Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 194 of 318
Found at i:60865145 original size:27 final size:26
Alignment explanation
Indices: 60865091--60865289 Score: 107
Period size: 27 Copynumber: 7.5 Consensus size: 26
60865081 GGGTACTTTG
60865091 GTAATTTTACAAGTCAAGGTATTTCA
1 GTAATTTTACAAGTCAAGGTATTTCA
* *
60865117 GTAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAGTC-AAGGTATTTCA
* * * **
60865144 GTAATTTCACAAATCAGGGGTATTTTG
1 GTAATTTTACAAGTCA-AGGTATTTCA
* * * **
60865171 GTAATTTTATAA-ACTAGGGGTATTTTG
1 GTAATTTTACAAGTC-A-AGGTATTTCA
* * **
60865198 GTAATTTTACACACT-AGGGGTATTTTG
1 GTAATTTTACA-AGTCA-AGGTATTTCA
* * *
60865225 GTAATTTTATAAATCAAGGTTATTTTA
1 GTAATTTTACAAGTCAAGG-TATTTCA
** *
60865252 GTAATTTTACAAACCAAGGGTATTT-G
1 GTAATTTTACAAGTCAA-GGTATTTCA
60865278 GTAATTTTACAA
1 GTAATTTTACAA
60865290 ACTAGGGGTA
Statistics
Matches: 146, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
26 32 0.22
27 111 0.76
28 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAAGTCAAGGTATTTCA
Found at i:60865175 original size:54 final size:53
Alignment explanation
Indices: 60865081--60865303 Score: 191
Period size: 54 Copynumber: 4.2 Consensus size: 53
60865071 TGTAAATCGG
* * * * ** * *
60865081 GGGTACTTTGGTAATTTTACAAGTCA-AGGTATTTCAGTAATTTTACAGGTCGA
1 GGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACA-ATCAA
* * * * *
60865134 GGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTATAAACTAG
1 GGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAATC-AA
* * *
60865188 GGGTATTTTGGTAATTTTACACA-CTAGGGGTATTTTGGTAATTTTATAAATCAA
1 GGGTATTTTAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTA-CAATCAA
* * * * *
60865242 GGTTATTTTAGTAATTTTACAAACCAAGGGTA-TTTGGTAATTTTACAAACTAG
1 GGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAATC-AA
60865295 GGGTATTTT
1 GGGTATTTT
60865304 GGTGATTTGG
Statistics
Matches: 136, Mismatches: 28, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
52 3 0.02
53 45 0.33
54 84 0.62
55 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (53 bp):
GGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAATCAA
Found at i:60865229 original size:81 final size:80
Alignment explanation
Indices: 60865081--60865311 Score: 241
Period size: 81 Copynumber: 2.9 Consensus size: 80
60865071 TGTAAATCGG
* * ** * ** * **
60865081 GGGTACTTTGGTAATTTTACAAGTCAA-GGTATTTCAGTAATTTTAC-AGGTCGAGGGTATTTCA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTT-GGTAATTTTACAAACTAG-GGGTATTTTG
*
60865144 GTAATTTCACAAATCAG
64 GTAATTTCACAAATCAA
* * * * *
60865161 GGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTACACACTAGGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTA-TTTGGTAATTTTACAAACTAGGGGTATTTTGG
* *
60865226 TAATTTTATAAATCAA
65 TAATTTCACAAATCAA
*
60865242 GGTTATTTTAGTAATTTTACAAACCAAGGGTATTTGGTAATTTTACAAACTAGGGGTATTTTGGT
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTGGTAATTTTACAAACTAGGGGTATTTTGGT
*
60865307 GATTT
66 AATTT
60865312 GGTAAACTAA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
80 57 0.46
81 63 0.50
82 5 0.04
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (80 bp):
GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTGGTAATTTTACAAACTAGGGGTATTTTGGT
AATTTCACAAATCAA
Found at i:60865318 original size:27 final size:27
Alignment explanation
Indices: 60865159--60865320 Score: 193
Period size: 27 Copynumber: 6.0 Consensus size: 27
60865149 TTCACAAATC
60865159 AGGGGTATTTTGGTAATTTTATAAACT
1 AGGGGTATTTTGGTAATTTTATAAACT
* *
60865186 AGGGGTATTTTGGTAATTTTACACACT
1 AGGGGTATTTTGGTAATTTTATAAACT
60865213 AGGGGTATTTTGGTAATTTTATAAA-T
1 AGGGGTATTTTGGTAATTTTATAAACT
* * * * *
60865239 CAAGGTTATTTTAGTAATTTTACAAACC
1 -AGGGGTATTTTGGTAATTTTATAAACT
* *
60865267 AAGGGTA-TTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTATAAACT
* **
60865293 AGGGGTATTTTGGTGATTTGGTAAACT
1 AGGGGTATTTTGGTAATTTTATAAACT
60865320 A
1 A
60865321 AAGTTGTAAC
Statistics
Matches: 115, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
26 24 0.21
27 91 0.79
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTATAAACT
Found at i:60866071 original size:31 final size:30
Alignment explanation
Indices: 60865997--60866080 Score: 111
Period size: 29 Copynumber: 2.8 Consensus size: 30
60865987 AATCAGTCTC
60865997 AACATATACTGGGCCGAAGCC-TTTCATTA
1 AACATATACTGGGCCGAAGCCTTTTCATTA
60866026 AACGAT-TACTGGGCCGAAGCCTTTTCA-TA
1 AAC-ATATACTGGGCCGAAGCCTTTTCATTA
*
60866055 ATTCATATCACTGGGCCGAAGCCTTT
1 A-ACATAT-ACTGGGCCGAAGCCTTT
60866081 ACTATAAATG
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
29 23 0.47
30 9 0.18
31 17 0.35
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (30 bp):
AACATATACTGGGCCGAAGCCTTTTCATTA
Found at i:60866496 original size:25 final size:25
Alignment explanation
Indices: 60866451--60866499 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
60866441 ATAATTAAAC
*
60866451 CCTAAGGGTATAACGGACATTTTTA
1 CCTAAGGGTATAACAGACATTTTTA
*
60866476 CCTAAGGGTA-AAGCAGTCATTTTT
1 CCTAAGGGTATAA-CAGACATTTTT
60866500 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (25 bp):
CCTAAGGGTATAACAGACATTTTTA
Found at i:60868527 original size:29 final size:29
Alignment explanation
Indices: 60868495--60868601 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
60868485 ATACCCTTCG
**
60868495 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATTTTTCC
* * * *
60868524 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATTTTTCC
* *
60868553 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCGTATTTTTCC
* *
60868582 ATCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
60868602 AAAGCAAACT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
29 63 0.98
30 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATTTTTCC
Found at i:60874651 original size:21 final size:21
Alignment explanation
Indices: 60874627--60874672 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
60874617 GCGGGAGCAG
60874627 CCGCTACACCTTCAACGTCAT
1 CCGCTACACCTTCAACGTCAT
60874648 CCGCTACACCTTCAACGTCAT
1 CCGCTACACCTTCAACGTCAT
60874669 CCGC
1 CCGC
60874673 CAAGGGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.46, G:0.11, T:0.22
Consensus pattern (21 bp):
CCGCTACACCTTCAACGTCAT
Found at i:60876314 original size:29 final size:29
Alignment explanation
Indices: 60876282--60876417 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
60876272 ATACCCTTCG
** * *
60876282 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
60876311 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
60876340 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
60876369 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
60876398 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
60876418 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:60876409 original size:58 final size:58
Alignment explanation
Indices: 60876258--60876416 Score: 174
Period size: 58 Copynumber: 2.7 Consensus size: 58
60876248 ATTTAAGCCT
* *** * * ** * **
60876258 GCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCTT
1 GCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCAC
* * * *
60876316 GCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCAC
1 GCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCAC
*
60876374 GCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 GCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
60876417 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
GCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCAC
Found at i:60888918 original size:40 final size:40
Alignment explanation
Indices: 60888873--60889039 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
60888863 CGGAATATAA
60888873 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
60888913 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
60888953 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
60888993 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
60889032 CCGGATAT
1 CCGGATAT
60889040 TATTCGATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:60891071 original size:39 final size:39
Alignment explanation
Indices: 60890952--60891135 Score: 233
Period size: 39 Copynumber: 4.7 Consensus size: 39
60890942 CTCGTTCAAA
* * ** * *
60890952 TGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAA
1 TGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAAT
* * * * *
60890992 GGCCTTCGGGACTTAACCCGGATATCACAATTTGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAAT
*
60891032 TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAAT
1 TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
*
60891071 TGCATTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
60891110 TGCCTTCGGGCTTAGCCCGGATATCA
1 TGCCTTCGGGCTTAGCCCGGATATCA
60891136 CTCGAACATT
Statistics
Matches: 124, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
39 86 0.69
40 38 0.31
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.24
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
Found at i:60898492 original size:39 final size:39
Alignment explanation
Indices: 60898374--60898556 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
60898364 TCGTTCAAAC
* * ** * **
60898374 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
60898414 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
60898454 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
60898493 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
60898532 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
60898557 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:60902486 original size:40 final size:40
Alignment explanation
Indices: 60902427--60902568 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
60902417 AAATTGAATG
* * *
60902427 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
60902467 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
60902507 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
60902547 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
60902569 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:60902569 original size:40 final size:39
Alignment explanation
Indices: 60902466--60902594 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
60902456 TGCTGGAAAT
* * *
60902466 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
60902506 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
60902546 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
60902586 TATATCCGG
1 TATATCCGG
60902595 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:60910507 original size:40 final size:40
Alignment explanation
Indices: 60910448--60910589 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
60910438 AAATTGAATG
* * *
60910448 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
60910488 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
60910528 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
60910568 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
60910590 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:60910590 original size:40 final size:39
Alignment explanation
Indices: 60910487--60910615 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
60910477 TGCTGGAAAT
* * *
60910487 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
60910527 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
60910567 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
60910607 TATATCCGG
1 TATATCCGG
60910616 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:60916837 original size:39 final size:39
Alignment explanation
Indices: 60916785--60916936 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
60916775 TATGGTAACC
** * *
60916785 CGCACAAAGGCCTTCGGGACTTA-ACCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
60916824 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
60916863 CGCCCAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
60916902 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
60916937 TCGAACATTC
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 4 0.04
39 98 0.96
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:60922924 original size:21 final size:21
Alignment explanation
Indices: 60922899--60922943 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
60922889 ACAGATCATT
*
60922899 TAACAGGAATTTTGCTTCACA
1 TAACAGGAATTTCGCTTCACA
**
60922920 TAACATTAATTTCGCTTCACA
1 TAACAGGAATTTCGCTTCACA
60922941 TAA
1 TAA
60922944 TATTCATACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (21 bp):
TAACAGGAATTTCGCTTCACA
Found at i:60924024 original size:34 final size:34
Alignment explanation
Indices: 60923981--60924054 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
60923971 AGTGCCACGA
60923981 TTCACAACTCAGTATGGAAACACCATACCTA-TGT
1 TTCACAACTCAGTATGGAAACACCATACCTACT-T
* *
60924015 TTCACAACTCGGTATGGAAATACCATACCTACTT
1 TTCACAACTCAGTATGGAAACACCATACCTACTT
60924049 TTCACA
1 TTCACA
60924055 CTTTGCCATG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (34 bp):
TTCACAACTCAGTATGGAAACACCATACCTACTT
Found at i:60924141 original size:27 final size:27
Alignment explanation
Indices: 60924109--60924173 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
60924099 GATCACTGAA
*
60924109 CACTTTGCTAT-ATTTGGCACACTATAT
1 CACTTTGCCATGA-TTGGCACACTATAT
* *
60924136 CGCTTTGCCATGATTGGCACACTTTAT
1 CACTTTGCCATGATTGGCACACTATAT
60924163 CACTTTGCCAT
1 CACTTTGCCAT
60924174 AGTTCAACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTATAT
Found at i:60924313 original size:31 final size:31
Alignment explanation
Indices: 60924270--60924417 Score: 224
Period size: 31 Copynumber: 4.8 Consensus size: 31
60924260 CTTGTCACTT
* *
60924270 GTAGCTGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** * * * *
60924301 GTAGTTGGAGCTACCACCTTTCACTAATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
60924332 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
60924363 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
60924394 GTAGCCGAAGCTACCACTTTTCAC
1 GTAGCCGAAGCTACCACTTTTCAC
60924418 ATTGTACACA
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 105 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:60924494 original size:33 final size:33
Alignment explanation
Indices: 60924419--60924522 Score: 142
Period size: 33 Copynumber: 3.2 Consensus size: 33
60924409 ACTTTTCACA
* * *
60924419 TTGTACACACAAGGCGTACATTTCCTTTTCAAG
1 TTGTACACACAAAGTGTACATTTCCTTTTTAAG
60924452 -TGTACACACAAAGTGTACATTTCCTTTTTAAG
1 TTGTACACACAAAGTGTACATTTCCTTTTTAAG
60924484 TTGTACACACACAA-TGTACATTTCCTTTTCT-AG
1 TTGTACACACA-AAGTGTACATTTCCTTTT-TAAG
60924517 TTGTAC
1 TTGTAC
60924523 CTTTTAGGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
32 29 0.45
33 33 0.51
34 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (33 bp):
TTGTACACACAAAGTGTACATTTCCTTTTTAAG
Found at i:60927684 original size:20 final size:20
Alignment explanation
Indices: 60927637--60927674 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60927627 TGGGTAAGAG
**
60927637 ACACGGGCGCGTCCCAATAC
1 ACACGGGCATGTCCCAATAC
60927657 ACACGGGCATGTCCCAAT
1 ACACGGGCATGTCCCAAT
60927675 GCATATGGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.37, G:0.24, T:0.13
Consensus pattern (20 bp):
ACACGGGCATGTCCCAATAC
Found at i:60938883 original size:17 final size:18
Alignment explanation
Indices: 60938841--60938889 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
60938831 AGTTGAAAAG
60938841 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
60938860 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
60938877 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
60938890 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:60939778 original size:40 final size:40
Alignment explanation
Indices: 60939712--60939878 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
60939702 AAATTGAATG
* * *
60939712 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
60939751 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
60939791 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
60939831 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
60939871 ATATCCGG
1 ATATCCGG
60939879 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:60943601 original size:52 final size:53
Alignment explanation
Indices: 60943503--60943608 Score: 196
Period size: 52 Copynumber: 2.0 Consensus size: 53
60943493 TATTCATCGT
*
60943503 TTCAAGCATTTAAGAAACATGGGCTTTATGTACATAACTGAATCATCTCGAAA
1 TTCAAGCATTTAAGAAACATGGGCTTTATGTACATAACTGAATCATCTCAAAA
60943556 TTCAAGCATTTAAGAAACATGGG-TTTATGTACATAACTGAATCATCTCAAAA
1 TTCAAGCATTTAAGAAACATGGGCTTTATGTACATAACTGAATCATCTCAAAA
60943608 T
1 T
60943609 GAATTTACAC
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 29 0.56
53 23 0.44
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (53 bp):
TTCAAGCATTTAAGAAACATGGGCTTTATGTACATAACTGAATCATCTCAAAA
Found at i:60949226 original size:41 final size:42
Alignment explanation
Indices: 60949169--60949251 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
60949159 GTCAACTAAA
60949169 GTGTGGAGGTAACATAG-AAATTTTTTTTTGTTTTCAATCTT
1 GTGTGGAGGTAACATAGAAAATTTTTTTTTGTTTTCAATCTT
60949210 GTGTGGAGGTAACATAGAAAATTTTTTTTTGTTTTCAATCTT
1 GTGTGGAGGTAACATAGAAAATTTTTTTTTGTTTTCAATCTT
60949252 TACATTTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 17 0.41
42 24 0.59
ACGTcount: A:0.25, C:0.07, G:0.19, T:0.48
Consensus pattern (42 bp):
GTGTGGAGGTAACATAGAAAATTTTTTTTTGTTTTCAATCTT
Found at i:60952535 original size:27 final size:26
Alignment explanation
Indices: 60952487--60952546 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
60952477 GCGAGACTGC
*
60952487 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
60952514 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
60952540 CAGATAT
1 CAGATAT
60952547 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:60952559 original size:33 final size:32
Alignment explanation
Indices: 60952508--60952571 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
60952498 ACGAAGTCAC
* *
60952508 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
60952540 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
60952572 TTGCAGCGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:60952894 original size:27 final size:27
Alignment explanation
Indices: 60952864--60953008 Score: 152
Period size: 27 Copynumber: 5.3 Consensus size: 27
60952854 GGGGTAAAAT
* *
60952864 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
60952891 GGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
* * *
60952918 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
60952945 GGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
60952972 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
60952999 GATAAATTTT
1 GGT-AATTTT
60953009 GTAAATCGAG
Statistics
Matches: 102, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
26 6 0.06
27 89 0.87
28 3 0.03
29 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:60952996 original size:54 final size:54
Alignment explanation
Indices: 60952868--60952999 Score: 185
Period size: 54 Copynumber: 2.5 Consensus size: 54
60952858 TAAAATGGTA
* * *
60952868 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGT
* * * * *
60952921 AATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGT
60952975 ATTTCTACCCTACAAGGGTATTTCG
1 ATTTCTACCCTACAAGGGTATTTCG
60953000 ATAAATTTTG
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 3 0.04
54 65 0.96
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGT
Found at i:60953057 original size:27 final size:27
Alignment explanation
Indices: 60953027--60953304 Score: 263
Period size: 27 Copynumber: 10.3 Consensus size: 27
60953017 AGGGTAAAAC
* * *
60953027 GGTAATTCTATAAATCAAGGGTACTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
* ** *
60953054 GGTAATTTTACAAGTTGAGGGTATTTC
1 GGTAATTTTACAAATCAAGGGTATTTT
** ** * *
60953081 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCAAGGGTATTTT
* * * *
60953108 AGTAATTTCACAAATTAGGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
*
60953135 GGTAATTTTACAAA-CTATGGGTATTTT
1 GGTAATTTTACAAATC-AAGGGTATTTT
* * *
60953162 GGTAATTTTAAAAACCAGGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
*
60953189 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATC-AAGGGTATTTT
* *
60953216 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
*
60953243 GGTAATTTTACAAATCAGGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
** * *
60953270 GGTAATTTTGTAAACCAAAGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
60953297 GGTAATTT
1 GGTAATTT
60953305 CGTAAACTAA
Statistics
Matches: 211, Mismatches: 36, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.00
27 208 0.99
28 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACAAATCAAGGGTATTTT
Found at i:60955282 original size:59 final size:59
Alignment explanation
Indices: 60955190--60955307 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
60955180 TTGTACCTAC
* *
60955190 ATTAATACTTGCATACATATACCAACCAATTAAAGATGTTAAAACCAAGCCAAAACCAA
1 ATTAATACTTGCAGACATATACCAACCAATTAAAGATGTTAAAACCAAACCAAAACCAA
60955249 ATTAATACTTGCAGACATATACCAACCAATTAAAGATGTTAAAACCAAACCAAAACCAA
1 ATTAATACTTGCAGACATATACCAACCAATTAAAGATGTTAAAACCAAACCAAAACCAA
60955308 TCTTATACAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.50, C:0.22, G:0.07, T:0.21
Consensus pattern (59 bp):
ATTAATACTTGCAGACATATACCAACCAATTAAAGATGTTAAAACCAAACCAAAACCAA
Found at i:60955308 original size:30 final size:30
Alignment explanation
Indices: 60955213--60955308 Score: 76
Period size: 30 Copynumber: 3.2 Consensus size: 30
60955203 TACATATACC
*
60955213 AACCAATTAAAGATGTTAAAACCAAGCCAA
1 AACCAATTAAAGATGTTAAAACCAAACCAA
* ** *
60955243 AACCAAATTAATA-CT-TGCAGA-CATATACC--
1 AACC-AATTAA-AGATGTTAAAACCA-A-ACCAA
60955272 AACCAATTAAAGATGTTAAAACCAAACCAA
1 AACCAATTAAAGATGTTAAAACCAAACCAA
60955302 AACCAAT
1 AACCAAT
60955309 CTTATACATG
Statistics
Matches: 48, Mismatches: 9, Indels: 18
0.64 0.12 0.24
Matches are distributed among these distances:
27 1 0.02
28 10 0.21
29 10 0.21
30 17 0.35
31 9 0.19
32 1 0.02
ACGTcount: A:0.52, C:0.22, G:0.07, T:0.19
Consensus pattern (30 bp):
AACCAATTAAAGATGTTAAAACCAAACCAA
Found at i:60955740 original size:13 final size:13
Alignment explanation
Indices: 60955722--60955755 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
60955712 TAGTTATGTA
60955722 TATTCAAAATAAG
1 TATTCAAAATAAG
60955735 TATTCAAAATAAG
1 TATTCAAAATAAG
*
60955748 TATACAAA
1 TATTCAAA
60955756 CATGCATCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.29
Consensus pattern (13 bp):
TATTCAAAATAAG
Found at i:60956273 original size:23 final size:25
Alignment explanation
Indices: 60956242--60956305 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 25
60956232 CAGATAGCTA
* * *
60956242 TATAACAGGAAGTTCA-AATGAGCC
1 TATATCAGGAAGCTCACAAAGAGCC
60956266 -ATATCAGGAAGCTCACAAAGAGCC
1 TATATCAGGAAGCTCACAAAGAGCC
* *
60956290 TATATTAGGACGCTCA
1 TATATCAGGAAGCTCA
60956306 TAAATAGCTG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 13 0.39
24 7 0.21
25 13 0.39
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (25 bp):
TATATCAGGAAGCTCACAAAGAGCC
Found at i:60959272 original size:28 final size:28
Alignment explanation
Indices: 60959226--60959294 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
60959216 TTTAAAACCC
*
60959226 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
60959253 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
60959281 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
60959295 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:60961070 original size:12 final size:12
Alignment explanation
Indices: 60961055--60961079 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60961045 ACAGTAAATA
60961055 ATAAAAATTTTC
1 ATAAAAATTTTC
60961067 ATAAAAATTTTC
1 ATAAAAATTTTC
60961079 A
1 A
60961080 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:60963912 original size:92 final size:92
Alignment explanation
Indices: 60963799--60963979 Score: 308
Period size: 92 Copynumber: 2.0 Consensus size: 92
60963789 CTACAGGTTT
* * *
60963799 GGCACGGCCTGGCACATGGGCATGTGAGGCCATTTTAAAGGGCACACTAGCCTGTGTGTTGGCCG
1 GGCACGGCCTGGCACACGGGCATGTGAGGCCATTTCAAAGGGCACACTAGCCCGTGTGTTGGCCG
*
60963864 TGTGACCCAAGTCAGAGAGTTACATGG
66 TGTGACCCAAGCCAGAGAGTTACATGG
* *
60963891 GGCACGGCTTGGCACACGGGCATGTGAGGCCATTTCGAAGGGCACACTAGCCCGTGTGTTGGCCG
1 GGCACGGCCTGGCACACGGGCATGTGAGGCCATTTCAAAGGGCACACTAGCCCGTGTGTTGGCCG
60963956 TGTGACCCAAGCCAGAGAGTTACA
66 TGTGACCCAAGCCAGAGAGTTACA
60963980 CAGGGTAGAA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 83 1.00
ACGTcount: A:0.22, C:0.25, G:0.34, T:0.20
Consensus pattern (92 bp):
GGCACGGCCTGGCACACGGGCATGTGAGGCCATTTCAAAGGGCACACTAGCCCGTGTGTTGGCCG
TGTGACCCAAGCCAGAGAGTTACATGG
Found at i:60979282 original size:46 final size:45
Alignment explanation
Indices: 60979181--60979393 Score: 243
Period size: 46 Copynumber: 4.6 Consensus size: 45
60979171 GGGTATAATA
* *
60979181 CCGATGCCATGTCCTAGACATGGTCTTACACTGGC-TCATCTTGTA-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCATCTCG-AGG
* *
60979227 CTGATGCATGTCCCAGACATATCTTACACTGGCTTACATCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGG
* * *
60979273 CCGATGCATGTCCCAGACATGTCTTACACTAGCTTTCATCTCAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGAGG
*
60979319 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCT-TATGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCATCTCGA-GG
*
60979367 CCGATGCATGTCTCAGACATGTCTTAC
1 CCGATGCATGTCCCAGACATGTCTTAC
60979394 GCTAGCACAC
Statistics
Matches: 146, Mismatches: 13, Indels: 16
0.83 0.07 0.09
Matches are distributed among these distances:
44 12 0.08
45 15 0.10
46 63 0.43
47 31 0.21
48 25 0.17
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.30
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGG
Found at i:60979361 original size:94 final size:90
Alignment explanation
Indices: 60979181--60979399 Score: 255
Period size: 94 Copynumber: 2.4 Consensus size: 90
60979171 GGGTATAATA
* * ** *
60979181 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCTTGTAGCTGATGCATGTCCCAGACA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATCTAATAGCCGATGCATGTCCCAGACA
60979246 TATCTTACACTGGCTTACATCTCGA-GG
64 TATCTTACACTGGCTTACATCT-GATGG
60979273 CCGATGCATGTCCCAGACATGTCTTACACTAGCTTTCATCTCAAT-GCCGATGCCATGTCCCAGA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC--TCATCT-AATAGCCGATG-CATGTCCCAGA
* *
60979337 CATGGTCTTACACTGGCTCT-CATCTTATGG
62 CAT-ATCTTACACTGGCT-TACATCTGATGG
* *
60979367 CCGATGCATGTCTCAGACATGTCTTACGCTAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC
60979400 ACACAAATAA
Statistics
Matches: 111, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
90 12 0.11
91 13 0.12
92 18 0.16
93 16 0.14
94 51 0.46
95 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (90 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTCATCTAATAGCCGATGCATGTCCCAGACATA
TCTTACACTGGCTTACATCTGATGG
Found at i:60985862 original size:46 final size:44
Alignment explanation
Indices: 60985811--60985987 Score: 194
Period size: 46 Copynumber: 3.9 Consensus size: 44
60985801 ATGTTTTGGC
60985811 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* *** * *
60985855 ATGTCCGAACTCGTTGAGTTGAGTCCGAATTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
*
60985904 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A
* *
60985949 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60985988 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.63
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:60991858 original size:25 final size:24
Alignment explanation
Indices: 60991811--60991859 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
60991801 ACCAACATGT
60991811 TTTTTATTATTAAAAACATTTTTTA
1 TTTTTATTATT-AAAACATTTTTTA
60991836 TTTTTATTTATT-AAACATGTTTTT
1 TTTTTA-TTATTAAAACAT-TTTTT
60991860 TTTCAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.27
25 11 0.50
26 5 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTTTATTATTAAAACATTTTTTA
Found at i:60991872 original size:23 final size:24
Alignment explanation
Indices: 60991824--60991873 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
60991814 TTATTATTAA
**
60991824 AAACATTTTTTATTTTTATTTATT
1 AAACATTTTTTATTTCAATTTATT
60991848 AAACATGTTTTT-TTTCAATTT-TT
1 AAACAT-TTTTTATTTCAATTTATT
60991871 AAA
1 AAA
60991874 AATAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (24 bp):
AAACATTTTTTATTTCAATTTATT
Found at i:60991926 original size:26 final size:25
Alignment explanation
Indices: 60991865--60991926 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
60991855 TTTTTTTTCA
*
60991865 ATTTTTAAAAATAAAAATGAAAATT
1 ATTTTTAAAAATAAAAAAGAAAATT
60991890 ATTTTCTAAAAATGAAAAAAGAAAA-T
1 ATTTT-TAAAAAT-AAAAAAGAAAATT
*
60991916 ACTTTTAAAAA
1 ATTTTTAAAAA
60991927 CCACGTCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 11 0.33
26 12 0.36
27 10 0.30
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (25 bp):
ATTTTTAAAAATAAAAAAGAAAATT
Found at i:60996318 original size:14 final size:14
Alignment explanation
Indices: 60996299--60996325 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60996289 AATTTTCACT
60996299 TATCTTTTTAATTA
1 TATCTTTTTAATTA
60996313 TATCTTTTTAATT
1 TATCTTTTTAATT
60996326 TGTATTAATT
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:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (14 bp):
TATCTTTTTAATTA
Found at i:60996340 original size:20 final size:21
Alignment explanation
Indices: 60996317--60996361 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
60996307 TAATTATATC
60996317 TTTTTA-ATT-TGTATTAATTA
1 TTTTTATATTATGT-TTAATTA
*
60996337 TTTTTATTTTATGTTTAATTA
1 TTTTTATATTATGTTTAATTA
60996358 TTTT
1 TTTT
60996362 AAAATATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 13 0.59
22 3 0.14
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTTTATATTATGTTTAATTA
Found at i:61017896 original size:29 final size:29
Alignment explanation
Indices: 61017834--61017936 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
61017824 GTGACGAGAT
* * *
61017834 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
61017863 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * **
61017892 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
61017921 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61017937 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 3 0.05
29 56 0.95
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:61019407 original size:21 final size:21
Alignment explanation
Indices: 61019376--61019429 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
61019366 GAAACAAGGC
*
61019376 ACACACCCGTGTGGAAGGGCA
1 ACACGCCCGTGTGGAAGGGCA
*
61019397 ACACGCTCGTGTGGAAGGGCA
1 ACACGCCCGTGTGGAAGGGCA
61019418 ACACGCCCGTGT
1 ACACGCCCGTGT
61019430 TGTAATATCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.30, G:0.33, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTGGAAGGGCA
Found at i:61022442 original size:2 final size:2
Alignment explanation
Indices: 61022435--61022466 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
61022425 TTCCAATGCC
61022435 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61022467 TATGGGCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61025160 original size:28 final size:28
Alignment explanation
Indices: 61025120--61025239 Score: 195
Period size: 28 Copynumber: 4.3 Consensus size: 28
61025110 GTGTCCATTT
* *
61025120 CCCGTGTCCCTCACACGACCATGACACG
1 CCCGTGTCCCTCACACGGCCATGACACA
61025148 CCCGTGTCCCTCACACGGCCATGACACA
1 CCCGTGTCCCTCACACGGCCATGACACA
61025176 CCCGTGTCCCTCACACGGCCATGACACA
1 CCCGTGTCCCTCACACGGCCATGACACA
* *
61025204 CCAGTGTCCCTCACACGGCCATGACACG
1 CCCGTGTCCCTCACACGGCCATGACACA
*
61025232 TCCGTGTC
1 CCCGTGTC
61025240 TTAACCCATG
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 86 1.00
ACGTcount: A:0.20, C:0.45, G:0.19, T:0.16
Consensus pattern (28 bp):
CCCGTGTCCCTCACACGGCCATGACACA
Found at i:61026498 original size:47 final size:46
Alignment explanation
Indices: 61026347--61026517 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 46
61026337 ACATCTCATA
* * * ** *
61026347 GCCGATGCATGTCCCAGACATGTCTTACATTGG-CTTAAATCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCCCT-CATAATGTG
* *
61026393 GCCGATGGATGTCCCAGACATGTCTTACACTAGCTCTCGTC-TCAA--T-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-C-C-TCAT-AATGTG
*
61026439 GCCGATGCCATGTCCCAGACATGGTTTTACACTGGCCCTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCCCTCATAATGTG
*
61026487 GCCGATGCATGTCCCAGACATGTCTCACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
61026518 AGCACACAAA
Statistics
Matches: 101, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
45 4 0.04
46 47 0.47
47 29 0.29
48 20 0.20
50 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCCCTCATAATGTG
Found at i:61035637 original size:47 final size:47
Alignment explanation
Indices: 61035568--61035887 Score: 266
Period size: 47 Copynumber: 6.7 Consensus size: 47
61035558 AGGGTATAAT
* *
61035568 GTCGATGCCATGTCTCAGACATGGTCTTACACTGGCTCATC-CATCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATCAA
** *
61035615 GTCGATGCCATGTCTTAGACATGGTCTTACACTAGCTCTCACAT-ATCC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCA--A
*
61035663 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAT-ATCC
1 GT-C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCA--A
* * * *
61035713 GTGCTGATGCCATGTCCTAGACAGGGTTTTACACTGGCT-T-ACATCTCAA
1 GT-C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA--TCAA
* *
61035762 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTC-TCAA
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-ACATCAA
* * * *
61035808 TGCCGATGCCATGTCCCAGACATGGTCTTACATTAGCTCTCATAAT-ATG
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATCA-A
*
61035857 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT
61035888 GGCACACAAA
Statistics
Matches: 234, Mismatches: 22, Indels: 35
0.80 0.08 0.12
Matches are distributed among these distances:
46 35 0.15
47 80 0.34
48 33 0.14
49 5 0.02
50 80 0.34
51 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCAA
Found at i:61035686 original size:50 final size:50
Alignment explanation
Indices: 61035570--61035887 Score: 319
Period size: 50 Copynumber: 6.6 Consensus size: 50
61035560 GGTATAATGT
* *
61035570 CGATGCCATGTCTCAGACATGGTCTTACACTGGCTCATC-C--ATCAAGT--
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATC-AGTGC
** *
61035617 CGATGCCATGTCTTAGACATGGTCTTACACTAGCTCTCACATATCCGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAGTGC
* *
61035667 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAGTGC
* * * * * *
61035717 TGATGCCATGTCCTAGACAGGGTTTTACACTGGCT-T-ACATCTCAAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-AGTGC
* * *
61035765 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT--CGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAGTGC
* *
61035811 CGATGCCATGTCCCAGACATGGTCTTACATTAGCTCTCATA-AT-A-TGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAGT-GC
61035859 CGATG-CATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
61035888 GGCACACAAA
Statistics
Matches: 234, Mismatches: 24, Indels: 27
0.82 0.08 0.09
Matches are distributed among these distances:
45 1 0.00
46 35 0.15
47 77 0.33
48 37 0.16
49 6 0.03
50 78 0.33
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAGTGC
Found at i:61035829 original size:94 final size:96
Alignment explanation
Indices: 61035570--61035887 Score: 332
Period size: 94 Copynumber: 3.3 Consensus size: 96
61035560 GGTATAATGT
* * * *
61035570 CGATGCCATGTCTCAGACATGGTCTTACACTGGCTCATC-CATCAA-GTCGATGCCATGTCTTAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCTC-TCAATGCCGATGCCATGTCCTAG
*
61035633 ACATGGTCTTACACTAGCTCTCACATATC-CGTGC
64 ACATGGTCTTACACTAGCTCT-ACATATCAAG-GC
* * ** *
61035667 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCTGATGCCATGTCCTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--C-TCTCAATGCCGATGCCATGTCCTA
* * * *
61035732 GACAGGGTTTTACACTGGCT-TACATCTCAAGGC
63 GACATGGTCTTACACTAGCTCTACATATCAAGGC
*
61035765 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TCTCAATGCCGATGCCATGTCCTAGA
* *
61035828 CATGGTCTTACATTAGCTCT-CATAAT-ATGGC
65 CATGGTCTTACACTAGCTCTACAT-ATCAAGGC
61035859 CGATG-CATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
61035888 GGCACACAAA
Statistics
Matches: 186, Mismatches: 27, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
94 72 0.39
95 2 0.01
96 17 0.09
97 47 0.25
98 13 0.07
99 4 0.02
100 31 0.17
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTCTCAATGCCGATGCCATGTCCTAGAC
ATGGTCTTACACTAGCTCTACATATCAAGGC
Found at i:61036152 original size:16 final size:16
Alignment explanation
Indices: 61036131--61036163 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
61036121 CATAAATGTT
61036131 ATTTACATTTGACATC
1 ATTTACATTTGACATC
61036147 ATTTACATTTGACATC
1 ATTTACATTTGACATC
61036163 A
1 A
61036164 CTTTCTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTACATTTGACATC
Found at i:61044197 original size:40 final size:40
Alignment explanation
Indices: 61044070--61044199 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
61044060 ATGCTGGAAA
* *
61044070 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
61044110 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
61044150 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
61044190 TTATATCCGG
1 TTATATCCGG
61044200 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:61052771 original size:22 final size:22
Alignment explanation
Indices: 61052746--61052787 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
61052736 AGGTCAATAC
61052746 TAGATGCT-ATGTTGCAACATGG
1 TAGAT-CTGATGTTGCAACATGG
61052768 TAGATCTGATGTTGCAACAT
1 TAGATCTGATGTTGCAACAT
61052788 AGAGAGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (22 bp):
TAGATCTGATGTTGCAACATGG
Found at i:61053304 original size:171 final size:171
Alignment explanation
Indices: 61053014--61053358 Score: 609
Period size: 171 Copynumber: 2.0 Consensus size: 171
61053004 CAGTTACCCT
**
61053014 AGGGCTAACGATGATGGCTACCTGGAGGCTATAAATAGACCTCTCTGGCACACATTATGGACATC
1 AGGGCTAACGATGATGGCTACCTAAAGGCTATAAATAGACCTCTCTGGCACACATTATGGACATC
*
61053079 ATCCCATTAGCTTAGATTCTTTCTTTTAGATTTAGATTTGTTCTCTTACTTTCTTAGGTTTTTAT
66 ATCCCATTAGCTTAGATTCTTTCTTTTAAATTTAGATTTGTTCTCTTACTTTCTTAGGTTTTTAT
*
61053144 AATTTTAGTTTATTTGTTTTCTTCAAAAGATTTGATTGTCA
131 AATTTTAGTTTATTTGTTTTCTTCAAAAGATTTGATTGTAA
*
61053185 AGGGCTAAGGATGATGGCTACCTAAAGGCTATAAATAGACCTCTCTGGCACACATTATGGACATC
1 AGGGCTAACGATGATGGCTACCTAAAGGCTATAAATAGACCTCTCTGGCACACATTATGGACATC
* *
61053250 ATTCCATTAGCTTAGATTCTTTCTTTTAAATTTAGATTTGTTCTCTTGCTTTCTTAGGTTTTTAT
66 ATCCCATTAGCTTAGATTCTTTCTTTTAAATTTAGATTTGTTCTCTTACTTTCTTAGGTTTTTAT
* *
61053315 AATTTTAGTTTATTTGTTTTCTTCAAGATATTTGATTGTAA
131 AATTTTAGTTTATTTGTTTTCTTCAAAAGATTTGATTGTAA
61053356 AGG
1 AGG
61053359 AGATCAATTT
Statistics
Matches: 165, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
171 165 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (171 bp):
AGGGCTAACGATGATGGCTACCTAAAGGCTATAAATAGACCTCTCTGGCACACATTATGGACATC
ATCCCATTAGCTTAGATTCTTTCTTTTAAATTTAGATTTGTTCTCTTACTTTCTTAGGTTTTTAT
AATTTTAGTTTATTTGTTTTCTTCAAAAGATTTGATTGTAA
Found at i:61055967 original size:12 final size:12
Alignment explanation
Indices: 61055950--61055975 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61055940 TTAATGTGGT
61055950 AAATGATAATTA
1 AAATGATAATTA
61055962 AAATGATAATTA
1 AAATGATAATTA
61055974 AA
1 AA
61055976 TAAAAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AAATGATAATTA
Found at i:61056769 original size:19 final size:19
Alignment explanation
Indices: 61056745--61056781 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
61056735 ACAATGACTC
*
61056745 GATGGAAATTCGACATTCA
1 GATGGAAATTCAACATTCA
61056764 GATGGAAATTCAACATTC
1 GATGGAAATTCAACATTC
61056782 GAAATCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (19 bp):
GATGGAAATTCAACATTCA
Found at i:61067143 original size:13 final size:13
Alignment explanation
Indices: 61067125--61067159 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
61067115 CCGTGTGAAG
61067125 GACACGGGCCAAA
1 GACACGGGCCAAA
61067138 GACACGGGCCAAA
1 GACACGGGCCAAA
61067151 GACACGGGC
1 GACACGGGC
61067160 GTGTTCCAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.31, G:0.34, T:0.00
Consensus pattern (13 bp):
GACACGGGCCAAA
Found at i:61070755 original size:14 final size:16
Alignment explanation
Indices: 61070718--61070758 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
61070708 TATGTCTAAA
61070718 ATACATGAAAATGTGG
1 ATACATGAAAATGTGG
61070734 ATACATGAAAAT-T-G
1 ATACATGAAAATGTGG
*
61070748 ATATATGAAAA
1 ATACATGAAAA
61070759 CATGAGATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 1 0.04
16 12 0.50
ACGTcount: A:0.51, C:0.05, G:0.17, T:0.27
Consensus pattern (16 bp):
ATACATGAAAATGTGG
Found at i:61077194 original size:26 final size:26
Alignment explanation
Indices: 61077165--61077272 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
61077155 TGGTACAAAT
61077165 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
61077191 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61077217 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
61077243 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61077269 TGAT
1 TGAT
61077273 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:61078930 original size:27 final size:26
Alignment explanation
Indices: 61078890--61079055 Score: 197
Period size: 27 Copynumber: 6.2 Consensus size: 26
61078880 AGGAAGCGTC
*
61078890 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
61078917 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
61078944 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
61078971 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
61078998 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * * *
61079026 CAGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
61079052 CTGG
1 CTGG
61079056 CAGCCATGCT
Statistics
Matches: 120, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
26 7 0.06
27 96 0.80
28 17 0.14
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:61078972 original size:54 final size:54
Alignment explanation
Indices: 61078890--61079055 Score: 262
Period size: 54 Copynumber: 3.1 Consensus size: 54
61078880 AGGAAGCGTC
61078890 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
61078944 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * * * *
61078998 CTGGTGGCTCTGCCACGATTATCTGTATCAGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTT
61079052 CTGG
1 CTGG
61079056 CAGCCATGCT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
54 87 0.84
55 17 0.16
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:61104024 original size:51 final size:51
Alignment explanation
Indices: 61103918--61104048 Score: 142
Period size: 51 Copynumber: 2.6 Consensus size: 51
61103908 GGATACTCGA
* * * *
61103918 TGGCCTGCACATAGTACCACCCTT-T-AGTCAAAGCTACCTTCTTCACAAAG
1 TGGCCTACACATAGTACCACACTTGTGA-TCAAAACCACCTTCTTCACAAAG
* * *
61103968 TGGCCTTCACATAGTACCACACTTGTGATCAAAACCATCTT-TTACACATAG
1 TGGCCTACACATAGTACCACACTTGTGATCAAAACCACCTTCTT-CACAAAG
* *
61104019 TGGCCTACACTTAGTACCACACATGTGATC
1 TGGCCTACACATAGTACCACACTTGTGATC
61104049 GAAGCTATAG
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
50 24 0.35
51 44 0.64
52 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (51 bp):
TGGCCTACACATAGTACCACACTTGTGATCAAAACCACCTTCTTCACAAAG
Found at i:61107989 original size:31 final size:31
Alignment explanation
Indices: 61107931--61107990 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
61107921 GCGTGGGAGC
* * *
61107931 GTGTGCACCCATACGCCCATGCGACACGGCT
1 GTGTGCAACCACACGCCCAAGCGACACGGCT
61107962 GTGTGCAACCACACGCCCAAG-GAACACGG
1 GTGTGCAACCACACGCCCAAGCG-ACACGG
61107991 GCGTGGGCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.25, C:0.37, G:0.27, T:0.12
Consensus pattern (31 bp):
GTGTGCAACCACACGCCCAAGCGACACGGCT
Found at i:61113040 original size:40 final size:40
Alignment explanation
Indices: 61113003--61113188 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
61112993 GCTACTCGTT
*
61113003 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
61113043 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
61113083 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
61113123 CGAATACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
61113164 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61113189 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:61115075 original size:23 final size:23
Alignment explanation
Indices: 61115043--61115099 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
61115033 TAGCTGCGTT
*
61115043 TTTTGAAAAACGCCAAAAAAGAA
1 TTTTGCAAAACGCCAAAAAAGAA
***
61115066 TTTTGCAAAACGCGGCAAAAGAA
1 TTTTGCAAAACGCCAAAAAAGAA
61115089 TTTTGCAAAAC
1 TTTTGCAAAAC
61115100 ACCATCGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (23 bp):
TTTTGCAAAACGCCAAAAAAGAA
Found at i:61115192 original size:76 final size:76
Alignment explanation
Indices: 61115066--61115237 Score: 263
Period size: 76 Copynumber: 2.3 Consensus size: 76
61115056 CAAAAAAGAA
* ** * *
61115066 TTTTGCAAAACGCGGCAAAAGAATTTTGCAAAACACCATCGTTTTGTATTGAGCTTTTAGCGGCT
1 TTTTGAAAAACGCCACAAAAGAATTTTGCAAAACACCATCATTTTGTATTGAGCTTTTAGCGGAT
* *
61115131 TTAGCGGTGTT
66 TTAGCGGCGCT
* *
61115142 TTTTGAAAAATGCCACAAAAGAATTTTGCAAAACACCATCATTTTGTATTGAGCTTTTAGTGGAT
1 TTTTGAAAAACGCCACAAAAGAATTTTGCAAAACACCATCATTTTGTATTGAGCTTTTAGCGGAT
61115207 TTAGCGGCGCT
66 TTAGCGGCGCT
61115218 TTTTGAAAAACGCCACAAAA
1 TTTTGAAAAACGCCACAAAA
61115238 AATGAAAAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 86 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (76 bp):
TTTTGAAAAACGCCACAAAAGAATTTTGCAAAACACCATCATTTTGTATTGAGCTTTTAGCGGAT
TTAGCGGCGCT
Found at i:61115466 original size:22 final size:22
Alignment explanation
Indices: 61115441--61115485 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
61115431 GAGTTACTAT
* *
61115441 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAAGGG
* *
61115463 TTTAGGGATTATGGTTTAAGGG
1 TTTAAGGATTATGGATTAAGGG
61115485 T
1 T
61115486 GGTTTAAGGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (22 bp):
TTTAAGGATTATGGATTAAGGG
Found at i:61115484 original size:15 final size:15
Alignment explanation
Indices: 61115446--61115480 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
61115436 ACTATTTTAA
*
61115446 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
61115461 GGTTTAGGGATTAT-
1 GGTTTAGGGATTATG
61115475 GGTTTA
1 GGTTTA
61115481 AGGGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:61115721 original size:14 final size:14
Alignment explanation
Indices: 61115699--61115829 Score: 52
Period size: 14 Copynumber: 9.2 Consensus size: 14
61115689 TTAATTATCA
*
61115699 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
61115713 TTATGGTTTAGGGT
1 TTATGGTTTAAGGT
*
61115727 ATATGGTTT-AGGAT
1 TTATGGTTTAAGG-T
** * *
61115741 TTAAAGTGTATGAGT
1 TTATGGTTTAAG-GT
61115756 TACTAT--TTTAAGGT
1 T--TATGGTTTAAGGT
* * *
61115770 TTATGGATTATGGAC
1 TTATGGTTTAAGG-T
* * *
61115785 TTAGGGATTATGGT
1 TTATGGTTTAAGGT
*
61115799 TTATGGTTTAAGGG
1 TTATGGTTTAAGGT
**
61115813 TTGGGGTTTAAGGT
1 TTATGGTTTAAGGT
61115827 TTA
1 TTA
61115830 GGGGTTAGGG
Statistics
Matches: 84, Mismatches: 25, Indels: 16
0.67 0.20 0.13
Matches are distributed among these distances:
12 3 0.04
13 2 0.02
14 57 0.68
15 19 0.23
16 1 0.01
17 2 0.02
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:61115734 original size:21 final size:21
Alignment explanation
Indices: 61115710--61115832 Score: 58
Period size: 22 Copynumber: 5.8 Consensus size: 21
61115700 TATAGTTTAA
61115710 GGTTTATGGTTTAGGGTATAT
1 GGTTTATGGTTTAGGGTATAT
** *
61115731 GGTTTA-GGATTTAAAGTGTAT
1 GGTTTATGG-TTTAGGGTATAT
* *
61115752 GAGTTACTAT--TTTAAGGTTTAT
1 G-GTT--TATGGTTTAGGGTATAT
* *
61115774 GGATTATGGACTTAGGG-ATTAT
1 GGTTTATGG-TTTAGGGTA-TAT
**
61115796 GGTTTATGGTTTAAGGGT-TGG
1 GGTTTATGGTTT-AGGGTATAT
*
61115817 GGTTTAAGGTTTAGGG
1 GGTTTATGGTTTAGGG
61115833 GTTAGGGGTT
Statistics
Matches: 77, Mismatches: 14, Indels: 23
0.68 0.12 0.20
Matches are distributed among these distances:
19 3 0.04
20 6 0.08
21 32 0.42
22 34 0.44
24 2 0.03
ACGTcount: A:0.23, C:0.02, G:0.33, T:0.43
Consensus pattern (21 bp):
GGTTTATGGTTTAGGGTATAT
Found at i:61115812 original size:22 final size:21
Alignment explanation
Indices: 61115710--61115836 Score: 68
Period size: 21 Copynumber: 6.0 Consensus size: 21
61115700 TATAGTTTAA
61115710 GGTTTATGGTTT-AGGGTATAT
1 GGTTTATGGTTTAAGGGT-TAT
*
61115731 GGTTTA-GGATTTAA-AGTGTAT
1 GGTTTATGG-TTTAAGGGT-TAT
*
61115752 GAGTTACTAT--TTTAAGGTTTAT
1 G-GTT--TATGGTTTAAGGGTTAT
* *
61115774 GGATTATGGACTT-AGGGATTAT
1 GGTTTATGG-TTTAAGGG-TTAT
**
61115796 GGTTTATGGTTTAAGGGTTGG
1 GGTTTATGGTTTAAGGGTTAT
* *
61115817 GGTTTAAGGTTTAGGGGTTA
1 GGTTTATGGTTTAAGGGTTA
61115837 GGGGTTAAGT
Statistics
Matches: 80, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
19 3 0.04
20 2 0.03
21 41 0.51
22 31 0.39
23 1 0.01
24 2 0.03
ACGTcount: A:0.23, C:0.02, G:0.32, T:0.43
Consensus pattern (21 bp):
GGTTTATGGTTTAAGGGTTAT
Found at i:61115834 original size:21 final size:22
Alignment explanation
Indices: 61115796--61115842 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
61115786 TAGGGATTAT
*
61115796 GGTTTATGGTTTAAGGGTT-GG
1 GGTTTAAGGTTTAAGGGTTAGG
*
61115817 GGTTTAAGGTTTAGGGGTTAGG
1 GGTTTAAGGTTTAAGGGTTAGG
61115839 GGTT
1 GGTT
61115843 AAGTGTTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.40
Consensus pattern (22 bp):
GGTTTAAGGTTTAAGGGTTAGG
Found at i:61115844 original size:21 final size:21
Alignment explanation
Indices: 61115785--61115845 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
61115775 GATTATGGAC
* * * *
61115785 TTAGGGATTATGGTTTATGGT
1 TTAGGGGTTAGGGGTTAAGGT
*
61115806 TTAAGGGTT-GGGGTTTAAGGT
1 TTAGGGGTTAGGGG-TTAAGGT
61115827 TTAGGGGTTAGGGGTTAAG
1 TTAGGGGTTAGGGGTTAAG
61115846 TGTTAGGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.06
21 26 0.81
22 4 0.12
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (21 bp):
TTAGGGGTTAGGGGTTAAGGT
Found at i:61116623 original size:34 final size:32
Alignment explanation
Indices: 61116585--61116647 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 32
61116575 ATTTTATATG
*
61116585 TTAAT-TTAAAAATTATAAAAATCTTCAAAAAAAT
1 TTAATATTAAAAAATA-AAAAAT-TT-AAAAAAAT
61116619 TTAATATTAAAAAATAAAAAATTTAAAAA
1 TTAATATTAAAAAATAAAAAATTTAAAAA
61116648 TAAAAGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 5 0.19
33 2 0.07
34 11 0.41
35 9 0.33
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (32 bp):
TTAATATTAAAAAATAAAAAATTTAAAAAAAT
Found at i:61116637 original size:22 final size:22
Alignment explanation
Indices: 61116612--61116670 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
61116602 AAAATCTTCA
* *
61116612 AAAAAATTTAATATTAAAAAAT
1 AAAAAATTTAAAAATAAAAAAT
*
61116634 AAAAAATTTAAAAATAAAAGAT
1 AAAAAATTTAAAAATAAAAAAT
* *
61116656 AAAAAACTAAAAAAT
1 AAAAAATTTAAAAAT
61116671 TTAATATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAAAATTTAAAAATAAAAAAT
Found at i:61116638 original size:7 final size:7
Alignment explanation
Indices: 61116626--61116670 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
61116616 AATTTAATAT
61116626 TAAAAAA
1 TAAAAAA
61116633 TAAAAAA
1 TAAAAAA
*
61116640 TTTAAAAA
1 -TAAAAAA
*
61116648 TAAAAGA
1 TAAAAAA
61116655 TAAAAAA
1 TAAAAAA
61116662 CTAAAAAA
1 -TAAAAAA
61116670 T
1 T
61116671 TTAATATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 19 0.59
8 13 0.41
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (7 bp):
TAAAAAA
Found at i:61116646 original size:15 final size:15
Alignment explanation
Indices: 61116628--61116674 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
61116618 TTTAATATTA
61116628 AAAAATAAAAAATTT
1 AAAAATAAAAAATTT
* *
61116643 AAAAATAAAAGA-TA
1 AAAAATAAAAAATTT
61116657 AAAAACTAAAAAATTT
1 AAAAA-TAAAAAATTT
61116673 AA
1 AA
61116675 TATTTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 6 0.23
15 17 0.65
16 3 0.12
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAAATAAAAAATTT
Found at i:61117280 original size:16 final size:16
Alignment explanation
Indices: 61117259--61117289 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
61117249 ATGCTTTCTT
61117259 TTCTGTTGCAAGGTCC
1 TTCTGTTGCAAGGTCC
61117275 TTCTGTTGCAAGGTC
1 TTCTGTTGCAAGGTC
61117290 TTCCTCGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.26, T:0.39
Consensus pattern (16 bp):
TTCTGTTGCAAGGTCC
Found at i:61131456 original size:27 final size:28
Alignment explanation
Indices: 61131426--61131524 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
61131416 ATAGTGAGTC
61131426 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
61131453 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * * *
61131481 CGCACACTTAGTGCTGACAAATTTAAAACC
1 CGCACACTTAGTGCT-ATAAA-ATCAAACT
61131511 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61131525 AATCTCATGA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 21 0.34
28 18 0.30
29 3 0.05
30 19 0.31
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:61132376 original size:7 final size:7
Alignment explanation
Indices: 61132366--61132390 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61132356 TCATCACCAC
61132366 AACATCA
1 AACATCA
61132373 AACATCA
1 AACATCA
61132380 AACATCA
1 AACATCA
61132387 AACA
1 AACA
61132391 AGAAGACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (7 bp):
AACATCA
Found at i:61139279 original size:27 final size:28
Alignment explanation
Indices: 61139249--61139348 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
61139239 ATAGTGAGTC
61139249 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
61139276 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
61139304 CGCACACTTAGTGCTGTACAAATTTAAAACC
1 CGCACACTTAGTGCTATA-AAA--TCAAACT
61139335 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61139349 AATCTCATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
31 19 0.31
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:61140201 original size:7 final size:7
Alignment explanation
Indices: 61140191--61140215 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61140181 TCATCACCAC
61140191 AACATCA
1 AACATCA
61140198 AACATCA
1 AACATCA
61140205 AACATCA
1 AACATCA
61140212 AACA
1 AACA
61140216 AGAAGACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (7 bp):
AACATCA
Found at i:61140951 original size:26 final size:25
Alignment explanation
Indices: 61140915--61140998 Score: 116
Period size: 26 Copynumber: 3.2 Consensus size: 25
61140905 TGATACAAAT
61140915 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTC-A
*
61140941 TGATAATAGGTTAGGTAAATCTTTCA
1 TGATAATAGGTTAGGTAAAT-GTTCA
61140967 TGATAA-AGGGTTAGGTAAATGTTTCA
1 TGATAATA-GGTTAGGTAAATG-TTCA
61140993 TGATAA
1 TGATAA
61140999 GAATTTCATG
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
25 1 0.02
26 49 0.92
27 3 0.06
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:61142658 original size:27 final size:27
Alignment explanation
Indices: 61142617--61142686 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
61142607 GAGGAAGCGT
*
61142617 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
61142644 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
61142671 TCTGGT-GCTCTGCCAC
1 TCTGGTGGCTCTGCCAC
61142687 GATTATTGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 10 0.25
27 30 0.75
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:61142702 original size:26 final size:26
Alignment explanation
Indices: 61142615--61142724 Score: 102
Period size: 27 Copynumber: 4.2 Consensus size: 26
61142605 TGGAGGAAGC
* *
61142615 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGT-GCTCTGCCACATATATCT
*
61142642 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGT-GCTCTGCCACATATATCT
61142669 GTTCTGGTGCTCTGCCACGAT-TAT-T
1 GTTCTGGTGCTCTGCCAC-ATATATCT
* *
61142694 GTATTTGGTGACTCTG-TACAT-TATCT
1 GT-TCTGGTG-CTCTGCCACATATATCT
61142720 GTTCT
1 GTTCT
61142725 AGCAGCCATG
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
25 10 0.14
26 24 0.33
27 38 0.53
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGCTCTGCCACATATATCT
Found at i:61142703 original size:53 final size:52
Alignment explanation
Indices: 61142615--61142724 Score: 125
Period size: 53 Copynumber: 2.1 Consensus size: 52
61142605 TGGAGGAAGC
*
61142615 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTG-CACAT-TATCT
* * * * *
61142669 GTTCTGGT-GCTCTGCCACGATTAT-TGTATTTGGTGACTCTGTACATTATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCACATTATCT
61142720 GTTCT
1 GTTCT
61142725 AGCAGCCATG
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
51 10 0.20
52 6 0.12
53 25 0.51
54 8 0.16
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (52 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCACATTATCT
Found at i:61142812 original size:19 final size:22
Alignment explanation
Indices: 61142788--61142827 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
61142778 CTCTCCACAC
61142788 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
61142807 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
61142828 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:61146758 original size:26 final size:26
Alignment explanation
Indices: 61146696--61146804 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
61146686 TGATACAAAT
61146696 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
61146721 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
61146747 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
61146773 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
61146799 TGATAA
1 TGATAA
61146805 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:61148519 original size:26 final size:26
Alignment explanation
Indices: 61148415--61148528 Score: 113
Period size: 27 Copynumber: 4.3 Consensus size: 26
61148405 TGGAGGAAGC
** *
61148415 GTTCTGGTGGCAATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
61148442 GATCTGGTGGCTCTACCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
*
61148469 GTTCTAGTGGCTCTGCCACGATTAT-T
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
61148495 GTATCTGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
61148522 GTTCTGG
1 GTTCTGG
61148529 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
26 14 0.19
27 56 0.78
28 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:61159041 original size:42 final size:42
Alignment explanation
Indices: 61158982--61159092 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
61158972 CAATGCTGAC
* * **
61158982 ATCCCAGAC-GTGGTCTTACATGTAATTA-ATATCGATGCCTCT
1 ATCCCAGACAG-GGTCTTAAATGTAATTAGATAT-GATACCGAT
*
61159024 ATCCCAGACAGGGTCTTAAATGAAATTAGATATGATACCGAT
1 ATCCCAGACAGGGTCTTAAATGTAATTAGATATGATACCGAT
* * * *
61159066 GTCCCAGACATGGTCTTATACGTAATT
1 ATCCCAGACAGGGTCTTAAATGTAATT
61159093 CTCAATCAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 52 0.91
43 5 0.09
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (42 bp):
ATCCCAGACAGGGTCTTAAATGTAATTAGATATGATACCGAT
Found at i:61178558 original size:40 final size:40
Alignment explanation
Indices: 61178484--61178626 Score: 160
Period size: 40 Copynumber: 3.6 Consensus size: 40
61178474 CCGCACCAAG
* * * * * * *
61178484 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAC
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
61178524 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
61178564 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
61178604 GCCTTCGGGTCTTAACCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATA
61178627 AAATTTTCAG
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:61178644 original size:40 final size:41
Alignment explanation
Indices: 61178524--61178666 Score: 141
Period size: 40 Copynumber: 3.6 Consensus size: 41
61178514 TTGCACAAAC
** * *
61178524 GCCTTCGGGTCTTAGCCCGGATTTAA-CAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATAAAAGCTACTAGCAC-AATT
*
61178564 GCCTTCGGGTCTTAGCCCGGAT-ATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATAAAAGCTACTAGCACAATT
* ** * *
61178604 GCCTTCGGGTCTTAACCCGGATAAAATTTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATAAAAGCTACTAGCACAATT
* *
61178644 GTCTTCGGGGCTTAGCCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATA
61178667 TCATTCAATT
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 80 0.92
41 4 0.05
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (41 bp):
GCCTTCGGGTCTTAGCCCGGATAAAAGCTACTAGCACAATT
Found at i:61181569 original size:42 final size:40
Alignment explanation
Indices: 61181451--61181570 Score: 132
Period size: 42 Copynumber: 2.9 Consensus size: 40
61181441 CTCACAACAC
* *
61181451 CATACCAATGCCATATCCCAGATATGGTCTTACATTGGAACT
1 CATATCAATGCCATATCCCAGATATGGTCTTACA--CGAACT
* *
61181493 CATATCAATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCT
1 CATATCAATGCC-ATATCCCAGATATGGTCTTACACGAA--CT
* **
61181536 CATATCGATTTCATATCCCAGATATGGTCTTACAC
1 CATATCAATGCCATATCCCAGATATGGTCTTACAC
61181571 ATAATCTCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
41 3 0.05
42 32 0.48
43 31 0.47
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (40 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACACGAACT
Found at i:61190492 original size:28 final size:27
Alignment explanation
Indices: 61190429--61190498 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
61190419 ATAGTGAGTC
61190429 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
61190456 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
61190484 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61190499 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:61194222 original size:27 final size:26
Alignment explanation
Indices: 61194185--61194299 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
61194175 AGCATGGCTG
* *
61194185 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
61194211 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
61194239 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
61194266 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
61194293 CCAGAAC
1 CCAGAAC
61194300 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:61194244 original size:54 final size:54
Alignment explanation
Indices: 61194185--61194299 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
61194175 AGCATGGCTG
*
61194185 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
61194239 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
61194293 CCAGAAC
1 CCAGAAC
61194300 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:61196005 original size:25 final size:26
Alignment explanation
Indices: 61195911--61196019 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
61195901 CATGAAATTC
61195911 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
61195937 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
61195963 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
61195989 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
61196014 TTATCA
1 TTATCA
61196020 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:61199985 original size:27 final size:26
Alignment explanation
Indices: 61199948--61200062 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
61199938 AGCATGGCTG
* *
61199948 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
61199974 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
61200002 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
61200029 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
61200056 CCAGAAC
1 CCAGAAC
61200063 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:61200007 original size:54 final size:54
Alignment explanation
Indices: 61199948--61200062 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
61199938 AGCATGGCTG
*
61199948 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
61200002 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
61200056 CCAGAAC
1 CCAGAAC
61200063 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:61201988 original size:40 final size:40
Alignment explanation
Indices: 61201933--61202142 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
61201923 AACATTGGAA
61201933 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
61201973 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
61202013 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
61202053 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
61202092 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
61202133 CTATATCCGG
1 ATATATCCGG
61202143 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:61205055 original size:40 final size:40
Alignment explanation
Indices: 61205000--61205209 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
61204990 AACATTGGAA
61205000 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
61205040 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
61205080 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
61205120 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
61205159 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
61205200 CTATATCCGG
1 ATATATCCGG
61205210 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:61213187 original size:40 final size:40
Alignment explanation
Indices: 61213132--61213341 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
61213122 AACATTGGAA
61213132 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
61213172 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
61213212 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
61213252 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
61213291 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
61213332 CTATATCCGG
1 ATATATCCGG
61213342 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:61214729 original size:26 final size:27
Alignment explanation
Indices: 61214699--61214759 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 27
61214689 TACAATAACG
* *
61214699 GTAATTTTGC-ACCTAGGGGTATAATA
1 GTAATTTTCCAACATAGGGGTATAATA
*
61214725 GTAATTTTCCATACATAGGGGTATTATA
1 GTAATTTTCCA-ACATAGGGGTATAATA
61214753 GTAATTT
1 GTAATTT
61214760 AGCTACTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 9 0.30
28 21 0.70
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GTAATTTTCCAACATAGGGGTATAATA
Found at i:61216235 original size:26 final size:26
Alignment explanation
Indices: 61216199--61216308 Score: 150
Period size: 26 Copynumber: 4.2 Consensus size: 26
61216189 CATGAAATTC
61216199 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
61216225 TTATTATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * * *
61216251 TTATCATGGAACACTTATCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
61216277 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
61216303 TTATCA
1 TTATCA
61216309 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
26 73 0.97
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:61217592 original size:12 final size:13
Alignment explanation
Indices: 61217568--61217597 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
61217558 CACTTAGTTA
61217568 ATTTTAGGTTTTT
1 ATTTTAGGTTTTT
61217581 ATTTTA-GTTTTT
1 ATTTTAGGTTTTT
61217593 ATTTT
1 ATTTT
61217598 CTTTCAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (13 bp):
ATTTTAGGTTTTT
Found at i:61218759 original size:19 final size:20
Alignment explanation
Indices: 61218734--61218791 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
61218724 AATTGATAAA
61218734 AATAAAAATAATAAAAATTT
1 AATAAAAATAATAAAAATTT
* *
61218754 -ATAAAAATAATTAAATTTT
1 AATAAAAATAATAAAAATTT
61218773 AATAAAAA-AATATAAAATT
1 AATAAAAATAATA-AAAATT
61218792 GTAAAACAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 20 0.62
20 12 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAAAAATAATAAAAATTT
Found at i:61218809 original size:29 final size:28
Alignment explanation
Indices: 61218777--61218848 Score: 65
Period size: 29 Copynumber: 2.5 Consensus size: 28
61218767 AATTTTAATA
*
61218777 AAAAAATATAAAATTGTA-AAACAATTATT
1 AAAAAATATAAAATTGTATAAA-AATCA-T
** * *
61218806 AAAACTTGTAAAATTTTATAAAAATCAT
1 AAAAAATATAAAATTGTATAAAAATCAT
61218834 AAAAAATTATAAAAT
1 AAAAAA-TATAAAAT
61218849 ATATAGAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
28 5 0.15
29 25 0.76
30 3 0.09
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAAAATATAAAATTGTATAAAAATCAT
Found at i:61218876 original size:30 final size:28
Alignment explanation
Indices: 61218822--61218931 Score: 75
Period size: 28 Copynumber: 3.9 Consensus size: 28
61218812 TGTAAAATTT
* *
61218822 TATAAAAATCATA-AAAAATTATAAAATA
1 TATAGAAAT-ATAGAAAATTTATAAAATA
* *
61218850 TATAGAAATATAGAAACAATTTATAAATTT
1 TATAGAAATATAG-AA-AATTTATAAAATA
** *
61218880 TATAGTCATA-AGAAAATTATAAAAAATA
1 TATAGAAATATAGAAAATT-TATAAAATA
* *
61218908 TAAAGAAATAT--AAAATTTGTAAAA
1 TATAGAAATATAGAAAATTTATAAAA
61218932 AAATTATAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
26 5 0.08
27 13 0.21
28 23 0.37
29 4 0.06
30 18 0.29
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (28 bp):
TATAGAAATATAGAAAATTTATAAAATA
Found at i:61218930 original size:19 final size:20
Alignment explanation
Indices: 61218892--61218945 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
61218882 TAGTCATAAG
** *
61218892 AAAATTATAAAAAATATAAA
1 AAAATTATAAAATTTGTAAA
*
61218912 GAAA-TATAAAATTTGTAAA
1 AAAATTATAAAATTTGTAAA
61218931 AAAATTATAAAATTT
1 AAAATTATAAAATTT
61218946 ATCGTACCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAATTATAAAATTTGTAAA
Found at i:61218943 original size:20 final size:20
Alignment explanation
Indices: 61218887--61218947 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
61218877 TTTTATAGTC
* **
61218887 ATAAGAAAATTATAAAAAAT
1 ATAAAAAAATTATAAAATTT
*
61218907 ATAAAGAAA-TATAAAATTT
1 ATAAAAAAATTATAAAATTT
*
61218926 GTAAAAAAATTATAAAATTT
1 ATAAAAAAATTATAAAATTT
61218946 AT
1 AT
61218948 CGTACCAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
ATAAAAAAATTATAAAATTT
Found at i:61220352 original size:15 final size:16
Alignment explanation
Indices: 61220332--61220364 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
61220322 ATGTGTATCT
61220332 TTTTTTAAATATT-TA
1 TTTTTTAAATATTATA
61220347 TTTTTTAAATATTATA
1 TTTTTTAAATATTATA
61220363 TT
1 TT
61220365 ATACATCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTTAAATATTATA
Found at i:61228725 original size:28 final size:28
Alignment explanation
Indices: 61228692--61228746 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
61228682 GACAGTCCAC
* *
61228692 AGGGACATTCCTCCAAGTATGAGTCCGT
1 AGGGACATTCCCCCAAGCATGAGTCCGT
61228720 AGGGACATTCCCCCAAGCATGAGTCCG
1 AGGGACATTCCCCCAAGCATGAGTCCG
61228747 CAAGTATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.20
Consensus pattern (28 bp):
AGGGACATTCCCCCAAGCATGAGTCCGT
Found at i:61228782 original size:29 final size:29
Alignment explanation
Indices: 61228704--61228822 Score: 114
Period size: 29 Copynumber: 4.1 Consensus size: 29
61228694 GGACATTCCT
* * * * *
61228704 CCAAGTATGAGTCCGTAGGGACAT-TCCC
1 CCAAGTATGAGCCCGCAGGTATATATCCA
* * * *
61228732 CCAAGCATGAGTCCGCAAGTATGTATCCA
1 CCAAGTATGAGCCCGCAGGTATATATCCA
* *
61228761 CCAAGTATTAGCCCGTAGGTATATATCCA
1 CCAAGTATGAGCCCGCAGGTATATATCCA
* *
61228790 CCAAGTATGAGTCTGCAGGTATATATCCA
1 CCAAGTATGAGCCCGCAGGTATATATCCA
61228819 CCAA
1 CCAA
61228823 ATATAAACCT
Statistics
Matches: 73, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
28 18 0.25
29 55 0.75
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (29 bp):
CCAAGTATGAGCCCGCAGGTATATATCCA
Found at i:61228817 original size:58 final size:57
Alignment explanation
Indices: 61228704--61228822 Score: 148
Period size: 58 Copynumber: 2.1 Consensus size: 57
61228694 GGACATTCCT
* * *
61228704 CCAAGTATGAGTCCGTAGGGACATTCCCCCAAGCATGAGTCCGCAAGTATGTATCCA
1 CCAAGTATGAGCCCGTAGGGACATTCCACCAAGCATGAGTCCGCAAGTATATATCCA
* * * * * *
61228761 CCAAGTATTAGCCCGTAGGTATATATCCACCAAGTATGAGTCTGCAGGTATATATCCA
1 CCAAGTATGAGCCCGTAGGGACAT-TCCACCAAGCATGAGTCCGCAAGTATATATCCA
61228819 CCAA
1 CCAA
61228823 ATATAAACCT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
57 20 0.38
58 32 0.62
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (57 bp):
CCAAGTATGAGCCCGTAGGGACATTCCACCAAGCATGAGTCCGCAAGTATATATCCA
Done.