTTATTGTATTCTTCTTTGTAGCAAGCACAATTCTTTTTTTCTCCAAGATTGATCTTTTATGCTG
* * *
816690 TCTTTTTTGTTTTAAAAAAAGAGGGTATTTTTTATTTTTGAAGTACTGTAATCTTGTTTAGAATT
131 TCTTTTTTGTTTTAAAAAAAGAGGGTATTTTTGATTTTTGAAGCACTGTAACCTTGTTTAGAATT
816755 TAGATTTCTTACATTGTTCTAGATTGTCCTGG-AAAATGGTACCTGTGATGAAAAGGTTGGTTCT
196 TAGATTTCTTACATTGTTCTAGATTGTCCTGGAAAAATGGTACCTGTGATGAAAAGGTTGGTTCT
816819 TTTGATTTCTTTATCTTAAG
261 TTTGATTTCTTTATCTTAAG
*
816839 ACACACTTTGGGTTGTGTTTTTCTTT-AGCTGTTTAATCGGTCCCTCATGTTTGA-TTT-T-CTG
1 ACACACTTTGGGTTGTGTTTTT-TTTAAGCTGTTTAATCGGTCCCCCATGTTTGATTTTCTACTG
* *
816900 GTTTATTGTGTTCTTCTTTGTAGCAAAGCACAATAAATACCCTTCTTTTCTTCTTCAAGATTGAT
65 GTTTATTGTATTCTTCTTTGTAGC-AAGCACAAT---T---C-T-TTTT-TTCTCCAAGATTGAT
* * * * **
816965 CTTTTATGCCT-T-TTTTTT-TTTTTAGAAAAGTGGGT-TTATTTGATTTTT-ATGCGTTGTAAC
120 CTTTTATG-CTGTCTTTTTTGTTTTAAAAAAAGAGGGTATT-TTTGATTTTTGAAGCACTGTAAC
817025 CTTGTTTAGAATTTAGATTTCTTACATTGTTCTAGATTGTCCTGGAAAAATGGTA
183 CTTGTTTAGAATTTAGATTTCTTACATTGTTCTAGATTGTCCTGGAAAAATGGTA
817080 GTACCTCCTG
Statistics
Matches: 213, Mismatches: 14, Indels: 23
0.85 0.06 0.09
Matches are distributed among these distances:
276 26 0.12
277 10 0.05
278 3 0.01
279 48 0.23
280 4 0.02
283 55 0.26
284 33 0.15
285 10 0.05
286 22 0.10
287 2 0.01
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.48
Consensus pattern (280 bp):
ACACACTTTGGGTTGTGTTTTTTTTAAGCTGTTTAATCGGTCCCCCATGTTTGATTTTCTACTGG
TTTATTGTATTCTTCTTTGTAGCAAGCACAATTCTTTTTTTCTCCAAGATTGATCTTTTATGCTG
TCTTTTTTGTTTTAAAAAAAGAGGGTATTTTTGATTTTTGAAGCACTGTAACCTTGTTTAGAATT
TAGATTTCTTACATTGTTCTAGATTGTCCTGGAAAAATGGTACCTGTGATGAAAAGGTTGGTTCT
TTTGATTTCTTTATCTTAAG
Found at i:818328 original size:24 final size:24
Alignment explanation
Indices: 818296--818344 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
818286 TTGAAACACA
818296 TGATCTTGTTAGGTAAATGTCATT
1 TGATCTTGTTAGGTAAATGTCATT
818320 TGATCTTGTTAGGTAAATGTCATT
1 TGATCTTGTTAGGTAAATGTCATT
818344 T
1 T
818345 AGCATGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.47
Consensus pattern (24 bp):
TGATCTTGTTAGGTAAATGTCATT
Found at i:826607 original size:2 final size:2
Alignment explanation
Indices: 826600--826639 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
826590 GACAAGAAAC
826600 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
826640 TTAATGATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:827463 original size:36 final size:37
Alignment explanation
Indices: 827387--827467 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
827377 CGGTTTTATT
* *
827387 ATTTAAATAATAAAAAAATTATATATTTTATAATTAA
1 ATTTAAATAAAAAAAAAATTATATATTTTATAAATAA
*
827424 ATTTAAATAGAAAATAAAAATT-TAT-TTTTTTAAAT-A
1 ATTTAAATA-AAAA-AAAAATTATATATTTTATAAATAA
827460 ATTTAAAT
1 ATTTAAAT
827468 GAATATTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
36 9 0.23
37 17 0.44
38 6 0.15
39 7 0.18
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (37 bp):
ATTTAAATAAAAAAAAAATTATATATTTTATAAATAA
Found at i:832592 original size:40 final size:39
Alignment explanation
Indices: 832547--832754 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
832537 CGGAATACAA
*
832547 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
832587 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
832627 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
832667 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
832707 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
832747 CCGGATAT
1 CCGGATAT
832755 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:832687 original size:80 final size:81
Alignment explanation
Indices: 832547--832752 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
832537 CGGAATACAA
* * *
832547 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
832611 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
832627 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
832690 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
832707 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
832753 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:840654 original size:40 final size:39
Alignment explanation
Indices: 840609--840816 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
840599 CGGAATACAA
*
840609 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
840649 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
840689 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
840729 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
840769 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
840809 CCGGATAT
1 CCGGATAT
840817 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:840749 original size:80 final size:81
Alignment explanation
Indices: 840609--840814 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
840599 CGGAATACAA
* * *
840609 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
840673 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
840689 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
840752 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
840769 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
840815 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:844872 original size:20 final size:20
Alignment explanation
Indices: 844847--844889 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
844837 AAAACCCGTT
844847 AAGGACAAATGTGAAAATTG
1 AAGGACAAATGTGAAAATTG
844867 AAGGACAAATGTGAAAATTG
1 AAGGACAAATGTGAAAATTG
844887 AAG
1 AAG
844890 TGTAGTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.26, T:0.19
Consensus pattern (20 bp):
AAGGACAAATGTGAAAATTG
Found at i:851761 original size:13 final size:13
Alignment explanation
Indices: 851743--851768 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
851733 TGCACTTTTA
851743 AACATAAAACATT
1 AACATAAAACATT
851756 AACATAAAACATT
1 AACATAAAACATT
851769 TTTTGTATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
AACATAAAACATT
Found at i:853853 original size:27 final size:27
Alignment explanation
Indices: 853809--853919 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
853799 TATTTCGGAA
*
853809 ACCAACAGAGGTACGTCGATACAAGGG
1 ACCAACAAAGGTACGTCGATACAAGGG
* * * *
853836 ATCAACAAAGGTATGTCGATCCAAGAG
1 ACCAACAAAGGTACGTCGATACAAGGG
* * *
853863 ACCAACAGAGGTACGTCGATCCGAGGG
1 ACCAACAAAGGTACGTCGATACAAGGG
* *
853890 ACCAACAAAGGTATGTTGATACAAGGG
1 ACCAACAAAGGTACGTCGATACAAGGG
853917 ACC
1 ACC
853920 GTGATTTTCA
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (27 bp):
ACCAACAAAGGTACGTCGATACAAGGG
Found at i:853871 original size:54 final size:54
Alignment explanation
Indices: 853809--853919 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 54
853799 TATTTCGGAA
* *
853809 ACCAACAGAGGTACGTCGATACAAGGGATCAACAAAGGTATGTCGATCCAAGAG
1 ACCAACAGAGGTACGTCGATACAAGGGACCAACAAAGGTATGTCGATACAAGAG
* * * *
853863 ACCAACAGAGGTACGTCGATCCGAGGGACCAACAAAGGTATGTTGATACAAGGG
1 ACCAACAGAGGTACGTCGATACAAGGGACCAACAAAGGTATGTCGATACAAGAG
853917 ACC
1 ACC
853920 GTGATTTTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (54 bp):
ACCAACAGAGGTACGTCGATACAAGGGACCAACAAAGGTATGTCGATACAAGAG
Found at i:854984 original size:34 final size:34
Alignment explanation
Indices: 854932--855010 Score: 81
Period size: 34 Copynumber: 2.3 Consensus size: 34
854922 TGCTTTTATA
* * * *
854932 TTTTATTTATTAAAATTATA-TTTATAACTTAACAT
1 TTTTATTTGTTTACATTATAGTATATAA-TTAA-AT
*
854967 TTTT-TTTGTTTACATTATAGTATATAATTTAAT
1 TTTTATTTGTTTACATTATAGTATATAATTAAAT
855000 TTTTATTTGTT
1 TTTTATTTGTT
855011 ATAAATTGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
33 6 0.16
34 21 0.57
35 10 0.27
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (34 bp):
TTTTATTTGTTTACATTATAGTATATAATTAAAT
Found at i:859411 original size:136 final size:135
Alignment explanation
Indices: 859242--859525 Score: 304
Period size: 135 Copynumber: 2.1 Consensus size: 135
859232 ATTTCGTTTT
* ** *
859242 TAAAATTAGAATTCGGGTTCTCTTCTTAAGAGTGACATTACACCCGAA-AC-TGAGATTATATAT
1 TAAAATTAGAACTCGAATTCTCCTCTTAAGAGTGACATTACACCC-AACACTTG-GATTATATAT
* * * * * *
859305 ATTTTTGGTTTTACAATTAATGGAGATTAACCCTTTCAAGGTTTGTGATTGTCT-ATTCTAATAA
64 -TTTTCGATTTTACAATCAATGGAGACTAACCCTTTCAAGGCTTGTGATT-TCTCATTCCAATAA
859369 TATTGTCTC
127 TATTGTCTC
** * * * *
859378 TAAAATTAGAACTCGAATTCTCCTCTTGGGAGTGACATTGCACTCAACACTTGGATTGTATGTTT
1 TAAAATTAGAACTCGAATTCTCCTCTTAAGAGTGACATTACACCCAACACTTGGATTATATATTT
* ** *** *
859443 TTCGATTTTACAGTCAATGGAGACTAATTCTTTTGGGGCTTGTGATTTTTCATTCCAATAATATT
66 TTCGATTTTACAATCAATGGAGACTAACCCTTTCAAGGCTTGTGATTTCTCATTCCAATAATATT
859508 GTCTC
131 GTCTC
859513 TAAAATTAGAACT
1 TAAAATTAGAACT
859526 TGAGTTTTTT
Statistics
Matches: 122, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
134 2 0.02
135 71 0.58
136 47 0.39
137 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (135 bp):
TAAAATTAGAACTCGAATTCTCCTCTTAAGAGTGACATTACACCCAACACTTGGATTATATATTT
TTCGATTTTACAATCAATGGAGACTAACCCTTTCAAGGCTTGTGATTTCTCATTCCAATAATATT
GTCTC
Found at i:859713 original size:2 final size:2
Alignment explanation
Indices: 859706--859734 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
859696 ATCTAAAGTT
859706 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
859735 CAAAACTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:861910 original size:18 final size:19
Alignment explanation
Indices: 861874--861917 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
861864 ATGAAACCGG
*
861874 TTTTATAAGTTTTTTTAATA
1 TTTTATAAG-TTTTATAATA
861894 TTTTATAA-TTTTATAATA
1 TTTTATAAGTTTTATAATA
*
861912 ATTTAT
1 TTTTAT
861918 TTAATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.64
20 8 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATAAGTTTTATAATA
Found at i:869391 original size:22 final size:22
Alignment explanation
Indices: 869366--869418 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
869356 GCAGGCTAAA
* *
869366 ATTAAATTGTAATTTTTACGAT
1 ATTAAATTGTAATTTTTAAGAG
*
869388 ATTAAAAATGTAATTTTTAAGAG
1 ATT-AAATTGTAATTTTTAAGAG
869411 ATTAAATT
1 ATTAAATT
869419 AAAATTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (22 bp):
ATTAAATTGTAATTTTTAAGAG
Found at i:870066 original size:22 final size:22
Alignment explanation
Indices: 870038--870081 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
870028 ATATATATAT
*
870038 ATATATATAAATTTAATAAATA
1 ATATATATAAAATTAATAAATA
*
870060 ATATATATAAAATTATTAAATA
1 ATATATATAAAATTAATAAATA
870082 TTAAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATATATATAAAATTAATAAATA
Found at i:870094 original size:22 final size:21
Alignment explanation
Indices: 870042--870101 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 21
870032 ATATATATAT
*
870042 ATATAAATTTAATAAATAATAT
1 ATATAAA-TTAATAAATAATAA
* *
870064 ATATAAAATTATTAAATATTAA
1 ATAT-AAATTAATAAATAATAA
870086 ATTATAAA-TAA-AAATA
1 A-TATAAATTAATAAATA
870102 TATTATTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 5 0.16
21 2 0.06
22 19 0.59
23 6 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATAAATTAATAAATAATAA
Found at i:878008 original size:3 final size:3
Alignment explanation
Indices: 878000--878031 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
877990 CATGTAAATA
*
878000 TGT TGT TGT TGT TGT TCT TGT TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TG
878032 CCATAGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.31, T:0.66
Consensus pattern (3 bp):
TGT
Found at i:880093 original size:12 final size:12
Alignment explanation
Indices: 880076--880100 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
880066 AAAATAGATG
880076 ATATATTATTAT
1 ATATATTATTAT
880088 ATATATTATTAT
1 ATATATTATTAT
880100 A
1 A
880101 AAGTTTATTA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATATTATTAT
Found at i:880896 original size:20 final size:20
Alignment explanation
Indices: 880871--880929 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 20
880861 TGTCCCTTTT
880871 TTATTTTTTCTTAATTATTA
1 TTATTTTTTCTTAATTATTA
880891 TTATTTTCTTCAATTAATTATTA
1 TTATTTT-TTC--TTAATTATTA
880914 TAATATTTTTT-TTAAT
1 T--TATTTTTTCTTAAT
880930 ACTTCCAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
20 7 0.21
21 8 0.24
23 11 0.32
24 2 0.06
25 6 0.18
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATTTTTTCTTAATTATTA
Found at i:880910 original size:17 final size:17
Alignment explanation
Indices: 880872--880912 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
880862 GTCCCTTTTT
880872 TATT-TTTTCTTAATTA
1 TATTATTTTCTTAATTA
880888 TTATTATTTTCTTCAATTA
1 -TATTATTTTCTT-AATTA
880907 -ATTATT
1 TATTATT
880913 ATAATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.45
18 7 0.32
19 5 0.23
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTTTCTTAATTA
Found at i:881586 original size:2 final size:2
Alignment explanation
Indices: 881579--881628 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
881569 TTATTAACAT
881579 TA TA TA 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
881621 TA TA -A TA T
1 TA TA TA TA T
881629 GAATTCAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:883688 original size:18 final size:19
Alignment explanation
Indices: 883657--883696 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
883647 GAGAAAAAGG
*
883657 TATTAGAATTTA-TTTATA
1 TATTAGAATATATTTTATA
*
883675 TATTATAATATATTTTATA
1 TATTAGAATATATTTTATA
883694 TAT
1 TAT
883697 GGATTCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TATTAGAATATATTTTATA
Found at i:890598 original size:16 final size:16
Alignment explanation
Indices: 890564--890609 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
890554 TAAATATTCG
* *
890564 AACCCAAAATTGATTTA
1 AACCC-AAATTAATCTA
890581 AACCCAAATTAATCTA
1 AACCCAAATTAATCTA
890597 AACCCAAATTAAT
1 AACCCAAATTAAT
890610 TCGATCTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 22 0.81
17 5 0.19
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (16 bp):
AACCCAAATTAATCTA
Found at i:891622 original size:2 final size:2
Alignment explanation
Indices: 891615--891640 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
891605 GCTCAAATTC
891615 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
891641 TTATCAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:892567 original size:21 final size:23
Alignment explanation
Indices: 892528--892573 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
892518 TGTTGGTAGA
892528 TTTATATTTATATTATTTTTAAT
1 TTTATATTTATATTATTTTTAAT
*
892551 TTTATATTTA-A-TATTTTTTAT
1 TTTATATTTATATTATTTTTAAT
892572 TT
1 TT
892574 ATTTATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.50
22 1 0.05
23 10 0.45
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTATATTTATATTATTTTTAAT
Found at i:892582 original size:21 final size:21
Alignment explanation
Indices: 892532--892582 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
892522 GGTAGATTTA
*
892532 TATTTA-TATTATTTTTAATT
1 TATTTATTAATATTTTTAATT
* *
892552 T-TATATTTAATATTTTTTATT
1 TATTTA-TTAATATTTTTAATT
892573 TATTTATTAA
1 TATTTATTAA
892583 AATATTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
19 3 0.12
20 1 0.04
21 17 0.71
22 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TATTTATTAATATTTTTAATT
Found at i:903391 original size:2 final size:2
Alignment explanation
Indices: 903384--903410 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
903374 AAAATTACCA
903384 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 A
903411 ATTAAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:905519 original size:20 final size:20
Alignment explanation
Indices: 905494--905534 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
905484 TAAAATTTAT
* *
905494 ATTAATATTATACTTAAAAA
1 ATTAATAGTATAATTAAAAA
905514 ATTAATAGTATAATTAAAAA
1 ATTAATAGTATAATTAAAAA
905534 A
1 A
905535 AAATCATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
ATTAATAGTATAATTAAAAA
Found at i:908383 original size:15 final size:16
Alignment explanation
Indices: 908355--908384 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
908345 TTTTAATATT
908355 TATAAATGATAAAAAA
1 TATAAATGATAAAAAA
908371 TATAAAT-ATAAAAA
1 TATAAATGATAAAAA
908385 TAATATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
TATAAATGATAAAAAA
Found at i:908409 original size:6 final size:6
Alignment explanation
Indices: 908385--908418 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
908375 AATATAAAAA
*
908385 TAATAT TAATAT TAATAT TAATAT TAGTAT TAAT
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAAT
908419 GCGTTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
TAATAT
Found at i:911516 original size:2 final size:2
Alignment explanation
Indices: 911511--911542 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
911501 ACACACACAC
911511 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
911543 CTGCAAAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:914211 original size:20 final size:21
Alignment explanation
Indices: 914177--914215 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
914167 AATTCTGTCA
*
914177 AAATTTTTATTATTTGTCATC
1 AAATTTTTATCATTTGTCATC
914198 AAATTTTTA-CATTTGTCA
1 AAATTTTTATCATTTGTCA
914216 AGTTCAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.54
Consensus pattern (21 bp):
AAATTTTTATCATTTGTCATC
Found at i:915489 original size:15 final size:15
Alignment explanation
Indices: 915469--915500 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
915459 AGTATTTCTA
915469 ATAATTGTTATAGTC
1 ATAATTGTTATAGTC
915484 ATAATTGTTATAGTC
1 ATAATTGTTATAGTC
915499 AT
1 AT
915501 GCATGTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (15 bp):
ATAATTGTTATAGTC
Found at i:916131 original size:3 final size:3
Alignment explanation
Indices: 916123--916150 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
916113 ATATATATAC
916123 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
916151 AGAAGAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:918294 original size:23 final size:23
Alignment explanation
Indices: 918268--918314 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
918258 TATATCTTTT
918268 TTATAAATTAAAATATAAGTTTA
1 TTATAAATTAAAATATAAGTTTA
** * *
918291 TTATGTATTAATATATAATTTTA
1 TTATAAATTAAAATATAAGTTTA
918314 T
1 T
918315 ATTTTTTGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
TTATAAATTAAAATATAAGTTTA
Found at i:922775 original size:60 final size:59
Alignment explanation
Indices: 922706--922828 Score: 176
Period size: 60 Copynumber: 2.1 Consensus size: 59
922696 AGACAAATTG
* * * *
922706 AATAGTTAAGTGA-CTATTTTATAACTTTTCATAATTGGATGACTAAAAAAGAAATTTACT
1 AATAATTAAGTGATC-ATTTTATAACTTTTAATAATTAGATAACTAAAAAA-AAATTTACT
*
922766 AATAATTAAGTGATCATTTTATAACTTTTAATAATTAGATAACTAAATAAAAATTTACT
1 AATAATTAAGTGATCATTTTATAACTTTTAATAATTAGATAACTAAAAAAAAATTTACT
922825 AATA
1 AATA
922829 GTCAGTGATT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
59 13 0.23
60 43 0.75
61 1 0.02
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (59 bp):
AATAATTAAGTGATCATTTTATAACTTTTAATAATTAGATAACTAAAAAAAAATTTACT
Found at i:923455 original size:2 final size:2
Alignment explanation
Indices: 923448--923483 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
923438 ATTTTCATTC
923448 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
923484 TTGTTTAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:933307 original size:15 final size:17
Alignment explanation
Indices: 933287--933324 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
933277 TACAATTAAG
*
933287 ATAAAAT-ATAATTTT-
1 ATAAAATAAAAATTTTA
933302 ATAAAATAAAAATTTTA
1 ATAAAATAAAAATTTTA
933319 ATAAAA
1 ATAAAA
933325 ATCATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 7 0.35
17 6 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAAAATAAAAATTTTA
Found at i:940364 original size:17 final size:18
Alignment explanation
Indices: 940342--940397 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
940332 AACAAATAAA
940342 AAATATAAAA-AATTATT
1 AAATATAAAATAATTATT
*
940359 AAATATTAAAATAAATA-T
1 AAATA-TAAAATAATTATT
940377 -AATATAAATATAATT-TT
1 AAATATAAA-ATAATTATT
940394 AAAT
1 AAAT
940398 TTTAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 4 0.12
17 15 0.47
18 9 0.28
19 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATATAAAATAATTATT
Found at i:952383 original size:121 final size:121
Alignment explanation
Indices: 952162--952506 Score: 322
Period size: 113 Copynumber: 2.9 Consensus size: 121
952152 GACCTAGGCA
** * *
952162 CCCCAAAAATGGAAAATTTCCTTGTAGTCCCTTTAAAATTTTGTAAGATTCTAAACAAGGACAAT
1 CCCCAAAAATGGAAAATTTCC-TCAAGTCCCTTTAAAATATTGTAAAATTCTAAACAAGGACAAT
**
952227 AGTAAAATTACATTGAACCACACATTTACGCATAGTAAGACTTTAGACTCTAAATCGG
65 AGTAAAATTACATTGAACCACACATTTACAAATAGTAAGAC-TTAGACTCTAAATCGG
* **
952285 CCCCACAAAATGGAAAATTTTCC-CAAGTCCCTTTAAAA-ATTGTAAAATTTTAAACAAGGACGG
1 CCCCA-AAAATGGAAAA-TTTCCTCAAGTCCCTTTAAAATATTGTAAAATTCTAAACAAGGACAA
* * *
952348 TAGT-AAATTTCATTGAACCACACATTTACAAATAGTAAGACTTAGACCCGAAA----
64 TAGTAAAATTACATTGAACCACACATTTACAAATAGTAAGACTTAGACTCTAAATCGG
* * * * * *
952401 ---C-AAAATGGAAACTTTCCTTACAGTCCCTCTT-GAA-ATTATAAGATTTTAAACAA-GAGCA
1 CCCCAAAAATGGAAAATTTCCTCA-AGTCCCT-TTAAAATATTGTAAAATTCTAAACAAGGA-CA
* * * * *
952459 ACAGTAAAATTACAATGAACCCCACATTTACACATAGTAAGACCTAGA
63 ATAGTAAAATTACATTGAACCACACATTTACAAATAGTAAGACTTAGA
952507 ATTTAGACCC
Statistics
Matches: 190, Mismatches: 25, Indels: 24
0.79 0.10 0.10
Matches are distributed among these distances:
110 5 0.03
111 13 0.07
112 30 0.16
113 40 0.21
120 10 0.05
121 34 0.18
122 24 0.13
123 18 0.09
124 11 0.06
125 5 0.03
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (121 bp):
CCCCAAAAATGGAAAATTTCCTCAAGTCCCTTTAAAATATTGTAAAATTCTAAACAAGGACAATA
GTAAAATTACATTGAACCACACATTTACAAATAGTAAGACTTAGACTCTAAATCGG
Found at i:959217 original size:2 final size:2
Alignment explanation
Indices: 959212--959242 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
959202 CCTCACTTAC
959212 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
959243 CATCATAAAA
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:959753 original size:2 final size:2
Alignment explanation
Indices: 959746--959776 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
959736 TGGGTTTTAT
959746 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
959777 GCATGTGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:966331 original size:15 final size:16
Alignment explanation
Indices: 966311--966344 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
966301 ATTTAAATGT
*
966311 TAAAAAAGTT-TAAAA
1 TAAAAAACTTATAAAA
966326 TAAAAAACTTATAAAA
1 TAAAAAACTTATAAAA
966342 TAA
1 TAA
966345 TAACTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
TAAAAAACTTATAAAA
Found at i:971132 original size:17 final size:18
Alignment explanation
Indices: 971102--971140 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
971092 TAAAAAGAGT
971102 AAAAAAGTATTTAAATAA
1 AAAAAAGTATTTAAATAA
* *
971120 AAAAAATTA-TTAATTAA
1 AAAAAAGTATTTAAATAA
971137 AAAA
1 AAAA
971141 CATTGAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAAAAGTATTTAAATAA
Found at i:975856 original size:72 final size:72
Alignment explanation
Indices: 975739--975978 Score: 329
Period size: 72 Copynumber: 3.3 Consensus size: 72
975729 AAAATTTGGT
* * * * * *
975739 TTTCTTCGAGGCTTCCTCTTTCTCGAGATATTTGTGTTCGATTTTCAATTCTTGGGATTCTTTAA
1 TTTCTTCGAGGCTTCATCCTTCTCGAGATACTTGTGTTCGATTTTCAGTTCTCGAGATTCTTTAA
975804 CCTCGGC
66 CCTCGGC
* * * * *
975811 TTTCTTCGAGACTTCGTCCTTCTCGGGACACTTGTGTTCAATTTTCAGTTCTCGAGATTCTTTAA
1 TTTCTTCGAGGCTTCATCCTTCTCGAGATACTTGTGTTCGATTTTCAGTTCTCGAGATTCTTTAA
975876 CCTCGGC
66 CCTCGGC
* *
975883 TTTCTTCAAGGGC-TCATCCTTCTTGAGATACTTGTGTTCGATTTTCAGTTCTCGAGATTCTTTA
1 TTTCTTCGA-GGCTTCATCCTTCTCGAGATACTTGTGTTCGATTTTCAGTTCTCGAGATTCTTTA
975947 ACCTCGGC
65 ACCTCGGC
* *
975955 TTTCTTTGAGGCCTCATCCTTCTC
1 TTTCTTCGAGGCTTCATCCTTCTC
975979 AAGTTCATCC
Statistics
Matches: 146, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
71 3 0.02
72 141 0.97
73 2 0.01
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.43
Consensus pattern (72 bp):
TTTCTTCGAGGCTTCATCCTTCTCGAGATACTTGTGTTCGATTTTCAGTTCTCGAGATTCTTTAA
CCTCGGC
Found at i:980290 original size:46 final size:46
Alignment explanation
Indices: 980230--980495 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
980220 TTTGACGTGA
* * * * * *
980230 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
980276 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
980322 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
980368 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
980414 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
980452 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
980496 AGAGTACACT
Statistics
Matches: 196, Mismatches: 15, Indels: 18
0.86 0.07 0.08
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 149 0.76
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:980460 original size:38 final size:38
Alignment explanation
Indices: 980409--980484 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
980399 CATTTCATAT
980409 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
980447 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
980485 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:983825 original size:53 final size:53
Alignment explanation
Indices: 983745--983896 Score: 243
Period size: 53 Copynumber: 2.9 Consensus size: 53
983735 AAGGATCGGA
* *
983745 TTTTGGAGGACGGA-TTCCTCGTCTCGAATGTGAGCGTCGAGCCAATGACCGGC
1 TTTTGGAGGACGAATTTCGT-GTCTCGAATGTGAGCGTCGAGCCAATGACCGGC
* *
983798 TTTTGGAGGATGAATTTCGTGTCTCGAATGTGAGCGTTGAGCCAATGACCGGC
1 TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCGAGCCAATGACCGGC
*
983851 TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCAAGCCAAT
1 TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCGAGCCAAT
983897 CGGTTAAAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 87 0.96
54 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (53 bp):
TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCGAGCCAATGACCGGC
Found at i:988242 original size:12 final size:12
Alignment explanation
Indices: 988225--988249 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
988215 CAGAGACTAT
988225 TAACAATATTTA
1 TAACAATATTTA
988237 TAACAATATTTA
1 TAACAATATTTA
988249 T
1 T
988250 GTTATAAAAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:989276 original size:21 final size:21
Alignment explanation
Indices: 989251--989292 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
989241 ATATGATGTC
989251 GTTTGGAAGGATGGAAAGGAA
1 GTTTGGAAGGATGGAAAGGAA
989272 GTTTGGAAGGATGGAAAGGAA
1 GTTTGGAAGGATGGAAAGGAA
989293 CGGACACGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.43, T:0.19
Consensus pattern (21 bp):
GTTTGGAAGGATGGAAAGGAA
Found at i:990153 original size:29 final size:29
Alignment explanation
Indices: 990120--990177 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
990110 TATCAAACTG
* *
990120 GACC-AAAACATAACACAAGTAGCATATTA
1 GACCAAAAAC-TAACACAAATACCATATTA
990149 GACCAAAAACTAACACAAATACCATATTA
1 GACCAAAAACTAACACAAATACCATATTA
990178 AAAAAAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.53, C:0.22, G:0.07, T:0.17
Consensus pattern (29 bp):
GACCAAAAACTAACACAAATACCATATTA
Found at i:993212 original size:30 final size:30
Alignment explanation
Indices: 993126--993216 Score: 128
Period size: 30 Copynumber: 3.0 Consensus size: 30
993116 CTTTCCTCTC
* * * **
993126 TTTCTCTTCTCGTTCACGTGCCTCCTCCTC
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAA
*
993156 TTTCTCTTCTCGTTCACAAGCTTCCTTCAA
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAA
993186 TTTCTCTTCTCGTTCACGAGCTTCCTTCAA
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAA
993216 T
1 T
993217 CTCTTATCAT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.11, C:0.36, G:0.09, T:0.44
Consensus pattern (30 bp):
TTTCTCTTCTCGTTCACGAGCTTCCTTCAA
Found at i:993230 original size:39 final size:39
Alignment explanation
Indices: 993186--993821 Score: 778
Period size: 39 Copynumber: 16.2 Consensus size: 39
993176 CTTCCTTCAA
*
993186 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTATC
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
* * *
993225 ATTCTCTTCTTGTTCACAAGCTTCCTTCAATCTCTTCTC
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
*
993264 ATTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
* * * *
993303 ATTCTCTTCTTGTTCACGAGCTTCTTTCAATTTCTTCTC
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
* ** *
993342 TTTCTCTTCTCGTTCACGTA-CCTCCTTCTCTTTCTTCTC
1 TTTCTCTTCTCGTTCACG-AGCTTCCTTCAATCTCTTCTC
**
993381 TTTCTCTTCTCGTTCACGAATTTCCTTCAATCTCTTCTC
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
* *
993420 ATTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCCTCTC
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
* *
993459 ATTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
*
993498 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
* * * *
993537 TTTCTCTTCTCGTTCATGTGCCTCC-TC--TTTCTTCTC
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
* * * *
993573 TTTCTCTTCTCGCTCACAAGCCTCCCTCAATCTCTTCTC
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
* *
993612 ATTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
* * * *
993651 TATCTCTTCTCGTTCACGATCCTCCCTCAATCTCTTCTC
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
*
993690 ATTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCCTTCTC
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAA-----TCT-CTTCTC
* * * ** *
993735 TTTCTCTTCTAGTTCACGTGCCTCCTTCTCTTTCTTC-C
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
* *
993773 TTCTCTCTTCTCGTTCATGAGCTTCCTTCAATTTCTTCTC
1 TT-TCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
993813 TTTCTCTTC
1 TTTCTCTTC
993822 CTGCTGAACA
Statistics
Matches: 519, Mismatches: 65, Indels: 26
0.85 0.11 0.04
Matches are distributed among these distances:
36 30 0.06
37 2 0.00
38 6 0.01
39 442 0.85
40 6 0.01
44 3 0.01
45 30 0.06
ACGTcount: A:0.11, C:0.35, G:0.07, T:0.47
Consensus pattern (39 bp):
TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC
Found at i:993759 original size:84 final size:83
Alignment explanation
Indices: 993567--993820 Score: 317
Period size: 84 Copynumber: 3.1 Consensus size: 83
993557 CCTCCTCTTT
* **
993567 CTTCTCTTTCTCTTCTCGCTCACAAGCCTCCCTCAATCTCTTCTCATTCTCTTCTCGTTCACGAG
1 CTTCTCTTTCTCTTCT-GTTCACGTGCCTCCCTCAATCTCTTCTCATTCTCTTCTCGTTCACGAG
993632 CTTCCTTCAATTTCTTCT-
65 CTTCCTTCAATTTCTTCTC
993650 CTATCTC--T-TC-TC-GTTCACGAT-CCTCCCTCAATCTCTTCTCATTCTCTTCTCGTTCACGA
1 CT-TCTCTTTCTCTTCTGTTCACG-TGCCTCCCTCAATCTCTTCTCATTCTCTTCTCGTTCACGA
993709 GCTTCCTTCAATTTCTTCTC
64 GCTTCCTTCAATTTCTTCTC
* ** * * *
993729 CTTCTCTTTCTCTTCTAGTTCACGTGCCTCCTTCTCTTTCTTC-CTTCTCTCTTCTCGTTCATGA
1 CTTCTCTTTCTCTTCT-GTTCACGTGCCTCCCTCAATCTCTTCTCAT-TCTCTTCTCGTTCACGA
993793 GCTTCCTTCAATTTCTTCTC
64 GCTTCCTTCAATTTCTTCTC
*
993813 TTTCTCTT
1 CTTCTCTT
993821 CCTGCTGAAC
Statistics
Matches: 150, Mismatches: 10, Indels: 21
0.83 0.06 0.12
Matches are distributed among these distances:
78 66 0.44
79 2 0.01
80 3 0.02
81 4 0.03
82 3 0.02
83 5 0.03
84 67 0.45
ACGTcount: A:0.10, C:0.37, G:0.06, T:0.46
Consensus pattern (83 bp):
CTTCTCTTTCTCTTCTGTTCACGTGCCTCCCTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGC
TTCCTTCAATTTCTTCTC
Found at i:996784 original size:7 final size:7
Alignment explanation
Indices: 996736--996768 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
996726 ACTGAGAGAG
996736 TTTTTA-
1 TTTTTAT
996742 TTTTTAT
1 TTTTTAT
996749 TTTTTAT
1 TTTTTAT
996756 TTTTTAT
1 TTTTTAT
996763 TTTTTA
1 TTTTTA
996769 AAATATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:1000743 original size:14 final size:15
Alignment explanation
Indices: 1000719--1000747 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1000709 TGACTATATA
1000719 AAAAAATTATTAAAT
1 AAAAAATTATTAAAT
1000734 AAAAAA-TATTAAAT
1 AAAAAATTATTAAAT
1000748 TATTAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAAATTATTAAAT
Found at i:1000747 original size:22 final size:25
Alignment explanation
Indices: 1000722--1000767 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 25
1000712 CTATATAAAA
1000722 AAATTATTAA-A-TAAAA-AATATT
1 AAATTATTAATATTAAAATAATATT
1000744 AAATTATTAATATTAAAATAATAT
1 AAATTATTAATATTAAAATAATAT
1000768 AATATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.48
23 1 0.05
24 5 0.24
25 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
AAATTATTAATATTAAAATAATATT
Found at i:1000755 original size:14 final size:14
Alignment explanation
Indices: 1000738--1000780 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
1000728 TTAAATAAAA
1000738 AATATTAAATTATT
1 AATATTAAATTATT
*
1000752 AATATTAAAATAATAT
1 AATATT-AAATTAT-T
1000768 AATA-TAAATTATT
1 AATATTAAATTATT
1000781 TTTTTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 1 0.04
14 12 0.48
15 7 0.28
16 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATATTAAATTATT
Found at i:1000775 original size:29 final size:28
Alignment explanation
Indices: 1000726--1000780 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
1000716 ATAAAAAAAT
1000726 TATTAAATAAAAAATATTAAATTATTAA
1 TATTAAATAAAAAATATTAAATTATTAA
*
1000754 TATTAAAATAATATAATA-TAAATTATT
1 TATT-AAATAA-AAAATATTAAATTATT
1000781 TTTTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 4 0.17
29 15 0.62
30 5 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TATTAAATAAAAAATATTAAATTATTAA
Found at i:1001324 original size:2 final size:2
Alignment explanation
Indices: 1001317--1001356 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1001307 GAAATTTTGA
1001317 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
1001357 TTTTAAAGGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1001649 original size:27 final size:27
Alignment explanation
Indices: 1001611--1001664 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
1001601 AAAATGCAAA
*
1001611 CTCACCTGCCTTTCTTTGGTAAGGTTT
1 CTCACCTGCCTTTCTTTGGCAAGGTTT
1001638 CTCACCTGCCTTTCTTTGGCAAGGTTT
1 CTCACCTGCCTTTCTTTGGCAAGGTTT
1001665 TTGACAGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.11, C:0.28, G:0.19, T:0.43
Consensus pattern (27 bp):
CTCACCTGCCTTTCTTTGGCAAGGTTT
Found at i:1003451 original size:2 final size:2
Alignment explanation
Indices: 1003438--1003478 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
1003428 AAACTAACAC
* *
1003438 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1003479 GGAAATGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1004356 original size:11 final size:11
Alignment explanation
Indices: 1004340--1004365 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1004330 AAGGAAAAGC
1004340 AAAAAAGAAAA
1 AAAAAAGAAAA
1004351 AAAAAAGAAAA
1 AAAAAAGAAAA
1004362 AAAA
1 AAAA
1004366 GGAGACCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:1007806 original size:395 final size:390
Alignment explanation
Indices: 1007065--1008199 Score: 1419
Period size: 395 Copynumber: 2.9 Consensus size: 390
1007055 GGCATGCAAC
***
1007065 AACACACACATATGAGAGAATGGAGGGAAGAGACGAAGCAATTAATCAGAAAGTTCAACAAGATA
1 AACACACACATATGAGAGAACAAAGGGAAGAGACGAAGCAATTAATCAGAAAGTTCAACAAGATA
* *
1007130 TAAAACTGGGAACTTTTACATCAATATCATTTTCAATAGGGACAACAAAAATGGATGGATCAAGG
66 CAAAACTGGGAACTTTTACATCAATCTCATTTTCAATA-GGACAACAAAAATGGATGGATCAAGG
* *
1007195 ---TTCGGTCATGAATTTCTGAAGTCT-TGTATCACTTTGAGAGCTAGATAA-GTACTAACCTAT
130 TTCTTCGGTCATGAATTTCTGAAGTCTCT-TATTACTTCGAGAGCTAGATAATG-ACTAA-CTAT
* *
1007255 GAGATTCATATTTTCATTTGTCATAAAAGCAACATGATCCAACATGTAGTG---A-ATAGCTTGT
192 GAGATTCATATTTTTATTTGTCATAAAAGCAACATGATCCAACATGTAGTGAATATATAGCTTAT
* * * * *
1007316 ATTAAATGAAAATACCAG-TTTTGGTCATTAATCATACACAATATAGTTTCATTATGAGTTTCAA
257 GTTAAATGAACATACC-GCTTTTGGTCATTAATCATACACAAAATAGTTTCATTATAAGTTTCTA
* * * * *
1007380 GCGAATTCCAGCACTGTCACTAAAAAATTCTTAATTCTGAAGTTGCACAGAAAATTCAATTTAAC
321 GCGAACTCCAGCACCGTCACTCAAAAATTCTTAATTCTGAACTTACACAGAAAATTCAATTTAAC
1007445 TTCCT
386 TTCCT
* * *
1007450 AACACACACATATGATG-GAACAAAGTGAAGAGTCGAAGCAATTAATCAGAAAGTTTAACAAGAT
1 AACACACACATATGA-GAGAACAAAGGGAAGAGACGAAGCAATTAATCAGAAAGTTCAACAAGAT
* *
1007514 ACAAAAATGGGAACTTTTTTACATCAATCTCATTTTCAATAGGAACAACAAAAATGAATGGATCA
65 ACAAAACTGGGAAC--TTTTACATCAATCTCATTTTCAATAGG-ACAACAAAAATGGATGGATCA
1007579 AGGTTCATTCGGTCATGAATTTCTGAAGTCTCTTATTACTTCGAGAGCTAGATAATGACTAGA-T
127 AGGTTC-TTCGGTCATGAATTTCTGAAGTCTCTTATTACTTCGAGAGCTAGATAATGACTA-ACT
** * * * *
1007643 ATGAGATTCATATTTTTATTCATCATGAGAGCAACATGATCCAATACGTAGTGAATTATATAGCT
190 ATGAGATTCATATTTTTATTTGTCATAAAAGCAACATGATCCAACATGTAGTGAA-TATATAGCT
* *
1007708 TATGTTAAATGAACATACCGCTTTTGGTCATTAATCATACACAAGATAGTTTCATAATAAGTTTC
254 TATGTTAAATGAACATACCGCTTTTGGTCATTAATCATACACAAAATAGTTTCATTATAAGTTTC
* * *
1007773 TAGCGAACTCCAGCCCCATCACTCAAAAATTCTTATTTCTGAACTTACACAGAAAATTCAATTTA
319 TAGCGAACTCCAGCACCGTCACTCAAAAATTCTTAATTCTGAACTTACACAGAAAATTCAATTTA
*
1007838 ACTTGCT
384 ACTTCCT
* * * *
1007845 AACACACATATATGAGAGAACAAAGGGAAGAGACAAAGCAATTATTCAGAAAG-TGAGACAAGAT
1 AACACACACATATGAGAGAACAAAGGGAAGAGACGAAGCAATTAATCAGAAAGTTCA-ACAAGAT
* ** *
1007909 ACAAAACTGGAAACTTTTACATTGATCTCATTTTCAGTAGG-----AAAAATGGATGGATCAAGG
65 ACAAAACTGGGAACTTTTACATCAATCTCATTTTCAATAGGACAACAAAAATGGATGGATCAAGG
* *
1007969 TTCGTTCGGTCATGAATTTCTGAAGTCTCGTATTACTTCGAGAGCTAGATAATTACTAACCTATG
130 TTC-TTCGGTCATGAATTTCTGAAGTCTCTTATTACTTCGAGAGCTAGATAATGACTAA-CTATG
* * *
1008034 AGATTCATATTTTTATTTGCCATAAAAGCAAACATCATCCAACATGTAGTGAAT-TATAGCTTCT
193 AGATTCATATTTTTATTTGTCATAAAAGC-AACATGATCCAACATGTAGTGAATATATAGCTTAT
*
1008098 GTTAAATGAACATA-C-C------T--TTAATTATACACAAAATAGTTTCATTATAAGTTTCTAG
257 GTTAAATGAACATACCGCTTTTGGTCATTAATCATACACAAAATAGTTTCATTATAAGTTTCTAG
* * * * *
1008153 TGAACTCCAGCTCCGTCACTCAAAATTTCCTAAATTCTGCACTTACA
322 CGAACTCCAGCACCGTCACTCAAAAATT-CTTAATTCTGAACTTACA
1008200 GCACAAGATA
Statistics
Matches: 658, Mismatches: 69, Indels: 53
0.84 0.09 0.07
Matches are distributed among these distances:
377 59 0.09
378 15 0.02
379 1 0.00
385 69 0.10
386 5 0.01
387 143 0.22
388 29 0.04
389 20 0.03
390 47 0.07
391 48 0.07
392 3 0.00
393 24 0.04
394 5 0.01
395 190 0.29
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (390 bp):
AACACACACATATGAGAGAACAAAGGGAAGAGACGAAGCAATTAATCAGAAAGTTCAACAAGATA
CAAAACTGGGAACTTTTACATCAATCTCATTTTCAATAGGACAACAAAAATGGATGGATCAAGGT
TCTTCGGTCATGAATTTCTGAAGTCTCTTATTACTTCGAGAGCTAGATAATGACTAACTATGAGA
TTCATATTTTTATTTGTCATAAAAGCAACATGATCCAACATGTAGTGAATATATAGCTTATGTTA
AATGAACATACCGCTTTTGGTCATTAATCATACACAAAATAGTTTCATTATAAGTTTCTAGCGAA
CTCCAGCACCGTCACTCAAAAATTCTTAATTCTGAACTTACACAGAAAATTCAATTTAACTTCCT
Found at i:1010444 original size:22 final size:23
Alignment explanation
Indices: 1010419--1010466 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
1010409 TATTACTTTA
*
1010419 ATTTGATATTTAAT-ATTTTAAT
1 ATTTGATATTTAATAATCTTAAT
**
1010441 ATTTTTTATTTAATAATCTTAAT
1 ATTTGATATTTAATAATCTTAAT
1010464 ATT
1 ATT
1010467 ATTTTAATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTTGATATTTAATAATCTTAAT
Found at i:1010466 original size:23 final size:23
Alignment explanation
Indices: 1010425--1010472 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
1010415 TTTAATTTGA
*
1010425 TATTTAATATTTTAATATT-TTT
1 TATTTAATATCTTAATATTATTT
1010447 TATTTAATAATCTTAATATTATTT
1 TATTTAAT-ATCTTAATATTATTT
1010471 TA
1 TA
1010473 ATGCTTGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.35
23 10 0.43
24 5 0.22
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTTAATATCTTAATATTATTT
Found at i:1023583 original size:204 final size:200
Alignment explanation
Indices: 1023195--1023725 Score: 623
Period size: 204 Copynumber: 2.6 Consensus size: 200
1023185 TTCATAAAAG
1023195 GAATTCTATATTTCCAAAATGCAGCTTAGGT---ACAATCTCAACTCTAGACTG-CCTTATGTGA
1 GAATTCTATA-TTCCAAAATGCAGCTTAGGTACAACAATCTCAACTCTAGACTGTCC-TATGTG-
* * * *
1023256 AACAAAACCTG-GTTACGGTCCAACAATAGGTTGGTCTTAAACTAAAGATAGAACACAATTTCTC
63 AACAAAACCTGAGTTATGAT-C--C-A-A--TTGGTCTTAATCT-AAGACAGAACACAATTTCTC
* * * * * *
1023320 AGCTAAAGATTGCCCTATGTATTCTGACCGTGCCATGTCCAGATATTGTATCCGTCCGGCCTGAA
120 AGCTAAAGACTGCCCTATCTATTCCGACAGCGCCATGTCCAGATATTGTATCAGTCCGGCCTGAA
* **
1023385 CGGTAATCTCTCCCCA
185 CAGTAATCTCTCCAAA
*
1023401 GAATTCTATATTCCAAAAATGCAGCTTAAGTACAACAATCTCAACTCTAGACTGTCCTATGTGAA
1 GAATTCTATATTCC-AAAATGCAGCTTAGGTACAACAATCTCAACTCTAGACTGTCCTATGTGAA
* *
1023466 CAAAA-CTGAGTTATGATCCAATTGGCCTTAATCTAAGACAGAACACACAATTTCTTAGCTAAAG
65 CAAAACCTGAGTTATGATCCAATTGGTCTTAATCTAAGACAG-A-ACACAATTTCTCAGCTAAAG
*
1023530 ACTGCCCTATCTATTTTCCGACAGCGCCATGTCCAGATATTGTATCAGTCCGGCTTGAACAGTAA
128 ACTGCCCTATCTA--TTCCGACAGCGCCATGTCCAGATATTGTATCAGTCCGGCCTGAACAGTAA
1023595 TCTCTCCAAA
191 TCTCTCCAAA
* *
1023605 GAATTCTATATTCCCAAAATGCAGCTTAGGTACAGCAATCTCAACTATAGACTGTCCTATGTGAA
1 GAATTCTATATT-CCAAAATGCAGCTTAGGTACAACAATCTCAACTCTAGACTGTCCTATGTGAA
* * *
1023670 TAAAACCT-AGTTATGGA-CCAATTGGTCTTAATCTATGAC--ATCACAATTTTCTCAGC
65 CAAAACCTGAGTTAT-GATCCAATTGGTCTTAATCTAAGACAGAACACAA-TTTCTCAGC
1023726 CAAAAAACTA
Statistics
Matches: 286, Mismatches: 25, Indels: 33
0.83 0.07 0.10
Matches are distributed among these distances:
200 11 0.04
201 21 0.07
202 30 0.10
203 1 0.00
204 142 0.50
205 11 0.04
206 25 0.09
207 4 0.01
208 13 0.05
209 26 0.09
210 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (200 bp):
GAATTCTATATTCCAAAATGCAGCTTAGGTACAACAATCTCAACTCTAGACTGTCCTATGTGAAC
AAAACCTGAGTTATGATCCAATTGGTCTTAATCTAAGACAGAACACAATTTCTCAGCTAAAGACT
GCCCTATCTATTCCGACAGCGCCATGTCCAGATATTGTATCAGTCCGGCCTGAACAGTAATCTCT
CCAAA
Found at i:1024324 original size:3 final size:3
Alignment explanation
Indices: 1024316--1024352 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1024306 CAAATTTTAA
1024316 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1024353 GGATTTTGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1040312 original size:29 final size:29
Alignment explanation
Indices: 1040280--1040361 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 29
1040270 TGACCTGAAT
*
1040280 TTTAAAATTTGAAAAGTTAAAGGACTAAA
1 TTTAAAATTTGAAAAGTTAAAAGACTAAA
** * *
1040309 TTTATAAAAAT-AAAAATAAAAAGACTAAA
1 TTTA-AAATTTGAAAAGTTAAAAGACTAAA
1040338 TTTCAAAATTTTGAAAAGTATAAA
1 TTT-AAAA-TTTGAAAAGT-TAAA
1040362 TACTTATAAC
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
29 25 0.64
30 6 0.15
31 5 0.13
32 3 0.08
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (29 bp):
TTTAAAATTTGAAAAGTTAAAAGACTAAA
Found at i:1042422 original size:266 final size:271
Alignment explanation
Indices: 1041905--1042439 Score: 697
Period size: 266 Copynumber: 2.0 Consensus size: 271
1041895 AAAATTTTAT
* * * * *
1041905 AAATTTTAATTATACCACCAATTTTCTTTAAAAAAAACTCTTTAAATTCCTAAATTTTTTGAAAA
1 AAATTTAAATTAGACCACCAATTTTCTTCAAAAAAAACTCTTTAAACTCCTAAAATTTTTGAAAA
* * * * *
1041970 TTTTAATTAGGCTCTTCGGAATTTAATCTCATTATCTACCATTGATTATATATTGTTGAAGGACT
66 TTTTAATTAGGCTCTTCGAAACTTAATCTCATGATCT--CATCGATTATATATTGATGAAGGACT
* ** *
1042035 TTTGATTATTTTGAGAAAAGTTGGACACAAAAGCTGTTGAGTATTTACCTCTCAAAATGATCGAT
129 TTTGATTATTTTGAAAAAAGTTGGACACAAAAGCCATTGAGTATTTACCTCTCAAAATGATCAAT
* * * * * *
1042100 ATTTCTTTTCGATAGAGATTTAATCACAATGCTGGGCCTGTTGAGGGGTCCATCGACTTCAAATA
194 AATTCTTTTCGATAGAGATTTAATCACAATACTAGACCTGTTGAGAGATCCATCGACTTCAAATA
1042165 AACAATACTCTTA
259 AACAATACTCTTA
1042178 AAATTTAAATTAGACCACCAATTTTCTTCAGAAAAAAACTCTTTAAACTCCTAAAATTTTTGAAA
1 AAATTTAAATTAGACCACCAATTTTCTTCA-AAAAAAACTCTTTAAACTCCTAAAATTTTTGAAA
* * * * *
1042243 ATTTTAGTTAGGCTTTTCGAAACTTAATCTTATGATCT-GTCG-TTA-A-A-T-AT-AATGACTT
65 ATTTTAATTAGGCTCTTCGAAACTTAATCTCATGATCTCATCGATTATATATTGATGAAGGACTT
* * * *
1042301 TTGATTCTTTTGAAAAAAGTTGGATACGAAAGCCCATTGAGTATTTACCTCTCAAAATGTTCAAT
130 TTGATTATTTTGAAAAAAGTTGGACACAAAAG-CCATTGAGTATTTACCTCTCAAAATGATCAAT
* * *
1042366 AATTCTTTTCTATAGAGATTTAATCACAATATTAGACCTGTTGAGAGATTCATCGACTTCAAATA
194 AATTCTTTTCGATAGAGATTTAATCACAATACTAGACCTGTTGAGAGATCCATCGACTTCAAATA
1042431 AACAATACT
259 AACAATACT
1042440 TCACAAATTT
Statistics
Matches: 228, Mismatches: 32, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
265 35 0.15
266 94 0.41
267 1 0.00
268 1 0.00
269 1 0.00
270 3 0.01
271 2 0.01
273 27 0.12
274 64 0.28
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (271 bp):
AAATTTAAATTAGACCACCAATTTTCTTCAAAAAAAACTCTTTAAACTCCTAAAATTTTTGAAAA
TTTTAATTAGGCTCTTCGAAACTTAATCTCATGATCTCATCGATTATATATTGATGAAGGACTTT
TGATTATTTTGAAAAAAGTTGGACACAAAAGCCATTGAGTATTTACCTCTCAAAATGATCAATAA
TTCTTTTCGATAGAGATTTAATCACAATACTAGACCTGTTGAGAGATCCATCGACTTCAAATAAA
CAATACTCTTA
Found at i:1046921 original size:19 final size:20
Alignment explanation
Indices: 1046894--1046948 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 20
1046884 AAAATTTTTC
* *
1046894 TATATAATTTT-TTTATAAT
1 TATAAAATTTTATTAATAAT
1046913 TATAAAATTTTAAATTAATAAT
1 TATAAAATTTT--ATTAATAAT
*
1046935 TATAAAATTATATT
1 TATAAAATTTTATT
1046949 TTTATTATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 10 0.33
20 3 0.10
22 17 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATAAAATTTTATTAATAAT
Found at i:1047337 original size:27 final size:25
Alignment explanation
Indices: 1047275--1047340 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 25
1047265 ATAGTTGTTT
* *
1047275 AAAAATTATAATTTTTTATTAATAT
1 AAAAATTATAATTTTTAATTAATAA
* *
1047300 AATAATATATAATATTTTAATTTATCAA
1 AAAAAT-TATAAT-TTTTAATTAAT-AA
1047328 AAAAATTATAATT
1 AAAAATTATAATT
1047341 CAATTCTAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
25 5 0.15
26 7 0.21
27 15 0.45
28 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
AAAAATTATAATTTTTAATTAATAA
Found at i:1047413 original size:107 final size:107
Alignment explanation
Indices: 1047300--1047616 Score: 562
Period size: 107 Copynumber: 3.0 Consensus size: 107
1047290 TTATTAATAT
1047300 AATAATATATAATATTTTAATTTATCAAAAAAATTATAATTCAATTCTAGTCCCTTTAAAAATTG
1 AATAATATATAATATTTTAATTTATCAAAAAAATTATAATTCAATTCTAGTCCCTTTAAAAATTG
*
1047365 TAAAATTATAGTTTAATTCTTCTACAGATTGTAAAATTGTAA
66 TAAAATTATAGTTTAATTCTTCTACAGATTATAAAATTGTAA
* *
1047407 AATAATAAATAATATTTTAATTTATCAAAAAATTTATAATTCAATTCTAGTCCCTTTAAAAATTG
1 AATAATATATAATATTTTAATTTATCAAAAAAATTATAATTCAATTCTAGTCCCTTTAAAAATTG
*
1047472 TAAAATTATAGTTTAATTCTTCTACAGACTATAAAATTGTAA
66 TAAAATTATAGTTTAATTCTTCTACAGATTATAAAATTGTAA
* *
1047514 AATAATATATAATATTTTTATTTATCAAAAAAATTATAATTCAATTCTAGTCCCTGTAAAAATTG
1 AATAATATATAATATTTTAATTTATCAAAAAAATTATAATTCAATTCTAGTCCCTTTAAAAATTG
* *
1047579 TAAAATTATAATTTAATTCTTCTACAGATTATATAATT
66 TAAAATTATAGTTTAATTCTTCTACAGATTATAAAATT
1047617 TTAAGTTTAA
Statistics
Matches: 199, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 199 1.00
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (107 bp):
AATAATATATAATATTTTAATTTATCAAAAAAATTATAATTCAATTCTAGTCCCTTTAAAAATTG
TAAAATTATAGTTTAATTCTTCTACAGATTATAAAATTGTAA
Found at i:1055880 original size:30 final size:30
Alignment explanation
Indices: 1055844--1055906 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
1055834 ATTGTGTGAT
1055844 GAAATGCTTATTTGATATTTTATGTATAAA
1 GAAATGCTTATTTGATATTTTATGTATAAA
1055874 GAAATGCTTATTTGATATTTTATGTATAAA
1 GAAATGCTTATTTGATATTTTATGTATAAA
1055904 GAA
1 GAA
1055907 TGATAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.44
Consensus pattern (30 bp):
GAAATGCTTATTTGATATTTTATGTATAAA
Found at i:1064842 original size:54 final size:55
Alignment explanation
Indices: 1064734--1064844 Score: 206
Period size: 54 Copynumber: 2.0 Consensus size: 55
1064724 GAAAAAGTTG
*
1064734 CACACTTTCAATCCTAAAAACATAATTTTTTTTTTTCAAAACCCTCCACTTTGAT
1 CACACTTTCAATCCTAAAAACATAATTTTTTTATTTCAAAACCCTCCACTTTGAT
1064789 CACACTTTCAATCCTAAAAACATAA-TTTTTTATTTCAAAACCCTCCACTTTGAT
1 CACACTTTCAATCCTAAAAACATAATTTTTTTATTTCAAAACCCTCCACTTTGAT
1064843 CA
1 CA
1064845 TCTTCAACAA
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 30 0.55
55 25 0.45
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (55 bp):
CACACTTTCAATCCTAAAAACATAATTTTTTTATTTCAAAACCCTCCACTTTGAT
Found at i:1076678 original size:6 final size:6
Alignment explanation
Indices: 1076667--1076700 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
1076657 TGTACATCTC
*
1076667 GTAATT GTAATT GTAATT GTAATT GTACTT GTAA
1 GTAATT GTAATT GTAATT GTAATT GTAATT GTAA
1076701 AGTTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (6 bp):
GTAATT
Found at i:1078205 original size:7 final size:7
Alignment explanation
Indices: 1078193--1078218 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1078183 AGTTTGTGTT
1078193 AAAATTG
1 AAAATTG
1078200 AAAATTG
1 AAAATTG
1078207 AAAATTG
1 AAAATTG
1078214 AAAAT
1 AAAAT
1078219 ATACTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (7 bp):
AAAATTG
Found at i:1087241 original size:61 final size:62
Alignment explanation
Indices: 1087176--1087296 Score: 174
Period size: 61 Copynumber: 2.0 Consensus size: 62
1087166 TAGTTGAGTG
* * *
1087176 ACCATTTTGTAACTTTTCAT-AGTTAGGTGATCAAAAAAG-AAAAGAAAATCATAATTGGGAA
1 ACCATTTTGTAACTTTTC-TGAATTAGGTGATAAAAAAAGAAAAAAAAAATCATAATTGGGAA
* *
1087237 ACCATTTTGTAACTTTTCTGAATTTGGTGATAAAAAAAGAAAAAAAAAATCATAGTTGGG
1 ACCATTTTGTAACTTTTCTGAATTAGGTGATAAAAAAAGAAAAAAAAAATCATAATTGGG
1087297 TGACTACTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
60 1 0.02
61 34 0.64
62 18 0.34
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.31
Consensus pattern (62 bp):
ACCATTTTGTAACTTTTCTGAATTAGGTGATAAAAAAAGAAAAAAAAAATCATAATTGGGAA
Found at i:1093639 original size:32 final size:31
Alignment explanation
Indices: 1093603--1093683 Score: 76
Period size: 32 Copynumber: 2.6 Consensus size: 31
1093593 AAGTTATCCC
**
1093603 TTTTAATTTGGTTAATTTTAGTTATTTGTACT
1 TTTTAATTTCATTAATTTTAGTTA-TTGTACT
* *
1093635 TTTTAGA-TTCATTGATTTTGGTTATTGTACT
1 TTTTA-ATTTCATTAATTTTAGTTATTGTACT
*
1093666 TTTTGAATTTTA-TAATTT
1 TTTT-AATTTCATTAATTT
1093684 CACGTTTGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
31 17 0.43
32 22 0.55
33 1 0.03
ACGTcount: A:0.22, C:0.04, G:0.12, T:0.62
Consensus pattern (31 bp):
TTTTAATTTCATTAATTTTAGTTATTGTACT
Found at i:1100463 original size:19 final size:18
Alignment explanation
Indices: 1100439--1100474 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1100429 CTAAAGTTTT
*
1100439 ATTTTAATATTTTTTATGC
1 ATTTTAAT-TTTATTATGC
1100458 ATTTTAATTTTATTATG
1 ATTTTAATTTTATTATG
1100475 ATATTTCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.64
Consensus pattern (18 bp):
ATTTTAATTTTATTATGC
Found at i:1100480 original size:19 final size:19
Alignment explanation
Indices: 1100438--1100480 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1100428 ACTAAAGTTT
*
1100438 TATTTTAATATTTTTTATG
1 TATTTTAATATTTATTATG
*
1100457 CATTTTAAT-TTTATTATG
1 TATTTTAATATTTATTATG
1100475 ATATTT
1 -TATTT
1100481 CATGTGTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (19 bp):
TATTTTAATATTTATTATG
Found at i:1105025 original size:28 final size:27
Alignment explanation
Indices: 1104976--1105028 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
1104966 TATTTTATTT
* * *
1104976 TAAATTTATTATTATTTTTTATAAAAG
1 TAAATTTATTAGTAGTTATTATAAAAG
1105003 TAAATTATATTAGTAGTTATTATAAA
1 TAAATT-TATTAGTAGTTATTATAAA
1105029 TTTATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (27 bp):
TAAATTTATTAGTAGTTATTATAAAAG
Found at i:1107602 original size:34 final size:34
Alignment explanation
Indices: 1107559--1107626 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
1107549 TGCACACCAA
1107559 ATAATAATGTTTTAGTGCTTTTCAATAGTTGATT
1 ATAATAATGTTTTAGTGCTTTTCAATAGTTGATT
1107593 ATAATAATGTTTTAGTGCTTTTCAATAGTTGATT
1 ATAATAATGTTTTAGTGCTTTTCAATAGTTGATT
1107627 TGCTTGAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (34 bp):
ATAATAATGTTTTAGTGCTTTTCAATAGTTGATT
Found at i:1112814 original size:17 final size:18
Alignment explanation
Indices: 1112785--1112820 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1112775 AGATATATTC
1112785 TTTAATGTTTATTATATA
1 TTTAATGTTTATTATATA
*
1112803 TTTAAT-TTTATTTTATA
1 TTTAATGTTTATTATATA
1112820 T
1 T
1112821 AAATGATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTAATGTTTATTATATA
Found at i:1117451 original size:93 final size:93
Alignment explanation
Indices: 1117339--1117510 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
1117329 GCCCATAAGT
* * *
1117339 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAATTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1117404 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
1117432 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1117497 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
1117511 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Done.