Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009014.1 Hibiscus syriacus cultivar Beakdansim tig00112402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3470424
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 13
Found at i:686704 original size:21 final size:21
Alignment explanation
Indices: 686678--686734 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
686668 TTAATAGGGA
*
686678 AGTATCGATACCTCTTTAGTG
1 AGTATCGATACCCCTTTAGTG
686699 AGTATCGATACCCCTTTAGTG
1 AGTATCGATACCCCTTTAGTG
686720 AGTATCGATACCCCT
1 AGTATCGATACCCCT
686735 AAAACATCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (21 bp):
AGTATCGATACCCCTTTAGTG
Found at i:690137 original size:122 final size:121
Alignment explanation
Indices: 689978--690408 Score: 407
Period size: 122 Copynumber: 3.5 Consensus size: 121
689968 TTGGAAATGG
* * * * * * * * *
689978 CACTGCTAATCCATATTTAAAAGATCTGGCCATTTTCAGGTAAATTGTTTGTTAAATATGACGTT
1 CACTGCTCATCCATATTGAAGAGATCTGGCCACTTTCAGGTGAATTGCTTGTTGAAGATGACATT
* *
690043 GTTCCTTCTCATTGAGGAAGTTGGGTCAATATGAAGATAATTTGTTATTGAAGACGA
66 GTTCCTTCTCATTGAGGAAGTT-GGTCAATCTGAAGATAATTTGGTATTGAAGACGA
* * *
690100 CACTGCTCATTCATATTGAAGAGATCTGGCCGCTTTCAGGTGATTTGCTTGTTGAAGATGACATT
1 CACTGCTCATCCATATTGAAGAGATCTGGCCACTTTCAGGTGAATTGCTTGTTGAAGATGACATT
* * * * * * *
690165 GTTCCTTCTTATTAAGGAAGTCAGGTAAATCTGAAGATAATTTGGTGTTAAAGATGA
66 GTTCCTTCTCATTGAGGAAGT-TGGTCAATCTGAAGATAATTTGGTATTGAAGACGA
* * * * * ** * ** * * **
690222 TATTTCTCATCCATATTAAAGAGATATAACCATTTTTGGGTGATTTACTTACTGAAGATGACATT
1 CACTGCTCATCCATATTGAAGAGATCTGGCCACTTTCAGGTGAATTGCTTGTTGAAGATGACATT
* * * *
690287 TTTCCTTCTCATCGAGGATA-TCTGGTCAATCTGGAGATAATTTGGTATTGAAGGCGA
66 GTTCCTTCTCATTGAGGA-AGT-TGGTCAATCTGAAGATAATTTGGTATTGAAGACGA
* * **
690344 CACTGCTCATCCACATTGAAGAGATCT-GCCTACTTTCAGGTGAATTGTTTACTGAAGATGGACA
1 CACTGCTCATCCATATTGAAGAGATCTGGCC-ACTTTCAGGTGAATTGCTTGTTGAAGAT-GACA
690408 T
64 T
690409 CAAAGAAAAG
Statistics
Matches: 245, Mismatches: 60, Indels: 7
0.79 0.19 0.02
Matches are distributed among these distances:
121 2 0.01
122 237 0.97
123 6 0.02
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (121 bp):
CACTGCTCATCCATATTGAAGAGATCTGGCCACTTTCAGGTGAATTGCTTGTTGAAGATGACATT
GTTCCTTCTCATTGAGGAAGTTGGTCAATCTGAAGATAATTTGGTATTGAAGACGA
Found at i:690479 original size:50 final size:50
Alignment explanation
Indices: 690414--690525 Score: 138
Period size: 50 Copynumber: 2.2 Consensus size: 50
690404 GACATCAAAG
* * *
690414 AAAAGTTTACTCCTCTCT-GTGAGAAAGTAAAGTTGAGAATGACAT-AGCTA
1 AAAAGTTAACTCCTCT-TGGCGAGAAACTAAAGTTGAGAATGACATCA-CTA
* *
690464 AAAAGTTAACTCCTCTTGGCGAGAAACTCAAGTTGAGAATGACATCACTG
1 AAAAGTTAACTCCTCTTGGCGAGAAACTAAAGTTGAGAATGACATCACTA
*
690514 AAAAGTTGACTC
1 AAAAGTTAACTC
690526 ATATTCCTGA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
49 1 0.02
50 52 0.96
51 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (50 bp):
AAAAGTTAACTCCTCTTGGCGAGAAACTAAAGTTGAGAATGACATCACTA
Found at i:690538 original size:50 final size:51
Alignment explanation
Indices: 690433--690545 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 51
690423 CTCCTCTCTG
* * * *
690433 TGAGAAAGTAAAGTTGAGAATGACATAGCTAAAAAGTTAACTCCTCTTGGC
1 TGAGAAAGTCAAGTTGAGAATGACATAGCTAAAAAGTTAACTCATATTGCC
* * *
690484 -GAGAAACTCAAGTTGAGAATGACATCA-CTGAAAAGTTGACTCATATT-CC
1 TGAGAAAGTCAAGTTGAGAATGACAT-AGCTAAAAAGTTAACTCATATTGCC
690533 TGAGAAAGTCAAG
1 TGAGAAAGTCAAG
690546 AATGACATCA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
49 1 0.02
50 50 0.96
51 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (51 bp):
TGAGAAAGTCAAGTTGAGAATGACATAGCTAAAAAGTTAACTCATATTGCC
Found at i:690700 original size:90 final size:89
Alignment explanation
Indices: 690499--690899 Score: 359
Period size: 90 Copynumber: 4.5 Consensus size: 89
690489 ACTCAAGTTG
* * * * * * *
690499 AGAATGACATCACTGAAAAGTTGACTCATATTCCTGAGAAAGTCAAGAATGACATCA-T-TAAAA
1 AGAATGACATCACTTAAAGGTTGACTCCTTTTAC-GAGAAAGTCAATAATGACATCACTAAAAAA
* *
690562 TGTGACTCTTCTTCGTGAGAAAGTCA
65 T-TGACTCCTCTTCGCGAGAAAGTCA
* * * * * * *
690588 AGATTGACGTCACTTAATGGTTGACTTCTCTTTACGAGAAAGTAAAAAATGACATCATTAAAAAA
1 AGAATGACATCACTTAAAGGTTGACTCCT-TTTACGAGAAAGTCAATAATGACATCACTAAAAAA
* *
690653 TTGAATCCTCTTCACGAGAAAGTCA
65 TTGACTCCTCTTCGCGAGAAAGTCA
* * *
690678 AGAATGACGA-CACTTAAAGGTTGACTCCTTTTCGCGAGAAAGTCAATAATAACATCACTAAAAG
1 AGAATGAC-ATCACTTAAAGGTTGACTCCTTTT-ACGAGAAAGTCAATAATGACATCACTAAAAA
* *
690742 ATTGACT-CTCTTCGCCAGAAAATCA
64 ATTGACTCCTCTTCGCGAGAAAGTCA
* ** * **
690767 AGAATGACATCACTAAAAGGTTAGA-T-CTTCGA-GAGAAAGTGAATAATGACATCACTAAAAGG
1 AGAATGACATCACTTAAAGGTT-GACTCCTTTTACGAGAAAGTCAATAATGACATCACTAAAAAA
*
690829 TTGACTCCTATTCGCGTA-AAAGTCA
65 TTGACTCCTCTTCGCG-AGAAAGTCA
* * * **
690854 ATAATGACATCACTGAAAGGTTGGCTCCTCTTTGTGAGAAAGTCAA
1 AGAATGACATCACTTAAAGGTTGACTCCT-TTTACGAGAAAGTCAA
690900 GTTAAGGTAA
Statistics
Matches: 252, Mismatches: 47, Indels: 25
0.78 0.15 0.08
Matches are distributed among these distances:
86 34 0.13
87 34 0.13
88 7 0.03
89 81 0.32
90 91 0.36
91 5 0.02
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (89 bp):
AGAATGACATCACTTAAAGGTTGACTCCTTTTACGAGAAAGTCAATAATGACATCACTAAAAAAT
TGACTCCTCTTCGCGAGAAAGTCA
Found at i:690815 original size:42 final size:42
Alignment explanation
Indices: 690501--690876 Score: 242
Period size: 45 Copynumber: 8.5 Consensus size: 42
690491 TCAAGTTGAG
*
690501 AATGACATCACTGAAAA-GTTGACTCATATTC-CTGAGAAAGTCAAG
1 AATGACATCACT-AAAAGGTTGACTC---TTCGC-GAGAAAGTCAAT
* * * *
690546 AATGACATCATTAAAATG-TGACTCTTCTTCGTGAGAAAGTCAAG
1 AATGACATCACTAAAAGGTTGA--C-TCTTCGCGAGAAAGTCAAT
* * * * ** * *
690590 ATTGACGTCACTTAATGGTTGACTTCTCTTTACGAGAAAGTAAAA
1 AATGACATCACTAAAAGGTTGA---CTCTTCGCGAGAAAGTCAAT
* ** * *
690635 AATGACATCATTAAAAAATTGAATCCTCTTCACGAGAAAGTCAAG
1 AATGACATCACTAAAAGGTTG-A--CTCTTCGCGAGAAAGTCAAT
*
690680 AATGACGA-CACTTAAAGGTTGACTCCTTTTCGCGAGAAAGTCAAT
1 AATGAC-ATCACTAAAAGGTTGACT-C--TTCGCGAGAAAGTCAAT
* * * * *
690725 AATAACATCACTAAAAGATTGACTCTCTTCGCCAGAAAATCAAG
1 AATGACATCACTAAAAGGTTGA--CTCTTCGCGAGAAAGTCAAT
* *
690769 AATGACATCACTAAAAGGTTAGA-TCTTCGAGAGAAAGTGAAT
1 AATGACATCACTAAAAGGTT-GACTCTTCGCGAGAAAGTCAAT
690811 AATGACATCACTAAAAGGTTGACTCCTATTCGCGTA-AAAGTCAAT
1 AATGACATCACTAAAAGGTTGACT-C--TTCGCG-AGAAAGTCAAT
*
690856 AATGACATCACTGAAAGGTTG
1 AATGACATCACTAAAAGGTTG
690877 GCTCCTCTTT
Statistics
Matches: 263, Mismatches: 47, Indels: 42
0.75 0.13 0.12
Matches are distributed among these distances:
41 2 0.01
42 37 0.14
43 2 0.01
44 68 0.26
45 143 0.54
46 7 0.03
47 4 0.02
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (42 bp):
AATGACATCACTAAAAGGTTGACTCTTCGCGAGAAAGTCAAT
Found at i:690875 original size:176 final size:178
Alignment explanation
Indices: 690499--690900 Score: 426
Period size: 176 Copynumber: 2.3 Consensus size: 178
690489 ACTCAAGTTG
* * * * *
690499 AGAATGACATCACTGAAAAGTTGACTCATATTC-CTGAGAAAGTCAAGAATGACATCATTAAAAT
1 AGAATGACATCACTGAAAGGTTGACTCCTTTTCGC-GAGAAAGTCAAGAATAACATCATAAAAAT
** * * * * * **
690563 GTGACTCTTCTTCGTGAGAAAGTCAAGATTGACGTCACTTAATGGTTGACTTCTCTTTACGAGAA
65 GTGACTCTTCTTCGCCAGAAAATCAAGAATGACATCACTAAAAGGTTGAC-TCTCTCGACGAGAA
* *
690628 AGTAAAAAATGACATCATTAAAAAATTGAATCCTCTTCACGAGAAAGTCA
129 AGTAAAAAATGACATCACTAAAAAATTGAATCCTATTCACGAGAAAGTCA
* *
690678 AGAATGACGA-CACTTAAAGGTTGACTCCTTTTCGCGAGAAAGTCAATAATAACATCACTAAAAG
1 AGAATGAC-ATCACTGAAAGGTTGACTCCTTTTCGCGAGAAAGTCAAGAATAACATCA-TAAAA-
690742 AT-TGACTC-TCTTCGCCAGAAAATCAAGAATGACATCACTAAAAGGTTAGA-TCT-TCGA-GAG
63 ATGTGACTCTTCTTCGCCAGAAAATCAAGAATGACATCACTAAAAGGTT-GACTCTCTCGACGAG
* * ** * *
690802 AAAGTGAATAATGACATCACTAAAAGGTTGACTCCTATTCGCGTA-AAAGTCA
127 AAAGTAAAAAATGACATCACTAAAAAATTGAATCCTATTCACG-AGAAAGTCA
* * *
690854 ATAATGACATCACTGAAAGGTTGGCTCCTCTTT-GTGAGAAAGTCAAG
1 AGAATGACATCACTGAAAGGTTGACTCCT-TTTCGCGAGAAAGTCAAG
690901 TTAAGGTAAA
Statistics
Matches: 186, Mismatches: 29, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
175 1 0.01
176 81 0.44
177 6 0.03
178 3 0.02
179 79 0.42
180 14 0.08
181 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (178 bp):
AGAATGACATCACTGAAAGGTTGACTCCTTTTCGCGAGAAAGTCAAGAATAACATCATAAAAATG
TGACTCTTCTTCGCCAGAAAATCAAGAATGACATCACTAAAAGGTTGACTCTCTCGACGAGAAAG
TAAAAAATGACATCACTAAAAAATTGAATCCTATTCACGAGAAAGTCA
Found at i:692059 original size:9 final size:9
Alignment explanation
Indices: 692045--692077 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
692035 TTGATTCATT
692045 TTTTTCTTG
1 TTTTTCTTG
692054 TTTTTCTTG
1 TTTTTCTTG
692063 TTTTTTCTTG
1 -TTTTTCTTG
692073 TTTTT
1 TTTTT
692078 TCTTTTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (9 bp):
TTTTTCTTG
Found at i:692067 original size:10 final size:10
Alignment explanation
Indices: 692044--692104 Score: 70
Period size: 10 Copynumber: 5.9 Consensus size: 10
692034 CTTGATTCAT
692044 TTTTTTCTTG
1 TTTTTTCTTG
692054 -TTTTTCTTG
1 TTTTTTCTTG
692063 TTTTTTCTTG
1 TTTTTTCTTG
692073 TTTTTTCTTTTG
1 TTTTTTC--TTG
* *
692085 TTTATTTTTTC
1 TTT-TTTCTTG
692096 TTTTTTCTT
1 TTTTTTCTT
692105 ATCTTATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
9 9 0.20
10 21 0.48
11 5 0.11
12 6 0.14
13 3 0.07
ACGTcount: A:0.02, C:0.10, G:0.07, T:0.82
Consensus pattern (10 bp):
TTTTTTCTTG
Found at i:696946 original size:24 final size:24
Alignment explanation
Indices: 696919--696983 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
696909 TATATCAAAA
*
696919 ATCAAAACATAATTC-AGATCAGAT
1 ATCAAAACAGAATTCAAG-TCAGAT
* *
696943 ATCAGAACAGAATCCAAGTCAGAT
1 ATCAAAACAGAATTCAAGTCAGAT
*
696967 ATCATAACAGAATTCAA
1 ATCAAAACAGAATTCAA
696984 ATCGGAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 33 0.94
25 2 0.06
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAATTCAAGTCAGAT
Found at i:697927 original size:9 final size:9
Alignment explanation
Indices: 697904--697939 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
697894 AGACATTTAC
697904 TTATTCTTGG
1 TTATT-TTGG
*
697914 CTATTTTGG
1 TTATTTTGG
697923 TTATTTTGG
1 TTATTTTGG
697932 TTATTTTG
1 TTATTTTG
697940 ATGCTCAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.11, C:0.06, G:0.19, T:0.64
Consensus pattern (9 bp):
TTATTTTGG
Found at i:699053 original size:19 final size:19
Alignment explanation
Indices: 699003--699054 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
698993 CGGTCGACTT
699003 AGTCCACACCGGTCCAGACC
1 AGTCCA-ACCGGTCCAGACC
* * * * *
699023 GGTTCAATCGGTTCAGATC
1 AGTCCAACCGGTCCAGACC
699042 AGTCCAACCGGTC
1 AGTCCAACCGGTC
699055 AACACACTCC
Statistics
Matches: 23, Mismatches: 9, Indels: 1
0.70 0.27 0.03
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.19
Consensus pattern (19 bp):
AGTCCAACCGGTCCAGACC
Found at i:700503 original size:215 final size:214
Alignment explanation
Indices: 700121--700526 Score: 589
Period size: 215 Copynumber: 1.9 Consensus size: 214
700111 AATATTAAAT
* * * * * *
700121 AATTATTAATTTAGACATTGATTGTATGTCTTTCACTCGTGTGTCTTAAAGAAAAACACTCCAGG
1 AATTATTAATTTAGAAATTAACTATAGGTCTTTCACTCGTGTGTCTTAAAGAAAAACACTCCAAG
* * * * * * * *
700186 TATTTGGAAGTTTTCTAACGTATCCCTTTTTGTTTGAGACGTTATCCCAAAATAAATTATAATTT
66 TATTTGGAAGTTTTCTAACGGAACACTCTTCGTTCGAGAAGTTATCCCAAAATAAAATATAATTT
* * ** **
700251 TTCTAGTAAATTATTTTTTAAAAATAAATTTATATAAAAGATAACTTCAAGTAAAAAATGAAATG
131 TTATAGTAAAATATTTTAAAAAAATAAATGAATATAAAAGATAACTTCAAGTAAAAAATGAAATG
700316 ATAATAATAATAATACAAA
196 ATAATAATAATAATACAAA
*
700335 AATTATTAATTTAGAAATTAACTATAGGTCTTTCACTTGTGTGTCTTAAAGGAAAAACACTCCAA
1 AATTATTAATTTAGAAATTAACTATAGGTCTTTCACTCGTGTGTCTTAAA-GAAAAACACTCCAA
*
700400 GTATTTGGAAGTTTTCTAACGGAACACTCTTCGTTCGAGAAGTTATCTCAAAATAAAATATAATT
65 GTATTTGGAAGTTTTCTAACGGAACACTCTTCGTTCGAGAAGTTATCCCAAAATAAAATATAATT
700465 TTTATAGTAAAATA-TTTAAAAAATATAAATGAATATAAAAGATAACTTCAAGTAAAAAATGA
130 TTTATAGTAAAATATTTTAAAAAA-ATAAATGAATATAAAAGATAACTTCAAGTAAAAAATGA
700527 TGTTTATATA
Statistics
Matches: 168, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
214 51 0.30
215 117 0.70
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (214 bp):
AATTATTAATTTAGAAATTAACTATAGGTCTTTCACTCGTGTGTCTTAAAGAAAAACACTCCAAG
TATTTGGAAGTTTTCTAACGGAACACTCTTCGTTCGAGAAGTTATCCCAAAATAAAATATAATTT
TTATAGTAAAATATTTTAAAAAAATAAATGAATATAAAAGATAACTTCAAGTAAAAAATGAAATG
ATAATAATAATAATACAAA
Found at i:702295 original size:19 final size:21
Alignment explanation
Indices: 702256--702299 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
702246 TAAACCTTAT
702256 TAAAATAATAAAAACATAACA
1 TAAAATAATAAAAACATAACA
*
702277 TAAAA-AATAAAAATA-AACA
1 TAAAATAATAAAAACATAACA
702296 TAAA
1 TAAA
702300 CACAATGACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 9 0.41
21 5 0.23
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (21 bp):
TAAAATAATAAAAACATAACA
Found at i:704149 original size:97 final size:97
Alignment explanation
Indices: 704005--704194 Score: 290
Period size: 97 Copynumber: 2.0 Consensus size: 97
703995 AATTTTGATC
* * * *
704005 CCTCGAGTGAGGCGTTGCTGATTCAAAATGTCATGAATGGAGCAAAGGTTGAACAAGTTCTTCAT
1 CCTCAAGTGAGGCATCGCTGATTCAAAATGTCATGAATCGAGCAAAGGTTGAACAAGTTCTTCAT
* *
704070 TGCAAACTTCTTCTCCATTGGAAATGTTAATT
66 TACAAACTTATTCTCCATTGGAAATGTTAATT
* *
704102 CCTCAAGTGAGGCATCGCTGATTCAAAATGTCCTGAATCTAGCAAAGGTTGAACAAGTTCTTCAT
1 CCTCAAGTGAGGCATCGCTGATTCAAAATGTCATGAATCGAGCAAAGGTTGAACAAGTTCTTCAT
* *
704167 TACGAACTTATTCTCTATTGGAAATGTT
66 TACAAACTTATTCTCCATTGGAAATGTT
704195 GATTGGTTTA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
97 83 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (97 bp):
CCTCAAGTGAGGCATCGCTGATTCAAAATGTCATGAATCGAGCAAAGGTTGAACAAGTTCTTCAT
TACAAACTTATTCTCCATTGGAAATGTTAATT
Found at i:704932 original size:75 final size:75
Alignment explanation
Indices: 704791--705385 Score: 797
Period size: 75 Copynumber: 8.0 Consensus size: 75
704781 TTCAACATCT
* * * * * *
704791 TGTTTTGAGTAAAAACTATCTCAAGCAAGACAAAGTTTGTTTTAAGAAAAACTGTCTCAAGTGAG
1 TGTTTCGAGTGAAAATTATCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACTATCTCAAGTGAG
704856 ATAAAATTTA
66 ATAAAATTTA
** * * *
704866 CATTTCGAGTGAAAATTGTCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACAATCTCATGTGAG
1 TGTTTCGAGTGAAAATTATCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACTATCTCAAGTGAG
704931 ATAAAATTTA
66 ATAAAATTTA
*
704941 TGTTTCGAGTGAAAATTATCTCAAGCGAGACGAA-TTTGTTTTAAGAAAAACAATCTCAAGTGAG
1 TGTTTCGAGTGAAAATTATCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACTATCTCAAGTGAG
*
705005 ATAAAATTTC
66 ATAAAATTTA
* * * *
705015 TATTTCGAGTG--AATCTATCTCAA-CTGAAATGAAATTTGTTTTAAGAAAAACTATCTCAAGTG
1 TGTTTCGAGTGAAAAT-TATCTCAAGC-GAGACGAAGTTTGTTTTAAGAAAAACTATCTCAAGTG
*
705077 AGATAAAATTTT
64 AGATAAAATTTA
* * *
705089 TGTTTCGAGTGAAAACTATCTCAAGCGAGAAGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAG
1 TGTTTCGAGTGAAAATTATCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACTATCTCAAGTGAG
705154 ATAAAATTTA
66 ATAAAATTTA
* * * * *
705164 TGTTTCGAGTGAGAATTTTCTTAAGAGAGACGAAGTTTGTTTTAA-AAAAACTATCTCAAGTGAA
1 TGTTTCGAGTGAAAATTATCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACTATCTCAAGTGAG
705228 ATAAAATTTA
66 ATAAAATTTA
* * * *
705238 TGTTTCAAGTGAAAACTGTCTCAAGAGAGACGAAGTTTGTTTTAAGAAAAACTATCTCAAGTGAG
1 TGTTTCGAGTGAAAATTATCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACTATCTCAAGTGAG
705303 ATAAAATTTA
66 ATAAAATTTA
* * * * * * *
705313 TATTTCGTGTGAAAATTGTCTTAAGCGAGATGAATTTTG-TTTAAGAAAAACTGTCTCAAGTGAG
1 TGTTTCGAGTGAAAATTATCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACTATCTCAAGTGAG
705377 ATAAAATTT
66 ATAAAATTT
705386 CTATTAAATG
Statistics
Matches: 462, Mismatches: 51, Indels: 15
0.88 0.10 0.03
Matches are distributed among these distances:
72 4 0.01
73 14 0.03
74 196 0.42
75 245 0.53
76 3 0.01
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.33
Consensus pattern (75 bp):
TGTTTCGAGTGAAAATTATCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACTATCTCAAGTGAG
ATAAAATTTA
Found at i:705138 original size:149 final size:149
Alignment explanation
Indices: 704791--705385 Score: 815
Period size: 149 Copynumber: 4.0 Consensus size: 149
704781 TTCAACATCT
* * * **
704791 TGTTTTGAGTAAAAACTATCTCAAGCAAGACA-AAGTTTGTTTTAAGAAAAACTGTCTCAAGTGA
1 TGTTTCGAGTGAAAACTATCTCAAGCGAGA-AGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGA
* *
704855 GATAAAATTTACATTTCGAGTGAAAATTGTCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACAA
65 GATAAAATTTATATTTCGAGTG-AAATTGTCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACTA
*
704920 TCTCATGTGAGATAAAATTTA
129 TCTCAAGTGAGATAAAATTTA
* *
704941 TGTTTCGAGTGAAAATTATCTCAAGCGAGACGAA-TTTGTTTTAAGAAAAACAATCTCAAGTGAG
1 TGTTTCGAGTGAAAACTATCTCAAGCGAGAAGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAG
* * * * *
705005 ATAAAATTTCTATTTCGAGTG-AATCTATCTCAA-CTGAAATGAAATTTGTTTTAAGAAAAACTA
66 ATAAAATTTATATTTCGAGTGAAAT-TGTCTCAAGC-GAGACGAAGTTTGTTTTAAGAAAAACTA
*
705068 TCTCAAGTGAGATAAAATTTT
129 TCTCAAGTGAGATAAAATTTA
705089 TGTTTCGAGTGAAAACTATCTCAAGCGAGAAGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAG
1 TGTTTCGAGTGAAAACTATCTCAAGCGAGAAGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAG
* * * *
705154 ATAAAATTTATGTTTCGAGTGAGAATTTTCTTAAGAGAGACGAAGTTTGTTTTAA-AAAAACTAT
66 ATAAAATTTATATTTCGAGTGA-AATTGTCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACTAT
*
705218 CTCAAGTGAAATAAAATTTA
130 CTCAAGTGAGATAAAATTTA
* * * * *
705238 TGTTTCAAGTGAAAACTGTCTCAAGAGAGACGAAGTTTGTTTTAAGAAAAACTATCTCAAGTGAG
1 TGTTTCGAGTGAAAACTATCTCAAGCGAGAAGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAG
* * * * *
705303 ATAAAATTTATATTTCGTGTGAAAATTGTCTTAAGCGAGATGAATTTTG-TTTAAGAAAAACTGT
66 ATAAAATTTATATTTCGAGTG-AAATTGTCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACTAT
705367 CTCAAGTGAGATAAAATTT
130 CTCAAGTGAGATAAAATTT
705386 CTATTAAATG
Statistics
Matches: 395, Mismatches: 41, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
147 4 0.01
148 87 0.22
149 250 0.63
150 51 0.13
151 3 0.01
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.33
Consensus pattern (149 bp):
TGTTTCGAGTGAAAACTATCTCAAGCGAGAAGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAG
ATAAAATTTATATTTCGAGTGAAATTGTCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACTATC
TCAAGTGAGATAAAATTTA
Found at i:705819 original size:21 final size:20
Alignment explanation
Indices: 705795--705838 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
705785 AAGGTGTACC
705795 ATTGCATTTCTTTGTAAAAAA
1 ATTGCATTTCTTT-TAAAAAA
*
705816 ATTGCATTTCTTTTCAAAAA
1 ATTGCATTTCTTTTAAAAAA
705836 ATT
1 ATT
705839 CCTTTTCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.45
Consensus pattern (20 bp):
ATTGCATTTCTTTTAAAAAA
Found at i:705836 original size:20 final size:21
Alignment explanation
Indices: 705795--705847 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
705785 AAGGTGTACC
705795 ATTGCATTTCTTTGTAAAAAA
1 ATTGCATTTCTTTGTAAAAAA
*
705816 ATTGCATTTCTTT-TCAAAAA
1 ATTGCATTTCTTTGTAAAAAA
* *
705836 ATTCCTTTTCTT
1 ATTGCATTTCTT
705848 GATCCCTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.49
Consensus pattern (21 bp):
ATTGCATTTCTTTGTAAAAAA
Found at i:713759 original size:17 final size:18
Alignment explanation
Indices: 713737--713770 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
713727 CTAGAATGCA
*
713737 AAAATG-GTACCGATACC
1 AAAATGAGTACCAATACC
713754 AAAATGAGTACCAATAC
1 AAAATGAGTACCAATAC
713771 TACTTATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.18
Consensus pattern (18 bp):
AAAATGAGTACCAATACC
Found at i:718648 original size:28 final size:28
Alignment explanation
Indices: 718617--718686 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
718607 TAAAACCCTA
718617 ATCTTGTTGGGTTTGGCACACAC-AGGCC
1 ATCTTGTTGGGTTTGGCACACACGA-GCC
718645 ATCTTGTTGGGTTTGGCACACACGAGCC
1 ATCTTGTTGGGTTTGGCACACACGAGCC
* *
718673 ATCTTATTAGGTTT
1 ATCTTGTTGGGTTT
718687 CTACTTTGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (28 bp):
ATCTTGTTGGGTTTGGCACACACGAGCC
Found at i:718813 original size:3 final size:3
Alignment explanation
Indices: 718800--718848 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
718790 TATAACATGA
* *
718800 AAT AA- AAT AAT AAT AAT AAT AA- AAC AAT AAT AAT AAAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
718844 AAT AA
1 AAT AA
718849 ACCCGAATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.82
4 3 0.08
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:718822 original size:17 final size:17
Alignment explanation
Indices: 718800--718848 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
718790 TATAACATGA
718800 AATAAAATAATAATAAT
1 AATAAAATAATAATAAT
*
718817 AATAAAACAATAATAAT
1 AATAAAATAATAATAAT
* *
718834 AA-ATAATAAAAATAA
1 AATAAAATAATAATAA
718849 ACCCGAATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 10 0.36
17 18 0.64
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAAAATAATAATAAT
Found at i:718828 original size:14 final size:14
Alignment explanation
Indices: 718811--718849 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
718801 ATAAAATAAT
718811 AATAATAATAAAAC
1 AATAATAATAAAAC
*
718825 AATAATAAT-AAAT
1 AATAATAATAAAAC
*
718838 AATAAAAATAAA
1 AATAATAATAAA
718850 CCCGAATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAATAATAAAAC
Found at i:721414 original size:3 final size:3
Alignment explanation
Indices: 721408--721507 Score: 53
Period size: 3 Copynumber: 33.0 Consensus size: 3
721398 TTAAGAATAA
* *
721408 TAT TAT T-T CTAT TAT T-T CTAT TAT AAG TATT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT
** * * * * *
721454 TCG TAT TAT TAC TAT TAT TAG TGT TAT T-T TCT TATT TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
*
721499 TAG TAT TAT
1 TAT TAT TAT
721508 CATCATTATC
Statistics
Matches: 71, Mismatches: 19, Indels: 14
0.68 0.18 0.13
Matches are distributed among these distances:
2 4 0.06
3 60 0.85
4 7 0.10
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:721577 original size:14 final size:14
Alignment explanation
Indices: 721558--721584 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
721548 AACTAGAGTG
721558 AAAAGAAAAAAATT
1 AAAAGAAAAAAATT
721572 AAAAGAAAAAAAT
1 AAAAGAAAAAAAT
721585 GTGATTTATG
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:0.81, C:0.00, G:0.07, T:0.11
Consensus pattern (14 bp):
AAAAGAAAAAAATT
Found at i:721957 original size:23 final size:23
Alignment explanation
Indices: 721931--721977 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
721921 TAATCTCCAA
*
721931 AATTATTGGAGGATAATTTTTTT
1 AATTATTGGAGGATAATCTTTTT
*
721954 AATTGTTGGAGGATAATCTTTTT
1 AATTATTGGAGGATAATCTTTTT
721977 A
1 A
721978 TATCCTTACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (23 bp):
AATTATTGGAGGATAATCTTTTT
Found at i:723371 original size:29 final size:29
Alignment explanation
Indices: 723338--723436 Score: 112
Period size: 29 Copynumber: 3.4 Consensus size: 29
723328 TTGATTTGTG
* *
723338 TGGGATTAAATCCTTATCCTTATTCTGCA
1 TGGGATTATATCCTTATCCTGATTCTGCA
*
723367 TGGGATTATAT-CTTCATCCAGATTCTGCA
1 TGGGATTATATCCTT-ATCCTGATTCTGCA
* * *
723396 TGAGATTATATCC-CATCCTGATTTTGCA
1 TGGGATTATATCCTTATCCTGATTCTGCA
*
723424 TGGGATTTTATCC
1 TGGGATTATATCC
723437 CCGTCCTGTT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 26 0.44
29 32 0.54
30 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.40
Consensus pattern (29 bp):
TGGGATTATATCCTTATCCTGATTCTGCA
Found at i:732338 original size:50 final size:50
Alignment explanation
Indices: 732279--732373 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 50
732269 CTTTCAACAA
* * * *
732279 CTAAATTCCCATATTGATTTCTGTTTCAGATTGGGATCCTCTTCGAAAGG
1 CTAAATTCCCATACTAATTTCTGTTTCAGACTGGGATCATCTTCGAAAGG
* *
732329 CTAAATTCCCATACTAATTTTTGTTTCTGACTGGGATCATCTTCG
1 CTAAATTCCCATACTAATTTCTGTTTCAGACTGGGATCATCTTCG
732374 GATGGAACGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (50 bp):
CTAAATTCCCATACTAATTTCTGTTTCAGACTGGGATCATCTTCGAAAGG
Found at i:737357 original size:11 final size:11
Alignment explanation
Indices: 737341--737365 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
737331 ATACCTAAAC
737341 TTTAGTTTTTG
1 TTTAGTTTTTG
737352 TTTAGTTTTTG
1 TTTAGTTTTTG
737363 TTT
1 TTT
737366 CGTTCAAAAC
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:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (11 bp):
TTTAGTTTTTG
Found at i:737756 original size:25 final size:25
Alignment explanation
Indices: 737721--737793 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 25
737711 GTATAGCTTT
737721 TAAAAAGTGAATTTTAAAAAGTGTTG
1 TAAAAAGTGAATTTTAAAAA-TGTTG
737747 TAAAAA-TGAAATTTTAAAAATGTTG
1 TAAAAAGTG-AATTTTAAAAATGTTG
* *
737772 TACAAAAGTGAAGTTAAAAAAT
1 TA-AAAAGTGAATTTTAAAAAT
737794 TTAATTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.21
26 31 0.74
27 2 0.05
ACGTcount: A:0.52, C:0.01, G:0.15, T:0.32
Consensus pattern (25 bp):
TAAAAAGTGAATTTTAAAAATGTTG
Found at i:737768 original size:14 final size:14
Alignment explanation
Indices: 737718--737766 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
737708 AAAGTATAGC
737718 TTTTAAAAAGTGAA
1 TTTTAAAAAGTGAA
737732 TTTTAAAAAGTG--
1 TTTTAAAAAGTGAA
*
737744 TTGTAAAAA-TGAAA
1 TTTTAAAAAGTG-AA
737758 TTTTAAAAA
1 TTTTAAAAA
737767 TGTTGTACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 2 0.07
12 8 0.27
14 20 0.67
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (14 bp):
TTTTAAAAAGTGAA
Found at i:738039 original size:19 final size:17
Alignment explanation
Indices: 737978--738030 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
737968 CAATTTAAAC
737978 TATAATAAAAATATAAAAT
1 TATAATAAAAATAT--AAT
*
737997 ATACAAATAAAAATATAAT
1 -TA-TAATAAAAATATAAT
738016 TATAATAAAAATATA
1 TATAATAAAAATATA
738031 TTTTTATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 12 0.40
18 2 0.07
19 3 0.10
20 2 0.07
21 11 0.37
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
TATAATAAAAATATAAT
Found at i:739539 original size:27 final size:27
Alignment explanation
Indices: 739520--739584 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
739510 GAAATGACTG
739520 AAATACCCTCAAGTACTGAAATAAACT
1 AAATACCCTCAAGTACTGAAATAAACT
*
739547 ATATACCCTCAAGTACTGAAATAAACT
1 AAATACCCTCAAGTACTGAAATAAACT
*
739574 ATATACCCTCA
1 AAATACCCTCA
739585 TGACCAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.45, C:0.25, G:0.06, T:0.25
Consensus pattern (27 bp):
AAATACCCTCAAGTACTGAAATAAACT
Found at i:743731 original size:6 final size:6
Alignment explanation
Indices: 743720--743745 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
743710 TTGATTTGTG
743720 TTGACT TTGACT TTGACT TTGACT TT
1 TTGACT TTGACT TTGACT TTGACT TT
743746 TTTTTGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (6 bp):
TTGACT
Found at i:744477 original size:265 final size:267
Alignment explanation
Indices: 744004--744541 Score: 1028
Period size: 265 Copynumber: 2.0 Consensus size: 267
743994 AAGGTAATAC
744004 ATTACTAACTTTTTGCATGCTTTATGGAACACACTGATATAGTTTATTGCATTAATGGATATTAT
1 ATTACTAACTTTTTGCATGCTTTATGGAACACACTGATATAGTTTATTGCATTAATGGATATTAT
*
744069 TGGTCAATTATGTGTAATTAATTATTGTTGGTCTCAAACTAAATACGGTAAGAAGCTAGTAAACT
66 TGGTCAATTATGTGTAATTAATTATTGTTGGTCTCAAAATAAATACGGTAAGAAGCTAGTAAACT
744134 ATATAAGACTCAGATAACTCGCATAAGAAATTAGAAAACTGATTAGAAATAATTCCAAGTTAAGT
131 ATATAAGACTCAGATAACTCGCATAAGAAATTAGAAAACTGATTAGAAATAATTCCAAGTTAAGT
744199 GATTAACCTCAGAATCCTT-AATTCCATTTTTTCTTGTTAAAAG-TTTAATACTG-ATATACCTA
196 GATTAACCTCAGAATCCTTAAATTCCA-TTTTTCTTGTTAAAAGTTTTAATACTGAATATACCTA
744261 GATAAGAA
260 GATAAGAA
744269 ATTACTAACTTTTTGCATGCTTTATGGAACACACTGATATAGTTTATTGCATTAATGGATATTAT
1 ATTACTAACTTTTTGCATGCTTTATGGAACACACTGATATAGTTTATTGCATTAATGGATATTAT
744334 TGGTCAATTATGTGTAATTAATTATTGTTGGTCTCAAAATAAATACGGTAAGAAGCTAGTAAACT
66 TGGTCAATTATGTGTAATTAATTATTGTTGGTCTCAAAATAAATACGGTAAGAAGCTAGTAAACT
744399 ATATAAGACTCAGATAACTCGCATAAGAAATTAGAAAACTGATTAGAAATAATTCCAAGTTAAGT
131 ATATAAGACTCAGATAACTCGCATAAGAAATTAGAAAACTGATTAGAAATAATTCCAAGTTAAGT
744464 GATTAACCTCAGAATCCTTAAATTCCATTTTTCTTGTTAAAAGTTTTTAATACTGAATATACCTA
196 GATTAACCTCAGAATCCTTAAATTCCATTTTTCTTGTTAAAAG-TTTTAATACTGAATATACCTA
744529 GATAAGAA
260 GATAAGAA
744537 ATTAC
1 ATTAC
744542 AAAAATACCC
Statistics
Matches: 268, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
265 229 0.85
266 7 0.03
267 10 0.04
268 22 0.08
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (267 bp):
ATTACTAACTTTTTGCATGCTTTATGGAACACACTGATATAGTTTATTGCATTAATGGATATTAT
TGGTCAATTATGTGTAATTAATTATTGTTGGTCTCAAAATAAATACGGTAAGAAGCTAGTAAACT
ATATAAGACTCAGATAACTCGCATAAGAAATTAGAAAACTGATTAGAAATAATTCCAAGTTAAGT
GATTAACCTCAGAATCCTTAAATTCCATTTTTCTTGTTAAAAGTTTTAATACTGAATATACCTAG
ATAAGAA
Found at i:752013 original size:17 final size:18
Alignment explanation
Indices: 751977--752021 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
751967 GTTAATTTTT
* *
751977 AATAATTTATTTTTGATA
1 AATAATTTATTATGGATA
751995 AATAATTT-TTATGGAT-
1 AATAATTTATTATGGATA
752011 AA-AATTTATTA
1 AATAATTTATTA
752022 ATTAATTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 5 0.21
16 5 0.21
17 6 0.25
18 8 0.33
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (18 bp):
AATAATTTATTATGGATA
Found at i:753370 original size:13 final size:13
Alignment explanation
Indices: 753340--753429 Score: 66
Period size: 13 Copynumber: 7.2 Consensus size: 13
753330 TACTAAAAAA
*
753340 ATATAATATAAGTT
1 ATAT-ATATAAATT
753354 -TATATATAAATT
1 ATATATATAAATT
*
753366 ATATATATAAACT
1 ATATATATAAATT
*
753379 ATAT-T-TATATT
1 ATATATATAAATT
*
753390 ATAAACTATATAA-T
1 ATATA-TATA-AATT
*
753404 -TAT-TATAAGTT
1 ATATATATAAATT
753415 ATATATATAAATT
1 ATATATATAAATT
753428 AT
1 AT
753430 GTTTAATATA
Statistics
Matches: 59, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
10 1 0.02
11 12 0.20
12 12 0.20
13 30 0.51
14 3 0.05
15 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (13 bp):
ATATATATAAATT
Found at i:753407 original size:18 final size:18
Alignment explanation
Indices: 753365--753423 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
753355 ATATATAAAT
753365 TATATA-TATAAACTATA
1 TATATATTATAAACTATA
*
753382 TTTATATTATAAACTATA
1 TATATATTATAAACTATA
**
753400 TA-ATTATTATAAGTTATA
1 TATA-TATTATAAACTATA
753418 TATATA
1 TATATA
753424 AATTATGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 6 0.17
18 28 0.80
19 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (18 bp):
TATATATTATAAACTATA
Found at i:753450 original size:49 final size:50
Alignment explanation
Indices: 753353--753448 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 50
753343 TAATATAAGT
753353 TTATATATAAATTATATATATAAACTATATTTATATTATAAACTATATAA
1 TTATATATAAATTATATATATAAACTATATTTATATTATAAACTATATAA
* * * *
753403 TTAT-TATAAGTTATATATATAAATTATGTTTA-A-TATACACTATATA
1 TTATATATAAATTATATATATAAACTATATTTATATTATAAACTATATA
753449 TATACCCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 12 0.29
48 1 0.02
49 25 0.60
50 4 0.10
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (50 bp):
TTATATATAAATTATATATATAAACTATATTTATATTATAAACTATATAA
Found at i:753453 original size:13 final size:13
Alignment explanation
Indices: 753435--753475 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
753425 ATTATGTTTA
753435 ATATACACTATAT
1 ATATACACTATAT
* *
753448 ATATACCCTATGT
1 ATATACACTATAT
*
753461 ATATAAACTATAT
1 ATATACACTATAT
753474 AT
1 AT
753476 GTATTGTAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (13 bp):
ATATACACTATAT
Found at i:753608 original size:36 final size:36
Alignment explanation
Indices: 753533--753859 Score: 360
Period size: 37 Copynumber: 8.8 Consensus size: 36
753523 TGCAAAGGGT
753533 TTTTTGAAAATACGTATATAATATATAGTTTTTAAAAAACA
1 TTTTTGAAAAT---TATATAATATATAGTTTTT--AAAACA
753574 -TTTTGAAAATGTATATAATATATAGTTTTTAAAACA
1 TTTTTGAAAAT-TATATAATATATAGTTTTTAAAACA
*
753610 TTTTTGAAAACTATATAATATATAGATTTTTAAAACA
1 TTTTTGAAAATTATATAATATATAG-TTTTTAAAACA
*
753647 TTTTAGAAAATATATATAATATATAGTTTTTAAAATCA
1 TTTTTGAAAAT-TATATAATATATAGTTTTTAAAA-CA
* * *
753685 -TTTTGAAAACTTGTATAATATATAGTTTTGAAAATA
1 TTTTTGAAAA-TTATATAATATATAGTTTTTAAAACA
* * *
753721 TTTTTGGAAATTATATAATATATAGTTTTAAAAATA
1 TTTTTGAAAATTATATAATATATAGTTTTTAAAACA
*
753757 TTTTTTGAAAAAATTATATAATATATAGTTTTAAAAACA
1 -TTTTTG--AAAATTATATAATATATAGTTTTTAAAACA
*
753796 TTTTTTGAAAACTTATAT-A-ATAT--TTTTAAAAATCA
1 -TTTTTGAAAA-TTATATAATATATAGTTTTTAAAA-CA
* *
753831 TTTTTGAAAACTATATGATATATAGTTTT
1 TTTTTGAAAATTATATAATATATAGTTTT
753860 GGAAAAAAAA
Statistics
Matches: 258, Mismatches: 13, Indels: 34
0.85 0.04 0.11
Matches are distributed among these distances:
33 5 0.02
34 20 0.08
35 6 0.02
36 49 0.19
37 90 0.35
38 43 0.17
39 35 0.14
40 10 0.04
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.45
Consensus pattern (36 bp):
TTTTTGAAAATTATATAATATATAGTTTTTAAAACA
Found at i:753846 original size:33 final size:33
Alignment explanation
Indices: 753591--753853 Score: 108
Period size: 36 Copynumber: 7.2 Consensus size: 33
753581 AATGTATATA
753591 ATATATAGTTTTT-AAAACA-TTTTTGAAAACTAT
1 ATATATA-TTTTTAAAAACATTTTTTGAAAACT-T
* * *
753624 ATAATATATAGATTTTTAAAACA-TTTTAGAAAATATATAT
1 AT-ATATAT---TTTTAAAAACATTTTTTG-AAA-A-CT-T
*
753664 AATATATAGTTTTTAAAATCA--TTTTGAAAACTTGT
1 -ATATATA-TTTTTAAAAACATTTTTTGAAAAC-T-T
* * *
753699 ATAATATATAGTTTTGAAAATATTTTTGGAAATTA-TAT
1 AT-ATATAT--TTTTAAAAACATTTTTTGAAA--ACT-T
* * *
753737 AATATATAGTTTTAAAAATATTTTTTGAAAAAATTAT
1 -ATATATATTTTTAAAAACATTTTTTG--AAAACT-T
753774 ATAATATATAGTTTTAAAAACATTTTTTGAAAACTT
1 AT-ATATAT--TTTTAAAAACATTTTTTGAAAACTT
753810 ATATAATATTTTTAAAAATCA-TTTTTGAAAACTAT
1 ATAT-ATATTTTTAAAAA-CATTTTTTGAAAACT-T
753845 ATGATATAT
1 AT-ATATAT
753854 AGTTTTGGAA
Statistics
Matches: 183, Mismatches: 18, Indels: 56
0.71 0.07 0.22
Matches are distributed among these distances:
33 3 0.02
34 29 0.16
35 19 0.10
36 43 0.23
37 28 0.15
38 29 0.16
39 20 0.11
40 9 0.05
41 3 0.02
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (33 bp):
ATATATATTTTTAAAAACATTTTTTGAAAACTT
Found at i:753934 original size:23 final size:23
Alignment explanation
Indices: 753898--753942 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
753888 TTTAAAAAAA
*
753898 ATATTTTTGAAATATATATATTAT
1 ATATTTTAGAAATATAT-TATTAT
753922 ATATTTTAG-AATATATTATTA
1 ATATTTTAGAAATATATTATTA
753943 CTTTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 7 0.35
24 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATTTTAGAAATATATTATTAT
Found at i:755174 original size:21 final size:21
Alignment explanation
Indices: 755150--755245 Score: 95
Period size: 21 Copynumber: 4.6 Consensus size: 21
755140 GTGAATCGGG
* ** *
755150 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATAAGAGGGAC
*
755171 CTCTTGAACGATGAA-AGTGAC
1 CTCTTGAACGAT-AAGAGGGAC
* *
755192 CTCTTAAACGATAAGAGTGAC
1 CTCTTGAACGATAAGAGGGAC
* *
755213 CTCTTGAACGATAGGAGGGGC
1 CTCTTGAACGATAAGAGGGAC
755234 CTCTTGAACGAT
1 CTCTTGAACGAT
755246 GACAGGTGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
20 2 0.03
21 61 0.97
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATAAGAGGGAC
Found at i:755550 original size:21 final size:21
Alignment explanation
Indices: 755526--755579 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
755516 TGAAACAATC
* *
755526 TCACGTAGAGCAGTTACCTCA
1 TCACGTAAAGCAGATACCTCA
*
755547 TCACGTAAAGTAGATACCTCA
1 TCACGTAAAGCAGATACCTCA
*
755568 CCACGTAAAGCA
1 TCACGTAAAGCA
755580 CCATTGTCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (21 bp):
TCACGTAAAGCAGATACCTCA
Found at i:755590 original size:42 final size:41
Alignment explanation
Indices: 755544--755624 Score: 99
Period size: 42 Copynumber: 2.0 Consensus size: 41
755534 AGCAGTTACC
**
755544 TCATCACGTAAAGTAGATACCTCACCACGTAAAGCACCATTG
1 TCATCACGTAAAACAGATACCTCACCACGTAAAG-ACCATTG
* ** *
755586 TCATCGCGTAAAACATCTACCTCACTACGTAAAGACCAT
1 TCATCACGTAAAACAGATACCTCACCACGTAAAGACCAT
755625 ACCTCATCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 5 0.15
42 28 0.85
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (41 bp):
TCATCACGTAAAACAGATACCTCACCACGTAAAGACCATTG
Found at i:755676 original size:21 final size:21
Alignment explanation
Indices: 755652--755697 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
755642 ACCATTGTCG
*
755652 TCACATAAAGTACCAACCTCA
1 TCACATAAAGCACCAACCTCA
* **
755673 TCACGTAAAGCACTGACCTCA
1 TCACATAAAGCACCAACCTCA
755694 TCAC
1 TCAC
755698 GTAACTCCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.35, G:0.09, T:0.20
Consensus pattern (21 bp):
TCACATAAAGCACCAACCTCA
Found at i:755891 original size:42 final size:42
Alignment explanation
Indices: 755816--755908 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
755806 GTGATGGAAT
* * * *
755816 AGGTGATGGCTCTCGTTGTGGAGGTGTATAATCGACTCGATC
1 AGGTGATGGCTCTAGTTGTCGAGGTGTAGAATCGACTCAATC
* **
755858 AGGTGATGGCTCTAAG-TGTCGAGTTGTAGAATCGGGTCAATC
1 AGGTGATGGCTCT-AGTTGTCGAGGTGTAGAATCGACTCAATC
755900 AGGTGATGG
1 AGGTGATGG
755909 ATCTTGAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.35, T:0.29
Consensus pattern (42 bp):
AGGTGATGGCTCTAGTTGTCGAGGTGTAGAATCGACTCAATC
Found at i:757433 original size:19 final size:19
Alignment explanation
Indices: 757406--757451 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
757396 TTTTGAAACT
*
757406 TAAATTCGCAACGCGAAAA
1 TAAAATCGCAACGCGAAAA
*
757425 TAAAATCGCAACGCGAAAC
1 TAAAATCGCAACGCGAAAA
757444 TAAAATCG
1 TAAAATCG
757452 TGTTGCGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (19 bp):
TAAAATCGCAACGCGAAAA
Found at i:757484 original size:14 final size:15
Alignment explanation
Indices: 757465--757497 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
757455 TGCGATTTTC
757465 ATTTTCGCGTTGC-A
1 ATTTTCGCGTTGCGA
*
757479 ATTTTCGTGTTGCGA
1 ATTTTCGCGTTGCGA
757494 ATTT
1 ATTT
757498 CATTTTCGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.48
Consensus pattern (15 bp):
ATTTTCGCGTTGCGA
Found at i:757502 original size:20 final size:20
Alignment explanation
Indices: 757479--757517 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
757469 TCGCGTTGCA
757479 ATTTTCGTGTTGCGAATTTC
1 ATTTTCGTGTTGCGAATTTC
*
757499 ATTTTCGTGTTGTGAATTT
1 ATTTTCGTGTTGCGAATTT
757518 AAGTTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.10, G:0.21, T:0.54
Consensus pattern (20 bp):
ATTTTCGTGTTGCGAATTTC
Found at i:757524 original size:20 final size:20
Alignment explanation
Indices: 757481--757524 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
757471 GCGTTGCAAT
* *
757481 TTTCGTGTTGCGAATTTCAT
1 TTTCGTGTTGCGAATTTAAG
*
757501 TTTCGTGTTGTGAATTTAAG
1 TTTCGTGTTGCGAATTTAAG
757521 TTTC
1 TTTC
757525 AAAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.11, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGAATTTAAG
Found at i:762063 original size:49 final size:49
Alignment explanation
Indices: 762004--762101 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 49
761994 CCAACGATGC
* * *
762004 ATTTCCTTTTACAAAACAGAAAAATAAATCAAACGATTTGTTTCGATTT
1 ATTTCATTTTACAAAACAGAAAAATAAATCAAACGATTTATTTCCATTT
* * * *
762053 ATTTCATTTTACAAAATAGGAAACTAAATCCAACGATTTATTTCCATTT
1 ATTTCATTTTACAAAACAGAAAAATAAATCAAACGATTTATTTCCATTT
762102 TACAAAATAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (49 bp):
ATTTCATTTTACAAAACAGAAAAATAAATCAAACGATTTATTTCCATTT
Found at i:762107 original size:40 final size:40
Alignment explanation
Indices: 761921--762182 Score: 230
Period size: 39 Copynumber: 6.5 Consensus size: 40
761911 AATATCTAAT
* * ** *
761921 GATTTCTTTCC-TTTTACAAAACAGGAAAATAAATTTAAT
1 GATTTATTTCCATTTTACAAAATAGGAAAATAAATCCAAC
* *
761960 AATTTATTTTC-TTTTACAAAATAGGAAAATAAATCCAAC
1 GATTTATTTCCATTTTACAAAATAGGAAAATAAATCCAAC
** * * *
761999 GATGCATTTCC-TTTTACAAAACAGAAAAATAAATCAAAC
1 GATTTATTTCCATTTTACAAAATAGGAAAATAAATCCAAC
* *
762038 GATTTGTTTCGATTTATTTCATTTTACAAAATAGGAAACTAAATCCAAC
1 GA----TTT--A--T-TTCCATTTTACAAAATAGGAAAATAAATCCAAC
762087 GATTTATTTCCATTTTACAAAATA-GAAAATAAATCCAAC
1 GATTTATTTCCATTTTACAAAATAGGAAAATAAATCCAAC
* * * *
762126 GATTTATTTGC-TTTTTCAAAATAGGAAAATGAATTCAAC
1 GATTTATTTCCATTTTACAAAATAGGAAAATAAATCCAAC
*
762165 GATTTA-TTCCCTTTTACA
1 GATTTATTTCCATTTTACA
762183 TATCAGAATC
Statistics
Matches: 182, Mismatches: 29, Indels: 24
0.77 0.12 0.10
Matches are distributed among these distances:
38 14 0.08
39 115 0.63
40 16 0.09
41 1 0.01
43 2 0.01
45 4 0.02
47 1 0.01
48 3 0.02
49 26 0.14
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (40 bp):
GATTTATTTCCATTTTACAAAATAGGAAAATAAATCCAAC
Found at i:762115 original size:127 final size:127
Alignment explanation
Indices: 761921--762169 Score: 322
Period size: 127 Copynumber: 2.0 Consensus size: 127
761911 AATATCTAAT
* * ** * *
761921 GATTTCTTTCCTTTTACAAAACAGGAAAATAAATTTAATAATTTATTTTCTTTTACAAAATAGGA
1 GATTTATTTCATTTTACAAAACAGGAAAATAAATCCAACAATTTATTTCCTTTTACAAAATAGGA
761986 AAATAAATCCAACGATGCATTTCCTTTTACAAAACAGAAAAAT-AAATCAAACGATTTGTTTC
66 AAATAAATCCAACGATGCATTTCCTTTTACAAAACAGAAAAATGAAATC-AACGATTTGTTTC
* * *
762048 GATTTATTTCATTTTACAAAATAGGAAACTAAATCCAACGATTTATTTCCATTTTACAAAATA-G
1 GATTTATTTCATTTTACAAAACAGGAAAATAAATCCAACAATTTATTTCC-TTTTACAAAATAGG
** * * * * *
762112 AAAATAAATCCAACGATTTATTTGCTTTTTCAAAATAGGAAAATGAATTCAACGATTT
65 AAAATAAATCCAACGATGCATTTCCTTTTACAAAACAGAAAAATGAAATCAACGATTT
762170 ATTCCCTTTT
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
127 88 0.85
128 16 0.15
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (127 bp):
GATTTATTTCATTTTACAAAACAGGAAAATAAATCCAACAATTTATTTCCTTTTACAAAATAGGA
AAATAAATCCAACGATGCATTTCCTTTTACAAAACAGAAAAATGAAATCAACGATTTGTTTC
Found at i:762116 original size:88 final size:88
Alignment explanation
Indices: 761961--762130 Score: 263
Period size: 88 Copynumber: 1.9 Consensus size: 88
761951 AAATTTAATA
761961 ATTTATTTTCTTTTACAAAATAGGAAAATAAATCCAACGATGCATTTCCTTTTACAAAACAGAAA
1 ATTTATTTTCTTTTACAAAATAGGAAAATAAATCCAACGATGCATTTCCTTTTACAAAACAGAAA
762026 AATAAATCAAACGATTTGTTTCG
66 AATAAATCAAACGATTTGTTTCG
* ** *
762049 ATTTA-TTTCATTTTACAAAATAGGAAACTAAATCCAACGATTTATTTCCATTTTACAAAATAG-
1 ATTTATTTTC-TTTTACAAAATAGGAAAATAAATCCAACGATGCATTTCC-TTTTACAAAACAGA
*
762112 AAAATAAATCCAACGATTT
64 AAAATAAATCAAACGATTT
762131 ATTTGCTTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
87 4 0.05
88 59 0.79
89 12 0.16
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.35
Consensus pattern (88 bp):
ATTTATTTTCTTTTACAAAATAGGAAAATAAATCCAACGATGCATTTCCTTTTACAAAACAGAAA
AATAAATCAAACGATTTGTTTCG
Found at i:762374 original size:97 final size:97
Alignment explanation
Indices: 762111--762372 Score: 328
Period size: 97 Copynumber: 2.7 Consensus size: 97
762101 TTACAAAATA
* * * **
762111 GAAAATAAATCCAACGATTTATTTGCTTTTTCAAAATAGGAAAATGAATTCAACGATTTATTCCC
1 GAAAATAAATTCAACGATTTATTTCCTTTTTCAAAATAGGAAAATAAATTCAACGATTTATTTTC
* *
762176 TTTTACATATCAGAATCATACAAAATTCTTAG
66 TTTTACAGATCAGAATCATACAAAATTCTCAG
* * *
762208 GAAAATAAATTTACCGATTTATTTCCTTTTTCAAAATAGGAAAATAAATTCTACGATTTATTTTC
1 GAAAATAAATTCAACGATTTATTTCCTTTTTCAAAATAGGAAAATAAATTCAACGATTTATTTTC
***
762273 TTTTACAGATCAGAATCATGTGAAATTCTCAG
66 TTTTACAGATCAGAATCATACAAAATTCTCAG
* * * * * * * *
762305 GAAAATAAATTCAACAATTTATTTTCTTTTACAAAACAGAAAAAT-AATACAATGATTTATTTTA
1 GAAAATAAATTCAACGATTTATTTCCTTTTTCAAAATAGGAAAATAAATTCAACGATTTATTTTC
762369 TTTT
66 TTTT
762373 TAAAAATAGA
Statistics
Matches: 141, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
96 19 0.13
97 122 0.87
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (97 bp):
GAAAATAAATTCAACGATTTATTTCCTTTTTCAAAATAGGAAAATAAATTCAACGATTTATTTTC
TTTTACAGATCAGAATCATACAAAATTCTCAG
Found at i:762733 original size:176 final size:175
Alignment explanation
Indices: 762422--762747 Score: 415
Period size: 176 Copynumber: 1.9 Consensus size: 175
762412 TTTTTTATTC
*
762422 AAGATTCTCAAGAAAATAAATTTAACAATTTATTAACTTTTACAAAATAGAATCATTTAAGATTC
1 AAGATTCTCAAGAAAATAAATTTAACAATTTATTAACTCTTACAAAATAGAATCATTTAAGATTC
* * ** * *
762487 TCAAGAAAATAAATTTAACAATTTATTTCTTTTTTAAAAGATAAAATCATCCATGTTCTCAAGAA
66 TCAAGAAAATAAATTCAACAATCTATTTC-TCCTTAAAAGATAAAATCATCAAAGTTCTCAAGAA
*
762552 AATAAATTCAACAATTTATTATTTTCTTAAAAAGTTAAATTCATTT
130 AATAAATTCAACAATCTATTATTTTCTTAAAAAGTTAAATTCATTT
* ** *
762598 AAGATT-TCTAAGGAAATAAATTTAACAATTTATTTTC-CTTACAAAGTTAGAATCATTTAAGAT
1 AAGATTCTC-AAGAAAATAAATTTAACAATTTATTAACTCTTACAAA-ATAGAATCATTTAAGAT
* * * * * *
762661 TCTCAAGGAAATAAATTCAACGATCTATTTC-CCTTACAAGGTTATAATCATTAAAGATTCTCAA
64 TCTCAAGAAAATAAATTCAACAATCTATTTCTCCTTA-AAAGATAAAATCATCAAAG-TTCTCAA
*
762725 GGAAATAAATTCAACAATCTATT
127 GAAAATAAATTCAACAATCTATT
762748 TTCCTTACAA
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
174 3 0.02
175 22 0.17
176 102 0.80
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (175 bp):
AAGATTCTCAAGAAAATAAATTTAACAATTTATTAACTCTTACAAAATAGAATCATTTAAGATTC
TCAAGAAAATAAATTCAACAATCTATTTCTCCTTAAAAGATAAAATCATCAAAGTTCTCAAGAAA
ATAAATTCAACAATCTATTATTTTCTTAAAAAGTTAAATTCATTT
Found at i:762754 original size:58 final size:58
Alignment explanation
Indices: 762422--762768 Score: 362
Period size: 58 Copynumber: 5.9 Consensus size: 58
762412 TTTTTTATTC
* ** * *
762422 AAGATTCTCAAGAAAATAAATTTAACAATTTATTAACTTTTACAAA-ATAGAATCATTT
1 AAGATTCTCAAGAAAATAAATTCAACAATTTATTTTC-CTTACAAAGTTAGAATCATTT
* ** * * **
762480 AAGATTCTCAAGAAAATAAATTTAACAATTTATTTCTTTTTTA-AAAGATAAAATCATCC
1 AAGATTCTCAAGAAAATAAATTCAACAATTTA-TT-TTCCTTACAAAGTTAGAATCATTT
* * *
762539 ATG-TTCTCAAGAAAATAAATTCAACAATTTATTATTTTCTTAAAAAGTTA-AATTCATTT
1 AAGATTCTCAAGAAAATAAATTCAACAATTTA-T-TTTCCTTACAAAGTTAGAA-TCATTT
* *
762598 AAGATT-TCTAAGGAAATAAATTTAACAATTTATTTTCCTTACAAAGTTAGAATCATTT
1 AAGATTCTC-AAGAAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTT
* * * * * * *
762656 AAGATTCTCAAGGAAATAAATTCAACGATCTATTTCCCTTACAAGGTTATAATCATTA
1 AAGATTCTCAAGAAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTT
* *
762714 AAGATTCTCAAGGAAATAAATTCAACAATCTATTTTCCTTACAAAGTTAGAATCA
1 AAGATTCTCAAGAAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCA
762769 ATGCAAGATT
Statistics
Matches: 251, Mismatches: 28, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
58 191 0.76
59 37 0.15
60 23 0.09
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.37
Consensus pattern (58 bp):
AAGATTCTCAAGAAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTT
Found at i:763021 original size:45 final size:45
Alignment explanation
Indices: 762943--763036 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
762933 CAAAAATTTG
* *
762943 AAAGGAACTAATCCTTTGATATAGTTTTCGACAACACAATAATCA
1 AAAGGAACTAATCCTTTCATATACTTTTCGACAACACAATAATCA
* *
762988 AAAGGAACTAATCCTTTCATTTTACTTTT-GACAACCCAATAATCA
1 AAAGGAACTAATCCTTTCA-TATACTTTTCGACAACACAATAATCA
763033 AAAG
1 AAAG
763037 CTTTGGATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 37 0.84
46 7 0.16
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (45 bp):
AAAGGAACTAATCCTTTCATATACTTTTCGACAACACAATAATCA
Found at i:765618 original size:67 final size:67
Alignment explanation
Indices: 765544--765677 Score: 205
Period size: 67 Copynumber: 2.0 Consensus size: 67
765534 ATCAAACATA
* *
765544 GTTGTAAATTGCCACATCAATATTCTATTATTTTTAGTAACATCTATTAACGATGAGTGATCAAT
1 GTTGTAAATTGCCACATCAATATTCTATTATTTTTAATAACATCTATTAACAATGAGTGATCAAT
765609 TT
66 TT
* * * * *
765611 GTTGTAAATTGTCTCATCAATATTCTATTATTTTTAATAACATTTGTTAATAATGAGTGATCAAT
1 GTTGTAAATTGCCACATCAATATTCTATTATTTTTAATAACATCTATTAACAATGAGTGATCAAT
765676 TT
66 TT
765678 ATTATAAACC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (67 bp):
GTTGTAAATTGCCACATCAATATTCTATTATTTTTAATAACATCTATTAACAATGAGTGATCAAT
TT
Found at i:779757 original size:25 final size:25
Alignment explanation
Indices: 779729--779788 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
779719 TACTCGACTT
779729 GTTAAGCTCATTAAACTCGTTGCTC
1 GTTAAGCTCATTAAACTCGTTGCTC
**
779754 GTTAAGCTCATTAAGTTCGTTGCTC
1 GTTAAGCTCATTAAACTCGTTGCTC
779779 GTTAAGCTCA
1 GTTAAGCTCA
779789 CCCAATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (25 bp):
GTTAAGCTCATTAAACTCGTTGCTC
Found at i:779787 original size:9 final size:9
Alignment explanation
Indices: 779729--779787 Score: 54
Period size: 9 Copynumber: 7.0 Consensus size: 9
779719 TACTCGACTT
779729 GTTAAGCTC
1 GTTAAGCTC
* *
779738 ATTAAACTC
1 GTTAAGCTC
779747 GTT--GCTC
1 GTTAAGCTC
779754 GTTAAGCTC
1 GTTAAGCTC
* *
779763 ATTAAGTTC
1 GTTAAGCTC
779772 GTT--GCTC
1 GTTAAGCTC
779779 GTTAAGCTC
1 GTTAAGCTC
779788 ACCCAATTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
7 12 0.32
9 26 0.68
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (9 bp):
GTTAAGCTC
Found at i:791734 original size:16 final size:16
Alignment explanation
Indices: 791713--791752 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
791703 AGTTGACTTC
791713 CAGAAACTGATTTGAG
1 CAGAAACTGATTTGAG
791729 CAGAAACTGATTTGAG
1 CAGAAACTGATTTGAG
791745 CAGAAACT
1 CAGAAACT
791753 ATATATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (16 bp):
CAGAAACTGATTTGAG
Found at i:796318 original size:14 final size:14
Alignment explanation
Indices: 796299--796326 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
796289 TATACTAACT
796299 TTGTTTTTCACAAA
1 TTGTTTTTCACAAA
796313 TTGTTTTTCACAAA
1 TTGTTTTTCACAAA
796327 CACCACCGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (14 bp):
TTGTTTTTCACAAA
Found at i:803057 original size:18 final size:18
Alignment explanation
Indices: 803034--803079 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
803024 TGTTTACGAG
803034 GGAATTAG-AATATGTGAA
1 GGAATTAGAAATATGT-AA
*
803052 GGAATT-GAAATATGTCA
1 GGAATTAGAAATATGTAA
803069 GGAATTA-AAAT
1 GGAATTAGAAAT
803080 CTGAATCTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.46, C:0.02, G:0.24, T:0.28
Consensus pattern (18 bp):
GGAATTAGAAATATGTAA
Found at i:804724 original size:182 final size:182
Alignment explanation
Indices: 804406--805051 Score: 649
Period size: 182 Copynumber: 3.6 Consensus size: 182
804396 TTGTCGGTAC
* * * *
804406 GTATCGATACAATTA-AAATATGTATCGATACATAACAATATATCAGGTAAAAATATGAGAAAAC
1 GTATCGATA-ATTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAAC
*
804470 CAGGTTTAATATGACAAAACCGGTAAAGCGCTACTGGATATGTTGAAAGTATCGATTCCATTGAA
65 C-GGTTTAATATGACAAAACCGGTAAAGCGCTACAGGATATGTTGAAAGTATCGATTCCATTGAA
* * * * *
804535 GTAAGTATCGACATTTTTGGAATTTAAAAGAAAAGTAGTAATAGCGCCT-AAAAA
129 ATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGCAATAATAGC-ACTGAAAAA
* * *
804589 GTATCGATAATTTATAAACATATATCGATACACAACAATATAACA-GTAAAAATATGATAAAACC
1 GTATCGATAATTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACC
* * * *
804653 GGTTTCATAATGACAAAATCGGTAAAGCGCTACAGGATATGTTGAAAGTATCGATTTCATTTAAA
66 GGTTTAAT-ATGACAAAACCGGTAAAGCGCTACAGGATATGTTGAAAGTATCGATTCCATTGAAA
804718 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGCAATAATAGCACTGAAAAA
130 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGCAATAATAGCACTGAAAAA
* *
804771 GTATCGATACTTTATAAACATGTATCGATGCATAACAATATAACAGGTAAAAA-ATGACAAAACC
1 GTATCGATAATTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACC
* ** *** * * * * *
804835 -G-ATAA-A-G-CACTACCGG--ATTTGTTGA-AAG-TA--TCG--A-T-TCCATT-GA---AA-
66 GGTTTAATATGACAAAACCGGTAAAGCGCT-ACAGGATATGTTGAAAGTATCGATTCCATTGAAA
* * * * *
804880 TAAATATCGACACTTTTGGAATTTAAAAGAAAAGCAGTAATAGCGCCT-ATAGA
130 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGCAATAATAGC-ACTGAAAAA
** * * * *
804933 GTATCGATACGTTATAAAAATGTATTGATCCATAATAATATAACAGGTAAAAATATGACAAAACC
1 GTATCGATAATTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACC
* * * *
804998 GGTTTCATTATGACAAAACCGGTAAAACGCTACCGGATATGTTGAATGTATCGA
66 GGTTT-AATATGACAAAACCGGTAAAGCGCTACAGGATATGTTGAAAGTATCGA
805052 AACTTTAATA
Statistics
Matches: 383, Mismatches: 57, Indels: 51
0.78 0.12 0.10
Matches are distributed among these distances:
162 93 0.24
163 15 0.04
164 1 0.00
165 1 0.00
166 2 0.01
167 6 0.02
168 2 0.01
169 8 0.02
170 1 0.00
171 6 0.02
172 2 0.01
173 2 0.01
174 7 0.02
175 1 0.00
176 6 0.02
177 2 0.01
178 4 0.01
180 2 0.01
181 10 0.03
182 170 0.44
183 42 0.11
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.27
Consensus pattern (182 bp):
GTATCGATAATTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACC
GGTTTAATATGACAAAACCGGTAAAGCGCTACAGGATATGTTGAAAGTATCGATTCCATTGAAAT
AAGTATCGACACTTTTGGAATTTAAAAGAAAAGCAATAATAGCACTGAAAAA
Found at i:804861 original size:162 final size:162
Alignment explanation
Indices: 804661--804998 Score: 498
Period size: 162 Copynumber: 2.1 Consensus size: 162
804651 CCGGTTTCAT
* * * * * *
804661 AATGACAAAATCGGTAAAGCGCTACAGGATATGTTGAAAGTATCGATTTCATTTAAATAAGTATC
1 AATGACAAAACCGATAAAGCACTACAGGATATGTTGAAAGTATCGATTCCATTGAAATAAATATC
* *
804726 GACACTTTTGGAATTTAAAAGAAAAGCAATAATAGC-ACTGAAAAAGTATCGATACTTTATAAAC
66 GACACTTTTGGAATTTAAAAGAAAAGCAATAATAGCGACT-AAAAAGTATCGATACGTTATAAAA
*
804790 ATGTATCGATGCATAACAATATAACAGGTAAAA
130 ATGTATCGATCCATAACAATATAACAGGTAAAA
* *
804823 AATGACAAAACCGATAAAGCACTACCGGATTTGTTGAAAGTATCGATTCCATTGAAATAAATATC
1 AATGACAAAACCGATAAAGCACTACAGGATATGTTGAAAGTATCGATTCCATTGAAATAAATATC
* * * *
804888 GACACTTTTGGAATTTAAAAGAAAAGCAGTAATAGCGCCTATAGAGTATCGATACGTTATAAAAA
66 GACACTTTTGGAATTTAAAAGAAAAGCAATAATAGCGACTAAAAAGTATCGATACGTTATAAAAA
* *
804953 TGTATTGATCCATAATAATATAACAGGTAAAA
131 TGTATCGATCCATAACAATATAACAGGTAAAA
804985 ATATGACAAAACCG
1 A-ATGACAAAACCG
804999 GTTTCATTAT
Statistics
Matches: 157, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
162 143 0.91
163 14 0.09
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (162 bp):
AATGACAAAACCGATAAAGCACTACAGGATATGTTGAAAGTATCGATTCCATTGAAATAAATATC
GACACTTTTGGAATTTAAAAGAAAAGCAATAATAGCGACTAAAAAGTATCGATACGTTATAAAAA
TGTATCGATCCATAACAATATAACAGGTAAAA
Found at i:809009 original size:20 final size:20
Alignment explanation
Indices: 808965--809016 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
808955 ATCTGAGTAG
*
808965 GGGTATCGATACCAAAATAT
1 GGGTATCGATACCAAAAGAT
**
808985 GGGTATCGATACCAAGGGAT
1 GGGTATCGATACCAAAAGAT
*
809005 TGGTATCGATAC
1 GGGTATCGATAC
809017 TAAAGGGCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (20 bp):
GGGTATCGATACCAAAAGAT
Found at i:814416 original size:3 final size:3
Alignment explanation
Indices: 814408--814446 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
814398 CTAATAGTCA
814408 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
814447 TTAAAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:814802 original size:50 final size:50
Alignment explanation
Indices: 814742--814860 Score: 159
Period size: 50 Copynumber: 2.4 Consensus size: 50
814732 TAAAGCGTGC
* * *
814742 CCCCTCCACCGCTCTATACGATGATTTGGCACCACGTGGGGTATAGCGC-A
1 CCCCTGCACCGCGCTATACGATGAGTTGGCACCACGT-GGGTATAGCGCGA
* *
814792 CCCCTGCACCGCGCTATACGGTGAGTTGGCGCCACGTGGGTATAGCGCGA
1 CCCCTGCACCGCGCTATACGATGAGTTGGCACCACGTGGGTATAGCGCGA
* *
814842 CCCCTGTAGCGCGCTATAC
1 CCCCTGCACCGCGCTATAC
814861 CTGTATATCT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
49 11 0.18
50 50 0.82
ACGTcount: A:0.18, C:0.34, G:0.28, T:0.20
Consensus pattern (50 bp):
CCCCTGCACCGCGCTATACGATGAGTTGGCACCACGTGGGTATAGCGCGA
Found at i:815012 original size:12 final size:10
Alignment explanation
Indices: 814971--815011 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
814961 TTTATCACAC
814971 CAAATTCTCT
1 CAAATTCTCT
814981 CAAATTCTCT
1 CAAATTCTCT
814991 -AAATTTCTCT
1 CAAA-TTCTCT
*
815001 CAAATACTCT
1 CAAATTCTCT
815011 C
1 C
815012 TTTTAAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:815060 original size:13 final size:14
Alignment explanation
Indices: 815032--815060 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
815022 ATATTTTATA
815032 ATATTTTTACTATT
1 ATATTTTTACTATT
815046 ATATTTTTACT-TT
1 ATATTTTTACTATT
815059 AT
1 AT
815061 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:815274 original size:110 final size:111
Alignment explanation
Indices: 815135--815342 Score: 373
Period size: 110 Copynumber: 1.9 Consensus size: 111
815125 TGGAAATCAT
*
815135 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
815200 TATTTAGTT-ATTTATTTAATGCATGATTATTATATTAATAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTATATTAATAATTAA
*
815245 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
815310 TAATTAGTTGATTCATTTAATGCATGATTATTA
66 TAATTAGTTGATTCATTTAATGCATGATTATTA
815343 GATATCAGGG
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
110 71 0.76
111 22 0.24
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTATATTAATAATTAA
Found at i:819249 original size:17 final size:16
Alignment explanation
Indices: 819223--819254 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
819213 CGAAAAACTT
819223 AAAATATGACTTTTCA
1 AAAATATGACTTTTCA
819239 AAAATTATGACTTTTC
1 AAAA-TATGACTTTTC
819255 GGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (16 bp):
AAAATATGACTTTTCA
Found at i:822709 original size:41 final size:41
Alignment explanation
Indices: 822625--822715 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
822615 CGTTTCTCAA
* **
822625 AAACGCCGCTAAAACTCGTACTTTAGTGGCATTTATTTGAC
1 AAACGCCGCTAAAACTCGTACTTTAGTGGCATTTAGTAAAC
* *
822666 AAACGCCGCTAACGA-TCAGTACTTTAGTGGCGTTT-GTAAAC
1 AAACGCCGCTAA-AACTC-GTACTTTAGTGGCATTTAGTAAAC
822707 AAACGCCGC
1 AAACGCCGC
822716 CATAGAATAG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
41 26 0.60
42 17 0.40
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (41 bp):
AAACGCCGCTAAAACTCGTACTTTAGTGGCATTTAGTAAAC
Found at i:826875 original size:43 final size:41
Alignment explanation
Indices: 826792--826935 Score: 164
Period size: 43 Copynumber: 3.4 Consensus size: 41
826782 GGCTTTTGCA
* *
826792 TCCAAAAACGTCGCTATATATCTGAAT-TTTGCGGTGTTTGT
1 TCCAAAAACGCCGCTATATATCTG-ATCTTTGCGGCGTTTGT
* *
826833 TCCAAAAATGCCGCTATATATCTCGATCTTCTGCAGCGTTTGT
1 TCCAAAAACGCCGCTATATATCT-GATCTT-TGCGGCGTTTGT
* * *
826876 TCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGC
1 TCCAAAAACGCCGCTATATATCTGATC-TTTGCGGCGTTTGT
* *
826918 TCCAAAAATGCCGTTATA
1 TCCAAAAACGCCGCTATA
826936 GGTCCAACCT
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
41 23 0.26
42 32 0.36
43 33 0.38
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (41 bp):
TCCAAAAACGCCGCTATATATCTGATCTTTGCGGCGTTTGT
Found at i:826936 original size:42 final size:42
Alignment explanation
Indices: 826780--826950 Score: 164
Period size: 42 Copynumber: 4.0 Consensus size: 42
826770 ACGGTAATTA
* * * *
826780 GCGGCTTTTGCATCCAAAAACGTCGCTATATATCTGA-ATTTT
1 GCGGCGTTTGC-TCCAAAAACGCCGCTATAGATCTGACCTTTT
* * * * * *
826822 GCGGTGTTTGTTCCAAAAATGCCGCTATATATCTCGATCTTCT
1 GCGGCGTTTGCTCCAAAAACGCCGCTATAGATCT-GACCTTTT
* *
826865 GCAGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGCTCCAAAAACGCCGCTATAGATCTGACCTTTT
* * * **
826907 GCGGCGTTTGCTCCAAAAATGCCGTTATAGGTCCAACCTTTT
1 GCGGCGTTTGCTCCAAAAACGCCGCTATAGATCTGACCTTTT
826949 GC
1 GC
826951 AGACCTATTG
Statistics
Matches: 107, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 21 0.20
42 53 0.50
43 33 0.31
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (42 bp):
GCGGCGTTTGCTCCAAAAACGCCGCTATAGATCTGACCTTTT
Found at i:826952 original size:84 final size:84
Alignment explanation
Indices: 826792--826952 Score: 207
Period size: 84 Copynumber: 1.9 Consensus size: 84
826782 GGCTTTTGCA
* * * * *
826792 TCCAAAAACGTCGCTATATATCTGAATTTTGCGGTGTTTGTTCCAAAAATGCCGCTATATATCTC
1 TCCAAAAACGCCGCTATAGATCTGAATTTTGCGGCGTTTGCTCCAAAAATGCCGCTATAGATCTC
* *
826857 GATCTTCTGCAGCGTTTGT
66 AACCTTCTGCAGCGTTTGT
* * *
826876 TCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGCTCCAAAAATGCCGTTATAGGTC-
1 TCCAAAAACGCCGCTATAGATCTGA-ATTTTGCGGCGTTTGCTCCAAAAATGCCGCTATAGATCT
*
826940 CAACCTTTTGCAG
65 CAACCTTCTGCAG
826953 ACCTATTGCA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
84 33 0.51
85 32 0.49
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (84 bp):
TCCAAAAACGCCGCTATAGATCTGAATTTTGCGGCGTTTGCTCCAAAAATGCCGCTATAGATCTC
AACCTTCTGCAGCGTTTGT
Found at i:829323 original size:20 final size:20
Alignment explanation
Indices: 829298--829336 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
829288 TGTAAATATT
*
829298 AAATTTTCAAAATATATTCA
1 AAATTTTCAAAAAATATTCA
829318 AAATTTTCAAAAAATATTC
1 AAATTTTCAAAAAATATTC
829337 TCTAATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTTTCAAAAAATATTCA
Found at i:831438 original size:20 final size:20
Alignment explanation
Indices: 831415--831483 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
831405 GATTTAAAAT
*
831415 TAAAATAAATTTAATATTTA
1 TAAAATAAATATAATATTTA
* * *
831435 TAAATTAAACATAAT-TGTA
1 TAAAATAAATATAATATTTA
*
831454 TAAAATTAAATATAA-ATTTT
1 TAAAA-TAAATATAATATTTA
831474 TAAAATAAAT
1 TAAAATAAAT
831484 TAAGGTTTGA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
19 12 0.31
20 27 0.69
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (20 bp):
TAAAATAAATATAATATTTA
Found at i:833556 original size:18 final size:18
Alignment explanation
Indices: 833542--833656 Score: 106
Period size: 18 Copynumber: 6.4 Consensus size: 18
833532 ACTATGTAGT
*
833542 CTTGGAACCCAATGTGAA
1 CTTGGAACACAATGTGAA
833560 CTTGGAACACAATGTGAA
1 CTTGGAACACAATGTGAA
* * *
833578 CTTGGAAGACGATGTAAA
1 CTTGGAACACAATGTGAA
* *
833596 CTTGGAACTCAATGTCAA
1 CTTGGAACACAATGTGAA
* ** *
833614 TTTGGTTCACGATGTGAA
1 CTTGGAACACAATGTGAA
* *
833632 CTTGGAGCAGAACT-TGAA
1 CTTGGAACACAA-TGTGAA
833650 CTTGGAA
1 CTTGGAA
833657 GAAGGTCCGG
Statistics
Matches: 76, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
18 75 0.99
19 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (18 bp):
CTTGGAACACAATGTGAA
Found at i:833571 original size:54 final size:54
Alignment explanation
Indices: 833508--833610 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
833498 AACCCAAGCA
* * **
833508 TGGAGCACAACATGAACTTGG-AGAACTATGTAGTCTTGGAACCCAATGTGAACT
1 TGGAACACAACATGAACTTGGAAG-ACGATGTAAACTTGGAACCCAATGTGAACT
** *
833562 TGGAACACAATGTGAACTTGGAAGACGATGTAAACTTGGAACTCAATGT
1 TGGAACACAACATGAACTTGGAAGACGATGTAAACTTGGAACCCAATGT
833611 CAATTTGGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 39 0.95
55 2 0.05
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
TGGAACACAACATGAACTTGGAAGACGATGTAAACTTGGAACCCAATGTGAACT
Found at i:833629 original size:54 final size:55
Alignment explanation
Indices: 833520--833637 Score: 141
Period size: 54 Copynumber: 2.2 Consensus size: 55
833510 GAGCACAACA
* ** *
833520 TGAACTTGG-AGAACTATGTAGTCTTGGAACCCAATGTGAACTTGGAACACAATG
1 TGAACTTGGAAGAACGATGTAAACTTGGAACCCAATGTCAACTTGGAACACAATG
* * ** *
833574 TGAACTTGGAAG-ACGATGTAAACTTGGAACTCAATGTCAATTTGGTTCACGATG
1 TGAACTTGGAAGAACGATGTAAACTTGGAACCCAATGTCAACTTGGAACACAATG
833628 TGAACTTGGA
1 TGAACTTGGA
833638 GCAGAACTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 52 0.96
55 2 0.04
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (55 bp):
TGAACTTGGAAGAACGATGTAAACTTGGAACCCAATGTCAACTTGGAACACAATG
Found at i:836541 original size:21 final size:21
Alignment explanation
Indices: 836515--836556 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
836505 CAGTCGCTTG
* *
836515 TCGTCCGTCGTCCTCCGACCA
1 TCGTCCGCCGTCCTCCAACCA
836536 TCGTCCGCCGTCCTCCAACCA
1 TCGTCCGCCGTCCTCCAACCA
836557 CCGTTTTCCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.50, G:0.17, T:0.21
Consensus pattern (21 bp):
TCGTCCGCCGTCCTCCAACCA
Found at i:838350 original size:12 final size:12
Alignment explanation
Indices: 838333--838364 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
838323 TCACAAAGGC
838333 TGATGCGAGAAT
1 TGATGCGAGAAT
838345 TGATGCGAGAAT
1 TGATGCGAGAAT
838357 TGATGCGA
1 TGATGCGA
838365 TGGTGGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.25
Consensus pattern (12 bp):
TGATGCGAGAAT
Found at i:846292 original size:15 final size:15
Alignment explanation
Indices: 846257--846293 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
846247 TGAGACCTTA
*
846257 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
846272 -CCGCCCCACATCCG
1 CCCGCCCCACATCCG
846286 CCCGCCCC
1 CCCGCCCC
846294 TAAATATCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.08, C:0.70, G:0.16, T:0.05
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:859736 original size:19 final size:19
Alignment explanation
Indices: 859712--859783 Score: 108
Period size: 19 Copynumber: 3.8 Consensus size: 19
859702 ATAATGTTTA
* *
859712 AAAGTATCGATGCTTATAG
1 AAAGTATCGATACTTGTAG
*
859731 AAAGTATAGATACTTGTAG
1 AAAGTATCGATACTTGTAG
859750 AAAGTATCGATACTTGTAG
1 AAAGTATCGATACTTGTAG
*
859769 AAAGTATCGAAACTT
1 AAAGTATCGATACTT
859784 TTGTAGGGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (19 bp):
AAAGTATCGATACTTGTAG
Found at i:867690 original size:22 final size:22
Alignment explanation
Indices: 867662--867704 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
867652 AGTTTTATTA
*
867662 AAGTTTTCTCTT-TTTACTTTTC
1 AAGTTTTCCCTTCTTTA-TTTTC
867684 AAGTTTTCCCTTCTTTATTTT
1 AAGTTTTCCCTTCTTTATTTT
867705 ATTTTCAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.14, C:0.19, G:0.05, T:0.63
Consensus pattern (22 bp):
AAGTTTTCCCTTCTTTATTTTC
Found at i:873867 original size:13 final size:12
Alignment explanation
Indices: 873849--873892 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
873839 ATTCTGTTAC
873849 ATTTTATTTATTT
1 ATTTTATTT-TTT
873862 ATTTTATTTTTT
1 ATTTTATTTTTT
* *
873874 GTTTT-TGTTTT
1 ATTTTATTTTTT
873885 ATTTTATT
1 ATTTTATT
873893 CGATCAAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 9 0.35
12 8 0.31
13 9 0.35
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.80
Consensus pattern (12 bp):
ATTTTATTTTTT
Found at i:883951 original size:19 final size:19
Alignment explanation
Indices: 883927--883966 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
883917 TATACAAATA
883927 CTAATGCTTTGTCACTTTC
1 CTAATGCTTTGTCACTTTC
883946 CTAATGCTTTGTCACTTTC
1 CTAATGCTTTGTCACTTTC
883965 CT
1 CT
883967 GCCGCTTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.28, G:0.10, T:0.47
Consensus pattern (19 bp):
CTAATGCTTTGTCACTTTC
Found at i:888841 original size:20 final size:20
Alignment explanation
Indices: 888816--888907 Score: 103
Period size: 20 Copynumber: 4.5 Consensus size: 20
888806 TTTTCCCAAT
*
888816 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
* **
888836 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
*
888857 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
* **
888877 TCGCAACGCGAATGGGAAAA
1 TCGCAATGCGAATAAGAAAA
888897 TCGCAATGCGA
1 TCGCAATGCGA
888908 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 42 0.72
21 16 0.28
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.16
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:888861 original size:41 final size:40
Alignment explanation
Indices: 888816--888907 Score: 175
Period size: 41 Copynumber: 2.3 Consensus size: 40
888806 TTTTCCCAAT
888816 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAA-TGGGAAAA
888857 TCGCAATGCGAATAAGTAAATCGCAACGCGAATGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATGGGAAAA
888897 TCGCAATGCGA
1 TCGCAATGCGA
888908 TACTTACTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 19 0.37
41 32 0.63
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.16
Consensus pattern (40 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATGGGAAAA
Found at i:888919 original size:20 final size:20
Alignment explanation
Indices: 888896--888989 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
888886 GAATGGGAAA
*
888896 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * * **
888916 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-TACT
*
888937 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
888957 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
888977 TTCGCAACGCGAT
1 ATCGCAACGCGAT
888990 TTACATAGCG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:888951 original size:41 final size:41
Alignment explanation
Indices: 888893--888970 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
888883 CGCGAATGGG
* * *
888893 AAAATCGCAATGCGATACTTACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAA
*
888934 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATA
888971 CTGACTTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAA
Found at i:889536 original size:19 final size:19
Alignment explanation
Indices: 889498--889553 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
889488 TTCGAGAATG
889498 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
889518 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
889537 AAAATCGCAACGCGAAA
1 AAAATCGCAACGCGAAA
889554 CCAAATCGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 21 0.66
20 11 0.34
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:889586 original size:19 final size:19
Alignment explanation
Indices: 889559--889740 Score: 147
Period size: 19 Copynumber: 10.1 Consensus size: 19
889549 CGAAACCAAA
*
889559 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
889578 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
889597 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
*
889616 TCGTGGTTGCGATTTTCATT
1 TCG-CGTTGCGATTTTCATT
*
889636 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
889652 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
889669 TCACGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
889683 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
889702 TCCGCGTTGCGA-TTTCATT
1 T-CGCGTTGCGATTTTCATT
889721 AT--CGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
889739 TC
1 TC
889741 AACCAAAAGC
Statistics
Matches: 132, Mismatches: 16, Indels: 31
0.74 0.09 0.17
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 12 0.09
18 7 0.05
19 62 0.47
20 27 0.20
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:889636 original size:39 final size:38
Alignment explanation
Indices: 889559--889740 Score: 147
Period size: 33 Copynumber: 5.1 Consensus size: 38
889549 CGAAACCAAA
*
889559 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
889597 TCGCGTTGCGATTTTTATTTCGTGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCG-CGTTGCGATTTTCATT
* * **
889636 TCGCGTTGCGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* * **
889669 TCACGTTGCGA--TTC---TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
889702 TCCGCGTTGCGA-TTTCATTAT--CGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCATT
889739 TC
1 TC
889741 AACCAAAAGC
Statistics
Matches: 120, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
31 3 0.03
33 37 0.31
34 9 0.08
35 4 0.03
36 2 0.02
37 15 0.12
38 20 0.17
39 30 0.25
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.45
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:891778 original size:21 final size:21
Alignment explanation
Indices: 891754--891806 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
891744 TAAGTAAGGG
891754 TGTACCGATACACCCATAAGA
1 TGTACCGATACACCCATAAGA
*
891775 TGTACCGATACACCCATAGGA
1 TGTACCGATACACCCATAAGA
891796 TGTACCGATAC
1 TGTACCGATAC
891807 CCCTGAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (21 bp):
TGTACCGATACACCCATAAGA
Found at i:901222 original size:403 final size:403
Alignment explanation
Indices: 900469--901277 Score: 1440
Period size: 403 Copynumber: 2.0 Consensus size: 403
900459 ATCCGACACA
900469 CGGTTGTCCACTGATTCAAGATGACGCAGCATCTCAAGTCAATGCAATCGGGGATTTTTCGGGAC
1 CGGTTGTCCACTGATTCAAGATGACGCAGCATCTCAAGTCAATGCAATCGGGGATTTTTCGGGAC
* *
900534 CTCCCCAAAGAGCTTATAATCCCTACGACAATACATACAACCCAGGATGGATGGATCATCCGAAT
66 CTCCCCAAAGAGCTTATAATCCCTACGACAATACATACAACCCAAGATGGATGGATCATCCAAAT
*
900599 TTCAGGTATGTTCAGAACTCAAGACCAAATCAAGGCTGTCAAGCGAGACCACCCCCACCACAACA
131 TTCAGCTATGTTCAGAACTCAAGACCAAATCAAGGCTGTCAAGCGAGACCACCCCCACCACAACA
* *
900664 ACAACCGCAAAAAAAATCACTAGATTCGATTGTCGAGAGGTTAGCACTATCACAGGAAAAATTCC
196 ACAACCGCAAAAAAAATCACTAGAGTCAATTGTCGAGAGGTTAGCACTATCACAGGAAAAATTCC
* *
900729 AAAATCATACTAAAGCCCACTTACAAGAGATAGACAAGCAGATGAGCCAACTGGCTCAAATCGTA
261 AAAATCATACTAAAGCCCACTTACAAGAGATAGACAAGAAGATGAGCCAACTGGCTCAAACCGTA
* *
900794 GGTCTCTTGGAATCACCCAGTAAACTTCCATCTCAAACTAAAGTAAACCAGAGGGGGAACGTCAG
326 GGTCGCTTGGAATCACCCAGTAAACTTCCATCTAAAACTAAAGTAAACCAGAGGGGGAACGTCAG
900859 CACCATTACTCTT
391 CACCATTACTCTT
*
900872 CGGTTGTCCACTGATTCAAGATGATGCAGCATCTCAAGTCAATGCAATCGGGGATTTTTCGGGAC
1 CGGTTGTCCACTGATTCAAGATGACGCAGCATCTCAAGTCAATGCAATCGGGGATTTTTCGGGAC
900937 CTCCCCAAAGAGCTTATAATCCCTACGACAATACATACAACCCAAGATGGATGGATCATCCAAAT
66 CTCCCCAAAGAGCTTATAATCCCTACGACAATACATACAACCCAAGATGGATGGATCATCCAAAT
*
901002 TTCAGCTATGTTCAGAACTCAAGACCAAATCAAGGCTGTCAAGCGAGACCACCTCCACCACAACA
131 TTCAGCTATGTTCAGAACTCAAGACCAAATCAAGGCTGTCAAGCGAGACCACCCCCACCACAACA
* * *
901067 ACAGCCGCAAAAGAAATCACTAGAGTCAATTGTCGAGAGGTTAGCACTATCCCAGGAAAAATTCC
196 ACAACCGCAAAAAAAATCACTAGAGTCAATTGTCGAGAGGTTAGCACTATCACAGGAAAAATTCC
*
901132 AGAATCATACTAAAGCCCACTTACAAGAGATAGACAAGAAGATGAGCCAACTGGCTCAAACCGTA
261 AAAATCATACTAAAGCCCACTTACAAGAGATAGACAAGAAGATGAGCCAACTGGCTCAAACCGTA
* *
901197 GGTCGCTTGGAATCA-CGAGGTAAACTTCCATCTAAAACTAAAGTAAACCAGAGGGGGAATGTCA
326 GGTCGCTTGGAATCACCCA-GTAAACTTCCATCTAAAACTAAAGTAAACCAGAGGGGGAACGTCA
*
901261 GCGCCATTACTCTT
390 GCACCATTACTCTT
901275 CGG
1 CGG
901278 AGCGGTACAG
Statistics
Matches: 387, Mismatches: 18, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
402 2 0.01
403 385 0.99
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (403 bp):
CGGTTGTCCACTGATTCAAGATGACGCAGCATCTCAAGTCAATGCAATCGGGGATTTTTCGGGAC
CTCCCCAAAGAGCTTATAATCCCTACGACAATACATACAACCCAAGATGGATGGATCATCCAAAT
TTCAGCTATGTTCAGAACTCAAGACCAAATCAAGGCTGTCAAGCGAGACCACCCCCACCACAACA
ACAACCGCAAAAAAAATCACTAGAGTCAATTGTCGAGAGGTTAGCACTATCACAGGAAAAATTCC
AAAATCATACTAAAGCCCACTTACAAGAGATAGACAAGAAGATGAGCCAACTGGCTCAAACCGTA
GGTCGCTTGGAATCACCCAGTAAACTTCCATCTAAAACTAAAGTAAACCAGAGGGGGAACGTCAG
CACCATTACTCTT
Found at i:906157 original size:11 final size:11
Alignment explanation
Indices: 906141--906165 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
906131 AAAAATGTTG
906141 AAAGAAAAAGA
1 AAAGAAAAAGA
906152 AAAGAAAAAGA
1 AAAGAAAAAGA
906163 AAA
1 AAA
906166 AAAGAAGCTG
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:907260 original size:22 final size:22
Alignment explanation
Indices: 907232--907274 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
907222 AGTTTTATTA
*
907232 AAGTTTTCTCTTTTTACTTTTC
1 AAGTTTTCCCTTTTTACTTTTC
*
907254 AAGTTTTCCCTTTTTTCTTTT
1 AAGTTTTCCCTTTTTACTTTT
907275 ATTTTCAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.19, G:0.05, T:0.65
Consensus pattern (22 bp):
AAGTTTTCCCTTTTTACTTTTC
Found at i:914380 original size:21 final size:20
Alignment explanation
Indices: 914356--914402 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
914346 ATGCATTTGC
914356 TTTTTTT-TTTCT-TTTTCACA
1 TTTTTTTGTTT-TGTTTTC-CA
914376 TTTTTTTGTTTTGTTTTCCA
1 TTTTTTTGTTTTGTTTTCCA
914396 TTTTTTT
1 TTTTTTT
914403 CATGTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.06, C:0.11, G:0.04, T:0.79
Consensus pattern (20 bp):
TTTTTTTGTTTTGTTTTCCA
Found at i:917345 original size:6 final size:6
Alignment explanation
Indices: 917334--917374 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
917324 TACTCAATCG
* * *
917334 AAATAA AAATAA AAATAA AGATAA AAATAA GAATAA GAATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATA
917375 TAATGGAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:921185 original size:29 final size:29
Alignment explanation
Indices: 921153--921209 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
921143 TTAATTGTAT
*
921153 TCTTTATGTATCTCAAATTTCATCAAACG
1 TCTTTATGTATCTCAAAATTCATCAAACG
*
921182 TCTTTATGTATCTCAAAATTCGTCAAAC
1 TCTTTATGTATCTCAAAATTCATCAAAC
921210 AACTTTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (29 bp):
TCTTTATGTATCTCAAAATTCATCAAACG
Found at i:924287 original size:2 final size:2
Alignment explanation
Indices: 924280--924310 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
924270 ATTTTATTTC
924280 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
924311 TCTATGTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:924750 original size:24 final size:23
Alignment explanation
Indices: 924665--924760 Score: 97
Period size: 23 Copynumber: 4.1 Consensus size: 23
924655 GATTCGAGGG
*
924665 TTCTATGTGGTCCTTCGGGTCAAA
1 TTCTATGTGGTCCTTCGGG-AAAA
* *
924689 TT-TATGTGGTCATTCGAGAAAA
1 TTCTATGTGGTCCTTCGGGAAAA
**
924711 AACTATGTGGTCCTTCGGGACAAA
1 TTCTATGTGGTCCTTCGGGA-AAA
924735 TTCTATGTGG-CACTTCGGTGAAAA
1 TTCTATGTGGTC-CTTCGG-GAAAA
924759 TT
1 TT
924761 ATATTAGCAG
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
22 3 0.05
23 30 0.51
24 24 0.41
25 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (23 bp):
TTCTATGTGGTCCTTCGGGAAAA
Found at i:930360 original size:2 final size:2
Alignment explanation
Indices: 930353--930378 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
930343 TATTTACTTA
930353 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
930379 GATTGGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:935797 original size:16 final size:16
Alignment explanation
Indices: 935754--935797 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
935744 ACAAATAATG
*
935754 AAAAAT-AAATACAAT
1 AAAAATAAAATAAAAT
* *
935769 AAAAACAACATAAAAT
1 AAAAATAAAATAAAAT
935785 AAAAATAAAATAA
1 AAAAATAAAATAA
935798 GTACAAGGAC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:940402 original size:22 final size:22
Alignment explanation
Indices: 940377--940418 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
940367 TACAAGGTAA
940377 TATTTGTACAAAG-ACTTTCAAC
1 TATTTG-ACAAAGAACTTTCAAC
*
940399 TATTTGACAATGAACTTTCA
1 TATTTGACAAAGAACTTTCA
940419 TACCCCTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (22 bp):
TATTTGACAAAGAACTTTCAAC
Found at i:942345 original size:22 final size:24
Alignment explanation
Indices: 942293--942347 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
942283 AGTAAATCTC
* * *
942293 TAAATTTTAAGAGTTGATGAATTA
1 TAAATTTTAAAAGATGATGAATAA
942317 TATAATTTTAAAAGATGA-GAA-AA
1 TA-AATTTTAAAAGATGATGAATAA
942340 TAAATTTT
1 TAAATTTT
942348 TAATAGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 6 0.22
23 3 0.11
24 5 0.19
25 13 0.48
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (24 bp):
TAAATTTTAAAAGATGATGAATAA
Found at i:945243 original size:21 final size:23
Alignment explanation
Indices: 945202--945264 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
945192 TTATTCAAAC
945202 AATTTTAAGGAATTATCTTTTGT
1 AATTTTAAGGAATTATCTTTTGT
*
945225 AATTTTAGGGAA-T-TCTTTTGT
1 AATTTTAAGGAATTATCTTTTGT
945246 -A-TTTAGTAGGAATTATCTT
1 AATTTTA--AGGAATTATCTT
945265 CAAGCATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
19 4 0.12
20 1 0.03
21 12 0.35
22 2 0.06
23 15 0.44
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.51
Consensus pattern (23 bp):
AATTTTAAGGAATTATCTTTTGT
Found at i:945726 original size:119 final size:121
Alignment explanation
Indices: 945515--945757 Score: 438
Period size: 119 Copynumber: 2.0 Consensus size: 121
945505 CATACCTTTC
945515 AGGTTACATTCTCAGTTCTCTGGAATCAAGGATCAGTAATCGACCATCCTTTTGATTAAAAACAT
1 AGGTTACATTCTCAGTTCTCTGGAATCAAGGATCAGTAATCGACCATCCTTTTGATTAAAAACAT
*
945580 TTTCTTTTCAAAAGTGCACATTGGA-TTTTGGTTTTTTTATTAATAG-TGGGAGGA
66 TTTCTTTTCAAAAGTGCACATTGGATTTTTGGTGTTTTTATTAATAGTTGGGAGGA
*
945634 AGGTTACATTCTCAGTTCTCTGGAATCAA-GATCGGTAATCGACCATCCTTTATGATTAAAAACA
1 AGGTTACATTCTCAGTTCTCTGGAATCAAGGATCAGTAATCGACCATCCTTT-TGATTAAAAACA
945698 TTTTCTTTTCAAAAGTGCACATTGGATTTTTGGTGTTTTTATTAATAGTTGGGAGGA
65 TTTTCTTTTCAAAAGTGCACATTGGATTTTTGGTGTTTTTATTAATAGTTGGGAGGA
945755 AGG
1 AGG
945758 ATCGACTTGT
Statistics
Matches: 119, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
118 21 0.18
119 67 0.56
120 20 0.17
121 11 0.09
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.38
Consensus pattern (121 bp):
AGGTTACATTCTCAGTTCTCTGGAATCAAGGATCAGTAATCGACCATCCTTTTGATTAAAAACAT
TTTCTTTTCAAAAGTGCACATTGGATTTTTGGTGTTTTTATTAATAGTTGGGAGGA
Found at i:948914 original size:18 final size:18
Alignment explanation
Indices: 948879--948917 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
948869 TTTTTTCTAT
**
948879 TTTTTGATTCACTTTTAA
1 TTTTTGATTCACGATTAA
948897 TTTTTGATTCACGATTAA
1 TTTTTGATTCACGATTAA
948915 TTT
1 TTT
948918 CCTCAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.10, G:0.08, T:0.59
Consensus pattern (18 bp):
TTTTTGATTCACGATTAA
Found at i:949519 original size:146 final size:146
Alignment explanation
Indices: 949247--949539 Score: 487
Period size: 146 Copynumber: 2.0 Consensus size: 146
949237 AATTAAGAAC
* * * *
949247 TCGACAGGTGAGTTAGTTACAACTAGAGTTCAGAATGGATGGTAAGTCTGCATCGATTATAGGAA
1 TCGAAAGGTGAGTTAGTTACAACTAGAGTTCAGAATGGATGGTAAGTCTACATCGATTACAAGAA
* * *
949312 GTTGAATTCTTGAACACAAAAAGACCATTTTCCTCTTCGATTTATAGACCAAGTGATAGAAATAT
66 GTTGAATTCTTGAACACAAAAAGACCATTTTCCTCTTCGATTTATAGACCAAATGACAGAAAGAT
*
949377 TAGCTGCTAAAACTCA
131 TAGATGCTAAAACTCA
* *
949393 TCGAAAGGTGAGTTAGTTACGACTAGAGTTCAGAATGGATGGTGAGTCTACATCGATTACAAGAA
1 TCGAAAGGTGAGTTAGTTACAACTAGAGTTCAGAATGGATGGTAAGTCTACATCGATTACAAGAA
949458 GTTGAATTCTTGAACACAAAAAGACCATTTTCCTCTTCGATTTATAGACCAAATGACAGAAAGAT
66 GTTGAATTCTTGAACACAAAAAGACCATTTTCCTCTTCGATTTATAGACCAAATGACAGAAAGAT
*
949523 TAGATGGTAAAACTCA
131 TAGATGCTAAAACTCA
949539 T
1 T
949540 TATTATTGTC
Statistics
Matches: 136, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
146 136 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (146 bp):
TCGAAAGGTGAGTTAGTTACAACTAGAGTTCAGAATGGATGGTAAGTCTACATCGATTACAAGAA
GTTGAATTCTTGAACACAAAAAGACCATTTTCCTCTTCGATTTATAGACCAAATGACAGAAAGAT
TAGATGCTAAAACTCA
Found at i:962368 original size:37 final size:36
Alignment explanation
Indices: 962325--962423 Score: 137
Period size: 37 Copynumber: 2.8 Consensus size: 36
962315 AAAAAAAGAG
* *
962325 AATTTTGTCTCACTTGAGACAATTTTTACTCGAAACA
1 AATTTTGTCTCATTTGAGACAATTTTTA-TCAAAACA
* *
962362 AGTTTTGTCTCTTTTGAGACAATTTTTATCAAAACA
1 AATTTTGTCTCATTTGAGACAATTTTTATCAAAACA
*
962398 AATTTCGTCTCATTTGAGAC-ATTTTT
1 AATTTTGTCTCATTTGAGACAATTTTT
962424 CCTTTGAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
35 6 0.11
36 24 0.44
37 25 0.45
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.43
Consensus pattern (36 bp):
AATTTTGTCTCATTTGAGACAATTTTTATCAAAACA
Found at i:962621 original size:36 final size:36
Alignment explanation
Indices: 962554--962845 Score: 190
Period size: 36 Copynumber: 8.3 Consensus size: 36
962544 AGATTGTTTT
* *
962554 CCTTGAAACAAAGTTTTATCTCTCTTAAGACAATTTC
1 CCTTGAAACAAA-TTTTGTCTCTCTTGAGACAATTTC
* * *
962591 CCTTGAAATAAATTTTGTCTCCCTTGAGACAATTTT
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTC
* * *
962627 CCTTGAAACGAGTTTTGTCTCTCTTGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTC
* * *
962663 ACTTGAAACAAATTTTGTCT-TGCTTGAGACAGTTTA
1 CCTTGAAACAAATTTTGTCTCT-CTTGAGACAATTTC
** ****** *
962699 TTTTGAAACAAA-AAAAAATCT-TTGA-ATATATTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACA-ATTTC
* * *
962733 TCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTC
* *** * *
962769 TCTTGAAACAAA--AAATCT-T-TT-AGGTC-GTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGA-GACAATTTC
* * *
962800 CCTTGAAACGAGTTTTGTCTCTCTTGAGACAATTTT
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTC
962836 CCTTGAAACA
1 CCTTGAAACA
962846 CTGATCTTTG
Statistics
Matches: 191, Mismatches: 51, Indels: 27
0.71 0.19 0.10
Matches are distributed among these distances:
31 15 0.08
32 4 0.02
33 5 0.03
34 22 0.12
35 8 0.04
36 124 0.65
37 13 0.07
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (36 bp):
CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTC
Found at i:962650 original size:72 final size:73
Alignment explanation
Indices: 962550--962845 Score: 229
Period size: 72 Copynumber: 4.2 Consensus size: 73
962540 TTAGAGATTG
* *
962550 TTTTCCTTGAAACAAAGTTTTATCTCTCTTAAGACAATTTCCCTTGAAATAAATTTTGTCTCCCT
1 TTTTCCTTGAAACAAAGTTTTATCTCTCTTAAGACAATTTCACTTGAAACAAATTTTGTCTCCCT
962615 TGAGACAA
66 TGAGACAA
* * * * **
962623 TTTTCCTTGAAAC-GAGTTTTGTCTCTCTTGAGACAGTTTCACTTGAAACAAATTTTGTCTTGCT
1 TTTTCCTTGAAACAAAGTTTTATCTCTCTTAAGACAATTTCACTTGAAACAAATTTTGTCTCCCT
*
962687 TGAGACAG
66 TGAGACAA
* ***** * * * *
962695 TTTAT-TTTGAAACAAAAAAAAATCT-T-TGAATA-TATTTCTCTTGAAACAAATTTTGTCTCCC
1 TTT-TCCTTGAAACAAAGTTTTATCTCTCTTAAGACAATTTCACTTGAAACAAATTTTGTCTCCC
962756 TTGAGAC-A
65 TTGAGACAA
* ** * * * * * * *
962764 GTTTCTCTTGAAACAAA---AAATCT-T-TTAGGTC-GTTTCCCTTGAAACGAGTTTTGTCTCTC
1 TTTTC-CTTGAAACAAAGTTTTATCTCTCTTAAGACAATTTCACTTGAAACAAATTTTGTCTCCC
962823 TTGAGACAA
65 TTGAGACAA
962832 TTTTCCTTGAAACA
1 TTTTCCTTGAAACA
962846 CTGATCTTTG
Statistics
Matches: 179, Mismatches: 38, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
67 48 0.27
68 6 0.03
69 2 0.01
70 41 0.23
71 3 0.02
72 61 0.34
73 18 0.10
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (73 bp):
TTTTCCTTGAAACAAAGTTTTATCTCTCTTAAGACAATTTCACTTGAAACAAATTTTGTCTCCCT
TGAGACAA
Found at i:962896 original size:66 final size:68
Alignment explanation
Indices: 962587--962923 Score: 237
Period size: 67 Copynumber: 4.9 Consensus size: 68
962577 CTTAAGACAA
* *****
962587 TTTCCCTTGAAATAAATTTTGTCTCCCTTGAGACAATTTTC-CTTGAAACGAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAATTTTCTCTTGAAAC-A---AAAAATCT-T
*
962651 TGAGA-CAG
61 TGAGATC-T
* ** *
962659 TTTCACTTGAAACAAATTTTGTCTTGCTTGAGACAGTTTAT-T-TTGAAACAAAAAAAAATCTTT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAATTT-TCTCTTGAAAC---AAAAAATCTTT
*
962722 GA-ATAT
62 GAGATCT
* * *
962728 ATTTCTCTTGAAACAAATTTTGTCTCCCTTGAGAC-AGTTTCTCTTGAAACAAAAAATCTTTTAG
1 -TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAATTTTCTCTTGAAACAAAAAATCTTTGAG
* *
962792 GTCG
65 ATCT
* * * ***
962796 TTTCCCTTGAAACGAGTTTTGTCTCTCTTGAGACAATTTTC-CTTGAAAC-ACTGATCTTTGAGA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAATTTTCTCTTGAAACAAAAAATCTTTGAGA
962859 TCT
66 TCT
* * * *
962862 TTTCCCTTG-AACTAAATTTTGTCTCCCTAT-AGACAA-TTCCTCTTGAAGCACAAAACCTTTGA
1 TTTCCCTTGAAAC-AAATTTTGTCTCCCT-TGAGACAATTTTCTCTTGAAACAAAAAATCTTTGA
962924 TTGTGTTTTC
Statistics
Matches: 208, Mismatches: 43, Indels: 33
0.73 0.15 0.12
Matches are distributed among these distances:
65 6 0.03
66 45 0.22
67 58 0.28
68 7 0.03
69 4 0.02
70 42 0.20
71 3 0.01
72 41 0.20
73 1 0.00
74 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (68 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAATTTTCTCTTGAAACAAAAAATCTTTGAGA
TCT
Done.