Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold28
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: 2815568
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.30
Warning! 166732 characters in sequence are not A, C, G, or T
File 15 of 16
Found at i:2458181 original size:13 final size:13
Alignment explanation
Indices: 2458163--2458188 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2458153 ACACCAAAGT
2458163 ATGTATCGATACA
1 ATGTATCGATACA
2458176 ATGTATCGATACA
1 ATGTATCGATACA
2458189 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2462273 original size:15 final size:15
Alignment explanation
Indices: 2462253--2462283 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2462243 TAAAAATGTC
*
2462253 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2462268 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2462283 C
1 C
2462284 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2464374 original size:13 final size:13
Alignment explanation
Indices: 2464356--2464393 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2464346 CATTTTTCTT
2464356 TGTATCGATACAA
1 TGTATCGATACAA
*
2464369 TGTATCGATACAC
1 TGTATCGATACAA
*
2464382 TATATCGATACA
1 TGTATCGATACA
2464394 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2466907 original size:13 final size:13
Alignment explanation
Indices: 2466889--2466914 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2466879 ACACCAAAGT
2466889 ATGTATCGATACA
1 ATGTATCGATACA
2466902 ATGTATCGATACA
1 ATGTATCGATACA
2466915 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2466912 original size:33 final size:33
Alignment explanation
Indices: 2466870--2466934 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2466860 TAGCCAAACT
* *
2466870 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
2466903 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2466935 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2468870 original size:13 final size:13
Alignment explanation
Indices: 2468852--2468879 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2468842 ATACAAAGAT
2468852 CAATGTATCGATA
1 CAATGTATCGATA
2468865 CAATGTATCGATA
1 CAATGTATCGATA
2468878 CA
1 CA
2468880 TTGAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2468876 original size:33 final size:33
Alignment explanation
Indices: 2468834--2468899 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2468824 AAATTCCCAG
2468834 ATGTATCGATACAAAGA-TCAATGTATCGATACA
1 ATGTATCGATACAAAGAGT-AATGTATCGATACA
**
2468867 ATGTATCGATACATTGAGTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
2468900 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:2468957 original size:19 final size:19
Alignment explanation
Indices: 2468933--2468993 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
2468923 CGATACATTA
2468933 TATCGATACAACACTTATG
1 TATCGATACAACACTTATG
2468952 TATCGAT---ACA--T-TG
1 TATCGATACAACACTTATG
2468965 TATCGATACAACACTTATG
1 TATCGATACAACACTTATG
2468984 TATCGATACA
1 TATCGATACA
2468994 GTTACTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 9 0.25
14 1 0.03
16 6 0.17
18 1 0.03
19 19 0.53
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (19 bp):
TATCGATACAACACTTATG
Found at i:2468969 original size:32 final size:32
Alignment explanation
Indices: 2468918--2468993 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
2468908 GCAGTAGCTT
*
2468918 TGTAGCGATACATTATATCGATACAACACTTA
1 TGTATCGATACATTATATCGATACAACACTTA
*
2468950 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTATATCGATACAACACTTA
2468982 TGTATCGATACA
1 TGTATCGATACA
2468994 GTTACTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATTATATCGATACAACACTTA
Found at i:2471956 original size:13 final size:13
Alignment explanation
Indices: 2471938--2471963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2471928 AATTTTTTTG
2471938 TGTATCGATACAT
1 TGTATCGATACAT
2471951 TGTATCGATACAT
1 TGTATCGATACAT
2471964 ACTTGCTATA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2472021 original size:85 final size:85
Alignment explanation
Indices: 2471915--2472123 Score: 366
Period size: 86 Copynumber: 2.4 Consensus size: 85
2471905 GTTACAAGCC
*
2471915 AATGTATCGATACAAT-TTTTTTGTGTATCGATACATTGTATCGATACATACTTGCTATATCGAT
1 AATGTATCGATAC-ATCTTTTTCGTGTATCGATACATTGTATCGATACATACTTGCTATATCGAT
2471979 ACAAGTTTGGCTACTGCCAAGA
65 ACAAGTTT-GCTACTGCCAAGA
*
2472001 AATGTATCGATACATCTTTTTCGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGATA
1 AATGTATCGATACATCTTTTTCGTGTATCGATACATTGTATCGATACATACTTGCTATATCGATA
2472066 CAAGTTTGCTACTGCCAAGA
66 CAAGTTTGCTACTGCCAAGA
*
2472086 AATGTATCGATACATCTTTTTCATGTATCGATACATTG
1 AATGTATCGATACATCTTTTTCGTGTATCGATACATTG
2472124 CAACATGTAT
Statistics
Matches: 119, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
85 52 0.44
86 67 0.56
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (85 bp):
AATGTATCGATACATCTTTTTCGTGTATCGATACATTGTATCGATACATACTTGCTATATCGATA
CAAGTTTGCTACTGCCAAGA
Found at i:2472042 original size:13 final size:13
Alignment explanation
Indices: 2472024--2472049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2472014 ATCTTTTTCG
2472024 TGTATCGATACAT
1 TGTATCGATACAT
2472037 TGTATCGATACAT
1 TGTATCGATACAT
2472050 ACTTGCTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2473583 original size:13 final size:13
Alignment explanation
Indices: 2473567--2473632 Score: 64
Period size: 13 Copynumber: 4.9 Consensus size: 13
2473557 TTATATTTTG
2473567 AATATATTTTTAA
1 AATATATTTTTAA
*
2473580 AATATAATTTTAA
1 AATATATTTTTAA
*
2473593 ATATTTAATATTTTAA
1 A-ATAT-AT-TTTTAA
2473609 AATAT-TTTTTATA
1 AATATATTTTTA-A
2473622 AAT-TATTTTTA
1 AATATATTTTTA
2473633 CAAAAATTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
12 6 0.14
13 24 0.55
14 3 0.07
15 4 0.09
16 7 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATATATTTTTAA
Found at i:2473784 original size:20 final size:21
Alignment explanation
Indices: 2473747--2473795 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
2473737 TTTGGTAATA
* * *
2473747 TAAATATAAAAATTATTATTT
1 TAAAAATAAAAATAATTATAT
2473768 TAAAAATAAAAA-AATTATAT
1 TAAAAATAAAAATAATTATAT
2473788 TAATAAAT
1 TAA-AAAT
2473796 TTAATAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAAAATAAAAATAATTATAT
Found at i:2473794 original size:23 final size:24
Alignment explanation
Indices: 2473742--2473794 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
2473732 AACGATTTGG
* *
2473742 TAATATAAATATAAAAATTATTAT
1 TAATAAAAATAAAAAAATTATTAT
*
2473766 T-TTAAAAATAAAAAAATTA-TAT
1 TAATAAAAATAAAAAAATTATTAT
2473788 TAATAAA
1 TAATAAA
2473795 TTTAATAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 4 0.17
23 19 0.79
24 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TAATAAAAATAAAAAAATTATTAT
Found at i:2473795 original size:21 final size:23
Alignment explanation
Indices: 2473746--2473795 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 23
2473736 ATTTGGTAAT
*
2473746 ATAAATATAAAAATTATTATTTTA
1 ATAAATATAAAAA-TATTATATTA
2473770 A-AAATA-AAAAA-ATTATATTA
1 ATAAATATAAAAATATTATATTA
2473790 ATAAAT
1 ATAAAT
2473796 TTAATAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 9 0.38
21 4 0.17
22 5 0.21
23 5 0.21
24 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAAATATAAAAATATTATATTA
Found at i:2474684 original size:35 final size:36
Alignment explanation
Indices: 2474604--2474689 Score: 95
Period size: 34 Copynumber: 2.4 Consensus size: 36
2474594 TGTAAATATT
* * * *
2474604 AAAAATATGTTAAATTATTTTAAATTTTAAAACTTA
1 AAAAATATATTAAATTATTTAAAAATTAAAAACTTA
* *
2474640 ATAAA-ATATTAAATTA-TTAAAAATTAAAAATTTA
1 AAAAATATATTAAATTATTTAAAAATTAAAAACTTA
2474674 AAAAATATATTTAAAT
1 AAAAATATA-TTAAAT
2474690 ATTGATTAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
34 18 0.44
35 13 0.32
36 10 0.24
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (36 bp):
AAAAATATATTAAATTATTTAAAAATTAAAAACTTA
Found at i:2476213 original size:16 final size:16
Alignment explanation
Indices: 2476192--2476224 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2476182 GCCCTTGTCT
*
2476192 ACAGGACTTGGGTGAA
1 ACAGGACTTGGGGGAA
2476208 ACAGGACTTGGGGGAA
1 ACAGGACTTGGGGGAA
2476224 A
1 A
2476225 GTTGTATTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.39, T:0.15
Consensus pattern (16 bp):
ACAGGACTTGGGGGAA
Found at i:2476456 original size:93 final size:93
Alignment explanation
Indices: 2476297--2476480 Score: 350
Period size: 93 Copynumber: 2.0 Consensus size: 93
2476287 GCCAGTTTAC
* *
2476297 ATAGTTGTTTTATGGAGAAACATTTGTCCTGAAAGAAAACAGGAGTCCTTCTTCAATCTTGACAA
1 ATAGTTGTTTTATAGAGAAACATTTGTCCTGAAAGAAAACAGAAGTCCTTCTTCAATCTTGACAA
2476362 AAAAGATCTATCTAGCTTAGCGTACTTT
66 AAAAGATCTATCTAGCTTAGCGTACTTT
2476390 ATAGTTGTTTTATAGAGAAACATTTGTCCTGAAAGAAAACAGAAGTCCTTCTTCAATCTTGACAA
1 ATAGTTGTTTTATAGAGAAACATTTGTCCTGAAAGAAAACAGAAGTCCTTCTTCAATCTTGACAA
2476455 AAAAGATCTATCTAGCTTAGCGTACT
66 AAAAGATCTATCTAGCTTAGCGTACT
2476481 CTACCAAAAC
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 89 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (93 bp):
ATAGTTGTTTTATAGAGAAACATTTGTCCTGAAAGAAAACAGAAGTCCTTCTTCAATCTTGACAA
AAAAGATCTATCTAGCTTAGCGTACTTT
Found at i:2486578 original size:22 final size:20
Alignment explanation
Indices: 2486551--2486653 Score: 98
Period size: 17 Copynumber: 5.5 Consensus size: 20
2486541 AATTTTTACA
2486551 TAAGGGGGATAAGATAATTC-TT
1 TAAGGGGG--AAGATAA-TCGTT
2486573 TAAGGGGG-AGATAATCGTT
1 TAAGGGGGAAGATAATCGTT
2486592 TAAGGGGG-AG--AATCGTT
1 TAAGGGGGAAGATAATCGTT
*
2486609 TAAGGGGG-AG--AATTGTT
1 TAAGGGGGAAGATAATCGTT
*
2486626 TAAAGGGG-AGATAATCGTT
1 TAAGGGGGAAGATAATCGTT
2486645 TAAGGGGGA
1 TAAGGGGGA
2486654 GAATTTTTTA
Statistics
Matches: 73, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
17 32 0.44
18 2 0.03
19 31 0.42
22 8 0.11
ACGTcount: A:0.33, C:0.04, G:0.37, T:0.26
Consensus pattern (20 bp):
TAAGGGGGAAGATAATCGTT
Found at i:2486586 original size:19 final size:19
Alignment explanation
Indices: 2486562--2486655 Score: 126
Period size: 19 Copynumber: 5.2 Consensus size: 19
2486552 AAGGGGGATA
2486562 AGATAATTC-TTTAAGGGGG
1 AGATAA-TCGTTTAAGGGGG
2486581 AGATAATCGTTTAAGGGGG
1 AGATAATCGTTTAAGGGGG
2486600 AG--AATCGTTTAAGGGGG
1 AGATAATCGTTTAAGGGGG
* *
2486617 AG--AATTGTTTAAAGGGG
1 AGATAATCGTTTAAGGGGG
2486634 AGATAATCGTTTAAGGGGG
1 AGATAATCGTTTAAGGGGG
2486653 AGA
1 AGA
2486656 ATTTTTTAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
17 32 0.47
18 2 0.03
19 34 0.50
ACGTcount: A:0.33, C:0.04, G:0.36, T:0.27
Consensus pattern (19 bp):
AGATAATCGTTTAAGGGGG
Found at i:2486607 original size:17 final size:17
Alignment explanation
Indices: 2486571--2486657 Score: 120
Period size: 17 Copynumber: 4.9 Consensus size: 17
2486561 AAGATAATTC
2486571 TTTAAGGGGGAGATAATCG
1 TTTAAGGGGGAG--AATCG
2486590 TTTAAGGGGGAGAATCG
1 TTTAAGGGGGAGAATCG
*
2486607 TTTAAGGGGGAGAATTG
1 TTTAAGGGGGAGAATCG
*
2486624 TTTAAAGGGGAGATAATCG
1 TTT-AAGGGG-GAGAATCG
2486643 TTTAAGGGGGAGAAT
1 TTTAAGGGGGAGAAT
2486658 TTTTTAAAGG
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
17 29 0.47
18 12 0.19
19 21 0.34
ACGTcount: A:0.32, C:0.03, G:0.38, T:0.26
Consensus pattern (17 bp):
TTTAAGGGGGAGAATCG
Found at i:2486657 original size:36 final size:36
Alignment explanation
Indices: 2486562--2486667 Score: 137
Period size: 36 Copynumber: 2.9 Consensus size: 36
2486552 AAGGGGGATA
*
2486562 AGATAATTC-TTTAAGGGGGAGATAATCGTTT-AAGGGG
1 AGATAA-TCGTTTAAGGGGGAG--AATTGTTTAAAGGGG
*
2486599 -GAGAATCGTTTAAGGGGGAGAATTGTTTAAAGGGG
1 AGATAATCGTTTAAGGGGGAGAATTGTTTAAAGGGG
*
2486634 AGATAATCGTTTAAGGGGGAGAATTTTTTAAAGG
1 AGATAATCGTTTAAGGGGGAGAATTGTTTAAAGG
2486668 CAAAAACGAA
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
34 7 0.11
35 8 0.13
36 47 0.76
ACGTcount: A:0.33, C:0.04, G:0.34, T:0.29
Consensus pattern (36 bp):
AGATAATCGTTTAAGGGGGAGAATTGTTTAAAGGGG
Found at i:2487211 original size:20 final size:19
Alignment explanation
Indices: 2487188--2487261 Score: 87
Period size: 19 Copynumber: 3.7 Consensus size: 19
2487178 CACACCCAGA
*
2487188 TGTATCGATACATGCTGCTT
1 TGTATCGATACATG-TGCAT
*
2487208 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTGCAT
2487227 TGTATCGATACATG-GACAAAT
1 TGTATCGATACATGTG-C--AT
2487248 TGTATCGATACATG
1 TGTATCGATACATG
2487262 AAACTGGCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.38
20 14 0.29
21 16 0.33
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATGTGCAT
Found at i:2487346 original size:33 final size:33
Alignment explanation
Indices: 2487290--2487353 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
2487280 CTATCACTAT
*
2487290 TTGTATCGATACATGGTACAATGTATCGATATA
1 TTGTATCGATACATGGTACAATGTATAGATATA
2487323 TTGTATCGATACATGAAG-A-AATGTATAGATA
1 TTGTATCGATACATG--GTACAATGTATAGATA
2487354 CATAGCTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATGGTACAATGTATAGATATA
Found at i:2491421 original size:61 final size:61
Alignment explanation
Indices: 2491321--2491457 Score: 159
Period size: 61 Copynumber: 2.2 Consensus size: 61
2491311 TTAAAGAATG
* * * **
2491321 AAGATGAGAAGAGTGATAAAGATGCCAATATGCTGATTC-AGGACCAACGATATCGGGCTTA
1 AAGATGAGAAGAATGATAAAGATGCCAACATGCTAATTCAAGG-CCAACGATATCGGAATTA
* * ** *
2491382 AAGATGAGAAGAATGATAAAGGTGCTAACATGCTAATTCAAGGCCCGCGATATTGGAATTA
1 AAGATGAGAAGAATGATAAAGATGCCAACATGCTAATTCAAGGCCAACGATATCGGAATTA
*
2491443 AAGATGCGAAGAATG
1 AAGATGAGAAGAATG
2491458 TCAATATGCT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 61 0.95
62 3 0.05
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.21
Consensus pattern (61 bp):
AAGATGAGAAGAATGATAAAGATGCCAACATGCTAATTCAAGGCCAACGATATCGGAATTA
Found at i:2491500 original size:52 final size:50
Alignment explanation
Indices: 2491411--2491653 Score: 179
Period size: 52 Copynumber: 4.8 Consensus size: 50
2491401 AGGTGCTAAC
* * * * *
2491411 ATGCTAATTCAAGGCCCGCGATATTGGAATTAAAGATGCGAAGAATGTCAAT
1 ATGCTGATTCAAGGCCAGCGACATTAGACTT-AAGATG-GAAGAATGTCAAT
* *
2491463 ATGCTGATTCACA-GTCAGCGACATTAGACTTGAAGATGAGAAGAATGCCAAT
1 ATGCTGATTCA-AGGCCAGCGACATTAGACTT-AAGATG-GAAGAATGTCAAT
* * * * * *
2491515 GTGTTGATTTAAGGCCAGCGACATTGGGCTTAAGAATGTTAA-AGATGTCAAT
1 ATGCTGATTCAAGGCCAGCGACATTAGACTTAAG-ATG-GAAGA-ATGTCAAT
* * ** * *
2491567 ATGTTGATTCAAGGCCAGCGATAACAGACTTAAGAT-GAAG-GTGACAAT
1 ATGCTGATTCAAGGCCAGCGACATTAGACTTAAGATGGAAGAATGTCAAT
** *
2491615 ATGCTGATTCAAGGTTAGTGACATTAGACTTAAAGATGG
1 ATGCTGATTCAAGGCCAGCGACATTAGACTT-AAGATGG
2491654 TAAAGGTGCC
Statistics
Matches: 149, Mismatches: 35, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
48 30 0.20
49 7 0.05
50 1 0.01
51 7 0.05
52 103 0.69
53 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (50 bp):
ATGCTGATTCAAGGCCAGCGACATTAGACTTAAGATGGAAGAATGTCAAT
Found at i:2496742 original size:35 final size:35
Alignment explanation
Indices: 2496696--2496889 Score: 210
Period size: 35 Copynumber: 5.5 Consensus size: 35
2496686 CAAGCTTTTT
*
2496696 CCATCATCATTTGACTATATTTGGTCAAACTCTTC
1 CCATCATCATTTGACTATATCTGGTCAAACTCTTC
*
2496731 CCATCATCATTTGACTGTATCTGGTCAAACTCTTC
1 CCATCATCATTTGACTATATCTGGTCAAACTCTTC
** * * *
2496766 CCATCATTGTTTGATTATATATGGTCAAACACTTTC
1 CCATCATCATTTGACTATATCTGGTCAAACTC-TTC
** * * *
2496802 TAAT-ATCATTTGACTATATCTAGTCAAACTTTTT
1 CCATCATCATTTGACTATATCTGGTCAAACTCTTC
* * * *
2496836 CCATCATCACTTGACTATATCAGGTCTAACTCTTT
1 CCATCATCATTTGACTATATCTGGTCAAACTCTTC
* *
2496871 TCATCGTCATTTGACTATA
1 CCATCATCATTTGACTATA
2496890 CTTAGTCAAA
Statistics
Matches: 129, Mismatches: 28, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
34 4 0.03
35 120 0.93
36 5 0.04
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (35 bp):
CCATCATCATTTGACTATATCTGGTCAAACTCTTC
Found at i:2496884 original size:105 final size:105
Alignment explanation
Indices: 2496701--2496889 Score: 252
Period size: 105 Copynumber: 1.8 Consensus size: 105
2496691 TTTTTCCATC
* * * * *
2496701 ATCATTTGACTATATTTGGTCAAACTCTTCCCATCATCATTTGACTGTATCTGGTCAAACTCTTC
1 ATCATTTGACTATATCTAGTCAAACTCTTCCCATCATCACTTGACTATATCAGGTCAAACTCTTC
** *
2496766 CCATCATTGTTTGATTATATATGGTCAAACACTTTCTAAT
66 CCATCATCATTTGACTATATATGGTCAAACACTTTCTAAT
* * * *
2496806 ATCATTTGACTATATCTAGTCAAACTTTTTCCATCATCACTTGACTATATCAGGTCTAACTCTTT
1 ATCATTTGACTATATCTAGTCAAACTCTTCCCATCATCACTTGACTATATCAGGTCAAACTCTTC
* *
2496871 TCATCGTCATTTGACTATA
66 CCATCATCATTTGACTATA
2496890 CTTAGTCAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
105 70 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (105 bp):
ATCATTTGACTATATCTAGTCAAACTCTTCCCATCATCACTTGACTATATCAGGTCAAACTCTTC
CCATCATCATTTGACTATATATGGTCAAACACTTTCTAAT
Found at i:2497089 original size:60 final size:61
Alignment explanation
Indices: 2496877--2497326 Score: 333
Period size: 60 Copynumber: 7.5 Consensus size: 61
2496867 CTTTTCATCG
* * * * * * * *
2496877 TCATTTGACTATACTTAGTCAAATCTTACCCCTCTTAACTGTATTAGGTGAAGTT-TTTCC
1 TCATTTGACTGTACTCAATCAAATCTCACCCCTCTTGACTGTATTCGGTCAAGTTCTATCC
* * * ** * *
2496937 TCATTTGACTATACTTAGTCAAATCTCACCTTTCTTGAGTGTATTCGGTCAAG-ACTAT-C
1 TCATTTGACTGTACTCAATCAAATCTCACCCCTCTTGACTGTATTCGGTCAAGTTCTATCC
* * * *
2496996 TTATTTGACTGTATTCAATCAAATTTCACCCCCTCTTGACTGCATTCGGTCAAGTTC-ATCC
1 TCATTTGACTGTACTCAATCAAATCTCA-CCCCTCTTGACTGTATTCGGTCAAGTTCTATCC
* * * * *
2497057 TCATTTGATTGGACTCGATCAAATCTCACCCCTCTTGACTGTATTCAGTCAAGAT-TATCC
1 TCATTTGACTGTACTCAATCAAATCTCACCCCTCTTGACTGTATTCGGTCAAGTTCTATCC
* * * * * * * ** * *
2497117 TTATTTGACTATATTTAATCAAATTTCACCCCTCTTGATTGTATTTGACCAA-CTCTTTCC
1 TCATTTGACTGTACTCAATCAAATCTCACCCCTCTTGACTGTATTCGGTCAAGTTCTATCC
* * ** * * *
2497177 TTATTTGATTGTACTCGGTCAAATCTCA-CCCTCTTGACTGTATTCGATTAAG-ACTATCC
1 TCATTTGACTGTACTCAATCAAATCTCACCCCTCTTGACTGTATTCGGTCAAGTTCTATCC
* * * * * * * * *
2497236 TCATTTGATTGTATTCAGTCAAATTTTACCCCTGTTTCACTGTATTCAGTCAAG-TCTTTCC
1 TCATTTGACTGTACTCAATCAAATCTCACCCCT-CTTGACTGTATTCGGTCAAGTTCTATCC
* * *
2497297 TTATTTGACTGTACTCAGTCAAATTTCACC
1 TCATTTGACTGTACTCAATCAAATCTCACC
2497327 ACAGACTTCT
Statistics
Matches: 308, Mismatches: 73, Indels: 17
0.77 0.18 0.04
Matches are distributed among these distances:
59 71 0.23
60 167 0.54
61 70 0.23
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (61 bp):
TCATTTGACTGTACTCAATCAAATCTCACCCCTCTTGACTGTATTCGGTCAAGTTCTATCC
Found at i:2497283 original size:31 final size:29
Alignment explanation
Indices: 2497245--2497322 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
2497235 CTCATTTGAT
*
2497245 TGTATTCAGTCAAATTTTACCCCTGTTTCAC
1 TGTATTCAGTCAAATTTT--CCCTATTTCAC
* * *
2497276 TGTATTCAGTCAAGTCTTTCCTTATTTGAC
1 TGTATTCAGTCAAAT-TTTCCCTATTTCAC
*
2497306 TGTACTCAGTCAAATTT
1 TGTATTCAGTCAAATTT
2497323 CACCACAGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 2 0.05
30 21 0.52
31 14 0.35
32 3 0.08
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.44
Consensus pattern (29 bp):
TGTATTCAGTCAAATTTTCCCTATTTCAC
Found at i:2497289 original size:180 final size:178
Alignment explanation
Indices: 2496893--2497326 Score: 462
Period size: 180 Copynumber: 2.4 Consensus size: 178
2496883 GACTATACTT
* *
2496893 AGTCAAATCTTACCCCTCTTAACTGTATT-AGGTGAAGTTTTTCCTCATTTGACTATACTTAGTC
1 AGTCAAATCTTACCCCTCTTAACTGTATTCA-GTCAAG-TTTTCCTTATTTGACTATACTTAGTC
* ** ** * * *
2496957 AAATCTCACCTTTCTTGAGTGTATTCGGTCAAGACTATCTTATTTGACTGTATTCAATCAAATTT
64 AAATTTCACCCCTCTTGAGTGTATTCGACCAACACTATCTTATTTGACTGTACTCAATCAAATCT
* *
2497022 CACCCCCTCTTGACTGCATTCGGTCAAGTTCATCCTCATTTGATTGGACTC
129 CA-CCCCTCTTGACTGCATTCGATCAAGCTCATCCTCATTTGATTGGACTC
* * * * *
2497073 -GATCAAATCTCACCCCTCTTGACTGTATTCAGTCAAGATTATCCTTATTTGACTATATTTAATC
1 AG-TCAAATCTTACCCCTCTTAACTGTATTCAGTCAAG-TTTTCCTTATTTGACTATACTTAGTC
* * * * * **
2497137 AAATTTCACCCCTCTTGATTGTATTTGACCAACTCTTTCCTTATTTGATTGTACTCGGTCAAATC
64 AAATTTCACCCCTCTTGAGTGTATTCGACCAACACTAT-CTTATTTGACTGTACTCAATCAAATC
* * * *
2497202 TCA-CCCTCTTGACTGTATTCGATTAAGACT-ATCCTCATTTGATTGTATTC
128 TCACCCCTCTTGACTGCATTCGATCAAG-CTCATCCTCATTTGATTGGACTC
* * * * *
2497252 AGTCAAATTTTACCCCTGTTTCACTGTATTCAGTCAAGTCTTTCCTTATTTGACTGTACTCAGTC
1 AGTCAAATCTTACCCCT-CTTAACTGTATTCAGTCAAGT-TTTCCTTATTTGACTATACTTAGTC
2497317 AAATTTCACC
64 AAATTTCACC
2497327 ACAGACTTCT
Statistics
Matches: 209, Mismatches: 38, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
179 54 0.26
180 130 0.62
181 25 0.12
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (178 bp):
AGTCAAATCTTACCCCTCTTAACTGTATTCAGTCAAGTTTTCCTTATTTGACTATACTTAGTCAA
ATTTCACCCCTCTTGAGTGTATTCGACCAACACTATCTTATTTGACTGTACTCAATCAAATCTCA
CCCCTCTTGACTGCATTCGATCAAGCTCATCCTCATTTGATTGGACTC
Found at i:2497299 original size:120 final size:118
Alignment explanation
Indices: 2496895--2497326 Score: 433
Period size: 120 Copynumber: 3.6 Consensus size: 118
2496885 CTATACTTAG
* * * * *
2496895 TCAAATCTT-ACCCCTCTTAACTGTATTAGGTGAAGTTTTTCCTCATTTGACTATACTTAGTCAA
1 TCAAAT-TTCACCCCTCTTGACTGTATTA-GTCAAGTCTTTCCTCATTTGACTGTACTCAGTCAA
* * *
2496959 ATCTCACCTTTCTTGAGTGTATTCGGTCAAGACTAT-CTTATTTGACTGTATTCAA
64 ATCTCACC-CTCTTGACTGTATTCGATCAAGACTATCCTTATTTGACTGTATTCAA
* * * * *
2497014 TCAAATTTCACCCCCTCTTGACTGCATTCGGTCAAGT-TCATCCTCATTTGATTGGACTC-GATC
1 TCAAATTTCA-CCCCTCTTGACTGTATT-AGTCAAGTCT-TTCCTCATTTGACTGTACTCAG-TC
* * *
2497077 AAATCTCACCCCTCTTGACTGTATTC-AGTCAAGATTATCCTTATTTGACTATATTTAA
62 AAATCTCA-CCCTCTTGACTGTATTCGA-TCAAGACTATCCTTATTTGACTGTATTCAA
* * * * * * *
2497135 TCAAATTTCACCCCTCTTGATTGTATTTGACCAACTCTTTCCTTATTTGATTGTACTCGGTCAAA
1 TCAAATTTCACCCCTCTTGACTGTATTAG-TCAAGTCTTTCCTCATTTGACTGTACTCAGTCAAA
* * * *
2497200 TCTCACCCTCTTGACTGTATTCGATTAAGACTATCCTCATTTGATTGTATTCAG
65 TCTCACCCTCTTGACTGTATTCGATCAAGACTATCCTTATTTGACTGTATTCAA
* * * *
2497254 TCAAATTTTACCCCTGTTTCACTGTATTCAGTCAAGTCTTTCCTTATTTGACTGTACTCAGTCAA
1 TCAAATTTCACCCCT-CTTGACTGTATT-AGTCAAGTCTTTCCTCATTTGACTGTACTCAGTCAA
*
2497319 ATTTCACC
64 ATCTCACC
2497327 ACAGACTTCT
Statistics
Matches: 259, Mismatches: 40, Indels: 27
0.79 0.12 0.08
Matches are distributed among these distances:
118 2 0.01
119 64 0.25
120 161 0.62
121 32 0.12
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (118 bp):
TCAAATTTCACCCCTCTTGACTGTATTAGTCAAGTCTTTCCTCATTTGACTGTACTCAGTCAAAT
CTCACCCTCTTGACTGTATTCGATCAAGACTATCCTTATTTGACTGTATTCAA
Found at i:2497559 original size:42 final size:42
Alignment explanation
Indices: 2497512--2497756 Score: 171
Period size: 42 Copynumber: 5.9 Consensus size: 42
2497502 TATTCCCATT
* *
2497512 GGCTCAGACAC-ACGAGACTTC-TCTATCTTTTGTTTGCCTGTC
1 GGCTCAGAC-CTAGGAGACTTCTTC-ATCTTTTGTTTGCCTATC
* * *
2497554 GGCTCAAACCTAGGAGACTTCTTCATCTTTCGTCT-CCTCATC
1 GGCTCAGACCTAGGAGACTTCTTCATCTTTTGTTTGCCT-ATC
* * * *
2497596 GGCTCAGACCTGGGAGACTTTTTCATCTTTTTTTTGCCCATC
1 GGCTCAGACCTAGGAGACTTCTTCATCTTTTGTTTGCCTATC
* * * * *
2497638 AGCTCAGACCCAGGAGACTTCTTCATCTTTTGTCT--ATAGTT
1 GGCTCAGACCTAGGAGACTTCTTCATCTTTTGTTTGCCTA-TC
* * * **
2497679 GGCTCA-AACTCGGGAGACTTCTTCATCTTTTGTCTGCCCGTC
1 GGCTCAGACCT-AGGAGACTTCTTCATCTTTTGTTTGCCTATC
* * * * * *
2497721 AGCTCAGACTTGGGAGATTTTTTTATCTTTT-TTTGC
1 GGCTCAGACCTAGGAGACTTCTTCATCTTTTGTTTGC
2497757 TCGTCGCTCA
Statistics
Matches: 158, Mismatches: 36, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
40 3 0.02
41 37 0.23
42 112 0.71
43 6 0.04
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.38
Consensus pattern (42 bp):
GGCTCAGACCTAGGAGACTTCTTCATCTTTTGTTTGCCTATC
Found at i:2497653 original size:84 final size:83
Alignment explanation
Indices: 2497525--2497729 Score: 245
Period size: 84 Copynumber: 2.5 Consensus size: 83
2497515 TCAGACACAC
* * * *
2497525 GAGACTTC-TCTATCTTTTGTTTGCCTGTCGGCTCAAACCTAGGAGACTTCTTCATCTTTCGTCT
1 GAGACTTCTTC-ATCTTTTGTTTGCCCGTCAGCTCAGACCCAGGAGACTTCTTCATCTTTCGTCT
* *
2497589 CCTCA-TCGGCTCAGAC-CTGG
65 -AT-AGTCGGCTCAAACTC-GG
* * * *
2497609 GAGACTTTTTCATCTTTTTTTTGCCCATCAGCTCAGACCCAGGAGACTTCTTCATCTTTTGTCTA
1 GAGACTTCTTCATCTTTTGTTTGCCCGTCAGCTCAGACCCAGGAGACTTCTTCATCTTTCGTCTA
*
2497674 TAGTTGGCTCAAACTCGG
66 TAGTCGGCTCAAACTCGG
*
2497692 GAGACTTCTTCATCTTTTGTCTGCCCGTCAGCTCAGAC
1 GAGACTTCTTCATCTTTTGTTTGCCCGTCAGCTCAGAC
2497730 TTGGGAGATT
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
82 1 0.01
83 46 0.45
84 54 0.52
85 2 0.02
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.37
Consensus pattern (83 bp):
GAGACTTCTTCATCTTTTGTTTGCCCGTCAGCTCAGACCCAGGAGACTTCTTCATCTTTCGTCTA
TAGTCGGCTCAAACTCGG
Found at i:2497846 original size:42 final size:43
Alignment explanation
Indices: 2497784--2498192 Score: 247
Period size: 42 Copynumber: 9.6 Consensus size: 43
2497774 GAGACTGTTT
** * * *
2497784 GCTCAGACCTAGGAGACTTTCTTTATCTTTT-TTTGCCCGTCA
1 GCTCAGACCCGGGAGACTTTCTTTATCTTTTATCTGCCCATCG
* * * *
2497826 GCGCAGACCGGGGAGACTTTCTCTATCTTTTGTCTGCCCATCG
1 GCTCAGACCCGGGAGACTTTCTTTATCTTTTATCTGCCCATCG
* ** * *
2497869 GTTCAGACTTGGGAGACCTTCTTTATCTATTATCTGCCCATCG
1 GCTCAGACCCGGGAGACTTTCTTTATCTTTTATCTGCCCATCG
* * * *
2497912 GCTTAGACCCGAGAGACTTTTTTTATCTTTTATCT-ACCATCG
1 GCTCAGACCCGGGAGACTTTCTTTATCTTTTATCTGCCCATCG
* * ** *
2497954 GCTCAGACCCGAGAGACTTTCTTTATCTTTTGTCTGTTCGTCG
1 GCTCAGACCCGGGAGACTTTCTTTATCTTTTATCTGCCCATCG
* *** * * *** *
2497997 GCTTAGACTTAGGAGA-TTTCCTTTATCTTGTGTCTGCATTTCA
1 GCTCAGACCCGGGAGACTTT-CTTTATCTTTTATCTGCCCATCG
* * * * ** *
2498040 GCTCAG-CCCTAGGAGGCTTCCTTTATCTTTTGTCTGCCTGTTG
1 GCTCAGACCC-GGGAGACTTTCTTTATCTTTTATCTGCCCATCG
* * * * * **
2498083 GCTCAGACTCAGGAGAC-TTCTCTATCTTTTGTCTGCCTATTA
1 GCTCAGACCCGGGAGACTTTCTTTATCTTTTATCTGCCCATCG
* * * * * *
2498125 GCTCAAACTCGAGAGAC-TTCTTTATTTTTTATTTGCCCGTCG
1 GCTCAGACCCGGGAGACTTTCTTTATCTTTTATCTGCCCATCG
* * *
2498167 ACTCAGACCCGAGAGGC-TTCTTTATC
1 GCTCAGACCCGGGAGACTTTCTTTATC
2498193 CTTCGTCTAC
Statistics
Matches: 288, Mismatches: 73, Indels: 12
0.77 0.20 0.03
Matches are distributed among these distances:
42 142 0.49
43 142 0.49
44 4 0.01
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (43 bp):
GCTCAGACCCGGGAGACTTTCTTTATCTTTTATCTGCCCATCG
Found at i:2497883 original size:43 final size:43
Alignment explanation
Indices: 2497784--2498119 Score: 263
Period size: 43 Copynumber: 7.9 Consensus size: 43
2497774 GAGACTGTTT
* * *
2497784 GCTCAGACCTAGGAGACTTTCTTTATCTTTT-TTTGCCCGTCA
1 GCTCAGACCTAGGAGACTTTCTTTATCTTTTGTCTGCCCATCG
* ** *
2497826 GCGCAGACCGGGGAGACTTTCTCTATCTTTTGTCTGCCCATCG
1 GCTCAGACCTAGGAGACTTTCTTTATCTTTTGTCTGCCCATCG
* * * * * *
2497869 GTTCAGACTTGGGAGACCTTCTTTATCTATTATCTGCCCATCG
1 GCTCAGACCTAGGAGACTTTCTTTATCTTTTGTCTGCCCATCG
* * * * *
2497912 GCTTAGACC-CGAGAGACTTTTTTTATCTTTTATCT-ACCATCG
1 GCTCAGACCTAG-GAGACTTTCTTTATCTTTTGTCTGCCCATCG
* ** *
2497954 GCTCAGACC-CGAGAGACTTTCTTTATCTTTTGTCTGTTCGTCG
1 GCTCAGACCTAG-GAGACTTTCTTTATCTTTTGTCTGCCCATCG
* * * *** *
2497997 GCTTAGACTTAGGAGA-TTTCCTTTATCTTGTGTCTGCATTTCA
1 GCTCAGACCTAGGAGACTTT-CTTTATCTTTTGTCTGCCCATCG
* * * ** *
2498040 GCTCAGCCCTAGGAGGCTTCCTTTATCTTTTGTCTGCCTGTTG
1 GCTCAGACCTAGGAGACTTTCTTTATCTTTTGTCTGCCCATCG
*
2498083 GCTCAGA-CTCAGGAGAC-TTCTCTATCTTTTGTCTGCC
1 GCTCAGACCT-AGGAGACTTTCTTTATCTTTTGTCTGCC
2498120 TATTAGCTCA
Statistics
Matches: 235, Mismatches: 52, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
42 89 0.38
43 143 0.61
44 3 0.01
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (43 bp):
GCTCAGACCTAGGAGACTTTCTTTATCTTTTGTCTGCCCATCG
Found at i:2497952 original size:85 final size:86
Alignment explanation
Indices: 2497838--2498004 Score: 201
Period size: 85 Copynumber: 2.0 Consensus size: 86
2497828 GCAGACCGGG
* * * ** *
2497838 GAGACTTTCTCTATCTTTTGTCTGCCCATCGGTTCAGACTTGGGAGACCTTCTTTATCTATTATC
1 GAGACTTTCTCTATCTTTTATCTGACCATCGGCTCAGACCCGAGAGACCTTCTTTATCTATTATC
2497903 TGCCCATCGGCTTAGACCCGA
66 TGCCCATCGGCTTAGACCCGA
* * * * *
2497924 GAGACTTTTTTTATCTTTTATCT-ACCATCGGCTCAGACCCGAGAGACTTTCTTTATCTTTTGTC
1 GAGACTTTCTCTATCTTTTATCTGACCATCGGCTCAGACCCGAGAGACCTTCTTTATCTATTATC
** *
2497988 TGTTCGTCGGCTTAGAC
66 TGCCCATCGGCTTAGAC
2498005 TTAGGAGATT
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
85 47 0.70
86 20 0.30
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.39
Consensus pattern (86 bp):
GAGACTTTCTCTATCTTTTATCTGACCATCGGCTCAGACCCGAGAGACCTTCTTTATCTATTATC
TGCCCATCGGCTTAGACCCGA
Found at i:2499529 original size:167 final size:168
Alignment explanation
Indices: 2499125--2499591 Score: 562
Period size: 167 Copynumber: 2.8 Consensus size: 168
2499115 GGTTTTCTTT
* * *** *
2499125 TCCATAAATTATTTCGGGAGGA-TTTTCATTAGTTCAAAATTTTTAAAATTCATCGAATATTA-T
1 TCCATAAATTTTTTTGGGAGGATTTTTC-TTAGTTTTTAATTTTTAAAATTCATCAAATATTATT
* * * *
2499188 ATTTA-ATCACCATTAAATCA-ATTTTGAAAATTTAATTCATTTTCATGAGTTTTT-AAATTTTT
65 ATTTATTTCA-TATTAAATCAGTTTTTAAAAATTT-ATTCATTTTCATGAGTTTTTGAAATTTTT
* *
2499250 TCTTGAAATT-TTTCTATCTTTGAAATACGAAGTCTTCTAC
128 TCCTGAAATTCTCTCTATCTTTGAAATACGAAGTCTTCTAC
** * * * *
2499290 TCTGTAAA-TTTTTTGAGAGGATTTTGCTTTGTTTTTAATTTTTAAAATTCATCAAATACTATTA
1 TCCATAAATTTTTTTGGGAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTA
*
2499354 TTTATTTCATATTAAATCAGTTTTTAAAAATTTATTCATTTTCATGGGTTTTTGAAATTTTTTCC
66 TTTATTTCATATTAAATCAGTTTTTAAAAATTTATTCATTTTCATGAGTTTTTGAAATTTTTTCC
* *
2499419 TGAAATTCTCT-TATTTTTGAAATACGAAGT-TTTTCAC
131 TGAAATTCTCTCTATCTTTGAAATACGAAGTCTTCT-AC
* *
2499456 TCCATAAATTTTTTTGGGAGGATTTTTCTTAGTTTTTTATTTTTAAAATCCATCAAATATTATTA
1 TCCATAAATTTTTTTGGGAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTA
* * * *
2499521 TTTATTTCATATTAAATTAGTTTTCAAAAATTAATTCATTTTCATGAGTCTTTG--A-TTTTTCC
66 TTTATTTCATATTAAATCAGTTTTTAAAAATTTATTCATTTTCATGAGTTTTTGAAATTTTTTCC
2499583 TTGAAATTC
131 -TGAAATTC
2499592 CCCTTTTCTT
Statistics
Matches: 259, Mismatches: 34, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
164 45 0.17
165 56 0.22
166 57 0.22
167 101 0.39
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.50
Consensus pattern (168 bp):
TCCATAAATTTTTTTGGGAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTA
TTTATTTCATATTAAATCAGTTTTTAAAAATTTATTCATTTTCATGAGTTTTTGAAATTTTTTCC
TGAAATTCTCTCTATCTTTGAAATACGAAGTCTTCTAC
Found at i:2499799 original size:13 final size:13
Alignment explanation
Indices: 2499781--2499806 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2499771 CAATTTTTTG
2499781 TGTATCGATACAT
1 TGTATCGATACAT
2499794 TGTATCGATACAT
1 TGTATCGATACAT
2499807 ACTTGCTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2500545 original size:21 final size:21
Alignment explanation
Indices: 2500504--2500547 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2500494 CTCCCCTTTA
* *
2500504 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
2500525 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
2500546 TC
1 TC
2500548 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:2502369 original size:13 final size:13
Alignment explanation
Indices: 2502351--2502389 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2502341 ATAATCACCC
*
2502351 TGTATCGATACAG
1 TGTATCGATACAA
2502364 TGTATCGATACAA
1 TGTATCGATACAA
2502377 TGTATCGATACAA
1 TGTATCGATACAA
2502390 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2502400 original size:20 final size:20
Alignment explanation
Indices: 2502375--2502453 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
2502365 GTATCGATAC
2502375 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
2502395 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
2502420 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
2502440 CATGTATCGATACA
1 AATGTATCGATACA
2502454 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:2505705 original size:13 final size:13
Alignment explanation
Indices: 2505687--2505712 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2505677 CAATTTTTTG
2505687 TGTATCGATACAT
1 TGTATCGATACAT
2505700 TGTATCGATACAT
1 TGTATCGATACAT
2505713 ACTTTGGTGT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2505709 original size:33 final size:33
Alignment explanation
Indices: 2505667--2505731 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2505657 TACAAGCCAA
* *
2505667 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
2505700 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
2505732 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:2514485 original size:13 final size:13
Alignment explanation
Indices: 2514467--2514492 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2514457 CAATTTTTTG
2514467 TGTATCGATACAT
1 TGTATCGATACAT
2514480 TGTATCGATACAT
1 TGTATCGATACAT
2514493 ACTTTAGTGT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2514489 original size:33 final size:33
Alignment explanation
Indices: 2514447--2514511 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2514437 TACAAGCCAA
* *
2514447 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTAGTGTATCGATACAT
2514480 TGTATCGATACATACTTTAGTGTATCGATACA
1 TGTATCGATACATACTTTAGTGTATCGATACA
2514512 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTAGTGTATCGATACAT
Found at i:2514589 original size:20 final size:20
Alignment explanation
Indices: 2514543--2514615 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
2514533 TCCCAATGAC
***
2514543 ATGTATCGATACATTTTTTT
1 ATGTATCGATACATTGAATT
2514563 GATGTATCGATACATTGCAA-T
1 -ATGTATCGATACATTG-AATT
*
2514584 ATGTATCGATACTTTGAATT
1 ATGTATCGATACATTGAATT
*
2514604 GTGTATCGATAC
1 ATGTATCGATAC
2514616 TTTTAAGGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 27 0.60
21 16 0.36
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTGAATT
Found at i:2520471 original size:16 final size:16
Alignment explanation
Indices: 2520452--2520485 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2520442 ATTCATTGTC
*
2520452 AATGTGATTTCATTTA
1 AATGTGATTTCATGTA
2520468 AATGTGATTTCATGTA
1 AATGTGATTTCATGTA
2520484 AA
1 AA
2520486 GCTTGAGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (16 bp):
AATGTGATTTCATGTA
Found at i:2523324 original size:19 final size:19
Alignment explanation
Indices: 2523300--2523341 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
2523290 CAACCTTGTC
2523300 TTATATGAAGTTATACTTG
1 TTATATGAAGTTATACTTG
2523319 TTATATGAAGTTATACTTG
1 TTATATGAAGTTATACTTG
2523338 TTAT
1 TTAT
2523342 CTATTTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (19 bp):
TTATATGAAGTTATACTTG
Found at i:2532151 original size:19 final size:20
Alignment explanation
Indices: 2532127--2532173 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
2532117 TTTTAACTTT
2532127 ATATTTATCTCAAT-AA-ATA
1 ATATTTATCT-AATGAATATA
2532146 ATATTTATCTAATGAATATA
1 ATATTTATCTAATGAATATA
2532166 ATTATTTA
1 A-TATTTA
2532174 ATAATTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.12
19 12 0.48
20 4 0.16
21 6 0.24
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATTTATCTAATGAATATA
Found at i:2538780 original size:122 final size:123
Alignment explanation
Indices: 2538549--2538907 Score: 438
Period size: 122 Copynumber: 2.9 Consensus size: 123
2538539 GGTGTTCTAG
* *
2538549 AAATAAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTAT-AG
1 AAAT-AAAATCAAGGTTGGAGTATCCCCTCG-AAATAACAGGGTTGGAGTATCCCTGATTGTGAG
* *
2538613 AAAATTGGTATTTT-GAAGATAAAATCAGAGTTGGAGTATCCCCGATTGTGGAAAATTGG-T
64 -AAATTGGTGTTTTGGAA-ATAAAATCGGAGTTGGAGTATCCCCGATTGTGGAAAATTGGTT
* *
2538673 -AATAAAGTCAAGGTTGGAGTATCCCCTCAGAAATAACTGGGTTGGAGTATCCCTGATTGTGAGA
1 AAATAAAATCAAGGTTGGAGTATCCCCTC-GAAATAACAGGGTTGGAGTATCCCTGATTGTGAGA
* * *
2538737 AATTGGTGTTTTGGAAATAAAACCGGAGTTGGAATATCTCCGATTGTGGAAAATTGGTATTTTAT
65 AATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTGTGGAAAATTGG-----T-T
* * * *
2538802 AAATAAAATCAGGGTTGGAGTATCCCCTCGGAAATAACAGGATTGGAGTATCCCCGATTGTGAAA
1 AAATAAAATCAAGGTTGGAGTATCCCCTC-GAAATAACAGGGTTGGAGTATCCCTGATTGTGAGA
* * *
2538867 AACTGGTGTTTTGGGAATAAAATCGGGGTTGGAGTATCCCC
65 AATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
2538908 TCGAAAATAA
Statistics
Matches: 202, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
122 100 0.50
123 9 0.04
129 1 0.00
130 92 0.46
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (123 bp):
AAATAAAATCAAGGTTGGAGTATCCCCTCGAAATAACAGGGTTGGAGTATCCCTGATTGTGAGAA
ATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTGTGGAAAATTGGTT
Found at i:2538782 original size:51 final size:51
Alignment explanation
Indices: 2538713--2538827 Score: 128
Period size: 51 Copynumber: 2.3 Consensus size: 51
2538703 AAATAACTGG
* * *
2538713 GTTGGAGTATCCCTGATTGT-GAGAAATTGGTGTTTTGGAAATAAAACCGGA
1 GTTGGAATATCCCTGATTGTGGA-AAATTGGTATTTTAGAAATAAAACCGGA
* *
2538764 GTTGGAATATCTCC-GATTGTGGAAAATTGGTATTTTATAAATAAAATCAGG-
1 GTTGGAATATC-CCTGATTGTGGAAAATTGGTATTTTAGAAATAAAA-CCGGA
*
2538815 GTTGGAGTATCCC
1 GTTGGAATATCCC
2538828 CTCGGAAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
50 2 0.04
51 46 0.84
52 7 0.13
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.33
Consensus pattern (51 bp):
GTTGGAATATCCCTGATTGTGGAAAATTGGTATTTTAGAAATAAAACCGGA
Found at i:2538886 original size:79 final size:79
Alignment explanation
Indices: 2538765--2538938 Score: 240
Period size: 79 Copynumber: 2.2 Consensus size: 79
2538755 AAAACCGGAG
* * * * *
2538765 TTGGAATATCTCCGATTGTGGAAAATTGGTATTTTATAAATAAAATCAGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCT
*
2538830 CGGAAATAACAGGA
66 CGAAAATAACAGGA
* * * *
2538844 TTGGAGTATCCCCGATTGTGAAAAACTGGTGTTTTGGGAATAAAATCGGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCT
**
2538909 CGAAAATAATGGGA
66 CGAAAATAACAGGA
2538923 TTGGAGTATCCCCGAT
1 TTGGAGTATCCCCGAT
2538939 GACATAACGG
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 83 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (79 bp):
TTGGAGTATCCCCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCT
CGAAAATAACAGGA
Found at i:2538957 original size:107 final size:106
Alignment explanation
Indices: 2538816--2539121 Score: 353
Period size: 107 Copynumber: 2.9 Consensus size: 106
2538806 AAAATCAGGG
*** * * * *
2538816 TTGGAGTATCCCCTCGGAAATAACAGGATTGGAGTATCCCCGATTGTGAAAAACTGGTGTTTTGG
1 TTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA-TGATGTTTTGA
2538881 GAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAATGGGA
65 GAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAATGGGA
* * * *
2538923 TTGGAGTATCCCCGATGACATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTT-A
1 TTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAT-GATGTTTTGA
** * * * * *
2538987 GATATAAAGCCGGGGTTAGAGTATCTCTTCGGAAATAATGGGG
65 GA-ATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAATGGGA
* * * *
2539030 CTGGAGTATCCCCGATGAAATAACGAGGTTGGTGTATCCCCAATTGTGAAAAATTGATGTTTTGA
1 TTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA-TGATGTTTTGA
* *
2539095 AAATAAAATCGGAGTTGGAGTATCCCC
65 GAATAAAATCGGGGTTGGAGTATCCCC
2539122 GATTGCGGTA
Statistics
Matches: 162, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
106 3 0.02
107 156 0.96
108 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (106 bp):
TTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATGATGTTTTGAG
AATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAATGGGA
Found at i:2539118 original size:51 final size:51
Alignment explanation
Indices: 2539057--2539225 Score: 162
Period size: 51 Copynumber: 3.3 Consensus size: 51
2539047 AAATAACGAG
* * *
2539057 GTTGGTGTATCCCCAATTGTGAAAAATTGATGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGAAAATAAAATCGGA
* ** * * *
2539108 GTTGGAGTATCCCCGATTGCGGTAAATCGATGCTTT-AGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGA-AAATAAAATCGGA
* ** * ** *
2539159 GTTGGAGTATCCCCGATTAAGAAAAATTGACATTTTGGAAATGGAACCGG-
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGAAAATAAAATCGGA
2539209 GATTGGAGTATCCCCGA
1 G-TTGGAGTATCCCCGA
2539226 GATGAAAAAT
Statistics
Matches: 94, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
50 2 0.02
51 92 0.98
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGAAAATAAAATCGGA
Found at i:2541594 original size:20 final size:19
Alignment explanation
Indices: 2541525--2541598 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
2541515 AAAATGCTTG
* *
2541525 AATGTATAGATACATTGTAA
1 AATGTATCGATACAATG-AA
* *
2541545 AATGTATCAATACAATGAGC
1 AATGTATCGATACAATGA-A
2541565 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
*
2541585 AATGTGTCGATACA
1 AATGTATCGATACA
2541599 TCTAGGAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:2547858 original size:9 final size:9
Alignment explanation
Indices: 2547844--2547877 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
2547834 ATTCGTACCG
2547844 AAAAAAAGA
1 AAAAAAAGA
*
2547853 AAAAAAACA
1 AAAAAAAGA
2547862 AAAAAATAGA
1 AAAAAA-AGA
2547872 AAAAAA
1 AAAAAA
2547878 TAAACAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.88, C:0.03, G:0.06, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:2547896 original size:9 final size:9
Alignment explanation
Indices: 2547844--2547911 Score: 55
Period size: 10 Copynumber: 6.8 Consensus size: 9
2547834 ATTCGTACCG
*
2547844 AAAAAAAGA
1 AAAAAAACA
2547853 AAAAAAACAA
1 AAAAAAAC-A
*
2547863 AAAAATAGAAA
1 AAAAA-A-ACA
2547874 AAAATAAACA
1 AAAA-AAACA
2547884 AAAAAAACAA
1 AAAAAAAC-A
2547894 AAAACAAACA
1 AAAA-AAACA
2547904 AACAAAAA
1 AA-AAAAA
2547912 AGAGGTCCAG
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
9 11 0.22
10 23 0.47
11 13 0.27
12 2 0.04
ACGTcount: A:0.85, C:0.09, G:0.03, T:0.03
Consensus pattern (9 bp):
AAAAAAACA
Found at i:2547897 original size:8 final size:8
Alignment explanation
Indices: 2547853--2547912 Score: 54
Period size: 8 Copynumber: 7.8 Consensus size: 8
2547843 GAAAAAAAGA
2547853 AAAAAAAC
1 AAAAAAAC
2547861 AAAAAAA-
1 AAAAAAAC
* *
2547868 TAGAAAA-
1 AAAAAAAC
*
2547875 AAATAAAC
1 AAAAAAAC
2547883 AAAAAAA-
1 AAAAAAAC
2547890 ACAAAAAAC
1 A-AAAAAAC
*
2547899 AAACAAAC
1 AAAAAAAC
2547907 AAAAAA
1 AAAAAA
2547913 GAGGTCCAGA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
7 10 0.24
8 30 0.73
9 1 0.02
ACGTcount: A:0.85, C:0.10, G:0.02, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:2549187 original size:28 final size:28
Alignment explanation
Indices: 2549154--2549664 Score: 553
Period size: 28 Copynumber: 18.1 Consensus size: 28
2549144 CTAGAATGTT
* * *
2549154 CATCTTTTCAAAGGCCACAAGTCATTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * *
2549182 AATCTTTTCAAAGCCCACAAGTCAGTTG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
2549210 CACCCTTTCAAAGCCCATAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
2549238 CATTCTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * * *
2549266 CATCATTTTAAAGCCCATAAGTCAGCGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
2549294 CAT-CTCTTCAAAAGACCACAAGTCAGTGG
1 CATCCT-TTC-AAAGCCCACAAGTCAGTGG
*
2549323 CATCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
2549351 CACCCCTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * *
2549379 TATCCTTTCAAAGCCCATAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* ** *
2549407 CAT-CTCTTAAAAAACCACAAGTCACTGG
1 CATCCT-TTCAAAGCCCACAAGTCAGTGG
*
2549435 CA-CCTTTTCAAAGCCCACAAGTTAGTGG
1 CATCC-TTTCAAAGCCCACAAGTCAGTGG
*
2549463 CACCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * *
2549491 CACCCTTTCAAAGCCCATAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
2549519 CACCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * * * *
2549547 TACCCCTACAAAGCCCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
2549575 CACCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
2549603 CATACCCTTTCAAAGCACACAAGTC-GATGG
1 CAT--CCTTTCAAAGCCCACAAGTCAG-TGG
*
2549633 CACCCTTTCAAAGCCCACACAAGTCAGTGG
1 CATCCTTTCAAAG-CC-CACAAGTCAGTGG
2549663 CA
1 CA
2549665 ACTCTTTTTA
Statistics
Matches: 411, Mismatches: 59, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
27 3 0.01
28 342 0.83
29 27 0.07
30 38 0.09
31 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
CATCCTTTCAAAGCCCACAAGTCAGTGG
Found at i:2549694 original size:32 final size:31
Alignment explanation
Indices: 2549642--2549704 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
2549632 GCACCCTTTC
2549642 AAAGCCCACACAAGTCAGTGGCAACTCTTTTT
1 AAAGCCCACACAAGTCAGTGGCAACT-TTTTT
* * * *
2549674 AAAGTCCACATAAGTTAGTGGCACCTTTTTT
1 AAAGCCCACACAAGTCAGTGGCAACTTTTTT
2549705 CTAAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 5 0.19
32 22 0.81
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (31 bp):
AAAGCCCACACAAGTCAGTGGCAACTTTTTT
Found at i:2550569 original size:20 final size:20
Alignment explanation
Indices: 2550544--2550671 Score: 87
Period size: 20 Copynumber: 5.8 Consensus size: 20
2550534 TTTTACCTAG
2550544 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
2550564 ATGTATCGATACATTCTATCTTTTTACCGA
1 ATGTATCGAT--A--C-A--TTTTT--C-A
*
2550594 GATGTATCGAAACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* *
2550615 ATGTATCGATACGTGTATT-A
1 ATGTATCGATACAT-TTTTCA
* * *
2550635 ATATATAGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
2550655 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
2550672 GTCTTTTTAC
Statistics
Matches: 84, Mismatches: 11, Indels: 26
0.69 0.09 0.21
Matches are distributed among these distances:
19 3 0.04
20 49 0.58
21 4 0.05
22 2 0.02
24 6 0.07
25 1 0.01
26 1 0.01
27 6 0.07
29 2 0.02
30 1 0.01
31 9 0.11
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2550709 original size:91 final size:91
Alignment explanation
Indices: 2550551--2550717 Score: 255
Period size: 91 Copynumber: 1.8 Consensus size: 91
2550541 TAGATGTATC
* **
2550551 GATACATTTTTCAATGTATCGATACATTCTATCTTTTTACCGAGATGTATCGAAACATTTTTCAA
1 GATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCGAGATGTATCGAAACATTAATCAA
2550616 TGTATCGATACGTGTATTAATATATA
66 TGTATCGATACGTGTATTAATATATA
* * * *
2550642 GATACATTCTTCAATGTATCGATACATTTTGTCTTTTTACCTAGATGTATCGATACATTGAAT-A
1 GATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCGAGATGTATCGAAACATT-AATCA
2550706 ATGTATCGATAC
65 ATGTATCGATAC
2550718 ATCTAGTTAA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
91 67 0.99
92 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (91 bp):
GATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCGAGATGTATCGAAACATTAATCAA
TGTATCGATACGTGTATTAATATATA
Found at i:2556322 original size:21 final size:21
Alignment explanation
Indices: 2556298--2556337 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2556288 GAGATGCTGG
*
2556298 ACATATTAAAAAATGCATGAA
1 ACATAATAAAAAATGCATGAA
2556319 ACATAATAAAAAATGCATG
1 ACATAATAAAAAATGCATG
2556338 GTCAAAGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (21 bp):
ACATAATAAAAAATGCATGAA
Found at i:2557239 original size:20 final size:22
Alignment explanation
Indices: 2557209--2557252 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
2557199 TGATTTCCCG
2557209 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
2557230 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
2557251 TG
1 TG
2557253 AAAATATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:2557324 original size:13 final size:13
Alignment explanation
Indices: 2557306--2557330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2557296 CAATTTTTGG
2557306 TGTATCGATACAT
1 TGTATCGATACAT
2557319 TGTATCGATACA
1 TGTATCGATACA
2557331 AGTTTGGCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2558246 original size:22 final size:20
Alignment explanation
Indices: 2558220--2558263 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 20
2558210 TTATAGATTA
2558220 AAAAATCAAAGTACAATGCAAAT
1 AAAAA-CAAAGT-CAA-GCAAAT
2558243 AAAAACAAAGTCAAGCAAAT
1 AAAAACAAAGTCAAGCAAAT
2558263 A
1 A
2558264 CATTAAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 3 0.14
22 6 0.29
23 5 0.24
ACGTcount: A:0.64, C:0.14, G:0.09, T:0.14
Consensus pattern (20 bp):
AAAAACAAAGTCAAGCAAAT
Found at i:2559923 original size:13 final size:13
Alignment explanation
Indices: 2559885--2559923 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
2559875 ATAATCCCCG
*
2559885 TGTATCGATACAG
1 TGTATCGATACAA
2559898 TGTATCGATACAA
1 TGTATCGATACAA
*
2559911 TGTATTGATACAA
1 TGTATCGATACAA
2559924 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2566044 original size:20 final size:22
Alignment explanation
Indices: 2566014--2566057 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
2566004 TGATTTCTCG
2566014 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
2566035 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
2566056 TG
1 TG
2566058 AAAATATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:2566129 original size:13 final size:13
Alignment explanation
Indices: 2566111--2566136 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2566101 CAATTTTTGG
2566111 TGTATCGATACAT
1 TGTATCGATACAT
2566124 TGTATCGATACAT
1 TGTATCGATACAT
2566137 ACTTTGTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2566133 original size:33 final size:32
Alignment explanation
Indices: 2566091--2566154 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
2566081 TACAAGCCAA
*
2566091 TGTATCGATACA-ATTTTTGGTGTATCGATACAT
1 TGTATCGATACATA-CTTT-GTGTATCGATACAT
2566124 TGTATCGATACATACTTTGTGTATCGATACA
1 TGTATCGATACATACTTTGTGTATCGATACA
2566155 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 15 0.52
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATACTTTGTGTATCGATACAT
Found at i:2566151 original size:32 final size:33
Alignment explanation
Indices: 2566091--2566154 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
2566081 TACAAGCCAA
*
2566091 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATCTTTGGTGTATCGATACAT
2566124 TGTATCGATAC-ATACTTT-GTGTATCGATACA
1 TGTATCGATACAAT-CTTTGGTGTATCGATACA
2566155 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATCTTTGGTGTATCGATACAT
Found at i:2567244 original size:20 final size:17
Alignment explanation
Indices: 2567202--2567272 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 17
2567192 ATTTAACTAG
*
2567202 ATGTATCGATACATTGA
1 ATGTATCGATACATTAA
2567219 ATGTATCGATACATTCATA
1 ATGTATCGATACATT-A-A
2567238 CATGTATCGATACATTGAAA
1 -ATGTATCGATACATT--AA
2567258 ATTGTATCGATACAT
1 A-TGTATCGATACAT
2567273 CTGGGTAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
17 15 0.32
19 2 0.04
20 29 0.62
21 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (17 bp):
ATGTATCGATACATTAA
Found at i:2567318 original size:20 final size:20
Alignment explanation
Indices: 2567293--2567364 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
2567283 AAACAGAATG
2567293 TATCGATACATTCATACATA
1 TATCGATACATTCATACATA
* * *
2567313 TATCGATACATTGA-AGGATG
1 TATCGATACATTCATA-CATA
2567333 TATCGATACATTCATACATA
1 TATCGATACATTCATACATA
*
2567353 TAACGATACATT
1 TATCGATACATT
2567365 GAAGAATGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (20 bp):
TATCGATACATTCATACATA
Found at i:2567335 original size:40 final size:40
Alignment explanation
Indices: 2567287--2567379 Score: 168
Period size: 40 Copynumber: 2.3 Consensus size: 40
2567277 GTAAAAAAAC
*
2567287 AGAATGTATCGATACATTCATACATATATCGATACATTGA
1 AGAATGTATCGATACATTCATACATATAACGATACATTGA
*
2567327 AGGATGTATCGATACATTCATACATATAACGATACATTGA
1 AGAATGTATCGATACATTCATACATATAACGATACATTGA
2567367 AGAATGTATCGAT
1 AGAATGTATCGAT
2567380 CCATCTAAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (40 bp):
AGAATGTATCGATACATTCATACATATAACGATACATTGA
Found at i:2567379 original size:20 final size:21
Alignment explanation
Indices: 2567287--2567379 Score: 86
Period size: 20 Copynumber: 4.6 Consensus size: 21
2567277 GTAAAAAAAC
2567287 AGAATGTATCGATACATTCAT
1 AGAATGTATCGATACATTCAT
* * *
2567308 A-CATATATCGATACATTGA-
1 AGAATGTATCGATACATTCAT
*
2567327 AGGATGTATCGATACATTCAT
1 AGAATGTATCGATACATTCAT
* * * *
2567348 A-CATATAACGATACATTGA-
1 AGAATGTATCGATACATTCAT
2567367 AGAATGTATCGAT
1 AGAATGTATCGAT
2567380 CCATCTAAGT
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
19 2 0.04
20 52 0.93
21 2 0.04
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (21 bp):
AGAATGTATCGATACATTCAT
Found at i:2572384 original size:80 final size:80
Alignment explanation
Indices: 2572293--2572803 Score: 505
Period size: 80 Copynumber: 6.4 Consensus size: 80
2572283 ATTGGATATA
* * **
2572293 TTTAGATGTAAAAATGGGGTTGGAGTATCCCCTCAA-ATATGATGGGGTTGGAGTATCCCTGAAA
1 TTTAGAAGTAAAAACGGGGTTGGAGTATCCCCT-AAGATATGGCGGGGTTGGAGTATCCCTGAAA
2572357 ATGAAAATTTTGATTT
65 ATGAAAATTTTGATTT
* * * ** ** * *
2572373 TTTAGAAGTAAAAACGAGGTTGAAATATCCCCTCGGATATGGCGGGGTTAAAGTATTTCC-GAAG
1 TTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGATATGGCGGGGTTGGAGTA-TCCCTGAAA
* *
2572437 ATGGAAAA-TTGGGTATT
65 AT-GAAAATTTTGAT-TT
* * * * *
2572454 TTTAGAAGTAAAAA-TGGGTTGGAGTATCCCCTAATAAATGGTGGGGTTGGAGTATCCCCGAAAA
1 TTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGATATGGCGGGGTTGGAGTATCCCTGAAAA
*
2572518 TGAAAATTTTAATTT
66 TGAAAATTTTGATTT
* * * * * *
2572533 TTTAGAGGTAAAAACGGGGTTGGAGTATCCCCTTAGAGATGGCAGGGTTGGAATATCCCTGAAGA
1 TTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGATATGGCGGGGTTGGAGTATCCCTGAAAA
*
2572598 TGGAAAA-TTAGATATT
66 T-GAAAATTTTGAT-TT
* **
2572614 TTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGAAATGTTGGGGTTGGAGTAT-CCTGAAAA
1 TTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGATATGGCGGGGTTGGAGTATCCCTGAAAA
*
2572678 TGAAAGTTTTGATTTTT
66 TGAAAATTTTGA--TTT
* * * * * * *
2572695 TTTAGAGGTAAAAATGGGGTTGGAGTATCCCCTTAGAGATAGCGAGGTTGGAGTATCCC-AAAAA
1 TTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGATATGGCGGGGTTGGAGTATCCCTGAAAA
* *
2572759 TTAAAGTTTTGATTT
66 TGAAAATTTTGATTT
* * *
2572774 TTTATAGGTAAAAACGGGGTTCGAGTATCC
1 TTTAGAAGTAAAAACGGGGTTGGAGTATCC
2572804 TCGAAGATGG
Statistics
Matches: 352, Mismatches: 66, Indels: 27
0.79 0.15 0.06
Matches are distributed among these distances:
79 57 0.16
80 147 0.42
81 145 0.41
82 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (80 bp):
TTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGATATGGCGGGGTTGGAGTATCCCTGAAAA
TGAAAATTTTGATTT
Found at i:2572519 original size:160 final size:159
Alignment explanation
Indices: 2572228--2572734 Score: 606
Period size: 160 Copynumber: 3.2 Consensus size: 159
2572218 TTTTAAAAAA
* * * ** * * * * * * *
2572228 GGGTTAGAGTATCCCCTCGGACATAACGGGGTTCAAATAACCTTGAATATAGAAAATTGGATATA
1 GGGTTGGAGTATCCCCTCAGAGATGGCAGGGTTGAAATATCCCTGAAGATGGAAAATTGGATATT
* *
2572293 TTTAGATGTAAAAATGGGGTTGGAGTATCCCCTCAAATATGATGGGGTTGGAGTATCCCTGAAAA
66 TTTAGAAGTAAAAAT-GGGTTGGAGTATCCCCT-AAAAATGATGGGGTTGGAGTATCCCTGAAAA
*
2572358 TGAAAATTTTGATTTTTTAGAAGTAAAAACG
129 TGAAAATTTTGATTTTTTAGAGGTAAAAACG
* * * * * * * *
2572389 AGGTTGAAATATCCCCTCGGATATGGCGGGGTT-AAAGTATTTCC-GAAGATGGAAAATTGGGTA
1 GGGTTGGAGTATCCCCTCAGAGATGGCAGGGTTGAAA-TA-TCCCTGAAGATGGAAAATTGGATA
* *
2572452 TTTTTAGAAGTAAAAATGGGTTGGAGTATCCCCTAATAAATGGTGGGGTTGGAGTATCCCCGAAA
64 TTTTTAGAAGTAAAAATGGGTTGGAGTATCCCCTAA-AAATGATGGGGTTGGAGTATCCCTGAAA
*
2572517 ATGAAAATTTTAATTTTTTAGAGGTAAAAACG
128 ATGAAAATTTTGATTTTTTAGAGGTAAAAACG
* * *
2572549 GGGTTGGAGTATCCCCTTAGAGATGGCAGGGTTGGAATATCCCTGAAGATGGAAAATTAGATATT
1 GGGTTGGAGTATCCCCTCAGAGATGGCAGGGTTGAAATATCCCTGAAGATGGAAAATTGGATATT
* *
2572614 TTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGAAATGTTGGGGTTGGAGTAT-CCTGAAAA
66 TTTAGAAGTAAAAA-TGGGTTGGAGTATCCCCTAA-AAATGATGGGGTTGGAGTATCCCTGAAAA
* *
2572678 TGAAAGTTTTGATTTTTTTTAGAGGTAAAAATG
129 TGAAAATTTTGA--TTTTTTAGAGGTAAAAACG
*
2572711 GGGTTGGAGTATCCCCTTAGAGAT
1 GGGTTGGAGTATCCCCTCAGAGAT
2572735 AGCGAGGTTG
Statistics
Matches: 300, Mismatches: 38, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
159 5 0.02
160 153 0.51
161 99 0.33
162 43 0.14
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (159 bp):
GGGTTGGAGTATCCCCTCAGAGATGGCAGGGTTGAAATATCCCTGAAGATGGAAAATTGGATATT
TTTAGAAGTAAAAATGGGTTGGAGTATCCCCTAAAAATGATGGGGTTGGAGTATCCCTGAAAATG
AAAATTTTGATTTTTTAGAGGTAAAAACG
Found at i:2572636 original size:81 final size:80
Alignment explanation
Indices: 2572279--2572803 Score: 465
Period size: 81 Copynumber: 6.5 Consensus size: 80
2572269 CTTGAATATA
* * * * * **
2572279 GAAAATTGGATATATTTAGATGTAAAAATGGGGTTGGAGTATCCCCTCAA-ATATGATGGGGTTG
1 GAAAATTAGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCT-AAGAAATGGCGGGGTTG
2572343 GAGTATCCCTGAAAAT
65 GAGTATCCCTGAAAAT
* * * * ** * *
2572359 GAAAATTTTGAT-TTTTTAGAAGTAAAAACGAGGTTGAAATATCCCCTCGGATATGGCGGGGTTA
1 GAAAA-TTAGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGAAATGGCGGGGTTG
* * *
2572423 AAGTATTTCC-GAAGAT
65 GAGTA-TCCCTGAAAAT
* * * * *
2572439 GGAAAATTGGGTATTTTTAGAAGTAAAAA-TGGGTTGGAGTATCCCCTAATAAATGGTGGGGTTG
1 -GAAAATTAGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGAAATGGCGGGGTTG
*
2572503 GAGTATCCCCGAAAAT
65 GAGTATCCCTGAAAAT
* * * *
2572519 GAAAATTTTA-AT-TTTTTAGAGGTAAAAACGGGGTTGGAGTATCCCCTTAGAGATGGCAGGGTT
1 GAAAA--TTAGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGAAATGGCGGGGTT
* *
2572582 GGAATATCCCTGAAGAT
64 GGAGTATCCCTGAAAAT
**
2572599 GGAAAATTAGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGAAATGTTGGGGTTG
1 -GAAAATTAGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGAAATGGCGGGGTTG
2572664 GAGTAT-CCTGAAAAT
65 GAGTATCCCTGAAAAT
* * * * * * * * *
2572679 GAAAGTTTTGATTTTTTTTAGAGGTAAAAATGGGGTTGGAGTATCCCCTTAGAGATAGCGAGGTT
1 GAAA-ATTAGA-TATTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGAAATGGCGGGGTT
*
2572744 GGAGTATCCC-AAAAAT
64 GGAGTATCCCTGAAAAT
* * * * * *
2572760 TAAAGTTTTGAT-TTTTTATAGGTAAAAACGGGGTTCGAGTATCC
1 GAAA-ATTAGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATCC
2572804 TCGAAGATGG
Statistics
Matches: 364, Mismatches: 66, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
79 59 0.16
80 150 0.41
81 153 0.42
82 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (80 bp):
GAAAATTAGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGAAATGGCGGGGTTGG
AGTATCCCTGAAAAT
Found at i:2572827 original size:131 final size:131
Alignment explanation
Indices: 2572692--2572933 Score: 344
Period size: 131 Copynumber: 1.8 Consensus size: 131
2572682 AGTTTTGATT
* ** *
2572692 TTTTTTAGAGGTAAAAATGGGGTTGGAGTATCCCCTT-AGAGATAGCGA-GGTTGGAGTATCCCA
1 TTTTTTAGAAGTAAAAACAGGGTTGGAGTAT-CCCTTAAGAAAT-GCGAGGGTTGGAGTATCCCA
* * *
2572755 AAAATTAAAGTTTTGATTTTTTATAGGTAAAAACGGGGTTCGAGTATCCTCGAAGATGGAAAATT
64 AAAATGAAAGTTTTGATTTTTTAGAGGTAAAAACAGGGTTCGAGTATCCTCGAAGATGGAAAATT
2572820 GGA
129 GGA
**
2572823 TTTTTTAGAAGTAAAAACAGGGTTGGAGTATCCCTTAAGAAATGTTAGGGTTGGAGTATCCCAAA
1 TTTTTTAGAAGTAAAAACAGGGTTGGAGTATCCCTTAAGAAATGCGAGGGTTGGAGTATCCCAAA
* * *
2572888 AATGGAAGTTTTGATTTTTTAGAGGTAAAAATAGGGTTGGAGTATC
66 AATGAAAGTTTTGATTTTTTAGAGGTAAAAACAGGGTTCGAGTATC
2572934 TCCTTGGAGA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
130 7 0.07
131 90 0.93
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.32
Consensus pattern (131 bp):
TTTTTTAGAAGTAAAAACAGGGTTGGAGTATCCCTTAAGAAATGCGAGGGTTGGAGTATCCCAAA
AATGAAAGTTTTGATTTTTTAGAGGTAAAAACAGGGTTCGAGTATCCTCGAAGATGGAAAATTGG
A
Found at i:2572864 original size:212 final size:211
Alignment explanation
Indices: 2572593--2573013 Score: 605
Period size: 210 Copynumber: 2.0 Consensus size: 211
2572583 GAATATCCCT
* *
2572593 GAAGATGGAAAATTAGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTAAGAAATGTTG
1 GAAGATGGAAAATTAGATATTTTTAGAAGTAAAAACAGGGTTGGAGTATCCCCTAAGAAATGTTA
** *
2572658 GGGTTGGAGTATCCTGAAAATGAAAGTTTTGATTTTTTTTAGAGGTAAAAATGGGGTTGGAGTAT
66 GGGTTGGAGTATCCCAAAAATGAAAGTTTTGA--TTTTTTAGAGGTAAAAATAGGGTTGGAGTAT
* * ** * * *
2572723 CCCCTTAGAGATAGCGAGGTTGGAGTAT-CCCAAAAATTAAAGTTTTGAT-TTTTTATAGGTAAA
129 CCCCTTAGAGATAGCG-GGTTGGACTATCCCCAAAAATGAAAAATTAGATATTTTTAGA-GAAAA
2572786 AACGGGGTTCGAGTATCCTC
192 AACGGGGTTCGAGTATCCTC
* *
2572806 GAAGATGGAAAATTGGAT-TTTTTAGAAGTAAAAACAGGGTTGGAGTATCCCTTAAGAAATGTTA
1 GAAGATGGAAAATTAGATATTTTTAGAAGTAAAAACAGGGTTGGAGTATCCCCTAAGAAATGTTA
* *
2572870 GGGTTGGAGTATCCCAAAAATGGAAGTTTTGATTTTTTAGAGGTAAAAATAGGGTTGGAGTATCT
66 GGGTTGGAGTATCCCAAAAATGAAAGTTTTGATTTTTTAGAGGTAAAAATAGGGTTGGAGTATCC
* * *
2572935 CCTTGGAGATGGCGGGTTGGACTATCCCCAAAGATGAAAAATTAGATATTTTTAGAGAAAAAACG
131 CCTTAGAGATAGCGGGTTGGACTATCCCCAAAAATGAAAAATTAGATATTTTTAGAGAAAAAACG
*
2573000 GGGTTGGAGTATCC
196 GGGTTCGAGTATCC
2573014 CCTCAAAGAT
Statistics
Matches: 186, Mismatches: 20, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
209 10 0.05
210 80 0.43
211 7 0.04
212 72 0.39
213 17 0.09
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (211 bp):
GAAGATGGAAAATTAGATATTTTTAGAAGTAAAAACAGGGTTGGAGTATCCCCTAAGAAATGTTA
GGGTTGGAGTATCCCAAAAATGAAAGTTTTGATTTTTTAGAGGTAAAAATAGGGTTGGAGTATCC
CCTTAGAGATAGCGGGTTGGACTATCCCCAAAAATGAAAAATTAGATATTTTTAGAGAAAAAACG
GGGTTCGAGTATCCTC
Found at i:2572906 original size:79 final size:79
Alignment explanation
Indices: 2572810--2573097 Score: 269
Period size: 79 Copynumber: 3.6 Consensus size: 79
2572800 ATCCTCGAAG
* * *
2572810 ATGGAAAATTGGATTTTTTAGAAGTAAAAACAGGGTTGGAGTATCCCTTAAGAAATGTTAGGGTT
1 ATGGAAATTTTGATTTTTTAGAAGTAAAAACAGGGTTGGAGTATCCCTTAAGAGATG-TAGGGTT
*
2572875 GGAGTAT-CCCAAAA
65 GGACTATCCCCAAAA
* * * * **
2572889 ATGGAAGTTTTGATTTTTTAGAGGTAAAAATAGGGTTGGAGTATCTCCTT-GGAGATGGCGGGTT
1 ATGGAAATTTTGATTTTTTAGAAGTAAAAACAGGGTTGGAGTATC-CCTTAAGAGATGTAGGGTT
*
2572953 GGACTATCCCCAAAG
65 GGACTATCCCCAAAA
* * * * * * *
2572968 ATGAAAAATTAGATATTTTTAG-AGAAAAAACGGGGTTGGAGTATCCCCTCAA-AGATGGTGGGG
1 ATGGAAATTTTGAT-TTTTTAGAAGTAAAAACAGGGTTGGAGTAT-CCCTTAAGAGAT-GTAGGG
*
2573031 TTGGACCATCCCCAAAA
63 TTGGACTATCCCCAAAA
* * * * * *
2573048 CTAGAAATTTTGATTTTTTCAGAGGTAGAAACGGGGTTAGAGTATCCCTT
1 ATGGAAATTTTGATTTTTT-AGAAGTAAAAACAGGGTTGGAGTATCCCTT
2573098 CGAAAACTTT
Statistics
Matches: 166, Mismatches: 35, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
78 11 0.07
79 91 0.55
80 46 0.28
81 18 0.11
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (79 bp):
ATGGAAATTTTGATTTTTTAGAAGTAAAAACAGGGTTGGAGTATCCCTTAAGAGATGTAGGGTTG
GACTATCCCCAAAA
Found at i:2573004 original size:158 final size:159
Alignment explanation
Indices: 2572807--2573097 Score: 374
Period size: 158 Copynumber: 1.8 Consensus size: 159
2572797 AGTATCCTCG
* * * * *
2572807 AAGATGGAAAATTGGATTTTTTAGAAGTAAAAACAGGGTTGGAGTAT-CCCTTAAGAAATGTTAG
1 AAGATGAAAAATTAGATTTTTTAGAAGAAAAAACAGGGTTGGAGTATCCCCTCAA-AAATGGTAG
** * * * *
2572871 GGTTGGAGTAT-CCCAAAAATGGAAGTTTTGATTTTTT-AGAGGTAAAAATAGGGTTGGAGTATC
65 GGTTGGACCATCCCCAAAAATAGAAATTTTGATTTTTTCAGAGGTAAAAACAGGGTTAGAGTATC
2572934 TCCTTGGAGATGGCGGGTTGGACTATCCCCA
130 -CCTTGGAGATGGCGGGTTGGACTATCCCCA
* * *
2572965 AAGATGAAAAATTAGATATTTTTAG-AGAAAAAACGGGGTTGGAGTATCCCCTCAAAGATGGTGG
1 AAGATGAAAAATTAGAT-TTTTTAGAAGAAAAAACAGGGTTGGAGTATCCCCTCAAAAATGGTAG
* * *
2573029 GGTTGGACCATCCCCAAAACTAGAAATTTTGATTTTTTCAGAGGTAGAAACGGGGTTAGAGTATC
65 GGTTGGACCATCCCCAAAAATAGAAATTTTGATTTTTTCAGAGGTAAAAACAGGGTTAGAGTATC
2573094 CCTT
130 CCTT
2573098 CGAAAACTTT
Statistics
Matches: 112, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
158 50 0.45
159 40 0.36
160 22 0.20
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (159 bp):
AAGATGAAAAATTAGATTTTTTAGAAGAAAAAACAGGGTTGGAGTATCCCCTCAAAAATGGTAGG
GTTGGACCATCCCCAAAAATAGAAATTTTGATTTTTTCAGAGGTAAAAACAGGGTTAGAGTATCC
CTTGGAGATGGCGGGTTGGACTATCCCCA
Found at i:2573025 original size:212 final size:213
Alignment explanation
Indices: 2572577--2573025 Score: 622
Period size: 212 Copynumber: 2.1 Consensus size: 213
2572567 AGAGATGGCA
* *
2572577 GGGTTGGAATATCCCT-GAAGATGGAAAATTAGATATTTTTAGAAGTAAAAACGGGGTTGGAGTA
1 GGGTTGGAGTATCCCTCGAAGATGGAAAATTAGATATTTTTAGAAGTAAAAACAGGGTTGGAGTA
* **
2572641 TCCCCTAAGAAATGTTGGGGTTGGAGTATCCTGAAAATGAAAGTTTTGATTTTTTTTAGAGGTAA
66 TCCCCTAAGAAATGTTAGGGTTGGAGTATCCCAAAAATGAAAGTTTTGA-TTTTTTTAGAGGTAA
* * * ** *
2572706 AAATGGGGTTGGAGTATCCCCTTAGAGATAGCGAGGTTGGAGTATCCCAAAAATTAAAGTTTTGA
130 AAATAGGGTTGGAGTATCCCCTTAGAGATAGCGAGGTTGGACTATCCCAAAAATGAAAAATTAGA
* *
2572771 TTTTTTATAGGTAAAAACG
195 TTTTTTAGAGGAAAAAACG
* *
2572790 GGGTTCGAGTAT-CCTCGAAGATGGAAAATTGGAT-TTTTTAGAAGTAAAAACAGGGTTGGAGTA
1 GGGTTGGAGTATCCCTCGAAGATGGAAAATTAGATATTTTTAGAAGTAAAAACAGGGTTGGAGTA
* *
2572853 TCCCTTAAGAAATGTTAGGGTTGGAGTATCCCAAAAATGGAAGTTTTGA-TTTTTTAGAGGTAAA
66 TCCCCTAAGAAATGTTAGGGTTGGAGTATCCCAAAAATGAAAGTTTTGATTTTTTTAGAGGTAAA
* * * *
2572917 AATAGGGTTGGAGTATCTCCTTGGAGATGGCG-GGTTGGACTATCCCCAAAGATGAAAAATTAGA
131 AATAGGGTTGGAGTATCCCCTTAGAGATAGCGAGGTTGGACTAT-CCCAAAAATGAAAAATTAGA
2572981 TATTTTTAGA-GAAAAAACG
195 T-TTTTTAGAGGAAAAAACG
*
2573000 GGGTTGGAGTATCCCCTCAAAGATGG
1 GGGTTGGAGTAT-CCCTCGAAGATGG
2573026 TGGGGTTGGA
Statistics
Matches: 208, Mismatches: 23, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
209 10 0.05
210 78 0.38
211 7 0.03
212 86 0.41
213 27 0.13
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (213 bp):
GGGTTGGAGTATCCCTCGAAGATGGAAAATTAGATATTTTTAGAAGTAAAAACAGGGTTGGAGTA
TCCCCTAAGAAATGTTAGGGTTGGAGTATCCCAAAAATGAAAGTTTTGATTTTTTTAGAGGTAAA
AATAGGGTTGGAGTATCCCCTTAGAGATAGCGAGGTTGGACTATCCCAAAAATGAAAAATTAGAT
TTTTTAGAGGAAAAAACG
Found at i:2574318 original size:20 final size:20
Alignment explanation
Indices: 2574293--2574334 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
2574283 AAGATTAAAG
*
2574293 TATCAATTTATGAAAAATGA
1 TATCAATTTACGAAAAATGA
2574313 TATCAATTTACGAAAAATGA
1 TATCAATTTACGAAAAATGA
2574333 TA
1 TA
2574335 GACCAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (20 bp):
TATCAATTTACGAAAAATGA
Found at i:2575169 original size:69 final size:69
Alignment explanation
Indices: 2575075--2575346 Score: 339
Period size: 69 Copynumber: 3.9 Consensus size: 69
2575065 TAAAAAGCAA
* * * *
2575075 TCCTTCTCTTTGAGGACTGAAAGGATAAGAGATGCCACCAGCTTATGTGGGCTTTAAAGAGAAAA
1 TCCTGCTCTTTGAGGACTGAAAGGATAAGAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAA
2575140 AGTG
66 AGTG
* * *
2575144 TCCTACTCTTTGAGGACTGAAAGGATAAGAGGTGCCATCAGCTTGTGTGGGTTTTTAAAAAGAAA
1 TCCTGCTCTTTGAGGACTGAAAGGATAAGAGGTGCCACCAGCTTGTGTGGG-CTTTAAAAAGAAA
**
2575209 AAGCA
65 AAGTG
* ** *
2575214 TCTTGCTCTTTGAGGACCAAAAGGATAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAGAA
1 TCCTGCTCTTTGAGGACTGAAAGGATAAGAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGA-AA
2575279 AA-TG
65 AAGTG
* ** * * * *
2575283 ACCTGCTCTTTGAAAACTGAAAGGATAAGATGTGCCACCAGCTTTTGTGGGCTTTTAAAGGAAA
1 TCCTGCTCTTTGAGGACTGAAAGGATAAGAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAA
2575347 TTTTTCTTCT
Statistics
Matches: 173, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
68 2 0.01
69 108 0.62
70 63 0.36
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (69 bp):
TCCTGCTCTTTGAGGACTGAAAGGATAAGAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAA
AGTG
Found at i:2575292 original size:139 final size:140
Alignment explanation
Indices: 2575057--2575341 Score: 387
Period size: 139 Copynumber: 2.0 Consensus size: 140
2575047 TCGTGCAGGC
** ** *
2575057 TTTAAAATTAAAAAGCAATCCTTCTCTTTGAGGACTGAAAGGATAAGAGATGCCACCAGCTTATG
1 TTTAAAAAGAAAAAGCAATCCTTCTCTTTGAGGACCAAAAGGATAAAAGATGCCACCAGCTTATG
* * ** *
2575122 TGGGCTTTAAAGAGAAAAAGTGTCCTACTCTTTGAGGACTGAAAGGATAAGAGGTGCCATCAGCT
66 TGGGCTTTAAAAAGAAAAAGTGACCTACTCTTTGAAAACTGAAAGGATAAGAGGTGCCACCAGCT
*
2575187 TGTGTGGGTT
131 TGTGTGGGCT
* *
2575197 TTTAAAAAGAAAAAGC-AT-CTTGCTCTTTGAGGACCAAAAGGATAAAAGGTGCCACCAGCTTGT
1 TTTAAAAAGAAAAAGCAATCCTT-CTCTTTGAGGACCAAAAGGATAAAAGATGCCACCAGCTTAT
* *
2575260 GTGGGCTTTAAAAAGAGAAAA-TGACCTGCTCTTTGAAAACTGAAAGGATAAGATGTGCCACCAG
65 GTGGGCTTTAAAAAGA-AAAAGTGACCTACTCTTTGAAAACTGAAAGGATAAGAGGTGCCACCAG
*
2575324 CTTTTGTGGGCT
129 CTTGTGTGGGCT
2575336 TTTAAA
1 TTTAAA
2575342 GGAAATTTTT
Statistics
Matches: 127, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
138 3 0.02
139 106 0.83
140 18 0.14
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (140 bp):
TTTAAAAAGAAAAAGCAATCCTTCTCTTTGAGGACCAAAAGGATAAAAGATGCCACCAGCTTATG
TGGGCTTTAAAAAGAAAAAGTGACCTACTCTTTGAAAACTGAAAGGATAAGAGGTGCCACCAGCT
TGTGTGGGCT
Found at i:2575420 original size:59 final size:59
Alignment explanation
Indices: 2575317--2575671 Score: 248
Period size: 61 Copynumber: 5.9 Consensus size: 59
2575307 ATAAGATGTG
* * * * * *
2575317 CCACCAGCTTTTGTGGGCTTTTAAAGGAAATTTTTCTTCTTTTTGAGGACTAGAAGGTA
1 CCACCAACTTGTGTGGGCTTTTAAAGGAAAGTATCCTACTTTTTGAGGACTAGAAGGTA
* *
2575376 CCACTAA-TTGGTGTGGGCTTTTAAAGGAAAGTATCCTACTTTTTGAGGACTAGAAGGTG
1 CCACCAACTT-GTGTGGGCTTTTAAAGGAAAGTATCCTACTTTTTGAGGACTAGAAGGTA
* ** * * * *
2575435 CCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTACTCTTTGAGGATTAAAAGGTG
1 CCACCAACTTGTGTGGGCTTTTAAAGG-AAA-GTATCCTACTTTTTGAGGACTAGAAGGTA
* * * * * ** * * *
2575496 CCACCAACTTTTGTAGGCTTTAAAAAGAAA-TGACGTCGTACTCGTTGAGGACTAAAAAGTG
1 CCACCAACTTGTGTGGGCTTTTAAAGGAAAGT-A--TCCTACTTTTTGAGGACTAGAAGGTA
* * * * * * * *
2575557 CCACCAACTTGTATGGGCTTTGAAAGGAGAAGGCATCCTGCTCTTTAAGGA-TTGACAGGTG
1 CCACCAACTTGTGTGGGCTTTTAAAGGA-AA-GTATCCTACTTTTTGAGGACTAGA-AGGTA
** * * *
2575618 CCATTAACTTGTGTGGGCTTTGAAAGAAAAAGTCATCCTACTCTTTGAGGACTA
1 CCACCAACTTGTGTGGGCTTTTAAAG-GAAAGT-ATCCTACTTTTTGAGGACTA
2575672 AAATGATAAA
Statistics
Matches: 236, Mismatches: 46, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
58 2 0.01
59 70 0.30
60 11 0.05
61 148 0.63
62 4 0.02
63 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (59 bp):
CCACCAACTTGTGTGGGCTTTTAAAGGAAAGTATCCTACTTTTTGAGGACTAGAAGGTA
Found at i:2575494 original size:61 final size:61
Alignment explanation
Indices: 2575358--2575674 Score: 334
Period size: 61 Copynumber: 5.2 Consensus size: 61
2575348 TTTTCTTCTT
* * * * * *
2575358 TTTGAGGACTAGAAGGTACCACTAA-TTGGTGTGGGCTTTTAAAGG-AAA-GTATCCTACTT
1 TTTGAGGACTAAAAGGTGCCACCAACTT-GTGTGGGCTTTGAAAGGAAAAGGCATCCTACTC
* *
2575417 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTACTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTACTC
* * * * * * * * *
2575478 TTTGAGGATTAAAAGGTGCCACCAACTTTTGTAGGCTTTAAAAAGAAATGACGTCGTACTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTACTC
* * * * *
2575539 GTTGAGGACTAAAAAGTGCCACCAACTTGTATGGGCTTTGAAAGGAGAAGGCATCCTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTACTC
* * * * ** * *
2575600 TTTAAGGATTGACAGGTGCCATTAACTTGTGTGGGCTTTGAAAGAAAAAGTCATCCTACTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTACTC
2575661 TTTGAGGACTAAAA
1 TTTGAGGACTAAAA
2575675 TGATAAAAGG
Statistics
Matches: 209, Mismatches: 46, Indels: 4
0.81 0.18 0.02
Matches are distributed among these distances:
59 39 0.19
60 5 0.02
61 165 0.79
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (61 bp):
TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTACTC
Found at i:2576685 original size:9 final size:9
Alignment explanation
Indices: 2576656--2576706 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
2576646 AGTTCTTTTG
2576656 TTTTTTATTT
1 TTTTTTA-TT
2576666 TTTTCTGTATT
1 TTTT-T-TATT
2576677 TTTTTTA-T
1 TTTTTTATT
*
2576685 TTTTTTGTT
1 TTTTTTATT
*
2576694 TTTTTTGTT
1 TTTTTTATT
2576703 TTTT
1 TTTT
2576707 GGTAAAAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
8 7 0.19
9 16 0.43
10 5 0.14
11 7 0.19
12 2 0.05
ACGTcount: A:0.06, C:0.02, G:0.06, T:0.86
Consensus pattern (9 bp):
TTTTTTATT
Found at i:2576688 original size:28 final size:27
Alignment explanation
Indices: 2576651--2576706 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
2576641 AAGCTAGTTC
*
2576651 TTTTGTTTTTTAT-TTTTTTCTGTATTTT
1 TTTTATTTTTT-TGTTTTTTCTGT-TTTT
*
2576679 TTTTATTTTTTTGTTTTTTTTGTTTTT
1 TTTTATTTTTTTGTTTTTTCTGTTTTT
2576706 T
1 T
2576707 GGTAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.05, C:0.02, G:0.07, T:0.86
Consensus pattern (27 bp):
TTTTATTTTTTTGTTTTTTCTGTTTTT
Found at i:2576695 original size:16 final size:16
Alignment explanation
Indices: 2576651--2576707 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 16
2576641 AAGCTAGTTC
2576651 TTTTGTTTTTTATT-TT
1 TTTTGTTTTTT-TTGTT
*
2576667 TTTCTGTATTTTTTTTATTT
1 TTT-TG--TTTTTTTT-GTT
2576687 TTTTGTTTTTTTTGTT
1 TTTTGTTTTTTTTGTT
2576703 TTTTG
1 TTTTG
2576708 GTAAAAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
16 10 0.29
17 10 0.29
18 2 0.06
19 8 0.23
20 5 0.14
ACGTcount: A:0.05, C:0.02, G:0.09, T:0.84
Consensus pattern (16 bp):
TTTTGTTTTTTTTGTT
Found at i:2590656 original size:20 final size:20
Alignment explanation
Indices: 2590631--2590787 Score: 165
Period size: 20 Copynumber: 7.8 Consensus size: 20
2590621 TTTTACCCAG
*
2590631 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTCCA
**
2590651 ATGTATCGATACATTACCCAA
1 ATGTATCGATACATTTTCC-A
*
2590672 ATGTATCGATACATCTTCCA
1 ATGTATCGATACATTTTCCA
* **
2590692 ATGTATAGATACATTACCCA
1 ATGTATCGATACATTTTCCA
*
2590712 GATGTATCGATACATCTTCCA
1 -ATGTATCGATACATTTTCCA
* * *
2590733 ATGTATTGATACATGTAT-GA
1 ATGTATCGATACAT-TTTCCA
2590753 ATGTATCGATACATTCTT-CA
1 ATGTATCGATACATT-TTCCA
2590773 ATGTATCGATACATT
1 ATGTATCGATACATT
2590788 CGGTCCTTTT
Statistics
Matches: 112, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
19 1 0.01
20 77 0.69
21 34 0.30
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTTTCCA
Found at i:2590680 original size:41 final size:41
Alignment explanation
Indices: 2590623--2590787 Score: 219
Period size: 41 Copynumber: 4.0 Consensus size: 41
2590613 AGTCATATTT
* * *
2590623 TTACCCAGATGTATCGATACATTTTTCAATGTATCGATACA
1 TTACCCAAATGTATCGATACATCTTCCAATGTATCGATACA
*
2590664 TTACCCAAATGTATCGATACATCTTCCAATGTATAGATACA
1 TTACCCAAATGTATCGATACATCTTCCAATGTATCGATACA
* *
2590705 TTACCCAGATGTATCGATACATCTTCCAATGTATTGATACA
1 TTACCCAAATGTATCGATACATCTTCCAATGTATCGATACA
**
2590746 TGTA--TGAATGTATCGATACATTCTT-CAATGTATCGATACA
1 T-TACCCAAATGTATCGATACA-TCTTCCAATGTATCGATACA
2590786 TT
1 TT
2590788 CGGTCCTTTT
Statistics
Matches: 112, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 28 0.25
41 81 0.72
42 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (41 bp):
TTACCCAAATGTATCGATACATCTTCCAATGTATCGATACA
Found at i:2591388 original size:272 final size:272
Alignment explanation
Indices: 2590902--2591445 Score: 1088
Period size: 272 Copynumber: 2.0 Consensus size: 272
2590892 TGTCTGGTAT
2590902 GGTCACATTTTTCCACACTCAAAGTCATCAAAATACATGCCAAACATCATAGCTCAAGCTTCAAA
1 GGTCACATTTTTCCACACTCAAAGTCATCAAAATACATGCCAAACATCATAGCTCAAGCTTCAAA
2590967 TCAAATTGGAATCCAATGTGAAGACCAAGTCAAAAAGAATGAATTATTATATTTTTATCATTGTA
66 TCAAATTGGAATCCAATGTGAAGACCAAGTCAAAAAGAATGAATTATTATATTTTTATCATTGTA
2591032 TTCCCCTCACCATCACATTTTAGAGTTGGATTAGCCACTAACCTATCCCATTATCAGCTGAACAA
131 TTCCCCTCACCATCACATTTTAGAGTTGGATTAGCCACTAACCTATCCCATTATCAGCTGAACAA
2591097 CATCATAATGTCAGCACCTTGTCTTGCAAATTGATGGTGGGAAATGTCCCAAAACACTTCACCTC
196 CATCATAATGTCAGCACCTTGTCTTGCAAATTGATGGTGGGAAATGTCCCAAAACACTTCACCTC
2591162 TCACTCCAAAAA
261 TCACTCCAAAAA
2591174 GGTCACATTTTTCCACACTCAAAGTCATCAAAATACATGCCAAACATCATAGCTCAAGCTTCAAA
1 GGTCACATTTTTCCACACTCAAAGTCATCAAAATACATGCCAAACATCATAGCTCAAGCTTCAAA
2591239 TCAAATTGGAATCCAATGTGAAGACCAAGTCAAAAAGAATGAATTATTATATTTTTATCATTGTA
66 TCAAATTGGAATCCAATGTGAAGACCAAGTCAAAAAGAATGAATTATTATATTTTTATCATTGTA
2591304 TTCCCCTCACCATCACATTTTAGAGTTGGATTAGCCACTAACCTATCCCATTATCAGCTGAACAA
131 TTCCCCTCACCATCACATTTTAGAGTTGGATTAGCCACTAACCTATCCCATTATCAGCTGAACAA
2591369 CATCATAATGTCAGCACCTTGTCTTGCAAATTGATGGTGGGAAATGTCCCAAAACACTTCACCTC
196 CATCATAATGTCAGCACCTTGTCTTGCAAATTGATGGTGGGAAATGTCCCAAAACACTTCACCTC
2591434 TCACTCCAAAAA
261 TCACTCCAAAAA
2591446 TTTTGGCTAT
Statistics
Matches: 272, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
272 272 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.28
Consensus pattern (272 bp):
GGTCACATTTTTCCACACTCAAAGTCATCAAAATACATGCCAAACATCATAGCTCAAGCTTCAAA
TCAAATTGGAATCCAATGTGAAGACCAAGTCAAAAAGAATGAATTATTATATTTTTATCATTGTA
TTCCCCTCACCATCACATTTTAGAGTTGGATTAGCCACTAACCTATCCCATTATCAGCTGAACAA
CATCATAATGTCAGCACCTTGTCTTGCAAATTGATGGTGGGAAATGTCCCAAAACACTTCACCTC
TCACTCCAAAAA
Found at i:2601109 original size:13 final size:13
Alignment explanation
Indices: 2601091--2601116 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2601081 TACACAAAGT
2601091 ATGTATCGATACA
1 ATGTATCGATACA
2601104 ATGTATCGATACA
1 ATGTATCGATACA
2601117 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2601114 original size:32 final size:33
Alignment explanation
Indices: 2601073--2601136 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2601063 CAGCCAAACT
**
2601073 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2601105 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2601137 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2607312 original size:13 final size:13
Alignment explanation
Indices: 2607294--2607355 Score: 92
Period size: 13 Copynumber: 4.9 Consensus size: 13
2607284 CATTTTTCTT
2607294 TGTATCGATACAA
1 TGTATCGATACAA
*
2607307 TGTATCGATACAC
1 TGTATCGATACAA
2607320 TGTATCGATACAA
1 TGTATCGATACAA
*
2607333 --TATCGATACAC
1 TGTATCGATACAA
2607344 TGTATCGATACA
1 TGTATCGATACA
2607356 GGGGGATTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
11 10 0.23
13 34 0.77
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2607341 original size:24 final size:25
Alignment explanation
Indices: 2607294--2607355 Score: 108
Period size: 24 Copynumber: 2.5 Consensus size: 25
2607284 CATTTTTCTT
2607294 TGTATCGATACAATGTATCGATACAC
1 TGTATCGATACAA-GTATCGATACAC
2607320 TGTATCGATACAA-TATCGATACAC
1 TGTATCGATACAAGTATCGATACAC
2607344 TGTATCGATACA
1 TGTATCGATACA
2607356 GGGGGATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 23 0.64
26 13 0.36
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (25 bp):
TGTATCGATACAAGTATCGATACAC
Found at i:2607518 original size:20 final size:20
Alignment explanation
Indices: 2607475--2607520 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2607465 AAATCTTTTG
2607475 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2607496 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2607516 CAAAA
1 CAAAA
2607521 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2609939 original size:13 final size:13
Alignment explanation
Indices: 2609921--2609946 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2609911 TACACAAAGT
2609921 ATGTATCGATACA
1 ATGTATCGATACA
2609934 ATGTATCGATACA
1 ATGTATCGATACA
2609947 GAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2609944 original size:32 final size:33
Alignment explanation
Indices: 2609903--2609966 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2609893 TAGCCAAACT
**
2609903 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
*
2609935 TGTATCGATACAGAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2609967 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2614916 original size:21 final size:23
Alignment explanation
Indices: 2614893--2614936 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
2614883 TGCAAATAAA
2614893 TTTATGATTAAGGGG-GAGAAAT
1 TTTATGATTAAGGGGAGAGAAAT
*
2614915 TTTTTGATTAAGGGGAGAGAAA
1 TTTATGATTAAGGGGAGAGAAA
2614937 AGAAAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (23 bp):
TTTATGATTAAGGGGAGAGAAAT
Found at i:2615630 original size:13 final size:13
Alignment explanation
Indices: 2615612--2615637 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2615602 TACACACAAG
2615612 ATGTATCGATACA
1 ATGTATCGATACA
2615625 ATGTATCGATACA
1 ATGTATCGATACA
2615638 TCCCAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2615656 original size:33 final size:32
Alignment explanation
Indices: 2615594--2615657 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
2615584 CTTAACTGTG
* *
2615594 TGTATCGGTACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
* *
2615626 TGTATCGATACATCCCAAAATGTATTGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
2615658 TTGGCTTGTA
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:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:2617307 original size:13 final size:13
Alignment explanation
Indices: 2617289--2617319 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
2617279 CGATACATGT
2617289 TACATTGTATCAA
1 TACATTGTATCAA
2617302 TACATTGTATCAA
1 TACATTGTATCAA
2617315 TACAT
1 TACAT
2617320 GATGAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (13 bp):
TACATTGTATCAA
Found at i:2617318 original size:33 final size:33
Alignment explanation
Indices: 2617273--2617341 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
2617263 CTACCACTAT
* *
2617273 TTGTATCGATACATG-TTACATTGTATCAATACA
1 TTGTATCAATACATGATGA-ATTGTATCAATACA
*
2617306 TTGTATCAATACATGATGAATTGTATCGATACA
1 TTGTATCAATACATGATGAATTGTATCAATACA
2617339 TTG
1 TTG
2617342 CTTGTAATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.39
Consensus pattern (33 bp):
TTGTATCAATACATGATGAATTGTATCAATACA
Found at i:2618956 original size:9 final size:9
Alignment explanation
Indices: 2618925--2618958 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
2618915 CTCAACCATC
2618925 AATGATGAT
1 AATGATGAT
*
2618934 AAAGATGAT
1 AATGATGAT
2618943 AATGATGAT
1 AATGATGAT
*
2618952 GATGATG
1 AATGATG
2618959 GTGACTCGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.29
Consensus pattern (9 bp):
AATGATGAT
Found at i:2619709 original size:36 final size:36
Alignment explanation
Indices: 2619657--2619728 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
2619647 AAAAGCTTAT
* *
2619657 TCTCGAAAATCAAATCAAAAGAAGGTGGATGTGTCA
1 TCTCAAAAATCAAATCAAAAGAAGGTGGATGCGTCA
2619693 TCTCAAAAATCAAATCAAAAGAAGGTGGATGCGTCA
1 TCTCAAAAATCAAATCAAAAGAAGGTGGATGCGTCA
2619729 CCCTTGGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (36 bp):
TCTCAAAAATCAAATCAAAAGAAGGTGGATGCGTCA
Found at i:2625817 original size:28 final size:28
Alignment explanation
Indices: 2625785--2625855 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
2625775 TAAAAATCGA
* *
2625785 GGTTGGAGTATCGCCTTAGAAATAATAG
1 GGTTGGAGTATCCCCTTAGAAATAACAG
2625813 GGTTGGAGTATCCCCTTAGAAATAACAG
1 GGTTGGAGTATCCCCTTAGAAATAACAG
2625841 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2625856 GATTATAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTTAGAAATAACAG
Found at i:2625948 original size:79 final size:79
Alignment explanation
Indices: 2625813--2626016 Score: 247
Period size: 79 Copynumber: 2.6 Consensus size: 79
2625803 GAAATAATAG
** * * *
2625813 GGTTGGAGTATCCCCTTAGAAATAACAGGGTTGGAGTATCCCCGATTATAGAAAATCAGTGTTTT
1 GGTTGGAGTATCCCCGCAGAAATAATAGGGTTGGAGTATCCCCGATTATAGAAAATCAATATTTT
2625878 -GAAAATAAAATCG-
66 AG-AAATAAAATCGA
*
2625891 GGATTGGAGTATCCCCGC-GAAAATAAT-GGGATTGGAGTATCCTCGATTAT-GAGAAATCAATA
1 GG-TTGGAGTATCCCCGCAG-AAATAATAGGG-TTGGAGTATCCCCGATTATAGA-AAATCAATA
*
2625953 TTTTAGAAATAAAGTCGA
62 TTTTAGAAATAAAATCGA
* *
2625971 GGTTGGAGTATCCCCTCAGAAATAATAGGGTTGGAATATCCCCGAT
1 GGTTGGAGTATCCCCGCAGAAATAATAGGGTTGGAGTATCCCCGAT
2626017 GAAATAACGC
Statistics
Matches: 108, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
78 8 0.07
79 93 0.86
80 7 0.06
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
GGTTGGAGTATCCCCGCAGAAATAATAGGGTTGGAGTATCCCCGATTATAGAAAATCAATATTTT
AGAAATAAAATCGA
Found at i:2626020 original size:28 final size:28
Alignment explanation
Indices: 2625971--2626044 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
2625961 ATAAAGTCGA
*
2625971 GGTTGGAGTATCCCCTCA-GAAATAATAG-
1 GGTTGGAGTATCCCC-GATGAAATAA-AGC
* *
2625999 GGTTGGAATATCCCCGATGAAATAACGC
1 GGTTGGAGTATCCCCGATGAAATAAAGC
2626027 GGTTGGAGTATCCCCGAT
1 GGTTGGAGTATCCCCGAT
2626045 TGTAACAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 2 0.05
28 38 0.95
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGATGAAATAAAGC
Found at i:2626118 original size:186 final size:186
Alignment explanation
Indices: 2625739--2626169 Score: 520
Period size: 186 Copynumber: 2.3 Consensus size: 186
2625729 ACGAGGCTGG
* * * *
2625739 AGTATCCTCGATTATGGAAAATCAGTGTTCTAGAAATAAAAATCGAGGTTGGAGTATCGCCTTAG
1 AGTATCCTCGATTATGGAAAATCAATGTTTTAGAAAT-AAAATCGAGGTTGGAGTATCCCCTCAG
* * *
2625804 AAATAATAGGGTTGGAGTATCCCCTTAGAAATAACAGGGTTGGAGTATCCCCGATTATAGAAAAT
65 AAATAATAGGGTTGGAATATCCCCATAGAAATAACAGGGTTGGAGTATCCCCGATTATAAAAAAT
* **
2625869 CAGTGTTTTGAAAATAAAATCGGGATTGGAGTATCCCCGCGAAAATAATGGGATTGG
130 CAGTGTTTTGAAAATAAAATCGGGATTGGAGTATCCCCGCGAAAATAACGGGATTAA
* *
2625926 AGTATCCTCGATTAT-GAGAAATCAATATTTTAGAAATAAAGTCGAGGTTGGAGTATCCCCTCAG
1 AGTATCCTCGATTATGGA-AAATCAATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAG
*
2625990 AAATAATAGGGTTGGAATATCCCCGAT-GAAATAAC-GCGGTTGGAGTATCCCCGATTGTAACAA
65 AAATAATAGGGTTGGAATATCCCC-ATAGAAATAACAG-GGTTGGAGTATCCCCGATTAT-A-AA
* * *
2626053 AAATGA-TGTTTTGGAAATAAAATC-GGAGTTGGAGTATCCCTTG-G-AAATAACCGGG-TTAA
126 AAATCAGTGTTTTGAAAATAAAATCGGGA-TTGGAGTATCCC-CGCGAAAATAA-CGGGATTAA
* * * * *
2626112 AGTATCCCCGA-TAGTGGAAAATCAACGTTTTGGAAATAAAACCGGGGTTGGAGTATCC
1 AGTATCCTCGATTA-TGGAAAATCAATGTTTTAGAAATAAAATCGAGGTTGGAGTATCC
2626170 TCGATTGCGA
Statistics
Matches: 211, Mismatches: 23, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
185 3 0.01
186 133 0.63
187 68 0.32
188 7 0.03
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (186 bp):
AGTATCCTCGATTATGGAAAATCAATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAGA
AATAATAGGGTTGGAATATCCCCATAGAAATAACAGGGTTGGAGTATCCCCGATTATAAAAAATC
AGTGTTTTGAAAATAAAATCGGGATTGGAGTATCCCCGCGAAAATAACGGGATTAA
Found at i:2632661 original size:28 final size:28
Alignment explanation
Indices: 2632600--2632671 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
2632590 TTCTCAAAGC
*
2632600 CCACTAGTCAGTGGCACCTCTTCGAAGT
1 CCACAAGTCAGTGGCACCTCTTCGAAGT
** * * *
2632628 TGACAAGTCAGTGGCATCTTTTTGAAGT
1 CCACAAGTCAGTGGCACCTCTTCGAAGT
*
2632656 CCACAA-TTAGTGGCAC
1 CCACAAGTCAGTGGCAC
2632672 TTGCTGTATA
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
27 8 0.24
28 26 0.76
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (28 bp):
CCACAAGTCAGTGGCACCTCTTCGAAGT
Found at i:2632888 original size:32 final size:31
Alignment explanation
Indices: 2632842--2633125 Score: 255
Period size: 32 Copynumber: 8.9 Consensus size: 31
2632832 TTAGTGGAGA
* *
2632842 AACCTTCTCTAAAGCCTACACAAGTTGGTGGC
1 AACCTTTTC-AAAGCCCACACAAGTTGGTGGC
2632874 AACCTTTTTCAAAGCCCACACAAGTTGGTGGC
1 AACC-TTTTCAAAGCCCACACAAGTTGGTGGC
** * * *
2632906 AACCCCTCCAAAGCCCATACAAGTTGGTGGTG
1 AACCTTTTCAAAGCCCACACAAGTTGGTGG-C
* * *
2632938 ACCCTTTTAAAAGCCCACACAAGTTGGCGGC
1 AACCTTTTCAAAGCCCACACAAGTTGGTGGC
** * *
2632969 AACC-CCTCAAAAGCCCACATAAGTCGGTGGC
1 AACCTTTTC-AAAGCCCACACAAGTTGGTGGC
* * *
2633000 GACCCTTTCAAAAGCCCACACAAGTTGGTGGA
1 AACCTTTTC-AAAGCCCACACAAGTTGGTGGC
** * * *
2633032 AATTTTCTTTAAAGCCCACATAAGTTGGCGGC
1 AACCTT-TTCAAAGCCCACACAAGTTGGTGGC
*
2633064 AACCTTCTTTAAAGCCCACACAAGTTGGTGGC
1 AACCTT-TTCAAAGCCCACACAAGTTGGTGGC
* * *
2633096 AACCCTTTTAAAAGCCTATACAAGTTGGTG
1 AA-CCTTTTCAAAGCCCACACAAGTTGGTG
2633126 TCATTTCCTT
Statistics
Matches: 203, Mismatches: 43, Indels: 12
0.79 0.17 0.05
Matches are distributed among these distances:
30 1 0.00
31 47 0.23
32 145 0.71
33 10 0.05
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (31 bp):
AACCTTTTCAAAGCCCACACAAGTTGGTGGC
Found at i:2632951 original size:63 final size:63
Alignment explanation
Indices: 2632852--2633125 Score: 289
Period size: 63 Copynumber: 4.3 Consensus size: 63
2632842 AACCTTCTCT
* * * * *
2632852 AAAGCCTACACAAGTTGGTGGCAACCTTTTTCAAAGCCCACACAAGTTGGTGGCAACCCCTCC
1 AAAGCCCACACAAGTTGGTGGCGACCCTTTTAAAAGCCCACACAAGTTGGTGGCAACCCCTCA
* * *
2632915 AAAGCCCATACAAGTTGGTGGTGACCCTTTTAAAAGCCCACACAAGTTGGCGGCAACCCCTCA
1 AAAGCCCACACAAGTTGGTGGCGACCCTTTTAAAAGCCCACACAAGTTGGTGGCAACCCCTCA
* * * * *** **
2632978 AAAGCCCACATAAGTCGGTGGCGACCCTTTCAAAAGCCCACACAAGTTGGTGGAAATTTTCTTT
1 AAAGCCCACACAAGTTGGTGGCGACCCTTTTAAAAGCCCACACAAGTTGGTGGCAA-CCCCTCA
* * * * * *
2633042 AAAGCCCACATAAGTTGGCGGC-AACCTTCTTTAAAGCCCACACAAGTTGGTGGCAACCCTTTTA
1 AAAGCCCACACAAGTTGGTGGCGACCCTT-TTAAAAGCCCACACAAGTTGGTGGCAACCC-CTCA
* *
2633106 AAAGCCTATACAAGTTGGTG
1 AAAGCCCACACAAGTTGGTG
2633126 TCATTTCCTT
Statistics
Matches: 173, Mismatches: 35, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
63 109 0.63
64 64 0.37
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (63 bp):
AAAGCCCACACAAGTTGGTGGCGACCCTTTTAAAAGCCCACACAAGTTGGTGGCAACCCCTCA
Found at i:2633015 original size:95 final size:95
Alignment explanation
Indices: 2632840--2633125 Score: 328
Period size: 95 Copynumber: 3.0 Consensus size: 95
2632830 CCTTAGTGGA
* * *
2632840 GAAACCTTCTCT-AAAGCCTACACAAGTTGGTGGCAACCTTTTTCAAAGCCCACACAAGTTGGTG
1 GAAACCTTCT-TAAAAGCCCACACAAGTTGGCGGCAACC-TTCTCAAAGCCCACACAAGTTGGTG
* *
2632904 GCAACCC-CTCCAAAGCCCATACAAGTTGGTG
64 GCAACCCTTTCAAAAGCCCATACAAGTTGGTG
* * * * *
2632935 GTGACCCTT-TTAAAAGCCCACACAAGTTGGCGGCAACC-CCTCAAAAGCCCACATAAGTCGGTG
1 G-AAACCTTCTTAAAAGCCCACACAAGTTGGCGGCAACCTTCTC-AAAGCCCACACAAGTTGGTG
* *
2632998 GCGACCCTTTCAAAAGCCCACACAAGTTGGTG
64 GCAACCCTTTCAAAAGCCCATACAAGTTGGTG
** * * *
2633030 GAAATTTTCTTTAAAGCCCACATAAGTTGGCGGCAACCTTCTTTAAAGCCCACACAAGTTGGTGG
1 GAAACCTTCTTAAAAGCCCACACAAGTTGGCGGCAACCTTC-TCAAAGCCCACACAAGTTGGTGG
* *
2633095 CAACCCTTTTAAAAGCCTATACAAGTTGGTG
65 CAACCCTTTCAAAAGCCCATACAAGTTGGTG
2633126 TCATTTCCTT
Statistics
Matches: 158, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
93 2 0.01
94 28 0.18
95 75 0.47
96 52 0.33
97 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (95 bp):
GAAACCTTCTTAAAAGCCCACACAAGTTGGCGGCAACCTTCTCAAAGCCCACACAAGTTGGTGGC
AACCCTTTCAAAAGCCCATACAAGTTGGTG
Found at i:2633219 original size:52 final size:51
Alignment explanation
Indices: 2633141--2633491 Score: 239
Period size: 52 Copynumber: 6.7 Consensus size: 51
2633131 TCCTTCTAAA
* *
2633141 CCCAATATCGCCGGCTTTGAATCAGCACATTGGCATTCTTTGAT-TCTTTAAG
1 CCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-TCTTT-ATATCTTTAAG
* *
2633193 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATCCTCCTCTACCTTAG
1 CCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTAT-AT-CT--T-TA----AG
* * * * *
2633253 TCCAATGTCGCTGGCCTTGAATCAGCACATCGGCA-C--CACCA-CTTTAAG
1 CCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTA-TATCTTTAAG
* * ** *
2633301 TCCAATATCACTGGCCTTGAATCAGCATTTTGGCATCTTTAATAT-TCCTAAG
1 CCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTT-ATATCT-TTAAG
* * **
2633353 CCCAATGTCGCTGGCCTTGAATCAACACATTGGCATTCTTCT-TATCTGCAAG
1 CCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-TCTT-TATATCTTTAAG
* * * * * * ** *
2633405 TCTAATGTCGCTGGTCGTGAATCAGAACATTAACATTCTTTATACCTTTAAG
1 CCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-TCTTTATATCTTTAAG
* *
2633457 CCCAATATTGCTGGCCTTGAATCAGCATATTGGCA
1 CCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
2633492 CATTCCCACC
Statistics
Matches: 231, Mismatches: 47, Indels: 42
0.72 0.15 0.13
Matches are distributed among these distances:
48 32 0.14
49 1 0.00
50 2 0.01
51 7 0.03
52 139 0.60
53 8 0.03
54 1 0.00
55 3 0.01
56 2 0.01
57 2 0.01
59 1 0.00
60 33 0.14
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (51 bp):
CCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTATATCTTTAAG
Found at i:2634310 original size:20 final size:20
Alignment explanation
Indices: 2634263--2634318 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
2634253 TAAATTGCTT
2634263 AATGTATCGATACATAACCC
1 AATGTATCGATACATAACCC
* **
2634283 ATATGTATCGATACATTATTC
1 A-ATGTATCGATACATAACCC
2634304 AATGTATCGATACAT
1 AATGTATCGATACAT
2634319 GCAAGCAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATAACCC
Done.