Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 286 of 318
Found at i:91293713 original size:24 final size:24
Alignment explanation
Indices: 91293648--91293718 Score: 61
Period size: 26 Copynumber: 2.8 Consensus size: 24
91293638 TATTATTATG
* **
91293648 ATATTTATATTTTATTATTTTTCAA
1 ATATTTAT-TATTATTATTTTAAAA
* *
91293673 ATTTATTATTACATATTATTTTAAAA
1 ATAT-TTATTA-TTATTATTTTAAAA
*
91293699 ATATTTATTATTATTTTTTT
1 ATATTTATTATTATTATTTT
91293719 TTTTAGATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
24 8 0.22
25 10 0.28
26 18 0.50
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
ATATTTATTATTATTATTTTAAAA
Found at i:91293722 original size:28 final size:26
Alignment explanation
Indices: 91293658--91293738 Score: 67
Period size: 28 Copynumber: 3.1 Consensus size: 26
91293648 ATATTTATAT
*
91293658 TTTATTATTTTTCAA-ATTTATTATTA
1 TTTATTA-TTTTAAATATTTATTATTA
**
91293684 CATATTATTTTAAAAATATTTATTATTA
1 TTTATTATTTT--AAATATTTATTATTA
* * *
91293712 TTTTTTTTTTTAGAT-TTTATTATTA
1 TTTATTATTTTAAATATTTATTATTA
91293737 TT
1 TT
91293739 CATTGTATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
25 16 0.36
26 8 0.18
27 2 0.05
28 18 0.41
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTATTATTTTAAATATTTATTATTA
Found at i:91293795 original size:18 final size:17
Alignment explanation
Indices: 91293752--91293808 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
91293742 TGTATTTGTG
91293752 TTTTTTCTTTATTT-TTA
1 TTTTTT-TTTATTTATTA
91293769 TCTTGTTTTTTATTTTATTA
1 T-TT-TTTTTTA-TTTATTA
*
91293789 TTTTTTTTGATTTATTA
1 TTTTTTTTTATTTATTA
91293806 TTT
1 TTT
91293809 ATTAATTGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 11 0.31
18 12 0.34
19 8 0.23
20 4 0.11
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.79
Consensus pattern (17 bp):
TTTTTTTTTATTTATTA
Found at i:91311790 original size:19 final size:20
Alignment explanation
Indices: 91311729--91311795 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 20
91311719 AAATATATAC
91311729 ATAATAA-TATTAA-AATAAA
1 ATAATAAGTA-TAATAATAAA
*
91311748 ATAATAAGTGATAATAGTGAAA
1 ATAATAAGT-ATAATAAT-AAA
91311770 ATAATAAGTATAATAATAAA
1 ATAATAAGTATAATAATAAA
91311790 TATAAT
1 -ATAAT
91311796 GATGTATGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 7 0.17
20 7 0.17
21 15 0.37
22 12 0.29
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (20 bp):
ATAATAAGTATAATAATAAA
Found at i:91311841 original size:22 final size:21
Alignment explanation
Indices: 91311810--91311858 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
91311800 TATGAAAATA
91311810 ATACTATAT-ATAAAAGTGTAT
1 ATACTATATAATAAAA-TGTAT
91311831 ATACTCATATAATAAAATGTAT
1 ATACT-ATATAATAAAATGTAT
*
91311853 GTACTA
1 ATACTA
91311859 GTATTAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 13 0.52
23 6 0.24
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (21 bp):
ATACTATATAATAAAATGTAT
Found at i:91312491 original size:26 final size:26
Alignment explanation
Indices: 91312439--91312505 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
91312429 AGTAATAATA
91312439 AAAAAGATTAATAATAGTAATAGAAAAT
1 AAAAAGA-TAATAATAG-AATAGAAAAT
*
91312467 ATAAAGATAATAATA-ACATAGAAAAT
1 AAAAAGATAATAATAGA-ATAGAAAAT
*
91312493 AAAAAGGTAATAA
1 AAAAAGATAATAA
91312506 ATATACAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.03
26 20 0.57
27 8 0.23
28 6 0.17
ACGTcount: A:0.66, C:0.01, G:0.10, T:0.22
Consensus pattern (26 bp):
AAAAAGATAATAATAGAATAGAAAAT
Found at i:91312523 original size:6 final size:6
Alignment explanation
Indices: 91312512--91312536 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
91312502 ATAAATATAC
91312512 AGTAAT AGTAAT AGTAAT AGTAAT A
1 AGTAAT AGTAAT AGTAAT AGTAAT A
91312537 AAATATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (6 bp):
AGTAAT
Found at i:91313807 original size:23 final size:22
Alignment explanation
Indices: 91313741--91313820 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 22
91313731 GGCTTGCTAT
**
91313741 TGGGTTTTAGGTGTTTAATGT-GT
1 TGGGTTTT-GG-GTTTAATGTAAA
91313764 TGGGTTTTGAGGTTTAATGTAAA
1 TGGGTTTTG-GGTTTAATGTAAA
91313787 TGGGTTTTGGGATTTAATGTAAA
1 TGGGTTTTGGG-TTTAATGTAAA
91313810 TGGGTTTTGGG
1 TGGGTTTTGGG
91313821 GTTGGGCTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
22 12 0.23
23 40 0.77
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (22 bp):
TGGGTTTTGGGTTTAATGTAAA
Found at i:91316449 original size:46 final size:46
Alignment explanation
Indices: 91316398--91316485 Score: 176
Period size: 46 Copynumber: 1.9 Consensus size: 46
91316388 AATGAGAATA
91316398 ATTTATTTTTGTTATTCTTTATCTTTTAAGGGTTATTTAAATAATG
1 ATTTATTTTTGTTATTCTTTATCTTTTAAGGGTTATTTAAATAATG
91316444 ATTTATTTTTGTTATTCTTTATCTTTTAAGGGTTATTTAAAT
1 ATTTATTTTTGTTATTCTTTATCTTTTAAGGGTTATTTAAAT
91316486 TTAATTTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.25, C:0.05, G:0.10, T:0.60
Consensus pattern (46 bp):
ATTTATTTTTGTTATTCTTTATCTTTTAAGGGTTATTTAAATAATG
Found at i:91321393 original size:25 final size:25
Alignment explanation
Indices: 91321365--91321422 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
91321355 AACTTTTTTT
91321365 AAATT-TTAAAATAAAAAAACTATAA
1 AAATTATTAAAA-AAAAAAACTATAA
** *
91321390 AAATTATTTTAAAATAAAACTATAA
1 AAATTATTAAAAAAAAAAACTATAA
*
91321415 AAAATATT
1 AAATTATT
91321423 TTTTTAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (25 bp):
AAATTATTAAAAAAAAAAACTATAA
Found at i:91321427 original size:28 final size:28
Alignment explanation
Indices: 91321367--91321430 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
91321357 CTTTTTTTAA
*
91321367 ATTTTAAAATAAAAAAACTATAAAAATT
1 ATTTTAAAATAAAAAAACTAAAAAAATT
**
91321395 ATTTTAAAATAAAACTA-TAAAAAATATT
1 ATTTTAAAATAAAAAAACTAAAAAA-ATT
*
91321423 TTTTTAAA
1 ATTTTAAA
91321431 TATTTTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (28 bp):
ATTTTAAAATAAAAAAACTAAAAAAATT
Found at i:91324408 original size:3 final size:3
Alignment explanation
Indices: 91324400--91324440 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
91324390 AGATATTTAC
91324400 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TTA TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
91324441 ATTGAGATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.11
3 28 0.80
4 3 0.09
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:91324654 original size:12 final size:12
Alignment explanation
Indices: 91324629--91324663 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
91324619 TTAGGGGAAA
91324629 AAAAGAAGAAAAG
1 AAAAGAA-AAAAG
91324642 AAAAGAAAAAAG
1 AAAAGAAAAAAG
*
91324654 AAAGGAAAAA
1 AAAAGAAAAA
91324664 TTAGGGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:91324656 original size:17 final size:16
Alignment explanation
Indices: 91324625--91324663 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
91324615 AAAATTAGGG
*
91324625 GAAAAAAAGAAGAAAA
1 GAAAAAAAAAAGAAAA
*
91324641 GAAAAGAAAAAAGAAAG
1 GAAAA-AAAAAAGAAAA
91324658 GAAAAA
1 GAAAAA
91324664 TTAGGGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAAAGAAAA
Found at i:91329361 original size:13 final size:13
Alignment explanation
Indices: 91329343--91329368 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91329333 GATAGACCAT
91329343 TCTGTTAGTATAC
1 TCTGTTAGTATAC
91329356 TCTGTTAGTATAC
1 TCTGTTAGTATAC
91329369 ACTAGTAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
TCTGTTAGTATAC
Found at i:91330108 original size:98 final size:98
Alignment explanation
Indices: 91329937--91330126 Score: 240
Period size: 98 Copynumber: 1.9 Consensus size: 98
91329927 CGACATCCAG
*
91329937 ATATGAAGAGCCATTGGTAGAGCATGTTAGTTGCAAACCAAAATGGCACATATGCTAGGCCACTA
1 ATATGAAGAGCCACTGGTAGAGCATGTTAGTTGCAAACCAAAATGGCACATATGCTAGGCCACTA
*
91330002 GTAGGACATGCTAGTTGTTAACCAGGTGGGAGA
66 GTACGACATGCTAGTTGTTAACCAGGTGGGAGA
* * * * ** * *
91330035 ATATGATA-AGCCACTGGTA-AGGCATGTTAGTTGCTAATCAGATTGGCGTATATGTTGGGCCAC
1 ATATGA-AGAGCCACTGGTAGA-GCATGTTAGTTGCAAACCAAAATGGCACATATGCTAGGCCAC
* *
91330098 TGGTACGACATGCTAGTTGTTAACTAGGT
64 TAGTACGACATGCTAGTTGTTAACCAGGT
91330127 TGGCGACCAC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
97 1 0.01
98 76 0.97
99 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (98 bp):
ATATGAAGAGCCACTGGTAGAGCATGTTAGTTGCAAACCAAAATGGCACATATGCTAGGCCACTA
GTACGACATGCTAGTTGTTAACCAGGTGGGAGA
Found at i:91330130 original size:49 final size:49
Alignment explanation
Indices: 91329986--91330132 Score: 143
Period size: 49 Copynumber: 3.0 Consensus size: 49
91329976 AAAATGGCAC
* * * * * *
91329986 ATATGCTAGGCCACTAGTAGGACATGCTAGTTGTTAACCAGGTGGGAGA
1 ATATGATAGGCCACTGGTAAGACATGCTAGTTGTTAACTAGGTTGGCGA
* * * * * *
91330035 ATATGATAAGCCACTGGTAAGGCATGTTAGTTGCTAA-TCAGATTGGCGT
1 ATATGATAGGCCACTGGTAAGACATGCTAGTTGTTAACT-AGGTTGGCGA
* * *
91330084 ATATGTTGGGCCACTGGTACGACATGCTAGTTGTTAACTAGGTTGGCGA
1 ATATGATAGGCCACTGGTAAGACATGCTAGTTGTTAACTAGGTTGGCGA
91330133 CCACTAGTAG
Statistics
Matches: 75, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
49 74 0.99
50 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (49 bp):
ATATGATAGGCCACTGGTAAGACATGCTAGTTGTTAACTAGGTTGGCGA
Found at i:91330450 original size:48 final size:48
Alignment explanation
Indices: 91330370--91330461 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
91330360 AAGAAAGGAT
* *
91330370 TTGAAAAGAGTAAGTTAATATGGCTCTGTATGTGATATATGTTATGTG
1 TTGAAAAGAGTAAGTTAATATGACTCTATATGTGATATATGTTATGTG
* * *
91330418 TTGAAAAGAGTACGTTAATTTGACTCTATATGTGTTATATGTTA
1 TTGAAAAGAGTAAGTTAATATGACTCTATATGTGATATATGTTA
91330462 CATATAATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (48 bp):
TTGAAAAGAGTAAGTTAATATGACTCTATATGTGATATATGTTATGTG
Found at i:91339930 original size:10 final size:10
Alignment explanation
Indices: 91339915--91339955 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
91339905 TATTTACCTA
91339915 TAATTAAACT
1 TAATTAAACT
* *
91339925 TAATTAATCA
1 TAATTAAACT
91339935 TAATT-AA-T
1 TAATTAAACT
91339943 TAATTAAACT
1 TAATTAAACT
91339953 TAA
1 TAA
91339956 ATTAGCTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
8 5 0.20
9 3 0.12
10 17 0.68
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATTAAACT
Found at i:91339955 original size:14 final size:14
Alignment explanation
Indices: 91339915--91339955 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
91339905 TATTTACCTA
91339915 TAATTAAACTTAAT
1 TAATTAAACTTAAT
*
91339929 TAATCATAA-TTAAT
1 TAATTA-AACTTAAT
91339943 TAATTAAACTTAA
1 TAATTAAACTTAA
91339956 ATTAGCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 2 0.09
14 19 0.83
15 2 0.09
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATTAAACTTAAT
Found at i:91339985 original size:21 final size:21
Alignment explanation
Indices: 91339946--91339990 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
91339936 AATTAATTAA
91339946 TTAAACTTAAATTAGCTAAACT
1 TTAAACTTAAATTAGCTAAA-T
* *
91339968 TTAAGCTT-AATTATCTAAAT
1 TTAAACTTAAATTAGCTAAAT
91339988 TTA
1 TTA
91339991 GTGGATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 10 0.48
22 7 0.33
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.42
Consensus pattern (21 bp):
TTAAACTTAAATTAGCTAAAT
Found at i:91344249 original size:26 final size:24
Alignment explanation
Indices: 91344202--91344256 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
91344192 TTTCTAGAAT
* * *
91344202 CTAAAACAATATTATTCTTAAATAAA
1 CTAAAACAATAATATCCCT-AA-AAA
*
91344228 CTAAAACAATAATGTCCCTAAAAA
1 CTAAAACAATAATATCCCTAAAAA
91344252 CTAAA
1 CTAAA
91344257 GGTACATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 8 0.32
25 2 0.08
26 15 0.60
ACGTcount: A:0.55, C:0.16, G:0.02, T:0.27
Consensus pattern (24 bp):
CTAAAACAATAATATCCCTAAAAA
Found at i:91345372 original size:22 final size:21
Alignment explanation
Indices: 91345337--91345412 Score: 59
Period size: 22 Copynumber: 3.7 Consensus size: 21
91345327 AAAAGGTATC
* * *
91345337 TACAAATTAAATCTCTACGAT
1 TACAAATCATATCTCTAAGAT
91345358 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
91345381 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
91345400 TGC-AATCATATCT
1 TACAAATCATATCT
91345413 AAGATTGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 9 0.20
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:91345397 original size:19 final size:19
Alignment explanation
Indices: 91345373--91345463 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
91345363 AATCATATCT
91345373 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
91345392 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
91345410 TCTAAGATTG--TATAATA
1 TCTAAGATTGCATATCATA
91345427 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
91345446 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
91345464 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 16 0.24
19 36 0.54
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:91345433 original size:35 final size:37
Alignment explanation
Indices: 91345366--91345460 Score: 135
Period size: 35 Copynumber: 2.6 Consensus size: 37
91345356 ATTACAAAAT
*
91345366 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATAATATCTAAGATTG
91345402 CA-ATCATATCTAAGATTG-TATAATATCTAAGATTG
1 CATATCATATCTAAGATTGATATAATATCTAAGATTG
91345437 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTG-ATAT
91345461 CATTGAAGAT
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.40
36 19 0.36
37 10 0.19
38 3 0.06
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATAATATCTAAGATTG
Found at i:91345620 original size:21 final size:20
Alignment explanation
Indices: 91345582--91345621 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
91345572 TTGGACTTCG
**
91345582 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
91345602 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
91345622 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:91345869 original size:45 final size:45
Alignment explanation
Indices: 91345814--91346087 Score: 259
Period size: 45 Copynumber: 6.1 Consensus size: 45
91345804 GGAAGGCGAT
* * * *
91345814 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
91345859 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * *
91345904 ATCTGTT-TCTTCAATCTACTCCCTGTCTAATACAGAGATACTAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * *
91345948 ATCTGTTAACTCCGATTTGCTCCCTGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * * *
91345993 ATCTATCATCTTGGATCTGCT--TCGATGTAA-ACAAATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
*
91346038 ATCTGCTATATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
91346085 ATC
1 ATC
91346088 ATCTTGGATC
Statistics
Matches: 182, Mismatches: 38, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
43 5 0.03
44 43 0.24
45 102 0.56
46 1 0.01
47 20 0.11
48 5 0.03
49 6 0.03
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:91345950 original size:89 final size:89
Alignment explanation
Indices: 91345828--91345996 Score: 239
Period size: 89 Copynumber: 1.9 Consensus size: 89
91345818 GCTATCTTTG
* * * * *
91345828 ATCTGCTCCCCGTCTAATATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
1 ATCTACTCCCCGTCTAATACAGAGACACCAAATCTGTTAACTCCGATCTGCTCCCCGTCTAATAC
91345893 AGAGACGCCAAATCTGTTTCTTCA
66 AGAGACGCCAAATCTGTTTCTTCA
* * * * *
91345917 ATCTACTCCCTGTCTAATACAGAGATACTAAATCTGTTAACTCCGATTTGCTCCCTGTCTAATAC
1 ATCTACTCCCCGTCTAATACAGAGACACCAAATCTGTTAACTCCGATCTGCTCCCCGTCTAATAC
*
91345982 AGAGATGCCAAATCT
66 AGAGACGCCAAATCT
91345997 ATCATCTTGG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (89 bp):
ATCTACTCCCCGTCTAATACAGAGACACCAAATCTGTTAACTCCGATCTGCTCCCCGTCTAATAC
AGAGACGCCAAATCTGTTTCTTCA
Found at i:91346159 original size:78 final size:78
Alignment explanation
Indices: 91346030--91346555 Score: 802
Period size: 78 Copynumber: 6.7 Consensus size: 78
91346020 TAAACAAATG
* * *
91346030 AAGGTCAGATCTGCTATATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
91346095 ATCTGCTTCAATA
66 ATCTGCTTCAATA
* * * *
91346108 AAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTTTAATACAGAGATGCCAAATCATCTTG
1 AAGGT-CAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
*
91346172 GATCTGCTTCAATG
65 GATCTGCTTCAATA
* *
91346186 AAGGTTAGATCTGCTGTGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
91346251 ATCTGCTTCAATA
66 ATCTGCTTCAATA
* *
91346264 AAGATCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGA
1 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
*
91346329 ATCTGCTTCAATG
66 ATCTGCTTCAATA
* *
91346342 AAGGTCAAATCTGCTGTGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
* * *
91346407 ATTTGCATCAATG
66 ATCTGCTTCAATA
*
91346420 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCTCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
91346485 ATCTGCTTCAATA
66 ATCTGCTTCAATA
* * * * * **
91346498 AAGGTCAGATCTGCTATGTCTTCGATCTGTTCTCCGTCGATTATGGAGATGCCAAATC
1 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
91346556 TGTTTCTTCG
Statistics
Matches: 410, Mismatches: 36, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
77 1 0.00
78 407 0.99
79 2 0.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
ATCTGCTTCAATA
Found at i:91346839 original size:40 final size:40
Alignment explanation
Indices: 91346780--91346857 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
91346770 CAAATCTGTT
* * * *
91346780 TCTTCGATTTATTCTCTGACAATACAGAGATGCCAAATCA
1 TCTTCGATCTACTCCCTGACAATACAGAGACGCCAAATCA
91346820 TCTTCGATCTACTCCCTGACAATACAGAGACGCCAAAT
1 TCTTCGATCTACTCCCTGACAATACAGAGACGCCAAAT
91346858 TTGCTATCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (40 bp):
TCTTCGATCTACTCCCTGACAATACAGAGACGCCAAATCA
Found at i:91346991 original size:224 final size:219
Alignment explanation
Indices: 91346497--91347056 Score: 734
Period size: 224 Copynumber: 2.5 Consensus size: 219
91346487 CTGCTTCAAT
* * * *
91346497 AAAGGTCAGATCTGCTATGTCTTCGATCTGTTCTCCGTCGATTATGGAGATGCCAAATCTGTTTC
1 AAAGGTTAGATCTGTTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* ** * *
91346562 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGTTTCAGCGTAAACACG
66 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCT-ACTCACCGCAAACACG
* * * *
91346627 TGAAAGCCAAATCTGTTATATCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTG
130 AGAAAGCCAAATCTGTGATATCTTCAATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTG
*
91346692 AATCTACTTCGATGTGAAGACATCC
195 AATCTACTTCGATGTGAAAACATCC
* * *
91346717 GAAGGTTAGATCTGTTATGTCTTTGATCTGCTCTCCGTCAAATATGGAGATGCCAAATCTGTTTC
1 AAAGGTTAGATCTGTTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* *
91346782 TTCGATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTCGATCTACTC-CCTGACAATACA
66 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTACTCACC-G-CAA-ACA
* * *
91346846 -GAG-ACGCCAAAT-T-TGCTATCTTTAATCTGCTCCTTGTAAACGCAAGGATGCCAAATTTGCT
128 CGAGAAAGCCAAATCTGTGATATCTTCAATCTGCTCCTTGTAAACGCAAGGATGCCAAA--T-C-
* **
91346907 ATCTTTGATCTGCTACTTCGATGTGAAAATGTCC
189 ATC-TTGA-AT-CTACTTCGATGTGAAAACATCC
91346941 AAAGGTTAGATCTGTTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
1 AAAGGTTAGATCTGTTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
** *
91347006 TTCGATTTGTTCTCTGACAATACAGAGATGTTAAATCATCTTGGATCTACT
66 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTACT
91347057 TCAGCGTAAA
Statistics
Matches: 298, Mismatches: 32, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
217 37 0.12
218 2 0.01
219 12 0.04
220 108 0.36
221 6 0.02
222 4 0.01
223 1 0.00
224 128 0.43
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (219 bp):
AAAGGTTAGATCTGTTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTACTCACCGCAAACACGA
GAAAGCCAAATCTGTGATATCTTCAATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGA
ATCTACTTCGATGTGAAAACATCC
Found at i:91355587 original size:23 final size:22
Alignment explanation
Indices: 91355559--91355603 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
91355549 AAATTAAATA
91355559 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
91355582 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
91355604 AAGATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:91355606 original size:19 final size:19
Alignment explanation
Indices: 91355582--91355654 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
91355572 AATCATATCT
91355582 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
91355601 TCTAAGATT--ATATCATA
1 TCTAAGATTGCATATCATA
91355618 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
91355637 TCTCAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
91355655 TGAAGATTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
17 17 0.33
19 34 0.67
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:91355626 original size:36 final size:37
Alignment explanation
Indices: 91355574--91355654 Score: 123
Period size: 36 Copynumber: 2.2 Consensus size: 37
91355564 GATTACAAAA
91355574 TCATATC-T-TCTAAGATTGCATATCATATCTAAGAT
1 TCATATCATATCTAAGATTGCATATCATATCTAAGAT
*
91355609 T-ATATCATATCTAAGATTGCATATCATATCTCAGAT
1 TCATATCATATCTAAGATTGCATATCATATCTAAGAT
91355645 TGCATATCAT
1 T-CATATCAT
91355655 TGAAGATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
34 5 0.12
35 2 0.05
36 27 0.66
38 7 0.17
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.40
Consensus pattern (37 bp):
TCATATCATATCTAAGATTGCATATCATATCTAAGAT
Found at i:91355661 original size:36 final size:36
Alignment explanation
Indices: 91355585--91355662 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
91355575 CATATCTTCT
*
91355585 AAGATTGCATATCATATCTAAGATTATATCATATCT
1 AAGATTGCATATCATATCTAAGATTATATCATATCG
*
91355621 AAGATTGCATATCATATCTCAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCTAAGATT--ATATCATATCG
91355657 AAGATT
1 AAGATT
91355663 ATATTTCCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 30 0.79
37 1 0.03
38 7 0.18
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (36 bp):
AAGATTGCATATCATATCTAAGATTATATCATATCG
Found at i:91355811 original size:21 final size:20
Alignment explanation
Indices: 91355773--91355812 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
91355763 TTGGACTTCG
**
91355773 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
91355793 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
91355813 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:91365187 original size:5 final size:5
Alignment explanation
Indices: 91365177--91365214 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
91365167 ATTTGTGAAA
*
91365177 AAAAT AAAAT AAAAT AAAAT AAAGAA AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA
91365215 CACACAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:91366118 original size:26 final size:26
Alignment explanation
Indices: 91366089--91366196 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
91366079 TGGTACAAAT
*
91366089 TGATAATGGGTTAGGTAAATGTTCAA
1 TGATAATGGGTTAGGTAAATGTTCCA
** *
91366115 TGATAATGAATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91366141 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91366167 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
91366193 TGAT
1 TGAT
91366197 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:91379085 original size:30 final size:30
Alignment explanation
Indices: 91379049--91379131 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
91379039 ACGGACTCGG
*
91379049 ATACCAAGTTACTCGTCTGAGCTAGAAATT
1 ATACCAAGTTACTCGTCCGAGCTAGAAATT
* * * *
91379079 ATACCAAGCTGCTCGTCCAAG-TTGAAATT
1 ATACCAAGTTACTCGTCCGAGCTAGAAATT
*
91379108 ATACC-AGATTACTTGTCCGAGCTA
1 ATACCAAG-TTACTCGTCCGAGCTA
91379132 AACCTATATC
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
28 2 0.05
29 21 0.51
30 18 0.44
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (30 bp):
ATACCAAGTTACTCGTCCGAGCTAGAAATT
Found at i:91380761 original size:36 final size:36
Alignment explanation
Indices: 91380714--91380786 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
91380704 TAATTGACTT
*
91380714 GGTCCAAATTTTCTGTACCTAAAGCCAACCAAACTC
1 GGTCCAAATTTTCTGTACCTAAAACCAACCAAACTC
91380750 GGTCCAAATTTTCTGTACCTAAAACCAACCAAACTC
1 GGTCCAAATTTTCTGTACCTAAAACCAACCAAACTC
91380786 G
1 G
91380787 CCCTATCTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.30, G:0.11, T:0.25
Consensus pattern (36 bp):
GGTCCAAATTTTCTGTACCTAAAACCAACCAAACTC
Found at i:91383081 original size:26 final size:26
Alignment explanation
Indices: 91383052--91383159 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
91383042 TGGTACAAAT
91383052 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
91383078 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91383104 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91383130 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91383156 TGAT
1 TGAT
91383160 GGGCATTTAA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:91388482 original size:20 final size:20
Alignment explanation
Indices: 91388457--91388498 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
91388447 GCAAACTACT
91388457 AACATTCCTGAGTTCCTTCC
1 AACATTCCTGAGTTCCTTCC
91388477 AACATTCCTGAGTTCCTTCC
1 AACATTCCTGAGTTCCTTCC
91388497 AA
1 AA
91388499 AAGACCCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.33, G:0.10, T:0.33
Consensus pattern (20 bp):
AACATTCCTGAGTTCCTTCC
Found at i:91394608 original size:28 final size:28
Alignment explanation
Indices: 91394576--91394635 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
91394566 TAACCTACAT
*
91394576 CTCTCATTGGTGGTAGCTCTACTGATGA
1 CTCTCATTGGCGGTAGCTCTACTGATGA
91394604 CTCTCATTGGCGGTAGCTCTACTGATGA
1 CTCTCATTGGCGGTAGCTCTACTGATGA
91394632 CTCT
1 CTCT
91394636 ACAAGCCTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (28 bp):
CTCTCATTGGCGGTAGCTCTACTGATGA
Found at i:91404038 original size:15 final size:15
Alignment explanation
Indices: 91404018--91404047 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
91404008 ATATGTGAAC
91404018 GTTAATCAATACAAA
1 GTTAATCAATACAAA
91404033 GTTAATCAATACAAA
1 GTTAATCAATACAAA
91404048 TATAGCCAGC
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:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (15 bp):
GTTAATCAATACAAA
Found at i:91435245 original size:30 final size:32
Alignment explanation
Indices: 91435211--91435275 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
91435201 AATATTTATA
* *
91435211 TTTTATAATTTTT-AAATAATTAAATTA-AAT
1 TTTTATAATTTTTAAAACAATTAAAATATAAT
*
91435241 TTTTATTATTTTTAAAACAATTAAAATATAAT
1 TTTTATAATTTTTAAAACAATTAAAATATAAT
91435273 TTT
1 TTT
91435276 ATATTTACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 12 0.40
31 12 0.40
32 6 0.20
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (32 bp):
TTTTATAATTTTTAAAACAATTAAAATATAAT
Found at i:91435281 original size:30 final size:28
Alignment explanation
Indices: 91435210--91435281 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 28
91435200 TAATATTTAT
* *
91435210 ATTTTATAATTTTTAAATAATTAAATTAA
1 ATTTTAT-ATTTTTAAACAATTAAAATAA
91435239 ATTTTTATTATTTTTAAAACAATTAAAATATA
1 A-TTTTA-TATTTTT-AAACAATTAAAATA-A
91435271 ATTTTATATTT
1 ATTTTATATTT
91435282 ACAAATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
29 1 0.03
30 16 0.43
31 18 0.49
32 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (28 bp):
ATTTTATATTTTTAAACAATTAAAATAA
Found at i:91435303 original size:16 final size:18
Alignment explanation
Indices: 91435279--91435315 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
91435269 TAATTTTATA
91435279 TTTACAAA-TTT-AAATT
1 TTTACAAATTTTAAAATT
*
91435295 TTTATAAATTTTAAAATT
1 TTTACAAATTTTAAAATT
91435313 TTT
1 TTT
91435316 GAATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTACAAATTTTAAAATT
Found at i:91435852 original size:17 final size:17
Alignment explanation
Indices: 91435805--91435852 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
91435795 GTATTTTCAA
*
91435805 TAAAAATATAAAAAATTT
1 TAAAAAT-TAAAAAATCT
91435823 TGAAAAA-TAAAAAATCT
1 T-AAAAATTAAAAAATCT
91435840 TAAAAATTTAAAA
1 TAAAAA-TTAAAA
91435853 TAAAATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 10 0.38
18 6 0.23
19 5 0.19
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (17 bp):
TAAAAATTAAAAAATCT
Found at i:91446481 original size:15 final size:15
Alignment explanation
Indices: 91446461--91446491 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
91446451 AAGCTATTCA
91446461 AGCAAGTAATTGTCG
1 AGCAAGTAATTGTCG
91446476 AGCAAGTAATTGTCG
1 AGCAAGTAATTGTCG
91446491 A
1 A
91446492 ACCAAGCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (15 bp):
AGCAAGTAATTGTCG
Found at i:91459123 original size:21 final size:23
Alignment explanation
Indices: 91459088--91459130 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
91459078 GGGAAGGTGA
91459088 ATAAAGAATTTTGGG-TTTTTCC
1 ATAAAGAATTTTGGGCTTTTTCC
*
91459110 ATAAAGGA-TTTGGGCTTTTTC
1 ATAAAGAATTTTGGGCTTTTTC
91459131 AGGAATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (23 bp):
ATAAAGAATTTTGGGCTTTTTCC
Found at i:91459960 original size:16 final size:18
Alignment explanation
Indices: 91459925--91459958 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
91459915 TTCTCCATCT
*
91459925 TGAAGTATTTTTTGAAAA
1 TGAAGTATTTTCTGAAAA
91459943 TGAA-TATTTTCTGAAA
1 TGAAGTATTTTCTGAAA
91459959 TGTTTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (18 bp):
TGAAGTATTTTCTGAAAA
Found at i:91467334 original size:90 final size:88
Alignment explanation
Indices: 91467148--91467357 Score: 264
Period size: 90 Copynumber: 2.3 Consensus size: 88
91467138 TAAATCTTTA
* * * *
91467148 TTTTTTTGCACTCAATCGGGTACTTGAATTTTCAAAATGCATAAAAAAGACTCTCAAACTTTTTC
1 TTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAAACCCTCAAACTTTTTC
* *
91467213 AAAAAAAGCAATTAAGCCCCTACT
66 AAAAAAAACAATGAAGCCCCTA-T
*
91467237 TTGTTTTTGCACTCAATTGGGTACTT-AACTTTCAAAATGCATAAAAAAAACCCTTAAACTTTTT
1 TT-TTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAAACCCTCAAACTTTTT
91467301 CAAAAAAAAAAAAACAATGAAG-CCCT-T
65 C-----AAAAAAAACAATGAAGCCCCTAT
*
91467328 TTTTTTTGCACTCAATTGGGTATTTGAACT
1 TTTTTTTGCACTCAATTGGGTACTTGAACT
91467358 GTGAAATACA
Statistics
Matches: 106, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
89 37 0.35
90 44 0.42
91 7 0.07
93 4 0.04
94 14 0.13
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.34
Consensus pattern (88 bp):
TTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAAACCCTCAAACTTTTTC
AAAAAAAACAATGAAGCCCCTAT
Found at i:91467555 original size:19 final size:19
Alignment explanation
Indices: 91467502--91467574 Score: 55
Period size: 20 Copynumber: 3.9 Consensus size: 19
91467492 ATAAATATCA
91467502 ATAAAAT-TTATAAAAAAAAT
1 ATAAAATATTAT--AAAAAAT
* * *
91467522 ATTAACTTTTAATAAAAAAT
1 ATAAAATATT-ATAAAAAAT
*
91467542 ATAAAATATTAT-AAAATT
1 ATAAAATATTATAAAAAAT
91467560 AT-AAA-ATTATAAAAA
1 ATAAAATATTATAAAAA
91467575 TCATAAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 5 0.11
17 7 0.16
18 7 0.16
19 2 0.05
20 19 0.43
21 2 0.05
22 2 0.05
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAAATATTATAAAAAAT
Found at i:91467574 original size:17 final size:16
Alignment explanation
Indices: 91467533--91467582 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
91467523 TTAACTTTTA
*
91467533 ATAAAAAATATAAAAT
1 ATAAAAATTATAAAAT
91467549 ATTATAAAATTATAAAATT
1 A-TA-AAAATTATAAAA-T
*
91467568 ATAAAAATCATAAAA
1 ATAAAAATTATAAAA
91467583 AATTGTAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 1 0.03
17 13 0.45
18 13 0.45
19 2 0.07
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAAAATTATAAAAT
Found at i:91467582 original size:8 final size:8
Alignment explanation
Indices: 91467549--91467573 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
91467539 AATATAAAAT
91467549 ATTATAAA
1 ATTATAAA
91467557 ATTATAAA
1 ATTATAAA
91467565 ATTATAAA
1 ATTATAAA
91467573 A
1 A
91467574 ATCATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTATAAA
Found at i:91467612 original size:9 final size:9
Alignment explanation
Indices: 91467533--91467612 Score: 65
Period size: 9 Copynumber: 8.8 Consensus size: 9
91467523 TTAACTTTTA
*
91467533 ATAAAAAAT
1 ATAAAAATT
91467542 ATAAAATATT
1 ATAAAA-ATT
91467552 AT-AAAATT
1 ATAAAAATT
91467560 AT-AAAATT
1 ATAAAAATT
*
91467568 ATAAAAATC
1 ATAAAAATT
91467577 ATAAAAAATT
1 AT-AAAAATT
* **
91467587 GTAAACTTTT
1 ATAAA-AATT
*
91467597 GTAAAAATT
1 ATAAAAATT
91467606 ATAAAAA
1 ATAAAAA
91467613 AAATTTATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
8 13 0.22
9 27 0.47
10 18 0.31
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:91467613 original size:10 final size:10
Alignment explanation
Indices: 91467533--91467613 Score: 50
Period size: 10 Copynumber: 8.8 Consensus size: 10
91467523 TTAACTTTTA
91467533 ATAAAAAA-T
1 ATAAAAAATT
*
91467542 ATAAAATATT
1 ATAAAAAATT
91467552 AT--AAAATT
1 ATAAAAAATT
91467560 AT--AAAATT
1 ATAAAAAATT
*
91467568 AT-AAAAATC
1 ATAAAAAATT
91467577 ATAAAAAATT
1 ATAAAAAATT
* ***
91467587 GTAAACTTTT
1 ATAAAAAATT
*
91467597 GT-AAAAATT
1 ATAAAAAATT
91467606 ATAAAAAA
1 ATAAAAAA
91467614 AATTTATTAA
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
8 15 0.27
9 19 0.34
10 22 0.39
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:91467823 original size:10 final size:10
Alignment explanation
Indices: 91467804--91467968 Score: 55
Period size: 10 Copynumber: 17.2 Consensus size: 10
91467794 TTTTAGTACG
91467804 ATAA-TTTTT
1 ATAATTTTTT
91467813 ATAATTTTTT
1 ATAATTTTTT
* *
91467823 ACAA-ATTTT
1 ATAATTTTTT
*
91467832 A-CATTTCTTT
1 ATAATTT-TTT
*
91467842 A-CATTTTTT
1 ATAATTTTTT
91467851 ATAATTTTCTT
1 ATAATTTT-TT
* *
91467862 ATGA--CTTT
1 ATAATTTTTT
**
91467870 ATAAAATTTT
1 ATAATTTTTT
91467880 ATAATTTTTT
1 ATAATTTTTT
* *
91467890 CT-ATATTTCT
1 ATAAT-TTTTT
*
91467900 AT-A-TATTT
1 ATAATTTTTT
91467908 ATAATTTTTT
1 ATAATTTTTT
**
91467918 ACGA-TTTTT
1 ATAATTTTTT
**
91467927 ATAACATTTT
1 ATAATTTTTT
**
91467937 ATAATTTTAA
1 ATAATTTTTT
91467947 AT-ATTTTTT
1 ATAATTTTTT
*
91467956 AAATATTTTTT
1 ATA-ATTTTTT
91467967 AT
1 AT
91467969 TAAAATTTAA
Statistics
Matches: 113, Mismatches: 30, Indels: 24
0.68 0.18 0.14
Matches are distributed among these distances:
8 11 0.10
9 31 0.27
10 58 0.51
11 13 0.12
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:91467881 original size:29 final size:27
Alignment explanation
Indices: 91467847--91467944 Score: 83
Period size: 29 Copynumber: 3.4 Consensus size: 27
91467837 TCTTTACATT
91467847 TTTTATAATTTTCTTATGACTTTATAAAA
1 TTTTATAATTTT-TTATGA-TTTATAAAA
* *
91467876 TTTTATAATTTTTTCTAT-ATTTCT-ATA
1 TTTTATAA-TTTTT-TATGATTTATAAAA
* *
91467903 TATTTATAATTTTTTACGATTTTTATAACA
1 T-TTTATAATTTTTTATGA--TTTATAAAA
91467933 TTTTATAATTTT
1 TTTTATAATTTT
91467945 AAATATTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
26 2 0.04
27 9 0.16
28 11 0.19
29 25 0.44
30 10 0.18
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTATAATTTTTTATGATTTATAAAA
Found at i:91467943 original size:19 final size:19
Alignment explanation
Indices: 91467804--91467953 Score: 69
Period size: 19 Copynumber: 8.0 Consensus size: 19
91467794 TTTTAGTACG
*
91467804 ATAATTTTTATAATTTTTT
1 ATAATTTTTATAATATTTT
* * * *
91467823 ACAAATTTTA-CATTTCTTT
1 ATAATTTTTATAATAT-TTT
* * *
91467842 ACATTTTTTATAATTTTCTT
1 ATAATTTTTATAATATT-TT
* * *
91467862 ATGA-CTTTATAAAATTTT
1 ATAATTTTTATAATATTTT
*
91467880 ATAATTTTT-TCTATATTTCT
1 ATAATTTTTAT-AATATTT-T
* *
91467900 AT-ATATTTATAATTTTTT
1 ATAATTTTTATAATATTTT
** *
91467918 ACGATTTTTATAACATTTT
1 ATAATTTTTATAATATTTT
91467937 ATAA-TTTTA-AATATTTT
1 ATAATTTTTATAATATTTT
91467954 TTAAATATTT
Statistics
Matches: 97, Mismatches: 26, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
17 7 0.07
18 17 0.18
19 62 0.64
20 11 0.11
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (19 bp):
ATAATTTTTATAATATTTT
Found at i:91467955 original size:11 final size:11
Alignment explanation
Indices: 91467941--91467967 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
91467931 CATTTTATAA
91467941 TTTTAAATATT
1 TTTTAAATATT
91467952 TTTTAAATATT
1 TTTTAAATATT
91467963 TTTTA
1 TTTTA
91467968 TTAAAATTTA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTAAATATT
Found at i:91470142 original size:23 final size:23
Alignment explanation
Indices: 91470116--91470159 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
91470106 GTAAATAGTA
91470116 AAAATA-AATAAAGTATAACAAGC
1 AAAATATAAT-AAGTATAACAAGC
*
91470139 AAAATATAGTAAGTATAACAA
1 AAAATATAATAAGTATAACAA
91470160 TCTATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.64, C:0.07, G:0.09, T:0.20
Consensus pattern (23 bp):
AAAATATAATAAGTATAACAAGC
Found at i:91472035 original size:133 final size:133
Alignment explanation
Indices: 91471794--91472274 Score: 734
Period size: 133 Copynumber: 3.6 Consensus size: 133
91471784 GATCTGCTGT
* *
91471794 AATTTGATCTGCTTTACTCCTGCTCAGTAAAGATAAGATCTAGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCC
* * *
91471859 TGCTTAGTGAAGATAAGGCCGGTGGCTGAAATCTGCTCCATTGCCGATACATGAAGATAAGA-TT
64 TACTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGAAGATAAGACTT
91471923 -CACTAA
129 GC-C-AA
* * *
91471929 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTA
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTA
* *
91471994 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCTATTGCCGATACATGGAGATAAGACTTGC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGAAGATAAGACTTGC
91472059 CAA
131 CAA
* * *
91472062 AATTTGATCTGCTTCACTTCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTA
*
91472127 TTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACAT-AGAGATAAGACTTG
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGA-AGATAAGACTTG
91472191 CCAA
130 CCAA
* * * *
91472195 ATTTTGATCTGCTTCACTTCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCTACTCCTA
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTA
91472260 CTCAGTGAAGATAAG
66 CTCAGTGAAGATAAG
91472275 ACTGATGATA
Statistics
Matches: 320, Mismatches: 23, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
133 276 0.86
134 3 0.01
135 41 0.13
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (133 bp):
AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTA
CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGAAGATAAGACTTGC
CAA
Found at i:91479874 original size:21 final size:21
Alignment explanation
Indices: 91479844--91479887 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
91479834 CTGGCTCATT
91479844 ATGTTGTTCTGTG-ACTCCAGC
1 ATGTTGTTCTG-GAACTCCAGC
*
91479865 ATGTTTTTCTGGAACTCCAGC
1 ATGTTGTTCTGGAACTCCAGC
91479886 AT
1 AT
91479888 TTGATCCCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (21 bp):
ATGTTGTTCTGGAACTCCAGC
Found at i:91483413 original size:164 final size:164
Alignment explanation
Indices: 91483225--91483552 Score: 647
Period size: 164 Copynumber: 2.0 Consensus size: 164
91483215 ATATAAATTG
*
91483225 GATAAAATGTAAAGGCCCACTCATTTCGAAGGAGAAATATGCCATACCCAGTAAGTTAGGGTCTA
1 GATAAAATGTAAAGACCCACTCATTTCGAAGGAGAAATATGCCATACCCAGTAAGTTAGGGTCTA
91483290 ACACCTCAGACCTTCGGAACTAAGTTAGTCTTTGATTTTTTTAAAATTCATGTATGAAGGTTCAA
66 ACACCTCAGACCTTCGGAACTAAGTTAGTCTTTGATTTTTTTAAAATTCATGTATGAAGGTTCAA
91483355 GAGAAGGGTATTTGGTCATTCGGGACTCATGAAA
131 GAGAAGGGTATTTGGTCATTCGGGACTCATGAAA
91483389 GATAAAATGTAAAGACCCACTCATTTCGAAGGAGAAATATGCCATACCCAGTAAGTTAGGGTCTA
1 GATAAAATGTAAAGACCCACTCATTTCGAAGGAGAAATATGCCATACCCAGTAAGTTAGGGTCTA
91483454 ACACCTCAGACCTTCGGAACTAAGTTAGTCTTTGATTTTTTTAAAATTCATGTATGAAGGTTCAA
66 ACACCTCAGACCTTCGGAACTAAGTTAGTCTTTGATTTTTTTAAAATTCATGTATGAAGGTTCAA
91483519 GAGAAGGGTATTTGGTCATTCGGGACTCATGAAA
131 GAGAAGGGTATTTGGTCATTCGGGACTCATGAAA
91483553 AATTCGAACT
Statistics
Matches: 163, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
164 163 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (164 bp):
GATAAAATGTAAAGACCCACTCATTTCGAAGGAGAAATATGCCATACCCAGTAAGTTAGGGTCTA
ACACCTCAGACCTTCGGAACTAAGTTAGTCTTTGATTTTTTTAAAATTCATGTATGAAGGTTCAA
GAGAAGGGTATTTGGTCATTCGGGACTCATGAAA
Found at i:91485304 original size:19 final size:19
Alignment explanation
Indices: 91485257--91485297 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
91485247 TATTTTGTTA
91485257 TTTTATTTTTATTTCATCT
1 TTTTATTTTTATTTCATCT
*
91485276 TTTTATTTTTGTTTCATCT
1 TTTTATTTTTATTTCATCT
91485295 TTT
1 TTT
91485298 ACTTTTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTATTTTTATTTCATCT
Found at i:91502363 original size:22 final size:22
Alignment explanation
Indices: 91502338--91502384 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
91502328 TCCACACCCC
*
91502338 ACCTCGTGCCGCGCCACCGTCG
1 ACCTCGTGCCGCACCACCGTCG
*
91502360 ACCTCGTTCCGCACCACCGTCG
1 ACCTCGTGCCGCACCACCGTCG
91502382 ACC
1 ACC
91502385 GCGCGCCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.51, G:0.21, T:0.15
Consensus pattern (22 bp):
ACCTCGTGCCGCACCACCGTCG
Found at i:91504805 original size:10 final size:10
Alignment explanation
Indices: 91504792--91504817 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
91504782 CATAAAATTA
91504792 AAAAAAAAAG
1 AAAAAAAAAG
91504802 AAAAAAAAAG
1 AAAAAAAAAG
91504812 AAAAAA
1 AAAAAA
91504818 TAATACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:91505471 original size:17 final size:16
Alignment explanation
Indices: 91505423--91505477 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
91505413 TCGGAAATTC
*
91505423 TATTTTAAGTTTAT-T
1 TATTTTAATTTTATAT
*
91505438 TATTTTTAATTAT-TAT
1 TA-TTTTAATTTTATAT
91505454 TATTTTAGATTTTATAT
1 TATTTTA-ATTTTATAT
91505471 TAATTTT
1 T-ATTTT
91505478 CTTAAGCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 8 0.25
16 15 0.47
17 4 0.12
18 5 0.16
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
TATTTTAATTTTATAT
Found at i:91506404 original size:19 final size:19
Alignment explanation
Indices: 91506357--91506396 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
91506347 TATTTTGTTA
91506357 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
91506376 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
91506395 TT
1 TT
91506397 ACTTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:91512916 original size:48 final size:48
Alignment explanation
Indices: 91512845--91512939 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
91512835 GGGTTCATTA
91512845 CTACTACTCTTACTACGGGATGCTTACCTAGCCAACATTTAGATCTAG
1 CTACTACTCTTACTACGGGATGCTTACCTAGCCAACATTTAGATCTAG
91512893 CTACTACTCTTACTACGGGATGCTTACCTAGCCAACATTTAGATCTA
1 CTACTACTCTTACTACGGGATGCTTACCTAGCCAACATTTAGATCTA
91512940 ACTCTACCCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (48 bp):
CTACTACTCTTACTACGGGATGCTTACCTAGCCAACATTTAGATCTAG
Found at i:91513886 original size:11 final size:11
Alignment explanation
Indices: 91513870--91513896 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
91513860 TTTTTTATCG
91513870 TCTTCTCTACT
1 TCTTCTCTACT
91513881 TCTTCTCTACT
1 TCTTCTCTACT
91513892 TCTTC
1 TCTTC
91513897 ACCTAGACCT
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:0.37, G:0.00, T:0.56
Consensus pattern (11 bp):
TCTTCTCTACT
Found at i:91516439 original size:59 final size:59
Alignment explanation
Indices: 91516347--91516467 Score: 161
Period size: 59 Copynumber: 2.1 Consensus size: 59
91516337 GCAACTCCGA
* * * * * * *
91516347 AACAGCTCGCGGACTTATGCTCCCAGCTGATGATTAAAGGTTAGATGAGTTAAGCTCAC
1 AACAGCTCACAGACCTACGCTCCCAACTGATGATTAAAGGCTAGATGAGTAAAGCTCAC
**
91516406 AACAGCTCACAGACCTACGCTCCCAACTGATGATTAAAGGCTATCTGAGTAAAGCTCAC
1 AACAGCTCACAGACCTACGCTCCCAACTGATGATTAAAGGCTAGATGAGTAAAGCTCAC
91516465 AAC
1 AAC
91516468 CTTCAGTTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (59 bp):
AACAGCTCACAGACCTACGCTCCCAACTGATGATTAAAGGCTAGATGAGTAAAGCTCAC
Found at i:91516526 original size:163 final size:163
Alignment explanation
Indices: 91516270--91516566 Score: 461
Period size: 163 Copynumber: 1.8 Consensus size: 163
91516260 AGGTTGCAGT
* * * *
91516270 TGATGATTGAAGGTTAGCTAAGTTAAGCTCACAACTTCCAGTTATTTGAGTTAGCTGAGTTAAGC
1 TGATGATTAAAGGCTAGCTAAGTAAAGCTCACAACTTCCAGTTATTTGAGTTAACTGAGTTAAGC
* * *
91516335 TTGCAACTCCGAAACAGCTCGCGGACTTATGCTCCCAGCTGATGATTAAAGGTTAGATGAGTTAA
66 TCGCAACTCCAAAACAGCTCGCGGACTTACGCTCCCAGCTGATGATTAAAGGTTAGATGAGTTAA
91516400 GCTCACAACAGCTCACAGACCTACGCTCCCAAC
131 GCTCACAACAGCTCACAGACCTACGCTCCCAAC
* *
91516433 TGATGATTAAAGGCTATCTGAGTAAAGCTCACAACCTT-CAGTTATTTGAGTTAACTGAGTTAAG
1 TGATGATTAAAGGCTAGCTAAGTAAAGCTCACAA-CTTCCAGTTATTTGAGTTAACTGAGTTAAG
* * * *
91516497 CTCGCAACTCCAAAATAGCTCGTGGACTTACGCTCCTAGCTGATGATTAAAGGTTAGCTGAGTTA
65 CTCGCAACTCCAAAACAGCTCGCGGACTTACGCTCCCAGCTGATGATTAAAGGTTAGATGAGTTA
91516562 AGCTC
130 AGCTC
91516567 GCAAACTCCA
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
163 117 0.98
164 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (163 bp):
TGATGATTAAAGGCTAGCTAAGTAAAGCTCACAACTTCCAGTTATTTGAGTTAACTGAGTTAAGC
TCGCAACTCCAAAACAGCTCGCGGACTTACGCTCCCAGCTGATGATTAAAGGTTAGATGAGTTAA
GCTCACAACAGCTCACAGACCTACGCTCCCAAC
Found at i:91516589 original size:104 final size:104
Alignment explanation
Indices: 91516417--91516900 Score: 693
Period size: 104 Copynumber: 4.7 Consensus size: 104
91516407 ACAGCTCACA
* * * * * *
91516417 GACCTACGCTCCCAACTGATGATTAAAGGCTATCTGAGTAAAGCTCACAACCTTCAGTTATTTGA
1 GACCTACGCTCCCAGCTGATGATTAAAGGTTAGCTGAGTTAAGCTCGCAACCTCCAGTTATTTGA
91516482 GTTAACTGAGTTAAGCTCGCAACTCCAAAATAGCTCGTG
66 GTTAACTGAGTTAAGCTCGCAACTCCAAAATAGCTCGTG
* * *
91516521 GACTTACGCTCCTAGCTGATGATTAAAGGTTAGCTGAGTTAAGCTCGCAAACTCCAGTTATTTGA
1 GACCTACGCTCCCAGCTGATGATTAAAGGTTAGCTGAGTTAAGCTCGCAACCTCCAGTTATTTGA
* *
91516586 GTTAGCTAAGTTAAGCTCGCAACTCCAAAATAGCTCGTG
66 GTTAACTGAGTTAAGCTCGCAACTCCAAAATAGCTCGTG
*
91516625 GACCTACGCTTCCAGCTGATGATTAAAGGTTAGCTGAGTTAAGCTCGCAACCTCCAGTTATTTGA
1 GACCTACGCTCCCAGCTGATGATTAAAGGTTAGCTGAGTTAAGCTCGCAACCTCCAGTTATTTGA
* * *
91516690 GTTACCTGAGTTAAGCTCGCAACTTCGAAATAGCTCGTG
66 GTTAACTGAGTTAAGCTCGCAACTCCAAAATAGCTCGTG
* * * *
91516729 AACCTACGCTCCCAGCTAATAATTAAAGGTTAGCTGAGTTAAGCTCAG-AACCTCTAGTTATTTG
1 GACCTACGCTCCCAGCTGATGATTAAAGGTTAGCTGAGTTAAGCTC-GCAACCTCCAGTTATTTG
* * * *
91516793 AGTTAACTGAGTTAAGCTTGCAACTTCGAAATAGCTCATG
65 AGTTAACTGAGTTAAGCTCGCAACTCCAAAATAGCTCGTG
* * * * *
91516833 GACCTATGCTCCCAACTAATGATTAAAGGTTAGCTGAGTTAAGCTCGTAACCTCCAATTA-TTGA
1 GACCTACGCTCCCAGCTGATGATTAAAGGTTAGCTGAGTTAAGCTCGCAACCTCCAGTTATTTGA
91516897 GTTA
66 GTTA
91516901 GCTAATTTAA
Statistics
Matches: 345, Mismatches: 33, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
103 9 0.03
104 335 0.97
105 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (104 bp):
GACCTACGCTCCCAGCTGATGATTAAAGGTTAGCTGAGTTAAGCTCGCAACCTCCAGTTATTTGA
GTTAACTGAGTTAAGCTCGCAACTCCAAAATAGCTCGTG
Found at i:91520088 original size:212 final size:206
Alignment explanation
Indices: 91519723--91520260 Score: 895
Period size: 212 Copynumber: 2.6 Consensus size: 206
91519713 TTAATACTTG
91519723 GTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAATATATATA
1 GTTTTATTAGGTATAAGTATTT-AAATTTTGTTTTTGTAATGTGATACATGCGTAAATATATATA
* *
91519788 TAATTATATTAGTGAATTTGCTAATACATACTTCATCCAGGTAAAGTATGCATTATTAAAATTAA
65 TAATCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATT-TTAAAATTAA
*
91519853 ATTAAAATATTAAATAGGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTG
129 ATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTG
91519918 TAATGAGATACAT
194 TAATGAGATACAT
91519931 GTTTTATTAGGTATAAGTATTTAAATTTTTGTTTTTGTAATGTGATACATGCTTGTGTAAATATA
1 GTTTTATTAGGTATAAGTATTTAAA-TTTTGTTTTTGTAATGTGATACATGC----GTAAATATA
* *
91519996 TATATAATCATATTAGTGACTCTGCTAATATATACTTCATCCAGGTAAAGTATGCATTGTTAAAA
61 TATATAATCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATT-TTAAAA
91520061 TTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATT
125 TTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATT
91520126 ATTGTAATGAGATACAT
190 ATTGTAATGAGATACAT
91520143 GTTTTATTAGGTATAAGTATTTAAA-TTT-TTTTTGTAATGTGAT--ATGCGTAAATATATATAT
1 GTTTTATTAGGTATAAGTATTTAAATTTTGTTTTTGTAATGTGATACATGCGTAAATATATATAT
* * * *
91520204 AATCATATTAGTAAATCTGCTAATACATACTTCATCTAGATAAAGTATGTATTTTAA
66 AATCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATTTTAA
91520261 TAACACATGA
Statistics
Matches: 313, Mismatches: 12, Indels: 16
0.92 0.04 0.05
Matches are distributed among these distances:
202 4 0.01
203 61 0.19
207 7 0.02
208 48 0.15
209 15 0.05
210 3 0.01
212 175 0.56
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.41
Consensus pattern (206 bp):
GTTTTATTAGGTATAAGTATTTAAATTTTGTTTTTGTAATGTGATACATGCGTAAATATATATAT
AATCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATTTTAAAATTAAAT
TAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTA
ATGAGATACAT
Found at i:91520392 original size:16 final size:17
Alignment explanation
Indices: 91520353--91520393 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
91520343 CTGTTCCGAA
91520353 AATA-AAAAAAATATTT
1 AATATAAAAAAATATTT
* *
91520369 TATTTAAAAAAA-ATTT
1 AATATAAAAAAATATTT
91520385 AATATAAAA
1 AATATAAAA
91520394 TAATCATTCG
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATATAAAAAAATATTT
Found at i:91523938 original size:23 final size:23
Alignment explanation
Indices: 91523893--91523971 Score: 60
Period size: 22 Copynumber: 3.5 Consensus size: 23
91523883 TTATAAAATT
* *
91523893 TAAAATGTATATTTTAAATATTTTA
1 TAAAAT-TATTTTTTTAA-ATTTTA
91523918 TAAAATTATTTTTTTAAA-TTTA
1 TAAAATTATTTTTTTAAATTTTA
*
91523940 -AATATATTA-TTTTTT-AATATTA
1 TAA-A-ATTATTTTTTTAAATTTTA
91523962 TAAAA-TATTT
1 TAAAATTATTT
91523972 AAAATATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
20 2 0.04
21 7 0.15
22 15 0.33
23 7 0.15
24 9 0.20
25 6 0.13
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (23 bp):
TAAAATTATTTTTTTAAATTTTA
Found at i:91524065 original size:21 final size:22
Alignment explanation
Indices: 91524041--91524089 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 22
91524031 TTAATGCATA
91524041 TTTTAAAATTTTTAAATAT-AT
1 TTTTAAAATTTTTAAATATAAT
91524062 TTTT--AATTTTTAAATATAAAT
1 TTTTAAAATTTTTAAATAT-AAT
91524083 TTTTAAA
1 TTTTAAA
91524090 TTATTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 13 0.54
21 10 0.42
23 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAAAATTTTTAAATATAAT
Found at i:91524105 original size:14 final size:13
Alignment explanation
Indices: 91524068--91524133 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 13
91524058 ATATTTTTAA
* *
91524068 TTTTTAAATATAAA
1 TTTTTAAA-ATTAT
91524082 TTTTT-AAATTAT
1 TTTTTAAAATTAT
91524094 TTTTTAAGAATTGTGAT
1 TTTTTAA-AA-T-T-AT
91524111 TTTTTAAAATTAT
1 TTTTTAAAATTAT
*
91524124 TTTTAAAAAT
1 TTTTTAAAAT
91524134 ATTCAAATGA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
12 8 0.18
13 14 0.32
14 8 0.18
15 2 0.05
16 3 0.07
17 9 0.20
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (13 bp):
TTTTTAAAATTAT
Found at i:91524291 original size:13 final size:13
Alignment explanation
Indices: 91524248--91524295 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 13
91524238 GTTAAAAAAG
91524248 ATTAAAAATATAT
1 ATTAAAAATATAT
91524261 ATTAGAAAATTTATATAT
1 ATT--AAAA---ATATAT
91524279 ATTAAAAATATAT
1 ATTAAAAATATAT
91524292 ATTA
1 ATTA
91524296 TAACTGTCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
13 13 0.43
15 4 0.13
16 4 0.13
18 9 0.30
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (13 bp):
ATTAAAAATATAT
Found at i:91524292 original size:15 final size:16
Alignment explanation
Indices: 91524251--91524293 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
91524241 AAAAAAGATT
91524251 AAAA-ATATATATTAG
1 AAAATATATATATTAG
91524266 AAAATTTATATATATTA-
1 AAAA--TATATATATTAG
91524283 AAAATATATAT
1 AAAATATATAT
91524294 TATAACTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 11 0.44
17 4 0.16
18 10 0.40
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
AAAATATATATATTAG
Found at i:91524297 original size:18 final size:18
Alignment explanation
Indices: 91524255--91524293 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
91524245 AAGATTAAAA
*
91524255 ATATATATTAGAAAATTT
1 ATATATATTAGAAAATAT
91524273 ATATATATTA-AAAATAT
1 ATATATATTAGAAAATAT
91524290 ATAT
1 ATAT
91524294 TATAACTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
ATATATATTAGAAAATAT
Found at i:91524536 original size:17 final size:16
Alignment explanation
Indices: 91524492--91524536 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
91524482 TTTTGTATTT
*
91524492 TTATATTTTATAGTTA
1 TTATATTTAATAGTTA
*
91524508 TTATAATATAATAGTTAA
1 TTAT-ATTTAATAGTT-A
91524526 TTATATTTAAT
1 TTATATTTAAT
91524537 TTATGTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 15 0.62
18 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (16 bp):
TTATATTTAATAGTTA
Found at i:91530964 original size:23 final size:23
Alignment explanation
Indices: 91530883--91530968 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 23
91530873 CTGATCAGTG
*
91530883 TACGACACATAAAGTGCCT-AAA
1 TACGACACACAAAGTGCCTGAAA
* *
91530905 -ACGACACACGAGGTGCCTG--A
1 TACGACACACAAAGTGCCTGAAA
* *
91530925 TACGACACACGAGGTGCCTGAAA
1 TACGACACACAAAGTGCCTGAAA
*
91530948 TACGACACATAAAGTGCCTGA
1 TACGACACACAAAGTGCCTGA
91530969 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
23 19 0.35
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (23 bp):
TACGACACACAAAGTGCCTGAAA
Found at i:91532439 original size:16 final size:17
Alignment explanation
Indices: 91532404--91532439 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
91532394 CCTAATTCTC
91532404 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
91532420 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
91532435 CCTTC
1 CCTTC
91532440 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:91538790 original size:20 final size:22
Alignment explanation
Indices: 91538742--91538815 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 22
91538732 CCTGATCAGT
** *
91538742 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
91538763 AAACGACACACGAGGTGCC-G-
1 ATACGACACACGAGGTGCCTGA
91538783 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
91538806 ATACGACACA
1 ATACGACACA
91538816 TAAAGTGCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 18 0.41
21 16 0.36
23 10 0.23
ACGTcount: A:0.39, C:0.27, G:0.22, T:0.12
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:91538823 original size:23 final size:23
Alignment explanation
Indices: 91538742--91538827 Score: 83
Period size: 23 Copynumber: 4.0 Consensus size: 23
91538732 CCTGATCAGT
*
91538742 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
91538764 A-ACGACACACGAGGTGCC-G--
1 ATACGACACACAAAGTGCCTGAA
* *
91538783 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
91538806 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
91538828 TCAGTAAAGC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
19 1 0.02
20 17 0.32
21 15 0.28
22 1 0.02
23 19 0.36
ACGTcount: A:0.38, C:0.26, G:0.22, T:0.14
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:91540298 original size:16 final size:17
Alignment explanation
Indices: 91540263--91540298 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
91540253 CCTAATTCTC
91540263 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
91540279 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
91540294 CCTTC
1 CCTTC
91540299 CCCTACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:91541257 original size:22 final size:22
Alignment explanation
Indices: 91541190--91541263 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 22
91541180 AAATCATAAT
*
91541190 TTTAATAAAT-TATATTTAAAA
1 TTTAAAAAATATATATTTAAAA
91541211 -TTAAAAATATATATATTTAAAA
1 TTTAAAAA-ATATATATTTAAAA
**
91541233 TTTTTAAAATATATATTTAAAA
1 TTTAAAAAATATATATTTAAAA
*
91541255 TTTATAAAA
1 TTTAAAAAA
91541264 CAAATAATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
20 6 0.13
21 2 0.04
22 33 0.72
23 5 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTAAAAAATATATATTTAAAA
Found at i:91541332 original size:19 final size:19
Alignment explanation
Indices: 91541310--91541407 Score: 89
Period size: 19 Copynumber: 5.2 Consensus size: 19
91541300 AATATATTTT
*
91541310 AAATAT-TTTATAATATTAA
1 AAATATATTTA-AATTTTAA
91541329 AAATAATATTTAAATTTTAA
1 AAAT-ATATTTAAATTTTAA
*
91541349 AAAAATATTTAAA-TTT-A
1 AAATATATTTAAATTTTAA
*
91541366 AAATA-A-TAATAATTTTAAA
1 AAATATATTTA-AATTTT-AA
91541385 AAATATATTTAAAATTTTAA
1 AAATATATTT-AAATTTTAA
91541405 AAA
1 AAA
91541408 AATAATATTA
Statistics
Matches: 65, Mismatches: 5, Indels: 17
0.75 0.06 0.20
Matches are distributed among these distances:
15 2 0.03
16 3 0.05
17 8 0.12
18 3 0.05
19 19 0.29
20 18 0.28
21 11 0.17
22 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATATATTTAAATTTTAA
Found at i:91541379 original size:16 final size:15
Alignment explanation
Indices: 91541295--91541399 Score: 52
Period size: 19 Copynumber: 6.3 Consensus size: 15
91541285 CATATCTTTA
*
91541295 AAAATAATATATTTT
1 AAAATAATATAATTT
**
91541310 AAATATTTTATAATATT
1 AAA-ATAATATAAT-TT
91541327 AAAAATAATATTTAAATTTT
1 -AAAATAATA--T-AA-TTT
*
91541347 AAAAAAATATTTAAATTT
1 AAAATAATA--T-AATTT
91541365 AAAATAATAATAATTTT
1 AAAATAAT-ATAA-TTT
91541382 AAAA-AATAT-ATTT
1 AAAATAATATAATTT
91541395 AAAAT
1 AAAAT
91541400 TTTAAAAAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
13 7 0.10
14 1 0.01
15 5 0.07
16 12 0.16
17 14 0.19
18 13 0.18
19 16 0.22
20 4 0.05
21 1 0.01
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATAATATAATTT
Found at i:91541386 original size:35 final size:38
Alignment explanation
Indices: 91541294--91541422 Score: 121
Period size: 37 Copynumber: 3.5 Consensus size: 38
91541284 TCATATCTTT
* *
91541294 AAAAATAATATATTTT---AAATAT-TTTATAATATTAA
1 AAAAATAATA-ATTTTAAAAAATATATTTAAAATTTTAA
*
91541329 AAATAATATTTAAATTTTAAAAAA-ATATTT-AAA-TTTAA
1 AAA-AATA-AT-AATTTTAAAAAATATATTTAAAATTTTAA
*
91541367 AATAATAATAATTTTAAAAAATATATTTAAAATTTTAA
1 AAAAATAATAATTTTAAAAAATATATTTAAAATTTTAA
*
91541405 AAAAATAAT-ATTATAAAA
1 AAAAATAATAATTTTAAAA
91541423 CATTTCAAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
35 15 0.19
36 11 0.14
37 21 0.27
38 20 0.26
39 4 0.05
40 6 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (38 bp):
AAAAATAATAATTTTAAAAAATATATTTAAAATTTTAA
Found at i:91541410 original size:22 final size:23
Alignment explanation
Indices: 91541371--91541422 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
91541361 ATTTAAAATA
91541371 ATAATAATTTTAAAAAAT-ATATT
1 ATAA-AATTTTAAAAAATAATATT
91541394 -TAAAATTTTAAAAAAATAATATT
1 ATAAAATTTT-AAAAAATAATATT
91541417 ATAAAA
1 ATAAAA
91541423 CATTTCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 6 0.23
22 10 0.38
23 5 0.19
24 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAAAATTTTAAAAAATAATATT
Found at i:91541529 original size:22 final size:23
Alignment explanation
Indices: 91541504--91541547 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
91541494 AATAAAGCAC
91541504 AAATAAAT-AAAACTTAAAAAGT
1 AAATAAATAAAAACTTAAAAAGT
91541526 AAATAAATAAAAAACTTAAAAA
1 AAATAAAT-AAAAACTTAAAAA
91541548 AACAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (23 bp):
AAATAAATAAAAACTTAAAAAGT
Found at i:91553621 original size:56 final size:57
Alignment explanation
Indices: 91553556--91553673 Score: 220
Period size: 56 Copynumber: 2.1 Consensus size: 57
91553546 GTGAAAATGT
91553556 TAAAGGTTAATTTTTTGAAATTAATACTAAATTGACATAATGTATAATGTTTAGTGC
1 TAAAGGTTAATTTTTTGAAATTAATACTAAATTGACATAATGTATAATGTTTAGTGC
*
91553613 -AAAGGTTAATTTTTTGGAATTAATACTAAATTGACATAATGTATAATGTTTAGTGC
1 TAAAGGTTAATTTTTTGAAATTAATACTAAATTGACATAATGTATAATGTTTAGTGC
91553669 TAAAG
1 TAAAG
91553674 TTGTTATTAT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
56 55 0.93
57 4 0.07
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (57 bp):
TAAAGGTTAATTTTTTGAAATTAATACTAAATTGACATAATGTATAATGTTTAGTGC
Found at i:91558954 original size:172 final size:172
Alignment explanation
Indices: 91558668--91559004 Score: 629
Period size: 172 Copynumber: 2.0 Consensus size: 172
91558658 GAACGTAAAT
* *
91558668 GCTTTGTGCTGGGTCAATACAGGTTTCAATAACCACCCGAAGACAGTTCACAATGACCTTATCTA
1 GCTTTGTGCTGGGTCAATACAGGTTTCAATAACCACCCGAAGACAGATCACAATGACCTTAGCTA
91558733 TCAACTTATAAATAACATTGCATAGGCTTATGAGGCGAAAATAAGTAATATTTGAAGGGTTTTGA
66 TCAACTTATAAATAACATTGCATAGGCTTATGAGGCGAAAATAAGTAATATTTGAAGGGTTTTGA
91558798 ATTTTTGGGATCAGAACTATATTAGTCGTATTAATAAAAAAC
131 ATTTTTGGGATCAGAACTATATTAGTCGTATTAATAAAAAAC
*
91558840 GCTTTGTGCTGGGTCAATACAGGTTTCAATAATCACCCGAAGACAGATCACAATGACCTTAGCTA
1 GCTTTGTGCTGGGTCAATACAGGTTTCAATAACCACCCGAAGACAGATCACAATGACCTTAGCTA
*
91558905 TCAACTTATAAATAACATTGCATAGGCTTATGGGGCGAAAATAAGTAATATTTGAAGGGTTTTGA
66 TCAACTTATAAATAACATTGCATAGGCTTATGAGGCGAAAATAAGTAATATTTGAAGGGTTTTGA
*
91558970 ATTTTTGGGATCAGAACTATATTAGTTGTATTAAT
131 ATTTTTGGGATCAGAACTATATTAGTCGTATTAAT
91559005 TAAACTAATA
Statistics
Matches: 160, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 160 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (172 bp):
GCTTTGTGCTGGGTCAATACAGGTTTCAATAACCACCCGAAGACAGATCACAATGACCTTAGCTA
TCAACTTATAAATAACATTGCATAGGCTTATGAGGCGAAAATAAGTAATATTTGAAGGGTTTTGA
ATTTTTGGGATCAGAACTATATTAGTCGTATTAATAAAAAAC
Found at i:91565434 original size:35 final size:35
Alignment explanation
Indices: 91565395--91565486 Score: 130
Period size: 35 Copynumber: 2.6 Consensus size: 35
91565385 CATGGAAAAG
*
91565395 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTAAGT
* * * *
91565430 TGTGAAACGTAGGTGTGATATCATCCATACTAAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTAAGT
*
91565465 TGTGAAATGTAGGTATGGTATT
1 TGTGAAACGTAGGTATGGTATT
91565487 TCAAGGAGGA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTAACCATACTAAGT
Found at i:91566736 original size:24 final size:24
Alignment explanation
Indices: 91566691--91566739 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
91566681 ACAAGGTAAG
91566691 TAAGCGCAACAAGAAGTAGGTTGA
1 TAAGCGCAACAAGAAGTAGGTTGA
* *
91566715 TAAGCGCAATAAGAAGTGGGTTGA
1 TAAGCGCAACAAGAAGTAGGTTGA
91566739 T
1 T
91566740 CAGAATTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.39, C:0.10, G:0.31, T:0.20
Consensus pattern (24 bp):
TAAGCGCAACAAGAAGTAGGTTGA
Found at i:91570996 original size:23 final size:23
Alignment explanation
Indices: 91570970--91571018 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
91570960 TAAATTAATA
91570970 AAATGTATAAATATTAAAGAGCT
1 AAATGTATAAATATTAAAGAGCT
*
91570993 AAATGTATAAATATTAAAGGGCT
1 AAATGTATAAATATTAAAGAGCT
91571016 AAA
1 AAA
91571019 CTTATTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.53, C:0.04, G:0.14, T:0.29
Consensus pattern (23 bp):
AAATGTATAAATATTAAAGAGCT
Found at i:91579900 original size:26 final size:27
Alignment explanation
Indices: 91579871--91579930 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 27
91579861 TTTACTCCAC
*
91579871 TAAAATTTTTGACAATTTTATCC-CGG
1 TAAAATTTTTGACAATTTTACCCTCGG
**
91579897 TAAAA-TTTTGATGATTTTACCCTCGG
1 TAAAATTTTTGACAATTTTACCCTCGG
91579923 TAAAATTT
1 TAAAATTT
91579931 CGAGAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 14 0.48
26 13 0.45
27 2 0.07
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (27 bp):
TAAAATTTTTGACAATTTTACCCTCGG
Found at i:91579913 original size:25 final size:26
Alignment explanation
Indices: 91579871--91579930 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
91579861 TTTACTCCAC
*
91579871 TAAAATTTTTGACAATTTTATCC-CGG
1 TAAAA-TTTTGACAATTTTACCCTCGG
**
91579897 TAAAATTTTGATGATTTTACCCTCGG
1 TAAAATTTTGACAATTTTACCCTCGG
91579923 TAAAATTT
1 TAAAATTT
91579931 CGAGAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (26 bp):
TAAAATTTTGACAATTTTACCCTCGG
Found at i:91592902 original size:15 final size:16
Alignment explanation
Indices: 91592877--91592906 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
91592867 TTAAATCAAT
91592877 TTATAAATTATATTAA
1 TTATAAATTATATTAA
91592893 TTAT-AATTATATTA
1 TTATAAATTATATTA
91592907 TGAAATAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATAAATTATATTAA
Found at i:91597623 original size:41 final size:41
Alignment explanation
Indices: 91597516--91597633 Score: 157
Period size: 40 Copynumber: 2.9 Consensus size: 41
91597506 AATACTCGAT
* * * *
91597516 ATCTCGCACACTAAGTACCGTACATAGCTGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
* * *
91597557 A-ATCACACACTAAGTGCTATATATAGCCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
*
91597597 ATCTCGCACCCTAAGTGCCATATATAGCCGAAGCTAT
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTAT
91597634 GTTGAATAGT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 33 0.51
41 32 0.49
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
Found at i:91608968 original size:11 final size:9
Alignment explanation
Indices: 91608917--91608974 Score: 70
Period size: 9 Copynumber: 6.7 Consensus size: 9
91608907 AACTAAAAAG
91608917 TTGAGAGAA
1 TTGAGAGAA
91608926 TTGAGAGAA
1 TTGAGAGAA
91608935 -T-AGATGAA
1 TTGAGA-GAA
91608943 TTGAGAGAA
1 TTGAGAGAA
91608952 TTGAGAGAA
1 TTGAGAGAA
91608961 TT-AGGAGAA
1 TTGA-GAGAA
91608970 -TGAGA
1 TTGAGA
91608975 TTTGAATGCA
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
7 3 0.07
8 8 0.18
9 30 0.68
10 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.22
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:91612931 original size:13 final size:13
Alignment explanation
Indices: 91612913--91612938 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91612903 TTATACATTC
91612913 TAAAATTTTTTGG
1 TAAAATTTTTTGG
91612926 TAAAATTTTTTGG
1 TAAAATTTTTTGG
91612939 AGGCCCGACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TAAAATTTTTTGG
Found at i:91614024 original size:24 final size:24
Alignment explanation
Indices: 91614008--91614059 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
91613998 AATTAGTGTC
91614008 AAATATATTATGTTAATAAATGCT
1 AAATATATTATGTTAATAAATGCT
**
91614032 AAATATATTATACTAATAAATGCT
1 AAATATATTATGTTAATAAATGCT
91614056 AAAT
1 AAAT
91614060 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (24 bp):
AAATATATTATGTTAATAAATGCT
Found at i:91614185 original size:29 final size:29
Alignment explanation
Indices: 91614139--91614223 Score: 125
Period size: 29 Copynumber: 2.9 Consensus size: 29
91614129 TCTACATTGA
* *
91614139 CACGAATTCTCAACGAACATGTTCTCCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
*
91614168 CACGAACTCTCAATGAACAAGTTCTCCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
* *
91614197 AACGAACTCTCAACAAACAAGTTCTCC
1 CACGAACTCTCAACGAACAAGTTCTCC
91614224 TCCTCTTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.35, C:0.34, G:0.09, T:0.21
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAGTTCTCCAC
Found at i:91616683 original size:30 final size:28
Alignment explanation
Indices: 91616649--91616704 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
91616639 TGGTTATAAA
91616649 AAAAATCAATAGATTCGATTATGAAATGAG
1 AAAAATCAATAGATT--ATTATGAAATGAG
* *
91616679 AAAAATGAATATATTATTATGAAATG
1 AAAAATCAATAGATTATTATGAAATG
91616705 TCAAATGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.46
30 13 0.54
ACGTcount: A:0.52, C:0.04, G:0.14, T:0.30
Consensus pattern (28 bp):
AAAAATCAATAGATTATTATGAAATGAG
Found at i:91616756 original size:23 final size:23
Alignment explanation
Indices: 91616709--91616757 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
91616699 GAAATGTCAA
*
91616709 ATGATACATATGATTGAGATGAT
1 ATGATACATATGATTGAAATGAT
91616732 ATGATACAATAT-ATT-AAATGAAT
1 ATGATAC-ATATGATTGAAATG-AT
91616755 ATG
1 ATG
91616758 TATAAATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
23 15 0.65
24 4 0.17
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.35
Consensus pattern (23 bp):
ATGATACATATGATTGAAATGAT
Found at i:91618517 original size:47 final size:47
Alignment explanation
Indices: 91618466--91618555 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
91618456 ATTTGTTCAC
*
91618466 TCCATTCAGAGAAGTTTAACACATTAAATAATGTAACAGTTGATCAT
1 TCCATTCAGAGAAGTATAACACATTAAATAATGTAACAGTTGATCAT
91618513 TCCATTCAGAGAAGTATAACACATTAAATAATGTAACAGTTGA
1 TCCATTCAGAGAAGTATAACACATTAAATAATGTAACAGTTGA
91618556 AGCTTGTGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (47 bp):
TCCATTCAGAGAAGTATAACACATTAAATAATGTAACAGTTGATCAT
Found at i:91619426 original size:6 final size:6
Alignment explanation
Indices: 91619415--91619448 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
91619405 TTTTAGTGTG
91619415 AATTAA AATTAA AATTAAA AATTAAA AATTAA AA
1 AATTAA AATTAA AATT-AA AATT-AA AATTAA AA
91619449 ATTACTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 14 0.52
7 13 0.48
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AATTAA
Found at i:91619437 original size:7 final size:7
Alignment explanation
Indices: 91619415--91619452 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
91619405 TTTTAGTGTG
91619415 AATT-AA
1 AATTAAA
91619421 AATT-AA
1 AATTAAA
91619427 AATTAAA
1 AATTAAA
91619434 AATTAAA
1 AATTAAA
91619441 AATTAAA
1 AATTAAA
91619448 AATTA
1 AATTA
91619453 CTAATTGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 10 0.32
7 21 0.68
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATTAAA
Found at i:91621099 original size:29 final size:29
Alignment explanation
Indices: 91621015--91621099 Score: 80
Period size: 31 Copynumber: 2.8 Consensus size: 29
91621005 GATTAAATCA
* * *
91621015 AAATTAAAGTTTCAAGTATACATTTGAACT
1 AAATTAAAG-TTCATGTATACAATTGAACC
* * * *
91621045 ATAATTAGAATTTCATGTGTATAATTGCACC
1 A-AATTA-AAGTTCATGTATACAATTGAACC
91621076 AAATTAAAGTTCATGTATACAATT
1 AAATTAAAGTTCATGTATACAATT
91621100 ACGCATTAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
29 15 0.35
30 6 0.14
31 20 0.47
32 2 0.05
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (29 bp):
AAATTAAAGTTCATGTATACAATTGAACC
Found at i:91623358 original size:32 final size:32
Alignment explanation
Indices: 91623322--91623386 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
91623312 TGTATGCATT
91623322 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
91623354 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
91623386 T
1 T
91623387 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:91627353 original size:131 final size:132
Alignment explanation
Indices: 91627092--91627431 Score: 496
Period size: 131 Copynumber: 2.6 Consensus size: 132
91627082 GTCCAACGAA
* * * * *
91627092 AAAATCGAAACCCAGCACAATAGGGCACGATTCCTCGAATTTCTAAACATCGAACATTGCCTT-A
1 AAAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCG
* * * *
91627156 TTTT--AG-AA-TTTAGAGAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAAT
66 TTTTAAAGAAATTTTAAAGAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAAC
91627217 AG
131 AG
**
91627219 AAAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTATCTTCG
1 AAAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCG
91627284 TTTTAAAGAAATTTTAAAG-ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAAC
66 TTTTAAAGAAATTTTAAAGAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAAC
*
91627348 GG
131 AG
*
91627350 AAAATCGCAACCCAGCACGATAGGGCACGATTCC-CGAATTGCCAAACATCGAGCATTGCCTTCG
1 AAAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCG
* *
91627414 TTTTAAATAATTTTTAAA
66 TTTTAAAGAAATTTTAAA
91627432 TGAATAATTA
Statistics
Matches: 191, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
127 57 0.30
128 4 0.02
130 45 0.24
131 79 0.41
132 6 0.03
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (132 bp):
AAAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCG
TTTTAAAGAAATTTTAAAGAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAAC
AG
Found at i:91631407 original size:30 final size:27
Alignment explanation
Indices: 91631350--91631405 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
91631340 ATACCTTTGA
91631350 AAGATATGCACAATCTGTTTCAATAAT
1 AAGATATGCACAATCTGTTTCAATAAT
91631377 AAGATATGCACAATCTGTTTCAATAAT
1 AAGATATGCACAATCTGTTTCAATAAT
91631404 AA
1 AA
91631406 TATTCATCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (27 bp):
AAGATATGCACAATCTGTTTCAATAAT
Found at i:91632251 original size:27 final size:25
Alignment explanation
Indices: 91632204--91632262 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 25
91632194 TTCTTCTTCA
91632204 TTCTTTTTTATTATTATTTTTGTT-C
1 TTCTTTTTTATTATTATTTTT-TTCC
*
91632229 TTCTTTTTGTCATTTTTATTTTTTTCC
1 TTCTTTTT-T-ATTATTATTTTTTTCC
91632256 TTCTTTT
1 TTCTTTT
91632263 GATTTTGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 8 0.27
26 3 0.10
27 19 0.63
ACGTcount: A:0.08, C:0.12, G:0.03, T:0.76
Consensus pattern (25 bp):
TTCTTTTTTATTATTATTTTTTTCC
Found at i:91638552 original size:21 final size:20
Alignment explanation
Indices: 91638523--91638561 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
91638513 AAACTAAAAG
*
91638523 TGTGAAAGAATATTCTATGCT
1 TGTGAAAGAACATT-TATGCT
*
91638544 TGTGGAAGAACATTTATG
1 TGTGAAAGAACATTTATG
91638562 TTATATGAAT
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:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (20 bp):
TGTGAAAGAACATTTATGCT
Found at i:91640130 original size:17 final size:18
Alignment explanation
Indices: 91640108--91640146 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
91640098 ATTTAGGCCG
91640108 TGTGGG-CCAAATGGGTA
1 TGTGGGCCCAAATGGGTA
* *
91640125 TGTGGGCCCACATGGGTG
1 TGTGGGCCCAAATGGGTA
91640143 TGTG
1 TGTG
91640147 AAATTCTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.15, C:0.15, G:0.44, T:0.26
Consensus pattern (18 bp):
TGTGGGCCCAAATGGGTA
Done.