Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008554.1 Hibiscus syriacus cultivar Beakdansim tig00111458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3217407
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 10
Found at i:481414 original size:19 final size:19
Alignment explanation
Indices: 481379--481455 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 19
481369 AAATCGCAAC
*
481379 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
481398 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
481417 GTGATTTT-G-TT-GC--T
1 GCGATTTTAGTTTCGCGTT
* *
481431 GCGATTTTAATTTCGCATT
1 GCGATTTTAGTTTCGCGTT
481450 GCGATT
1 GCGATT
481456 CTCTCGTTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
14 8 0.16
16 4 0.08
17 4 0.08
18 1 0.02
19 32 0.65
ACGTcount: A:0.14, C:0.14, G:0.25, T:0.47
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:481467 original size:33 final size:33
Alignment explanation
Indices: 481394--481487 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
481384 TTTAGTTTCG
* * * * *
481394 CGTTGCGATTTTAGTTTCGCGTTGTGATTTTGT
1 CGTTGCGATTTTAATTTCGCATTGCGATTCTCT
* *
481427 TGCTGCGATTTTAATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTAATTTCGCATTGCGATTCTCT
*
481460 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTAATTTCGCATTGCGAT
481488 AGTCATTTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.13, C:0.18, G:0.22, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTAATTTCGCATTGCGATTCTCT
Found at i:481486 original size:19 final size:19
Alignment explanation
Indices: 481430--481487 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
481420 ATTTTGTTGC
*
481430 TGCGATTTTAATTTCGCAT
1 TGCGATTTTCATTTCGCAT
*
481449 TGCGA--TTC-TCTCG--T
1 TGCGATTTTCATTTCGCAT
481463 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
481482 TGCGAT
1 TGCGAT
481488 AGTCATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
14 6 0.19
16 7 0.23
17 6 0.19
19 12 0.39
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.45
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCAT
Found at i:481613 original size:14 final size:14
Alignment explanation
Indices: 481594--481630 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
481584 CATCAATTAA
481594 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
481608 ACAAATCATCTTTT
1 ACAAATCAACTTTT
481622 ACAAATCAA
1 ACAAATCAA
481631 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:485090 original size:20 final size:20
Alignment explanation
Indices: 485065--485146 Score: 96
Period size: 20 Copynumber: 4.2 Consensus size: 20
485055 TTTTGGTTGA
485065 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
485085 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
** *
485104 AAATGACTATCGCAACGCGA-
1 -AATGAAAATCGCAACGAGAG
*
485124 AATGAAAATCGCAACGATAG
1 AATGAAAATCGCAACGAGAG
485144 AAT
1 AAT
485147 CGCAACGTGA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
19 16 0.31
20 36 0.69
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:485107 original size:40 final size:39
Alignment explanation
Indices: 485063--485139 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 39
485053 TCTTTTGGTT
485063 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGCG
1 GAAATGAAAATCGCAACGAGA-AATGAAAATCGCAACGCG
** *
485103 GAAATGACTATCGCAACGCGAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACGAGAAATGAAAATCGCAACG
485140 ATAGAATCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.47
40 18 0.53
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.12
Consensus pattern (39 bp):
GAAATGAAAATCGCAACGAGAAATGAAAATCGCAACGCG
Found at i:485127 original size:19 final size:19
Alignment explanation
Indices: 485063--485199 Score: 114
Period size: 19 Copynumber: 7.6 Consensus size: 19
485053 TCTTTTGGTT
*
485063 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
485082 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
485102 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
485122 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
* *
485139 G--AT-AGAATCGCAACGT
1 GAAATGAAAATCGCAACGC
*
485155 GAAATTAAAATCGCAA---
1 GAAATGAAAATCGCAACGC
* *
485171 -AGA-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
485188 GAAATGAAAATC
1 GAAATGAAAATC
485200 ACAATGCGAT
Statistics
Matches: 93, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
14 18 0.19
15 4 0.04
16 1 0.01
17 2 0.02
18 4 0.04
19 31 0.33
20 31 0.33
21 2 0.02
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:485159 original size:33 final size:33
Alignment explanation
Indices: 485071--485199 Score: 141
Period size: 33 Copynumber: 3.7 Consensus size: 33
485061 TTGAAATGAA
*
485071 AATCGCAACGAGAGAATGAAAATCGCAACGCGGAAATG
1 AATCGCAACGCGA-AATGAAAATCGCAA--C-GAAA-G
*
485109 ACTATCGCAACGCGAAATGAAAATCGCAACGATAG
1 A--ATCGCAACGCGAAATGAAAATCGCAACGAAAG
* * * *
485144 AATCGCAACGTGAAATTAAAATCGCAAAGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
485177 AATCGCAACGCGAAATGAAAATC
1 AATCGCAACGCGAAATGAAAATC
485200 ACAATGCGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
33 49 0.60
35 2 0.02
36 3 0.04
37 1 0.01
38 1 0.01
39 14 0.17
40 11 0.14
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:485255 original size:21 final size:20
Alignment explanation
Indices: 485235--485306 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
485225 CGATTATCTC
485235 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
485255 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
*
485276 ATTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
485296 GTTGCGATTTT
1 GTTGCGATTTT
485307 AAGTTTAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.14, C:0.17, G:0.18, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:485894 original size:20 final size:20
Alignment explanation
Indices: 485871--486002 Score: 147
Period size: 20 Copynumber: 6.5 Consensus size: 20
485861 TTAAAAATCG
*
485871 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACT
* * *
485891 CGTTGCGATTTTTTCGTATTCT
1 CGTTGCGA--TTTACGGATACT
* *
485913 CGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGGATACT
* *
485933 CGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACT
*
485953 CGTTGTGATTTACGGATACT
1 CGTTGCGATTTACGGATACT
*
485973 CGTTGCGATTTTATGGATACT
1 CGTTGCGA-TTTACGGATACT
485994 CGTTGCGAT
1 CGTTGCGAT
486003 AGTCAGAATC
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
20 56 0.62
21 19 0.21
22 16 0.18
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACT
Found at i:485931 original size:42 final size:42
Alignment explanation
Indices: 485871--486024 Score: 174
Period size: 40 Copynumber: 3.7 Consensus size: 42
485861 TTAAAAATCG
*
485871 CGTTGCGATTTACGGATACGCGTTGCGATTTTTTCGTATTCT
1 CGTTGCGATTTACAGATACGCGTTGCGATTTTTTCGTATTCT
*
485913 CGTTGCGATTTACAGATACGCGTTGCGA--TTTACGTATTCT
1 CGTTGCGATTTACAGATACGCGTTGCGATTTTTTCGTATTCT
* * * * * *
485953 CGTTGTGATTTACGGATACTCGTTGCGATTTTAT-GGATACT
1 CGTTGCGATTTACAGATACGCGTTGCGATTTTTTCGTATTCT
*
485994 CGTTGCGATAGT-CAGA-ATCGCGTTGCGATTT
1 CGTTGCGAT-TTACAGATA-CGCGTTGCGATTT
486025 ATATGTTCGC
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
40 37 0.39
41 28 0.29
42 30 0.32
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (42 bp):
CGTTGCGATTTACAGATACGCGTTGCGATTTTTTCGTATTCT
Found at i:486038 original size:81 final size:82
Alignment explanation
Indices: 485868--486044 Score: 225
Period size: 81 Copynumber: 2.2 Consensus size: 82
485858 GCTTTAAAAA
* * * *
485868 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTTTCGTATTCTCGTTGCGATTTACAGATACG
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATCGGATACTCGTTGCGATGTACAGATACG
*
485933 CGTTGCGATTTACGTAT
66 CGTTGCGATTTACATAT
* * *
485950 TCTCGTTGTGATTTACGGATACTCGTTGCGATTTTAT-GGATACTCGTTGCGATAGT-CAGA-AT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATCGGATACTCGTTGCGAT-GTACAGATA-
* *
486012 CGCGTTGCGATTTATATGT
64 CGCGTTGCGATTTACATAT
486031 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
486045 TTATATTCGC
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.01
81 46 0.57
82 34 0.42
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.40
Consensus pattern (82 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATCGGATACTCGTTGCGATGTACAGATACG
CGTTGCGATTTACATAT
Found at i:486050 original size:22 final size:20
Alignment explanation
Indices: 486011--486063 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
486001 ATAGTCAGAA
* *
486011 TCGCGTTGCGATTTATATGT
1 TCGCGTTGCGATTTTTATAT
486031 TCGCGTTGCGATTTTTATAT
1 TCGCGTTGCGATTTTTATAT
486051 TCGCGTTGCGATT
1 TCGCGTTGCGATT
486064 ATGGAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTTATAT
Found at i:497885 original size:55 final size:55
Alignment explanation
Indices: 497819--498647 Score: 1044
Period size: 55 Copynumber: 15.1 Consensus size: 55
497809 TAAATCAAAT
* * * *
497819 GAAGATTGTTCGAGTTTTATACTCCCTAAACG-AAGAGTGAGCGAACCCATTGGTA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAA-GAAAGAGGGAGCGAACCCGTTGGCA
*
497874 GAAGATTGTTCGAGTT-TCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGCA
1 GAAGATTGTTCGAGTTCT-ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGCA
* * * * *
497929 GAAGATTATTCGAGTTCTATAATCCCTAAA-AAAGA--GAACGAACTCGTTTGCA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGCA
* * * *
497981 GAAGATTGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCTGTAGGTA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGCA
* * * *
498036 GAAGATTGTTCGAGTTCTATATTCCCT-AAGAAAGAGGGAGCGAATCCGTTTGTA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGCA
* * *
498090 GAAGATTGTTCGAGTTCCATACTCCCTAAAGAAAAAGGGAGCGAACGCGTTGGCA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGCA
* * * *
498145 AAAGATTGTTCGAGTTCTATACTCCATAAAGAAAGAGGGAGCGAACCTGTTTGCA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGCA
* * **
498200 GAAGATTGTTCAAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTTCA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGCA
* * * * *
498255 GAAGCTT-TTCCAAGTTTTATACACCCTAAAGAAAGAGGGAGTGAACCCGTTGGCA
1 GAAGATTGTT-CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGCA
* * * *
498310 GAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAGGAAGCGAACCCTTTTGCA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGCA
* ** ** * *
498365 GAAGGTTGTTTAAGTTCTATACTCTCCCGAAGAAAGAGGGAACGAACCCGTTTGCA
1 GAAGATTGTTCGAGTTCTATACTC-CCTAAAGAAAGAGGGAGCGAACCCGTTGGCA
* * *
498421 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAACGAGGGAGC-AACCCGTTTGCC
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGCA
* * * *
498475 GAAGATTGTTCGAGTTCCATACTCCTTAAAGAAAAAAGGAGCGAACCCGTTGGCA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGCA
* *
498530 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTGCA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGCA
* * * *
498585 GAAGATTGTTCAAGTTATATACTCTCTGAAGAAAGAGGGAGCGAACCCGTTGGCA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGCA
498640 GAAGATTG
1 GAAGATTG
498648 ATTTTCTTCA
Statistics
Matches: 666, Mismatches: 97, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
52 40 0.06
53 5 0.01
54 105 0.16
55 467 0.70
56 49 0.07
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (55 bp):
GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGCA
Found at i:499144 original size:20 final size:21
Alignment explanation
Indices: 499121--499159 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
499111 AATTTTTCTT
499121 TTCA-AAATCTTCTATTTTGA
1 TTCACAAATCTTCTATTTTGA
* *
499141 TTCACAATTCTTTTATTTT
1 TTCACAAATCTTCTATTTT
499160 ACTTTCAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.56
Consensus pattern (21 bp):
TTCACAAATCTTCTATTTTGA
Found at i:501961 original size:35 final size:35
Alignment explanation
Indices: 501915--501990 Score: 152
Period size: 35 Copynumber: 2.2 Consensus size: 35
501905 CTTAATACTT
501915 TTGATTGAAACTTATAATGTCGAGCTGACCGGAAG
1 TTGATTGAAACTTATAATGTCGAGCTGACCGGAAG
501950 TTGATTGAAACTTATAATGTCGAGCTGACCGGAAG
1 TTGATTGAAACTTATAATGTCGAGCTGACCGGAAG
501985 TTGATT
1 TTGATT
501991 ATGTTCAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (35 bp):
TTGATTGAAACTTATAATGTCGAGCTGACCGGAAG
Found at i:502264 original size:22 final size:22
Alignment explanation
Indices: 502231--502282 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
502221 ATACTCTTGG
502231 TATCGATA--CTC-TCAACTCAT
1 TATCGATACCCTCTTCAAC-CAT
502251 TATCGATACCCTCTTCAACCAT
1 TATCGATACCCTCTTCAACCAT
502273 TA-CTGATACC
1 TATC-GATACC
502283 ACCCTTCGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 8 0.29
21 1 0.04
22 14 0.50
23 5 0.18
ACGTcount: A:0.29, C:0.33, G:0.06, T:0.33
Consensus pattern (22 bp):
TATCGATACCCTCTTCAACCAT
Found at i:502289 original size:23 final size:23
Alignment explanation
Indices: 502242--502289 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
502232 ATCGATACTC
*
502242 TCAACTCATTATCGATACCCTCT
1 TCAACTCATTATCGATACCCCCT
502265 TCAAC-CATTA-CTGATACCACCCT
1 TCAACTCATTATC-GATACC-CCCT
502288 TC
1 TC
502290 GAATTCTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 1 0.05
22 11 0.50
23 10 0.45
ACGTcount: A:0.27, C:0.38, G:0.04, T:0.31
Consensus pattern (23 bp):
TCAACTCATTATCGATACCCCCT
Found at i:502891 original size:30 final size:30
Alignment explanation
Indices: 502855--502911 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
502845 TCCACGTGGT
502855 TATCCCTTAATAAATGAGATAATTATCCTC
1 TATCCCTTAATAAATGAGATAATTATCCTC
502885 TATCCCTTAATAAATGAGATAATTATC
1 TATCCCTTAATAAATGAGATAATTATC
502912 ATTTAACATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.37
Consensus pattern (30 bp):
TATCCCTTAATAAATGAGATAATTATCCTC
Found at i:508484 original size:21 final size:21
Alignment explanation
Indices: 508426--508494 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 21
508416 GGAGTGCCAT
508426 ATAATTGTCCCGAAGGACCAC
1 ATAATTGTCCCGAAGGACCAC
*
508447 ATAGGTT-TGCACCGAAGTG-CCAC
1 ATA-ATTGT-C-CCGAAG-GACCAC
508470 ATAATTGTCCCGAAGGACCAC
1 ATAATTGTCCCGAAGGACCAC
508491 ATAA
1 ATAA
508495 AACTCTCGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
20 1 0.03
21 18 0.45
22 6 0.15
23 14 0.35
24 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (21 bp):
ATAATTGTCCCGAAGGACCAC
Found at i:511068 original size:18 final size:18
Alignment explanation
Indices: 511045--511083 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
511035 CCTTAGTGAG
511045 CTAGCTTCTCTAAAATGC
1 CTAGCTTCTCTAAAATGC
* *
511063 CTAGCTTCTCTCAGATGC
1 CTAGCTTCTCTAAAATGC
511081 CTA
1 CTA
511084 ACATGCCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.31, G:0.13, T:0.33
Consensus pattern (18 bp):
CTAGCTTCTCTAAAATGC
Found at i:520077 original size:15 final size:15
Alignment explanation
Indices: 520057--520086 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
520047 ATTCATATTA
520057 TTACTTATAATTAAT
1 TTACTTATAATTAAT
520072 TTACTTATAATTAAT
1 TTACTTATAATTAAT
520087 ACTAACTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
TTACTTATAATTAAT
Found at i:520691 original size:34 final size:34
Alignment explanation
Indices: 520641--520728 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
520631 TTTTATACCG
* * * *
520641 TGTGTCTTCGCGAGACAC-TCTAAGGCCTGTATTA
1 TGTGCCTTCGCTAGACACTTC-AAGGCCTGCACTA
*
520675 TGTGCCTTCGCTAGACACTTCGAGGCCTGCACTA
1 TGTGCCTTCGCTAGACACTTCAAGGCCTGCACTA
*
520709 TGTACCTTCGCTAGACACTT
1 TGTGCCTTCGCTAGACACTT
520729 TAATGCCACA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 45 0.96
35 2 0.04
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (34 bp):
TGTGCCTTCGCTAGACACTTCAAGGCCTGCACTA
Found at i:523457 original size:26 final size:26
Alignment explanation
Indices: 523422--523489 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 26
523412 GCATCTTAAT
*
523422 TTTACTTTAACTTTCTTATTTTACAAA
1 TTTACTTTAATTTTCTTATTTTAC-AA
* *
523449 TTT-CTTTAATTTTATTGTTTTACAA
1 TTTACTTTAATTTTCTTATTTTACAA
523474 TTTACTTTAATTTTCT
1 TTTACTTTAATTTTCT
523490 GAATTAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 5 0.14
26 28 0.78
27 3 0.08
ACGTcount: A:0.25, C:0.12, G:0.01, T:0.62
Consensus pattern (26 bp):
TTTACTTTAATTTTCTTATTTTACAA
Found at i:523479 original size:52 final size:55
Alignment explanation
Indices: 523422--523526 Score: 135
Period size: 55 Copynumber: 2.0 Consensus size: 55
523412 GCATCTTAAT
* **
523422 TTTACTTTAACTTTCT-TATTTTACA-AAT-TTCTTTAATTTTATTGTTTTACAA
1 TTTACTTTAACTTTCTGAATTAAACACAATCTTCTTTAATTTTATTGTTTTACAA
* * *
523474 TTTACTTTAATTTTCTGAATTAAACACATTCTTTTTTAATTTTATTGTTTTAC
1 TTTACTTTAACTTTCTGAATTAAACACAATCTTCTTTAATTTTATTGTTTTAC
523527 TGATTTCTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
52 15 0.34
53 6 0.14
54 2 0.05
55 21 0.48
ACGTcount: A:0.27, C:0.11, G:0.03, T:0.59
Consensus pattern (55 bp):
TTTACTTTAACTTTCTGAATTAAACACAATCTTCTTTAATTTTATTGTTTTACAA
Found at i:523811 original size:21 final size:21
Alignment explanation
Indices: 523785--523843 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
523775 ATTTACCATG
*
523785 ATTGCGGCCGTCGCGGGCGCT
1 ATTGCGGCAGTCGCGGGCGCT
* * *
523806 ATTGCGACTGTCGCGGACGCT
1 ATTGCGGCAGTCGCGGGCGCT
*
523827 ATTGCGGGAGTCGCGGG
1 ATTGCGGCAGTCGCGGG
523844 TAACTCGGAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.10, C:0.27, G:0.42, T:0.20
Consensus pattern (21 bp):
ATTGCGGCAGTCGCGGGCGCT
Found at i:525930 original size:3 final size:3
Alignment explanation
Indices: 525922--525953 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
525912 CTACAAGTGC
525922 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
525954 CTTTTAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:527376 original size:14 final size:14
Alignment explanation
Indices: 527359--527408 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
527349 ATTTCAAAAT
527359 ATATTATAATTATA
1 ATATTATAATTATA
527373 ATATTATTAATTAT-
1 ATATTA-TAATTATA
* *
527387 TTATTATATTTA-A
1 ATATTATAATTATA
527400 TATATTATA
1 -ATATTATA
527409 CATATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 5 0.17
14 18 0.60
15 7 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATTATAATTATA
Found at i:527503 original size:16 final size:16
Alignment explanation
Indices: 527479--527576 Score: 83
Period size: 16 Copynumber: 6.0 Consensus size: 16
527469 ATCTATTTTA
* *
527479 ATTACTATATTTATTT
1 ATTATTATATTTAATT
527495 ATTATTATATTTTAATT
1 ATTATTATA-TTTAATT
* *
527512 ATTTATTATATCTAATA
1 A-TTATTATATTTAATT
*
527529 ATTATTATAATT-ATT
1 ATTATTATATTTAATT
*
527544 ATTTATTATATTTATTT
1 A-TTATTATATTTAATT
*
527561 GTTATTA-ATTTCAATT
1 ATTATTATATTT-AATT
527577 TGAAAGATCC
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
15 7 0.11
16 36 0.55
17 15 0.23
18 8 0.12
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (16 bp):
ATTATTATATTTAATT
Found at i:527514 original size:25 final size:26
Alignment explanation
Indices: 527486--527559 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 26
527476 TTAATTACTA
* *
527486 TATTTATTTATTATTA-TATTTTAAT
1 TATTTATTTATTATAATTATTATAAT
527511 TATTTATTATATCTAATAATTATTATAAT
1 TATTTATT-TAT-T-ATAATTATTATAAT
*
527540 TA-TTATTTATTATATTTATT
1 TATTTATTTATTATAATTATT
527560 TGTTATTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
25 16 0.38
26 4 0.10
27 4 0.10
28 8 0.19
29 10 0.24
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (26 bp):
TATTTATTTATTATAATTATTATAAT
Found at i:527542 original size:43 final size:44
Alignment explanation
Indices: 527360--527559 Score: 138
Period size: 43 Copynumber: 4.7 Consensus size: 44
527350 TTTCAAAATA
*
527360 TATTATAATTATAATATTATTAATTATTTATTATATTTA-AT-A-
1 TATTATAATTATTAT-TTATTAATTATTTATTATATTTACATAAT
* * * *
527402 TATTATACA-TATAATTT-TTCATTATTTCA--AAATTTACAAAAT
1 TATTATA-ATTATTATTTATTAATTATTT-ATTATATTTACATAAT
* * * * * * *
527444 ATATTATAAATATTATTTATAAAATATCTATTTTAATTACTATATT
1 -TATTATAATTATTATTTATTAATTATTTATTATATTTAC-ATAAT
*
527490 TATT-T-ATTATTATATT-TTAATTATTTATTATATCTA-ATAAT
1 TATTATAATTATTAT-TTATTAATTATTTATTATATTTACATAAT
527531 TATTATAATTATTATTTATT-A-TATTTATT
1 TATTATAATTATTATTTATTAATTATTTATT
527560 TGTTATTAAT
Statistics
Matches: 122, Mismatches: 21, Indels: 31
0.70 0.12 0.18
Matches are distributed among these distances:
39 6 0.05
40 10 0.08
41 20 0.16
42 18 0.15
43 47 0.39
44 9 0.07
45 9 0.07
46 3 0.02
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (44 bp):
TATTATAATTATTATTTATTAATTATTTATTATATTTACATAAT
Found at i:533520 original size:60 final size:59
Alignment explanation
Indices: 533436--533588 Score: 152
Period size: 60 Copynumber: 2.5 Consensus size: 59
533426 GATGAATTCG
* * **
533436 GGGATAAAATTGGAAGA-TTCAAAAGTTT-GGAGACAAATTTAGCTTTG-GAGTCATAGTTT-
1 GGGATGAAATT-GAA-ATTTCAAAAGTTTAAG-GACAAATTTAG-AATGAGAGTCATAGTTTA
*
533495 GAGGATGAAATTAGAAATTTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTTA
1 G-GGATGAAATT-GAAATTTCAAAAGTTTAAGGACAAATTTAGAATGAGAGTCATAGTTTA
* *
533556 GGGATGAAATTGAAATATTTAAAAATTTAAGGA
1 GGGATGAAATTGAAAT-TTCAAAAGTTTAAGGA
533589 TTAATTCGGA
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
59 9 0.11
60 69 0.86
61 2 0.03
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (59 bp):
GGGATGAAATTGAAATTTCAAAAGTTTAAGGACAAATTTAGAATGAGAGTCATAGTTTA
Found at i:533608 original size:60 final size:59
Alignment explanation
Indices: 533484--533619 Score: 157
Period size: 60 Copynumber: 2.3 Consensus size: 59
533474 TTAGCTTTGG
* * *
533484 AGTCATAGTTTGAGGATGAAATTAGAAATTTCAAAAGTTTAAGGACTAATTTAGAATGAG
1 AGTCATAGTTTG-GGATGAAATTAGAAATTTCAAAAATTTAAGGACTAATTCAGAATGAA
* * * *
533544 AGTCATAGTTTAGGGATGAAATT-GAAATATTTAAAAATTTAAGGATTAATTCGGACTGAA
1 AGTCATAGTTT-GGGATGAAATTAGAAAT-TTCAAAAATTTAAGGACTAATTCAGAATGAA
*
533604 AGTCATAATTTTGGGA
1 AGTCAT-AGTTTGGGA
533620 CATATGATGC
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 5 0.08
60 55 0.85
61 5 0.08
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.33
Consensus pattern (59 bp):
AGTCATAGTTTGGGATGAAATTAGAAATTTCAAAAATTTAAGGACTAATTCAGAATGAA
Found at i:533992 original size:5 final size:5
Alignment explanation
Indices: 533982--534057 Score: 152
Period size: 5 Copynumber: 15.2 Consensus size: 5
533972 TTATTATTGT
533982 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
534032 TAATA TAATA TAATA TAATA TAATA T
1 TAATA TAATA TAATA TAATA TAATA T
534058 TTCCCACCAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 71 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:536558 original size:29 final size:29
Alignment explanation
Indices: 536515--536578 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
536505 TCTTCATCAA
* * *
536515 TTTTCCAAAATTTACGAATTTATCCCCAAC
1 TTTT-CAAAACTTACGAAATGATCCCCAAC
*
536545 TTTTCAAAACTTACGAAATGATCCCCAAT
1 TTTTCAAAACTTACGAAATGATCCCCAAC
536574 TTTTC
1 TTTTC
536579 TGAGGCTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (29 bp):
TTTTCAAAACTTACGAAATGATCCCCAAC
Found at i:537127 original size:12 final size:12
Alignment explanation
Indices: 537110--537134 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
537100 GAATCTCCAT
537110 ATTCACCATAAA
1 ATTCACCATAAA
537122 ATTCACCATAAA
1 ATTCACCATAAA
537134 A
1 A
537135 ACATGACAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (12 bp):
ATTCACCATAAA
Found at i:542162 original size:3 final size:3
Alignment explanation
Indices: 542154--542195 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
542144 GAACAAGAAA
542154 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
542196 GTTTAATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:543293 original size:2 final size:2
Alignment explanation
Indices: 543286--543313 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
543276 TAAACATTTA
543286 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
543314 TAAAATTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:545383 original size:20 final size:20
Alignment explanation
Indices: 545347--545384 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
545337 ATCCTATTCC
**
545347 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
545367 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
545385 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:547104 original size:19 final size:21
Alignment explanation
Indices: 547054--547097 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
547044 TGGAATATGT
*
547054 ATATA-TATTAAATAATAATA
1 ATATACTAATAAATAATAATA
547074 ATATAACTAATAAATAATAATA
1 ATAT-ACTAATAAATAATAATA
547096 AT
1 AT
547098 TGTAATACGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 1 0.05
22 16 0.76
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
ATATACTAATAAATAATAATA
Found at i:553101 original size:23 final size:23
Alignment explanation
Indices: 553075--553155 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
553065 TGATTGTTAA
* *
553075 TTTAGCGTTTGT-AAATATGTTTG
1 TTTAACGTTTGTGAAA-ATGTTCG
**
553098 TTTAATATTTGTGAAAATGTTCG
1 TTTAACGTTTGTGAAAATGTTCG
*
553121 TTTAACGTTTGTGAAAATATTCG
1 TTTAACGTTTGTGAAAATGTTCG
*
553144 TTTAATGTTTGT
1 TTTAACGTTTGT
553156 TTAATGTTCG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 46 0.94
24 3 0.06
ACGTcount: A:0.26, C:0.05, G:0.19, T:0.51
Consensus pattern (23 bp):
TTTAACGTTTGTGAAAATGTTCG
Found at i:553358 original size:12 final size:12
Alignment explanation
Indices: 553338--553416 Score: 77
Period size: 12 Copynumber: 6.6 Consensus size: 12
553328 AAGAACCGAG
*
553338 TAAATGAGTTTA
1 TAAATGAGTTGA
* *
553350 TAAACGAGTTCA
1 TAAATGAGTTGA
** *
553362 TAAATGAACTAA
1 TAAATGAGTTGA
*
553374 TAAATGAGTCGA
1 TAAATGAGTTGA
* *
553386 TAAACGAGTTTA
1 TAAATGAGTTGA
553398 TAAATGAGTTGA
1 TAAATGAGTTGA
553410 TAAATGA
1 TAAATGA
553417 ACCAATAAAT
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 52 1.00
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.30
Consensus pattern (12 bp):
TAAATGAGTTGA
Found at i:553366 original size:24 final size:24
Alignment explanation
Indices: 553338--553416 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
553328 AAGAACCGAG
*
553338 TAAATGAGTTTATAAACGAGTTCA
1 TAAATGAGTTTATAAATGAGTTCA
** *
553362 TAAATGAACTAATAAATGAG-TCGA
1 TAAATGAGTTTATAAATGAGTTC-A
* *
553386 TAAACGAGTTTATAAATGAGTTGA
1 TAAATGAGTTTATAAATGAGTTCA
553410 TAAATGA
1 TAAATGA
553417 ACCAATAAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
23 2 0.05
24 40 0.93
25 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.30
Consensus pattern (24 bp):
TAAATGAGTTTATAAATGAGTTCA
Found at i:553424 original size:24 final size:24
Alignment explanation
Indices: 553349--553430 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
553339 AAATGAGTTT
* *
553349 ATAAACGAGTTCATAAATGAACTA
1 ATAAATGAGTTGATAAATGAACTA
* * ** *
553373 ATAAATGAGTCGATAAACGAGTTT
1 ATAAATGAGTTGATAAATGAACTA
*
553397 ATAAATGAGTTGATAAATGAACCA
1 ATAAATGAGTTGATAAATGAACTA
553421 ATAAATGAGT
1 ATAAATGAGT
553431 CTGTTCGTGA
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.27
Consensus pattern (24 bp):
ATAAATGAGTTGATAAATGAACTA
Found at i:553425 original size:36 final size:36
Alignment explanation
Indices: 553349--553430 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 36
553339 AAATGAGTTT
** *
553349 ATAAACGAGTTCATAAATGAACTAATAAATGAGTCG
1 ATAAACGAGTTCATAAATGAACTAATAAATGAACCA
* ** *
553385 ATAAACGAGTTTATAAATGAGTTGATAAATGAACCA
1 ATAAACGAGTTCATAAATGAACTAATAAATGAACCA
*
553421 ATAAATGAGT
1 ATAAACGAGT
553431 CTGTTCGTGA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.27
Consensus pattern (36 bp):
ATAAACGAGTTCATAAATGAACTAATAAATGAACCA
Found at i:557038 original size:23 final size:23
Alignment explanation
Indices: 557011--557068 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
557001 AACACAACTC
557011 TTGGCACTTCAAGTGATGTTCTT
1 TTGGCACTTCAAGTGATGTTCTT
557034 TTGGCACTTCAAGTGATGTTCTT
1 TTGGCACTTCAAGTGATGTTCTT
*
557057 TTGGAACTTCAA
1 TTGGCACTTCAA
557069 ATGGAATAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (23 bp):
TTGGCACTTCAAGTGATGTTCTT
Found at i:558839 original size:22 final size:21
Alignment explanation
Indices: 558813--558857 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
558803 GAATTAAGAG
558813 GATGTTGATGGTCTTGATGGAT
1 GATGTTGATGGTCTTGAT-GAT
*
558835 GATGTTGATGGTGTTGATGAT
1 GATGTTGATGGTCTTGATGAT
558856 GA
1 GA
558858 AATGGAGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.20, C:0.02, G:0.38, T:0.40
Consensus pattern (21 bp):
GATGTTGATGGTCTTGATGAT
Found at i:568557 original size:12 final size:12
Alignment explanation
Indices: 568540--568564 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
568530 TTTTACATAC
568540 AACAACAACAAA
1 AACAACAACAAA
568552 AACAACAACAAA
1 AACAACAACAAA
568564 A
1 A
568565 CCCAATTCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (12 bp):
AACAACAACAAA
Found at i:570662 original size:12 final size:12
Alignment explanation
Indices: 570645--570678 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
570635 TAAGGGGAAG
570645 TAATTTCAAATT
1 TAATTTCAAATT
570657 TAATTTCAAATT
1 TAATTTCAAATT
*
570669 TGATTTCAAA
1 TAATTTCAAA
570679 ATGATTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (12 bp):
TAATTTCAAATT
Found at i:571113 original size:20 final size:19
Alignment explanation
Indices: 571084--571134 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
571074 AAACAGAATT
*
571084 CCCAGAGGGTACAGATACCC
1 CCCAGGGGGTACA-ATACCC
**
571104 CCCAGGGGGTAC-ATATTC
1 CCCAGGGGGTACAATACCC
571122 CCCAGGGGGTACA
1 CCCAGGGGGTACA
571135 TATTCCCCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 16 0.59
20 11 0.41
ACGTcount: A:0.25, C:0.31, G:0.29, T:0.14
Consensus pattern (19 bp):
CCCAGGGGGTACAATACCC
Found at i:571124 original size:18 final size:18
Alignment explanation
Indices: 571103--571142 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
571093 TACAGATACC
571103 CCCCAGGGGGTACATATT
1 CCCCAGGGGGTACATATT
571121 CCCCAGGGGGTACATATT
1 CCCCAGGGGGTACATATT
571139 CCCC
1 CCCC
571143 CTGTGTAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (18 bp):
CCCCAGGGGGTACATATT
Found at i:575252 original size:20 final size:20
Alignment explanation
Indices: 575229--575275 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
575219 TGACCAACGC
* *
575229 TGACCGGTGTTTACCAG-AGT
1 TGACCGATGTTGACCAGCA-T
575249 TGACCGATGTTGACCAGCAT
1 TGACCGATGTTGACCAGCAT
575269 TGACCGA
1 TGACCGA
575276 GCATTAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (20 bp):
TGACCGATGTTGACCAGCAT
Found at i:588226 original size:194 final size:195
Alignment explanation
Indices: 587859--588247 Score: 755
Period size: 194 Copynumber: 2.0 Consensus size: 195
587849 AAATTTATTT
587859 TCTTTAAAATGATGATTGATATTATAAAAATATCATTCCATATAATTTATAATTTATTATAACAA
1 TCTTTAAAATGATGATTGATATTATAAAAATATCATTCCATATAATTTATAATTTATTATAACAA
587924 ATTTAATTCAAAAGATTTTTTTTGAACAATACCCATGAACATGAACAATGTCGATGAAAAGTAGG
66 ATTTAATTCAAAAGATTTTTTTTGAACAATACCCATGAACATGAACAATGTCGATGAAAAGTAGG
587989 GGAATCGGTACCCCAAATGCATTCTGGAAAATTTTGCTTAAAACCGTGGTTACTGTTCATGCTGC
131 GGAATCGGTACCCCAAATGCATTCTGGAAAATTTTGCTTAAAACCGTGGTTACTGTTCATGCTGC
588054 TCTTTAAAATGATGATTGATATTAT-AAAA-ATCATTCCATATAATTTATAATTTATTATAACAA
1 TCTTTAAAATGATGATTGATATTATAAAAATATCATTCCATATAATTTATAATTTATTATAACAA
588117 ATTTAATTCAAAAGATTTTTTTTGAACAATACCCATGAACAGTGAACAATGTCGATGAAAAGTAG
66 ATTTAATTCAAAAGATTTTTTTTGAACAATACCCATGAACA-TGAACAATGTCGATGAAAAGTAG
588182 GGGAATCGGTACCCCAAATGCATTCTGGAAAATTTTGCTTAAAACCGTGGTTACTGTTCATGCTG
130 GGGAATCGGTACCCCAAATGCATTCTGGAAAATTTTGCTTAAAACCGTGGTTACTGTTCATGCTG
588247 C
195 C
588248 AGTAAATGCT
Statistics
Matches: 193, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
193 75 0.39
194 93 0.48
195 25 0.13
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (195 bp):
TCTTTAAAATGATGATTGATATTATAAAAATATCATTCCATATAATTTATAATTTATTATAACAA
ATTTAATTCAAAAGATTTTTTTTGAACAATACCCATGAACATGAACAATGTCGATGAAAAGTAGG
GGAATCGGTACCCCAAATGCATTCTGGAAAATTTTGCTTAAAACCGTGGTTACTGTTCATGCTGC
Found at i:595516 original size:48 final size:44
Alignment explanation
Indices: 595459--595571 Score: 138
Period size: 48 Copynumber: 2.5 Consensus size: 44
595449 ACTTTTTTTC
595459 CCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAAATT
1 CCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCA-TT--ATT
* * * *
595506 CCATAAAGCTCGTAAGCTTCTTTTATCAATATACTTGCCATTATT
1 CCAT-AAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTATT
*
595551 -CATATGCTCGTAAGCTTATTT
1 CCATAAGCTCGTAAGCTTATTT
595572 GCATACTTAC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
43 16 0.27
44 3 0.05
45 3 0.05
47 6 0.10
48 31 0.53
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (44 bp):
CCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTATT
Found at i:602490 original size:48 final size:44
Alignment explanation
Indices: 602433--602545 Score: 138
Period size: 48 Copynumber: 2.5 Consensus size: 44
602423 ACTTTTTTTC
602433 CCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAAATT
1 CCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCA-TT--ATT
* * * *
602480 CCATAAAGCTCGTAAGCTTCTTTTATCAATATACTTGCCATTATT
1 CCAT-AAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTATT
*
602525 -CATATGCTCGTAAGCTTATTT
1 CCATAAGCTCGTAAGCTTATTT
602546 GCATACTTAC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
43 16 0.27
44 3 0.05
45 3 0.05
47 6 0.10
48 31 0.53
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (44 bp):
CCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTATT
Found at i:606903 original size:24 final size:24
Alignment explanation
Indices: 606876--606939 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
606866 ACCTTTGGGT
606876 ACTCCTGTATCAGTGTAAATATAC
1 ACTCCTGTATCAGTGTAAATATAC
* * * *
606900 ACTCCTGAATCAGTGCAATTATGC
1 ACTCCTGTATCAGTGTAAATATAC
**
606924 ACTTTTGTATCAGTGT
1 ACTCCTGTATCAGTGT
606940 CTTCGTGCAC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (24 bp):
ACTCCTGTATCAGTGTAAATATAC
Found at i:606972 original size:24 final size:24
Alignment explanation
Indices: 606884--606974 Score: 78
Period size: 24 Copynumber: 3.8 Consensus size: 24
606874 GTACTCCTGT
* * * *
606884 ATCAGTGTAAATATACACTCCTGA
1 ATCAGTGCAATTATGCACTTCTGA
* *
606908 ATCAGTGCAATTATGCACTTTTGT
1 ATCAGTGCAATTATGCACTTCTGA
* *
606932 ATCAGTGTC--TTCGTGCACTTCTAA
1 ATCAGTG-CAATT-ATGCACTTCTGA
606956 ATCAGTGCAATTATGCACT
1 ATCAGTGCAATTATGCACT
606975 CCTGTATTAA
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
23 3 0.06
24 46 0.88
25 3 0.06
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (24 bp):
ATCAGTGCAATTATGCACTTCTGA
Found at i:608579 original size:21 final size:21
Alignment explanation
Indices: 608555--608597 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
608545 CGATGATAAC
608555 ATAATCGGGTAATTACTGGAA
1 ATAATCGGGTAATTACTGGAA
608576 ATAATCGGGTAATTACTGGAA
1 ATAATCGGGTAATTACTGGAA
608597 A
1 A
608598 CATTACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (21 bp):
ATAATCGGGTAATTACTGGAA
Found at i:610845 original size:44 final size:44
Alignment explanation
Indices: 610792--610923 Score: 167
Period size: 44 Copynumber: 3.0 Consensus size: 44
610782 CAGCTCGTAA
*
610792 TTTGCACCGAAGTGCCACATAATTGTCCCGAAGGACCACATAGG
1 TTTGCACCGAAGTGCCACATAATTGTCCCAAAGGACCACATAGG
* * *
610836 TTTGCACCGAAGTGCCATATAGAGTTGTACCAAAGTG-CCATATAGG
1 TTTGCACCGAAGTGCCACATA-A-TTGTCCCAAAG-GACCACATAGG
* * *
610882 GTTGTACCGAAGTGCCACATAATTGTCCCAAATGACCACATA
1 TTTGCACCGAAGTGCCACATAATTGTCCCAAAGGACCACATA
610924 AAACCCTCGA
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.01
44 35 0.47
45 2 0.03
46 35 0.47
47 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (44 bp):
TTTGCACCGAAGTGCCACATAATTGTCCCAAAGGACCACATAGG
Found at i:610857 original size:23 final size:23
Alignment explanation
Indices: 610792--610902 Score: 97
Period size: 23 Copynumber: 4.9 Consensus size: 23
610782 CAGCTCGTAA
610792 TTTGCACCGAAGTGCCACATA--
1 TTTGCACCGAAGTGCCACATAGG
*
610813 ATTGTC-CCGAAG-GACCACATAGG
1 TTTG-CACCGAAGTG-CCACATAGG
*
610836 TTTGCACCGAAGTGCCATATAGAG
1 TTTGCACCGAAGTGCCACATAG-G
* * *
610860 -TTGTACCAAAGTGCCATATAGG
1 TTTGCACCGAAGTGCCACATAGG
* *
610882 GTTGTACCGAAGTGCCACATA
1 TTTGCACCGAAGTGCCACATA
610903 ATTGTCCCAA
Statistics
Matches: 75, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
20 1 0.01
21 16 0.21
22 3 0.04
23 53 0.71
24 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (23 bp):
TTTGCACCGAAGTGCCACATAGG
Found at i:610898 original size:46 final size:44
Alignment explanation
Indices: 610793--610923 Score: 156
Period size: 46 Copynumber: 2.9 Consensus size: 44
610783 AGCTCGTAAT
* * *
610793 TTGCACCGAAGTGCCACATAATTGTCCCGAAGGACCACATAGGT
1 TTGCACCGAAGTGCCACATAATTGTACCAAAGGACCACATAGGG
* *
610837 TTGCACCGAAGTGCCATATAGAGTTGTACCAAAGTG-CCATATAGGG
1 TTGCACCGAAGTGCCACATA-A-TTGTACCAAAG-GACCACATAGGG
* * *
610883 TTGTACCGAAGTGCCACATAATTGTCCCAAATGACCACATA
1 TTGCACCGAAGTGCCACATAATTGTACCAAAGGACCACATA
610924 AAACCCTCGA
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.01
44 34 0.47
45 2 0.03
46 35 0.48
47 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (44 bp):
TTGCACCGAAGTGCCACATAATTGTACCAAAGGACCACATAGGG
Found at i:616158 original size:21 final size:21
Alignment explanation
Indices: 616132--616190 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
616122 ATAATTTATA
*
616132 CCGAAGTGCCACATAA-TTGTT
1 CCGAAGTGCCACATAAGTT-TG
*
616153 CCGAAGTACCACATAAGTTTG
1 CCGAAGTGCCACATAAGTTTG
616174 CACTGAAGTGCCACATA
1 C-C-GAAGTGCCACATA
616191 GGGTTGCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 17 0.53
22 3 0.09
23 12 0.38
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (21 bp):
CCGAAGTGCCACATAAGTTTG
Found at i:616187 original size:23 final size:23
Alignment explanation
Indices: 616134--616211 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
616124 AATTTATACC
*
616134 GAAGTGCCACATAA-TTGTTC-C-
1 GAAGTGCCACATAAGTT-TGCACT
*
616155 GAAGTACCACATAAGTTTGCACT
1 GAAGTGCCACATAAGTTTGCACT
* *
616178 GAAGTGCCACATAGGGTTGCACT
1 GAAGTGCCACATAAGTTTGCACT
*
616201 AAAGTGCCACA
1 GAAGTGCCACA
616212 CAATTGTCCC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
21 15 0.31
22 3 0.06
23 30 0.62
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (23 bp):
GAAGTGCCACATAAGTTTGCACT
Found at i:616237 original size:21 final size:21
Alignment explanation
Indices: 616207--616248 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
616197 CACTAAAGTG
*
616207 CCACACAATTGTCCCGAAGGA
1 CCACACAATTATCCCGAAGGA
*
616228 CCACATAATTATCCCGAAGGA
1 CCACACAATTATCCCGAAGGA
616249 TAACATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.31, G:0.17, T:0.17
Consensus pattern (21 bp):
CCACACAATTATCCCGAAGGA
Found at i:616254 original size:21 final size:21
Alignment explanation
Indices: 616213--616256 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
616203 AGTGCCACAC
* *
616213 AATTGTCCCGAAGGACCACAT
1 AATTATCCCGAAGGACAACAT
*
616234 AATTATCCCGAAGGATAACAT
1 AATTATCCCGAAGGACAACAT
616255 AA
1 AA
616257 AACCCTCAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (21 bp):
AATTATCCCGAAGGACAACAT
Found at i:619228 original size:20 final size:22
Alignment explanation
Indices: 619202--619259 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 22
619192 CATTCTTTGG
619202 GGTATCGATACTACCCTT-ACA
1 GGTATCGATACTACCCTTAACA
*
619223 -GTATCGATAC--CTCTTCAACA
1 GGTATCGATACTACCCTT-AACA
619243 GGTATCGATACTACCCT
1 GGTATCGATACTACCCT
619260 CAAATTTCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 4 0.13
20 13 0.43
21 10 0.33
23 3 0.10
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (22 bp):
GGTATCGATACTACCCTTAACA
Found at i:623453 original size:2 final size:2
Alignment explanation
Indices: 623446--623470 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
623436 TATCCGGATT
623446 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
623471 CCTTCCACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:624476 original size:200 final size:199
Alignment explanation
Indices: 624133--624715 Score: 932
Period size: 200 Copynumber: 2.9 Consensus size: 199
624123 CATATCGATG
* * * *
624133 CTATTTAAAAAAATATTGATACATTTTGTTTACCTATTCTCTCATTAAACCAATATATTTTTACC
1 CTATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACCAGTATATTTTTA-C
*
624198 GGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTATGAGGATCGATACT
65 GGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTCTGAGGATCGATACT
* * *
624263 TATAATAAATGTATCGATACTTAATGTGTGCATCTCGTTTGGCATTCATACTGGATAAAATGTAT
130 TATAATAAATGTATCGATACTTTATGTGTGCATCTCGTTTGGCATTCATACTGGACAAAAAGTAT
624328 CCATA
195 CCATA
* *
624333 CTATTTAAAAGAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACCGGTATATTTTTATC
1 CTATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACCAGTATATTTTTA-C
*
624398 GGTTACATTGCAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTCTGAGGATCGATACT
65 GGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTCTGAGGATCGATACT
* * *
624463 TATAACAAATGTATCGATAATTTATGTGTGCATGTCGTTTGGCATTCATACTGGACAAAAAGTAT
130 TATAATAAATGTATCGATACTTTATGTGTGCATCTCGTTTGGCATTCATACTGGACAAAAAGTAT
* *
624528 CGATG
195 CCATA
* *
624533 CTATTTAAAAAAGTATCGATACATTATGTTAACCTATTCTCCCATTAAACCAGTATATTTTTACT
1 CTATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACCAGTATATTTTTAC-
* * *
624598 GGTTACATTGTAGATTTACCTATTACTTTATAATAATCAGTTTCGATGTTCTGAGGAACGATACT
65 GGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTCTGAGGATCGATACT
* *
624663 TATAATAAATGTATCGATACTTTATGCGTGCATCTCGTTTGGAATTCATACTG
130 TATAATAAATGTATCGATACTTTATGTGTGCATCTCGTTTGGCATTCATACTG
624716 TCGAGATTAC
Statistics
Matches: 352, Mismatches: 30, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
199 1 0.00
200 351 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (199 bp):
CTATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACCAGTATATTTTTACG
GTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTCTGAGGATCGATACTT
ATAATAAATGTATCGATACTTTATGTGTGCATCTCGTTTGGCATTCATACTGGACAAAAAGTATC
CATA
Found at i:624995 original size:17 final size:18
Alignment explanation
Indices: 624961--625005 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
624951 AAAAAATTTT
* *
624961 GAAAAAAAATAGTAGTTC
1 GAAAAAAAAAACTAGTTC
624979 GAAAAAAAAAACT-GTTC
1 GAAAAAAAAAACTAGTTC
624996 GAAAGAAAAA
1 GAAA-AAAAA
625006 GAAAAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.62, C:0.07, G:0.16, T:0.16
Consensus pattern (18 bp):
GAAAAAAAAAACTAGTTC
Found at i:628906 original size:13 final size:13
Alignment explanation
Indices: 628884--628916 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
628874 TAACCACCAA
628884 TTTC-CTTGGAAT
1 TTTCGCTTGGAAT
628896 TTTCGCTTGGAAT
1 TTTCGCTTGGAAT
628909 TTTCGCTT
1 TTTCGCTT
628917 TTTCAACCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.52
Consensus pattern (13 bp):
TTTCGCTTGGAAT
Found at i:637523 original size:183 final size:183
Alignment explanation
Indices: 637244--637887 Score: 990
Period size: 183 Copynumber: 3.5 Consensus size: 183
637234 TAAAGTATCC
* *
637244 ATACCTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATAATGAAACC-AATTT-TCATATT
1 ATACCTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATAATGAAACCGATTTTGTCATATT
*
637307 TTTACATGTTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCGCTAT
66 TTTACATGATATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCGCTAT
637372 TATTGTTTTTCTTTTAAATTCTAAAAGTATCGATACTTATTTGAATGGAATCG
131 TATTGTTTTTCTTTTAAATTCTAAAAGTATCGATACTTATTTGAATGGAATCG
* * * *
637425 ATGCCTTCAACATATCCGGTAGCGCTTTATCGGTTTTGTCATAATAAAACCGGTTTTGTCATATT
1 ATACCTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATAATGAAACCGATTTTGTCATATT
* *
637490 TTTACATGTTATATTGTTACGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCGCTAT
66 TTTACATGATATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCGCTAT
* * *
637555 TATTGTTTTTCTTTTAAATT-TCAAAAGTATCAATACTTATTTGAATTGTATCG
131 TATTGTTTTTCTTTTAAATTCT-AAAAGTATCGATACTTATTTGAATGGAATCG
* * * * * * *
637608 ATACCTTAAACATATCCGGTATC-TTTTCACTGGTTTTGTCATATTGAACCCGATTATGTCATAT
1 ATACCTTCAACATATCCGGTAGCGCTTT-ACCGGTTTTGTCATAATGAAACCGATTTTGTCATAT
* *
637672 TTTTACCTGATATATTGTTATTTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCGCTA
65 TTTTACATGATATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCGCTA
*
637737 TTATTGTTTTTCTTTTAAATTCTAAAAGTATCGATAGTTATTTGAATGGAATCG
130 TTATTGTTTTTCTTTTAAATTCTAAAAGTATCGATACTTATTTGAATGGAATCG
* * * * *
637791 ATACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATATTGAACCCGGTTTTGTCATGTT
1 ATACCTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATAATGAAACCGATTTTGTCATATT
*
637856 TTTACCTGATATATTGTTATGTATCGATACAT
66 TTTACATGATATATTGTTATGTATCGATACAT
637888 ATTTGAATGG
Statistics
Matches: 419, Mismatches: 38, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
181 47 0.11
182 7 0.02
183 361 0.86
184 4 0.01
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (183 bp):
ATACCTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATAATGAAACCGATTTTGTCATATT
TTTACATGATATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCGCTAT
TATTGTTTTTCTTTTAAATTCTAAAAGTATCGATACTTATTTGAATGGAATCG
Found at i:643485 original size:30 final size:30
Alignment explanation
Indices: 643414--643485 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
643404 AGATTCTATT
* * *
643414 TTTTTACTTTTTTATTCCTTTAAATATATG
1 TTTTTACTATTTTAATCCCTTAAATATATG
* *
643444 -TTTTGCTATTTTAATCCCTTAAATGTATG
1 TTTTTACTATTTTAATCCCTTAAATATATG
643473 TTTTTACTATTTT
1 TTTTTACTATTTT
643486 GGACCTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 24 0.69
30 11 0.31
ACGTcount: A:0.22, C:0.11, G:0.06, T:0.61
Consensus pattern (30 bp):
TTTTTACTATTTTAATCCCTTAAATATATG
Found at i:643525 original size:29 final size:29
Alignment explanation
Indices: 643429--643569 Score: 70
Period size: 30 Copynumber: 4.7 Consensus size: 29
643419 ACTTTTTTAT
* * **
643429 TCCTTTAAATATATG-TTTTGCTATTTTAA
1 TCCTTTAAAT-TTTGTTTTTGTTATTTTCG
* * ** *
643458 TCCCTTAAATGTATGTTTTTACTATTTTGG
1 TCCTTTAAAT-TTTGTTTTTGTTATTTTCG
*
643488 ACCTTTTAAATTTCTGTTTTTGTT-TTTTCG
1 TCC-TTTAAATTT-TGTTTTTGTTATTTTCG
* * *
643518 TCCTTTAAGTTTTCGTATTTGTTATTTTGG
1 TCCTTTAAATTTT-GTTTTTGTTATTTTCG
* *
643548 TTCTTTAACTTTATGTATTTTG
1 TCCTTTAAATTT-TGT-TTTTG
643570 ATAACTCCAT
Statistics
Matches: 87, Mismatches: 18, Indels: 12
0.74 0.15 0.10
Matches are distributed among these distances:
28 1 0.01
29 29 0.33
30 38 0.44
31 19 0.22
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.59
Consensus pattern (29 bp):
TCCTTTAAATTTTGTTTTTGTTATTTTCG
Found at i:643566 original size:30 final size:28
Alignment explanation
Indices: 643492--643567 Score: 71
Period size: 30 Copynumber: 2.6 Consensus size: 28
643482 TTTTGGACCT
*
643492 TTTAAATTTCTGTTTTTGTTTTTTCGTCC
1 TTTAAATTT-TGTATTTGTTTTTTCGTCC
* * *
643521 TTTAAGTTTTCGTATTTGTTATTTTGGTTC
1 TTTAAATTTT-GTATTTGTT-TTTTCGTCC
*
643551 TTTAACTTTATGTATTT
1 TTTAAATTT-TGTATTT
643568 TGATAACTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.03
29 16 0.41
30 21 0.54
31 1 0.03
ACGTcount: A:0.14, C:0.09, G:0.12, T:0.64
Consensus pattern (28 bp):
TTTAAATTTTGTATTTGTTTTTTCGTCC
Found at i:646586 original size:21 final size:21
Alignment explanation
Indices: 646558--646617 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
646548 CATTGCAGGA
*
646558 ATTT-ATGGCTTCGACAAAAG
1 ATTTCATGGCTTCAACAAAAG
646578 ATTTCATGGCTTCAACAAAAG
1 ATTTCATGGCTTCAACAAAAG
646599 ATTTCATGGCTTCAACAAA
1 ATTTCATGGCTTCAACAAA
646618 GACCTTGATG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 4 0.11
21 34 0.89
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (21 bp):
ATTTCATGGCTTCAACAAAAG
Found at i:661315 original size:32 final size:32
Alignment explanation
Indices: 661268--661330 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
661258 AGAAACAATA
* *
661268 AATGATGGGGTATCTTTG-GAGATTTAACATCG
1 AATGATGGGGCATCTTTGAG-GATTCAACATCG
*
661300 AATGTTGGGGCATCTTTGAGGATTCAACATC
1 AATGATGGGGCATCTTTGAGGATTCAACATC
661331 CTGATACGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (32 bp):
AATGATGGGGCATCTTTGAGGATTCAACATCG
Found at i:661690 original size:30 final size:32
Alignment explanation
Indices: 661636--661694 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
661626 AAAACGCAAA
*
661636 ATCTTTGAGTCTGTTTCTCTTGAAACAAAACC
1 ATCTTTGAGTCTATTTCTCTTGAAACAAAACC
661668 ATCTTTGAGTC-ATTTC-CTTGAAACAAA
1 ATCTTTGAGTCTATTTCTCTTGAAACAAA
661695 TTTATTCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 11 0.42
31 4 0.15
32 11 0.42
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (32 bp):
ATCTTTGAGTCTATTTCTCTTGAAACAAAACC
Found at i:662325 original size:3 final size:3
Alignment explanation
Indices: 662319--662358 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
662309 ATAATAATAA
662319 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
662359 TCAATACTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:663595 original size:115 final size:115
Alignment explanation
Indices: 663450--663676 Score: 445
Period size: 115 Copynumber: 2.0 Consensus size: 115
663440 AAGAGAATAT
*
663450 ATATATATATATATATCCTCTAAATTCCTTAGGCCTAAGACTCTCTCTCTCCTCTCTCAGTTTGA
1 ATATATATATATATATCCTCTAAATTCCTTAGGCCTAAGACTCTCTATCTCCTCTCTCAGTTTGA
663515 AAACGACGCCGTTTTGCCATGGACCTTCAGTGTGTTTTCATACTAAGAGA
66 AAACGACGCCGTTTTGCCATGGACCTTCAGTGTGTTTTCATACTAAGAGA
663565 ATATATATATATATATCCTCTAAATTCCTTAGGCCTAAGACTCTCTATCTCCTCTCTCAGTTTGA
1 ATATATATATATATATCCTCTAAATTCCTTAGGCCTAAGACTCTCTATCTCCTCTCTCAGTTTGA
663630 AAACGACGCCGTTTTGCCATGGACCTTCAGTGTGTTTTCATACTAAG
66 AAACGACGCCGTTTTGCCATGGACCTTCAGTGTGTTTTCATACTAAG
663677 GGTAAATAGC
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 111 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (115 bp):
ATATATATATATATATCCTCTAAATTCCTTAGGCCTAAGACTCTCTATCTCCTCTCTCAGTTTGA
AAACGACGCCGTTTTGCCATGGACCTTCAGTGTGTTTTCATACTAAGAGA
Found at i:664095 original size:30 final size:29
Alignment explanation
Indices: 664059--664214 Score: 129
Period size: 30 Copynumber: 5.2 Consensus size: 29
664049 CATTTTAAAC
*
664059 CCTTTAAGATTCTATTTTTACTATTTTAGT
1 CCTTTAA-ATTCTATTTTTACTATTTTGGT
* **
664089 CCTTTAAATATCTA-TTTTGCTATTTTAAT
1 CCTTTAAAT-TCTATTTTTACTATTTTGGT
* * *
664118 CCCTTAAATGTTTATTTTTACTATTTTGGA
1 CCTTTAAAT-TCTATTTTTACTATTTTGGT
* *
664148 CCTTTTAAATTTCTATTTTT-GTTTTTTGGT
1 CC-TTTAAA-TTCTATTTTTACTATTTTGGT
* *
664178 CCTTTAAGTT-TATTTATTTATTATTTTGGT
1 CCTTTAAATTCTA-TT-TTTACTATTTTGGT
664208 CCTTTAA
1 CCTTTAA
664215 CTTTATGTAT
Statistics
Matches: 102, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
27 2 0.02
28 4 0.04
29 34 0.33
30 48 0.47
31 13 0.13
32 1 0.01
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.58
Consensus pattern (29 bp):
CCTTTAAATTCTATTTTTACTATTTTGGT
Found at i:664122 original size:60 final size:60
Alignment explanation
Indices: 664050--664166 Score: 157
Period size: 60 Copynumber: 1.9 Consensus size: 60
664040 TATTAATACC
*
664050 ATTTTAAACCCTTTAAGAT-TCTATTTTTACTATTTTAGTCC-TTTAAATATCTATTTTGCT
1 ATTTTAAACCC-TTAA-ATGTCTATTTTTACTATTTTAGACCTTTTAAATATCTATTTTGCT
* * * *
664110 ATTTTAATCCCTTAAATGTTTATTTTTACTATTTTGGACCTTTTAAATTTCTATTTT
1 ATTTTAAACCCTTAAATGTCTATTTTTACTATTTTAGACCTTTTAAATATCTATTTT
664167 TGTTTTTTGG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
58 2 0.04
59 23 0.46
60 25 0.50
ACGTcount: A:0.26, C:0.14, G:0.05, T:0.56
Consensus pattern (60 bp):
ATTTTAAACCCTTAAATGTCTATTTTTACTATTTTAGACCTTTTAAATATCTATTTTGCT
Found at i:664124 original size:29 final size:29
Alignment explanation
Indices: 664050--664144 Score: 102
Period size: 29 Copynumber: 3.2 Consensus size: 29
664040 TATTAATACC
*
664050 ATTTTAAACCCTTTAAGATTCTATTTTTACT
1 ATTTTAATCCC-TTAA-ATTCTATTTTTACT
* * *
664081 ATTTTAGTCCTTTAAATATCTA-TTTTGCT
1 ATTTTAATCCCTTAAAT-TCTATTTTTACT
*
664110 ATTTTAATCCCTTAAATGTTTATTTTTACT
1 ATTTTAATCCCTTAAAT-TCTATTTTTACT
664140 ATTTT
1 ATTTT
664145 GGACCTTTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
29 26 0.49
30 19 0.36
31 8 0.15
ACGTcount: A:0.26, C:0.14, G:0.04, T:0.56
Consensus pattern (29 bp):
ATTTTAATCCCTTAAATTCTATTTTTACT
Found at i:664220 original size:30 final size:30
Alignment explanation
Indices: 664171--664227 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
664161 TATTTTTGTT
* *
664171 TTTTGGTCCTTTAAGTTTATTTATTTATTA
1 TTTTGGTCCTTTAACTTTATGTATTTATTA
664201 TTTTGGTCCTTTAACTTTATGTATTTA
1 TTTTGGTCCTTTAACTTTATGTATTTA
664228 CTGTTCAGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.09, G:0.11, T:0.61
Consensus pattern (30 bp):
TTTTGGTCCTTTAACTTTATGTATTTATTA
Found at i:670384 original size:22 final size:22
Alignment explanation
Indices: 670344--670405 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
670334 CACAACATGA
*
670344 TTTTCTTTATCTTTATGGCATAT
1 TTTTCTATATCTTT-TGGCATAT
*
670367 TTTTCTATATCTTTTGGCATGT
1 TTTTCTATATCTTTTGGCATAT
670389 TTTTCTATATCTTTTGG
1 TTTTCTATATCTTTTGG
670406 AACGCTTTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
22 24 0.65
23 13 0.35
ACGTcount: A:0.15, C:0.13, G:0.11, T:0.61
Consensus pattern (22 bp):
TTTTCTATATCTTTTGGCATAT
Found at i:671417 original size:4 final size:4
Alignment explanation
Indices: 671408--671434 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
671398 ACCATTCATC
671408 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
671435 AGATGATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:675250 original size:185 final size:185
Alignment explanation
Indices: 674938--675308 Score: 706
Period size: 185 Copynumber: 2.0 Consensus size: 185
674928 GTATAGATAT
674938 TGGTGTAACACCCTAAACTCTATTGAGCCAAAAGTGTCATATGGGTTACGGAGACAACCCTTGAT
1 TGGTGTAACACCCTAAACTCTATTGAGCCAAAAGTGTCATATGGGTTACGGAGACAACCCTTGAT
*
675003 TTTCAAAACTTGTTCGTTTTCTTTTCAAACATGCTGAATGGTATCATAACTAAACATAGATAACT
66 TTTCAAAACTTGTTCGTTTTATTTTCAAACATGCTGAATGGTATCATAACTAAACATAGATAACT
675068 ATTACAGAATATTTTACAAAACTGGAGCTCCGTGGAAAATAATTTAAAACCAAAA
131 ATTACAGAATATTTTACAAAACTGGAGCTCCGTGGAAAATAATTTAAAACCAAAA
*
675123 TGGTGTAACACCCTAAACTCTATTGAGCCAAAAGTGTCATATGGGTTACGGAGGCAACCCTTGAT
1 TGGTGTAACACCCTAAACTCTATTGAGCCAAAAGTGTCATATGGGTTACGGAGACAACCCTTGAT
675188 TTTCAAAACTTGTTCGTTTTATTTTCAAACATGCTGAATGGTATCATAACTAAACATAGATAACT
66 TTTCAAAACTTGTTCGTTTTATTTTCAAACATGCTGAATGGTATCATAACTAAACATAGATAACT
* *
675253 ATTACATAATATTTTACAAAACTGGAGCTCCGTGGAATATAATTTAAAACCAAAA
131 ATTACAGAATATTTTACAAAACTGGAGCTCCGTGGAAAATAATTTAAAACCAAAA
675308 T
1 T
675309 AATACAAACT
Statistics
Matches: 182, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
185 182 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (185 bp):
TGGTGTAACACCCTAAACTCTATTGAGCCAAAAGTGTCATATGGGTTACGGAGACAACCCTTGAT
TTTCAAAACTTGTTCGTTTTATTTTCAAACATGCTGAATGGTATCATAACTAAACATAGATAACT
ATTACAGAATATTTTACAAAACTGGAGCTCCGTGGAAAATAATTTAAAACCAAAA
Found at i:683494 original size:32 final size:32
Alignment explanation
Indices: 683457--683575 Score: 114
Period size: 32 Copynumber: 3.7 Consensus size: 32
683447 AACTGCTACA
** * *
683457 CATTATCTAAATGTGACTCTAA-TACTTCTATG
1 CATTATCTAAATGCAACACTAACT-CTGCTATG
*
683489 CATTATCTGAATGCAACACTAACTCTGCTATG
1 CATTATCTAAATGCAACACTAACTCTGCTATG
* * * * *
683521 CATTATCTGAATACAACACTAAATATTCTATG
1 CATTATCTAAATGCAACACTAACTCTGCTATG
* *
683553 TATTATCTGAATGCAACACTAAC
1 CATTATCTAAATGCAACACTAAC
683576 GTTTCTATGC
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
32 73 0.99
33 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.34
Consensus pattern (32 bp):
CATTATCTAAATGCAACACTAACTCTGCTATG
Found at i:683582 original size:32 final size:32
Alignment explanation
Indices: 683482--683585 Score: 147
Period size: 32 Copynumber: 3.2 Consensus size: 32
683472 ACTCTAATAC
*
683482 TTCTATGCATTATCTGAATGCAACACTAACTC
1 TTCTATGCATTATCTGAATGCAACACTAACTA
* * *
683514 TGCTATGCATTATCTGAATACAACACTAAATA
1 TTCTATGCATTATCTGAATGCAACACTAACTA
*
683546 TTCTATGTATTATCTGAATGCAACACTAACGT-
1 TTCTATGCATTATCTGAATGCAACACTAAC-TA
683578 TTCTATGC
1 TTCTATGC
683586 TAGTATTTGG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
32 61 0.98
33 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (32 bp):
TTCTATGCATTATCTGAATGCAACACTAACTA
Found at i:691194 original size:2 final size:2
Alignment explanation
Indices: 691181--691221 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
691171 TTAGATTTGA
*
691181 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
691222 GTGCTGTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:691244 original size:13 final size:13
Alignment explanation
Indices: 691226--691253 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
691216 TGATATGTGC
691226 TGTTATTATCACA
1 TGTTATTATCACA
691239 TGTTATTATCACA
1 TGTTATTATCACA
691252 TG
1 TG
691254 CAATCATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (13 bp):
TGTTATTATCACA
Found at i:696098 original size:20 final size:22
Alignment explanation
Indices: 696073--696130 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
696063 TTCCCCTTGA
696073 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
696093 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
696116 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
696131 CTACCCAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:700162 original size:20 final size:22
Alignment explanation
Indices: 700137--700194 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
700127 TTCCCCTTGA
700137 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
700157 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
700180 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
700195 CTACCCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:700260 original size:64 final size:63
Alignment explanation
Indices: 700182--700322 Score: 169
Period size: 64 Copynumber: 2.2 Consensus size: 63
700172 TCTTTAACAT
* * *
700182 GTGCATCGATGCACTACC-CATGCATCGATACACAAATTACTTTCGATGTTTTCAT-TTTAAGGG
1 GTGCATCGATGCACT-CCTCATGCATCGATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
* * * * *
700245 GATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTCCTCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
700309 GTGCATCGATGCAC
1 GTGCATCGATGCAC
700323 ATTCAATAAG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
63 21 0.31
64 46 0.69
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:704224 original size:20 final size:22
Alignment explanation
Indices: 704199--704256 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
704189 TTCCCCTTGA
704199 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
704219 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
704242 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
704257 CTACCTATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:704320 original size:8 final size:8
Alignment explanation
Indices: 704307--704346 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
704297 ATTTTAAGGG
704307 GATGCATC
1 GATGCATC
704315 GATGCACTC
1 GATGCA-TC
*
704324 TTATGCATC
1 -GATGCATC
704333 GATGCATC
1 GATGCATC
704341 GATGCA
1 GATGCA
704347 CCAATTGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 19 0.68
9 4 0.14
10 5 0.18
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (8 bp):
GATGCATC
Found at i:708929 original size:22 final size:22
Alignment explanation
Indices: 708902--709031 Score: 174
Period size: 22 Copynumber: 6.0 Consensus size: 22
708892 GCAGAGTTTG
* *
708902 TGAATAATTACATCTTTTCATA
1 TGAATAATTATATCTATTCATA
* ** * *
708924 TGAATAACTACGTTTACTC--A
1 TGAATAATTATATCTATTCATA
708944 TGAATAATTATATCTATTCATA
1 TGAATAATTATATCTATTCATA
*
708966 TGAATAATTATATCTATGCATA
1 TGAATAATTATATCTATTCATA
708988 TGAATAATTATATCTATTCATA
1 TGAATAATTATATCTATTCATA
709010 TGAATAATTATATCTATTCATA
1 TGAATAATTATATCTATTCATA
709032 CGAGAGCAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
20 15 0.16
22 79 0.84
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (22 bp):
TGAATAATTATATCTATTCATA
Found at i:714420 original size:14 final size:13
Alignment explanation
Indices: 714389--714425 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
714379 TATTAGTATT
*
714389 ATTTAAATTATAA
1 ATTTAATTTATAA
714402 ATTTAATTTATATA
1 ATTTAATTTATA-A
714416 ATTTAATTTA
1 ATTTAATTTA
714426 ATTATTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTAATTTATAA
Found at i:717925 original size:94 final size:94
Alignment explanation
Indices: 717806--718004 Score: 258
Period size: 94 Copynumber: 2.1 Consensus size: 94
717796 CTAATGTACT
* *
717806 AGTATCGATACTAAAAGAAAGGTATCGATACCTTGAAATCCAGAAGGTA-AAAAAGTATCGATAC
1 AGTATCGATACTAAAAGAAAAGTATCGATACCAT-AAATCCAGAAGGTAGAAAAAGTATCGATAC
717870 TGAAAGGGAGTATC-AGTACCATAGTATAGA
65 TGAAAGGGAGTATCGA-TACCATAGTATAGA
* * ** * * **
717900 AGTATCGGTACTAGAAGAAAAGTATCGATACCATAGGTCTAGAATGTAGAAATGGTATCGATACT
1 AGTATCGATACTAAAAGAAAAGTATCGATACCATAAATCCAGAAGGTAGAAAAAGTATCGATACT
*
717965 GAAAGGGAGTATCGATACCATAGTATATA
66 GAAAGGGAGTATCGATACCATAGTATAGA
*
717994 AGTATCAATAC
1 AGTATCGATAC
718005 CATGGTAGGG
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
93 10 0.11
94 79 0.88
95 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.24
Consensus pattern (94 bp):
AGTATCGATACTAAAAGAAAAGTATCGATACCATAAATCCAGAAGGTAGAAAAAGTATCGATACT
GAAAGGGAGTATCGATACCATAGTATAGA
Found at i:718698 original size:54 final size:54
Alignment explanation
Indices: 718344--718674 Score: 511
Period size: 54 Copynumber: 6.1 Consensus size: 54
718334 CATTTACCCA
*
718344 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAATTTATGAATTTATGT
1 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTATGT
*
718398 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTTGT
1 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTATGT
* * ***
718452 ATTGGCACAATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGGATTTCCCT
1 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTATGT
* * **
718506 ATTGACACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATAAATTTCCGT
1 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTATGT
* *
718560 ATTGGCATTATGTATGCAACCTAAGAAATTCATAATAAGTTTATGAATTT-TCGT
1 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTAT-GT
* *
718614 ATTGACACTATGTGTGCAACCTAATAAATTCATAATAAGTTTATGAATTTATGT
1 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTATGT
718668 ATTGGCA
1 ATTGGCA
718675 TTAGATGTGC
Statistics
Matches: 253, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
54 252 1.00
55 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (54 bp):
ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTATGT
Found at i:718726 original size:162 final size:162
Alignment explanation
Indices: 718335--718731 Score: 485
Period size: 162 Copynumber: 2.4 Consensus size: 162
718325 TATGTATTGC
* * * ** *
718335 ATTTACCCAATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAATTTATGAATTTATGTAT
1 ATTTA-CCTATTGACACTATGTGTGCAACCCAAGAAATTCATAATAAGGTGATGAATTTATGTAT
* * *
718400 TGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTTGTATTGGCACAATGT
65 TGGCACTATGTATGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGACACAATGT
*
718465 GTGCAACCTAAGAAATTCATAATAAGTTTATGG
130 GTGCAACCTAAGAAATTCATAATAAGTTTATGA
* * * * * **
718498 ATTTCCCTATTGACACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATAAATTTCCGTATT
1 ATTTACCTATTGACACTATGTGTGCAACCCAAGAAATTCATAATAAGGTGATGAATTTATGTATT
* *
718563 GGCATTATGTATGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGACACTATGTG
66 GGCACTATGTATGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGACACAATGTG
*
718628 TGCAACCTAATAAATTCATAATAAGTTTATGA
131 TGCAACCTAAGAAATTCATAATAAGTTTATGA
** * * * * * *
718660 ATTTATGTATTGGCATTA-GATGTGCATCCCACAG-AATTCTTAATGAGGTGGTGAA-TTATTGT
1 ATTTACCTATTGACACTATG-TGTGCAACCCA-AGAAATTCATAATAAGGTGATGAATTTA-TGT
718722 ATTGGCACTA
63 ATTGGCACTA
718732 CGGGTGCAAA
Statistics
Matches: 201, Mismatches: 30, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
161 3 0.01
162 192 0.96
163 6 0.03
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (162 bp):
ATTTACCTATTGACACTATGTGTGCAACCCAAGAAATTCATAATAAGGTGATGAATTTATGTATT
GGCACTATGTATGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGACACAATGTG
TGCAACCTAAGAAATTCATAATAAGTTTATGA
Found at i:724640 original size:94 final size:95
Alignment explanation
Indices: 724485--724672 Score: 288
Period size: 94 Copynumber: 2.0 Consensus size: 95
724475 TGCGTATCAA
* * * *
724485 TACTAAGAGAAAGGTATCGGTACCTTGGAATCCAGAAGGTAGAAATGGTATCGATACTGAAATGG
1 TACTAAGAGAAAAGTATCGATACCATGGAATCCAGAAGGTAGAAATGGTATCGATACTGAAAGGG
*
724550 AGTATCGGTACCATAGTATATAAGTATCGG
66 AGTATCGATACCATAGTATATAAGTATCGG
* * * *
724580 TACTAGGAGAAAAGTATCGATACCATGG-ATCTAGAATGTAGAAATGGTATCGATATTGAAAGGG
1 TACTAAGAGAAAAGTATCGATACCATGGAATCCAGAAGGTAGAAATGGTATCGATACTGAAAGGG
724644 AGTATCGATACCATAGTATATAAGTATCG
66 AGTATCGATACCATAGTATATAAGTATCG
724673 ATACCATGGT
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
94 60 0.71
95 24 0.29
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (95 bp):
TACTAAGAGAAAAGTATCGATACCATGGAATCCAGAAGGTAGAAATGGTATCGATACTGAAAGGG
AGTATCGATACCATAGTATATAAGTATCGG
Found at i:724695 original size:94 final size:93
Alignment explanation
Indices: 724491--724696 Score: 252
Period size: 94 Copynumber: 2.2 Consensus size: 93
724481 TCAATACTAA
* * * * *
724491 GAGAAAGGTATCGGTACCTTGGAATCCAGAAGGTAGAAATGGTATCGATACTGAAATGGAGTATC
1 GAGAAA-GTACCGATACCATGG-ATCTAGAAGGTAGAAATGGTATCGATACTGAAAGGGAGTATC
* * *
724556 GGTACCATAGTATATAAGTATCGGTACTAG
64 GATACCATAGTATATAAGTATCGATACCAG
* * *
724586 GAGAAAAGTATCGATACCATGGATCTAGAATGTAGAAATGGTATCGATATTGAAAGGGAGTATCG
1 GAG-AAAGTACCGATACCATGGATCTAGAAGGTAGAAATGGTATCGATACTGAAAGGGAGTATCG
724651 ATACCATAGTATATAAGTATCGATACCATG
65 ATACCATAGTATATAAGTATCGATACCA-G
*
724681 GTAG-AGGTACCGATAC
1 G-AGAAAGTACCGATAC
724697 TTTTAAGCCA
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
94 74 0.76
95 18 0.19
96 5 0.05
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (93 bp):
GAGAAAGTACCGATACCATGGATCTAGAAGGTAGAAATGGTATCGATACTGAAAGGGAGTATCGA
TACCATAGTATATAAGTATCGATACCAG
Found at i:725104 original size:54 final size:54
Alignment explanation
Indices: 725022--725325 Score: 448
Period size: 54 Copynumber: 5.6 Consensus size: 54
725012 ACCCATTTGA
** *
725022 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTTGTATGGG
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
*
725076 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGG
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
* * *
725130 CACAATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCCTATTGA
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
* * *
725184 CACTATGTGTACAACCTAAGAAATCCATAATAAGTTTATGAATTTCTGTATTGG
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
*
725238 CACTATGTGTGGAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
* * * * *
725292 CATTA-GATGTGCATCCCACGAAATTCTTAATAAG
1 CACTATG-TGTGCAACCTAAGAAATTCATAATAAG
725326 GTGGTGAATT
Statistics
Matches: 227, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
53 1 0.00
54 226 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (54 bp):
CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
Found at i:725334 original size:108 final size:107
Alignment explanation
Indices: 725022--725376 Score: 453
Period size: 108 Copynumber: 3.3 Consensus size: 107
725012 ACCCATTTGA
** *
725022 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTTGTATGGGCACTATGTGTG
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTG
725087 CAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGG
66 CAACCTAAGAAATTCATAATAAGTTTATGAATTTT-GTATTGG
* * * *
725130 CACAATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCCTATTGACACTATGTGTA
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTG
*
725195 CAACCTAAGAAATCCATAATAAGTTTATGAATTTCTGTATTGG
66 CAACCTAAGAAATTCATAATAAGTTTATGAATTT-TGTATTGG
* *
725238 CACTATGTGTGGAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCATTA-GATGT
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATG-TGT
* * * * * **
725302 GCATCCCACGAAATTCTTAATAAGGTGGTGAATTATTGTATTGG
65 GCAACCTAAGAAATTCATAATAAGTTTATGAATT-TTGTATTGG
* * * * *
725346 AACTACGAGTGCAAACTATAG-AATTTATAAT
1 CACTATGTGTGCAACCTA-AGAAATTCATAAT
725377 GAAATTAAAT
Statistics
Matches: 215, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
107 1 0.00
108 210 0.98
109 4 0.02
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (107 bp):
CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTG
CAACCTAAGAAATTCATAATAAGTTTATGAATTTTGTATTGG
Found at i:727263 original size:491 final size:487
Alignment explanation
Indices: 725847--727313 Score: 2070
Period size: 488 Copynumber: 3.0 Consensus size: 487
725837 CTTATTGGAT
* * * * * *
725847 ATACAACCACGTAAAGT-AGTTGTCAGTAAATCTTTCATCAACATATGATAATCATGTGACTTTA
1 ATACAACCACATAAAGTAACTAG-CAATAAATCTTGCATCAATATATGATAATCATGTGACTTTA
* * * * * * *
725911 AAGAATAAAGTATCTGATCTTTAACACTGACACATAGAGATATATTTGATACATACCAATCTGGG
65 GAGAATAAAGTCTCTGATCTTTAAAACTGACACATCGAGATATATTTGATGCATACCCATTTGGG
* * * **
725976 ACCTTTAT-TCCTTCAACACCGTGCAAAACACTTCTTTTTCTTTCTTTAACAT-TATAAAAATAG
130 ACCTTTATATCCTTTAACACCTTGCAAAAAACTT-TTTTTCTTTCTTCGACATCT-TAAAAATAG
* * * * * * *
726039 AAGGTGATAATCGATATTTTCCATTAGGAAGTAATTGGGGATAAAGATCGC-GTCAAATT-TCGA
193 AAGG-CATAATCGATATTTTTCATTAGGAAGTAATTGAGGATGAAGATCACACT-GAATTAT-GA
*
726102 TGTCAACTAAGTCAAGTTGACTCTTTATATTATCTTTAGATTTACTATCGACATTGAGAAAGGTC
255 TGTCAACTAAGTTAAGTTGACTCTTTATATTATCTTTAGATTTACTATCGACATTGAGAAAGGTC
* * * *
726167 CCAATAATATTCTTACAAACATTCTTCTTAATGTGCATGAAATCAAGATAATGTCTCAAAATGTG
320 CCGATAATATTCTTACAAACATTCTTCTCAATGTGCATGACATCAAGATTATGTCTCAAAATGTG
* * * * * *
726232 ATCCTCCCAATACGGCAAGCCAAAGAAAATACTTCTTTTTTTCCACAAATCCACCTCATTTGGGT
385 ATCCTTCCAAT-GGGCAAGTCGAAGAAAATACTTCTCTTTTTCCACAAATCCACCTCATTTGGAT
*
726297 TATTCTCTTCATCAGACTTATCATCGCTCTCTTGTTCAGC
449 TA-TCTCTTCATCAGACTTATCATCACTCTCTTGTTCAGC
* * * * *
726337 ATAAAACCACATAAAGCAACTGGCAATAAATCTTGCATCAATATTTGATAATCATGGGACTTTAG
1 ATACAACCACATAAAGTAACTAGCAATAAATCTTGCATCAATATATGATAATCATGTGACTTTAG
*
726402 AGAATAAAGTCTATGATCTTTAAAACTGACACATCGAGATATATTTGATGCATACCCATTTGGGA
66 AGAATAAAGTCTCTGATCTTTAAAACTGACACATCGAGATATATTTGATGCATACCCATTTGGGA
* * *
726467 CCTTTATATCCTTTAACA--TTGCAGAAAACATTTTTTCCTTTCTTCGACATCATAAAAATAGAA
131 CCTTTATATCCTTTAACACCTTGCAAAAAAC-TTTTTTTCTTTCTTCGACATCTTAAAAATAGAA
726530 GGCAATAATCGATA-TTTTCATTAGGAAGTAATTGAGGATGAAGATCACACTGAATTATGATGTC
195 GGC-ATAATCGATATTTTTCATTAGGAAGTAATTGAGGATGAAGATCACACTGAATTATGATGTC
* * *
726594 AAATAAGTTAATTTGACTCTTTAGATTATCTTTAGATTTACTATCGACATTGAGAAAGGTCCCGA
259 AACTAAGTTAAGTTGACTCTTTATATTATCTTTAGATTTACTATCGACATTGAGAAAGGTCCCGA
*
726659 TAATATTCTTACAAACATTCTTCTCAATGTGCATGACATCAAGATTATGTCTCAAAATGTGATGC
324 TAATATTCTTACAAACATTCTTCTCAATGTGCATGACATCAAGATTATGTCTCAAAATGTGATCC
* *
726724 TTCAAATGGGGCAAGTAGAAGAAAATACTTCTCTTTTTCCACAAATCCACCTCATTTGGATTATC
389 TTCCAAT-GGGCAAGTCGAAGAAAATACTTCTCTTTTTCCACAAATCCACCTCATTTGGATTATC
*
726789 ATCTTCATCAGACTTATCATCACTCTGTTGTTCAGC
453 -TCTTCATCAGACTTATCATCACTCTCTTGTTCAGC
726825 ATACAACCACATAAAGTAACTAGCAATAAATCTTGCATCAATATATGATAATCATGTGACTTTAG
1 ATACAACCACATAAAGTAACTAGCAATAAATCTTGCATCAATATATGATAATCATGTGACTTTAG
* *
726890 AGAATAAAGTCTCTGATCTTTAAAACTGACACATCGAGATATATTCGATGCATACCCATTTGGAA
66 AGAATAAAGTCTCTGATCTTTAAAACTGACACATCGAGATATATTTGATGCATACCCATTTGGGA
* * *
726955 CTTTTATATCCTTTAACACCTTGAAAAAAACTTATTTTTCTTTCTTCGACATCTTAAAAATAAAA
131 CCTTTATATCCTTTAACACCTTGCAAAAAACTT-TTTTTCTTTCTTCGACATCTTAAAAATAGAA
* * *
727020 GGCATTAATCGAGATTTTTCATTAAGAAGTAATTGAGGATGAAGATCACACTGAATTATGATGCC
195 GGCA-TAATCGATATTTTTCATTAGGAAGTAATTGAGGATGAAGATCACACTGAATTATGATGTC
* * *
727085 AACTAAGTTAAGTCGACTCTTTATATTATCTTTATATTTACTATAGACATTGAGAAAGGTCCCGA
259 AACTAAGTTAAGTTGACTCTTTATATTATCTTTAGATTTACTATCGACATTGAGAAAGGTCCCGA
* *
727150 TAATTTTCTTACAAACATTCTTCTCAATGTGTATGACATCAAGATTATGTCTCAAAATGTGATCC
324 TAATATTCTTACAAACATTCTTCTCAATGTGCATGACATCAAGATTATGTCTCAAAATGTGATCC
* * *
727215 TTCCAATGGGACAAGTCGATA-AAACTACTTCTCTTTTTCCACAAATCCACCTCACTTGGATCAT
389 TTCCAATGGG-CAAGTCGA-AGAAAATACTTCTCTTTTTCCACAAATCCACCTCATTTGGATTAT
* * *
727279 CCTCTTTATCGGACTCATCATCACTCTCTTGTTCA
452 -CTCTTCATCAGACTTATCATCACTCTCTTGTTCA
727314 ACATCACGAC
Statistics
Matches: 873, Mismatches: 88, Indels: 31
0.88 0.09 0.03
Matches are distributed among these distances:
487 2 0.00
488 387 0.44
489 51 0.06
490 168 0.19
491 263 0.30
492 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (487 bp):
ATACAACCACATAAAGTAACTAGCAATAAATCTTGCATCAATATATGATAATCATGTGACTTTAG
AGAATAAAGTCTCTGATCTTTAAAACTGACACATCGAGATATATTTGATGCATACCCATTTGGGA
CCTTTATATCCTTTAACACCTTGCAAAAAACTTTTTTTCTTTCTTCGACATCTTAAAAATAGAAG
GCATAATCGATATTTTTCATTAGGAAGTAATTGAGGATGAAGATCACACTGAATTATGATGTCAA
CTAAGTTAAGTTGACTCTTTATATTATCTTTAGATTTACTATCGACATTGAGAAAGGTCCCGATA
ATATTCTTACAAACATTCTTCTCAATGTGCATGACATCAAGATTATGTCTCAAAATGTGATCCTT
CCAATGGGCAAGTCGAAGAAAATACTTCTCTTTTTCCACAAATCCACCTCATTTGGATTATCTCT
TCATCAGACTTATCATCACTCTCTTGTTCAGC
Found at i:727900 original size:85 final size:85
Alignment explanation
Indices: 727757--727929 Score: 346
Period size: 85 Copynumber: 2.0 Consensus size: 85
727747 AGGATGTATA
727757 TAGATGTCAAGATAATTCCTGAGACCTTTCGCACCGGGGATTATCATTGATAAGATAAATGATTA
1 TAGATGTCAAGATAATTCCTGAGACCTTTCGCACCGGGGATTATCATTGATAAGATAAATGATTA
727822 TTGTTTCAAGCAAATCCACT
66 TTGTTTCAAGCAAATCCACT
727842 TAGATGTCAAGATAATTCCTGAGACCTTTCGCACCGGGGATTATCATTGATAAGATAAATGATTA
1 TAGATGTCAAGATAATTCCTGAGACCTTTCGCACCGGGGATTATCATTGATAAGATAAATGATTA
727907 TTGTTTCAAGCAAATCCACT
66 TTGTTTCAAGCAAATCCACT
727927 TAG
1 TAG
727930 GCAAATTATA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 88 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (85 bp):
TAGATGTCAAGATAATTCCTGAGACCTTTCGCACCGGGGATTATCATTGATAAGATAAATGATTA
TTGTTTCAAGCAAATCCACT
Found at i:734394 original size:19 final size:21
Alignment explanation
Indices: 734351--734395 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
734341 ATTCAAAGTT
734351 GAAGCGAGACAATCAGAATGA
1 GAAGCGAGACAATCAGAATGA
* *
734372 GAAGTGAGAGAATCAG-A-GA
1 GAAGCGAGACAATCAGAATGA
734391 GAAGC
1 GAAGC
734396 CAAAGAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 6 0.29
20 1 0.05
21 14 0.67
ACGTcount: A:0.47, C:0.11, G:0.33, T:0.09
Consensus pattern (21 bp):
GAAGCGAGACAATCAGAATGA
Found at i:734622 original size:28 final size:28
Alignment explanation
Indices: 734590--734650 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
734580 GTTAAACCAT
*
734590 ATTACATTTCACTTGAATGTTGAACTAC
1 ATTACATTTCACTTAAATGTTGAACTAC
734618 ATTACATTTCACTTAAATGTTGAACTAC
1 ATTACATTTCACTTAAATGTTGAACTAC
734646 ATTAC
1 ATTAC
734651 TTGAATGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (28 bp):
ATTACATTTCACTTAAATGTTGAACTAC
Found at i:736999 original size:54 final size:54
Alignment explanation
Indices: 736830--737316 Score: 398
Period size: 54 Copynumber: 9.0 Consensus size: 54
736820 TCTTCAAATA
* * * * * * * ** *
736830 TTGAATAATATGCTCTACTCTTCCGTAGCAAAAGAGCGCTAGAGCTTACTCGGTA
1 TTGAA-AATTTGCTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTGCTTAGTC
* ** * * * *
736885 TTGAAAATTTGCTCTACTCCT-TATAA-AAAATAACG-TTGTAGCTTACTCAATC
1 TTGAAAATTTGCTCTACTCCTCCATAACAAAGGAACGCTAG-AGCTTGCTTAGTC
* * * *
736937 TTGGAAATTTTCTCTACTCCTCCACAATAAAGGAACGCTAGAGCTTGCTTAGTC
1 TTGAAAATTTGCTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTGCTTAGTC
* *
736991 TTTAAAATTTTCTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTAG-TT-GTTC
1 TTGAAAATTTGCTCTACTCCTCCATAACAAAGGAACGCTAGAGCTT-GCTTAG-TC
* * * * * * * * *
737045 TTGGAAATTTGATCTAGTCCTCTATAAAAAAAGAAC-CTAGGGCTTACTCAGTC
1 TTGAAAATTTGCTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTGCTTAGTC
* * * * * * *
737098 TTGGAAATTTGCTTTACTCATCCATAACAAAGGAACACTAGAGGTCGCTCAGTC
1 TTGAAAATTTGCTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTGCTTAGTC
* * * * * *
737152 TTTAAAAGTTTACTCTAGTCCTCCATAACAATA-GAATGCTAGAGCTTACTTGGTC
1 TTGAAAA-TTTGCTCTACTCCTCCATAACAA-AGGAACGCTAGAGCTTGCTTAGTC
* *
737207 TTGAAAATTTGCTCTACTCCTTCATAACAAAGGAACGCTAGAGCTTACTTTA-TC
1 TTGAAAATTTGCTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTGC-TTAGTC
* *
737261 TT-AAAATTTTGCTCTACTCCTCCATAACAAAGGAATGCTAGAGCTTGCTCAGTC
1 TTGAAAA-TTTGCTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTGCTTAGTC
737315 TT
1 TT
737317 AAGGAAAATA
Statistics
Matches: 347, Mismatches: 70, Indels: 31
0.77 0.16 0.07
Matches are distributed among these distances:
51 2 0.01
52 36 0.10
53 53 0.15
54 205 0.59
55 50 0.14
56 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (54 bp):
TTGAAAATTTGCTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTGCTTAGTC
Found at i:737316 original size:108 final size:109
Alignment explanation
Indices: 736840--737316 Score: 441
Period size: 108 Copynumber: 4.4 Consensus size: 109
736830 TTGAATAATA
* * * * * *
736840 TGCTCTACTCTTCCGTAGCAAAAGAGCGCTAGAGCTTACTCGGTATTGAAAATTTGCTCTACTCC
1 TGCTCTACTCCTCCATAACAAAAGAACGCTAGAGCTTACTCAGTCTTGAAAATTTGCTCTACTCC
* ** * ** *
736905 T-TATAA-AAAATAACG-TTGTAGCTTACTCAATCTTGGAAATTT
66 TCCATAACAAAGGAACGCTAG-AGCTTACTTTATCTTGAAAATTT
* * * * * * *
736947 T-CTCTACTCCTCCACAATAAAGGAACGCTAGAGCTTGCTTAGTCTTTAAAATTTTCTCTACTCC
1 TGCTCTACTCCTCCATAACAAAAGAACGCTAGAGCTTACTCAGTCTTGAAAATTTGCTCTACTCC
* *
737011 TCCATAACAAAGGAACGCTAGAGCTTAGTTGT-TCTTGGAAA-TT
66 TCCATAACAAAGGAACGCTAGAGCTTACTT-TATCTTGAAAATTT
* * * * * * * *
737054 TGATCTAGTCCTCTATAAAAAAAGAAC-CTAGGGCTTACTCAGTCTTGGAAATTTGCTTTACTCA
1 TGCTCTACTCCTCCATAACAAAAGAACGCTAGAGCTTACTCAGTCTTGAAAATTTGCTCTACTCC
* * ** * * *
737118 TCCATAACAAAGGAACACTAGAGGTCGC-TCAGTCTTTAAAAGTT
66 TCCATAACAAAGGAACGCTAGAGCTTACTTTA-TCTTGAAAATTT
* * * * **
737162 TACTCTAGTCCTCCATAACAATAGAATGCTAGAGCTTACTTGGTCTTGAAAATTTGCTCTACTCC
1 TGCTCTACTCCTCCATAACAAAAGAACGCTAGAGCTTACTCAGTCTTGAAAATTTGCTCTACTCC
*
737227 TTCATAACAAAGGAACGCTAGAGCTTACTTTATCTT-AAAATTT
66 TCCATAACAAAGGAACGCTAGAGCTTACTTTATCTTGAAAATTT
* * *
737270 TGCTCTACTCCTCCATAACAAAGGAATGCTAGAGCTTGCTCAGTCTT
1 TGCTCTACTCCTCCATAACAAAAGAACGCTAGAGCTTACTCAGTCTT
737317 AAGGAAAATA
Statistics
Matches: 292, Mismatches: 68, Indels: 19
0.77 0.18 0.05
Matches are distributed among these distances:
106 52 0.18
107 67 0.23
108 111 0.38
109 60 0.21
110 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (109 bp):
TGCTCTACTCCTCCATAACAAAAGAACGCTAGAGCTTACTCAGTCTTGAAAATTTGCTCTACTCC
TCCATAACAAAGGAACGCTAGAGCTTACTTTATCTTGAAAATTT
Found at i:742635 original size:5 final size:5
Alignment explanation
Indices: 742625--742650 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
742615 TGACTTAGAA
742625 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
742651 AATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:751865 original size:100 final size:100
Alignment explanation
Indices: 751703--751929 Score: 427
Period size: 100 Copynumber: 2.3 Consensus size: 100
751693 CCACCTCGAC
* *
751703 ACCACTAAGATACACGAGTCATATGAGTAATAGTATTGTATCATATAACATATAACATATAAAAT
1 ACCACTAACACACACGAGTCATATGAGTAATAGTATTGTATCATATAACATATAACATATAAAAT
751768 ATCTTATAGATTGCACTCAATTACTCCACCTGGGT
66 ATCTTATAGATTGCACTCAATTACTCCACCTGGGT
*
751803 ACCACTAACACACATGAGTCATATGAGTAATAGTATTGTATCATATAACATATAACATATAAAAT
1 ACCACTAACACACACGAGTCATATGAGTAATAGTATTGTATCATATAACATATAACATATAAAAT
751868 ATCTTATAGATTGCACTCAATTACTCCACCTGGGT
66 ATCTTATAGATTGCACTCAATTACTCCACCTGGGT
751903 ACCACTAACACACACGAGTCATATGAG
1 ACCACTAACACACACGAGTCATATGAG
751930 CAATCTATAT
Statistics
Matches: 123, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 123 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (100 bp):
ACCACTAACACACACGAGTCATATGAGTAATAGTATTGTATCATATAACATATAACATATAAAAT
ATCTTATAGATTGCACTCAATTACTCCACCTGGGT
Found at i:753659 original size:15 final size:16
Alignment explanation
Indices: 753641--753670 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
753631 TTACAAATAC
753641 AAAATTT-AACTTTTG
1 AAAATTTAAACTTTTG
753656 AAAATTTAAACTTTT
1 AAAATTTAAACTTTT
753671 AATCCTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (16 bp):
AAAATTTAAACTTTTG
Found at i:753970 original size:5 final size:5
Alignment explanation
Indices: 753960--754029 Score: 122
Period size: 5 Copynumber: 13.6 Consensus size: 5
753950 AAAGAAAGAA
753960 AAATG AAATG AAATG AAAAATG AAATG AAATG AAATG AAATG AAATG AAATG
1 AAATG AAATG AAATG --AAATG AAATG AAATG AAATG AAATG AAATG AAATG
754012 AAATG AAATG AAATG AAA
1 AAATG AAATG AAATG AAA
754030 AAATGATTGA
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
5 58 0.92
7 5 0.08
ACGTcount: A:0.63, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
AAATG
Found at i:754786 original size:46 final size:46
Alignment explanation
Indices: 754736--755075 Score: 209
Period size: 46 Copynumber: 7.2 Consensus size: 46
754726 TAAGGTCTCT
* *
754736 TTTCATGCATTAATACATCCGTTCATGCATTTTAATCATGGCATCC
1 TTTCATGCATTAATACATCCTTTCATGCATTTTAATTATGGCATCC
** * *
754782 TTTCATGCCCTAATGCATCCTTTCATGCATTTTAGTTATGGCATCC
1 TTTCATGCATTAATACATCCTTTCATGCATTTTAATTATGGCATCC
* * * *
754828 ATTCATTCATTTTAATTATTGCATCCTTTCATGC--CTT-A--AT-GCATTC
1 TTTCATGCA--TTAA-TA---CATCCTTTCATGCATTTTAATTATGGCATCC
* *
754874 TTTCATGCATTTTAATTATGGCATCCTTTCATGC--CTT-A--AT-GCATTC
1 TTTCATGCA--TTAA-TA---CATCCTTTCATGCATTTTAATTATGGCATCC
*
754920 GTTCATGCATTTTTAATTATGGCATCCTTTCATGCATTTTAATTATGGCATCC
1 TTTCATGCA---TTAA-TA---CATCCTTTCATGCATTTTAATTATGGCATCC
* * * * *
754973 TTTCATGCTTTAATGCATCCTTCCATGCATTTTAGTTATGGTATCC
1 TTTCATGCATTAATACATCCTTTCATGCATTTTAATTATGGCATCC
* * * * * *
755019 TTTCATGCCTTAATGCATCATTTCATGCATTTAAATAATGTCATCC
1 TTTCATGCATTAATACATCCTTTCATGCATTTTAATTATGGCATCC
755065 TTTCATGCATT
1 TTTCATGCATT
755076 TTAGTTATGG
Statistics
Matches: 246, Mismatches: 35, Indels: 26
0.80 0.11 0.08
Matches are distributed among these distances:
46 178 0.72
47 27 0.11
48 3 0.01
49 4 0.02
50 7 0.03
52 15 0.06
53 12 0.05
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (46 bp):
TTTCATGCATTAATACATCCTTTCATGCATTTTAATTATGGCATCC
Found at i:754833 original size:72 final size:72
Alignment explanation
Indices: 754751--754907 Score: 242
Period size: 72 Copynumber: 2.2 Consensus size: 72
754741 TGCATTAATA
*
754751 CATCCGTTCATGCATTTTAATCATGGCATCCTTTCATGCCCTAATGCATCCTTTCATGCATTTTA
1 CATCCATTCATGCATTTTAATCATGGCATCCTTTCATGCCCTAATGCATCCTTTCATGCATTTTA
*
754816 GTTATGG
66 ATTATGG
* * * * *
754823 CATCCATTCATTCATTTTAATTATTGCATCCTTTCATGCCTTAATGCATTCTTTCATGCATTTTA
1 CATCCATTCATGCATTTTAATCATGGCATCCTTTCATGCCCTAATGCATCCTTTCATGCATTTTA
754888 ATTATGG
66 ATTATGG
*
754895 CATCCTTTCATGC
1 CATCCATTCATGC
754908 CTTAATGCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (72 bp):
CATCCATTCATGCATTTTAATCATGGCATCCTTTCATGCCCTAATGCATCCTTTCATGCATTTTA
ATTATGG
Found at i:754867 original size:118 final size:118
Alignment explanation
Indices: 754736--755131 Score: 587
Period size: 118 Copynumber: 3.3 Consensus size: 118
754726 TAAGGTCTCT
* * * *
754736 TTTCATGCATTAATACATCCGTTCATGCATTTTAATCATGGCATCCTTTCATGCCCTAATGCATC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATC
* * * *
754801 CTTTCATGCATTTTAGTTATGGCATCCATTCATTCATTTTAATTATTGCATCC
66 CTTTCATGCATTTTAATTATGGCATCCTTTCATGCATTTTAATTATGGCATCC
* * *
754854 TTTCATGCCTTAATGCATTCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATT
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATC
*
754919 CGTTCATGCATTTTTAATTATGGCATCCTTTCATGCATTTTAATTATGGCATCC
66 CTTTCATGCA-TTTTAATTATGGCATCCTTTCATGCATTTTAATTATGGCATCC
* * *
754973 TTTCATGCTTTAATGCATCC-TTCCATGCATTTTAGTTATGGTATCCTTTCATGCCTTAATGCAT
1 TTTCATGCCTTAATGCATCCGTT-CATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCAT
* * * * *
755037 CATTTCATGCATTTAAATAATGTCATCCTTTCATGCATTTTAGTTATGGCATCC
65 CCTTTCATGCATTTTAATTATGGCATCCTTTCATGCATTTTAATTATGGCATCC
755091 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATGG
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATGG
755132 ATTCAGTTTA
Statistics
Matches: 250, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
118 144 0.58
119 106 0.42
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.44
Consensus pattern (118 bp):
TTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATC
CTTTCATGCATTTTAATTATGGCATCCTTTCATGCATTTTAATTATGGCATCC
Found at i:754876 original size:20 final size:20
Alignment explanation
Indices: 754847--755118 Score: 85
Period size: 26 Copynumber: 11.8 Consensus size: 20
754837 TTTTAATTAT
754847 TGCATCCTTTCATGCCTTAA
1 TGCATCCTTTCATGCCTTAA
* *
754867 TGCATTCTTTCATGCATTTTAATTA
1 TGCATCCTTTCATGC--CTT-A--A
754892 TGGCATCCTTTCATGCCTTAA
1 T-GCATCCTTTCATGCCTTAA
* * *
754913 TGCATTCGTTCATGCATTTTTAATTA
1 TGCATCCTTTCATGC---CTT-A--A
*
754939 TGGCATCCTTTCATGCATTTTAATTA
1 T-GCATCCTTTCATGC--CTT-A--A
*
754965 TGGCATCCTTTCATGCTTTAA
1 T-GCATCCTTTCATGCCTTAA
* *
754986 TGCATCCTTCCATGCATTTTAGTTA
1 TGCATCCTTTCATGC--CTTA---A
*
755011 TGGTATCCTTTCATGCCTTAA
1 T-GCATCCTTTCATGCCTTAA
* *
755032 TGCATCATTTCATGCATTTAAATAA
1 TGCATCCTTTCATGC--CT---TAA
*
755057 TGTCATCCTTTCATGCATTTTAGTTA
1 TG-CATCCTTTCATGC--CTTA---A
755083 TGGCATCCTTTCATGCCTTAA
1 T-GCATCCTTTCATGCCTTAA
*
755104 TGCATCCGTTCATGC
1 TGCATCCTTTCATGC
755119 ATTTTAATTA
Statistics
Matches: 203, Mismatches: 20, Indels: 58
0.72 0.07 0.21
Matches are distributed among these distances:
20 64 0.32
21 8 0.04
22 7 0.03
23 7 0.03
24 12 0.06
25 9 0.04
26 83 0.41
27 13 0.06
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (20 bp):
TGCATCCTTTCATGCCTTAA
Found at i:754961 original size:73 final size:72
Alignment explanation
Indices: 754868--755098 Score: 251
Period size: 72 Copynumber: 3.2 Consensus size: 72
754858 ATGCCTTAAT
* *
754868 GCATTCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATTCGTT-CATGCATTT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCA-TCCTTCCATGCA-TT
754932 TTAATTATG
64 TTAATTATG
*
754941 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCTTTAATGCATCCTTCCATGCATTTT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTCCATGCATTTT
*
755006 AGTTATG
66 AATTATG
* * * * *
755013 GTATCCTTTCATGC--CTT-A--AT-GCATCATTTCATGCATTTAAATAATGTCATCCTTTCATG
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGC--CT---TAATG-CATCCTTCCATG
*
755072 CATTTTAGTTATG
60 CATTTTAATTATG
755085 GCATCCTTTCATGC
1 GCATCCTTTCATGC
755099 CTTAATGCAT
Statistics
Matches: 142, Mismatches: 9, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
66 13 0.09
67 2 0.01
68 2 0.01
69 1 0.01
70 2 0.01
71 5 0.04
72 64 0.45
73 53 0.37
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (72 bp):
GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTCCATGCATTTT
AATTATG
Found at i:755064 original size:72 final size:71
Alignment explanation
Indices: 754983--755122 Score: 235
Period size: 72 Copynumber: 2.0 Consensus size: 71
754973 TTTCATGCTT
* *
754983 TAATGCATCCTTCCATGCATTTTAGTTATGGTATCCTTTCATGCCTTAATGCATCATTTCATGCA
1 TAATGCATCCTTCCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCAGTTCATGCA
755048 TTTAAA
66 TTTAAA
* *
755054 TAATGTCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
1 TAATG-CATCCTTCCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCAGTTCATGC
755119 ATTT
65 ATTT
755123 TAATTATGGA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 5 0.08
72 59 0.92
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (71 bp):
TAATGCATCCTTCCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCAGTTCATGCA
TTTAAA
Done.