Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 72 of 349
Found at i:21154380 original size:14 final size:14
Alignment explanation
Indices: 21154361--21154409 Score: 80
Period size: 14 Copynumber: 3.5 Consensus size: 14
21154351 GAGTTGATTT
21154361 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
21154375 TTGAAAAATAGAAA
1 TTGAAAAACAGAAA
21154389 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
21154403 CTGAAAA
1 TTGAAAA
21154410 TACCTCAGCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.63, C:0.06, G:0.14, T:0.16
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:21154581 original size:163 final size:161
Alignment explanation
Indices: 21154386--21154707 Score: 452
Period size: 163 Copynumber: 2.0 Consensus size: 161
21154376 TGAAAAATAG
*
21154386 AAATTGAAAAACAGAAACTGAAAATACCTCAGCGTGT-CTCGAGGCTCAACTCACCTCTCGCAAT
1 AAATTGAAAAACAGAAACTGAAAATACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCACAAT
* * *
21154450 ATAAGCTTAATTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGT-CCCGAGGCTCAT
65 ATAAG-TTAA--TTTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTACCCAAGGCTCAA
*
21154514 CTCACCTCTCGCAATATGAATTGATTTTTGAAACAT
127 CTCACCTCTCGCAATATG-AGTGATTTTTGAAACAT
* *
21154550 AAATTG-AAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATA
1 AAATTGAAAAACAGAAACTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATA
* * * * * *
21154614 TATGTTGATTTTTTTTGAAAGACAGAAATTGAAGATACCTCAACGTGTGAGCCAATGCTCAACTC
66 TAAGTTAATTTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGT-ACCCAAGGCTCAACTC
21154679 ACCTCTCGCAATATGAGTGATTTTTGAAA
130 ACCTCTCGCAATATGAGTGATTTTTGAAA
21154708 ACAGATATAA
Statistics
Matches: 142, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
160 37 0.26
161 13 0.09
162 29 0.20
163 55 0.39
164 8 0.06
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (161 bp):
AAATTGAAAAACAGAAACTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATA
TAAGTTAATTTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTACCCAAGGCTCAACTCA
CCTCTCGCAATATGAGTGATTTTTGAAACAT
Found at i:21162954 original size:22 final size:22
Alignment explanation
Indices: 21162928--21162972 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
21162918 AATAGATGAA
21162928 TGAATAAATGACAAATAAATGT
1 TGAATAAATGACAAATAAATGT
* *
21162950 TGAATAAATGACGAATGAATGT
1 TGAATAAATGACAAATAAATGT
21162972 T
1 T
21162973 AGTCATGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (22 bp):
TGAATAAATGACAAATAAATGT
Found at i:21166954 original size:27 final size:25
Alignment explanation
Indices: 21166893--21167117 Score: 92
Period size: 22 Copynumber: 9.7 Consensus size: 25
21166883 TAATGTTACC
*
21166893 TATATACATACGTATATATATTAAAA
1 TATATACATA-ATATATATATTAAAA
*
21166919 TATAAACATAATA-ATAGTATTAAAAA
1 TATATACATAATATATA-TATT-AAAA
21166945 GTATATACATAATAT-TA-A--AAAA
1 -TATATACATAATATATATATTAAAA
*
21166967 TATATACAT-A-GTAT-TA--AAAA
1 TATATACATAATATATATATTAAAA
21166987 TATATACATAATATATACATATTAGAAA
1 TATATACATAATATAT--ATATTA-AAA
* *
21167015 -AAATA-ATAATAT-TA-A-AAACAA
1 TATATACATAATATATATATTAA-AA
21167036 CTAT-TA-ATAATACTA-A-A-T-AAA
1 -TATATACATAATA-TATATATTAAAA
*
21167057 TATACACATATATATATATATT-AAA
1 TATATACATA-ATATATATATTAAAA
21167082 -A-A-ACAT-A-ATA-ATATTAAAA
1 TATATACATAATATATATATTAAAA
*
21167101 TATGTACATAATATATA
1 TATATACATAATATATA
21167118 CATATAATAT
Statistics
Matches: 156, Mismatches: 11, Indels: 65
0.67 0.05 0.28
Matches are distributed among these distances:
18 5 0.03
19 7 0.04
20 22 0.14
21 16 0.10
22 30 0.19
23 11 0.07
24 8 0.05
25 15 0.10
26 20 0.13
27 19 0.12
28 3 0.02
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (25 bp):
TATATACATAATATATATATTAAAA
Found at i:21166962 original size:21 final size:20
Alignment explanation
Indices: 21166936--21167000 Score: 103
Period size: 20 Copynumber: 3.1 Consensus size: 20
21166926 ATAATAATAG
21166936 TATTAAAAAGTATATACATAA
1 TATTAAAAA-TATATACATAA
*
21166957 TATTAAAAAATATATACATAG
1 TATT-AAAAATATATACATAA
21166978 TATTAAAAATATATACATAA
1 TATTAAAAATATATACATAA
21166998 TAT
1 TAT
21167001 ATACATATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
20 18 0.44
21 18 0.44
22 5 0.12
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (20 bp):
TATTAAAAATATATACATAA
Found at i:21166987 original size:20 final size:20
Alignment explanation
Indices: 21166932--21166996 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 20
21166922 AAACATAATA
21166932 ATAGTATTAAAAAGTATATAC
1 ATAGTATTAAAAA-TATATAC
*
21166953 ATAATATTAAAAAATATATAC
1 ATAGTATT-AAAAATATATAC
21166974 ATAGTATTAAAAATATATAC
1 ATAGTATTAAAAATATATAC
21166994 ATA
1 ATA
21166997 ATATATACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
20 15 0.37
21 21 0.51
22 5 0.12
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (20 bp):
ATAGTATTAAAAATATATAC
Found at i:21167167 original size:25 final size:25
Alignment explanation
Indices: 21167110--21167196 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 25
21167100 ATATGTACAT
21167110 AATATATACATATAATATAGTTATTAAAA
1 AATATATACA-AT-ATATAG-TATT-AAA
* *
21167139 AATACATACAATATATAGTATTAAG
1 AATATATACAATATATAGTATTAAA
*
21167164 AATATACACAATATATATGGTATTAAA
1 AATATATACAATATATA--GTATTAAA
21167191 AATATA
1 AATATA
21167197 GTATTAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
25 17 0.33
26 4 0.08
27 19 0.37
28 2 0.04
29 9 0.18
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (25 bp):
AATATATACAATATATAGTATTAAA
Found at i:21167789 original size:22 final size:22
Alignment explanation
Indices: 21167736--21167811 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
21167726 ATACTAATGC
21167736 TAATAAATAAT-AAATATAATAA
1 TAAT-AATAATAAAATATAATAA
*
21167758 TAATAGTAATAAAATATAATAGTA
1 TAATAATAATAAAATATAATA--A
*
21167782 TACATAATATTAAAAT-TAA-AA
1 TA-ATAATAATAAAATATAATAA
21167803 TAA-AATAAT
1 TAATAATAAT
21167812 GAGAAAAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
19 5 0.11
20 1 0.02
21 8 0.17
22 14 0.30
23 1 0.02
24 6 0.13
25 11 0.24
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (22 bp):
TAATAATAATAAAATATAATAA
Found at i:21173268 original size:18 final size:17
Alignment explanation
Indices: 21173229--21173270 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
21173219 CAAATTGGAC
21173229 CGTGTGGGTCATACGAG
1 CGTGTGGGTCATACGAG
* *
21173246 TGTGTGGGTCTATACGGG
1 CGTGTGGGTC-ATACGAG
21173264 CGTGTGG
1 CGTGTGG
21173271 AATTTGGGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.12, C:0.14, G:0.45, T:0.29
Consensus pattern (17 bp):
CGTGTGGGTCATACGAG
Found at i:21186176 original size:134 final size:135
Alignment explanation
Indices: 21185949--21186227 Score: 357
Period size: 134 Copynumber: 2.1 Consensus size: 135
21185939 AGGATCATGG
*
21185949 CTTCAGTTCATTGATTTTACAATCATGAACACTTCATTAAGAATTCACCGATTTACGATCGCAAC
1 CTTCAGTTCATTGATTTTACAATCATGAACACTTCATTAAGAATTCACCAATTTACGATCGCAAC
* * * *
21186014 TCTACTTAACTAGTTTGCTAATTTACGATCACAACTGTCACTTTTAAAACTCGCTGATTTAAAAT
66 TCCACTTAACTAGTTCGCTAATTTACGATCACAACTGTCACTTTTAAAACTCACTCATTTAAAAT
*
21186079 GACGA
131 CACGA
* * * *** *
21186084 CTTCAGTTCATTGA-TTTACGATCTTGAACACTTTATT-AGATATTGGTCAATTTATGATCGCAA
1 CTTCAGTTCATTGATTTTACAATCATGAACACTTCATTAAGA-ATTCACCAATTTACGATCGCAA
* * *
21186147 CTCCACTTAAGC-AGTTCGCTGATTTACGATCACAACTGTCATTTTTAAAACTCACTCATTTACA
65 CTCCACTTAA-CTAGTTCGCTAATTTACGATCACAACTGTCACTTTTAAAACTCACTCATTTAAA
*
21186211 ATCACGG
129 ATCACGA
*
21186218 CTTCAATTCA
1 CTTCAGTTCA
21186228 CTAATTTATG
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
133 3 0.02
134 106 0.85
135 15 0.12
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (135 bp):
CTTCAGTTCATTGATTTTACAATCATGAACACTTCATTAAGAATTCACCAATTTACGATCGCAAC
TCCACTTAACTAGTTCGCTAATTTACGATCACAACTGTCACTTTTAAAACTCACTCATTTAAAAT
CACGA
Found at i:21186333 original size:98 final size:98
Alignment explanation
Indices: 21186132--21186325 Score: 259
Period size: 98 Copynumber: 2.0 Consensus size: 98
21186122 GATATTGGTC
* * * *
21186132 AATTTATGATCGCAACTCCACTTAAGCAGTTCGCTGATTTACGATCACAACTGTCATTTTTAAAA
1 AATTTATGATCGCAACTCCACTTAAGCAGTTCGATAATCTACGATCACAACTATCATTTTTAAAA
21186197 CTCACTCATTTACAATCACGGCTTCAATTCACT
66 CTCACTCATTTACAATCACGGCTTCAATTCACT
* *
21186230 AATTTATGATCGCAACTCCACTTATA-TAGTTC-ATAAATCTACGATCAGAACTATCATTTTTAA
1 AATTTATGATCGCAACTCCACTTA-AGCAGTTCGAT-AATCTACGATCACAACTATCATTTTTAA
* * *
21186293 AGCTTACTGATTTACAATC-CTGGCTTCAATTCA
64 AACTCACTCATTTACAATCAC-GGCTTCAATTCA
21186326 TTGATTTACG
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
97 2 0.02
98 81 0.96
99 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (98 bp):
AATTTATGATCGCAACTCCACTTAAGCAGTTCGATAATCTACGATCACAACTATCATTTTTAAAA
CTCACTCATTTACAATCACGGCTTCAATTCACT
Found at i:21186914 original size:133 final size:134
Alignment explanation
Indices: 21186704--21187062 Score: 465
Period size: 133 Copynumber: 2.7 Consensus size: 134
21186694 CATGGTCTGC
* * ** * *
21186704 TGATATACGATCACAACTGTCAATTTTAATGCTTGTTGATTTACGATCA-AGACTTCAGTTCATT
1 TGATTTACAATCACAACTGTCTTTTTTAAAGCTCGTTGATTTACGATCACA-ACTTCAGTTCATT
*
21186768 GATTTACGATCATGAACACTTCATTAAGAGTTTGCCGATTTACAATCCCAACTCCACTTAAATAG
65 GATTTACGATCATGAACACTTCATTAAGAGTTTGCCGATTTACAATCACAACTCCACTTAAATAG
21186833 TTCGT
130 TTCGT
* *
21186838 TGATTTACAGTCACAACT-T-TATTTTTAAAGCTCGTTGGTTTACGATCACAACTTCAGTTCATT
1 TGATTTACAATCACAACTGTCT-TTTTTAAAGCTCGTTGATTTACGATCACAACTTCAGTTCATT
* * * *
21186901 GATTTACGGTCATGAACACTTTATTAAGAGTTTGCCGATTTACAATCACAAGTCTACTTAAATAG
65 GATTTACGATCATGAACACTTCATTAAGAGTTTGCCGATTTACAATCACAACTCCACTTAAATAG
21186966 TTCGT
130 TTCGT
* ** * * *
21186971 TGATTTTCAATCACAACTGTCTTTTTTAAAGCTCACTGATTTACAATCACAACTTCAGATAATTG
1 TGATTTACAATCACAACTGTCTTTTTTAAAGCTCGTTGATTTACGATCACAACTTCAGTTCATTG
* * *
21187036 ATTTATGATTATG-ACGATTTCATTAAG
66 ATTTACGATCATGAAC-ACTTCATTAAG
21187063 GATTTTAACA
Statistics
Matches: 194, Mismatches: 26, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
133 120 0.62
134 73 0.38
135 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (134 bp):
TGATTTACAATCACAACTGTCTTTTTTAAAGCTCGTTGATTTACGATCACAACTTCAGTTCATTG
ATTTACGATCATGAACACTTCATTAAGAGTTTGCCGATTTACAATCACAACTCCACTTAAATAGT
TCGT
Found at i:21188380 original size:16 final size:16
Alignment explanation
Indices: 21188359--21188391 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21188349 TTTTAAACAC
21188359 ATATAATTAAATATAA
1 ATATAATTAAATATAA
*
21188375 ATATAATTATATATAA
1 ATATAATTAAATATAA
21188391 A
1 A
21188392 CACATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAATTAAATATAA
Found at i:21189412 original size:30 final size:31
Alignment explanation
Indices: 21189355--21189412 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
21189345 TAACGAAGAG
21189355 TGACCAAAATAGAAATAATCTAAAACGTAAA
1 TGACCAAAATAGAAATAATCTAAAACGTAAA
*
21189386 TGACCAGAATAGAAA-AAT-TCAAAACGT
1 TGACCAAAATAGAAATAATCT-AAAACGT
21189413 TAGTGACTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 10 0.40
31 14 0.56
ACGTcount: A:0.55, C:0.14, G:0.12, T:0.19
Consensus pattern (31 bp):
TGACCAAAATAGAAATAATCTAAAACGTAAA
Found at i:21192741 original size:15 final size:15
Alignment explanation
Indices: 21192721--21192753 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
21192711 TTGGATCACC
21192721 TTTAAAA-CATTTAGT
1 TTTAAAATCA-TTAGT
21192736 TTTAAAATCATTAGT
1 TTTAAAATCATTAGT
21192751 TTT
1 TTT
21192754 GGTCCACGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (15 bp):
TTTAAAATCATTAGT
Found at i:21193786 original size:24 final size:24
Alignment explanation
Indices: 21193741--21193787 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
21193731 ATATTAAAAG
*
21193741 ATATATATATAAAATGTATACATA
1 ATATATATATAAAATATATACATA
*
21193765 ATATA-ATATTAAAATATTTACAT
1 ATATATATA-TAAAATATATACAT
21193788 GGTATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATATATATAAAATATATACATA
Found at i:21194389 original size:39 final size:38
Alignment explanation
Indices: 21194296--21194445 Score: 185
Period size: 39 Copynumber: 3.9 Consensus size: 38
21194286 ATTCTACTCC
* * *
21194296 TCCCATGCTACTTTGTTTTATTATTAATCAAAAAC-ACT
1 TCCCATACTATTTTGTTTTATTATTAAT-TAAAACTACT
* * * * *
21194334 CCCCATGCTTTTTTGTTTTATTGTTAATTAAAACTATTT
1 TCCCATACTATTTTGTTTTATTATTAATTAAAACTA-CT
*
21194373 TCCCATACTATTTTGTTTTATTGTTAATTAAAACTACT
1 TCCCATACTATTTTGTTTTATTATTAATTAAAACTACT
21194411 TCCTCATACTATTTTGTTTTATTATTAATTAAAAC
1 TCC-CATACTATTTTGTTTTATTATTAATTAAAAC
21194446 CATACTTTAT
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
37 5 0.05
38 29 0.30
39 64 0.65
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (38 bp):
TCCCATACTATTTTGTTTTATTATTAATTAAAACTACT
Found at i:21194394 original size:77 final size:78
Alignment explanation
Indices: 21194296--21194445 Score: 205
Period size: 78 Copynumber: 1.9 Consensus size: 78
21194286 ATTCTACTCC
* * * *
21194296 TCCCATGCTACTTTGTTTTATTATTAATCAAAAAC-AC-TCCCCATGCTTTTTTGTTTTATTGTT
1 TCCCATACTACTTTGTTTTATTATTAAT-AAAAACTACTTCCCCATACTATTTTGTTTTATTATT
21194359 AATTAAAACTATTT
65 AATTAAAACTATTT
* * * *
21194373 TCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTTCCTCATACTATTTTGTTTTATTATTA
1 TCCCATACTACTTTGTTTTATTATTAATAAAAACTACTTCCCCATACTATTTTGTTTTATTATTA
21194438 ATTAAAAC
66 ATTAAAAC
21194446 CATACTTTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
76 5 0.08
77 27 0.43
78 31 0.49
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (78 bp):
TCCCATACTACTTTGTTTTATTATTAATAAAAACTACTTCCCCATACTATTTTGTTTTATTATTA
ATTAAAACTATTT
Found at i:21195726 original size:45 final size:45
Alignment explanation
Indices: 21195659--21195744 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
21195649 CGATATCTGC
* *
21195659 TATCTTTGATCTGCCCCTCGTCTACTACAGAGACGCCAAATCTAT
1 TATCTTCGATCTGCCCCTCGTCTAATACAGAGACGCCAAATCTAT
21195704 TATCTTCGATCTGCTCCC-CGTCTAATACAGAGACGCCAAAT
1 TATCTTCGATCTGC-CCCTCGTCTAATACAGAGACGCCAAAT
21195745 TTGCTTCTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
45 35 0.92
46 3 0.08
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (45 bp):
TATCTTCGATCTGCCCCTCGTCTAATACAGAGACGCCAAATCTAT
Found at i:21196271 original size:210 final size:210
Alignment explanation
Indices: 21195958--21196381 Score: 672
Period size: 210 Copynumber: 2.0 Consensus size: 210
21195948 GATGCCAAAC
* *
21195958 CATCTTGGATCCGCTTCAGCATTAACATCCGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCA
1 CATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCAAGATCTGCTATGTGTCTGCTCTCCATCA
*
21196023 AAGTGAAGATGCCAAACTTTGATTCGTTCTCTGACAATACAGAGACGAAAAATCATCTTAGATTT
66 AAGTGAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGAAAAATCATCTTAGATTT
* *
21196088 GCTTCATCGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGTTCCCTGCCGAATACAG
131 GCTTCATCGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATAAAG
21196153 AGAGATAAGATCTGT
196 AGAGATAAGATCTGT
* * * * * * *
21196168 CATCTTGGATCTGCTTTAGCGTAAACATCTGAGGGTAAGATCTGCTATGTGTCTGACT-TCCATT
1 CATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCAAGATCTGCTATGTGTCTG-CTCTCCATC
* * *
21196232 AAAGTGGAA-ATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGAT
65 AAAGT-GAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGAAAAATCATCTTAGAT
*
21196296 TTGCTTCATCGAAAACACGTGAAGGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATAA
129 TTGCTTCATCGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATAA
21196361 AGAGAGATAAGATCTGT
194 AGAGAGATAAGATCTGT
21196378 CATC
1 CATC
21196382 AAAGTGAAAT
Statistics
Matches: 196, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
210 191 0.97
211 5 0.03
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (210 bp):
CATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCAAGATCTGCTATGTGTCTGCTCTCCATCA
AAGTGAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGAAAAATCATCTTAGATTT
GCTTCATCGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATAAAG
AGAGATAAGATCTGT
Found at i:21196461 original size:147 final size:150
Alignment explanation
Indices: 21196232--21196528 Score: 528
Period size: 147 Copynumber: 2.0 Consensus size: 150
21196222 GACTTCCATT
21196232 AAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
1 AAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
* * *
21196297 TGCTTCATCGAAAACACGTGAAGGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATAAA
66 TGCTTCATCGAAAACACGTGAAAGACAAATCAACTATATCTTCGATCTGCTCCCTGCCGAATAAA
21196362 GAGAGATAAGATCTGTCATC
131 GAGAGATAAGATCTGTCATC
21196382 AAAGT-GAAATGCCAGACTTCGA-TT-TTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
1 AAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
* *
21196444 TGCTTCATCGTAAACACGTGAAAGACAAATCAACTATATCTTCGATCTGCTCCCTGCCGAATACA
66 TGCTTCATCGAAAACACGTGAAAGACAAATCAACTATATCTTCGATCTGCTCCCTGCCGAATAAA
21196509 GAGAGATAAGATCTGTCATC
131 GAGAGATAAGATCTGTCATC
21196529 TTGGATCTGC
Statistics
Matches: 142, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
147 118 0.83
148 2 0.01
149 17 0.12
150 5 0.04
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (150 bp):
AAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
TGCTTCATCGAAAACACGTGAAAGACAAATCAACTATATCTTCGATCTGCTCCCTGCCGAATAAA
GAGAGATAAGATCTGTCATC
Found at i:21196685 original size:179 final size:176
Alignment explanation
Indices: 21196379--21196718 Score: 635
Period size: 179 Copynumber: 1.9 Consensus size: 176
21196369 AAGATCTGTC
21196379 ATCAAAGTGAAATGCCAGACTTCGATTTTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
1 ATCAAAGTGAAATGCCAGACTTCGATTTTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
21196444 TGCTTCATCGTAAACACGTGAAAGACAAATCAACTATATCTTCGATCTGCTCCCTGCCGAATACA
66 TGCTTCATCGTAAACACGTGAAAGACAAATCAACTATATCTTCGATCTGCTCCCTGCCGAATACA
21196509 GAGAGATAAGATCTGTCATCTTGGATCTGCTATGTGTCTGCCTTCT
131 GAGAGATAAGATCTGTCATCTTGGATCTGCTATGTGTCTGCCTTCT
21196555 ATCAAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAG
1 ATCAAAGT-GAAATGCCAGACTTCGA-TT-TTCTCTGACAATACAGAGACGACAAATCATCTTAG
* *
21196620 ATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAAT
63 ATTTGCTTCATCGTAAACACGTGAAAGACAAATCAACTATATCTTCGATCTGCTCCCTGCCGAAT
21196685 ACAGAGAGATAAGATCTGTCATCTTGGATCTGCT
128 ACAGAGAGATAAGATCTGTCATCTTGGATCTGCT
21196719 TCAGCGTAAA
Statistics
Matches: 159, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
176 8 0.05
177 17 0.11
178 2 0.01
179 132 0.83
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (176 bp):
ATCAAAGTGAAATGCCAGACTTCGATTTTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
TGCTTCATCGTAAACACGTGAAAGACAAATCAACTATATCTTCGATCTGCTCCCTGCCGAATACA
GAGAGATAAGATCTGTCATCTTGGATCTGCTATGTGTCTGCCTTCT
Found at i:21196727 original size:92 final size:92
Alignment explanation
Indices: 21196432--21196730 Score: 251
Period size: 92 Copynumber: 3.3 Consensus size: 92
21196422 AGACGACAAA
* * *
21196432 TCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGACAAATCAACTATATCTTCGATCTGCTCC
1 TCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGACAAATCAGCTATATCTTCGATCTGCTCC
21196497 CTGCCGAATACAGAGAGATAAGATCTG
66 CTGCCGAATACAGAGAGATAAGATCTG
* * *** * * * ** * * *
21196524 TCATCTTGGATCTGC-T-ATGTGTCTGCCTTCTATCAAAGTGGAAAT--GCCAGA-CTTCGATTT
1 TCATCTTAGATCTGCTTCA-GCGT-AAAC-AC-GTGAAAG-ACAAATCAGCTATATCTTCGATCT
* * * *
21196584 GTTCTCTGAC-AATACAGAGACGACAA-A----
61 GCTCCCTGCCGAATACAGAGA-GATAAGATCTG
* * *
21196611 TCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCC
1 TCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGACAAATCAGCTATATCTTCGATCTGCTCC
21196676 CTGCCGAATACAGAGAGATAAGATCTG
66 CTGCCGAATACAGAGAGATAAGATCTG
*
21196703 TCATCTTGGATCTGCTTCAGCGTAAACA
1 TCATCTTAGATCTGCTTCAGCGTAAACA
21196731 TTTGAAGGTA
Statistics
Matches: 148, Mismatches: 42, Indels: 34
0.66 0.19 0.15
Matches are distributed among these distances:
84 4 0.03
85 5 0.03
86 5 0.03
87 33 0.22
88 14 0.09
89 1 0.01
90 1 0.01
91 14 0.09
92 58 0.39
93 4 0.03
94 5 0.03
95 4 0.03
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (92 bp):
TCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGACAAATCAGCTATATCTTCGATCTGCTCC
CTGCCGAATACAGAGAGATAAGATCTG
Found at i:21197018 original size:205 final size:208
Alignment explanation
Indices: 21196532--21197116 Score: 826
Period size: 205 Copynumber: 2.8 Consensus size: 208
21196522 TGTCATCTTG
*
21196532 GATCTGCTATGTGTCTGCCTTCTATCAAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAAT
1 GATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAAT
*
21196597 ACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATAT
66 ACAGAGACGACAAATCATCTTAGATTTGTTTCATCGTAAACACGTGAAAGCCAAATCAGCTATAT
* * * *
21196662 CTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTA
131 CTTCGATCTGCTCCCTGCCAAACACAGAGAGATAAGATC--TCATCTTGGATCCGCTTCAGCATA
*
21196727 AACATTTGAAGGTAA
194 AACATCTGAAGGTAA
* *
21196742 GATCTGCTATGTGTCTACCTTCCATCAAAGTGGAAATGCCAGACTTCAATTTGTTCTCTGACAAT
1 GATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAAT
* * *
21196807 ACAGAGACAACAAATCATCTTAGATTTGTTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGT
66 ACAGAGACGACAAATCATCTTAGATTTGTTTCATCGTAAACACGTGAAAGCCAAATCAGCTATAT
* * * *
21196872 CTTCGATTTGTTCCTTG-TAAACACA-AG-GATGCCAA-A-C-CATCTTGGATCCGCTTCAGCAT
131 CTTCGATCTGCTCCCTGCCAAACACAGAGAGAT---AAGATCTCATCTTGGATCCGCTTCAGCAT
*
21196931 AAACATCTGAAGGTCA
193 AAACATCTGAAGGTAA
* * *
21196947 GATCTGCTATGTGTCTG-CTCTCCATCAAAGT-GAAGATGCCAAACTTCGATTCGTTCTCTAACA
1 GATCTGCTATGTGTCTGCCT-TCCATCAAAGTGGAA-ATGCCAGACTTCGATTTGTTCTCTGACA
*
21197010 ATACAGAGACGACAAATCATCTTAGATTTGTTTCATCGTAAACACGTGAAAGCCAAATCAACTAT
64 ATACAGAGACGACAAATCATCTTAGATTTGTTTCATCGTAAACACGTGAAAGCCAAATCAGCTAT
* * * *
21197075 ATCTTCGATATGCTCCCCGCCGAATACAGAGAGATAAGATCT
129 ATCTTCGATCTGCTCCCTGCCAAACACAGAGAGATAAGATCT
21197117 GTCATCTTAA
Statistics
Matches: 331, Mismatches: 33, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
204 5 0.02
205 163 0.49
206 6 0.02
207 6 0.02
208 6 0.02
209 6 0.02
210 139 0.42
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (208 bp):
GATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAAT
ACAGAGACGACAAATCATCTTAGATTTGTTTCATCGTAAACACGTGAAAGCCAAATCAGCTATAT
CTTCGATCTGCTCCCTGCCAAACACAGAGAGATAAGATCTCATCTTGGATCCGCTTCAGCATAAA
CATCTGAAGGTAA
Found at i:21205070 original size:13 final size:15
Alignment explanation
Indices: 21205040--21205070 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21205030 TTCCAGATTT
21205040 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
21205055 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
21205070 T
1 T
21205071 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:21205156 original size:15 final size:14
Alignment explanation
Indices: 21205114--21205163 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
21205104 ATAACCTTGA
*
21205114 ATGCAAATGATGTG
1 ATGCAAATGATGAG
21205128 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
21205143 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
21205157 ATGCAAA
1 ATGCAAA
21205164 AAATATCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:21222750 original size:13 final size:15
Alignment explanation
Indices: 21222720--21222750 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21222710 TTCTAGATTT
21222720 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
21222735 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
21222750 T
1 T
21222751 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:21222836 original size:15 final size:14
Alignment explanation
Indices: 21222794--21222843 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
21222784 ATAACCTTGA
*
21222794 ATGCAAATGATGTG
1 ATGCAAATGATGAG
21222808 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
21222823 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
21222837 ATGCAAA
1 ATGCAAA
21222844 AATAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:21224132 original size:26 final size:26
Alignment explanation
Indices: 21224095--21224178 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
21224085 TGATACAAAT
* *
21224095 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
21224121 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
21224147 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
21224173 TGATAA
1 TGATAA
21224179 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:21229341 original size:26 final size:26
Alignment explanation
Indices: 21229302--21229385 Score: 134
Period size: 26 Copynumber: 3.2 Consensus size: 26
21229292 TGATACAAAT
*
21229302 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
21229328 TGATAAT-GGATTAGGTAAATGTTTCA
1 TGATAATAGG-TTAGGTAAATGTTTCA
*
21229354 TGATAATCGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
21229380 TGATAA
1 TGATAA
21229386 GAATTTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
25 2 0.04
26 51 0.93
27 2 0.04
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:21234994 original size:24 final size:24
Alignment explanation
Indices: 21234949--21234995 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
21234939 ATATTAAAAG
*
21234949 ATATATATATAAAATGTATACATA
1 ATATATATATAAAATATATACATA
*
21234973 ATATA-ATATTAAAATATTTACAT
1 ATATATATA-TAAAATATATACAT
21234996 GGTATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATATATATAAAATATATACATA
Found at i:21235594 original size:39 final size:38
Alignment explanation
Indices: 21235503--21235657 Score: 195
Period size: 39 Copynumber: 4.0 Consensus size: 38
21235493 ATTCCACTCC
* * * *
21235503 CCCCATGCTACTTTGTTTTATTATTAATCAAAAAC-ACT
1 CCCCATACTATTTTGTTTTATTATTAAT-TAAAACTATT
* *
21235541 CCCCATGCTATTTTGTTTTATTGTTAATTAAAACTATTT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTA-TT
*
21235580 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTA-TT
* *
21235619 CCTCATACTATTTTGTTTTATTATTAATTAAAACCATT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
21235657 C
1 C
21235658 TTTATTTTCT
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
37 5 0.05
38 30 0.28
39 71 0.67
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.47
Consensus pattern (38 bp):
CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
Found at i:21235696 original size:20 final size:19
Alignment explanation
Indices: 21235671--21235709 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21235661 ATTTTCTTTT
*
21235671 CTTTTTATCATAAAAAAAAC
1 CTTTTT-TCAAAAAAAAAAC
*
21235691 CTTTTTTTAAAAAAAAAAC
1 CTTTTTTCAAAAAAAAAAC
21235710 AACAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (19 bp):
CTTTTTTCAAAAAAAAAAC
Found at i:21236598 original size:24 final size:23
Alignment explanation
Indices: 21236563--21236607 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
21236553 GTAGTTCTAA
21236563 TTTGGGCTGGTTTTAGGTATTGGG
1 TTTGGGCTGG-TTTAGGTATTGGG
*
21236587 TTTGGG-TAGGTTTAGTTATTG
1 TTTGGGCT-GGTTTAGGTATTG
21236608 TAATTGGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.11, C:0.02, G:0.38, T:0.49
Consensus pattern (23 bp):
TTTGGGCTGGTTTAGGTATTGGG
Found at i:21239044 original size:23 final size:25
Alignment explanation
Indices: 21239017--21239065 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
21239007 GTTAGTTTGA
21239017 TTAAATAA-T-ATTAT-ATTGAAATT
1 TTAAATAATTAATTATAATT-AAATT
21239040 TTAAATAATTAATTATAATTAAATT
1 TTAAATAATTAATTATAATTAAATT
21239065 T
1 T
21239066 ATGTTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 8 0.35
24 1 0.04
25 11 0.48
26 3 0.13
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
TTAAATAATTAATTATAATTAAATT
Found at i:21249605 original size:22 final size:21
Alignment explanation
Indices: 21249575--21249629 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
21249565 CATGGATACG
* * *
21249575 AAATTTAATTTCAATTTTAGTA
1 AAATATAATTTCAATTTCA-AA
*
21249597 AAATATAATTTTGAATTTCAAA
1 AAATATAA-TTTCAATTTCAAA
21249619 AAATATAATTT
1 AAATATAATTT
21249630 TTTTAATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 3 0.11
22 16 0.57
23 9 0.32
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (21 bp):
AAATATAATTTCAATTTCAAA
Found at i:21250102 original size:14 final size:14
Alignment explanation
Indices: 21250082--21250123 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
21250072 AAAGTATTTT
21250082 TTTTAATAATTT-A
1 TTTTAATAATTTAA
21250095 TCTTTAAT-ATTTAA
1 T-TTTAATAATTTAA
21250109 TTTTAATAATATTAA
1 TTTTAATAAT-TTAA
21250124 AATATTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.44
14 10 0.40
15 4 0.16
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTAATAATTTAA
Found at i:21252874 original size:22 final size:20
Alignment explanation
Indices: 21252848--21252892 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
21252838 ATTTTGGAGT
21252848 TTTAATTCTCTATACATTTTAA
1 TTTAATTCTCT-TAC-TTTTAA
*
21252870 TTTAATTTTCTTACTTTTAA
1 TTTAATTCTCTTACTTTTAA
21252890 TTT
1 TTT
21252893 CTGCTCTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 3 0.14
22 10 0.45
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAATTCTCTTACTTTTAA
Found at i:21256573 original size:72 final size:70
Alignment explanation
Indices: 21256431--21256623 Score: 248
Period size: 72 Copynumber: 2.7 Consensus size: 70
21256421 AAGTAGTGTC
* * *
21256431 AAATTTAAATATTTAAAAAGTAAAA-G-AAT-AATAAATAAATAAATAGATAAAACAAATATACA
1 AAATTT-AAGATTT-AAAAGTAAAAGGAAATAAATAAATAAATAAATCGATAAAACAAATATAAA
*
21256493 TAATATT
64 TAAGATT
21256500 AAATTTAAGATTTAAGAAGTAAAAGGACAATAAATAAATAAATAAATCGATAAAACAAATATAAA
1 AAATTTAAGATTTAA-AAGTAAAAGGA-AATAAATAAATAAATAAATCGATAAAACAAATATAAA
21256565 TAAGATT
64 TAAGATT
* *
21256572 AAATTTAAGTGTTTTAAAAGTAAAAGAATAATAAATAAATAAATAAATCGAT
1 AAATTTAA--GATTTAAAAGTAAAAGGA-AATAAATAAATAAATAAATCGAT
21256624 TAAATTTAAG
Statistics
Matches: 110, Mismatches: 7, Indels: 10
0.87 0.06 0.08
Matches are distributed among these distances:
67 2 0.02
68 14 0.13
69 7 0.06
71 3 0.03
72 45 0.41
73 33 0.30
74 6 0.05
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (70 bp):
AAATTTAAGATTTAAAAGTAAAAGGAAATAAATAAATAAATAAATCGATAAAACAAATATAAATA
AGATT
Found at i:21256625 original size:53 final size:53
Alignment explanation
Indices: 21256552--21256672 Score: 174
Period size: 53 Copynumber: 2.3 Consensus size: 53
21256542 TAAATCGATA
* **
21256552 AAACAAAT--ATAAATAAGATTAAATTTAAGTGTTTTAAAAGTAAAAGAATAAT
1 AAACAAATAAATAAAT-CGATTAAATTTAAGTGTTAAAAAAGTAAAAGAATAAT
*
21256604 AAATAAATAAATAAATCGATTAAATTTAAGTGTTAAAAAAGTAAAAGAATAAT
1 AAACAAATAAATAAATCGATTAAATTTAAGTGTTAAAAAAGTAAAAGAATAAT
*
21256657 AAACAAATAGATAAAT
1 AAACAAATAAATAAAT
21256673 AGATAAAACA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
52 7 0.11
53 48 0.79
54 6 0.10
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (53 bp):
AAACAAATAAATAAATCGATTAAATTTAAGTGTTAAAAAAGTAAAAGAATAAT
Found at i:21257927 original size:18 final size:18
Alignment explanation
Indices: 21257904--21257940 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21257894 TTATTATTTA
*
21257904 TTTTTTTT-TATTTTGGT
1 TTTTTTTTCTATTTGGGT
21257921 TTTTTTTTCTATTTGGGT
1 TTTTTTTTCTATTTGGGT
21257939 TT
1 TT
21257941 CTGTTTGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.05, C:0.03, G:0.14, T:0.78
Consensus pattern (18 bp):
TTTTTTTTCTATTTGGGT
Found at i:21258176 original size:44 final size:44
Alignment explanation
Indices: 21258127--21258530 Score: 309
Period size: 44 Copynumber: 9.1 Consensus size: 44
21258117 AAATGTATAG
* * * *
21258127 GATTTGTTGTTTCAATCTACTCCACTACAACTTTAGGGATATTA
1 GATTTGTTGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
* * * * *
21258171 GATTTGTAGCTTT-AATTTGCTCCATTGCAACTTCAGGGCA-ATGA
1 GATTTGTTG-TTTCAATCTACTCCACTGCAACTTCAGGG-AGATAA
* * * *
21258215 GACTCGTAT-CTTCAATCTACTCCACTGCAACTTCAGGGAGATGA
1 GATTTGT-TGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
* ***
21258259 GATTGGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
1 GATTTGTTGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
* * ** * * * *
21258303 GATTTG-TGACTTCAATCTATTTTACTACAACTTTAGAGAGACAA
1 GATTTGTTG-TTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
* * * * * * *
21258347 TATTTGCTATCATCAATCTACTCTACTACAACTTCAGAGAGATAA
1 GATTTGTTGT-TTCAATCTACTCCACTGCAACTTCAGGGAGATAA
* * *
21258392 GATTTGTGGCTTT-AATCTGCTCCACTGCAACTTCAGAGAGATAA
1 GATTTGTTG-TTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
*
21258436 GATTTGCTAT-TTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 GATTTG-T-TGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
* * * *
21258481 GATTTGTGGCTTT-AATCTACTCCACTACAATTTTAGGGAGATAA
1 GATTTGTTG-TTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
*
21258525 TATTTG
1 GATTTG
21258531 CCACGATAAC
Statistics
Matches: 293, Mismatches: 52, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
43 3 0.01
44 209 0.71
45 80 0.27
46 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
GATTTGTTGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
Found at i:21258389 original size:89 final size:89
Alignment explanation
Indices: 21258127--21258531 Score: 377
Period size: 89 Copynumber: 4.6 Consensus size: 89
21258117 AAATGTATAG
* * * * * * * * * *
21258127 GATTTGTTG-TTTCAATCTACTCCACTACAACTTTAGGGATATTAGATTTG-TAGCTTTAATTTG
1 GATTTGTGGCTTT-AATCTACTCCACTACAACTTTAGAGAGATAATATTTGCTATCATCAATCTA
* *
21258190 CTCCATTGCAACTTCAGGGCA-ATGA
65 CTCCACTGCAACTTCAGGG-AGATAA
* * ** * * * * * * * * *
21258215 GACTCGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATGAGA-TTGGTAACTTCAATCTAC
1 GATTTGTGGCTTTAATCTACTCCACTACAACTTTAGAGAGATAATATTTGCTATCATCAATCTAC
21258279 TCCACTGCAACTTCAGGGAGATAA
66 TCCACTGCAACTTCAGGGAGATAA
* * * ** *
21258303 GATTTGTGACTTCAATCTATTTTACTACAACTTTAGAGAGACAATATTTGCTATCATCAATCTAC
1 GATTTGTGGCTTTAATCTACTCCACTACAACTTTAGAGAGATAATATTTGCTATCATCAATCTAC
* * *
21258368 TCTACTACAACTTCAGAGAGATAA
66 TCCACTGCAACTTCAGGGAGATAA
* * * * ** *
21258392 GATTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATTTTCAATCTGC
1 GATTTGTGGCTTTAATCTACTCCACTACAACTTTAGAGAGATAATATTTGCTATCATCAATCTAC
21258457 TCCACTGCAACTTCAGGGAGATAA
66 TCCACTGCAACTTCAGGGAGATAA
* *
21258481 GATTTGTGGCTTTAATCTACTCCACTACAATTTTAGGGAGATAATATTTGC
1 GATTTGTGGCTTTAATCTACTCCACTACAACTTTAGAGAGATAATATTTGC
21258532 CACGATAACT
Statistics
Matches: 257, Mismatches: 56, Indels: 7
0.80 0.17 0.02
Matches are distributed among these distances:
87 4 0.02
88 97 0.38
89 156 0.61
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (89 bp):
GATTTGTGGCTTTAATCTACTCCACTACAACTTTAGAGAGATAATATTTGCTATCATCAATCTAC
TCCACTGCAACTTCAGGGAGATAA
Found at i:21258498 original size:133 final size:131
Alignment explanation
Indices: 21258127--21258530 Score: 382
Period size: 133 Copynumber: 3.0 Consensus size: 131
21258117 AAATGTATAG
* * * * * *
21258127 GATTTGTTG-TTTCAATCTACTCCACTACAACTTTAGGGATATTAGATTTGTAGCTTT-AATTTG
1 GATTTGTAGCTTT-AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA--TTTCAATCTG
* * * * *
21258190 CTCCATTGCAACTTCAGGGCA-ATGAGACTCGTATCTTCAATCTACTCCACTGCAACTTCAGGGA
63 CTCCACTGCAACTTCAGGG-AGATAAGATTTGTATCTTCAATCTACTCCACTACAACTTCAGGGA
*
21258254 GATGA
127 GATAA
* * * * **
21258259 GATTGGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTGACTTCAATCTATT
1 GATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-ATTTCAATCTGCT
** * * * * * * * *
21258324 TTACTACAACTTTAGAGAGACAATATTTGCTATCATCAATCTACTCTACTACAACTTCAGAGAGA
65 CCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTACTCCACTACAACTTCAGGGAGA
21258389 TAA
129 TAA
* * *
21258392 GATTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATTTTCAATCTGC
1 GATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TA-TTTCAATCTGC
** * * *
21258457 TCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTACTCCACTACAATTTTAGGGAGA
64 TCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTACTCCACTACAACTTCAGGGAGA
21258522 TAA
129 TAA
*
21258525 TATTTG
1 GATTTG
21258531 CCACGATAAC
Statistics
Matches: 212, Mismatches: 53, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
131 3 0.01
132 61 0.29
133 116 0.55
134 32 0.15
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (131 bp):
GATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATTTCAATCTGCTC
CACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTACTCCACTACAACTTCAGGGAGATA
A
Found at i:21259119 original size:34 final size:30
Alignment explanation
Indices: 21259058--21259125 Score: 91
Period size: 34 Copynumber: 2.1 Consensus size: 30
21259048 GGCCTGAGTA
*
21259058 CAAACCCAAATGCCCAATACCAACAAAACC
1 CAAACCCAAATGCCCAATACAAACAAAACC
21259088 CAAATCCCAAATAGCCCAAATTACAAACAAAACC
1 CAAA-CCCAAAT-GCCC-AA-TACAAACAAAACC
21259122 CAAA
1 CAAA
21259126 ACCTAACCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
30 4 0.12
31 7 0.21
32 4 0.12
33 2 0.06
34 16 0.48
ACGTcount: A:0.53, C:0.35, G:0.03, T:0.09
Consensus pattern (30 bp):
CAAACCCAAATGCCCAATACAAACAAAACC
Found at i:21260346 original size:19 final size:17
Alignment explanation
Indices: 21260301--21260349 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 17
21260291 CTACTAACAC
21260301 AATATATTTATTTCTATT
1 AATATA-TTATTTCTATT
*
21260319 ATTATTATTATTTACTATCT
1 AATA-TATTATTT-CTAT-T
21260339 AATATATTATT
1 AATATATTATT
21260350 ATTATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 9 0.35
19 13 0.50
20 4 0.15
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
AATATATTATTTCTATT
Found at i:21260547 original size:3 final size:3
Alignment explanation
Indices: 21260541--21260866 Score: 91
Period size: 3 Copynumber: 107.7 Consensus size: 3
21260531 TATTTTTACC
* * ** *
21260541 ATT ATT ATT ACT ATTT ATT TTT ACC ATT ATT ATT ACT ATT ATT -TT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
21260586 -TT CTT -TC ATT ATT ATT ACT A-T ATT ATT ATT TTT ATT TTCT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* * * * * * **
21260629 ATT ATC ATT ATT ATT AAT ACT AAT ATT AAT ATT CTT ATT ATT CCT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** * * * *
21260677 ATT ATT -TT -TT ACT GCT AAT ATTT ATT ATC ATT ATT GTT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
* * * *
21260721 ATT -TT -TT ACT ATT ATT ATTT ATT ATT ATT TTT ACT ACT ATT ACTT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT A-TT
* * * *
21260766 A-T ATT CGTT ATT ATC ATT ATT AATT -TT AACTGT ATT -TT CTTT ACT
1 ATT ATT -ATT ATT ATT ATT ATT -ATT ATT -A-T-T ATT ATT -ATT ATT
* * * *
21260811 ATT ATT TTT ATT ATC ATT ATTT ATTT ATTT ATTT ATT ATT ATT GTC A-T
1 ATT ATT ATT ATT ATT ATT A-TT A-TT A-TT A-TT ATT ATT ATT ATT ATT
21260859 ATT ATT AT
1 ATT ATT AT
21260867 ATATGTTTTA
Statistics
Matches: 237, Mismatches: 65, Indels: 42
0.69 0.19 0.12
Matches are distributed among these distances:
2 22 0.09
3 178 0.75
4 34 0.14
5 2 0.01
6 1 0.00
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:21260551 original size:12 final size:12
Alignment explanation
Indices: 21260531--21260583 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
21260521 TTATTATTCG
*
21260531 TATTTTTACCAT
1 TATTATTACCAT
*
21260543 TATTATTACTATT
1 TATTATTACCA-T
*
21260556 TATTTTTACCAT
1 TATTATTACCAT
*
21260568 TATTATTACTAT
1 TATTATTACCAT
21260580 TATT
1 TATT
21260584 TTTTCTTTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 24 0.71
13 10 0.29
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATTACCAT
Found at i:21260559 original size:25 final size:25
Alignment explanation
Indices: 21260531--21260612 Score: 112
Period size: 25 Copynumber: 3.2 Consensus size: 25
21260521 TTATTATTCG
21260531 TATTTTTACCATTATTATTACTATT
1 TATTTTTACCATTATTATTACTATT
21260556 TATTTTTACCATTATTATTACTA-T
1 TATTTTTACCATTATTATTACTATT
*
21260580 TATTTTTTCTTTCATTATTATTACTATAT
1 TATTTTTAC---CATTATTATTACTAT-T
21260609 TATT
1 TATT
21260613 ATTTTTATTT
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
24 9 0.18
25 23 0.45
27 14 0.27
29 5 0.10
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (25 bp):
TATTTTTACCATTATTATTACTATT
Found at i:21260711 original size:13 final size:13
Alignment explanation
Indices: 21260695--21260853 Score: 73
Period size: 13 Copynumber: 12.1 Consensus size: 13
21260685 TTACTGCTAA
* *
21260695 TATTTATTATCAT
1 TATTTACTATTAT
21260708 TATTGTTACTATTAT
1 TATT--TACTATTAT
*
21260723 TTTTTACTATTAT
1 TATTTACTATTAT
*
21260736 TATTTATTATTAT
1 TATTTACTATTAT
*
21260749 T-TTTACTACTAT
1 TATTTACTATTAT
* *
21260761 TACTTA-TATTCGT
1 TATTTACTATT-AT
21260774 TA-TTA-TCATTAT
1 TATTTACT-ATTAT
21260786 TAATTTTAACTGTATT-T
1 T-A-TTT-AC--TATTAT
*
21260803 TCTTTACTATTAT
1 TATTTACTATTAT
* *
21260816 T-TTTATTATCAT
1 TATTTACTATTAT
21260828 TATTTA-T-TTATT
1 TATTTACTATTA-T
*
21260840 TATTTATTATTAT
1 TATTTACTATTAT
21260853 T
1 T
21260854 GTCATATTAT
Statistics
Matches: 114, Mismatches: 15, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
11 2 0.02
12 41 0.36
13 44 0.39
14 5 0.04
15 15 0.13
16 1 0.01
17 2 0.02
18 3 0.03
19 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.64
Consensus pattern (13 bp):
TATTTACTATTAT
Found at i:21260767 original size:25 final size:26
Alignment explanation
Indices: 21260717--21260767 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
21260707 TTATTGTTAC
* *
21260717 TATTATTTTTTACTATTATTATTTAT
1 TATTATTTTTTACTACTATTACTTAT
21260743 TATTA-TTTTTACTACTATTACTTAT
1 TATTATTTTTTACTACTATTACTTAT
21260768 ATTCGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (26 bp):
TATTATTTTTTACTACTATTACTTAT
Found at i:21260787 original size:66 final size:67
Alignment explanation
Indices: 21260663--21260820 Score: 151
Period size: 66 Copynumber: 2.3 Consensus size: 67
21260653 ATTAATATTC
* * * * * *
21260663 TTATTATTCCTATTATTATTTTTTACTGCTAATATTTATTATCATTATTGTTACTATTATTTTTT
1 TTATTATT--TATTATTA-TTTTTACTACTAATACTTATTATCATTATTATCACTATTAATTTTA
21260728 AC-TA
63 ACGTA
* * *
21260732 TTATTATTTATTATTATTTTTACTACTATTACTTA-TATTCGTTATTATCATTATTAATTTTAAC
1 TTATTATTTATTATTATTTTTACTACTAATACTTATTA-TCATTATTATCACTATTAATTTTAAC
21260796 TGTA
65 -GTA
* *
21260800 TT-TTCTTTACTATTATTTTTA
1 TTATTATTTATTATTATTTTTA
21260821 TTATCATTAT
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
65 2 0.03
66 36 0.48
67 25 0.33
68 4 0.05
69 8 0.11
ACGTcount: A:0.27, C:0.09, G:0.03, T:0.61
Consensus pattern (67 bp):
TTATTATTTATTATTATTTTTACTACTAATACTTATTATCATTATTATCACTATTAATTTTAACG
TA
Found at i:21260866 original size:28 final size:32
Alignment explanation
Indices: 21260812--21260879 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 32
21260802 TTCTTTACTA
* *
21260812 TTATTTTTATTATCATTATTTATTTATTTAT-
1 TTATTATTATTATCATTATTTATTTATATATG
*
21260843 TTATTATTATTGTCA-TA-TTA-TTATATATG
1 TTATTATTATTATCATTATTTATTTATATATG
21260872 TT-TTATTA
1 TTATTATTA
21260880 CAAATTGTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 13 0.39
29 5 0.15
30 2 0.06
31 13 0.39
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (32 bp):
TTATTATTATTATCATTATTTATTTATATATG
Found at i:21284848 original size:26 final size:26
Alignment explanation
Indices: 21284819--21284874 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
21284809 TGATACAAAT
21284819 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21284845 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21284871 TGAT
1 TGAT
21284875 TGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21294322 original size:85 final size:83
Alignment explanation
Indices: 21294217--21294470 Score: 337
Period size: 85 Copynumber: 3.0 Consensus size: 83
21294207 AGATAAAAAC
* *
21294217 ATTTGCAGTTACTACTACTTGTTGTGAGTGCACAACATGGTTGTAGATTAAACAAACTGCCATTG
1 ATTTGCAGTTACTACCACTTGTTGTGAGTGCACAACAT-ATTG-AGATTAAACAAACTGCCATTG
21294282 GGTTTATGGACGAGCCACAT
64 GGTTTATGGACGAGCCACAT
* * * *
21294302 ATTTGCAGTTACTACCACTTGTTGTGAGTGCACAACATATTCGCGTATTAAACAAACTGTCACTA
1 ATTTGCAGTTACTACCACTTGTTGTGAGTGCACAACATATT-GAG-ATTAAACAAACTGCCATTG
*
21294367 GGTTTGTGGACGAGCCACAT
64 GGTTTATGGACGAGCCACAT
* * * *
21294387 ATTTGAAGTTACTACCACTTATTGTGAGTGCACAACATATTTGCACATTAAACAAATTGCCATTG
1 ATTTGCAGTTACTACCACTTGTTGTGAGTGCACAACATA-TTG-AGATTAAACAAACTGCCATTG
*
21294452 GGTTTTATGGATGAGCCAC
64 GG-TTTATGGACGAGCCAC
21294471 CACTTGTTTG
Statistics
Matches: 147, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
84 3 0.02
85 128 0.87
86 16 0.11
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (83 bp):
ATTTGCAGTTACTACCACTTGTTGTGAGTGCACAACATATTGAGATTAAACAAACTGCCATTGGG
TTTATGGACGAGCCACAT
Found at i:21296931 original size:41 final size:40
Alignment explanation
Indices: 21296870--21297060 Score: 249
Period size: 41 Copynumber: 4.7 Consensus size: 40
21296860 ATACATTAGT
*
21296870 GGCGTTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGT
1 GGCGTTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGC
21296910 GGCGTTTTTTGGTAAAACGCCGCTAAAAA-AGAGCAATAGC
1 GGCG-TTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGC
* * *
21296950 GGCGTTTTTGGTCAAACGCCGCTAAAAAACGGTGCAATAGC
1 GGCGTTTTTGGTAAAACGCCGCT-AAAAACAGAGCAATAGC
* * *
21296991 GGCATTTTTGGTCAAACGCCGCTAAAAAACAAAGCAATAGC
1 GGCGTTTTTGGTAAAACGCCGCT-AAAAACAGAGCAATAGC
* * *
21297032 GGCATTTTTGCTCAAAACGCCGCAAAAAA
1 GGCGTTTTTGGT-AAAACGCCGCTAAAAA
21297061 GTCATATAAC
Statistics
Matches: 136, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 18 0.13
40 23 0.17
41 86 0.63
42 9 0.07
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.21
Consensus pattern (40 bp):
GGCGTTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGC
Found at i:21296967 original size:80 final size:81
Alignment explanation
Indices: 21296870--21297060 Score: 251
Period size: 80 Copynumber: 2.3 Consensus size: 81
21296860 ATACATTAGT
* * *
21296870 GGCGTTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGTGGCGTTTTTTGGTAAAACGCCGCT-
1 GGCGTTTTTGGTCAAACGCCGCTAAAAACAGAGCAATAGCGGC-ATTTTTGGTAAAACGCCGCTA
*
21296934 AAAAA-AGAGCAATAGC
65 AAAAACAAAGCAATAGC
* * *
21296950 GGCGTTTTTGGTCAAACGCCGCTAAAAAACGGTGCAATAGCGGCATTTTTGGTCAAACGCCGCTA
1 GGCGTTTTTGGTCAAACGCCGCT-AAAAACAGAGCAATAGCGGCATTTTTGGTAAAACGCCGCTA
21297015 AAAAACAAAGCAATAGC
65 AAAAACAAAGCAATAGC
* * *
21297032 GGCATTTTTGCTCAAAACGCCGCAAAAAA
1 GGCGTTTTTGGTC-AAACGCCGCTAAAAA
21297061 GTCATATAAC
Statistics
Matches: 97, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
80 40 0.41
81 22 0.23
82 26 0.27
83 9 0.09
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.21
Consensus pattern (81 bp):
GGCGTTTTTGGTCAAACGCCGCTAAAAACAGAGCAATAGCGGCATTTTTGGTAAAACGCCGCTAA
AAAACAAAGCAATAGC
Found at i:21297096 original size:18 final size:18
Alignment explanation
Indices: 21297075--21297109 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21297065 TATAACCCCT
*
21297075 AAAATCCTAAACTCTAAA
1 AAAATCCTAAACACTAAA
*
21297093 AAAATTCTAAACACTAA
1 AAAATCCTAAACACTAA
21297110 TCTATAACCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAATCCTAAACACTAAA
Found at i:21297151 original size:48 final size:47
Alignment explanation
Indices: 21297065--21297190 Score: 198
Period size: 48 Copynumber: 2.7 Consensus size: 47
21297055 AAAAAAGTCA
* *
21297065 TATAACCCCTAAAATCCTAAACTCTAAAAAAATTCTAAACACTAATC
1 TATAACCCCTAAAATCCTAAACCCTAAAAAAATACTAAACACTAATC
*
21297112 TATAACCCCTAAAACCTCTAAACCCTAAAAAAATACTAAACACTAATC
1 TATAACCCCTAAAATC-CTAAACCCTAAAAAAATACTAAACACTAATC
* *
21297160 TATAACCCTTAAAATCCTAAACCCCAAAAAA
1 TATAACCCCTAAAATCCTAAACCCTAAAAAA
21297191 CATCATATGG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
47 29 0.40
48 43 0.60
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (47 bp):
TATAACCCCTAAAATCCTAAACCCTAAAAAAATACTAAACACTAATC
Found at i:21297306 original size:7 final size:7
Alignment explanation
Indices: 21297295--21297358 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
21297285 TTTATTTTTG
*
21297295 GGTTTAG
1 GGTTTAA
21297302 GGTTTAA
1 GGTTTAA
**
21297309 TATTTAA
1 GGTTTAA
21297316 GGTTTAA
1 GGTTTAA
* *
21297323 GGTCTAT
1 GGTTTAA
*
21297330 GGTTTAG
1 GGTTTAA
*
21297337 GGTTTTAT
1 GG-TTTAA
21297345 GGTTTAA
1 GGTTTAA
21297352 GGTTTAA
1 GGTTTAA
21297359 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:21297347 original size:15 final size:15
Alignment explanation
Indices: 21297311--21297361 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
21297301 GGGTTTAATA
*
21297311 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
21297325 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
21297340 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
21297355 TTAATGG
1 TTTATGG
21297362 CCATGGGTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:21297696 original size:7 final size:7
Alignment explanation
Indices: 21297663--21297732 Score: 52
Period size: 7 Copynumber: 9.9 Consensus size: 7
21297653 AGGGGTAGAA
21297663 GTTTAGG
1 GTTTAGG
*
21297670 GTTTATG
1 GTTTAGG
* *
21297677 TTTTATG
1 GTTTAGG
*
21297684 GCTTAGG
1 GTTTAGG
21297691 GTTTAGGG
1 GTTTA-GG
*
21297699 GTTAAGG
1 GTTTAGG
21297706 G-TTAGGG
1 GTTTA-GG
*
21297713 GTTAAGG
1 GTTTAGG
*
21297720 TTTTAGG
1 GTTTAGG
21297727 GTTTAG
1 GTTTAG
21297733 ATTAATTAGT
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
6 2 0.04
7 38 0.79
8 8 0.17
ACGTcount: A:0.17, C:0.01, G:0.39, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:21297706 original size:15 final size:15
Alignment explanation
Indices: 21297688--21297727 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
21297678 TTTATGGCTT
21297688 AGGGTTTAGGGGTTA
1 AGGGTTTAGGGGTTA
21297703 AGGG-TTAGGGGTTA
1 AGGGTTTAGGGGTTA
*
21297717 AGGTTTTAGGG
1 AGGGTTTAGGG
21297728 TTTAGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (15 bp):
AGGGTTTAGGGGTTA
Found at i:21297710 original size:21 final size:21
Alignment explanation
Indices: 21297637--21297712 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
21297627 TGAACGAGGG
*
21297637 TAAGGGTTAGAGGTTAAGGGG-
1 TAAGGGTTAG-GGTTTAGGGGT
* * * **
21297658 TAGAAGTTTAGGGTTTATGTTT
1 TA-AGGGTTAGGGTTTAGGGGT
* *
21297680 TATGGCTTAGGGTTTAGGGGT
1 TAAGGGTTAGGGTTTAGGGGT
21297701 TAAGGGTTAGGG
1 TAAGGGTTAGGG
21297713 GTTAAGGTTT
Statistics
Matches: 39, Mismatches: 14, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
21 31 0.79
22 8 0.21
ACGTcount: A:0.22, C:0.01, G:0.41, T:0.36
Consensus pattern (21 bp):
TAAGGGTTAGGGTTTAGGGGT
Found at i:21297837 original size:18 final size:16
Alignment explanation
Indices: 21297797--21297838 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
21297787 AGAGATAATA
21297797 TTAAATT-TAATATAT
1 TTAAATTATAATATAT
*
21297812 TAAAATTATGAATATAGT
1 TTAAATTAT-AATATA-T
21297830 TTAAATTAT
1 TTAAATTAT
21297839 TTAAGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 1 0.05
17 6 0.27
18 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (16 bp):
TTAAATTATAATATAT
Found at i:21298341 original size:37 final size:37
Alignment explanation
Indices: 21298289--21298417 Score: 204
Period size: 37 Copynumber: 3.5 Consensus size: 37
21298279 TTCGTTTGTT
* *
21298289 GCCTTCGCCCTGTGCATCGCAACCCATCCCCTCCATC
1 GCCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATC
21298326 GCCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATC
1 GCCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATC
* * *
21298363 GCCTTCACCCCGTGCATCACAACCCATCTCCTCTATC
1 GCCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATC
*
21298400 GCCTTCGCCCTGTGCATC
1 GCCTTCGCCCCGTGCATC
21298418 TGCTGCATAG
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 85 1.00
ACGTcount: A:0.14, C:0.50, G:0.13, T:0.23
Consensus pattern (37 bp):
GCCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATC
Found at i:21298764 original size:16 final size:16
Alignment explanation
Indices: 21298743--21298774 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21298733 AAAATCTTCA
21298743 AAAAAAATTAAAAATT
1 AAAAAAATTAAAAATT
*
21298759 AAAAAACTTAAAAATT
1 AAAAAAATTAAAAATT
21298775 TAATATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAAAATTAAAAATT
Found at i:21299383 original size:14 final size:14
Alignment explanation
Indices: 21299364--21299392 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21299354 AATTGGTATT
21299364 TCTGTGTGTGTGTG
1 TCTGTGTGTGTGTG
21299378 TCTGTGTGTGTGTG
1 TCTGTGTGTGTGTG
21299392 T
1 T
21299393 TTACTTATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.41, T:0.52
Consensus pattern (14 bp):
TCTGTGTGTGTGTG
Found at i:21304730 original size:63 final size:62
Alignment explanation
Indices: 21304624--21304746 Score: 201
Period size: 63 Copynumber: 2.0 Consensus size: 62
21304614 TTTTTTTTAA
*
21304624 ATTTCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCAG
1 ATTTCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGTCATGACCTTTAGCAG
* * *
21304686 ATTTGCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGTCACTAAAGGTCATGATCTTTAGC
1 ATTT-CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGTCATGACCTTTAGC
21304747 GAGTTTATCG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
62 4 0.07
63 52 0.93
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (62 bp):
ATTTCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGTCATGACCTTTAGCAG
Found at i:21304775 original size:42 final size:42
Alignment explanation
Indices: 21304691--21304789 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 42
21304681 AGCAGATTTG
* * * *
21304691 CATGATCTTTAGCGGCGTTTGTGGGAAAAGCGTCACTAAAGGT
1 CATGATCTTTAGC-GAGTTTATCGGAAAAGCGCCACTAAAGGT
* *
21304734 CATGATCTTTAGCGAGTTTATCGGCAAAGCGCCGCTAAAGGT
1 CATGATCTTTAGCGAGTTTATCGGAAAAGCGCCACTAAAGGT
21304776 CATGA-CTTTTAGCG
1 CATGATC-TTTAGCG
21304790 GCATTTTTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
41 1 0.02
42 35 0.71
43 13 0.27
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (42 bp):
CATGATCTTTAGCGAGTTTATCGGAAAAGCGCCACTAAAGGT
Found at i:21307576 original size:8 final size:8
Alignment explanation
Indices: 21307563--21307587 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
21307553 ATGGTTGTGA
21307563 GTTAGTGG
1 GTTAGTGG
21307571 GTTAGTGG
1 GTTAGTGG
21307579 GTTAGTGG
1 GTTAGTGG
21307587 G
1 G
21307588 AGAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.52, T:0.36
Consensus pattern (8 bp):
GTTAGTGG
Found at i:21317222 original size:271 final size:272
Alignment explanation
Indices: 21316738--21317274 Score: 986
Period size: 271 Copynumber: 2.0 Consensus size: 272
21316728 CAATTTGAGT
21316738 AAATTCAAGCACAGAATCAACAAATTCATATGCAAATTTGAAGTCTCATGACTTTTATTTAGCCG
1 AAATTCAAGCACAGAATCAACAAATTCATATGCAAATTTGAAGTCTCATGACTTTTATTTAGCCG
* * * *
21316803 CAATCTTGACCACCAATGAGTTAGGTATTCTTTTTTACGTTCATACGGTTCGAACTTTATTATCT
66 CAACCTTGACCACCAATGACTTAGGTATTCTTTTTTACGTTCATACGGTTCAAACGTTATTATCT
21316868 CGGTAGAATTTGAATTAAAACATGTAATGAATATGTATTTGAACATTAAGTATTTTACTAAGAAT
131 CGGTAGAATTTGAATTAAAACATGTAATGAATATGTATTTGAACATTAAGTATTTTACTAAGAAT
* * *
21316933 ATGTATTTGGACAGTTTTTTTTTGTTTAATGGATTAGGGACATGTAATGAAAATATAAAATATAA
196 ACGTATTTGGACAGTTTTTTTTTGTTTAATGGATTAGGAAAATGTAATGAAAATATAAAATATAA
21316998 AAAAAAAGAAAG
261 AAAAAAAGAAAG
*
21317010 AAATTCAAGCACAGAATCAACAAATTCATATGCAAATTTGAAGTCTCATGACTTTTA-TTAGTCG
1 AAATTCAAGCACAGAATCAACAAATTCATATGCAAATTTGAAGTCTCATGACTTTTATTTAGCCG
*
21317074 CAACCTTGACCACCAATGACTTAGGTATTCTTTTTTACGTTCATATGGTTCAAACGTTATTATCT
66 CAACCTTGACCACCAATGACTTAGGTATTCTTTTTTACGTTCATACGGTTCAAACGTTATTATCT
21317139 CGGTAGAATTTGAATTAAAACATGTAATGAATATGTATTTGAACATTAAGTATTTTACTAAGAAT
131 CGGTAGAATTTGAATTAAAACATGTAATGAATATGTATTTGAACATTAAGTATTTTACTAAGAAT
21317204 ACGTATTTGGACAGTTTTTTTTTGTTTAATGGATTAGGAAAATGTAATGAAAATATAAAATATAA
196 ACGTATTTGGACAGTTTTTTTTTGTTTAATGGATTAGGAAAATGTAATGAAAATATAAAATATAA
21317269 AAAAAA
261 AAAAAA
21317275 TAAGAAAATG
Statistics
Matches: 256, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
271 199 0.78
272 57 0.22
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (272 bp):
AAATTCAAGCACAGAATCAACAAATTCATATGCAAATTTGAAGTCTCATGACTTTTATTTAGCCG
CAACCTTGACCACCAATGACTTAGGTATTCTTTTTTACGTTCATACGGTTCAAACGTTATTATCT
CGGTAGAATTTGAATTAAAACATGTAATGAATATGTATTTGAACATTAAGTATTTTACTAAGAAT
ACGTATTTGGACAGTTTTTTTTTGTTTAATGGATTAGGAAAATGTAATGAAAATATAAAATATAA
AAAAAAAGAAAG
Found at i:21319899 original size:17 final size:17
Alignment explanation
Indices: 21319859--21319901 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
21319849 AAATATTAAA
* *
21319859 TATTAAAAATTTTCATT
1 TATTGAAAATTTCCATT
*
21319876 TA-AGAAAATTTCCATT
1 TATTGAAAATTTCCATT
21319892 TATTGAAAAT
1 TATTGAAAAT
21319902 AGAAATTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (17 bp):
TATTGAAAATTTCCATT
Found at i:21320075 original size:28 final size:30
Alignment explanation
Indices: 21320044--21320100 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
21320034 TGAATTTAGT
* *
21320044 TATTATAC-TTT-AATTTGGTCAATTTTAA
1 TATTATACTTTTCAAATTAGTCAATTTTAA
21320072 TATTATACTTTTCAAATTAGTCAATTTTA
1 TATTATACTTTTCAAATTAGTCAATTTTA
21320101 GTCCTGTGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.32
29 3 0.12
30 14 0.56
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (30 bp):
TATTATACTTTTCAAATTAGTCAATTTTAA
Found at i:21333118 original size:19 final size:19
Alignment explanation
Indices: 21333094--21333151 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
21333084 AATCTTTAAC
21333094 TGAAAATGAATGACCAATT
1 TGAAAATGAATGACCAATT
21333113 TGAAAATGAATG-CCAAATT
1 TGAAAATGAATGACC-AATT
*
21333132 TGAAAATGAATGACAAATT
1 TGAAAATGAATGACCAATT
21333151 T
1 T
21333152 TTCTAAGCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 2 0.06
19 33 0.92
20 1 0.03
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.28
Consensus pattern (19 bp):
TGAAAATGAATGACCAATT
Found at i:21333626 original size:134 final size:132
Alignment explanation
Indices: 21333488--21333747 Score: 301
Period size: 134 Copynumber: 1.9 Consensus size: 132
21333478 TTTGTAAAGA
* * * *
21333488 ATCGATAAATTTAGTT-GAGTATCGATAGAT-TCACAATTTTATTGATACCTTTTTTAGTATCGA
1 ATCGATAAATTT-GTTCAAGTATCAATAG-TGT-ACAATTTTATCGATACCTTTTTCAGTATCGA
* * *
21333551 TACCAAAATGGCATTCT-ATTTTTCAAAGTATTTATCAAGTATTGGTACGGTATCGATACCTTTT
63 TACCAAAATGGCATTCTGA-ATTTCAAAGT-TTTATCAAGTATCGATACGGTATCGATACCTTTT
21333615 GCTTGGT
126 GCTTGGT
* * *
21333622 ATCGATAAATTTTTTCAAGTATCAATAGTGGTACACTTTTATCGATACCTTTTTCGGTATCGATA
1 ATCGATAAATTTGTTCAAGTATCAATAGT-GTACAATTTTATCGATACCTTTTTCAGTATCGATA
* * * * * *
21333687 CGAAATTTGCATTTTGAATTTCAAAGTTTTATCAAGTATCGATACGGTATTGTTACCTTTT
65 CCAAAATGGCATTCTGAATTTCAAAGTTTTATCAAGTATCGATACGGTATCGATACCTTTT
21333748 ATTTAGCATT
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
133 33 0.31
134 71 0.67
135 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (132 bp):
ATCGATAAATTTGTTCAAGTATCAATAGTGTACAATTTTATCGATACCTTTTTCAGTATCGATAC
CAAAATGGCATTCTGAATTTCAAAGTTTTATCAAGTATCGATACGGTATCGATACCTTTTGCTTG
GT
Found at i:21333807 original size:51 final size:51
Alignment explanation
Indices: 21333747--21333849 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
21333737 TGTTACCTTT
* *
21333747 TATTTAGCATTGGTAACATTCCCTTGGTATTGATATTGATGGCTCCAACAA
1 TATTTAGCATTGATAAAATTCCCTTGGTATTGATATTGATGGCTCCAACAA
21333798 TATTTAGCATTGATAAAATTCCCTTGGTATTGATATTGATGGCTCCAACAA
1 TATTTAGCATTGATAAAATTCCCTTGGTATTGATATTGATGGCTCCAACAA
21333849 T
1 T
21333850 CACTAAATTG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (51 bp):
TATTTAGCATTGATAAAATTCCCTTGGTATTGATATTGATGGCTCCAACAA
Found at i:21335380 original size:14 final size:14
Alignment explanation
Indices: 21335361--21335395 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
21335351 ATATGAATAC
21335361 AAAAATTATTTAAT
1 AAAAATTATTTAAT
*
21335375 AAAAA-TATTTATT
1 AAAAATTATTTAAT
21335388 AAAAATTA
1 AAAAATTA
21335396 ATATAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAAATTATTTAAT
Found at i:21340707 original size:3 final size:3
Alignment explanation
Indices: 21340699--21340736 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
21340689 TCCTTTCTCT
21340699 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
21340737 TTTTAAAACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:21346689 original size:46 final size:46
Alignment explanation
Indices: 21346639--21346814 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
21346629 TGGTTGAGCA
21346639 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21346685 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
21346730 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21346778 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21346815 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21346795 original size:93 final size:93
Alignment explanation
Indices: 21346636--21346807 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
21346626 GGATGGTTGA
* * *
21346636 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
21346701 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
21346729 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
21346794 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
21346808 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21355194 original size:31 final size:31
Alignment explanation
Indices: 21355158--21355219 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
21355148 ATGGGAGTAA
21355158 GGTGATAAATTAGAATATGAATTCATGTTGT
1 GGTGATAAATTAGAATATGAATTCATGTTGT
21355189 GGTGATAAATTAGAATATGAATTCATGTTGT
1 GGTGATAAATTAGAATATGAATTCATGTTGT
21355220 ATTTTAAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (31 bp):
GGTGATAAATTAGAATATGAATTCATGTTGT
Found at i:21355360 original size:24 final size:24
Alignment explanation
Indices: 21355339--21355388 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
21355329 CATATTAATT
21355339 TATGTATTTGTTAAATGATTAAGA
1 TATGTATTTGTTAAATGATTAAGA
21355363 TATGTATTTGTTAAATGATTAAGA
1 TATGTATTTGTTAAATGATTAAGA
21355387 TA
1 TA
21355389 AGCAATTCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (24 bp):
TATGTATTTGTTAAATGATTAAGA
Found at i:21359157 original size:24 final size:24
Alignment explanation
Indices: 21359130--21359200 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
21359120 TTGTCAGGAG
*
21359130 AGGATTTATGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
21359154 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
21359178 AGGATTTAGGAGTAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
21359201 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.00, G:0.37, T:0.28
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:21360682 original size:28 final size:27
Alignment explanation
Indices: 21360617--21360701 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
21360607 AGGAAGCGTC
*
21360617 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
21360644 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* *
21360672 CTGGTGACTCTGTCACATTATCTGT-T
1 CTGGTGGCTCTGCCACATTATCTGTAT
21360698 CTGG
1 CTGG
21360702 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.09
27 32 0.60
28 16 0.30
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:21361786 original size:11 final size:10
Alignment explanation
Indices: 21361758--21361791 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
21361748 AGCCTGTAAG
21361758 TATTCTGAAT
1 TATTCTGAAT
*
21361768 TTTTCTGAAT
1 TATTCTGAAT
21361778 ATATTCTGAAT
1 -TATTCTGAAT
21361789 TAT
1 TAT
21361792 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:21366986 original size:24 final size:24
Alignment explanation
Indices: 21366954--21367022 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
21366944 CTGTCAGGAG
21366954 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
21366978 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
21367002 AGGATTTAGGAGCAGATAAGG
1 AGGATTTAGGAGTTGATAAGG
21367023 TAGGAAATCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.26
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:21367036 original size:48 final size:49
Alignment explanation
Indices: 21366954--21367047 Score: 113
Period size: 48 Copynumber: 1.9 Consensus size: 49
21366944 CTGTCAGGAG
** * *
21366954 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGATAGGATCTAGGAGCTGATCAAGGGAT
21367002 AGGATTTAGGAGCAGATAA-GG-TAGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGATAGG--ATCTAGGAGCTGATCAAGG
21367048 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 4 0.10
47 2 0.05
48 29 0.74
49 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.36, T:0.24
Consensus pattern (49 bp):
AGGATTTAGGAGCAGATAAGGGATAGGATCTAGGAGCTGATCAAGGGAT
Found at i:21368470 original size:27 final size:26
Alignment explanation
Indices: 21368440--21368528 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
21368430 AAGGAAGCGT
* *
21368440 TCTGATGGCTATGCCACAATCATCTGA
1 TCTGGTGGCTCTGCCACAAT-ATCTGA
* * *
21368467 TCTGGTGGCTCTCCCACATATTTCTGT
1 TCTGGTGGCTCTGCCACA-ATATCTGA
*
21368494 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-AATATCTG-A
21368522 TCTGGTG
1 TCTGGTG
21368529 ACTTTGTCAC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 40 0.80
28 10 0.20
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACAATATCTGA
Found at i:21368542 original size:27 final size:27
Alignment explanation
Indices: 21368451--21368552 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 27
21368441 CTGATGGCTA
* * * *
21368451 TGCCACAATCATCTGATCTGGTGGCTC
1 TGCCACGATTATCTGTTCTGGTGACTC
* * *
21368478 TCCCAC-ATATTTCTGTTCTGGTGGCTC
1 TGCCACGAT-TATCTGTTCTGGTGACTC
*
21368505 TGCCACGATTATCTGTATCTGGTGACTT
1 TGCCACGATTATCTGT-TCTGGTGACTC
* *
21368533 TGTCAC-ATTATTTGTTCTGG
1 TGCCACGATTATCTGTTCTGG
21368553 CATCCATGCT
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
26 7 0.11
27 39 0.63
28 16 0.26
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.39
Consensus pattern (27 bp):
TGCCACGATTATCTGTTCTGGTGACTC
Found at i:21369728 original size:39 final size:39
Alignment explanation
Indices: 21369684--21369791 Score: 162
Period size: 39 Copynumber: 2.8 Consensus size: 39
21369674 TATGAGATTG
* *
21369684 AAAATATCTGGACATGAGATCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
*
21369723 AAAATATCCGGACATGAGACCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
* * *
21369762 AATATATCCGGACTTGAGGTCCGCAGGCTA
1 AAAATATCCGGACATGAGATCCGCAGGCTA
21369792 CGTGTTGGAA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 62 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.21
Consensus pattern (39 bp):
AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
Found at i:21369807 original size:39 final size:39
Alignment explanation
Indices: 21369683--21369811 Score: 161
Period size: 39 Copynumber: 3.3 Consensus size: 39
21369673 GTATGAGATT
*
21369683 GAAA-ATATCTGGACATGAGATCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGATCCGCAGGCTATATGCTG
* * *
21369721 GAAAAATATCCGGACATGAGACCCGCAGGCTATATGCTA
1 GAAATATATCCGGACATGAGATCCGCAGGCTATATGCTG
* * ** *
21369760 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGTTG
1 GAAATATATCCGGACATGAGATCCGCAGGCTATATGCTG
*
21369799 GAATTATATCCGG
1 GAAATATATCCGG
21369812 GTTAAATCCC
Statistics
Matches: 78, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
38 4 0.05
39 74 0.95
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (39 bp):
GAAATATATCCGGACATGAGATCCGCAGGCTATATGCTG
Found at i:21369885 original size:38 final size:38
Alignment explanation
Indices: 21369782--21369886 Score: 122
Period size: 38 Copynumber: 2.8 Consensus size: 38
21369772 GACTTGAGGT
* * * *
21369782 CCGCAGG-CTACGTGTTGGAATTATATCCGGGTTAAATC
1 CCGCAGGCCTA-GTGCTGGTATTATATCTGGGTCAAATC
* * * *
21369820 CCGCAGGCTTCGTGCTAGTAATATATCTGGGTCAAATC
1 CCGCAGGCCTAGTGCTGGTATTATATCTGGGTCAAATC
21369858 CCGCAGGCCTAGTGCTGGTATTATATCTG
1 CCGCAGGCCTAGTGCTGGTATTATATCTG
21369887 AGTTTAAAGT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
38 53 0.98
39 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.30
Consensus pattern (38 bp):
CCGCAGGCCTAGTGCTGGTATTATATCTGGGTCAAATC
Found at i:21373833 original size:16 final size:16
Alignment explanation
Indices: 21373812--21373879 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
21373802 TTTGGTTCGC
21373812 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
21373828 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
21373843 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
21373860 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
21373876 TGTA
1 TGTA
21373880 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:21373853 original size:32 final size:32
Alignment explanation
Indices: 21373812--21373879 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
21373802 TTTGGTTCGC
21373812 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
21373844 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
21373876 TGTA
1 TGTA
21373880 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:21374203 original size:157 final size:157
Alignment explanation
Indices: 21374009--21374318 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
21373999 CCCTTAGCAT
*
21374009 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
21374074 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
21374139 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
* * * *
21374166 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
21374231 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
21374296 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
21374319 ATATTCTTAT
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:21374315 original size:82 final size:81
Alignment explanation
Indices: 21374072--21374321 Score: 186
Period size: 76 Copynumber: 3.1 Consensus size: 81
21374062 TATTATTATC
* * *
21374072 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTAT-ATTAAAATATAT
21374137 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* * * * *
21374154 AATAATTACCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT-TTAAAT
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATATTAAAA
* * * * *
21374208 TTTGATAAGATT-AT-TAA-TATG
60 TAT-ATAA-TTTAATAAAATTCTT
21374229 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA-TTAAAATATAT
21374294 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
21374311 AATAATTAATA
1 AATAATAAATA
21374322 TTCTTATATG
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 10 0.08
76 21 0.17
77 6 0.05
78 8 0.07
79 8 0.07
80 6 0.05
81 21 0.17
82 20 0.17
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:21374392 original size:157 final size:155
Alignment explanation
Indices: 21374055--21374376 Score: 349
Period size: 157 Copynumber: 2.0 Consensus size: 155
21374045 TTAAATTTTA
* * * *
21374055 ATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * * * * ** *
21374120 TTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTACCAGAAATTTGTTTTGGTAAATT
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
* * * * *
21374185 ATTATTGTTATTGTTATTTAAATTTTG
131 ATAATTATTATTGATATATAAA--TAG
* *
21374212 ATAAGATTATTAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * **
21374277 TTATACTTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT-A
21374342 AATCATAATATATTATATGATACTATAAA-AG
127 AATCATAAT-TATTAT-TGATA-TATAAATAG
21374373 ATAA
1 ATAA
21374377 TTTGAAATAA
Statistics
Matches: 137, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
157 102 0.74
159 4 0.03
160 4 0.03
161 13 0.09
162 5 0.04
163 4 0.03
164 5 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (155 bp):
ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
ATAATTATTATTGATATATAAATAG
Found at i:21375216 original size:13 final size:13
Alignment explanation
Indices: 21375198--21375227 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21375188 CAATCAGCTA
21375198 AATTCAGAAAAAC
1 AATTCAGAAAAAC
*
21375211 AATTCAGAAAAAT
1 AATTCAGAAAAAC
21375224 AATT
1 AATT
21375228 ACATGACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:21378452 original size:27 final size:27
Alignment explanation
Indices: 21378405--21378508 Score: 133
Period size: 27 Copynumber: 3.9 Consensus size: 27
21378395 CGAGGCTGCT
* *
21378405 AGATATTGTGAC-GAAGTCACCAGATAC
1 AGATATTGTGGCAG-AGCCACCAGATAC
21378432 AGATATTGTGGCAGAGCCACCAGA-AC
1 AGATATTGTGGCAGAGCCACCAGATAC
21378458 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAC
*
21378485 AGATAATTGTGGCATAGCCACCAG
1 AGAT-ATTGTGGCAGAGCCACCAG
21378509 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
26 8 0.11
27 59 0.84
28 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGATAC
Found at i:21378641 original size:26 final size:27
Alignment explanation
Indices: 21378612--21378687 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 27
21378602 CAAAATTAAC
21378612 CCTAGGGGTATAATAGTAATTTT-ACA
1 CCTAGGGGTATAATAGTAATTTTCACA
* * *
21378638 CCTAGGGGTATAACAATAATTTTTCATA
1 CCTAGGGGTATAATAGTAA-TTTTCACA
* *
21378666 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
21378688 AGTTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 17 0.41
27 7 0.17
28 17 0.41
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCACA
Found at i:21378685 original size:28 final size:27
Alignment explanation
Indices: 21378614--21378687 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 27
21378604 AAATTAACCC
*
21378614 TAGGGGTATAATAGTAA-TTTTACACC
1 TAGGGGTATAATAGTAATTTTTACACA
* * *
21378640 TAGGGGTATAACAATAATTTTTCATACA
1 TAGGGGTATAATAGTAATTTTT-ACACA
*
21378668 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
21378688 AGTTGCTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 15 0.38
27 4 0.10
28 20 0.51
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (27 bp):
TAGGGGTATAATAGTAATTTTTACACA
Found at i:21380152 original size:26 final size:26
Alignment explanation
Indices: 21380121--21380228 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
21380111 TGAAATGCCC
*
21380121 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
21380147 ATCATGGAACATTTACCTTACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
21380173 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
21380199 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
21380225 ATCA
1 ATCA
21380229 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:21387407 original size:292 final size:293
Alignment explanation
Indices: 21386831--21387579 Score: 1294
Period size: 292 Copynumber: 2.6 Consensus size: 293
21386821 ATGATATAAT
21386831 TTAAAAATAAAACAAGTGACCAAATTGAATTCTAGACAATTCTTCATCAAATTTCAGTCCAAAAA
1 TTAAAAATAAAACAAGTGACCAAATTGAATTCTAGACAATTCTTCATCAAATTTCAGTCCAAAAA
* *
21386896 ACGCCATAGGAGGACCTTGAAGCTGGTTTTTCATATTTTTACTTCAAGTGAATTCAATTCTTACT
66 AAGCCATAGGAGGACCTTGAAGCTGGTTTTTCATATTTTTACTTCAAGTGAATTCAATTCTTGCT
21386961 TTTTCCTTGAAATTTTTATGTTTTTGAGACTTTTAATTTAAAAATAAAAATGGTAAATTAGTGAA
131 TTTTCCTTGAAATTTTTATGTTTTTGAGACTTTTAATTTAAAAATAAAAATGGTAAATTAGTGAA
21387026 AGTAAAAATAAAACAAGTGACCAAATTGAAATTTAGACAAGTCTTCATCAAATTTAGGTATGATA
196 AGTAAAAATAAAACAAGTGACCAAATTGAAATTTAGACAAGTCTTCATCAAATTTAGGTATGATA
21387091 TAATTTAAAAATAAAAATGGTAAATTAGTGAAA
261 TAATTTAAAAATAAAAATGGTAAATTAGTGAAA
* * * *
21387124 TTAAAAATAAAACAAGTGACCAAATTGAATTTTAGAAAATTCTTCATCAATTTTTTTAGTCCAAA
1 TTAAAAATAAAACAAGTGACCAAATTGAATTCTAGACAATTCTTCATCAA--ATTTCAGTCCAAA
* *
21387189 AAAAGTCATAGAAGGACCTTGAAGCTGGTTTTTCATATTTTTACTTCAAGTGAATTCAATTCTTG
64 AAAAGCCATAGGAGGACCTTGAAGCTGGTTTTTCATATTTTTACTTCAAGTGAATTCAATTCTTG
21387254 CTTTTTCCTT-AAATTTTTATGTTTTTGAGACTTTTAATTTAAAAATAAAAATGGTAAATTAGTG
129 CTTTTTCCTTGAAATTTTTATGTTTTTGAGACTTTTAATTTAAAAATAAAAATGGTAAATTAGTG
* *
21387318 -AATTAAAAAT-AAACAAGTGACCAAATT-AAATTCTAGACAATTCTTCATCAAATTTAGGTATG
194 AAAGTAAAAATAAAACAAGTGACCAAATTGAAATT-TAGACAAGTCTTCATCAAATTTAGGTATG
21387380 ATATAATTTAAAAATAAAAATGGTAAATTAGTGAAA
258 ATATAATTTAAAAATAAAAATGGTAAATTAGTGAAA
21387416 TTAAAAATAAAACAAGTGACCAAATTGAATTCTAGACAATTCTTCATCAAATTTCAGTCCAAAAA
1 TTAAAAATAAAACAAGTGACCAAATTGAATTCTAGACAATTCTTCATCAAATTTCAGTCCAAAAA
* *
21387481 ACA-CCATAGGAGGACCTTCAAGCT-TTTTTTCATATTTTTACTTCAAGTGAATTCAATTCTTGC
66 A-AGCCATAGGAGGACCTTGAAGCTGGTTTTTCATATTTTTACTTCAAGTGAATTCAATTCTTGC
* *
21387544 TTTTTCCTTGAATTTTTTTTGTTTTTGAGACTTTTA
130 TTTTTCCTTGAAATTTTTATGTTTTTGAGACTTTTA
21387580 CAATTAGATC
Statistics
Matches: 431, Mismatches: 20, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
289 47 0.11
290 56 0.13
291 6 0.01
292 129 0.30
293 57 0.13
294 54 0.13
295 82 0.19
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (293 bp):
TTAAAAATAAAACAAGTGACCAAATTGAATTCTAGACAATTCTTCATCAAATTTCAGTCCAAAAA
AAGCCATAGGAGGACCTTGAAGCTGGTTTTTCATATTTTTACTTCAAGTGAATTCAATTCTTGCT
TTTTCCTTGAAATTTTTATGTTTTTGAGACTTTTAATTTAAAAATAAAAATGGTAAATTAGTGAA
AGTAAAAATAAAACAAGTGACCAAATTGAAATTTAGACAAGTCTTCATCAAATTTAGGTATGATA
TAATTTAAAAATAAAAATGGTAAATTAGTGAAA
Found at i:21387457 original size:97 final size:97
Alignment explanation
Indices: 21386994--21387469 Score: 385
Period size: 97 Copynumber: 4.9 Consensus size: 97
21386984 TTGAGACTTT
*
21386994 TAATTTAAAAATAAAAATGGTAAATTAGTGAAAGTAAAAATAAAACAAGTGACCAAATTGAAATT
1 TAATTTAAAAATAAAAATGGTAAATTAGTGAAATTAAAAATAAAACAAGTGACCAAATTG-AATT
*
21387059 -TAGACAAGTCTTCATCAAATTTAGGTATGATA
65 CTAGACAATTCTTCATCAAATTTAGGTATGATA
*
21387091 TAATTTAAAAATAAAAATGGTAAATTAGTGAAATTAAAAATAAAACAAGTGACCAAATTGAATTT
1 TAATTTAAAAATAAAAATGGTAAATTAGTGAAATTAAAAATAAAACAAGTGACCAAATTGAATTC
* *** *
21387156 TAGAAAATTCTTCATC-AATTTTTTTA-G-TC
66 TAGACAATTCTTCATCAAATTTAGGTATGATA
* * ** *** *** ***
21387185 CAA---AAAAAGTCATAGAA-GG-ACCTTGAAGCTGGTTTTTCATATTTTTACTTCAAGTG----
1 TAATTTAAAAA-T-A-AAAATGGTAAATT--AG-T-GAAATT-A-A-AAATAAAACAAGTGACCA
* * * * * * * *
21387241 AATTCAATTCTTG-C--TTTTTCCTTAAATTTTTATGTTTTTGAGACTTT
56 AATTGAATTCTAGACAATTCTTCATCAAA--TTTA-G-GTAT--GA--TA
*
21387288 TAATTTAAAAATAAAAATGGTAAATTAGTG-AATTAAAAAT-AAACAAGTGACCAAATTAAATTC
1 TAATTTAAAAATAAAAATGGTAAATTAGTGAAATTAAAAATAAAACAAGTGACCAAATTGAATTC
21387351 TAGACAATTCTTCATCAAATTTAGGTATGATA
66 TAGACAATTCTTCATCAAATTTAGGTATGATA
21387383 TAATTTAAAAATAAAAATGGTAAATTAGTGAAATTAAAAATAAAACAAGTGACCAAATTGAATTC
1 TAATTTAAAAATAAAAATGGTAAATTAGTGAAATTAAAAATAAAACAAGTGACCAAATTGAATTC
21387448 TAGACAATTCTTCATCAAATTT
66 TAGACAATTCTTCATCAAATTT
21387470 CAGTCCAAAA
Statistics
Matches: 291, Mismatches: 52, Indels: 72
0.70 0.13 0.17
Matches are distributed among these distances:
91 5 0.02
92 10 0.03
93 5 0.02
94 8 0.03
95 46 0.16
96 30 0.10
97 123 0.42
98 2 0.01
99 11 0.04
100 15 0.05
101 6 0.02
102 1 0.00
103 17 0.06
104 3 0.01
105 4 0.01
106 5 0.02
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (97 bp):
TAATTTAAAAATAAAAATGGTAAATTAGTGAAATTAAAAATAAAACAAGTGACCAAATTGAATTC
TAGACAATTCTTCATCAAATTTAGGTATGATA
Found at i:21388451 original size:105 final size:101
Alignment explanation
Indices: 21388273--21388489 Score: 285
Period size: 105 Copynumber: 2.1 Consensus size: 101
21388263 AATTGATGGA
* * **
21388273 TAAGACCATGGTTGGACCATGGCAGTGTTTAAATGTAAGACCATAGCTGGGCTATGAAATTTTAA
1 TAAGACCATGGTTAGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATGAAATTCAAA
*
21388338 TGAAAAGACCATAACTGGGTTATGACACCT-TGAACG
66 TGAAAAGACCATAACTGGGTTATGA-AACTATGAACG
* *
21388374 TAAGACCATGGTTAGACCATGGCAGTATATATACATGTGTAAGACCATAGTTGGGCTATGACAA-
1 TAAGACCATGGTTAGACCATGGCAGTAT-T-TA-A-ATGTAAGACCATAGCTGGGCTATGA-AAT
* *
21388438 TCAAATGATAAGACCATAACTGGGTTATGAAACTATGAATG
61 TCAAATGAAAAGACCATAACTGGGTTATGAAACTATGAACG
21388479 TAAGACCATGG
1 TAAGACCATGG
21388490 CAGGGCCATG
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
101 26 0.26
102 1 0.01
103 2 0.02
104 4 0.04
105 66 0.65
106 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.26
Consensus pattern (101 bp):
TAAGACCATGGTTAGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATGAAATTCAAA
TGAAAAGACCATAACTGGGTTATGAAACTATGAACG
Found at i:21388533 original size:32 final size:33
Alignment explanation
Indices: 21388477--21388552 Score: 127
Period size: 32 Copynumber: 2.3 Consensus size: 33
21388467 AAACTATGAA
21388477 TGTAAGACCATGGCAGGGCCATGGCAATGCATG
1 TGTAAGACCATGGCAGGGCCATGGCAATGCATG
* *
21388510 TGTGAGACCATGGTA-GGCCATGGCAATGCATG
1 TGTAAGACCATGGCAGGGCCATGGCAATGCATG
21388542 TGTAAGACCAT
1 TGTAAGACCAT
21388553 CGTTGGACTA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 27 0.68
33 13 0.32
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.21
Consensus pattern (33 bp):
TGTAAGACCATGGCAGGGCCATGGCAATGCATG
Found at i:21391112 original size:18 final size:17
Alignment explanation
Indices: 21391089--21391137 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
21391079 GTTTTTTTAC
21391089 TAAATTATTTATTTAAT
1 TAAATTATTTATTTAAT
*
21391106 ATAAATTGATTT-TATAAT
1 -TAAATT-ATTTATTTAAT
*
21391124 TAAATTAATTATTT
1 TAAATTATTTATTT
21391138 GGATTGGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 3 0.12
17 8 0.31
18 11 0.42
19 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TAAATTATTTATTTAAT
Found at i:21395225 original size:21 final size:19
Alignment explanation
Indices: 21395191--21395252 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 19
21395181 TAAATTATGT
21395191 ATAATAATATAATATGAATAAA
1 ATAATAA-A-AATAT-AATAAA
21395213 AT-ATAAGGAAATATAATATAAA
1 ATAATAA--AAATAT-A-ATAAA
21395235 ATAATAAAAATATAATAA
1 ATAATAAAAATATAATAA
21395253 GTATTTTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 16 0.46
22 10 0.29
23 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAATAAAAATATAATAAA
Found at i:21395557 original size:17 final size:17
Alignment explanation
Indices: 21395535--21395568 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21395525 ATTTATAGAT
21395535 AAAATATAT-GATAATAA
1 AAAATA-ATGGATAATAA
21395552 AAAATAATGGATAATAA
1 AAAATAATGGATAATAA
21395569 TAGTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
AAAATAATGGATAATAA
Found at i:21397601 original size:207 final size:207
Alignment explanation
Indices: 21397186--21398155 Score: 1606
Period size: 207 Copynumber: 4.7 Consensus size: 207
21397176 AAATCTGCTT
*
21397186 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * *
21397251 GTGAAAGCTAAATGAGCTATGAT-TTCGA-TTTGTTCCTTGTAAACACAAGGATGCCAAATCATC
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATC
* * * * * ** * * *
21397314 TTGGATCTGCTTCAGTCTAATCATCTAAAGGTTAGATCTGCTATGTGTCTACCCTCTGTCGAATA
130 TTGGATCTGCTTCAATATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATA
* * *
21397379 TGAAGACGGCAAA
195 TGGAGATGCCAAA
*
21397392 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
21397457 GTGAAAGCCAAATCAGCTATGTCTAT-GATTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATC
66 GTGAAAGCCAAATCAGCTATGTCT-TCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATC
* * * *
21397521 TTAGATCTGCTTTAATATAAACATATGAATGCCAGATTTGCTATGTGTCTGCTCTCCGTCGAATA
130 TTGGATCTGCTTCAATATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATA
*
21397586 TGGAGGTGCCAAA
195 TGGAGATGCCAAA
*
21397599 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
21397664 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCTAAATCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCT
21397729 TGGATCTGCTTCAATATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
131 TGGATCTGCTTCAATATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
21397794 GGAGATGCCAAA
196 GGAGATGCCAAA
*
21397806 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
21397871 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCT
* **
21397936 TGGATCTGCTTCACTATAAACATATGAAGGCTGGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
131 TGGATCTGCTTCAATATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
21398001 GGAGATGCCAAA
196 GGAGATGCCAAA
21398013 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
21398078 GTGAAAGCCAAATCAGCTATGTCTTCGA-TTTGTTCCTTGAAAGCACAAGGATGCCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCT
21398142 TGGATCTTGCTTCA
131 TGGATC-TGCTTCA
21398156 GCCAGATCTG
Statistics
Matches: 719, Mismatches: 40, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
205 1 0.00
206 126 0.18
207 592 0.82
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCT
TGGATCTGCTTCAATATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
GGAGATGCCAAA
Found at i:21399615 original size:33 final size:33
Alignment explanation
Indices: 21399573--21399639 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
21399563 GTTCGATAAG
21399573 CCAGGAGTGCAAACGGTAACTTCTCATGCCAAT
1 CCAGGAGTGCAAACGGTAACTTCTCATGCCAAT
21399606 CCAGGAGTGCAAACGGTAACTTCTCATGCCAAT
1 CCAGGAGTGCAAACGGTAACTTCTCATGCCAAT
21399639 C
1 C
21399640 TCTATAGGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (33 bp):
CCAGGAGTGCAAACGGTAACTTCTCATGCCAAT
Found at i:21411309 original size:137 final size:137
Alignment explanation
Indices: 21411063--21411349 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
21411053 TATTGAGCCT
**
21411063 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
21411128 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
21411193 CATATGC
131 CATATGC
*
21411200 AAGCCTATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
21411265 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
21411330 CATATGC
131 CATATGC
21411337 AAGCCCATTTGGG
1 AAGCCCATTTGGG
21411350 GAGACTACTC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:21418104 original size:176 final size:176
Alignment explanation
Indices: 21417805--21418200 Score: 587
Period size: 176 Copynumber: 2.2 Consensus size: 176
21417795 AACATCGGTG
* *
21417805 AATTCACAGATCTTGTCTCCCTAAAGTTACAGTGGAACAGATCAAAGAAGCAAGCCTTAACCCCC
1 AATT-ACAGATCTTATCTCCCTAAAGTTGCAGTGGAACAGATCAAAGAAGCAAGCCTTAACCCCC
* *
21417870 TAAGTAGTAGGGTAACAGGCTAAAGATTACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGAT
65 TAAGTAGTAGGGTAACAGGCTAAAGATCACAGATATTGTCTCCCTGAAGTTGCAGTGGAACAGAT
* * * *
21417935 CGAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAAGCT-G
130 CAAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAA
* * *
21417981 AATTGCAGATCTTATCTCCCTGAAGTTGCAGTGGAATAGATCAAAGAAAGCAAGCCTTAACCCCC
1 AATTACAGATCTTATCTCCCTAAAGTTGCAGTGGAACAGATCAAAG-AAGCAAGCCTTAACCCCC
* * *
21418046 TAAGTGGTAGGGTAACAGGCTGAAGATCATAGATATTGTCTCCCTGAAGTTGCAGTGGAACAGAT
65 TAAGTAGTAGGGTAACAGGCTAAAGATCACAGATATTGTCTCCCTGAAGTTGCAGTGGAACAGAT
* *
21418111 CAAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAA
130 CAAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAAGCT-AA
* * *
21418159 AATTATAGATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATC
1 AATTACAGATCTTATCTCCCTAAAGTTGCAGTGGAACAGATC
21418201 GAAGTCACAA
Statistics
Matches: 195, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
175 37 0.19
176 122 0.63
178 36 0.18
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (176 bp):
AATTACAGATCTTATCTCCCTAAAGTTGCAGTGGAACAGATCAAAGAAGCAAGCCTTAACCCCCT
AAGTAGTAGGGTAACAGGCTAAAGATCACAGATATTGTCTCCCTGAAGTTGCAGTGGAACAGATC
AAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAA
Found at i:21418128 original size:89 final size:89
Alignment explanation
Indices: 21417812--21418200 Score: 482
Period size: 89 Copynumber: 4.4 Consensus size: 89
21417802 GTGAATTCAC
* *
21417812 AGATCTTGTCTCCCTAAAGTTACAGTGGAACAGATCAAAGA-AGCAAGCCTTAACCCCCTAAGTA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACAGCAAGCCTTAACCCCCTAAGTA
* *
21417876 GTAGGGTAACAGGCTAAAGATTAC
66 GTAGGGTAACAGGCTAAAGATCAT
* * **
21417900 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGAGCCTTAACCCCCTAAGTA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACAGCAAGCCTTAACCCCCTAAGTA
* * *
21417965 GTAGGGTAACAAGCTGAA-TTGC--
66 GTAGGGTAACAGGCTAAAGAT-CAT
* * * *
21417987 AGATCTTATCTCCCTGAAGTTGCAGTGGAATAGATCAAAGAAAGCAAGCCTTAACCCCCTAAGTG
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACAGCAAGCCTTAACCCCCTAAGTA
*
21418052 GTAGGGTAACAGGCTGAAGATCAT
66 GTAGGGTAACAGGCTAAAGATCAT
* * * *
21418076 AGATATTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGTGAA-CCTTAACCCCCTAAGC
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACAG-CAAGCCTTAACCCCCTAAGT
* * *
21418140 AGTAGGGTAACAGGTTAAAAATTAT
65 AGTAGGGTAACAGGCTAAAGATCAT
* * * *
21418165 AGATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATC
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC
21418201 GAAGTCACAA
Statistics
Matches: 258, Mismatches: 37, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
87 75 0.29
88 40 0.16
89 141 0.55
90 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (89 bp):
AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACAGCAAGCCTTAACCCCCTAAGTA
GTAGGGTAACAGGCTAAAGATCAT
Found at i:21419913 original size:21 final size:23
Alignment explanation
Indices: 21419887--21419929 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
21419877 GGTTAACTCA
21419887 TTGTTT-TAAAAT-TCATTTTTT
1 TTGTTTATAAAATATCATTTTTT
21419908 TTGTTTATAAAATCATCATTTT
1 TTGTTTATAAAAT-ATCATTTT
21419930 GAAAGTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
24 7 0.37
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (23 bp):
TTGTTTATAAAATATCATTTTTT
Found at i:21420943 original size:131 final size:129
Alignment explanation
Indices: 21420743--21421053 Score: 421
Period size: 131 Copynumber: 2.4 Consensus size: 129
21420733 AATTATTCAA
* *
21420743 TTAAAAATTCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGGGGAATCGTGTCCTATCA
1 TTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCA
* * *
21420808 TGCTGGGTTGTAATTTCCCGTTTGTCCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTC
66 TGCTGGGTTGCAATTTCCCGTTT-TCCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGT-
21420873 T
129 T
* * *
21420874 TTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGTCAATTCGGGGAATCGTGCCCTATCG
1 TTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCA
* * *
21420939 TGCTGGGTTGCAATTTCTCGTTTTTCAAAATAATCGAATATCCCTTTAGAATTTCAGTCATGTT
66 TGCTGGGTTGCAATTTCCCGTTTTCCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTT
** * * * * *
21421003 TTCTAAATTC--TAAAAC-AAGGCAATGTTCAATGTCTAGAAATTCGAGGAATC
1 TTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATC
21421054 ATACTCTACT
Statistics
Matches: 160, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
126 28 0.17
127 6 0.04
129 9 0.06
130 36 0.22
131 81 0.51
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (129 bp):
TTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCA
TGCTGGGTTGCAATTTCCCGTTTTCCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTT
Found at i:21422256 original size:16 final size:16
Alignment explanation
Indices: 21422224--21422256 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21422214 TATACAAATC
*
21422224 AAGGAATTATTAGAAA
1 AAGGAATTAATAGAAA
21422240 AAGG-ATTAATAGAAA
1 AAGGAATTAATAGAAA
21422255 AA
1 AA
21422257 CTAATAATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (16 bp):
AAGGAATTAATAGAAA
Found at i:21428131 original size:17 final size:17
Alignment explanation
Indices: 21428106--21428142 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
21428096 TTCATATTTC
*
21428106 ATTATATTTTATTACAT
1 ATTACATTTTATTACAT
*
21428123 ATTACATTTTATTATAT
1 ATTACATTTTATTACAT
21428140 ATT
1 ATT
21428143 TTTATATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTACATTTTATTACAT
Found at i:21428142 original size:39 final size:38
Alignment explanation
Indices: 21428107--21428183 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 38
21428097 TCATATTTCA
* *
21428107 TTATATTTTATTA-CATAT-TACATTTTATTATATATTT
1 TTATATTAT-TTATCATATGTACATATTATTATATATTT
*
21428144 TTATATTATTTATCATATGGTATATATTATTATATATTT
1 TTATATTATTTATCATAT-GTACATATTATTATATATTT
21428183 T
1 T
21428184 GGTTATAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 3 0.09
37 13 0.38
39 18 0.53
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (38 bp):
TTATATTATTTATCATATGTACATATTATTATATATTT
Done.