Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_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: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 33
Found at i:6471653 original size:55 final size:55
Alignment explanation
Indices: 6471570--6472049 Score: 594
Period size: 55 Copynumber: 8.8 Consensus size: 55
6471560 CAACGATAAT
* * *
6471570 TGAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGA
*
6471625 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGA
* * * *
6471680 TGAAAATTGTTCGAGTCTTATACTCTCTGCAGAAATATGGAGCAGACACGATGGA
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGA
* *
6471735 TGAAGATTGTTCGAGTCTTGTACTCTCTGAAGGAATAGGGAGCAGACACGATTGA
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGA
* * *
6471790 TGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATGGGGAGCAGACACGA-TGA
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGA
* * * *
6471844 TGAAGATTGTTTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAGGATTTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA-TTGA
* * *
6471900 TGAAGATTGTTTGGGTCTTATACTCTCTGAGGAAATAGGGAGCAGACACGATTGA
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGA
* * ** * * * *
6471955 TGAAGATTCTTCAAGT-TCCTACTCCCT-AAGAAAGAGGGAAC-GAACCCG-TTGA
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTGA
* * * *
6472007 CAGAAGATTGTTCGAGT-TCTATACTCCCCGAAGAAAGAGGGAG
1 -TGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAG
6472050 TGAACTCGTT
Statistics
Matches: 375, Mismatches: 44, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
52 5 0.01
53 29 0.08
54 63 0.17
55 227 0.61
56 51 0.14
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (55 bp):
TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGA
Found at i:6472066 original size:55 final size:54
Alignment explanation
Indices: 6471956--6472113 Score: 196
Period size: 55 Copynumber: 2.9 Consensus size: 54
6471946 CACGATTGAT
* * * * *
6471956 GAAGATTCTTCAAGTTC-CTACTCCCTAAGAAAGAGGGAACGAACCCGTTGACA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACTCGTTGACA
* *
6472009 GAAGATTGTTCGAGTTCTATACTCCCCGAAGAAAGAGGGAGTGAACTCGTTCG-CA
1 GAAGATTGTTCGAGTTCTATACT-CCCTAAGAAAGAGGGAGCGAACTCGTT-GACA
*
6472064 GAAAATTGTTCGAGTTCTATACTCCCTAA-AAATGAGGGAGCGAACTCGTT
1 GAAGATTGTTCGAGTTCTATACTCCCTAAGAAA-GAGGGAGCGAACTCGTT
6472114 TTCCGAATAT
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
53 18 0.20
54 25 0.27
55 47 0.52
56 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (54 bp):
GAAGATTGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACTCGTTGACA
Found at i:6479544 original size:21 final size:21
Alignment explanation
Indices: 6479500--6479550 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
6479490 TTATTTAGAG
* *
6479500 TTTAAAATTATAATTTTAATA
1 TTTAAGATTATAATTTTAAGA
*
6479521 TTTAAGATTATAATTTTAGGA
1 TTTAAGATTATAATTTTAAGA
*
6479542 TTTATGATT
1 TTTAAGATT
6479551 TAAAGTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (21 bp):
TTTAAGATTATAATTTTAAGA
Found at i:6479582 original size:14 final size:14
Alignment explanation
Indices: 6479538--6479582 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
6479528 TTATAATTTT
*
6479538 AGGATTTATGATTTA
1 AGGA-TTATGAGTTA
* *
6479553 AAGTTTATGAGTTA
1 AGGATTATGAGTTA
6479567 AGGATTATGAGTTA
1 AGGATTATGAGTTA
6479581 AG
1 AG
6479583 ATGTAGGGTC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 23 0.92
15 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (14 bp):
AGGATTATGAGTTA
Found at i:6479720 original size:31 final size:30
Alignment explanation
Indices: 6479668--6479740 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
6479658 AATAAAATAA
* *
6479668 TAAATATATAATAATTGATAATGTAAGTAAT
1 TAAA-ATATAATAATCGATAATATAAGTAAT
* *
6479699 TAAAATTTAATAAGTCGATAATATAAGTTAT
1 TAAAATATAATAA-TCGATAATATAAGTAAT
*
6479730 TGAAATATAAT
1 TAAAATATAAT
6479741 TTTTTTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 8 0.23
31 27 0.77
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (30 bp):
TAAAATATAATAATCGATAATATAAGTAAT
Found at i:6483267 original size:21 final size:20
Alignment explanation
Indices: 6483222--6483268 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
6483212 GTTTGTGGCC
6483222 GTTTT-TAGCCGTTGGGTAT
1 GTTTTCTAGCCGTTGGGTAT
*
6483241 GATTTCTAGCCGTTTGGGGT-T
1 GTTTTCTAGCCG-TT-GGGTAT
6483262 GTTTTCT
1 GTTTTCT
6483269 CTGCAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.17
20 6 0.26
21 9 0.39
22 4 0.17
ACGTcount: A:0.09, C:0.13, G:0.30, T:0.49
Consensus pattern (20 bp):
GTTTTCTAGCCGTTGGGTAT
Found at i:6486518 original size:20 final size:19
Alignment explanation
Indices: 6486474--6486518 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
6486464 GTTTGTGGCC
*
6486474 GTTTTTAGCCGTTGGGTAT
1 GTTTTTAGCCGTTGGGGAT
6486493 GATTTTTAGCCGTTTGGGGAT
1 G-TTTTTAGCCG-TTGGGGAT
6486514 GTTTT
1 GTTTT
6486519 CTCTACAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 14 0.61
21 8 0.35
ACGTcount: A:0.11, C:0.09, G:0.31, T:0.49
Consensus pattern (19 bp):
GTTTTTAGCCGTTGGGGAT
Found at i:6487846 original size:33 final size:34
Alignment explanation
Indices: 6487778--6487843 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
6487768 ATTAATCAAA
6487778 TCATGCATGCATAGTCATTTAAGATAAAAAAAAC
1 TCATGCATGCATAGTCATTTAAGATAAAAAAAAC
6487812 TCATGCATGCATAGTCATTTAAGATAAAAAAA
1 TCATGCATGCATAGTCATTTAAGATAAAAAAA
6487844 CTCTTGAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (34 bp):
TCATGCATGCATAGTCATTTAAGATAAAAAAAAC
Found at i:6490707 original size:20 final size:20
Alignment explanation
Indices: 6490670--6490712 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6490660 TTTCCACCAC
6490670 ATGCAACTAAATGCTTCTAA
1 ATGCAACTAAATGCTTCTAA
* * *
6490690 ATGCATCTACATGGTTCTAA
1 ATGCAACTAAATGCTTCTAA
6490710 ATG
1 ATG
6490713 AGATCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (20 bp):
ATGCAACTAAATGCTTCTAA
Found at i:6491290 original size:8 final size:9
Alignment explanation
Indices: 6491274--6491311 Score: 58
Period size: 9 Copynumber: 4.0 Consensus size: 9
6491264 TATTCACAAC
6491274 TTCATTTTT
1 TTCATTTTT
6491283 TTCATTTTTTT
1 TTCA--TTTTT
6491294 TTCATTTTT
1 TTCATTTTT
6491303 TTCATTTTT
1 TTCATTTTT
6491312 AGTGGTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 18 0.67
11 9 0.33
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (9 bp):
TTCATTTTT
Found at i:6491294 original size:11 final size:11
Alignment explanation
Indices: 6491278--6491304 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6491268 CACAACTTCA
6491278 TTTTTTTCATT
1 TTTTTTTCATT
6491289 TTTTTTTCATT
1 TTTTTTTCATT
6491300 TTTTT
1 TTTTT
6491305 CATTTTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTCATT
Found at i:6491299 original size:20 final size:20
Alignment explanation
Indices: 6491274--6491311 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6491264 TATTCACAAC
6491274 TTCATTTTTTTCATTTTTTT
1 TTCATTTTTTTCATTTTTTT
6491294 TTCATTTTTTTCATTTTT
1 TTCATTTTTTTCATTTTT
6491312 AGTGGTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (20 bp):
TTCATTTTTTTCATTTTTTT
Found at i:6498473 original size:3 final size:3
Alignment explanation
Indices: 6498458--6498495 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
6498448 TCCTACCTCA
* *
6498458 TTC TTC TTG TTC TTC TT- TTC TTC ATC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
6498496 ATTTATCATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.03, C:0.29, G:0.03, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:6499736 original size:20 final size:21
Alignment explanation
Indices: 6499711--6499757 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
6499701 GTTTGTGGTC
6499711 ATTTCTAGCCG-TTGGGGATG
1 ATTTCTAGCCGTTTGGGGATG
*
6499731 ATTTCTAGTCGTTTGGGGATG
1 ATTTCTAGCCGTTTGGGGATG
*
6499752 TTTTCT
1 ATTTCT
6499758 CTGCAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.13, C:0.13, G:0.30, T:0.45
Consensus pattern (21 bp):
ATTTCTAGCCGTTTGGGGATG
Found at i:6500047 original size:20 final size:20
Alignment explanation
Indices: 6499977--6500040 Score: 119
Period size: 20 Copynumber: 3.2 Consensus size: 20
6499967 CAAGCTGGTA
*
6499977 GTATCGATACTACCTTGAGC
1 GTATCAATACTACCTTGAGC
6499997 GTATCAATACTACCTTGAGC
1 GTATCAATACTACCTTGAGC
6500017 GTATCAATACTACCTTGAGC
1 GTATCAATACTACCTTGAGC
6500037 GTAT
1 GTAT
6500041 TGATACTTCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (20 bp):
GTATCAATACTACCTTGAGC
Found at i:6501786 original size:2 final size:2
Alignment explanation
Indices: 6501779--6501814 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6501769 ATATTTACAA
6501779 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6501815 CTAACCAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6508335 original size:33 final size:33
Alignment explanation
Indices: 6508295--6508370 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 33
6508285 ATGCTCCATC
* *
6508295 GAAAAAAGAGAGAAAAA-A-ATAGTAGTTCG-AA
1 GAAAAAAAAGAAAAAAAGAGAT-GTAGTTCGAAA
*
6508326 GAAAAAAAAGAAAAAAAGAGATGTTGTTCGAAA
1 GAAAAAAAAGAAAAAAAGAGATGTAGTTCGAAA
*
6508359 GAAAGAAAAGAA
1 GAAAAAAAAGAA
6508371 GACATGAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 15 0.39
32 8 0.21
33 15 0.39
ACGTcount: A:0.63, C:0.03, G:0.22, T:0.12
Consensus pattern (33 bp):
GAAAAAAAAGAAAAAAAGAGATGTAGTTCGAAA
Found at i:6510981 original size:19 final size:19
Alignment explanation
Indices: 6510959--6511005 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
6510949 AAATCTGTAG
*
6510959 TAATAATATTATTAAATAA
1 TAATAATAATATTAAATAA
* *
6510978 TAATAATAATGTTAAATAT
1 TAATAATAATATTAAATAA
*
6510997 TAATGATAA
1 TAATAATAA
6511006 CCCATACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
TAATAATAATATTAAATAA
Found at i:6511985 original size:233 final size:233
Alignment explanation
Indices: 6511566--6512782 Score: 1776
Period size: 233 Copynumber: 5.2 Consensus size: 233
6511556 TCTCGAAAAT
* * ** * * *
6511566 CATGTGAGAACATCCTTCCCGAAGGTCTTACAGATGGCCTGAAGGACATATCATCTTGCTTGAAA
1 CATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA
* * * * * *
6511631 GA-TTGACAGATGACCCAAAGGATTTAATCATCATGTTAGAAAGGCTTACTGATGGCCCGAAGAA
66 GACTT-ACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
* * * *
6511695 CTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAGCTTTCCTTACGTTCCAAAAATTTCAATTT
130 CTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTT
*
6511760 TCAGATTTAAATGAGAAACTTTTCTCATTTTTTAAGAGA
195 TCAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGA
* * * * * *
6511799 CATGTGAAAACATCCTACCCGAAGGTCTTATGGATGTCTCAAAGGACTTATCATCTTTCTCGAAT
1 CATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA
* * * * * * *
6511864 GACTTAAAGATAACCCGAAGGATTTAAACATCATGCTCAAAAGATTTAATGATGGCCCAAAGGAC
66 GACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGAC
*
6511929 TTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTAAAAAATTTCAATTTT
131 TTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTT
6511994 CAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGA
196 CAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGA
* * *
6512032 AATGTGAAAACATCCTGCCCGAAGGGCTTATGGATGGCCAGAAGGACTTATCATCTTGCTC-AAA
1 CATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA
6512096 GACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGAC
66 GACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGAC
*** * *
6512161 TTACCAATTTTGGAAATAGTTTACTTTTTAATAAACTTTTCTTACTTTTAAAAAATTTCAATTTT
131 TTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTT
6512226 CAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGA
196 CAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGA
* *
6512264 CATGTGAAAACATCCTACCTGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA
1 CATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA
* *
6512329 GACTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAATGAC
66 GACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGAC
* *** *
6512394 TTACCAAATTTGGAAATAGTTTACTTTTTAAGAATCTTTTCTTACTTTTCAAAAATTTCAATTTT
131 TTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTT
*
6512459 CAGCTTTAAATGAGAAACTTTTCTCATTTTTTGAGAGA
196 CAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGA
* * * *
6512497 CATGTGAAAACATCATGTCCGAATGTCTTGTGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA
1 CATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA
* * * * * *
6512562 GACTTACAGGTAACCCGAAGGATTTAAGCATAATGTTTGAAAGACTTATTGATGGCCCGAAGGAC
66 GACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGAC
*
6512627 TTACCAATTTTGGAAATAGTTTACTACGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTT
131 TTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTT
* ** * *
6512692 CAGAGTTAAATGAGAAGTTTTTCTCACTTTTCGAGAGA
196 CAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGA
*
6512730 TTCAT-T-AAAACATCATGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCA
1 --CATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCA
6512783 ATTTTGGAAA
Statistics
Matches: 890, Mismatches: 90, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
232 215 0.24
233 669 0.75
234 3 0.00
235 3 0.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (233 bp):
CATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA
GACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGAC
TTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTT
CAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGA
Found at i:6512375 original size:42 final size:40
Alignment explanation
Indices: 6512290--6512396 Score: 133
Period size: 42 Copynumber: 2.6 Consensus size: 40
6512280 ACCTGAAGGT
* *
6512290 CTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGA
1 CTTAT-GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGA
* *
6512331 CTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTAT-GATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGA
*
6512373 CTTACTGATGGCCCGAATGACTTA
1 CTTA-TGATGGCCCGAAGGACTTA
6512397 CCAAATTTGG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 21 0.38
42 34 0.61
43 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTATGATGGCCCGAAGGACTTAGCATCATGCTCGAAAGA
Found at i:6512507 original size:465 final size:465
Alignment explanation
Indices: 6511288--6512782 Score: 1854
Period size: 465 Copynumber: 3.2 Consensus size: 465
6511278 TGGAATTCGC
* * * * *
6511288 TTTCTCATTTTTTGA-AAATCACGTGAAAACATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGG
1 TTTCTCATTTTTTGAGAGATCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGG
* * * * * ** *
6511352 ACTTAACATCTCGCTCGAAAGACTGACAGATGATCTAAAGGATTTAACTATCATACTCGAAAGAC
66 ACTTATCATCTTGCTCGAAAGACTTAAAGATGACCCGAAGGATTTAAC-ATCATGCTCGAAAGAC
* * * * *
6511417 TTACTGACGGCCCGAATGACTCACCAATTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAAT
130 TTACTGATGGCCCGAATGACTTACCAATTTTGGAAATAGTTTACTAGGTAAG-AA---T-----C
* *
6511482 TACTTTCTTACTTTTCAAAAATTTC-ATTTTCTGAAAATATTAAATGAGAAGCTTTGGAAATCGC
186 T--TTTCTTACTTTTCAAAAATTTCAATTTTC---AGAT-TTAAATGAGAAAC--T-----T---
* * * * ** *
6511546 CTTCTCATTTTCTCGA-AAATCATGTGAGAACATCCTTCCCGAAGGTCTTACAGATGGCCTGAAG
235 -TTCTCATTTT-TTGAGAGA-CATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCAGAAG
* * * *
6511610 GACATATCATCTTGCTTGAAAGA-TTGACAGATGACCCAAAGGATTTAATCATCATGTTAGAAAG
297 GACTTATCATCTTGC-TCAAAGACTT-ACAGATGACCCGAAGGATTTAAGCATCATGTTAGAAAG
* * * * *
6511674 GCTTACTGATGGCCCGAAGAACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAGCTTTCCTT
360 ACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTACGTAAGAAACTTTTCTT
* *
6511739 ACGTTCCAAAAATTTCAATTTTCAGATTTAAATGAGAAACT
425 ACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACT
* * * *
6511780 TTTCTCATTTTTTAAGAGA-CATGTGAAAACATCCTACCCGAAGGTCTTATGGATGTCTCAAAGG
1 TTTCTCATTTTTTGAGAGATCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGG
* * * * *
6511844 ACTTATCATCTTTCTCGAATGACTTAAAGATAACCCGAAGGATTTAAACATCATGCTCAAAAGAT
66 ACTTATCATCTTGCTCGAAAGACTTAAAGATGACCCGAAGGATTT-AACATCATGCTCGAAAGAC
* * * *
6511909 TTAATGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTAC
130 TTACTGATGGCCCGAATGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAATCTTTTCTTAC
* *
6511974 TTTTAAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGAAATGTGA
195 TTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGACATGTGA
*
6512039 AAACATCCTGCCCGAAGGGCTTATGGATGGCCAGAAGGACTTATCATCTTGCTCAAAGACTTACA
260 AAACATCCTGCCCGAAGGTCTTATGGATGGCCAGAAGGACTTATCATCTTGCTCAAAGACTTACA
* *
6512104 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAAT
325 GATGACCCGAAGGATTTAAGCATCATGTTAGAAAGACTTACTGATGGCCCGAAGGACTTACCAAT
*** * *
6512169 TTTGGAAATAGTTTACTTTTTAATAAACTTTTCTTACTTTTAAAAAATTTCAATTTTCAGATTTA
390 TTTGGAAATAGTTTACTACGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTA
6512234 AATGAGAAACT
455 AATGAGAAACT
*
6512245 TTTCTCATTTTTTGAGAGA-CATGTGAAAACATCCTACCTGAAGGTCTTATGGATGGCCCGAAGG
1 TTTCTCATTTTTTGAGAGATCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGG
*
6512309 ACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAC
66 ACTTATCATCTTGCTCGAAAGACTTAAAGATGACCCGAAGGATTTAA-CATCATGCTCGAAAGAC
* ***
6512374 TTACTGATGGCCCGAATGACTTACCAAATTTGGAAATAGTTTACTTTTTAAGAATCTTTTCTTAC
130 TTACTGATGGCCCGAATGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAATCTTTTCTTAC
*
6512439 TTTTCAAAAATTTCAATTTTCAGCTTTAAATGAGAAACTTTTCTCATTTTTTGAGAGACATGTGA
195 TTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGACATGTGA
* * * * *
6512504 AAACATCATGTCCGAATGTCTTGTGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTAC
260 AAACATCCTGCCCGAAGGTCTTATGGATGGCCAGAAGGACTTATCATCTTGCTC-AAAGACTTAC
* * * * *
6512569 AGGTAACCCGAAGGATTTAAGCATAATGTTTGAAAGACTTATTGATGGCCCGAAGGACTTACCAA
324 AGATGACCCGAAGGATTTAAGCATCATGTTAGAAAGACTTACTGATGGCCCGAAGGACTTACCAA
*
6512634 TTTTGGAAATAGTTTACTACGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGAGTT
389 TTTTGGAAATAGTTTACTACGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTT
**
6512699 AAATGAGAAGTT
454 AAATGAGAAACT
* * * *
6512711 TTTCTCACTTTTCGAGAGATTCAT-T-AAAACATCATGCCCGAAGGTCTTATGGATGGCCCGAAG
1 TTTCTCATTTTTTGAGAGA-TCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAG
6512774 GACTTATCA
65 GACTTATCA
6512783 ATTTTGGAAA
Statistics
Matches: 887, Mismatches: 107, Indels: 44
0.85 0.10 0.04
Matches are distributed among these distances:
464 2 0.00
465 417 0.47
466 255 0.29
467 13 0.01
468 3 0.00
471 1 0.00
476 1 0.00
478 12 0.01
479 3 0.00
481 21 0.02
482 6 0.01
483 1 0.00
491 2 0.00
492 145 0.16
493 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Consensus pattern (465 bp):
TTTCTCATTTTTTGAGAGATCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGG
ACTTATCATCTTGCTCGAAAGACTTAAAGATGACCCGAAGGATTTAACATCATGCTCGAAAGACT
TACTGATGGCCCGAATGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAATCTTTTCTTACT
TTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGACATGTGAA
AACATCCTGCCCGAAGGTCTTATGGATGGCCAGAAGGACTTATCATCTTGCTCAAAGACTTACAG
ATGACCCGAAGGATTTAAGCATCATGTTAGAAAGACTTACTGATGGCCCGAAGGACTTACCAATT
TTGGAAATAGTTTACTACGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAA
ATGAGAAACT
Found at i:6513064 original size:382 final size:383
Alignment explanation
Indices: 6512357--6513125 Score: 1123
Period size: 382 Copynumber: 2.0 Consensus size: 383
6512347 AGGATTTAAG
* * ***
6512357 CATCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTACCAAATTTGGAAATAGTTTACTTTT
1 CATCATGCCCGAAAGACTTACTGATGGCCCGAAGGACTTACCAAATTTGGAAATAGTTTACTAGG
* * *
6512422 TAAGAATCTTTTCTTACTTTTCAAAAATTTCAATTTTCAGCTTTAAATGAGAAACTTTTCTCATT
66 TAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATT
* * *
6512487 TTTTGAGAGACATGTGAAAACATCATGTCCGAATGTCTTGTGGATGGCCCGAAGGACTTATCATC
131 TTTTGAGAGACATGTGAAAACATCATGTCCAAAGGTCTTGTGGATGGCCCGAAGGACTTACCATC
* * * * *
6512552 TTGCTCGAAAGACTTACAGGTAACCCGAAGGATTTAAGCATAATGTTTGAAAGACTTATTGATGG
196 TTGATCGAAAGACTTACAGATAACCCGAAGGATTTAAGCATAATGCTCGAAAGACTTACTGATGG
* * *
6512617 CCCGAAGGACTTACCAATTTTGGAAATAGTTTACTACGTAAGAAACTTTTCTTACTTTTCAAAAA
261 ACCAAAGGACTTACCAATTTTGAAAATAGTTTACTACGTAAGAAACTTTTCTTACTTTTCAAAAA
* ** *
6512682 TTTCAATTTTCAGAGTTAAATGAGAAGTTTTTCTCACTTTTCGAGAGAT-TCATTAAAA
326 TTTAAATTTTCAGAGTTAAATGAGAAACTTTTCTCACTTTTCGAGAGATAT-ATGAAAA
* * * *
6512740 CATCATGCCCGAAGGTCTTA-TGGATGGCCCGAAGGACTTATCAATTTTGGAAATAGTTTACTAG
1 CATCATGCCCGAAAGACTTACT-GATGGCCCGAAGGACTTACCAAATTTGGAAATAGTTTACTAG
6512804 GTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCA-
65 GTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCAT
* * * *
6512868 TTTTTGAGAGACATGTGAAAGCATCCTGTCCAAAGGTCTTGTGGATGGCCTGAAGTACTTACCAT
130 TTTTTGAGAGACATGTGAAAACATCATGTCCAAAGGTCTTGTGGATGGCCCGAAGGACTTACCAT
* *
6512933 CTTGATCGAAAGACTTTA-AGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT
195 CTTGATCGAAAGAC-TTACAGATAACCCGAAGGATTTAAGCATAATGCTCGAAAGACTTACTGAT
* * * *
6512997 GGACTAAATGACTTACCAATTTTTAAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAA
259 GGACCAAAGGACTTACCAATTTTGAAAATAGTTTACTACGTAAGAAACTTTTCTTACTTTTCAAA
* * *
6513062 AATTTAAATTTTCATATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGATATATGAAAA
324 AATTTAAATTTTCAGAGTTAAATGAGAAACTTTTCTCACTTTTCGAGAGATATATGAAAA
6513122 CATC
1 CATC
6513126 TCGAATGACT
Statistics
Matches: 343, Mismatches: 40, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
382 225 0.66
383 118 0.34
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (383 bp):
CATCATGCCCGAAAGACTTACTGATGGCCCGAAGGACTTACCAAATTTGGAAATAGTTTACTAGG
TAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATT
TTTTGAGAGACATGTGAAAACATCATGTCCAAAGGTCTTGTGGATGGCCCGAAGGACTTACCATC
TTGATCGAAAGACTTACAGATAACCCGAAGGATTTAAGCATAATGCTCGAAAGACTTACTGATGG
ACCAAAGGACTTACCAATTTTGAAAATAGTTTACTACGTAAGAAACTTTTCTTACTTTTCAAAAA
TTTAAATTTTCAGAGTTAAATGAGAAACTTTTCTCACTTTTCGAGAGATATATGAAAA
Found at i:6513638 original size:5 final size:5
Alignment explanation
Indices: 6513628--6513669 Score: 66
Period size: 5 Copynumber: 8.0 Consensus size: 5
6513618 TTTGTTCTTT
6513628 TTTTC TTTTC TTTTTC TTTTC TTTTC TTTTTC TTTTC TTTTC
1 TTTTC TTTTC -TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC
6513670 GTTGTTTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 25 0.71
6 10 0.29
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:6513643 original size:11 final size:11
Alignment explanation
Indices: 6513627--6513669 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
6513617 ATTTGTTCTT
6513627 TTTTTCTTTTC
1 TTTTTCTTTTC
6513638 TTTTTCTTTTC
1 TTTTTCTTTTC
6513649 -TTTTCTTTT-
1 TTTTTCTTTTC
6513658 TCTTTTCTTTTC
1 T-TTTTCTTTTC
6513670 GTTGTTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:6513649 original size:16 final size:16
Alignment explanation
Indices: 6513628--6513669 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
6513618 TTTGTTCTTT
6513628 TTTTCTTTTCTTTTTC
1 TTTTCTTTTCTTTTTC
6513644 TTTTCTTTTCTTTTTC
1 TTTTCTTTTCTTTTTC
6513660 TTTTCTTTTC
1 TTTTCTTTTC
6513670 GTTGTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCTTTTCTTTTTC
Found at i:6518356 original size:7 final size:7
Alignment explanation
Indices: 6518344--6518368 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6518334 AGTAAGGTGC
6518344 GCACTAT
1 GCACTAT
6518351 GCACTAT
1 GCACTAT
6518358 GCACTAT
1 GCACTAT
6518365 GCAC
1 GCAC
6518369 AACACGGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (7 bp):
GCACTAT
Found at i:6518498 original size:36 final size:36
Alignment explanation
Indices: 6518451--6518547 Score: 176
Period size: 36 Copynumber: 2.7 Consensus size: 36
6518441 ACGGTGCTGG
6518451 ACATTGATACACGAATGTACCAAAGTTGATATGATA
1 ACATTGATACACGAATGTACCAAAGTTGATATGATA
*
6518487 ACATTGATACACGAATGTACCAAAGTTGATATGGTA
1 ACATTGATACACGAATGTACCAAAGTTGATATGATA
*
6518523 ACATTGATACACGAATGTATCAAAG
1 ACATTGATACACGAATGTACCAAAG
6518548 CTAATAATAC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGTTGATATGATA
Found at i:6525978 original size:36 final size:36
Alignment explanation
Indices: 6525938--6526040 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
6525928 ACGTTGCTAG
6525938 ACATTGATACACGAATGTACCAAAGCTGATATAATA
1 ACATTGATACACGAATGTACCAAAGCTGATATAATA
* * *
6525974 ACATTGATACATGAATGTACCAAAGTTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATAATA
*
6526010 ACATTGATACACGAATGTATCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
6526041 ATACTCAACT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.27
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATAATA
Found at i:6529820 original size:19 final size:17
Alignment explanation
Indices: 6529792--6529830 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
6529782 TGTTTGAATG
6529792 AAGTTAAAGATTGATAGAA
1 AAGTTAAAGA-TGATA-AA
*
6529811 AAGTTTAAGATGATAAA
1 AAGTTAAAGATGATAAA
6529828 AAG
1 AAG
6529831 GGATGTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.26
Consensus pattern (17 bp):
AAGTTAAAGATGATAAA
Found at i:6530551 original size:21 final size:21
Alignment explanation
Indices: 6530521--6530561 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6530511 TGACTAAAAA
*
6530521 GTATG-TTTTTAAAACTTTGAG
1 GTATGATTTTGAAAA-TTTGAG
6530542 GTATGATTTTGAAAATTTGA
1 GTATGATTTTGAAAATTTGA
6530562 AAAGTTCAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (21 bp):
GTATGATTTTGAAAATTTGAG
Found at i:6532144 original size:23 final size:23
Alignment explanation
Indices: 6532118--6532208 Score: 128
Period size: 23 Copynumber: 4.0 Consensus size: 23
6532108 GTGCCATATA
* * *
6532118 TTTGTCCCGAATGACTACATAGG
1 TTTGTCCCGAAGGACCACATAGT
6532141 TTTGTCCCGAAGGACCACATAGT
1 TTTGTCCCGAAGGACCACATAGT
* * *
6532164 TTTGTCCCGTATGACCACATAAT
1 TTTGTCCCGAAGGACCACATAGT
6532187 TTTGTCCCGAAGGACCACATAG
1 TTTGTCCCGAAGGACCACATAG
6532209 AACCCTCGAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (23 bp):
TTTGTCCCGAAGGACCACATAGT
Found at i:6532170 original size:46 final size:46
Alignment explanation
Indices: 6532118--6532208 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
6532108 GTGCCATATA
* *
6532118 TTTGTCCCGAATGACTACATAGGTTTGTCCCGAAGGACCACATAGT
1 TTTGTCCCGAATGACCACATAAGTTTGTCCCGAAGGACCACATAGT
* *
6532164 TTTGTCCCGTATGACCACATAATTTTGTCCCGAAGGACCACATAG
1 TTTGTCCCGAATGACCACATAAGTTTGTCCCGAAGGACCACATAG
6532209 AACCCTCGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (46 bp):
TTTGTCCCGAATGACCACATAAGTTTGTCCCGAAGGACCACATAGT
Found at i:6533122 original size:20 final size:21
Alignment explanation
Indices: 6533085--6533124 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
6533075 CTTACATCAG
6533085 TATCGATACTTCTTCAACCAA
1 TATCGATACTTCTTCAACCAA
*
6533106 TATCGATA-TTGTTCAACCA
1 TATCGATACTTCTTCAACCA
6533125 TTTCATAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (21 bp):
TATCGATACTTCTTCAACCAA
Found at i:6533692 original size:4 final size:4
Alignment explanation
Indices: 6533683--6533716 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
6533673 CAGAGTTTTC
6533683 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
6533717 CACGTGTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:6535823 original size:15 final size:15
Alignment explanation
Indices: 6535803--6535854 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
6535793 TGTTTTTTTA
*
6535803 TGAAAATGTTCTATG
1 TGAAAATGTTCTAAG
*
6535818 TGAAAATGTGCTAAG
1 TGAAAATGTTCTAAG
*
6535833 TGAAAATGTTCTACG
1 TGAAAATGTTCTAAG
6535848 TGAAAAT
1 TGAAAAT
6535855 ACCCTATGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (15 bp):
TGAAAATGTTCTAAG
Found at i:6535866 original size:30 final size:30
Alignment explanation
Indices: 6535803--6535866 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
6535793 TGTTTTTTTA
* ***
6535803 TGAAAATGTTCTATGTGAAAATGTGCTAAG
1 TGAAAATGTTCTACGTGAAAATACCCTAAG
*
6535833 TGAAAATGTTCTACGTGAAAATACCCTATG
1 TGAAAATGTTCTACGTGAAAATACCCTAAG
6535863 TGAA
1 TGAA
6535867 TGTGTTTTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (30 bp):
TGAAAATGTTCTACGTGAAAATACCCTAAG
Found at i:6536030 original size:25 final size:25
Alignment explanation
Indices: 6535993--6536054 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
6535983 GGTTTTACAC
*
6535993 GGTCATTCAGGATAAAATTCTACGT
1 GGTCCTTCAGGATAAAATTCTACGT
* **
6536018 GGTCCTTCGGGATAATTTTCTACGT
1 GGTCCTTCAGGATAAAATTCTACGT
*
6536043 GGTACTTCAGGA
1 GGTCCTTCAGGA
6536055 CAAATCTATG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (25 bp):
GGTCCTTCAGGATAAAATTCTACGT
Found at i:6536447 original size:43 final size:43
Alignment explanation
Indices: 6536391--6536690 Score: 234
Period size: 43 Copynumber: 7.0 Consensus size: 43
6536381 ATGTCGCTAT
* * * *
6536391 AGGTCAAGATCTATCGCGACGTTTTTAGAACAAACACCGCAAA
1 AGGTCCAGATCTATAGCGGCGTTTTTAGAACAAACGCCGCAAA
** * *
6536434 AGGTAGAGATCTATAGCGGCGTTTTTTGAACAAACGCCGTAAA
1 AGGTCCAGATCTATAGCGGCGTTTTTAGAACAAACGCCGCAAA
* * * ***
6536477 AGGTCGAGAAT-TATAGCGGCGTTTTCAAAACAAAC-ATACAAA
1 AGGTCCAG-ATCTATAGCGGCGTTTTTAGAACAAACGCCGCAAA
* * * * ** * *
6536519 AGGTCGATATATATAGTGGAATTTTCAAAACAAACGCCGCAAA
1 AGGTCCAGATCTATAGCGGCGTTTTTAGAACAAACGCCGCAAA
* * * *
6536562 AGG-CCAGATCTATAGGGGCGTTTTTTGATACAAACGTCGTAAA
1 AGGTCCAGATCTATAGCGGCGTTTTTAGA-ACAAACGCCGCAAA
* * *
6536605 AGGT-CAGATCTATAGCGGCATTTTTGGAACAAACGCCACAAA
1 AGGTCCAGATCTATAGCGGCGTTTTTAGAACAAACGCCGCAAA
** *
6536647 AGGT-CAGATCTATAGCTACGGTTTTTA-ATACAAACACCGCAAA
1 AGGTCCAGATCTATAGCGGC-GTTTTTAGA-ACAAACGCCGCAAA
6536690 A
1 A
6536691 TGTTATATCT
Statistics
Matches: 205, Mismatches: 45, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
41 2 0.01
42 76 0.37
43 125 0.61
44 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (43 bp):
AGGTCCAGATCTATAGCGGCGTTTTTAGAACAAACGCCGCAAA
Found at i:6536576 original size:42 final size:42
Alignment explanation
Indices: 6536419--6536662 Score: 170
Period size: 42 Copynumber: 5.7 Consensus size: 42
6536409 ACGTTTTTAG
* * **
6536419 AACAAACACCGCAAAAGGTAGAGATCTATAGCGGCGTTTTTTG-
1 AACAAACGCCGCAAAAGGT-CAGATCTATAGCGG-AATTTTTGA
* ** **
6536462 AACAAACGCCGTAAAAGGTCGAGAAT-TATAGCGGCGTTTTCAA
1 AACAAACGCCGCAAAAGGTC-AG-ATCTATAGCGGAATTTTTGA
*** * * * **
6536505 AACAAAC-ATACAAAAGGTCGATATATATAGTGGAATTTTCAA
1 AACAAACGCCGCAAAAGGTC-AGATCTATAGCGGAATTTTTGA
* * **
6536547 AACAAACGCCGCAAAAGGCCAGATCTATAGGGGCGTTTTTTGA
1 AACAAACGCCGCAAAAGGTCAGATCTATAGCGG-AATTTTTGA
* * * * *
6536590 TACAAACGTCGTAAAAGGTCAGATCTATAGCGGCATTTTTGG
1 AACAAACGCCGCAAAAGGTCAGATCTATAGCGGAATTTTTGA
*
6536632 AACAAACGCCACAAAAGGTCAGATCTATAGC
1 AACAAACGCCGCAAAAGGTCAGATCTATAGC
6536663 TACGGTTTTT
Statistics
Matches: 157, Mismatches: 38, Indels: 13
0.75 0.18 0.06
Matches are distributed among these distances:
41 2 0.01
42 78 0.50
43 75 0.48
44 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (42 bp):
AACAAACGCCGCAAAAGGTCAGATCTATAGCGGAATTTTTGA
Found at i:6536672 original size:85 final size:84
Alignment explanation
Indices: 6536391--6536733 Score: 255
Period size: 85 Copynumber: 4.0 Consensus size: 84
6536381 ATGTCGCTAT
* * * *
6536391 AGGTCAAGATCTATCGCGACGTTTTTAGA-ACAAACACCGCAAAAGGTAGAGATCTATAGCGGCG
1 AGGTCAAGATCTATAGCGACGTTTTTA-ATACAAACATCG-AAAAGGT-CAGATCTATAGCGGCA
* *
6536455 TTTTTTGAACAAACGCCGTAAA
63 TTTTTAGAACAAACGCCGCAAA
* * * * * * * *
6536477 AGGTCGAGAAT-TATAGCGGCGTTTTCAAAACAAACATAC-AAAAGGTCGATATATATAGTGGAA
1 AGGTCAAG-ATCTATAGCGACGTTTTTAATACAAACAT-CGAAAAGGTC-AGATCTATAGCGGCA
* *
6536540 TTTTCAAAACAAACGCCGCAAA
63 TTTTTAGAACAAACGCCGCAAA
* * * * *
6536562 AGG-CCAGATCTATAGGGGCGTTTTTTGATACAAACGTCGTAAAAGGTCAGATCTATAGCGGCAT
1 AGGTCAAGATCTATAGCGACG-TTTTTAATACAAACATCG-AAAAGGTCAGATCTATAGCGGCAT
* *
6536626 TTTTGGAACAAACGCCACAAA
64 TTTTAGAACAAACGCCGCAAA
* * * * * * * *
6536647 AGGTC-AGATCTATAGCTACGGTTTTTAATACAAACACCGCAAAATGTTATATCTTTAGTGGTAT
1 AGGTCAAGATCTATAGCGAC-GTTTTTAATACAAACATCG-AAAAGGTCAGATCTATAGCGGCAT
**
6536711 TTTTTTATACAAACGCCGCAAA
64 TTTTAGA-ACAAACGCCGCAAA
6536733 A
1 A
6536734 TATGTACTCC
Statistics
Matches: 201, Mismatches: 45, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
83 2 0.01
84 13 0.06
85 132 0.66
86 51 0.25
87 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (84 bp):
AGGTCAAGATCTATAGCGACGTTTTTAATACAAACATCGAAAAGGTCAGATCTATAGCGGCATTT
TTAGAACAAACGCCGCAAA
Found at i:6545422 original size:41 final size:41
Alignment explanation
Indices: 6545332--6545714 Score: 255
Period size: 41 Copynumber: 9.3 Consensus size: 41
6545322 AATAAAAAAA
* ** * * * *
6545332 CCACTAATGTATGCGTATTTAGCAGCATTTTTGCTTAAAACG
1 CCACTAAAGTATAAGTATTTAGCGGCGTTTGT-CTAAAAACG
* *
6545374 CCACTAAAGTATAAGTATTTAGCAGCGTTTGTCAAAAAACG
1 CCACTAAAGTATAAGTATTTAGCGGCGTTTGTCTAAAAACG
** **
6545415 CCACTAAAGTACGAGTATTTAGCGATGTTTGTCTAAAAACG
1 CCACTAAAGTATAAGTATTTAGCGGCGTTTGTCTAAAAACG
* * *
6545456 CCAGTAAAGTACTAGGT-TTTAGCGGCGTTTGTCTAAAAATG
1 CCACTAAAGTA-TAAGTATTTAGCGGCGTTTGTCTAAAAACG
* * * * *
6545497 CCACTAAACTATGAGTATTTAGCGGTGTTTTTACTTAAAACG
1 CCACTAAAGTATAAGTATTTAGCGGCGTTTGT-CTAAAAACG
* * * *
6545539 TCACTAAAGTACTAGGT-TTTAGCGGTGTTTGTCTATAAACG
1 CCACTAAAGTA-TAAGTATTTAGCGGCGTTTGTCTAAAAACG
* * *
6545580 CCAC--GA-TATATGTACCCTATTA-CGGCGTTTGTTTAAAAACG
1 CCACTAAAGTATAAGTA---T-TTAGCGGCGTTTGTCTAAAAACG
* * *
6545621 CCACTAAAG-A-ACG-ATTCTATGGCGGCGTTTGTTTACAAACG
1 CCACTAAAGTATAAGTATT-TA--GCGGCGTTTGTCTAAAAACG
* * * * *
6545662 CCACTAAAGTACTTA-TCTTTAGTGGCGTTTGTCAAATAAACA
1 CCACTAAAGTA-TAAGTATTTAGCGGCGTTTGTCTAA-AAACG
6545704 CCACTAAAGTA
1 CCACTAAAGTA
6545715 CGAGCTTTAG
Statistics
Matches: 268, Mismatches: 52, Indels: 42
0.74 0.14 0.12
Matches are distributed among these distances:
37 5 0.02
38 5 0.02
39 1 0.00
40 3 0.01
41 165 0.62
42 80 0.30
43 7 0.03
44 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (41 bp):
CCACTAAAGTATAAGTATTTAGCGGCGTTTGTCTAAAAACG
Found at i:6545561 original size:83 final size:82
Alignment explanation
Indices: 6545332--6545583 Score: 308
Period size: 83 Copynumber: 3.0 Consensus size: 82
6545322 AATAAAAAAA
* * * ** *
6545332 CCACTAATGTATGCGTATTTAGCAGCATTTTTGCTTAAAACGCCACTAAAGTA-TAAGTATTTAG
1 CCACTAAAGTATGAGTATTTAGCGGTGTTTTT-CTTAAAACGCCACTAAAGTACTAGGT-TTTAG
* *
6545396 CAGCGTTTGTCAAAAAACG
64 CGGCGTTTGTCTAAAAACG
* * * * *
6545415 CCACTAAAGTACGAGTATTTAGCGATGTTTGTCTAAAAACGCCAGTAAAGTACTAGGTTTTAGCG
1 CCACTAAAGTATGAGTATTTAGCGGTGTTTTTCTTAAAACGCCACTAAAGTACTAGGTTTTAGCG
*
6545480 GCGTTTGTCTAAAAATG
66 GCGTTTGTCTAAAAACG
* *
6545497 CCACTAAACTATGAGTATTTAGCGGTGTTTTTACTTAAAACGTCACTAAAGTACTAGGTTTTAGC
1 CCACTAAAGTATGAGTATTTAGCGGTGTTTTT-CTTAAAACGCCACTAAAGTACTAGGTTTTAGC
* *
6545562 GGTGTTTGTCTATAAACG
65 GGCGTTTGTCTAAAAACG
6545580 CCAC
1 CCAC
6545584 GATATATGTA
Statistics
Matches: 143, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
82 67 0.47
83 76 0.53
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (82 bp):
CCACTAAAGTATGAGTATTTAGCGGTGTTTTTCTTAAAACGCCACTAAAGTACTAGGTTTTAGCG
GCGTTTGTCTAAAAACG
Found at i:6545606 original size:124 final size:122
Alignment explanation
Indices: 6545368--6545628 Score: 294
Period size: 124 Copynumber: 2.1 Consensus size: 122
6545358 ATTTTTGCTT
*
6545368 AAAACGCCACTAAAGTATAAGTATTTAGCAGCGTTTGTCAAAAAACGCCACTAAAGTACGAGTAT
1 AAAACGCCACTAAACTATAAGTATTTAGCAGCGTTTGTCAAAAAACGCCACTAAAGTACGAGTAT
** *
6545433 TTAGCGATGTTTGTCTAAAAACGCCAGTAAAGTACTAGGTTTTAGCGGCGTTTGTCTA
66 TTAGCGATGTTTGTCTAAAAACGCCAGTAAAGTAC-ACCTATTAGCGGCGTTTGTCTA
* * * * * ** * *
6545491 AAAATGCCACTAAACTATGAGTATTTAGCGGTGTTTTTACTTAAAACGTCACTAAAGTACTAGGT
1 AAAACGCCACTAAACTATAAGTATTTAGCAGCGTTTGT-CAAAAAACGCCACTAAAGTACGA-GT
* * * *
6545556 -TTTAGCGGTGTTTGTCTATAAACGCCACGATATATGTAC-CCTATTA-CGGCGTTTGTTTA
64 ATTTAGCGATGTTTGTCTAAAAACGCCA-G-TA-AAGTACACCTATTAGCGGCGTTTGTCTA
6545615 AAAACGCCACTAAA
1 AAAACGCCACTAAA
6545629 GAACGATTCT
Statistics
Matches: 115, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
123 32 0.28
124 69 0.60
125 7 0.06
126 2 0.02
127 5 0.04
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (122 bp):
AAAACGCCACTAAACTATAAGTATTTAGCAGCGTTTGTCAAAAAACGCCACTAAAGTACGAGTAT
TTAGCGATGTTTGTCTAAAAACGCCAGTAAAGTACACCTATTAGCGGCGTTTGTCTA
Found at i:6546333 original size:16 final size:17
Alignment explanation
Indices: 6546300--6546333 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6546290 AATTTTCAGC
*
6546300 AAGTTTTCAAAGAGTCA
1 AAGTTTTCAAAAAGTCA
6546317 AAGTTTT-AAAAAGTCA
1 AAGTTTTCAAAAAGTCA
6546333 A
1 A
6546334 TGTGACACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (17 bp):
AAGTTTTCAAAAAGTCA
Found at i:6552420 original size:15 final size:15
Alignment explanation
Indices: 6552397--6552463 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
6552387 ATTTGGTACG
* *
6552397 TGAATATGTTTTATA
1 TGAAAATGTTCTATA
*
6552412 TGAAAATGTTCTATG
1 TGAAAATGTTCTATA
*
6552427 TGAAAATGTGCTA-A
1 TGAAAATGTTCTATA
* *
6552441 GTGAAAATGCTCTACA
1 -TGAAAATGTTCTATA
6552457 TGAAAAT
1 TGAAAAT
6552464 ACCCTATGTG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
15 42 0.98
16 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (15 bp):
TGAAAATGTTCTATA
Found at i:6552628 original size:25 final size:25
Alignment explanation
Indices: 6552594--6552667 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 25
6552584 GAGTTGAGGG
*
6552594 TTCTACGTGGTCCTTCGGGACAAAA
1 TTCTACGTGGTCCTTCGAGACAAAA
* * *
6552619 TTCTACGTGGTCTTTCAAGACAAAT
1 TTCTACGTGGTCCTTCGAGACAAAA
* * *
6552644 TTGTACGCGATCCTTCGAGACAAA
1 TTCTACGTGGTCCTTCGAGACAAA
6552668 TCCATGTGGC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (25 bp):
TTCTACGTGGTCCTTCGAGACAAAA
Found at i:6558793 original size:49 final size:48
Alignment explanation
Indices: 6558740--6558901 Score: 216
Period size: 49 Copynumber: 3.3 Consensus size: 48
6558730 GTTTTTCATC
*
6558740 TAACTTGCATTAGTGGCATCTTTCTACCAAAAATGCACCGTTAGACATT
1 TAACTTGCATTAGTGGCA-CTTTCTACCAAAAATGCACTGTTAGACATT
* * * * * *
6558789 TAACTTGCATTAGTGGCACATTTCTGCCAAAAATGCATTATTCGTCATC
1 TAACTTGCATTAGTGGCAC-TTTCTACCAAAAATGCACTGTTAGACATT
* *
6558838 TAACTTGCATTAGTGGTACCTTTCTACCAAAAATGCACTGTTAGGCATT
1 TAACTTGCATTAGTGGCA-CTTTCTACCAAAAATGCACTGTTAGACATT
6558887 TAACTTGCATTAGTG
1 TAACTTGCATTAGTG
6558902 ACGCTTTTCT
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
48 1 0.01
49 95 0.98
50 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (48 bp):
TAACTTGCATTAGTGGCACTTTCTACCAAAAATGCACTGTTAGACATT
Found at i:6558850 original size:98 final size:99
Alignment explanation
Indices: 6558735--6558958 Score: 324
Period size: 98 Copynumber: 2.3 Consensus size: 99
6558725 GCATCGTTTT
*
6558735 TCATCTAACTTGCATTAGTGGCATCTTTCTACCAAAAATGCACCGTTAGACATTTAACTTGCATT
1 TCATCTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCGTTAGACATTTAACTTGCATT
* * **
6558800 AGTGGCACATTTCTG-CCAAAAATGCATTATTCG
66 AGTGACACATTTCTGTCAAAAAATGCACCATTCG
* * *
6558833 TCATCTAACTTGCATTAGTGGTACCTTTCTACCAAAAATGCACTGTTAGGCATTTAACTTGCATT
1 TCATCTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCGTTAGACATTTAACTTGCATT
* *
6558898 AGTGACGCTTTTCTGTCAAAAAATGCACCATTCG
66 AGTGACACATTTCTGTCAAAAAATGCACCATTCG
* * *
6558932 TCATCTAACTTACATTAATGGTACCTT
1 TCATCTAACTTGCATTAGTGGCACCTT
6558959 ACCATTGGCA
Statistics
Matches: 113, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
98 73 0.65
99 40 0.35
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (99 bp):
TCATCTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCGTTAGACATTTAACTTGCATT
AGTGACACATTTCTGTCAAAAAATGCACCATTCG
Found at i:6558911 original size:49 final size:49
Alignment explanation
Indices: 6558740--6558925 Score: 182
Period size: 49 Copynumber: 3.8 Consensus size: 49
6558730 GTTTTTCATC
*
6558740 TAACTTGCATTAGTG--GCATCTTTCTACCAAAAATGCACCGTTAGACATT
1 TAACTTGCATTAGTGACGC-T-TTTCTACCAAAAATGCACTGTTAGACATT
* * * * * * * * *
6558789 TAACTTGCATTAGTGGCACATTTCTGCCAAAAATGCATTATTCGTCATC
1 TAACTTGCATTAGTGACGCTTTTCTACCAAAAATGCACTGTTAGACATT
*
6558838 TAACTTGCATTAGTGGTAC-C-TTTCTACCAAAAATGCACTGTTAGGCATT
1 TAACTTGCATTAGT-G-ACGCTTTTCTACCAAAAATGCACTGTTAGACATT
* *
6558887 TAACTTGCATTAGTGACGCTTTTCTGTCAAAAAATGCAC
1 TAACTTGCATTAGTGACGCTTTTCT-ACCAAAAATGCAC
6558926 CATTCGTCAT
Statistics
Matches: 112, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
47 2 0.02
48 2 0.02
49 93 0.83
50 13 0.12
51 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.34
Consensus pattern (49 bp):
TAACTTGCATTAGTGACGCTTTTCTACCAAAAATGCACTGTTAGACATT
Found at i:6559025 original size:49 final size:49
Alignment explanation
Indices: 6558979--6559152 Score: 195
Period size: 49 Copynumber: 3.5 Consensus size: 49
6558969 TTTAACTTTT
* * * *
6558979 ATTAGTGGCACATTTCTGCCAAAAATGCACCATTTGTCGTCTAACTTAC
1 ATTAGTGGCACCTTTCTACCAAAAATGCACCATTAGTCGTCTAACTTGC
* * * * * * *
6559028 ATTAGTGGTACCTTTCTACTAAAAAATACATCATTAGGCATTTAACTTGC
1 ATTAGTGGCACCTTTCTAC-CAAAAATGCACCATTAGTCGTCTAACTTGC
* * * *
6559078 ATTAGTGGCACCTTTATGCCAAAAAAGCACCATTCGTCGTCTAACTTGC
1 ATTAGTGGCACCTTTCTACCAAAAATGCACCATTAGTCGTCTAACTTGC
*
6559127 ATTAGTGGTACCTTTCTACCAAAAAT
1 ATTAGTGGCACCTTTCTACCAAAAAT
6559153 ACACTTTTAG
Statistics
Matches: 98, Mismatches: 26, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
49 60 0.61
50 38 0.39
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (49 bp):
ATTAGTGGCACCTTTCTACCAAAAATGCACCATTAGTCGTCTAACTTGC
Found at i:6559037 original size:83 final size:84
Alignment explanation
Indices: 6558881--6559041 Score: 234
Period size: 83 Copynumber: 1.9 Consensus size: 84
6558871 TGCACTGTTA
* *
6558881 GGCATTTAACTTGCATTAGTGACGCTTTTCTGTCAAAAAATGCACCATTCGTCATCTAACTTACA
1 GGCATTTAACTTGCATTAGTGACACATTTCTGTCAAAAAATGCACCATTCGTCATCTAACTTACA
6558946 TTAATGGTACCTTACCATT
66 TTAATGGTACCTTACCATT
** * * * *
6558965 GGCATTTAACTTTTATTAGTGGCACATTTCTG-CCAAAAATGCACCATTTGTCGTCTAACTTACA
1 GGCATTTAACTTGCATTAGTGACACATTTCTGTCAAAAAATGCACCATTCGTCATCTAACTTACA
*
6559029 TTAGTGGTACCTT
66 TTAATGGTACCTT
6559042 TCTACTAAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
83 41 0.60
84 27 0.40
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (84 bp):
GGCATTTAACTTGCATTAGTGACACATTTCTGTCAAAAAATGCACCATTCGTCATCTAACTTACA
TTAATGGTACCTTACCATT
Found at i:6559110 original size:182 final size:182
Alignment explanation
Indices: 6558785--6559140 Score: 518
Period size: 182 Copynumber: 2.0 Consensus size: 182
6558775 CACCGTTAGA
** *
6558785 CATTTAACTTGCATTAGTGGCACATTTCTGCCAAAAATGCATTATTCGTCATCTAACTTGCATTA
1 CATTTAACTTGCATTAGTGGCACATTTCTGCCAAAAATGCACCATTCGTCATCTAACTTACATTA
* * * * * * *
6558850 GTGGTACCTTTCTACCAAAAATGCACTGTTAGGCATTTAACTTGCATTAGTGACGCTTTTCTGTC
66 GTGGTACCTTTCTACAAAAAATACACTATTAGGCATTTAACTTGCATTAGTGACACCTTTATGCC
6558915 AAAAAATGCACCATTCGTCATCTAACTTACATTAATGGTACCTTACCATTGG
131 AAAAAATGCACCATTCGTCATCTAACTTACATTAATGGTACCTTACCATTGG
** * *
6558967 CATTTAACTTTTATTAGTGGCACATTTCTGCCAAAAATGCACCATTTGTCGTCTAACTTACATTA
1 CATTTAACTTGCATTAGTGGCACATTTCTGCCAAAAATGCACCATTCGTCATCTAACTTACATTA
*
6559032 GTGGTACCTTTCTACTAAAAAATACA-TCATTAGGCATTTAACTTGCATTAGTGGCACCTTTATG
66 GTGGTACCTTTCTAC-AAAAAATACACT-ATTAGGCATTTAACTTGCATTAGTGACACCTTTATG
* * *
6559096 CCAAAAAA-GCACCATTCGTCGTCTAACTTGCATTAGTGGTACCTT
129 CCAAAAAATGCACCATTCGTCATCTAACTTACATTAATGGTACCTT
6559141 TCTACCAAAA
Statistics
Matches: 154, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
182 108 0.70
183 46 0.30
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (182 bp):
CATTTAACTTGCATTAGTGGCACATTTCTGCCAAAAATGCACCATTCGTCATCTAACTTACATTA
GTGGTACCTTTCTACAAAAAATACACTATTAGGCATTTAACTTGCATTAGTGACACCTTTATGCC
AAAAAATGCACCATTCGTCATCTAACTTACATTAATGGTACCTTACCATTGG
Found at i:6559136 original size:99 final size:97
Alignment explanation
Indices: 6558961--6559178 Score: 312
Period size: 99 Copynumber: 2.2 Consensus size: 97
6558951 GGTACCTTAC
* * * *
6558961 CATT-GGCATTTAACTTTTATTAGTGGCACATTTCTGCCAAAAATGCACCATTTGTCGTCTAACT
1 CATTAGGCATTTAACTTTCATTAGTGGCACATTTATGCCAAAAAAGCACCATTCGTCGTCTAACT
6559025 TACATTAGTGGTACCTTTCTACTAAAAAATACA
66 TACATTAGTGGTACCTTTCTAC-AAAAAATACA
* *
6559058 TCATTAGGCATTTAACTTGCATTAGTGGCACCTTTATGCCAAAAAAGCACCATTCGTCGTCTAAC
1 -CATTAGGCATTTAACTTTCATTAGTGGCACATTTATGCCAAAAAAGCACCATTCGTCGTCTAAC
* *
6559123 TTGCATTAGTGGTACCTTTCTACCAAAAATACA
65 TTACATTAGTGGTACCTTTCTACAAAAAATACA
* *
6559156 CTTTTAGACATTTAACTTTCATT
1 C-ATTAGGCATTTAACTTTCATT
6559179 TTAGAGAAGT
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
97 1 0.01
98 31 0.29
99 75 0.70
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (97 bp):
CATTAGGCATTTAACTTTCATTAGTGGCACATTTATGCCAAAAAAGCACCATTCGTCGTCTAACT
TACATTAGTGGTACCTTTCTACAAAAAATACA
Found at i:6559172 original size:49 final size:49
Alignment explanation
Indices: 6558967--6559178 Score: 176
Period size: 49 Copynumber: 4.3 Consensus size: 49
6558957 TTACCATTGG
** * * * * *
6558967 CATTTAACTTTTATTAGTGGCACATTTCTGCCAAAAATGCACCATTTGT
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATACACTATTAGT
* * * * * *
6559016 CGTCTAACTTACATTAGTGGTACCTTTCTACTAAAAAATACA-TCATTAGG
1 CATTTAACTTGCATTAGTGGCACCTTTCTAC-CAAAAATACACT-ATTAGT
* * * *
6559066 CATTTAACTTGCATTAGTGGCACCTTTATGCCAAAAA-AGCACCATTCGT
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATA-CACTATTAGT
* * * * *
6559115 CGTCTAACTTGCATTAGTGGTACCTTTCTACCAAAAATACACTTTTAGA
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATACACTATTAGT
*
6559164 CATTTAACTTTCATT
1 CATTTAACTTGCATT
6559179 TTAGAGAAGT
Statistics
Matches: 124, Mismatches: 34, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
48 1 0.01
49 85 0.69
50 38 0.31
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (49 bp):
CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATACACTATTAGT
Found at i:6559862 original size:22 final size:22
Alignment explanation
Indices: 6559834--6559879 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
6559824 AGCTCGATTT
6559834 TCACCAAATTTTCATTTAATTC
1 TCACCAAATTTTCATTTAATTC
*
6559856 TCACCAAATTTTCGTTTAATTC
1 TCACCAAATTTTCATTTAATTC
6559878 TC
1 TC
6559880 TTACTTATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.28, C:0.24, G:0.02, T:0.46
Consensus pattern (22 bp):
TCACCAAATTTTCATTTAATTC
Found at i:6564879 original size:46 final size:46
Alignment explanation
Indices: 6564784--6564892 Score: 128
Period size: 46 Copynumber: 2.4 Consensus size: 46
6564774 ATGACTGACA
* * * * **
6564784 CCTTTTATGTCGCTAATACACCGTTATGTATTTTCATTTGTGGCCT
1 CCTTTCATGTCGATAATACACCGTTATGCATTTTCATTTATGGAAT
* *
6564830 CCTTTCATGTCGATTATTCACCGTTATGCATTTTCATTTATGGAAT
1 CCTTTCATGTCGATAATACACCGTTATGCATTTTCATTTATGGAAT
* *
6564876 CCTTCCATATCGATAAT
1 CCTTTCATGTCGATAAT
6564893 GCATCATTTG
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (46 bp):
CCTTTCATGTCGATAATACACCGTTATGCATTTTCATTTATGGAAT
Found at i:6564981 original size:49 final size:49
Alignment explanation
Indices: 6564908--6565360 Score: 369
Period size: 49 Copynumber: 9.2 Consensus size: 49
6564898 ATTTGTCATA
* * ** *
6564908 TAACTTGCATTAGTGGCACATTTCTACCAAAAATGTGCCGTTAGACATT
1 TAACTTGCATTAGTGTCACCTTTCTACCAAAAATGCACCGTTAGGCATT
* * * * * *
6564957 TAACTTGCATTAATGTCACCTTTCTGCCAAAAATGCACCATTCGTCATC
1 TAACTTGCATTAGTGTCACCTTTCTACCAAAAATGCACCGTTAGGCATT
* * *
6565006 TAACTTGCATTAGTGGT-ACCTTTCTACCAAAAATGTATCGTCAGGCATT
1 TAACTTGCATTAGT-GTCACCTTTCTACCAAAAATGCACCGTTAGGCATT
* * * * *
6565055 TAACTTGCATTAGTGGCACCTTTCTGCCAAAAAATGCACCATTCA-TCATC
1 TAACTTGCATTAGTGTCACCTTTCTACC-AAAAATGCACCGTT-AGGCATT
* * *
6565105 TAACTTGCATTAGTGGT-ACATTTCTACCAAAAATACACTGTTAGGCATT
1 TAACTTGCATTAGT-GTCACCTTTCTACCAAAAATGCACCGTTAGGCATT
* * * * * * * * *
6565154 TAACTTGCATTAATGGT-ACATTTATGCCAAAAATGCATCATTCGTCATC
1 TAACTTGCATTAGT-GTCACCTTTCTACCAAAAATGCACCGTTAGGCATT
* * * *
6565203 TAAATTGCATTAGTGGT-ACCTTTCTACCAAAAATACATCGTTAGGCAAT
1 TAACTTGCATTAGT-GTCACCTTTCTACCAAAAATGCACCGTTAGGCATT
* * * * * * ** *
6565252 TAACTTGCATTAGTGACACATTTTTGCCAAAAATGCACCATTCGTTATC
1 TAACTTGCATTAGTGTCACCTTTCTACCAAAAATGCACCGTTAGGCATT
* * *
6565301 TAACTTGCATTAGTGGT-ACATTTCTACAAAAAATGCATCGTTAGGCATT
1 TAACTTGCATTAGT-GTCACCTTTCTACCAAAAATGCACCGTTAGGCATT
*
6565350 TAACTTTCATT
1 TAACTTGCATT
6565361 TTAGAGCAGT
Statistics
Matches: 316, Mismatches: 80, Indels: 16
0.77 0.19 0.04
Matches are distributed among these distances:
48 3 0.01
49 272 0.86
50 39 0.12
51 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (49 bp):
TAACTTGCATTAGTGTCACCTTTCTACCAAAAATGCACCGTTAGGCATT
Found at i:6565016 original size:98 final size:98
Alignment explanation
Indices: 6564890--6565360 Score: 640
Period size: 98 Copynumber: 4.8 Consensus size: 98
6564880 CCATATCGAT
* * * * *** *
6564890 AATGCATCATTTGTCATATAACTTGCATTAGTGGCACATTTCTACCAAAAATGTGCCGTTAGACA
1 AATGCACCATTCGTCATCTAACTTGCATTAGTGGTACATTTCTACCAAAAATGCATCGTTAGGCA
*
6564955 TTTAACTTGCATTAATGTCACCTTTCTGCCAAA
66 TTTAACTTGCATTAATGTCACATTTCTGCCAAA
* * *
6564988 AATGCACCATTCGTCATCTAACTTGCATTAGTGGTACCTTTCTACCAAAAATGTATCGTCAGGCA
1 AATGCACCATTCGTCATCTAACTTGCATTAGTGGTACATTTCTACCAAAAATGCATCGTTAGGCA
* * *
6565053 TTTAACTTGCATTAGTGGCACCTTTCTGCCAAAA
66 TTTAACTTGCATTAATGTCACATTTCTGCC-AAA
* *
6565087 AATGCACCATTCATCATCTAACTTGCATTAGTGGTACATTTCTACCAAAAATACA-CTGTTAGGC
1 AATGCACCATTCGTCATCTAACTTGCATTAGTGGTACATTTCTACCAAAAATGCATC-GTTAGGC
*
6565151 ATTTAACTTGCATTAATGGT-ACATTTATGCCAAA
65 ATTTAACTTGCATTAAT-GTCACATTTCTGCCAAA
* * * *
6565185 AATGCATCATTCGTCATCTAAATTGCATTAGTGGTACCTTTCTACCAAAAATACATCGTTAGGCA
1 AATGCACCATTCGTCATCTAACTTGCATTAGTGGTACATTTCTACCAAAAATGCATCGTTAGGCA
* * * *
6565250 ATTAACTTGCATTAGTGACACATTTTTGCCAAA
66 TTTAACTTGCATTAATGTCACATTTCTGCCAAA
* *
6565283 AATGCACCATTCGTTATCTAACTTGCATTAGTGGTACATTTCTACAAAAAATGCATCGTTAGGCA
1 AATGCACCATTCGTCATCTAACTTGCATTAGTGGTACATTTCTACCAAAAATGCATCGTTAGGCA
*
6565348 TTTAACTTTCATT
66 TTTAACTTGCATT
6565361 TTAGAGCAGT
Statistics
Matches: 332, Mismatches: 36, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
97 1 0.00
98 244 0.73
99 86 0.26
100 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (98 bp):
AATGCACCATTCGTCATCTAACTTGCATTAGTGGTACATTTCTACCAAAAATGCATCGTTAGGCA
TTTAACTTGCATTAATGTCACATTTCTGCCAAA
Found at i:6565257 original size:197 final size:196
Alignment explanation
Indices: 6564903--6565360 Score: 677
Period size: 197 Copynumber: 2.3 Consensus size: 196
6564893 GCATCATTTG
* * ** * *
6564903 TCATATAACTTGCATTAGTGGCACATTTCTACCAAAAATGTGCCGTTAGACATTTAACTTGCATT
1 TCATCTAACTTGCATTAGTGGTACATTTCTACCAAAAATGCACTGTTAGGCATTTAACTTGCATT
* * *
6564968 AATGTCACCTTTCTGCCAAAAATGCACCATTCGTCATCTAACTTGCATTAGTGGTACCTTTCTAC
66 AATGTCACATTTATGCCAAAAATGCACCATTCGTCATCTAAATTGCATTAGTGGTACCTTTCTAC
** * * *
6565033 CAAAAATGTATCGTCAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAAATGCACCATT
131 CAAAAATACATCGTCAGGCAATTAACTTGCATTAGTGACACATTTCTGCC-AAAAATGCACCATT
6565098 CA
195 CA
*
6565100 TCATCTAACTTGCATTAGTGGTACATTTCTACCAAAAATACACTGTTAGGCATTTAACTTGCATT
1 TCATCTAACTTGCATTAGTGGTACATTTCTACCAAAAATGCACTGTTAGGCATTTAACTTGCATT
*
6565165 AATGGT-ACATTTATGCCAAAAATGCATCATTCGTCATCTAAATTGCATTAGTGGTACCTTTCTA
66 AAT-GTCACATTTATGCCAAAAATGCACCATTCGTCATCTAAATTGCATTAGTGGTACCTTTCTA
* *
6565229 CCAAAAATACATCGTTAGGCAATTAACTTGCATTAGTGACACATTTTTGCCAAAAATGCACCATT
130 CCAAAAATACATCGTCAGGCAATTAACTTGCATTAGTGACACATTTCTGCCAAAAATGCACCATT
*
6565294 CG
195 CA
* * *
6565296 TTATCTAACTTGCATTAGTGGTACATTTCTACAAAAAATGCA-TCGTTAGGCATTTAACTTTCAT
1 TCATCTAACTTGCATTAGTGGTACATTTCTACCAAAAATGCACT-GTTAGGCATTTAACTTGCAT
6565360 T
65 T
6565361 TTAGAGCAGT
Statistics
Matches: 236, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
195 1 0.00
196 74 0.31
197 159 0.67
198 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (196 bp):
TCATCTAACTTGCATTAGTGGTACATTTCTACCAAAAATGCACTGTTAGGCATTTAACTTGCATT
AATGTCACATTTATGCCAAAAATGCACCATTCGTCATCTAAATTGCATTAGTGGTACCTTTCTAC
CAAAAATACATCGTCAGGCAATTAACTTGCATTAGTGACACATTTCTGCCAAAAATGCACCATTC
A
Found at i:6565892 original size:18 final size:19
Alignment explanation
Indices: 6565869--6565917 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
6565859 CCTTTATCTT
*
6565869 AGTATCGATACTCA-CATC
1 AGTATCGATACTAATCATC
6565887 AGTATCGATACTAATTGCATC
1 AGTATCGATACTAA-T-CATC
6565908 AGTATCGATA
1 AGTATCGATA
6565918 TTGTTCATCG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 13 0.48
21 14 0.52
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (19 bp):
AGTATCGATACTAATCATC
Found at i:6567097 original size:3 final size:3
Alignment explanation
Indices: 6567089--6567119 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
6567079 ACAAAAATCT
6567089 ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
6567120 TTTTTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6567111 original size:19 final size:19
Alignment explanation
Indices: 6567089--6567170 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 19
6567079 ACAAAAATCT
6567089 ATAATAATAAATAATAATA
1 ATAATAATAAATAATAATA
** * *
6567108 ATAATAATAATATTTTTATT
1 ATAATAATAA-ATAATAATA
* *
6567128 ATTATATTAAATAATAATA
1 ATAATAATAAATAATAATA
** * *
6567147 ATAATGTTAAATATTAATG
1 ATAATAATAAATAATAATA
6567166 ATAAT
1 ATAAT
6567171 CCGGACAAAA
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
19 35 0.73
20 13 0.27
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
ATAATAATAAATAATAATA
Found at i:6567867 original size:22 final size:21
Alignment explanation
Indices: 6567838--6567890 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
6567828 ATATATATTT
*
6567838 ATAATATTTAATTATTTAAAA
1 ATAATATTAAATTATTTAAAA
6567859 ATAATTATTAAATTATTTAAAA
1 ATAA-TATTAAATTATTTAAAA
*
6567881 A-ATTATTAAA
1 ATAATATTAAA
6567891 CTCTATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 7 0.24
21 5 0.17
22 17 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAATATTAAATTATTTAAAA
Found at i:6571352 original size:85 final size:85
Alignment explanation
Indices: 6571198--6571674 Score: 462
Period size: 85 Copynumber: 5.6 Consensus size: 85
6571188 GTCATTTAGT
* * **** * *
6571198 TGAATGAAATCGAACTCGACAGTTTTTTGTTGACAGATAGTTTTTCTCG-ATTTATGTTATGCTG
1 TGAATGGAATCGAACTCGA-AGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGA-GTTATGCTG
*
6571262 TAAATTTGACATGCCCTTGAGC
64 TAAATTTGATATGCCCTTGAGC
* * * * * *
6571284 TAAATGGAATCGAACTTGAAGGTATTTGTTAACGGATAACCCTTCTCGCCTTGAGTTATGCTGCA
1 TGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
* *
6571349 AATTTGATAAGCCTTTGAGC
66 AATTTGATATGCCCTTGAGC
* * * * ** *
6571369 TGAATGAAATCGAACTAGAAGGTATTTGTTG-CAGATAACCCTTATTACCTTGAGTTATGTTGTA
1 TGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
* *
6571433 AATTTG--ATGTCTTTGAGC
66 AATTTGATATGCCCTTGAGC
* * * * * *
6571451 TGAATGGAATCGAAATCGAAGTTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATACTATA
1 TGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
* *
6571516 AATTTGATATGGCATTGAGC
66 AATTTGATATGCCCTTGAGC
* * * * * * * *
6571536 TGAATAGAATCAAACTCAAAGGTTTTTGTTGA-TGAATAACCCTTTTCGTCTTGAGCTATACTGT
1 TGAATGGAATCGAACTCGAAGGTTTTTGTTGACAG-ATAACCCTTCTCGCCTTGAGTTATGCTGT
* *
6571600 -AATTTGATATGGCCTTGAGT
65 AAATTTGATATGCCCTTGAGC
* **
6571620 TGAATGGAATCAAACTCGAAGGTTTTTGTTGACAGATGGCCCTTCTCGCCTTGAG
1 TGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAG
6571675 CTATACTTTA
Statistics
Matches: 322, Mismatches: 63, Indels: 14
0.81 0.16 0.04
Matches are distributed among these distances:
82 36 0.11
83 31 0.10
84 98 0.30
85 138 0.43
86 19 0.06
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (85 bp):
TGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
AATTTGATATGCCCTTGAGC
Found at i:6571496 original size:167 final size:168
Alignment explanation
Indices: 6571253--6571681 Score: 496
Period size: 167 Copynumber: 2.5 Consensus size: 168
6571243 CTCGATTTAT
* * * * * *
6571253 GTTATGCTGTAAATTTGACATGCCCTTGAGCTAAATGGAATCGAACTTGAAGGTATTTGTTAACG
1 GTTATGCTGTAAATTTGA-ATGCCCTTGAGCTGAATGGAATCGAAATCGAAGGTTTTTGTTGACA
* * * * * *
6571318 GATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTTGATAAGCCTTTGAGCTGAAT-GAAATCGA
65 GATAGCCCTTCTCGCCTTGAGCTATACTACAAATTTGATAAGCCATTGAGCTGAATAG-AATCAA
6571382 ACT-AGAAGGTATTTGTTGCA-G-ATAACCCTTATTAC-CTTGA
129 ACTCA-AAGGTATTTGTTG-ATGAATAACCCTT-TT-CGCTTGA
* * * *
6571422 GTTATGTTGTAAATTTG-ATGTCTTTGAGCTGAATGGAATCGAAATCGAAGTTTTTTGTTGACAG
1 GTTATGCTGTAAATTTGAATGCCCTTGAGCTGAATGGAATCGAAATCGAAGGTTTTTGTTGACAG
* * *
6571486 ATAGCCCTTCTCGCCTTGAGCTATACTATAAATTTGATATGGCATTGAGCTGAATAGAATCAAAC
66 ATAGCCCTTCTCGCCTTGAGCTATACTACAAATTTGATAAGCCATTGAGCTGAATAGAATCAAAC
*
6571551 TCAAAGGTTTTTGTTGATGAATAACCCTTTTCGTCTTGA
131 TCAAAGGTATTTGTTGATGAATAACCCTTTTCG-CTTGA
* * * *
6571590 GCTATACTGT-AATTTGATATGGCCTTGAGTTGAATGGAATC-AAACTCGAAGGTTTTTGTTGAC
1 GTTATGCTGTAAATTTGA-ATGCCCTTGAGCTGAATGGAATCGAAA-TCGAAGGTTTTTGTTGAC
*
6571653 AGATGGCCCTTCTCGCCTTGAGCTATACT
64 AGATAGCCCTTCTCGCCTTGAGCTATACT
6571682 TTAATAGGCT
Statistics
Matches: 223, Mismatches: 28, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
166 2 0.01
167 114 0.51
168 26 0.12
169 81 0.36
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (168 bp):
GTTATGCTGTAAATTTGAATGCCCTTGAGCTGAATGGAATCGAAATCGAAGGTTTTTGTTGACAG
ATAGCCCTTCTCGCCTTGAGCTATACTACAAATTTGATAAGCCATTGAGCTGAATAGAATCAAAC
TCAAAGGTATTTGTTGATGAATAACCCTTTTCGCTTGA
Found at i:6571674 original size:252 final size:253
Alignment explanation
Indices: 6571198--6571674 Score: 557
Period size: 252 Copynumber: 1.9 Consensus size: 253
6571188 GTCATTTAGT
* *** * * * *
6571198 TGAATGAAATCGAACTCGACAGTTTTTTGTTGACAGATAGTTTTTCTCGATTTATGTTATGCTGT
1 TGAATGAAATCGAAATCGACAGTTTTTTGTTGACAGATAGCCCTTCTCGATTGATGCTATACTAT
* * * ** *
6571263 AAATTTGACATGCCCTTGAGCTAAATGGAATCGAACTTGAAGGTATTTGTTAACGGATAACCCTT
66 AAATTTGACATGCCATTGAGCTAAATAGAATCAAACTCAAAGGTATTTGTTAACGAATAACCCTT
* * *
6571328 CTCGCCTTGAGTTATGCTGCAAATTTGATAAGCCTTTGAGCTGAATGAAATCGAACTAGAAGGTA
131 CTCGCCTTGAGCTATACTGCAAATTTGATAAGCCTTTGAGCTGAATGAAATCAAACTAGAAGGTA
*
6571393 TTTGTTGCAGATAACCCTTATTACCTTGAGTTATGTTGTAAATTTGATGTCTTTGAGC
196 TTTGTTGCAGATAACCCTTATCACCTTGAGTTATGTTGTAAATTTGATGTCTTTGAGC
* *
6571451 TGAATGGAATCGAAATCGA-AGTTTTTTGTTGACAGATAGCCCTTCTCGCCTTGA-GCTATACTA
1 TGAATGAAATCGAAATCGACAGTTTTTTGTTGACAGATAGCCCTTCTCG-ATTGATGCTATACTA
* * * * * *
6571514 TAAATTTGATATGGCATTGAGCTGAATAGAATCAAACTCAAAGGTTTTTGTTGATGAATAACCCT
65 TAAATTTGACATGCCATTGAGCTAAATAGAATCAAACTCAAAGGTATTTGTTAACGAATAACCCT
* * * * * * *
6571579 TTTCGTCTTGAGCTATACTG-TAATTTGATATGGCC-TTGAGTTGAATGGAATCAAACTCGAAGG
130 TCTCGCCTTGAGCTATACTGCAAATTTGATA-AGCCTTTGAGCTGAATGAAATCAAACTAGAAGG
* ** * *
6571642 TTTTTGTTGACAGATGGCCCTTCTCGCCTTGAG
194 TATTTGTTG-CAGATAACCCTTATCACCTTGAG
6571675 CTATACTTTA
Statistics
Matches: 183, Mismatches: 38, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
251 41 0.22
252 122 0.67
253 20 0.11
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (253 bp):
TGAATGAAATCGAAATCGACAGTTTTTTGTTGACAGATAGCCCTTCTCGATTGATGCTATACTAT
AAATTTGACATGCCATTGAGCTAAATAGAATCAAACTCAAAGGTATTTGTTAACGAATAACCCTT
CTCGCCTTGAGCTATACTGCAAATTTGATAAGCCTTTGAGCTGAATGAAATCAAACTAGAAGGTA
TTTGTTGCAGATAACCCTTATCACCTTGAGTTATGTTGTAAATTTGATGTCTTTGAGC
Found at i:6571675 original size:84 final size:85
Alignment explanation
Indices: 6571259--6571681 Score: 446
Period size: 84 Copynumber: 5.0 Consensus size: 85
6571249 TTATGTTATG
* * * * * * * *
6571259 CTGTAAATTTGACATGCCCTTGAGCTAAATGGAATCGAACTTGAAGGTATTTGTTAACGGATAAC
1 CTGTAAATTTGATATGGCCTTGAGCTGAATGGAATCAAACTCGAAGGTTTTTGTTGACAGATAAC
* *
6571324 CCTTCTCGCCTTGAGTTATG
66 CCTTCTCGCCTTGAGCTATA
* * * * * *
6571344 CTGCAAATTTGATA-AGCCTTTGAGCTGAATGAAATCGAACTAGAAGGTATTTGTTG-CAGATAA
1 CTGTAAATTTGATATGGCC-TTGAGCTGAATGGAATCAAACTCGAAGGTTTTTGTTGACAGATAA
* ** * *
6571407 CCCTTATTACCTTGAGTTATG
65 CCCTTCTCGCCTTGAGCTATA
* * * * *
6571428 TTGTAAATTTG--ATGTCTTTGAGCTGAATGGAATCGAAA-TCGAAGTTTTTTGTTGACAGATAG
1 CTGTAAATTTGATATGGCCTTGAGCTGAATGGAATC-AAACTCGAAGGTTTTTGTTGACAGATAA
6571490 CCCTTCTCGCCTTGAGCTATA
65 CCCTTCTCGCCTTGAGCTATA
* * * * *
6571511 CTATAAATTTGATATGGCATTGAGCTGAATAGAATCAAACTCAAAGGTTTTTGTTGA-TGAATAA
1 CTGTAAATTTGATATGGCCTTGAGCTGAATGGAATCAAACTCGAAGGTTTTTGTTGACAG-ATAA
* *
6571575 CCCTTTTCGTCTTGAGCTATA
65 CCCTTCTCGCCTTGAGCTATA
* **
6571596 CTGT-AATTTGATATGGCCTTGAGTTGAATGGAATCAAACTCGAAGGTTTTTGTTGACAGATGGC
1 CTGTAAATTTGATATGGCCTTGAGCTGAATGGAATCAAACTCGAAGGTTTTTGTTGACAGATAAC
6571660 CCTTCTCGCCTTGAGCTATA
66 CCTTCTCGCCTTGAGCTATA
6571680 CT
1 CT
6571682 TTAATAGGCT
Statistics
Matches: 280, Mismatches: 49, Indels: 19
0.80 0.14 0.05
Matches are distributed among these distances:
82 30 0.11
83 34 0.12
84 110 0.39
85 106 0.38
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (85 bp):
CTGTAAATTTGATATGGCCTTGAGCTGAATGGAATCAAACTCGAAGGTTTTTGTTGACAGATAAC
CCTTCTCGCCTTGAGCTATA
Found at i:6587198 original size:38 final size:38
Alignment explanation
Indices: 6587134--6587213 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
6587124 CATGGAACAT
*
6587134 ATAAATGGCATGACTACACCAAAGAATTGGAAATTATGA
1 ATAAATGGCAAGACTACACCAAAGAATTGGAAA-TATGA
* *
6587173 ATAAATGG-AAGACTGCATCAAAGAATTGGAAATATGA
1 ATAAATGGCAAGACTACACCAAAGAATTGGAAATATGA
6587210 ATAA
1 ATAA
6587214 CACAACAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 9 0.24
38 21 0.55
39 8 0.21
ACGTcount: A:0.49, C:0.10, G:0.19, T:0.23
Consensus pattern (38 bp):
ATAAATGGCAAGACTACACCAAAGAATTGGAAATATGA
Found at i:6588005 original size:26 final size:27
Alignment explanation
Indices: 6587950--6588015 Score: 116
Period size: 26 Copynumber: 2.5 Consensus size: 27
6587940 AATAATAAGT
*
6587950 GTGTCTACATATTTCTATAAAAAAAAA
1 GTGTCTACATATGTCTATAAAAAAAAA
6587977 GTGTCTACATATGTCTAT-AAAAAAAA
1 GTGTCTACATATGTCTATAAAAAAAAA
6588003 GTGTCTACATATG
1 GTGTCTACATATG
6588016 CCATGGATTC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 21 0.55
27 17 0.45
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (27 bp):
GTGTCTACATATGTCTATAAAAAAAAA
Found at i:6589764 original size:29 final size:30
Alignment explanation
Indices: 6589722--6589779 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
6589712 GCCGAACTAG
* * * *
6589722 AAAATTTATTTTTAA-TATTAAATTTAAAT
1 AAAAATTAGTTTTAAGTATCAAAATTAAAT
6589751 AAAAATTAGTTTTAAGTATCAAAATTAAA
1 AAAAATTAGTTTTAAGTATCAAAATTAAA
6589780 AACTATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (30 bp):
AAAAATTAGTTTTAAGTATCAAAATTAAAT
Found at i:6589855 original size:21 final size:20
Alignment explanation
Indices: 6589827--6589872 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
6589817 TGAGTGTCAA
6589827 TTTA-TATTTAAAGTA-TTAT
1 TTTATTATTTAAA-TATTTAT
6589846 TATTATTATTTAAATATTTAT
1 T-TTATTATTTAAATATTTAT
6589867 TTTATT
1 TTTATT
6589873 TTATTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 10 0.42
21 13 0.54
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTATTATTTAAATATTTAT
Found at i:6593500 original size:26 final size:26
Alignment explanation
Indices: 6593470--6593524 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
6593460 TTGTGAAACC
6593470 AGTGAGGGGTTTCTTTGTTCCTCGGA
1 AGTGAGGGGTTTCTTTGTTCCTCGGA
6593496 AGTGAGGGGTTTCTTTGTTCCTCGGA
1 AGTGAGGGGTTTCTTTGTTCCTCGGA
6593522 AGT
1 AGT
6593525 TATGGCACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.13, C:0.15, G:0.35, T:0.38
Consensus pattern (26 bp):
AGTGAGGGGTTTCTTTGTTCCTCGGA
Found at i:6595862 original size:19 final size:19
Alignment explanation
Indices: 6595838--6595886 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
6595828 TTCGAACCTA
*
6595838 AAAGTGGTATCGATACTGT
1 AAAGTGGTATCGATACCGT
6595857 AAAGTGGTATCGATACCGT
1 AAAGTGGTATCGATACCGT
*
6595876 AAAGGGGTATC
1 AAAGTGGTATC
6595887 AGTACCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.27
Consensus pattern (19 bp):
AAAGTGGTATCGATACCGT
Found at i:6596313 original size:59 final size:59
Alignment explanation
Indices: 6596235--6596387 Score: 288
Period size: 59 Copynumber: 2.6 Consensus size: 59
6596225 TGTGCAAAGC
6596235 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
* *
6596294 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCTCTTTGTGTGGTAAAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
6596353 TAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
6596388 GGGAAATATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 92 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.37
Consensus pattern (59 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
Found at i:6597202 original size:68 final size:68
Alignment explanation
Indices: 6596730--6597184 Score: 741
Period size: 68 Copynumber: 6.7 Consensus size: 68
6596720 GATTAAAGGT
* *
6596730 CTAACTGTGCATTTGACA-AAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTTTGA
1 CTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
6596794 GGC
66 GGC
* * * *
6596797 CTAACTGTGCATTTAACAGAAAAGTTTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
6596862 GGC
66 GGC
* * *
6596865 CTAACTGTGCATTTAACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
6596930 GGC
66 GGC
* * * *
6596933 ATAGCTGTGCATTTGACAGAAATGTGTCAATTATACCAGATAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
6596998 GGC
66 GGC
* * *
6597001 ATAACTGTGCATTTGACAGAAATGTGTCAATTATACCAGATAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
6597066 GGC
66 GGC
* *
6597069 CTAACTGTGCATTTGACAGAAATGTGTCAATTATACCAGATAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
6597134 GGC
66 GGC
6597137 CTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 CTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
6597185 CGATTAAGTA
Statistics
Matches: 367, Mismatches: 20, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
67 17 0.05
68 350 0.95
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (68 bp):
CTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
GGC
Found at i:6597270 original size:81 final size:81
Alignment explanation
Indices: 6597135--6597533 Score: 566
Period size: 81 Copynumber: 4.9 Consensus size: 81
6597125 TGCCTTTGAG
* *
6597135 GCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAGTACCGTT
1 GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAGTACCGTT
6597200 GAGTAAAAGAATAATA
66 GAGTAAAAGAATAATA
* * * * *
6597216 GCCTAGTTGTGTATTTGACAGAAATGTATCAATTAGGCCAGTTAGATGAACGATTAAGTACCGTT
1 GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAGTACCGTT
6597281 GAGTAAAAGAATAATA
66 GAGTAAAAGAATAATA
* * * * * *
6597297 ACATAGCTGTGCATTTGGCAGAAAGATGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCGTT
1 GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAGTACCGTT
6597362 GAGTAAAAGAATAATA
66 GAGTAAAAGAATAATA
* *
6597378 GTCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAC-AGTTAAGTATCGT
1 GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGA-TTAAGTACCGT
*
6597442 TGAGTAAAAGAATAATG
65 TGAGTAAAAGAATAATA
* * * * ** **
6597459 GCCTAGTTGTGCATTTGACATAAAGGTGTCAATTATGCCAGTTAGAGGAACGGTTAAACAATGTT
1 GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAGTACCGTT
6597524 GAGTAAAAGA
66 GAGTAAAAGA
6597534 TGAACGGTTA
Statistics
Matches: 282, Mismatches: 34, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
81 282 1.00
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (81 bp):
GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAGTACCGTT
GAGTAAAAGAATAATA
Found at i:6597539 original size:29 final size:29
Alignment explanation
Indices: 6597506--6597562 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
6597496 CCAGTTAGAG
*
6597506 GAACGGTTAAACA-ATGTTGAGTAAAAGAT
1 GAACGGTTAAACACA-GTTGAATAAAAGAT
6597535 GAACGGTTAAACACAGTTGAATAAAAGA
1 GAACGGTTAAACACAGTTGAATAAAAGA
6597563 ATAAAGGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (29 bp):
GAACGGTTAAACACAGTTGAATAAAAGAT
Found at i:6598626 original size:74 final size:75
Alignment explanation
Indices: 6598541--6598689 Score: 221
Period size: 74 Copynumber: 2.0 Consensus size: 75
6598531 ACATCGAATG
* ***
6598541 TAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCC-GTTATAATGA-AACATCGAATA
1 TAATTCGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAAT-ACAACATCGAATA
6598604 CCTTTGATGCA
65 CCTTTGATGCA
* *
6598615 TAATTGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATACTACATCGAATAC
1 TAATTCGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATACAACATCGAATAC
6598680 CTTTGATGCA
66 CTTTGATGCA
6598690 CCGATGCATC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
74 41 0.61
75 26 0.39
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
TAATTCGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATACAACATCGAATAC
CTTTGATGCA
Found at i:6599043 original size:12 final size:12
Alignment explanation
Indices: 6599026--6599072 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
6599016 ATATATGTTC
*
6599026 ATGTGATATGCT
1 ATGTGATATGAT
6599038 ATGTGATATGAT
1 ATGTGATATGAT
* *
6599050 ATGTAATATGAC
1 ATGTGATATGAT
*
6599062 CTGTGATATGA
1 ATGTGATATGA
6599073 GAACATGATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:6599130 original size:29 final size:29
Alignment explanation
Indices: 6599088--6599161 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
6599078 TGATATGAAG
6599088 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
6599117 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
6599146 TGACATGAG-TACATGA
1 TGACATGAGCTACATGA
6599162 ACATATGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:6599264 original size:15 final size:15
Alignment explanation
Indices: 6599246--6599338 Score: 150
Period size: 15 Copynumber: 6.2 Consensus size: 15
6599236 GAGGGTAAAA
6599246 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
*
6599261 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGATG
*
6599276 TAGTCCTTCAGGATG
1 TAGTCCTTCGGGATG
6599291 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
* *
6599306 TAGTCTTTCGGGACG
1 TAGTCCTTCGGGATG
6599321 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
6599336 TAG
1 TAG
6599339 GAGTCCTACG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 70 1.00
ACGTcount: A:0.15, C:0.20, G:0.32, T:0.32
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:6599310 original size:45 final size:45
Alignment explanation
Indices: 6599246--6599338 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
6599236 GAGGGTAAAA
6599246 TAGTCCTTCGGGATGTAGTCCTTCGGGACGTAGTCCTTCAGGATG
1 TAGTCCTTCGGGATGTAGTCCTTCGGGACGTAGTCCTTCAGGATG
* *
6599291 TAGTCCTTCGGGATGTAGTCTTTCGGGACGTAGTCCTTCGGGATG
1 TAGTCCTTCGGGATGTAGTCCTTCGGGACGTAGTCCTTCAGGATG
6599336 TAG
1 TAG
6599339 GAGTCCTACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.15, C:0.20, G:0.32, T:0.32
Consensus pattern (45 bp):
TAGTCCTTCGGGATGTAGTCCTTCGGGACGTAGTCCTTCAGGATG
Done.