Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 132 of 216
Found at i:41995591 original size:10 final size:10
Alignment explanation
Indices: 41995578--41995622 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
41995568 TGCAATTTGG
41995578 TTTATTTATT
1 TTTATTTATT
41995588 TTTATTTATTAT
1 TTTATTTA-T-T
41995600 TTTATTTATT
1 TTTATTTATT
* *
41995610 ATTCTTTATT
1 TTTATTTATT
41995620 TTT
1 TTT
41995623 TTGTGATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 19 0.63
11 2 0.07
12 9 0.30
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTATTTATT
Found at i:41995604 original size:12 final size:12
Alignment explanation
Indices: 41995578--41995612 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
41995568 TGCAATTTGG
41995578 TTTATTTA-T-T
1 TTTATTTATTAT
41995588 TTTATTTATTAT
1 TTTATTTATTAT
41995600 TTTATTTATTAT
1 TTTATTTATTAT
41995612 T
1 T
41995613 CTTTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.35
11 1 0.04
12 14 0.61
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTATTTATTAT
Found at i:41995605 original size:22 final size:22
Alignment explanation
Indices: 41995578--41995624 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
41995568 TGCAATTTGG
*
41995578 TTTATTTATTTTTATTTATTAT
1 TTTATTTATTATTATTTATTAT
* *
41995600 TTTATTTATTATTCTTTATTTT
1 TTTATTTATTATTATTTATTAT
41995622 TTT
1 TTT
41995625 GTGATTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTATTTATTATTATTTATTAT
Found at i:41995611 original size:19 final size:18
Alignment explanation
Indices: 41995578--41995621 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
41995568 TGCAATTTGG
41995578 TTTA-TTTATTTTTATT-
1 TTTATTTTATTTTTATTC
41995594 TATTATTTTATTTATTATTC
1 T-TTATTTTATTT-TTATTC
41995614 TTTATTTT
1 TTTATTTT
41995622 TTTGTGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 1 0.04
17 3 0.12
18 7 0.29
19 12 0.50
20 1 0.04
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTATTTTATTTTTATTC
Found at i:42003954 original size:51 final size:49
Alignment explanation
Indices: 42003789--42003975 Score: 173
Period size: 51 Copynumber: 3.7 Consensus size: 49
42003779 AGTGAAAGTG
*
42003789 ATGGTCA-AGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
1 ATGGTCACA-TGTGTAGTACTATGTGCAGGCTACTACGT-TACCGG-ATGGT
* * * *
42003840 A-GGTCGCATGTGTAGTACTATGTGTAGGCTACTATGCG-TACCAGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA--CGTTACCGGATGGT
* * * ** *
42003889 TTCGATCACGTGTGTAGTACTATGTATAGGCTACTACGTTAATCGGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTT-ACCGGATGGT
*
42003940 AATGGTCACATGTGTAGCACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
42003976 TGTGAACGAA
Statistics
Matches: 109, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
49 5 0.05
50 35 0.32
51 66 0.61
52 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTTACCGGATGGT
Found at i:42004146 original size:38 final size:37
Alignment explanation
Indices: 42004104--42004176 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
42004094 AGTTGTGGAA
*
42004104 TTGAATTGAATAT-TGACTTAGAAA-TGGAAAAGTGAATT
1 TTGAATTGAAT-TGTGA-TT-GAAAGTGAAAAAGTGAATT
42004142 TTGAATTGAATTGTGATTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATTGTGATTGAAAGTGAAAAAGTGAA
42004177 ATTATGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 14 0.44
38 14 0.44
ACGTcount: A:0.42, C:0.01, G:0.23, T:0.33
Consensus pattern (37 bp):
TTGAATTGAATTGTGATTGAAAGTGAAAAAGTGAATT
Found at i:42008704 original size:4 final size:4
Alignment explanation
Indices: 42008695--42008760 Score: 132
Period size: 4 Copynumber: 16.5 Consensus size: 4
42008685 TGATAGCTTC
42008695 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
42008743 ACAT ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT AC
42008761 GTTAGATAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 62 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:42013494 original size:43 final size:43
Alignment explanation
Indices: 42013433--42013596 Score: 190
Period size: 43 Copynumber: 3.8 Consensus size: 43
42013423 TTACAGAAAT
42013433 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCAAAAAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCAAAAAA
* *
42013476 AAACGCCGCTAAAGGTCATGTTCTTTAACGACGCTTCAAAAAAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTC-AAAAAA
* * ** *
42013520 AAATC-CCGTTAAAGGTCATGTTCTTTAGCGGCACTTTC--TCAG
1 AAA-CGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTCAAAAAA
* *
42013562 AAACGCCACTAAAGGTAATGTTCTTTTAGCGGCGC
1 AAACGCCGCTAAAGGTCATGTTC-TTTAGCGGCGC
42013597 ATTTTCCACA
Statistics
Matches: 103, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.01
42 19 0.18
43 45 0.44
44 34 0.33
45 4 0.04
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCAAAAAA
Found at i:42013624 original size:44 final size:42
Alignment explanation
Indices: 42013529--42013677 Score: 133
Period size: 44 Copynumber: 3.5 Consensus size: 42
42013519 AAAATCCCGT
* * * *
42013529 TAAAGGTCATGTTCTTTAGC-GGCACTTTCTCAGAAACGCCAC
1 TAAAGGTAATGTTCTTTAGCGGGCATTTTC-CACAAACGCCGC
42013571 TAAAGGTAATGTTCTTTTAGCGGCGCATTTTCCACAAACGCCGC
1 TAAAGGTAATGTTC-TTTAGCGG-GCATTTTCCACAAACGCCGC
* **
42013615 TACAA-GTAATGTTCTTTAACGGTGTTTTTTTCCACAAACGCCGC
1 TA-AAGGTAATGTTCTTTAGCGG-G-CATTTTCCACAAACGCCGC
* * *
42013659 T-ATGGTCATGCTCTTTAGC
1 TAAAGGTAATGTTCTTTAGC
42013678 TTTTAACGCC
Statistics
Matches: 89, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
42 14 0.16
43 26 0.29
44 40 0.45
45 9 0.10
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (42 bp):
TAAAGGTAATGTTCTTTAGCGGGCATTTTCCACAAACGCCGC
Found at i:42014101 original size:21 final size:21
Alignment explanation
Indices: 42014076--42014127 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
42014066 TTTCTTTTGA
*
42014076 ACCTCTGCTTCTCTCGCTG-C
1 ACCTCTGCTTCCCTCGCTGTC
42014096 AGCCTCTGCTTCCCTCGCTGTC
1 A-CCTCTGCTTCCCTCGCTGTC
42014118 ACCTCTGCTT
1 ACCTCTGCTT
42014128 TAAGTTGTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 26 0.90
22 2 0.07
ACGTcount: A:0.06, C:0.44, G:0.15, T:0.35
Consensus pattern (21 bp):
ACCTCTGCTTCCCTCGCTGTC
Found at i:42016957 original size:12 final size:12
Alignment explanation
Indices: 42016940--42016986 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
42016930 ATGTATGTAA
42016940 ATTATGTAAGTT
1 ATTATGTAAGTT
42016952 ATTATGTAAG--
1 ATTATGTAAGTT
42016962 -TTATGTAAGTT
1 ATTATGTAAGTT
* *
42016973 ACTATGTAGGTT
1 ATTATGTAAGTT
42016985 AT
1 AT
42016987 GTTCATTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 9 0.31
12 20 0.69
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (12 bp):
ATTATGTAAGTT
Found at i:42016985 original size:21 final size:21
Alignment explanation
Indices: 42016933--42016988 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
42016923 AATATTTATG
* *
42016933 TATGTAAATTATGTAAGTTAT
1 TATGTAAGTTATGTAAGTTAC
42016954 TATGTAAGTTATGTAAGTTAC
1 TATGTAAGTTATGTAAGTTAC
*
42016975 TATGTAGGTTATGT
1 TATGTAAGTTATGT
42016989 TCATTATGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (21 bp):
TATGTAAGTTATGTAAGTTAC
Found at i:42017087 original size:91 final size:88
Alignment explanation
Indices: 42016893--42017134 Score: 217
Period size: 91 Copynumber: 2.7 Consensus size: 88
42016883 ATAATTAAGC
*
42016893 TATGTAAGTTATGTAAGTTAAGATATAATTAATATTTATGTATGTAAATTATGTAAGTTATTATG
1 TATGTAAGTTATGTAAGTTAAGATATAATTAATATTTATGTATGTAAATTATGTAAGTTATAATG
* *
42016958 TAAGTTATGTAAGTTACTATGTAGGT
66 TAAGATATATAAG-T-CTATGTA-GT
* ** * *
42016984 TATGTTCA-TTATGTAAGTTGTGATATGATTAATATTTATGTATGTAAATTATGATATGATTGAT
1 TATG-TAAGTTATGTAAGTTAAGATATAATTAATATTTATGTATGTAAATTATG-TAAG-TT-AT
*
42017048 AAATTTAAGATATATAAG-CTATGTA-T
62 -AATGTAAGATATATAAGTCTATGTAGT
* * * * *
42017074 TATGTAAGTTTATGTATG-TAAGA-ATAAGT-ATAATGTAAGCTATGTAAGTTATGTAAGTTAT
1 TATGTAAG-TTATGTAAGTTAAGATATAATTAAT-ATTTATG-TATGTAAATTATGTAAGTTAT
42017135 GTAAGTTAAG
Statistics
Matches: 123, Mismatches: 19, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
87 2 0.02
88 4 0.03
89 14 0.11
90 20 0.16
91 54 0.44
92 12 0.10
93 2 0.02
94 2 0.02
95 13 0.11
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (88 bp):
TATGTAAGTTATGTAAGTTAAGATATAATTAATATTTATGTATGTAAATTATGTAAGTTATAATG
TAAGATATATAAGTCTATGTAGT
Found at i:42017120 original size:9 final size:9
Alignment explanation
Indices: 42017106--42017142 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
42017096 AATAAGTATA
*
42017106 ATGTAAGCT
1 ATGTAAGTT
42017115 ATGTAAGTT
1 ATGTAAGTT
42017124 ATGTAAGTT
1 ATGTAAGTT
42017133 ATGTAAGTT
1 ATGTAAGTT
42017142 A
1 A
42017143 AGATATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.41
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:42017132 original size:49 final size:47
Alignment explanation
Indices: 42017062--42017154 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 47
42017052 TTAAGATATA
*
42017062 TAAGCTATGTATTATGTAAGTTTATGTATG-TAAGA-ATAAGTATAATG
1 TAAGCTATGTATTATGTAAG-TTATGTAAGTTAAGATATAA-TATAATG
42017109 TAAGCTATGTAAGTTATGTAAGTTATGTAAGTTAAGATATAATATA
1 TAAGCTATGT-A-TTATGTAAGTTATGTAAGTTAAGATATAATATA
42017155 TATCCCGGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
47 10 0.24
48 9 0.22
49 18 0.44
50 4 0.10
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (47 bp):
TAAGCTATGTATTATGTAAGTTATGTAAGTTAAGATATAATATAATG
Found at i:42017187 original size:39 final size:40
Alignment explanation
Indices: 42017134--42017209 Score: 136
Period size: 39 Copynumber: 1.9 Consensus size: 40
42017124 ATGTAAGTTA
*
42017134 TGTAAGTTAAGATATAATATATATCCCGGTAAGTTATAAG
1 TGTAAGTTAAGATATAATATACATCCCGGTAAGTTATAAG
42017174 TGTAA-TTAAGATATAATATACATCCCGGTAAGTTAT
1 TGTAAGTTAAGATATAATATACATCCCGGTAAGTTAT
42017210 GTAGGTTATG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 30 0.86
40 5 0.14
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (40 bp):
TGTAAGTTAAGATATAATATACATCCCGGTAAGTTATAAG
Found at i:42017205 original size:22 final size:21
Alignment explanation
Indices: 42017141--42017205 Score: 50
Period size: 22 Copynumber: 3.2 Consensus size: 21
42017131 TTATGTAAGT
42017141 TAAGATATAATATATATCCCGG
1 TAAGATATAATATA-ATCCCGG
* *
42017163 TAAGTTATAAGTGTAAT-----
1 TAAGATATAA-TATAATCCCGG
42017180 TAAGATATAATATACATCCCGG
1 TAAGATATAATATA-ATCCCGG
42017202 TAAG
1 TAAG
42017206 TTATGTAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
16 3 0.09
17 11 0.34
22 15 0.47
23 3 0.09
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (21 bp):
TAAGATATAATATAATCCCGG
Found at i:42017219 original size:9 final size:9
Alignment explanation
Indices: 42017205--42017319 Score: 76
Period size: 9 Copynumber: 12.6 Consensus size: 9
42017195 ATCCCGGTAA
42017205 GTTATGTAG
1 GTTATGTAG
42017214 GTTATGTA-
1 GTTATGTAG
* *
42017222 TTATATGTAA
1 GT-TATGTAG
42017232 GTTATGTAG
1 GTTATGTAG
* *
42017241 GTTATTAATAA
1 GTTA-T-GTAG
42017252 GTTATGTA-
1 GTTATGTAG
*
42017260 TTATATGTA-
1 GT-TATGTAG
* *
42017269 TTATATGTAA
1 GT-TATGTAG
42017279 GTTATGTAG
1 GTTATGTAG
42017288 GTTATGTA-
1 GTTATGTAG
*
42017296 TTATATGTAG
1 GT-TATGTAG
42017306 GTTATGTAG
1 GTTATGTAG
42017315 GTTAT
1 GTTAT
42017320 TATATTTTTA
Statistics
Matches: 87, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
8 3 0.03
9 73 0.84
10 5 0.06
11 6 0.07
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (9 bp):
GTTATGTAG
Found at i:42017230 original size:18 final size:18
Alignment explanation
Indices: 42017207--42017313 Score: 103
Period size: 18 Copynumber: 5.8 Consensus size: 18
42017197 CCCGGTAAGT
42017207 TATGTAGGTTATGTATTA
1 TATGTAGGTTATGTATTA
*
42017225 TATGTAAGTTATGTAGGTTA
1 TATGTAGGTTATGTA--TTA
* *
42017245 T-TAATAAGTTATGTATTA
1 TAT-GTAGGTTATGTATTA
* *
42017263 TATGTA-TTATATGTAAGT-
1 TATGTAGGT-TATGT-ATTA
42017281 TATGTAGGTTATGTATTA
1 TATGTAGGTTATGTATTA
42017299 TATGTAGGTTATGTA
1 TATGTAGGTTATGTA
42017314 GGTTATTATA
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
17 3 0.04
18 51 0.69
19 5 0.07
20 15 0.20
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (18 bp):
TATGTAGGTTATGTATTA
Found at i:42017239 original size:27 final size:27
Alignment explanation
Indices: 42017201--42017319 Score: 153
Period size: 27 Copynumber: 4.7 Consensus size: 27
42017191 ATACATCCCG
42017201 GTAAGTTATGTAGGTTATGTATTATAT
1 GTAAGTTATGTAGGTTATGTATTATAT
42017228 GTAAGTTATGTAGG---T-TATTA-A-
1 GTAAGTTATGTAGGTTATGTATTATAT
***
42017249 -TAAGTTATGTATTATATGTATTATAT
1 GTAAGTTATGTAGGTTATGTATTATAT
42017275 GTAAGTTATGTAGGTTATGTATTATAT
1 GTAAGTTATGTAGGTTATGTATTATAT
*
42017302 GTAGGTTATGTAGGTTAT
1 GTAAGTTATGTAGGTTAT
42017320 TATATTTTTA
Statistics
Matches: 79, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
20 11 0.14
22 1 0.01
23 6 0.08
24 6 0.08
25 1 0.01
27 54 0.68
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (27 bp):
GTAAGTTATGTAGGTTATGTATTATAT
Found at i:42019912 original size:20 final size:20
Alignment explanation
Indices: 42019854--42019917 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
42019844 TTTCAGTATC
42019854 TTAAAATTTAAATAATTCTA
1 TTAAAATTTAAATAATTCTA
42019874 TT---ATTTAGAA-AA---T-
1 TTAAAATTTA-AATAATTCTA
42019887 TTAAAATTTAAATAATTCTA
1 TTAAAATTTAAATAATTCTA
42019907 TTAAAATTTAA
1 TTAAAATTTAA
42019918 TACTTAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 18
0.66 0.00 0.34
Matches are distributed among these distances:
13 2 0.06
14 1 0.03
15 2 0.06
16 7 0.20
17 7 0.20
18 2 0.06
19 1 0.03
20 13 0.37
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (20 bp):
TTAAAATTTAAATAATTCTA
Found at i:42019912 original size:27 final size:27
Alignment explanation
Indices: 42019854--42019934 Score: 76
Period size: 33 Copynumber: 2.9 Consensus size: 27
42019844 TTTCAGTATC
42019854 TTAAAATTTAAATAATTCTATTATTTAGAAAAT
1 TTAAAATTTAAATAATTC---TA-TT--AAAAT
42019887 TTAAAATTTAAATAATTCTATTAAAAT
1 TTAAAATTTAAATAATTCTATTAAAAT
* *
42019914 TTAATACTTAAA-AATTC-ATTA
1 TTAAAATTTAAATAATTCTATTA
42019935 TCTAAATCCT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
25 4 0.09
26 5 0.11
27 15 0.33
29 2 0.04
30 2 0.04
33 18 0.39
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (27 bp):
TTAAAATTTAAATAATTCTATTAAAAT
Found at i:42020306 original size:7 final size:7
Alignment explanation
Indices: 42020291--42020338 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
42020281 AACTATAAAC
*
42020291 CCCTAAA
1 CCCTTAA
42020298 CCCTTAA
1 CCCTTAA
*
42020305 CCTTTAA
1 CCCTTAA
*
42020312 CCC-CAA
1 CCCTTAA
42020318 CCCTTAA
1 CCCTTAA
*
42020325 CCCTTCA
1 CCCTTAA
42020332 CCCTTAA
1 CCCTTAA
42020339 ACCCAAAACA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
6 5 0.15
7 28 0.85
ACGTcount: A:0.29, C:0.46, G:0.00, T:0.25
Consensus pattern (7 bp):
CCCTTAA
Found at i:42020326 original size:27 final size:27
Alignment explanation
Indices: 42020291--42020344 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
42020281 AACTATAAAC
* *
42020291 CCCTAAACCCTTAACCTTTAACCCCAA
1 CCCTAAACCCTTAACCCTTAAACCCAA
* *
42020318 CCCTTAACCCTTCACCCTTAAACCCAA
1 CCCTAAACCCTTAACCCTTAAACCCAA
42020345 AACACCAACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.46, G:0.00, T:0.22
Consensus pattern (27 bp):
CCCTAAACCCTTAACCCTTAAACCCAA
Found at i:42020334 original size:20 final size:20
Alignment explanation
Indices: 42020296--42020334 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
42020286 TAAACCCCTA
*
42020296 AACCCTTAACCTTTAACCCC
1 AACCCTTAACCCTTAACCCC
*
42020316 AACCCTTAACCCTTCACCC
1 AACCCTTAACCCTTAACCC
42020335 TTAAACCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.49, G:0.00, T:0.23
Consensus pattern (20 bp):
AACCCTTAACCCTTAACCCC
Found at i:42022097 original size:40 final size:39
Alignment explanation
Indices: 42022013--42022197 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
42022003 TTGAATGATG
* * * *
42022013 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
42022053 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
42022093 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
42022132 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
**
42022173 -CCGGGCTTTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
42022198 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42022149 original size:79 final size:81
Alignment explanation
Indices: 42022013--42022197 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
42022003 TTGAATGATG
*
42022013 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
42022077 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
42022092 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
42022154 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* **
42022172 ACCGGGCTTTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42022198 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:42022219 original size:79 final size:79
Alignment explanation
Indices: 42022014--42022230 Score: 192
Period size: 79 Copynumber: 2.7 Consensus size: 79
42022004 TGAATGATGT
** * * * **
42022014 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
42022077 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
42022094 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
42022159 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
** * *
42022173 CCGGGCTTTGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
42022231 TACGTGATTT
Statistics
Matches: 115, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 70 0.61
80 42 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:42029554 original size:79 final size:81
Alignment explanation
Indices: 42029418--42029602 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
42029408 TTGAATGATG
*
42029418 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
42029482 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
42029497 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
42029559 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
42029577 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42029603 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:42029616 original size:40 final size:40
Alignment explanation
Indices: 42029419--42029602 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
42029409 TGAATGATGT
* * * *
42029419 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
42029459 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
42029499 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
42029537 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
42029578 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
42029603 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:42029624 original size:79 final size:79
Alignment explanation
Indices: 42029419--42029635 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
42029409 TGAATGATGT
** * * * **
42029419 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
42029482 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
42029499 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
42029564 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
42029578 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
42029636 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:42031153 original size:15 final size:15
Alignment explanation
Indices: 42031130--42031171 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
42031120 CTAACCCCAG
* *
42031130 CCCTTAACCTTTAAC
1 CCCTAAACCCTTAAC
42031145 CCCTAAACCCTTAAC
1 CCCTAAACCCTTAAC
42031160 CCC--AACCCTTAA
1 CCCTAAACCCTTAA
42031172 ACCATAATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 9 0.36
15 16 0.64
ACGTcount: A:0.31, C:0.45, G:0.00, T:0.24
Consensus pattern (15 bp):
CCCTAAACCCTTAAC
Found at i:42031154 original size:35 final size:35
Alignment explanation
Indices: 42031112--42031196 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 35
42031102 AACATTAACT
* *
42031112 ATAAACCCCTAACCCCAGCCCTT-AACCTTTAACCC
1 ATAAACCCCTAACCCCAACCCTTAAACC-ATAACCC
* * *
42031147 CTAAACCCTTAACCCCAACCCTTAAACCATAATCC
1 ATAAACCCCTAACCCCAACCCTTAAACCATAACCC
42031182 ATAAACCCCTAACCC
1 ATAAACCCCTAACCC
42031197 ATATCTCTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 38 0.90
36 4 0.10
ACGTcount: A:0.35, C:0.45, G:0.01, T:0.19
Consensus pattern (35 bp):
ATAAACCCCTAACCCCAACCCTTAAACCATAACCC
Found at i:42031259 original size:39 final size:39
Alignment explanation
Indices: 42031205--42031289 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
42031195 CCATATCTCT
42031205 TAAACCCTAAATCATAGAACATATATAAACTATAAACTC
1 TAAACCCTAAATCATAGAACATATATAAACTATAAACTC
* * * * * *
42031244 TAAACCCTGATTCATAGCATATATATAAACTATAAAGTG
1 TAAACCCTAAATCATAGAACATATATAAACTATAAACTC
42031283 TAAACCC
1 TAAACCC
42031290 CATCCATTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.47, C:0.20, G:0.06, T:0.27
Consensus pattern (39 bp):
TAAACCCTAAATCATAGAACATATATAAACTATAAACTC
Found at i:42035880 original size:12 final size:12
Alignment explanation
Indices: 42035863--42035887 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42035853 ATTTAATCAC
42035863 TTTAATATTAAA
1 TTTAATATTAAA
42035875 TTTAATATTAAA
1 TTTAATATTAAA
42035887 T
1 T
42035888 CTTATTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:42036020 original size:37 final size:39
Alignment explanation
Indices: 42035926--42036023 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 39
42035916 GTAGATAAAC
42035926 ATTAAATTTAAT-TT-AA-TATTAAGATAATCATTTTAAT
1 ATTAAATTTAATATTAAACTATTAAGATAATCA-TTTAAT
*
42035963 ATTAAA-TTAATA-AAATACTATTAAGATAAGT-A-TTAA-
1 ATTAAATTTAATATTAA-ACTATTAAGATAA-TCATTTAAT
42035999 ATTAAATTTAATATTAAACTATTAA
1 ATTAAATTTAATATTAAACTATTAA
42036024 AATGATATTA
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
36 11 0.21
37 25 0.48
38 3 0.06
39 12 0.23
40 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (39 bp):
ATTAAATTTAATATTAAACTATTAAGATAATCATTTAAT
Found at i:42042521 original size:26 final size:26
Alignment explanation
Indices: 42042492--42042546 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
42042482 TCAAGTTACA
*
42042492 AGACTAATTTGTAATGTAAACTAACT
1 AGACTAATTTGTAATGTAAACGAACT
42042518 AGACTAATTTGTAATGTAAACGAACT
1 AGACTAATTTGTAATGTAAACGAACT
42042544 AGA
1 AGA
42042547 GAATCAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.31
Consensus pattern (26 bp):
AGACTAATTTGTAATGTAAACGAACT
Found at i:42043290 original size:10 final size:10
Alignment explanation
Indices: 42043275--42043302 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
42043265 TCAATGTCAT
42043275 ATGCTCAATC
1 ATGCTCAATC
42043285 ATGCTCAATC
1 ATGCTCAATC
42043295 ATGCTCAA
1 ATGCTCAA
42043303 ACAAGTGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.29
Consensus pattern (10 bp):
ATGCTCAATC
Found at i:42045053 original size:5 final size:5
Alignment explanation
Indices: 42045043--42045078 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
42045033 CTTATTTTAC
42045043 AATTA AATTA AATTA AATTA AATTA ATATTTA AATT
1 AATTA AATTA AATTA AATTA AATTA A-A-TTA AATT
42045079 TAACTCAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.79
6 2 0.07
7 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
AATTA
Found at i:42045063 original size:15 final size:17
Alignment explanation
Indices: 42045038--42045078 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
42045028 TTTCCCTTAT
42045038 TTTACAATTAAATTAA-A
1 TTTA-AATTAAATTAATA
42045055 -TTAAATTAAATTAATA
1 TTTAAATTAAATTAATA
42045071 TTTAAATT
1 TTTAAATT
42045079 TAACTCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 11 0.50
16 4 0.18
17 7 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTAAATTAAATTAATA
Found at i:42056761 original size:5 final size:5
Alignment explanation
Indices: 42056745--42056783 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
42056735 AATTTATTAA
*
42056745 AAAAT GAAAAT AAAAT -AAAT AAAAT AAAAT AAGAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
42056784 GTGAATAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
4 4 0.13
5 21 0.70
6 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:42056770 original size:14 final size:14
Alignment explanation
Indices: 42056746--42056783 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
42056736 ATTTATTAAA
42056746 AAATGAAAATAAAAT
1 AAAT-AAAATAAAAT
42056761 AAATAAAATAAAAT
1 AAATAAAATAAAAT
42056775 AAGATAAAA
1 AA-ATAAAA
42056784 GTGAATAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:42058302 original size:14 final size:15
Alignment explanation
Indices: 42058280--42058308 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
42058270 TTTTGAGCTG
42058280 GTAATTTGGGTTATT
1 GTAATTTGGGTTATT
42058295 GTAA-TTGGGTTATT
1 GTAATTTGGGTTATT
42058309 TTTGGACTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (15 bp):
GTAATTTGGGTTATT
Found at i:42067684 original size:16 final size:17
Alignment explanation
Indices: 42067663--42067694 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
42067653 ACCATTACAG
42067663 TTGTTGTTTAA-AATAA
1 TTGTTGTTTAAGAATAA
42067679 TTGTTGTTTAAGAATA
1 TTGTTGTTTAAGAATA
42067695 GCTATGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (17 bp):
TTGTTGTTTAAGAATAA
Found at i:42068970 original size:44 final size:43
Alignment explanation
Indices: 42068922--42069041 Score: 136
Period size: 44 Copynumber: 2.8 Consensus size: 43
42068912 ACCCGGAACT
* *
42068922 AAAAAGTTATCATGATGATTCTAATACAATTTTAAAATTACTAA
1 AAAAAATTATCATGATGATTCTAATACAATATTAAAATTACT-A
* *
42068966 AAAAAATTACCATGGTGATT-TAAATACAATATTAAAATTACTA
1 AAAAAATTATCATGATGATTCT-AATACAATATTAAAATTACTA
* * * *
42069009 AAAAGATTGT-ATGATGATTCGAATACAGTATTA
1 AAAAAATTATCATGATGATTCTAATACAATATTA
42069042 TCATGATGGT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 19 0.30
43 9 0.14
44 36 0.56
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.34
Consensus pattern (43 bp):
AAAAAATTATCATGATGATTCTAATACAATATTAAAATTACTA
Found at i:42069324 original size:3 final size:3
Alignment explanation
Indices: 42069316--42069377 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
42069306 ATAAGAGTTT
42069316 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
42069364 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
42069378 CGACTTAATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:42075280 original size:50 final size:50
Alignment explanation
Indices: 42075213--42075410 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 50
42075203 TTTTCTTTAC
* * * **
42075213 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAATTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
42075263 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
42075313 TGCTAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATTTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* * *
42075369 TGCCAATGTCATGTCCCAGACATGGTCCTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
42075411 TTACCCAAAT
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 81 0.67
53 2 0.02
56 38 0.31
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:42080615 original size:11 final size:11
Alignment explanation
Indices: 42080593--42080632 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
42080583 AACTAATCCT
42080593 CTCTCAAATTTC
1 CTCTC-AATTTC
42080605 CTCTCAATTTC
1 CTCTCAATTTC
42080616 CTCTCAATTTC
1 CTCTCAATTTC
42080627 CT-TCAA
1 CTCTCAA
42080633 AAATTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.14
11 19 0.68
12 5 0.18
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:42081826 original size:7 final size:7
Alignment explanation
Indices: 42081814--42081838 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
42081804 AGTCGATTGA
42081814 TATTTAG
1 TATTTAG
42081821 TATTTAG
1 TATTTAG
42081828 TATTTAG
1 TATTTAG
42081835 TATT
1 TATT
42081839 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:42082516 original size:18 final size:18
Alignment explanation
Indices: 42082489--42082528 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
42082479 CAGGTGCGTT
*
42082489 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
42082507 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
42082525 TCCT
1 TCCT
42082529 TTTTCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:42083142 original size:114 final size:115
Alignment explanation
Indices: 42082734--42083205 Score: 883
Period size: 115 Copynumber: 4.1 Consensus size: 115
42082724 CCACATACTA
* **
42082734 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGGTACTAACAAT
42082799 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
42082850 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
42082915 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
*
42082965 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACCAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
42083030 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
42083080 AA-TAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
*
42083144 AATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
42083194 AATTAATAATTT
1 AATTAATAATTT
42083206 CACAAACTTA
Statistics
Matches: 349, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
114 112 0.32
115 194 0.56
116 43 0.12
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (115 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
Found at i:42083148 original size:229 final size:231
Alignment explanation
Indices: 42082734--42083205 Score: 885
Period size: 229 Copynumber: 2.1 Consensus size: 231
42082724 CCACATACTA
* ** *
42082734 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACCAACAAT
42082799 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATCAATTAATAATTTTA
66 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATCAATTAATAATTTTA
42082864 CATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATA
131 CATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATA
*
42082929 ATTTGATAATTTTACTAATCATTAATACAATTTATC
196 ATTTGATAATTTTACTAACCATTAATACAATTTATC
42082965 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGGTACCAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACCAACAAT
42083029 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATCAA-TAATAATTTTA
66 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATCAATTAATAATTTTA
42083093 CATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATA
131 CATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATA
42083158 ATTTGATAATTTTACTAACCATTAATACAATTTATC
196 ATTTGATAATTTTACTAACCATTAATACAATTTATC
42083194 AATTAATAATTT
1 AATTAATAATTT
42083206 CACAAACTTA
Statistics
Matches: 236, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
229 123 0.52
230 70 0.30
231 43 0.18
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (231 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACCAACAAT
TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATCAATTAATAATTTTA
CATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATA
ATTTGATAATTTTACTAACCATTAATACAATTTATC
Found at i:42086860 original size:14 final size:14
Alignment explanation
Indices: 42086841--42086870 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
42086831 CTAAATGAAC
42086841 GTATCTTTGAGTTA
1 GTATCTTTGAGTTA
42086855 GTATCTTTGAGTTA
1 GTATCTTTGAGTTA
42086869 GT
1 GT
42086871 TTGTAACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.23, T:0.50
Consensus pattern (14 bp):
GTATCTTTGAGTTA
Found at i:42089705 original size:16 final size:16
Alignment explanation
Indices: 42089668--42089707 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
42089658 TTGATAAAAT
* *
42089668 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
42089684 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
42089700 TAAAATTA
1 TAAAATTA
42089708 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:42089792 original size:9 final size:9
Alignment explanation
Indices: 42089780--42089807 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
42089770 ATTATCAAAT
42089780 TATTAATTG
1 TATTAATTG
42089789 TATTAATTG
1 TATTAATTG
42089798 TATTAATTG
1 TATTAATTG
42089807 T
1 T
42089808 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:42089814 original size:68 final size:68
Alignment explanation
Indices: 42089700--42089873 Score: 320
Period size: 68 Copynumber: 2.6 Consensus size: 68
42089690 TAATTGTTAG
42089700 TAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGAT
1 TAAAATTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGAT
42089763 TAA
66 TAA
42089766 TAAAATTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGAT
1 TAAAATTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGAT
42089831 TAA
66 TAA
42089834 TAAAATTATCAAATTATTAATTGTATTAATTG--TTAATTGT
1 TAAAATTATCAAATTATTAATTGTATTAATTGTATTAATTGT
42089874 ATTAATTGTA
Statistics
Matches: 106, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
66 31 0.29
68 75 0.71
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (68 bp):
TAAAATTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGAT
TAA
Found at i:42089860 original size:9 final size:9
Alignment explanation
Indices: 42089848--42089891 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
42089838 ATTATCAAAT
42089848 TATTAATTG
1 TATTAATTG
42089857 TATTAATTG
1 TATTAATTG
42089866 --TTAATTG
1 TATTAATTG
42089873 TATTAATTG
1 TATTAATTG
42089882 TATTAATTG
1 TATTAATTG
42089891 T
1 T
42089892 TATAACAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.21
9 26 0.79
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:42089869 original size:16 final size:16
Alignment explanation
Indices: 42089845--42089882 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
42089835 AAAATTATCA
*
42089845 AATTATTAATTGTATT
1 AATTGTTAATTGTATT
42089861 AATTGTTAATTGTATT
1 AATTGTTAATTGTATT
42089877 AATTGT
1 AATTGT
42089883 ATTAATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (16 bp):
AATTGTTAATTGTATT
Found at i:42090399 original size:9 final size:9
Alignment explanation
Indices: 42090382--42090433 Score: 68
Period size: 9 Copynumber: 5.8 Consensus size: 9
42090372 TGAAGAAACC
*
42090382 TCGTCGTCA
1 TCGTCCTCA
* *
42090391 TCATCGTCA
1 TCGTCCTCA
42090400 TCGTCCTCA
1 TCGTCCTCA
42090409 TCGTCCTCA
1 TCGTCCTCA
*
42090418 TTGTCCTCA
1 TCGTCCTCA
42090427 TCGTCCT
1 TCGTCCT
42090434 TTTTGCAACC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.12, C:0.38, G:0.13, T:0.37
Consensus pattern (9 bp):
TCGTCCTCA
Found at i:42092734 original size:92 final size:92
Alignment explanation
Indices: 42092577--42092891 Score: 504
Period size: 92 Copynumber: 3.3 Consensus size: 92
42092567 ATATATACAA
* *
42092577 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTTTAAATTATAGCTTA
1 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAATTGTAGCTTA
*
42092642 TATGCATAATTTGATACAAATAGGTTT
66 TATGCATACTTTGATACAAATAGGTTT
42092669 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAATTGTAGCTTA
1 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAATTGTAGCTTA
42092734 TATGCATACTTTGATACAAATAGGTTT
66 TATGCATACTTTGATACAAATAGGTTT
*
42092761 ATATTTTATTAAATACACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAATTGTAGCTTA
1 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAA-T-T-G----
*
42092826 TAGCCTTATATGCATACTTTGATACAAATAGGTTC
59 TAG-CTTATATGCATACTTTGATACAAATAGGTTT
*
42092861 ATATTTTATTAAATATAGAAATAGGTTAAAA
1 ATATTTTATTAAATATACAAATAGGTTAAAA
42092892 ATTGTAGCTT
Statistics
Matches: 208, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
92 143 0.69
93 1 0.00
94 1 0.00
95 1 0.00
99 3 0.01
100 59 0.28
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (92 bp):
ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAATTGTAGCTTA
TATGCATACTTTGATACAAATAGGTTT
Found at i:42095242 original size:20 final size:20
Alignment explanation
Indices: 42095212--42095258 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
42095202 GTAGATTGGG
*
42095212 AAATGAAAACTAAAAC-TAA
1 AAATAAAAACTAAAACATAA
*
42095231 AAAGTAAAAACTTAAACATAA
1 AAA-TAAAAACTAAAACATAA
42095252 AAATAAA
1 AAATAAA
42095259 TATATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 15 0.62
21 6 0.25
ACGTcount: A:0.70, C:0.09, G:0.04, T:0.17
Consensus pattern (20 bp):
AAATAAAAACTAAAACATAA
Found at i:42095313 original size:17 final size:17
Alignment explanation
Indices: 42095271--42095305 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
42095261 TATATTTTTT
42095271 AAACATAAAAAACTTAA
1 AAACATAAAAAACTTAA
42095288 AAACATAAAAAACTTAA
1 AAACATAAAAAACTTAA
42095305 A
1 A
42095306 CAGTTAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.17
Consensus pattern (17 bp):
AAACATAAAAAACTTAA
Found at i:42098619 original size:51 final size:50
Alignment explanation
Indices: 42098537--42098707 Score: 182
Period size: 51 Copynumber: 3.4 Consensus size: 50
42098527 GATGAACACG
**
42098537 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAAT-ATTGTCACA
* * * * * * *
42098588 TGTCTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAA-ATATT-GTCACA
** * *
42098639 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAAT-ATTGTCACA
42098690 TGTGTAGTACTAAGTGAA
1 TGTGTAGTACTAAGTGAA
42098708 CTATGTGAAG
Statistics
Matches: 94, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
50 3 0.03
51 89 0.95
52 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATATTGTCACA
Found at i:42102375 original size:18 final size:18
Alignment explanation
Indices: 42102352--42102403 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
42102342 AAAATACGAG
*
42102352 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
42102370 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
*
42102388 AAATAATGTTCACATT
1 AAATGATGTTCACATT
42102404 GATGGAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:42104329 original size:3 final size:3
Alignment explanation
Indices: 42104323--42104348 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
42104313 ATGTTGATGA
42104323 TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TG
42104349 AATCAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:42114083 original size:193 final size:193
Alignment explanation
Indices: 42113749--42114141 Score: 696
Period size: 193 Copynumber: 2.0 Consensus size: 193
42113739 GTGTAGCCCA
* *
42113749 CAAGCCCTACCTCAACCAGACCATATGGCTTATACATCTATGTTTCTCACACGGCCCCACACACG
1 CAAGTCCTACCTCAACCAAACCATATGGCTTATACATCTATGTTTCTCACACGGCCCCACACACG
*
42113814 ACCATGTAGCGTCATCAGCCTCATTTTGATTTTCACAGAATTTTAAGGTTTCCATGTTCGTTTTT
66 ACCATGTAGCGTCATCAGCCTCATTTTGATTTTCACAGAATTTCAAGGTTTCCATGTTCGTTTTT
*
42113879 AAAAATTACGGGTTAGGTTATACAACTTATTACTTTTGGGATGTCGGCACTAAAACAACACTC
131 AAAAATTACGGGTTAGGTCATACAACTTATTACTTTTGGGATGTCGGCACTAAAACAACACTC
* * * *
42113942 CAAGTCCTACCTCAACCAAACCATGTGGCTTATACGTCTATGTTTCTCACACGGCCCGACACATG
1 CAAGTCCTACCTCAACCAAACCATATGGCTTATACATCTATGTTTCTCACACGGCCCCACACACG
42114007 ACCATGTAGCGTCATCAGCCTCATTTTGATTTTCACAGAATTTCAAGGTTTCCATGTTCGTTTTT
66 ACCATGTAGCGTCATCAGCCTCATTTTGATTTTCACAGAATTTCAAGGTTTCCATGTTCGTTTTT
* *
42114072 AAAAATTACGGGTTAGGTCATACACCTTATTACTTTTGGGATGTCGGCACTAAAACAGCACTC
131 AAAAATTACGGGTTAGGTCATACAACTTATTACTTTTGGGATGTCGGCACTAAAACAACACTC
42114135 CAAGTCC
1 CAAGTCC
42114142 CTGTACACGA
Statistics
Matches: 190, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
193 190 1.00
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (193 bp):
CAAGTCCTACCTCAACCAAACCATATGGCTTATACATCTATGTTTCTCACACGGCCCCACACACG
ACCATGTAGCGTCATCAGCCTCATTTTGATTTTCACAGAATTTCAAGGTTTCCATGTTCGTTTTT
AAAAATTACGGGTTAGGTCATACAACTTATTACTTTTGGGATGTCGGCACTAAAACAACACTC
Found at i:42116614 original size:19 final size:17
Alignment explanation
Indices: 42116590--42116629 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
42116580 ATGTTAAATT
42116590 AAATTAATTAACTAAATGC
1 AAATTAA-T-ACTAAATGC
*
42116609 AAATTAATCCTAAATGC
1 AAATTAATACTAAATGC
42116626 AAAT
1 AAAT
42116630 AAGATGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
18 1 0.05
19 7 0.35
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (17 bp):
AAATTAATACTAAATGC
Found at i:42135304 original size:6 final size:5
Alignment explanation
Indices: 42135263--42135302 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
42135253 AAAACTCATA
42135263 AAAAT AAAAT AAAAT AAAAT AAAAT AAATAT AAATAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAA-AT AAA
42135303 TAGTCATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 23 0.68
6 11 0.32
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:42151235 original size:26 final size:28
Alignment explanation
Indices: 42151183--42151252 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 28
42151173 ATTCATAAAA
*
42151183 ATTAAAAACAATATGTACGTATATATAT
1 ATTAAAAACAATACGTACGTATATATAT
* *
42151211 ATTAAAAA-AAT-CGTATGTATGTATAT
1 ATTAAAAACAATACGTACGTATATATAT
42151237 ATATAGGAAAACAATA
1 AT-TA--AAAACAATA
42151253 AAAGGCATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
26 14 0.41
27 5 0.15
28 8 0.24
29 4 0.12
30 3 0.09
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (28 bp):
ATTAAAAACAATACGTACGTATATATAT
Found at i:42151496 original size:3 final size:3
Alignment explanation
Indices: 42151475--42151542 Score: 77
Period size: 3 Copynumber: 22.7 Consensus size: 3
42151465 CAAATAAAAC
* *
42151475 TAA TAA TGA TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
42151521 TAA -AA CTAA T-T TAA TAA TAA TA
1 TAA TAA -TAA TAA TAA TAA TAA TA
42151543 GAAATAACAA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
2 3 0.05
3 47 0.85
4 5 0.09
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:42154511 original size:17 final size:17
Alignment explanation
Indices: 42154489--42154524 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
42154479 TGTTGACTAG
42154489 ATTGGTTAAGTGCAATT
1 ATTGGTTAAGTGCAATT
42154506 ATTGGTTAAGTGCAATT
1 ATTGGTTAAGTGCAATT
42154523 AT
1 AT
42154525 CAATGACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.42
Consensus pattern (17 bp):
ATTGGTTAAGTGCAATT
Found at i:42155137 original size:11 final size:11
Alignment explanation
Indices: 42155121--42155145 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
42155111 CACCCTTAAT
42155121 GAATACAAAAG
1 GAATACAAAAG
42155132 GAATACAAAAG
1 GAATACAAAAG
42155143 GAA
1 GAA
42155146 GTACGAGGAT
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:0.64, C:0.08, G:0.20, T:0.08
Consensus pattern (11 bp):
GAATACAAAAG
Found at i:42157468 original size:29 final size:27
Alignment explanation
Indices: 42157435--42157540 Score: 95
Period size: 30 Copynumber: 3.7 Consensus size: 27
42157425 TTACATTTTG
*
42157435 TATAATTTTCTTACGACTTTATAAAATTT
1 TATAATTTTTTTA-GA-TTTATAAAATTT
* * *
42157464 TATAAATTTTTTTATATTTCTATATATTT
1 TAT-AATTTTTTTAGATTTATA-AAATTT
42157493 TATAATTTTTTTAAGATTTTTATAAAATTT
1 TATAATTTTTTT-AGA--TTTATAAAATTT
* *
42157523 TATAACTTTTTTATATTT
1 TATAATTTTTTTAGATTT
42157541 TTTACTATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
27 3 0.05
28 14 0.22
29 16 0.25
30 25 0.40
31 5 0.08
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
TATAATTTTTTTAGATTTATAAAATTT
Found at i:42157472 original size:30 final size:28
Alignment explanation
Indices: 42157429--42157534 Score: 88
Period size: 31 Copynumber: 3.6 Consensus size: 28
42157419 GTTTCTTTAC
* *
42157429 ATTTTGTATAATTTTCTTACGACTTTATAAA
1 ATTTTATA-AATTTTTTTA-GA-TTTATAAA
* * *
42157460 ATTTTATAAATTTTTTTATATTTCTATAT
1 ATTTTATAAATTTTTTTAGATTTATA-AA
42157489 ATTTTAT-AATTTTTTTAAGATTTTTATAAA
1 ATTTTATAAATTTTTTT-AGA--TTTATAAA
*
42157519 ATTTTATAACTTTTTT
1 ATTTTATAAATTTTTT
42157535 ATATTTTTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
28 14 0.23
29 11 0.18
30 17 0.28
31 19 0.31
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (28 bp):
ATTTTATAAATTTTTTTAGATTTATAAA
Found at i:42157533 original size:10 final size:10
Alignment explanation
Indices: 42157452--42157555 Score: 72
Period size: 10 Copynumber: 10.6 Consensus size: 10
42157442 TTCTTACGAC
*
42157452 TTTATAAAAT
1 TTTATAAATT
42157462 TTTATAAATT
1 TTTATAAATT
* *
42157472 TTTTTATATT
1 TTTATAAATT
* *
42157482 TCTATATA-T
1 TTTATAAATT
42157491 TTTAT-AATT
1 TTTATAAATT
*
42157500 TTTTTAAGATT
1 TTTATAA-ATT
*
42157511 TTTATAAAAT
1 TTTATAAATT
*
42157521 TTTATAACTT
1 TTTATAAATT
*
42157531 TTT-TATATT
1 TTTATAAATT
*
42157540 TTT-TACTATT
1 TTTATA-AATT
42157550 TTTATA
1 TTTATA
42157556 TTTTTTCTAA
Statistics
Matches: 75, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
8 1 0.01
9 19 0.25
10 44 0.59
11 11 0.15
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (10 bp):
TTTATAAATT
Found at i:42157537 original size:58 final size:58
Alignment explanation
Indices: 42157435--42157561 Score: 161
Period size: 58 Copynumber: 2.2 Consensus size: 58
42157425 TTACATTTTG
* * *
42157435 TATAATTTTCTTACGACTTTATAAAATTTTATAAATTTTTTTATATTTCTATA-TATTT
1 TATAATTTTTTTAAGACTTTATAAAATTTTATAAACTTTTTTATATTT-TATACTATTT
* *
42157493 TATAATTTTTTTAAGATTTTTATAAAATTTTAT-AACTTTTTTATATTTTTTACTATTT
1 TATAATTTTTTTAAGA-CTTTATAAAATTTTATAAACTTTTTTATATTTTATACTATTT
42157551 T-TATATTTTTT
1 TATA-ATTTTTT
42157562 CTAATTTTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
57 5 0.08
58 41 0.67
59 15 0.25
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (58 bp):
TATAATTTTTTTAAGACTTTATAAAATTTTATAAACTTTTTTATATTTTATACTATTT
Found at i:42157541 original size:9 final size:9
Alignment explanation
Indices: 42157471--42157585 Score: 67
Period size: 9 Copynumber: 12.4 Consensus size: 9
42157461 TTTTATAAAT
42157471 TTTTTTATA
1 TTTTTTATA
*
42157480 -TTTCTATA
1 TTTTTTATA
*
42157488 TATTTTATAA
1 TTTTTTAT-A
42157498 TTTTTT-TAA
1 TTTTTTAT-A
*
42157507 GATTTTTATAA
1 -TTTTTTAT-A
**
42157518 AATTTTATAA
1 TTTTTTAT-A
42157528 CTTTTTTATA
1 -TTTTTTATA
42157538 TTTTTTACTA
1 TTTTTTA-TA
42157548 -TTTTTATA
1 TTTTTTATA
*
42157556 TTTTTTCTA
1 TTTTTTATA
*
42157565 ATTTTTA-A
1 TTTTTTATA
*
42157573 TTTTTAATA
1 TTTTTTATA
42157582 TTTT
1 TTTT
42157586 ATTTTTATTA
Statistics
Matches: 85, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
8 15 0.18
9 38 0.45
10 23 0.27
11 9 0.11
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (9 bp):
TTTTTTATA
Found at i:42157541 original size:29 final size:29
Alignment explanation
Indices: 42157452--42157571 Score: 122
Period size: 28 Copynumber: 4.1 Consensus size: 29
42157442 TTCTTACGAC
42157452 TTTATAAAATTTTATAAATTTTTTTATATT
1 TTTATAAAATTTTAT-AATTTTTTTATATT
* * *
42157482 TCTAT-ATATTTTATAATTTTTTTAAGATT
1 TTTATAAAATTTTATAATTTTTTT-ATATT
*
42157511 TTTATAAAATTTTATAACTTTTTTATATT
1 TTTATAAAATTTTATAATTTTTTTATATT
**
42157540 TTT-TACTATTTT-TATATTTTTTCTA-ATT
1 TTTATAAAATTTTATA-ATTTTTT-TATATT
42157568 TTTA
1 TTTA
42157572 ATTTTTAATA
Statistics
Matches: 75, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
27 2 0.03
28 28 0.37
29 25 0.33
30 20 0.27
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (29 bp):
TTTATAAAATTTTATAATTTTTTTATATT
Found at i:42157958 original size:15 final size:17
Alignment explanation
Indices: 42157928--42157960 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
42157918 AAAAAGTATT
42157928 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
42157945 TTAAAAA-A-TTTAAAA
1 TTAAAAATATTTTAAAA
42157960 T
1 T
42157961 ATATATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:42166868 original size:15 final size:15
Alignment explanation
Indices: 42166825--42166870 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
42166815 TAAGCAAACC
*
42166825 TATTAATTATAAT-T
1 TATTAATTAAAATAT
*
42166839 TATTAAATAAAAATAT
1 TATT-AATTAAAATAT
42166855 TATTAATTAAAATAT
1 TATTAATTAAAATAT
42166870 T
1 T
42166871 GTTTCGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTAATTAAAATAT
Found at i:42167027 original size:32 final size:32
Alignment explanation
Indices: 42166991--42167053 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
42166981 TTTTAAACTT
* * *
42166991 ATAAATTGATTATTTGAATTTAATAACTCATG
1 ATAAATTAATTAATTAAATTTAATAACTCATG
*
42167023 ATAAATTAATTAATTAAATTTGATAACTCAT
1 ATAAATTAATTAATTAAATTTAATAACTCAT
42167054 ACTGGTTAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (32 bp):
ATAAATTAATTAATTAAATTTAATAACTCATG
Found at i:42168915 original size:19 final size:19
Alignment explanation
Indices: 42168891--42168938 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
42168881 TTGTTTAAGT
* *
42168891 TTAATATATTTTAATTTTA
1 TTAATATATTTCAATATTA
42168910 TTAATACTATTTCAATATTA
1 TTAATA-TATTTCAATATTA
42168930 -TAATATATT
1 TTAATATATT
42168939 ATTATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 11 0.42
20 11 0.42
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATATATTTCAATATTA
Found at i:42168977 original size:22 final size:20
Alignment explanation
Indices: 42168936--42168979 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
42168926 ATTATAATAT
*
42168936 ATTATTATTTTGAATCTATC
1 ATTATTATTTTAAATCTATC
*
42168956 ATTATTATATTATAAATTTATC
1 ATTATTAT-TT-TAAATCTATC
42168978 AT
1 AT
42168980 GTTTTATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 2 0.10
22 10 0.50
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTATTATTTTAAATCTATC
Found at i:42169297 original size:29 final size:29
Alignment explanation
Indices: 42169265--42169344 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
42169255 ATTTTATCTC
42169265 TTTCAAATATTTTAACATTTTTTAATTTA
1 TTTCAAATATTTTAACATTTTTTAATTTA
* * * *
42169294 TTTCAACTTATTTCAATA-TTGTTAATTTA
1 TTTCAA-ATATTTTAACATTTTTTAATTTA
42169323 TTT-AAATTTATTTTAACATTTT
1 TTTCAAA--TATTTTAACATTTT
42169345 AATTCATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
28 2 0.05
29 27 0.69
30 10 0.26
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (29 bp):
TTTCAAATATTTTAACATTTTTTAATTTA
Found at i:42170599 original size:19 final size:17
Alignment explanation
Indices: 42170575--42170610 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
42170565 GATTAGTTTC
42170575 CAATTCAACAAATTCGATT
1 CAATTCAA-AAATT-GATT
42170594 CAATTCAAAAATTGATT
1 CAATTCAAAAATTGATT
42170611 GTTGCTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
19 8 0.47
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (17 bp):
CAATTCAAAAATTGATT
Found at i:42176818 original size:24 final size:26
Alignment explanation
Indices: 42176791--42176852 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
42176781 TGGCTCGTAT
* *
42176791 AAGCTTCCCGTTA-ATGGCTCTC-TG
1 AAGCTTCCCGTTACATGACTCACATG
*
42176815 AAGCTTCCCATTACATGACTCACATG
1 AAGCTTCCCGTTACATGACTCACATG
42176841 AA-CTTCCCGTTA
1 AAGCTTCCCGTTA
42176853 TATAGCTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 12 0.38
25 16 0.50
26 4 0.12
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.31
Consensus pattern (26 bp):
AAGCTTCCCGTTACATGACTCACATG
Found at i:42181633 original size:18 final size:18
Alignment explanation
Indices: 42181598--42181631 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
42181588 TTTTGAATGG
*
42181598 AATATACATTTTATTTTA
1 AATATACATATTATTTTA
42181616 AATATA-ATATTATTTT
1 AATATACATATTATTTT
42181632 TATTTGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
AATATACATATTATTTTA
Found at i:42185910 original size:40 final size:40
Alignment explanation
Indices: 42185866--42186006 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
42185856 ACGGATGTGC
* * *
42185866 ACAGGGGCATGTATGTGTATTCAAGGGTATCAAAGTGCAA
1 ACAGGGGCATGTATGTGCATTCAAGGGTATCGAAGTACAA
* * * *
42185906 ACAGGTGCACGCATGTGCATTCAGGGGTATCGAAGTACAA
1 ACAGGGGCATGTATGTGCATTCAAGGGTATCGAAGTACAA
* *
42185946 ACAGTGGCATGTATGTGCATTC-AGGAGTACCGAAGTACAA
1 ACAGGGGCATGTATGTGCATTCAAGG-GTATCGAAGTACAA
* **
42185986 ACATGGGCAAATATGTGCATT
1 ACAGGGGCATGTATGTGCATT
42186007 TAGGGGCACT
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 2 0.02
40 81 0.98
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.23
Consensus pattern (40 bp):
ACAGGGGCATGTATGTGCATTCAAGGGTATCGAAGTACAA
Found at i:42186247 original size:21 final size:22
Alignment explanation
Indices: 42186203--42186247 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
42186193 TCAAATAAGA
*
42186203 AAGTAATAACCACATAAATTGC
1 AAGTAATAACCACATAAATAGC
42186225 AAGTAA-AA-CACATTAAATAGC
1 AAGTAATAACCACA-TAAATAGC
42186246 AA
1 AA
42186248 ATAACTATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 11 0.52
22 6 0.29
ACGTcount: A:0.56, C:0.16, G:0.09, T:0.20
Consensus pattern (22 bp):
AAGTAATAACCACATAAATAGC
Found at i:42196808 original size:15 final size:15
Alignment explanation
Indices: 42196788--42196818 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
42196778 GACCGGTTAA
42196788 AAGCCCTGTTAACTG
1 AAGCCCTGTTAACTG
42196803 AAGCCCTGTTAACTG
1 AAGCCCTGTTAACTG
42196818 A
1 A
42196819 TGCACCAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (15 bp):
AAGCCCTGTTAACTG
Found at i:42199870 original size:29 final size:29
Alignment explanation
Indices: 42199838--42199900 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
42199828 CCGGATAGAT
42199838 AAAAAAAACG-GAGTTAGATCGTGGAAAAG
1 AAAAAAAACGAGA-TTAGATCGTGGAAAAG
** *
42199867 AAAAAGTACTAGATTAGATCGTGGAAAAG
1 AAAAAAAACGAGATTAGATCGTGGAAAAG
42199896 AAAAA
1 AAAAA
42199901 GTATCAGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 28 0.93
30 2 0.07
ACGTcount: A:0.54, C:0.06, G:0.24, T:0.16
Consensus pattern (29 bp):
AAAAAAAACGAGATTAGATCGTGGAAAAG
Found at i:42199901 original size:29 final size:29
Alignment explanation
Indices: 42199851--42199912 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 29
42199841 AAAAACGGAG
42199851 TTAGATCGTGGAAAAGAAAAAGTA-CTAGA
1 TTAGATCGTGGAAAAGAAAAAGTATC-AGA
42199880 TTAGATCGTGGAAAAGAAAAAGTATCAGA
1 TTAGATCGTGGAAAAGAAAAAGTATCAGA
42199909 TTAG
1 TTAG
42199913 TAGTTTACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.23
Consensus pattern (29 bp):
TTAGATCGTGGAAAAGAAAAAGTATCAGA
Found at i:42200428 original size:24 final size:24
Alignment explanation
Indices: 42200396--42200454 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
42200386 GCTATCCGGT
*
42200396 GCTACCCGTTAATTGCTCTTCGGA
1 GCTACCCGTTAATTACTCTTCGGA
*
42200420 GCTACCCGTTAATTACTCTTTGGA
1 GCTACCCGTTAATTACTCTTCGGA
42200444 GCTACCCGTTA
1 GCTACCCGTTA
42200455 TAGCCTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.34
Consensus pattern (24 bp):
GCTACCCGTTAATTACTCTTCGGA
Found at i:42200465 original size:24 final size:22
Alignment explanation
Indices: 42200396--42200481 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 22
42200386 GCTATCCGGT
* *
42200396 GCTACCCGTTAATTGCTCTTCGGA
1 GCTACCCGTT-A-TACTCTTTGGA
42200420 GCTACCCGTTAATTACTCTTTGGA
1 GCTACCCGTT-A-TACTCTTTGGA
*
42200444 GCTACCCGTTATAGCCTTTTTGTGA
1 GCTACCCGTTATA--CTCTTTG-GA
*
42200469 GCTTCCCGTTATA
1 GCTACCCGTTATA
42200482 TTGCCCGGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
22 2 0.04
23 1 0.02
24 38 0.69
25 14 0.25
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (22 bp):
GCTACCCGTTATACTCTTTGGA
Found at i:42200536 original size:24 final size:24
Alignment explanation
Indices: 42200466--42200536 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
42200456 AGCCTTTTTG
* ***
42200466 TGAGCTTCCCGTTATATTGCCCGGA
1 TGAGCTTCCCGTTATAGTG-CTTAA
* *
42200491 TAAGCTTCCCGTTACAAG-GCTTAA
1 TGAGCTTCCCGTTA-TAGTGCTTAA
42200515 TGAGCTTCCCGTTATAGTGCTT
1 TGAGCTTCCCGTTATAGTGCTT
42200537 GAGAGAAAGC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.53
25 14 0.39
26 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (24 bp):
TGAGCTTCCCGTTATAGTGCTTAA
Found at i:42205681 original size:20 final size:20
Alignment explanation
Indices: 42205653--42205690 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42205643 ATACTTAAAC
42205653 AAAAAGTAT-TGATATCTTAT
1 AAAAAGTATCT-ATATCTTAT
*
42205673 AAAAGGTATCTATATCTT
1 AAAAAGTATCTATATCTT
42205691 TGCACAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (20 bp):
AAAAAGTATCTATATCTTAT
Found at i:42215880 original size:21 final size:22
Alignment explanation
Indices: 42215833--42215881 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
42215823 TCGCCATCTT
42215833 CTTCAACACTACTATTTAAACC
1 CTTCAACACTACTATTTAAACC
* * * *
42215855 TTTCATCACT-CTCTTTTAACC
1 CTTCAACACTACTATTTAAACC
42215876 CTTCAA
1 CTTCAA
42215882 TAGATGCATC
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTTCAACACTACTATTTAAACC
Found at i:42216007 original size:48 final size:47
Alignment explanation
Indices: 42215910--42216017 Score: 146
Period size: 48 Copynumber: 2.3 Consensus size: 47
42215900 CAACACCTTC
42215910 AACC-TCACCACCTTCACTGCCAACAACCTCAACACCCTCCCCACCTA
1 AACCTTCACCACC-TCACTGCCAACAACCTCAACACCCTCCCCACCTA
* * **
42215957 AACTTTCACCACTCTCACTGCCAGCAACCTCAACACCCTCCCCATTTA
1 AACCTTCACCAC-CTCACTGCCAACAACCTCAACACCCTCCCCACCTA
*
42216005 AACCTTCAACACC
1 AACCTTCACCACC
42216018 CTCAACACCT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
47 4 0.08
48 48 0.91
49 1 0.02
ACGTcount: A:0.30, C:0.49, G:0.03, T:0.19
Consensus pattern (47 bp):
AACCTTCACCACCTCACTGCCAACAACCTCAACACCCTCCCCACCTA
Found at i:42216991 original size:28 final size:29
Alignment explanation
Indices: 42216873--42216997 Score: 87
Period size: 29 Copynumber: 4.4 Consensus size: 29
42216863 TCAAAAATTG
*** *
42216873 AAAACCCTAAACAAAAGCCCCCAAAATCA
1 AAAACCCTAAACAAAAATTCCCAAACTCA
* * *
42216902 AAATACCCT--A-AAAAATCCCCAAAATTA
1 AAA-ACCCTAAACAAAAATTCCCAAACTCA
* * * * * *
42216929 AAATCCTTAATCGAAAATTCCCAAATTCG
1 AAAACCCTAAACAAAAATTCCCAAACTCA
*
42216958 ACAA-CCTAAACAAAAATTCCCAAACTCA
1 AAAACCCTAAACAAAAATTCCCAAACTCA
42216986 AAAACCCTAAAC
1 AAAACCCTAAAC
42216998 CGAAATAATA
Statistics
Matches: 72, Mismatches: 19, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
26 3 0.04
27 17 0.24
28 23 0.32
29 24 0.33
30 5 0.07
ACGTcount: A:0.52, C:0.30, G:0.02, T:0.16
Consensus pattern (29 bp):
AAAACCCTAAACAAAAATTCCCAAACTCA
Found at i:42217153 original size:2 final size:2
Alignment explanation
Indices: 42217146--42217176 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
42217136 TTCACTGTCT
42217146 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
42217177 TGATTAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:42232211 original size:20 final size:20
Alignment explanation
Indices: 42232186--42232251 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
42232176 TAATGGAAAG
42232186 AAATCAAAGGATTGAGAATC
1 AAATCAAAGGATTGAGAATC
* * * **
42232206 AAATCAATGTAATG-GAAAG
1 AAATCAAAGGATTGAGAATC
*
42232225 AAATCAAAAGATTGAGAATC
1 AAATCAAAGGATTGAGAATC
42232245 AAATCAA
1 AAATCAA
42232252 TGTAAACAAG
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
19 13 0.38
20 21 0.62
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCAAAGGATTGAGAATC
Found at i:42232229 original size:39 final size:39
Alignment explanation
Indices: 42232175--42232256 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
42232165 AAGCAAAACA
*
42232175 GTAATGGAAAGAAATCAAAGGATTGAGAATCAAATCAAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
42232214 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
42232253 GTAA
1 GTAA
42232257 ACAAGATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.21
Consensus pattern (39 bp):
GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
Found at i:42232230 original size:19 final size:19
Alignment explanation
Indices: 42232174--42232232 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
42232164 GAAGCAAAAC
42232174 AGTAATGGAAAGAAATCAA
1 AGTAATGGAAAGAAATCAA
* * **
42232193 AGGATTGAGAATCAAATCAA
1 AGTAATG-GAAAGAAATCAA
*
42232213 TGTAATGGAAAGAAATCAA
1 AGTAATGGAAAGAAATCAA
42232232 A
1 A
42232233 AGATTGAGAA
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.54, C:0.07, G:0.20, T:0.19
Consensus pattern (19 bp):
AGTAATGGAAAGAAATCAA
Found at i:42232440 original size:4 final size:4
Alignment explanation
Indices: 42232431--42232456 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
42232421 ACTGTGTTCT
42232431 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
42232457 ATTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:42232460 original size:3 final size:3
Alignment explanation
Indices: 42232452--42232486 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
42232442 ATTTATTTAT
42232452 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
42232487 TTCTCCTTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:42233198 original size:20 final size:20
Alignment explanation
Indices: 42233175--42233225 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
42233165 ATGTACGTAT
*
42233175 ATATATAATACTTTCTATAC
1 ATATATAATAATTTCTATAC
* * *
42233195 ATATTTTATAATTTCTATAT
1 ATATATAATAATTTCTATAC
42233215 ATATAT-ATAAT
1 ATATATAATAAT
42233226 CATTATCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATATAATAATTTCTATAC
Found at i:42238377 original size:17 final size:17
Alignment explanation
Indices: 42238348--42238384 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
42238338 ATATATATAT
42238348 ATTTAAAATTT-AATTA
1 ATTTAAAATTTAAATTA
42238364 ATTTAAATATTTAAATTA
1 ATTTAAA-ATTTAAATTA
42238382 ATT
1 ATT
42238385 GAGTCAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 4 0.21
18 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAAATTTAAATTA
Found at i:42249803 original size:12 final size:12
Alignment explanation
Indices: 42249786--42249811 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
42249776 CTTTTCCCTT
42249786 CCATCGGTTCTG
1 CCATCGGTTCTG
42249798 CCATCGGTTCTG
1 CCATCGGTTCTG
42249810 CC
1 CC
42249812 GTCGCTTAAT
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:0.08, C:0.38, G:0.23, T:0.31
Consensus pattern (12 bp):
CCATCGGTTCTG
Found at i:42252660 original size:18 final size:17
Alignment explanation
Indices: 42252638--42252772 Score: 86
Period size: 18 Copynumber: 8.0 Consensus size: 17
42252628 AATACTAAGA
42252638 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
42252655 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
42252671 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
42252685 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* * *
42252704 AGTATTA-TATATTAT-G
1 A-TTTTATTAAATTATAT
*
42252720 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
42252738 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
42252755 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
42252773 TTAATAATAA
Statistics
Matches: 90, Mismatches: 15, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 8 0.09
16 10 0.11
17 18 0.20
18 41 0.46
19 2 0.02
20 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:42252981 original size:44 final size:46
Alignment explanation
Indices: 42252931--42253023 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 46
42252921 TTACACCTCT
* *
42252931 ATTCTATTCAACCAAACACAAGAA-TATC-ATTACGCCTCTATTCC
1 ATTCTATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
* * *
42252975 ATTCTATTCAACCAAATAAAATAATTACCTATTGCGCCTCTATTCC
1 ATTCTATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
42253021 ATT
1 ATT
42253024 ACGCATCTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 21 0.50
45 3 0.07
46 18 0.43
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.33
Consensus pattern (46 bp):
ATTCTATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:42253034 original size:16 final size:16
Alignment explanation
Indices: 42253013--42253058 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
42253003 CTATTGCGCC
*
42253013 TCTATTCCATTACGCA
1 TCTATTCCATTACACA
*
42253029 TCTATTCCATTACACC
1 TCTATTCCATTACACA
42253045 TCTATTCCATTACA
1 TCTATTCCATTACA
42253059 GCGAACCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.26, C:0.33, G:0.02, T:0.39
Consensus pattern (16 bp):
TCTATTCCATTACACA
Found at i:42253100 original size:116 final size:116
Alignment explanation
Indices: 42252967--42253185 Score: 280
Period size: 116 Copynumber: 1.9 Consensus size: 116
42252957 TCATTACGCC
* * * ** * *
42252967 TCTATTCCATTCTATTCAACCAAATAAAAT-AATTACCTATTGCGCCTCTATTCCATTAC-GCAT
1 TCTATTACATTCCATTCAACCAAAT-AAATGAATTACCTATTACAACTCTATTACATTACAAC-T
42253030 CTATTCCATTACACCTCTATTCCATTACAGCGAACCAAACATGCTGTTACAGT
64 CTATTCCATTACACCTCTATTCCATTACAGCGAACCAAACATGCTGTTACAGT
** ** *
42253083 TCTATTACATTCCATTCAACCAAATAGTTGAATTATTTATTACAACTCTATTATATTACAACTCT
1 TCTATTACATTCCATTCAACCAAATAAATGAATTACCTATTACAACTCTATTACATTACAACTCT
* *
42253148 ATTCCATTATAGCTCTATTCCATTACAGCGAACCAAAC
66 ATTCCATTACACCTCTATTCCATTACAGCGAACCAAAC
42253186 GTAGTGTAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
115 2 0.02
116 84 0.97
117 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (116 bp):
TCTATTACATTCCATTCAACCAAATAAATGAATTACCTATTACAACTCTATTACATTACAACTCT
ATTCCATTACACCTCTATTCCATTACAGCGAACCAAACATGCTGTTACAGT
Found at i:42253141 original size:16 final size:15
Alignment explanation
Indices: 42253116--42253150 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
42253106 ATAGTTGAAT
42253116 TATTTATTACAACTC
1 TATTTATTACAACTC
42253131 TATTATATTACAACTC
1 TATT-TATTACAACTC
42253147 TATT
1 TATT
42253151 CCATTATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (15 bp):
TATTTATTACAACTC
Found at i:42253156 original size:16 final size:16
Alignment explanation
Indices: 42253121--42253174 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
42253111 TGAATTATTT
**
42253121 ATTACAACTCTATTAT
1 ATTACAACTCTATTCC
42253137 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
* *
42253153 ATTATAGCTCTATTCC
1 ATTACAACTCTATTCC
42253169 ATTACA
1 ATTACA
42253175 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:42253413 original size:19 final size:19
Alignment explanation
Indices: 42253391--42253428 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
42253381 ATTGATATAT
42253391 CTTATAAAAATAATAAAAA
1 CTTATAAAAATAATAAAAA
* *
42253410 CTTATAAATATTATAAAAA
1 CTTATAAAAATAATAAAAA
42253429 TAAAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
CTTATAAAAATAATAAAAA
Found at i:42253423 original size:28 final size:27
Alignment explanation
Indices: 42253351--42253557 Score: 108
Period size: 28 Copynumber: 7.5 Consensus size: 27
42253341 AAAGAGTTAT
*
42253351 TAAAAATTAAAAATATT-TAAAAATAA
1 TAAAAATTATAAATATTATAAAAATAA
* *
42253377 T-AAAATTGATATATCTTATAAAAATAA
1 TAAAAATT-ATAAATATTATAAAAATAA
42253404 TAAAAACTTATAAATATTATAAAAATAA
1 TAAAAA-TTATAAATATTATAAAAATAA
* *
42253432 -AAATATAATAAAT-TCTA-ACAAATTATAA
1 TAAAAATTATAAATAT-TATA-AAA--ATAA
* * *
42253460 AAAAAATTATAAA-ATTAATAAACATATT
1 TAAAAATTATAAATATT-ATAAAAATA-A
* * *
42253488 TAAAATTTTTAAAATTTTATAAAAACGTAA
1 TAAAAATTAT-AAATATTATAAAAA--TAA
*
42253518 -AAAAATCT-TAAAAACTTATAAAAA-AA
1 TAAAAAT-TATAAATA-TTATAAAAATAA
*
42253544 TTAAAAATCATAAA
1 -TAAAAATTATAAA
42253558 AAGTATTAAA
Statistics
Matches: 138, Mismatches: 21, Indels: 42
0.69 0.10 0.21
Matches are distributed among these distances:
25 8 0.06
26 21 0.15
27 17 0.12
28 46 0.33
29 40 0.29
30 4 0.03
31 2 0.01
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (27 bp):
TAAAAATTATAAATATTATAAAAATAA
Found at i:42253457 original size:34 final size:34
Alignment explanation
Indices: 42253394--42253462 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
42253384 GATATATCTT
*
42253394 ATAAAAATAATAAAAACTTATAAATATTATAAAA
1 ATAAAAATAATAAAAACTTATAAAAATTATAAAA
*
42253428 ATAAAAAT-ATAATAAA-TTCTAACAAATTATAAAA
1 ATAAAAATAATAA-AAACTTATAA-AAATTATAAAA
42253462 A
1 A
42253463 AAATTATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 9 0.29
34 22 0.71
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (34 bp):
ATAAAAATAATAAAAACTTATAAAAATTATAAAA
Found at i:42253547 original size:19 final size:20
Alignment explanation
Indices: 42253507--42253567 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 20
42253497 TAAAATTTTA
* *
42253507 TAAAAACGTA-AAAAAATCT
1 TAAAAACTTATAAAAAATAT
42253526 TAAAAACTTATAAAAAA-AT
1 TAAAAACTTATAAAAAATAT
* *
42253545 TAAAAA-TCATAAAAAGTAT
1 TAAAAACTTATAAAAAATAT
42253564 TAAA
1 TAAA
42253568 TATTATTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 8 0.22
19 22 0.61
20 6 0.17
ACGTcount: A:0.66, C:0.07, G:0.03, T:0.25
Consensus pattern (20 bp):
TAAAAACTTATAAAAAATAT
Found at i:42253592 original size:45 final size:45
Alignment explanation
Indices: 42253536--42253622 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
42253526 TAAAAACTTA
*
42253536 TAAAAAAATTAAAAATCATA-AAAAGTATTAAATATTATTTAATGT
1 TAAAAAAATTAAAAATCATATAAAAGTATAAAAT-TTATTTAATGT
* * **
42253581 TAAAAATATTAAAATTCATATAAACTTATAAAATTTATTTAA
1 TAAAAAAATTAAAAATCATATAAAAGTATAAAATTTATTTAA
42253623 AAAATCATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 26 0.72
46 10 0.28
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.38
Consensus pattern (45 bp):
TAAAAAAATTAAAAATCATATAAAAGTATAAAATTTATTTAATGT
Found at i:42253652 original size:29 final size:29
Alignment explanation
Indices: 42253591--42253735 Score: 80
Period size: 31 Copynumber: 5.2 Consensus size: 29
42253581 TAAAAATATT
* *
42253591 AAAATTCATATAAACTTATAAA-ATTTATTTA
1 AAAAATCATAAAAACTTATAAATA-TTA--TA
42253622 AAAAATCATAAAAACTTATAAATATTATA
1 AAAAATCATAAAAACTTATAAATATTATA
* *
42253651 AAAAATTC-TAATAATTTATTAAA-ACTT-TA
1 AAAAA-TCATAAAAACTTA-TAAATA-TTATA
** * *
42253680 TGAAATTAT-TAAA---AT--ATATT-TA
1 AAAAATCATAAAAACTTATAAATATTATA
42253702 AAAAATCAT-AAAACTTATAAATATTATA
1 AAAAATCATAAAAACTTATAAATATTATA
42253730 AAAAAT
1 AAAAAT
42253736 TCTAATAATT
Statistics
Matches: 89, Mismatches: 13, Indels: 27
0.69 0.10 0.21
Matches are distributed among these distances:
22 14 0.16
23 1 0.01
24 1 0.01
25 3 0.03
27 5 0.06
28 11 0.12
29 22 0.25
30 8 0.09
31 23 0.26
32 1 0.01
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.37
Consensus pattern (29 bp):
AAAAATCATAAAAACTTATAAATATTATA
Done.