Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 96 of 320
Found at i:30744435 original size:82 final size:81
Alignment explanation
Indices: 30744320--30744475 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30744310 AAATTGTACA
*
30744320 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
30744384 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
30744401 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
30744466 TGCGAGTTGA
65 TGCGAATTGA
30744476 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30744487 original size:82 final size:81
Alignment explanation
Indices: 30744316--30744496 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
30744306 GATTAAATTG
*
30744316 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
30744381 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
30744397 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
30744461 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30744479 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30744497 GACTCGATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30750214 original size:13 final size:13
Alignment explanation
Indices: 30750194--30750227 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
30750184 GTGTCCACGC
30750194 CCGTGTCCATGG-
1 CCGTGTCCATGGT
30750206 CCTGTGTCCATGGT
1 CC-GTGTCCATGGT
30750220 CCGTGTCC
1 CCGTGTCC
30750228 CTTTCACAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 16 0.80
14 2 0.10
ACGTcount: A:0.06, C:0.35, G:0.29, T:0.29
Consensus pattern (13 bp):
CCGTGTCCATGGT
Found at i:30751369 original size:96 final size:96
Alignment explanation
Indices: 30751205--30751483 Score: 441
Period size: 96 Copynumber: 2.9 Consensus size: 96
30751195 TAAGATGCCA
** * * *
30751205 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCAACAAAGTCGATGCCATATTCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGTCGATGCCATGTTCCAAACA
* *
30751270 TGGTCTTACACTGGCTTACATATTGAGGCCG
66 TGGTCTTACACTAGCTCACATATTGAGGCCG
* *
30751301 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATCTCGATTCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGTCGATGCCATGTTCCAAACA
*
30751366 TGGTCTTACACTAGCTCACATATTGAGGCTG
66 TGGTCTTACACTAGCTCACATATTGAGGCCG
*
30751397 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATAACAATGTCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGTCGATGCCATGTTCCAAACA
* *
30751462 TGGTCTTACACTTGGTCACATA
66 TGGTCTTACACTAGCTCACATA
30751484 ACCCTAGTAT
Statistics
Matches: 168, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 168 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGTCGATGCCATGTTCCAAACA
TGGTCTTACACTAGCTCACATATTGAGGCCG
Found at i:30751484 original size:48 final size:48
Alignment explanation
Indices: 30751205--30751485 Score: 296
Period size: 48 Copynumber: 5.9 Consensus size: 48
30751195 TAAGATGCCA
* * ** *
30751205 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCAACAAAGTCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATAACAATGTCG
* * * *** * *
30751253 ATGCCATATTCCAGACATGGTCTTACACTGGCTTACATATTGAGGCCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATAACAATGTCG
* * *
30751301 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATCTCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATAACAATGTCG
* * *** *
30751349 ATTCCATGTTCCAAACATGGTCTTACACTAGCTCACATATTGA-GGCTG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATAACAATGTC-G
*
30751397 ATGCCATG-TCCTAGACATGGTCTTACACTAGCTCTCATAACAATGTCG
1 ATGCCATGTTCC-AGACATGGTCTTACACTAGCTCACATAACAATGTCG
* * *
30751445 ATGCCATGTTCCAAACATGGTCTTACACTTGGTCACATAAC
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATAAC
30751486 CCTAGTATCA
Statistics
Matches: 186, Mismatches: 43, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
47 4 0.02
48 177 0.95
49 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATAACAATGTCG
Found at i:30753881 original size:12 final size:12
Alignment explanation
Indices: 30753864--30753896 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
30753854 GGAATACACT
30753864 GTAACAGTAATA
1 GTAACAGTAATA
30753876 GTAACAGTAATA
1 GTAACAGTAATA
*
30753888 GTAGCAGTA
1 GTAACAGTA
30753897 GCGATACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.24
Consensus pattern (12 bp):
GTAACAGTAATA
Found at i:30754854 original size:32 final size:32
Alignment explanation
Indices: 30754786--30754854 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
30754776 TTCCCTGTTC
* *
30754786 TATTTTCTTTACTTTATTACTTTATTTCTTTT
1 TATTTTCTTTACTTTATTACTTTATTTCATTA
*
30754818 TATTTTTTTTACTTTATTA-TATTATTAT-ATTA
1 TATTTTCTTTACTTTATTACT-TTATT-TCATTA
30754850 TATTT
1 TATTT
30754855 AGTAATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 1 0.03
32 30 0.94
33 1 0.03
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (32 bp):
TATTTTCTTTACTTTATTACTTTATTTCATTA
Found at i:30774830 original size:39 final size:39
Alignment explanation
Indices: 30774773--30774856 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
30774763 ACTAACTGGT
* *
30774773 CCACATGGCCGACCACACGCCCATGTGCCAGCCCCTATG
1 CCACACGGCCGACAACACGCCCATGTGCCAGCCCCTATG
* *
30774812 CCACACGGCCGACAACACGCCCATGTGCCAGCCCGTGTG
1 CCACACGGCCGACAACACGCCCATGTGCCAGCCCCTATG
30774851 CCACAC
1 CCACAC
30774857 ACGAGCAGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.21, C:0.46, G:0.21, T:0.11
Consensus pattern (39 bp):
CCACACGGCCGACAACACGCCCATGTGCCAGCCCCTATG
Found at i:30775848 original size:43 final size:42
Alignment explanation
Indices: 30775801--30775957 Score: 115
Period size: 43 Copynumber: 3.7 Consensus size: 42
30775791 AACATATACA
*
30775801 ATGCCAACGTCCCAGACGTGGTCTTAGATGTAATCAAACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAA-ATCG
** * * *
30775844 ATGCC-ACTGTCTTAGACAG-GGTCTTACACGAAATCAGAGA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCA-AAATCG
* * * * *
30775886 ATGTCGATGTCCCAGACATGGTCATACATGTAAAAT-AGAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT--AATCA-AAATCG
*
30775930 TTGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
30775958 CAAAAACACA
Statistics
Matches: 85, Mismatches: 21, Indels: 15
0.70 0.17 0.12
Matches are distributed among these distances:
42 24 0.28
43 32 0.38
44 29 0.34
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAAATCG
Found at i:30783743 original size:43 final size:44
Alignment explanation
Indices: 30783677--30783849 Score: 189
Period size: 43 Copynumber: 4.0 Consensus size: 44
30783667 AGCTCGTACA
* * * *
30783677 ATGCCAA-TCTCCTAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGTAATCAAATATCG
*
30783720 ATGCC-ACTG-CCTCAGACAGGGTCTTACACGTAATCAAATAT-G
1 ATGCCAACTGTCC-CAGACATGGTCTTACACGTAATCAAATATCG
* * *
30783762 ATACCGA-TGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGT-AATC-AAATATCG
*
30783806 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGTAATCAAATATCG
30783849 A
1 A
30783850 AAATCCTATG
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 30 0.28
43 49 0.45
44 30 0.28
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACATGGTCTTACACGTAATCAAATATCG
Found at i:30791194 original size:42 final size:42
Alignment explanation
Indices: 30791093--30791261 Score: 171
Period size: 44 Copynumber: 4.0 Consensus size: 42
30791083 AGCTCGTACA
* * * * *
30791093 ATGCCAACGTCCTAGACGTGGTCTTACA-TATAATTAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGA-AATCAAATA-CG
* * *
30791136 ATGCCACTATCCCAGACAAGGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACG
** * *
30791178 ATGCTGATGTCTCAGACATGGTCTTATACGTAAATATCAAAT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACG--AA-ATCAAATACG
30791222 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATA
30791262 TCGAAATCCT
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
41 7 0.07
42 27 0.26
43 30 0.29
44 31 0.30
45 7 0.07
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:30791238 original size:44 final size:43
Alignment explanation
Indices: 30791093--30791255 Score: 154
Period size: 42 Copynumber: 3.8 Consensus size: 43
30791083 AGCTCGTACA
* * * * *
30791093 ATGCCAACGTCCTAGACGTGGTCTTACA-TATAAT-TAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGA-AATATCAA-ATCG
* * *
30791136 ATGCCACTATCCCAGACAAGGTCTTACACG-AA-ATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATATCAAAT-CG
** * *
30791178 ATGCTGATGTCTCAGACATGGTCTTATACGTAAATATCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATATCAAATCG
30791222 ATGCCAATGTCCCAGACATGGTCTTACACGAAAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAT
30791256 CAAATATCGA
Statistics
Matches: 95, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
41 2 0.02
42 30 0.32
43 26 0.27
44 30 0.32
45 7 0.07
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATATCAAATCG
Found at i:30791276 original size:44 final size:42
Alignment explanation
Indices: 30791101--30791276 Score: 137
Period size: 43 Copynumber: 4.1 Consensus size: 42
30791091 CAATGCCAAC
* * * *
30791101 GTCCTAGACGTGGTCTTACA-TATAATTAAATATCGATGCC-ACT
1 GTCCCAGACATGGTCTTACACGA-AATCAAATATCGAT-CCTA-T
* * *
30791144 ATCCCAGACAAGGTCTTACACGAAATCAAATA-CGATGCTGAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATCCT-AT
* * *
30791186 GTCTCAGACATGGTCTTATACGTAAAT-ATCAA-ATCGATGCCAAT
1 GTCCCAGACATGGTCTTACACG-AAATCA--AATATCGAT-CCTAT
30791230 GTCCCAGACATGGTCTTACACGAAATCAAATATCGAAATCCTAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCG--ATCCTAT
30791274 GTC
1 GTC
30791277 ATGACATATG
Statistics
Matches: 105, Mismatches: 16, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
41 1 0.01
42 26 0.25
43 38 0.36
44 37 0.35
45 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATCGATCCTAT
Found at i:30793812 original size:48 final size:48
Alignment explanation
Indices: 30793696--30793977 Score: 235
Period size: 48 Copynumber: 5.9 Consensus size: 48
30793686 GGTAAGATGT
* * * * ** * *
30793696 CGATGCCATGTTCTAGATATGGTCTTACACTAGCTTTCGTAA-AAAGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAAGGC
* ***
30793743 CGATGCCATGTTCCAAACATGGTCTTATACTGGCTCACATATTGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAAGGC
* * ** * * * *
30793791 CGATGCCATATCCCAGGCATGGTCTTACACTAGCTCTCATAACAATGT
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAAGGC
* * * * ***
30793839 CAATGGCATGTTCCAAATATGGTCTTACACTGGCTTACATATTGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAAGGC
* * * * * *
30793887 TGATGCTATG-TCTCAGACATGGTCTTACACTAGCTCTCATAACAATGC
1 CGATGCCATGTTC-CAAACATGGTCTTACACTGGCTCACATAACAAGGC
*
30793935 CGATGCCATGTTCCAAACATGGTCTTACACTGGCACACATAAC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAC
30793978 CCTAGTATCA
Statistics
Matches: 175, Mismatches: 57, Indels: 5
0.74 0.24 0.02
Matches are distributed among these distances:
47 35 0.20
48 138 0.79
49 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAAGGC
Found at i:30793872 original size:96 final size:96
Alignment explanation
Indices: 30793696--30793975 Score: 382
Period size: 96 Copynumber: 2.9 Consensus size: 96
30793686 GGTAAGATGT
* * * * * * *
30793696 CGATGCCATGTTCTAGATATGGTCTTACACTAGCTTTCGTAA-AAAGCCGATGCCATGTTCCAAA
1 CGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAA
*
30793760 CATGGTCTTATACTGGCTCACATATTGAGGC
66 CATGGTCTTACACTGGCTCACATATTGAGGC
* * * *
30793791 CGATGCCATATCCCAGGCATGGTCTTACACTAGCTCTCATAACAATGTCAATGGCATGTTCCAAA
1 CGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAA
* *
30793856 TATGGTCTTACACTGGCTTACATATTGAGGC
66 CATGGTCTTACACTGGCTCACATATTGAGGC
* * * *
30793887 TGATGCTATGTCTCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAA
1 CGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAA
*
30793952 CATGGTCTTACACTGGCACACATA
66 CATGGTCTTACACTGGCTCACATA
30793976 ACCCTAGTAT
Statistics
Matches: 159, Mismatches: 25, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
95 35 0.22
96 124 0.78
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (96 bp):
CGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAA
CATGGTCTTACACTGGCTCACATATTGAGGC
Found at i:30807069 original size:40 final size:40
Alignment explanation
Indices: 30807039--30807208 Score: 200
Period size: 40 Copynumber: 4.3 Consensus size: 40
30807029 GGACTAAGAT
* *
30807039 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
30807079 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* **
30807119 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACA-TC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTA-AGTC
* * * * *
30807159 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
30807198 CCGAAGGCATT
1 CCGAAGGCATT
30807209 TGAACGAGGA
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 32 0.28
40 82 0.71
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:30807135 original size:80 final size:79
Alignment explanation
Indices: 30807039--30807208 Score: 225
Period size: 80 Copynumber: 2.1 Consensus size: 79
30807029 GGACTAAGAT
* * *
30807039 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTA-AGTCCCGAAGGCATTCGTGCGAGTTATT
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTACA-TCCCGAAGGCATT-GTGCGAGTTACT
* *
30807103 AAAGCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* ** *
30807119 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACATCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTACATCCCGAAGGCATTGTGCGAGTTACTAA
*
30807184 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
30807198 CCGAAGGCATT
1 CCGAAGGCATT
30807209 TGAACGAGGA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 34 0.43
80 44 0.56
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTACATCCCGAAGGCATTGTGCGAGTTACTAA
AACCGGGCTAAGTC
Found at i:30807228 original size:79 final size:79
Alignment explanation
Indices: 30807061--30807243 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 79
30807051 GTGCGAGATA
* * *
30807061 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAA-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
30807126 CATTCGTGCGAGTTG
65 CATTCGAACGAGGAG
* * *
30807141 TTAAATCCGGGTTACATCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTA-ATCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
30807205 CATTTGAACGAGGAG
65 CATTCGAACGAGGAG
*
30807220 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTT-AATCCCGAAGG
30807244 TACGTGATTT
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
78 14 0.16
79 47 0.53
80 26 0.30
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CTAAATCCGGGTTAATCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAG
Found at i:30814986 original size:38 final size:38
Alignment explanation
Indices: 30814899--30815030 Score: 132
Period size: 38 Copynumber: 3.6 Consensus size: 38
30814889 AGATACTAAT
*
30814899 CGGGTTAAGT-CCG-AGGCATTCGTGCGA--TATTAAGC
1 CGGGTT-AGTCCCGAAGGCATTCGTGCGAGTTATTAAAC
* *
30814934 CGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTGTTAATC
1 CGGGTT-AGTCCCGAAGGCATTCGTGCGAGTTATTAAAC
* * *
30814972 CGGGTTACTCCCGAAGGCATT-GTGTGAGTTACTAAAC
1 CGGGTTAGTCCCGAAGGCATTCGTGCGAGTTATTAAAC
*
30815009 CGGGCTATGTCCCGAAGGCATT
1 CGGGTTA-GTCCCGAAGGCATT
30815031 TGAACGAGGA
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
35 13 0.16
36 14 0.17
37 20 0.24
38 36 0.43
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (38 bp):
CGGGTTAGTCCCGAAGGCATTCGTGCGAGTTATTAAAC
Found at i:30827528 original size:20 final size:20
Alignment explanation
Indices: 30827499--30827543 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
30827489 AGCACATGTA
*
30827499 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTAGAACTT
* *
30827519 TTCATCAAATTTTATAACTT
1 TTCATAAAATTTTAGAACTT
30827539 TTCAT
1 TTCAT
30827544 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTTAGAACTT
Found at i:30830743 original size:24 final size:24
Alignment explanation
Indices: 30830716--30830761 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
30830706 TTGTTTTGGC
30830716 TTTT-CTTCTCCCAATTAAACTCAA
1 TTTTACTT-TCCCAATTAAACTCAA
*
30830740 TTTTACTTTCCCACTTAAACTC
1 TTTTACTTTCCCAATTAAACTC
30830762 TGATTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTTACTTTCCCAATTAAACTCAA
Found at i:30835201 original size:14 final size:14
Alignment explanation
Indices: 30835182--30835208 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30835172 TTCATGAAAT
30835182 ATATACTATCAAAG
1 ATATACTATCAAAG
30835196 ATATACTATCAAA
1 ATATACTATCAAA
30835209 CAAGTATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.30
Consensus pattern (14 bp):
ATATACTATCAAAG
Found at i:30840143 original size:47 final size:45
Alignment explanation
Indices: 30840045--30840208 Score: 170
Period size: 46 Copynumber: 3.5 Consensus size: 45
30840035 GTTCTGATGC
* * *
30840045 CATGTCCCAGACATGGTCTTACATTGGCTCAT-ATCTCAAGTCGAAG
1 CATGTCCCAGACAT-GTCTTACACTGGCT-ATCGTCTCAAGCCGAAG
* * *
30840091 CCATGTCCCAGACATGGTCTTACACTGACTATCGTTTCATAGCCGACG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCGTCTCA-AGCCGAAG
* * *
30840139 CATGTTCCAGACATGTCTTACACTGGCT-TACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTAT-CGTCTC-AAGCCGAAG
30840185 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
30840209 AGCACTCATC
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
45 1 0.01
46 49 0.49
47 45 0.45
48 6 0.06
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCGTCTCAAGCCGAAG
Found at i:30840231 original size:46 final size:46
Alignment explanation
Indices: 30840040--30840255 Score: 160
Period size: 47 Copynumber: 4.6 Consensus size: 46
30840030 GTAAGGTTCT
* *
30840040 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCATATCTCAAGT--C
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCAC-TATCTCAA-TACC
*
30840087 GAAGCCATGTCCCAGACATGGTCTTACACT-G-ACTATCGTTTC-ATAGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCACTATC---TCAATA-CC
* * * * **
30840135 GACGCATGTTCCAGACAT-GTCTTACACTGGCTTAC-GTCTCGAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGC--ACTATCTCAATACC
* *
30840181 GATGCATGTCCCAGACAT-GTCTTACACTAGCACTCATCTCAATACT
1 GATGCATGTCCCAGACATGGTCTTACACTGGCACT-ATCTCAATACC
*
30840227 GATGCTATGTCCCAGACATGGTCTCACAC
1 GATGC-ATGTCCCAGACATGGTCTTACAC
30840256 CGGCTTACAC
Statistics
Matches: 137, Mismatches: 17, Indels: 29
0.75 0.09 0.16
Matches are distributed among these distances:
44 6 0.04
45 2 0.01
46 55 0.40
47 58 0.42
48 12 0.09
49 2 0.01
50 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCACTATCTCAATACC
Found at i:30840242 original size:93 final size:92
Alignment explanation
Indices: 30840038--30840264 Score: 230
Period size: 93 Copynumber: 2.4 Consensus size: 92
30840028 GGGTAAGGTT
* * * *
30840038 CTGATGCCATGTCCCAGACATGGTCTTACATTGGCTCATATCTCAAGTCGAAGCCATGTCCCAGA
1 CTGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGCCGAAGCCATGTCCCAGA
30840103 CATGGTCTTACACTGACTATCGTTTCATAG
65 CATGGTCTTACACTGACTATC--TTCATAG
* * * * * *
30840133 CCGACGCATGTTCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCCGATG-CATGTCCCAGA
1 CTGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-AAGCCGAAGCCATGTCCCAGA
30840196 CAT-GTCTTACACTAGCACTCATC-TCAATA-
65 CATGGTCTTACACT-G-ACT-ATCTTC-ATAG
* *
30840225 CTGATGCTATGTCCCAGACATGGTCTCACACCGGCTTACA
1 CTGATGC-ATGTCCCAGACATGGTCTTACACTGGCTTACA
30840265 CAAGTGACCA
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
92 17 0.16
93 48 0.44
94 37 0.34
95 7 0.06
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
CTGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGCCGAAGCCATGTCCCAGAC
ATGGTCTTACACTGACTATCTTCATAG
Found at i:30840661 original size:30 final size:30
Alignment explanation
Indices: 30840626--30840699 Score: 148
Period size: 30 Copynumber: 2.5 Consensus size: 30
30840616 CATATTTGGT
30840626 AAAATGACCATTTTGCCGCTCGACCTTGAC
1 AAAATGACCATTTTGCCGCTCGACCTTGAC
30840656 AAAATGACCATTTTGCCGCTCGACCTTGAC
1 AAAATGACCATTTTGCCGCTCGACCTTGAC
30840686 AAAATGACCATTTT
1 AAAATGACCATTTT
30840700 ACCCCTAGAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (30 bp):
AAAATGACCATTTTGCCGCTCGACCTTGAC
Found at i:30849612 original size:19 final size:20
Alignment explanation
Indices: 30849564--30849605 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
30849554 GTTTCCATTT
30849564 AAAA-AAAGAAAGAAAAGGA
1 AAAAGAAAGAAAGAAAAGGA
30849583 AAAAGAAAGAAAGAAAA-GA
1 AAAAGAAAGAAAGAAAAGGA
30849602 AAAA
1 AAAA
30849606 ATGAGAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (20 bp):
AAAAGAAAGAAAGAAAAGGA
Found at i:30849645 original size:22 final size:20
Alignment explanation
Indices: 30849603--30849642 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30849593 AAGAAAAGAA
*
30849603 AAAATGAGAATAAATATTTG
1 AAAATGAGAATAAAGATTTG
*
30849623 AAAATGTGAATAATAGATTT
1 AAAATGAGAATAA-AGATTT
30849643 TGATATGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (20 bp):
AAAATGAGAATAAAGATTTG
Found at i:30853959 original size:20 final size:21
Alignment explanation
Indices: 30853928--30853981 Score: 85
Period size: 20 Copynumber: 2.6 Consensus size: 21
30853918 CCACTTCGCC
30853928 AATCAGTACAACAGAATATGA
1 AATCAGTACAACAGAATATGA
30853949 AATCA-TACAACAGAATATGA
1 AATCAGTACAACAGAATATGA
30853969 AATC-GTACTAACA
1 AATCAGTAC-AACA
30853982 CATTGTATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 22 0.71
21 9 0.29
ACGTcount: A:0.52, C:0.17, G:0.11, T:0.20
Consensus pattern (21 bp):
AATCAGTACAACAGAATATGA
Found at i:30856881 original size:30 final size:30
Alignment explanation
Indices: 30856847--30856909 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
30856837 GTATCAGGGG
* * *
30856847 ACACACGGTTGTGTTACTTGACCGTGTGTC
1 ACACACGGCTGTGTTACCTGACCGTATGTC
* *
30856877 ACACATGGCTGTGTTACCTGGCCGTATGTC
1 ACACACGGCTGTGTTACCTGACCGTATGTC
30856907 ACA
1 ACA
30856910 TCCGATCGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.30
Consensus pattern (30 bp):
ACACACGGCTGTGTTACCTGACCGTATGTC
Found at i:30869111 original size:8 final size:8
Alignment explanation
Indices: 30869089--30869122 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
30869079 GTACAAGCAA
30869089 ATTTTGTG
1 ATTTTGTG
30869097 TATTTTGTG
1 -ATTTTGTG
30869106 ATTTTGTG
1 ATTTTGTG
30869114 ATTTTGTG
1 ATTTTGTG
30869122 A
1 A
30869123 ATTAGGGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.15, C:0.00, G:0.24, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:30870536 original size:30 final size:29
Alignment explanation
Indices: 30870479--30870536 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
30870469 CCCTATTTTT
* *
30870479 GGCATGGCCTAGCACACGGCCTGGACACG
1 GGCATGGCATAGCACACGGCCTAGACACG
30870508 GGCATGTGCATAGCACACAGG-CTAGACAC
1 GGCATG-GCATAGCACAC-GGCCTAGACAC
30870537 ATGGGCGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 17 0.68
31 2 0.08
ACGTcount: A:0.26, C:0.31, G:0.31, T:0.12
Consensus pattern (29 bp):
GGCATGGCATAGCACACGGCCTAGACACG
Found at i:30871002 original size:30 final size:30
Alignment explanation
Indices: 30870968--30871039 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
30870958 CATGTTCTAA
* *
30870968 GGCCGTGCCTCTCACACGATCGAGATACAC
1 GGCCGTGTCTCTCACACGATCGAGACACAC
*
30870998 GGCCGTGTCTCTCACACGATCGAGGCACAC
1 GGCCGTGTCTCTCACACGATCGAGACACAC
30871028 GGCCGTGTCTCT
1 GGCCGTGTCTCT
30871040 ACCCATGTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.18, C:0.36, G:0.26, T:0.19
Consensus pattern (30 bp):
GGCCGTGTCTCTCACACGATCGAGACACAC
Found at i:30875469 original size:24 final size:25
Alignment explanation
Indices: 30875435--30875512 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 25
30875425 TACGACATTG
*
30875435 TGCTAAATGAAATAAGACCATGGCA
1 TGCTAAGTGAAATAAGACCATGGCA
*
30875460 T-CTAAGTGAAATAAGTCCATGGCAA
1 TGCTAAGTGAAATAAGACCATGGC-A
30875485 TGTGCTAAGTGAAATAA-ATCCATGGCA
1 --TGCTAAGTGAAATAAGA-CCATGGCA
30875512 T
1 T
30875513 TATGCTAAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 20 0.44
25 3 0.07
27 2 0.04
28 20 0.44
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (25 bp):
TGCTAAGTGAAATAAGACCATGGCA
Found at i:30875493 original size:28 final size:28
Alignment explanation
Indices: 30875433--30875524 Score: 111
Period size: 28 Copynumber: 3.4 Consensus size: 28
30875423 GATACGACAT
* *
30875433 TGTGCTAAATGAAATAAGACCATGGC-A
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
30875460 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
* *
30875485 TGTGCTAAGTGAAATAAATCCATGGCAT
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
*
30875513 TATGCTAAGTGA
1 TGTGCTAAGTGA
30875525 GAAATTTCCC
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
24 20 0.36
25 2 0.04
27 1 0.02
28 33 0.59
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (28 bp):
TGTGCTAAGTGAAATAAGTCCATGGCAA
Found at i:30877694 original size:29 final size:29
Alignment explanation
Indices: 30877652--30877711 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
30877642 ACCTATTAGG
30877652 ATAAAAAATTTGATTACTTTAGGACTTTA
1 ATAAAAAATTTGATTACTTTAGGACTTTA
30877681 ATAAAAAATTTGATTACTTTAGGACTTTA
1 ATAAAAAATTTGATTACTTTAGGACTTTA
30877710 AT
1 AT
30877712 GTCCATTGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.42
Consensus pattern (29 bp):
ATAAAAAATTTGATTACTTTAGGACTTTA
Found at i:30879046 original size:5 final size:5
Alignment explanation
Indices: 30879036--30879070 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
30879026 TATCTCCTTT
*
30879036 TTTTC TTTTC TTTTC TTTTC TTTTTT TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTT
30879071 TTCTATTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (5 bp):
TTTTC
Found at i:30879060 original size:11 final size:11
Alignment explanation
Indices: 30879035--30879071 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
30879025 GTATCTCCTT
30879035 TTTTTCTTTTC
1 TTTTTCTTTTC
30879046 -TTTTCTTTTC
1 TTTTTCTTTTC
*
30879056 TTTTTTTTTTC
1 TTTTTCTTTTC
30879067 TTTTT
1 TTTTT
30879072 TCTATTGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:30879975 original size:11 final size:10
Alignment explanation
Indices: 30879961--30880003 Score: 56
Period size: 9 Copynumber: 4.5 Consensus size: 10
30879951 AGAAAACTTA
30879961 TAAAATTATTT
1 TAAAATTA-TT
30879972 TAAAATTA--
1 TAAAATTATT
30879980 TAAAATTATT
1 TAAAATTATT
30879990 T-AAATTATT
1 TAAAATTATT
30879999 TAAAA
1 TAAAA
30880004 ATATAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 8 0.28
9 9 0.31
10 4 0.14
11 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TAAAATTATT
Found at i:30879980 original size:19 final size:20
Alignment explanation
Indices: 30879953--30879990 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
30879943 AAAAAATTAG
30879953 AAAACTTATAAAATTATTTT
1 AAAACTTATAAAATTATTTT
30879973 AAAA-TTATAAAATTATTT
1 AAAACTTATAAAATTATTT
30879991 AAATTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAACTTATAAAATTATTTT
Found at i:30879984 original size:28 final size:27
Alignment explanation
Indices: 30879945--30880012 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
30879935 ATTACAAAAA
*
30879945 AAAATTAGAAAACTTA-TAAAATTATTTT
1 AAAATTATAAAA-TTATTAAAATTA-TTT
*
30879973 AAAATTATAAAATTATTTAAATTATTT
1 AAAATTATAAAATTATTAAAATTATTT
*
30880000 AAAAATATAAAAT
1 AAAATTATAAAAT
30880013 ATAAATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 18 0.50
28 18 0.50
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (27 bp):
AAAATTATAAAATTATTAAAATTATTT
Found at i:30880417 original size:20 final size:19
Alignment explanation
Indices: 30880377--30880430 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
30880367 ATTTTTTTTA
30880377 TTTTTAAAATTTTTAGAAT
1 TTTTTAAAATTTTTAGAAT
* *
30880396 TTTTTAAATACTTTTTATATT
1 TTTTTAAA-A-TTTTTAGAAT
*
30880417 TTTTTATAATTTTT
1 TTTTTAAAATTTTT
30880431 TTAAAGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 13 0.43
20 2 0.07
21 15 0.50
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTAAAATTTTTAGAAT
Found at i:30882904 original size:43 final size:42
Alignment explanation
Indices: 30882849--30882981 Score: 139
Period size: 41 Copynumber: 3.1 Consensus size: 42
30882839 ATATCGTACA
**
30882849 ATGCCAAC-GTCCCAGACGTA-GTCTTACGTGCAATCACATATCG
1 ATGCC-ACTGTCCCAGAC-TAGGTCTTACACG-AATCACATATCG
*
30882892 ATGCCACTGTCCCAGA-TAGGGTCTTACACGAATCAAATAT-G
1 ATGCCACTGTCCCAGACTA-GGTCTTACACGAATCACATATCG
* * *
30882933 ATGCCAATGTACCAGACAAGGTCTTACACGTAATCACATATCG
1 ATGCCACTGTCCCAGACTAGGTCTTACACG-AATCACATATCG
30882976 ATGCCA
1 ATGCCA
30882982 ACATCCTAGA
Statistics
Matches: 77, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
41 28 0.36
42 21 0.27
43 28 0.36
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACTAGGTCTTACACGAATCACATATCG
Found at i:30882948 original size:41 final size:43
Alignment explanation
Indices: 30882880--30882982 Score: 147
Period size: 41 Copynumber: 2.4 Consensus size: 43
30882870 TCTTACGTGC
* * * *
30882880 AATCACATATCGATGCCACTGTCCCAGATAGGGTCTTACACG-
1 AATCACATATCGATGCCAATGTACCAGACAAGGTCTTACACGT
*
30882922 AATCAAATAT-GATGCCAATGTACCAGACAAGGTCTTACACGT
1 AATCACATATCGATGCCAATGTACCAGACAAGGTCTTACACGT
30882964 AATCACATATCGATGCCAA
1 AATCACATATCGATGCCAA
30882983 CATCCTAGAC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 27 0.51
42 18 0.34
43 8 0.15
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (43 bp):
AATCACATATCGATGCCAATGTACCAGACAAGGTCTTACACGT
Found at i:30882999 original size:43 final size:42
Alignment explanation
Indices: 30882849--30883002 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 42
30882839 ATATCGTACA
* **
30882849 ATGCCAACGTCCCAGACGTAGTCTTACGTGCAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCACATATCG
* *
30882892 ATGCC-ACTGTCCCAGATAG-GGTCTTACACGAATCAAATAT-G
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGAATCACATATCG
* * **
30882933 ATGCCAATGTACCAGACAAGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCACATATCG
* *
30882976 ATGCCAACATCCTAGACGTGGTCTTAC
1 ATGCCAACGTCCCAGACGTGGTCTTAC
30883003 TCTAGAACAC
Statistics
Matches: 89, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 24 0.27
42 21 0.24
43 43 0.48
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:30889414 original size:18 final size:18
Alignment explanation
Indices: 30889374--30889408 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30889364 GCATTGCTTG
* *
30889374 CTTAGAAAACTTGCCATT
1 CTTAAAAAACTTACCATT
30889392 CTTAAAAAACTTACCAT
1 CTTAAAAAACTTACCAT
30889409 GTTTAAGTTA
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:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (18 bp):
CTTAAAAAACTTACCATT
Found at i:30893134 original size:12 final size:12
Alignment explanation
Indices: 30893106--30893137 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
30893096 AAAAATGTAT
*
30893106 TTAAATTTAAAA
1 TTAATTTTAAAA
30893118 TTAATTTTAAAA
1 TTAATTTTAAAA
30893130 TTAATTTT
1 TTAATTTT
30893138 TGGTACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAATTTTAAAA
Found at i:30896297 original size:55 final size:55
Alignment explanation
Indices: 30896236--30896345 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
30896226 AGGTTTTACA
30896236 ACTGTGCAAACCAAAACAAAAAACACCAAGGATTTGTTTATGTAGTTCAGTTTTC
1 ACTGTGCAAACCAAAACAAAAAACACCAAGGATTTGTTTATGTAGTTCAGTTTTC
*
30896291 ACTGTGCAAACCAAAACAAAGAACACCAAGGATTTGTTTATGTAGTTCAGTTTTC
1 ACTGTGCAAACCAAAACAAAAAACACCAAGGATTTGTTTATGTAGTTCAGTTTTC
30896346 CTACGTCTGC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (55 bp):
ACTGTGCAAACCAAAACAAAAAACACCAAGGATTTGTTTATGTAGTTCAGTTTTC
Found at i:30898157 original size:40 final size:40
Alignment explanation
Indices: 30898076--30898259 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
30898066 GAATGATGTT
* * * *
30898076 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATC
*
30898116 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATC
* *
30898156 CGGGTTAAGTCCCGAATGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
* * *
30898196 CGGGTTAAGTCCTGAAGGCATTTGTACGAGTTACTATAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATC
*
30898236 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
30898260 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 115 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:30898265 original size:40 final size:40
Alignment explanation
Indices: 30898127--30898292 Score: 203
Period size: 40 Copynumber: 4.2 Consensus size: 40
30898117 GGACTAAGAT
*
30898127 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTC
* *
30898167 CCGAATGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTC
* * *
30898207 CTGAAGGCATTTGTACGAGTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTACGAGTTACTA-AATCCGGGTTAAGTC
* * * *
30898247 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATT
1 CCGAAGGCATTTGTACGAGTTA-CTAAATCCGGGTTAAGTC
30898286 CCGAAGG
1 CCGAAGG
30898293 TACGTGATTT
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 15 0.14
40 93 0.85
41 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTC
Found at i:30906532 original size:79 final size:81
Alignment explanation
Indices: 30906396--30906580 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
30906386 TTGAATGATG
*
30906396 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGAACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGAACTAAGATCCGAAGGCATT
30906460 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * ***
30906475 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGAACTAAGAT-CCGAAGGCA
*
30906537 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
30906555 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30906581 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 56 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGAACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:30906594 original size:40 final size:41
Alignment explanation
Indices: 30906396--30906580 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
30906386 TTGAATGATG
* * *
30906396 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
** * *
30906436 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
30906476 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
30906515 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30906556 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30906581 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:30906603 original size:79 final size:79
Alignment explanation
Indices: 30906449--30906613 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
30906439 GAACTAAGAT
* **
30906449 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
30906514 ATCCGGGTTAAATC
66 ATCCGAGTTAAATC
* *
30906528 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
30906591 TATATCC-AGTTAAATT
63 TAAATCCGAGTTAAATC
30906607 CCGAAGG
1 CCGAAGG
30906614 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGAGTTAAATC
Found at i:30910877 original size:40 final size:40
Alignment explanation
Indices: 30910822--30911044 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
30910812 TATTCGGATG
*
30910822 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
30910862 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
30910905 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
30910945 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
30910985 ATAT-CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
30911024 ATAT-CTGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
30911045 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 47 0.29
40 76 0.47
41 1 0.01
43 36 0.22
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:30910967 original size:83 final size:79
Alignment explanation
Indices: 30910828--30911044 Score: 269
Period size: 83 Copynumber: 2.7 Consensus size: 79
30910818 GATGATATCT
* * **
30910828 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCTGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATG
30910893 CGAGTAGTTG-CTATACCC
66 C---TAG-TGACTATA-CC
*
30910911 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATG
*
30910976 CTAGTGACTATATC
66 CTAGTGACTATACC
* * * *
30910990 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT-CTGGCTAAATCCCGAAG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
30911045 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
78 15 0.12
79 36 0.30
80 10 0.08
83 61 0.50
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATG
CTAGTGACTATACC
Found at i:30912541 original size:8 final size:7
Alignment explanation
Indices: 30912525--30912648 Score: 51
Period size: 7 Copynumber: 17.1 Consensus size: 7
30912515 TCAATAACTC
30912525 ATAATAAT
1 ATAA-AAT
30912533 ATAGAAAT
1 ATA-AAAT
30912541 A-AAAAT
1 ATAAAAT
30912547 ATATAATAT
1 ATA-AA-AT
*
30912556 ATATAAAA
1 ATA-AAAT
*
30912564 AT-ATAT
1 ATAAAAT
*
30912570 ATATAAT
1 ATAAAAT
30912577 ATAAAAT
1 ATAAAAT
30912584 A-AAATAT
1 ATAAA-AT
*
30912591 ATAAATT
1 ATAAAAT
30912598 AT-AAAT
1 ATAAAAT
*
30912604 ATATAAT
1 ATAAAAT
30912611 -TATAAAT
1 ATA-AAAT
* *
30912618 AGATAAT
1 ATAAAAT
30912625 ATAATAAT
1 ATAA-AAT
* *
30912633 AGATAAT
1 ATAAAAT
30912640 ATAATAAT
1 ATAA-AAT
30912648 A
1 A
30912649 GATAGAATAA
Statistics
Matches: 86, Mismatches: 18, Indels: 24
0.67 0.14 0.19
Matches are distributed among these distances:
6 19 0.22
7 33 0.38
8 25 0.29
9 9 0.10
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (7 bp):
ATAAAAT
Found at i:30912552 original size:21 final size:21
Alignment explanation
Indices: 30912528--30912642 Score: 80
Period size: 21 Copynumber: 5.4 Consensus size: 21
30912518 ATAACTCATA
30912528 ATAATATAGAAATAAAAATAT
1 ATAATATAGAAATAAAAATAT
*
30912549 ATAATATATATAA-AAATATATAT
1 ATAATATAGA-AATAAA-A-ATAT
30912572 ATAATATA-AAAT-AAAATAT
1 ATAATATAGAAATAAAAATAT
* *
30912591 ATAA-ATTATAAATATATAAT-T
1 ATAATA-TAGAAATA-AAAATAT
*
30912612 ATAA-ATAGATAATATAATAATAG
1 ATAATATAGA-AATA-AA-AATAT
30912635 ATAATATA
1 ATAATATA
30912643 ATAATAGATA
Statistics
Matches: 77, Mismatches: 5, Indels: 21
0.75 0.05 0.20
Matches are distributed among these distances:
18 1 0.01
19 10 0.13
20 8 0.10
21 28 0.36
22 11 0.14
23 16 0.21
24 3 0.04
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
ATAATATAGAAATAAAAATAT
Found at i:30912563 original size:19 final size:19
Alignment explanation
Indices: 30912539--30912681 Score: 79
Period size: 19 Copynumber: 7.6 Consensus size: 19
30912529 TAATATAGAA
30912539 ATAAAAATATATAATATAT
1 ATAAAAATATATAATATAT
30912558 ATAAAAATATAT-ATATA-
1 ATAAAAATATATAATATAT
*
30912575 ATATAAA-ATA-AA-ATAT
1 ATAAAAATATATAATATAT
*
30912591 AT-AAATTATA-AATATAT
1 ATAAAAATATATAATATAT
* *
30912608 AATTATAAATAGATAATATA-
1 -A-TAAAAATATATAATATAT
* *
30912628 ATAATAGATAATATAATAATAG
1 ATAA-AAAT-ATATAAT-ATAT
*
30912650 ATAGAATAATAAATAA-ATAAT
1 ATA-AA-AATATATAATAT-AT
*
30912671 ATAGAAATATA
1 ATAAAAATATA
30912682 GATTTATAAA
Statistics
Matches: 95, Mismatches: 14, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
15 5 0.05
16 11 0.12
17 10 0.11
18 8 0.08
19 22 0.23
20 14 0.15
21 13 0.14
22 9 0.09
23 3 0.03
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
ATAAAAATATATAATATAT
Found at i:30912635 original size:15 final size:15
Alignment explanation
Indices: 30912615--30912673 Score: 84
Period size: 15 Copynumber: 3.9 Consensus size: 15
30912605 TATAATTATA
30912615 AATAGATAATATAAT
1 AATAGATAATATAAT
30912630 AATAGATAATATAAT
1 AATAGATAATATAAT
30912645 AATAGATAGA-ATAAT
1 AATAGATA-ATATAAT
*
30912660 AAATAAATAATATA
1 -AATAGATAATATA
30912674 GAAATATAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
15 29 0.73
16 11 0.28
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
AATAGATAATATAAT
Found at i:30913335 original size:45 final size:45
Alignment explanation
Indices: 30913284--30913434 Score: 123
Period size: 45 Copynumber: 3.4 Consensus size: 45
30913274 TCCCATCCAC
* * * * *
30913284 GGTCTTATTTATCTT-TGACTTGATGCCATAGTGTCTTTCAACTAT
1 GGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTC-ACCAT
* * *
30913329 GGTCTTACTCATTTTCTGTCATGTTGCCATAGTATCTTTCACCAT
1 GGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCACCAT
* * *
30913374 GGTCTTACACAT-TTCAT-ATCA-GATTCCATGGTATCTTTCAACCAT
1 GGTCTTACTCATCTTC-TGA-CATGATGCCATAGTATCTTTC-ACCAT
*
30913419 GGTCTTACACAT-TTCT
1 GGTCTTACTCATCTTCT
30913435 AGTAAACAGG
Statistics
Matches: 89, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
44 19 0.21
45 50 0.56
46 20 0.22
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (45 bp):
GGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCACCAT
Found at i:30926333 original size:40 final size:41
Alignment explanation
Indices: 30926270--30926490 Score: 244
Period size: 40 Copynumber: 5.6 Consensus size: 41
30926260 TATTCGAATG
* *
30926270 ATATCCGGGCTAAG-TCCCAAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
30926310 ATATCCGGACTAAGAT-CCGAAGGCATTTGTCCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
* *
30926350 ATATCTGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
30926390 ATATCCAGGCTAAG-TCCCGAAGGTATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
30926430 ATATCCGGGCTAAGA-CCCAAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
30926470 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
30926491 ATACTTGGGT
Statistics
Matches: 151, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
38 1 0.01
39 13 0.09
40 132 0.87
41 5 0.03
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:30948325 original size:22 final size:20
Alignment explanation
Indices: 30948300--30948339 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
30948290 ATGTAAATAA
*
30948300 GATTAATTAAATATGTAATCAT
1 GATTAACTAAA-AT-TAATCAT
30948322 GATTAACTAAAATTAATC
1 GATTAACTAAAATTAATC
30948340 GCATCTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (20 bp):
GATTAACTAAAATTAATCAT
Found at i:30951018 original size:6 final size:6
Alignment explanation
Indices: 30951000--30951030 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
30950990 CTAAATCCCC
30951000 AAATTA AAA-TA AAATTA AAATTA AAATTA AA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AA
30951031 GAGGCCTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAATTA
Found at i:30958549 original size:6 final size:6
Alignment explanation
Indices: 30958534--30958565 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
30958524 CTAAATCCCC
30958534 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
30958566 GAGGCCTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:30960129 original size:27 final size:27
Alignment explanation
Indices: 30960098--30960202 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
30960088 CTGCCAGAAT
* *
30960098 AGATAATGTGACAAAGTCACCAGATAC
1 AGATAATGTGGCAAAGCCACCAGATAC
30960125 AGATAATCGTGGCAGAA-CCACCAGA-AC
1 AGATAAT-GTGGCA-AAGCCACCAGATAC
*
30960152 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAAAGCCACCAGATAC
*
30960179 AGATAATTGTGGCATAGCCACCAG
1 AGATAA-TGTGGCAAAGCCACCAG
30960203 GACGCTTCCT
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
26 2 0.03
27 50 0.74
28 14 0.21
29 2 0.03
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
AGATAATGTGGCAAAGCCACCAGATAC
Found at i:30960156 original size:54 final size:54
Alignment explanation
Indices: 30960091--30960202 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
30960081 AGCATGGCTG
* *
30960091 CCAGAATAGATA-ATGTGACAAAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAAAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * * *
30960145 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAAAGCCACCAGATCAGATAATCGTGGCAGAACCA
30960199 CCAG
1 CCAG
30960203 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAAAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:30961665 original size:24 final size:24
Alignment explanation
Indices: 30961633--30961706 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
30961623 ACACAGTTCA
30961633 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
30961657 CCCTGATCAGCTCTTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
30961681 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
30961705 CC
1 CC
30961707 AGATAGACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.22, C:0.41, G:0.05, T:0.32
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:30967353 original size:27 final size:27
Alignment explanation
Indices: 30967318--30967426 Score: 125
Period size: 27 Copynumber: 4.0 Consensus size: 27
30967308 AGCATGGCTG
* *
30967318 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
* *
30967344 CCAAATACAGATAATCGTGGCAGAACCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
30967372 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
30967399 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
30967426 C
1 C
30967427 AAGGACGCTT
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.07
27 51 0.72
28 15 0.21
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:30968850 original size:24 final size:24
Alignment explanation
Indices: 30968818--30968867 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
30968808 ACACAGTTCA
30968818 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
30968842 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
30968866 CC
1 CC
30968868 AGACAGACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.42, G:0.04, T:0.32
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:30971033 original size:74 final size:75
Alignment explanation
Indices: 30970941--30971079 Score: 210
Period size: 74 Copynumber: 1.9 Consensus size: 75
30970931 GGAAAACCAT
* * * *
30970941 GATTATTACCTTATTAATAGAGAAGACAAATGG-AAGTTAGAAAAAGGAATTATATTTTTTCCAA
1 GATTATTACCTTATTAATAGAGAAGACAAATGGAAACTTAGAAAAAGAAATTAAATTCTTTCCAA
30971005 TACAATATAG
66 TACAATATAG
*
30971015 GATTATT-CCTTTATTAATAGAGAAGGCAAATGGAAACTTAGAAAAAGAAATTAAATTCTTTCCA
1 GATTATTACC-TTATTAATAGAGAAGACAAATGGAAACTTAGAAAAAGAAATTAAATTCTTTCCA
30971079 A
65 A
30971080 AAGAATATTA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
73 2 0.03
74 29 0.50
75 27 0.47
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (75 bp):
GATTATTACCTTATTAATAGAGAAGACAAATGGAAACTTAGAAAAAGAAATTAAATTCTTTCCAA
TACAATATAG
Found at i:30971228 original size:138 final size:137
Alignment explanation
Indices: 30971063--30971477 Score: 620
Period size: 137 Copynumber: 3.0 Consensus size: 137
30971053 TAGAAAAAGA
* * *
30971063 AATTAAATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAG
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
30971128 TATAACTATTTATATTAATAAATTCGGTAAATTATATACAATTAATATTTTGTATGAATAAAATT
66 TATAACTATTTATATTAATAAATTCGGTAAA-TATATACAATTAATATTTTGTATGAATAAAATT
30971193 CATATATT
130 CATATATT
* * **
30971201 AATTATATTCTTTTCAAAAGAATATTAATTTCCTTGTCTTTTATATTTTGAATGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
30971266 TATAAATATTTATATTAATAAATTCGGTAAAATATATA-AATTAATATTTTATATGAATCAGATT
66 TATAACTATTTATATTAATAAATTCGGT-AAATATATACAATTAATATTTTGTATGAATAAAATT
30971330 CATATATT
130 CATATATT
*
30971338 AATTATATTATTTCCAAAAGAATATTAATTTCCATGT-TTTATATATTTTGACCGAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTT-TATATTTTGACCGAAATTAATTA
* * * ***
30971402 CTATAACAATTTATATTGATAAATTTTATAAA-ATATACAATTAATATTTTGTATGAATAAAATT
65 ATATAACTATTTATATTAATAAATTCGGTAAATATATACAATTAATATTTTGTATGAATAAAATT
30971466 CATATATT
130 CATATATT
30971474 AATT
1 AATT
30971478 TTATCTATGT
Statistics
Matches: 248, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
135 5 0.02
136 41 0.17
137 108 0.44
138 91 0.37
139 3 0.01
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.46
Consensus pattern (137 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTATTTATATTAATAAATTCGGTAAATATATACAATTAATATTTTGTATGAATAAAATTC
ATATATT
Found at i:30974024 original size:43 final size:44
Alignment explanation
Indices: 30973946--30974033 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 44
30973936 CCAAAACATG
30973946 TGTCACATATATCATGAACCCAGACCACAACTCATGAGTTCAGA
1 TGTCACATATATCATGAACCCAGACCACAACTCATGAGTTCAGA
* ** *
30973990 TGTCATATATATCAT-AACTTAGACCACTACTCATGAGTTCAGA
1 TGTCACATATATCATGAACCCAGACCACAACTCATGAGTTCAGA
30974033 T
1 T
30974034 CACATAGTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 26 0.65
44 14 0.35
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.28
Consensus pattern (44 bp):
TGTCACATATATCATGAACCCAGACCACAACTCATGAGTTCAGA
Found at i:30977409 original size:30 final size:30
Alignment explanation
Indices: 30977373--30977433 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30977363 CATAGGCTGG
* * *
30977373 CACATGGGTGTATGGGCTGCCCGTATGGAT
1 CACATGGGCGTATGGCCTACCCGTATGGAT
* *
30977403 CACATGGGCGTGTGGCCTACCCGTGTGGAT
1 CACATGGGCGTATGGCCTACCCGTATGGAT
30977433 C
1 C
30977434 CTAAAAACTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.15, C:0.25, G:0.36, T:0.25
Consensus pattern (30 bp):
CACATGGGCGTATGGCCTACCCGTATGGAT
Found at i:30983819 original size:14 final size:15
Alignment explanation
Indices: 30983800--30983829 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
30983790 ATTTTTGACT
30983800 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
30983814 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
30983829 T
1 T
30983830 CTTGATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:30987532 original size:48 final size:49
Alignment explanation
Indices: 30987447--30987567 Score: 142
Period size: 48 Copynumber: 2.5 Consensus size: 49
30987437 AGGGGATATA
* * * **
30987447 TTGATTTGGCTTCGGGCCATGAAATCGGCACTACGGGTGTGAG-TT-AC
1 TTGATTTGGCTTCGGGCTATGATATCGACACTACGGGTGCAAGCTTCAC
*
30987494 TTTGATTTGGCTTCGGGCTATGATATCGACACTTCGGGTGCAAGCTTCAC
1 -TTGATTTGGCTTCGGGCTATGATATCGACACTACGGGTGCAAGCTTCAC
30987544 -TGATTTGGCTAT-GGGCTATGATAT
1 TTGATTTGGCT-TCGGGCTATGATAT
30987568 TGGCACTTAG
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
48 59 0.92
49 3 0.05
50 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.34
Consensus pattern (49 bp):
TTGATTTGGCTTCGGGCTATGATATCGACACTACGGGTGCAAGCTTCAC
Found at i:30989870 original size:27 final size:26
Alignment explanation
Indices: 30989828--30990072 Score: 229
Period size: 27 Copynumber: 9.0 Consensus size: 26
30989818 GCAGAAATGG
*
30989828 TGACCGAAATACCCCCATAGGGTAAGA
1 TGACCGAAATA-CCCCATAGGGTAAAA
*
30989855 TGACTGAAATATCCCCATAGGGTAAAA
1 TGACCGAAATA-CCCCATAGGGTAAAA
* *
30989882 TGACCAAAATACCCCCAAAGGGTAAAA
1 TGACCGAAATA-CCCCATAGGGTAAAA
*
30989909 TGACCGAAATACTTCCATAGGGTAAAA
1 TGACCGAAATAC-CCCATAGGGTAAAA
* * *
30989936 TGACCCAAATACCCCCATAAGATAAAA
1 TGACCGAAATA-CCCCATAGGGTAAAA
* *
30989963 TGACCAAAATACCCCCAATAGGGTAAGA
1 TGACCGAAATA-CCCC-ATAGGGTAAAA
** ** *
30989991 TGATTGAAATACCGCTGTAGGGTAAGA
1 TGACCGAAATACC-CCATAGGGTAAAA
* * *
30990018 TGATCGAAATACCTCCATAAGATAAAA
1 TGACCGAAATACC-CCATAGGGTAAAA
*
30990045 TGACCGAAATACCCCTGTAGGGTAAAA
1 TGACCGAAATACCCC-ATAGGGTAAAA
30990072 T
1 T
30990073 AACTGTTTTG
Statistics
Matches: 179, Mismatches: 34, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
26 3 0.02
27 158 0.88
28 18 0.10
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.19
Consensus pattern (26 bp):
TGACCGAAATACCCCATAGGGTAAAA
Found at i:30990036 original size:82 final size:79
Alignment explanation
Indices: 30989828--30990059 Score: 284
Period size: 81 Copynumber: 2.8 Consensus size: 79
30989818 GCAGAAATGG
* * *
30989828 TGACCGAAATACCCCCATAGGGTAAGATGACTGAAATATCCCCATAGGGTAAAATGACCAAAATA
1 TGACCGAAATACCGCCATAGGGTAAGATGAC-GAAATA-CCCCATAAGATAAAATGACCAAAATA
30989893 CCCCCAAAGGGTAAAA
64 CCCCCAAAGGGTAAAA
** * *
30989909 TGACCGAAATACTTCCATAGGGTAAAATGACCCAAATACCCCCATAAGATAAAATGACCAAAATA
1 TGACCGAAATACCGCCATAGGGTAAGATGA-CGAAATA-CCCCATAAGATAAAATGACCAAAATA
*
30989974 CCCCCAATAGGGTAAGA
64 CCCCCAA-AGGGTAAAA
** ** *
30989991 TGATTGAAATACCGCTGTAGGGTAAGATGATCGAAATACCTCCATAAGATAAAATGACCGAAATA
1 TGACCGAAATACCGCCATAGGGTAAGATGA-CGAAATACC-CCATAAGATAAAATGACCAAAATA
30990056 CCCC
64 CCCC
30990060 TGTAGGGTAA
Statistics
Matches: 130, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
81 65 0.50
82 65 0.50
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.18
Consensus pattern (79 bp):
TGACCGAAATACCGCCATAGGGTAAGATGACGAAATACCCCATAAGATAAAATGACCAAAATACC
CCCAAAGGGTAAAA
Found at i:30990217 original size:81 final size:80
Alignment explanation
Indices: 30990067--30990254 Score: 189
Period size: 81 Copynumber: 2.3 Consensus size: 80
30990057 CCCTGTAGGG
* * * * * * *
30990067 TAAAATAACTGTTTTGCCCTTATGTGGCAAAATGACTATTTTACCCTTATGTGTTAAATTTACGG
1 TAAAATGAC-GTTTTGCCCTTATGTGGCAAAATGACTATTTTACCCTTATGCGATAAAATGAAGA
*
30990132 TTTTGCCCTTATGTGT
65 TTTTGCCCTTATGTGA
* ** * *
30990148 TAAATTGACAGTTTTGCCCTTATGTGTTAAAATGA-TGATTTTTCCCTTGTGCGATAAAATGAAG
1 TAAAATGAC-GTTTTGCCCTTATGTGGCAAAATGACT-ATTTTACCCTTATGCGATAAAATGAAG
*
30990212 ATTTTGCCCTTGTGTGA
64 ATTTTGCCCTTATGTGA
* *
30990229 TAAAATGACGATTTTTCCCTAATGTG
1 TAAAATGACG-TTTTGCCCTTATGTG
30990255 ATGTATGTTT
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
80 2 0.02
81 85 0.98
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (80 bp):
TAAAATGACGTTTTGCCCTTATGTGGCAAAATGACTATTTTACCCTTATGCGATAAAATGAAGAT
TTTGCCCTTATGTGA
Found at i:30990255 original size:27 final size:27
Alignment explanation
Indices: 30990078--30990256 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
30990068 AAAATAACTG
** *
30990078 TTTTGCCCTTATGTGGCAAAATGACTA
1 TTTTGCCCTTATGTGATAAAATGACGA
* * * * *
30990105 TTTTACCCTTATGTGTTAAATTTACGG
1 TTTTGCCCTTATGTGATAAAATGACGA
* *
30990132 TTTTGCCCTTATGTGTTAAATTGAC-A
1 TTTTGCCCTTATGTGATAAAATGACGA
* *
30990158 GTTTTGCCCTTATGTGTTAAAATGATGA
1 -TTTTGCCCTTATGTGATAAAATGACGA
* * * *
30990186 TTTTTCCCTTGTGCGATAAAATGAAGA
1 TTTTGCCCTTATGTGATAAAATGACGA
*
30990213 TTTTGCCCTTGTGTGATAAAATGACGA
1 TTTTGCCCTTATGTGATAAAATGACGA
* *
30990240 TTTTTCCCTAATGTGAT
1 TTTTGCCCTTATGTGAT
30990257 GTATGTTTAT
Statistics
Matches: 127, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
27 126 0.99
28 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (27 bp):
TTTTGCCCTTATGTGATAAAATGACGA
Found at i:30992278 original size:21 final size:22
Alignment explanation
Indices: 30992225--30992278 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
30992215 TGCAGGGCTC
**
30992225 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGACCCAAGGG
* *
30992247 ACACACTCGTGTGACCCAA-GG
1 ACACGCCCGTGTGACCCAAGGG
30992268 ACACGCCCGTG
1 ACACGCCCGTG
30992279 CCAAAGGTCG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.22, C:0.35, G:0.30, T:0.13
Consensus pattern (22 bp):
ACACGCCCGTGTGACCCAAGGG
Found at i:31000153 original size:40 final size:40
Alignment explanation
Indices: 31000030--31000253 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 40
31000020 TATTCGAAAG
* *
31000030 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * *
31000071 ATAACCGGACTAAGATCCG-AGGCATTCGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AG-TGACT
* *
31000110 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
31000150 ATATCCGGGCTAAAACTCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
31000190 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
31000230 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
31000254 CTTGTGCAAG
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 21 0.14
40 118 0.76
41 16 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:31002703 original size:21 final size:20
Alignment explanation
Indices: 31002674--31002713 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
31002664 ACAAAACTTG
31002674 CATAACTATCATCAAACATT
1 CATAACTATCATCAAACATT
*
31002694 CATAACCTATCATTAAACAT
1 CATAA-CTATCATCAAACAT
31002714 CAAAATACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (20 bp):
CATAACTATCATCAAACATT
Found at i:31003667 original size:17 final size:17
Alignment explanation
Indices: 31003624--31003668 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
31003614 ATCACTCTGA
31003624 GTACGATCCTCCTTTGG
1 GTACGATCCTCCTTTGG
*
31003641 GTATGATCCTCCTTTGG
1 GTACGATCCTCCTTTGG
*
31003658 GTACGGTCCTC
1 GTACGATCCTC
31003669 GGAGTACTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.11, C:0.29, G:0.24, T:0.36
Consensus pattern (17 bp):
GTACGATCCTCCTTTGG
Found at i:31004669 original size:12 final size:12
Alignment explanation
Indices: 31004652--31004694 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
31004642 CAGAAATGAG
31004652 AAAACTAATTGA
1 AAAACTAATTGA
31004664 AAAACTAATATGA
1 AAAACTAAT-TGA
*
31004677 GAAAACTGATT-A
1 -AAAACTAATTGA
31004689 AAAACT
1 AAAACT
31004695 GGGGGGATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.21
12 10 0.36
13 4 0.14
14 8 0.29
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.23
Consensus pattern (12 bp):
AAAACTAATTGA
Found at i:31005514 original size:8 final size:8
Alignment explanation
Indices: 31005501--31005528 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
31005491 GGGGTTAATT
31005501 TGTGAAAA
1 TGTGAAAA
31005509 TGTGAAAA
1 TGTGAAAA
31005517 TGTGAAAA
1 TGTGAAAA
31005525 TGTG
1 TGTG
31005529 GGGTTACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (8 bp):
TGTGAAAA
Found at i:31007382 original size:27 final size:27
Alignment explanation
Indices: 31007316--31007375 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 27
31007306 TATTTACTTA
*
31007316 AAAATGACCGAAATAACCCCATAGGGT
1 AAAATGACCGAAATAACCCCATAAGGT
31007343 AAAATGACCGAAAT-ACCCTCATAAGGT
1 AAAATGACCGAAATAACCC-CATAAGGT
31007370 AAAATG
1 AAAATG
31007376 GCAGAAACAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.47, C:0.20, G:0.17, T:0.17
Consensus pattern (27 bp):
AAAATGACCGAAATAACCCCATAAGGT
Found at i:31007520 original size:27 final size:27
Alignment explanation
Indices: 31007457--31007547 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 27
31007447 TGATAAACTA
* *
31007457 ACTATTTTGCCC-T-CGTGGTAAAAT-
1 ACTATTTTGCCCTTAGGTGGTAGAATG
* *
31007481 ACTATTTTTCCCTTATGTGGTAGAATG
1 ACTATTTTGCCCTTAGGTGGTAGAATG
* *
31007508 ACTAATTTGCCCTTAGGTGGTAGGATG
1 ACTATTTTGCCCTTAGGTGGTAGAATG
*
31007535 ACTGTTTTGCCCT
1 ACTATTTTGCCCT
31007548 ACGTGATGTA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
24 11 0.20
25 1 0.02
26 9 0.16
27 34 0.62
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (27 bp):
ACTATTTTGCCCTTAGGTGGTAGAATG
Found at i:31019956 original size:27 final size:27
Alignment explanation
Indices: 31019922--31019973 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
31019912 AAATGTAAAA
31019922 ATTATTTAATTAATTAAAGTTCAAATT
1 ATTATTTAATTAATTAAAGTTCAAATT
31019949 ATTATTTAATTAATTAAAGTTCAAA
1 ATTATTTAATTAATTAAAGTTCAAA
31019974 AATGGAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (27 bp):
ATTATTTAATTAATTAAAGTTCAAATT
Found at i:31019984 original size:27 final size:27
Alignment explanation
Indices: 31019927--31019989 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
31019917 TAAAAATTAT
* * *
31019927 TTAATTAATTAAAGTTCAAATTATTAT
1 TTAATTAATTAAAGTTCAAATAATGAA
31019954 TTAATTAATTAAAGTTCAAA-AATGGAA
1 TTAATTAATTAAAGTTCAAATAAT-GAA
31019981 TTAAATTAA
1 TT-AATTAA
31019990 CTGATCATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 2 0.06
27 23 0.74
28 6 0.19
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.41
Consensus pattern (27 bp):
TTAATTAATTAAAGTTCAAATAATGAA
Found at i:31026563 original size:34 final size:34
Alignment explanation
Indices: 31026522--31026592 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
31026512 AAGCTCCAGT
*
31026522 GTTAGTTTAGCCAGAATCGAGTAAGGAATTTATA
1 GTTAGTTTAGCCAGAATCAAGTAAGGAATTTATA
31026556 GTTAGTTTAGCCAGAATCAAGTAAGGAATTTATA
1 GTTAGTTTAGCCAGAATCAAGTAAGGAATTTATA
31026590 GTT
1 GTT
31026593 TACAGTGATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (34 bp):
GTTAGTTTAGCCAGAATCAAGTAAGGAATTTATA
Found at i:31028144 original size:41 final size:41
Alignment explanation
Indices: 31028082--31028163 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
31028072 AGGATTCATA
* **
31028082 ATGTCTTTCATGTGCCTATGCTACTACGGTACCAATCTGAT
1 ATGTCTTTCATGTGCCTATGCTACGACAATACCAATCTGAT
* *
31028123 ATGTTTTTCATGTGTCTATGCTACGACAATACCAATCTGAT
1 ATGTCTTTCATGTGCCTATGCTACGACAATACCAATCTGAT
31028164 CCTTCACACG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (41 bp):
ATGTCTTTCATGTGCCTATGCTACGACAATACCAATCTGAT
Found at i:31044725 original size:16 final size:16
Alignment explanation
Indices: 31044704--31044735 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31044694 AGTGTAACGC
31044704 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
31044720 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
31044736 TTTTGAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.38, G:0.06, T:0.06
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:31046030 original size:16 final size:16
Alignment explanation
Indices: 31046009--31046059 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
31045999 ATGTATCGGT
*
31046009 AAAAGCCGAAATGCCA
1 AAAAGCCGAAAAGCCA
* **
31046025 AAAAGCTGAAAAGCTG
1 AAAAGCCGAAAAGCCA
*
31046041 AAATGCCGAAAAGCCA
1 AAAAGCCGAAAAGCCA
31046057 AAA
1 AAA
31046060 GTTTGGCTAC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.53, C:0.20, G:0.20, T:0.08
Consensus pattern (16 bp):
AAAAGCCGAAAAGCCA
Found at i:31046043 original size:24 final size:24
Alignment explanation
Indices: 31046009--31046054 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
31045999 ATGTATCGGT
31046009 AAAAGCCGAAATGCCAAAAAGCTG
1 AAAAGCCGAAATGCCAAAAAGCTG
* *
31046033 AAAAGCTGAAATGCCGAAAAGC
1 AAAAGCCGAAATGCCAAAAAGC
31046055 CAAAAGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.20, G:0.22, T:0.09
Consensus pattern (24 bp):
AAAAGCCGAAATGCCAAAAAGCTG
Found at i:31046351 original size:28 final size:28
Alignment explanation
Indices: 31046270--31046355 Score: 136
Period size: 28 Copynumber: 3.0 Consensus size: 28
31046260 GTCAGCATGA
*
31046270 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
31046298 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
*
31046327 ATATGAATATGATTGGGCCTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
31046355 A
1 A
31046356 GATACAGGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 28 0.53
29 25 0.47
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:31047749 original size:13 final size:14
Alignment explanation
Indices: 31047715--31047752 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
31047705 TCTAAGTTTT
31047715 TATAGTATTATGTTA
1 TATA-TATTATGTTA
31047730 TATTATATTAT-TTA
1 TA-TATATTATGTTA
31047744 TATATATTA
1 TATATATTA
31047753 AATAATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.32
14 5 0.23
15 8 0.36
16 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (14 bp):
TATATATTATGTTA
Found at i:31050527 original size:99 final size:97
Alignment explanation
Indices: 31050353--31050570 Score: 269
Period size: 99 Copynumber: 2.2 Consensus size: 97
31050343 ATCATTATCA
* * *
31050353 TAATATTTTTA-TCTAACTAAATTCTCAAGAAGTAGAGATTCCCAAGTTTATACATCATCTTGAA
1 TAATATTTTTATTTTAACTAAATTCTCAAGAAGTAGAGATTCCCAAGTTTATACATAAGCTTGAA
* *
31050417 AACAAGATTTTTTGTT-GTTTGTTTAGTATTAC
66 AACAAGATTTTTTGTTCCTTTG-ATAGTATTAC
* * * * * *
31050449 TATACTATTTTTATTTTAACCAAATTGTGAAGAAGTAGATATTCCTAAGTTTATACTTAAGCTTG
1 TA-A-TATTTTTATTTTAACTAAATTCTCAAGAAGTAGAGATTCCCAAGTTTATACATAAGCTTG
* *
31050514 AAAACAAGATTTTTTTTTCCTTTGATATTATTAC
64 AAAACAAGATTTTTTGTTCCTTTGATAGTATTAC
*
31050548 TAATACTTTTATTTTAACTAAAT
1 TAATATTTTTATTTTAACTAAAT
31050571 ACTTTCATTT
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
96 2 0.02
97 19 0.18
98 9 0.09
99 69 0.67
100 4 0.04
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (97 bp):
TAATATTTTTATTTTAACTAAATTCTCAAGAAGTAGAGATTCCCAAGTTTATACATAAGCTTGAA
AACAAGATTTTTTGTTCCTTTGATAGTATTAC
Found at i:31061634 original size:16 final size:16
Alignment explanation
Indices: 31061613--31061644 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31061603 TATGTAACGC
31061613 CCCAAAAATCCCAAAA
1 CCCAAAAATCCCAAAA
31061629 CCCAAAAATCCCAAAA
1 CCCAAAAATCCCAAAA
31061645 TCCCGAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.38, G:0.00, T:0.06
Consensus pattern (16 bp):
CCCAAAAATCCCAAAA
Found at i:31063008 original size:16 final size:16
Alignment explanation
Indices: 31062987--31063017 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31062977 ATCAACAAAA
31062987 GCTGAAAAGCCGAAAT
1 GCTGAAAAGCCGAAAT
*
31063003 GCTGAAATGCCGAAA
1 GCTGAAAAGCCGAAA
31063018 AGCCAAAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.19, G:0.26, T:0.13
Consensus pattern (16 bp):
GCTGAAAAGCCGAAAT
Found at i:31063382 original size:28 final size:28
Alignment explanation
Indices: 31063258--31063382 Score: 128
Period size: 28 Copynumber: 4.4 Consensus size: 28
31063248 TTTGGGCTGG
*
31063258 ATGGGCCATATAAATGAGATTGGGCCTA
1 ATGGGCCATATGAATGAGATTGGGCCTA
* *
31063286 ATGGGCCATATAAATGTGAATTGGGCCTA
1 ATGGGCCATATGAATGAG-ATTGGGCCTA
* * **
31063315 ATGGGCCATAAGAAT-ATAAACGGGCC-A
1 ATGGGCCATATGAATGA-GATTGGGCCTA
*
31063342 GATGGGCCATATGAATGAGATTGGGCCTT
1 -ATGGGCCATATGAATGAGATTGGGCCTA
*
31063371 GTGGGCCATATG
1 ATGGGCCATATG
31063383 CATGTATGTA
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
27 1 0.01
28 54 0.68
29 24 0.30
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.24
Consensus pattern (28 bp):
ATGGGCCATATGAATGAGATTGGGCCTA
Found at i:31074161 original size:46 final size:45
Alignment explanation
Indices: 31074109--31074276 Score: 139
Period size: 46 Copynumber: 3.8 Consensus size: 45
31074099 TGGTTGAGCA
31074109 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * * ** * *** *
31074155 TTCGAACTCGTTGAGTCCGAATTC--GTGAAATGTAACTA-G-GCA-
1 TCCGAACTCGTTGAGT-TGAGTCCGAGTTCACT-TATGGATGCGAAG
*
31074197 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
31074243 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31074277 GGGGCGGGTT
Statistics
Matches: 89, Mismatches: 25, Indels: 16
0.68 0.19 0.12
Matches are distributed among these distances:
41 4 0.04
42 18 0.20
43 5 0.06
44 4 0.04
45 5 0.06
46 49 0.55
47 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:31077708 original size:46 final size:46
Alignment explanation
Indices: 31077531--31077747 Score: 194
Period size: 46 Copynumber: 4.7 Consensus size: 46
31077521 TTTGTGTGCT
* * *
31077531 AGTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATTATGAGAGCA
1 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGA-GATGAGAGCC
* * *
31077577 AGTGTAAGACCATGTCTGGGACATCGCATCGGC-ATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTA-CGAGATGAGAGCC
* * * *
31077625 AGTGTAAGATATTTTTGGGACATGTATCAGCCT-CGAGATGTA-AGCC
1 AGTGTAAGACATGTTTGGGACATGCATC-GGCTACGAGATG-AGAGCC
* * *
31077671 AGTGTAAGACATGTTTGGGACATGCATTGGCTACGAGAT--GTGTC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGAGAGCC
*
31077715 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGC
31077748 ATGGATATGT
Statistics
Matches: 140, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 59 0.42
47 28 0.20
48 25 0.18
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGAGAGCC
Found at i:31077770 original size:140 final size:141
Alignment explanation
Indices: 31077531--31077844 Score: 363
Period size: 140 Copynumber: 2.2 Consensus size: 141
31077521 TTTGTGTGCT
* *
31077531 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCAAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTTTGGGACATGCATTGGCCACATGATGAGAGCAAGTGTAAGACCATGTCTGG
* * * * *
31077596 GACATCGCATCGGCATTGAGATGAGAGCTAGTGTAAGA-TATTT-TTGGGACAT-GTATCAGCCT
66 GACATCGCATCGGCATGGAGATGAGAGCTAGTGTAAGACCATTTCTGGGGACATAGCATC-GACT
31077658 CGA-GATGTAAGCC
130 CGAGGATG--AGCC
* * *
31077671 AGTGTAAGACATGTTTGGGACATGCATTGGCTACGA-GATGTG-TC-AGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTTTGGGACATGCATTGGCCAC-ATGATGAGAGCAAGTGTAAGACCATGTCTG
* * *
31077733 GGACATGGCATCGGCATGGATATGTGAGAGCTGGTGTAAGACCATTTCTGGGGACATAGCATCGA
65 GGACATCGCATCGGCATGGAGA--TGAGAGCTAGTGTAAGACCATTTCTGGGGACATAGCATCGA
*
31077798 CTTGATGGATGAGCC
128 CTCGA-GGATGAGCC
*
31077813 AGTGTAAGACCATGTCTGGGACATGGCATTGG
1 AGTGTAAGA-CATGTTTGGGACAT-GCATTGG
31077845 TATTATACCC
Statistics
Matches: 149, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
138 37 0.25
139 1 0.01
140 52 0.35
141 5 0.03
142 26 0.17
143 17 0.11
144 11 0.07
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (141 bp):
AGTGTAAGACATGTTTGGGACATGCATTGGCCACATGATGAGAGCAAGTGTAAGACCATGTCTGG
GACATCGCATCGGCATGGAGATGAGAGCTAGTGTAAGACCATTTCTGGGGACATAGCATCGACTC
GAGGATGAGCC
Found at i:31077774 original size:50 final size:47
Alignment explanation
Indices: 31077572--31077841 Score: 157
Period size: 46 Copynumber: 5.7 Consensus size: 47
31077562 CACATTATGA
* * *
31077572 GAGCAAGTGTAAGACCATGTCTGGGACATCGCATCGGCATTGAGAT-GA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTG-GATGGAT
* * * * * *
31077620 GAGCTAGTGTAAGA-TATTTTTGGGACAT-GTATCAGCCTCGAGAT-G-T
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACT-G-GATGGAT
* * * * *
31077666 AAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATTGGCT--ACGAGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTGGATG-GAT
* * *
31077710 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TGG--ATG-GAT
** * * *
31077760 GAGCTGGTGTAAGACCATTTCTGGGGACATAGCATCGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCT-GGGACATGGCATCGACTGGATGGAT
31077808 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
31077842 TGGTATTATA
Statistics
Matches: 173, Mismatches: 35, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
41 1 0.01
43 1 0.01
44 12 0.07
45 17 0.10
46 45 0.26
47 25 0.14
48 35 0.20
50 19 0.11
51 18 0.10
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTGGATGGAT
Found at i:31082111 original size:41 final size:43
Alignment explanation
Indices: 31082033--31082143 Score: 129
Period size: 41 Copynumber: 2.6 Consensus size: 43
31082023 GCATATACGT
* * **
31082033 GGTCTTACATGTAATCATATATCGATG-CCACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATATCGATGTTGA-TGTCCCAGACAG
* *
31082076 GGTCTTATACG-AATCAAATAT-GATGTTGATGTCCCAGACAT
1 GGTCTTACACGTAATCAAATATCGATGTTGATGTCCCAGACAG
*
31082117 GGTCTTACACGTAATCACATATCGATG
1 GGTCTTACACGTAATCAAATATCGATG
31082144 CCAACGTCCT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
41 25 0.44
42 19 0.33
43 13 0.23
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
GGTCTTACACGTAATCAAATATCGATGTTGATGTCCCAGACAG
Found at i:31091839 original size:39 final size:40
Alignment explanation
Indices: 31091674--31091838 Score: 271
Period size: 40 Copynumber: 4.2 Consensus size: 40
31091664 AACCCAAGTA
* * *
31091674 CCTTCGGGATTTAG-CCGGATATAGCAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
31091713 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
31091753 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
31091793 CCTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
31091832 CCTTCGG
1 CCTTCGG
31091839 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 50 0.42
40 69 0.58
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:31091845 original size:79 final size:80
Alignment explanation
Indices: 31091674--31091850 Score: 272
Period size: 79 Copynumber: 2.2 Consensus size: 80
31091664 AACCCAAGTA
*
31091674 CCTTCGGGAT-TTAGCCGGATATAGCAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGATCTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
31091738 TAACTCGCACAAATG
66 TAACTAGCACAAATG
*
31091753 CCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGACTTAGCCCGGATATA
1 CCTTCGGGATCTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
31091816 GTCACTAGCACAAATG
65 GTAACTAGCACAAATG
31091832 CCTTC-GGATCTTAGTCCGG
1 CCTTCGGGATCTTAG-CCGG
31091851 TTATCATCCG
Statistics
Matches: 90, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGATCTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:31123124 original size:93 final size:93
Alignment explanation
Indices: 31122993--31123164 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
31122983 GCCCATAAGT
* * * * *
31122993 GAACTCGGATTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31123058 CGAGCTCGGATGCCTAGTTAAATCTCTC
66 CGAGCTCGGATGCCTAGTTAAATCTCTC
* *
31123086 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
31123151 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
31123165 CAAACATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTAAATCTCTC
Found at i:31123153 original size:46 final size:46
Alignment explanation
Indices: 31122985--31123160 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
31122975 TGTAATCCGC
* * * * *
31122985 CCATAAGTGAACTCGGATTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * **
31123031 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTAAAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
31123081 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
31123124 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
31123161 TGCCCAAACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
46 62 0.59
47 27 0.26
49 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:31123179 original size:46 final size:46
Alignment explanation
Indices: 31123036--31123179 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 46
31123026 CGCATCCATA
* *
31123036 AGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTAA-ATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA---AACATC-CT
* * ***
31123085 --CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAACATCC-T
*
31123128 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAACATCCT
31123175 AGTGA
1 AGTGA
31123180 CATGTCACTT
Statistics
Matches: 75, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
45 2 0.03
46 34 0.45
47 28 0.37
48 6 0.08
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAACATCCT
Found at i:31138022 original size:34 final size:33
Alignment explanation
Indices: 31137949--31138036 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 33
31137939 CTGTACTGAA
* **
31137949 ATGGGCTAAGGCCCACACTAATACTATTACTAT
1 ATGGGCTAAGGCCCACACTGATACTACAACTAT
* *
31137982 ATTGGGCTAAGGCCCACACTGATACTGCAATTGAT
1 A-TGGGCTAAGGCCCACACTGATACTACAACT-AT
*
31138017 ATGGGCTTAA-GCCCAGACTG
1 ATGGGC-TAAGGCCCACACTG
31138037 TTCAACACTG
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
33 1 0.02
34 39 0.85
35 6 0.13
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.25
Consensus pattern (33 bp):
ATGGGCTAAGGCCCACACTGATACTACAACTAT
Found at i:31139388 original size:13 final size:13
Alignment explanation
Indices: 31139370--31139395 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31139360 CATAGTCATG
31139370 TGAGACACACGCC
1 TGAGACACACGCC
31139383 TGAGACACACGCC
1 TGAGACACACGCC
31139396 CGTGTCTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.23, T:0.08
Consensus pattern (13 bp):
TGAGACACACGCC
Found at i:31142364 original size:5 final size:5
Alignment explanation
Indices: 31142356--31142382 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
31142346 CAAAAATAAA
31142356 ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT
31142383 GGTTGACATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:31142497 original size:17 final size:17
Alignment explanation
Indices: 31142475--31142528 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
31142465 AAAATGTACA
31142475 AAATAGCTATGGAATTC
1 AAATAGCTATGGAATTC
*
31142492 AAATAGCTATAGGTA-TC
1 AAATAGCTAT-GGAATTC
31142509 AAATAGCTATGGAATTC
1 AAATAGCTATGGAATTC
31142526 AAA
1 AAA
31142529 ACTTAAGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 3 0.09
17 27 0.82
18 3 0.09
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (17 bp):
AAATAGCTATGGAATTC
Found at i:31148826 original size:39 final size:38
Alignment explanation
Indices: 31148778--31148893 Score: 160
Period size: 39 Copynumber: 2.9 Consensus size: 38
31148768 GCCAGGACAT
* *
31148778 ATTTCCAGCACGTAGCCTGCAGACCTTAAGTCCGGTTATA
1 ATTT-CAGCACATAGCCTGC-GACCTTAAGTCCGGATATA
31148818 ATTTCAGCACATAGCCTGCGCACCTTAAGTCCGGATATA
1 ATTTCAGCACATAGCCTGCG-ACCTTAAGTCCGGATATA
* *
31148857 ATTCCAGCACATAGCCCGCGGACCTTAAGTCCGGATA
1 ATTTCAGCACATAGCCTGC-GACCTTAAGTCCGGATA
31148894 AACATCACTG
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
38 1 0.01
39 64 0.91
40 5 0.07
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (38 bp):
ATTTCAGCACATAGCCTGCGACCTTAAGTCCGGATATA
Found at i:31153047 original size:20 final size:20
Alignment explanation
Indices: 31152990--31153047 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
31152980 AACATGGTAC
*
31152990 GTATGATATGCACATGACAT
1 GTATGATATGCACATGATAT
*
31153010 GTATTATATGCACATGATAT
1 GTATGATATGCACATGATAT
31153030 GTATGATATGCACATGAT
1 GTATGATATGCACATGAT
31153048 GTATTCATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:31153123 original size:24 final size:24
Alignment explanation
Indices: 31153096--31153226 Score: 219
Period size: 24 Copynumber: 5.5 Consensus size: 24
31153086 GGAGGAAGTG
31153096 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
31153120 CAAAAAGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
31153144 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
31153168 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
31153192 AAAAAAGGCTTATGCCCCAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
31153215 CTAAAAGGGCTT
1 C-AAAAGGGCTT
31153227 GCATTCATTT
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
24 100 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:31161088 original size:25 final size:25
Alignment explanation
Indices: 31161059--31161106 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31161049 TTATAACATG
* * *
31161059 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
31161084 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
31161107 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:31161190 original size:11 final size:11
Alignment explanation
Indices: 31161154--31161209 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
31161144 CATGGTATGT
31161154 ATGATATGCAC
1 ATGATATGCAC
* *
31161165 ATGACATG--T
1 ATGATATGCAC
31161174 ATGATATGCAC
1 ATGATATGCAC
*
31161185 ATGATATG--T
1 ATGATATGCAC
31161194 ATGATATGCAC
1 ATGATATGCAC
31161205 ATGAT
1 ATGAT
31161210 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:31161209 original size:20 final size:20
Alignment explanation
Indices: 31161143--31161209 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
31161133 ATTTTGATAA
*
31161143 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
31161163 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
31161183 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
31161203 ACATGAT
1 ACATGAT
31161210 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Done.