Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 162 of 332
Found at i:53557641 original size:17 final size:19
Alignment explanation
Indices: 53557619--53557664 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
53557609 ACATACATAC
53557619 AATAAT-ATTTT-TCTAAT
1 AATAATAATTTTATCTAAT
*
53557636 AATAATAATTTTATCTCAT
1 AATAATAATTTTATCTAAT
*
53557655 AATACTAATT
1 AATAATAATT
53557665 AAAATTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 14 0.56
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAATAATTTTATCTAAT
Found at i:53565868 original size:47 final size:47
Alignment explanation
Indices: 53565797--53566340 Score: 935
Period size: 47 Copynumber: 11.6 Consensus size: 47
53565787 CCCTTCGGGA
* * * * * *
53565797 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
53565844 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53565891 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53565938 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53565985 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53566032 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53566079 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53566126 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53566173 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53566220 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53566267 CTTATCACATATATACACTTTCACATTCACCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53566314 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
53566341 TATTCAAATA
Statistics
Matches: 477, Mismatches: 20, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 477 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53565875 original size:25 final size:25
Alignment explanation
Indices: 53565847--53565925 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
53565837 ACTCGGCCCT
53565847 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
53565872 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
53565894 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
53565919 ATCACAT
1 ATCACAT
53565926 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:53581837 original size:15 final size:15
Alignment explanation
Indices: 53581817--53581891 Score: 71
Period size: 15 Copynumber: 5.0 Consensus size: 15
53581807 TAGGGATTGT
*
53581817 AAGAAAACCAAGATA
1 AAGAAATCCAAGATA
* **
53581832 AAGAAATCCAAAACG
1 AAGAAATCCAAGATA
*
53581847 AAGAAA-CCCAGAATA
1 AAGAAATCCAAG-ATA
*
53581862 AAGAGATCCAAGATA
1 AAGAAATCCAAGATA
*
53581877 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
53581892 CGATACCATA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
14 3 0.07
15 39 0.85
16 4 0.09
ACGTcount: A:0.59, C:0.16, G:0.16, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:53585031 original size:22 final size:22
Alignment explanation
Indices: 53585003--53585124 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
53584993 TTCCACATCC
53585003 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
53585025 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
53585049 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
53585072 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
53585096 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
53585119 ATCACA
1 ATCACA
53585125 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:53585038 original size:47 final size:47
Alignment explanation
Indices: 53584975--53585651 Score: 961
Period size: 47 Copynumber: 14.3 Consensus size: 47
53584965 CCCTTCGGGA
* * *
53584975 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
53585022 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
53585069 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
53585116 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
53585163 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * * *
53585210 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCGTTTGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
53585257 CTTATCACACATACACATGTTCACATTCATCACATTGGCCCTTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
53585304 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
53585351 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
53585398 CTTATCACACATACACATGTTCACATTTATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
53585445 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
53585494 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
53585541 CTTATCACATATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
53585590 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
53585637 CTTATCACATATATA
1 CTTATCACATATATA
53585652 TACACTTTCA
Statistics
Matches: 588, Mismatches: 36, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 497 0.85
49 89 0.15
50 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:53587191 original size:56 final size:56
Alignment explanation
Indices: 53587119--53587238 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
53587109 TATTAGTTTA
*
53587119 TTGCACATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
53587175 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
53587231 TTGCCCAT
1 TTGCCCAT
53587239 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:53594291 original size:81 final size:81
Alignment explanation
Indices: 53594047--53594301 Score: 345
Period size: 81 Copynumber: 3.1 Consensus size: 81
53594037 TTACAAAATG
53594047 ATTGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTACG-GTAGAATTACCGAAATAC
1 ATTGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTA-GAGTAGAATTACCGAAATAC
* * *
53594111 CCATGTAGGTTAGAATT
65 CCCTATAGGGTAGAATT
* * * *
53594128 ACTGAAATACCCCTATAGGGTAGAATTATCAAAATACCCCTGTA-AGGTAGAATTACCGAAATAC
1 ATTGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAGA-GTAGAATTACCGAAATAC
** *
53594192 AACTATAGGGTATAATT
65 CCCTATAGGGTAGAATT
*
53594209 ATTGAAATACCCCTGTAAGGTAGAATTA-CTGAAATACCCTTGTAGAGTAGAATTACCGAAATAC
1 ATTGAAATACCCCTGTAAGGTAGAATTATC-GAAATACCCCTGTAGAGTAGAATTACCGAAATAC
53594273 CCCTATAGGGTAGAATT
65 CCCTATAGGGTAGAATT
* *
53594290 ATCGAGATACCC
1 ATTGAAATACCC
53594302 TTGTGGGGTA
Statistics
Matches: 150, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
80 1 0.01
81 148 0.99
82 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (81 bp):
ATTGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAGAGTAGAATTACCGAAATACC
CCTATAGGGTAGAATT
Found at i:53594310 original size:27 final size:27
Alignment explanation
Indices: 53594050--53594317 Score: 297
Period size: 27 Copynumber: 9.9 Consensus size: 27
53594040 CAAAATGATT
*
53594050 GAAATACCCCTGTAAGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
* *
53594077 GAAATACCCCTGTACGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTATC
* *
53594104 GAAATACCCATGTAGGTTAGAATTA-C
1 GAAATACCCCTGTAGGGTAGAATTATC
*
53594130 TGAAATACCCCTATAGGGTAGAATTATC
1 -GAAATACCCCTGTAGGGTAGAATTATC
* * *
53594158 AAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTATC
** * * *
53594185 GAAATACAACTATAGGGTATAATTATT
1 GAAATACCCCTGTAGGGTAGAATTATC
*
53594212 GAAATACCCCTGTAAGGTAGAATTA-C
1 GAAATACCCCTGTAGGGTAGAATTATC
* * *
53594238 TGAAATACCCTTGTAGAGTAGAATTACC
1 -GAAATACCCCTGTAGGGTAGAATTATC
*
53594266 GAAATACCCCTATAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
* * * *
53594293 GAGATACCCTTGTGGGGTAAAATTA
1 GAAATACCCCTGTAGGGTAGAATTA
53594318 CCATTTTGCC
Statistics
Matches: 199, Mismatches: 38, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.01
27 196 0.98
28 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTATC
Found at i:53594767 original size:22 final size:22
Alignment explanation
Indices: 53594707--53594771 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
53594697 GCCAATTGTT
*
53594707 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
53594729 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
* *
53594751 CTGATTATAGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
53594772 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:53594960 original size:27 final size:26
Alignment explanation
Indices: 53594930--53595029 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 26
53594920 ATTCTGTTAA
* *
53594930 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTG-TTCTG
*
53594957 GTGGCTATGCCATAAATATCTGTTCTG
1 GTGGCTATGCCA-CAATATCTGTTCTG
* *
53594984 ATGGCTATGCCACAAATACCTGTTCTG
1 GTGGCTATGCCAC-AATATCTGTTCTG
* *
53595011 GTGGCTCTGTCACAATATC
1 GTGGCTATGCCACAATATC
53595030 CGTTTCGGCA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
26 5 0.08
27 49 0.80
28 7 0.11
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:53595163 original size:6 final size:6
Alignment explanation
Indices: 53595154--53595238 Score: 93
Period size: 6 Copynumber: 13.8 Consensus size: 6
53595144 TTGCATTCAC
* * *
53595154 ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
53595203 ATTCTG ATTCTG -TTACCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCT
53595239 CATTTTAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
5 3 0.04
6 56 0.84
7 5 0.07
8 3 0.04
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:53595190 original size:19 final size:19
Alignment explanation
Indices: 53595163--53595233 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
53595153 CATTCTGATT
*
53595163 CTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGTAAC
* *
53595182 CTAATTCTGATTC--TAATT
1 CTGATTCTGATTCTGTAA-C
*
53595200 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTAAC
53595219 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
53595234 ATTCTCATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.05
18 12 0.28
19 27 0.63
20 2 0.05
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.46
Consensus pattern (19 bp):
CTGATTCTGATTCTGTAAC
Found at i:53595250 original size:37 final size:37
Alignment explanation
Indices: 53595154--53595238 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
53595144 TTGCATTCAC
53595154 ATTCTGATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTCACCTAATTCTG
* * *
53595191 ATTCTAATTCTGATTCTGATTCTGTTACCTGATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTCACCTAATTCTG
53595228 ATTCTGATTCT
1 ATTCTGATTCT
53595239 CATTTTAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (37 bp):
ATTCTGATTCTGATTCTGATTCTGTCACCTAATTCTG
Found at i:53597319 original size:27 final size:27
Alignment explanation
Indices: 53597291--53597695 Score: 512
Period size: 27 Copynumber: 15.0 Consensus size: 27
53597281 ACAAAATGAT
* *
53597291 TGAAATACCCCTATAGGGTAGAATTAT
1 TGAAATACCCCTGTAGGGTAGAATTAC
53597318 TGAAATACCCCTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* * *
53597345 CGAAATGCCCCTATAGGGTAGAATTA-
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
53597371 TCAAAATACCCCTGTAGGGTAGAATTAC
1 T-GAAATACCCCTGTAGGGTAGAATTAC
* * *
53597399 TGAAATACCCCTATACGGTAAAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* * * *
53597426 CGAAATACTCCTATAGGATAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
53597453 TGAAATACCTCTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
53597480 TGAAATACCCCTGTAGGGTAGAATTA-
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
53597506 TCGAAATACCCCTGTAAGGTAGAATTAC
1 T-GAAATACCCCTGTAGGGTAGAATTAC
* *
53597534 CGAAATACCCCTATAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* *
53597561 TGAAATACCCCTGTAGGGTATAATTAT
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
53597588 TGAAATACCCCTATAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
53597615 TGAAATACCCTTGTAGGGTAGAATTA-
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
53597641 TCAAAATACCCCTGTAGGGTAGAATTAC
1 T-GAAATACCCCTGTAGGGTAGAATTAC
* * * *
53597669 CGAGATACCCTTGT-GGGTTAAAATTAC
1 TGAAATACCCCTGTAGGG-TAGAATTAC
53597696 CATTTTGCCC
Statistics
Matches: 327, Mismatches: 44, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.02
27 321 0.98
28 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
TGAAATACCCCTGTAGGGTAGAATTAC
Found at i:53598136 original size:22 final size:22
Alignment explanation
Indices: 53598084--53598148 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
53598074 GCCAATTATT
* *
53598084 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
53598106 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
53598128 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
53598149 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:53598364 original size:27 final size:27
Alignment explanation
Indices: 53598332--53598441 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
53598322 TATCTATTGT
53598332 TGGTGGCTATGCCACAAATATTTGTTCC
1 TGGTGGCTATGCCACAAATATTTGTT-C
*
53598360 T-GTGGCTATGCCACAAATACTTGTTC
1 TGGTGGCTATGCCACAAATATTTGTTC
*
53598386 TGGTGGCTCTGCCAC-AATATTTGTATC
1 TGGTGGCTATGCCACAAATATTTGT-TC
* * * *
53598413 TGGTGACTCTGTCAC-AATATCTGTTC
1 TGGTGGCTATGCCACAAATATTTGTTC
53598439 TGG
1 TGG
53598442 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.20
27 58 0.78
28 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (27 bp):
TGGTGGCTATGCCACAAATATTTGTTC
Found at i:53598429 original size:54 final size:53
Alignment explanation
Indices: 53598314--53598441 Score: 127
Period size: 54 Copynumber: 2.4 Consensus size: 53
53598304 TAAGTGGCTT
* * * *
53598314 TGCCACATTATCTATTGTTGGTGGCTATGCCACAAATATTTGTTCCTGTGGCTA
1 TGCCACAATATCTGTT-CTGGTGGCTATGCCACAAATATTTGTTCCTGTGACTA
* *
53598368 TGCCACAA-ATACTTGTTCTGGTGGCTCTGCCAC-AATATTTGTAT-CTGGTGACTC
1 TGCCACAATAT-C-TGTTCTGGTGGCTATGCCACAAATATTTGT-TCCT-GTGACTA
*
53598422 TGTCACAATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
53598442 CAGCCATGCT
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
53 21 0.34
54 36 0.58
55 5 0.08
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (53 bp):
TGCCACAATATCTGTTCTGGTGGCTATGCCACAAATATTTGTTCCTGTGACTA
Found at i:53598769 original size:19 final size:18
Alignment explanation
Indices: 53598737--53598780 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
53598727 ATGAAATTTT
*
53598737 AATTAGTATCATTAGATAA
1 AATTATTATCATTAGA-AA
*
53598756 AATTATTATTATTAGAAA
1 AATTATTATCATTAGAAA
53598774 AA-TATTA
1 AATTATTA
53598781 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (18 bp):
AATTATTATCATTAGAAA
Found at i:53602840 original size:79 final size:81
Alignment explanation
Indices: 53602672--53602856 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
53602662 GCTACTCGTT
* *
53602672 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
53602736 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * **
53602753 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGTACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
53602815 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
*
53602832 CAAAGCCTTCGGGACTTATCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
53602857 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:53602856 original size:40 final size:40
Alignment explanation
Indices: 53602653--53602856 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
53602643 CGGAATTTAA
** *
53602653 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53602693 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53602733 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53602772 CCGGA-ATTAGTAACTCGTACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
53602812 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTATC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
53602852 CCGGA
1 CCGGA
53602857 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 11 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:53605195 original size:9 final size:10
Alignment explanation
Indices: 53605174--53605241 Score: 57
Period size: 10 Copynumber: 6.5 Consensus size: 10
53605164 TGATTCAGTT
53605174 TTTTCTTCTTC
1 TTTTC-TCTTC
53605185 TTTTC-CTTC
1 TTTTCTCTTC
*
53605194 TTTTCTTTTC
1 TTTTCTCTTC
*
53605204 TTTTCTTTTC
1 TTTTCTCTTC
* *
53605214 TCTTCATCTAC
1 TTTTC-TCTTC
53605225 TTTATCTTCTTC
1 TTT-TC-TCTTC
53605237 TTTTC
1 TTTTC
53605242 CTCCATAGCC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
9 9 0.19
10 17 0.36
11 12 0.26
12 9 0.19
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTCTCTTC
Found at i:53605201 original size:5 final size:5
Alignment explanation
Indices: 53605174--53605214 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
53605164 TGATTCAGTT
*
53605174 TTTTC TTCTTC TTTTC -CTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
53605215 CTTCATCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.09
5 24 0.75
6 5 0.16
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:53606318 original size:28 final size:27
Alignment explanation
Indices: 53606287--53606349 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
53606277 AATTACTAGA
* *
53606287 ATACCCCTAAGTATGGAAAATTACCATT
1 ATACCCCTAAG-ATGAAAAATGACCATT
*
53606315 ATACCCCT-AGGTGAAAAATGACCATT
1 ATACCCCTAAGATGAAAAATGACCATT
*
53606341 TTACCCCTA
1 ATACCCCTA
53606350 GGGTTAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 20 0.67
27 2 0.07
28 8 0.27
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGAAAAATGACCATT
Found at i:53608716 original size:17 final size:19
Alignment explanation
Indices: 53608674--53608717 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
53608664 ATGAAATTTT
*
53608674 AATTAGTATTATCAGATAA
1 AATTATTATTATCAGATAA
*
53608693 AATTATTATTATTAGA-AA
1 AATTATTATTATCAGATAA
53608711 AA-TATTA
1 AATTATTA
53608718 CTGTATGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (19 bp):
AATTATTATTATCAGATAA
Found at i:53608829 original size:15 final size:15
Alignment explanation
Indices: 53608809--53608837 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
53608799 ATATTTATAA
53608809 AATTATTATCATTAT
1 AATTATTATCATTAT
53608824 AATTATTATCATTA
1 AATTATTATCATTA
53608838 GATAGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTATTATCATTAT
Found at i:53613148 original size:28 final size:27
Alignment explanation
Indices: 53613117--53613179 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
53613107 AATTACTAGA
* *
53613117 ATACCCCTAAGTATGGAAAATTACCATT
1 ATACCCCTAAG-ATGAAAAATGACCATT
*
53613145 ATACCCCT-AGGTGAAAAATGACCATT
1 ATACCCCTAAGATGAAAAATGACCATT
*
53613171 TTACCCCTA
1 ATACCCCTA
53613180 GGGTTAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 20 0.67
27 2 0.07
28 8 0.27
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGAAAAATGACCATT
Found at i:53615405 original size:27 final size:27
Alignment explanation
Indices: 53615371--53615615 Score: 292
Period size: 27 Copynumber: 9.1 Consensus size: 27
53615361 TTACAAAATG
53615371 ACTGAAATACCCCTGTAGGGTAGAATT
1 ACTGAAATACCCCTGTAGGGTAGAATT
* * * *
53615398 ATTTAAATACCCATGTAAGGTAGAATT
1 ACTGAAATACCCCTGTAGGGTAGAATT
* * *
53615425 ACCGAAATATCCATGTAGGGTAGAATT
1 ACTGAAATACCCCTGTAGGGTAGAATT
* *
53615452 ACTGAAATACCCCTATAGGATAGAATT
1 ACTGAAATACCCCTGTAGGGTAGAATT
**
53615479 ACTGAAATACCCCTGTATAGTAGAATT
1 ACTGAAATACCCCTGTAGGGTAGAATT
** * * *
53615506 ACAAAAATACCCCTATACGATAGAATT
1 ACTGAAATACCCCTGTAGGGTAGAATT
*
53615533 ACCGAAATACCCCTGTAGGGTAGAATT
1 ACTGAAATACCCCTGTAGGGTAGAATT
53615560 ACTGAAATACCCCTGTAGGGTAGAATT
1 ACTGAAATACCCCTGTAGGGTAGAATT
* * * * *
53615587 ACCGAGATACCCTTGTGGGGTAAAATT
1 ACTGAAATACCCCTGTAGGGTAGAATT
53615614 AC
1 AC
53615616 CATTTTGCCC
Statistics
Matches: 183, Mismatches: 35, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 183 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
ACTGAAATACCCCTGTAGGGTAGAATT
Found at i:53616055 original size:22 final size:22
Alignment explanation
Indices: 53616003--53616067 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
53615993 GCCAATTATT
* *
53616003 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
* *
53616025 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
53616047 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
53616068 ACATATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:53616255 original size:27 final size:26
Alignment explanation
Indices: 53616225--53616329 Score: 77
Period size: 27 Copynumber: 3.9 Consensus size: 26
53616215 TATTCTGTTA
*
53616225 AGTGGCTTTGCCAAATTATCTGTTTCT
1 AGTGGCTATGCCAAA-TATCTGTTTCT
*
53616252 AGTGGCTATGCAACAAATACCTG-TTCT
1 AGTGGCTATGC--CAAATATCTGTTTCT
* * *
53616279 GGTGGCTCTGCCACAATATCTGTATCT
1 AGTGGCTATGCCA-AATATCTGTTTCT
* * * *
53616306 GGTGACTCTGTCACAATATCTGTT
1 AGTGGCTATGCCA-AATATCTGTT
53616330 CTGACGACCA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
25 2 0.03
26 7 0.11
27 47 0.72
28 5 0.08
29 4 0.06
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (26 bp):
AGTGGCTATGCCAAATATCTGTTTCT
Found at i:53616527 original size:18 final size:18
Alignment explanation
Indices: 53616504--53616541 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
53616494 TCACCTAATC
53616504 CTGATTCAAATTTTGATT
1 CTGATTCAAATTTTGATT
**
53616522 CTGATTCTCATTTTGATT
1 CTGATTCAAATTTTGATT
53616540 CT
1 CT
53616542 AGTTCTGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.11, T:0.53
Consensus pattern (18 bp):
CTGATTCAAATTTTGATT
Found at i:53620190 original size:17 final size:17
Alignment explanation
Indices: 53620168--53620206 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
53620158 GTTAGTGAAC
* *
53620168 ATTTTCGTTGCATTTTT
1 ATTTTCATTGCATTTTA
53620185 ATTTTCATTGCATTTTA
1 ATTTTCATTGCATTTTA
53620202 ATTTT
1 ATTTT
53620207 AGTGCATTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.64
Consensus pattern (17 bp):
ATTTTCATTGCATTTTA
Found at i:53620212 original size:16 final size:17
Alignment explanation
Indices: 53620176--53620214 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
53620166 ACATTTTCGT
* *
53620176 TGCATTTTTATTTTCAT
1 TGCATTTTAATTTTCAG
53620193 TGCATTTTAATTTT-AG
1 TGCATTTTAATTTTCAG
53620209 TGCATT
1 TGCATT
53620215 GGGGACAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (17 bp):
TGCATTTTAATTTTCAG
Found at i:53627265 original size:27 final size:27
Alignment explanation
Indices: 53627182--53627523 Score: 128
Period size: 27 Copynumber: 13.0 Consensus size: 27
53627172 AAATTACTGT
*
53627182 AATACCCTCGACTTGTAAAATTACCAA
1 AATACCCTCGATTTGTAAAATTACCAA
* * * *
53627209 AGTACCCCCGATTTATAAAATTACCCA
1 AATACCCTCGATTTGTAAAATTACCAA
*
53627236 AATATCCTCGATTTGTAAAATTACCAA
1 AATACCCTCGATTTGTAAAATTACCAA
* * *
53627263 AATA----AGA----TAGAATTACCAT
1 AATACCCTCGATTTGTAAAATTACCAA
** * * * **
53627282 TTTACCCTCGATTTATAGAATTATCGT
1 AATACCCTCGATTTGTAAAATTACCAA
** * * **
53627309 TTTACCCTCGATTTATAGAATTACCGT
1 AATACCCTCGATTTGTAAAATTACCAA
** ** * **
53627336 TTTACCCTCGATTTACAGAATTACCGT
1 AATACCCTCGATTTGTAAAATTACCAA
** ** * *
53627363 CTTACCCTCGATTTACAGAATTACCAT
1 AATACCCTCGATTTGTAAAATTACCAA
** * * *
53627390 TTTACCCTCGATTTATAGAATTACCAT
1 AATACCCTCGATTTGTAAAATTACCAA
** ** **
53627417 TTTACCCTCGATTTACAAAATTACTGA
1 AATACCCTCGATTTGTAAAATTACCAA
* * **
53627444 AATACCCTTGTTTTACAAAATTACCAA
1 AATACCCTCGATTTGTAAAATTACCAA
*
53627471 AATACCCTCGA-TCGATAAAATTACCAA
1 AATACCCTCGATTTG-TAAAATTACCAA
*
53627498 AATACCC-CTGGTTTGTAAAATTACCA
1 AATACCCTC-GATTTGTAAAATTACCA
53627524 TTTTGCCCCT
Statistics
Matches: 262, Mismatches: 42, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
19 12 0.05
23 4 0.02
26 2 0.01
27 242 0.92
28 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (27 bp):
AATACCCTCGATTTGTAAAATTACCAA
Found at i:53627314 original size:54 final size:54
Alignment explanation
Indices: 53627269--53627440 Score: 272
Period size: 54 Copynumber: 3.2 Consensus size: 54
53627259 CCAAAATAAG
*
53627269 ATAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT
* * *
53627323 ATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT
* *
53627377 ACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT
* *
53627431 ACAAAATTAC
1 ATAGAATTAC
53627441 TGAAATACCC
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (54 bp):
ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT
Found at i:53627372 original size:81 final size:81
Alignment explanation
Indices: 53627271--53627440 Score: 277
Period size: 81 Copynumber: 2.1 Consensus size: 81
53627261 AAAATAAGAT
* * * * *
53627271 AGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAATTACCGT
1 AGAATTACCATCTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCAT
53627336 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
*
53627352 AGAATTACCGTCTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCAT
1 AGAATTACCATCTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCAT
53627417 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
*
53627433 AAAATTAC
1 AGAATTAC
53627441 TGAAATACCC
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (81 bp):
AGAATTACCATCTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCAT
TTTACCCTCGATTTAC
Found at i:53627450 original size:54 final size:54
Alignment explanation
Indices: 53627284--53627527 Score: 204
Period size: 54 Copynumber: 4.5 Consensus size: 54
53627274 ATTACCATTT
* * * * ***
53627284 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAA
* * * * **
53627338 TACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTTACAGAATTACC-ATTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGA-AA
*
53627392 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTGAAA
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAA
* * * * *** ** * *
53627446 TACCCTTGTTTTACAAAATTACCAAAATACCCTCGATCGATAAAATTACCAAAA
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAA
* * *
53627500 TACCC-CTGGTTTGTAAAATTACCATTTT
1 TACCCTC-GATTTATAGAATTACCATTTT
53627528 GCCCCTAGGG
Statistics
Matches: 156, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
54 155 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAA
Found at i:53627450 original size:81 final size:81
Alignment explanation
Indices: 53627284--53627496 Score: 264
Period size: 81 Copynumber: 2.6 Consensus size: 81
53627274 ATTACCATTT
* * * *
53627284 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
* ***
53627349 TACAGAATTACCGTCT
66 TACAAAATTACCGAAA
53627365 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
*
53627430 TACAAAATTACTGAAA
66 TACAAAATTACCGAAA
* * * *** ** *
53627446 TACCCTTGTTTTACAAAATTACCAAAATACCCTCGATCGATAAAATTACCA
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCA
53627497 AAATACCCCT
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 114 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
TACAAAATTACCGAAA
Found at i:53627948 original size:6 final size:6
Alignment explanation
Indices: 53627917--53628004 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
53627907 TTACATTCAC
* * *
53627917 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ACTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
53627966 -TCACCTG ATTCTG ATTCTG ATTCTA ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
53628005 AATGTTTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 3 0.05
6 53 0.82
7 7 0.11
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:53627953 original size:31 final size:31
Alignment explanation
Indices: 53627917--53627989 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
53627907 TTACATTCAC
* * *
53627917 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGACTCTGTCACCTGATACTG
*
53627948 ATTCTGATTCTGACTCTGTCACCTGATTCTG
1 ATTCTGATTCTGACTCTGTCACCTGATACTG
53627979 ATTCTGATTCT
1 ATTCTGATTCT
53627990 AATTCTAGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGACTCTGTCACCTGATACTG
Found at i:53629307 original size:40 final size:40
Alignment explanation
Indices: 53629238--53629409 Score: 224
Period size: 40 Copynumber: 4.3 Consensus size: 40
53629228 ACCCAAGTAT
* *
53629238 CTTCGGGAT-TTAG-CCAGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
53629277 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
53629317 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
53629357 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
53629397 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
53629410 TCCGTTATCA
Statistics
Matches: 115, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 99 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:53640827 original size:55 final size:54
Alignment explanation
Indices: 53640742--53640859 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 54
53640732 TAGTCCCACA
*
53640742 CCCGTGTTAATCTAACAGGTTCGACCACAGTTGCTT-GGCACGGGCGTGTCGCACG
1 CCCGTGTTAATCTAACAGGTTCGACCACAGTT--TTAGGCACGGGCGTGTCGAACG
* * * * * *
53640797 CCCGTGTTAATTTGACAGGTTTGGCTACAGTTTTAAGGCACGGGGGTGTCGAACG
1 CCCGTGTTAATCTAACAGGTTCGACCACAGTTTT-AGGCACGGGCGTGTCGAACG
*
53640852 CCCTTGTT
1 CCCGTGTT
53640860 GTTTTGGCAG
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.04
55 51 0.96
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.28
Consensus pattern (54 bp):
CCCGTGTTAATCTAACAGGTTCGACCACAGTTTTAGGCACGGGCGTGTCGAACG
Found at i:53646281 original size:13 final size:12
Alignment explanation
Indices: 53646248--53646290 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
53646238 CTGCCAAGAG
53646248 AAATAA-AAAGTA
1 AAATAATAAA-TA
*
53646260 AATTAATAAATA
1 AAATAATAAATA
53646272 ATAATAATAAATA
1 A-AATAATAAATA
53646285 AAATAA
1 AAATAA
53646291 AATTAACTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 13 0.48
13 14 0.52
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (12 bp):
AAATAATAAATA
Found at i:53648583 original size:14 final size:15
Alignment explanation
Indices: 53648564--53648606 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
53648554 TTTGTATTGA
53648564 TTGATGTTTTGAA-T
1 TTGATGTTTTGAATT
*
53648578 TTGATGTTTTAAATT
1 TTGATGTTTTGAATT
53648593 TTGATAGTTTTGAA
1 TTGAT-GTTTTGAA
53648607 ATGTATATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 6 0.24
16 7 0.28
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (15 bp):
TTGATGTTTTGAATT
Found at i:53655572 original size:56 final size:56
Alignment explanation
Indices: 53655486--53655605 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
53655476 ACAAGGGATG
53655486 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
53655542 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
53655598 ATGGGCAA
1 ATGGGCAA
53655606 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:53656963 original size:40 final size:40
Alignment explanation
Indices: 53656732--53656956 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
53656722 TCGAATGATG
* * * *
53656732 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
53656772 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
53656812 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
53656851 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
53656891 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
53656932 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53656957 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.20
40 119 0.74
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53656979 original size:119 final size:119
Alignment explanation
Indices: 53656739--53656989 Score: 278
Period size: 119 Copynumber: 2.1 Consensus size: 119
53656729 ATGTCCGGGC
*
53656739 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
* ** *
53656804 ATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTATTAAATCCGAGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCGAGT
* * * **
53656858 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * * *
53656921 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCG-GT
64 AGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAATCCGAGT
* *
53656977 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
53656990 TACGTGATTT
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 77 0.69
120 31 0.28
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCGAGT
Found at i:53660842 original size:58 final size:53
Alignment explanation
Indices: 53660731--53660849 Score: 193
Period size: 58 Copynumber: 2.2 Consensus size: 53
53660721 ACAAGGGATG
53660731 ATGGGCAAAACTGTCATGAAACATGTTGTGTTATGGAAAATAAAATAAGAAGC
1 ATGGGCAAAACTGTCATGAAACATGTTGTGTTATGGAAAATAAAATAAGAAGC
53660784 ATGGGCAAAACATGTCAATGAAACATGTTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAAC-TGTC-ATGAAACATG-TTGTGTT-ATGGAA-AATAAAATAAGAAGC
53660842 ATGGGCAA
1 ATGGGCAA
53660850 TAAACTAATA
Statistics
Matches: 61, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
53 11 0.18
54 4 0.07
55 10 0.16
56 7 0.11
57 6 0.10
58 23 0.38
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.24
Consensus pattern (53 bp):
ATGGGCAAAACTGTCATGAAACATGTTGTGTTATGGAAAATAAAATAAGAAGC
Found at i:53662071 original size:39 final size:40
Alignment explanation
Indices: 53661971--53662191 Score: 247
Period size: 39 Copynumber: 5.6 Consensus size: 40
53661961 TTCGAATGAG
* * * *
53661971 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
53662011 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
53662051 TCCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
53662090 TCCGAGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
53662129 TCCGGGTTAAGTCCCGAAGGCATTTGT-CGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
53662169 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
53662192 GAACGAGTAG
Statistics
Matches: 154, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
39 98 0.64
40 48 0.31
41 8 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53664930 original size:46 final size:46
Alignment explanation
Indices: 53664863--53665078 Score: 208
Period size: 46 Copynumber: 4.7 Consensus size: 46
53664853 TGTAACCTGC
* * * *
53664863 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCTTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCTTTCACAT
** *
53664909 CCATAAGTGAACTTGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--G-CT--TTCACAT
* * * *
53664959 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGGCATTCACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCTTTCACAT
* * * *
53665002 CCATAAGTGAACTCAGACTCAACTCAACGAG-TTGAGACGTTCTCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCG-GGCTTTCACAT
53665048 CCATAAGTGAACTCAGACTCAACTCAACGAG
1 CCATAAGTGAACTCAGACTCAACTCAACGAG
53665079 TTCAGATGCC
Statistics
Matches: 144, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 2 0.01
45 5 0.03
46 96 0.67
47 24 0.17
48 3 0.02
49 3 0.02
50 3 0.02
51 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCTTTCACAT
Found at i:53667869 original size:15 final size:15
Alignment explanation
Indices: 53667821--53667889 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
53667811 TAAAGATAAC
*
53667821 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
* *
53667835 AAGAAATCCA-AGATT
1 AAGAAACCCAGA-ATA
*
53667850 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
* *
53667865 AAGAAATCTAGAATA
1 AAGAAACCCAGAATA
53667880 AAGAAACCCA
1 AAGAAACCCA
53667890 AGATACGATA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
14 9 0.21
15 32 0.76
16 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:53667885 original size:30 final size:30
Alignment explanation
Indices: 53667821--53667889 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
53667811 TAAAGATAAC
* *
53667821 AAGAAAACC-GAATAAAGAAATCCAAGATT
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
* *
53667850 GAGAAACCCAGAATAAAGAAAT-CTAGAATA
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATA
53667880 AAGAAACCCA
1 AAGAAACCCA
53667890 AGATACGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 10 0.30
30 23 0.70
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:53670989 original size:46 final size:46
Alignment explanation
Indices: 53670818--53671084 Score: 212
Period size: 46 Copynumber: 5.8 Consensus size: 46
53670808 TGTAACTCGC
* * *
53670818 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGG-AGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCAGTT-GCAT
* * *
53670864 CCATAAGTGAACTCGGACTCAACTCATCGAGTTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GGC-AGTTGCAT
* * *
53670914 CTCA-CA---AACTCGGAATCAAGTCAACGAGTTCGGGCA-TTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCAGTT-GCAT
* *
53670957 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-AGTTGCAT
* * * *
53671007 -C-TCA-CGAACTCGTACTTAACTCAACGAGTTCGGGC-GTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCAG-TTGCAT
*
53671050 CCATAAGTGAACTCGGACTCAAATCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
53671085 TATGCCTAAA
Statistics
Matches: 173, Mismatches: 28, Indels: 40
0.72 0.12 0.17
Matches are distributed among these distances:
42 5 0.03
43 11 0.06
44 4 0.02
45 3 0.02
46 79 0.46
47 48 0.28
48 3 0.02
49 3 0.02
50 9 0.05
51 8 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCAGTTGCAT
Found at i:53670989 original size:93 final size:92
Alignment explanation
Indices: 53670827--53671092 Score: 374
Period size: 93 Copynumber: 2.9 Consensus size: 92
53670817 CCCATAAGCG
* *
53670827 AACTCGGACTCAACTCAACAAGCTCGGG-AGTTCGCATCCATAAGTGAACTCGGACTCAACTC-A
1 AACTCGGACTCAACTCAACGAGTTCGGGCA-TTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53670890 TCGAGTTCAGATGCCTAGTTACATCTCACA
65 T-GAGTTC-GATGCCTAGTTACATCTCACA
* *
53670920 AACTCGGAATCAAGTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
1 AACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
*
53670985 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTC-GATGCCTAGTTACATCTCACA
* * * * * *
53671013 AACTCGTACTTAACTCAACGAGTTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAAATCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
53671078 GAGTTCGTATGCCTA
66 GAGTTCG-ATGCCTA
53671093 AATATCCGAA
Statistics
Matches: 156, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 152 0.97
94 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (92 bp):
AACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
GAGTTCGATGCCTAGTTACATCTCACA
Found at i:53677000 original size:6 final size:6
Alignment explanation
Indices: 53676970--53677094 Score: 78
Period size: 6 Copynumber: 20.3 Consensus size: 6
53676960 AAGAAACATT
* * * *
53676970 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
53677019 ATCAGA ATTAGA ATCAGA ATCAAA ATTAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
53677068 ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
53677095 GTGAATGTAA
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
5 5 0.06
6 74 0.82
7 8 0.09
8 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:53677026 original size:31 final size:31
Alignment explanation
Indices: 53676984--53677094 Score: 100
Period size: 31 Copynumber: 3.6 Consensus size: 31
53676974 GAACTAGAAT
* *
53676984 CAAAATGAGAATCAGAATCAGAATCAGGTGA
1 CAAAATCAGAATCAGAATCAGAATCAGGTAA
* *
53677015 CAAAATCAGAATTAGAATCAGAATCA--AAA
1 CAAAATCAGAATCAGAATCAGAATCAGGTAA
** ** *
53677044 TTAGGTGACAGAATCAGAATCAGTATCAGGTAA
1 CAAAAT--CAGAATCAGAATCAGAATCAGGTAA
*
53677077 CAGAATCAGAATCAGAAT
1 CAAAATCAGAATCAGAAT
53677095 GTGAATGTAA
Statistics
Matches: 60, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
29 3 0.05
31 54 0.90
33 3 0.05
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
CAAAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:53677032 original size:37 final size:37
Alignment explanation
Indices: 53676981--53677085 Score: 122
Period size: 37 Copynumber: 2.8 Consensus size: 37
53676971 TCAGAACTAG
* *
53676981 AATCAAAATGAGAATCAGAATCAGAATCAGGTGACAA
1 AATCAGAATCAGAATCAGAATCAGAATCAGGTGACAA
* * * *
53677018 AATCAGAATTAGAATCAGAATCAAAATTAGGTGACAG
1 AATCAGAATCAGAATCAGAATCAGAATCAGGTGACAA
*
53677055 AATCAGAATCAGTATCAGGTAA-CAGAATCAG
1 AATCAGAATCAGAATCA-G-AATCAGAATCAG
53677086 AATCAGAATG
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
37 47 0.82
38 8 0.14
39 2 0.04
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAGAATCAGGTGACAA
Found at i:53677091 original size:25 final size:25
Alignment explanation
Indices: 53677028--53677094 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
53677018 AATCAGAATT
* * *
53677028 AGAATCAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
53677053 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
53677078 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
53677095 GTGAATGTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:53677449 original size:22 final size:22
Alignment explanation
Indices: 53677421--53677480 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
53677411 GAAAATACGT
*
53677421 TTGGCACACAGTCATA-GTCAGG
1 TTGGCACACAGCCATATG-CAGG
*
53677443 TTGGCACAGAGCCATATGCAGG
1 TTGGCACACAGCCATATGCAGG
* *
53677465 TTGGCGCAAAGCCATA
1 TTGGCACACAGCCATA
53677481 ATCAGAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.20
Consensus pattern (22 bp):
TTGGCACACAGCCATATGCAGG
Found at i:53677892 original size:27 final size:27
Alignment explanation
Indices: 53677862--53677947 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
53677852 TTAACACCCT
* *
53677862 AGGGGAAAAATGGTAATTCTACCCTAC
1 AGGGGATATATGGTAATTCTACCCTAC
* *
53677889 AGGGG-TATTTCGGTATTTCTACCCTAC
1 AGGGGATATAT-GGTAATTCTACCCTAC
* *
53677916 AAGGGTATTTAT-GTAATTCTACCCTAC
1 -AGGGGATATATGGTAATTCTACCCTAC
53677943 AGGGG
1 AGGGG
53677948 TATTTCAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
26 6 0.13
27 34 0.72
28 4 0.09
29 3 0.06
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (27 bp):
AGGGGATATATGGTAATTCTACCCTAC
Found at i:53677948 original size:27 final size:27
Alignment explanation
Indices: 53677873--53677952 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
53677863 GGGGAAAAAT
*
53677873 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
* *
53677900 GGTATTTCTACCCTACAAGGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTA
*
53677927 TGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
53677953 CAATAATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTA
Found at i:53678252 original size:19 final size:19
Alignment explanation
Indices: 53678228--53678278 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
53678218 GGCTCGTAGG
53678228 CCCTTTGGGCCCACACGGC
1 CCCTTTGGGCCCACACGGC
*
53678247 CCCTTTGGGCCCACATGGC
1 CCCTTTGGGCCCACACGGC
*
53678266 CCCTTTCGGCCCA
1 CCCTTTGGGCCCA
53678279 TCGTGGCCCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.10, C:0.47, G:0.24, T:0.20
Consensus pattern (19 bp):
CCCTTTGGGCCCACACGGC
Found at i:53684283 original size:78 final size:78
Alignment explanation
Indices: 53684189--53684345 Score: 260
Period size: 78 Copynumber: 2.0 Consensus size: 78
53684179 GACATTGGCG
*
53684189 TAGGCATATGAGTAATTAATATGATTACAACCCATTAGCCCATATAAGCCAATTTATATAGCTAC
1 TAGGCATATGAGTAATTAATATGATTACAACCCATTAGCCCATATAAGCCAATTTATATAGATAC
53684254 ATACCAAATCAAA
66 ATACCAAATCAAA
** * *
53684267 TAGGCATATGAGTAATTAATATGATTGGAACTCATTAGCCCATATAAGCCAATTTATATGGATAC
1 TAGGCATATGAGTAATTAATATGATTACAACCCATTAGCCCATATAAGCCAATTTATATAGATAC
*
53684332 ATACCATATCAAA
66 ATACCAAATCAAA
53684345 T
1 T
53684346 CCTTATTCAT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (78 bp):
TAGGCATATGAGTAATTAATATGATTACAACCCATTAGCCCATATAAGCCAATTTATATAGATAC
ATACCAAATCAAA
Found at i:53687153 original size:20 final size:20
Alignment explanation
Indices: 53687128--53687172 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
53687118 AGGGACTAAA
**
53687128 ATGAAAAATTGTAAAATTTG
1 ATGAAAAATTCAAAAATTTG
*
53687148 ATGAAAAATTCAAAAATTTT
1 ATGAAAAATTCAAAAATTTG
53687168 ATGAA
1 ATGAA
53687173 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.33
Consensus pattern (20 bp):
ATGAAAAATTCAAAAATTTG
Found at i:53693494 original size:20 final size:20
Alignment explanation
Indices: 53693466--53693528 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
53693456 ATTCATTTTT
*
53693466 ATTCGTATAAACTGTAATTC
1 ATTCATATAAACTGTAATTC
*
53693486 ATTCATAT-AACTAGTAGTTC
1 ATTCATATAAACT-GTAATTC
* * *
53693506 ATCCATATAACCAGTAATTC
1 ATTCATATAAACTGTAATTC
53693526 ATT
1 ATT
53693529 AGTAATAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
19 4 0.12
20 28 0.82
21 2 0.06
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (20 bp):
ATTCATATAAACTGTAATTC
Found at i:53693544 original size:20 final size:20
Alignment explanation
Indices: 53693518--53693587 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
53693508 CCATATAACC
*
53693518 AGTAATTCAT-TAGTAATAAT
1 AGTAATTCATCT-GTATTAAT
* * *
53693538 AGCAATTTATCTGTATTAAC
1 AGTAATTCATCTGTATTAAT
53693558 AGTAATTCATCTGTATTAAT
1 AGTAATTCATCTGTATTAAT
53693578 AGTAATTCAT
1 AGTAATTCAT
53693588 TCATTTCAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 41 0.98
21 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
AGTAATTCATCTGTATTAAT
Found at i:53693846 original size:44 final size:44
Alignment explanation
Indices: 53693763--53693909 Score: 165
Period size: 44 Copynumber: 3.3 Consensus size: 44
53693753 CCTAAACTGA
**
53693763 TAAA-AGTAAGCTCTATTGAGCTGAA-ATGGTAAGCTCTATCGAGC
1 TAAATAGTAAGCTCTATCAAGCTGAACA--GTAAGCTCTATCGAGC
* *
53693807 TAAATAGTAAGCTCTATCATGTTGAACAGTAAGCTCTATCGAGC
1 TAAATAGTAAGCTCTATCAAGCTGAACAGTAAGCTCTATCGAGC
* *
53693851 TAAACAGTAAGCTCTATCAAGCTGAACAATAAGCT-TATACGAGC
1 TAAATAGTAAGCTCTATCAAGCTGAACAGTAAGCTCTAT-CGAGC
* *
53693895 TGAATTGGTAAGCTC
1 T-AAATAGTAAGCTC
53693910 CAATGAGCTG
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
43 3 0.03
44 57 0.65
45 27 0.31
46 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (44 bp):
TAAATAGTAAGCTCTATCAAGCTGAACAGTAAGCTCTATCGAGC
Found at i:53693896 original size:22 final size:22
Alignment explanation
Indices: 53693767--53693898 Score: 144
Period size: 22 Copynumber: 6.0 Consensus size: 22
53693757 AACTGATAAA
*
53693767 AGTAAGCTCTATTGAGCTGAA-
1 AGTAAGCTCTATCGAGCTGAAC
* *
53693788 ATGGTAAGCTCTATCGAGCTAAAT
1 A--GTAAGCTCTATCGAGCTGAAC
*
53693812 AGTAAGCTCTATC-ATGTTGAAC
1 AGTAAGCTCTATCGA-GCTGAAC
*
53693834 AGTAAGCTCTATCGAGCTAAAC
1 AGTAAGCTCTATCGAGCTGAAC
*
53693856 AGTAAGCTCTATCAAGCTGAAC
1 AGTAAGCTCTATCGAGCTGAAC
*
53693878 AATAAGCT-TATACGAGCTGAA
1 AGTAAGCTCTAT-CGAGCTGAA
53693899 TTGGTAAGCT
Statistics
Matches: 94, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
21 5 0.05
22 69 0.73
23 19 0.20
24 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (22 bp):
AGTAAGCTCTATCGAGCTGAAC
Found at i:53701064 original size:51 final size:51
Alignment explanation
Indices: 53700965--53701085 Score: 120
Period size: 51 Copynumber: 2.4 Consensus size: 51
53700955 ATGGATACCC
** * *
53700965 AGTGGCCTACACATAGTACCACCCTTGTAGTCAAAGCTACCTTATTCACAA
1 AGTGGCCTACACATAGTACCACAATTGTAGTCAAAACCACCTTATTCACAA
* * *
53701016 AGTGGCCTTCACATAGTACCACAATTGT-GATCAAAACCATCTCT-TTCACAT
1 AGTGGCCTACACATAGTACCACAATTGTAG-TCAAAACCACCT-TATTCACAA
* * *
53701067 AGTGTCCTGCACTTAGTAC
1 AGTGGCCTACACATAGTAC
53701086 TATACATGTG
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
50 1 0.02
51 56 0.97
52 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (51 bp):
AGTGGCCTACACATAGTACCACAATTGTAGTCAAAACCACCTTATTCACAA
Found at i:53707151 original size:20 final size:20
Alignment explanation
Indices: 53707126--53707169 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
53707116 AGGGACTAAA
* *
53707126 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
53707146 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
53707166 ATGA
1 ATGA
53707170 TTACATGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:53718816 original size:54 final size:54
Alignment explanation
Indices: 53718722--53718856 Score: 191
Period size: 54 Copynumber: 2.5 Consensus size: 54
53718712 GGGGAAAAAT
* *
53718722 GGTAATTTTACCCCACAA-GGTATCTCAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * *
53718775 GGTATTTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * *
53718829 AGTAATTTTACCCTATAGGGGTATTTCA
1 GGTAATTTTACCCTACAAGGGTATTTCA
53718857 ATCATTTTGT
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 16 0.23
54 55 0.77
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:53718864 original size:27 final size:27
Alignment explanation
Indices: 53718723--53718856 Score: 162
Period size: 27 Copynumber: 5.0 Consensus size: 27
53718713 GGGAAAAATG
* * *
53718723 GTAATTTTACCCCACA-AGGTATCTCA
1 GTAATTTTACCCTACAGGGGTATTTCA
* *
53718749 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTTTACCCTACAGGGGTATTTCA
* * *
53718776 GTATTTTTACCCTACAAGGGTATTTCG
1 GTAATTTTACCCTACAGGGGTATTTCA
* *
53718803 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCTACAGGGGTATTTCA
*
53718830 GTAATTTTACCCTATAGGGGTATTTCA
1 GTAATTTTACCCTACAGGGGTATTTCA
53718857 ATCATTTTGT
Statistics
Matches: 91, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 14 0.15
27 77 0.85
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTTTACCCTACAGGGGTATTTCA
Found at i:53719133 original size:27 final size:27
Alignment explanation
Indices: 53718900--53719112 Score: 284
Period size: 27 Copynumber: 7.9 Consensus size: 27
53718890 CTGTAAATCG
* * *
53718900 GGGGTACTTTGGTAATTTTAC-AAGTC
1 GGGGTATTTTGGTAATTTTACAAACTA
* * *
53718926 GAGGGTATTTTAGTAATTTCACAAATTA
1 G-GGGTATTTTGGTAATTTTACAAACTA
* *
53718954 GGGGTATTTTGATAATTTCACAAACTA
1 GGGGTATTTTGGTAATTTTACAAACTA
*
53718981 GGGGTATTTTTGTAATTTTACAAACTA
1 GGGGTATTTTGGTAATTTTACAAACTA
*
53719008 GGGGTATTTTGGTAATTTCACAAACTA
1 GGGGTATTTTGGTAATTTTACAAACTA
* * *
53719035 TGGGTATTTTGGTAAATTTACAAACCA
1 GGGGTATTTTGGTAATTTTACAAACTA
*
53719062 GGGGTATTTTGGTAATTTTACAAACCA
1 GGGGTATTTTGGTAATTTTACAAACTA
53719089 GGGGTATTTTGGTAATTTTACAAA
1 GGGGTATTTTGGTAATTTTACAAA
53719113 TTGAGGGCAT
Statistics
Matches: 166, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 161 0.97
28 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGGTATTTTGGTAATTTTACAAACTA
Found at i:53720642 original size:37 final size:37
Alignment explanation
Indices: 53720592--53720665 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
53720582 ATAGTGTTAG
53720592 CCAGTAGACTCACAAGTCGCTTTGAAACAATACAAAT
1 CCAGTAGACTCACAAGTCGCTTTGAAACAATACAAAT
53720629 CCAGTAGACTCACAAGTCGCTTTGAAACAATACAAAT
1 CCAGTAGACTCACAAGTCGCTTTGAAACAATACAAAT
53720666 GACTAAGAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.22
Consensus pattern (37 bp):
CCAGTAGACTCACAAGTCGCTTTGAAACAATACAAAT
Found at i:53728191 original size:42 final size:42
Alignment explanation
Indices: 53728135--53728258 Score: 187
Period size: 42 Copynumber: 3.0 Consensus size: 42
53728125 TCTCGATATA
53728135 ATATATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAAT
1 ATATATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAAT
* * *
53728177 ATATATATCTGGGTTAAATCCCGCCGGCTTCGTGCTGGTAAT
1 ATATATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAAT
* *
53728219 ATATATATCCAGGTTAAAT-CCAGCAGGCTTAGTGCTGGTA
1 ATATATATCCGGGTTAAATCCCA-CAGGCTTCGTGCTGGTA
53728259 CTATTTCCGG
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 2 0.03
42 71 0.97
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (42 bp):
ATATATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAAT
Found at i:53729830 original size:28 final size:32
Alignment explanation
Indices: 53729798--53729861 Score: 91
Period size: 30 Copynumber: 2.1 Consensus size: 32
53729788 ATCGTATATG
*
53729798 TTTATA-TC-TATTTCCAAATTG-ATTA-GTA
1 TTTATATTCATATTACCAAATTGAATTAGGTA
53729826 TTTATATTCATATTACCAAATTGAATTAGGTA
1 TTTATATTCATATTACCAAATTGAATTAGGTA
53729858 TTTA
1 TTTA
53729862 ATGATTTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 6 0.19
29 2 0.06
30 12 0.39
31 4 0.13
32 7 0.23
ACGTcount: A:0.34, C:0.09, G:0.08, T:0.48
Consensus pattern (32 bp):
TTTATATTCATATTACCAAATTGAATTAGGTA
Found at i:53730076 original size:41 final size:42
Alignment explanation
Indices: 53729978--53730115 Score: 163
Period size: 43 Copynumber: 3.3 Consensus size: 42
53729968 TGTGAATTCA
53729978 TGTAAGACCATGTCTAGGACATTGGCATCGA-AGTGATAAAACG
1 TGTAAGACCATGTCTAGGACATTGGCATCGATA-T-ATAAAACG
* **
53730021 TGTAAGACCATGTCTGGGACATTGGCATC-ATATATAACTCG
1 TGTAAGACCATGTCTAGGACATTGGCATCGATATATAAAACG
* * * *
53730062 TGTAAGACCTTGTCTAGGACAGTGGCATCGATATATGATAACA
1 TGTAAGACCATGTCTAGGACATTGGCATCGATATAT-AAAACG
*
53730105 TTTAAGACCAT
1 TGTAAGACCAT
53730116 ATTTGGGATA
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
41 32 0.40
42 8 0.10
43 40 0.50
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGATATATAAAACG
Found at i:53730123 original size:84 final size:83
Alignment explanation
Indices: 53729978--53730131 Score: 195
Period size: 84 Copynumber: 1.8 Consensus size: 83
53729968 TGTGAATTCA
* * *
53729978 TGTAAGACCATGTCTAGGACATTGGCATCGAAGTGATAAAACGTGTAAGACCATGTCTGGGACAT
1 TGTAAGACCATGTCTAGGACAGTGGCATCGAAGTGATAAAACATGTAAGACCATATCTGGGACA-
53730043 TGGCATCATATATAACTCG
65 TGGCATCATATATAACTCG
* * * * *
53730062 TGTAAGACCTTGTCTAGGACAGTGGCATCGATA-T-ATGATAACATTTAAGACCATATTTGGGAT
1 TGTAAGACCATGTCTAGGACAGTGGCATCGA-AGTGAT-AAAACATGTAAGACCATATCTGGGAC
53730125 ATGGCAT
64 ATGGCAT
53730132 TTTACGAGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
83 8 0.13
84 51 0.85
85 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (83 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCGAAGTGATAAAACATGTAAGACCATATCTGGGACAT
GGCATCATATATAACTCG
Found at i:53732205 original size:14 final size:14
Alignment explanation
Indices: 53732186--53732224 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
53732176 GTCCCTTAAC
*
53732186 TAACTTTAGAAAAA
1 TAACTTTACAAAAA
*
53732200 TAACTTTACAAAAT
1 TAACTTTACAAAAA
53732214 TAACTCTTACA
1 TAACT-TTACA
53732225 CTGGCTCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (14 bp):
TAACTTTACAAAAA
Found at i:53744221 original size:49 final size:50
Alignment explanation
Indices: 53744161--53744303 Score: 148
Period size: 51 Copynumber: 2.8 Consensus size: 50
53744151 AAGGTGGAAG
* * *
53744161 CAGTGGTAGTATATCTGTAAATTAGTGGTGGCTTGTCC-CAAAAAT-TTGT
1 CAGTGGCAGTATATCT-TAAATCAGTGGTGGCTTGTCCACAAAAATGTTAT
* * * *
53744210 CAGTGGCAGTATATCTTCATACCAATGGTGGCTTGTCCACAAAAGTGTTAT
1 CAGTGGCAGTATATCTT-AAATCAGTGGTGGCTTGTCCACAAAAATGTTAT
* *
53744261 CAGTGGCAGCT-TATCTACAAATCAGTGGTGTCTTGTCCACAAA
1 CAGTGGCAG-TATATCT-TAAATCAGTGGTGGCTTGTCCACAAA
53744304 TGGTGTAACA
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
48 1 0.01
49 31 0.40
50 6 0.08
51 38 0.49
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (50 bp):
CAGTGGCAGTATATCTTAAATCAGTGGTGGCTTGTCCACAAAAATGTTAT
Found at i:53744842 original size:23 final size:23
Alignment explanation
Indices: 53744816--53744877 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
53744806 AATTTATTGA
*
53744816 ATTTATATTAAACAAGTTGTTTT
1 ATTTATACTAAACAAGTTGTTTT
* * *
53744839 ATTTTTCCTAATCAAGTTGTTTT
1 ATTTATACTAAACAAGTTGTTTT
**
53744862 ATAAATACTAAACAAG
1 ATTTATACTAAACAAG
53744878 GGTTCTTTCA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (23 bp):
ATTTATACTAAACAAGTTGTTTT
Found at i:53747805 original size:15 final size:15
Alignment explanation
Indices: 53747785--53747817 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
53747775 GATTTCTTGT
53747785 TTTTCATTTATTTAC
1 TTTTCATTTATTTAC
*
53747800 TTTTCATTTATTTCC
1 TTTTCATTTATTTAC
53747815 TTT
1 TTT
53747818 CTTATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCATTTATTTAC
Found at i:53748820 original size:21 final size:20
Alignment explanation
Indices: 53748783--53748822 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
53748773 AACATGTGTC
*
53748783 TTGAAGTTTCTTGATAGATT
1 TTGAAGTTTCTTAATAGATT
*
53748803 TTGAATGTTTGTTAATAGAT
1 TTGAA-GTTTCTTAATAGAT
53748823 ATACAAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.50
Consensus pattern (20 bp):
TTGAAGTTTCTTAATAGATT
Found at i:53749346 original size:47 final size:46
Alignment explanation
Indices: 53749278--53749395 Score: 161
Period size: 47 Copynumber: 2.6 Consensus size: 46
53749268 ATAGCTTCAG
53749278 ATATATATATTTGCACTTAGTGTGCAAGATTGATACAACTTCGGCT
1 ATATATATATTTGCACTTAGTGTGCAAGATTGATACAACTTCGGCT
* *
53749324 ATATATATATTATGCACTTAGTGTGCGAGATTGATACAACTTTGGCT
1 ATATATATATT-TGCACTTAGTGTGCAAGATTGATACAACTTCGGCT
* * *
53749371 A-CT-TAT-TTGGCACTAAGTGTGCAAG
1 ATATATATATTTGCACTTAGTGTGCAAG
53749396 TTTTTTGAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
43 14 0.22
44 2 0.03
45 3 0.05
46 12 0.18
47 34 0.52
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (46 bp):
ATATATATATTTGCACTTAGTGTGCAAGATTGATACAACTTCGGCT
Found at i:53753755 original size:119 final size:120
Alignment explanation
Indices: 53753573--53753795 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
53753563 TCCTCGTTCA
*
53753573 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
53753638 TTAGTAAC-TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACC
* * **
53753693 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
53753755 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGAATTAACCCGGA
53753796 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACC
Found at i:53753795 original size:40 final size:40
Alignment explanation
Indices: 53753571--53753795 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
53753561 GCTCCTCGTT
* *
53753571 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
53753611 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
53753651 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
53753691 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
53753730 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
53753771 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53753796 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 118 0.73
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:53761502 original size:40 final size:40
Alignment explanation
Indices: 53761472--53761643 Score: 210
Period size: 40 Copynumber: 4.3 Consensus size: 40
53761462 GCTCCTCGTT
*
53761472 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
*
53761512 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCA
53761552 CAAATGCCTTCGGGA-ATTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACA-TAACCCGG-TTATAGTAACTCGCA
* * * * *
53761592 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTA-TAGTAACTCGCA
53761631 CAAATGCCTTCGG
1 CAAATGCCTTCGG
53761644 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
39 30 0.25
40 86 0.73
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
Found at i:53761576 original size:80 final size:81
Alignment explanation
Indices: 53761472--53761696 Score: 284
Period size: 80 Copynumber: 2.8 Consensus size: 81
53761462 GCTCCTCGTT
*
53761472 CAAATGCCTTCGGGACA-TAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACATTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
53761536 GATTTAGTAACTCGCA
66 GAATTAGTAACTCGCA
* *
53761552 CAAATGCCTTCGGGA-ATTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCC
1 CAAATGCCTTCGGGACATTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
53761614 GGAATTAGTATCTCGCA
65 GGAATTAGTAACTCGCA
* * * * *
53761631 CAAATGCCTTC-GGATC-TTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CATTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
53761693 CGGA
64 CGGA
53761697 CATCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
78 4 0.03
79 55 0.44
80 65 0.52
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACATTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
GAATTAGTAACTCGCA
Found at i:53761656 original size:119 final size:120
Alignment explanation
Indices: 53761474--53761696 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
53761464 TCCTCGTTCA
*
53761474 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
53761539 TTAGTAAC-TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACC
* * **
53761594 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
53761656 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGAATTAACCCGGA
53761697 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACC
Found at i:53764479 original size:27 final size:26
Alignment explanation
Indices: 53764435--53764537 Score: 80
Period size: 27 Copynumber: 3.9 Consensus size: 26
53764425 TTAGTTTACC
* *
53764435 AAATTACTAAAATACCCCCAGTTGTA
1 AAATTACCAAAATACCCCCAGTTATA
* *
53764461 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCCC-AGTTATA
* * * * *
53764488 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCAAAATA-CCCCCAGTTATA
* * *
53764515 AAATTATCGAAATACCCTCAGTT
1 AAATTACCAAAATACCCCCAGTT
53764538 TGCACAATTA
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
26 22 0.37
27 35 0.58
28 3 0.05
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (26 bp):
AAATTACCAAAATACCCCCAGTTATA
Found at i:53764531 original size:54 final size:54
Alignment explanation
Indices: 53764435--53764628 Score: 198
Period size: 54 Copynumber: 3.6 Consensus size: 54
53764425 TTAGTTTACC
* * * * * *
53764435 AAATTACTAAAATACCC-CCAGTTGTAAAATTA-CCAAAGTACCCCCGATTTATA
1 AAATTACTCAAATACCCTCGATTTGTAAAATTATCGAAA-TACCCTCGATTTGTA
* * *
53764488 AAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAATACCCTC-AGTTTGCA
1 AAATTACTCAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGA-TTTGTA
* * * *
53764542 CAATTACTGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTCAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* *
53764596 AAATTA-TCAAAGTACCCCCGATTTGTAGAATTA
1 AAATTACTCAAA-TACCCTCGATTTGTAAAATTA
53764629 CAATTTTACC
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
53 19 0.16
54 92 0.79
55 5 0.04
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (54 bp):
AAATTACTCAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
Found at i:53764539 original size:27 final size:27
Alignment explanation
Indices: 53764456--53764628 Score: 174
Period size: 27 Copynumber: 6.4 Consensus size: 27
53764446 ATACCCCCAG
* *
53764456 TTGTAAAATTA-CCAAAGTACCCCCGAT
1 TTGTAAAATTATCGAAA-TACCCTCGAT
* * * *
53764483 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTATCGAAATACCCTCGAT
53764510 TTGTAAAATTATCGAAATACCCTC-AGT
1 TTGTAAAATTATCGAAATACCCTCGA-T
* *
53764537 TTGCACAATTA-CTGAAATACCCTCGAT
1 TTGTAAAATTATC-GAAATACCCTCGAT
* *
53764564 TTGTAAAATTATTGAAATACCCTCGAC
1 TTGTAAAATTATCGAAATACCCTCGAT
*
53764591 TTGTAAAATTATC-AAAGTACCCCCGAT
1 TTGTAAAATTATCGAAA-TACCCTCGAT
*
53764618 TTGTAGAATTA
1 TTGTAAAATTA
53764629 CAATTTTACC
Statistics
Matches: 123, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.04
27 112 0.91
28 6 0.05
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTATCGAAATACCCTCGAT
Found at i:53764628 original size:81 final size:80
Alignment explanation
Indices: 53764444--53764629 Score: 205
Period size: 81 Copynumber: 2.3 Consensus size: 80
53764434 CAAATTACTA
* *
53764444 AAATACCCCCAGTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAAATATCCTCGA
1 AAATACCCCCATTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAAATACCCTCGA
*
53764509 TTTGTAAAATTATCG
66 CTTGTAAAATTATCG
* * * * * * ***
53764524 AAATACCCTCAGTTTGCACAATTACTGAAA-TACCCTCGATTTGTAAAATTATTGAAATACCCTC
1 AAATACCCCCA-TTTGTAAAATTAC-CAAAGTACCCCCGATTTATAAAATTACCCAAATACCCTC
53764588 GACTTGTAAAATTATC-
64 GACTTGTAAAATTATCG
*
53764604 AAAGTACCCCCGATTTGTAGAATTAC
1 AAA-TACCCCC-ATTTGTAAAATTAC
53764630 AATTTTACCC
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
80 13 0.15
81 70 0.80
82 4 0.05
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (80 bp):
AAATACCCCCATTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAAATACCCTCGA
CTTGTAAAATTATCG
Found at i:53764681 original size:27 final size:27
Alignment explanation
Indices: 53764659--53765274 Score: 750
Period size: 27 Copynumber: 22.9 Consensus size: 27
53764649 AAAATTATTA
*
53764659 AAATACCCCTGCAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
53764686 AAATACCCTTGAAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
53764713 AAATACCCTTGTAGGGTAGAAATACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
53764740 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
53764767 AAATACCCCTGTAGGGTAGAGTTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
53764794 AAATACCCCTGTAGGGTAGAAATACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
53764821 AAATTCCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
53764848 AAATA-CCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
53764874 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
53764901 AAATACCCTTGTA-GGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
53764927 AAATACCCTTGTAAGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
53764954 AAATACCCCTGTAAGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACCG
53764981 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
53765008 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
53765035 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
53765062 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
** * *
53765089 AAATACCGTTGTAGGGTAAAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
53765116 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
53765143 AAATACTCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
53765170 AAATACCCCTGTAGGATAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
53765197 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
53765224 AAATACCCCTGCAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
53765251 AGATACGCTTGTAGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
53765275 TCATTTTTCC
Statistics
Matches: 512, Mismatches: 75, Indels: 4
0.87 0.13 0.01
Matches are distributed among these distances:
26 46 0.09
27 466 0.91
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:53765949 original size:27 final size:26
Alignment explanation
Indices: 53765892--53765962 Score: 97
Period size: 27 Copynumber: 2.7 Consensus size: 26
53765882 AGTGGCTTTT
* * *
53765892 CCACATTATCTGTTCTAGTGGCTCTG
1 CCACAATATCTGTTCTGGTGACTCTG
53765918 CCACAATATCTGTATCTGGTGACTCTG
1 CCACAATATCTGT-TCTGGTGACTCTG
*
53765945 TCACAATATCTGTTCTGG
1 CCACAATATCTGTTCTGG
53765963 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 17 0.43
27 23 0.57
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (26 bp):
CCACAATATCTGTTCTGGTGACTCTG
Found at i:53776931 original size:39 final size:40
Alignment explanation
Indices: 53776823--53777007 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
53776813 TCGAATGATG
* * * *
53776823 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
53776863 TCCGGACTAA-TATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGT-CCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
53776903 TCCGGGCTAAG-CCCGAAGGTATTGGTGCGACTCACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
53776942 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
53776983 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53777008 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
39 33 0.28
40 76 0.64
41 9 0.08
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53778689 original size:43 final size:43
Alignment explanation
Indices: 53778593--53778695 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 43
53778583 TTGTATTGTA
* *
53778593 ATTACGTGTAAGACCATGTCTGCGACATTGGCATCGTTAATCG
1 ATTACGTGTAAGACCATGTCTGCGACAGTGGCATCGATAATCG
* * * *
53778636 ATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGAT-ATGTG
1 ATTACGTGTAAGACCATGTCTGCGACAGTGGCATCGATAAT-CG
*
53778679 ATTACATGTAAGACCAT
1 ATTACGTGTAAGACCAT
53778696 ATATGGGATA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 2 0.04
43 48 0.96
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (43 bp):
ATTACGTGTAAGACCATGTCTGCGACAGTGGCATCGATAATCG
Found at i:53778703 original size:43 final size:42
Alignment explanation
Indices: 53778593--53778711 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
53778583 TTGTATTGTA
* *
53778593 ATTACGTGTAAGACCATGTCTGCGACATTGGCATCGTTAATCG
1 ATTACGTGTAAGACCATGTCTGGGACA-TGGCATCGATAATCG
* * *
53778636 ATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGAT-ATGTG
1 ATTACGTGTAAGACCATGTCTGGGACA-TGGCATCGATAAT-CG
* * * *
53778679 ATTACATGTAAGACCATATATGGGATATGGCAT
1 ATTACGTGTAAGACCATGTCTGGGACATGGCAT
53778712 TGTATGAGCT
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 8 0.13
43 55 0.87
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
ATTACGTGTAAGACCATGTCTGGGACATGGCATCGATAATCG
Found at i:53781680 original size:93 final size:93
Alignment explanation
Indices: 53781554--53781724 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
53781544 GCCCATAAGT
* *
53781554 GAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCAAACTCCACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
53781619 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * ***
53781647 GAACTCGGACTCAGCTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
*
53781712 CGAGTTCGGATGC
66 CGAGCTCGGATGC
53781725 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:53781711 original size:46 final size:46
Alignment explanation
Indices: 53781546--53781721 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
53781536 TGTAAACCGC
* *
53781546 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
** * *
53781592 CCATAAGTGAACTCAAACTCCACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
53781638 ACATCTCTCGAACTCGGACTCAGCTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
53781685 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
53781722 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 64 0.63
47 28 0.27
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:53784129 original size:15 final size:15
Alignment explanation
Indices: 53784103--53784158 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
53784093 CAAGGAAAAT
53784103 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
53784118 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
53784133 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
53784148 GAATAAAGAAA
1 GAATAAAGAAA
53784159 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:53787180 original size:93 final size:93
Alignment explanation
Indices: 53787068--53787238 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
53787058 GCCCATAAGT
* *
53787068 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53787133 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
53787161 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
53787226 CGAGTTCGGATGC
66 CGAGCTCGGATGC
53787239 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:53787235 original size:46 final size:46
Alignment explanation
Indices: 53787060--53787235 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
53787050 TGTAACCCGC
* *
53787060 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
53787106 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
53787152 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
53787199 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
53787236 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:53789646 original size:15 final size:15
Alignment explanation
Indices: 53789622--53789684 Score: 83
Period size: 15 Copynumber: 4.2 Consensus size: 15
53789612 AGGAAACCGA
53789622 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
53789637 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
53789651 AATAAAGAAATCCAAA
1 -ATAAAGAAATCCAAG
*
53789667 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
53789682 ATA
1 ATA
53789685 CGATACCATG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 2 0.05
15 38 0.93
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.13, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:53791553 original size:40 final size:40
Alignment explanation
Indices: 53791486--53791662 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
53791476 ACCCAAGTAT
*
53791486 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
53791525 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
53791565 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
53791605 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
53791645 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
53791663 TTATCATCCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:53799928 original size:40 final size:39
Alignment explanation
Indices: 53799871--53800056 Score: 157
Period size: 39 Copynumber: 4.7 Consensus size: 39
53799861 TTGAATGATG
*
53799871 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AAGAT-ACCA-A
* *
53799911 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACCAA
* *
53799950 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACCAA
* * * * * * *
53799989 TTCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATAC-CAA
**
53800028 TCCGGGTTAAG-TCCCGAAGGCATTTGTGC
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC
53800057 GAGTTACTAT
Statistics
Matches: 128, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
38 21 0.16
39 60 0.47
40 38 0.30
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACCAA
Found at i:53800060 original size:40 final size:40
Alignment explanation
Indices: 53799871--53800093 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
53799861 TTGAATGATG
* * * *
53799871 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
53799911 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
53799950 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
53799989 TTCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
53800028 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
53800069 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53800094 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 22 0.14
39 60 0.37
40 70 0.43
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53807936 original size:40 final size:40
Alignment explanation
Indices: 53807754--53807974 Score: 228
Period size: 40 Copynumber: 5.7 Consensus size: 40
53807744 TTGAATGATG
* * *
53807754 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
53807794 TCC-GACTAAGAT--CGAAGGCATTTGGGCGAGATACT--A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
53807830 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
53807870 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
53807909 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTA-AA
*
53807950 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53807975 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 12, Indels: 20
0.83 0.06 0.10
Matches are distributed among these distances:
36 4 0.03
37 9 0.06
38 31 0.19
39 49 0.31
40 64 0.40
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:53807946 original size:79 final size:77
Alignment explanation
Indices: 53807754--53807974 Score: 243
Period size: 79 Copynumber: 2.8 Consensus size: 77
53807744 TTGAATGATG
* * * * **
53807754 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC-GACTAAGATCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGCCCGAAGGCATTT
53807817 GGGCGAGATACTA
65 GGGCGAGATACTA
* *
53807830 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAGCCCGAAGGCATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGCCCGAAGGCATT
* *
53807893 TGTGCGAGTTACTAAA
64 TGGGCGAGATACT--A
* * *
53807909 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAG-CCCGAAGGCATTT
53807974 G
65 G
53807975 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
75 1 0.01
76 26 0.21
77 35 0.29
78 1 0.01
79 43 0.36
80 15 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (77 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGCCCGAAGGCATTTG
GGCGAGATACTA
Found at i:53807996 original size:79 final size:79
Alignment explanation
Indices: 53807843--53808007 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
53807833 GGACTAAGAT
* **
53807843 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
53807908 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
53807922 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
53807985 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
53808001 CCGAAGG
1 CCGAAGG
53808008 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:53809661 original size:39 final size:40
Alignment explanation
Indices: 53809536--53809720 Score: 173
Period size: 40 Copynumber: 4.7 Consensus size: 40
53809526 GCTACTCGTT
* ** * *
53809536 CAAATGCCTTCGGGACATAGCCATG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACA
* * * *
53809576 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACA
*
53809616 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACA
* * * *
53809655 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAACTCA-CA
53809696 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53809721 CATCATTCGA
Statistics
Matches: 123, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 77 0.63
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACA
Found at i:53809704 original size:79 final size:80
Alignment explanation
Indices: 53809564--53809720 Score: 194
Period size: 79 Copynumber: 2.0 Consensus size: 80
53809554 AGCCATGTTA
* * * *
53809564 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACCAATGCCTTCGG
1 TAGTAACTCACACAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACCAAAGCCTTCGG
53809629 G-CTTAGCCCGGAAT
66 GACTTAGCCCGGAAT
** * * *
53809643 TAGTAACTCACACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTC
1 TAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCAGATATAGTAAC-TAGCACCAAAGCCTTC
53809706 GGGACTTAGCCCGGA
64 GGGACTTAGCCCGGA
53809721 CATCATTCGA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
78 3 0.05
79 48 0.73
80 15 0.23
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TAGTAACTCACACAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACCAAAGCCTTCGG
GACTTAGCCCGGAAT
Found at i:53815054 original size:40 final size:40
Alignment explanation
Indices: 53814829--53815054 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
53814819 GCTCCTTGTT
* * *
53814829 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
* *
53814869 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
* * *
53814909 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCC
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
* *
53814949 CAAATGCCATCGGGACTTAACCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATA-TAGTAACTCGCA
** * * *
53814989 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TCGCA
*
53815030 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
53815055 CACCATTCAA
Statistics
Matches: 162, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.02
40 147 0.91
41 12 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
Found at i:53817083 original size:40 final size:40
Alignment explanation
Indices: 53817016--53817192 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
53817006 ACCCAAGTAT
*
53817016 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
53817055 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
53817095 CTTTGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
53817135 CTTCGGGACATAGCCCAGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
53817175 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
53817193 TTATCATCCG
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 100 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:53821482 original size:46 final size:46
Alignment explanation
Indices: 53821307--53821482 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 46
53821297 TGTAACCCGC
* * * *
53821307 CCATAAGTGAACCCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
53821353 CCATAAGTGAACTCGGACTCCACTCAACGAGCTCGG--ATGC-CTAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A-T
* *** * *
53821398 AACATCTCTCGAACTCGGACTCAGCTCAACGAGTTCGGACATTCGCAT
1 -CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
53821446 CCATAAGTGAACTTGGACTCAACTTAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
53821483 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 63 0.61
47 29 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:53826312 original size:6 final size:6
Alignment explanation
Indices: 53826301--53826485 Score: 76
Period size: 6 Copynumber: 29.8 Consensus size: 6
53826291 TGACAAAATT
* * * *
53826301 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGTATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * * *
53826350 AAGTAA-C AAAATC AAAATC AGAATC AGAATC CGAATT AG-GTGAC AGAATC
1 -AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* * * *
53826400 AGAATC AGTATC AGGTAA-C AGAATG AGAATC AGAATT AG-GTGAC AGAATC
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* * *
53826450 AGAATC AGTATC AGGTAA-C ATAATT AGAATC AGAAT
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
53826486 GTGAATGCAA
Statistics
Matches: 132, Mismatches: 29, Indels: 36
0.67 0.15 0.18
Matches are distributed among these distances:
5 9 0.07
6 102 0.77
7 15 0.11
8 6 0.05
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:53826325 original size:37 final size:37
Alignment explanation
Indices: 53826260--53826351 Score: 103
Period size: 37 Copynumber: 2.5 Consensus size: 37
53826250 TCAGAACTAG
* *
53826260 AATCAAAATGAGAATCAAAATCAAAATTAAGTGACAA
1 AATCAGAATCAGAATCAAAATCAAAATTAAGTGACAA
* * * * *
53826297 AATTAGAATCAGAATCAGAATCAGAATTAGGTGACAG
1 AATCAGAATCAGAATCAAAATCAAAATTAAGTGACAA
* *
53826334 TATCAGAATCAGTATCAA
1 AATCAGAATCAGAATCAA
53826352 GTAACAAAAT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22
Consensus pattern (37 bp):
AATCAGAATCAGAATCAAAATCAAAATTAAGTGACAA
Found at i:53826369 original size:50 final size:50
Alignment explanation
Indices: 53826309--53826485 Score: 192
Period size: 50 Copynumber: 3.3 Consensus size: 50
53826299 TTAGAATCAG
* *
53826309 AATCAGAATCAGAATTAGGTGACAGTATCAGAATCAGTATCAAGTAACAAAATCAA
1 AATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGT-----AA-CAA
*
53826365 AATCAGAATCAGAATCCGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATC---A---GAATTAGGTGACAGAATCAGAATCAGTATCAGGTAACAA
* *
53826421 AATGAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAACAT
1 AATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAACAA
*
53826471 AATTAGAATCAGAAT
1 AATCAGAATCAGAAT
53826486 GTGAATGCAA
Statistics
Matches: 109, Mismatches: 6, Indels: 18
0.82 0.05 0.14
Matches are distributed among these distances:
50 52 0.48
53 1 0.01
56 21 0.19
57 2 0.02
59 1 0.01
62 32 0.29
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (50 bp):
AATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAACAA
Found at i:53826369 original size:62 final size:62
Alignment explanation
Indices: 53826270--53826435 Score: 224
Period size: 62 Copynumber: 2.7 Consensus size: 62
53826260 AATCAAAATG
* ** * * *
53826270 AGAATCAAAATCAAAATTAAGTGACAAAATTAGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGTATCAAGTAACAAAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
* * *
53826332 AGTATCAGAATCAGTATCAAGTAACAAAATCAAAATCAGAATCAGAATCCGAATTAGGTGAC
1 AGAATCAGAATCAGTATCAAGTAACAAAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
* * *
53826394 AGAATCAGAATCAGTATCAGGTAACAGAATGAGAATCAGAAT
1 AGAATCAGAATCAGTATCAAGTAACAAAATCAGAATCAGAAT
53826436 TAGGTGACAG
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 90 1.00
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.20
Consensus pattern (62 bp):
AGAATCAGAATCAGTATCAAGTAACAAAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
Found at i:53826396 original size:25 final size:25
Alignment explanation
Indices: 53826368--53826485 Score: 146
Period size: 25 Copynumber: 4.7 Consensus size: 25
53826358 AAATCAAAAT
*
53826368 CAGAATCAGAATCCGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTGA
* * *
53826393 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATTAGGTGA
*
53826418 CAGAATGAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTGA
* * *
53826443 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATTAGGTGA
* *
53826468 CATAATTAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
53826486 GTGAATGCAA
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 78 1.00
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTGA
Done.