Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 234 of 427
Found at i:66266928 original size:37 final size:37
Alignment explanation
Indices: 66266874--66267001 Score: 238
Period size: 37 Copynumber: 3.4 Consensus size: 37
66266864 AACTTGGAAA
*
66266874 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
66266912 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
66266949 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
66266986 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
66267002 TTCGTAATAA
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
37 85 0.96
38 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:66270571 original size:17 final size:18
Alignment explanation
Indices: 66270549--66270582 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
66270539 TTCTGGGCTA
66270549 TGTGGGCC-ACATGGGCG
1 TGTGGGCCTACATGGGCG
66270566 TGTGGGCCTACATGGGC
1 TGTGGGCCTACATGGGC
66270583 CGCATTATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.12, C:0.24, G:0.44, T:0.21
Consensus pattern (18 bp):
TGTGGGCCTACATGGGCG
Found at i:66271236 original size:15 final size:16
Alignment explanation
Indices: 66271216--66271248 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66271206 ATGGACTTCC
66271216 TTATTA-AATTTTAAA
1 TTATTATAATTTTAAA
*
66271231 TTATTATTATTTTAAA
1 TTATTATAATTTTAAA
66271247 TT
1 TT
66271249 GGGTATCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTATAATTTTAAA
Found at i:66278909 original size:45 final size:45
Alignment explanation
Indices: 66278859--66278949 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
66278849 CCAAACCATG
* *
66278859 TGTCACATATATCACGAATTTAGACCAAAACTCAATGAGTTCAGA
1 TGTCACATATATCACGAACTCAGACCAAAACTCAATGAGTTCAGA
* * * * *
66278904 TGTCACGTATATCATGAACTCATACCACAACTCATTGAGTTCAGA
1 TGTCACATATATCACGAACTCAGACCAAAACTCAATGAGTTCAGA
66278949 T
1 T
66278950 CACATAGTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAGACCAAAACTCAATGAGTTCAGA
Found at i:66282534 original size:53 final size:52
Alignment explanation
Indices: 66282453--66282654 Score: 197
Period size: 53 Copynumber: 4.0 Consensus size: 52
66282443 GACGAAAAAT
*
66282453 ATGTGATAA-GTGCAC-CCGTTTAAGACCATAGCTAGGCTATGGCATCGGTGCA
1 ATGTGATAATGTG-ACTCCGTGTAAGACCATAGCTAGGCTATGGCATCGGTG-A
* *
66282505 ATGTGATAATGTGACTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTGTAAGACCATAGCTAGGCTATGGCATCGGT-GA
* * * * *
66282558 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGT--
1 ATGTGATAATGTGACTCCGTGTAAGACCATAG-CTAGGCTATGGCATCGGTGA
* * * *
66282608 A--TGAT-ATGTGA-ACCGTGTAAGACCATGGCAAGGCTATGGCTTCGGTG
1 ATGTGATAATGTGACTCCGTGTAAGACCATAGCTAGGCTATGGCATCGGTG
66282655 TGTGATGCGT
Statistics
Matches: 132, Mismatches: 12, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
46 28 0.21
47 7 0.05
48 4 0.03
50 1 0.01
52 12 0.09
53 80 0.61
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (52 bp):
ATGTGATAATGTGACTCCGTGTAAGACCATAGCTAGGCTATGGCATCGGTGA
Found at i:66286071 original size:13 final size:13
Alignment explanation
Indices: 66286049--66286081 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
66286039 CAGGGTTTGT
66286049 TTAT-TAAACTAA
1 TTATCTAAACTAA
66286061 TTATCTAAACTAA
1 TTATCTAAACTAA
*
66286074 TTAACTAA
1 TTATCTAA
66286082 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:66286685 original size:30 final size:30
Alignment explanation
Indices: 66286651--66286712 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
66286641 CAAAAGTATA
66286651 AAAATAACAAAACATGAAGAAAACTCTAAC
1 AAAATAACAAAACATGAAGAAAACTCTAAC
66286681 AAAATAACAAAACATGAAGAAAACTCTAAC
1 AAAATAACAAAACATGAAGAAAACTCTAAC
66286711 AA
1 AA
66286713 CCCCTGAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.65, C:0.16, G:0.06, T:0.13
Consensus pattern (30 bp):
AAAATAACAAAACATGAAGAAAACTCTAAC
Found at i:66290461 original size:28 final size:28
Alignment explanation
Indices: 66290430--66290498 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
66290420 CATGTCTTTC
* *
66290430 AAATTAAAGT-AATAAAATTGAAATAAAA
1 AAATTAAAATAAATAAAA-TAAAATAAAA
66290458 AAA-TAAAATAAAATAAAATAAAATAAAA
1 AAATTAAAAT-AAATAAAATAAAATAAAA
66290486 AAA-TAAGAATAAA
1 AAATTAA-AATAAA
66290499 AAGATAGGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 5 0.14
28 21 0.58
29 10 0.28
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.20
Consensus pattern (28 bp):
AAATTAAAATAAATAAAATAAAATAAAA
Found at i:66290467 original size:5 final size:5
Alignment explanation
Indices: 66290440--66290499 Score: 65
Period size: 5 Copynumber: 12.4 Consensus size: 5
66290430 AAATTAAAGT
*
66290440 AATAA AATTGA AAT-A AA-AA AATAA AATAA AATAA AATAA AAT-A AA-AA
1 AATAA AA-TAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
66290487 AATAA GAATAA AA
1 AATAA -AATAA AA
66290500 AGATAGGAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
4 12 0.25
5 27 0.56
6 9 0.19
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:66290472 original size:29 final size:29
Alignment explanation
Indices: 66290440--66290499 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 29
66290430 AAATTAAAGT
*
66290440 AATAAAATTGAAATAAAAAAATAA-AATAA
1 AATAAAA-TAAAATAAAAAAATAAGAATAA
66290469 AATAAAATAAAATAAAAAAATAAGAATAA
1 AATAAAATAAAATAAAAAAATAAGAATAA
66290498 AA
1 AA
66290500 AGATAGGAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (29 bp):
AATAAAATAAAATAAAAAAATAAGAATAA
Found at i:66294189 original size:263 final size:263
Alignment explanation
Indices: 66293717--66294245 Score: 1022
Period size: 263 Copynumber: 2.0 Consensus size: 263
66293707 CATCTGCGAC
* *
66293717 AGGACTTCAATAAAGGGTAAGTTAATATGTAATTTCTTTAAGAGTTTGACAAACTTACCGAATTG
1 AGGAATTCAATAAAGGGTAAGTTAATATGTAATTTCTTTAAGAGTTTGACAAAATTACCGAATTG
*
66293782 CTCTTCTGTTCTATCTTTCTTCATCGCTTTAGGATATGGCACACGAGGTTCATAATACGTACTTA
66 CTCTTCTATTCTATCTTTCTTCATCGCTTTAGGATATGGCACACGAGGTTCATAATACGTACTTA
*
66293847 CCTGATTAGGATCACTGTCATTTACCTCTTCTCGACCTTTGTTCATCGCGTTGTCTTGCTATAAT
131 CCTGATTAGGATCACCGTCATTTACCTCTTCTCGACCTTTGTTCATCGCGTTGTCTTGCTATAAT
66293912 TCTGGCTCCGGTGCAATGAATCCTTCCTTATTTTGAGTACTAATTGCATTGAGGTGTTCCCTTTG
196 TCTGGCTCCGGTGCAATGAATCCTTCCTTATTTTGAGTACTAATTGCATTGAGGTGTTCCCTTTG
66293977 ATT
261 ATT
66293980 AGGAATTCAATAAAGGGTAAGTTAATATGTAATTTCTTTAAGAGTTTGACAAAATTACCGAATTG
1 AGGAATTCAATAAAGGGTAAGTTAATATGTAATTTCTTTAAGAGTTTGACAAAATTACCGAATTG
66294045 CTCTTCTATTCTATCTTTCTTCATCGCTTTAGGATATGGCACACGAGGTTCATAATACGTACTTA
66 CTCTTCTATTCTATCTTTCTTCATCGCTTTAGGATATGGCACACGAGGTTCATAATACGTACTTA
66294110 CCTGATTAGGATCACCGTCATTTACCTCTTCTCGACCTTTGTTCATCGCGTTGTCTTGCTATAAT
131 CCTGATTAGGATCACCGTCATTTACCTCTTCTCGACCTTTGTTCATCGCGTTGTCTTGCTATAAT
66294175 TCTGGCTCCGGTGCAATGAATCCTTCCTTATTTTGAGTACTAATTGCATTGAGGTGTTCCCTTTG
196 TCTGGCTCCGGTGCAATGAATCCTTCCTTATTTTGAGTACTAATTGCATTGAGGTGTTCCCTTTG
66294240 ATT
261 ATT
66294243 AGG
1 AGG
66294246 TTCAGTATTA
Statistics
Matches: 262, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
263 262 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.39
Consensus pattern (263 bp):
AGGAATTCAATAAAGGGTAAGTTAATATGTAATTTCTTTAAGAGTTTGACAAAATTACCGAATTG
CTCTTCTATTCTATCTTTCTTCATCGCTTTAGGATATGGCACACGAGGTTCATAATACGTACTTA
CCTGATTAGGATCACCGTCATTTACCTCTTCTCGACCTTTGTTCATCGCGTTGTCTTGCTATAAT
TCTGGCTCCGGTGCAATGAATCCTTCCTTATTTTGAGTACTAATTGCATTGAGGTGTTCCCTTTG
ATT
Found at i:66300478 original size:31 final size:31
Alignment explanation
Indices: 66300429--66300543 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
66300419 TTAGTCTTGA
*
66300429 CATAT-ACTGGGGCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
66300459 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
66300490 CATATCATTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
66300521 CATATCATTGGGTCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
66300544 ACTGTAAACG
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 5 0.06
31 74 0.94
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:66300614 original size:42 final size:42
Alignment explanation
Indices: 66300567--66300658 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
66300557 TGGCCTTTAG
* ** *
66300567 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
66300609 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
66300651 GCCCATTT
1 GCCCATTT
66300659 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:66300856 original size:50 final size:50
Alignment explanation
Indices: 66300802--66300947 Score: 208
Period size: 49 Copynumber: 2.9 Consensus size: 50
66300792 CCTCTTTAAT
66300802 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTC-A-A
* *
66300852 AACTGGGGCATAACCCCTTTTCAGTAAACTGGGGCATAAGCCCTTTTCAA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAA
* * *
66300902 AACTAGGACATAAGCCC-TTTCGGTAAACTGGGGTATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
66300948 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
49 27 0.31
50 25 0.29
51 24 0.28
52 11 0.13
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (50 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAA
Found at i:66300879 original size:26 final size:26
Alignment explanation
Indices: 66300802--66300947 Score: 194
Period size: 25 Copynumber: 5.8 Consensus size: 26
66300792 CCTCTTTAAT
*
66300802 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
66300827 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
66300852 AACTGGGGCATAACCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
66300878 AACTGGGGCATAAGCCCTTTTCA--A
1 AACTGGGGCATAAGCCCTTTTCAGTA
* * *
66300902 AACTAGGACATAAGCCC-TTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
66300927 AACTGGGGTATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
66300948 GCACTTCCTC
Statistics
Matches: 106, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
23 4 0.04
24 16 0.15
25 48 0.45
26 38 0.36
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAGTA
Found at i:66301848 original size:27 final size:27
Alignment explanation
Indices: 66301748--66301831 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
66301738 GGGCATATTC
* *
66301748 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
66301775 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
66301802 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
66301829 GTC
1 GTC
66301832 TTTTTACCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:66301913 original size:27 final size:27
Alignment explanation
Indices: 66301883--66301935 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
66301873 GGGTGTTTTG
66301883 GTAAATCTACAAACCAAGGGTATTTCA
1 GTAAATCTACAAACCAAGGGTATTTCA
* * * *
66301910 GTAATTTTATAAACCAATGGTATTTC
1 GTAAATCTACAAACCAAGGGTATTTC
66301936 CATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (27 bp):
GTAAATCTACAAACCAAGGGTATTTCA
Found at i:66301941 original size:27 final size:27
Alignment explanation
Indices: 66301893--66302214 Score: 152
Period size: 27 Copynumber: 11.9 Consensus size: 27
66301883 GTAAATCTAC
66301893 AAACCAAGGGTATTTCAGTAATTTTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
66301920 AAACCAATGGTATTTCCA-TAATTTTTAG
1 AAACCAAGGGTATTT-CAGTAA-TTTTAT
* * * *
66301948 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
** * ** *
66301976 AAATTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** * * *
66302003 AAATTAAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
66302030 AAA-CTAGTGGCATTTC-GATAATTTTAC
1 AAACCAAG-GGTATTTCAG-TAATTTTAT
* * ** *
66302057 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** * *
66302084 AAATTGAA-GGTATTTCGGTAATTTTAC
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * *
66302111 AAACCAGGGGTATTTTAGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * **
66302138 AGA-CTAGGGTATTTTGGTAATTTTACT
1 AAACCAAGGGTATTTCAGTAATTTTA-T
* * * ** *
66302165 -GATCAAAGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
*
66302191 AAACCAAGGGTATTTTAGTAATTT
1 AAACCAAGGGTATTTCAGTAATTT
66302215 GTAAATCGAG
Statistics
Matches: 234, Mismatches: 48, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
26 26 0.11
27 175 0.75
28 20 0.09
29 13 0.06
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:66302052 original size:54 final size:54
Alignment explanation
Indices: 66301890--66302188 Score: 244
Period size: 54 Copynumber: 5.5 Consensus size: 54
66301880 TTGGTAAATC
* * * * * **
66301890 TACAAACCAAGGGTATTTCAGTAATTTTATAAACCAATGGTATTTCCATAATTTT
1 TACAAATCAAGGGTATTTCGGTAATTTTACAAACTAGTGGTATTTCGGTAA-TTT
* * * ** * * *
66301945 TAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAATTAGGGGTATTTTGGTAATTT
1 TACAAA-TCAAGGGTATTTCGGTAATTTTACAAACTAGTGGTATTTCGGTAATTT
* * * *
66302000 TACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGTGGCATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGGTAATTTTACAAACTAGTGGTATTTCGGTAATTT
* * * *
66302054 TACAAA-CTAGGGGTATTTTGGTAATTTTACAAA-TTGAAGGTATTTCGGTAATTT
1 TACAAATC-AAGGGTATTTCGGTAATTTTACAAACTAG-TGGTATTTCGGTAATTT
* * ** * *
66302108 TACAAACCAGGGGTATTTTAGTAATTTTACAGACTAG-GGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTTTACAAACTAGTGGTATTTCGGTAATTT
** * *
66302161 TACTGATCAAAGGTATTTTGGTAATTTT
1 TACAAATCAAGGGTATTTCGGTAATTTT
66302189 GTAAACCAAG
Statistics
Matches: 197, Mismatches: 42, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
53 39 0.20
54 108 0.55
55 16 0.08
56 34 0.17
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCGGTAATTTTACAAACTAGTGGTATTTCGGTAATTT
Found at i:66302078 original size:81 final size:80
Alignment explanation
Indices: 66301980--66302214 Score: 276
Period size: 81 Copynumber: 2.9 Consensus size: 80
66301970 CTTTGTAAAT
* *
66301980 TAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGTGGCATTT
1 TAGGGGTATTTTGGTAATTTTACAAATTAA-GGTATTTCGGTAATTTCACAAACCAGGGGCATTT
66302045 CGA-TAATTTTACAAAC
65 -GAGTAATTTTACAAAC
* *
66302061 TAGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTTACAAACCAGGGGTATTT
1 TAGGGGTATTTTGGTAATTTTACAAATT-AAGGTATTTCGGTAATTTCACAAACCAGGGGCATTT
* *
66302126 TAGTAATTTTACAGAC
65 GAGTAATTTTACAAAC
** * * *** * *
66302142 TA-GGGTATTTTGGTAATTTTACTGATCAAAGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT
1 TAGGGGTATTTTGGTAATTTTACAAAT-TAAGGTATTTCGGTAATTTCACAAACCAGGGGCATTT
*
66302206 TAGTAATTT
65 GAGTAATTT
66302215 GTAAATCGAG
Statistics
Matches: 138, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
80 64 0.46
81 72 0.52
82 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (80 bp):
TAGGGGTATTTTGGTAATTTTACAAATTAAGGTATTTCGGTAATTTCACAAACCAGGGGCATTTG
AGTAATTTTACAAAC
Found at i:66302215 original size:26 final size:26
Alignment explanation
Indices: 66302118--66302255 Score: 102
Period size: 27 Copynumber: 5.2 Consensus size: 26
66302108 TACAAACCAG
*
66302118 GGGTATTTTAGTAATTT-TACAGA-CTA
1 GGGTATTTTAGTAATTTGTA-A-ATCAA
* *
66302144 GGGTATTTTGGTAATTT-TACTGATCAA
1 GGGTATTTTAGTAATTTGTA--AATCAA
* * *
66302171 AGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAA-TTTGTAAATCAA
*
66302198 GGGTATTTTAGTAATTTGTAAATCGA
1 GGGTATTTTAGTAATTTGTAAATCAA
****
66302224 GGGTAAAACAGTAATTCTGTAAATCAA
1 GGGTATTTTAGTAATT-TGTAAATCAA
66302251 GGGTA
1 GGGTA
66302256 AAACGGTAAT
Statistics
Matches: 91, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
26 41 0.45
27 45 0.49
28 3 0.03
29 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (26 bp):
GGGTATTTTAGTAATTTGTAAATCAA
Found at i:66302238 original size:80 final size:80
Alignment explanation
Indices: 66302090--66302239 Score: 178
Period size: 80 Copynumber: 1.9 Consensus size: 80
66302080 TTACAAATTG
* * *****
66302090 AAGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAGACTAGGGTATTTTGG
1 AAGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAGACGAGGGTAAAACAG
66302155 TAATTTTACTGATCA
66 TAATTTTACTGATCA
* **
66302170 AAGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTGTA-A-ATCGAGGGTAAAAC
1 AAGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTT-TACAGA-CGAGGGTAAAAC
66302233 AGTAATT
64 AGTAATT
66302240 CTGTAAATCA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
79 1 0.02
80 55 0.95
81 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.39
Consensus pattern (80 bp):
AAGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAGACGAGGGTAAAACAG
TAATTTTACTGATCA
Found at i:66302347 original size:27 final size:27
Alignment explanation
Indices: 66302207--66302336 Score: 190
Period size: 27 Copynumber: 4.9 Consensus size: 27
66302197 AGGGTATTTT
*
66302207 AGTAATT-TGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
66302233 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
66302260 GGTAATTCTATAAATTGATGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
66302287 AGTAATTCTATAAATTGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
66302314 AGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
66302337 CTTTGGTAAT
Statistics
Matches: 94, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
26 7 0.07
27 87 0.93
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.29
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:66302371 original size:81 final size:80
Alignment explanation
Indices: 66302202--66302375 Score: 179
Period size: 81 Copynumber: 2.2 Consensus size: 80
66302192 AACCAAGGGT
* * *
66302202 ATTTTAGTAATTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATT
1 ATTTCAGTAATTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTAATT
* *
66302267 CTATAAATTGATGGT
66 CTACAAATTGATGGC
*** * * ****
66302282 AAAACAGTAATTCTATAAATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAAT
1 ATTTCAGTAATT-TATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTAAT
* *
66302347 TTTACAATTTGA-GAGC
65 TCTACAAATTGATG-GC
66302363 ATTTCAGTAATTT
1 ATTTCAGTAATTT
66302376 GGTAAACTAA
Statistics
Matches: 73, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
80 10 0.14
81 63 0.86
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (80 bp):
ATTTCAGTAATTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTAATT
CTACAAATTGATGGC
Found at i:66304182 original size:28 final size:28
Alignment explanation
Indices: 66304126--66304193 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
66304116 ATCGATTTTT
***
66304126 CACACTTAGTGCTCAATATTTAAACTCG
1 CACACTTAGTGCTCAATAACCAAACTCG
* *
66304154 CACACTTAGTGCTCAATAACCACATTCG
1 CACACTTAGTGCTCAATAACCAAACTCG
66304182 CACACTTAGTGC
1 CACACTTAGTGC
66304194 AAGATTCACA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (28 bp):
CACACTTAGTGCTCAATAACCAAACTCG
Found at i:66317355 original size:40 final size:40
Alignment explanation
Indices: 66317227--66317378 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
66317217 ATCATGATTT
* * * **
66317227 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
66317267 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * * *
66317307 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
66317347 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
66317379 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:66323798 original size:19 final size:17
Alignment explanation
Indices: 66323751--66323784 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
66323741 TAAATCCTTT
66323751 CTTCAACACATGCAAGA
1 CTTCAACACATGCAAGA
66323768 CTTCAACACATGCAAGA
1 CTTCAACACATGCAAGA
66323785 TCTCAAGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.18
Consensus pattern (17 bp):
CTTCAACACATGCAAGA
Found at i:66331408 original size:43 final size:43
Alignment explanation
Indices: 66331361--66331481 Score: 111
Period size: 42 Copynumber: 2.8 Consensus size: 43
66331351 CCTCGATTGA
66331361 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCG-TATCT
1 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCGATAT-T
* * * ***
66331404 GATTT-CGTACAAGACCATATCTAGGACAGATGCATCGATATT
1 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCGATATT
* * * * * *
66331446 GAATTACATGTAAGACCACGTCCGGGACGTCGGCAT
1 GATTTACGTATAAGACCATGTCTGGGACATCGGCAT
66331482 TATACTTGAT
Statistics
Matches: 58, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
42 31 0.53
43 27 0.47
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
GATTTACGTATAAGACCATGTCTGGGACATCGGCATCGATATT
Found at i:66334966 original size:79 final size:80
Alignment explanation
Indices: 66334848--66335003 Score: 278
Period size: 79 Copynumber: 2.0 Consensus size: 80
66334838 TAAAATAATG
* *
66334848 TATTTTATGCAATTTAGTTATCTTTTGATATTTTTACAAAATTACTCCTAAAATTTTACTTTTCT
1 TATTTTATGCAATTTAGTCATCTTTTGATATTTTTACAAAATTACCCCTAAAATTTTACTTTTCT
*
66334913 TCAATTTAGTCCACA
66 TCAATGTAGTCCACA
66334928 TATTTTATGCAATTTAGTCAT-TTTTGATATTTTTACAAAATTACCCCTAAAATTTTACTTTTCT
1 TATTTTATGCAATTTAGTCATCTTTTGATATTTTTACAAAATTACCCCTAAAATTTTACTTTTCT
66334992 TCAATGTAGTCC
66 TCAATGTAGTCC
66335004 CTGAGCCTAA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
79 53 0.73
80 20 0.27
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.49
Consensus pattern (80 bp):
TATTTTATGCAATTTAGTCATCTTTTGATATTTTTACAAAATTACCCCTAAAATTTTACTTTTCT
TCAATGTAGTCCACA
Found at i:66344777 original size:71 final size:71
Alignment explanation
Indices: 66344691--66344854 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
66344681 CGATTTGTCT
66344691 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
66344756 CTTTCA
66 CTTTCA
66344762 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
66344827 CTTTCA
66 CTTTCA
66344833 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
66344855 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:66344892 original size:71 final size:70
Alignment explanation
Indices: 66344691--66344888 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
66344681 CGATTTGTCT
* * * *
66344691 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
66344756 CTTTCA
65 CTTTCA
* * * *
66344762 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
66344827 CTTTCA
65 CTTTCA
* *
66344833 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
66344889 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:66347190 original size:26 final size:26
Alignment explanation
Indices: 66347137--66347186 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
66347127 AAGAATGATG
* *
66347137 TTAAATTATATTTAACAATAATTATA
1 TTAAAATATAATTAACAATAATTATA
*
66347163 TTAAAATATAATTAA-AATATTTAT
1 TTAAAATATAATTAACAATAATTAT
66347187 TATTTTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
TTAAAATATAATTAACAATAATTATA
Found at i:66349532 original size:39 final size:39
Alignment explanation
Indices: 66349485--66349602 Score: 182
Period size: 39 Copynumber: 3.0 Consensus size: 39
66349475 AAGCAAGACA
* *
66349485 CTGGAAATGTGTCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
66349524 CTGGAAATGTATCCGGGCTAAAGTCTCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
66349563 CTGGAAATGTATCCGGGCTAAAGTCCCGCAAGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
66349602 C
1 C
66349603 CGGTAACATA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.25
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:66355516 original size:68 final size:66
Alignment explanation
Indices: 66355444--66355615 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
66355434 CATCATGTGT
* * * *
66355444 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
66355507 TGTAG
62 TGTAG
** * *
66355512 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
66355577 AG
65 AG
* * * *
66355579 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
66355616 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:66355549 original size:64 final size:64
Alignment explanation
Indices: 66355468--66355651 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
66355458 AGACATTATG
* * *
66355468 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
66355532 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
66355597 AA
63 AA
* * * *
66355599 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATAT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
66355652 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 25 0.26
66 21 0.21
67 33 0.34
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:66375359 original size:40 final size:41
Alignment explanation
Indices: 66375313--66375424 Score: 158
Period size: 40 Copynumber: 2.8 Consensus size: 41
66375303 CGGATATACG
*
66375313 TGCACGAATGCCTTCGGGTCTTAGCCCGGATAG-AACGACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATAGTAACCACT
*
66375353 TGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATAGTAACCACT
* *
66375393 AGCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 TGCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
66375425 TAATTTCCAG
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
39 3 0.05
40 62 0.95
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.24
Consensus pattern (41 bp):
TGCACGAATGCCTTCGGGTCTTAGCCCGGATAGTAACCACT
Found at i:66386157 original size:28 final size:26
Alignment explanation
Indices: 66386102--66386214 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
66386092 AGCATGGCTG
* *
66386102 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
66386128 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
66386156 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
66386183 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
66386211 CCAG
1 CCAG
66386215 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
26 6 0.08
27 39 0.50
28 33 0.42
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:66386185 original size:55 final size:54
Alignment explanation
Indices: 66386102--66386214 Score: 165
Period size: 55 Copynumber: 2.1 Consensus size: 54
66386092 AGCATGGCTG
*
66386102 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * *
66386156 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
66386211 CCAG
1 CCAG
66386215 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 19 0.36
55 34 0.64
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:66388522 original size:40 final size:40
Alignment explanation
Indices: 66388445--66388660 Score: 314
Period size: 40 Copynumber: 5.4 Consensus size: 40
66388435 AAACCAAGTA
* * *
66388445 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
66388484 CCTTCGGGACTTAGCCTGGATATAGTAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66388524 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66388564 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
66388604 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
66388644 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
66388661 CGTTATCATC
Statistics
Matches: 165, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 14 0.08
40 151 0.92
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:66394624 original size:40 final size:39
Alignment explanation
Indices: 66394588--66394694 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
66394578 ATATCCGGAC
*
66394588 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * *
66394628 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
66394667 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
66394695 CTATAACCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:66394695 original size:40 final size:40
Alignment explanation
Indices: 66394594--66394723 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
66394584 GGACTAAGAT
* * *
66394594 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
66394633 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
66394673 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
66394713 CCGAAGGCATT
1 CCGAAGGCATT
66394724 TGAGCTAGTC
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 34 0.41
40 39 0.48
41 9 0.11
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:66402687 original size:40 final size:39
Alignment explanation
Indices: 66402651--66402757 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
66402641 ATATCCGGAC
*
66402651 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * *
66402691 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
66402730 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
66402758 CTATAACCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:66402758 original size:40 final size:40
Alignment explanation
Indices: 66402657--66402786 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
66402647 GGACTAAGAT
* * *
66402657 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
66402696 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
66402736 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
66402776 CCGAAGGCATT
1 CCGAAGGCATT
66402787 TGAGCTAGTC
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 34 0.41
40 39 0.48
41 9 0.11
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:66402819 original size:79 final size:79
Alignment explanation
Indices: 66402656--66402821 Score: 176
Period size: 79 Copynumber: 2.1 Consensus size: 79
66402646 CGGACTAAGA
* * *
66402656 TCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
*
66402721 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * * * *
66402735 CCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAGGCATTTGAGCTAGTCG
1 TCCGAAGGCATTCGTGCGAGTTAATA-AATCC-GGGTTAAG-CCCGAAGGCATTTGAGCGAGTCA
* * *
66402798 TTATATCC-GGTTAAAT
63 CTAAACCCGGGTTAAAT
66402814 TCCGAAGG
1 TCCGAAGG
66402822 TACGTGATTC
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
79 40 0.56
80 31 0.44
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
AACCCGGGTTAAAT
Found at i:66403368 original size:16 final size:16
Alignment explanation
Indices: 66403347--66403378 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
66403337 CGTAAAAGTG
66403347 GGGTATGGCATTAGAC
1 GGGTATGGCATTAGAC
66403363 GGGTATGGCATTAGAC
1 GGGTATGGCATTAGAC
66403379 TATTTGTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.38, T:0.25
Consensus pattern (16 bp):
GGGTATGGCATTAGAC
Found at i:66405787 original size:28 final size:26
Alignment explanation
Indices: 66405732--66405844 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 26
66405722 AGCACGGCTG
* *
66405732 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
66405758 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
66405786 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
66405813 CCA-AATCAGATAATTTGTGGCATAGCCA
1 CCAGAA-CAGATAA--TGTGGCAGAGCCA
66405841 CCAG
1 CCAG
66405845 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
26 8 0.10
27 37 0.48
28 32 0.42
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:66405815 original size:55 final size:54
Alignment explanation
Indices: 66405732--66405844 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
66405722 AGCACGGCTG
* *
66405732 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAAAT-CAGATAATTCGTGGCAGAGCCA
* * *
66405786 CCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAAATCAGATAATTCGTGGCAGAGCCA
66405841 CCAG
1 CCAG
66405845 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 19 0.37
55 33 0.63
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAAATCAGATAATTCGTGGCAGAGCCA
Found at i:66412123 original size:29 final size:29
Alignment explanation
Indices: 66412090--66412250 Score: 223
Period size: 29 Copynumber: 5.6 Consensus size: 29
66412080 GTGACGAGAT
66412090 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
66412119 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
66412148 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
66412177 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
66412206 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
66412235 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
66412251 GGCTTAAATT
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 118 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:66416634 original size:18 final size:19
Alignment explanation
Indices: 66416593--66416632 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
66416583 TATTTTAAGC
66416593 TTTAATTGGTAAGTGATTT
1 TTTAATTGGTAAGTGATTT
66416612 TTTAATTGGTAAGTGATTT
1 TTTAATTGGTAAGTGATTT
66416631 TT
1 TT
66416633 AACTCATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (19 bp):
TTTAATTGGTAAGTGATTT
Found at i:66418858 original size:53 final size:54
Alignment explanation
Indices: 66418664--66418870 Score: 222
Period size: 53 Copynumber: 3.8 Consensus size: 54
66418654 ATTAGGGTTT
*
66418664 AAGGATACCAAGTAAGACCATGCCAAGGA-ATGG-AATTGGTAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCAA-TGGTAAGTTCTATAAGGC
* * * * * * * * *
66418718 AAGAAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * *
66418773 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* *
66418826 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
66418871 TAAAAAGGAA
Statistics
Matches: 121, Mismatches: 29, Indels: 7
0.77 0.18 0.04
Matches are distributed among these distances:
53 47 0.39
54 31 0.26
55 43 0.36
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:66420403 original size:40 final size:39
Alignment explanation
Indices: 66420312--66420462 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 39
66420302 ATAACCATGT
* *
66420312 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
66420352 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * ** *
66420392 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
66420432 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAA-TGCCTTCGGG-TCTTAGCCCGGATA
66420463 TCATTCAATT
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 85 0.92
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:66420446 original size:80 final size:80
Alignment explanation
Indices: 66420312--66420461 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
66420302 ATAACCATGT
*
66420312 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
66420376 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
66420392 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
66420455 CCCGGAT
64 CCCGGAT
66420462 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:66425302 original size:29 final size:29
Alignment explanation
Indices: 66425260--66425316 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
66425250 AAGCCAAAAG
66425260 AATGTCAAGCGATAGGGACAAAGTGGTAT
1 AATGTCAAGCGATAGGGACAAAGTGGTAT
* *
66425289 AATGTCAAGTGATATGGACAAAGTGGTA
1 AATGTCAAGCGATAGGGACAAAGTGGTA
66425317 CGATCGAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.23
Consensus pattern (29 bp):
AATGTCAAGCGATAGGGACAAAGTGGTAT
Found at i:66427140 original size:24 final size:24
Alignment explanation
Indices: 66427096--66427141 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
66427086 ATTTTTGCTG
*
66427096 CACATGGCCTGGCACATGGGCTAT
1 CACATGGCCTGGCACACGGGCTAT
66427120 CACATGGCCTAGG-ACACGGGCT
1 CACATGGCCT-GGCACACGGGCT
66427142 GTAACAAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.22, C:0.30, G:0.30, T:0.17
Consensus pattern (24 bp):
CACATGGCCTGGCACACGGGCTAT
Found at i:66440736 original size:40 final size:40
Alignment explanation
Indices: 66440608--66440759 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
66440598 ATAACCATGT
* * *
66440608 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCTC-CA
* * ** * *
66440648 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATCTCCA
*
66440688 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCTCCA
* * *
66440728 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAACCCGGATAT
66440760 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
39 2 0.02
40 85 0.94
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCTCCA
Found at i:66440742 original size:80 final size:80
Alignment explanation
Indices: 66440608--66440757 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 80
66440598 ATAACCATGT
66440608 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
66440672 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
66440688 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
66440751 CCCGGAT
64 CCCGGAT
66440758 ATCATTCAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
79 3 0.05
80 58 0.94
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:66450680 original size:47 final size:47
Alignment explanation
Indices: 66450568--66450836 Score: 198
Period size: 47 Copynumber: 5.7 Consensus size: 47
66450558 GGGTTATTGT
* * *
66450568 GAGCTAGTGTAAGA-CATGTCTAGGACATGCATCGGCCA-C-ATTATGA
1 GAGCTAGTGTAAGACCATGTCTAGGACATGCATC-GACATCGA-GACGA
* * *
66450614 GAACCAGTGTAAGACCATGTCTAGGACATGGCATCGACATCAAGACGA
1 GAGCTAGTGTAAGACCATGTCTAGGACAT-GCATCGACATCGAGACGA
* * * * *
66450662 GTGCTAGTGTAAGA-CATGTCTGGGACATACATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACCATGTCTAGGACATGCATCGACATCGAGACG-A
* * * * * *
66450709 -AGCCAGTGTAAGA-CATGTTTGGGATATGCATTGAC-TACGAGATGA
1 GAGCTAGTGTAAGACCATGTCTAGGACATGCATCGACAT-CGAGACGA
* * * *
66450754 TAG-TCAGTGTAAGACCATATCTAGGACATGGCATCGA-ATTGAGA-TA
1 GAGCT-AGTGTAAGACCATGTCTAGGACAT-GCATCGACATCGAGACGA
66450800 TGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCG
1 -GAGCTAGTGTAAGACCATGTCTAGGACAT-GCATCG
66450837 GCACCTTACC
Statistics
Matches: 179, Mismatches: 31, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
45 2 0.01
46 71 0.40
47 77 0.43
48 28 0.16
49 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTAGGACATGCATCGACATCGAGACGA
Found at i:66451225 original size:12 final size:12
Alignment explanation
Indices: 66451208--66451233 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
66451198 CAATCGAAGC
66451208 TTTCGGTATAGT
1 TTTCGGTATAGT
66451220 TTTCGGTATAGT
1 TTTCGGTATAGT
66451232 TT
1 TT
66451234 GATTCATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (12 bp):
TTTCGGTATAGT
Found at i:66455185 original size:40 final size:41
Alignment explanation
Indices: 66455140--66455249 Score: 133
Period size: 39 Copynumber: 2.8 Consensus size: 41
66455130 CTGGAAATTA
* *
66455140 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGT--CATAC
*
66455181 -ATCCGGGCTAAGA-CCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATAC
66455219 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGC
66455250 ACGTGGTTAT
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
37 1 0.02
38 5 0.08
39 28 0.45
40 28 0.45
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATAC
Found at i:66455263 original size:40 final size:40
Alignment explanation
Indices: 66455137--66455265 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
66455127 ATGCTGGAAA
* *
66455137 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
66455177 CTACATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
66455216 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
66455256 TTATATCCGG
1 TTATATCCGG
66455266 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
38 3 0.04
39 30 0.41
40 41 0.55
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:66458653 original size:27 final size:27
Alignment explanation
Indices: 66458623--66458884 Score: 251
Period size: 27 Copynumber: 9.7 Consensus size: 27
66458613 TACTGAAATG
* * * **
66458623 CCCTCAATTTGTAAAATTACCAAAGTA
1 CCCTCGATTTATAGAATTACCAATTTA
* *
66458650 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCAATTTA
* * *
66458677 CCCTCAATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCAATTTA
66458704 CCCTCGATTTATAGAATTACCAATTTA
1 CCCTCGATTTATAGAATTACCAATTTA
* *
66458731 CCCTCGATTTATAGAATTATC-GTTTCA
1 CCCTCGATTTATAGAATTACCAATTT-A
**
66458758 CCCTCGATTTACTA-AATTACCGTTTTA
1 CCCTCGATTTA-TAGAATTACCAATTTA
* *
66458785 CCCTCAATTTATAGAA-TACCATTTTA
1 CCCTCGATTTATAGAATTACCAATTTA
* * * **
66458811 CCCTCAATTTACAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCAATTTA
* **
66458838 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCAATTTA
* *
66458865 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTATAGAATTAC
66458885 TGAAATACCC
Statistics
Matches: 207, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
26 29 0.14
27 173 0.84
28 5 0.02
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.37
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCAATTTA
Found at i:66458685 original size:54 final size:54
Alignment explanation
Indices: 66458648--66458884 Score: 316
Period size: 54 Copynumber: 4.4 Consensus size: 54
66458638 ATTACCAAAG
66458648 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTT
* * * * * *
66458702 TACCCTCGATTTATAGAATTACCAATTTACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTT
* * *
66458756 CACCCTCGATTTACTA-AATTACCGTTTTACCCTCAATTTATAGAA-TACCATTT
1 TACCCTCGATTTAC-AGAATTACCATTTTACCCTCAATTTACAGAATTACCATTT
* * * * *
66458809 TACCCTCAATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTT
*
66458863 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
66458885 TGAAATACCC
Statistics
Matches: 158, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
52 1 0.01
53 44 0.28
54 112 0.71
55 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTT
Found at i:66458738 original size:81 final size:81
Alignment explanation
Indices: 66458623--66458884 Score: 357
Period size: 81 Copynumber: 3.2 Consensus size: 81
66458613 TACTGAAATG
* ** * * *
66458623 CCCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTA
1 CCCTCAATTTATAAAATTACCAATTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTA
*
66458688 CAGAATTACCATTTTA
66 CAGAATTACCGTTTTA
* * * *
66458704 CCCTCGATTTATAGAATTACCAATTTACCCTCGATTTATAGAATTATCGTTTCACCCTCGATTTA
1 CCCTCAATTTATAAAATTACCAATTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTA
66458769 CTA-AATTACCGTTTTA
66 C-AGAATTACCGTTTTA
* * *
66458785 CCCTCAATTTATAGAA-TACCATTTTACCCTCAATTTACAGAATTATCGTTTTACCCTCGATTTA
1 CCCTCAATTTATAAAATTACCAATTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTA
66458849 CAGAATTACCGTTTTA
66 CAGAATTACCGTTTTA
* *
66458865 CCCTCGATTTACAAAATTAC
1 CCCTCAATTTATAAAATTAC
66458885 TGAAATACCC
Statistics
Matches: 159, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
79 1 0.01
80 71 0.45
81 86 0.54
82 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.37
Consensus pattern (81 bp):
CCCTCAATTTATAAAATTACCAATTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTA
CAGAATTACCGTTTTA
Found at i:66458893 original size:27 final size:27
Alignment explanation
Indices: 66458603--66458948 Score: 150
Period size: 27 Copynumber: 12.9 Consensus size: 27
66458593 AATACTTTAG
* * * *
66458603 TTTACCAAATTACTGAAATGCCCTCAA
1 TTTACAAAATTACCGAAATACCCTCGA
**
66458630 TTTGTAAAATTACC-AAAGTACCCTCGA
1 TTTACAAAATTACCGAAA-TACCCTCGA
* ** *
66458657 TTTACAGAATTACC-ATTTTACCCTCAA
1 TTTACAAAATTACCGA-AATACCCTCGA
* **
66458684 TTTACAGAATTACC-ATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTCGA
* * *
66458711 TTTATAGAATTACC-AATTTACCCTCGA
1 TTTACAAAATTACCGAA-ATACCCTCGA
* * * **
66458738 TTTATAGAATTATCG-TTTCACCCTCGA
1 TTTACAAAATTACCGAAAT-ACCCTCGA
* *** *
66458765 TTTACTAAATTACCGTTTTACCCTCAA
1 TTTACAAAATTACCGAAATACCCTCGA
* * ** *
66458792 TTTATAGAA-TACC-ATTTTACCCTCAA
1 TTTACAAAATTACCGA-AATACCCTCGA
* * ***
66458818 TTTACAGAATTATCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
* ***
66458845 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
* **
66458872 TTTACAAAATTACTGAAATACCCTTAA
1 TTTACAAAATTACCGAAATACCCTCGA
*
66458899 TTTACAAAATTACCAAAATACCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
* * *
66458926 -TCAGTAAAATTACCAAAATACCC
1 TTTA-CAAAATTACCGAAATACCC
66458949 CTAGTTTGTC
Statistics
Matches: 265, Mismatches: 44, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
26 30 0.11
27 232 0.88
28 3 0.01
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACCGAAATACCCTCGA
Found at i:66458894 original size:54 final size:54
Alignment explanation
Indices: 66458603--66458913 Score: 261
Period size: 54 Copynumber: 5.8 Consensus size: 54
66458593 AATACTTTAG
* * * ** * ***
66458603 TTTACCAAATTACTGAAATGCCCTCAATTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACTGAATTACCCTCAATTTACAGAATTACCATTTTACCCTCGA
* * *
66458657 TTTACAGAATTAC-CATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACTGA-ATTACCCTCAATTTACAGAATTACCATTTTACCCTCGA
* * * * * * * *
66458711 TTTATAGAATTAC-CAATTTACCCTCGATTTATAGAATTATCGTTTCACCCTCGA
1 TTTACAAAATTACTGAA-TTACCCTCAATTTACAGAATTACCATTTTACCCTCGA
* * ** * *
66458765 TTTACTAAATTACCGTTTTACCCTCAATTTATAGAA-TACCATTTTACCCTCAA
1 TTTACAAAATTACTGAATTACCCTCAATTTACAGAATTACCATTTTACCCTCGA
* ** * *
66458818 TTTACAGAATTA-TCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACT-GAATTACCCTCAATTTACAGAATTACCATTTTACCCTCGA
* * *
66458872 TTTACAAAATTACTGAAATACCCTTAATTTACAAAATTACCA
1 TTTACAAAATTACTGAATTACCCTCAATTTACAGAATTACCA
66458914 AAATACCCTC
Statistics
Matches: 206, Mismatches: 45, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
53 44 0.21
54 161 0.78
55 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.36
Consensus pattern (54 bp):
TTTACAAAATTACTGAATTACCCTCAATTTACAGAATTACCATTTTACCCTCGA
Found at i:66458894 original size:107 final size:107
Alignment explanation
Indices: 66458648--66458913 Score: 345
Period size: 107 Copynumber: 2.5 Consensus size: 107
66458638 ATTACCAAAG
* * *
66458648 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACGA-TTTACCCTCAATTTACAGAATTACCATTTTACCCTCAATT
* * *
66458713 TATAGAATTACCAATTTACCCTCGATTTATAGAATTATCGTTT
65 TACAGAATTACCAATTTACCCTCGATTTACAGAATTACCGTTT
* * * *
66458756 CACCCTCGATTTACTAAATTACCGTTTTACCCTCAATTTATAGAA-TACCATTTTACCCTCAATT
1 TACCCTCGATTTACAAAATTA-CGATTTACCCTCAATTTACAGAATTACCATTTTACCCTCAATT
* **
66458820 TACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTT
65 TACAGAATTACCAATTTACCCTCGATTTACAGAATTACCGTTT
** * *
66458863 TACCCTCGATTTACAAAATTACTGAAATACCCTTAATTTACAAAATTACCA
1 TACCCTCGATTTACAAAATTAC-GATTTACCCTCAATTTACAGAATTACCA
66458914 AAATACCCTC
Statistics
Matches: 134, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
106 1 0.01
107 90 0.67
108 42 0.31
109 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (107 bp):
TACCCTCGATTTACAAAATTACGATTTACCCTCAATTTACAGAATTACCATTTTACCCTCAATTT
ACAGAATTACCAATTTACCCTCGATTTACAGAATTACCGTTT
Found at i:66459011 original size:54 final size:54
Alignment explanation
Indices: 66458905--66459018 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
66458895 TTAATTTACA
*
66458905 AAATTACCAAAATACCCTCGATCAGTAAAATTACCAAAATACCCCTAGTTTGTC
1 AAATTACCAAAATACCCTCGATCAGTAAAACTACCAAAATACCCCTAGTTTGTC
* * * *
66458959 AAATTACCAAAATACCCCTGGCT-TGTAAAACTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATA-CCCTCGATCAGTAAAACTACCAAAATACCCCTAG-TTTGTC
66459013 AAATTA
1 AAATTA
66459019 TCGAAATTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
53 1 0.02
54 46 0.87
55 6 0.11
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.26
Consensus pattern (54 bp):
AAATTACCAAAATACCCTCGATCAGTAAAACTACCAAAATACCCCTAGTTTGTC
Found at i:66459025 original size:27 final size:27
Alignment explanation
Indices: 66458877--66459018 Score: 135
Period size: 27 Copynumber: 5.3 Consensus size: 27
66458867 CTCGATTTAC
** * * **
66458877 AAAATTACTGAAATACCCTTAATTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
**
66458904 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GATTTGT
66458931 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* **
66458958 CAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
66458985 AAAACTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
66459012 GAAATTA
1 AAAATTA
66459019 TCGAAATTGT
Statistics
Matches: 92, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
26 4 0.04
27 84 0.91
28 4 0.04
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:66460515 original size:29 final size:28
Alignment explanation
Indices: 66460445--66460519 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
66460435 ATACTCGATT
* *
66460445 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
66460473 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
66460502 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
66460520 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:66460536 original size:29 final size:29
Alignment explanation
Indices: 66460503--66460576 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
66460493 CCTTCGAGCT
66460503 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
66460532 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
66460561 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
66460577 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:66468379 original size:29 final size:28
Alignment explanation
Indices: 66468309--66468383 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
66468299 ATACTCGATT
* *
66468309 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
66468337 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
66468366 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
66468384 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:66468400 original size:29 final size:29
Alignment explanation
Indices: 66468367--66468440 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
66468357 CCTTCGAGCT
66468367 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
66468396 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
66468425 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
66468441 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:66471607 original size:40 final size:40
Alignment explanation
Indices: 66471541--66471691 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
66471531 AAATTGAATG
* * *
66471541 ATATCCGGGCTAA-TCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
66471580 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
66471620 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
66471660 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
66471692 ACGGTTATAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 15 0.17
40 72 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:66479638 original size:40 final size:40
Alignment explanation
Indices: 66479553--66479703 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
66479543 AATTGAATGA
* * *
66479553 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
66479593 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
66479634 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
66479673 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
66479704 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:66479717 original size:40 final size:40
Alignment explanation
Indices: 66479590--66479719 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
66479580 ATGCTGGAAA
* * * *
66479590 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
66479630 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
66479670 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
66479710 TTATATCCGG
1 TTATATCCGG
66479720 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:66493904 original size:40 final size:40
Alignment explanation
Indices: 66493808--66493991 Score: 212
Period size: 40 Copynumber: 4.5 Consensus size: 40
66493798 TATTCGGATG
* *
66493808 ATATCCAGGCTAAGTCCCAAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
* *
66493851 ATACCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
**
66493891 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* * *
66493931 ATATCCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
66493971 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
66493992 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 14 0.11
40 79 0.64
41 2 0.02
43 28 0.23
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:66503338 original size:25 final size:28
Alignment explanation
Indices: 66503304--66503368 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 28
66503294 ATAAAACCTA
66503304 AAAATGAAAAAATAC-TAAAG-GA-AAAT
1 AAAAT-AAAAAATACTTAAAGAGATAAAT
66503330 AAAATAAAAAATACTTAAAGAAGATAAAT
1 AAAATAAAAAATACTTAAAG-AGATAAAT
66503359 AAAGATAAAA
1 AAA-ATAAAA
66503369 GTGAAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
25 9 0.26
26 10 0.29
28 2 0.06
29 7 0.21
30 6 0.18
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.17
Consensus pattern (28 bp):
AAAATAAAAAATACTTAAAGAGATAAAT
Found at i:66510548 original size:11 final size:11
Alignment explanation
Indices: 66510532--66510556 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
66510522 TGTACTTGTT
66510532 TTTTTTTTCTC
1 TTTTTTTTCTC
66510543 TTTTTTTTCTC
1 TTTTTTTTCTC
66510554 TTT
1 TTT
66510557 ATTATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTTTCTC
Found at i:66511316 original size:21 final size:21
Alignment explanation
Indices: 66511290--66511329 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
66511280 ATTATCTTCA
66511290 ATGCATGAATAGATATATGAG
1 ATGCATGAATAGATATATGAG
66511311 ATGCATGAATAGATATATG
1 ATGCATGAATAGATATATG
66511330 CAAACTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (21 bp):
ATGCATGAATAGATATATGAG
Found at i:66514180 original size:30 final size:29
Alignment explanation
Indices: 66514119--66514221 Score: 179
Period size: 29 Copynumber: 3.5 Consensus size: 29
66514109 AAAATTGTAC
* *
66514119 AGCACTAAGTGTGCGAACTGAAAACATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
66514148 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
66514178 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
66514207 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
66514222 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 43 0.61
30 28 0.39
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:66514185 original size:59 final size:60
Alignment explanation
Indices: 66514089--66514221 Score: 196
Period size: 59 Copynumber: 2.2 Consensus size: 60
66514079 GACAAGATTG
* * *
66514089 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAACATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAACATATA
* * * *
66514149 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAACATATA
66514208 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
66514222 GATTCACTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 51 0.77
60 15 0.23
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAACATATA
Found at i:66519123 original size:29 final size:29
Alignment explanation
Indices: 66519052--66519227 Score: 187
Period size: 29 Copynumber: 6.1 Consensus size: 29
66519042 ACCCCTACAT
* *
66519052 ACATGCATATAGCCCACTT-GGCCC-AAT-
1 ACATTCATATGGCCCA-TTAGGCCCAAATC
* *
66519079 ATCATTTATATGGCCCATTAGGCCCAATTC
1 A-CATTCATATGGCCCATTAGGCCCAAATC
* *
66519109 ACATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
66519138 ATATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * **
66519167 ACCTTTATATGGCCTGTTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
66519196 ACCTTTATATGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
66519225 ACA
1 ACA
66519228 ATATATTCAT
Statistics
Matches: 129, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 3 0.02
28 17 0.13
29 108 0.84
30 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:66519188 original size:87 final size:86
Alignment explanation
Indices: 66519057--66519221 Score: 217
Period size: 87 Copynumber: 1.9 Consensus size: 86
66519047 TACATACATG
*
66519057 CATATAGCCCACTTGGCCCAATATCATTTATATGGCCCATTAGGCCCAATTCACATTCATATGGC
1 CATATAGCCCACTTGGCCCAATATCATTTATATGGCCCATTAGGCCCAAATCACATTCATATGGC
66519122 CCATCAGGCCCAATTCATATT
66 CCATCAGGCCCAATTCATATT
* ** * *
66519143 CATATGGCCCA-TTAGGCCCAA-ATCACCTTTATATGGCCTGTTAGGCCCAAATCACCTTTATAT
1 CATATAGCCCACTT-GGCCCAATATCA--TTTATATGGCCCATTAGGCCCAAATCACATTCATAT
* *
66519206 GGCCCGTTAGGCCCAA
63 GGCCCATCAGGCCCAA
66519222 ATCACAATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
85 6 0.09
86 17 0.25
87 45 0.66
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (86 bp):
CATATAGCCCACTTGGCCCAATATCATTTATATGGCCCATTAGGCCCAAATCACATTCATATGGC
CCATCAGGCCCAATTCATATT
Found at i:66519487 original size:16 final size:16
Alignment explanation
Indices: 66519445--66519487 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
66519435 GTAGCCAAAC
*
66519445 TTTCGGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
* *
66519461 TTTCTGATTTTCGGCA
1 TTTCAGCTTTTCGGCA
66519477 TTTCAGCTTTT
1 TTTCAGCTTTT
66519488 GCCGATCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.09, C:0.21, G:0.19, T:0.51
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:66523156 original size:27 final size:27
Alignment explanation
Indices: 66523126--66523180 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
66523116 GTGTTGAAGA
*
66523126 GGCTACATGGGGACTCGAGGAAGCTAT
1 GGCTACATGGGAACTCGAGGAAGCTAT
66523153 GGCTACATGGGAACTCGAGGAAGCTAT
1 GGCTACATGGGAACTCGAGGAAGCTAT
66523180 G
1 G
66523181 AGAAAACACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.18, G:0.36, T:0.18
Consensus pattern (27 bp):
GGCTACATGGGAACTCGAGGAAGCTAT
Found at i:66536101 original size:17 final size:17
Alignment explanation
Indices: 66536068--66536099 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
66536058 ATATATTATT
66536068 TTAAAAATATAATTTTA
1 TTAAAAATATAATTTTA
66536085 TTAAAAA-ATAATTTT
1 TTAAAAATATAATTTT
66536100 TAAATTGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAAAATATAATTTTA
Found at i:66536436 original size:15 final size:15
Alignment explanation
Indices: 66536416--66536445 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
66536406 GAACCTATAT
66536416 AGCAATCATCCAAAG
1 AGCAATCATCCAAAG
66536431 AGCAATCATCCAAAG
1 AGCAATCATCCAAAG
66536446 GGTTAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (15 bp):
AGCAATCATCCAAAG
Found at i:66537161 original size:222 final size:222
Alignment explanation
Indices: 66536769--66537212 Score: 782
Period size: 222 Copynumber: 2.0 Consensus size: 222
66536759 GATTATAGGA
*
66536769 GCTTGATTTAGCTAGCCTATGGGTTAATTTGTTCAATTGTTGAATTTTTAGCAAGTTGTCATTGT
1 GCTTGATTTAGCTAGCCTATGGATTAATTTGTTCAATTGTTGAATTTTTAGCAAGTTGTCATTGT
*
66536834 TGAAAAATTGATGAATTAGGCTTGCAATTTATAGAAATTAAGCTTAGATCATGATAAGAACTAAA
66 TGAAAAATTGATGAATTAGGCTTGCAATTTATAGAAATTAAGCTTAGATCATGATAAAAACTAAA
*
66536899 TTGTAAAGCTACATAAGCTTGATAGATAACTTTCTAACATTAGGAACTAAATTGAATAAATTCAA
131 TTGTAAAGCTAAATAAGCTTGATAGATAACTTTCTAACATTAGGAACTAAATTGAATAAATTCAA
*
66536964 AATCTGCAATGAAATTATACTAGGAAT
196 AATCTACAATGAAATTATACTAGGAAT
* * *
66536991 GCTTGATTTAGCTAGACC-ATGTATTAATTTGTTCAGTTGTTGAATTTTTAGCAAGTTTTCATTG
1 GCTTGATTTAGCTAG-CCTATGGATTAATTTGTTCAATTGTTGAATTTTTAGCAAGTTGTCATTG
* *
66537055 TTGAGAAATTGATGAATTAGGCTTGCAATTTATAGAAATTAAGCTTAGATCATGATAAAAATTAA
65 TTGAAAAATTGATGAATTAGGCTTGCAATTTATAGAAATTAAGCTTAGATCATGATAAAAACTAA
*
66537120 ATTGTAAAGCTAAATAAGCTTGATAGATAACTTTGTAACATTAGGAACTAAATTGAATAAATTCA
130 ATTGTAAAGCTAAATAAGCTTGATAGATAACTTTCTAACATTAGGAACTAAATTGAATAAATTCA
66537185 AAATCTACAATGAAATTATACTAGGAAT
195 AAATCTACAATGAAATTATACTAGGAAT
66537213 AGAAAGTATA
Statistics
Matches: 211, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
222 209 0.99
223 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (222 bp):
GCTTGATTTAGCTAGCCTATGGATTAATTTGTTCAATTGTTGAATTTTTAGCAAGTTGTCATTGT
TGAAAAATTGATGAATTAGGCTTGCAATTTATAGAAATTAAGCTTAGATCATGATAAAAACTAAA
TTGTAAAGCTAAATAAGCTTGATAGATAACTTTCTAACATTAGGAACTAAATTGAATAAATTCAA
AATCTACAATGAAATTATACTAGGAAT
Found at i:66540542 original size:30 final size:30
Alignment explanation
Indices: 66540508--66540565 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
66540498 ATTTTCGGGC
* *
66540508 CTAGGGGTAAAAGGGTCATTTTATCAAAGT
1 CTAGGGGCAAAAGGGTCATTTTACCAAAGT
66540538 CTAGGGGCAAAAGGGTCATTTTACCAAA
1 CTAGGGGCAAAAGGGTCATTTTACCAAA
66540566 TATATGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (30 bp):
CTAGGGGCAAAAGGGTCATTTTACCAAAGT
Found at i:66541033 original size:46 final size:45
Alignment explanation
Indices: 66540905--66541109 Score: 173
Period size: 46 Copynumber: 4.4 Consensus size: 45
66540895 TGAGCTAGTT
* ** * * *
66540905 TAAGACATGTCTGGGACATGCATCGGCCACGTTATGAGAGCCAATG
1 TAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGTG-CAGTG
* * * * *
66540951 TAAGACCGTCTCTGGGACATGGCATCGACATTGAGACGAGTGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGTGC-AGTG
66540999 TAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGT-CAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCGAGACG--AGTGCAGTG
* * * *
66541045 TAAGACATGTCTAGGACATGCAACGG-CTACGAGATGTGT-CAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAGTGCAGTG
*
66541089 TAAGACCATGTCTAGGACATG
1 TAAGA-CATGTCTGGGACATG
66541110 GAATCGACAC
Statistics
Matches: 132, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
44 12 0.09
45 17 0.13
46 53 0.40
47 26 0.20
48 24 0.18
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
TAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGTGCAGTG
Found at i:66544374 original size:28 final size:29
Alignment explanation
Indices: 66544307--66544407 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
66544297 ATAGTGAATC
*
66544307 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
66544336 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
66544364 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
66544394 CGCACACTTAGTGC
1 CGCACACTTAGTGC
66544408 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:66549563 original size:29 final size:29
Alignment explanation
Indices: 66549530--66549660 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
66549520 GTGACGAGAT
66549530 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
66549559 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
66549588 AGGCACTAAGTGTGCATGCTGGAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** *
66549616 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
66549645 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
66549661 AGCTCGAAGG
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 24 0.27
29 66 0.73
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:66549659 original size:57 final size:58
Alignment explanation
Indices: 66549531--66549651 Score: 172
Period size: 57 Copynumber: 2.1 Consensus size: 58
66549521 TGACGAGATT
* * ** *
66549531 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCAAGCTGGAAAAATAA
* *
66549589 GGCACTAAGTGTGCATGCTGGAAA-ATATGACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCAAGCTGGAAAAATAA
66549646 GGCACT
1 GGCACT
66549652 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 33 0.59
58 23 0.41
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (58 bp):
GGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCAAGCTGGAAAAATAA
Found at i:66552633 original size:25 final size:25
Alignment explanation
Indices: 66552604--66552652 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
66552594 TCGTATTACT
**
66552604 TATATTTCATTGTATATTATATATA
1 TATATTTCATTACATATTATATATA
*
66552629 TATATTTTATTACATATTATATAT
1 TATATTTCATTACATATTATATAT
66552653 TATTATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (25 bp):
TATATTTCATTACATATTATATATA
Found at i:66552656 original size:10 final size:10
Alignment explanation
Indices: 66552597--66552707 Score: 52
Period size: 10 Copynumber: 10.7 Consensus size: 10
66552587 TTATTTATCG
66552597 TATTACTTATA
1 TATTA-TTATA
*
66552608 T-TTCATTGTA
1 TATT-ATTATA
66552618 TATTA-TATA
1 TATTATTATA
*
66552627 TATATATTTTA
1 TAT-TATTATA
*
66552638 TTACATATTATA
1 -TA-TTATTATA
66552650 TATTATTATA
1 TATTATTATA
* *
66552660 TATTGTTCTCTA
1 TATT-AT-TATA
66552672 TATTATCT-TCA
1 TATTAT-TAT-A
*
66552683 TTTTATTATA
1 TATTATTATA
66552693 TATTATT-T-
1 TATTATTATA
66552701 TATTATT
1 TATTATT
66552708 TATTATTTAT
Statistics
Matches: 79, Mismatches: 11, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
8 7 0.09
9 7 0.09
10 30 0.38
11 20 0.25
12 15 0.19
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (10 bp):
TATTATTATA
Found at i:66552663 original size:7 final size:7
Alignment explanation
Indices: 66552616--66552660 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
66552606 TATTTCATTG
66552616 TATATTA
1 TATATTA
66552623 TATA-TA
1 TATATTA
66552629 TATATT-
1 TATATTA
66552635 T-TATTA
1 TATATTA
*
66552641 CATATTA
1 TATATTA
66552648 TATATTA
1 TATATTA
66552655 TTATAT
1 -TATAT
66552661 ATTGTTCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
6 7 0.22
7 16 0.50
8 5 0.16
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (7 bp):
TATATTA
Found at i:66552698 original size:7 final size:7
Alignment explanation
Indices: 66552684--66552717 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
66552674 TTATCTTCAT
66552684 TTTATTA
1 TTTATTA
*
66552691 TATATTA
1 TTTATTA
66552698 TTTTATTA
1 -TTTATTA
66552706 TTTATTA
1 TTTATTA
66552713 TTTAT
1 TTTAT
66552718 GAGCATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTATTA
Found at i:66552716 original size:29 final size:29
Alignment explanation
Indices: 66552623--66552717 Score: 68
Period size: 33 Copynumber: 3.0 Consensus size: 29
66552613 TTGTATATTA
66552623 TATATATATATTTTATTACATATTA-TATATTAT
1 TATATAT-TATTTTATT--AT-TTATTAT-TTAT
* *
66552656 TATATATTGTTCTCTA-TATTATCTTCATTTTAT
1 TATATATTATT-T-TATTATT-TATT-A-TTTAT
66552689 TATATATTATTTTATTATTTATTATTTAT
1 TATATATTATTTTATTATTTATTATTTAT
66552718 GAGCATATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 18
0.70 0.05 0.25
Matches are distributed among these distances:
29 5 0.10
30 2 0.04
31 8 0.16
32 9 0.18
33 24 0.47
34 3 0.06
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (29 bp):
TATATATTATTTTATTATTTATTATTTAT
Found at i:66557820 original size:29 final size:28
Alignment explanation
Indices: 66557778--66557838 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 28
66557768 GTGAGCATGA
*
66557778 ATATAAGGTGATTTGGGCCTAACGGGCC
1 ATATAAGGTGATTTGGGCCTAACAGGCC
*
66557806 ATATAAAGGTGATTTGGGCCTAATAGGCC
1 ATAT-AAGGTGATTTGGGCCTAACAGGCC
66557835 ATAT
1 ATAT
66557839 GAATATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (28 bp):
ATATAAGGTGATTTGGGCCTAACAGGCC
Found at i:66557851 original size:29 final size:29
Alignment explanation
Indices: 66557785--66557901 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
66557775 TGAATATAAG
* * * *
66557785 GTGATTTGGGCCTAACGGGCCATATAAAG
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* *
66557814 GTGATTTGGGCCTAATAGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* * * *
66557843 ATGAATTGGGCATGATGAGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
*
66557872 GTGAATTGGGCCTGATGGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
66557901 G
1 G
66557902 AGATGTGCCA
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 75 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
GTGAATTGGGCCTAATGGGCCATATGAAT
Found at i:66560853 original size:15 final size:16
Alignment explanation
Indices: 66560815--66560853 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
66560805 GTTGTAATGC
66560815 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
66560831 CCCAAAAATCTCGAAA
1 CCCAAAAATCCCGAAA
66560847 CCCAAAA
1 CCCAAAA
66560854 CTTTTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.36, G:0.05, T:0.08
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:66561212 original size:29 final size:29
Alignment explanation
Indices: 66561171--66561317 Score: 133
Period size: 29 Copynumber: 5.2 Consensus size: 29
66561161 GTGAGCATGA
* *
66561171 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
* * * *
66561199 ATATAAAGGTGATTTGGGCCAAATAGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
** * * *
66561228 ATATGAATATGAATTGGGCATGATGGGCT
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
*
66561257 ATATGAATGTGAATTGGGCCTAATGGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
66561286 ATATGAA--TGAGA-TGGGCC-AAGTGGGCC
1 ATATGAAGGTGA-ATTGGGCCTAA-TGGGCC
66561313 ATATG
1 ATATG
66561318 TGTGTATGTA
Statistics
Matches: 100, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.02
27 20 0.20
28 5 0.05
29 73 0.73
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (29 bp):
ATATGAAGGTGAATTGGGCCTAATGGGCC
Found at i:66574613 original size:19 final size:19
Alignment explanation
Indices: 66574589--66574639 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
66574579 TTTATCGGGT
*
66574589 ATTATCCTTTATTTC-AGCC
1 ATTATCATTTATTTCAAG-C
66574608 ATTATCATTTATTTCAAGC
1 ATTATCATTTATTTCAAGC
66574627 ATTATCATTTATT
1 ATTATCATTTATT
66574640 GGGCTTTGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 28 0.93
20 2 0.07
ACGTcount: A:0.27, C:0.18, G:0.04, T:0.51
Consensus pattern (19 bp):
ATTATCATTTATTTCAAGC
Found at i:66578286 original size:27 final size:27
Alignment explanation
Indices: 66578256--66578330 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
66578246 TGAGTAGGCT
66578256 CATTTTCACAGCTCGTGTGAGCAAACC
1 CATTTTCACAGCTCGTGTGAGCAAACC
* * * *
66578283 CATTTTCATAGGTCGTGTGATCATACC
1 CATTTTCACAGCTCGTGTGAGCAAACC
*
66578310 GA--TTCACAGCTCGTGTGAGCA
1 CATTTTCACAGCTCGTGTGAGCA
66578331 TACATGTATA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 16 0.40
27 24 0.60
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (27 bp):
CATTTTCACAGCTCGTGTGAGCAAACC
Found at i:66581671 original size:94 final size:93
Alignment explanation
Indices: 66581483--66581800 Score: 299
Period size: 94 Copynumber: 3.3 Consensus size: 93
66581473 TTATTTGTGT
* * **
66581483 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATTATGTAAGCCAGTGTAAGATCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACGA-TATGT-AGTCAGTGTAAGGCCATGT
*
66581547 TTGGGACATGGCATCGGCATTAAGACGAGA
64 TTGGGACATGGCATCGGCAATAAGACGAGA
* * *
66581577 GCTAGTGTAAGACATGTTTGGGACATGCATCGACTACGAGATGT-GTCAGTGTAAGGCCATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACGATATGTAGTCAGTGTAAGGCCATGTTT
* *
66581641 GGGACATGGCATCGGCACGGATATG-TGAGA
66 GGGACATGGCATCGGCA---ATAAGACGAGA
* * *
66581671 GCTAGTGTAAGATCATGTCTGGGACATGGCGTCGGCCT-CGATTTCGATAGTCAGTGTAAGGCCA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC-GACTACGATAT-G-TAGTCAGTGTAAGGCCA
* * * *
66581735 TATTTGGGACATGGCATC-G-ACT-TGATGGATGA
61 TGTTTGGGACATGGCATCGGCAATAAGA-CGA-GA
*
66581767 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
66581801 GCATTATACG
Statistics
Matches: 189, Mismatches: 22, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
92 33 0.17
93 2 0.01
94 56 0.30
95 20 0.11
96 40 0.21
97 5 0.03
98 2 0.01
99 31 0.16
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACGATATGTAGTCAGTGTAAGGCCATGTTT
GGGACATGGCATCGGCAATAAGACGAGA
Found at i:66581746 original size:49 final size:50
Alignment explanation
Indices: 66581621--66581803 Score: 168
Period size: 50 Copynumber: 3.7 Consensus size: 50
66581611 TACGAGATGT
*
66581621 GTCAGTGTAAGGCCATGTCTGGGACATGGCATCGGCACGGATATGTGAGA
1 GTCAGTGTAAGGCCATGTCTGGGACATGGCATCGGCACCGATATGTGAGA
** * *
66581671 G-CTAGTGTAAGATCATGTCTGGGACATGGCGTCGGC-CTCGAT-T-TCGATA
1 GTC-AGTGTAAGGCCATGTCTGGGACATGGCATCGGCAC-CGATATGT-GAGA
* * *
66581720 GTCAGTGTAAGGCCATATTTGGGACATGGCATC-G-A-C-TTGATG-GATGA
1 GTCAGTGTAAGGCCATGTCTGGGACATGGCATCGGCACCGAT-ATGTGA-GA
* *
66581767 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GTCAGTGTAAGGCCATGTCTGGGACATGGCATCGGCA
66581804 TTATACGCCA
Statistics
Matches: 106, Mismatches: 16, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
45 1 0.01
46 3 0.03
47 31 0.29
48 3 0.03
49 33 0.31
50 35 0.33
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (50 bp):
GTCAGTGTAAGGCCATGTCTGGGACATGGCATCGGCACCGATATGTGAGA
Found at i:66581790 original size:47 final size:47
Alignment explanation
Indices: 66581486--66581800 Score: 195
Period size: 47 Copynumber: 6.7 Consensus size: 47
66581476 TTTGTGTGCT
*** *
66581486 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCACAT-TATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATG--AGCC
* * * * *
66581532 AGTGTAAGATCATGTTTGGGACATGGCATCGGCATTAAGA-CGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TT--GATGGATGAGCC
* * * *
66581580 AGTGTAAGA-CATGTTTGGGACAT-GCATCGAC-T-ACGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATG-GATGAGCC
* * *
66581624 AGTGTAAGGCCATGTCTGGGACATGGCATCGGCAC-GGATATGTGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTG--ATG-GATGAGCC
* * * * * *
66581674 AGTGTAAGATCATGTCTGGGACATGGCGTCGGCCTCGATTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA--TGGATGAGCC
* * *
66581723 AGTGTAAGGCCATATTTGGGACATGGCATCGACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCC
66581770 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
66581801 GCATTATACG
Statistics
Matches: 208, Mismatches: 40, Indels: 41
0.72 0.14 0.14
Matches are distributed among these distances:
41 1 0.00
43 2 0.01
44 11 0.05
45 13 0.06
46 25 0.12
47 59 0.28
48 27 0.13
49 30 0.14
50 34 0.16
51 6 0.03
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCC
Found at i:66585988 original size:20 final size:20
Alignment explanation
Indices: 66585959--66586002 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
66585949 GAGATCATGC
66585959 ACACGCTCGTGTGCATTGGG
1 ACACGCTCGTGTGCATTGGG
*
66585979 ACACGGTCGTGTGCATTGGG
1 ACACGCTCGTGTGCATTGGG
66585999 ACAC
1 ACAC
66586003 ACCCGTGTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.18, C:0.25, G:0.34, T:0.23
Consensus pattern (20 bp):
ACACGCTCGTGTGCATTGGG
Found at i:66586009 original size:20 final size:20
Alignment explanation
Indices: 66585966--66586010 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
66585956 TGCACACGCT
***
66585966 CGTGTGCATTGGGACACGGT
1 CGTGTGCATTGGGACACACC
66585986 CGTGTGCATTGGGACACACC
1 CGTGTGCATTGGGACACACC
66586006 CGTGT
1 CGTGT
66586011 CCTTAGCCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (20 bp):
CGTGTGCATTGGGACACACC
Found at i:66599704 original size:46 final size:47
Alignment explanation
Indices: 66599560--66599919 Score: 217
Period size: 46 Copynumber: 7.6 Consensus size: 47
66599550 TTTGTGTGAT
* * *
66599560 AGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGTATGTAAGCC
* ** * * *
66599606 AGTGTAAGATCGTGTCTGGGACATGGCATCGGGATTGAGTA-GAAAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGTATGTAAGCC
* **
66599654 AGTGTAAGACATGTTTGGGACATGCATCAACCTCGA-TATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGTATGTAAGCC
* * * *
66599700 AGTGTAAGACATGTCCGAGACATCCATCGG-CTACGAG-ATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGTATGTAAGCC
* * * *
66599744 AGTGTAACACCATGTCTGAGACATGACATCGG-CACG-GATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTCGAG-TATGT-A-AGCC
* * * * *
66599794 AGTATAAGATCATGTTTGGGACATGGCGTCGGCCTCGA-TTTCG-ATAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGTAT-GTA-AGCC
* * *
66599843 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATGGATG--AGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA-GTATGTAAGCC
66599890 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
66599920 AGCATTATAC
Statistics
Matches: 243, Mismatches: 51, Indels: 39
0.73 0.15 0.12
Matches are distributed among these distances:
44 11 0.05
45 19 0.08
46 64 0.26
47 57 0.23
48 26 0.11
49 33 0.14
50 28 0.12
51 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGTATGTAAGCC
Found at i:66599904 original size:47 final size:48
Alignment explanation
Indices: 66599560--66599919 Score: 177
Period size: 47 Copynumber: 7.6 Consensus size: 48
66599550 TTTGTGTGAT
* *
66599560 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCACATT-AT-G-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG--AC-TTGATGGATGAGCC
* * * * *
66599606 AGTGTAAGATCGTGTCTGGGACATGGCATCGGGA-TTGAGTAGA-AAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGACTTGA-TGGATGAGCC
* * *
66599654 AGTGTAAGA-CATGTTTGGGACAT-GCATC-AACCTCGAT--ATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGA-CTTGATGGATG--AGCC
* * * * * *
66599700 AGTGTAAGA-CATGTCCGAGACAT-CCATCGG-C-T-ACGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGACTTGATG-GATGAGCC
* * * * *
66599744 AGTGTAACACCATGTCTGAGACATGACATCGGCAC-GGATATGTGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-ACTTG--ATG-GATGAGCC
* * * * * * * *
66599794 AGTATAAGATCATGTTTGGGACATGGCGTCGGCCTCGATTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGACTTGA--TGGATGAGCC
66599843 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGACTTGATGGATGAGCC
66599890 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
66599920 AGCATTATAC
Statistics
Matches: 239, Mismatches: 47, Indels: 55
0.70 0.14 0.16
Matches are distributed among these distances:
43 2 0.01
44 11 0.05
45 17 0.07
46 58 0.24
47 59 0.25
48 26 0.11
49 33 0.14
50 29 0.12
51 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGACTTGATGGATGAGCC
Found at i:66601124 original size:11 final size:11
Alignment explanation
Indices: 66601108--66601134 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
66601098 TATGTGACAG
66601108 CCCTAATTTGA
1 CCCTAATTTGA
66601119 CCCTAATTTGA
1 CCCTAATTTGA
66601130 CCCTA
1 CCCTA
66601135 TGTGGGGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.33, G:0.07, T:0.33
Consensus pattern (11 bp):
CCCTAATTTGA
Found at i:66602353 original size:29 final size:29
Alignment explanation
Indices: 66602318--66602391 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
66602308 GTTGTGAGAT
* *
66602318 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
66602347 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
66602376 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66602392 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:66610291 original size:29 final size:29
Alignment explanation
Indices: 66610256--66610329 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
66610246 GTTGTGAGAT
* * *
66610256 TGGCACTAAGTGTGTGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
66610285 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
66610314 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66610330 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:66633236 original size:44 final size:44
Alignment explanation
Indices: 66633181--66633294 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 44
66633171 CAAATCTTGC
66633181 CTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTCAC-GAATCTCAT
1 CTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTCACAG-ATCTCAT
* * ** * * *
66633225 CTCCTTGAAGTTACAGAAGAGTATATTGAAGTTACAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTCACAGATCTCAT
* * *
66633269 ATCCCTGAAGTTGTAGTGGAATAGAT
1 CTCCCTGAAGTTGCAGTGGAGTAGAT
66633295 CAAAGAATAG
Statistics
Matches: 54, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
44 53 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTCACAGATCTCAT
Found at i:66634436 original size:11 final size:11
Alignment explanation
Indices: 66634420--66634453 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
66634410 ACAAGCAATC
66634420 AAAAGGAAAAG
1 AAAAGGAAAAG
66634431 AAAAGGAAAAG
1 AAAAGGAAAAG
66634442 AAAAGGAAAAG
1 AAAAGGAAAAG
66634453 A
1 A
66634454 GGTTGATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AAAAGGAAAAG
Found at i:66634439 original size:6 final size:6
Alignment explanation
Indices: 66634420--66634452 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
66634410 ACAAGCAATC
66634420 AAAAGG AAAA-G AAAAGG AAAA-G AAAAGG AAAAG
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAAAG
66634453 AGGTTGATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:66638570 original size:25 final size:25
Alignment explanation
Indices: 66638536--66638612 Score: 109
Period size: 25 Copynumber: 3.1 Consensus size: 25
66638526 ACTCCACAAC
*
66638536 TCGTGAGAGCATACTAATTTAGAGT
1 TCGTGAGAGCATACTAATTTATAGT
** *
66638561 TCGTGAGAGCATACCGATTTATAGC
1 TCGTGAGAGCATACTAATTTATAGT
*
66638586 TCGTGAGAGCATACTAATCTATAGT
1 TCGTGAGAGCATACTAATTTATAGT
66638611 TC
1 TC
66638613 AAGTGAGCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (25 bp):
TCGTGAGAGCATACTAATTTATAGT
Found at i:66638639 original size:50 final size:50
Alignment explanation
Indices: 66638530--66638649 Score: 152
Period size: 50 Copynumber: 2.4 Consensus size: 50
66638520 GCGAAGACTC
* **
66638530 CACAACTCGTGAGAGCATACTAATTTAGAGTTCGTGAGAGCATACCGATT
1 CACAACTCGTGAGAGCATACTAATCTAGAGTTCAAGAGAGCATACCGATT
* * * * *
66638580 TATAGCTCGTGAGAGCATACTAATCTATAGTTCAAGTGAGCATACCGATT
1 CACAACTCGTGAGAGCATACTAATCTAGAGTTCAAGAGAGCATACCGATT
66638630 CACAACTCGT-ATGAGCATAC
1 CACAACTCGTGA-GAGCATAC
66638650 ATGTACATAA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 1 0.02
50 57 0.98
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (50 bp):
CACAACTCGTGAGAGCATACTAATCTAGAGTTCAAGAGAGCATACCGATT
Found at i:66640515 original size:30 final size:30
Alignment explanation
Indices: 66640479--66640538 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
66640469 CTACGCACAA
66640479 AGAGTAAAACTTCACAATAAGTATGCAATG
1 AGAGTAAAACTTCACAATAAGTATGCAATG
* *
66640509 AGAGTAAAACTTCACGATATGTATGCAATG
1 AGAGTAAAACTTCACAATAAGTATGCAATG
66640539 CCATGTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.25
Consensus pattern (30 bp):
AGAGTAAAACTTCACAATAAGTATGCAATG
Done.