Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 35 of 173
Found at i:9357109 original size:13 final size:13
Alignment explanation
Indices: 9357091--9357115 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9357081 ATATCAACAA
9357091 TTTCCATATCATC
1 TTTCCATATCATC
9357104 TTTCCATATCAT
1 TTTCCATATCAT
9357116 AGATCACTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTCCATATCATC
Found at i:9364059 original size:22 final size:22
Alignment explanation
Indices: 9364031--9364090 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
9364021 TAATGAATAG
9364031 AGAGCACTGAAGTGCT-ATACAA
1 AGAGCACTGAAGTGCTAAT-CAA
* * *
9364053 AGAGCACAGATGTGCTAATCAG
1 AGAGCACTGAAGTGCTAATCAA
9364075 AGAGCACT-AAGTGCTA
1 AGAGCACTGAAGTGCTA
9364091 GTAATCAGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 7 0.22
22 23 0.72
23 2 0.06
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (22 bp):
AGAGCACTGAAGTGCTAATCAA
Found at i:9364112 original size:46 final size:46
Alignment explanation
Indices: 9364029--9364150 Score: 135
Period size: 49 Copynumber: 2.6 Consensus size: 46
9364019 ACTAATGAAT
*
9364029 AGAGAGCACTGAAGTGCTAT-A-CAAAGAGCACAGATGTGC-TAATC
1 AGAGAGCACT-AAGTGCTATAATCAGAGAGCACAGATGTGCATAATC
9364073 AGAGAGCACTAAGTGCTAGTAATCAGAGAGCACCA-ATGTGCTAATAATC
1 AGAGAGCACTAAGTGCTA-TAATCAGAGAGCA-CAGATGTGC--ATAATC
*
9364122 AGAGAGCACCAACGTGCTAATAATCAGAG
1 AGAGAGCACTAA-GTGCT-ATAATCAGAG
9364151 CGCGCGCTAA
Statistics
Matches: 67, Mismatches: 2, Indels: 12
0.83 0.02 0.15
Matches are distributed among these distances:
43 8 0.12
44 11 0.16
45 1 0.01
46 14 0.21
47 2 0.03
49 16 0.24
50 14 0.21
51 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (46 bp):
AGAGAGCACTAAGTGCTATAATCAGAGAGCACAGATGTGCATAATC
Found at i:9364120 original size:25 final size:24
Alignment explanation
Indices: 9364068--9364150 Score: 130
Period size: 25 Copynumber: 3.4 Consensus size: 24
9364058 ACAGATGTGC
* *
9364068 TAATCAGAGAGCACTAAGTGCTAG
1 TAATCAGAGAGCACCAAGTGCTAA
9364092 TAATCAGAGAGCACCAATGTGCTAA
1 TAATCAGAGAGCACCAA-GTGCTAA
9364117 TAATCAGAGAGCACCAACGTGCTAA
1 TAATCAGAGAGCACCAA-GTGCTAA
9364142 TAATCAGAG
1 TAATCAGAG
9364151 CGCGCGCTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 16 0.29
25 39 0.71
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (24 bp):
TAATCAGAGAGCACCAAGTGCTAA
Found at i:9376228 original size:27 final size:28
Alignment explanation
Indices: 9376198--9376255 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
9376188 TTTAAAAATA
9376198 TTTAAAAATATATAA-TTTTAT-ATATTT
1 TTTAAAAAT-TATAATTTTTATAATATTT
* *
9376225 TTTAATAATTTTAATTTTTATAATATTT
1 TTTAAAAATTATAATTTTTATAATATTT
9376253 TTT
1 TTT
9376256 GAATTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 4 0.15
27 14 0.52
28 9 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTAAAAATTATAATTTTTATAATATTT
Found at i:9376263 original size:27 final size:26
Alignment explanation
Indices: 9376213--9376265 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
9376203 AAATATATAA
9376213 TTTTATATATTTTTTAATAATTTTAAT
1 TTTTATATATTTTTTAAT-ATTTTAAT
9376240 TTTTATAATATTTTTTGAAT-TTTTAA
1 TTTTAT-ATATTTTTT-AATATTTTAA
9376266 AATTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 12 0.50
28 9 0.38
29 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTTATATATTTTTTAATATTTTAAT
Found at i:9384663 original size:61 final size:60
Alignment explanation
Indices: 9384518--9384647 Score: 171
Period size: 61 Copynumber: 2.2 Consensus size: 60
9384508 TACACTAGTA
** *
9384518 GTCACCCAACTA-TAGTAA--T-TTTTTT-GGTCACTCAACTATGAAAAGTTATAAAATG
1 GTCACCCAACTATTAGTAATTTCTTTTTTCGAACACTCAACTATGAAAAGTTACAAAATG
9384573 GTCACCCAACTATTAGTAAATTTCTTTTTTCGAACACTCAACTATGAAAAGTTACAAAATG
1 GTCACCCAACTATTAGT-AATTTCTTTTTTCGAACACTCAACTATGAAAAGTTACAAAATG
* *
9384634 GTCATCTAACTATT
1 GTCACCCAACTATT
9384648 TAGTTTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
55 12 0.19
56 4 0.06
57 2 0.03
59 1 0.02
60 6 0.09
61 39 0.61
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (60 bp):
GTCACCCAACTATTAGTAATTTCTTTTTTCGAACACTCAACTATGAAAAGTTACAAAATG
Found at i:9387499 original size:21 final size:21
Alignment explanation
Indices: 9387455--9387499 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9387445 CTAAGATAAG
* *
9387455 AGAATTACAATCAACAATAGC
1 AGAACTACAATCAACAACAGC
9387476 AGAACTACAATCAAC-ACAGTC
1 AGAACTACAATCAACAACAG-C
9387497 AGA
1 AGA
9387500 TGCATCCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.51, C:0.22, G:0.11, T:0.16
Consensus pattern (21 bp):
AGAACTACAATCAACAACAGC
Found at i:9394073 original size:17 final size:17
Alignment explanation
Indices: 9394051--9394083 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9394041 ATAAGTACAC
*
9394051 ATTGTCATTGTATTTTT
1 ATTGTCATTATATTTTT
9394068 ATTGTCATTATATTTT
1 ATTGTCATTATATTTT
9394084 CATGTTAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.09, T:0.64
Consensus pattern (17 bp):
ATTGTCATTATATTTTT
Found at i:9398504 original size:19 final size:19
Alignment explanation
Indices: 9398480--9398519 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
9398470 ATTAATTTTG
9398480 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
9398499 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
9398518 AT
1 AT
9398520 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:9410647 original size:4 final size:4
Alignment explanation
Indices: 9410638--9410668 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
9410628 TTATGATTTT
9410638 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
9410669 TTGGTTCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:9415487 original size:58 final size:57
Alignment explanation
Indices: 9415352--9415484 Score: 153
Period size: 57 Copynumber: 2.3 Consensus size: 57
9415342 AGTGTTTTGG
* * * *
9415352 CATTGATGGCCGACACCCTTGTACCTGATTTGAGGAAAAAAAATTTGGGGTGCTGGGA
1 CATTGATGGCCAACACCCTTGGACCTGATTTGA-GAAAAAAAATTGGGGGTGCTAGGA
* * * *
9415410 CACTGAAGACTAACACCCTTGGACCAT-ATTTGA-AAAAAAAATTGGGGGGTGCTAGGA
1 CATTGATGGCCAACACCCTTGGACC-TGATTTGAGAAAAAAAATT-GGGGGTGCTAGGA
9415467 CATTGATGGCCAACACCC
1 CATTGATGGCCAACACCC
9415485 CTTTAGCCTA
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
56 10 0.16
57 25 0.41
58 25 0.41
59 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (57 bp):
CATTGATGGCCAACACCCTTGGACCTGATTTGAGAAAAAAAATTGGGGGTGCTAGGA
Found at i:9418084 original size:20 final size:21
Alignment explanation
Indices: 9418055--9418111 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
9418045 AATTCGATGA
9418055 TCGACGGTGGTTGACAG-CGT
1 TCGACGGTGGTTGACAGACGT
*
9418075 TCGACTGTGGTTGAC-GACGT
1 TCGACGGTGGTTGACAGACGT
* *
9418095 TCGGCGGTGGTCGACAG
1 TCGACGGTGGTTGACAG
9418112 TGATCGATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.21, G:0.40, T:0.25
Consensus pattern (21 bp):
TCGACGGTGGTTGACAGACGT
Found at i:9418137 original size:22 final size:22
Alignment explanation
Indices: 9418111--9418157 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9418101 GTGGTCGACA
* *
9418111 GTGATCGATGGTGGAACTTGCG
1 GTGATCGACGGTGGAAATTGCG
* *
9418133 GTGATCGGCGGTGGAAATTGTG
1 GTGATCGACGGTGGAAATTGCG
9418155 GTG
1 GTG
9418158 TTGGGACAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.17, C:0.11, G:0.45, T:0.28
Consensus pattern (22 bp):
GTGATCGACGGTGGAAATTGCG
Found at i:9418680 original size:90 final size:90
Alignment explanation
Indices: 9418518--9418686 Score: 243
Period size: 90 Copynumber: 1.9 Consensus size: 90
9418508 TTTATTTAAA
9418518 TTAAGTAAAAATAAGAAATTCAATTAAATTTTAACTTAATATATAATTATTAAGTTAAACTTTAA
1 TTAAGTAAAAATAAGAAATTCAATTAAATTTTAACTTAATATATAATTATTAAGTTAAACTTTAA
*
9418583 TTGTTTAATTTTTAAATTGATTTTT
66 TTATTTAATTTTTAAATTGATTTTT
* * * * * *
9418608 TTAATTAAAATTAAGAAATTCAATT-AATTTTTAGTTTATACTTTAATTATTAAGTTAAACTTT-
1 TTAAGTAAAAATAAGAAATTCAATTAAATTTTAACTTAATA-TATAATTATTAAGTTAAACTTTA
9418671 ATGTATTTAATTTTTA
65 AT-TATTTAATTTTTA
9418687 TTTTTGAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
89 14 0.20
90 56 0.80
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (90 bp):
TTAAGTAAAAATAAGAAATTCAATTAAATTTTAACTTAATATATAATTATTAAGTTAAACTTTAA
TTATTTAATTTTTAAATTGATTTTT
Found at i:9420875 original size:33 final size:28
Alignment explanation
Indices: 9420804--9420883 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 28
9420794 AATGTGAAAG
*
9420804 GGGGTTGCTAAGTGCTGA-TTCCCCCGA
1 GGGGTTGCTAAGTGCTGATTTCCCCCCA
9420831 GGGGTTGCTAAGTGCTGATTTCCCTACCCA
1 GGGGTTGCTAAGTGCTGATTTCCC--CCCA
*
9420861 CTGGTGGTTGCTAAGCGCTGATT
1 --GG-GGTTGCTAAGTGCTGATT
9420884 CCACCATATC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
27 18 0.40
28 5 0.11
30 3 0.07
32 2 0.04
33 17 0.38
ACGTcount: A:0.15, C:0.24, G:0.31, T:0.30
Consensus pattern (28 bp):
GGGGTTGCTAAGTGCTGATTTCCCCCCA
Found at i:9420939 original size:105 final size:104
Alignment explanation
Indices: 9420621--9420978 Score: 457
Period size: 104 Copynumber: 3.4 Consensus size: 104
9420611 ATTACATATA
** * * *
9420621 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
*
9420686 TTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCTC
66 TTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
* * * * * *
9420725 GAGGGGTTGCTAAGTGTTGATTCCCCTACTTATTAGTGGTTGCTATGTGCTGAGTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
9420790 TTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
* * * * * *
9420829 GAGGGGTTGCTAAGTGCTGATTTCCCTACCCACTGGTGGTTGCTAAGCGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT-
* ** *
9420894 TTTGAAATGAAAAAGGGGGTTGCTAAGTGTTGATTCCCCC
65 TTTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
** * * *
9420934 AAGGGGTTGCTGTGTGCTGATTCCCCAATTCAGTGGTGG-TGCTAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCTACTCATTGGTGGTTGCTAA
9420979 ATGCGAGATC
Statistics
Matches: 219, Mismatches: 34, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
104 152 0.69
105 67 0.31
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
TTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:9430977 original size:9 final size:9
Alignment explanation
Indices: 9430963--9430993 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9430953 AGTTCGATTG
*
9430963 AATTTTTTA
1 AATTTTTAA
9430972 AATTTTTAA
1 AATTTTTAA
9430981 AATTTTTAA
1 AATTTTTAA
9430990 AATT
1 AATT
9430994 ATTCATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATTTTTAA
Found at i:9431234 original size:22 final size:22
Alignment explanation
Indices: 9431209--9431252 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9431199 AACATTTATT
*
9431209 TTTA-TATCATAATAAATTAAAA
1 TTTATTAT-ATAATAAATAAAAA
*
9431231 TTTATTATATATTAAATAAAAA
1 TTTATTATATAATAAATAAAAA
9431253 ATAGAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTATTATATAATAAATAAAAA
Found at i:9432301 original size:20 final size:20
Alignment explanation
Indices: 9432252--9432301 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
9432242 TATTCTAAGT
9432252 ATTAACAAATATTTTTTATTA
1 ATTAA-AAATATTTTTTATTA
**
9432273 A-TATTAATATATTTTTA-TA
1 ATTAAAAATAT-TTTTTATTA
9432292 ATTAAAAATA
1 ATTAAAAATA
9432302 AATATTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.35
20 14 0.61
21 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAAAAATATTTTTTATTA
Found at i:9442560 original size:31 final size:31
Alignment explanation
Indices: 9442520--9442621 Score: 113
Period size: 31 Copynumber: 3.3 Consensus size: 31
9442510 CCCGAATAAT
9442520 AAATA-TTTTTTTTTA-TTTTTTTAATTTTA
1 AAATATTTTTTTTTTACTTTTTTTAATTTTA
* *
9442549 AAATACTTTTTTTTTAATTTTTTTTAATTTT-
1 AAATA-TTTTTTTTTTACTTTTTTTAATTTTA
**
9442580 AAAT-TTTTTTTAAAATACTTTTTTTAATTTTA
1 AAATATTTTTTT--TTTACTTTTTTTAATTTTA
9442612 AAATATTTTT
1 AAATATTTTT
9442622 AAAATACTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
29 12 0.20
31 27 0.44
32 17 0.28
33 5 0.08
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (31 bp):
AAATATTTTTTTTTTACTTTTTTTAATTTTA
Found at i:9442579 original size:16 final size:17
Alignment explanation
Indices: 9442535--9442592 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
9442525 TTTTTTTTTA
9442535 TTTTTTTAATTTTAAAAT
1 TTTTTTTAATTTT-AAAT
**
9442553 ACTTTTT--TTTT-AAT
1 TTTTTTTAATTTTAAAT
9442567 TTTTTTTAATTTTAAAT
1 TTTTTTTAATTTTAAAT
9442584 TTTTTTTAA
1 TTTTTTTAA
9442593 AATACTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
14 8 0.24
16 8 0.24
17 12 0.36
18 5 0.15
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTTAATTTTAAAT
Found at i:9442634 original size:32 final size:32
Alignment explanation
Indices: 9442535--9442643 Score: 132
Period size: 31 Copynumber: 3.4 Consensus size: 32
9442525 TTTTTTTTTA
*** *
9442535 TTTTTTTAATTTTAAAATACTTTTT-TTTTAAT
1 TTTTTTTAATTTTAAAATA-TTTTTAAAATACT
* *
9442567 TTTTTTTAATTTTAAATTTTTTTTAAAATAC-
1 TTTTTTTAATTTTAAAATATTTTTAAAATACT
9442598 TTTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACT
*
9442630 TTTTTTTATTTTTA
1 TTTTTTTAATTTTA
9442644 TTTTAATTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
31 34 0.52
32 32 0.48
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (32 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:9443874 original size:13 final size:14
Alignment explanation
Indices: 9443840--9443876 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
9443830 TACTTTTATA
9443840 TATATTCATTTCGTT
1 TATATT-ATTTCGTT
9443855 TAT-TTATTT-GTT
1 TATATTATTTCGTT
9443867 TATATTATTT
1 TATATTATTT
9443877 TTATGCTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:9445072 original size:114 final size:114
Alignment explanation
Indices: 9444782--9445335 Score: 815
Period size: 114 Copynumber: 4.9 Consensus size: 114
9444772 TAAATTATTT
* * *
9444782 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAAT
1 TAAAGCCCTGACCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAAT
**
9444847 AACGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* *
9444896 -AAAACCCTGACCATTAGCGGCGGTTTCTTAAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAAT
1 TAAAGCCCTGACCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAAT
* * *
9444960 GGCGTTGTTGGGCTTAGGTATTTTTACGGTGCTTTCCCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * * *
9445009 TAAAGCGCTGACCATTAGCGGCGCTTACTTAAAAATGCCGGTAAATCCCCAAAAGCTCAGAAAAC
1 TAAAGCCCTGACCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAAT
*
9445074 AGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * * * * *
9445123 TAAAGCCCTGACCATTAGCAGTGCTTTCTTAAAAACGTCGTTAAATCCCTAAAAGCTCAGAAAAT
1 TAAAGCCCTGACCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAAT
** *
9445188 GGTATCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCAGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * * *
9445237 TAAAGCCCTGACCATTAGCGGCGCTTACTTAAAAATGCCACTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTGACCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAAT
* * *
9445302 GACGTCGTTGGGCTCAAGTA-TTTTGCGGCGCTTT
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTT
9445336 TTGGAAAACG
Statistics
Matches: 392, Mismatches: 47, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
113 118 0.30
114 274 0.70
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (114 bp):
TAAAGCCCTGACCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAAT
GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
Found at i:9474712 original size:20 final size:20
Alignment explanation
Indices: 9474671--9474712 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
9474661 AATTAAGTTT
**
9474671 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATAGAAA
*
9474691 ATTTAAATTAAAAATAGAAA
1 ATTTAAAATAAAAATAGAAA
9474711 AT
1 AT
9474713 CATAATATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
ATTTAAAATAAAAATAGAAA
Found at i:9474925 original size:22 final size:24
Alignment explanation
Indices: 9474882--9474928 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
9474872 TATTTAAATA
**
9474882 TTTAATATTATAATTTTTTATTTT
1 TTTAATATTATAATTTAATATTTT
9474906 TTTAAT-TTA-AATTTAATATTTT
1 TTTAATATTATAATTTAATATTTT
9474928 T
1 T
9474929 ATTTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
23 3 0.14
24 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTAATATTATAATTTAATATTTT
Found at i:9474975 original size:16 final size:17
Alignment explanation
Indices: 9474954--9474986 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9474944 AATTATCACG
9474954 TGACA-TTTTTTTCATT
1 TGACATTTTTTTTCATT
9474970 TGACATTTTTTTTCATT
1 TGACATTTTTTTTCATT
9474987 GGTCAAAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (17 bp):
TGACATTTTTTTTCATT
Found at i:9475852 original size:30 final size:30
Alignment explanation
Indices: 9475760--9475852 Score: 107
Period size: 31 Copynumber: 3.1 Consensus size: 30
9475750 AAAATAGATC
* *
9475760 TAATCAAAATTTCATGTATAAAATT-ATATA
1 TAATCAAAA-TTCATGTATAATATTAATATT
* *
9475790 GAATCAAAATTTATGTATAATATTACATATT
1 TAATCAAAATTCATGTATAATATTA-ATATT
* *
9475821 TAATTAAAATTCATGTATAATTTTAATATT
1 TAATCAAAATTCATGTATAATATTAATATT
9475851 TA
1 TA
9475853 TCTTTTTTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
29 13 0.25
30 15 0.28
31 25 0.47
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.44
Consensus pattern (30 bp):
TAATCAAAATTCATGTATAATATTAATATT
Found at i:9477123 original size:29 final size:30
Alignment explanation
Indices: 9477090--9477156 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
9477080 AACCAAAAAA
9477090 GGCCGTTTTTTTTAA-AATTTACCGAAATG
1 GGCCGTTTTTTTTAATAATTTACCGAAATG
* * *
9477119 GGCCG-GTTTTTTAATTATTTACCGGAATG
1 GGCCGTTTTTTTTAATAATTTACCGAAATG
*
9477148 GGCCATTTT
1 GGCCGTTTT
9477157 CCGCGAAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 8 0.26
29 21 0.68
30 2 0.06
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (30 bp):
GGCCGTTTTTTTTAATAATTTACCGAAATG
Found at i:9477128 original size:28 final size:29
Alignment explanation
Indices: 9477097--9477151 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
9477087 AAAGGCCGTT
9477097 TTTTTTAA-AATTTACCGAAATGGGCCGG
1 TTTTTTAATAATTTACCGAAATGGGCCGG
* *
9477125 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAATAATTTACCGAAATGGGCC
9477152 ATTTTCCGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (29 bp):
TTTTTTAATAATTTACCGAAATGGGCCGG
Found at i:9477490 original size:28 final size:29
Alignment explanation
Indices: 9477439--9477493 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
9477429 CGCTGAAAAT
*
9477439 GGCCCATTCCGGTAAATAATTAAAAAACC
1 GGCCCATTCCGATAAATAATTAAAAAACC
* *
9477468 GGCCCATTTCGATAAAT-TTTAAAAAA
1 GGCCCATTCCGATAAATAATTAAAAAA
9477494 AAACGACCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (29 bp):
GGCCCATTCCGATAAATAATTAAAAAACC
Found at i:9486043 original size:14 final size:14
Alignment explanation
Indices: 9486024--9486050 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9486014 TGTTTTGTGA
9486024 TTATTAGTATTAAC
1 TTATTAGTATTAAC
9486038 TTATTAGTATTAA
1 TTATTAGTATTAA
9486051 ACTGAGTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (14 bp):
TTATTAGTATTAAC
Found at i:9501360 original size:28 final size:31
Alignment explanation
Indices: 9501300--9501360 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
9501290 TACAGATCGT
* *
9501300 ATTTGGGCCTACAATAATTTTTATTTTTGCA
1 ATTTGGGCCTACAATAATTTTTAGTTTTCCA
*
9501331 ATTTGGGCC-ATAA-AATTTTT-GTTTTCCA
1 ATTTGGGCCTACAATAATTTTTAGTTTTCCA
9501359 AT
1 AT
9501361 ATTAAGTCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.30
29 7 0.26
30 3 0.11
31 9 0.33
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTTGGGCCTACAATAATTTTTAGTTTTCCA
Found at i:9506364 original size:16 final size:16
Alignment explanation
Indices: 9506340--9506372 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9506330 TGTATTGGGT
*
9506340 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
9506356 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
9506372 T
1 T
9506373 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:9506417 original size:45 final size:44
Alignment explanation
Indices: 9506351--9506445 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
9506341 GGATTAGAGG
* *
9506351 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
9506396 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
9506440 TGTAAT
1 TGTAAT
9506446 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:9506628 original size:18 final size:17
Alignment explanation
Indices: 9506607--9506641 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9506597 TTATTATTTA
*
9506607 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9506625 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9506642 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9506635 original size:28 final size:27
Alignment explanation
Indices: 9506565--9506637 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
9506555 TTTATTATCA
*
9506565 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
9506593 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
9506620 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
9506638 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:9506793 original size:141 final size:146
Alignment explanation
Indices: 9506526--9506794 Score: 467
Period size: 141 Copynumber: 1.9 Consensus size: 146
9506516 ATGATTATTG
9506526 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
9506591 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTA-TTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
9506656 AGAAATTTGTTTTGGTAAA
128 AGAAATTTGTTTTGGTAAA
*
9506675 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
9506737 ATAATTATTA-TAA-ATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
9506795 ATATTCTTAT
Statistics
Matches: 119, Mismatches: 1, Indels: 8
0.93 0.01 0.06
Matches are distributed among these distances:
141 45 0.38
142 3 0.03
144 42 0.35
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (146 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGA
AATTTGTTTTGGTAAA
Found at i:9506970 original size:17 final size:16
Alignment explanation
Indices: 9506948--9506994 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
9506938 ACTCAAATCA
9506948 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
9506965 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
9506979 TAAATATATGATTTAA
1 T-AATATATGATTTAA
9506995 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:9506995 original size:17 final size:17
Alignment explanation
Indices: 9506967--9507000 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9506957 ATTATAACTA
*
9506967 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
9506984 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
9507001 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:9507143 original size:93 final size:91
Alignment explanation
Indices: 9507033--9507226 Score: 284
Period size: 92 Copynumber: 2.1 Consensus size: 91
9507023 GATTATAGTT
* *
9507033 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTA-ATATAATTAT-ATAATAATATATAATTTC
* *
9507096 ATAAAATTCTTGATAATAAAAATTTTCTTA
63 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
9507126 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAGTGATATATAATTTCATA
1 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
9507191 AAATTCTTAATAATAAAATGTTCTTA
66 AAATTCTTAATAATAAAATGTTCTTA
9507217 TATGAATTTA
1 TATGAATTTA
9507227 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 21 0.23
92 40 0.43
93 29 0.31
94 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
AAATTCTTAATAATAAAATGTTCTTA
Found at i:9508643 original size:11 final size:11
Alignment explanation
Indices: 9508629--9508655 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9508619 AAAAATAAAT
9508629 ACAAAAGTTTC
1 ACAAAAGTTTC
9508640 ACAAAAGTTTC
1 ACAAAAGTTTC
9508651 ACAAA
1 ACAAA
9508656 CTAATTTCTA
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:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:9515740 original size:21 final size:21
Alignment explanation
Indices: 9515705--9515762 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
9515695 TGTCTTTTTT
*
9515705 TAAAATATATATATTAAGAAAG
1 TAAAA-ATATATATTAAAAAAG
* *
9515727 TAAAAATTTATATTAAAAAAT
1 TAAAAATATATATTAAAAAAG
9515748 TAAAAATATATATTA
1 TAAAAATATATATTA
9515763 TAACTAGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 27 0.84
22 5 0.16
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
TAAAAATATATATTAAAAAAG
Found at i:9517309 original size:50 final size:50
Alignment explanation
Indices: 9517188--9517431 Score: 308
Period size: 50 Copynumber: 4.7 Consensus size: 50
9517178 GGTAAAAATA
* ** *
9517188 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTA-TCATCTCGG
* **
9517239 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTATCATCTCGG
*
9517289 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTATCATCTCGG
* ** *
9517339 TGCCAACGCCATGTCCCAGACATGGTCTTACATGATACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-C-CT-ATCATCTC--GG
*
9517394 ATGCCAATACCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
9517432 TCTCTTTACC
Statistics
Matches: 167, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
50 88 0.53
51 36 0.22
52 2 0.01
53 6 0.04
55 2 0.01
56 33 0.20
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTATCATCTCGG
Found at i:9517368 original size:100 final size:105
Alignment explanation
Indices: 9517187--9517436 Score: 339
Period size: 100 Copynumber: 2.4 Consensus size: 105
9517177 TGGTAAAAAT
* * * * *
9517187 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGGTGCCCATGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCT-CTCATCTCGGTGCCAACGCCATG
* *
9517252 TCCCAGACATGGTCTTACGGGGGA-C-CT-ATCATCTC-GG
65 TCCCAGACATGGTCTTACAGGAGACCTCTCATCATCTCAGG
*
9517289 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGGTGCCAACGCCATGT
* * *
9517353 CCCAGACATGGTCTTACATGATACCTCTCATGATCTCAAGG
66 CCCAGACATGGTCTTACAGGAGACCTCTCATCATCTC-AGG
*
9517394 ATGCCAATACCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
9517437 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
100 40 0.31
101 38 0.29
102 2 0.02
103 7 0.05
105 2 0.02
106 40 0.31
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (105 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGGTGCCAACGCCATGT
CCCAGACATGGTCTTACAGGAGACCTCTCATCATCTCAGG
Found at i:9517804 original size:30 final size:30
Alignment explanation
Indices: 9517770--9517827 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9517760 CCTCAACTCT
**
9517770 AACTTTTTTAAAATTACAATTTTGCCCCTA
1 AACTTTTGCAAAATTACAATTTTGCCCCTA
* *
9517800 AACTTTTGCATAATTACATTTTTGCCCC
1 AACTTTTGCAAAATTACAATTTTGCCCC
9517828 AAGGCCCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCTA
Found at i:9522086 original size:17 final size:17
Alignment explanation
Indices: 9522064--9522107 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
9522054 TGGTTGTGTT
9522064 TATATA-ATGTGCG-AA
1 TATATATATGTGCGTAA
*
9522079 TATATATATGTGTGTAA
1 TATATATATGTGCGTAA
9522096 TATATATATGTG
1 TATATATATGTG
9522108 GATCGAACAA
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:0.36, C:0.02, G:0.18, T:0.43
Consensus pattern (17 bp):
TATATATATGTGCGTAA
Found at i:9522383 original size:41 final size:41
Alignment explanation
Indices: 9522321--9522490 Score: 268
Period size: 41 Copynumber: 4.1 Consensus size: 41
9522311 GTTTGGAATT
* *
9522321 GGTGAATTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATTTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
9522362 GGTGATTTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATTTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
9522403 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATTTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
9522444 AGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATTTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
9522485 GGTGAT
1 GGTGAT
9522491 CCGAATATGA
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 118 1.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (41 bp):
GGTGATTTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:9522426 original size:82 final size:82
Alignment explanation
Indices: 9522328--9522490 Score: 308
Period size: 82 Copynumber: 2.0 Consensus size: 82
9522318 ATTGGTGAAT
* *
9522328 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGCTATAAGCCTAGCAG
1 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAGCCTAGCAG
9522393 GCTAAGTGCCGGTGATA
66 GCTAAGTGCCGGTGATA
9522410 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAGCCTAGCAG
1 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAGCCTAGCAG
9522475 GCTAAGTGCCGGTGAT
66 GCTAAGTGCCGGTGAT
9522491 CCGAATATGA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (82 bp):
TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAGCCTAGCAG
GCTAAGTGCCGGTGATA
Found at i:9522721 original size:31 final size:34
Alignment explanation
Indices: 9522685--9522794 Score: 106
Period size: 37 Copynumber: 3.3 Consensus size: 34
9522675 GCATATTTAG
9522685 GCATTCGGCATAGGTGGATATA-TAT-T-TGTAT
1 GCATTCGGCATAGGTGGATATAGTATATATGTAT
* *
9522716 GCATTCGGCATAGATAGATATAAGTGTATATATGTAT
1 GCATTCGGCATAGGTGGATAT-A--GTATATATGTAT
*
9522753 GCATTCGGCATAGGTGGGTATAAGTGA-ATATG--T
1 GCATTCGGCATAGGTGGATAT-AGT-ATATATGTAT
9522786 GCATTCGGC
1 GCATTCGGC
9522795 CTTTATAGTT
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
31 19 0.28
32 1 0.01
33 10 0.15
35 10 0.15
36 2 0.03
37 25 0.37
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (34 bp):
GCATTCGGCATAGGTGGATATAGTATATATGTAT
Found at i:9522746 original size:37 final size:37
Alignment explanation
Indices: 9522705--9522794 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
9522695 TAGGTGGATA
*
9522705 TATATTTGTATGCATTCGGCATAGATAGATATAAGTG
1 TATATATGTATGCATTCGGCATAGATAGATATAAGTG
* * *
9522742 TATATATGTATGCATTCGGCATAGGTGGGTATAAGTG
1 TATATATGTATGCATTCGGCATAGATAGATATAAGTG
9522779 -A-ATATG--TGCATTCGGC
1 TATATATGTATGCATTCGGC
9522795 CTTTATAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
33 10 0.20
35 5 0.10
36 1 0.02
37 33 0.67
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (37 bp):
TATATATGTATGCATTCGGCATAGATAGATATAAGTG
Found at i:9526216 original size:12 final size:12
Alignment explanation
Indices: 9526199--9526225 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9526189 AAGAAGGCTT
9526199 CTCTAGCTCCTC
1 CTCTAGCTCCTC
9526211 CTCTAGCTCCTC
1 CTCTAGCTCCTC
9526223 CTC
1 CTC
9526226 CCTGTCTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.52, G:0.07, T:0.33
Consensus pattern (12 bp):
CTCTAGCTCCTC
Found at i:9526679 original size:119 final size:119
Alignment explanation
Indices: 9526468--9526708 Score: 446
Period size: 119 Copynumber: 2.0 Consensus size: 119
9526458 CCTGTTCTGA
* *
9526468 TACCAAAATTGTAACACCCTTTACCCGATACCGTTGCCGGAATCGAGCACGACGCATTACTTAGC
1 TACCAAAATTGTAACACCCCTTACCCGATACCATTGCCGGAATCGAGCACGACGCATTACTTAGC
9526533 TTATCTTACTAATTCGGAGCATAAAAACTTAGTTTGAAAATTTAATTCACTATT
66 TTATCTTACTAATTCGGAGCATAAAAACTTAGTTTGAAAATTTAATTCACTATT
*
9526587 TACCAAAATTGTAACACCCCTTACCCGATACCATTGCCGGAATCGAGCACGAGGCATTACTTAGC
1 TACCAAAATTGTAACACCCCTTACCCGATACCATTGCCGGAATCGAGCACGACGCATTACTTAGC
*
9526652 TTATCTTACTAATTCGGAGCATAAAAACTTAGTTTGAAAATTTATTTCACTATT
66 TTATCTTACTAATTCGGAGCATAAAAACTTAGTTTGAAAATTTAATTCACTATT
9526706 TAC
1 TAC
9526709 AGTAAATCTG
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 118 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (119 bp):
TACCAAAATTGTAACACCCCTTACCCGATACCATTGCCGGAATCGAGCACGACGCATTACTTAGC
TTATCTTACTAATTCGGAGCATAAAAACTTAGTTTGAAAATTTAATTCACTATT
Found at i:9528032 original size:50 final size:50
Alignment explanation
Indices: 9527910--9528203 Score: 354
Period size: 50 Copynumber: 5.7 Consensus size: 50
9527900 GGTAAAAATA
* * ** *
9527910 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTA-TCATCTCGG
* * ** *
9527961 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTATCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTATCATCTCGG
*
9528011 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTATCATCTCGG
*
9528061 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTATCATCTCGG
* * * *
9528111 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGA-C-CT-ATCATCTC--GG
* * *
9528166 ATGCCTATACCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGA
9528204 TCTCTTTACC
Statistics
Matches: 213, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
50 135 0.63
51 35 0.16
52 2 0.01
53 6 0.03
55 2 0.01
56 33 0.15
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTATCATCTCGG
Found at i:9528579 original size:30 final size:30
Alignment explanation
Indices: 9528544--9528601 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9528534 CCTCGACTCT
*
9528544 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTGCAAAATTACAATTTTGCCCCTA
* *
9528574 AACTTTTGCATAATTACATTTTTGCCCC
1 AACTTTTGCAAAATTACAATTTTGCCCC
9528602 AAGGCCCGGA
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:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCTA
Found at i:9531053 original size:7 final size:7
Alignment explanation
Indices: 9531031--9531087 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
9531021 ATACTAATAA
9531031 TTAAAA-
1 TTAAAAT
*
9531037 TTAAATT
1 TTAAAAT
9531044 TTAAAAT
1 TTAAAAT
9531051 TTAAAAT
1 TTAAAAT
*
9531058 ATAAAAAT
1 -TTAAAAT
*
9531066 TAAAAAT
1 TTAAAAT
*
9531073 TAAAAATT
1 TTAAAA-T
9531081 TTAAAAT
1 TTAAAAT
9531088 AAAAAAAGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
6 5 0.11
7 27 0.61
8 12 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
TTAAAAT
Found at i:9531064 original size:15 final size:15
Alignment explanation
Indices: 9531046--9531093 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
9531036 ATTAAATTTT
9531046 AAAATTTAAAATATA
1 AAAATTTAAAATATA
*
9531061 AAAATTAAAAAT-TA
1 AAAATTTAAAATATA
9531075 AAAATTTTAAAATA-A
1 AAAA-TTTAAAATATA
9531090 AAAA
1 AAAA
9531094 AGGGAGGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 6 0.21
15 23 0.79
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTTAAAATATA
Found at i:9531068 original size:21 final size:20
Alignment explanation
Indices: 9531029--9531077 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
9531019 CAATACTAAT
**
9531029 AATTAAAATTAAATTTTAAA
1 AATTAAAATTAAAAATTAAA
*
9531049 ATTTAAAATATAAAAATTAAA
1 AATTAAAAT-TAAAAATTAAA
9531070 AATTAAAA
1 AATTAAAA
9531078 ATTTTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AATTAAAATTAAAAATTAAA
Found at i:9531185 original size:4 final size:4
Alignment explanation
Indices: 9531178--9531207 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
9531168 ATTTTAAAAA
9531178 TTAT TTAT TTAT TTAT TTAT TTAT TATAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T-TAT T
9531208 CGGTCAGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:9536670 original size:18 final size:19
Alignment explanation
Indices: 9536640--9536677 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
9536630 AAAAATAATT
9536640 TTAAAAAATATATTTAAAA
1 TTAAAAAATATATTTAAAA
9536659 TTAAAAAA-ATATTTAAAA
1 TTAAAAAATATATTTAAAA
9536677 T
1 T
9536678 AAACATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TTAAAAAATATATTTAAAA
Found at i:9536674 original size:31 final size:31
Alignment explanation
Indices: 9536628--9536689 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
9536618 TTGAATATCT
*
9536628 TTAAAAATAATTTTAAAA-AATATATTTAAAA
1 TTAAAAATAATTTTAAAATAA-ACATTTAAAA
9536659 TTAAAAA-AATATTTAAAATAAACATTTAAAA
1 TTAAAAATAAT-TTTAAAATAAACATTTAAAA
9536690 AATAATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 3 0.11
31 23 0.82
32 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (31 bp):
TTAAAAATAATTTTAAAATAAACATTTAAAA
Found at i:9536776 original size:20 final size:22
Alignment explanation
Indices: 9536750--9536832 Score: 127
Period size: 20 Copynumber: 3.8 Consensus size: 22
9536740 TATAATATTA
9536750 AAAAAATAATATTTAAAA-TTT
1 AAAAAATAATATTTAAAATTTT
9536771 -AAAAATAATATTTAAAATTTTT
1 AAAAAATAATATTTAAAA-TTTT
9536793 AAAAAATAAT-TTTAAAATTTT
1 AAAAAATAATATTTAAAATTTT
9536814 AAAAAATAATATTATAAAA
1 AAAAAATAATATT-TAAAA
9536833 CATTTCAAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
20 17 0.30
21 14 0.25
22 12 0.21
23 14 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAAATAATATTTAAAATTTT
Found at i:9536887 original size:24 final size:24
Alignment explanation
Indices: 9536859--9536906 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
9536849 TTCAAATTTT
* *
9536859 ATAAAATCAATAATAAACAAATAA
1 ATAAAATAAATAAAAAACAAATAA
9536883 ATAAAATAAATAAAAAACAAATAA
1 ATAAAATAAATAAAAAACAAATAA
9536907 GAATATCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (24 bp):
ATAAAATAAATAAAAAACAAATAA
Found at i:9536890 original size:20 final size:20
Alignment explanation
Indices: 9536867--9536911 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
9536857 TTATAAAATC
*
9536867 AATAATAAACAAATAAATAA-
1 AATAATAAA-AAACAAATAAG
9536887 AATAAATAAAAAACAAATAAG
1 AAT-AATAAAAAACAAATAAG
9536908 AATA
1 AATA
9536912 TCTTAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (20 bp):
AATAATAAAAAACAAATAAG
Found at i:9538965 original size:18 final size:19
Alignment explanation
Indices: 9538933--9538968 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9538923 ACAGTTTGGT
9538933 TTGAACTTTGATTTGACTC
1 TTGAACTTTGATTTGACTC
*
9538952 TTGAA-TTTGGTTTGACT
1 TTGAACTTTGATTTGACT
9538969 TCTCTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.19, C:0.11, G:0.19, T:0.50
Consensus pattern (19 bp):
TTGAACTTTGATTTGACTC
Found at i:9541625 original size:11 final size:11
Alignment explanation
Indices: 9541593--9541625 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
9541583 CTCCTGGATC
9541593 AAAA-AAATTA
1 AAAATAAATTA
9541603 AAAATAAA-TA
1 AAAATAAATTA
9541613 AAAATAAATTA
1 AAAATAAATTA
9541624 AA
1 AA
9541626 GAAACAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 14 0.67
11 7 0.33
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATAAATTA
Found at i:9542231 original size:11 final size:11
Alignment explanation
Indices: 9542215--9542239 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9542205 TTTTTATATA
9542215 ATTATTTTAAT
1 ATTATTTTAAT
9542226 ATTATTTTAAT
1 ATTATTTTAAT
9542237 ATT
1 ATT
9542240 TATATTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTAAT
Found at i:9542251 original size:25 final size:26
Alignment explanation
Indices: 9542223--9542286 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 26
9542213 TAATTATTTT
9542223 AATATTATTTTAATATTT-ATATTAG
1 AATATTATTTTAATATTTGATATTAG
** *
9542248 AATAACATTAT-ATATTTGATATTAG
1 AATATTATTTTAATATTTGATATTAG
** *
9542273 TTTATTTTTTTAAT
1 AATATTATTTTAAT
9542287 GTATTCTAAA
Statistics
Matches: 28, Mismatches: 9, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
24 6 0.21
25 20 0.71
26 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (26 bp):
AATATTATTTTAATATTTGATATTAG
Found at i:9547876 original size:13 final size:13
Alignment explanation
Indices: 9547858--9547884 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9547848 TTTTGGGACA
9547858 AAAAATATTTTAT
1 AAAAATATTTTAT
9547871 AAAAATATTTTAT
1 AAAAATATTTTAT
9547884 A
1 A
9547885 GTTAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAAATATTTTAT
Found at i:9554619 original size:82 final size:82
Alignment explanation
Indices: 9554445--9554640 Score: 302
Period size: 82 Copynumber: 2.4 Consensus size: 82
9554435 TTTCAGACTT
9554445 TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGG
1 TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGG
*
9554510 TGATCTGAATCAGGTTA
66 TGATCTGAATCAGGCTA
** *
9554527 TAAACCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGG
1 TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGG
*
9554592 TGATCTGAATCATGCTA
66 TGATCTGAATCAGGCTA
* * * *
9554609 TAAGTTTAGCAGGTTATGTGCCGTTGAATCTG
1 TAAGTCTAGCAGGCTACGTGCCGGTG-ATCTG
9554641 TTTAAATTAA
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
82 97 0.96
83 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (82 bp):
TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGG
TGATCTGAATCAGGCTA
Found at i:9554631 original size:41 final size:41
Alignment explanation
Indices: 9554450--9554603 Score: 299
Period size: 41 Copynumber: 3.8 Consensus size: 41
9554440 GACTTTAAGT
9554450 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
9554491 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
9554532 CTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
9554573 CTAGCAGGCTACGTGCCGGTGATCTGAATCA
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCA
9554604 TGCTATAAGT
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 111 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:9557795 original size:43 final size:41
Alignment explanation
Indices: 9557742--9557938 Score: 182
Period size: 43 Copynumber: 4.7 Consensus size: 41
9557732 TCAGTGATAT
* *
9557742 GGGGAATCAGCACATAGCAACCCCTTTCACAATTAAGGATTC
1 GGGGAATCAGCACTTAGCAACCCCTTT-ACAATCAAGGATTC
* * *
9557784 GGTGGAATCAGCACTTAGCAACCACCTTTATATTC-AGTGATAC
1 GG-GGAATCAGCACTTAGCAACC-CCTTTACAATCAAG-GATTC
*
9557827 GGGGAATCAGCACTTAGCAACCCCTTTCACAATCAAAGATAT-
1 GGGGAATCAGCACTTAGCAACCCCTTT-ACAATCAAGGAT-TC
* * * * * **
9557869 GGTGGGATCAACACCTAGCAACCACCTTTAGAGTCAATAATTC
1 GG-GGAATCAGCACTTAGCAACC-CCTTTACAATCAAGGATTC
*
9557912 AGGGAATCAGCACTTAGCAACCCCTTT
1 GGGGAATCAGCACTTAGCAACCCCTTT
9557939 TTATTCAGTA
Statistics
Matches: 126, Mismatches: 20, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
41 10 0.08
42 51 0.40
43 55 0.44
44 10 0.08
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (41 bp):
GGGGAATCAGCACTTAGCAACCCCTTTACAATCAAGGATTC
Found at i:9557840 original size:42 final size:41
Alignment explanation
Indices: 9557707--9557947 Score: 200
Period size: 42 Copynumber: 5.7 Consensus size: 41
9557697 CTTGGTGGAT
* *
9557707 TCAGCACTTAGCAACCTCC-ATAAATTCAGTGATATGGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAGTGATACGGGGAA
* * *
9557748 TCAGCACATAGCAACCCCTTTCACAATTAAG-GATTCGGTGGAA
1 TCAGCACTTAGCAACCCCTTT-A-AATTCAGTGATACGG-GGAA
*
9557791 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAGTGATACGGGGAA
** * *
9557833 TCAGCACTTAGCAACCCCTTTCACAA-TCAAAGATATGGTGGGA
1 TCAGCACTTAGCAACCCCTTT-A-AATTCAGTGATACGG-GGAA
* * * * * * * *
9557876 TCAACACCTAGCAACCACCTTTAGAGTCAATAATTCAGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAGTGATACGGGGAA
**
9557918 TCAGCACTTAGCAACCCCTTTTTATTCAGT
1 TCAGCACTTAGCAACCCCTTTAAATTCAGT
9557948 ATATTCCGGC
Statistics
Matches: 160, Mismatches: 29, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
40 2 0.01
41 31 0.19
42 59 0.37
43 58 0.36
44 10 0.06
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (41 bp):
TCAGCACTTAGCAACCCCTTTAAATTCAGTGATACGGGGAA
Found at i:9557845 original size:85 final size:85
Alignment explanation
Indices: 9557699--9557938 Score: 304
Period size: 85 Copynumber: 2.8 Consensus size: 85
9557689 ATTCGTTACT
* * * * *
9557699 TGGTGGATTCAGCACTTAGCAACCTCC-ATAAATTCAGTGATATGGGGAATCAGCACATAGCAAC
1 TGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACTTAGCAAC
* *
9557763 CCCTTTCACAATTAAGGAT-
66 CCCTTTCACAATCAAAGATA
*
9557782 TCGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACTTAGCAA
1 T-GGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACTTAGCAA
9557847 CCCCTTTCACAATCAAAGATA
65 CCCCTTTCACAATCAAAGATA
* * * * * * * * *
9557868 TGGTGGGATCAACACCTAGCAACCACCTTTAGAGTCAATAATTCAGGGAATCAGCACTTAGCAAC
1 TGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACTTAGCAAC
9557933 CCCTTT
66 CCCTTT
9557939 TTATTCAGTA
Statistics
Matches: 137, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
83 1 0.01
84 24 0.18
85 111 0.81
86 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (85 bp):
TGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACTTAGCAAC
CCCTTTCACAATCAAAGATA
Found at i:9559342 original size:24 final size:25
Alignment explanation
Indices: 9559315--9559362 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9559305 AGGTGCTCCG
*
9559315 AAGAGCTA-TTAACGGGAAGCTCGC
1 AAGAACTATTTAACGGGAAGCTCGC
9559339 AAGAACTATTTAACGGGAAGCTCG
1 AAGAACTATTTAACGGGAAGCTCG
9559363 AGAGCGCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (25 bp):
AAGAACTATTTAACGGGAAGCTCGC
Found at i:9562778 original size:30 final size:30
Alignment explanation
Indices: 9562742--9562804 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
9562732 CGACACGGTC
*
9562742 GCTTACACGGCCGTGTGTCCACCCCGTGTG
1 GCTTACACGACCGTGTGTCCACCCCGTGTG
* *
9562772 GCTTACATGACCGTGTGTCCAGCCCGTGTG
1 GCTTACACGACCGTGTGTCCACCCCGTGTG
9562802 GCT
1 GCT
9562805 CCTGAAATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.11, C:0.33, G:0.30, T:0.25
Consensus pattern (30 bp):
GCTTACACGACCGTGTGTCCACCCCGTGTG
Found at i:9564491 original size:15 final size:15
Alignment explanation
Indices: 9564455--9564487 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9564445 TTTTCCCTCA
9564455 TTTTCTTCCCTTTTC
1 TTTTCTTCCCTTTTC
*
9564470 TTTTCTT-CTTTTTC
1 TTTTCTTCCCTTTTC
9564484 TTTT
1 TTTT
9564488 TCTTTTCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCTTCCCTTTTC
Found at i:9572541 original size:187 final size:187
Alignment explanation
Indices: 9572226--9572601 Score: 698
Period size: 187 Copynumber: 2.0 Consensus size: 187
9572216 TTTTAAAGCT
9572226 TAGTAAGTTTATATAACGGGAAAGTTAACGTACTATTCATTTACATTTAAGTGAAGCATACAAGA
1 TAGTAAGTTTATATAACGGGAAAGTTAACGTACTATTCATTTACATTTAAGTGAAGCATACAAGA
* *
9572291 CATACTCAAGTAAATTGGCCAAAAGCCCTAGCAGATATCCTTATCAATCATGTTACACATGTATT
66 CATACTCAAGCAAATTGGCCAAAAGCCCTAGCACATATCCTTATCAATCATGTTACACATGTATT
9572356 TCATATAAACATCAAGGAACATGTATGAGCTCAATAATAATCAAATTTCCATATACA
131 TCATATAAACATCAAGGAACATGTATGAGCTCAATAATAATCAAATTTCCATATACA
* *
9572413 TAGTAAGTTTATATAACGGGAAAGTTAACTTACTATTCATTTACATTTAAGTTAAGCATACAAGA
1 TAGTAAGTTTATATAACGGGAAAGTTAACGTACTATTCATTTACATTTAAGTGAAGCATACAAGA
*
9572478 CATACTCAAGCAAATTGGCCAAAAGCCCTAGCACATATCCTTATCAATCATGTTAGACATGTATT
66 CATACTCAAGCAAATTGGCCAAAAGCCCTAGCACATATCCTTATCAATCATGTTACACATGTATT
*
9572543 TCATATAAACATCAAGGAACATGTATGAGCTCAATAGTAATCAAATTTCCATATACA
131 TCATATAAACATCAAGGAACATGTATGAGCTCAATAATAATCAAATTTCCATATACA
9572600 TA
1 TA
9572602 TACTTTCTTC
Statistics
Matches: 183, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
187 183 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (187 bp):
TAGTAAGTTTATATAACGGGAAAGTTAACGTACTATTCATTTACATTTAAGTGAAGCATACAAGA
CATACTCAAGCAAATTGGCCAAAAGCCCTAGCACATATCCTTATCAATCATGTTACACATGTATT
TCATATAAACATCAAGGAACATGTATGAGCTCAATAATAATCAAATTTCCATATACA
Found at i:9572862 original size:24 final size:25
Alignment explanation
Indices: 9572834--9572889 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
9572824 GAAGCTCTTT
*
9572834 CGAGCCATAT-ACGGGAAACTCATA
1 CGAGCCATATAACAGGAAACTCATA
* ** *
9572858 TGAGCTGTATAACAGGAATCTCATA
1 CGAGCCATATAACAGGAAACTCATA
9572883 CGAGCCA
1 CGAGCCA
9572890 ATATTGAGAA
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAACTCATA
Found at i:9572935 original size:26 final size:28
Alignment explanation
Indices: 9572897--9572956 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
9572887 CCAATATTGA
9572897 GAAGCT-ATAG-AA-AGCCAATTAATCGG
1 GAAGCTCATAGAAAGAGCC-ATTAATCGG
*
9572923 GAAGCTCAT-GAAAGAGCCTTTAATCGG
1 GAAGCTCATAGAAAGAGCCATTAATCGG
9572950 GAAGCTC
1 GAAGCTC
9572957 CGAAGAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 7 0.23
27 19 0.63
28 4 0.13
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (28 bp):
GAAGCTCATAGAAAGAGCCATTAATCGG
Found at i:9573067 original size:24 final size:24
Alignment explanation
Indices: 9573040--9573110 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
9573030 AGATGCTCTG
*
9573040 AAGAGCTATTAACGGGAAGCTCGC
1 AAGAGCTATTAACGGGAAGCTCAC
* * *
9573064 AAGAACCATATAACGGGAAGCTCAT
1 AAGAGCTAT-TAACGGGAAGCTCAC
* * *
9573089 GAGAGCTAATAACGGGACGCTC
1 AAGAGCTATTAACGGGAAGCTC
9573111 TTTCCAACTG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
24 19 0.51
25 18 0.49
ACGTcount: A:0.37, C:0.21, G:0.27, T:0.15
Consensus pattern (24 bp):
AAGAGCTATTAACGGGAAGCTCAC
Found at i:9573440 original size:21 final size:21
Alignment explanation
Indices: 9573416--9573455 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9573406 ATTTAACATA
*
9573416 AATTTAATACAATTCACATTC
1 AATTCAATACAATTCACATTC
* *
9573437 AATTCAATCCATTTCACAT
1 AATTCAATACAATTCACAT
9573456 CTTAGACAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.38
Consensus pattern (21 bp):
AATTCAATACAATTCACATTC
Found at i:9589354 original size:261 final size:261
Alignment explanation
Indices: 9588890--9589410 Score: 927
Period size: 261 Copynumber: 2.0 Consensus size: 261
9588880 TCAGTAGTTG
* *
9588890 GTGGATCCTAACTAGTGAGACAACTCTCCTCACCTTTTTATTTATGGACATAATGAATTCCCTCA
1 GTGGATCCCAACTAGTGAGACAACTCTCCTCACCTTCTTATTTATGGACATAATGAATTCCCTCA
*
9588955 TGCATGCTTTCTAGTAAGCTTAGTTGGAGGCATCGAGTATAAGATATTTGAAAATCGAACTTCCT
66 TGCATGCGTTCTAGTAAGCTTAGTTGGAGGCATCGAGTATAAGATATTTGAAAATCGAACTTCCT
* * * * *
9589020 TCCACATCTCAACAATTCAATAACGGGATCTTTACCAAATTCATCTAGTGTCTAGTTTTGATACC
131 TCCACATCTCAACAATTCAATAACAGAATCTTTACCAAATTCATCTAATGTCTAGATTTGAAACC
*
9589085 AAATGTTAGTATTGAGTTATTGGTTTAATTGTATTTTAAGTTACAACTAAGGAACAACTAAAATT
196 AAATGTTAGTATTGAGTTACTGGTTTAATTGTATTTTAAGTTACAACTAAGGAACAACTAAAATT
9589150 A
261 A
9589151 GTGGATCCCAACTAGTGAGACAACTCTCCTCACCTTCTTATTTATGGACATAATGAATTCCCTCA
1 GTGGATCCCAACTAGTGAGACAACTCTCCTCACCTTCTTATTTATGGACATAATGAATTCCCTCA
*
9589216 TGCATGCGTTCTAGTAAGCTTAGTTGGAGGCATCGAGTATAAGATATTTGGAAATCGAACTTCCT
66 TGCATGCGTTCTAGTAAGCTTAGTTGGAGGCATCGAGTATAAGATATTTGAAAATCGAACTTCCT
9589281 TCCACATCTCAACAATTCAATAACAGAATCTTTACCAAATT-AGTCTAATGTCTAGATTTGAAAC
131 TCCACATCTCAACAATTCAATAACAGAATCTTTACCAAATTCA-TCTAATGTCTAGATTTGAAAC
*
9589345 CAAATGTTAGTATTGAGTTACTGGTTTAATTGTATTTTAAGTTGCAACTAAGGAACAACTAAAAT
195 CAAATGTTAGTATTGAGTTACTGGTTTAATTGTATTTTAAGTTACAACTAAGGAACAACTAAAAT
9589410 T
260 T
9589411 GGAAAAATAA
Statistics
Matches: 248, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
260 1 0.00
261 247 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (261 bp):
GTGGATCCCAACTAGTGAGACAACTCTCCTCACCTTCTTATTTATGGACATAATGAATTCCCTCA
TGCATGCGTTCTAGTAAGCTTAGTTGGAGGCATCGAGTATAAGATATTTGAAAATCGAACTTCCT
TCCACATCTCAACAATTCAATAACAGAATCTTTACCAAATTCATCTAATGTCTAGATTTGAAACC
AAATGTTAGTATTGAGTTACTGGTTTAATTGTATTTTAAGTTACAACTAAGGAACAACTAAAATT
A
Found at i:9591581 original size:61 final size:61
Alignment explanation
Indices: 9591511--9591631 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 61
9591501 CTTCCTTTTT
* * * * *
9591511 AAACTTTTAGATTTAGAATTAAATTGATAAA-TTTTGTAAATGTTCATGGCTAAATTTATTG
1 AAACATTTAGAATTAGAACTAAA-TGATAAATTTTTGTAAATATTCAGGGCTAAATTTATTG
* *
9591572 AAACATTTAGAATTAGAACTAAATGATAAATTTTTGTAAATATTGAGGGTTAAATTTATT
1 AAACATTTAGAATTAGAACTAAATGATAAATTTTTGTAAATATTCAGGGCTAAATTTATT
9591632 AAATTTAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
60 7 0.13
61 45 0.87
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (61 bp):
AAACATTTAGAATTAGAACTAAATGATAAATTTTTGTAAATATTCAGGGCTAAATTTATTG
Found at i:9597862 original size:16 final size:18
Alignment explanation
Indices: 9597836--9597869 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9597826 TAGAATCGAG
9597836 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
9597853 TTGA-AAAATTAATTTAA
1 TTGAGAAAATTAATTTAA
9597870 AATTATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:9598298 original size:36 final size:36
Alignment explanation
Indices: 9598230--9598313 Score: 116
Period size: 36 Copynumber: 2.3 Consensus size: 36
9598220 GCCTCAACTG
*
9598230 GATTATGCCATGTAGGCGAATCTGACAAACCTCCCT
1 GATTATGCCATATAGGCGAATCTGACAAACCTCCCT
* *
9598266 AGATTATGCCATATAGGCG-ATCTGGCAGACCTCCCT
1 -GATTATGCCATATAGGCGAATCTGACAAACCTCCCT
9598302 GAATTATGCCAT
1 G-ATTATGCCAT
9598314 GGCCATGGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
35 1 0.02
36 25 0.58
37 17 0.40
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (36 bp):
GATTATGCCATATAGGCGAATCTGACAAACCTCCCT
Found at i:9598396 original size:22 final size:22
Alignment explanation
Indices: 9598368--9598421 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
9598358 CTGCAGAGTC
*
9598368 TCATACTATCCTTAAAAGGCTT
1 TCATACTATCCGTAAAAGGCTT
* *
9598390 TCATACTACCCGTAAAGGGCTT
1 TCATACTATCCGTAAAAGGCTT
9598412 TCATAACTAT
1 TCAT-ACTAT
9598422 GTTCACGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.33
Consensus pattern (22 bp):
TCATACTATCCGTAAAAGGCTT
Found at i:9607138 original size:87 final size:87
Alignment explanation
Indices: 9606989--9607171 Score: 208
Period size: 87 Copynumber: 2.1 Consensus size: 87
9606979 AACCTCAGAT
** * **
9606989 TATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAAGGATGGTGACGACCATCAACTATGATA
1 TATGAAAAGGGATAGCTTCGAATATCGAATATGAAAAAGGATACTGACGACCATCAACTATGA-A
9607054 AA-GGATGGTGACGACCATCAAA
65 AAGGGATGGTGACGACCATCAAA
* * * * * *
9607076 TATGAAAAGGGATAGCTTCGAATATCGAATGTGAAAATGGATAACT-TCGACTATCGATTATGAA
1 TATGAAAAGGGATAGCTTCGAATATCGAATATGAAAAAGGAT-ACTGACGACCATCAACTATGAA
* **
9607140 AAGGGATGGTGACGACCGTCAGC
65 AAGGGATGGTGACGACCATCAAA
9607163 TATGAAAAG
1 TATGAAAAG
9607172 AGATGATGAC
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
86 3 0.04
87 76 0.95
88 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.23
Consensus pattern (87 bp):
TATGAAAAGGGATAGCTTCGAATATCGAATATGAAAAAGGATACTGACGACCATCAACTATGAAA
AGGGATGGTGACGACCATCAAA
Found at i:9607155 original size:29 final size:29
Alignment explanation
Indices: 9606986--9607233 Score: 146
Period size: 29 Copynumber: 8.5 Consensus size: 29
9606976 ACAAACCTCA
* * * *
9606986 GATTATGAAAAGGGATAGCT-TCGGCTATC
1 GATTATGAAAAGGGAT-GGTGACGACCATC
*
9607015 GATTATGAAAAAGGATGGTGACGACCATC
1 GATTATGAAAAGGGATGGTGACGACCATC
* *
9607044 AACTATGATAAA-GGATGGTGACGACCATC
1 GATTATGA-AAAGGGATGGTGACGACCATC
* * * * **
9607073 AAATATGAAAAGGGATAGCT-TCGAATATC
1 GATTATGAAAAGGGAT-GGTGACGACCATC
* * * ** * *
9607102 GAATGTGAAAATGGATAACT-TCGACTATC
1 GATTATGAAAAGGGAT-GGTGACGACCATC
*
9607131 GATTATGAAAAGGGATGGTGACGACCGTC
1 GATTATGAAAAGGGATGGTGACGACCATC
* * * **
9607160 -AGCTATGAAAAGAGATGATGACGGTCATC
1 GA-TTATGAAAAGGGATGGTGACGACCATC
**
9607189 GATTAATGAAAAGGGATGGTTTCGACCATC
1 GATT-ATGAAAAGGGATGGTGACGACCATC
*
9607219 GAATATGAAAAGGGA
1 GATTATGAAAAGGGA
9607234 CGGTTACAAC
Statistics
Matches: 172, Mismatches: 39, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
28 7 0.04
29 137 0.80
30 28 0.16
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.23
Consensus pattern (29 bp):
GATTATGAAAAGGGATGGTGACGACCATC
Found at i:9607245 original size:29 final size:30
Alignment explanation
Indices: 9607185--9607246 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
9607175 TGATGACGGT
* * * *
9607185 CATCGATTAATGAAAAGGGATGGTTTCGAC
1 CATCGAATAATGAAAAGGGACGGTTACAAC
9607215 CATCGAAT-ATGAAAAGGGACGGTTACAAC
1 CATCGAATAATGAAAAGGGACGGTTACAAC
9607244 CAT
1 CAT
9607247 TGTTTAGCAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (30 bp):
CATCGAATAATGAAAAGGGACGGTTACAAC
Found at i:9609209 original size:9 final size:9
Alignment explanation
Indices: 9609195--9609264 Score: 104
Period size: 9 Copynumber: 7.8 Consensus size: 9
9609185 TTTGGTTAAA
9609195 AATTACCCG
1 AATTACCCG
9609204 AATTACCCG
1 AATTACCCG
*
9609213 AATTACCTG
1 AATTACCCG
9609222 AATTACCCG
1 AATTACCCG
*
9609231 AATTAACCG
1 AATTACCCG
*
9609240 AATTAACCG
1 AATTACCCG
*
9609249 AATTAACCG
1 AATTACCCG
9609258 AATTACC
1 AATTACC
9609265 GAAAAATACC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:9610725 original size:20 final size:20
Alignment explanation
Indices: 9610700--9610738 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
9610690 AGCACTTAGC
9610700 TTTCAAAGCTCTCAACCTTT
1 TTTCAAAGCTCTCAACCTTT
9610720 TTTCAAAGCTCTCAACCTT
1 TTTCAAAGCTCTCAACCTT
9610739 CCAAGGTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.31, G:0.05, T:0.38
Consensus pattern (20 bp):
TTTCAAAGCTCTCAACCTTT
Found at i:9610891 original size:68 final size:68
Alignment explanation
Indices: 9610813--9611086 Score: 238
Period size: 68 Copynumber: 4.0 Consensus size: 68
9610803 CCTTCCAGGC
* * * * *
9610813 ACTTAGCTTTTCAAAGCTTTTGACCTTCAAAGGTTGCGTACTTCTTAAAGTACTTAGCCCTCTCA
1 ACTTACCTTTTCAAAGATTTTGACCTTCTAAGGTTGCATACTTCTTAAAGTACTTAACCCTCTCA
9610878 AGA
66 AGA
* * * *
9610881 ACTTACCTTTTCAAATATTTTGGCCTT-TCAAGGTTGCATACTTCTTAAAGTA-TTCAGCCTCCT
1 ACTTACCTTTTCAAAGATTTTGACCTTCT-AAGGTTGCATACTTCTTAAAGTACTTAACCCT-CT
*
9610944 CAAGC
64 CAAGA
* * * *
9610949 ACTCT-CCTTTTCAAAGATTTTGACCTTCTAAGGTCT-CAAAC-TCTTTAAAGTATTTAATCATC
1 ACT-TACCTTTTCAAAGATTTTGACCTTCTAAGGT-TGCATACTTC-TTAAAGTACTTAACCCTC
9611011 TCAAGA
63 TCAAGA
*** * * * * *
9611017 ACTTTTGTTTTCAAAGCTCTTGACCTTCTAA-GCT-CATGTACTTCTTAAAGTACTTAACCTTTT
1 ACTTACCTTTTCAAAGATTTTGACCTTCTAAGGTTGCA--TACTTCTTAAAGTACTTAACCCTCT
9611080 CAAGA
64 CAAGA
9611085 AC
1 AC
9611087 CCAAATTTTT
Statistics
Matches: 168, Mismatches: 27, Indels: 22
0.77 0.12 0.10
Matches are distributed among these distances:
66 3 0.02
67 9 0.05
68 146 0.87
69 10 0.06
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.38
Consensus pattern (68 bp):
ACTTACCTTTTCAAAGATTTTGACCTTCTAAGGTTGCATACTTCTTAAAGTACTTAACCCTCTCA
AGA
Found at i:9611101 original size:68 final size:68
Alignment explanation
Indices: 9611024--9611152 Score: 159
Period size: 68 Copynumber: 1.9 Consensus size: 68
9611014 AGAACTTTTG
* ** * * *
9611024 TTTTCAAAGCTCTTGACCTTCTAAGCTCATGTACTTCTTAAAGTACTTAACCTTTTCAAGAACCC
1 TTTTCAAAGCACTCAACCTTCCAAGCTCATGTACTTCTTAAAATACTTAACCTTCTCAAGAACCC
9611089 AAA
66 AAA
* * ** *
9611092 TTTTTAAAGCACTCAACCTTCCAAGGTTGTGTACTTCTTAAAATATTTAACCTTCTCAAGA
1 TTTTCAAAGCACTCAACCTTCCAAGCTCATGTACTTCTTAAAATACTTAACCTTCTCAAGA
9611153 CCTTGGCTTC
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 50 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.36
Consensus pattern (68 bp):
TTTTCAAAGCACTCAACCTTCCAAGCTCATGTACTTCTTAAAATACTTAACCTTCTCAAGAACCC
AAA
Found at i:9623110 original size:9 final size:9
Alignment explanation
Indices: 9623091--9623139 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
9623081 TTTGGTTAAA
*
9623091 AATTAACCG
1 AATTACCCG
*
9623100 AATTACTCG
1 AATTACCCG
*
9623109 AATTAACCG
1 AATTACCCG
9623118 AATTACCCG
1 AATTACCCG
9623127 AATTACCCG
1 AATTACCCG
9623136 AATT
1 AATT
9623140 GAATCACTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTACCCG
Found at i:9623114 original size:18 final size:18
Alignment explanation
Indices: 9623091--9623139 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
9623081 TTTGGTTAAA
*
9623091 AATTAACCGAATTACTCG
1 AATTAACCGAATTACCCG
9623109 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
9623127 AATTACCCGAATT
1 AATTAACCGAATT
9623140 GAATCACTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:9623283 original size:18 final size:18
Alignment explanation
Indices: 9623260--9623303 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9623250 AATTTTTATG
*
9623260 ATTGGGTTGAGTTGGGTA
1 ATTGGGTTGAGTTGGATA
*
9623278 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGAGTTGGATA
*
9623296 CTTGGGTT
1 ATTGGGTT
9623304 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGAGTTGGATA
Found at i:9631160 original size:23 final size:23
Alignment explanation
Indices: 9631118--9631166 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
9631108 GTAATAAATG
*
9631118 TTTTATAGTATAAAATATGAATA
1 TTTTATAATATAAAATATGAATA
*
9631141 TTTTCATAATATAAAA-ATGAGTA
1 TTTT-ATAATATAAAATATGAATA
9631164 TTT
1 TTT
9631167 GTTTAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (23 bp):
TTTTATAATATAAAATATGAATA
Found at i:9632577 original size:16 final size:15
Alignment explanation
Indices: 9632552--9632585 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
9632542 TTTATCCTTA
*
9632552 AAAAATTATTTTTCAG
1 AAAAACTATTTTT-AG
9632568 AAAAACTATTTTTAG
1 AAAAACTATTTTTAG
9632583 AAA
1 AAA
9632586 GTATTGCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (15 bp):
AAAAACTATTTTTAG
Found at i:9638670 original size:23 final size:23
Alignment explanation
Indices: 9638639--9638686 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
9638629 AGAAACATGA
*
9638639 ATTTCAAATTCAAAAATATATAT
1 ATTTAAAATTCAAAAATATATAT
**
9638662 ATTTAAAATTCACGAATATATAT
1 ATTTAAAATTCAAAAATATATAT
9638685 AT
1 AT
9638687 ATACTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (23 bp):
ATTTAAAATTCAAAAATATATAT
Found at i:9641743 original size:26 final size:25
Alignment explanation
Indices: 9641714--9641763 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
9641704 CAATTTAATA
9641714 ATTCAATTCAAAC-CATTTCAATTTCT
1 ATTCAA-T-AAACACATTTCAATTTCT
*
9641740 ATTCAATAATCACATTTCAATTTC
1 ATTCAATAAACACATTTCAATTTC
9641764 ACTTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTCAATAAACACATTTCAATTTCT
Found at i:9642662 original size:8 final size:7
Alignment explanation
Indices: 9642649--9642696 Score: 51
Period size: 8 Copynumber: 6.3 Consensus size: 7
9642639 GTTACTTTAC
9642649 TATATATA
1 TATATA-A
9642657 TATATATA
1 TATATA-A
*
9642665 TATAAAA
1 TATATAA
9642672 TATAATAA
1 TAT-ATAA
9642680 TAATATAA
1 T-ATATAA
9642688 TATATAA
1 TATATAA
9642695 TA
1 TA
9642697 AAACATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
7 12 0.33
8 22 0.61
9 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TATATAA
Found at i:9642687 original size:5 final size:5
Alignment explanation
Indices: 9642649--9642761 Score: 79
Period size: 5 Copynumber: 21.8 Consensus size: 5
9642639 GTTACTTTAC
* *
9642649 TATATA TATATA TATATA TAAAA TATAA TAATAA TATAATA TATAA TAAAA
1 TATA-A TATA-A TATA-A TATAA TATAA T-ATAA TAT-A-A TATAA TATAA
* * * * *
9642700 CATAA TA-AA TAT-C TTTAT TAT-T TAATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA TATAA
9642748 TATAA TATAA TATA
1 TATAA TATAA TATA
9642762 TTGAACTTAA
Statistics
Matches: 89, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
4 8 0.09
5 54 0.61
6 23 0.26
7 4 0.04
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:9652946 original size:33 final size:33
Alignment explanation
Indices: 9652909--9652972 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
9652899 AAATACTACC
*
9652909 ATAAATATAATAAATGTTTTATTATATTAAAAA
1 ATAAATATAATAAATATTTTATTATATTAAAAA
*
9652942 ATAAATATAATAAATATTTTATTGTATTAAA
1 ATAAATATAATAAATATTTTATTATATTAAA
9652973 TATAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (33 bp):
ATAAATATAATAAATATTTTATTATATTAAAAA
Found at i:9653927 original size:3 final size:3
Alignment explanation
Indices: 9653903--9653945 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
9653893 AGCACGAGAG
*
9653903 AGA AGA CAGA A-A AGA A-A AGA AGA AGA CGA AGA AGA AGA AGA AG
1 AGA AGA -AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
9653946 CAGCAGCAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.11
3 28 0.80
4 3 0.09
ACGTcount: A:0.65, C:0.05, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:9654393 original size:9 final size:9
Alignment explanation
Indices: 9654379--9654436 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
9654369 TTTGGTTAAA
9654379 AATTAACCG
1 AATTAACCG
* *
9654388 AATTAATCA
1 AATTAACCG
*
9654397 AATTAACTG
1 AATTAACCG
*
9654406 AATTACCCG
1 AATTAACCG
9654415 AATT-ACCTG
1 AATTAACC-G
9654424 AATTAACCG
1 AATTAACCG
9654433 AATT
1 AATT
9654437 GAATCATTAC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
8 2 0.05
9 34 0.87
10 3 0.08
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:9654418 original size:18 final size:18
Alignment explanation
Indices: 9654379--9654436 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
9654369 TTTGGTTAAA
* * *
9654379 AATTAACCGAATTAATCA
1 AATTAACTGAATTAACCG
*
9654397 AATTAACTGAATTACCCG
1 AATTAACTGAATTAACCG
*
9654415 AATTACCTGAATTAACCG
1 AATTAACTGAATTAACCG
9654433 AATT
1 AATT
9654437 GAATCATTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (18 bp):
AATTAACTGAATTAACCG
Found at i:9654563 original size:13 final size:13
Alignment explanation
Indices: 9654545--9654569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9654535 TATGATTGGG
9654545 TTGGGTTGGGTAA
1 TTGGGTTGGGTAA
9654558 TTGGGTTGGGTA
1 TTGGGTTGGGTA
9654570 GAAGACTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
TTGGGTTGGGTAA
Found at i:9657387 original size:123 final size:122
Alignment explanation
Indices: 9657120--9657353 Score: 305
Period size: 122 Copynumber: 1.9 Consensus size: 122
9657110 ATCGATACCA
* * * * * *
9657120 TATCGATACTTGATAAA-ACCTTT-AAAAGTCAGAATGTCAATTTCGTATTGATACCGAAAAAGG
1 TATCGATACTTGATAAATA-CTTTGAAAA-ACAAAATGCCATTTTCGTATCGATACCAAAAAAGG
* * *
9657183 TATTGATAAAAGTGTAACACTACGATACTTGAAAAAATTTATTGATACCAAACAAAATG
64 TATCGATAAAAGTGTAACACTACGATACTTCAAAAAATTTATCGATACCAAACAAAATG
9657242 TATCGATACTTGATAAATACTTTGAAAAACAAAATGCCATTTTCGTATCGATACCAAAAAAGGTA
1 TATCGATACTTGATAAATACTTTGAAAAACAAAATGCCATTTTCGTATCGATACCAAAAAAGGTA
*
9657307 TCGATAGAAGTGTAA-ATCTATCGATAC-TCAACAAAATTTATCGATAC
66 TCGATAAAAGTGTAACA-CTA-CGATACTTCAA-AAAATTTATCGATAC
9657354 TTGATAGAAA
Statistics
Matches: 97, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
121 1 0.01
122 71 0.73
123 25 0.26
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (122 bp):
TATCGATACTTGATAAATACTTTGAAAAACAAAATGCCATTTTCGTATCGATACCAAAAAAGGTA
TCGATAAAAGTGTAACACTACGATACTTCAAAAAATTTATCGATACCAAACAAAATG
Found at i:9671872 original size:72 final size:72
Alignment explanation
Indices: 9671755--9671899 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
9671745 AGATTGGTTA
9671755 TCTCAATAAATCTCTGTTACGTCCCCTTGATTCAAATTTAAGTCACACAACAGCTTCTTTAGCCA
1 TCTCAATAAATCTCTGTTACGTCCCCTTGATTCAAATTTAAGTCACACAACAGCTTCTTTAGCCA
9671820 AATGGCT
66 AATGGCT
9671827 TCTCAATAAATCTCTGTTACGTCCCCTTGATTCAAATTTAAGTCACACAACAGCTTCTTTAGCCA
1 TCTCAATAAATCTCTGTTACGTCCCCTTGATTCAAATTTAAGTCACACAACAGCTTCTTTAGCCA
9671892 AATGGCT
66 AATGGCT
9671899 T
1 T
9671900 AGTTTACAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (72 bp):
TCTCAATAAATCTCTGTTACGTCCCCTTGATTCAAATTTAAGTCACACAACAGCTTCTTTAGCCA
AATGGCT
Found at i:9682156 original size:15 final size:16
Alignment explanation
Indices: 9682127--9682156 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9682117 CAAACATGCT
9682127 TTAACACATTATCAAA
1 TTAACACATTATCAAA
9682143 TTAACACA-TATCAA
1 TTAACACATTATCAA
9682157 CAAAGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:9683153 original size:269 final size:269
Alignment explanation
Indices: 9682674--9683211 Score: 1058
Period size: 269 Copynumber: 2.0 Consensus size: 269
9682664 ATAACAACAT
9682674 TAATTCAATTCATCATTCCCTTTTCCATCATTCTACACTTCAGGTATGAACTTACTATTTCATTA
1 TAATTCAATTCATCATTCCCTTTTCCATCATTCTACACTTCAGGTATGAACTTACTATTTCATTA
9682739 CCTTTCCACACCCGTTTCATATGCATAACACACAAGACATAAGTATATCATTCAAACATAGCCAC
66 CCTTTCCACACCCGTTTCATATGCATAACACACAAGACATAAGTATATCATTCAAACATAGCCAC
9682804 AAGCTAGTGCATTAAAACATAACTCTTTTTGGAATTAGTCACATGATAAACCATTTCAAAAGAAA
131 AAGCTAGTGCATTAAAACATAACTCTTTTTGGAATTAGTCACATGATAAACCATTTCAAAAGAAA
9682869 TAACATAATTTAAACCTTACCACTCTTTCACAAACACAAGCATATTTCCATTGGAGACTTACCAT
196 TAACATAATTTAAACCTTACCACTCTTTCACAAACACAAGCATATTTCCATTGGAGACTTACCAT
9682934 TTCAATGCA
261 TTCAATGCA
9682943 TAATTCAATTCATCATTCCCTTTTCCATCATTCTACACTTCAGGTATGAACTTACTATTTCATTA
1 TAATTCAATTCATCATTCCCTTTTCCATCATTCTACACTTCAGGTATGAACTTACTATTTCATTA
9683008 CCTTTCCACACCCGTTTCATATGCATAACACACAAGACATAAGTATATCATTCAAACATAGCCAC
66 CCTTTCCACACCCGTTTCATATGCATAACACACAAGACATAAGTATATCATTCAAACATAGCCAC
*
9683073 AAGCTAGTGCATTAAAACATAACTCTTTTTGGAATTAGTCACATGATAAACCATTTCATAAGAAA
131 AAGCTAGTGCATTAAAACATAACTCTTTTTGGAATTAGTCACATGATAAACCATTTCAAAAGAAA
*
9683138 TAACATAATTTAAACCTTACCACTCTTTCACAAACACAAGCATATTTCCATTGGAGATTTACCAT
196 TAACATAATTTAAACCTTACCACTCTTTCACAAACACAAGCATATTTCCATTGGAGACTTACCAT
9683203 TTCAATGCA
261 TTCAATGCA
9683212 ACTTATAAGT
Statistics
Matches: 267, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
269 267 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (269 bp):
TAATTCAATTCATCATTCCCTTTTCCATCATTCTACACTTCAGGTATGAACTTACTATTTCATTA
CCTTTCCACACCCGTTTCATATGCATAACACACAAGACATAAGTATATCATTCAAACATAGCCAC
AAGCTAGTGCATTAAAACATAACTCTTTTTGGAATTAGTCACATGATAAACCATTTCAAAAGAAA
TAACATAATTTAAACCTTACCACTCTTTCACAAACACAAGCATATTTCCATTGGAGACTTACCAT
TTCAATGCA
Found at i:9683525 original size:25 final size:25
Alignment explanation
Indices: 9683501--9683624 Score: 87
Period size: 25 Copynumber: 5.0 Consensus size: 25
9683491 ATACATGTAT
*
9683501 GCTCATATGAGCTATGAATCGGTAT
1 GCTCATATGAGCTATGAATCGGTAA
* * *
9683526 GTTC-TCATGAGCTATAAATCAGTAA
1 GCTCAT-ATGAGCTATGAATCGGTAA
*
9683551 GCTTATATGAGCTGA-GAATCGGTAA
1 GCTCATATGAGCT-ATGAATCGGTAA
** *
9683576 GCTTTTATGAGC--TGAAATCGATAA
1 GCTCATATGAGCTATG-AATCGGTAA
* *
9683600 GCTTATACGAGCTGA-GAATCGGTAA
1 GCTCATATGAGCT-ATGAATCGGTAA
9683625 CCTCTCACGA
Statistics
Matches: 78, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
23 1 0.01
24 19 0.24
25 55 0.71
26 3 0.04
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (25 bp):
GCTCATATGAGCTATGAATCGGTAA
Found at i:9683570 original size:50 final size:49
Alignment explanation
Indices: 9683505--9683648 Score: 168
Period size: 49 Copynumber: 2.9 Consensus size: 49
9683495 ATGTATGCTC
* *
9683505 ATATGAGCT-ATGAATCGGTATG-TTCTCATGAGCTATAAATC-AGTAAGCTT
1 ATATGAGCTGA-GAATCGGTAAGCTT-TCATGAGCT-GAAATCGA-TAAGCTT
*
9683555 ATATGAGCTGAGAATCGGTAAGCTTTTATGAGCTGAAATCGATAAGCTT
1 ATATGAGCTGAGAATCGGTAAGCTTTCATGAGCTGAAATCGATAAGCTT
* * * *
9683604 ATACGAGCTGAGAATCGGTAACCTCTCACGAGCTGAAATCGATAA
1 ATATGAGCTGAGAATCGGTAAGCTTTCATGAGCTGAAATCGATAA
9683649 TCCCTAATGA
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
49 52 0.63
50 28 0.34
51 3 0.04
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (49 bp):
ATATGAGCTGAGAATCGGTAAGCTTTCATGAGCTGAAATCGATAAGCTT
Found at i:9683600 original size:24 final size:25
Alignment explanation
Indices: 9683548--9683648 Score: 109
Period size: 25 Copynumber: 4.1 Consensus size: 25
9683538 TATAAATCAG
* *
9683548 TAAGCTTATATGAGCTGAGAATCGG
1 TAAGCTTATACGAGCTGAGAATCGA
* *
9683573 TAAGCTTTTATGAGCTGA-AATCGA
1 TAAGCTTATACGAGCTGAGAATCGA
*
9683597 TAAGCTTATACGAGCTGAGAATCGG
1 TAAGCTTATACGAGCTGAGAATCGA
* *
9683622 TAACCTCT-CACGAGCTGA-AATCGA
1 TAAGCT-TATACGAGCTGAGAATCGA
9683646 TAA
1 TAA
9683649 TCCCTAATGA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
24 29 0.44
25 36 0.55
26 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (25 bp):
TAAGCTTATACGAGCTGAGAATCGA
Found at i:9685447 original size:16 final size:16
Alignment explanation
Indices: 9685426--9685457 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9685416 TTTAGGTACT
9685426 AAAAGAACATTTGAAA
1 AAAAGAACATTTGAAA
9685442 AAAAGAACATTTGAAA
1 AAAAGAACATTTGAAA
9685458 TCACTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (16 bp):
AAAAGAACATTTGAAA
Found at i:9694212 original size:16 final size:16
Alignment explanation
Indices: 9694191--9694240 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
9694181 AATGAAAAGG
*
9694191 TTGAAAATGATATCGA
1 TTGAAAATGATATCAA
9694207 TTGAAAATGATATCAA
1 TTGAAAATGATATCAA
* *
9694223 ATGAAAAGGATAT-AA
1 TTGAAAATGATATCAA
9694238 TTG
1 TTG
9694241 GAATGGATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.48, C:0.04, G:0.18, T:0.30
Consensus pattern (16 bp):
TTGAAAATGATATCAA
Found at i:9710236 original size:40 final size:41
Alignment explanation
Indices: 9710159--9710306 Score: 147
Period size: 41 Copynumber: 3.6 Consensus size: 41
9710149 TGAACCTAAC
* * * * * * *
9710159 AGGCTTTGTACCGGTTTAACGATTCAAGCCTTAAGCCTAGA
1 AGGCTTCGTGCCGGTGTAATGAATCAGGCCTTGAGCCTAGA
* *
9710200 AGGCTTCATG-CGGTGTAATGAATCAGGCCTTGAGCCTAGT
1 AGGCTTCGTGCCGGTGTAATGAATCAGGCCTTGAGCCTAGA
* * *
9710240 AGGCTTCGTGTCGGTGT-ATGAAATTAGGCCTTGAGCCTAGC
1 AGGCTTCGTGCCGGTGTAATG-AATCAGGCCTTGAGCCTAGA
* *
9710281 AGGCTTCGTGCCAGTGTAGTGAATCA
1 AGGCTTCGTGCCGGTGTAATGAATCA
9710307 AATAACCGTT
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
40 36 0.41
41 50 0.57
42 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (41 bp):
AGGCTTCGTGCCGGTGTAATGAATCAGGCCTTGAGCCTAGA
Found at i:9711648 original size:9 final size:9
Alignment explanation
Indices: 9711619--9711663 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
9711609 AAGTTATATA
*
9711619 TATAAATAT
1 TATAATTAT
9711628 TAT-ATGTA-
1 TATAAT-TAT
9711636 TATAATTAT
1 TATAATTAT
9711645 TATAATTAT
1 TATAATTAT
9711654 TATAATTAT
1 TATAATTAT
9711663 T
1 T
9711664 TATTTAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TATAATTAT
Done.