Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 49 of 199
Found at i:14304490 original size:35 final size:35
Alignment explanation
Indices: 14304440--14304591 Score: 214
Period size: 35 Copynumber: 4.3 Consensus size: 35
14304430 CAATTCCTCA
* * * * *
14304440 AAACACACCAAATGCTCACAAGATCTAGTCGAACTG
1 AAACACGCC-AATGCTCATAAGAGCTAGTCCAACCG
*
14304476 AAACACGCCAATGCTCATAAGAACTAGTCCAACCG
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCG
* *
14304511 AAACACGCTAATGCTCATAAGAGGTAGTCCAACCG
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCG
*
14304546 AAACACGCCAATACTCATAAGAGCTAGTCCAACCG
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCG
14304581 AAACACGCCAA
1 AAACACGCCAA
14304592 ACAGAGAGTA
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 97 0.92
36 8 0.08
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.14
Consensus pattern (35 bp):
AAACACGCCAATGCTCATAAGAGCTAGTCCAACCG
Found at i:14314866 original size:15 final size:15
Alignment explanation
Indices: 14314848--14314882 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14314838 TGGTTTAAAT
14314848 TTATATATTATCATC
1 TTATATATTATCATC
*
14314863 TTATATATTATTATC
1 TTATATATTATCATC
14314878 -TATAT
1 TTATAT
14314883 TAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:14315266 original size:26 final size:27
Alignment explanation
Indices: 14315237--14315292 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
14315227 TTTTATTTAA
14315237 TATA-TATATATATTTATATACATTT-T
1 TATACTATATA-ATTTATATACATTTCT
* *
14315263 TATACTCTATAATTTATATGCATTTCT
1 TATACTATATAATTTATATACATTTCT
14315290 TAT
1 TAT
14315293 TTTCATAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (27 bp):
TATACTATATAATTTATATACATTTCT
Found at i:14315773 original size:107 final size:106
Alignment explanation
Indices: 14315587--14315997 Score: 590
Period size: 107 Copynumber: 3.9 Consensus size: 106
14315577 AGGTTTTTCT
*
14315587 AAATAATGCAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
1 AAATAAGGCAATA-TTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
14315652 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
65 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* *
14315694 AAATAAGGTAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTGACGTGCTGGGTTTCGATT
1 AAATAAGGCAATATTT-GCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
*
14315759 TCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
65 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* * * * * *
14315801 AAATAAGGCAATAATTAGCGTTTGGAAAATCGAGGAAACGTACCCTAACGTGTTGGGTTTTGACT
1 AAATAAGGCAAT-ATTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
* * *
14315866 TCTTGTTTGATCAAATAGCCAAATATCC-TTTTAAACTTTCA
65 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* ** * * * * *
14315907 AAGTGGGGCAATATTTGCGTTTGGAAATTTGAGAGAACGTGCCCTAACGTGCTGGGTCTCTATTT
1 AAATAAGGCAATATTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTT
*
14315972 CTTGTTTGACCAAATAGCCAAATATC
66 CTCGTTTGACCAAATAGCCAAATATC
14315998 TTCTTAACTT
Statistics
Matches: 271, Mismatches: 31, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
105 67 0.25
106 24 0.09
107 177 0.65
108 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (106 bp):
AAATAAGGCAATATTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTT
CTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
Found at i:14331964 original size:20 final size:22
Alignment explanation
Indices: 14331920--14331967 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
14331910 CCTATATGTA
* *
14331920 TAAATTAACCTATATTAATAAC
1 TAAATTAACCTATATAAAAAAC
14331942 TAAATTAACC-AT-TAAAAAAC
1 TAAATTAACCTATATAAAAAAC
14331962 TAAATT
1 TAAATT
14331968 TAATAGTTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.50
21 2 0.08
22 10 0.42
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATTAACCTATATAAAAAAC
Found at i:14332674 original size:12 final size:12
Alignment explanation
Indices: 14332657--14332685 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
14332647 AAAGGAAAAA
14332657 ATTTTCAAAATT
1 ATTTTCAAAATT
14332669 ATTTTCAAAATT
1 ATTTTCAAAATT
14332681 ATTTT
1 ATTTT
14332686 TCTGAATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTTTCAAAATT
Found at i:14337125 original size:23 final size:23
Alignment explanation
Indices: 14337099--14337147 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
14337089 ATAGTCCTTA
* *
14337099 TAATATCCCAAAAATTACTACTG
1 TAATACCCCAAAAATTACTACAG
*
14337122 TAATACCCCGAAAATTACTACAG
1 TAATACCCCAAAAATTACTACAG
14337145 TAA
1 TAA
14337148 GAAAGTAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (23 bp):
TAATACCCCAAAAATTACTACAG
Found at i:14346977 original size:43 final size:43
Alignment explanation
Indices: 14346915--14347148 Score: 290
Period size: 43 Copynumber: 5.4 Consensus size: 43
14346905 TTTTAAAAAT
* * *
14346915 AAACGCCGCTA-AAAGTCATGACCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTATAGA-TCATGACTTTTAGCGGCGCTTTTCCCAC
* *
14346958 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCTAT
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* * *
14347001 AAACGCCGCTATAGATCATGACTTTTAGTGGTGCTTTTCCGAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* **
14347044 AAATGCCGCTATAGATCATGACTTTTAGTAGCGCTTTTCCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT-CCCAC
* * * **
14347088 AAACGCCGCTATAGATCATGAATTTTAGCAGCCCTCCTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
*
14347131 AAACACCGCTATAGATCA
1 AAACGCCGCTATAGATCA
14347149 CTTTTAGCGG
Statistics
Matches: 169, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
43 131 0.78
44 38 0.22
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
Found at i:14347643 original size:86 final size:87
Alignment explanation
Indices: 14347488--14347669 Score: 260
Period size: 86 Copynumber: 2.1 Consensus size: 87
14347478 CTCGTTGCAA
* *
14347488 CCTCTGCTTCTCTCGCTGTTGCATCAGCTTCAAGTTGTAGCTGGAGTTCTTCATATTTTCTTTGA
1 CCTCTGCTTCCCTCGCTGGTGCATCAGCTTCAAGTTGTAGCTGGAGTTCTTCATATTTTCTTTGA
14347553 ACCTCAGCTTCTCTCGACGCTG
66 ACCTCAGCTTCTCTCGACGCTG
* * * *
14347575 CCTCTGGTTCCCTCGCTGGTGCATCTGCTTTAAGTTGTA-TTGGAGTTCTTCATATTTTCTTT-A
1 CCTCTGCTTCCCTCGCTGGTGCATCAGCTTCAAGTTGTAGCTGGAGTTCTTCATATTTTCTTTGA
* * *
14347638 GACCTCAGCTTCTCTCAATGCTA
66 -ACCTCAGCTTCTCTCGACGCTG
14347661 CCTCTGCTT
1 CCTCTGCTT
14347670 TAAGTTGAGT
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
85 1 0.01
86 49 0.58
87 34 0.40
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.41
Consensus pattern (87 bp):
CCTCTGCTTCCCTCGCTGGTGCATCAGCTTCAAGTTGTAGCTGGAGTTCTTCATATTTTCTTTGA
ACCTCAGCTTCTCTCGACGCTG
Found at i:14349257 original size:9 final size:9
Alignment explanation
Indices: 14349243--14349298 Score: 87
Period size: 9 Copynumber: 6.2 Consensus size: 9
14349233 TTTGGTTAAA
*
14349243 AATTACCCG
1 AATTAACCG
14349252 AATT-ACTCG
1 AATTAAC-CG
14349261 AATTAACCG
1 AATTAACCG
14349270 AATTAACCG
1 AATTAACCG
14349279 AATTAACCG
1 AATTAACCG
14349288 AATTAACCG
1 AATTAACCG
14349297 AA
1 AA
14349299 CTAGCGAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
8 1 0.02
9 41 0.93
10 2 0.05
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:14349270 original size:18 final size:17
Alignment explanation
Indices: 14349243--14349314 Score: 83
Period size: 18 Copynumber: 4.1 Consensus size: 17
14349233 TTTGGTTAAA
*
14349243 AATTACCCGAATTACTCG
1 AATTAACCGAATTAC-CG
14349261 AATTAACCGAATTAACCG
1 AATTAACCGAATT-ACCG
14349279 AATTAACCGAATTAACCG
1 AATTAACCGAATT-ACCG
* *
14349297 AACT-AGCGAATTACCG
1 AATTAACCGAATTACCG
14349313 AA
1 AA
14349315 AAATACCCGA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
16 6 0.12
17 7 0.14
18 35 0.70
19 2 0.04
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.22
Consensus pattern (17 bp):
AATTAACCGAATTACCG
Found at i:14349279 original size:27 final size:26
Alignment explanation
Indices: 14349243--14349314 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 26
14349233 TTTGGTTAAA
*
14349243 AATTACCCGAATTACTCGAATTAACCG
1 AATTAACCGAATTAC-CGAATTAACCG
14349270 AATTAACCGAATTAACCGAATTAACCG
1 AATTAACCGAATT-ACCGAATTAACCG
* *
14349297 AACT-AGCGAATTACCGAA
1 AATTAACCGAATTACCGAA
14349315 AAATACCCGA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
25 6 0.15
26 7 0.17
27 26 0.63
28 2 0.05
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.22
Consensus pattern (26 bp):
AATTAACCGAATTACCGAATTAACCG
Found at i:14352730 original size:50 final size:50
Alignment explanation
Indices: 14352606--14352838 Score: 253
Period size: 50 Copynumber: 4.7 Consensus size: 50
14352596 GATAATAACA
* *
14352606 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGCTT-T-ATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-G-TTCTCATAT-CGG
* * * *
14352655 TTCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
** * *
14352705 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* * *
14352755 TGCCAACACCATGTCCTAGACATGGTCTTACATGGGAG--CTCTTATCGTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATC--GG
*
14352805 TGCCAACTCCATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
14352839 AGACCTTTTT
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
47 2 0.01
48 8 0.05
49 36 0.23
50 111 0.71
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:14352817 original size:100 final size:97
Alignment explanation
Indices: 14352606--14352846 Score: 297
Period size: 100 Copynumber: 2.4 Consensus size: 97
14352596 GATAATAACA
* * * * **
14352606 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGCTTTATGTACTTCCAATGCCATATCC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTTTATCTACTGCCAACACCATATCC
*
14352671 CAGATATGGTCTTACATGGGAGTTCTCATATCGG
65 CAGACATGGTCTTACATGGGAG-TCTCATATCGG
*
14352705 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCT-CGGTGCCAACACCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCT-TTATCTAC--TGCCAACACCATAT
* *
14352769 CCTAGACATGGTCTTACATGGGAG-CTCTTATCGTGG
63 CCCAGACATGGTCTTACATGGGAGTCTCATATC--GG
* *
14352805 TGCCAACTCCATGTCCCAGACATGGTCTTACATGAGACCTTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTT
14352847 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
98 10 0.08
99 43 0.34
100 72 0.58
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (97 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTATCTACTGCCAACACCATATCCC
AGACATGGTCTTACATGGGAGTCTCATATCGG
Found at i:14360278 original size:50 final size:50
Alignment explanation
Indices: 14360161--14360394 Score: 242
Period size: 50 Copynumber: 4.7 Consensus size: 50
14360151 AACATGTCCA
* * * *
14360161 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTTC-TGT-ACTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-GCTCTCATCTCAGTGCCAAT
* * * * * *
14360210 GCCATATCCCAGATATGGTCTAACATGGGAGTTCTCATATCAGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCAGTGCCAAT
* * * * *
14360260 GCCATGTCCCAAACATGGTCTTAC-GGAGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATG-GGAGCTCTCATCTCAGTGCCAAT
* * *
14360310 GCCATGTCCCAGACATGGTCTTACATAGGAGCTCTTATCTCGGTGCCAACT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCAGTGCCAA-T
*
14360361 -CCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGCTCT
14360395 TTACCCAAAT
Statistics
Matches: 154, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
48 5 0.03
49 30 0.19
50 119 0.77
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCAGTGCCAAT
Found at i:14364192 original size:9 final size:9
Alignment explanation
Indices: 14364096--14364488 Score: 117
Period size: 9 Copynumber: 43.2 Consensus size: 9
14364086 TAAGCATAAT
14364096 TAAGTTATG
1 TAAGTTATG
*
14364105 TAACTTATG
1 TAAGTTATG
* *
14364114 ATAAGAATATA
1 -TAAG-TTATG
14364125 TAA-TTATG
1 TAAGTTATG
14364133 T-A-TTATG
1 TAAGTTATG
*
14364140 CAA-TTATG
1 TAAGTTATG
14364148 TAAGTTATG
1 TAAGTTATG
* *
14364157 ATAATAGTATTTA
1 -T-A-AGT-TATG
*
14364170 TAAGTTGT-
1 TAAGTTATG
14364178 TAAGTTATG
1 TAAGTTATG
14364187 TAAGTTATG
1 TAAGTTATG
*
14364196 TGAGTTATG
1 TAAGTTATG
14364205 T-AGATTATG
1 TAAG-TTATG
* * *
14364214 ATATGATACATA
1 -TAAG-T-TATG
14364226 TAAGTTAT-
1 TAAGTTATG
*
14364234 TAAGTTAGG
1 TAAGTTATG
14364243 TAAGTTATG
1 TAAGTTATG
*
14364252 CAAGTTATG
1 TAAGTTATG
14364261 TAAGTTATG
1 TAAGTTATG
14364270 T-AGATTATG
1 TAAG-TTATG
* *
14364279 ATATGATATATA
1 -TAAG-T-TATG
14364291 TAAGTTAT-
1 TAAGTTATG
*
14364299 T-A-TTCA-C
1 TAAGTT-ATG
*
14364306 TAATTTATG
1 TAAGTTATG
* *
14364315 --AGATACATT
1 TAAG-T-TATG
*
14364324 TAAGTTACG
1 TAAGTTATG
* *
14364333 ATATGATATATA
1 -TAAG-T-TATG
14364345 TAAGTTAT-
1 TAAGTTATG
14364353 TAAGTTATG
1 TAAGTTATG
14364362 TAAGTTATG
1 TAAGTTATG
*
14364371 TGAGTTATG
1 TAAGTTATG
14364380 T-AGATTATG
1 TAAG-TTATG
* * *
14364389 ATATGATACATA
1 -TAAG-T-TATG
14364401 TAAGTTAT-
1 TAAGTTATG
*
14364409 TAAGTTAGG
1 TAAGTTATG
14364418 TAAGTTATG
1 TAAGTTATG
*
14364427 CAAGTTATG
1 TAAGTTATG
14364436 TAAGTTATG
1 TAAGTTATG
**
14364445 --A-TATACA
1 TAAGT-TATG
*
14364452 TAAGTTGT-
1 TAAGTTATG
*
14364460 TAACTTATG
1 TAAGTTATG
14364469 TAAGTTATG
1 TAAGTTATG
*
14364478 TGAGTTATG
1 TAAGTTATG
14364487 TA
1 TA
14364489 GATTATGATA
Statistics
Matches: 288, Mismatches: 55, Indels: 82
0.68 0.13 0.19
Matches are distributed among these distances:
6 3 0.01
7 13 0.05
8 57 0.20
9 149 0.52
10 22 0.08
11 29 0.10
12 13 0.05
13 2 0.01
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (9 bp):
TAAGTTATG
Found at i:14364237 original size:56 final size:56
Alignment explanation
Indices: 14364143--14364604 Score: 418
Period size: 56 Copynumber: 8.2 Consensus size: 56
14364133 TATTATGCAA
* *
14364143 TTATGTA-AGTTATGATAAT-AGTATTTATAAGTTGTTAAGTTATGTAAGTTATGTGAG
1 TTATGTAGA-TTATGAT-ATGA-TATATATAAGTTATTAAGTTATGTAAGTTATGTGAG
* *
14364200 TTATGTAGATTATGATATGATACATATAAGTTATTAAGTTAGGTAAGTTATGCAAGTTATGTAAG
1 TTATGTAGATTATGATATGATATATATAAGTTATTAAGTTA--T--G---T--AAGTTATGTGAG
* * *
14364265 TTATGTAGATTATGATATGATATATATAAGTTATT-A-TTCA-CTAATTTATGAGA-
1 TTATGTAGATTATGATATGATATATATAAGTTATTAAGTT-ATGTAAGTTATGTGAG
* * *
14364318 TACATTTA-AGTTACGATATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAG
1 T-TATGTAGA-TTATGATATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAG
* * **
14364375 TTATGTAGATTATGATATGATACATATAAGTTATTAAGTTAGGTAAGTTATGCAAG
1 TTATGTAGATTATGATATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAG
* * * *
14364431 TTATGT--A--A-GTTATGATATACATAAGTTGTTAACTTATGTAAGTTATGTGAG
1 TTATGTAGATTATGATATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAG
* * *
14364482 TTATGTAGATTATGATATGATATATATAAGTTATT-A-TTCA-CTAATTTATGAGA-
1 TTATGTAGATTATGATATGATATATATAAGTTATTAAGTT-ATGTAAGTTATGTGAG
* * * *
14364535 TACATTTA-AGTTACGGTATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAG
1 T-TATGTAGA-TTATGATATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAG
14364592 TTATGTAGATTAT
1 TTATGTAGATTAT
14364605 CAATCTAATA
Statistics
Matches: 327, Mismatches: 46, Indels: 65
0.75 0.11 0.15
Matches are distributed among these distances:
51 41 0.13
52 1 0.00
53 5 0.02
54 78 0.24
55 7 0.02
56 123 0.38
57 19 0.06
58 2 0.01
60 1 0.00
63 3 0.01
64 2 0.01
65 45 0.14
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.43
Consensus pattern (56 bp):
TTATGTAGATTATGATATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAG
Found at i:14364370 original size:110 final size:110
Alignment explanation
Indices: 14364234--14364604 Score: 529
Period size: 110 Copynumber: 3.4 Consensus size: 110
14364224 TATAAGTTAT
* * *
14364234 TAAGTTAGGTAAGTTATGCAAGTTATGTAAGTTATGTAGATTATGATATGATATATATAAGTTAT
1 TAAGTTA-TTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATATATAAGTTAT
14364299 TATTCACTAATTTATGAGATACATTTAAGTTACGATATGATATATA
65 TATTCACTAATTTATGAGATACATTTAAGTTACGATATGATATATA
*
14364345 TAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATACATATAAGTTATT
1 TAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATATATAAGTTATT
* * * * * * * *
14364410 AAGTT-AGGTAAGTTAT--G-CA-AGTTATG-TAAGTTATGATATACA
66 -A-TTCA-CTAATTTATGAGATACATTTAAGTTACGATATGATATATA
* *
14364452 TAAGTTGTTAACTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATATATAAGTTATT
1 TAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATATATAAGTTATT
*
14364517 ATTCACTAATTTATGAGATACATTTAAGTTACGGTATGATATATA
66 ATTCACTAATTTATGAGATACATTTAAGTTACGATATGATATATA
14364562 TAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTAT
1 TAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTAT
14364605 CAATCTAATA
Statistics
Matches: 226, Mismatches: 25, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
105 9 0.04
106 2 0.01
107 76 0.34
108 6 0.03
109 6 0.03
110 109 0.48
111 9 0.04
112 9 0.04
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.43
Consensus pattern (110 bp):
TAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATATATAAGTTATT
ATTCACTAATTTATGAGATACATTTAAGTTACGATATGATATATA
Found at i:14364584 original size:9 final size:9
Alignment explanation
Indices: 14364562--14364598 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
14364552 ATGATATATA
14364562 TAAGTTAT-
1 TAAGTTATG
14364570 TAAGTTATG
1 TAAGTTATG
14364579 TAAGTTATG
1 TAAGTTATG
*
14364588 TGAGTTATG
1 TAAGTTATG
14364597 TA
1 TA
14364599 GATTATCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:14366516 original size:39 final size:38
Alignment explanation
Indices: 14366449--14366524 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 38
14366439 TGATACATTA
14366449 ATATGACATTATTTTTAATTGTTAAATTTTCTAAAATTTTC
1 ATATGACATTA-TTTTAATTGTTAAA-TTT-TAAAATTTTC
*
14366490 ATATGACATTA-TTTAATTGTTCAATTTTAAAATTT
1 ATATGACATTATTTTAATTGTTAAATTTTAAAATTT
14366525 AATATAATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
37 8 0.24
38 3 0.09
39 12 0.35
41 11 0.32
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.53
Consensus pattern (38 bp):
ATATGACATTATTTTAATTGTTAAATTTTAAAATTTTC
Found at i:14366828 original size:29 final size:29
Alignment explanation
Indices: 14366780--14366855 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
14366770 GAATACCCTA
* * **
14366780 AAACTTTAAAACCCATAAACCATAAAATGT
1 AAACTATAATACCC-TAAACCATAAAACAT
*
14366810 AAACTATAATACCCTAAACCGTAAAACAT
1 AAACTATAATACCCTAAACCATAAAACAT
*
14366839 AAACTCTAAT-CCCTAAA
1 AAACTATAATACCCTAAA
14366856 TCCAAAAGCC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 7 0.17
29 21 0.52
30 12 0.30
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.22
Consensus pattern (29 bp):
AAACTATAATACCCTAAACCATAAAACAT
Found at i:14366954 original size:20 final size:20
Alignment explanation
Indices: 14366919--14366957 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14366909 GAAGCCTTAA
*
14366919 ACCCTAAACCATAAATATAC
1 ACCCTAAACCAGAAATATAC
*
14366939 ACCCTAAACCCGAAATATA
1 ACCCTAAACCAGAAATATA
14366958 AATATTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.31, G:0.03, T:0.18
Consensus pattern (20 bp):
ACCCTAAACCAGAAATATAC
Found at i:14367020 original size:14 final size:14
Alignment explanation
Indices: 14367003--14367046 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
14366993 TTTAAACACT
14367003 AAACTCCAAACCTC
1 AAACTCCAAACCTC
*
14367017 AAACTCTAAACCTC
1 AAACTCCAAACCTC
*
14367031 AATC-CCAAACC-C
1 AAACTCCAAACCTC
14367043 AAAC
1 AAAC
14367047 CTTAAACCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 4 0.15
13 6 0.23
14 16 0.62
ACGTcount: A:0.45, C:0.41, G:0.00, T:0.14
Consensus pattern (14 bp):
AAACTCCAAACCTC
Found at i:14367433 original size:21 final size:21
Alignment explanation
Indices: 14367409--14367487 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
14367399 TCCAACCCCT
14367409 AACCCATAAACCTTAAATCCC
1 AACCCATAAACCTTAAATCCC
* *
14367430 AACCCTTAAACCAT-AATCCC
1 AACCCATAAACCTTAAATCCC
* *
14367450 TAATCCATAATCCTTAAAT-CC
1 -AACCCATAAACCTTAAATCCC
*
14367471 ACACTCCCTAAACCTTA
1 A-AC-CCATAAACCTTA
14367488 CACTATTAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
20 7 0.16
21 25 0.56
22 13 0.29
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (21 bp):
AACCCATAAACCTTAAATCCC
Found at i:14367861 original size:20 final size:19
Alignment explanation
Indices: 14367820--14367863 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
14367810 AATTTTAATT
* *
14367820 AATATAAATAAACCAATTA
1 AATATAAATAAACAAATAA
*
14367839 AATAGTAAATAGACAAATAA
1 AATA-TAAATAAACAAATAA
14367859 AATAT
1 AATAT
14367864 TTTTGCGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:14368009 original size:40 final size:41
Alignment explanation
Indices: 14367868--14368080 Score: 234
Period size: 40 Copynumber: 5.2 Consensus size: 41
14367858 AAATATTTTT
* *
14367868 GCGGCGCTTTTTCAAAAATGCTGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* ** ** *
14367909 -CGGTGCTCCTTGGAAAACGCCGCTATAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * *
14367949 GTGGCGCTTTTTCAAAAACGCCGCTAAATCCCCGA-CTTTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
14367989 GCGGCGCTTTTTCAACAACGCCGCTAAAGCCTCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
14368030 GCAGTGCTTTTTTTAAAAA-GCCGCTAAAGCCCTGAGCATTA
1 GCGGCGC-TTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
*
14368071 GTGGCGCTTT
1 GCGGCGCTTT
14368081 CTAAAGCCCT
Statistics
Matches: 138, Mismatches: 31, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
40 70 0.51
41 59 0.43
42 9 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:14368009 original size:81 final size:80
Alignment explanation
Indices: 14367868--14368080 Score: 232
Period size: 81 Copynumber: 2.6 Consensus size: 80
14367858 AAATATTTTT
* * * *
14367868 GCGGCGCTTTTTCAAAAATGCTGCTAAAGCCCCGAGCATTA-CGGTGCTCCTTGGAAAACGCCGC
1 GCGGCGCTTTTTCAAAAA-GCCGCTAAAGCCCCGAGCATTAGCGGCGCT-TTTGCAAAACGCCGC
*
14367932 TATAGCCCCGAGCATTA
64 TAAAGCCCCGAGCATTA
* * * *
14367949 GTGGCGCTTTTTCAAAAACGCCGCTAAATCCCCGA-CTTTAGCGGCGCTTTTTCAACAACGCCGC
1 GCGGCGCTTTTTCAAAAA-GCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTTGCAA-AACGCCGC
*
14368013 TAAAGCCTCGAGCATTA
64 TAAAGCCCCGAGCATTA
* * * * *
14368030 GCAGTGCTTTTTTTAAAAAGCCGCTAAAGCCCTGAGCATTAGTGGCGCTTT
1 GCGGCGC-TTTTTCAAAAAGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTT
14368081 CTAAAGCCCT
Statistics
Matches: 109, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
80 8 0.07
81 78 0.72
82 23 0.21
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
GCGGCGCTTTTTCAAAAAGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTTGCAAAACGCCGCTA
AAGCCCCGAGCATTA
Found at i:14390918 original size:35 final size:35
Alignment explanation
Indices: 14390862--14391059 Score: 229
Period size: 35 Copynumber: 5.6 Consensus size: 35
14390852 TACTCTCTAT
* *
14390862 TTGGCGTGTTTCAGTTAGACTAGCTCTTATGAGCA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
*
14390897 TTGACGTGTTTCGGTTGGACTAGCTCTTATGAGCA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
* *
14390932 TTGGCGTGTTTTGGTTGGACTAGTTCTTATGAGCA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
* *
14390967 TTGGCGTGTTCCGGTTGGACTACCTCTTATGAGCA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
* * ** * *
14391002 TTTGGTGTGTTTTGGAGGGA-TTGACTCGTATGAGCA
1 -TTGGCGTGTTTCGGTTGGACTAG-CTCTTATGAGCA
14391038 TCTGGCGTGTTAT-GGTTGGACT
1 T-TGGCGTGTT-TCGGTTGGACT
14391060 GACGATGTGC
Statistics
Matches: 137, Mismatches: 21, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
35 97 0.71
36 38 0.28
37 2 0.01
ACGTcount: A:0.16, C:0.15, G:0.31, T:0.38
Consensus pattern (35 bp):
TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
Found at i:14404846 original size:66 final size:66
Alignment explanation
Indices: 14404740--14404869 Score: 206
Period size: 66 Copynumber: 2.0 Consensus size: 66
14404730 TTTCCATTTC
* *
14404740 AGAGAGCACACTCCTGCGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGC
1 AGAGAGCACACTCCCGCGAACCTCATCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTGC
14404805 A
66 A
* * * *
14404806 AGAGAGCACACTCCCGCGAACGTTATTCTTACAGTAGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCATCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTG
14404870 TAATATAAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (66 bp):
AGAGAGCACACTCCCGCGAACCTCATCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTGC
A
Found at i:14405089 original size:57 final size:56
Alignment explanation
Indices: 14404996--14405103 Score: 171
Period size: 57 Copynumber: 1.9 Consensus size: 56
14404986 AATTCGGATT
*
14404996 ACCCGTCCGGGCTAAATCCATTTCCACATATTCTTCGGGAGGGCTATATCAAGATC
1 ACCCGTCAGGGCTAAATCCATTTCCACATATTCTTCGGGAGGGCTATATCAAGATC
* **
14405052 ACCCGTCAGGGCTAGATCTTTTTCACACATATTCTTCGGGAGGGCTATATCA
1 ACCCGTCAGGGCTAAATCCATTTC-CACATATTCTTCGGGAGGGCTATATCA
14405104 GGATAGGATC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
56 20 0.43
57 27 0.57
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (56 bp):
ACCCGTCAGGGCTAAATCCATTTCCACATATTCTTCGGGAGGGCTATATCAAGATC
Found at i:14409411 original size:171 final size:171
Alignment explanation
Indices: 14409117--14409451 Score: 526
Period size: 171 Copynumber: 2.0 Consensus size: 171
14409107 TGGTGACATG
*
14409117 GCCGTGTGTCATTTGTGAGTTTCTTAGTGTACAAGTCAAAGAGTTACACAGCCTAGCACATGACC
1 GCCGTGTGTCATTTGTGAGTTTCTTAGTATACAAGTCAAAGAGTTACACAGCCTAGCACATGACC
* * * * *
14409182 TGGCATACGGGGGTGTAGGGCTACTCAGTGAGTTACACGAGTGTGGACATAGGCTGGGACACGGT
66 TGGCACACGGGCGTGTAGGGCTACTCAGTGAGTTACACGAGTGAGGACACAAGCTGGGACACGGT
*
14409247 CGTATGTCCCTTGTTTGAAAGTTACACGGCCTGGCGACACA
131 CGTATGTCCCTTGTTCGAAAGTTACACGGCCTGGCGACACA
* * * *
14409288 GCCGTGTGTCATTTGTGAGTTTCTTAGTATACAAGTCAGAGAGTTACACAGCTTAGCATATGGCC
1 GCCGTGTGTCATTTGTGAGTTTCTTAGTATACAAGTCAAAGAGTTACACAGCCTAGCACATGACC
* *
14409353 TGGCACACGGGCGTGTGGGGCTACTCAGTGAGTTACACGGGTGAGGACACAAGCTGGGACACGGT
66 TGGCACACGGGCGTGTAGGGCTACTCAGTGAGTTACACGAGTGAGGACACAAGCTGGGACACGGT
* * *
14409418 TGTGTGTCCCTTGTTCGAAAGTTATACGGCCTGG
131 CGTATGTCCCTTGTTCGAAAGTTACACGGCCTGG
14409452 GTGATTTCAC
Statistics
Matches: 148, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
171 148 1.00
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (171 bp):
GCCGTGTGTCATTTGTGAGTTTCTTAGTATACAAGTCAAAGAGTTACACAGCCTAGCACATGACC
TGGCACACGGGCGTGTAGGGCTACTCAGTGAGTTACACGAGTGAGGACACAAGCTGGGACACGGT
CGTATGTCCCTTGTTCGAAAGTTACACGGCCTGGCGACACA
Found at i:14411507 original size:7 final size:7
Alignment explanation
Indices: 14411497--14411530 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
14411487 TTGTTTTTCT
14411497 TTTTAAA
1 TTTTAAA
14411504 TTTTAAA
1 TTTTAAA
14411511 TTTTAAA
1 TTTTAAA
14411518 TTTTAAA
1 TTTTAAA
14411525 TTTTAA
1 TTTTAA
14411531 GTTAATTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTTAAA
Found at i:14414111 original size:29 final size:31
Alignment explanation
Indices: 14414070--14414129 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
14414060 CTAGTAATAA
14414070 AAAAAAGATAAATTT-GAATAGTTGAGTGATC
1 AAAAAAGA-AAATTTAGAATAGTTGAGTGATC
*
14414101 AAAAAAG-AAATTTACTAATAGTTGAGTGA
1 AAAAAAGAAAATTTA-GAATAGTTGAGTGA
14414130 CATCTTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 6 0.23
31 20 0.77
ACGTcount: A:0.50, C:0.03, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAAAAGAAAATTTAGAATAGTTGAGTGATC
Found at i:14417989 original size:19 final size:19
Alignment explanation
Indices: 14417956--14418003 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
14417946 TAAACAATTC
14417956 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
14417973 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
14417992 AATAATATAAAT
1 AATAATATAAAT
14418004 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:14418164 original size:32 final size:33
Alignment explanation
Indices: 14418090--14418180 Score: 94
Period size: 32 Copynumber: 2.7 Consensus size: 33
14418080 AAGGGTGAGA
*
14418090 AGTAAAAGTTTAAGGGAAAAATAAAAAGGTTTGGGG
1 AGTAAAAGTTTGAGGG-AAAATAAAAAGG--TGGGG
* * *
14418126 AATAAAAGTTTGAGGGAAAGTAAATAGG-GGGG
1 AGTAAAAGTTTGAGGGAAAATAAAAAGGTGGGG
*
14418158 AGTAAAATTTTGAAGGGAAAATA
1 AGTAAAAGTTTG-AGGGAAAATA
14418181 TTAAAAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
32 14 0.30
33 9 0.19
35 10 0.21
36 14 0.30
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (33 bp):
AGTAAAAGTTTGAGGGAAAATAAAAAGGTGGGG
Found at i:14418433 original size:30 final size:31
Alignment explanation
Indices: 14418394--14418454 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
14418384 GAGTTGGGAG
* *
14418394 GGGAGAGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
14418425 GGGA-AGGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
14418455 AAAAAGGTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.20
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:14418521 original size:9 final size:9
Alignment explanation
Indices: 14418503--14418539 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
14418493 TATAGTTTGA
*
14418503 TATTCAAAT
1 TATTCGAAT
14418512 TATTCGAAT
1 TATTCGAAT
*
14418521 TATTCGAGT
1 TATTCGAAT
14418530 TATTCGAAT
1 TATTCGAAT
14418539 T
1 T
14418540 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:14418609 original size:9 final size:9
Alignment explanation
Indices: 14418592--14418624 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
14418582 TCGAGTTGAT
*
14418592 TCGAATAAC
1 TCGATTAAC
14418601 TCGATTAAC
1 TCGATTAAC
14418610 TCGATTAAC
1 TCGATTAAC
14418619 TCGATT
1 TCGATT
14418625 CGTTTAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (9 bp):
TCGATTAAC
Found at i:14422429 original size:80 final size:80
Alignment explanation
Indices: 14422278--14422461 Score: 208
Period size: 80 Copynumber: 2.4 Consensus size: 80
14422268 TATAAAGTTG
* **
14422278 TTCTGTTGTATTTTACATCAAT-A-ATATAC----TTATTTACAATCTAAGAAAAACAATTTAAA
1 TTCTATTGTATTTTACATCAATAATATATACTTATTTATTTACAATCTAAGAAAAACAATAAAAA
*
14422337 AATTGGTTTATTGTA
66 AATTCGTTTATTGTA
*
14422352 TTTTATTGT-TTTT-CATACCAATAATATATACTTATTTATTTACAATCTAAG-AAAA-AATGAA
1 TTCTATTGTATTTTACAT--CAATAATATATACTTATTTATTTACAATCTAAGAAAAACAAT-AA
*
14422413 AAAAATTCTTTATATTGTA
63 AAAAATTCGTT-TATTGTA
14422432 TTCTATTGTATTTTACATCAATAATATATA
1 TTCTATTGTATTTTACATCAATAATATATA
14422462 AATATTTACA
Statistics
Matches: 91, Mismatches: 7, Indels: 18
0.78 0.06 0.16
Matches are distributed among these distances:
72 3 0.03
73 4 0.04
74 11 0.12
75 1 0.01
76 6 0.07
78 3 0.03
79 13 0.14
80 43 0.47
81 4 0.04
82 3 0.03
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (80 bp):
TTCTATTGTATTTTACATCAATAATATATACTTATTTATTTACAATCTAAGAAAAACAATAAAAA
AATTCGTTTATTGTA
Found at i:14430652 original size:15 final size:15
Alignment explanation
Indices: 14430629--14430660 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14430619 ACTTAATATG
14430629 TATAAGTTATAATAA
1 TATAAGTTATAATAA
*
14430644 TATATGTTATAATAA
1 TATAAGTTATAATAA
14430659 TA
1 TA
14430661 AGAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (15 bp):
TATAAGTTATAATAA
Found at i:14430701 original size:26 final size:26
Alignment explanation
Indices: 14430651--14430703 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
14430641 TAATATATGT
*
14430651 TATAATAATAAGAAATAAAATGAAAA
1 TATAATAATAAGAAATAAAAAGAAAA
*
14430677 TATAATTA-AAGAAATAATAAAGAAAA
1 TATAATAATAAGAAATAA-AAAGAAAA
14430703 T
1 T
14430704 GGAAAGAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.25
Consensus pattern (26 bp):
TATAATAATAAGAAATAAAAAGAAAA
Found at i:14431922 original size:19 final size:20
Alignment explanation
Indices: 14431861--14431925 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 20
14431851 ACAAAGTTAA
* *
14431861 GAAATGAAA-ATGAGATGA-
1 GAAATGAAATATGAAATCAT
*
14431879 GAAATGAAATATGAAATGAT
1 GAAATGAAATATGAAATCAT
* *
14431899 GAAATGAAATGTG-AATCTT
1 GAAATGAAATATGAAATCAT
14431918 GAAATGAA
1 GAAATGAA
14431926 TTCAAGTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
18 9 0.22
19 20 0.49
20 12 0.29
ACGTcount: A:0.52, C:0.02, G:0.23, T:0.23
Consensus pattern (20 bp):
GAAATGAAATATGAAATCAT
Found at i:14440572 original size:16 final size:15
Alignment explanation
Indices: 14440551--14440580 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14440541 AATTAAATAC
14440551 AACAACATTTATTAAT
1 AACAACATTT-TTAAT
14440567 AACAACATTTTTAA
1 AACAACATTTTTAA
14440581 GTTGAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
AACAACATTTTTAAT
Found at i:14452159 original size:34 final size:33
Alignment explanation
Indices: 14452121--14452287 Score: 167
Period size: 34 Copynumber: 5.0 Consensus size: 33
14452111 AAGCAAGTTT
*
14452121 ATTGCTACCGTAATGATCTGTTATAAGCATGCTA
1 ATTGCTACTGTAATGATCTGTTATAAGCATG-TA
* * *
14452155 ATTGCTACTGT-ATCAGTTTGTTATAAGCATGTTT
1 ATTGCTACTGTAATGA-TCTGTTATAAGCATG-TA
*
14452189 ATTGCTACTGTAATGATCTATTATAAGCATGATA
1 ATTGCTACTGTAATGATCTGTTATAAGCATG-TA
* * * *
14452223 ATTGTTATTGTATTGA-CTTGTTATAAGCATGTT
1 ATTGCTACTGTAATGATC-TGTTATAAGCATGTA
* * *
14452256 ATTGCTACTGTATTGATTTGTTATAAGTATGT
1 ATTGCTACTGTAATGATCTGTTATAAGCATGT
14452288 CATGTTGCAT
Statistics
Matches: 110, Mismatches: 19, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
33 32 0.29
34 75 0.68
35 3 0.03
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (33 bp):
ATTGCTACTGTAATGATCTGTTATAAGCATGTA
Found at i:14452218 original size:68 final size:68
Alignment explanation
Indices: 14452109--14452282 Score: 235
Period size: 68 Copynumber: 2.6 Consensus size: 68
14452099 CAAATGTATG
* * * *
14452109 ATAAGCAAGTTTATTGCTACCGTAATGATCTGTTATAAGCATGCTAATTGCTACTGTATCAG-TT
1 ATAAGCATGTTTATTGCTACTGTAATGATCTGTTATAAGCATGATAATTGCTACTGTAT-AGACT
14452173 TGTT
65 TGTT
* * * *
14452177 ATAAGCATGTTTATTGCTACTGTAATGATCTATTATAAGCATGATAATTGTTATTGTATTGACTT
1 ATAAGCATGTTTATTGCTACTGTAATGATCTGTTATAAGCATGATAATTGCTACTGTATAGACTT
14452242 GTT
66 GTT
* *
14452245 ATAAGCATG-TTATTGCTACTGTATTGATTTGTTATAAG
1 ATAAGCATGTTTATTGCTACTGTAATGATCTGTTATAAG
14452283 TATGTCATGT
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
67 27 0.29
68 67 0.71
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (68 bp):
ATAAGCATGTTTATTGCTACTGTAATGATCTGTTATAAGCATGATAATTGCTACTGTATAGACTT
GTT
Found at i:14452381 original size:24 final size:24
Alignment explanation
Indices: 14452354--14452422 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
14452344 CTACAATGAC
* *
14452354 CAGTGGTTCATCCACAACGTTTTT
1 CAGTGGTTTATCCACAACGTATTT
* *
14452378 CAGTGGTTTATCCACAATGCATTT
1 CAGTGGTTTATCCACAACGTATTT
* *
14452402 CAATGGTTTATCCATAACGTA
1 CAGTGGTTTATCCACAACGTA
14452423 CTAGTAACTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (24 bp):
CAGTGGTTTATCCACAACGTATTT
Found at i:14453907 original size:60 final size:61
Alignment explanation
Indices: 14453841--14453957 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 61
14453831 GTTTTTGAAT
* * * *
14453841 TTTTAAAATTAAGACCAAATTGATAGAATTTGT-AAATATTGAAGACTAAAATTATTTAAA
1 TTTTAAAATTAAGACCAAATTGACAGAATGTGTAAAAGATTAAAGACTAAAATTATTTAAA
* * * *
14453901 TTTTAAATTTATGACTAAATTGACAGAATGTGTAAAAGATTAAAGACTAAATTTATT
1 TTTTAAAATTAAGACCAAATTGACAGAATGTGTAAAAGATTAAAGACTAAAATTATT
14453958 ATGCTAATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
60 28 0.58
61 20 0.42
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (61 bp):
TTTTAAAATTAAGACCAAATTGACAGAATGTGTAAAAGATTAAAGACTAAAATTATTTAAA
Found at i:14456996 original size:22 final size:21
Alignment explanation
Indices: 14456968--14457030 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
14456958 ACGGGTTTAG
14456968 CACTTTTATGCTCTCTGTTCAA
1 CACTTTTATGCTCTCTGTT-AA
*
14456990 CACTTTTGTGCTCTCTGCTTAA
1 CACTTTTATGCTCTCTG-TTAA
** *
14457012 CACTTCAATTCTCTCTGTT
1 CACTTTTATGCTCTCTGTT
14457031 TAGCACTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.16, C:0.29, G:0.10, T:0.46
Consensus pattern (21 bp):
CACTTTTATGCTCTCTGTTAA
Found at i:14458027 original size:20 final size:20
Alignment explanation
Indices: 14458004--14458055 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
14457994 ACTTGTAAAG
*
14458004 GAGTATTGATACCATAATTC
1 GAGTATCGATACCATAATTC
14458024 GAGTATCGATACCATAATTC
1 GAGTATCGATACCATAATTC
*
14458044 AAGTATCGATAC
1 GAGTATCGATAC
14458056 TTGGAGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (20 bp):
GAGTATCGATACCATAATTC
Found at i:14460644 original size:37 final size:34
Alignment explanation
Indices: 14460577--14460689 Score: 97
Period size: 34 Copynumber: 3.3 Consensus size: 34
14460567 GCCCTAGGCA
* *
14460577 AGTA-CAGTCTGGGCCTAAGCCCAATT-CAATAAC
1 AGTATCAGTGTGGGCCTTAGCCC-ATTACAATAAC
* *
14460610 AGTTTAGTTCAGT-TGGTCCTTAGCCCATTACAATATC
1 AG--TA--TCAGTGTGGGCCTTAGCCCATTACAATAAC
* *
14460647 AGTATCAGTGTGGGCCTTAGCCCATTACAGTGAC
1 AGTATCAGTGTGGGCCTTAGCCCATTACAATAAC
*
14460681 AGTAGCAGT
1 AGTATCAGT
14460690 TCAGACATGC
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
33 7 0.11
34 28 0.43
35 4 0.06
36 3 0.05
37 19 0.29
38 4 0.06
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (34 bp):
AGTATCAGTGTGGGCCTTAGCCCATTACAATAAC
Found at i:14460998 original size:27 final size:27
Alignment explanation
Indices: 14460962--14461050 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
14460952 TAAAGCATAT
* *
14460962 AGTCATTTTATAACATAGCGGCATAAC
1 AGTCATTTTACAACATAGGGGCATAAC
*
14460989 AATCATTTTACAACATAGGGGCATAAC
1 AGTCATTTTACAACATAGGGGCATAAC
* *
14461016 AGTCATTTTACCACGTAGGGGCATAAC
1 AGTCATTTTACAACATAGGGGCATAAC
14461043 AGTCATTT
1 AGTCATTT
14461051 CATATCATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (27 bp):
AGTCATTTTACAACATAGGGGCATAAC
Found at i:14461492 original size:9 final size:9
Alignment explanation
Indices: 14461478--14461508 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14461468 GTTAAACGAA
14461478 TCGAGTTAT
1 TCGAGTTAT
*
14461487 TCGAGTTAA
1 TCGAGTTAT
14461496 TCGAGTTAT
1 TCGAGTTAT
14461505 TCGA
1 TCGA
14461509 ATTAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:14461499 original size:18 final size:18
Alignment explanation
Indices: 14461476--14461518 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
14461466 GAGTTAAACG
*
14461476 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAATT
14461494 AATCGAGTTATTCGAATT
1 AATCGAGTTATTCGAATT
14461512 AACTCGA
1 AA-TCGA
14461519 ATTTTTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (18 bp):
AATCGAGTTATTCGAATT
Found at i:14461578 original size:9 final size:9
Alignment explanation
Indices: 14461561--14461597 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
14461551 TGAGTTTTCG
14461561 AATTCGAAT
1 AATTCGAAT
*
14461570 AACTCGAAT
1 AATTCGAAT
14461579 AATTCGAAT
1 AATTCGAAT
14461588 AATTCGAAT
1 AATTCGAAT
14461597 A
1 A
14461598 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14465941 original size:22 final size:22
Alignment explanation
Indices: 14465913--14465958 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
14465903 ATGAGTACCC
14465913 AAGCATCAGATATGTTTGTCAA
1 AAGCATCAGATATGTTTGTCAA
14465935 AAGCATCAGATATGTTTGTCAA
1 AAGCATCAGATATGTTTGTCAA
14465957 AA
1 AA
14465959 TTATGTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.30
Consensus pattern (22 bp):
AAGCATCAGATATGTTTGTCAA
Found at i:14477323 original size:25 final size:26
Alignment explanation
Indices: 14477295--14477357 Score: 60
Period size: 26 Copynumber: 2.4 Consensus size: 26
14477285 CATTTTAATT
14477295 ATGTGTTAATTTC-AAGACTTATGTA
1 ATGTGTTAATTTCAAAGACTTATGTA
*
14477320 A--TGTTAGTGATTCAAAGACTTATGTA
1 ATGTGTTAAT--TTCAAAGACTTATGTA
*
14477346 ATGCTTTTAATT
1 ATG-TGTTAATT
14477358 ATGTAGTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
23 6 0.21
25 4 0.14
26 13 0.45
27 1 0.03
29 5 0.17
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (26 bp):
ATGTGTTAATTTCAAAGACTTATGTA
Found at i:14477384 original size:9 final size:9
Alignment explanation
Indices: 14477370--14477420 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
14477360 GTAGTGATTC
14477370 AATTCGGGT
1 AATTCGGGT
*
14477379 AATTCGGTT
1 AATTCGGGT
**
14477388 AATTCAAGT
1 AATTCGGGT
*
14477397 GATTCGGGT
1 AATTCGGGT
*
14477406 AATTCGGTT
1 AATTCGGGT
14477415 AATTCG
1 AATTCG
14477421 ATTAACTAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.37
Consensus pattern (9 bp):
AATTCGGGT
Found at i:14477772 original size:36 final size:38
Alignment explanation
Indices: 14477701--14477772 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
14477691 GGTTTAACAT
*
14477701 TACAATCTCCCTTAAGATTTATACCTCAAATCTTAATA
1 TACAATCTCCCTTAAGATTTATACCTCAAACCTTAATA
* **
14477739 TACAA-CTCCCTTAAGGTTT-TTTCTCAAACCTTAA
1 TACAATCTCCCTTAAGATTTATACCTCAAACCTTAA
14477773 GAATTAACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 12 0.40
37 13 0.43
38 5 0.17
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (38 bp):
TACAATCTCCCTTAAGATTTATACCTCAAACCTTAATA
Found at i:14477804 original size:4 final size:4
Alignment explanation
Indices: 14477795--14477819 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14477785 TCTCAAAGAG
14477795 AACA AACA AACA AACA AACA AACA A
1 AACA AACA AACA AACA AACA AACA A
14477820 TCCTTATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:14477962 original size:30 final size:30
Alignment explanation
Indices: 14477926--14477986 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
14477916 AAAATGCATG
14477926 AAAGAATTAAACTCTAGGTTGTTTTGATTT
1 AAAGAATTAAACTCTAGGTTGTTTTGATTT
14477956 AAAGAATTAAACTCTAGGTTGTTTTGATTT
1 AAAGAATTAAACTCTAGGTTGTTTTGATTT
14477986 A
1 A
14477987 CTTTTAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (30 bp):
AAAGAATTAAACTCTAGGTTGTTTTGATTT
Found at i:14484872 original size:25 final size:25
Alignment explanation
Indices: 14484836--14484889 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
14484826 TGTCAAGAAT
*
14484836 GAGGCTGGAACAAGTAAACCAGATG
1 GAGGCTGAAACAAGTAAACCAGATG
*
14484861 GAGGCTGAAACAAGTAAACTAGATG
1 GAGGCTGAAACAAGTAAACCAGATG
14484886 GAGG
1 GAGG
14484890 TGGAACACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.41, C:0.13, G:0.33, T:0.13
Consensus pattern (25 bp):
GAGGCTGAAACAAGTAAACCAGATG
Found at i:14488556 original size:72 final size:73
Alignment explanation
Indices: 14488408--14488561 Score: 222
Period size: 72 Copynumber: 2.1 Consensus size: 73
14488398 AACTCTTCTC
*
14488408 CCAAAAATACTAAATTGTATTATTAAAAAATATACTATAAGTATAAAAATAAAAATAATATTTTA
1 CCAAAAATACTAAATTGTATTATTAAAAAATATA-TATAAGTATAAAAATAAAAATAATATATTA
*
14488473 TTATACTTA
65 TTATACATA
* * * *
14488482 CCAAAAATACTAAATTGTTTTATTACAAAAA-AT-TATCATTATAAAAATACAAATAATATATTA
1 CCAAAAATACTAAATTGTATTATTA-AAAAATATATATAAGTATAAAAATAAAAATAATATATTA
14488545 TTATACATA
65 TTATACATA
14488554 CCAAAAAT
1 CCAAAAAT
14488562 TCAACATATA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
72 42 0.58
74 26 0.36
75 5 0.07
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (73 bp):
CCAAAAATACTAAATTGTATTATTAAAAAATATATATAAGTATAAAAATAAAAATAATATATTAT
TATACATA
Found at i:14489148 original size:27 final size:27
Alignment explanation
Indices: 14489111--14489169 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
14489101 AATATATAAT
14489111 AAATATATTTTTTATTTTTTAATTTTA
1 AAATATATTTTTTATTTTTTAATTTTA
* *
14489138 AAATATTTTTTTTATTTTTTATTTTTA
1 AAATATATTTTTTATTTTTTAATTTTA
14489165 AAATA
1 AAATA
14489170 AAATTTTGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
AAATATATTTTTTATTTTTTAATTTTA
Found at i:14489176 original size:26 final size:27
Alignment explanation
Indices: 14489111--14489176 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
14489101 AATATATAAT
**
14489111 AAATATATTTTTTATTTTTTAATTTTA
1 AAATATAAATTTTATTTTTTAATTTTA
*** *
14489138 AAATATTTTTTTTATTTTTTATTTTTA
1 AAATATAAATTTTATTTTTTAATTTTA
14489165 AAATA-AAATTTT
1 AAATATAAATTTT
14489177 GGTGTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
AAATATAAATTTTATTTTTTAATTTTA
Found at i:14489176 original size:27 final size:27
Alignment explanation
Indices: 14489119--14489176 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
14489109 ATAAATATAT
***
14489119 TTTTTATTTTTTAATTTTAAAATATTT
1 TTTTTATTTTTTAATTTTAAAATAAAA
*
14489146 TTTTTATTTTTTATTTTTAAAATAAAA
1 TTTTTATTTTTTAATTTTAAAATAAAA
14489173 TTTT
1 TTTT
14489177 GGTGTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTTTATTTTTTAATTTTAAAATAAAA
Found at i:14494504 original size:52 final size:53
Alignment explanation
Indices: 14494417--14494685 Score: 168
Period size: 52 Copynumber: 5.0 Consensus size: 53
14494407 AATATGTAGG
* *
14494417 TCCCAAACTTTTTCTCTTGAATAAGTTAAT-T--TTTTTTTTTTGAATAAGTTGA
1 TCCCAAACTTTTT-T-TTAAATAAGTTCATCTAATTTTTTTTTTGAATAAGTTGA
* * * *
14494469 TCCCAAACTTTTTTTT-AATAAGTTCATCTAATTTTTTTGTTAAACAAATTGA
1 TCCCAAACTTTTTTTTAAATAAGTTCATCTAATTTTTTTTTTGAATAAGTTGA
* *
14494521 TTCCAAACTTTTTTTTTAAAATAAGTTTATCT--TTTCTTTTTGTTGAATAAGTTGA
1 TCCCAAAC-TTTTTTTT-AAATAAGTTCATCTAATTT-TTTTT-TTGAATAAGTTGA
** * * * *
14494576 TCCC-AA-TTTTTTTTTTATAAGTTCTTCCCAAGCTATTTTTTTTGTGTCTAGATATGTAGA
1 TCCCAAACTTTTTTTTAAATAAGTTCAT-CTAA--T-TTTTTTTT-TG---A-ATAAGTTGA
*
14494636 TCCCAAACTTTTTTTTGAATAAG----T-TAATTTTTTTTGTTGAATAAGTTGA
1 TCCCAAACTTTTTTTTAAATAAGTTCATCTAATTTTTTTT-TTGAATAAGTTGA
14494685 T
1 T
14494686 TCTGTTATGA
Statistics
Matches: 171, Mismatches: 24, Indels: 47
0.71 0.10 0.19
Matches are distributed among these distances:
49 18 0.11
50 4 0.02
51 9 0.05
52 46 0.27
53 20 0.12
54 8 0.05
55 26 0.15
56 10 0.06
57 2 0.01
58 1 0.01
59 1 0.01
60 11 0.06
61 2 0.01
62 13 0.08
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.52
Consensus pattern (53 bp):
TCCCAAACTTTTTTTTAAATAAGTTCATCTAATTTTTTTTTTGAATAAGTTGA
Found at i:14494537 original size:55 final size:52
Alignment explanation
Indices: 14494477--14494599 Score: 133
Period size: 55 Copynumber: 2.3 Consensus size: 52
14494467 GATCCCAAAC
14494477 TTTTTTTTAATAAGTTCATCTAATT-TTTTTGTTAAACAAATTGATTCCAAACTT
1 TTTTTTTTAATAAGTTCATCT-ATTCTTTTTGTTAAACAAATTGA-TCCAAA-TT
* * * * * * *
14494531 TTTTTTTAAAATAAGTTTATCTTTTCTTTTTGTTGAATAAGTTGATCCCAATT
1 TTTTTTT-TAATAAGTTCATCTATTCTTTTTGTTAAACAAATTGATCCAAATT
14494584 TTTTTTTT-ATAAGTTC
1 TTTTTTTTAATAAGTTC
14494600 TTCCCAAGCT
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
51 7 0.12
53 9 0.16
54 14 0.24
55 28 0.48
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (52 bp):
TTTTTTTTAATAAGTTCATCTATTCTTTTTGTTAAACAAATTGATCCAAATT
Found at i:14494586 original size:26 final size:27
Alignment explanation
Indices: 14494449--14494588 Score: 81
Period size: 26 Copynumber: 5.2 Consensus size: 27
14494439 AAGTTAATTT
* *
14494449 TTTTTTTTTGAATAAGTTGATCCCAAAC
1 TTTTTTGTTAAATAAGTTGATCCC-AAC
* * *
14494477 TTTTTT-TT-AATAAGTTCAT-CTAAT
1 TTTTTTGTTAAATAAGTTGATCCCAAC
* * *
14494501 TTTTTTGTTAAACAAATTGATTCCAAAC
1 TTTTTTGTTAAATAAGTTGA-TCCCAAC
* * ****
14494529 TTTTTTTTTAAAATAAGTTTATCTTTTC
1 TTTTTTGTT-AAATAAGTTGATCCCAAC
* *
14494557 -TTTTTGTTGAATAAGTTGATCCCAAT
1 TTTTTTGTTAAATAAGTTGATCCCAAC
14494583 TTTTTT
1 TTTTTT
14494589 TTTATAAGTT
Statistics
Matches: 82, Mismatches: 24, Indels: 13
0.69 0.20 0.11
Matches are distributed among these distances:
24 8 0.10
25 3 0.04
26 28 0.34
27 15 0.18
28 20 0.24
29 8 0.10
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.54
Consensus pattern (27 bp):
TTTTTTGTTAAATAAGTTGATCCCAAC
Found at i:14496936 original size:20 final size:20
Alignment explanation
Indices: 14496898--14496937 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
14496888 TAAATTGTAT
14496898 ATATTTATATGTTTGAATTGA
1 ATATTTATATG-TTGAATTGA
14496919 ATATTGTATATG-TGAATTG
1 ATATT-TATATGTTGAATTG
14496938 TATAAATGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (20 bp):
ATATTTATATGTTGAATTGA
Found at i:14497263 original size:26 final size:26
Alignment explanation
Indices: 14497234--14497284 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
14497224 CCCGATATAT
14497234 GGCTCTTTGTGAGCTT-CTCGATTAAA
1 GGCTCTTTGTGAGCTTCCT-GATTAAA
*
14497260 GGCTCTTTGTGGGCTTCCTGATTAA
1 GGCTCTTTGTGAGCTTCCTGATTAA
14497285 TGGTTCTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCTGATTAAA
Found at i:14497349 original size:25 final size:23
Alignment explanation
Indices: 14497291--14497351 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 23
14497281 TTAATGGTTC
*
14497291 TCTAGAGCTTCCCATTATGACTC
1 TCTAGAGCTTCCCATTATGACTA
* * * *
14497314 GCTTGAACTTCCCGATATATGGCTA
1 TCTAGAGCTTCCC-AT-TATGACTA
14497339 TCTAGAGCTTCCC
1 TCTAGAGCTTCCC
14497352 TTTAATGGCT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
23 10 0.36
24 2 0.07
25 16 0.57
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (23 bp):
TCTAGAGCTTCCCATTATGACTA
Found at i:14497407 original size:72 final size:73
Alignment explanation
Indices: 14497295--14497435 Score: 173
Period size: 72 Copynumber: 1.9 Consensus size: 73
14497285 TGGTTCTCTA
* *
14497295 GAGCTTCCCATTATGACTCGCTTGAACTTCCCGATATATGGCTATCTA-GAGCTTCCCT-TTA-A
1 GAGCTACCCATTATGACTCGCTTGAACTTCCCAATATATGGCT-TCTATGAGCTT-CCTGTTATA
14497357 TGGCTCTTCG
64 TGGCTCTTCG
* * * *
14497367 GAGCTACCCATTATTGGCTTGCTTGAGCTTCCCAAT-TATGGCTTTTATGAGCTTCCTGTTATAT
1 GAGCTACCCATTA-TGACTCGCTTGAACTTCCCAATATATGGCTTCTATGAGCTTCCTGTTATAT
14497431 GGCTC
65 GGCTC
14497436 GAGAGAGGGC
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
71 6 0.10
72 28 0.47
73 25 0.42
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (73 bp):
GAGCTACCCATTATGACTCGCTTGAACTTCCCAATATATGGCTTCTATGAGCTTCCTGTTATATG
GCTCTTCG
Found at i:14502423 original size:30 final size:30
Alignment explanation
Indices: 14502299--14502455 Score: 111
Period size: 29 Copynumber: 5.1 Consensus size: 30
14502289 ACAGATCCCA
* *
14502299 TTTTTTTTT-TGTATAAGTTCACCCCAAAC
1 TTTTTTTTTGTGAATAAGTTCATCCCAAAC
* * * * **
14502328 TTTTTTCTTGTGTCAACAAATTCTTCCTGAAC
1 TTTTTT-TT-TGTGAATAAGTTCATCCCAAAC
* * ** *
14502360 TTTGTTTTTTTGTATAGATATGTAGATCTCAAAC
1 -TT-TTTTTTTGT-GA-ATAAGTTCATCCCAAAC
14502394 TTTTTTTTTGTGAATAAGTTCATCCCAAAC
1 TTTTTTTTTGTGAATAAGTTCATCCCAAAC
* *
14502424 TTTTTTTTT-TGAATAAATTCCTCCCAAAC
1 TTTTTTTTTGTGAATAAGTTCATCCCAAAC
14502453 TTT
1 TTT
14502456 AATTCTTCCT
Statistics
Matches: 96, Mismatches: 25, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
29 27 0.28
30 24 0.25
31 2 0.02
32 24 0.25
33 7 0.07
34 12 0.12
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.49
Consensus pattern (30 bp):
TTTTTTTTTGTGAATAAGTTCATCCCAAAC
Found at i:14502730 original size:39 final size:38
Alignment explanation
Indices: 14502687--14502762 Score: 98
Period size: 39 Copynumber: 2.0 Consensus size: 38
14502677 ATAAATATAC
* * * *
14502687 ATTTTTTTATTTTTTAATAATTTTAAAATAAATTTAATA
1 ATTTTTTGAATTTTTAAAAATTTCAAAAT-AATTTAATA
*
14502726 ATTTTTTGAATTTTTAAAAATTTCAAAATTATTTAAT
1 ATTTTTTGAATTTTTAAAAATTTCAAAATAATTTAAT
14502763 TGTTTATGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
38 7 0.22
39 25 0.78
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (38 bp):
ATTTTTTGAATTTTTAAAAATTTCAAAATAATTTAATA
Found at i:14502755 original size:27 final size:27
Alignment explanation
Indices: 14502716--14502768 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
14502706 ATTTTAAAAT
*
14502716 AAATTTAATAATTTTTTGAATT-TTTAA
1 AAATTTAATAATTATTT-AATTGTTTAA
14502743 AAATTTCAA-AATTATTTAATTGTTTA
1 AAATTT-AATAATTATTTAATTGTTTA
14502769 TGTGGCATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 4 0.17
27 17 0.74
28 2 0.09
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (27 bp):
AAATTTAATAATTATTTAATTGTTTAA
Found at i:14505139 original size:42 final size:42
Alignment explanation
Indices: 14505093--14505206 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
14505083 TTTCACAGGA
** *
14505093 GCGTGTACCTCAGTTGCACGG-CTGTATTTCTCAACCACACGG
1 GCGTGTACCTCAGTCACACGGTC-GTATTTCTCAACCACAAGG
*
14505135 GCGTGTACCTCAGTCACACGGTCGTGTTTCTCAACCACAAGG
1 GCGTGTACCTCAGTCACACGGTCGTATTTCTCAACCACAAGG
* ** * *
14505177 GTGTGTGGCTTAGTCACACGATCGTGATTT
1 GCGTGTACCTCAGTCACACGGTCGT-ATTT
14505207 TCCTACTTCC
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 56 0.93
43 4 0.07
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.28
Consensus pattern (42 bp):
GCGTGTACCTCAGTCACACGGTCGTATTTCTCAACCACAAGG
Found at i:14505146 original size:21 final size:21
Alignment explanation
Indices: 14505122--14505182 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
14505112 GGCTGTATTT
14505122 CTCAACCACACGGGCGTGTAC
1 CTCAACCACACGGGCGTGTAC
** * **
14505143 CTCAGTCACACGGTCGTGTTT
1 CTCAACCACACGGGCGTGTAC
* *
14505164 CTCAACCACAAGGGTGTGT
1 CTCAACCACACGGGCGTGT
14505183 GGCTTAGTCA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (21 bp):
CTCAACCACACGGGCGTGTAC
Found at i:14505448 original size:21 final size:21
Alignment explanation
Indices: 14505422--14505470 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
14505412 CAGCCACACA
14505422 GCCGTGTGC-CTCTATCACATG
1 GCCGTGT-CACTCTATCACATG
* *
14505443 GGCGTGTCACTCTTTCACATG
1 GCCGTGTCACTCTATCACATG
14505464 GCCGTGT
1 GCCGTGT
14505471 AGACCCCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.12, C:0.31, G:0.27, T:0.31
Consensus pattern (21 bp):
GCCGTGTCACTCTATCACATG
Found at i:14511501 original size:21 final size:21
Alignment explanation
Indices: 14511477--14511517 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14511467 ACTATACTAC
14511477 CATGT-ATCTCAGCCACACGGG
1 CATGTGAT-TCAGCCACACGGG
*
14511498 CATGTGATTTAGCCACACGG
1 CATGTGATTCAGCCACACGG
14511518 TCGTGTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.22
Consensus pattern (21 bp):
CATGTGATTCAGCCACACGGG
Found at i:14514144 original size:34 final size:35
Alignment explanation
Indices: 14514058--14514145 Score: 117
Period size: 35 Copynumber: 2.5 Consensus size: 35
14514048 CTTTAAGCTT
14514058 ATAATAGAGTAAGACCATAGTTGGGCTATGACATC
1 ATAATAGAGTAAGACCATAGTTGGGCTATGACATC
* * *
14514093 ATAATAAAGTAAGACCATTGTTGGGCTGT-AGCATC
1 ATAATAGAGTAAGACCATAGTTGGGCTATGA-CATC
*
14514128 AT-ATAGTGTAAGACCATA
1 ATAATAGAGTAAGACCATA
14514146 TCTAAGATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
34 14 0.30
35 32 0.70
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (35 bp):
ATAATAGAGTAAGACCATAGTTGGGCTATGACATC
Found at i:14514731 original size:82 final size:82
Alignment explanation
Indices: 14514609--14514801 Score: 241
Period size: 82 Copynumber: 2.4 Consensus size: 82
14514599 GATTGAAATA
* * * * * * *
14514609 TTTGTCAGG-ATTATCATA-T-CAGGGAAGTTCACCATGGACTATCTTGTGGGACATTCATTGGG
1 TTTGTCAGGTATTATCAAAGTAAAGGGAAGTCCACCATAGACTATCTCGTGGGACATCCATAGGG
*
14514671 ACTATTTATACTAGAGG
66 ACTATTTATACTAGAAG
* *
14514688 TTTGTCAGGTATTATCAAAGTAAAGGGAAGTCCACTATAGACTATCTCGTGGGACGTCCATAGGG
1 TTTGTCAGGTATTATCAAAGTAAAGGGAAGTCCACCATAGACTATCTCGTGGGACATCCATAGGG
14514753 ACTATTTATACTAGAAG
66 ACTATTTATACTAGAAG
* *
14514770 TCTGTC-GTGTATTATCAAAGTAAAAGGAAGTC
1 TTTGTCAG-GTATTATCAAAGTAAAGGGAAGTC
14514802 TTCTAGGATT
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
79 9 0.09
80 8 0.08
81 2 0.02
82 79 0.81
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (82 bp):
TTTGTCAGGTATTATCAAAGTAAAGGGAAGTCCACCATAGACTATCTCGTGGGACATCCATAGGG
ACTATTTATACTAGAAG
Found at i:14517795 original size:25 final size:26
Alignment explanation
Indices: 14517761--14517879 Score: 151
Period size: 25 Copynumber: 4.8 Consensus size: 26
14517751 AGGCTTCATT
*
14517761 ACAAAGGCTTTCCTTTTGGA-TT-GCC
1 ACAAAGGCTTTCCTTTT-CATTTCGCC
*
14517786 ACAAAGGCTTT-CTTTTCAGTTCGCC
1 ACAAAGGCTTTCCTTTTCATTTCGCC
*
14517811 ACAAAGGC-TTCCTTTTCATTTCACC
1 ACAAAGGCTTTCCTTTTCATTTCGCC
*
14517836 ACAAAGGC-TCCCTTTTCATTTCGCC
1 ACAAAGGCTTTCCTTTTCATTTCGCC
14517861 ACAAAGGCTTT-CTTTTCAT
1 ACAAAGGCTTTCCTTTTCAT
14517880 GCGCGTTTAT
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
23 1 0.01
24 9 0.11
25 73 0.87
26 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.36
Consensus pattern (26 bp):
ACAAAGGCTTTCCTTTTCATTTCGCC
Found at i:14518178 original size:13 final size:13
Alignment explanation
Indices: 14518160--14518188 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
14518150 CAATTTAATA
14518160 CAAACTATGCATG
1 CAAACTATGCATG
14518173 CAAACTATGCATG
1 CAAACTATGCATG
14518186 CAA
1 CAA
14518189 GGCCCATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (13 bp):
CAAACTATGCATG
Found at i:14536755 original size:3 final size:3
Alignment explanation
Indices: 14536747--14536801 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
14536737 TTCCCTAAGC
14536747 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14536795 ATA ATA A
1 ATA ATA A
14536802 AAGCTTAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14539969 original size:89 final size:88
Alignment explanation
Indices: 14539818--14540257 Score: 677
Period size: 89 Copynumber: 4.9 Consensus size: 88
14539808 AAAACAAAGA
* * *
14539818 GCTTCGCCACCAGTATGGGAAGACAAGATCTGGTATTTTTGATCTACTTCACGCCAGTACATGAA
1 GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTA-TCTTGATCTACTTCACGCCAGTACATGAA
*
14539883 GACAATG-TCTTCTTTCTTTGATCT
65 GACAA-GATCTGCTTTCTTTGATCT
*
14539907 GCTTCGTCACCAGTATGGGAAGGCAAGATCTGTTATCTTGGATCTACTTCACGCCAGTACATGAA
1 GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTT-GATCTACTTCACGCCAGTACATGAA
14539972 GACAAGATCTGCTTTCTTTGATCT
65 GACAAGATCTGCTTTCTTTGATCT
* * *
14539996 GCTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCAAGCCAGTACATGAA
1 GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATC-TTGATCTACTTCACGCCAGTACATGAA
*
14540061 GATAAGATCTGCTTTCTTTGATCT
65 GACAAGATCTGCTTTCTTTGATCT
*
14540085 GCTTCGCCGCCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAA
1 GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT-TGATCTACTTCACGCCAGTACATGAA
* * *
14540150 GACAAAATCTGTTTTCTTCGATCT
65 GACAAGATCTGCTTTCTTTGATCT
*
14540174 GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTATATGAA
1 GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT-TGATCTACTTCACGCCAGTACATGAA
14540239 GACAAGATCTG-TTATCTTT
65 GACAAGATCTGCTT-TCTTT
14540258 CAACCTGCTC
Statistics
Matches: 324, Mismatches: 22, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
88 7 0.02
89 315 0.97
90 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (88 bp):
GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTGATCTACTTCACGCCAGTACATGAAG
ACAAGATCTGCTTTCTTTGATCT
Found at i:14543233 original size:31 final size:31
Alignment explanation
Indices: 14543198--14543270 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
14543188 AAATTTATTA
* *
14543198 TTTTAGTTAC-TCTAGTTAGTTGAATTTCATG
1 TTTTAGTCACTTCTA-TTAGTTAAATTTCATG
* *
14543229 TTTTAGTCACTTCTATTTGTTAAATTTCTTG
1 TTTTAGTCACTTCTATTAGTTAAATTTCATG
*
14543260 TTTTAGCCACT
1 TTTTAGTCACT
14543271 CCTCATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 32 0.89
32 4 0.11
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (31 bp):
TTTTAGTCACTTCTATTAGTTAAATTTCATG
Found at i:14548357 original size:17 final size:18
Alignment explanation
Indices: 14548329--14548362 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
14548319 GGAGGGGGGA
14548329 TGAGAGGAGAGTAAAAGG
1 TGAGAGGAGAGTAAAAGG
14548347 TGAGA-GAGAGTAAAAG
1 TGAGAGGAGAGTAAAAG
14548363 TTTTGAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.41, T:0.12
Consensus pattern (18 bp):
TGAGAGGAGAGTAAAAGG
Found at i:14549685 original size:13 final size:14
Alignment explanation
Indices: 14549667--14549697 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
14549657 TGAAAAATTT
14549667 TAAAAATAAAAA-A
1 TAAAAATAAAAATA
14549680 TAAAAATAAAAATA
1 TAAAAATAAAAATA
14549694 TAAA
1 TAAA
14549698 CATTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAAAATAAAAATA
Found at i:14552530 original size:43 final size:42
Alignment explanation
Indices: 14552470--14552566 Score: 149
Period size: 43 Copynumber: 2.2 Consensus size: 42
14552460 TTCCTAAAAG
*
14552470 ATAATATCCATTAGGAATCAAATTGCTAAGAGATAATATCAT
1 ATAATATCCATTAGGAATCAAATTGCTAAAAGATAATATCAT
14552512 ATAATATTCCATTAGGAATCAAATTGCTAAAAGATAATATACCAT
1 ATAATA-TCCATTAGGAATCAAATTGCTAAAAGATAATAT--CAT
14552557 AATAATATCC
1 -ATAATATCC
14552567 TAACATCCCC
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
42 6 0.12
43 32 0.64
45 6 0.12
46 6 0.12
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (42 bp):
ATAATATCCATTAGGAATCAAATTGCTAAAAGATAATATCAT
Found at i:14558088 original size:40 final size:40
Alignment explanation
Indices: 14557980--14558090 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 40
14557970 GCGTTATTGA
* *
14557980 CAGTTTATCTGCATCACTGGTGGCTTGTCCACATTACTGG
1 CAGTTTATCTGCATTATTGGTGGCTTGTCCACATTACTGG
* * * * * * *
14558020 TAGCTTGTCTGTAATATTCGTGGCTTGTCCACATTTCTGG
1 CAGTTTATCTGCATTATTGGTGGCTTGTCCACATTACTGG
* *
14558060 CAGTTTATCTACATTATTGGTGGTTTGTCCA
1 CAGTTTATCTGCATTATTGGTGGCTTGTCCA
14558091 TAAGCTGGTG
Statistics
Matches: 54, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.41
Consensus pattern (40 bp):
CAGTTTATCTGCATTATTGGTGGCTTGTCCACATTACTGG
Found at i:14558193 original size:24 final size:24
Alignment explanation
Indices: 14558161--14558208 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
14558151 GTTGGATAGG
*
14558161 ACCTTTTTCTGAAAACACTGCATT
1 ACCTTTTTCTAAAAACACTGCATT
*
14558185 ACCTTTTTCTAAAAACATTGCATT
1 ACCTTTTTCTAAAAACACTGCATT
14558209 GACATGATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (24 bp):
ACCTTTTTCTAAAAACACTGCATT
Found at i:14558856 original size:14 final size:14
Alignment explanation
Indices: 14558845--14558871 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14558835 TTTTCTAATG
14558845 ATACTATTCTAACT
1 ATACTATTCTAACT
14558859 ATACTATTCTAAC
1 ATACTATTCTAAC
14558872 ATGTAATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (14 bp):
ATACTATTCTAACT
Found at i:14560143 original size:14 final size:14
Alignment explanation
Indices: 14560124--14560154 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14560114 AACTTGTAAC
14560124 AAATTTTGTAATAT
1 AAATTTTGTAATAT
*
14560138 AAATTTTGTTATAT
1 AAATTTTGTAATAT
14560152 AAA
1 AAA
14560155 GTAAATACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (14 bp):
AAATTTTGTAATAT
Found at i:14563301 original size:27 final size:27
Alignment explanation
Indices: 14563268--14563341 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
14563258 ATACTAGGTA
14563268 TGTCGCCTATCAGATAGACATCACTAG
1 TGTCGCCTATCAGATAGACATCACTAG
*** *
14563295 TGTCGCCTATCAGATAGGGGTCACTGG
1 TGTCGCCTATCAGATAGACATCACTAG
*
14563322 TGCCGCCTATCAGATAGACA
1 TGTCGCCTATCAGATAGACA
14563342 CCACACCCCT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (27 bp):
TGTCGCCTATCAGATAGACATCACTAG
Found at i:14563713 original size:8 final size:8
Alignment explanation
Indices: 14563700--14563730 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
14563690 GATCGAGAAT
14563700 AAAAAATA
1 AAAAAATA
14563708 AAAAAATAA
1 AAAAAAT-A
14563717 AAAAAATA
1 AAAAAATA
14563725 AAAAAA
1 AAAAAA
14563731 ACAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:14563722 original size:17 final size:17
Alignment explanation
Indices: 14563700--14563739 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
14563690 GATCGAGAAT
14563700 AAAAAATAAAAAAATA-A
1 AAAAAATAAAAAAA-ACA
14563717 AAAAAATAAAAAAAACA
1 AAAAAATAAAAAAAACA
14563734 AAAAAA
1 AAAAAA
14563740 AACACTAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 1 0.05
17 21 0.95
ACGTcount: A:0.90, C:0.03, G:0.00, T:0.07
Consensus pattern (17 bp):
AAAAAATAAAAAAAACA
Found at i:14563736 original size:8 final size:9
Alignment explanation
Indices: 14563700--14563740 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
14563690 GATCGAGAAT
14563700 AAAAAAT-A
1 AAAAAATAA
14563708 AAAAAATAA
1 AAAAAATAA
14563717 AAAAAATAA
1 AAAAAATAA
*
14563726 AAAAAACAA
1 AAAAAATAA
14563735 AAAAAA
1 AAAAAA
14563741 ACACTAGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 7 0.23
9 24 0.77
ACGTcount: A:0.90, C:0.02, G:0.00, T:0.07
Consensus pattern (9 bp):
AAAAAATAA
Found at i:14563847 original size:8 final size:8
Alignment explanation
Indices: 14563834--14563859 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
14563824 TATTATTTTA
14563834 ATTTTAAT
1 ATTTTAAT
14563842 ATTTTAAT
1 ATTTTAAT
14563850 ATTTTAAT
1 ATTTTAAT
14563858 AT
1 AT
14563860 ACTAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTTTAAT
Found at i:14565591 original size:11 final size:11
Alignment explanation
Indices: 14565577--14565617 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
14565567 CTGATTTTAT
14565577 AAATTTTTTTG
1 AAATTTTTTTG
*
14565588 AAATTTTTCT-
1 AAATTTTTTTG
14565598 -AATTTTTTTG
1 AAATTTTTTTG
14565608 ACAATTTTTT
1 A-AATTTTTT
14565618 ATTTTCTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 8 0.32
11 9 0.36
12 8 0.32
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (11 bp):
AAATTTTTTTG
Found at i:14565593 original size:20 final size:21
Alignment explanation
Indices: 14565577--14565616 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
14565567 CTGATTTTAT
14565577 AAATTTTTTTGA-AATTTTTC
1 AAATTTTTTTGACAATTTTTC
*
14565597 TAATTTTTTTGACAATTTTT
1 AAATTTTTTTGACAATTTTT
14565617 TATTTTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (21 bp):
AAATTTTTTTGACAATTTTTC
Found at i:14565595 original size:21 final size:21
Alignment explanation
Indices: 14565571--14565616 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14565561 TTTTGTCTGA
14565571 TTTTATAAATTTTTTTGA-AAT
1 TTTTAT-AATTTTTTTGACAAT
*
14565592 TTTTCTAATTTTTTTGACAAT
1 TTTTATAATTTTTTTGACAAT
14565613 TTTT
1 TTTT
14565617 TATTTTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (21 bp):
TTTTATAATTTTTTTGACAAT
Found at i:14577498 original size:41 final size:41
Alignment explanation
Indices: 14577450--14577638 Score: 179
Period size: 41 Copynumber: 4.7 Consensus size: 41
14577440 ATGGGGTGTT
* *
14577450 ATTCAGGCTTTGTGCATAGCAGGCTTAGCGTCGGTGTATTG
1 ATTCAGGCTTCGTGCCTAGCAGGCTTAGCGTCGGTGTATTG
* * *
14577491 ATTCAGGCTTCATGCCTAGCAAGCTTAGTGTCGGTGTATTG
1 ATTCAGGCTTCGTGCCTAGCAGGCTTAGCGTCGGTGTATTG
* * * * * * *
14577532 ATTCAAGCTTCGTGCTTAGAAAGTTTAGTGTCGGTGTATAG
1 ATTCAGGCTTCGTGCCTAGCAGGCTTAGCGTCGGTGTATTG
** * *
14577573 ATTCAAACTTTGTGTCTAGCAGGCTTA-CTGTCGGTG--TT-
1 ATTCAGGCTTCGTGCCTAGCAGGCTTAGC-GTCGGTGTATTG
**
14577611 ATTCAGGCTTAATGCCTAGCAGGCTTAG
1 ATTCAGGCTTCGTGCCTAGCAGGCTTAG
14577639 TGCCAATGTT
Statistics
Matches: 121, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
38 22 0.18
39 1 0.01
41 98 0.81
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (41 bp):
ATTCAGGCTTCGTGCCTAGCAGGCTTAGCGTCGGTGTATTG
Found at i:14577630 original size:38 final size:39
Alignment explanation
Indices: 14577444--14577674 Score: 162
Period size: 41 Copynumber: 5.8 Consensus size: 39
14577434 ATTAAAATGG
** * *
14577444 GGTGTT-ATTCAGGCTTTGTGCATAGCAGGCTTAGCGTC
1 GGTGTTGATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
* *
14577482 GGTGTATTGATTCAGGCTTCATGCCTAGCAAGCTTAGTGTC
1 GGTG--TTGATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
* ** * * * *
14577523 GGTGTATTGATTCAAGCTTCGTGCTTAGAAAGTTTAGTGTC
1 GGTG--TTGATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
** ** * *
14577564 GGTGTATAGATTCAAACTTTGTGTCTAGCAGGCTTACTGTC
1 GGTGT-T-GATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
*
14577605 GGTGTT-ATTCAGGCTTAATGCCTAGCAGGCTTAGTGCC
1 GGTGTTGATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
** * * *
14577643 AATGTT-ACTCAGGCTTAAAGCCTAGTAGGCTT
1 GGTGTTGATTCAGGCTTAATGCCTAGCAGGCTT
14577675 GATGCTGGTG
Statistics
Matches: 158, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
38 56 0.35
39 1 0.01
40 4 0.03
41 97 0.61
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (39 bp):
GGTGTTGATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
Found at i:14583569 original size:22 final size:22
Alignment explanation
Indices: 14583544--14583586 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
14583534 AACTTAATTC
*
14583544 ACATTTATTGATTGAATGTAAT
1 ACATTTATTAATTGAATGTAAT
14583566 ACATTTATTAATTGAATGTAA
1 ACATTTATTAATTGAATGTAA
14583587 AGGAGCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTAATTGAATGTAAT
Found at i:14585698 original size:17 final size:16
Alignment explanation
Indices: 14585672--14585706 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
14585662 TATTACAATG
14585672 ACATAGAAATAATGTAA
1 ACATAGAAATAATG-AA
*
14585689 ACATATAAATAATGAA
1 ACATAGAAATAATGAA
14585705 AC
1 AC
14585707 TAACAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.23
Consensus pattern (16 bp):
ACATAGAAATAATGAA
Found at i:14585778 original size:18 final size:19
Alignment explanation
Indices: 14585743--14585779 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
14585733 GACATATAAG
14585743 AATATCAAATAAATAAACA
1 AATATCAAATAAATAAACA
14585762 AATAT-AAATGAAA-AAACA
1 AATATCAAAT-AAATAAACA
14585780 TAAGTCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.70, C:0.08, G:0.03, T:0.19
Consensus pattern (19 bp):
AATATCAAATAAATAAACA
Found at i:14586080 original size:18 final size:18
Alignment explanation
Indices: 14586054--14586108 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
14586044 AAAAATATTA
*
14586054 ATATGTATACATACATAT
1 ATATATATACATACATAT
*
14586072 ATATATATACA-AGA-AT
1 ATATATATACATACATAT
* *
14586088 AAATATATATATACATAT
1 ATATATATACATACATAT
14586106 ATA
1 ATA
14586109 GATTATAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
16 11 0.38
17 4 0.14
18 14 0.48
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (18 bp):
ATATATATACATACATAT
Found at i:14586141 original size:21 final size:23
Alignment explanation
Indices: 14586115--14586166 Score: 90
Period size: 21 Copynumber: 2.3 Consensus size: 23
14586105 TATAGATTAT
14586115 AAAAATAATTACA-TATA-TAAA
1 AAAAATAATTACATTATATTAAA
14586136 AAAAATAATTACATTATATTAAA
1 AAAAATAATTACATTATATTAAA
14586159 AAAAATAA
1 AAAAATAA
14586167 ATATGCGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 13 0.45
22 4 0.14
23 12 0.41
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAAATAATTACATTATATTAAA
Found at i:14590098 original size:18 final size:18
Alignment explanation
Indices: 14590070--14590113 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
14590060 AGTAAAATTT
14590070 ATATGAAAATCTCT-GAAGG
1 ATAT-AAAATC-CTAGAAGG
*
14590089 ATTTAAAATCCTAGAAGG
1 ATATAAAATCCTAGAAGG
14590107 ATATAAA
1 ATATAAA
14590114 GTTTCTCGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 17 0.77
19 3 0.14
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.27
Consensus pattern (18 bp):
ATATAAAATCCTAGAAGG
Found at i:14595876 original size:2 final size:2
Alignment explanation
Indices: 14595869--14595901 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14595859 TTTGTTTTAT
14595869 TA 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 TA T
14595902 TTGGTTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14598490 original size:29 final size:28
Alignment explanation
Indices: 14598453--14598532 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 28
14598443 TTAAAATTTT
*
14598453 AAAATATAAAAAATATATTTAGAA-ATTA
1 AAAATATAAAAAATATA-TTAAAAGATTA
*
14598481 AAAATCATAAAAATTATATTAAAAGTATTA
1 AAAAT-ATAAAAAATATATTAAAAG-ATTA
14598511 AAAATATAAAAAAT-TAATTAAA
1 AAAATATAAAAAATAT-ATTAAA
14598533 CCATATATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
28 11 0.24
29 25 0.56
30 9 0.20
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (28 bp):
AAAATATAAAAAATATATTAAAAGATTA
Found at i:14598530 original size:20 final size:20
Alignment explanation
Indices: 14598453--14598532 Score: 53
Period size: 20 Copynumber: 4.1 Consensus size: 20
14598443 TTAAAATTTT
*
14598453 AAAATATAAAAAATATATTTA
1 AAAATATAAAAAAT-TAATTA
* *
14598474 GAAAT-T-AAAAA-TCA-TA
1 AAAATATAAAAAATTAATTA
* *
14598490 AAAATTATATTAAAAGT-ATTA
1 AAAA-TATA-AAAAATTAATTA
14598511 AAAATATAAAAAATTAATTA
1 AAAATATAAAAAATTAATTA
14598531 AA
1 AA
14598533 CCATATATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 15
0.67 0.10 0.22
Matches are distributed among these distances:
16 5 0.11
17 2 0.04
18 1 0.02
19 10 0.22
20 16 0.36
21 11 0.24
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAATATAAAAAATTAATTA
Found at i:14611955 original size:25 final size:25
Alignment explanation
Indices: 14611897--14611959 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
14611887 GAAGAAAGGT
14611897 TTTTCT-TTTTTCCTTTTCTCGATTG
1 TTTTCTCTTTTT-CTTTTCTCGATTG
**
14611922 GGTTC-CTTTTTCTTTTC-CGATTG
1 TTTTCTCTTTTTCTTTTCTCGATTG
14611945 CTTTTCTCTTTTTCT
1 -TTTTCTCTTTTTCT
14611960 GTTTTGCTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 6 0.19
24 9 0.29
25 16 0.52
ACGTcount: A:0.03, C:0.22, G:0.10, T:0.65
Consensus pattern (25 bp):
TTTTCTCTTTTTCTTTTCTCGATTG
Found at i:14611991 original size:12 final size:11
Alignment explanation
Indices: 14611972--14612005 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
14611962 TTTGCTATTA
14611972 AACATATATAT
1 AACATATATAT
14611983 AAGCATATATAT
1 AA-CATATATAT
14611995 -ACATATATAT
1 AACATATATAT
14612005 A
1 A
14612006 TATAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 9 0.43
11 3 0.14
12 9 0.43
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (11 bp):
AACATATATAT
Found at i:14612859 original size:2 final size:2
Alignment explanation
Indices: 14612854--14612879 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14612844 ATATACGTGC
14612854 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
14612880 TATTTAATGT
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:14623608 original size:50 final size:50
Alignment explanation
Indices: 14623522--14623630 Score: 148
Period size: 50 Copynumber: 2.2 Consensus size: 50
14623512 GTGTGTGTCT
*
14623522 AGGCCGTGTAACTCACGGTTTTGGATTTAGGATCACACGGGCGTGCGTCC
1 AGGCCGTGTAACTCACGGTTTTGGATTTAGGATCACACGGGCGTGCGCCC
* * * * *
14623572 AGGCCGTGTAACTTACTGTTTTGGGTTTATGG-TCACATGGGCGTGTGCCC
1 AGGCCGTGTAACTCACGGTTTTGGATTTA-GGATCACACGGGCGTGCGCCC
14623622 AGGCCGTGT
1 AGGCCGTGT
14623631 GAGGGGTTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 50 0.96
51 2 0.04
ACGTcount: A:0.16, C:0.22, G:0.33, T:0.29
Consensus pattern (50 bp):
AGGCCGTGTAACTCACGGTTTTGGATTTAGGATCACACGGGCGTGCGCCC
Found at i:14629878 original size:27 final size:28
Alignment explanation
Indices: 14629841--14629896 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
14629831 AATACTATTT
14629841 CAAAATAG-AAAAACTATTTTGTCTTTC
1 CAAAATAGAAAAAACTATTTTGTCTTTC
*
14629868 CAAAATGGAAAAAAAACTATTTTGTCTTT
1 CAAAAT--AGAAAAAACTATTTTGTCTTT
14629897 TCATGTCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 6 0.24
29 1 0.04
30 18 0.72
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (28 bp):
CAAAATAGAAAAAACTATTTTGTCTTTC
Found at i:14636433 original size:24 final size:24
Alignment explanation
Indices: 14636393--14636439 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14636383 AATGGGAAAT
*
14636393 AAGAGAAAGTGATGGAAAATGTTG
1 AAGAGAAAGTGAAGGAAAATGTTG
*
14636417 AAGAGAAAG-GAAAGGAAAGTGTT
1 AAGAGAAAGTG-AAGGAAAATGTT
14636440 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (24 bp):
AAGAGAAAGTGAAGGAAAATGTTG
Found at i:14639351 original size:6 final size:6
Alignment explanation
Indices: 14639340--14639417 Score: 75
Period size: 6 Copynumber: 12.5 Consensus size: 6
14639330 TTTTGTTCTA
* * *
14639340 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TGTACT ATTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * *
14639388 TTCATT GTTAGTT GTTTTTAT TTTATT TTT
1 TTTATT TTTA-TT -TTTAT-T TTTATT TTT
14639418 GAGACTTATA
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
6 47 0.82
7 7 0.12
8 3 0.05
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:14642974 original size:18 final size:18
Alignment explanation
Indices: 14642951--14642992 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
14642941 CTTAATTTCA
14642951 ATGATTGCTTTGCAAAAG
1 ATGATTGCTTTGCAAAAG
14642969 ATGATTGCTTTGCAAAAG
1 ATGATTGCTTTGCAAAAG
*
14642987 TTGATT
1 ATGATT
14642993 CCCCAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (18 bp):
ATGATTGCTTTGCAAAAG
Done.