Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 7 of 211
Found at i:2473830 original size:22 final size:23
Alignment explanation
Indices: 2473778--2473830 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
2473768 TTTCATTTTC
*
2473778 ATACTTT-ATAATTTATAAAATT
1 ATACTTTAATAATTGATAAAATT
* **
2473800 TTAAATTAATAA-TGATAAAATT
1 ATACTTTAATAATTGATAAAATT
2473822 ATACTTTAA
1 ATACTTTAA
2473831 CCCTCTAAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (23 bp):
ATACTTTAATAATTGATAAAATT
Found at i:2473873 original size:20 final size:20
Alignment explanation
Indices: 2473848--2473915 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
2473838 AATGATAAAA
2473848 AAAAATTGATTTAATTCTTT
1 AAAAATTGATTTAATTCTTT
** ****
2473868 AAAAATT-ATAAAAATATAAAA
1 AAAAATTGAT-TTAAT-TCTTT
2473889 AAAAATTGATTTAATTCTTT
1 AAAAATTGATTTAATTCTTT
2473909 AAAAATT
1 AAAAATT
2473916 ATAAAAATAT
Statistics
Matches: 33, Mismatches: 12, Indels: 6
0.65 0.24 0.12
Matches are distributed among these distances:
19 2 0.06
20 18 0.55
21 11 0.33
22 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (20 bp):
AAAAATTGATTTAATTCTTT
Found at i:2473888 original size:41 final size:41
Alignment explanation
Indices: 2473837--2473926 Score: 171
Period size: 41 Copynumber: 2.2 Consensus size: 41
2473827 TTAACCCTCT
2473837 AAATGATAAAAAAAAATTGATTTAATTCTTTAAAAATTATAA
1 AAAT-ATAAAAAAAAATTGATTTAATTCTTTAAAAATTATAA
2473879 AAATATAAAAAAAAATTGATTTAATTCTTTAAAAATTATAA
1 AAATATAAAAAAAAATTGATTTAATTCTTTAAAAATTATAA
2473920 AAATATA
1 AAATATA
2473927 TATTATTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 44 0.92
42 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (41 bp):
AAATATAAAAAAAAATTGATTTAATTCTTTAAAAATTATAA
Found at i:2480093 original size:6 final size:7
Alignment explanation
Indices: 2480074--2480100 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2480064 TTTCACGAGT
2480074 TGAAAAA
1 TGAAAAA
2480081 TGAAAAA
1 TGAAAAA
2480088 TGAAAAA
1 TGAAAAA
2480095 TGAAAA
1 TGAAAA
2480101 CTCTAATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
TGAAAAA
Found at i:2483680 original size:26 final size:23
Alignment explanation
Indices: 2483643--2483695 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
2483633 TCGCCCATAT
2483643 TATTTTAATATTTAATAATTTTATA
1 TATTTTAATA-TTAA-AATTTTATA
* *
2483668 TATTTTATTTATTAAAATTTTTTA
1 TATTTTA-ATATTAAAATTTTATA
2483692 TATT
1 TATT
2483696 GTCACTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.48
25 11 0.44
26 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTTTAATATTAAAATTTTATA
Found at i:2483704 original size:26 final size:25
Alignment explanation
Indices: 2483654--2483726 Score: 62
Period size: 24 Copynumber: 2.9 Consensus size: 25
2483644 ATTTTAATAT
*
2483654 TTAATAATTTTATATATTTTATTTA
1 TTAATAATTTTATATATTTCATTTA
*
2483679 TTAA-AATTTTTTATATTGTCACTTTA
1 TTAATAATTTTATATATT-TCA-TTTA
* *
2483705 AT-ATTATTTTA-ATATTTACATT
1 TTAATAATTTTATATATTT-CATT
2483727 AGAGTAGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
24 15 0.38
25 14 0.36
26 10 0.26
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (25 bp):
TTAATAATTTTATATATTTCATTTA
Found at i:2485242 original size:121 final size:121
Alignment explanation
Indices: 2485022--2485250 Score: 368
Period size: 121 Copynumber: 1.9 Consensus size: 121
2485012 GTCTTTTGTC
* *
2485022 GGTCTTTGGTAGTGTCCAATTGGTTGATTGTAATTTGACGTCAAAATAATCTGACAATAGCAATG
1 GGTCTTTGGTAGTGTCCAATTGGTTGATCGGAATTTGACGTCAAAATAATCTGACAATAGCAATG
*
2485087 CTAAGATGCCAGTATTGATGATTGATCTAGGTGATGCATCTTTGGTTAGTTCTTTG
66 CTAAGATGCCAGTATTGATGATTGATCTAAGTGATGCATCTTTGGTTAGTTCTTTG
* * * *
2485143 GGTCTTTGGTAGTGTCCAATTGGTTGATCGGAATTTGTCGTTAAAATAATTTGGCAATAGCAATG
1 GGTCTTTGGTAGTGTCCAATTGGTTGATCGGAATTTGACGTCAAAATAATCTGACAATAGCAATG
* * *
2485208 CTAAGATGTCATTATTGATGATTGATTTAAGTGATGCATCTTT
66 CTAAGATGCCAGTATTGATGATTGATCTAAGTGATGCATCTTT
2485251 AATTTGTTCA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
121 98 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (121 bp):
GGTCTTTGGTAGTGTCCAATTGGTTGATCGGAATTTGACGTCAAAATAATCTGACAATAGCAATG
CTAAGATGCCAGTATTGATGATTGATCTAAGTGATGCATCTTTGGTTAGTTCTTTG
Found at i:2496324 original size:21 final size:22
Alignment explanation
Indices: 2496295--2496341 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
2496285 CAGAAGGAGT
*
2496295 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
2496317 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
2496338 GAGT
1 GAGT
2496342 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:2499549 original size:20 final size:21
Alignment explanation
Indices: 2499521--2499565 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
2499511 AAAAAATTTT
*
2499521 AAAATTTTATAATAAT-CAT-A
1 AAAACTTTATAA-AATGCATCA
2499541 AAAACTTTATAAAATGCATCA
1 AAAACTTTATAAAATGCATCA
2499562 AAAA
1 AAAA
2499566 GTCCCTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.64
21 5 0.23
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAACTTTATAAAATGCATCA
Found at i:2499792 original size:10 final size:10
Alignment explanation
Indices: 2499779--2499880 Score: 61
Period size: 10 Copynumber: 10.5 Consensus size: 10
2499769 TTCTTTACAT
2499779 TTTTTTATAA
1 TTTTTTATAA
*
2499789 TTTTCTTACAA
1 TTTT-TTATAA
* * *
2499800 CTTTATAAAA
1 TTTTTTATAA
*
2499810 TTTTATA-AA
1 TTTTTTATAA
2499819 TTTTTTAT-A
1 TTTTTTATAA
*
2499828 -TTTCTAT-A
1 TTTTTTATAA
*
2499836 TATTTTATAA
1 TTTTTTATAA
*
2499846 -GTTTTATAA
1 TTTTTTATAA
*
2499855 ATTTTTATATA
1 TTTTTTATA-A
*
2499866 TTTTTTCTAA
1 TTTTTTATAA
2499876 TTTTT
1 TTTTT
2499881 AATATTTAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
8 7 0.10
9 22 0.30
10 28 0.38
11 16 0.22
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:2499821 original size:9 final size:9
Alignment explanation
Indices: 2499801--2499869 Score: 66
Period size: 9 Copynumber: 7.3 Consensus size: 9
2499791 TTCTTACAAC
2499801 TTTATAAAAT
1 TTTAT-AAAT
2499811 TTTATAAAT
1 TTTATAAAT
* *
2499820 TTTTTATAT
1 TTTATAAAT
*
2499829 TTCTATATAT
1 TT-TATAAAT
*
2499839 TTTATAAGT
1 TTTATAAAT
2499848 TTTATAAATT
1 TTTATAAA-T
*
2499858 TTTATATAT
1 TTTATAAAT
2499867 TTT
1 TTT
2499870 TTCTAATTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
9 29 0.58
10 21 0.42
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTATAAAT
Found at i:2499850 original size:28 final size:28
Alignment explanation
Indices: 2499809--2499869 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
2499799 ACTTTATAAA
* *
2499809 ATTTTATAAATTTTTTATATTTCTATAT
1 ATTTTATAAATTTTATAAATTTCTATAT
* *
2499837 ATTTTATAAGTTTTATAAATTTTTATAT
1 ATTTTATAAATTTTATAAATTTCTATAT
2499865 ATTTT
1 ATTTT
2499870 TTCTAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (28 bp):
ATTTTATAAATTTTATAAATTTCTATAT
Found at i:2500045 original size:90 final size:90
Alignment explanation
Indices: 2499944--2500143 Score: 289
Period size: 90 Copynumber: 2.2 Consensus size: 90
2499934 TTGTTTTTTT
* * *
2499944 AAGTTTGAGGGTCTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAA-
1 AAGTTTGAGGGT-TTTTTTATACATTTTGAAAGTTCAAGTACCCAAATAAGTGCAAAAAAAAAAC
*
2500008 GTAGGGGCTTAATTGC-TTTTTTGAA-
65 GTA-AGGCTTAATTGCTTTTTTTGAAG
2500033 AAGGTTTGAGGGTATTTTTTATACATTTTGAAAGTTCAAGTACCCAAATAAGTGCAAAAAAAAAA
1 AA-GTTTGAGGGT-TTTTTTATACATTTTGAAAGTTCAAGTACCCAAATAAGTGCAAAAAAAAAA
*
2500098 GCGTAAGGCTTAATTGCTTTTTTTTAAG
64 -CGTAAGGCTTAATTGCTTTTTTTGAAG
2500126 AAGTTTGAGGGTTTTTTT
1 AAGTTTGAGGGTTTTTTT
2500144 GTATCCTTAA
Statistics
Matches: 100, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
89 2 0.02
90 58 0.58
91 17 0.17
92 21 0.21
93 2 0.02
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (90 bp):
AAGTTTGAGGGTTTTTTTATACATTTTGAAAGTTCAAGTACCCAAATAAGTGCAAAAAAAAAACG
TAAGGCTTAATTGCTTTTTTTGAAG
Found at i:2500274 original size:6 final size:6
Alignment explanation
Indices: 2500260--2500289 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
2500250 TTAAATGTTT
*
2500260 TACAAC TACATC TACATC TACATC TACATC
1 TACATC TACATC TACATC TACATC TACATC
2500290 AATATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (6 bp):
TACATC
Found at i:2501482 original size:12 final size:12
Alignment explanation
Indices: 2501467--2501524 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
2501457 AAAATTTAAG
2501467 TTAAAATAATTA
1 TTAAAATAATTA
*
2501479 TTAAAATAATGTG
1 TTAAAATAAT-TA
* *
2501492 TCAAAA-AAATA
1 TTAAAATAATTA
*
2501503 TTGAAATAA-TA
1 TTAAAATAATTA
2501514 TT-AAATAATTA
1 TTAAAATAATTA
2501525 ATAAGAGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
10 6 0.16
11 11 0.30
12 14 0.38
13 6 0.16
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (12 bp):
TTAAAATAATTA
Found at i:2507678 original size:19 final size:22
Alignment explanation
Indices: 2507640--2507680 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 22
2507630 ACAATAACAC
2507640 ATAAAATATGTACGATATTAAA
1 ATAAAATATGTACGATATTAAA
2507662 ATAAAAT-T-TAC-ATATTAAA
1 ATAAAATATGTACGATATTAAA
2507681 TTGTGAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 3 0.16
21 1 0.05
22 7 0.37
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (22 bp):
ATAAAATATGTACGATATTAAA
Found at i:2514119 original size:20 final size:20
Alignment explanation
Indices: 2514094--2514132 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2514084 TTAATTTCAA
2514094 TCTACA-TTATTGTGGTTTTG
1 TCTACAGTT-TTGTGGTTTTG
2514114 TCTACAGTTTTGTGGTTTT
1 TCTACAGTTTTGTGGTTTT
2514133 ATTTTGTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.13, C:0.10, G:0.21, T:0.56
Consensus pattern (20 bp):
TCTACAGTTTTGTGGTTTTG
Found at i:2514138 original size:25 final size:27
Alignment explanation
Indices: 2514109--2514170 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
2514099 ATTATTGTGG
* *
2514109 TTTTGTCTACA-GTTTTGTGG-TTTTA
1 TTTTGTCCACATGTTTTATGGTTTTTA
* *
2514134 TTTTGTCCACATTTTTTATGGTTTTTG
1 TTTTGTCCACATGTTTTATGGTTTTTA
2514161 TTTTGTCCAC
1 TTTTGTCCAC
2514171 TTTGTTTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 10 0.32
26 7 0.23
27 14 0.45
ACGTcount: A:0.11, C:0.13, G:0.16, T:0.60
Consensus pattern (27 bp):
TTTTGTCCACATGTTTTATGGTTTTTA
Found at i:2517821 original size:23 final size:21
Alignment explanation
Indices: 2517768--2517821 Score: 54
Period size: 25 Copynumber: 2.4 Consensus size: 21
2517758 TATACTGCAG
*
2517768 TTTTTTAATGATTTTTACAAT
1 TTTTTTAACGATTTTTACAAT
*
2517789 TTTTAGTTAACGATTATTTTACAGT
1 TTTT--TTAACGA-T-TTTTACAAT
2517814 TTTTTTAA
1 TTTTTTAA
2517822 GAATTGAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 4 0.15
23 10 0.37
24 1 0.04
25 12 0.44
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (21 bp):
TTTTTTAACGATTTTTACAAT
Found at i:2521179 original size:24 final size:24
Alignment explanation
Indices: 2521144--2521211 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
2521134 CGGCCCGAAT
*
2521144 TATATATTAAATATATA-TTTTTA
1 TATATATCAAATATATATTTTTTA
* *
2521167 TTTTTAATCAAATATATATTTTTTA
1 TATAT-ATCAAATATATATTTTTTA
*
2521192 TATATATTAAATATATATTT
1 TATATATCAAATATATATTT
2521212 AATATGGGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 3 0.08
24 25 0.68
25 9 0.24
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (24 bp):
TATATATCAAATATATATTTTTTA
Found at i:2534401 original size:30 final size:30
Alignment explanation
Indices: 2534365--2534425 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
2534355 ACAGTAATAC
*
2534365 TTTATAAAATAATCTAATAATACTGACGAT
1 TTTATAAAATAATCTAATAATACTAACGAT
2534395 TTTATAAAATAATCTAATAATACTAACGAT
1 TTTATAAAATAATCTAATAATACTAACGAT
2534425 T
1 T
2534426 CAATCTGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.38
Consensus pattern (30 bp):
TTTATAAAATAATCTAATAATACTAACGAT
Found at i:2541037 original size:8 final size:9
Alignment explanation
Indices: 2541012--2541036 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2541002 AAGATTGTGA
2541012 AAAAAAAAT
1 AAAAAAAAT
2541021 AAAAAAAAT
1 AAAAAAAAT
2541030 AAAAAAA
1 AAAAAAA
2541037 TGTATATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:2541421 original size:22 final size:23
Alignment explanation
Indices: 2541388--2541452 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 23
2541378 CTTAAACTGT
*
2541388 ATATATATATATTAAAAATATGC
1 ATATATATATATGAAAAATATGC
*
2541411 ATAT-TATATATGGAAAATATGC
1 ATATATATATATGAAAAATATGC
* *
2541433 GTATGTACTATATGAAAAAT
1 ATATATA-TATATGAAAAAT
2541453 GCATGTGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 19 0.53
23 6 0.17
24 11 0.31
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.37
Consensus pattern (23 bp):
ATATATATATATGAAAAATATGC
Found at i:2541461 original size:22 final size:24
Alignment explanation
Indices: 2541402--2541461 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 24
2541392 ATATATATTA
2541402 AAAATATGCATAT-TA-TATATGG
1 AAAATATGCATATGTACTATATGG
*
2541424 AAAATATGCGTATGTACTATAT-G
1 AAAATATGCATATGTACTATATGG
*
2541447 AAAA-ATGCATGTGTA
1 AAAATATGCATATGTA
2541462 TAAATATGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 21 0.64
23 7 0.21
24 5 0.15
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (24 bp):
AAAATATGCATATGTACTATATGG
Found at i:2544143 original size:24 final size:24
Alignment explanation
Indices: 2544115--2544166 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
2544105 TTTCTAGAAG
* **
2544115 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
2544139 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
2544163 ATTT
1 ATTT
2544167 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:2546123 original size:27 final size:27
Alignment explanation
Indices: 2546093--2546146 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
2546083 TAGATCCTTC
*
2546093 TGTTGATTTGGGCATTAAATACTAACA
1 TGTTGATTTGGGCATTAAATACCAACA
*
2546120 TGTTGATTTGGGCGTTAAATACCAACA
1 TGTTGATTTGGGCATTAAATACCAACA
2546147 CATTGATCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.35
Consensus pattern (27 bp):
TGTTGATTTGGGCATTAAATACCAACA
Found at i:2546152 original size:27 final size:27
Alignment explanation
Indices: 2546095--2546153 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
2546085 GATCCTTCTG
* **
2546095 TTGATTTGGGCATTAAATACTAACATG
1 TTGATTTGGGCATTAAATACCAACACA
*
2546122 TTGATTTGGGCGTTAAATACCAACACA
1 TTGATTTGGGCATTAAATACCAACACA
2546149 TTGAT
1 TTGAT
2546154 CCAATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.36
Consensus pattern (27 bp):
TTGATTTGGGCATTAAATACCAACACA
Found at i:2547135 original size:20 final size:20
Alignment explanation
Indices: 2547112--2547157 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
2547102 TTTTTGGAGA
*
2547112 TTTTTAATTTTTTAA-TAAT
1 TTTTTAAATTTTTAAGTAAT
2547131 TTTTTAAATTTTTAAGTAAT
1 TTTTTAAATTTTTAAGTAAT
2547151 TTATTTA
1 TT-TTTA
2547158 TTTATTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 14 0.58
20 6 0.25
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTAAATTTTTAAGTAAT
Found at i:2547141 original size:27 final size:26
Alignment explanation
Indices: 2547084--2547145 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
2547074 TAAGAATTAT
* *
2547084 AATTTCTAATTTTTAATATTTTTGGA
1 AATTTTTAATTTTTAATAATTTTGGA
* **
2547110 GATTTTTAATTTTTTAATAATTTTTTA
1 AATTTTTAA-TTTTTAATAATTTTGGA
2547137 AATTTTTAA
1 AATTTTTAA
2547146 GTAATTTATT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (26 bp):
AATTTTTAATTTTTAATAATTTTGGA
Found at i:2548236 original size:60 final size:60
Alignment explanation
Indices: 2548143--2548263 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
2548133 GACCTGTGTT
2548143 GGCCCATATTTGAAGGACCAACTTGTGGAGCGATAAATCTTTGAATATTGAATTAGTTCA
1 GGCCCATATTTGAAGGACCAACTTGTGGAGCGATAAATCTTTGAATATTGAATTAGTTCA
2548203 GGCCCATATTTGAAGGACCAACTTGTGGAGCGATAAATCTTTGAATATTGAATTAGTTCA
1 GGCCCATATTTGAAGGACCAACTTGTGGAGCGATAAATCTTTGAATATTGAATTAGTTCA
2548263 G
1 G
2548264 ATCAAGCAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (60 bp):
GGCCCATATTTGAAGGACCAACTTGTGGAGCGATAAATCTTTGAATATTGAATTAGTTCA
Found at i:2556870 original size:31 final size:31
Alignment explanation
Indices: 2556835--2556897 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
2556825 CAGTTTAATA
2556835 ACTTAAATAAAAACTTTCAAATAATTCAATG
1 ACTTAAATAAAAACTTTCAAATAATTCAATG
* * *
2556866 ACTTAAATGAAAACTTTTAAATAATTTAATG
1 ACTTAAATAAAAACTTTCAAATAATTCAATG
2556897 A
1 A
2556898 TCATTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.35
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCAAATAATTCAATG
Found at i:2561452 original size:75 final size:76
Alignment explanation
Indices: 2561271--2561474 Score: 311
Period size: 75 Copynumber: 2.7 Consensus size: 76
2561261 ATCGGTAGAT
* * *
2561271 TCAGCACTTAGTAACCACTAGTGATTCGAGAAATCAGCACTTAGCAACCCCTTTCACATTCAAAA
1 TCAGCACTTAGCAACCACTAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAA
2561336 ATACGGTGGAA
66 ATACGGTGGAA
* * * *
2561347 TAAGCACTTAGCAACCACCAGTGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACATT-TAAA
1 TCAGCACTTAGCAACCACTAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAA
*
2561411 ATACGGTGGGA
66 ATACGGTGGAA
* *
2561422 TCAGCATTTAGCAACCACTAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
1 TCAGCACTTAGCAACCACTAGTGATTCGGGGAATCAGCACTTAGCAACCCCTT
2561475 GGGGGAATCA
Statistics
Matches: 115, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
75 61 0.53
76 54 0.47
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (76 bp):
TCAGCACTTAGCAACCACTAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAA
ATACGGTGGAA
Found at i:2561466 original size:33 final size:33
Alignment explanation
Indices: 2561421--2561572 Score: 100
Period size: 33 Copynumber: 4.5 Consensus size: 33
2561411 ATACGGTGGG
*
2561421 ATCAGCATTTAGCAACCACTAATGATTCGGGGA
1 ATCAGCACTTAGCAACCACTAATGATTCGGGGA
*
2561454 ATCAGCACTTAGCAACCCCT--TG----GGGGA
1 ATCAGCACTTAGCAACCACTAATGATTCGGGGA
* * * * *
2561481 ATCAGCACTTAGTAACCCCCTTCACATTTAAAATACGATGGA
1 ATCAGCACTTAGCAA-CCAC-T-A-A--T--GATTCG-GGGA
* *
2561523 ATCAGCACTTAGCAACCACCAATGATTTGGGGA
1 ATCAGCACTTAGCAACCACTAATGATTCGGGGA
2561556 ATCAGCACTTAGCAACC
1 ATCAGCACTTAGCAACC
2561573 CCTTGGGGTA
Statistics
Matches: 92, Mismatches: 12, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
27 19 0.21
28 4 0.04
29 1 0.01
31 2 0.02
33 38 0.41
34 3 0.03
35 1 0.01
36 1 0.01
38 1 0.01
39 1 0.01
41 4 0.04
42 17 0.18
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCACTAATGATTCGGGGA
Found at i:2561498 original size:102 final size:102
Alignment explanation
Indices: 2561374--2561704 Score: 509
Period size: 102 Copynumber: 3.2 Consensus size: 102
2561364 CCAGTGAATC
* *
2561374 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGGTGGGATCAGCATTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
2561439 CTAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
* * *
2561476 GGGGAATCAGCACTTAGTAACCCCCTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
2561541 CCAATGATTTGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
* * * * * *
2561578 GGGTAATCAGCACTTAACAACCCCTTTTATATTCAAAGATACAGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAA-ATACGGTGGAATCAGCACTTAGCAACC
* *
2561643 ACCAGTGATTCGAGGAATCAGCACTTAGCAACCCCTTG
65 ACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
*
2561681 GGGCAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
2561705 CTTTATATGC
Statistics
Matches: 207, Mismatches: 21, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
102 125 0.60
103 82 0.40
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:2561578 original size:26 final size:27
Alignment explanation
Indices: 2561549--2561603 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
2561539 CACCAATGAT
*
2561549 TTGGGG-AATCAGCACTTAGCAACCCC
1 TTGGGGTAATCAGCACTTAACAACCCC
2561575 TTGGGGTAATCAGCACTTAACAACCCC
1 TTGGGGTAATCAGCACTTAACAACCCC
2561602 TT
1 TT
2561604 TTATATTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (27 bp):
TTGGGGTAATCAGCACTTAACAACCCC
Found at i:2562677 original size:21 final size:21
Alignment explanation
Indices: 2562651--2562803 Score: 112
Period size: 21 Copynumber: 7.3 Consensus size: 21
2562641 AAGTGTACAT
*
2562651 CTAAACAGAAGCTCATGAGAG
1 CTAAACAGAAGCTCATAAGAG
* * *
2562672 CTAAACAGAAACACATAAGGG
1 CTAAACAGAAGCTCATAAGAG
* * *
2562693 TTGAACGGAAGCTCATAAGAG
1 CTAAACAGAAGCTCATAAGAG
* * *
2562714 CTTAACAGAAACCCATAA-AGG
1 CTAAACAGAAGCTCATAAGA-G
* *
2562735 TTAAACAGAAGCTCAAAAGAG
1 CTAAACAGAAGCTCATAAGAG
* * *
2562756 CTTAAC-GAAAACTCATATGAG
1 CTAAACAG-AAGCTCATAAGAG
* * *
2562777 TTAAACAGAAGCTCGTGAGAG
1 CTAAACAGAAGCTCATAAGAG
2562798 CTAAAC
1 CTAAAC
2562804 GGAAAGTAAA
Statistics
Matches: 96, Mismatches: 32, Indels: 8
0.71 0.24 0.06
Matches are distributed among these distances:
20 2 0.02
21 92 0.96
22 2 0.02
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.16
Consensus pattern (21 bp):
CTAAACAGAAGCTCATAAGAG
Found at i:2562721 original size:42 final size:42
Alignment explanation
Indices: 2562652--2562808 Score: 165
Period size: 42 Copynumber: 3.7 Consensus size: 42
2562642 AGTGTACATC
* * *
2562652 TAAACAGAAGCTCATGAGAGCTAAACAGAAACACATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTTAACAGAAACACATAAAGGT
* * *
2562694 TGAACGGAAGCTCATAAGAGCTTAACAGAAACCCATAAAGGT
1 TAAACAGAAGCTCATAAGAGCTTAACAGAAACACATAAAGGT
* * *
2562736 TAAACAGAAGCTCAAAAGAGCTTAAC-GAAAACTCAT-ATGAGT
1 TAAACAGAAGCTCATAAGAGCTTAACAG-AAACACATAAAG-GT
* * * *
2562778 TAAACAGAAGCTCGTGAGAGCTAAACGGAAA
1 TAAACAGAAGCTCATAAGAGCTTAACAGAAA
2562809 GTAAACATGA
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
41 3 0.03
42 93 0.96
43 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (42 bp):
TAAACAGAAGCTCATAAGAGCTTAACAGAAACACATAAAGGT
Found at i:2562798 original size:84 final size:84
Alignment explanation
Indices: 2562652--2562808 Score: 190
Period size: 84 Copynumber: 1.9 Consensus size: 84
2562642 AGTGTACATC
** * * * *
2562652 TAAACAGAAGCTCATGAGAGCTAAACAGAAACACATAAGGGTTGAACGGAAGCTCATAAGAGCTT
1 TAAACAGAAGCTCAAAAGAGCTAAACAGAAACACATAAGAGTTAAACAGAAGCTCATAAGAGCTA
2562717 AACAGAAACCCATAAAGGT
66 AACAGAAACCCATAAAGGT
* * * * *
2562736 TAAACAGAAGCTCAAAAGAGCTTAAC-GAAAACTCATATGAGTTAAACAGAAGCTCGTGAGAGCT
1 TAAACAGAAGCTCAAAAGAGCTAAACAG-AAACACATAAGAGTTAAACAGAAGCTCATAAGAGCT
*
2562800 AAACGGAAA
65 AAACAGAAA
2562809 GTAAACATGA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
83 1 0.02
84 59 0.98
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (84 bp):
TAAACAGAAGCTCAAAAGAGCTAAACAGAAACACATAAGAGTTAAACAGAAGCTCATAAGAGCTA
AACAGAAACCCATAAAGGT
Found at i:2577388 original size:3 final size:3
Alignment explanation
Indices: 2577373--2577404 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
2577363 ATTAGTAATG
*
2577373 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2577405 GGACCATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2579216 original size:24 final size:23
Alignment explanation
Indices: 2579145--2579216 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 23
2579135 AAATATTAAT
2579145 TATTTATAAAATTTAATTAGAATA
1 TATTTATAAAATTTAATTA-AATA
** * *
2579169 TATAAATTATATTT-ATT-AAT-
1 TATTTATAAAATTTAATTAAATA
2579189 TATTTATAAAATTTAATTAAAATA
1 TATTTATAAAATTTAATT-AAATA
2579213 TATT
1 TATT
2579217 ATTTAAATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
20 10 0.28
21 6 0.17
23 6 0.17
24 14 0.39
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (23 bp):
TATTTATAAAATTTAATTAAATA
Found at i:2579224 original size:24 final size:23
Alignment explanation
Indices: 2579148--2579224 Score: 61
Period size: 24 Copynumber: 3.4 Consensus size: 23
2579138 TATTAATTAT
* *
2579148 TTATAAAATTTAATTAGAATATA
1 TTATTAAATTTAATTAAAATATA
* * *
2579171 TAAATTATATTT-ATT-AATTAT-
1 T-TATTAAATTTAATTAAAATATA
*
2579192 TTATAAAATTTAATTAAAATATA
1 TTATTAAATTTAATTAAAATATA
2579215 TTATTTAAAT
1 TTA-TTAAAT
2579225 ATAACCATTA
Statistics
Matches: 39, Mismatches: 10, Indels: 9
0.67 0.17 0.16
Matches are distributed among these distances:
20 7 0.18
21 4 0.10
22 9 0.23
23 7 0.18
24 12 0.31
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (23 bp):
TTATTAAATTTAATTAAAATATA
Found at i:2582957 original size:22 final size:24
Alignment explanation
Indices: 2582931--2582974 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2582921 GAAAAATATT
2582931 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
2582953 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
2582975 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:2583187 original size:22 final size:23
Alignment explanation
Indices: 2583152--2583214 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
2583142 ATTAACAATT
*
2583152 AATAATTTGATAATTTTACT-AACA
1 AATAATTT--TAATTTTACTAAAAA
* * *
2583176 ATTAGTTTTAATTTTATTAAAAA
1 AATAATTTTAATTTTACTAAAAA
2583199 AATAATTTTAATTTTA
1 AATAATTTTAATTTTA
2583215 ATTAAAAACG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 9 0.28
23 17 0.53
24 6 0.19
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (23 bp):
AATAATTTTAATTTTACTAAAAA
Found at i:2585051 original size:21 final size:22
Alignment explanation
Indices: 2585022--2585062 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2585012 TCATGCCTTC
*
2585022 ATATCTAAAATAGAATATATAT
1 ATATCTAAAATAGAAAATATAT
*
2585044 ATAT-TAAATTAGAAAATAT
1 ATATCTAAAATAGAAAATAT
2585063 TCTATTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (22 bp):
ATATCTAAAATAGAAAATATAT
Found at i:2586412 original size:102 final size:103
Alignment explanation
Indices: 2586217--2586400 Score: 250
Period size: 102 Copynumber: 1.8 Consensus size: 103
2586207 TGCATTAAAA
* * * *
2586217 TATAATTTTTTAATATATATATATGAAAAATAACATGAATACAAAATAAACATTAAAATTTCTCA
1 TATAATATTTTAAAAAATATATATGAAAAATAACATGAATACAAAATAAACATTAAAATGTCTCA
** *
2586282 AGATTTATATAAAATAAATTTTCATGTTTTTTTAAATT
66 AGAAATATACAAAATAAATTTTCATGTTTTTTTAAATT
* * *
2586320 TATAATATTTTAAAAAAT-TATATGAAAAATGATATGAATACAAAATAAATATTAAAATGTCT-A
1 TATAATATTTTAAAAAATATATATGAAAAATAACATGAATACAAAATAAACATTAAAATGTCTCA
2586383 A-AAAT-TACAAAATAAATT
66 AGAAATATACAAAATAAATT
2586401 ATTAGTGTGT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
99 12 0.17
100 2 0.03
101 2 0.03
102 40 0.56
103 15 0.21
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (103 bp):
TATAATATTTTAAAAAATATATATGAAAAATAACATGAATACAAAATAAACATTAAAATGTCTCA
AGAAATATACAAAATAAATTTTCATGTTTTTTTAAATT
Found at i:2588144 original size:16 final size:17
Alignment explanation
Indices: 2588118--2588149 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2588108 TTTAATTAAC
2588118 TAAATTAATTTCTCAAT
1 TAAATTAATTTCTCAAT
2588135 TAAA-TAATTTCTCAA
1 TAAATTAATTTCTCAA
2588150 CTCAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTAATTTCTCAAT
Found at i:2588906 original size:15 final size:15
Alignment explanation
Indices: 2588886--2588914 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2588876 CTAATTGCTA
2588886 TAAATTTTTAATTAG
1 TAAATTTTTAATTAG
2588901 TAAATTTTTAATTA
1 TAAATTTTTAATTA
2588915 ACCAAAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TAAATTTTTAATTAG
Found at i:2593093 original size:30 final size:30
Alignment explanation
Indices: 2593057--2593114 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2593047 TTTACATTTT
*
2593057 TGGAAAGCTAATTGCCTAACAACCTAGTAG
1 TGGAAAGCTAATAGCCTAACAACCTAGTAG
**
2593087 TGGAAAGCTTGTAGCCTAACAACCTAGT
1 TGGAAAGCTAATAGCCTAACAACCTAGT
2593115 TTCCACAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (30 bp):
TGGAAAGCTAATAGCCTAACAACCTAGTAG
Found at i:2594573 original size:18 final size:18
Alignment explanation
Indices: 2594525--2594574 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 18
2594515 TATCCAAAAT
2594525 TATTAAAATAATATTAAA
1 TATTAAAATAATATTAAA
2594543 TATTATATTAATAATATTAAA
1 TATTA-A--AATAATATTAAA
2594564 T-TTAAGAATAA
1 TATTAA-AATAA
2594575 ATAATGTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.36
19 2 0.07
20 3 0.11
21 13 0.46
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
TATTAAAATAATATTAAA
Found at i:2595283 original size:71 final size:71
Alignment explanation
Indices: 2595167--2595308 Score: 257
Period size: 71 Copynumber: 2.0 Consensus size: 71
2595157 TGATTCCAAT
* *
2595167 AAGTTGAAACCCAATTAAATGAGTAGTACGAATTTGATTGAATAAATAATTTCAACTCAATCAAA
1 AAGTTGAAACCCAATTAAATGAATAGTACGAATTTAATTGAATAAATAATTTCAACTCAATCAAA
2595232 TTCAAA
66 TTCAAA
*
2595238 AAGTTGAAACCCAATTGAATGAATAGTACGAATTTAATTGAATAAATAATTTCAACTCAATCAAA
1 AAGTTGAAACCCAATTAAATGAATAGTACGAATTTAATTGAATAAATAATTTCAACTCAATCAAA
2595303 TTCAAA
66 TTCAAA
2595309 TGAATTTGGT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.30
Consensus pattern (71 bp):
AAGTTGAAACCCAATTAAATGAATAGTACGAATTTAATTGAATAAATAATTTCAACTCAATCAAA
TTCAAA
Found at i:2595834 original size:21 final size:22
Alignment explanation
Indices: 2595810--2595864 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
2595800 ATCCGAATAT
*
2595810 TTTTATTTTAAATTTATTGT-A
1 TTTTATTTTAAATTAATTGTAA
** *
2595831 TTTTATAATAAATTAATTTTAA
1 TTTTATTTTAAATTAATTGTAA
2595853 TTTTAATTTTAA
1 TTTT-ATTTTAA
2595865 TCGATAAGAC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 16 0.62
22 5 0.19
23 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTATTTTAAATTAATTGTAA
Found at i:2596562 original size:22 final size:22
Alignment explanation
Indices: 2596521--2596563 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2596511 GTTATACAAG
* *
2596521 AACAACAAAATAGTAGCAAAAA
1 AACAACAAAATAGCAACAAAAA
*
2596543 AACAAGAAAATAGCAACAAAA
1 AACAACAAAATAGCAACAAAA
2596564 CAGTAAAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.70, C:0.14, G:0.09, T:0.07
Consensus pattern (22 bp):
AACAACAAAATAGCAACAAAAA
Found at i:2604359 original size:16 final size:18
Alignment explanation
Indices: 2604325--2604362 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2604315 ATATTTATTT
*
2604325 AAATAAAATATAATGGTA
1 AAATAAAATATAATAGTA
2604343 AAATAAAATA-AA-AGTA
1 AAATAAAATATAATAGTA
2604359 AAAT
1 AAAT
2604363 CACTATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 2 0.11
18 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (18 bp):
AAATAAAATATAATAGTA
Found at i:2605277 original size:23 final size:23
Alignment explanation
Indices: 2605251--2605304 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
2605241 AGGTGGGAGT
*
2605251 TTCAACACTTTACACGTGTTATA
1 TTCAACACTATACACGTGTTATA
*** **
2605274 TTCAGTGCTATATGCGTGTTATA
1 TTCAACACTATACACGTGTTATA
2605297 TTCAACAC
1 TTCAACAC
2605305 CTCGTACATG
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (23 bp):
TTCAACACTATACACGTGTTATA
Found at i:2614211 original size:23 final size:23
Alignment explanation
Indices: 2614166--2614230 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
2614156 GTTTAAGTTC
*
2614166 ACGAACATGTTCATTTAAC-TTAA
1 ACGAACATGTTCA-TGAACATTAA
* *
2614189 TCGAACATGTTCACGAACATTAA
1 ACGAACATGTTCATGAACATTAA
*
2614212 ACAAACATGTTCATGAACA
1 ACGAACATGTTCATGAACA
2614231 ATGTTAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 3 0.09
23 32 0.91
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.28
Consensus pattern (23 bp):
ACGAACATGTTCATGAACATTAA
Found at i:2614859 original size:20 final size:20
Alignment explanation
Indices: 2614834--2614873 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2614824 ATAATCATAA
*
2614834 AGATCAGGTCTAGTTTGCTC
1 AGATCAGGTCTAATTTGCTC
2614854 AGATCAGGTCTAATTTGCTC
1 AGATCAGGTCTAATTTGCTC
2614874 TATATGCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (20 bp):
AGATCAGGTCTAATTTGCTC
Found at i:2615179 original size:15 final size:16
Alignment explanation
Indices: 2615156--2615188 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2615146 GTTTACCACT
*
2615156 TACTTCCAC-AAACTC
1 TACTACCACAAAACTC
2615171 TACTACCACAAAACTC
1 TACTACCACAAAACTC
2615187 TA
1 TA
2615189 TTTCCATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.24
Consensus pattern (16 bp):
TACTACCACAAAACTC
Found at i:2616961 original size:9 final size:9
Alignment explanation
Indices: 2616947--2616975 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
2616937 TTATTTTATT
2616947 TTTAAAATA
1 TTTAAAATA
2616956 TTTAAAATA
1 TTTAAAATA
2616965 TTTAAAATA
1 TTTAAAATA
2616974 TT
1 TT
2616976 AATATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTAAAATA
Found at i:2617050 original size:26 final size:26
Alignment explanation
Indices: 2617021--2617103 Score: 73
Period size: 29 Copynumber: 3.1 Consensus size: 26
2617011 TACATATTTG
*
2617021 ATTATTTATATTTAGT-TATATAATAA
1 ATTATTTATATTTAATAT-TATAATAA
*
2617047 ATTATTAATATATTTTAATATTTTAATAA
1 ATTATT--TATA-TTTAATATTATAATAA
*
2617076 ATTATTTAATATTTTA-ATT-TAATAA
1 ATTATTT-ATATTTAATATTATAATAA
2617101 ATT
1 ATT
2617104 TTAAAAATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
25 9 0.18
26 9 0.18
27 5 0.10
28 7 0.14
29 18 0.37
30 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (26 bp):
ATTATTTATATTTAATATTATAATAA
Found at i:2617453 original size:22 final size:23
Alignment explanation
Indices: 2617428--2617472 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2617418 AAAATTGAAT
* *
2617428 CATAA-ATTATTAAGGTTTAAAG
1 CATAATATTATAAAAGTTTAAAG
*
2617450 CATAATTTTATAAAAGTTTAAAG
1 CATAATATTATAAAAGTTTAAAG
2617473 GATTAAACGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (23 bp):
CATAATATTATAAAAGTTTAAAG
Found at i:2627401 original size:20 final size:18
Alignment explanation
Indices: 2627371--2627418 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
2627361 TTATTTGTAT
*
2627371 AATATTTTAAACTTTTACA
1 AATATTATAAACTTTTA-A
*
2627390 AAGTATTATAAATTTTTAA
1 AA-TATTATAAACTTTTAA
2627409 AAT-TTATAAA
1 AATATTATAAA
2627419 TATAAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 1 0.04
19 5 0.19
20 13 0.50
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (18 bp):
AATATTATAAACTTTTAA
Found at i:2643530 original size:4 final size:4
Alignment explanation
Indices: 2643521--2643547 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2643511 GGCTTTAATG
2643521 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
2643548 ATTTGGCGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:2644061 original size:40 final size:42
Alignment explanation
Indices: 2643975--2644062 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 42
2643965 TTTATTATAT
* * ***
2643975 TTTATATATATTAATTGTTTTTTATCATAAAAGTTTAACTTT
1 TTTATATATATTAATTGTTTTTTACCATAAAAGATTAACGAA
* *
2644017 TTTAT-TATGTTAATTGTTTTTTACCATAAAA-ATTATCGAA
1 TTTATATATATTAATTGTTTTTTACCATAAAAGATTAACGAA
2644057 TTTATA
1 TTTATA
2644063 AATGAAGGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
40 9 0.24
41 24 0.63
42 5 0.13
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (42 bp):
TTTATATATATTAATTGTTTTTTACCATAAAAGATTAACGAA
Found at i:2651582 original size:62 final size:59
Alignment explanation
Indices: 2651516--2651644 Score: 136
Period size: 62 Copynumber: 2.1 Consensus size: 59
2651506 AAGTAACAAA
* *
2651516 AAAAAAACAAAATTA-AATAGTTGAAT-GATAATTTTATAATTTTTTAATAGTTAAGTGATCAG
1 AAAAAAA-AAAATTACAATAGTTGAATGGACAA-TTTATAA-TTTTTAATAATTAAGTGAT--G
* * * *
2651578 AAAAAAAAAATTTACTGATAGTTGAATGGCCAATTTATAATTTTTCATAATTAAGTGATG
1 AAAAAAAAAAATTAC-AATAGTTGAATGGACAATTTATAATTTTTAATAATTAAGTGATG
2651638 AAAAAAA
1 AAAAAAA
2651645 TTGAAGAGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
60 8 0.14
61 6 0.10
62 24 0.41
63 17 0.29
64 3 0.05
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (59 bp):
AAAAAAAAAAATTACAATAGTTGAATGGACAATTTATAATTTTTAATAATTAAGTGATG
Found at i:2652351 original size:17 final size:17
Alignment explanation
Indices: 2652309--2652341 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2652299 TAAAAAATTA
2652309 TTTTAATTTTTAGTTTC
1 TTTTAATTTTTAGTTTC
2652326 TTTTAATTTTTAGTTT
1 TTTTAATTTTTAGTTT
2652342 TATATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTTAATTTTTAGTTTC
Found at i:2652480 original size:18 final size:18
Alignment explanation
Indices: 2652457--2652491 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2652447 AAAAATATTT
2652457 TTATATTTTTAATAATTC
1 TTATATTTTTAATAATTC
2652475 TTATATTTTTAATAATT
1 TTATATTTTTAATAATT
2652492 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATATTTTTAATAATTC
Found at i:2652493 original size:27 final size:25
Alignment explanation
Indices: 2652451--2652510 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 25
2652441 TTTAAAAAAA
2652451 ATATTTTTAT-ATTTTTAATAATTCTT
1 ATATTTTTATAATTTTTAA-AATT-TT
2652477 ATATTTTTAATAATTTTTTAAAATTTT
1 ATATTTTT-ATAA-TTTTTAAAATTTT
2652504 ATATTTT
1 ATATTTT
2652511 AAAAAATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 8 0.26
27 11 0.35
28 5 0.16
29 7 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
ATATTTTTATAATTTTTAAAATTTT
Found at i:2652518 original size:27 final size:29
Alignment explanation
Indices: 2652462--2652518 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
2652452 TATTTTTATA
* *
2652462 TTTTTAATAATTCTTATATTTTTAATAAT
1 TTTTTAATAATTCTTATATTTTAAAAAAT
2652491 TTTTTAA-AATT-TTATATTTTAAAAAAT
1 TTTTTAATAATTCTTATATTTTAAAAAAT
2652518 T
1 T
2652519 AATTAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 15 0.58
28 4 0.15
29 7 0.27
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTTTAATAATTCTTATATTTTAAAAAAT
Found at i:2652524 original size:27 final size:29
Alignment explanation
Indices: 2652465--2652525 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 29
2652455 TTTTATATTT
* * **
2652465 TTAATAATTCTTATATTTTTAATAATTTT
1 TTAATAATTCTTATATTTTAAAAAATTAA
2652494 TTAA-AATT-TTATATTTTAAAAAATTAA
1 TTAATAATTCTTATATTTTAAAAAATTAA
2652521 TTAAT
1 TTAAT
2652526 TATTAATGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 19 0.70
28 4 0.15
29 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAATAATTCTTATATTTTAAAAAATTAA
Found at i:2657178 original size:15 final size:15
Alignment explanation
Indices: 2657154--2657191 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
2657144 AATATGATAC
2657154 AAAC-GTACAACTAG
1 AAACAGTACAACTAG
*
2657168 AAACAGTACAACTGG
1 AAACAGTACAACTAG
2657183 AAACAGTAC
1 AAACAGTAC
2657192 TTTCACATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (15 bp):
AAACAGTACAACTAG
Found at i:2659356 original size:18 final size:19
Alignment explanation
Indices: 2659333--2659369 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2659323 ACATAAGAAA
2659333 TGAATGT-TAGTTGAAAAG
1 TGAATGTATAGTTGAAAAG
2659351 TGAATGTGATAGTTGAAAA
1 TGAATGT-ATAGTTGAAAA
2659370 TAAACCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (19 bp):
TGAATGTATAGTTGAAAAG
Found at i:2661203 original size:21 final size:21
Alignment explanation
Indices: 2661178--2661219 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2661168 TATTTTTAAA
*
2661178 TTTATTTTTTAA-AATATTTAT
1 TTTATTATTTAATAAT-TTTAT
2661199 TTTATTATTTAATAATTTTAT
1 TTTATTATTTAATAATTTTAT
2661220 ACATTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATTATTTAATAATTTTAT
Found at i:2662831 original size:12 final size:11
Alignment explanation
Indices: 2662804--2662833 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
2662794 TACAAAAATA
2662804 TAAAAATTCAT
1 TAAAAATTCAT
2662815 TAAAAATTCAT
1 TAAAAATTCAT
2662826 TAAAAATT
1 TAAAAATT
2662834 ATAACAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (11 bp):
TAAAAATTCAT
Found at i:2663121 original size:25 final size:25
Alignment explanation
Indices: 2663058--2663121 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
2663048 TCCTTAATGA
*
2663058 TTTTAATGAATATTATTGTTTTTCAT
1 TTTTAATGAAT-TTATTGTTTTTAAT
* *
2663084 TTTAAATAAATTTATT-TTTTATAAT
1 TTTTAATGAATTTATTGTTTT-TAAT
*
2663109 TTTTAATGGATTT
1 TTTTAATGAATTT
2663122 CATGAATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 4 0.13
25 18 0.58
26 9 0.29
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (25 bp):
TTTTAATGAATTTATTGTTTTTAAT
Found at i:2667081 original size:37 final size:37
Alignment explanation
Indices: 2667011--2667122 Score: 123
Period size: 33 Copynumber: 3.2 Consensus size: 37
2667001 AACTATAAAG
2667011 GCCGAATGC--ACATAT-T-CACTTATACCCACCTAT
1 GCCGAATGCATACATATATACACTTATACCCACCTAT
* * *
2667044 GCCGAATGCATACATATATACACTTATATCTATCTAT
1 GCCGAATGCATACATATATACACTTATACCCACCTAT
* *
2667081 GCCGAATGCATACA-A-ATATA--TATATCCACCTAT
1 GCCGAATGCATACATATATACACTTATACCCACCTAT
2667114 GCCGAATGC
1 GCCGAATGC
2667123 CTAAATATGC
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
33 29 0.42
35 10 0.14
36 2 0.03
37 28 0.41
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.29
Consensus pattern (37 bp):
GCCGAATGCATACATATATACACTTATACCCACCTAT
Found at i:2667452 original size:82 final size:82
Alignment explanation
Indices: 2667315--2667477 Score: 317
Period size: 82 Copynumber: 2.0 Consensus size: 82
2667305 TCATATTCTG
*
2667315 ATCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
2667380 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
2667397 ATCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
1 ATCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
2667462 TTTATAACCTGATTCA
66 TTTATAACCTGATTCA
2667478 ATTCACCAAT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (82 bp):
ATCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:2667478 original size:41 final size:41
Alignment explanation
Indices: 2667315--2667484 Score: 259
Period size: 41 Copynumber: 4.1 Consensus size: 41
2667305 TCATATTCTG
* * *
2667315 ATCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAA
* *
2667356 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAA
* *
2667397 ATCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAA
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAA
*
2667438 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAA
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAA
*
2667479 TTCACC
1 ATCACC
2667485 AATTCCAAAC
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 117 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (41 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAA
Found at i:2667739 original size:15 final size:17
Alignment explanation
Indices: 2667698--2667741 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
2667688 TTGTTCGATC
2667698 CACATATATATATTACA
1 CACATATATATATTACA
*
2667715 CACATATATATATT-CG
1 CACATATATATATTACA
2667731 CACAT-TATATA
1 CACATATATATA
2667742 AACACAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 14 0.54
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (17 bp):
CACATATATATATTACA
Found at i:2671969 original size:3 final size:3
Alignment explanation
Indices: 2671961--2672038 Score: 56
Period size: 3 Copynumber: 26.3 Consensus size: 3
2671951 TTACTCTCGC
** *
2671961 TAT TAT TAT TAT TA- TAT CTGA- TAT TGC TAT TAT TAT T-G TAT TAT
1 TAT TAT TAT TAT TAT TAT -T-AT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2672005 TAT TACT TA- TGT TAT TAT TAT TAT TAC TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2672039 TGCTCATTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
2 5 0.09
3 48 0.83
4 4 0.07
5 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:2676915 original size:50 final size:50
Alignment explanation
Indices: 2676795--2677043 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
2676785 GATAATAACA
* * * ** * *
2676795 TGCCAAAGCCATGTCCCAGGCATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
2676846 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
2676896 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
2676946 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
2677001 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
2677044 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.54
51 32 0.19
53 3 0.02
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:2676974 original size:100 final size:104
Alignment explanation
Indices: 2676794--2677043 Score: 330
Period size: 100 Copynumber: 2.4 Consensus size: 104
2676784 TGATAATAAC
* ** *
2676794 ATGCCAAAGCCATGTCCCAGGCATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATGATGGTGCCCATGCCATG
* *
2676859 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* * *
2676896 -TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCAT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGAT-GGTGCCCATGCCATG
2676959 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
2677001 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
2677044 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.38
101 34 0.26
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:2677159 original size:13 final size:13
Alignment explanation
Indices: 2677138--2677169 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2677128 GCTTGGATCA
*
2677138 TCATCAAATAAAT
1 TCATAAAATAAAT
2677151 TCATAAAATAAAT
1 TCATAAAATAAAT
2677164 TCATAA
1 TCATAA
2677170 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:2677416 original size:30 final size:30
Alignment explanation
Indices: 2677381--2677438 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2677371 CCTCGACTCT
*
2677381 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
2677411 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
2677439 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:2678428 original size:21 final size:22
Alignment explanation
Indices: 2678404--2678444 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2678394 AAGTTTGAGG
*
2678404 AAGATTGAAGAG-TTGAAGAAA
1 AAGATAGAAGAGCTTGAAGAAA
*
2678425 AAGATAGGAGAGCTTGAAGA
1 AAGATAGAAGAGCTTGAAGA
2678445 CGTACTGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.49, C:0.02, G:0.32, T:0.17
Consensus pattern (22 bp):
AAGATAGAAGAGCTTGAAGAAA
Found at i:2686491 original size:108 final size:108
Alignment explanation
Indices: 2686287--2686506 Score: 278
Period size: 108 Copynumber: 2.0 Consensus size: 108
2686277 AGGGCACCTG
* * * * * *
2686287 TTTTCATCTCATTCATTTTGTATCTTAGCAAAATTTGCTATTTTGGCTATTTTATTCATTTCGAT
1 TTTTAATCTCATTCATTTTGAATATTAGCAAAATTTGCTATTTTGACTAATTTATTCATTTCGAG
* * * *
2686352 CTTTGTTATCAGTAAAATTTCATCTTATCCATTGTGATAATCC
66 CCTTATTATCAATAAAATTCCATCTTATCCATTGTGATAATCC
* * *
2686395 TTTTAATCTTATTCATTTTGAATATTAGCAAAATTTGCTATTTTGATTAATTTATTCATTTTGAG
1 TTTTAATCTCATTCATTTTGAATATTAGCAAAATTTGCTATTTTGACTAATTTATTCATTTCGAG
* * * * *
2686460 CCTTATTCTCAATACAATTCCATCTTGTCCATTTTGATAATCT
66 CCTTATTATCAATAAAATTCCATCTTATCCATTGTGATAATCC
2686503 TTTT
1 TTTT
2686507 CAAGCATTTC
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
108 94 1.00
ACGTcount: A:0.25, C:0.15, G:0.08, T:0.51
Consensus pattern (108 bp):
TTTTAATCTCATTCATTTTGAATATTAGCAAAATTTGCTATTTTGACTAATTTATTCATTTCGAG
CCTTATTATCAATAAAATTCCATCTTATCCATTGTGATAATCC
Found at i:2687427 original size:44 final size:44
Alignment explanation
Indices: 2687318--2687999 Score: 526
Period size: 44 Copynumber: 15.7 Consensus size: 44
2687308 AAGACGGCGA
* * ** * ***
2687318 ATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
* * *
2687362 -TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
* * * *
2687405 ATCTTATCTCTCTAAGTAGTAGTGGAGCAGATCGAAGACGG-CG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
* * * ** * ***
2687448 AATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAG
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
* * *
2687493 -TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
* * * *
2687536 ATCTTATCTCTCTAAGTAGTAGTGGAGCAGATCGAAGACGG-CG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
* * ** * ***
2687579 AATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
* * * *
2687624 -TCCTATCTCCCTAAACAGTAGTGGAGCAGGTCAAAGATGGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
* * *
2687667 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGG-CG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
* * ** * ***
2687710 AATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
* * *
2687755 -TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
* * * *
2687798 ATCTTATCTCTCTAAGTAGTAGTGGAGCAGATTAAAGACGG-CG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
* * ** * ***
2687841 AATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
* * * *
2687886 -TCCTATCTCCCTAAACAGTAGTGGAGCAGGTCAAAGATGGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
* ** * *
2687929 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCA-TC--AAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
*
2687970 -TCTTATCTCCCTAAGCAGTAGCGGAGCAGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
2688000 CAGAAAAAAC
Statistics
Matches: 489, Mismatches: 136, Indels: 30
0.75 0.21 0.05
Matches are distributed among these distances:
40 28 0.06
41 2 0.00
43 161 0.33
44 294 0.60
45 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAG
Found at i:2687500 original size:87 final size:87
Alignment explanation
Indices: 2687409--2687873 Score: 357
Period size: 87 Copynumber: 5.3 Consensus size: 87
2687399 TGGTAGATCT
* *
2687409 TATCTCTCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
* *
2687474 AGTAGATTTAAGCCACCAGTCC
66 AGCAGATCTAAGCCACCAGTCC
* * * * *
2687496 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGG-TAGATCTTATC-TCTCTAAGTAGTAGT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA-ATCTTATCTTC-CTAAGCAGTAGT
* * ** * * *
2687559 GGAGCAGATCGAAGACGGCGAATCT
64 GAAGCAGATCTAAG-CCACCAGTCC
* * ** ** * * * * * *
2687584 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAG-CCACCAGTCCTATCTCCCTAAACAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
* * ***** *
2687648 AGCAGGTCAAAGATGGTAGATCT
66 AGCAGATCTAAGCCACCAG-TCC
*
2687671 TATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
*
2687736 AGCAGATTTAAGCCACCAGTCC
66 AGCAGATCTAAGCCACCAGTCC
* * * * *
2687758 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGG-TAGATCTTATC-TCTCTAAGTAGTAGT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA-ATCTTATCTTC-CTAAGCAGTAGT
* ** * * *
2687821 GGAGCAGAT-TAAAGACGGCGAATCT
64 GAAGCAGATCT-AAG-CCACCAGTCC
* *
2687846 TATCTTCCTAAGCAGTAGTGAAGCAGAT
1 TATCTCCCTAAGCAGTAGTGGAGCAGAT
2687874 TTAAGCCACC
Statistics
Matches: 293, Mismatches: 74, Indels: 21
0.76 0.19 0.05
Matches are distributed among these distances:
86 9 0.03
87 185 0.63
88 99 0.34
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (87 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
AGCAGATCTAAGCCACCAGTCC
Found at i:2687533 original size:131 final size:131
Alignment explanation
Indices: 2687299--2687962 Score: 1256
Period size: 131 Copynumber: 5.1 Consensus size: 131
2687289 TTGGCAGCGA
*
2687299 AGCAGATTGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
1 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
2687364 CTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGTAGTAGTG
66 CTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGTAGTAGTG
2687429 G
131 G
*
2687430 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAGTC
1 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
2687495 CTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGTAGTAGTG
66 CTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGTAGTAGTG
2687560 G
131 G
2687561 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
1 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
* *
2687626 CTATCTCCCTAAACAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGTAGTAGTG
66 CTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGTAGTAGTG
2687691 G
131 G
2687692 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
1 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
2687757 CTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGTAGTAGTG
66 CTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGTAGTAGTG
2687822 G
131 G
**
2687823 AGCAGATTAAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
1 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
* *
2687888 CTATCTCCCTAAACAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGTAGTAGTG
66 CTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGTAGTAGTG
2687953 G
131 G
2687954 AGCAGATCG
1 AGCAGATCG
2687963 CATCAAGTCT
Statistics
Matches: 520, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 520 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (131 bp):
AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
CTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGTAGTAGTG
G
Found at i:2689644 original size:18 final size:17
Alignment explanation
Indices: 2689623--2689691 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 17
2689613 TTACTCTCGC
2689623 TATTATTATTA-TATCTG
1 TATTATTATTACTAT-TG
** *
2689640 ATATTGCTATTATTATTG
1 -TATTATTATTACTATTG
2689658 TATTATTATTACT-TATG
1 TATTATTATTACTAT-TG
2689675 TTATTATTATTACTATT
1 -TATTATTATTACTATT
2689692 ATTTGCTCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 1 0.02
17 12 0.29
18 25 0.60
19 4 0.10
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (17 bp):
TATTATTATTACTATTG
Found at i:2694237 original size:23 final size:23
Alignment explanation
Indices: 2694207--2694252 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
2694197 ATTTTATAAC
*
2694207 TTTTTTTATTTATCAAAATATAT
1 TTTTTTTATTTACCAAAATATAT
2694230 TTTTTTTATTTACCAAAATATAT
1 TTTTTTTATTTACCAAAATATAT
2694253 AAAAAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTTTTATTTACCAAAATATAT
Found at i:2694343 original size:27 final size:27
Alignment explanation
Indices: 2694313--2694377 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
2694303 CGCCAATGGG
2694313 ATTGGCGGCACCAAAGGTACCAA-AGCC
1 ATTGGCGGCACCAAAGGTACCAATA-CC
* *
2694340 ATTGGCGGCACCAATGGTTCCAATACC
1 ATTGGCGGCACCAAAGGTACCAATACC
2694367 ATTGGCGGCAC
1 ATTGGCGGCAC
2694378 TACTCGGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.28, C:0.29, G:0.26, T:0.17
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTACCAATACC
Found at i:2694542 original size:19 final size:21
Alignment explanation
Indices: 2694504--2694542 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
2694494 AATAATTGAT
*
2694504 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
2694525 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
2694543 TTGTTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:2694604 original size:3 final size:3
Alignment explanation
Indices: 2694588--2694640 Score: 88
Period size: 3 Copynumber: 17.3 Consensus size: 3
2694578 AAAATAATAG
*
2694588 TAT TAGT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2694634 TAT TAT T
1 TAT TAT T
2694641 GTTGTTGTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2694645 original size:3 final size:3
Alignment explanation
Indices: 2694639--2694682 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
2694629 ATTATTATTA
*
2694639 TTG TTG TTG TTG TTG TTA TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
2694683 AGTATTAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.02, C:0.00, G:0.30, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:2695477 original size:18 final size:18
Alignment explanation
Indices: 2695454--2695498 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
2695444 TTGACATGGT
*
2695454 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
2695472 TGGTGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
2695490 TGGTGGCGA
1 TGGTGGCGA
2695499 TCATTGGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.29, C:0.04, G:0.51, T:0.16
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:2702394 original size:22 final size:22
Alignment explanation
Indices: 2702369--2702419 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 22
2702359 TATTTTGAGG
*
2702369 AATTTAATCTCTCTACTTTTTA
1 AATTTAATCTCTCTACTTTCTA
2702391 AATTTTTAATCTCTCTACTTTCTA
1 AA--TTTAATCTCTCTACTTTCTA
2702415 AATTT
1 AATTT
2702420 TAAAATGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 5 0.19
24 21 0.81
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTTAATCTCTCTACTTTCTA
Found at i:2703666 original size:15 final size:16
Alignment explanation
Indices: 2703634--2703674 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
2703624 ATCTTTATAC
*
2703634 TTTA-ATTTTGTTATT
1 TTTAGATTTTGTTAAT
2703649 TTTAGATTTT-TTAAT
1 TTTAGATTTTGTTAAT
2703664 TTTAGAATTTT
1 TTTAG-ATTTT
2703675 AAAATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (16 bp):
TTTAGATTTTGTTAAT
Found at i:2707386 original size:33 final size:33
Alignment explanation
Indices: 2707349--2707601 Score: 109
Period size: 33 Copynumber: 7.4 Consensus size: 33
2707339 CGGTGGATTT
2707349 AGCACTTAGCAACCACCAATGATTCGGGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
* *
2707382 AGCACTTAGCAACCCCTTTCTCATTCAAAGATAT-GGTGGAATC
1 AGCACTTAGCAA-------C-CA-CCAATGAT-TCGG-GGAATC
* *
2707425 AGCACTTAGCAACCACCAGTGATTCGGAGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
*
2707458 AGCACTTAGCAACC-CC-----TTAGGGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
* *
2707485 AGCACTTAGCAATC-CC-TTGA----GGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
* * *
2707512 AACACTTAGCAACCCCCTTTATATTCAAAGATACGGTGGAATC
1 AGCACTTAGCAACCACC---A-A-T----GATTCGG-GGAATC
* *
2707555 AGCACTTAGCATCCACCAATGAGTCGGGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
*
2707588 AGAACTTAGCAACC
1 AGCACTTAGCAACC
2707602 CCTTGGGGGA
Statistics
Matches: 169, Mismatches: 19, Indels: 64
0.67 0.08 0.25
Matches are distributed among these distances:
27 43 0.25
28 2 0.01
32 2 0.01
33 50 0.30
34 13 0.08
35 2 0.01
36 1 0.01
38 3 0.02
39 1 0.01
40 2 0.01
41 2 0.01
42 9 0.05
43 39 0.23
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.21
Consensus pattern (33 bp):
AGCACTTAGCAACCACCAATGATTCGGGGAATC
Found at i:2707483 original size:27 final size:27
Alignment explanation
Indices: 2707419--2707527 Score: 121
Period size: 27 Copynumber: 3.8 Consensus size: 27
2707409 AAGATATGGT
*
2707419 GGAATCAGCACTTAGCAACCACCAGTGATTCG
1 GGAATCAGCACTTAGCAACC-CC-TTGA---G
2707451 GAGAATCAGCACTTAGCAACCCCTT-AGG
1 G-GAATCAGCACTTAGCAACCCCTTGA-G
*
2707479 GGAATCAGCACTTAGCAATCCCTTGAG
1 GGAATCAGCACTTAGCAACCCCTTGAG
*
2707506 GGAATCAACACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
2707528 CTTTATATTC
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
27 43 0.61
28 3 0.04
30 1 0.01
31 1 0.01
32 3 0.04
33 19 0.27
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.18
Consensus pattern (27 bp):
GGAATCAGCACTTAGCAACCCCTTGAG
Found at i:2707611 original size:130 final size:130
Alignment explanation
Indices: 2707375--2707626 Score: 398
Period size: 130 Copynumber: 1.9 Consensus size: 130
2707365 CAATGATTCG
* * *
2707375 GGGAATCAGCACTTAGCAACCCCTTTCTCATTCAAAGATATGGTGGAATCAGCACTTAGCAACCA
1 GGGAATCAACACTTAGCAACCCCTTTATCATTCAAAGATACGGTGGAATCAGCACTTAGCAACCA
* * * *
2707440 CCAGTGATTCGGAGAATCAGCACTTAGCAACCCCTTAGGGGAATCAGCACTTAGCAATCCCTTGA
66 CCAATGAGTCGGAGAATCAGAACTTAGCAACCCCTTAGGGGAATCAGAACTTAGCAATCCCTTGA
*
2707505 GGGAATCAACACTTAGCAACCCCCTTTAT-ATTCAAAGATACGGTGGAATCAGCACTTAGCATCC
1 GGGAATCAACACTTAGCAA-CCCCTTTATCATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
2707569 ACCAATGAGTCGGGGAATCAGAACTTAGCAACCCCTTGGGGGAATCAGAACTTAGCAA
65 ACCAATGAGTCGGAGAATCAGAACTTAGCAACCCCTTAGGGGAATCAGAACTTAGCAA
2707627 CCCCCTTTAT
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
130 103 0.93
131 8 0.07
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (130 bp):
GGGAATCAACACTTAGCAACCCCTTTATCATTCAAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAGTCGGAGAATCAGAACTTAGCAACCCCTTAGGGGAATCAGAACTTAGCAATCCCTTGA
Found at i:2713819 original size:24 final size:21
Alignment explanation
Indices: 2713789--2713833 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 21
2713779 ACAAGTAATT
2713789 TTAAAAATATAAAATATTCAAAAA
1 TTAAAAAT-TAAAA-ATT-AAAAA
2713813 TTAAAAATTAAAAATTAAAAA
1 TTAAAAATTAAAAATTAAAAA
2713834 CAACTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 3 0.14
23 5 0.24
24 8 0.38
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TTAAAAATTAAAAATTAAAAA
Found at i:2713825 original size:6 final size:7
Alignment explanation
Indices: 2713789--2713833 Score: 63
Period size: 7 Copynumber: 6.0 Consensus size: 7
2713779 ACAAGTAATT
2713789 TTAAAAA
1 TTAAAAA
2713796 TATAAAATA
1 T-TAAAA-A
2713805 TTCAAAAA
1 TT-AAAAA
2713813 TTAAAAA
1 TTAAAAA
2713820 TTAAAAA
1 TTAAAAA
2713827 TTAAAAA
1 TTAAAAA
2713834 CAACTATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 20 0.57
8 9 0.26
9 6 0.17
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (7 bp):
TTAAAAA
Found at i:2739123 original size:20 final size:20
Alignment explanation
Indices: 2739085--2739124 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2739075 AATATTTTCT
* *
2739085 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
2739105 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
2739125 TTATTTTATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:2739132 original size:34 final size:35
Alignment explanation
Indices: 2739073--2739139 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
2739063 TAAACAGCAG
* *
2739073 AAAATATTTTCTAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTATAGAAAAGT
* *
2739108 AAAACATTTTCCAG-AAATTATTTTATGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTATAGAAAA
2739140 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.37
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTATAGAAAAGT
Found at i:2739235 original size:21 final size:22
Alignment explanation
Indices: 2739204--2739249 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
2739194 TTGAATTCAA
*
2739204 AACCTTAAAACCTCAAGCCTTG
1 AACCTTAAAACCTCAAGCATTG
*
2739226 AACC-TAAAACCTCGAGCATTG
1 AACCTTAAAACCTCAAGCATTG
2739247 AAC
1 AAC
2739250 ACCAAACACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.39, C:0.30, G:0.11, T:0.20
Consensus pattern (22 bp):
AACCTTAAAACCTCAAGCATTG
Found at i:2746873 original size:48 final size:48
Alignment explanation
Indices: 2746802--2746920 Score: 186
Period size: 48 Copynumber: 2.5 Consensus size: 48
2746792 TTATGGAAAA
* *
2746802 TTATATAAGTGCTATATAGGAGCAGTACAATATTGGTTTGAACTCGTG
1 TTATATAAGTGCTAGATAGGAGCAGTACAAGATTGGTTTGAACTCGTG
*
2746850 TTATATAAGTGCTAGATAGGAGCATTACAAGATTGGTTTGAACTCGTG
1 TTATATAAGTGCTAGATAGGAGCAGTACAAGATTGGTTTGAACTCGTG
*
2746898 TTATGTAAGTGTCT-GATAGGAGC
1 TTATATAAGTG-CTAGATAGGAGC
2746921 TTTAATAATC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
48 64 0.97
49 2 0.03
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.34
Consensus pattern (48 bp):
TTATATAAGTGCTAGATAGGAGCAGTACAAGATTGGTTTGAACTCGTG
Found at i:2749919 original size:22 final size:21
Alignment explanation
Indices: 2749892--2749934 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
2749882 AAAAACTATC
2749892 TCAAAATTAT-ACATGAATTTTG
1 TCAAAATT-TGACAT-AATTTTG
2749914 TCAAAATTTGACATAATTTTG
1 TCAAAATTTGACATAATTTTG
2749935 ATTCAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (21 bp):
TCAAAATTTGACATAATTTTG
Found at i:2758069 original size:21 final size:22
Alignment explanation
Indices: 2758045--2758090 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
2758035 TCCCTTTCTC
2758045 CTTTCTCTTCTAAGC-AATCTT
1 CTTTCTCTTCTAAGCAAATCTT
2758066 CTTTCTCTTCTAAGCAAATCTT
1 CTTTCTCTTCTAAGCAAATCTT
2758088 CTT
1 CTT
2758091 CCACATCCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.20, C:0.28, G:0.04, T:0.48
Consensus pattern (22 bp):
CTTTCTCTTCTAAGCAAATCTT
Found at i:2759802 original size:10 final size:10
Alignment explanation
Indices: 2759782--2759821 Score: 53
Period size: 10 Copynumber: 3.7 Consensus size: 10
2759772 GTAAGTAATG
2759782 ATTATTATTAT
1 ATTA-TATTAT
2759793 ATTATATTAT
1 ATTATATTAT
2759803 ATTATATATAT
1 ATTATAT-TAT
2759814 ATATATAT
1 AT-TATAT
2759822 ATGACAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 13 0.48
11 9 0.33
12 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTATATTAT
Found at i:2759889 original size:40 final size:40
Alignment explanation
Indices: 2759832--2759927 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
2759822 ATGACAAAGA
2759832 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
2759873 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
2759913 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
2759928 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:2763747 original size:18 final size:18
Alignment explanation
Indices: 2763724--2763759 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2763714 CAATTAAACC
2763724 ATTTGATTGATATATTTA
1 ATTTGATTGATATATTTA
* *
2763742 ATTTGATTTATTTATTTA
1 ATTTGATTGATATATTTA
2763760 TAAATAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTTGATTGATATATTTA
Found at i:2763839 original size:20 final size:20
Alignment explanation
Indices: 2763775--2763851 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 20
2763765 AAATCATTGC
*
2763775 AATATATGTAAAAATAATTT
1 AATATATGTAAAAACAATTT
* ** *
2763795 AA-A-ATATAAAAATTTATTA
1 AATATATGTAAAAA-CAATTT
2763814 ATATATATGTAAAAACAATTT
1 A-ATATATGTAAAAACAATTT
2763835 AATATATGTAAAAACAA
1 AATATATGTAAAAACAA
2763852 CTTTTCCGGA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
18 8 0.17
19 6 0.13
20 19 0.41
21 5 0.11
22 8 0.17
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (20 bp):
AATATATGTAAAAACAATTT
Found at i:2763944 original size:14 final size:15
Alignment explanation
Indices: 2763922--2763998 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
2763912 CAATCAAACA
2763922 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
2763936 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
2763951 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
2763971 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
*
2763985 CCGGAAAA-CATTTT
1 CCAGAAAATCATTTT
2763999 ACAGCCAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 23 0.45
15 14 0.27
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:2763963 original size:20 final size:20
Alignment explanation
Indices: 2763938--2763977 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2763928 AATATTTTCC
*
2763938 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
2763958 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
2763978 TCATTTTCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:2764778 original size:17 final size:15
Alignment explanation
Indices: 2764727--2764791 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 15
2764717 GTAAAAGTTG
* **
2764727 AAATAAAATAAATTA
1 AAATAAGATAAAAAA
2764742 AAATAA-A-AAAAAGA
1 AAATAAGATAAAAA-A
2764756 ATAATAAGAGTAAAAACA
1 A-AATAAGA-TAAAAA-A
2764774 AAATAAGATAAAAAA
1 AAATAAGATAAAAAA
2764789 AAA
1 AAA
2764792 AGACAAGACA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
13 3 0.07
14 3 0.07
15 15 0.36
16 7 0.17
17 7 0.17
18 7 0.17
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (15 bp):
AAATAAGATAAAAAA
Found at i:2764791 original size:15 final size:16
Alignment explanation
Indices: 2764741--2764791 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
2764731 AAAATAAATT
*
2764741 AAAATAA-A-AAAAAG
1 AAAATAAGATAAAAAC
2764755 AATAATAAGAGTAAAAAC
1 AA-AATAAGA-TAAAAAC
2764773 AAAATAAGATAAAAA-
1 AAAATAAGATAAAAAC
2764788 AAAA
1 AAAA
2764792 AGACAAGACA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
14 2 0.06
15 9 0.28
16 7 0.22
17 7 0.22
18 7 0.22
ACGTcount: A:0.78, C:0.02, G:0.08, T:0.12
Consensus pattern (16 bp):
AAAATAAGATAAAAAC
Found at i:2765005 original size:21 final size:20
Alignment explanation
Indices: 2764981--2765019 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2764971 TAAAATAAAT
2764981 AAAAATATAGAAACAAAATGA
1 AAAAATATAGAAA-AAAATGA
*
2765002 AAAAATATATAAAAAAAT
1 AAAAATATAGAAAAAAAT
2765020 ATACTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAAATATAGAAAAAAATGA
Found at i:2765018 original size:12 final size:13
Alignment explanation
Indices: 2765001--2765030 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
2764991 AAACAAAATG
2765001 AAAAAATATA-TA
1 AAAAAATATACTA
2765013 AAAAAATATACTA
1 AAAAAATATACTA
2765026 AAAAA
1 AAAAA
2765031 GAGATAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAAATATACTA
Found at i:2770184 original size:12 final size:13
Alignment explanation
Indices: 2770157--2770186 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2770147 GGGTGACCAG
2770157 AAAATTAATACAA
1 AAAATTAATACAA
*
2770170 AAAATTAATATAA
1 AAAATTAATACAA
2770183 AAAA
1 AAAA
2770187 GTCGAGAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATTAATACAA
Found at i:2775507 original size:16 final size:17
Alignment explanation
Indices: 2775480--2775516 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
2775470 GGTCCCTATA
2775480 TTTTTTCATTTTGA-GTT
1 TTTTTTCATTTT-ATGTT
2775497 TTTTTTC-TTTTATGTT
1 TTTTTTCATTTTATGTT
2775513 TTTT
1 TTTT
2775517 GAATGTTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.05
16 11 0.58
17 7 0.37
ACGTcount: A:0.08, C:0.05, G:0.08, T:0.78
Consensus pattern (17 bp):
TTTTTTCATTTTATGTT
Done.