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 61 of 216
Found at i:18005542 original size:26 final size:26
Alignment explanation
Indices: 18005506--18005597 Score: 78
Period size: 26 Copynumber: 3.4 Consensus size: 26
18005496 TCACCATGTA
18005506 ACATTTATATATTATCAAATTTAATG
1 ACATTTATATATTATCAAATTTAATG
** * *
18005532 ACATTTATATAAAATTC-CATTCATCATG
1 ACATTTATATATTA-TCAAATT--TAATG
* *
18005560 TAACATTGATATATTATCAAATTTAACG
1 --ACATTTATATATTATCAAATTTAATG
18005588 ACATTTATAT
1 ACATTTATAT
18005598 GCTTATAGAC
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
26 24 0.49
27 2 0.04
28 7 0.14
29 2 0.04
30 14 0.29
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.42
Consensus pattern (26 bp):
ACATTTATATATTATCAAATTTAATG
Found at i:18005566 original size:30 final size:30
Alignment explanation
Indices: 18005486--18005572 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 30
18005476 TATATTCACA
*
18005486 AAAATTCCATTCACCATGTAACATTTATAT
1 AAAATTCCATTCATCATGTAACATTTATAT
** * *
18005516 ATTA-TCAAATT--TAATG--ACATTTATAT
1 AAAATTC-CATTCATCATGTAACATTTATAT
*
18005542 AAAATTCCATTCATCATGTAACATTGATAT
1 AAAATTCCATTCATCATGTAACATTTATAT
18005572 A
1 A
18005573 TTATCAAATT
Statistics
Matches: 41, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
26 15 0.37
27 2 0.05
28 7 0.17
29 2 0.05
30 15 0.37
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (30 bp):
AAAATTCCATTCATCATGTAACATTTATAT
Found at i:18005572 original size:56 final size:56
Alignment explanation
Indices: 18005486--18005597 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
18005476 TATATTCACA
* *
18005486 AAAATTCCATTCACCATGTAACATTTATATATTATCAAATTTAATGACATTTATAT
1 AAAATTCCATTCACCATGTAACATTGATATATTATCAAATTTAACGACATTTATAT
*
18005542 AAAATTCCATTCATCATGTAACATTGATATATTATCAAATTTAACGACATTTATAT
1 AAAATTCCATTCACCATGTAACATTGATATATTATCAAATTTAACGACATTTATAT
18005598 GCTTATAGAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.40
Consensus pattern (56 bp):
AAAATTCCATTCACCATGTAACATTGATATATTATCAAATTTAACGACATTTATAT
Found at i:18009997 original size:41 final size:40
Alignment explanation
Indices: 18009952--18010051 Score: 101
Period size: 42 Copynumber: 2.4 Consensus size: 40
18009942 TCCCAGATAG
* *
18009952 GGTCTTACACGAAACAAATACAATGCCAATGTCCCAAACAT
1 GGTCTTACACGAAACAAAT-CAATGCCAACGTACCAAACAT
* * * * *
18009993 GGTCTTATACGTAACACAAGTCGATGCCAACGTACCAGACGT
1 GGTCTTACACG-AA-ACAAATCAATGCCAACGTACCAAACAT
18010035 GGTCTTACACGAGAACA
1 GGTCTTACACGA-AACA
18010052 TATATTAGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
41 14 0.29
42 29 0.60
43 5 0.10
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (40 bp):
GGTCTTACACGAAACAAATCAATGCCAACGTACCAAACAT
Found at i:18010930 original size:32 final size:32
Alignment explanation
Indices: 18010868--18011020 Score: 130
Period size: 32 Copynumber: 4.8 Consensus size: 32
18010858 TTGCCAGTAG
* * * *
18010868 TATGATCGGCACAAAACCATTAGCAGCAGTGA
1 TATGATCGGCACAAAGCCATCAGTAACAGTGA
* *
18010900 TATGATCGGCACACAGTCATCAGTAACAGTGA
1 TATGATCGGCACAAAGCCATCAGTAACAGTGA
* * * * ** * *
18010932 AATGATTGGCACACAGACATTGGTAATAGTAA
1 TATGATCGGCACAAAGCCATCAGTAACAGTGA
* *
18010964 TATGATCGGCATAAAGCCATCAGTAA-TGAT-A
1 TATGATCGGCACAAAGCCATCAGTAACAG-TGA
18010995 CTATGATCGGCACAAAGCCATCAGTA
1 -TATGATCGGCACAAAGCCATCAGTA
18011021 GCATCACAGC
Statistics
Matches: 97, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
31 2 0.02
32 95 0.98
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (32 bp):
TATGATCGGCACAAAGCCATCAGTAACAGTGA
Found at i:18011094 original size:27 final size:27
Alignment explanation
Indices: 18011064--18011128 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
18011054 AAGAAAGCTG
18011064 CCAGTAATAGT-ATATGTGGCCA-AGACA
1 CCAGTAATAGTAAT-TGTGG-CAGAGACA
* *
18011091 CCAGTAACAGTAATTGTGGCAGAGCCA
1 CCAGTAATAGTAATTGTGGCAGAGACA
18011118 CCAGT-ATAGTA
1 CCAGTAATAGTA
18011129 CTTCCTTCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
26 7 0.21
27 24 0.73
28 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (27 bp):
CCAGTAATAGTAATTGTGGCAGAGACA
Found at i:18011218 original size:24 final size:23
Alignment explanation
Indices: 18011191--18011273 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
18011181 GCCATGCTCA
18011191 AAATCAATCATTCAAATCACAAAC
1 AAATCAATCATTCAAA-CACAAAC
* * *
18011215 AAATCAGTCATACCAAACACAGAC
1 AAATCAATCAT-TCAAACACAAAC
* * *
18011239 AAATCAGTCATTTAACCACAAAC
1 AAATCAATCATTCAAACACAAAC
*
18011262 AAAACAATCATT
1 AAATCAATCATT
18011274 TGACCTCGAG
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
23 18 0.37
24 27 0.55
25 4 0.08
ACGTcount: A:0.52, C:0.25, G:0.04, T:0.19
Consensus pattern (23 bp):
AAATCAATCATTCAAACACAAAC
Found at i:18011339 original size:27 final size:27
Alignment explanation
Indices: 18011262--18011329 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
18011252 AACCACAAAC
* *
18011262 AAAACAATCATTTGACCTCGAGGGGCA
1 AAAATAATCATTTAACCTCGAGGGGCA
*
18011289 AAAATAATCATTTAACCTTGAGGGGCA
1 AAAATAATCATTTAACCTCGAGGGGCA
*
18011316 AAAATAGTCATTTA
1 AAAATAATCATTTA
18011330 CCTACCAGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (27 bp):
AAAATAATCATTTAACCTCGAGGGGCA
Found at i:18011341 original size:26 final size:27
Alignment explanation
Indices: 18011262--18011339 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
18011252 AACCACAAAC
* * *
18011262 AAAACAATCATTTGACCTCGAGGGGCA
1 AAAATAATCATTTAACCTCCAGGGGCA
**
18011289 AAAATAATCATTTAACCTTGAGGGGCA
1 AAAATAATCATTTAACCTCCAGGGGCA
*
18011316 AAAATAGTCATTT-ACCTACCAGGG
1 AAAATAATCATTTAACCT-CCAGGG
18011340 CATTACGGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.09
27 40 0.91
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
AAAATAATCATTTAACCTCCAGGGGCA
Found at i:18011530 original size:27 final size:27
Alignment explanation
Indices: 18011336--18011726 Score: 278
Period size: 27 Copynumber: 14.5 Consensus size: 27
18011326 TTTACCTACC
* * **
18011336 AGGGCATTACGGTCATTTTACCCTACA
1 AGGGTATTTCGGTCATTTTACCCTATG
* * * *
18011363 AGGGTATTACAGTTATTTTACCCT-TAC
1 AGGGTATTTCGGTCATTTTACCCTAT-G
* *
18011390 AGGGGCATTACGGTCATTTTACCCTAT-
1 A-GGGTATTTCGGTCATTTTACCCTATG
* *
18011417 AGGGGTATTACGGTCATTTTACCCTA-C
1 A-GGGTATTTCGGTCATTTTACCCTATG
* * **
18011444 AGGGGCATTACGGTCATTTTACCCTACA
1 A-GGGTATTTCGGTCATTTTACCCTATG
* * *
18011472 AGGGTATTACGGTCATTTTACCCGA-C
1 AGGGTATTTCGGTCATTTTACCCTATG
* *
18011498 AGGGGTATTACGGTTATTTTACCCTATG
1 A-GGGTATTTCGGTCATTTTACCCTATG
* * *
18011526 AGGGTGTTTCAGT-ATTCTACCCTATG
1 AGGGTATTTCGGTCATTTTACCCTATG
** *
18011552 AGGGTATTTTAGTCATTTTAGCCTATG
1 AGGGTATTTCGGTCATTTTACCCTATG
** * *
18011579 AGGGTATTTCAAT-ATTCTACCCTACG
1 AGGGTATTTCGGTCATTTTACCCTATG
* *
18011605 GGGGTATTTTGGTCATTTTACCC-ATCG
1 AGGGTATTTCGGTCATTTTACCCTAT-G
* *
18011632 AGGATATTTCGATCATTTTA-CCTATCG
1 AGGGTATTTCGGTCATTTTACCCTAT-G
* * *
18011659 AGGGTATTTTGGTCATTTTATCCGT-CG
1 AGGGTATTTCGGTCATTTTA-CCCTATG
* * *
18011686 AGGGCATTTTGGTCATTTTACCCTTTG
1 AGGGTATTTCGGTCATTTTACCCTATG
18011713 AGGGTATTTCGGTC
1 AGGGTATTTCGGTC
18011727 CATATATCGA
Statistics
Matches: 300, Mismatches: 50, Indels: 28
0.79 0.13 0.07
Matches are distributed among these distances:
26 49 0.16
27 226 0.75
28 22 0.07
29 3 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGGTCATTTTACCCTATG
Found at i:18011548 original size:26 final size:26
Alignment explanation
Indices: 18011512--18011613 Score: 123
Period size: 26 Copynumber: 3.9 Consensus size: 26
18011502 GTATTACGGT
* *
18011512 TATTTTACCCTATGAGGGTGTTTCAG
1 TATTCTACCCTATGAGGGTATTTCAG
*
18011538 TATTCTACCCTATGAGGGTATTTTAG
1 TATTCTACCCTATGAGGGTATTTCAG
* * *
18011564 TCATTTTAGCCTATGAGGGTATTTCAA
1 T-ATTCTACCCTATGAGGGTATTTCAG
* *
18011591 TATTCTACCCTACGGGGGTATTT
1 TATTCTACCCTATGAGGGTATTT
18011614 TGGTCATTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 42 0.66
27 22 0.34
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.41
Consensus pattern (26 bp):
TATTCTACCCTATGAGGGTATTTCAG
Found at i:18018949 original size:27 final size:27
Alignment explanation
Indices: 18018911--18018963 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
18018901 GATCACCAAT
* *
18018911 AGGTTTGGCGAGTTGGAGTTTGCCAGA
1 AGGTTTGGCGAGATAGAGTTTGCCAGA
*
18018938 AGGTTTGGCGAGATAGTGTTTGCCAG
1 AGGTTTGGCGAGATAGAGTTTGCCAG
18018964 CAAGTCTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.11, G:0.40, T:0.30
Consensus pattern (27 bp):
AGGTTTGGCGAGATAGAGTTTGCCAGA
Found at i:18028706 original size:27 final size:27
Alignment explanation
Indices: 18028664--18028817 Score: 152
Period size: 27 Copynumber: 5.7 Consensus size: 27
18028654 CGAAAAGTTT
* * * *
18028664 GTAAAATTAGCAAAATACACTCGACGG
1 GTAAAATTACCGAAATACCCTCGAAGG
18028691 GTAAAATTACCGAAATATCCCT-GAAGG
1 GTAAAATTACCGAAATA-CCCTCGAAGG
** *
18028718 GTAAAATTATTGAAATACCCCCGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* * *
18028745 GTGAAACTATCC-AAATACCCCCGAAGG
1 GTAAAATTA-CCGAAATACCCTCGAAGG
*
18028772 GTAAAATTATCGAAATACCCTC-AATGG
1 GTAAAATTACCGAAATACCCTCGAA-GG
*
18028799 GTAAAATTACCAAAATACC
1 GTAAAATTACCGAAATACC
18028818 TCTGTAAGGT
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
26 6 0.06
27 96 0.91
28 3 0.03
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTCGAAGG
Found at i:18028734 original size:54 final size:52
Alignment explanation
Indices: 18028664--18028832 Score: 171
Period size: 54 Copynumber: 3.1 Consensus size: 52
18028654 CGAAAAGTTT
* * * *
18028664 GTAAAATTAGCAAAATACACTCGACGGGTAAAATTACCGAAATATCCCTGAAGG
1 GTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACC-AAATA-CCCTGAAGG
* * * * *
18028718 GTAAAATTATTGAAATACCCCCGAAGGGTGAAACTATCCAAATACCCCCGAAGG
1 GTAAAATTATCGAAATACCCTCGAAGGGTAAAATTA-CCAAATA-CCCTGAAGG
18028772 GTAAAATTATCGAAATACCCTC-AATGGGTAAAATTACCAAAATACCTCTGTAA-G
1 GTAAAATTATCGAAATACCCTCGAA-GGGTAAAATTACC-AAATACC-CTG-AAGG
18028826 GTAAAAT
1 GTAAAAT
18028833 GACTGTTATA
Statistics
Matches: 95, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
53 6 0.06
54 85 0.89
55 4 0.04
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.22
Consensus pattern (52 bp):
GTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCAAATACCCTGAAGG
Found at i:18029339 original size:33 final size:33
Alignment explanation
Indices: 18029280--18029342 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
18029270 AGGCTGATGG
**
18029280 GGGCTAAGGCCCATTTGCTACCATTACTGTATT
1 GGGCTAAGGCCCAACTGCTACCATTACTGTATT
*
18029313 GGGCTAAGGCCCACACTG-TACTATTACTGT
1 GGGCTAAGGCCCA-ACTGCTACCATTACTGT
18029343 TAAGGGCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 24 0.92
34 2 0.08
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.30
Consensus pattern (33 bp):
GGGCTAAGGCCCAACTGCTACCATTACTGTATT
Found at i:18031983 original size:25 final size:25
Alignment explanation
Indices: 18031955--18032003 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
18031945 GTAGTGGCAA
18031955 GGTGGCGACACAGGTGTGGTAAGGT
1 GGTGGCGACACAGGTGTGGTAAGGT
* *
18031980 GGTGGCGTCATAGGTGTGGTAAGG
1 GGTGGCGACACAGGTGTGGTAAGG
18032004 AGGTTATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.18, C:0.10, G:0.49, T:0.22
Consensus pattern (25 bp):
GGTGGCGACACAGGTGTGGTAAGGT
Found at i:18033462 original size:27 final size:26
Alignment explanation
Indices: 18033416--18033665 Score: 193
Period size: 27 Copynumber: 9.3 Consensus size: 26
18033406 CAGAAAGGTT
* *
18033416 GTAAAATTAGCGAAATACCCTCGATGG
1 GTAAAATTA-CCAAATACCCTCGAAGG
*
18033443 GTAAAATTATCCAAACACCC-CTGAAGG
1 GTAAAATTA-CCAAATACCCTC-GAAGG
* * *
18033470 GTAAAATTACCGAAATACCCTTGATGA
1 GTAAAATTACC-AAATACCCTCGAAGG
* *
18033497 GTAAAATTACTAAAATACCCTCGATGG
1 GTAAAATTAC-CAAATACCCTCGAAGG
*
18033524 GTAAAATTACCAAAATACCC-CTGAAGT
1 GTAAAATTACC-AAATACCCTC-GAAGG
*
18033551 GTAAAATTATCGAAATAACCC-CGAAGG
1 GTAAAATTA-CCAAAT-ACCCTCGAAGG
** *
18033578 GTAAAGCTACCGAAATACCCTTGAAGG
1 GTAAAATTACC-AAATACCCTCGAAGG
** *
18033605 GTAAAATTATTGAAATACCCTCGATGG
1 GTAAAATTA-CCAAATACCCTCGAAGG
* *
18033632 GTAAAATTATCAAAATACCCCCGTAA-G
1 GTAAAATTA-CCAAATACCCTCG-AAGG
18033659 GTAAAAT
1 GTAAAAT
18033666 GGTTGTTATA
Statistics
Matches: 181, Mismatches: 30, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
26 9 0.05
27 165 0.91
28 7 0.04
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (26 bp):
GTAAAATTACCAAATACCCTCGAAGG
Found at i:18033582 original size:81 final size:80
Alignment explanation
Indices: 18033416--18033665 Score: 254
Period size: 81 Copynumber: 3.1 Consensus size: 80
18033406 CAGAAAGGTT
* * * *
18033416 GTAAAATTAGCGAAATACCCTCGATGGGTAAAATTATCCAAACACCCCTGAAGGGTAAAATTACC
1 GTAAAATTACCAAAATACCCTCGATGGGTAAAATTA-CCAAATACCCCTGAAGGGTAAAATTATC
* * *
18033481 GAAAT-ACCCTTGATGA
65 GAAATAACCC-CGAAGG
* *
18033497 GTAAAATTACTAAAATACCCTCGATGGGTAAAATTACCAAAATACCCCTGAAGTGTAAAATTATC
1 GTAAAATTACCAAAATACCCTCGATGGGTAAAATTACC-AAATACCCCTGAAGGGTAAAATTATC
18033562 GAAATAACCCCGAAGG
65 GAAATAACCCCGAAGG
** * * * ** *
18033578 GTAAAGCTACCGAAATACCCTTGAAGGGTAAAATTATTGAAATA-CCCTCGATGGGTAAAATTAT
1 GTAAAATTACCAAAATACCCTCGATGGGTAAAATTA-CCAAATACCCCT-GAAGGGTAAAATTAT
* *
18033642 CAAAATACCCCCGTAA-G
64 CGAAATAACCCCG-AAGG
18033659 GTAAAAT
1 GTAAAAT
18033666 GGTTGTTATA
Statistics
Matches: 141, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
80 6 0.04
81 129 0.91
82 6 0.04
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (80 bp):
GTAAAATTACCAAAATACCCTCGATGGGTAAAATTACCAAATACCCCTGAAGGGTAAAATTATCG
AAATAACCCCGAAGG
Found at i:18033678 original size:54 final size:53
Alignment explanation
Indices: 18033416--18033665 Score: 227
Period size: 54 Copynumber: 4.6 Consensus size: 53
18033406 CAGAAAGGTT
* * * ** * *
18033416 GTAAAATTAGCGAAATA-CCCTCGATGGGTAAAATTATCCAAACACCC-CTGAAGG
1 GTAAAATTACCAAAATACCCCT-GA-AGGTAAAATTATTGAAATACCCTC-GATGG
* * * * *
18033470 GTAAAATTACCGAAATACCCTTGATGAGTAAAATTACTAAAATACCCTCGATGG
1 GTAAAATTACCAAAATACCCCTGAAG-GTAAAATTATTGAAATACCCTCGATGG
* *
18033524 GTAAAATTACCAAAATACCCCTGAAGTGTAAAATTATCGAAATAACCC-CGAAGG
1 GTAAAATTACCAAAATACCCCTGAAG-GTAAAATTATTGAAAT-ACCCTCGATGG
** * *
18033578 GTAAAGCTACCGAAATACCCTTGAAGGGTAAAATTATTGAAATACCCTCGATGG
1 GTAAAATTACCAAAATACCCCTGAA-GGTAAAATTATTGAAATACCCTCGATGG
* *
18033632 GTAAAATTATCAAAATACCCCCGTAAGGTAAAAT
1 GTAAAATTACCAAAATACCCCTG-AAGGTAAAAT
18033666 GGTTGTTATA
Statistics
Matches: 161, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
53 5 0.03
54 145 0.90
55 11 0.07
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (53 bp):
GTAAAATTACCAAAATACCCCTGAAGGTAAAATTATTGAAATACCCTCGATGG
Found at i:18040869 original size:77 final size:77
Alignment explanation
Indices: 18040772--18040928 Score: 296
Period size: 77 Copynumber: 2.0 Consensus size: 77
18040762 TAAGGCTAAA
18040772 ATCATACAAGCATTCCATTCTTCATGATAATATACTTTCACTTAGATAAAATCATCATTCATACT
1 ATCATACAAGCATTCCATTCTTCATGATAATATACTTTCACTTAGATAAAATCATCATTCATACT
18040837 TGCATACAAACT
66 TGCATACAAACT
*
18040849 ATCATACAAGCATTTCATTCTTCATGATAATATACTTTCACTTAGATAAAATCATCATTCATACT
1 ATCATACAAGCATTCCATTCTTCATGATAATATACTTTCACTTAGATAAAATCATCATTCATACT
*
18040914 TGCATGCAAACT
66 TGCATACAAACT
18040926 ATC
1 ATC
18040929 TTAGTAACAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.36
Consensus pattern (77 bp):
ATCATACAAGCATTCCATTCTTCATGATAATATACTTTCACTTAGATAAAATCATCATTCATACT
TGCATACAAACT
Found at i:18040907 original size:40 final size:40
Alignment explanation
Indices: 18040787--18040908 Score: 112
Period size: 40 Copynumber: 3.1 Consensus size: 40
18040777 ACAAGCATTC
18040787 CATTCTTCATGATAATATACTTTCACTTAGATAAAATCAT
1 CATTCTTCATGATAATATACTTTCACTTAGATAAAATCAT
* * * * ** *
18040827 CATTCATACTTGCATACA-A-ACTATCA--TACA-AGCAT-TT
1 CATTC-TTCATG-ATA-ATATACTTTCACTTAGATAAAATCAT
18040864 CATTCTTCATGATAATATACTTTCACTTAGATAAAATCAT
1 CATTCTTCATGATAATATACTTTCACTTAGATAAAATCAT
18040904 CATTC
1 CATTC
18040909 ATACTTGCAT
Statistics
Matches: 59, Mismatches: 14, Indels: 18
0.65 0.15 0.20
Matches are distributed among these distances:
34 1 0.02
35 4 0.07
36 10 0.17
37 6 0.10
38 6 0.10
39 6 0.10
40 11 0.19
41 10 0.17
42 4 0.07
43 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (40 bp):
CATTCTTCATGATAATATACTTTCACTTAGATAAAATCAT
Found at i:18056284 original size:27 final size:28
Alignment explanation
Indices: 18056229--18056285 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
18056219 TAAGTGGTTC
* *
18056229 AACGAGCATGAAAAAGGGAAGGAATGGT
1 AACGAGCATGAAAAAGGGAAAGAACGGT
18056257 AACGAGCATG-AAAAGGGAAAGAACGGT
1 AACGAGCATGAAAAAGGGAAAGAACGGT
18056284 AA
1 AA
18056286 GTATTCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.49, C:0.09, G:0.33, T:0.09
Consensus pattern (28 bp):
AACGAGCATGAAAAAGGGAAAGAACGGT
Found at i:18056842 original size:20 final size:21
Alignment explanation
Indices: 18056813--18056862 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
18056803 TAAGTTATGC
*
18056813 TAAGTTAATGAAATGG-AAAA
1 TAAGTAAATGAAATGGTAAAA
*
18056833 TAAGTAAATGGAATGGTAAAA
1 TAAGTAAATGAAATGGTAAAA
*
18056854 -AGGTAAATG
1 TAAGTAAATG
18056863 GAGTGGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (21 bp):
TAAGTAAATGAAATGGTAAAA
Found at i:18079108 original size:20 final size:20
Alignment explanation
Indices: 18079083--18079144 Score: 88
Period size: 20 Copynumber: 3.1 Consensus size: 20
18079073 TTGTACGGGA
18079083 TTTTCACTTTGGTGCCCCTG
1 TTTTCACTTTGGTGCCCCTG
*
18079103 TTTTCACTTCGGTGCCCCTG
1 TTTTCACTTTGGTGCCCCTG
* * *
18079123 TATACACTTTGGTGTCCCTG
1 TTTTCACTTTGGTGCCCCTG
18079143 TT
1 TT
18079145 CGCACTACGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.08, C:0.29, G:0.19, T:0.44
Consensus pattern (20 bp):
TTTTCACTTTGGTGCCCCTG
Found at i:18080837 original size:32 final size:33
Alignment explanation
Indices: 18080759--18080844 Score: 115
Period size: 32 Copynumber: 2.7 Consensus size: 33
18080749 GTATATTTTT
18080759 TATATATTGCCGAATTGA-TT-TATATGTAGATA
1 TATATATTGCCGAATTGATTTGTATATGTA-ATA
* **
18080791 TATACATTTTCGAATTGATTTGTATATGT-ATA
1 TATATATTGCCGAATTGATTTGTATATGTAATA
18080823 TATATATTGCCGAATTGATTTG
1 TATATATTGCCGAATTGATTTG
18080845 AGATTCCGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
32 37 0.80
33 2 0.04
34 7 0.15
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (33 bp):
TATATATTGCCGAATTGATTTGTATATGTAATA
Found at i:18080922 original size:48 final size:48
Alignment explanation
Indices: 18080839--18081021 Score: 241
Period size: 48 Copynumber: 3.9 Consensus size: 48
18080829 TTGCCGAATT
* *
18080839 GATTTGAGATTCCGTATAAGACCATA-CCTGAGATATGGCATCGGCATC
1 GATTTGAGATCCCGTATAAGACCATATCTTG-GATATGGCATCGGCATC
*
18080887 GATTTGAGATCCCGTATAAGATCATATCTTGGATATGGCAT---CA-C
1 GATTTGAGATCCCGTATAAGACCATATCTTGGATATGGCATCGGCATC
* * * * *
18080931 GATTTGAGATCTCGTATAAGACTATATCTAGGATATGACATCAGCATC
1 GATTTGAGATCCCGTATAAGACCATATCTTGGATATGGCATCGGCATC
*
18080979 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCG
1 GATTTGAGATCCCGTATAAGACCATATCTTGGATATGGCATCG
18081022 ATATGAGACT
Statistics
Matches: 117, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
44 37 0.32
45 2 0.02
47 2 0.02
48 73 0.62
49 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (48 bp):
GATTTGAGATCCCGTATAAGACCATATCTTGGATATGGCATCGGCATC
Found at i:18080996 original size:92 final size:92
Alignment explanation
Indices: 18080839--18081046 Score: 282
Period size: 92 Copynumber: 2.3 Consensus size: 92
18080829 TTGCCGAATT
* *
18080839 GATTTGAGATTCCGTATAAGACCATACCTGAGATATGGCATCGGCATCGATTTGAGATCCCGTAT
1 GATTTGAGATTCCGTATAAGACCATACCTGAGATATGACATCAGCATCGATTTGAGATCCCGTAT
* *
18080904 AAGATCATATCTTGGATATGGCATCAC
66 AAGACCATATCTGGGATATGGCATCAC
* *
18080931 GATTTGAGA-TCTCGTATAAGACTATATCT-AGGATATGACATCAGCATCGATTTGAGATCCCGT
1 GATTTGAGATTC-CGTATAAGACCATACCTGA-GATATGACATCAGCATCGATTTGAGATCCCGT
18080994 ATAAGACCATATCTGGGATATGGCAT--C
64 ATAAGACCATATCTGGGATATGGCATCAC
* *
18081021 GATATGAGACTT-CGTGTAAGACCATA
1 GATTTGAGA-TTCCGTATAAGACCATA
18081047 GCTGGGCTAT
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
90 21 0.20
91 3 0.03
92 79 0.77
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (92 bp):
GATTTGAGATTCCGTATAAGACCATACCTGAGATATGACATCAGCATCGATTTGAGATCCCGTAT
AAGACCATATCTGGGATATGGCATCAC
Found at i:18081041 original size:42 final size:42
Alignment explanation
Indices: 18080881--18081073 Score: 190
Period size: 42 Copynumber: 4.4 Consensus size: 42
18080871 ATATGGCATC
* * *
18080881 GGCATCGATTTGAGATCCCGTATAAGATCATATCTTGGATAT
1 GGCATCGATTTGAGATCTCGTATAAGACCATATCTGGGATAT
* *
18080923 GGCATCACGATTTGAGATCTCGTATAAGACTATATCTAGGATAT
1 GGCAT--CGATTTGAGATCTCGTATAAGACCATATCTGGGATAT
*
18080967 GACATCAGCATCGATTTGAGATCCCGTATAAGACCATATCTGGGATAT
1 G------GCATCGATTTGAGATCTCGTATAAGACCATATCTGGGATAT
* * * *
18081015 GGCATCGATATGAGA-CTTCGTGTAAGACCATAGCTGGGCTATT
1 GGCATCGATTTGAGATC-TCGTATAAGACCATATCTGGGATA-T
*
18081058 GGCATCGATATGAGAT
1 GGCATCGATTTGAGAT
18081074 TCCCATGTAA
Statistics
Matches: 128, Mismatches: 12, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.01
42 38 0.30
43 16 0.12
44 34 0.27
48 35 0.27
50 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (42 bp):
GGCATCGATTTGAGATCTCGTATAAGACCATATCTGGGATAT
Found at i:18081096 original size:44 final size:42
Alignment explanation
Indices: 18080974--18081097 Score: 137
Period size: 42 Copynumber: 2.9 Consensus size: 42
18080964 TATGACATCA
* * *
18080974 GCATCGATTTGAGA-TCCCGTATAAGACCATATCTGGGATATG
1 GCATCGATATGAGATTCCCGTGTAAGACCAT-GCTGGGATATG
*
18081016 GCATCGATATGAGACTT--CGTGTAAGACCATAGCTGGGCTATTG
1 GCATCGATATGAGA-TTCCCGTGTAAGACCAT-GCTGGGATA-TG
*
18081059 GCATCGATATGAGATTCCCATGTAAGACCATGCCTGGGA
1 GCATCGATATGAGATTCCCGTGTAAGACCATG-CTGGGA
18081098 CATGACATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 35 0.50
43 17 0.24
44 18 0.26
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (42 bp):
GCATCGATATGAGATTCCCGTGTAAGACCATGCTGGGATATG
Found at i:18084406 original size:24 final size:25
Alignment explanation
Indices: 18084351--18084408 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
18084341 TCATCCACCA
* *
18084351 GCTATATAAAATCTATGGTTTAATT
1 GCTATTTAAAACCTATGGTTTAATT
* * *
18084376 ACCATTTAAAACCTTTGG-TTAATT
1 GCTATTTAAAACCTATGGTTTAATT
18084400 GCTATTTAA
1 GCTATTTAA
18084409 GTCCCTAAGT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (25 bp):
GCTATTTAAAACCTATGGTTTAATT
Found at i:18090409 original size:9 final size:9
Alignment explanation
Indices: 18090397--18090495 Score: 55
Period size: 9 Copynumber: 11.0 Consensus size: 9
18090387 ATTAATAAAA
18090397 TTATATATT
1 TTATATATT
18090406 TTAT-TAATT
1 TTATAT-ATT
*
18090415 TTA-A-ATC
1 TTATATATT
*
18090422 ATA-ATATT
1 TTATATATT
18090430 TTAT-TATT
1 TTATATATT
18090438 TTATATATT
1 TTATATATT
*
18090447 TAATATATT
1 TTATATATT
* *
18090456 TAATATAAAT
1 TTATAT-ATT
*
18090466 TTATACCATT
1 TTATA-TATT
18090476 TTATAGATATT
1 TTAT--ATATT
*
18090487 TTATTTATT
1 TTATATATT
18090496 ATATTAATAC
Statistics
Matches: 70, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
7 5 0.07
8 13 0.19
9 32 0.46
10 12 0.17
11 7 0.10
12 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (9 bp):
TTATATATT
Found at i:18090419 original size:24 final size:24
Alignment explanation
Indices: 18090392--18090440 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
18090382 TAAATATTAA
*
18090392 TAAAATTAT-ATATTTTATTAATTT
1 TAAAATCATAATATTTTATT-ATTT
18090416 T-AAATCATAATATTTTATTATTT
1 TAAAATCATAATATTTTATTATTT
18090439 TA
1 TA
18090441 TATATTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TAAAATCATAATATTTTATTATTT
Found at i:18096747 original size:6 final size:6
Alignment explanation
Indices: 18096736--18096768 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
18096726 GGGTTTGGGA
18096736 GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTG
1 GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTG
18096769 AAAATTAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.67, T:0.18
Consensus pattern (6 bp):
GTGGAG
Found at i:18098535 original size:3 final size:3
Alignment explanation
Indices: 18098529--18098560 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18098519 TTACAATACC
18098529 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18098561 GGAGAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18099196 original size:16 final size:17
Alignment explanation
Indices: 18099157--18099200 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
18099147 ATTTTCTTAT
*
18099157 AAAATAAAAAAAATCAA
1 AAAATAGAAAAAATCAA
*
18099174 AAGAATAGAAAATAT-AA
1 AA-AATAGAAAAAATCAA
18099191 AAAATAGAAA
1 AAAATAGAAA
18099201 CTCGATTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.33
17 6 0.25
18 10 0.42
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (17 bp):
AAAATAGAAAAAATCAA
Found at i:18099887 original size:15 final size:15
Alignment explanation
Indices: 18099867--18099911 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
18099857 CCAACCCTTA
18099867 ATTATTTTAATTTAT
1 ATTATTTTAATTTAT
18099882 ATTATTTTTAATTTAAT
1 ATTA-TTTTAATTT-AT
18099899 ATT-TTTT-ATTTAT
1 ATTATTTTAATTTAT
18099912 TAATATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.07
14 4 0.14
15 8 0.29
16 9 0.32
17 5 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTATTTTAATTTAT
Found at i:18099897 original size:21 final size:22
Alignment explanation
Indices: 18099867--18099924 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 22
18099857 CCAACCCTTA
*
18099867 ATTATTTTAAT-TTATATTATTT
1 ATTAATTTAATATT-TATTATTT
*
18099889 -TTAATTTAATATTTTTTATTT
1 ATTAATTTAATATTTATTATTT
18099910 ATTAATATTATATAT
1 ATTAAT-TTA-ATAT
18099925 AGTCATCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 16 0.53
22 7 0.23
23 3 0.10
24 4 0.13
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
ATTAATTTAATATTTATTATTT
Found at i:18099903 original size:14 final size:16
Alignment explanation
Indices: 18099867--18099911 Score: 60
Period size: 14 Copynumber: 3.0 Consensus size: 16
18099857 CCAACCCTTA
18099867 ATTA-TTTTAATTTAT
1 ATTATTTTTAATTTAT
18099882 ATTATTTTTAATTTA-
1 ATTATTTTTAATTTAT
*
18099897 A-TATTTTTTATTTAT
1 ATTATTTTTAATTTAT
18099912 TAATATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 12 0.44
15 5 0.19
16 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTATTTTTAATTTAT
Found at i:18100262 original size:3 final size:3
Alignment explanation
Indices: 18100254--18100286 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
18100244 ATTATCCTTT
18100254 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18100287 ACAATTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18111042 original size:17 final size:17
Alignment explanation
Indices: 18111022--18111055 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
18111012 TCGATAGGAG
18111022 ATCAGATTACTCATTGT
1 ATCAGATTACTCATTGT
18111039 ATCAGATTACTCATTGT
1 ATCAGATTACTCATTGT
18111056 CGAGGCTTCG
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:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (17 bp):
ATCAGATTACTCATTGT
Found at i:18112831 original size:15 final size:17
Alignment explanation
Indices: 18112811--18112843 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18112801 TTTTTGTCTC
18112811 AATAAT-AAT-GTTTTA
1 AATAATAAATAGTTTTA
18112826 AATAATAAATAGTTTTA
1 AATAATAAATAGTTTTA
18112843 A
1 A
18112844 GCATCATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
AATAATAAATAGTTTTA
Found at i:18122461 original size:57 final size:59
Alignment explanation
Indices: 18122365--18122486 Score: 221
Period size: 58 Copynumber: 2.1 Consensus size: 59
18122355 GAGTGTTTGG
*
18122365 AATTTCGTGACATGGTTTATCGATAATTTTTTTTACTATTGTTTTTAGAAAATTAAAT-
1 AATTTCGTGACATGGTTTATCGATAATTTTTTTTACTATTATTTTTAGAAAATTAAATA
18122423 AATTTCGTGACATGGTTTATCGATAA-TTTTTTTACTATTATTTTTAGAAAATTAAATA
1 AATTTCGTGACATGGTTTATCGATAATTTTTTTTACTATTATTTTTAGAAAATTAAATA
18122481 AATTTC
1 AATTTC
18122487 TAAAAATTAT
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
57 30 0.48
58 32 0.52
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (59 bp):
AATTTCGTGACATGGTTTATCGATAATTTTTTTTACTATTATTTTTAGAAAATTAAATA
Found at i:18130392 original size:20 final size:20
Alignment explanation
Indices: 18130367--18130429 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
18130357 ACCACTCCAT
* *
18130367 TTACTTACCATTTCATTTAG
1 TTACTTTCCATTTCATTTAC
*
18130387 TTACTTTCCATTTCGTTTAC
1 TTACTTTCCATTTCATTTAC
*
18130407 TTACTTTCCATTCCATTTAC
1 TTACTTTCCATTTCATTTAC
18130427 TTA
1 TTA
18130430 TCATAAGCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.52
Consensus pattern (20 bp):
TTACTTTCCATTTCATTTAC
Found at i:18131943 original size:12 final size:12
Alignment explanation
Indices: 18131928--18131953 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18131918 ACATTTCCTT
18131928 ACCATCAACTTA
1 ACCATCAACTTA
18131940 ACCATCAACTTA
1 ACCATCAACTTA
18131952 AC
1 AC
18131954 TAACACAACA
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:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (12 bp):
ACCATCAACTTA
Found at i:18143756 original size:5 final size:5
Alignment explanation
Indices: 18143748--18143774 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18143738 ATTTATGTAT
18143748 TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TA
18143775 ATGAACGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:18146676 original size:51 final size:50
Alignment explanation
Indices: 18146609--18146802 Score: 178
Period size: 51 Copynumber: 3.8 Consensus size: 50
18146599 AAATGATACT
* * * *
18146609 CGGTTCACATAGTAGCCCACACATAGTACTACACATGTGACCATTTTCATC
1 CGGTACACGTAGTAGCCCGCACATAGTACTACACATGTGACCA-TATCATC
* * * * *
18146660 CGATACACGTAGTAGCCTGCACATAGTACTACAC-TCGTGATCGA-AGCTATT
1 CGGTACACGTAGTAGCCCGCACATAGTACTACACAT-GTGA-CCATATC-ATC
* * * * *
18146711 CGGTACGCATAGTAGCCTGTACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCCGCACATAGTACTACACATGTGACCATATCA-TC
* *
18146761 CGGTACATGTAGTAGCCCGCACATAGTACTACACACGTGACC
1 CGGTACACGTAGTAGCCCGCACATAGTACTACACATGTGACC
18146803 TAGCAACTTC
Statistics
Matches: 113, Mismatches: 24, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
49 1 0.01
50 41 0.36
51 68 0.60
52 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCCGCACATAGTACTACACATGTGACCATATCATC
Found at i:18154128 original size:11 final size:12
Alignment explanation
Indices: 18154102--18154135 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
18154092 CAGGTTTCCA
18154102 AAAATGGAAATG
1 AAAATGGAAATG
* *
18154114 GAAATGAAAATG
1 AAAATGGAAATG
18154126 AAAATGGAAA
1 AAAATGGAAA
18154136 CTTGCAATCC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:18155782 original size:27 final size:27
Alignment explanation
Indices: 18155702--18155784 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 27
18155692 AAAGGCATCC
*
18155702 CTTTCAGAGTTTGCCACAAAGAATATT
1 CTTTCAGAGTTTGCCACAAAGGATATT
* ** * *
18155729 CTTTCAAAGTTCACCACAAACGTTATT
1 CTTTCAGAGTTTGCCACAAAGGATATT
* *
18155756 CTTTCAGAGTTTGCCATAAAGGCTATT
1 CTTTCAGAGTTTGCCACAAAGGATATT
18155783 CT
1 CT
18155785 CACTTGTTGT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (27 bp):
CTTTCAGAGTTTGCCACAAAGGATATT
Found at i:18157593 original size:27 final size:27
Alignment explanation
Indices: 18157538--18157645 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 27
18157528 AGGTGTTCCA
* **
18157538 TTCAGAATTTGCCACAAAGGCAT-CCCT
1 TTCAGAGTTTGCCACAAAGG-ATATTCT
18157565 TTCAGAGTTTGCCACAAAGGATATTCT
1 TTCAGAGTTTGCCACAAAGGATATTCT
* ** *
18157592 TTCAAAGTTCACCACAAAGGTTATTCT
1 TTCAGAGTTTGCCACAAAGGATATTCT
* * *
18157619 TTTAGAGTTTGCCATAAAGGCTATTCT
1 TTCAGAGTTTGCCACAAAGGATATTCT
18157646 CACTTATTGT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 2 0.03
27 65 0.97
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (27 bp):
TTCAGAGTTTGCCACAAAGGATATTCT
Found at i:18159984 original size:247 final size:247
Alignment explanation
Indices: 18159546--18160030 Score: 729
Period size: 247 Copynumber: 2.0 Consensus size: 247
18159536 TATTTGAAAG
* * * *
18159546 GATTGAGTATATATTGTTGGATGCTTAAATTTATTTGAAATTAGATGTTTGAACTTGATTAAACA
1 GATTGAGTATATATTGTTGGATGCTTAAATTGATTTGAAATGAGATGTGTGAAATTGATTAAACA
*
18159611 TACTTGAAATTAATTAATTAAGTGAGTAAAAACTTATGGTTTGATTGATGATTTGAATGTGAATT
66 TACTTGAAATTAATTAATTAAGTGAGTAAAAACTTATGGTTTGATTGATGATTTGAATGTGAACT
* * * * *
18159676 AGTAGATCTTTTGTTTAAAGTAGAAATGTTATGTTTTGTGCCTATATTTGTTAGCTAAATGGCAT
131 AGTAGATCTTTTGTTCAAAGTAGAAATGGTATGTTTTGTACCTATATTTGTGAGCTAAATGGCAA
* *
18159741 GTTTTAGAGGTGTCTAACGTAACTATTTGAAGGATATTAAGTTAAATGGTAA
196 GTTTTAGAGGTGTCTAAAGTAACCATTTGAAGGATATTAAGTTAAATGGTAA
* * *
18159793 GATTGAGTATATATTGTTGGATGGTTAAGTTGGTTTGAAATCGA-ATGTGTGAAATTGATTAAAC
1 GATTGAGTATATATTGTTGGATGCTTAAATTGATTTGAAAT-GAGATGTGTGAAATTGATTAAAC
* * * * * * *
18159857 ATGCTTGAAGTTGATTAATTAGGTTAGTAAACACTTATGGTTTGATTGATGATTTGGATGTGAAC
65 ATACTTGAAATTAATTAATTAAGTGAGTAAAAACTTATGGTTTGATTGATGATTTGAATGTGAAC
* * *
18159922 TAGTAGATCTTTTGTTCGAAGTAGAAATGGTATGTTTTGTACTTATATTTGTGAGTTAAATGGCA
130 TAGTAGATCTTTTGTTCAAAGTAGAAATGGTATGTTTTGTACCTATATTTGTGAGCTAAATGGCA
18159987 AGTTTTAGAGGTGTCTAAAGTAACCATTTGAAGGATATTAAGTT
195 AGTTTTAGAGGTGTCTAAAGTAACCATTTGAAGGATATTAAGTT
18160031 TGGGCATGAA
Statistics
Matches: 212, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
247 211 1.00
248 1 0.00
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (247 bp):
GATTGAGTATATATTGTTGGATGCTTAAATTGATTTGAAATGAGATGTGTGAAATTGATTAAACA
TACTTGAAATTAATTAATTAAGTGAGTAAAAACTTATGGTTTGATTGATGATTTGAATGTGAACT
AGTAGATCTTTTGTTCAAAGTAGAAATGGTATGTTTTGTACCTATATTTGTGAGCTAAATGGCAA
GTTTTAGAGGTGTCTAAAGTAACCATTTGAAGGATATTAAGTTAAATGGTAA
Found at i:18162420 original size:24 final size:24
Alignment explanation
Indices: 18162388--18162436 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
18162378 TATCTTGATT
18162388 TAAATGGCGAGATCGAGAGTTAAG
1 TAAATGGCGAGATCGAGAGTTAAG
*
18162412 TAAATGGCGAGATCGGGAGTTAAG
1 TAAATGGCGAGATCGAGAGTTAAG
18162436 T
1 T
18162437 TATTTTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (24 bp):
TAAATGGCGAGATCGAGAGTTAAG
Found at i:18164968 original size:15 final size:15
Alignment explanation
Indices: 18164935--18164969 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18164925 TTAAGTCGTT
*
18164935 ACAATTTTTGAAACT
1 ACAATTTTTGAAACC
*
18164950 ACAATTTTTGACACC
1 ACAATTTTTGAAACC
18164965 ACAAT
1 ACAAT
18164970 AGGGTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (15 bp):
ACAATTTTTGAAACC
Found at i:18186790 original size:20 final size:20
Alignment explanation
Indices: 18186752--18186790 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18186742 GCATCCCTCA
* *
18186752 ATCATTCCTCATTCACTCTC
1 ATCATTCATCAATCACTCTC
*
18186772 ATCATTCATCAATCTCTCT
1 ATCATTCATCAATCACTCT
18186791 TTTATCTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.36, G:0.00, T:0.41
Consensus pattern (20 bp):
ATCATTCATCAATCACTCTC
Found at i:18190665 original size:17 final size:17
Alignment explanation
Indices: 18190643--18190676 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18190633 CACTAACATG
*
18190643 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
18190660 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
18190677 TATACTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:18218678 original size:26 final size:26
Alignment explanation
Indices: 18218657--18218706 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
18218647 TATGAGTAGG
*
18218657 CCCATTTCACAGCTCGTGTGAGCATA
1 CCCATTTCACAGCTCGTGTGAGCAGA
*
18218683 CTCATTTCACAGCTCGTGTGAGCA
1 CCCATTTCACAGCTCGTGTGAGCA
18218707 ACAATGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (26 bp):
CCCATTTCACAGCTCGTGTGAGCAGA
Found at i:18221570 original size:27 final size:27
Alignment explanation
Indices: 18221533--18221584 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
18221523 CAATGAAATC
*
18221533 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
18221560 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
18221585 TTCACATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:18221607 original size:104 final size:103
Alignment explanation
Indices: 18221292--18221659 Score: 571
Period size: 103 Copynumber: 3.6 Consensus size: 103
18221282 TAACCGTTAT
** *
18221292 CGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
18221357 AATCAACACATAGCAACCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
* *
18221395 CGGTGGATATCGCACTTAGCATCACCAATGAATCGGGGAATCAGCATTTAGCAACCCCTCGGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
* *
18221460 GACCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
18221498 CGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
18221563 GAATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * **
18221602 TGGTGGATCAT-GCACATAGCACCACCAATGAAT-GGGGAATCAGCACACAGCAACCCCT
1 CGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
18221660 TTTATATACA
Statistics
Matches: 245, Mismatches: 17, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
102 23 0.09
103 134 0.55
104 86 0.35
105 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (103 bp):
CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:18228470 original size:26 final size:26
Alignment explanation
Indices: 18228440--18228492 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
18228430 CACCACTGAA
*
18228440 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
18228466 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
18228492 T
1 T
18228493 TTTCATTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.34, G:0.23, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:18228671 original size:26 final size:26
Alignment explanation
Indices: 18228641--18228692 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
18228631 CACCAATGAA
*
18228641 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
18228667 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
18228693 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:18228676 original size:101 final size:101
Alignment explanation
Indices: 18228409--18228768 Score: 579
Period size: 100 Copynumber: 3.6 Consensus size: 101
18228399 TAACCGTTAT
* *
18228409 TGGTGGAT-CCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
*
18228473 ATCAGCACATAGCAACCCCTTTTCATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
*
18228509 CGGTGGATATCGCACTTAGCA-CACCAATGAATCGGGGAATCAGCA-TTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
18228572 AATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
18228609 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
18228674 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
* **
18228712 TGGTGGATCA-CGCACATAGCACCACC-ATGAAT-GGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
18228769 TTTATATACA
Statistics
Matches: 245, Mismatches: 8, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
99 13 0.05
100 90 0.37
101 86 0.35
102 19 0.08
103 36 0.15
104 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (101 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
Found at i:18231110 original size:25 final size:25
Alignment explanation
Indices: 18231029--18231110 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
18231019 CATACTAATT
*
18231029 TATAGCATGTGAGA-TCATACCGATC
1 TATAGCTTGTGAGAGT-ATACCGATC
* * * *
18231054 TATAGCCTGAGTA-AGCATACCGATT
1 TATAGCTTGTG-AGAGTATACCGATC
*
18231079 TATAGCTTGTGAGAGTATATCGATC
1 TATAGCTTGTGAGAGTATACCGATC
18231104 TATAGCT
1 TATAGCT
18231111 CAAATGAGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
24 1 0.02
25 43 0.96
26 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (25 bp):
TATAGCTTGTGAGAGTATACCGATC
Found at i:18231121 original size:50 final size:50
Alignment explanation
Indices: 18231015--18231135 Score: 129
Period size: 50 Copynumber: 2.4 Consensus size: 50
18231005 ACAGCTCGTG
** * * *
18231015 TGAGCATACTAATTTATAGCATGTGAGATCATACCGATCTATAGCCTGAG
1 TGAGCATACCGATTTATAGCTTGTGAGATCATACCGATCTATAGCCTAAA
* *
18231065 TAAGCATACCGATTTATAGCTTGTGAGAGT-ATATCGATCTATAG-CTCAAA
1 TGAGCATACCGATTTATAGCTTGTGAGA-TCATACCGATCTATAGCCT-AAA
* *
18231115 TGAGCATATCGATTCATAGCT
1 TGAGCATACCGATTTATAGCT
18231136 CGTATGAGTG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 2 0.03
50 56 0.95
51 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Consensus pattern (50 bp):
TGAGCATACCGATTTATAGCTTGTGAGATCATACCGATCTATAGCCTAAA
Found at i:18231142 original size:25 final size:25
Alignment explanation
Indices: 18231067--18231143 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
18231057 AGCCTGAGTA
* * *
18231067 AGCATACCGATTTATAGCTTGTGA-G
1 AGCATATCGATTCATAGCTCGT-ATG
* **
18231092 AGTATATCGA-TCTATAGCTCAAATG
1 AGCATATCGATTC-ATAGCTCGTATG
18231117 AGCATATCGATTCATAGCTCGTATG
1 AGCATATCGATTCATAGCTCGTATG
18231142 AG
1 AG
18231144 TGCATGAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
24 2 0.05
25 36 0.90
26 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (25 bp):
AGCATATCGATTCATAGCTCGTATG
Found at i:18231552 original size:44 final size:45
Alignment explanation
Indices: 18231497--18231587 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
18231487 GACTAAATGG
18231497 TAAGTTATATTCTATGTCATA-CGAACTTACTAAGCTTAAATGCT
1 TAAGTTATATTCTATGTCATATCGAACTTACTAAGCTTAAATGCT
*
18231541 TAAGTTATATTCTATGTCATATGGAACTTACTAAGCTTAAATGCT
1 TAAGTTATATTCTATGTCATATCGAACTTACTAAGCTTAAATGCT
18231586 TA
1 TA
18231588 CTTTGTGTCA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 21 0.47
45 24 0.53
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (45 bp):
TAAGTTATATTCTATGTCATATCGAACTTACTAAGCTTAAATGCT
Found at i:18233735 original size:50 final size:50
Alignment explanation
Indices: 18233655--18233827 Score: 161
Period size: 50 Copynumber: 3.3 Consensus size: 50
18233645 ATTCCCAGAA
* * * * *
18233655 ATGGTCTTATATGGGATGTTCTCATATCGGTTCCCA-TGTCATGTCCAAGAC
1 ATGGTCTTACATGGGACG-TCTCATATCGGTGCCAACT-CCATGTCCAAGAC
* * *
18233706 ATGGTCTTACAGGGGACGTCTCATCTCGGTGCCAACTCCATGTCCCAGAC
1 ATGGTCTTACATGGGACGTCTCATATCGGTGCCAACTCCATGTCCAAGAC
* *
18233756 ATGGTCTTACATGGGACCTCTCATGATCTCAAGGATGCCAA-TGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACGTCTCAT-A--TC--GG-TGCCAACT-CCATGTCCAAGAC
18233812 ATGGTCTTACATGGGA
1 ATGGTCTTACATGGGA
18233828 TCTCTTTACC
Statistics
Matches: 103, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
50 47 0.46
51 16 0.16
53 2 0.02
55 3 0.03
56 35 0.34
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGGGACGTCTCATATCGGTGCCAACTCCATGTCCAAGAC
Found at i:18234207 original size:30 final size:30
Alignment explanation
Indices: 18234172--18234229 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
18234162 CCTCGACTCT
18234172 AACTTTGT-CAAAATTACAATTTTGCCCCTA
1 AACTTT-TACAAAATTACAATTTTGCCCCTA
* *
18234202 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
18234230 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:18240375 original size:50 final size:50
Alignment explanation
Indices: 18240312--18240549 Score: 291
Period size: 50 Copynumber: 4.6 Consensus size: 50
18240302 GATCATAACA
* *
18240312 TGCCAAAGCCATGTCCCAGACATGGTCTTATAGGGGACCTCT-GATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCG-TCTCGG
* *
18240362 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCGTCTCGG
* * * *
18240412 TGCCAATGCCATGTCCCAAACATGGTCTTA-TGTAGGACCTCTCGTCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAG-GGGACCTCTCGTCTCGG
* * *
18240462 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC--G-TCTC--GG
18240517 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACA
18240550 TAGGATCTCT
Statistics
Matches: 161, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
50 123 0.76
51 1 0.01
52 1 0.01
53 3 0.02
55 2 0.01
56 31 0.19
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCGTCTCGG
Found at i:18240485 original size:100 final size:104
Alignment explanation
Indices: 18240311--18240547 Score: 333
Period size: 100 Copynumber: 2.3 Consensus size: 104
18240301 TGATCATAAC
* * * *
18240311 ATGCCAAAGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTGATCTCGGTGCCAATGTCATGT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTATAGAGGACCTCTGATCTCGGTGCCAACGCCATGT
18240376 CCCAGACATGGTCTTACATGGGACCTCTC-G-TCTC-GG
66 CCCAGACATGGTCTTACATGGGACCTCTCAGATCTCAGG
* *
18240412 -TGCCAATGCCATGTCCCAAACATGGTCTTAT-GTAGGACCTCTCG-TCTTGGTGCCAACGCCAT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTATAG-AGGACCTCT-GATCTCGGTGCCAACGCCAT
*
18240474 GTCCCAGACATGGTCTTACATGGGACTTCTCATGATCTCAAGG
64 GTCCCAGACATGGTCTTACATGGGACCTCTCA-GATCTC-AGG
18240517 ATGCCAATGCCATGTCCCAGACATGGTCTTA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTA
18240548 CATAGGATCT
Statistics
Matches: 120, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
99 1 0.01
100 82 0.68
101 1 0.01
102 1 0.01
103 4 0.03
105 2 0.02
106 29 0.24
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.27
Consensus pattern (104 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTATAGAGGACCTCTGATCTCGGTGCCAACGCCATGT
CCCAGACATGGTCTTACATGGGACCTCTCAGATCTCAGG
Found at i:18248287 original size:25 final size:25
Alignment explanation
Indices: 18248259--18248330 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
18248249 TCCGACCAAC
*
18248259 AGCTCATGTGAGCTTACCGATTTAT
1 AGCTCATGTGAGCATACCGATTTAT
* * * *
18248284 AGCTCGTGAGAGCATACTGATCTAT
1 AGCTCATGTGAGCATACCGATTTAT
*
18248309 AGCTTGA-GTGAGCATACCGATT
1 AGC-TCATGTGAGCATACCGATT
18248331 CACAACTCGT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (25 bp):
AGCTCATGTGAGCATACCGATTTAT
Found at i:18253187 original size:37 final size:37
Alignment explanation
Indices: 18253137--18253215 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18253127 TTATTACGAA
* * *
18253137 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
18253174 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
18253211 GTCTT
1 GTCTT
18253216 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:18253412 original size:47 final size:47
Alignment explanation
Indices: 18253334--18254041 Score: 1231
Period size: 47 Copynumber: 14.9 Consensus size: 47
18253324 CCCTTCGGGA
* * * * * *
18253334 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
18253381 CCTGTCACATATATACACTTTCACATTCATCACATCCGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18253428 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18253475 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18253522 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18253571 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18253619 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18253666 CTTATCACATATATACACACTTTCACATTCATCACAT-GGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
18253714 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18253761 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18253808 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18253855 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18253904 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18253951 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18253998 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
18254042 CGCCATACTA
Statistics
Matches: 637, Mismatches: 16, Indels: 16
0.95 0.02 0.02
Matches are distributed among these distances:
46 21 0.03
47 429 0.67
48 73 0.11
49 114 0.18
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18253905 original size:190 final size:190
Alignment explanation
Indices: 18253334--18254041 Score: 1244
Period size: 190 Copynumber: 3.7 Consensus size: 190
18253324 CCCTTCGGGA
* * * * * * * *
18253334 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
18253399 TTTCACATTCATCACATCCGCCATTAGGCCTTATCACATATATACACTTTCACATTCACCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
18253464 GGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18253522 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
18253586 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
*
18253651 CATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACAT-GGCCATTAGGC
127 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18253714 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
18253779 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
18253844 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18253904 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
18253969 TTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
18254034 GGCCATTA
131 GGCCATTA
18254042 CGCCATACTA
Statistics
Matches: 500, Mismatches: 12, Indels: 14
0.95 0.02 0.03
Matches are distributed among these distances:
188 8 0.02
189 127 0.25
190 222 0.44
191 98 0.20
192 19 0.04
193 26 0.05
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18266940 original size:47 final size:47
Alignment explanation
Indices: 18266871--18267539 Score: 1135
Period size: 47 Copynumber: 14.1 Consensus size: 47
18266861 TATGAAATGA
18266871 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
18266918 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
18266967 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
18267014 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
18267061 TGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
*
18267110 TGAT-AGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
18267156 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
18267203 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
18267250 TGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
18267296 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
18267343 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
18267390 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
18267437 TGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
* * * * * * * *
18267486 TGACAGGGCCGAGTGGCCCACGTGATGGATGTGAAAGTGTATAAATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
18267533 TGATAAG
1 TGATAAG
18267540 TCCCGAAGGG
Statistics
Matches: 594, Mismatches: 20, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
46 57 0.10
47 407 0.69
48 32 0.05
49 98 0.16
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:18277635 original size:22 final size:22
Alignment explanation
Indices: 18277595--18277636 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18277585 ATTGCATTCG
* *
18277595 ATGTCATGACATGCTCCCTGCT
1 ATGTCATGACATACCCCCTGCT
*
18277617 ATGTCGTGACATACCCCCTG
1 ATGTCATGACATACCCCCTG
18277637 TGTTGCAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.29
Consensus pattern (22 bp):
ATGTCATGACATACCCCCTGCT
Found at i:18284335 original size:47 final size:46
Alignment explanation
Indices: 18284243--18284370 Score: 125
Period size: 47 Copynumber: 2.7 Consensus size: 46
18284233 TCAGAAATTT
* * * * *
18284243 ATCTGTTCGACCAATGGTTTATCCACAAAGTATTTTAGTCGGTAGTC
1 ATCTGATCGA-CAAAGGTTTATCCACAACGTATTTTAATCAGTAGTC
* *
18284290 ATCT-ACTCGATCAAAGGTTTATCCACAACGTATTTTAATTAGTAGTT
1 ATCTGA-TCGA-CAAAGGTTTATCCACAACGTATTTTAATCAGTAGTC
*
18284337 ATCTGATCGAC-CAGTGTTTCATCCACAACGTATT
1 ATCTGATCGACAAAG-GTTT-ATCCACAACGTATT
18284371 AGCAGCTTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.03
46 5 0.07
47 60 0.88
48 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (46 bp):
ATCTGATCGACAAAGGTTTATCCACAACGTATTTTAATCAGTAGTC
Found at i:18286308 original size:42 final size:41
Alignment explanation
Indices: 18286188--18286590 Score: 357
Period size: 41 Copynumber: 9.6 Consensus size: 41
18286178 TCTTTGAATG
* * *
18286188 TAAGG-GGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAA
1 TAAGGTGGTTGCTAAGTGCTGATTCCCCGTATCATTGAT-TA
* * * *
18286229 AAAGG-GGTTTCTATGTGCTGATTCCCTGTATCATTGATTA
1 TAAGGTGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * * * * *
18286269 TAATGTGGTTGTTAACTACTGATTCCACCGTATCCTTGATTG
1 TAAGGTGGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTA
*
18286311 TGAAAGG-GGTTGCTATGTGCTGATTCCCCGTATCATTGATTA
1 T--AAGGTGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* *
18286353 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTG
1 TAAGGTGGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTA
* * * * *
18286395 TGAA-ATGGGTTGCTATGTGTTGATTCCCTGTATAATTGATTA
1 T-AAGGT-GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * * *
18286437 TAAGGTGATTGCTAAGTGCTAATTCCACCGTATCCTTGATTG
1 TAAGGTGGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTA
* *
18286479 TGAAAGG-GGTTGCTATGTGCTGATTCCCTGTATCATTGATTA
1 T--AAGGTGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * * **
18286521 TAAGGTGGTTGCTAAGTGCTGATTCCACTAGGATCCTTTGAACA
1 TAAGGTGGTTGCTAAGTGCTGATTCC-C-CGTAT-CATTGATTA
*
18286565 TGAGGTGGTTGCTAAGTGCTGATTCC
1 TAAGGTGGTTGCTAAGTGCTGATTCC
18286591 ACCTTGTAAC
Statistics
Matches: 290, Mismatches: 56, Indels: 29
0.77 0.15 0.08
Matches are distributed among these distances:
40 12 0.04
41 103 0.36
42 81 0.28
43 56 0.19
44 38 0.13
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.36
Consensus pattern (41 bp):
TAAGGTGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
Found at i:18286327 original size:84 final size:84
Alignment explanation
Indices: 18286188--18286548 Score: 548
Period size: 84 Copynumber: 4.3 Consensus size: 84
18286178 TCTTTGAATG
* * * *** *
18286188 TAAGG-GGTTGCTAAGTGCAGATTCC-CCGAATCATTGA-TCAAAAAGGGGTTTCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
18286250 TTCCCTGTATCATTGATTA
66 TTCCCTGTATCATTGATTA
* * * *
18286269 TAATGTGGTTGTTAACTACTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
*
18286334 TTCCCCGTATCATTGATTA
66 TTCCCTGTATCATTGATTA
* *
18286353 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAATGGGTTGCTATGTGTTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
*
18286418 TTCCCTGTATAATTGATTA
66 TTCCCTGTATCATTGATTA
* *
18286437 TAAGGTGATTGCTAAGTGCTAATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
18286502 TTCCCTGTATCATTGATTA
66 TTCCCTGTATCATTGATTA
18286521 TAAGGTGGTTGCTAAGTGCTGATTCCAC
1 TAAGGTGGTTGCTAAGTGCTGATTCCAC
18286549 TAGGATCCTT
Statistics
Matches: 250, Mismatches: 27, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
81 4 0.02
82 16 0.06
83 10 0.04
84 220 0.88
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (84 bp):
TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
TTCCCTGTATCATTGATTA
Found at i:18293269 original size:5 final size:5
Alignment explanation
Indices: 18293259--18293283 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18293249 AACAAAACCT
18293259 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
18293284 CAATCACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:18296577 original size:43 final size:43
Alignment explanation
Indices: 18296492--18296731 Score: 169
Period size: 43 Copynumber: 5.6 Consensus size: 43
18296482 ATCCCGCGAA
* * * * ** * *
18296492 AGGTCCTGGTCTTTAGCAGCGCTTTAATATTAAACACTGCTAT
1 AGGTCATGGTCTTTAGCGGTGCTTTTATAAAAAATACCGCTAT
* * * *
18296535 AGGTCATGGTCTTTAGCGGTGCCTTAATATAAAATGCCGCTAT
1 AGGTCATGGTCTTTAGCGGTGCTTTTATAAAAAATACCGCTAT
* * * * * * * *
18296578 ACGCCATGGTCGTTAGCAGTGCTTTTGTAGAAAACACCACTAT
1 AGGTCATGGTCTTTAGCGGTGCTTTTATAAAAAATACCGCTAT
* ** * * *
18296621 AGGTCATAGTC-TT-GCGGCACTATTGTAAAAAATGCCGCTAT
1 AGGTCATGGTCTTTAGCGGTGCTTTTATAAAAAATACCGCTAT
* * **
18296662 AAGTCATGATCTTTAGCGACGCTTTTATAAAAAAATACCGCTAT
1 AGGTCATGGTCTTTAGCGGTGCTTTTAT-AAAAAATACCGCTAT
* *
18296706 AAGTCATGGTCTTTTGCGGTGCTTTT
1 AGGTCATGGTCTTTAGCGGTGCTTTT
18296732 TTTTCAAACG
Statistics
Matches: 152, Mismatches: 42, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
41 28 0.18
42 4 0.03
43 84 0.55
44 36 0.24
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (43 bp):
AGGTCATGGTCTTTAGCGGTGCTTTTATAAAAAATACCGCTAT
Found at i:18297469 original size:13 final size:14
Alignment explanation
Indices: 18297443--18297471 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18297433 ACTAACGACC
18297443 AATTAAACCATTAT
1 AATTAAACCATTAT
18297457 AATTAAA-CATTAT
1 AATTAAACCATTAT
18297470 AA
1 AA
18297472 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:18299937 original size:115 final size:115
Alignment explanation
Indices: 18299677--18300081 Score: 551
Period size: 115 Copynumber: 3.5 Consensus size: 115
18299667 CCTTGCTGCG
* * * * * * * *
18299677 TTTTTATGGAAGCGCCACTAATTCTAGGTCTATACCAGCATTTTGATAGAAGCACCGCTAATGCC
1 TTTTTATGCAAGCGCCACTAATTCTCGGTCTATAGCGGCATTTTGACATAAGCGCCGCTAACGCC
* * * *
18299742 ATTAAAAGCTCAAGATAAAATGAT-TTTTTTTATTAACACTTTTGCGGCG
66 ACTAAAAGCTCAAGATAAAATGATGTATTTTGATTAACACTTTTGCGGCA
** * *
18299791 TTTTTATAAAAGCGCCGCTAATTCTCGGTCTATAGCGGCATTTTGACATAAGCGTCGCTAACGCC
1 TTTTTATGCAAGCGCCACTAATTCTCGGTCTATAGCGGCATTTTGACATAAGCGCCGCTAACGCC
* *
18299856 ACTAAAAGCTCAAGATAAAATGATGTGTTTTGATTAACACCTTTGCGGCA
66 ACTAAAAGCTCAAGATAAAATGATGTATTTTGATTAACACTTTTGCGGCA
* * *
18299906 TTTTTATGCAAGCGCCGCTAATTCTTGGTCTATAGCGGCATTTTCACATAAGCGCCGCTAACGCC
1 TTTTTATGCAAGCGCCACTAATTCTCGGTCTATAGCGGCATTTTGACATAAGCGCCGCTAACGCC
* *
18299971 ACTAAAAGCTCAAGATAAAATGGTGCATTTTGATTAACACTTTTGCGGCA
66 ACTAAAAGCTCAAGATAAAATGATGTATTTTGATTAACACTTTTGCGGCA
* * * * *
18300021 TTTTTATGCAAGCACCACTAATTCTCGTTCTATAGTGGCGTTTTGACATAAGCGCCTCTAA
1 TTTTTATGCAAGCGCCACTAATTCTCGGTCTATAGCGGCATTTTGACATAAGCGCCGCTAA
18300082 TGCTCGAGCA
Statistics
Matches: 257, Mismatches: 33, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
114 77 0.30
115 180 0.70
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (115 bp):
TTTTTATGCAAGCGCCACTAATTCTCGGTCTATAGCGGCATTTTGACATAAGCGCCGCTAACGCC
ACTAAAAGCTCAAGATAAAATGATGTATTTTGATTAACACTTTTGCGGCA
Found at i:18312434 original size:19 final size:19
Alignment explanation
Indices: 18312410--18312473 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
18312400 TATAATTTTG
*
18312410 AAATTTAAAAAATGTATAA
1 AAATTTAAAAAATATATAA
* *
18312429 AAATTTTAAATATATAT-A
1 AAATTTAAAAAATATATAA
*
18312447 AAATAATAAAATAATATA-AA
1 AAAT-TTAAAA-AATATATAA
18312467 AAATTTA
1 AAATTTA
18312474 CATTAAGAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
18 5 0.14
19 20 0.57
20 10 0.29
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAATTTAAAAAATATATAA
Found at i:18312624 original size:26 final size:26
Alignment explanation
Indices: 18312559--18312626 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 26
18312549 AGACGTGCTT
*
18312559 TTTAGTTATTCTTTTATATTTATATATA
1 TTTA-TTATT-TTTTATATTTATAAATA
*
18312587 TTTATTAGTTTTTATA-TTATAAA-A
1 TTTATTATTTTTTATATTTATAAATA
18312611 TTTTATATATTTTTTA
1 -TTTAT-TATTTTTTA
18312627 AAATATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
24 1 0.03
25 11 0.31
26 15 0.43
27 4 0.11
28 4 0.11
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (26 bp):
TTTATTATTTTTTATATTTATAAATA
Found at i:18312682 original size:16 final size:16
Alignment explanation
Indices: 18312570--18312687 Score: 55
Period size: 16 Copynumber: 7.1 Consensus size: 16
18312560 TTAGTTATTC
18312570 TTTTATATTTATATATAT
1 TTTTA-ATTT-TATATAT
*
18312588 TTATTAGTTTT-TATAT
1 TT-TTAATTTTATATAT
**
18312604 TATAAAATTTTATATATT
1 T-TTTAATTTTATATA-T
* * *
18312622 TTTTAAAATATTATAGAC
1 TTTT--AATTTTATATAT
*
18312640 TCTT--TTTTATATAT
1 TTTTAATTTTATATAT
**
18312654 TTTTAATAGTATATAT
1 TTTTAATTTTATATAT
18312670 TTTGT-ATTTTATATAT
1 TTT-TAATTTTATATAT
18312686 TT
1 TT
18312688 GTAAAATAAT
Statistics
Matches: 73, Mismatches: 18, Indels: 20
0.66 0.16 0.18
Matches are distributed among these distances:
14 10 0.14
16 33 0.45
17 8 0.11
18 10 0.14
19 12 0.16
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTAATTTTATATAT
Found at i:18317483 original size:37 final size:37
Alignment explanation
Indices: 18317433--18317511 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18317423 TTATTACGAA
* * *
18317433 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
18317470 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
18317507 GTCTT
1 GTCTT
18317512 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:18317708 original size:47 final size:47
Alignment explanation
Indices: 18317630--18317992 Score: 595
Period size: 47 Copynumber: 7.7 Consensus size: 47
18317620 CCCTTCGGGA
* * * * * *
18317630 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18317677 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18317724 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18317771 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18317818 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18317865 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18317912 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
18317958 CTTATCTCATGTATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
18317993 AGAATCCTAA
Statistics
Matches: 300, Mismatches: 14, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
46 47 0.16
47 253 0.84
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18320913 original size:40 final size:40
Alignment explanation
Indices: 18320881--18321341 Score: 490
Period size: 40 Copynumber: 11.6 Consensus size: 40
18320871 CCAGCATGAT
* * * *
18320881 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * * *
18320921 TGCTCTTCGGGGTTTAGCACAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
18320961 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
18321001 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
18321041 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
18321081 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
18321121 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * *
18321161 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* ** * * *
18321202 TGC-CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* * * *
18321242 TGC-CTTCGGG-CTTA-CCCGGAATTA-GTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGG-A-TACATCACTAGCACGAA
* **
18321280 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAA
*
18321320 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
18321342 CATCATTCGA
Statistics
Matches: 370, Mismatches: 41, Indels: 20
0.86 0.10 0.05
Matches are distributed among these distances:
37 2 0.01
38 26 0.07
39 10 0.03
40 312 0.84
41 20 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:18323237 original size:37 final size:37
Alignment explanation
Indices: 18323187--18323265 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18323177 TTATTACGAA
* * *
18323187 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
18323224 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
18323261 GTCTT
1 GTCTT
18323266 TAGAGCTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:18323468 original size:47 final size:47
Alignment explanation
Indices: 18323382--18323789 Score: 680
Period size: 47 Copynumber: 8.7 Consensus size: 47
18323372 CCCTTCGGGA
* * * * * *
18323382 CTTATCACATTTATACAC-TTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18323428 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18323475 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18323522 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18323568 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18323614 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18323661 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18323708 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
18323755 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
18323790 AAATCCTAAA
Statistics
Matches: 346, Mismatches: 13, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
46 108 0.31
47 238 0.69
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18323634 original size:139 final size:140
Alignment explanation
Indices: 18323382--18323789 Score: 678
Period size: 139 Copynumber: 2.9 Consensus size: 140
18323372 CCCTTCGGGA
* * * * * * *
18323382 CTTATCACATTTATACAC-TTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATACAC
18323446 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
18323511 GGCCATTAGGC
130 GGCCATTAGGC
18323522 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
18323586 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
18323651 GCCATTAGGC
131 GCCATTAGGC
18323661 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATACAC
* * *
18323726 TTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCACAT
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACAT
18323790 AAATCCTAAA
Statistics
Matches: 254, Mismatches: 10, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
139 109 0.43
140 70 0.28
141 75 0.30
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (140 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGC
Found at i:18334858 original size:37 final size:36
Alignment explanation
Indices: 18334817--18334888 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 36
18334807 TCTTGTATTG
**
18334817 GGATCCATTTAT-TAAAGTAGTTGCTCTTTTTTCCCGA
1 GGATCCATTT-TGTAAAGTAAATGCT-TTTTTTCCCGA
18334854 GGATCCATTTTGGTAAAGTAAATGCTTTTTTTCCC
1 GGATCCATTTT-GTAAAGTAAATGCTTTTTTTCCC
18334889 CTTTCCACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 1 0.03
37 19 0.61
38 11 0.35
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (36 bp):
GGATCCATTTTGTAAAGTAAATGCTTTTTTTCCCGA
Found at i:18336535 original size:45 final size:44
Alignment explanation
Indices: 18336447--18336539 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 44
18336437 ATTACAACAT
18336447 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
18336491 CATTCCATTCAACCAAACA-ATTA-AATTACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACA--AGAA-TACTATTACAGTTCTATTC
18336536 CATT
1 CATT
18336540 ACAGCATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
43 1 0.02
44 21 0.46
45 24 0.52
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:18336576 original size:16 final size:16
Alignment explanation
Indices: 18336521--18336576 Score: 78
Period size: 16 Copynumber: 3.5 Consensus size: 16
18336511 TTAAATTACT
*
18336521 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
18336537 ATTACAGCAT-TATTCA
1 ATTACAGC-TCTATTCC
18336553 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
18336569 ATTACAGC
1 ATTACAGC
18336577 GAACCAAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 1 0.03
16 33 0.94
17 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:18336796 original size:19 final size:18
Alignment explanation
Indices: 18336747--18336816 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 18
18336737 TAATTTTAAA
*
18336747 TAAATAAAATTTAAAATCT
1 TAAAT-AAATTTAAAAACT
*
18336766 TAATTAACATTTAAAAGACT
1 TAAATAA-ATTTAAAA-ACT
*
18336786 TAAATAAATTTTGAAAAATT
1 TAAATAAA-TTT-AAAAACT
*
18336806 TAAGTAAATTT
1 TAAATAAATTT
18336817 TTATGAGAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.05
19 16 0.38
20 20 0.48
21 4 0.10
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (18 bp):
TAAATAAATTTAAAAACT
Found at i:18336884 original size:18 final size:19
Alignment explanation
Indices: 18336837--18336887 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
18336827 AAATAAAAAT
18336837 ATATAAA-ATTATCATAAAA
1 ATATAAATATTATCAT-AAA
*
18336856 ATAAAAAATATTATCAT-AA
1 AT-ATAAATATTATCATAAA
18336875 ATATAAATATTAT
1 ATATAAATATTAT
18336888 TTGATTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 10 0.36
19 6 0.21
20 4 0.14
21 8 0.29
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
ATATAAATATTATCATAAA
Found at i:18336888 original size:21 final size:21
Alignment explanation
Indices: 18336829--18336881 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
18336819 ATGAGAGAAA
*
18336829 ATAAAAATATATAAA-ATTATC
1 ATAAAAATA-AAAAATATTATC
18336850 ATAAAAATAAAAAATATTATC
1 ATAAAAATAAAAAATATTATC
*
18336871 ATAAATATAAA
1 ATAAAAATAAA
18336882 TATTATTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAAAAATAAAAAATATTATC
Found at i:18337038 original size:6 final size:6
Alignment explanation
Indices: 18337023--18337051 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
18337013 AATAGGTATT
18337023 ATTT-A ATTTAA ATTTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
18337052 GATATATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:18341966 original size:33 final size:33
Alignment explanation
Indices: 18341924--18341986 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
18341914 AAGCCCTTTA
* *
18341924 ATAGTAACAGT-ACAGTGTGGGTCTTAGCCCAAT
1 ATAGTAACAGTGACAAT-TGGGCCTTAGCCCAAT
18341957 ATAGTAACAGTGACAATTGGGCCTTAGCCC
1 ATAGTAACAGTGACAATTGGGCCTTAGCCC
18341987 CCATCATCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 23 0.85
34 4 0.15
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (33 bp):
ATAGTAACAGTGACAATTGGGCCTTAGCCCAAT
Found at i:18342463 original size:96 final size:95
Alignment explanation
Indices: 18342285--18342482 Score: 270
Period size: 96 Copynumber: 2.1 Consensus size: 95
18342275 GAATGGCTAC
* * *
18342285 AAGCCATAAGTACAGTAATATGATTGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACACA
1 AAGCCATAAGTACAGTAATATGATCGACACAAAGCCATCAGTAATAGTAATATGATCGGCACACA
* **
18342350 TCCATCAGTAATAGTAATATGATCGACACA
66 ACCATCAACAATAGTAATATGATCGACACA
* * * * *
18342380 AAGCCATTAGTAGTAGTAATATGATCGACACATAGCTATCAGTAATGGTAATATGATCGGCACAC
1 AAGCCATAAGTA-CAGTAATATGATCGACACAAAGCCATCAGTAATAGTAATATGATCGGCACAC
* *
18342445 AACCATCAACAATGGTAATATGATCGGCACA
65 AACCATCAACAATAGTAATATGATCGACACA
18342476 AAGCCAT
1 AAGCCAT
18342483 CAATAGCATC
Statistics
Matches: 89, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
95 11 0.12
96 78 0.88
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.23
Consensus pattern (95 bp):
AAGCCATAAGTACAGTAATATGATCGACACAAAGCCATCAGTAATAGTAATATGATCGGCACACA
ACCATCAACAATAGTAATATGATCGACACA
Found at i:18342485 original size:32 final size:32
Alignment explanation
Indices: 18342285--18342484 Score: 233
Period size: 32 Copynumber: 6.3 Consensus size: 32
18342275 GAATGGCTAC
* * *
18342285 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
18342316 AAGCCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
18342348 CATCCATCAGTAATAGTAATATGATCGACACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
18342380 AAGCCATTAGTAGTAGTAATATGATCGACACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
18342412 TAGCTATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
** *
18342444 CAA-CCATCAACAATGGTAATATGATCGGCACA
1 -AAGCCATCAGTAATAGTAATATGATCGGCACA
18342476 AAGCCATCA
1 AAGCCATCA
18342485 ATAGCATCGC
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
31 12 0.08
32 131 0.91
33 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:18342519 original size:26 final size:26
Alignment explanation
Indices: 18342490--18342543 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
18342480 CATCAATAGC
18342490 ATCGCAGCAAAGCTGCCAGCAACAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
* *
18342516 ATCGCAGCAAAGTTGCCAGTAACAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
18342542 AT
1 AT
18342544 ATGTTGCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGCAACAGT
Found at i:18342666 original size:11 final size:11
Alignment explanation
Indices: 18342650--18342719 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
18342640 CGGAATTAGT
18342650 CATACAAATCA
1 CATACAAATCA
18342661 CATACAAATCA
1 CATACAAATCA
**
18342672 GTCATTTAAATCA
1 --CATACAAATCA
*
18342685 CAAACAAATCA
1 CATACAAATCA
**
18342696 GTCATTTAAATCA
1 --CATACAAATCA
*
18342709 CAGACAAATCA
1 CATACAAATCA
18342720 GTCATTTACA
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
11 27 0.61
13 17 0.39
ACGTcount: A:0.50, C:0.23, G:0.04, T:0.23
Consensus pattern (11 bp):
CATACAAATCA
Found at i:18342741 original size:24 final size:24
Alignment explanation
Indices: 18342657--18342775 Score: 132
Period size: 24 Copynumber: 5.0 Consensus size: 24
18342647 AGTCATACAA
* *
18342657 ATCACATACAAATCAGTCATTTAA
1 ATCACAGACAAATCAGTCATTTAC
* *
18342681 ATCACAAACAAATCAGTCATTTAA
1 ATCACAGACAAATCAGTCATTTAC
18342705 ATCACAGACAAATCAGTCATTTAC
1 ATCACAGACAAATCAGTCATTTAC
*** * *
18342729 ATCTTGGATAAATCATTCATTTAC
1 ATCACAGACAAATCAGTCATTTAC
*
18342753 ATCACAGGA-AAATCAATCATTTA
1 ATCACA-GACAAATCAGTCATTTA
18342776 AGCTCGAGGG
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
24 80 0.98
25 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (24 bp):
ATCACAGACAAATCAGTCATTTAC
Found at i:18342851 original size:54 final size:54
Alignment explanation
Indices: 18342792--18342909 Score: 166
Period size: 54 Copynumber: 2.2 Consensus size: 54
18342782 AGGGAAAAAT
*
18342792 AGTCATTTTACCCTAAAAGG-GCATTACGGTCATTTTACCCTATAGGGGCATTAC
1 AGTCATTTTACCCT-AAAGGAGCATTACGGTCATTTTACCCTACAGGGGCATTAC
* * * *
18342846 AGTCATTTTACCCTATAGGAGCATTATGGTCATTTTACCCTACATGGGCGTTAC
1 AGTCATTTTACCCTAAAGGAGCATTACGGTCATTTTACCCTACAGGGGCATTAC
*
18342900 GGTCATTTTA
1 AGTCATTTTA
18342910 TCTTACAGGG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 4 0.07
54 53 0.93
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (54 bp):
AGTCATTTTACCCTAAAGGAGCATTACGGTCATTTTACCCTACAGGGGCATTAC
Found at i:18342916 original size:27 final size:26
Alignment explanation
Indices: 18342793--18342919 Score: 146
Period size: 27 Copynumber: 4.7 Consensus size: 26
18342783 GGGAAAAATA
*
18342793 GTCATTTTACCCTAAAAGGGCATTACG
1 GTCATTTTACCCT-ACAGGGCATTACG
* *
18342820 GTCATTTTACCCTATAGGGGCATTACA
1 GTCATTTTACCCTACA-GGGCATTACG
* *
18342847 GTCATTTTACCCTATAGGAGCATTATG
1 GTCATTTTACCCTACAGG-GCATTACG
*
18342874 GTCATTTTACCCTACATGGGCGTTACG
1 GTCATTTTACCCTACA-GGGCATTACG
* *
18342901 GTCATTTTATCTTACAGGG
1 GTCATTTTACCCTACAGGG
18342920 GTACTACGGT
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
26 7 0.08
27 79 0.90
28 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (26 bp):
GTCATTTTACCCTACAGGGCATTACG
Found at i:18352331 original size:29 final size:30
Alignment explanation
Indices: 18352299--18352356 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
18352289 TTCCTTTATT
* *
18352299 CGATAGCCGAGGCTA-CCCTTTTCATAATC
1 CGATAGCCAAAGCTATCCCTTTTCATAATC
* *
18352328 CGATGGCCAAAGCTATCCTTTTTCATAAT
1 CGATAGCCAAAGCTATCCCTTTTCATAAT
18352357 TTGATGATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.31
Consensus pattern (30 bp):
CGATAGCCAAAGCTATCCCTTTTCATAATC
Found at i:18352381 original size:30 final size:30
Alignment explanation
Indices: 18352342--18352538 Score: 111
Period size: 30 Copynumber: 6.7 Consensus size: 30
18352332 GGCCAAAGCT
* *
18352342 ATCCTTTTTCATAATTTGATGATCTTCACC
1 ATCCCTTTTCATAATTCGATGATCTTCACC
** * * *
18352372 ATCCCTTTTCATTGTTCAAGGGT-TGTCACC
1 ATCCCTTTTCATAATTCGATGATCT-TCACC
* * * *** *
18352402 ATCTCTTTTCATAATTTGAT-AGCCGAAGTC
1 ATCCCTTTTCATAATTCGATGATCTTCA-CC
* **
18352432 ATCCCTTTTCATGA-TCGAT-AGTC-AAAGCC
1 ATCCCTTTTCATAATTCGATGA-TCTTCA-CC
* * *
18352461 ATCCCTTTTCATAGTTCGATGGTCATCACC
1 ATCCCTTTTCATAATTCGATGATCTTCACC
* *
18352491 ATCCCTTTTCATAATT-GATGGTCGTCACC
1 ATCCCTTTTCATAATTCGATGATCTTCACC
18352520 ATCCCTTTTCATAA-TCGAT
1 ATCCCTTTTCATAATTCGAT
18352539 AGCCAGAGTT
Statistics
Matches: 127, Mismatches: 32, Indels: 17
0.72 0.18 0.10
Matches are distributed among these distances:
28 1 0.01
29 52 0.41
30 73 0.57
31 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATGATCTTCACC
Found at i:18352463 original size:29 final size:28
Alignment explanation
Indices: 18352431--18352540 Score: 121
Period size: 29 Copynumber: 3.8 Consensus size: 28
18352421 TAGCCGAAGT
* *
18352431 CATCCCTTTTCATGATCGATAGTCAAAGC
1 CATCCCTTTTCATAATCGATAGTCACA-C
* *
18352460 CATCCCTTTTCATAGTTCGATGGTCATCAC
1 CATCCCTTTTCATA-ATCGATAGTCA-CAC
* * *
18352490 CATCCCTTTTCATAATTGATGGTCGTCAC
1 CATCCCTTTTCATAATCGATAGTC-ACAC
18352519 CATCCCTTTTCATAATCGATAG
1 CATCCCTTTTCATAATCGATAG
18352541 CCAGAGTTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
29 44 0.64
30 24 0.35
31 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (28 bp):
CATCCCTTTTCATAATCGATAGTCACAC
Found at i:18352552 original size:29 final size:29
Alignment explanation
Indices: 18352520--18352588 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
18352510 GGTCGTCACC
18352520 ATCCCTTTTCATAATCGATAGCC-AGAGTT
1 ATCCCTTTTCATAATCGATAGCCGA-AGTT
* *
18352549 ATCCCTTTTCATAGTCTATAGCCGAAGTT
1 ATCCCTTTTCATAATCGATAGCCGAAGTT
*
18352578 ATCCCATTTCA
1 ATCCCTTTTCA
18352589 CCCGTCAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 35 0.97
30 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCGAAGTT
Found at i:18359885 original size:27 final size:27
Alignment explanation
Indices: 18359849--18359941 Score: 73
Period size: 27 Copynumber: 3.4 Consensus size: 27
18359839 TTTTAATTCC
*
18359849 TTTTAATATTATATGTTTTAAATGTTA
1 TTTTATTATTATATGTTTTAAATGTTA
* ***** *
18359876 TTTTATTATTAAAATAAAGAATAAT-TTC
1 TTTTATTATT-ATATGTTTTA-AATGTTA
18359904 TTTTAATT-TTATATGTTTTAAATGTTA
1 TTTT-ATTATTATATGTTTTAAATGTTA
18359931 TTTTATTATTA
1 TTTTATTATTA
18359942 AAATTGTTAG
Statistics
Matches: 46, Mismatches: 15, Indels: 10
0.65 0.21 0.14
Matches are distributed among these distances:
26 6 0.13
27 22 0.48
28 12 0.26
29 6 0.13
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.58
Consensus pattern (27 bp):
TTTTATTATTATATGTTTTAAATGTTA
Found at i:18359926 original size:55 final size:55
Alignment explanation
Indices: 18359842--18359945 Score: 190
Period size: 55 Copynumber: 1.9 Consensus size: 55
18359832 GTTTAAGTTT
18359842 TAATTCCTTTTAATATTATATGTTTTAAATGTTATTTTATTATTAAAATAAAGAA
1 TAATTCCTTTTAATATTATATGTTTTAAATGTTATTTTATTATTAAAATAAAGAA
* *
18359897 TAATTTCTTTTAATTTTATATGTTTTAAATGTTATTTTATTATTAAAAT
1 TAATTCCTTTTAATATTATATGTTTTAAATGTTATTTTATTATTAAAAT
18359946 TGTTAGAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.56
Consensus pattern (55 bp):
TAATTCCTTTTAATATTATATGTTTTAAATGTTATTTTATTATTAAAATAAAGAA
Found at i:18375846 original size:50 final size:50
Alignment explanation
Indices: 18375791--18375935 Score: 175
Period size: 50 Copynumber: 2.9 Consensus size: 50
18375781 AATTGAGATT
* * *
18375791 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
* *
18375841 ATGAGAGGTACCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGT-CCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
** * * * *
18375891 ATGAGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA
18375936 GTACAGAAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
49 3 0.04
50 75 0.93
51 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:18383394 original size:50 final size:50
Alignment explanation
Indices: 18383291--18383462 Score: 166
Period size: 50 Copynumber: 3.3 Consensus size: 50
18383281 GAGAATGAGA
* * *
18383291 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-C--CGAG---ATGAGAGG
* *
18383347 TCCCATGTAAGACCACT-TCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCA-TGTCTGGGACATGGCATGGGCACCGAGATGAGAGG
** * * * **
18383397 TCCCCCGTAAGACCATGTTTGGGACATGGTATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGG
18383447 TCCCATGTAAGACCAT
1 TCCCATGTAAGACCAT
18383463 ATTTGGAATA
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
49 1 0.01
50 61 0.61
53 3 0.03
55 1 0.01
56 33 0.33
57 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGG
Found at i:18383468 original size:50 final size:49
Alignment explanation
Indices: 18383338--18383483 Score: 157
Period size: 50 Copynumber: 2.9 Consensus size: 49
18383328 TCATTGAGAT
* * *
18383338 TATGAGAGGTCCCATGTAAGACCACTTCTGGGACATGGCGTTGGCACCGA
1 TATGAGAGGTCCCATGTAAGACCA-TTTTGGGACATGGCATGGGCACCGA
* ** *
18383388 GATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGTATGGGCACCGA
1 TATGAGAGGTCCCATGTAAGACCAT-TTTGGGACATGGCATGGGCACCGA
** * * *
18383438 TATGAGAACTCCCATGTAAGACCATATTTGGAATATGGCATTGGCA
1 TATGAGAGGTCCCATGTAAGACCAT-TTTGGGACATGGCATGGGCA
18383484 GTATAGAAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
49 1 0.01
50 77 0.99
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (49 bp):
TATGAGAGGTCCCATGTAAGACCATTTTGGGACATGGCATGGGCACCGA
Found at i:18386423 original size:17 final size:16
Alignment explanation
Indices: 18386398--18386432 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
18386388 TACAGCATCC
18386398 AAACAAATAAAATATAA
1 AAACAAATAAAAT-TAA
*
18386415 AAACGAATAAAATTAA
1 AAACAAATAAAATTAA
18386431 AA
1 AA
18386433 CATTCACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (16 bp):
AAACAAATAAAATTAA
Found at i:18386923 original size:18 final size:18
Alignment explanation
Indices: 18386900--18386938 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
18386890 ATAATAGTAT
*
18386900 TAATAATAATACTAAGGA
1 TAATAATAATAATAAGGA
*
18386918 TAATAATAATAATAATGA
1 TAATAATAATAATAAGGA
18386936 TAA
1 TAA
18386939 CACTAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (18 bp):
TAATAATAATAATAAGGA
Found at i:18387782 original size:20 final size:20
Alignment explanation
Indices: 18387759--18387797 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18387749 AAACAACTTA
18387759 GAAAACGGA-AATAAAGAAAC
1 GAAAACGGAGAA-AAAGAAAC
*
18387779 GAAAATGGAGAAAAAGAAA
1 GAAAACGGAGAAAAAGAAA
18387798 TTTGAAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.67, C:0.05, G:0.23, T:0.05
Consensus pattern (20 bp):
GAAAACGGAGAAAAAGAAAC
Found at i:18388526 original size:100 final size:99
Alignment explanation
Indices: 18388336--18389574 Score: 1627
Period size: 100 Copynumber: 12.5 Consensus size: 99
18388326 TTTCCCGGTC
* * * * * **
18388336 TCGCCAAGGAAATAAGATTCGCCGTTGCGGCTTCAATC-TTT-AGTTGCAATGTCGGGAAAGCAA
1 TCGCC-AGGGAATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGA
* * * *
18388399 GACTCGCCATTGTAGCTTCAATCTGTTCGACTGCA
65 GATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
* * ** * *
18388434 TCGCCAGGGATATAAAATTCACTGTTGCAGCTTCAATCTACTTG-ACTGCAATGTCGGGGAAG-G
1 TCGCCAGGGA-ATAAGATTCACCGTTGTGGCTTCAATCT-TTTGAATTGCAATGTCGGGGAAGTG
* * * * *
18388497 AAGATTTGCCGTTGTGGTTTTAATCTGTTCCGCTACA
64 -AGATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
* ** * * * *
18388534 TAG-CTTGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTGAATTTCAATGTCGAGGAAGTGA
1 TCGCCAGGGAA-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGA
* *
18388598 GATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
65 GATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
* * * *
18388633 TCGCCTGGGAGTAAGATTCACCGTTGTGGTTTCAATCTTTTGAATTGCAATGTCGGGGGAGTGAG
1 TCGCCAGGGAATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAG
* ** *
18388698 ATTTGCCGTTGTAGCTTCATTCTACTCCGCTGCA
66 ATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
* * *
18388732 TCGCCTGGGAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAG
1 TCGCCAGGGAATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAG
18388797 ATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
66 ATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
* * * *
18388831 TCACCA--GAGTAAGATTCACCGTTGTGGCTTCAATCATTTGAATTGCAATGTCGGGGAAGTAAG
1 TCGCCAGGGAATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAG
*
18388894 ATTTGCCGTTGTAGCTTCAATCTGTTCCACTGTA
66 ATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
* *
18388928 TCGCCAGAGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGAGGAAGTGA
1 TCGCCAGGGAA-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGA
** *
18388993 GATTTGCCGTTGTAGCTTCAATCTACTCCGCTGCA
65 GATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
* *
18389028 TCGCCTA-GGAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCGATGTCGGGGAAGTGA
1 TCGCC-AGGGAATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGA
18389092 GATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
65 GATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
* * *
18389127 TCACCA--GAGTAAGATTCACCGTTGTGGCTTAAATCTTTTGAATTGCAATGTCGGGGAAGTGAG
1 TCGCCAGGGAATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAG
* *
18389190 ATTTGCCGTTGTAGCTTCAATCTATTCTACTGCA
66 ATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
* *
18389224 TCGCCAGAGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGAGGAAGTGA
1 TCGCCAGGGAA-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGA
18389289 GATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
65 GATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
* * *
18389324 TCGCCAGAGAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTAAATTGCAATGTCGGGGAAGTGA
1 TCGCCAGGGAA-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGA
* *
18389389 GATTTGCCGTTGTAGCTTCAATCTATTCTACTGCA
65 GATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
* * *
18389424 TCGCCAGAGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTTGAGGAAGTGA
1 TCGCCAGGGAA-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGA
* *
18389489 GATTTTCCGTTGTAGCTTCAATATGTTCCACTGCA
65 GATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
* * *
18389524 TCGTCAGAGAAGTAAGATTCACCGTTGTGGCTTTAATCTTTT-AATTTGCAA
1 TCGCCAGGGAA-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAA-TTGCAA
18389575 ACTATGGTTA
Statistics
Matches: 1019, Mismatches: 105, Indels: 32
0.88 0.09 0.03
Matches are distributed among these distances:
97 188 0.18
98 33 0.03
99 340 0.33
100 457 0.45
101 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (99 bp):
TCGCCAGGGAATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAG
ATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA
Found at i:18388601 original size:50 final size:49
Alignment explanation
Indices: 18388540--18389569 Score: 677
Period size: 50 Copynumber: 20.8 Consensus size: 49
18388530 TACATAGCTT
* * * *
18388540 GGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTGAATTTCAATGTCGA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGC-ATGTCGA
* * *** *
18388590 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTG-
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAT-GTC-GA
* * * * *
18388640 GG-AGTAAGATTCACCGTTGTGGTTTCAATCTTTTGAATTGCAATGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGC-ATGTCGA
* * * * ** *** *
18388689 GGGAGTGAGATTTGCCGTTGTAGCTTCATTCTACTCCGCTGCATCGCCTG-
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAT-GTC-GA
* * * *
18388739 GG-AGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGC-ATGTCGA
* * * * * ** *
18388788 GGAAGTGAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCATCACCA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCATGTCGA
* * * * *
18388837 -G-AGTAAGATTCACCGTTGTGGCTTCAATCATTTGAATTGCAATGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGC-ATGTCGA
* * * * * *
18388885 GGAAGTAAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTGTATCG-CCA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAT-GTCGA
* * *
18388934 GAGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGA
1 G-GAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGC-ATGTCGA
* * ** *** * *
18388985 GGAAGTGAGATTTGCCGTTGTAGCTTCAATCTACTCCGCTGCATCGCCTA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAT-GTCGA
* * * *
18389035 GG-AGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCGATGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGC-ATGTCGA
* * * * * ** *
18389084 GGAAGTGAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCATCACCA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCATGTCGA
* * * * *
18389133 -G-AGTAAGATTCACCGTTGTGGCTTAAATCTTTTGAATTGCAATGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGC-ATGTCGA
* * * * * *
18389181 GGAAGTGAGATTTGCCGTTGTAGCTTCAATCTATTCTACTGCATCG-CCA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAT-GTCGA
* * *
18389230 GAGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGA
1 G-GAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGC-ATGTCGA
* * * * * *
18389281 GGAAGTGAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCATCG-CCA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAT-GTCGA
* * * * *
18389330 GAGAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTAAATTGCAATGTCGG
1 G-GAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGC-ATGTCGA
* * * * * *
18389381 GGAAGTGAGATTTGCCGTTGTAGCTTCAATCTATTCTACTGCATCG-CCA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAT-GTCGA
* * * *
18389430 GAGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTTGA
1 G-GAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGC-ATGTCGA
* ** * * * *
18389481 GGAAGTGAGATTTTCCGTTGTAGCTTCAATATGTTCCACTGCATCGTC-A
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAT-GTCGA
* * *
18389530 GAGAAGTAAGATTCACCGTTGTGGCTTTAATCTTTT-AATT
1 G-GAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATT
18389570 TGCAAACTAT
Statistics
Matches: 723, Mismatches: 220, Indels: 75
0.71 0.22 0.07
Matches are distributed among these distances:
47 60 0.08
48 10 0.01
49 136 0.19
50 497 0.69
51 20 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (49 bp):
GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCATGTCGA
Found at i:18389008 original size:296 final size:297
Alignment explanation
Indices: 18388348--18389574 Score: 1706
Period size: 296 Copynumber: 4.1 Consensus size: 297
18388338 GCCAAGGAAA
* * * ** * * *
18388348 TAAGATTCGCCGTTGCGGCTTCAATC-TTT-AGTTGCAATGTCG-GGAAAGCAAGACTCGCCATT
1 TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGAGG-AAGTGAGATTTGCCGTT
* * * * * **
18388410 GTAGCTTCAATCT-GTTCGACTGCATCGCCAGGGATATAAAATTCACTGTTGCAGCTTCAATCTA
65 GTAGCTTCAATCTACTCCG-CTGCATCGCCAGGGA-GTAAGATTCACCGTTGTGGCTTCAATCT-
* * * * * * * *
18388474 CTT-GACTGCAATGTCGGGGAAG-GAAGATTTGCCGTTGTGGTTTTAATCTGTTCCGCTACAT-A
127 TTTAAATTGCAATGTCGGGGAAGTG-AGATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCATCA
** * *
18388536 GCTTGGAAGTAAGATTCGCCGTTGTGGCTTCAAT-ATTTTGAATTTCAATGTCGAGGAAGTGAGA
191 -C-CAGAAGTAAGATTCACCGTTGTGGCTTCAATCA-TTTGAATTGCAATGTCGAGGAAGTGAGA
* * * *
18388600 TTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTG-GGAG
253 TTTGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCAGAGAAG
* * *
18388644 TAAGATTCACCGTTGTGGTTTCAATCTTTTGAATTGCAATGTCGGGGGAGTGAGATTTGCCGTTG
1 TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGAGGAAGTGAGATTTGCCGTTG
* *
18388709 TAGCTTCATTCTACTCCGCTGCATCGCCTGGGAGTAAGATTCACCGTTGTGGCTTCAATCTTTTA
66 TAGCTTCAATCTACTCCGCTGCATCGCCAGGGAGTAAGATTCACCGTTGTGGCTTCAATCTTTTA
18388774 AATTGCAATGTCGGGGAAGTGAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCATCACCAG-
131 AATTGCAATGTCGGGGAAGTGAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCATCACCAGA
* *
18388838 AGTAAGATTCACCGTTGTGGCTTCAATCATTTGAATTGCAATGTCGGGGAAGTAAGATTTGCCGT
196 AGTAAGATTCACCGTTGTGGCTTCAATCATTTGAATTGCAATGTCGAGGAAGTGAGATTTGCCGT
*
18388903 TGTAGCTTCAATCTGTTCCACTGTATCGCCAGAGAAG
261 TGTAGCTTCAATCTGTTCCACTGCATCGCCAGAGAAG
18388940 TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGAGGAAGTGAGATTTGCCGTTG
1 TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGAGGAAGTGAGATTTGCCGTTG
18389005 TAGCTTCAATCTACTCCGCTGCATCGCCTA-GGAGTAAGATTCACCGTTGTGGCTTCAATCTTTT
66 TAGCTTCAATCTACTCCGCTGCATCGCC-AGGGAGTAAGATTCACCGTTGTGGCTTCAATCTTTT
* *
18389069 GAATTGCGATGTCGGGGAAGTGAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCATCACCAG
130 AAATTGCAATGTCGGGGAAGTGAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCATCACCAG
* * *
18389134 -AGTAAGATTCACCGTTGTGGCTTAAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTTGCCG
195 AAGTAAGATTCACCGTTGTGGCTTCAATCATTTGAATTGCAATGTCGAGGAAGTGAGATTTGCCG
* *
18389198 TTGTAGCTTCAATCTATTCTACTGCATCGCCAGAGAAG
260 TTGTAGCTTCAATCTGTTCCACTGCATCGCCAGAGAAG
18389236 TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGAGGAAGTGAGATTTGCCGTTG
1 TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGAGGAAGTGAGATTTGCCGTTG
** * * *
18389301 TAGCTTCAATCTGTTCCACTGCATCGCCAGAGAAGTAAGATTCACCGTTGTGGCTTTAATCTTTT
66 TAGCTTCAATCTACTCCGCTGCATCGCCAG-GGAGTAAGATTCACCGTTGTGGCTTCAATCTTTT
* * *
18389366 AAATTGCAATGTCGGGGAAGTGAGATTTGCCGTTGTAGCTTCAATCTATTCTACTGCATCGCCAG
130 AAATTGCAATGTCGGGGAAGTGAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCATCACC--
* * *
18389431 AGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTTGAGGAAGTGAGATTTTC
193 AGAAGTAAGATTCACCGTTGTGGCTTCAATCATTTGAATTGCAATGTCGAGGAAGTGAGATTTGC
* *
18389496 CGTTGTAGCTTCAATATGTTCCACTGCATCGTCAGAGAAG
258 CGTTGTAGCTTCAATCTGTTCCACTGCATCGCCAGAGAAG
*
18389536 TAAGATTCACCGTTGTGGCTTTAATCTTTT-AATTTGCAA
1 TAAGATTCACCGTTGTGGCTTCAATCTTTTGAA-TTGCAA
18389575 ACTATGGTTA
Statistics
Matches: 845, Mismatches: 70, Indels: 28
0.90 0.07 0.03
Matches are distributed among these distances:
295 88 0.10
296 402 0.48
297 166 0.20
298 51 0.06
299 9 0.01
300 129 0.15
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (297 bp):
TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGAGGAAGTGAGATTTGCCGTTG
TAGCTTCAATCTACTCCGCTGCATCGCCAGGGAGTAAGATTCACCGTTGTGGCTTCAATCTTTTA
AATTGCAATGTCGGGGAAGTGAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCATCACCAGA
AGTAAGATTCACCGTTGTGGCTTCAATCATTTGAATTGCAATGTCGAGGAAGTGAGATTTGCCGT
TGTAGCTTCAATCTGTTCCACTGCATCGCCAGAGAAG
Done.