Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 158 of 255
Found at i:51623965 original size:72 final size:72
Alignment explanation
Indices: 51623874--51624096 Score: 437
Period size: 72 Copynumber: 3.1 Consensus size: 72
51623864 ATTACTTTTC
51623874 ACTAAAGAAGACTAGTTCTGAATAAATTTTGATTTACACTTTTCTCGACCTTGTATCTGAGTAAT
1 ACTAAAGAAGACTAGTTCTGAATAAATTTTGATTTACACTTTTCTCGACCTTGTATCTGAGTAAT
51623939 TCAATTT
66 TCAATTT
51623946 ACTAAAGAAGACTAGTTCTGAATAAATTTTGATTTACACTTTTCTCGACCTTGTATCTGAGTAAT
1 ACTAAAGAAGACTAGTTCTGAATAAATTTTGATTTACACTTTTCTCGACCTTGTATCTGAGTAAT
51624011 TCAATTT
66 TCAATTT
51624018 ACTAAAGAAGACTAGTTCTGAATAAATTTTGATTTACACTTTTCTCGACCTTGTATCTGAGTAAT
1 ACTAAAGAAGACTAGTTCTGAATAAATTTTGATTTACACTTTTCTCGACCTTGTATCTGAGTAAT
51624083 TCAATTT
66 TCAATTT
*
51624090 ACCAAAG
1 ACTAAAG
51624097 TAAATTCATT
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 150 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (72 bp):
ACTAAAGAAGACTAGTTCTGAATAAATTTTGATTTACACTTTTCTCGACCTTGTATCTGAGTAAT
TCAATTT
Found at i:51623982 original size:35 final size:35
Alignment explanation
Indices: 51623942--51624054 Score: 86
Period size: 35 Copynumber: 3.2 Consensus size: 35
51623932 GAGTAATTCA
51623942 ATTTACTAAAGAAGACTAGTTCTGAATAAATTTTG
1 ATTTACTAAAGAAGACTAGTTCTGAATAAATTTTG
****** * * **
51623977 ATTTACACTTTTCTCGACCTTGTATCTGAGT-AA-TTCA
1 ATTT--ACTAAAGAAGA-CTAGT-TCTGAATAAATTTTG
51624014 ATTTACTAAAGAAGACTAGTTCTGAATAAATTTTG
1 ATTTACTAAAGAAGACTAGTTCTGAATAAATTTTG
51624049 ATTTAC
1 ATTTAC
51624055 ACTTTTCTCG
Statistics
Matches: 52, Mismatches: 20, Indels: 12
0.62 0.24 0.14
Matches are distributed among these distances:
33 6 0.12
34 6 0.12
35 17 0.33
37 11 0.21
38 6 0.12
39 6 0.12
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (35 bp):
ATTTACTAAAGAAGACTAGTTCTGAATAAATTTTG
Found at i:51626598 original size:51 final size:49
Alignment explanation
Indices: 51626459--51626645 Score: 214
Period size: 49 Copynumber: 3.8 Consensus size: 49
51626449 GTAGCCGAAG
* *
51626459 TTATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAA
1 TTATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCAA
* * * * *
51626508 TAATCTC-GTACACGTAGTAGCCTACACTTAGTACTACACATGTGAATACAG
1 TTATC-CGGTACACATAGTAGCCTACACTTAGTACTACACATGCG-A-CCAA
* * * * *
51626559 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGACCAA
1 TTATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCAA
* *
51626608 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACA
1 TTATCCGGTACACATAGTAGCCTACACTTAGTACTACA
51626646 AACGTGACCT
Statistics
Matches: 112, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 73 0.65
50 2 0.02
51 37 0.33
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (49 bp):
TTATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCAA
Found at i:51626638 original size:100 final size:100
Alignment explanation
Indices: 51626465--51626645 Score: 310
Period size: 100 Copynumber: 1.8 Consensus size: 100
51626455 GAAGTTATCT
51626465 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCTCGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCTCGTACACGTAGTAGCC
51626530 TACACTTAGTACTACACATGTGAATACAGTTTTCG
66 TACACTTAGTACTACACATGTGAATACAGTTTTCG
* * *
51626565 GGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGACCAATTATC-CGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCTC-GTACACGTAGTAGC
*
51626629 CTGCACTTAGTACTACA
65 CTACACTTAGTACTACA
51626646 AACGTGACCT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
99 1 0.01
100 75 0.99
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCTCGTACACGTAGTAGCC
TACACTTAGTACTACACATGTGAATACAGTTTTCG
Found at i:51638212 original size:49 final size:49
Alignment explanation
Indices: 51638140--51638323 Score: 233
Period size: 49 Copynumber: 3.7 Consensus size: 49
51638130 TGAGGTCACG
* **
51638140 TGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATTGATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGATCGCA
* * * * *
51638189 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTAATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAA-TT-GATCGCA
* * *
51638240 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGATCGCA
* *
51638289 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
51638324 GATAGCCTTG
Statistics
Matches: 115, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 70 0.61
50 4 0.03
51 41 0.36
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGATCGCA
Found at i:51638308 original size:100 final size:100
Alignment explanation
Indices: 51638135--51638322 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
51638125 TATTGTGAGG
**
51638135 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATTGATCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAAATAATTGATCGCATGTGTAGTACT
51638200 AAGTGCAGGCTACTATGCGTACCTAATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCTAATAACTTCGA
* * * *
51638235 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATAATTGGTTGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAAATAATTGATCGCATGTGTAGTACT
51638300 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
51638323 AGATAGCCTT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAAATAATTGATCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCTAATAACTTCGA
Found at i:51647458 original size:42 final size:41
Alignment explanation
Indices: 51647381--51647528 Score: 151
Period size: 41 Copynumber: 3.6 Consensus size: 41
51647371 GCTTGGTCTA
*
51647381 GAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTTC
1 GAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTCC
* *
51647422 GAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTTCC
1 GAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTTCC
* * * *
51647464 GAAGGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTT-GGTCTC
1 GAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTTC-C
*
51647505 GAAGGGCTTTTGAGCCGGTGCTAA
1 GAAGGGCTTTTGAGCCAGTGCTAA
51647529 GAGTCGGACT
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
39 4 0.04
40 12 0.13
41 33 0.37
42 28 0.31
43 12 0.13
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
GAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTCC
Found at i:51649641 original size:40 final size:40
Alignment explanation
Indices: 51649574--51649750 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
51649564 ACCCAAGTAT
*
51649574 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
51649613 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
51649653 CTTCGGGTTTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
51649693 CTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
51649733 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
51649751 TTATCATCCG
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 102 0.87
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:51649707 original size:80 final size:79
Alignment explanation
Indices: 51649574--51649738 Score: 242
Period size: 80 Copynumber: 2.1 Consensus size: 79
51649564 ACCCAAGTAT
* * *
51649574 CTTCGGGATTTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCA
1 CTTCGGGATTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCA
*
51649639 ACTCGCACAAATGC
66 ACTCACACAAATGC
* *
51649653 CTTCGGGTTTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAG
1 CTTCGGGATTTAG-CCGGATATAA-CAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAG
*
51649717 TAACTCACACAAATGC
64 CAACTCACACAAATGC
51649733 CTTCGG
1 CTTCGG
51649739 ATCTTAGTCC
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
79 12 0.16
80 64 0.83
81 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (79 bp):
CTTCGGGATTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCA
ACTCACACAAATGC
Found at i:51651720 original size:39 final size:39
Alignment explanation
Indices: 51651669--51651853 Score: 262
Period size: 39 Copynumber: 4.7 Consensus size: 39
51651659 TGTGTGAGAT
* * *
51651669 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* *
51651708 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
51651747 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* *
51651786 TTATATCCGGGCTAAGTCCCGAAAGCATTCGTGCTGATG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
** * * *
51651825 TTATATTTGGACTAAGTTCTGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
51651854 TGGGTTGGAA
Statistics
Matches: 133, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 133 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
Found at i:51668197 original size:31 final size:31
Alignment explanation
Indices: 51668159--51668222 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
51668149 CCTTTTCATA
*
51668159 TTTCATATTTCATAACACTGGACCGAAGTCT
1 TTTCATATTTCATAACACTGGACCGAAGCCT
** *
51668190 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGACCGAAGCCT
51668221 TT
1 TT
51668223 ACTGTAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGACCGAAGCCT
Found at i:51668486 original size:25 final size:24
Alignment explanation
Indices: 51668431--51668538 Score: 139
Period size: 25 Copynumber: 4.4 Consensus size: 24
51668421 CTGGAGGCCT
51668431 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
51668455 AGCCCTTTTGATAAACTGGGGCGAA
1 AGCCCTTTTAATAAACTGGGGC-AA
51668480 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGC-AA
*
51668505 AGCCC-TTTACAGTAAACTGGGGCAT
1 AGCCCTTTTA-A-TAAACTGGGGCAA
51668530 AGCCCTTTT
1 AGCCCTTTT
51668539 TGCACTTCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
23 7 0.09
24 17 0.23
25 37 0.49
26 14 0.19
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:51668609 original size:20 final size:20
Alignment explanation
Indices: 51668586--51668652 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
51668576 TTATGAATAC
51668586 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
51668606 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
51668626 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
51668646 ATCATGT
1 ATCATGT
51668653 ATATCAAAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:51668616 original size:40 final size:39
Alignment explanation
Indices: 51668572--51668652 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 39
51668562 CCCAACCCAA
51668572 TGCATTATGAATAC-ATCATGTGCATATCATA-CATATCATG
1 TGCA-TAT-AATACAATCATGTGCATATCATATCA-ATCATG
*
51668612 TGCATATCATACATATCATGTGCATATCATATCAATCATG
1 TGCATATAATACA-ATCATGTGCATATCATATCAATCATG
51668652 T
1 T
51668653 ATATCAAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 4 0.11
39 3 0.08
40 28 0.76
41 2 0.05
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.36
Consensus pattern (39 bp):
TGCATATAATACAATCATGTGCATATCATATCAATCATG
Found at i:51668617 original size:11 final size:11
Alignment explanation
Indices: 51668586--51668641 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
51668576 TTATGAATAC
51668586 ATCATGTGCAT
1 ATCATGTGCAT
*
51668597 ATCA--TACAT
1 ATCATGTGCAT
51668606 ATCATGTGCAT
1 ATCATGTGCAT
*
51668617 ATCA--TACAT
1 ATCATGTGCAT
51668626 ATCATGTGCAT
1 ATCATGTGCAT
51668637 ATCAT
1 ATCAT
51668642 ATCAATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:51668658 original size:9 final size:10
Alignment explanation
Indices: 51668586--51668658 Score: 64
Period size: 9 Copynumber: 7.4 Consensus size: 10
51668576 TTATGAATAC
51668586 ATCATGTGCAT
1 ATCATGT-CAT
*
51668597 ATCAT-ACAT
1 ATCATGTCAT
51668606 ATCATGTGCAT
1 ATCATGT-CAT
*
51668617 ATCAT-ACAT
1 ATCATGTCAT
51668626 ATCATGTGCAT
1 ATCATGT-CAT
*
51668637 ATCATATCA-
1 ATCATGTCAT
51668646 ATCATGT-AT
1 ATCATGTCAT
51668655 ATCA
1 ATCA
51668659 AAACCCATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
8 1 0.02
9 26 0.51
10 2 0.04
11 22 0.43
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:51669171 original size:8 final size:8
Alignment explanation
Indices: 51669158--51669185 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
51669148 AAATGCCAGA
51669158 ATTTCGGC
1 ATTTCGGC
51669166 ATTTCGGC
1 ATTTCGGC
51669174 ATTTCGGC
1 ATTTCGGC
51669182 ATTT
1 ATTT
51669186 ATCAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (8 bp):
ATTTCGGC
Found at i:51671250 original size:13 final size:13
Alignment explanation
Indices: 51671232--51671259 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
51671222 TGAGAAGAAT
51671232 ATGATAAAATAAA
1 ATGATAAAATAAA
51671245 ATGATAAAATAAA
1 ATGATAAAATAAA
51671258 AT
1 AT
51671260 CATATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (13 bp):
ATGATAAAATAAA
Found at i:51673890 original size:22 final size:22
Alignment explanation
Indices: 51673865--51673906 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
51673855 GTTAGTTATT
*
51673865 TGAATTAGTTATGAAAATGGTA
1 TGAATTAGATATGAAAATGGTA
* *
51673887 TGAATTTGATATGAGAATGG
1 TGAATTAGATATGAAAATGG
51673907 ATGTGAAAAG
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:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (22 bp):
TGAATTAGATATGAAAATGGTA
Found at i:51680864 original size:43 final size:42
Alignment explanation
Indices: 51680716--51680868 Score: 139
Period size: 44 Copynumber: 3.6 Consensus size: 42
51680706 TAGGATTTTC
* * ** * *
51680716 CATATGTGATTTCGTGTAAGACCACATCTGGGACGTTGGCAT
1 CATATTTGATTACGTGTAAGACCATGTCTGGGACATCGGCAT
*
51680758 CGAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATCGGCAT
1 C-ATATT-TGA-TTACGTGTAAGACCATGTCTGGGACATCGGCAT
** *
51680802 CATATTTGATTTTGTGTAAGACCCTGTCTGGGACAAT-GGCATT
1 CATATTTGATTACGTGTAAGACCATGTCTGGGAC-ATCGGCA-T
* *
51680845 GATATTTGATTACATGTAAGACCA
1 CATATTTGATTACGTGTAAGACCA
51680869 CATCTGAGAC
Statistics
Matches: 89, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
42 28 0.31
43 30 0.34
44 31 0.35
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
CATATTTGATTACGTGTAAGACCATGTCTGGGACATCGGCAT
Found at i:51680884 original size:43 final size:43
Alignment explanation
Indices: 51680717--51680888 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 43
51680707 AGGATTTTCC
* * * *
51680717 ATATGTGATTTCGTGTAAGACCACATCTGGGACGTTGGCATCG
1 ATATTTGATTACGTGTAAGACCACATCTGGGACGATGGCATTG
* ** *
51680760 AT-TTGAGATTTACGTGTAAGACCATGTCTGGGAC-ATCGGCA-TC
1 ATATT-TGA-TTACGTGTAAGACCACATCTGGGACGAT-GGCATTG
** * *
51680803 ATATTTGATTTTGTGTAAGACC-CTGTCTGGGACAATGGCATTG
1 ATATTTGATTACGTGTAAGACCAC-ATCTGGGACGATGGCATTG
* *
51680846 ATATTTGATTACATGTAAGACCACATCTGAGACGATGGCATTG
1 ATATTTGATTACGTGTAAGACCACATCTGGGACGATGGCATTG
51680889 TACGAGCTTT
Statistics
Matches: 102, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
42 26 0.25
43 47 0.46
44 29 0.28
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
ATATTTGATTACGTGTAAGACCACATCTGGGACGATGGCATTG
Found at i:51694269 original size:40 final size:40
Alignment explanation
Indices: 51694186--51694448 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
51694176 TTGAATGCTG
* * * * * *
51694186 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
51694226 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
51694266 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
51694306 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
51694346 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
51694386 TCCGGGTTATGTCCCAAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
51694425 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
51694449 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.17
40 157 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:51694468 original size:79 final size:80
Alignment explanation
Indices: 51694225--51694483 Score: 229
Period size: 80 Copynumber: 3.3 Consensus size: 80
51694215 AAGTGAATAT
* * * * * * *
51694225 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCAAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
51694289 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * * *
51694305 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
51694370 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
51694385 ATCCGGGTTATGTCCCAAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
51694449 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
* *
51694464 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCAAAGG
51694484 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 13 0.08
79 48 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:51702226 original size:40 final size:40
Alignment explanation
Indices: 51702136--51702398 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
51702126 TTGAATGCTG
* * * * * *
51702136 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
51702176 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
51702216 TTCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
51702256 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
51702296 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
51702336 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
51702375 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
51702399 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:51702418 original size:79 final size:80
Alignment explanation
Indices: 51702175--51702433 Score: 247
Period size: 80 Copynumber: 3.3 Consensus size: 80
51702165 AAGTGAATAT
* * * * ** *
51702175 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATTCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
51702239 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
51702255 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
51702320 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
51702335 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
51702399 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
51702414 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
51702434 TACGTGATTT
Statistics
Matches: 155, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:51704299 original size:34 final size:34
Alignment explanation
Indices: 51704254--51704327 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 34
51704244 AGTTTGAGAG
* *
51704254 TAGTTCGTGGTACGAGAATAGCGGAGAATGGCAT
1 TAGTTCATGGTACGAGAATAGCGAAGAATGGCAT
*
51704288 TAGTTCATGGTATGAGAATAGCGAAGAATGGCAT
1 TAGTTCATGGTACGAGAATAGCGAAGAATGGCAT
51704322 TCAGTT
1 T-AGTT
51704328 GAAAGCTAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 32 0.89
35 4 0.11
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (34 bp):
TAGTTCATGGTACGAGAATAGCGAAGAATGGCAT
Found at i:51704340 original size:34 final size:33
Alignment explanation
Indices: 51704267--51704340 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 33
51704257 TTCGTGGTAC
* * * *
51704267 GAGAATAGCGGAGAATGGCATTAGTTCATGGTA
1 GAGAATAGCGAAGAATGGCATTAGTTAAAGCTA
51704300 TGAGAATAGCGAAGAATGGCATTCAGTTGAAAGCTA
1 -GAGAATAGCGAAGAATGGCATT-AGTT-AAAGCTA
51704336 -AGAAT
1 GAGAAT
51704341 GACAAAGATC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
34 26 0.76
35 4 0.12
36 4 0.12
ACGTcount: A:0.38, C:0.09, G:0.30, T:0.23
Consensus pattern (33 bp):
GAGAATAGCGAAGAATGGCATTAGTTAAAGCTA
Found at i:51712657 original size:13 final size:13
Alignment explanation
Indices: 51712629--51712672 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
51712619 CTTAATTGAG
*
51712629 AAATTAATTTAGTT
1 AAATTAATTCA-TT
*
51712643 AATTTAATTCATT
1 AAATTAATTCATT
*
51712656 AAATTAATTGATT
1 AAATTAATTCATT
51712669 AAAT
1 AAAT
51712673 CATATTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (13 bp):
AAATTAATTCATT
Found at i:51715026 original size:8 final size:8
Alignment explanation
Indices: 51715008--51715036 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
51714998 AATAATGGAG
51715008 AAAAATA-
1 AAAAATAT
51715015 AAAAATAT
1 AAAAATAT
51715023 AAAAATAT
1 AAAAATAT
51715031 AAAAAT
1 AAAAAT
51715037 CAAGTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATAT
Found at i:51716334 original size:28 final size:29
Alignment explanation
Indices: 51716287--51716349 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
51716277 TTTTATTTAT
*
51716287 ATTATAAAAATATT-ATTTAA-TTAAAAC
1 ATTATAAAAATATTAATTAAAGTTAAAAC
* *
51716314 ATTATAAATTATATTAATTAAAGTTAAAAT
1 ATTATAAA-AATATTAATTAAAGTTAAAAC
51716344 ATTATA
1 ATTATA
51716350 TTATAGGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 8 0.27
28 5 0.17
29 5 0.17
30 12 0.40
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
ATTATAAAAATATTAATTAAAGTTAAAAC
Found at i:51716347 original size:23 final size:25
Alignment explanation
Indices: 51716293--51716352 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 25
51716283 TTATATTATA
51716293 AAAATATTAT-TTAATTAAAACATT
1 AAAATATTATATTAATTAAAACATT
* *
51716317 ATAA-ATTATATTAATT-AAA-GTT
1 AAAATATTATATTAATTAAAACATT
51716339 AAAATATTATATTA
1 AAAATATTATATTA
51716353 TAGGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 5 0.16
23 17 0.55
24 9 0.29
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
AAAATATTATATTAATTAAAACATT
Found at i:51716760 original size:24 final size:23
Alignment explanation
Indices: 51716734--51716782 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
51716724 TATTTATTAA
*
51716734 TTATT-ATTAAGTTA-AAGATAT
1 TTATTAATTAAATTATAAGATAT
*
51716755 TTATTAATTAAATTATAAGATTT
1 TTATTAATTAAATTATAAGATAT
51716778 TTATT
1 TTATT
51716783 TGATAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.21
22 8 0.33
23 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (23 bp):
TTATTAATTAAATTATAAGATAT
Found at i:51717888 original size:23 final size:22
Alignment explanation
Indices: 51717861--51717925 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
51717851 GCTTTGCCGA
51717861 TTAGGCACTTTATGTGTCGTATT
1 TTAGGCAC-TTATGTGTCGTATT
* * *
51717884 TTAGGCACCT-CGTGT-GTTGTT
1 TTAGGCACTTATGTGTCG-TATT
51717905 TTAGGCACTTATGTGTCGTAT
1 TTAGGCACTTATGTGTCGTAT
51717926 ACTGATCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 1 0.03
21 16 0.48
22 7 0.21
23 9 0.27
ACGTcount: A:0.15, C:0.15, G:0.25, T:0.45
Consensus pattern (22 bp):
TTAGGCACTTATGTGTCGTATT
Found at i:51724727 original size:6 final size:6
Alignment explanation
Indices: 51724664--51724723 Score: 75
Period size: 6 Copynumber: 9.7 Consensus size: 6
51724654 TTCCAAATGG
* *
51724664 TTTCAT TTCTCTAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCGT TTTCGT
1 TTTCAT TT-TC-AT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
*
51724714 TTTCGT TTTC
1 TTTCAT TTTC
51724724 GTTTAAGTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
6 43 0.84
7 4 0.08
8 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.05, T:0.67
Consensus pattern (6 bp):
TTTCAT
Found at i:51724733 original size:18 final size:18
Alignment explanation
Indices: 51724677--51724734 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
51724667 CATTTCTCTA
* *
51724677 TTTTCATTTTCATTTTCA-
1 TTTTCATTTTC-GTTTAAG
**
51724695 TTTTCATTTTCGTTTTCG
1 TTTTCATTTTCGTTTAAG
*
51724713 TTTTCGTTTTCGTTTAAG
1 TTTTCATTTTCGTTTAAG
51724731 TTTT
1 TTTT
51724735 GAAGAAAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 3 0.09
18 30 0.91
ACGTcount: A:0.10, C:0.14, G:0.09, T:0.67
Consensus pattern (18 bp):
TTTTCATTTTCGTTTAAG
Found at i:51733735 original size:39 final size:40
Alignment explanation
Indices: 51733640--51733862 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
51733630 TTGAATGATG
*
51733640 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
51733678 ATTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
51733719 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
51733758 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
51733797 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
51733836 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
51733863 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 92 0.57
40 58 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:51733834 original size:79 final size:81
Alignment explanation
Indices: 51733640--51733862 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
51733630 TTGAATGATG
* * * * *
51733640 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATTCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
51733702 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
51733719 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
51733780 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * *
51733797 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
51733861 TG
66 TG
51733863 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.37
79 54 0.43
80 24 0.19
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:51733884 original size:79 final size:79
Alignment explanation
Indices: 51733692--51733895 Score: 213
Period size: 79 Copynumber: 2.6 Consensus size: 79
51733682 GGACTAAGAT
** * *
51733692 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
*
51733755 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** *
51733770 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
*
51733834 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
51733850 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
51733896 TACGTGATTT
Statistics
Matches: 110, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 37 0.34
79 47 0.43
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:51741656 original size:39 final size:40
Alignment explanation
Indices: 51741561--51741783 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
51741551 TTGAATGATG
*
51741561 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
51741599 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
51741640 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
51741679 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
51741718 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
51741757 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
51741784 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:51741747 original size:79 final size:81
Alignment explanation
Indices: 51741561--51741783 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
51741551 TTGAATGATG
* * *
51741561 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
51741623 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
51741640 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
51741701 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
51741718 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
51741782 TG
66 TG
51741784 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:51741805 original size:79 final size:79
Alignment explanation
Indices: 51741561--51741816 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
51741551 TTGAATGATG
* * * *
51741561 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
51741622 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
51741640 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
51741704 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
51741718 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
51741781 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
51741798 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
51741817 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:51745326 original size:23 final size:23
Alignment explanation
Indices: 51745293--51745336 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
51745283 TGATAATATG
51745293 TTTTGATATAAAAAATTAAAGTAT
1 TTTTGATAT-AAAAATTAAAGTAT
*
51745317 TTTTGA-ATAAAAGTTAAAGT
1 TTTTGATATAAAAATTAAAGT
51745337 TGAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (23 bp):
TTTTGATATAAAAATTAAAGTAT
Found at i:51745688 original size:20 final size:21
Alignment explanation
Indices: 51745641--51745688 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
51745631 TCAATCTAGC
** *
51745641 ATCGATAACTTTTTATATTGT
1 ATCGATAAAATTTTATATGGT
*
51745662 ATTGATAAAATTTT-TATGGT
1 ATCGATAAAATTTTATATGGT
51745682 ATCGATA
1 ATCGATA
51745689 TCTTCAGCTC
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (21 bp):
ATCGATAAAATTTTATATGGT
Found at i:51750440 original size:19 final size:19
Alignment explanation
Indices: 51750418--51750458 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
51750408 AAACTAAAAT
51750418 TAAAAAAGAGATTATAAAC
1 TAAAAAAGAGATTATAAAC
*
51750437 TAAAAAATAGATTATAAAC
1 TAAAAAAGAGATTATAAAC
51750456 TAA
1 TAA
51750459 GTAATTGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.24
Consensus pattern (19 bp):
TAAAAAAGAGATTATAAAC
Found at i:51752735 original size:9 final size:9
Alignment explanation
Indices: 51752702--51752728 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
51752692 AAGTTCTAAT
51752702 CATCATCCA
1 CATCATCCA
51752711 CATCATCCA
1 CATCATCCA
51752720 CATCATCCA
1 CATCATCCA
51752729 TCTCATCGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.22
Consensus pattern (9 bp):
CATCATCCA
Found at i:51757676 original size:28 final size:28
Alignment explanation
Indices: 51757636--51757699 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
51757626 TGTACTAGAG
*
51757636 TACCCCTATGTATGCAAAATTACCAT-TA
1 TACCCCTATGTATGCAAAATGACC-TCTA
51757664 TACCCCTATGTATGCAAAATGACCTCTA
1 TACCCCTATGTATGCAAAATGACCTCTA
51757692 TACCCCTA
1 TACCCCTA
51757700 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.33, C:0.30, G:0.08, T:0.30
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCTCTA
Found at i:51757863 original size:27 final size:28
Alignment explanation
Indices: 51757805--51757894 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
51757795 AGGAAGCGTC
*
51757805 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
51757833 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
51757860 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
51757889 CTGGTG
1 CTGGTG
51757895 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:51757905 original size:29 final size:28
Alignment explanation
Indices: 51757815--51757905 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
51757805 CTGGTGGCTA
* * *
51757815 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
51757843 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
51757870 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
51757899 TGTCACA
1 TGCCACA
51757906 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:51757913 original size:55 final size:56
Alignment explanation
Indices: 51757805--51757919 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
51757795 AGGAAGCGTC
* * *
51757805 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
51757860 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
51757916 CTGG
1 CTGG
51757920 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:51758382 original size:19 final size:19
Alignment explanation
Indices: 51758358--51758396 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
51758348 TTTTAATTAT
* *
51758358 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
51758377 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
51758396 T
1 T
51758397 ATGGTGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:51770440 original size:64 final size:64
Alignment explanation
Indices: 51770359--51770543 Score: 230
Period size: 67 Copynumber: 2.8 Consensus size: 64
51770349 AGACATTATG
* *
51770359 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGCGTGATACAATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
* * * *
51770423 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGGGAT
1 ATGTAGCTAGGTCGCATGCGT-GATACAA-TG-TGTACACCATGTAGACAAGAGAGCTACGGGAT
51770488 AT
63 AT
* * *
51770490 ATGTAGCTAGGTCGCATGCGTGGTTCCAA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGCGT-GATACAATGTGTACACCATGTAG-ACAAGAGAGC
51770544 CGAACTATAT
Statistics
Matches: 108, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
63 1 0.01
64 39 0.36
65 5 0.05
66 2 0.02
67 61 0.56
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGCGTGATACAATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
Found at i:51770476 original size:67 final size:67
Alignment explanation
Indices: 51770392--51770521 Score: 260
Period size: 67 Copynumber: 1.9 Consensus size: 67
51770382 TACTATGTGT
51770392 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
51770457 GG
66 GG
51770459 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTG
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTG
51770522 TTCACCATGT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (67 bp):
ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
GG
Found at i:51772343 original size:9 final size:9
Alignment explanation
Indices: 51772329--51772500 Score: 129
Period size: 9 Copynumber: 18.6 Consensus size: 9
51772319 ATGTATTAGT
51772329 TAAGTTATG
1 TAAGTTATG
51772338 TAAGTTGTTATG
1 TAA---GTTATG
*
51772350 TACGTTATG
1 TAAGTTATG
*
51772359 TGAGTTATG
1 TAAGTTATG
*
51772368 TAAATTATG
1 TAAGTTATG
51772377 TAAGTTATG
1 TAAGTTATG
*
51772386 TGAGTTA--
1 TAAGTTATG
51772393 T-A-TTATG
1 TAAGTTATG
51772400 TAAGTTGTTATG
1 TAA---GTTATG
*
51772412 TAAATTATG
1 TAAGTTATG
51772421 TAAGTTATG
1 TAAGTTATG
51772430 TGAA-TTATG
1 T-AAGTTATG
51772439 TAAGTTGTTATG
1 TAA---GTTATG
*
51772451 TAAATTATG
1 TAAGTTATG
*
51772460 TAAGTTATA
1 TAAGTTATG
*
51772469 TGAGTTATG
1 TAAGTTATG
51772478 TAAGTTATG
1 TAAGTTATG
* *
51772487 TAATTTATT
1 TAAGTTATG
51772496 TAAGT
1 TAAGT
51772501 AATGATCAAT
Statistics
Matches: 130, Mismatches: 18, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
5 3 0.02
6 1 0.01
7 2 0.02
8 3 0.02
9 95 0.73
10 2 0.02
12 24 0.18
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:51772376 original size:39 final size:40
Alignment explanation
Indices: 51772333--51772500 Score: 122
Period size: 39 Copynumber: 4.2 Consensus size: 40
51772323 ATTAGTTAAG
*
51772333 TTATGTAAGTTGTTATGTACGTTATGT-G-AGTTATGTAAA
1 TTATGTAAGTTGTTATGTA-ATTATGTAGTAGTTATGTAAA
* *
51772372 TTATGTAAGTTATGTGA-GTTATATTATGTAAGTTGTTATGTAAA
1 TTATGTAAG-T-TGTTATG-TA-ATTATGT-AGTAGTTATGTAAA
*
51772416 TTATGTAA---GTTATGTGAATTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTGTTATGT-AATTATGT-AGTAGTTATGTAAA
* * *
51772455 TTATGTAAGTT-ATATG-AGTTATGTA--AGTTATGTAAT
1 TTATGTAAGTTGTTATGTAATTATGTAGTAGTTATGTAAA
*
51772491 TTATTTAAGT
1 TTATGTAAGT
51772501 AATGATCAAT
Statistics
Matches: 108, Mismatches: 10, Indels: 25
0.76 0.07 0.17
Matches are distributed among these distances:
36 18 0.17
38 1 0.01
39 50 0.46
40 4 0.04
41 16 0.15
43 1 0.01
44 18 0.17
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.48
Consensus pattern (40 bp):
TTATGTAAGTTGTTATGTAATTATGTAGTAGTTATGTAAA
Found at i:51773108 original size:241 final size:241
Alignment explanation
Indices: 51772683--51773406 Score: 1319
Period size: 241 Copynumber: 3.0 Consensus size: 241
51772673 AAGGTTATAT
*
51772683 TAAA-ATTCAATAGTAAATGAGATCGATAGAAC-TTTTCCAAGTCTTTTTGAATTTTTT-AGATT
1 TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGATT
*
51772745 CATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGTAA
66 CATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAA
* *
51772810 CCCGTCAAGTTTTCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAG
131 CCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAG
51772875 GTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
196 GTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
* * * *
51772921 TAAATATTCAATGGTAAATGAGCCCGATAGAACTTTTTTCAAGTCATTTTGAATTTTTTAAGATT
1 TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGATT
*
51772986 CATCATACGTGGCGTTGTTACGCCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAA
66 CATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAA
51773051 CCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAG
131 CCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAG
*
51773116 GTTAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
196 GTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
51773162 TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGATT
1 TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGATT
*
51773227 CATCATACGTGGCGTTGTTACACCTAGGGAGGATCTATTATATCTTACAGCTCGATATAAGGCAA
66 CATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAA
51773292 CCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAG
131 CCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAG
*
51773357 GTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGATACATGGTAA
196 GTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
51773403 TAAA
1 TAAA
51773407 ATTAATTCAA
Statistics
Matches: 465, Mismatches: 18, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
238 4 0.01
239 25 0.05
240 23 0.05
241 413 0.89
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (241 bp):
TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGATT
CATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAA
CCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAG
GTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
Found at i:51773564 original size:23 final size:23
Alignment explanation
Indices: 51773538--51773587 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
51773528 GTTCAAGTTT
51773538 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
*
51773561 ATTTAAAGGGCTGCAATTCGTAC
1 ATTTAAAGGGCTGCAATTCATAC
51773584 ATTT
1 ATTT
51773588 GATTAATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:51775418 original size:15 final size:15
Alignment explanation
Indices: 51775398--51775427 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51775388 AACAGTAATA
51775398 AATATATAGGGATCT
1 AATATATAGGGATCT
51775413 AATATATAGGGATCT
1 AATATATAGGGATCT
51775428 GTTTGTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (15 bp):
AATATATAGGGATCT
Found at i:51777639 original size:27 final size:28
Alignment explanation
Indices: 51777551--51777648 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
51777541 CATGAGATTG
* * * *
51777551 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
51777580 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
51777608 ACACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
51777635 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
51777649 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:51777662 original size:29 final size:27
Alignment explanation
Indices: 51777581--51777662 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
51777571 AATTGTACAG
* *
51777581 CACTAAGTGTGCGAGTTTGATTATATAA
1 CACTAAGTGTGCGA-CTTAATTATATAA
* * *
51777609 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGACTTAATTATATAA
*
51777636 CACTGAGTGTGCGGACTTAATATATAT
1 CACTAAGTGTGC-GACTTAAT-TATAT
51777663 TTTTGAATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
27 22 0.47
28 20 0.43
29 5 0.11
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (27 bp):
CACTAAGTGTGCGACTTAATTATATAA
Found at i:51782760 original size:53 final size:55
Alignment explanation
Indices: 51782582--51782773 Score: 248
Period size: 56 Copynumber: 3.5 Consensus size: 55
51782572 TCTTATATAG
* *
51782582 GGTCTTCCTCGTACACATATATCA-AATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATG-CAACGTATTAAACGT
** * * *
51782637 GGTCTTACTCATACACATATATCGGAATCACATATCGATACCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGAT-GCAACGTATTAAACGT
*
51782693 GGTCTTACTCGCACACATAT-TCCAGAATCA-ATATCAATGCAACGTA-TAAACGT
1 GGTCTTACTCGCACACATATAT-CAGAATCACATATCGATGCAACGTATTAAACGT
*
51782746 GGTCTTACTTGCACACATATATCAGAAT
1 GGTCTTACTCGCACACATATATCAGAAT
51782774 TAGATGTCAC
Statistics
Matches: 121, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
53 32 0.26
54 7 0.06
55 29 0.24
56 53 0.44
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (55 bp):
GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCAACGTATTAAACGT
Found at i:51787839 original size:18 final size:18
Alignment explanation
Indices: 51787797--51787839 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
51787787 GCCCATTCCG
* *
51787797 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
51787815 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
51787833 AAGTATG
1 AAGTATG
51787840 CCCATTCGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:51788415 original size:80 final size:79
Alignment explanation
Indices: 51788299--51788447 Score: 262
Period size: 80 Copynumber: 1.9 Consensus size: 79
51788289 TAAATTGTAC
* *
51788299 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTG
1 AGCACTAAGTGTGCGAGTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTAAGTG
51788364 TGCGATTTGATTAT
66 TGCGATTTGATTAT
*
51788378 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAG-TTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTAAGT
51788443 GTGCG
65 GTGCG
51788448 GACTTAATAT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
79 17 0.26
80 49 0.74
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (79 bp):
AGCACTAAGTGTGCGAGTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTAAGTG
TGCGATTTGATTAT
Found at i:51788460 original size:27 final size:27
Alignment explanation
Indices: 51788299--51788447 Score: 239
Period size: 27 Copynumber: 5.6 Consensus size: 27
51788289 TAAATTGTAC
*
51788299 AGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGATTATAT
*
51788326 AGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGATTATAT
*
51788353 AGCACTAAGTGTGCGATTTGA-T-TAT
1 AGCACTAAGTGTGCGAGTTGATTATAT
51788378 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-TTGATTATAT
51788406 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATAT
*
51788433 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51788448 GACTTAATAT
Statistics
Matches: 115, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
25 18 0.16
26 5 0.04
27 72 0.63
28 20 0.17
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATAT
Found at i:51800883 original size:40 final size:40
Alignment explanation
Indices: 51800785--51801127 Score: 467
Period size: 40 Copynumber: 8.6 Consensus size: 40
51800775 TCCTCGTTCA
* * * * *
51800785 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
51800824 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
51800864 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
51800904 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
51800944 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
51800984 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
51801024 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
51801064 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
51801104 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
51801128 CAGCATTCAA
Statistics
Matches: 280, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
39 37 0.13
40 235 0.84
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:51804521 original size:39 final size:40
Alignment explanation
Indices: 51804404--51804588 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
51804394 ACTACTCGTT
*
51804404 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
51804444 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
51804484 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
51804523 CAAATGCCTTC-GGATCTTAGTCCTGATATGGTCAATTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AACTCGCA
51804564 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51804589 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.61
41 14 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:51804572 original size:79 final size:81
Alignment explanation
Indices: 51804404--51804588 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
51804394 ACTACTCGTT
* *
51804404 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
51804468 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * ** *
51804485 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCT
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
51804547 GATATGGTCAATTAGCA-
65 GATATAGT-AACTAGCAC
51804564 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
51804589 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 27 0.31
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:51808001 original size:43 final size:42
Alignment explanation
Indices: 51807934--51808087 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 42
51807924 TTGTACAATG
* * *
51807934 CCAACGTCCCAGATGTGGTCTTACATGTAATCAAATATTGATA
1 CCAATGTCCCAGATGTGGTCTTACATGAAATCAAATA-CGATA
* * *
51807977 CCACTGTCCCAGATAG-GGTTTTACATGAAATCAAATACGATG
1 CCAATGTCCCAGAT-GTGGTCTTACATGAAATCAAATACGATA
* ** *
51808019 CCAATGTCCCAGATGTGGTCCTACATGTAGGTCATAAGT-CGATG
1 CCAATGTCCCAGATGTGGTCTTACATG-AAATCA-AA-TACGATA
* *
51808063 CCAACGTCCCAGACGTGGTCTTACA
1 CCAATGTCCCAGATGTGGTCTTACA
51808088 CGATAACACA
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 25 0.27
43 35 0.38
44 30 0.33
45 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (42 bp):
CCAATGTCCCAGATGTGGTCTTACATGAAATCAAATACGATA
Found at i:51815478 original size:22 final size:22
Alignment explanation
Indices: 51815430--51815480 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
51815420 TTACACCACT
51815430 CACACGGCCTGGCCATTAAACC
1 CACACGGCCTGGCCATTAAACC
* * *
51815452 TACACGGCCTGGCCATTGAGCC
1 CACACGGCCTGGCCATTAAACC
51815474 CACACGG
1 CACACGG
51815481 TCGTCGTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.39, G:0.24, T:0.14
Consensus pattern (22 bp):
CACACGGCCTGGCCATTAAACC
Found at i:51820270 original size:20 final size:21
Alignment explanation
Indices: 51820245--51820292 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
51820235 CCTCTTCGCG
*
51820245 TCACACGCCCGTGC-TCGCCA
1 TCACACGCCCGTGCACCGCCA
*
51820265 TCACACGCCTGTGCACCGCCA
1 TCACACGCCCGTGCACCGCCA
*
51820286 CCACACG
1 TCACACG
51820293 GCCTAGCCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.19, C:0.50, G:0.19, T:0.12
Consensus pattern (21 bp):
TCACACGCCCGTGCACCGCCA
Found at i:51821240 original size:13 final size:13
Alignment explanation
Indices: 51821219--51821251 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
51821209 TTTGATGAAA
*
51821219 TTAGTTAATTAGT
1 TTAGATAATTAGT
51821232 TTAGATAATTAGT
1 TTAGATAATTAGT
51821245 TTA-ATAA
1 TTAGATAA
51821252 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:51826220 original size:41 final size:41
Alignment explanation
Indices: 51826155--51826270 Score: 128
Period size: 41 Copynumber: 2.8 Consensus size: 41
51826145 ATTCGGAATG
* *
51826155 GCTTCGGCTATATATGGCAATTAGTGTGAGAGACCA-AGATA
1 GCTTCGGCTATATAAGGCACTTAGTGTGAGAGACCATA-ATA
* **
51826196 GCTTCGGCTATGTAAGGCACTTAGTGTGCA-AGATTATAATA
1 GCTTCGGCTATATAAGGCACTTAGTGTG-AGAGACCATAATA
* *
51826237 GCTTCGGCTATATATAGGAACTTAGTGTGTGAGA
1 GCTTCGGCTATATA-AGGCACTTAGTGTGAGAGA
51826271 TATCGAGTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 45 0.71
42 18 0.29
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (41 bp):
GCTTCGGCTATATAAGGCACTTAGTGTGAGAGACCATAATA
Found at i:51829023 original size:57 final size:57
Alignment explanation
Indices: 51828935--51829051 Score: 234
Period size: 57 Copynumber: 2.1 Consensus size: 57
51828925 AAAATGCTCA
51828935 TATCAAAATAATGTCATGGCAAAATATTGTCTAATCAACTGCTCAAAGAGTTACTAC
1 TATCAAAATAATGTCATGGCAAAATATTGTCTAATCAACTGCTCAAAGAGTTACTAC
51828992 TATCAAAATAATGTCATGGCAAAATATTGTCTAATCAACTGCTCAAAGAGTTACTAC
1 TATCAAAATAATGTCATGGCAAAATATTGTCTAATCAACTGCTCAAAGAGTTACTAC
51829049 TAT
1 TAT
51829052 AACCTGCCTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (57 bp):
TATCAAAATAATGTCATGGCAAAATATTGTCTAATCAACTGCTCAAAGAGTTACTAC
Found at i:51831844 original size:43 final size:41
Alignment explanation
Indices: 51831756--51831867 Score: 116
Period size: 43 Copynumber: 2.7 Consensus size: 41
51831746 TGTGTTATCG
* * * *
51831756 TGTAAGACCACGTCTGGGACGTTGCATCGTATTTGATTTCG
1 TGTAAGACCACGTCTAGGACGTGGCATCGTATTTGATTACA
**
51831797 TGTAAGACCTTGTCTAGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCACGTCTAGGAC-GTGGCATCG-TATTTGATTACA
** *
51831840 TGTAAGACCATATCTTGGACGTTGGCAT
1 TGTAAGACCACGTCTAGGACG-TGGCAT
51831868 TTTACGAGTT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 17 0.29
42 9 0.15
43 33 0.56
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (41 bp):
TGTAAGACCACGTCTAGGACGTGGCATCGTATTTGATTACA
Found at i:51840543 original size:40 final size:40
Alignment explanation
Indices: 51840506--51840631 Score: 177
Period size: 40 Copynumber: 3.2 Consensus size: 40
51840496 GCTACTCGTT
*
51840506 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTA-AGTAACTCGCA
* *
51840546 CAATTGCCTTCGGGACTTAACCCGGATTAAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAAGTAACTCGCA
*
51840586 CAAATGCCTTCGGG-CTTAGCCCGGAATT-AGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAAGTAACTCGCA
51840625 CAAATGC
1 CAAATGC
51840632 TGTAACACCC
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
39 26 0.33
40 49 0.63
41 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAAGTAACTCGCA
Found at i:51842157 original size:40 final size:40
Alignment explanation
Indices: 51841975--51842197 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
51841965 TCCTCGTTCA
* * * * *
51841975 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
51842014 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
51842054 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
51842094 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
51842134 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
51842174 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
51842198 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:51842206 original size:41 final size:41
Alignment explanation
Indices: 51842129--51842206 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
51842119 TTAGTATCTC
* * *
51842129 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
51842170 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
51842207 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:51862499 original size:39 final size:40
Alignment explanation
Indices: 51862297--51862517 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
51862287 GAATGCTGTT
* * * * * *
51862297 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATC
1 CGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATC
* * * *
51862337 CGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATC
1 CGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAATC
*
51862377 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATC
**
51862417 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATC
* * *
51862457 CGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAAC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATC
* *
51862496 CGGGCTATGTCCCGAAGGCATT
1 CGGGTTAAGTCCCGAAGGCATT
51862518 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 116 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATC
Found at i:51862537 original size:79 final size:80
Alignment explanation
Indices: 51862370--51862552 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
51862360 GTGCGAGATA
* * *
51862370 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
51862435 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
51862450 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
51862514 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
51862529 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
51862553 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:51864378 original size:55 final size:56
Alignment explanation
Indices: 51864313--51864427 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
51864303 AGCATGGCTG
* * *
51864313 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * * *
51864369 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAATAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
51864424 CCAG
1 CCAG
51864428 GACGCTTCCA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.56
56 21 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:51864424 original size:28 final size:27
Alignment explanation
Indices: 51864338--51864427 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
51864328 GTGACAGAGT
*
51864338 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
51864367 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
51864394 CACCAGAATAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
51864422 CACCAG
1 CACCAG
51864428 GACGCTTCCA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:51864578 original size:28 final size:28
Alignment explanation
Indices: 51864533--51864597 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
51864523 AAATTAACCC
51864533 TAGGGGTATAACGATAATTTTGCATACA
1 TAGGGGTATAACGATAATTTTGCATACA
* *
51864561 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAACGATAATTTTGCATACA
51864589 TAGGGGTAT
1 TAGGGGTAT
51864598 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAACGATAATTTTGCATACA
Found at i:51865941 original size:36 final size:36
Alignment explanation
Indices: 51865894--51865965 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
51865884 CTATCCTTAT
51865894 TCAATCCCCTTACCCTCTTAAACTCTTCCTGACAGA
1 TCAATCCCCTTACCCTCTTAAACTCTTCCTGACAGA
51865930 TCAATCCCCTTACCCTCTTAAACTCTTCCTGACAGA
1 TCAATCCCCTTACCCTCTTAAACTCTTCCTGACAGA
51865966 CTTTTATTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.39, G:0.06, T:0.31
Consensus pattern (36 bp):
TCAATCCCCTTACCCTCTTAAACTCTTCCTGACAGA
Found at i:51867168 original size:39 final size:39
Alignment explanation
Indices: 51866962--51867181 Score: 180
Period size: 39 Copynumber: 5.6 Consensus size: 39
51866952 TACCAATACA
* * * *
51866962 AGCCTGCGGGAATTTAAACCCGG-TATAATACCAGC-TCAA
1 AGCCTGCGGGACTTT-AGCCCGGATATAATTCCAGCAT-AT
** * * **
51867001 AGCCTGCGGGACTTTTTCCCGGACATATTTCCAGCACGT
1 AGCCTGCGGGACTTTAGCCCGGATATAATTCCAGCATAT
* * * *
51867040 A-CCTGC-GGACCTTAAGTCCGGTTATAATTCCAGCACAT
1 AGCCTGCGGGA-CTTTAGCCCGGATATAATTCCAGCATAT
* * *
51867078 AGCCTGC-GGACCTTAAGTCCGGGTATAATTCCAGCATAT
1 AGCCTGCGGGA-CTTTAGCCCGGATATAATTCCAGCATAT
* *
51867117 AGCCTGCAGGTCTTTAGCCCGGATATAATTCCAGCATAT
1 AGCCTGCGGGACTTTAGCCCGGATATAATTCCAGCATAT
*
51867156 AGCCTGCGGGTCTTTAAGCCCGGATA
1 AGCCTGCGGGACTTT-AGCCCGGATA
51867182 CACATCAAAT
Statistics
Matches: 151, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
37 3 0.02
38 31 0.21
39 105 0.70
40 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
AGCCTGCGGGACTTTAGCCCGGATATAATTCCAGCATAT
Found at i:51869041 original size:42 final size:43
Alignment explanation
Indices: 51868992--51869106 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
51868982 TATGTGTTTT
*
51868992 CATGTAAGACCATGTCTGGGACGTTGGCATC-ATATTTGATTT
1 CATGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTA
** * * * *
51869034 TGTGTAAGACCCTATCTAGGATAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCATGTCTGGGA-CGTTGGCATCGATATTTGATTA
* * *
51869077 CATGTAAGACCACGTCTGAGACATTGGCAT
1 CATGTAAGACCATGTCTGGGACGTTGGCAT
51869107 TGTATGAGCT
Statistics
Matches: 54, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
42 23 0.43
43 31 0.57
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:51874589 original size:14 final size:15
Alignment explanation
Indices: 51874561--51874590 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
51874551 GTTATATGTG
51874561 TTAATTTTTCGTGTT
1 TTAATTTTTCGTGTT
51874576 TTAATTTTTC-TGTT
1 TTAATTTTTCGTGTT
51874590 T
1 T
51874591 GAATGTCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.13, C:0.07, G:0.10, T:0.70
Consensus pattern (15 bp):
TTAATTTTTCGTGTT
Found at i:51875424 original size:13 final size:13
Alignment explanation
Indices: 51875406--51875430 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51875396 GTTGACTATT
51875406 TGATATGTGATTC
1 TGATATGTGATTC
51875419 TGATATGTGATT
1 TGATATGTGATT
51875431 ATGTGTAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (13 bp):
TGATATGTGATTC
Found at i:51875529 original size:43 final size:43
Alignment explanation
Indices: 51875419--51875544 Score: 198
Period size: 43 Copynumber: 2.9 Consensus size: 43
51875409 TATGTGATTC
* * *
51875419 TGATATGTGATTATGTGTAAGACCACATCTAGGACGTTGGCAT
1 TGATATGTGATTACGTGTAAGACCTCGTCTAGGACGTTGGCAT
*
51875462 CGATATGTGATTACGTGTAAGACCTCGTCTAGGACGTTGGCAT
1 TGATATGTGATTACGTGTAAGACCTCGTCTAGGACGTTGGCAT
* *
51875505 TGATATGTGATTACGTGTAAGACCTTGTCTGGGACGTTGG
1 TGATATGTGATTACGTGTAAGACCTCGTCTAGGACGTTGG
51875545 TGTAACACCC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.33
Consensus pattern (43 bp):
TGATATGTGATTACGTGTAAGACCTCGTCTAGGACGTTGGCAT
Found at i:51876998 original size:79 final size:78
Alignment explanation
Indices: 51876896--51877118 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
51876886 GCTCCTCGTT
* *
51876896 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
51876961 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
51876976 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
51877039 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
51877054 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
51877117 GA
63 GA
51877119 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:51877013 original size:39 final size:40
Alignment explanation
Indices: 51876896--51877118 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
51876886 GCTCCTCGTT
* *
51876896 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
51876936 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
51876976 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
51877015 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
51877054 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
51877095 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51877119 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:51878785 original size:43 final size:43
Alignment explanation
Indices: 51878724--51878901 Score: 168
Period size: 43 Copynumber: 4.2 Consensus size: 43
51878714 GGCTGTCACA
* * *
51878724 GTTGGAATCTATATGTGATTACGTGTAATACCTCGTCTGGGAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCTCGTCTGGGAC
51878767 GTTGGCATCGATATGTGATTACGTGTAAGACCAT-GTCTGGGAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACC-TCGTCTGGGAC
* * * * * * *
51878810 ATCGACATC-ATATTTGATT-TGTGTAAGACC-CTGTTTGGGGC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCTC-GTCTGGGAC
* * **
51878851 AG-TGGCATCGATATGTGATTACATGTAAGACCACGTCTAAGAC
1 -GTTGGCATCGATATGTGATTACGTGTAAGACCTCGTCTGGGAC
51878894 GTTGGCAT
1 GTTGGCAT
51878902 TGTACGATAT
Statistics
Matches: 107, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
41 22 0.21
42 19 0.18
43 64 0.60
44 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
GTTGGCATCGATATGTGATTACGTGTAAGACCTCGTCTGGGAC
Found at i:51880594 original size:38 final size:38
Alignment explanation
Indices: 51880543--51880687 Score: 164
Period size: 38 Copynumber: 3.6 Consensus size: 38
51880533 TGGAAAAATA
51880543 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACG
* * *
51880581 TGGTGTTAAGTGGATATACCACGATTACACATATTGATACATGTAACG
1 TGGTGCTAAGTGGATATACCACG---------GTT-ATACGTGTAACG
51880629 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACG
*
51880667 CGGTGCTAAGTGGATATACCA
1 TGGTGCTAAGTGGATATACCA
51880688 TGATTACACA
Statistics
Matches: 90, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
38 53 0.59
39 2 0.02
47 2 0.02
48 33 0.37
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (38 bp):
TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACG
Found at i:51880645 original size:48 final size:48
Alignment explanation
Indices: 51880569--51880784 Score: 220
Period size: 48 Copynumber: 4.7 Consensus size: 48
51880559 TACCACGGTT
* *
51880569 ATACGTGTAACGTGGTGTTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
*
51880617 ATACATGTAACGTGGTGCTAAGTGGATATACCACG---------GTT-
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* * *
51880655 ATACGTGTAACGCGGTGCTAAGTGGATATACCATGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* * ** *
51880703 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATGTATCG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* * * *
51880751 ATTCAT-TAATGTGGTGCTAACTGGATATGCCACG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACG
51880785 GTTAATTTGA
Statistics
Matches: 140, Mismatches: 18, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
38 32 0.23
39 2 0.01
47 28 0.20
48 78 0.56
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
Found at i:51880693 original size:86 final size:86
Alignment explanation
Indices: 51880543--51880741 Score: 362
Period size: 86 Copynumber: 2.3 Consensus size: 86
51880533 TGGAAAAATA
* *
51880543 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGTGGTGTTAAGTGGATATACCACGATTA
1 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGCGGTGCTAAGTGGATATACCACGATTA
51880608 CACATATTGATACATGTAACG
66 CACATATTGATACATGTAACG
*
51880629 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGCGGTGCTAAGTGGATATACCATGATTA
1 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGCGGTGCTAAGTGGATATACCACGATTA
51880694 CACATATTGATACATGTAACG
66 CACATATTGATACATGTAACG
*
51880715 TGGTGCTAAGTGGATATGCCACGGTTA
1 TGGTGCTAAGTGGATATACCACGGTTA
51880742 CATGTATCGA
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 109 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (86 bp):
TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGCGGTGCTAAGTGGATATACCACGATTA
CACATATTGATACATGTAACG
Found at i:51883719 original size:15 final size:14
Alignment explanation
Indices: 51883684--51883720 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
51883674 TCGTATCTTG
51883684 GGTTTCTTTATTCT
1 GGTTTCTTTATTCT
51883698 GGATTTCTTTATTCT
1 GG-TTTCTTTATTCT
51883713 AGGTTTCT
1 -GGTTTCT
51883721 CTATCTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.10
15 17 0.81
16 2 0.10
ACGTcount: A:0.11, C:0.14, G:0.16, T:0.59
Consensus pattern (14 bp):
GGTTTCTTTATTCT
Found at i:51886411 original size:38 final size:38
Alignment explanation
Indices: 51886360--51886441 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
51886350 ACATATTGAT
* * *
51886360 ACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAA
1 ACATGTAACGTGGTGATAAATAGATATACCACGGTTAA
* *
51886398 ACATGTAACGTGGTGATAAATAGATATGCCACGGTTAT
1 ACATGTAACGTGGTGATAAATAGATATACCACGGTTAA
51886436 ACATGT
1 ACATGT
51886442 TAATTTGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (38 bp):
ACATGTAACGTGGTGATAAATAGATATACCACGGTTAA
Found at i:51893784 original size:55 final size:54
Alignment explanation
Indices: 51893662--51894060 Score: 342
Period size: 55 Copynumber: 7.5 Consensus size: 54
51893652 GATAAGGATA
* * ***
51893662 TCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAAGAAA
1 TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGTC
*
51893716 TCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTGCTATAAGGCAAAGGTC
1 TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGTC
* * * *
51893771 TAATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGAC-AAGGATAC
1 TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGG-T-C
**** *** *
51893825 -CATGTAAGACCATGTTTGGAACATGGCATT--TG-GTAAGATAAGG---A--TA
1 TCATGTAAGACCATGCCAAG-ACATGGCATTGATGAGTTCTATAAGGCAAAGGTC
* * * **
51893871 TCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTTATAAGGC-AAGGAAA
1 TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGG-TC
* *
51893925 TCATGTAAGACCATGTCAAGACATGGCATTTATGAGTTACTATAAGGCAAAGGTC
1 TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGTC
* * *
51893980 CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGG-AAAGGT-
1 TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGTC
* * *
51894031 TACCACGTAAGACCATGTCAAGACAAGGCA
1 T--CATGTAAGACCATGCCAAGACATGGCA
51894061 ATGGTAAGTT
Statistics
Matches: 279, Mismatches: 48, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
46 9 0.03
47 16 0.06
48 1 0.00
49 8 0.03
50 1 0.00
51 3 0.01
52 17 0.06
53 50 0.18
54 82 0.29
55 88 0.32
56 4 0.01
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (54 bp):
TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGTC
Found at i:51893949 original size:100 final size:102
Alignment explanation
Indices: 51893602--51894068 Score: 455
Period size: 109 Copynumber: 4.5 Consensus size: 102
51893592 GCATTGGCAC
* * *** *
51893602 TAAGACAAGGATACCATATAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGG-ATA-T-C
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAG-ACATGGCATTTGGTAAGATAAGGCAAAGTCC
* *
51893664 ATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
65 ATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
* * * *
51893703 TAAGGCAAAGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGT-TGCTATAAGGCAAA
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATT--TG-GTAAG--ATAAGGCAAA
*
51893767 GGTCTAATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
61 -GTC-CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
* *** *
51893811 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGG-ATA-T-C
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAG-ACATGGCATTTGGTAAGATAAGGCAAAGTCC
* * *
51893873 ATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTTA
65 ATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCA
* * **
51893912 TAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTTATGAGTTACTATAAGGCAAAG
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCA-TT-TG-G-TAAGATAAGGCAAA-
51893977 GTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
61 GT-CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
* * * * *
51894020 TAAGGAAAGGTTACCACGTAAGACCATGTCAAGACAAGGCA-ATGGTAAG
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTTGGTAAG
51894069 TTCAAAAAGA
Statistics
Matches: 297, Mismatches: 47, Indels: 42
0.77 0.12 0.11
Matches are distributed among these distances:
100 50 0.17
101 57 0.19
102 6 0.02
103 5 0.02
104 17 0.06
105 12 0.04
106 2 0.01
107 5 0.02
108 65 0.22
109 78 0.26
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (102 bp):
TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTTGGTAAGATAAGGCAAAGTCCA
TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
Found at i:51893962 original size:209 final size:209
Alignment explanation
Indices: 51893602--51894048 Score: 797
Period size: 209 Copynumber: 2.1 Consensus size: 209
51893592 GCATTGGCAC
*
51893602 TAAGACAAGGATACCATATAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
51893667 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAAGAAATCATGTAAGACCATGT
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAAGAAATCATGTAAGACCATGT
* *
51893732 CAAGACATGGCATTGATGAGTTGCTATAAGGCAAAGGTCTAATGTAAGACCATGCCAAGGCATGG
131 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATGCCAAGGCATGG
51893797 CATTGGTGAGTTCA
196 CATTGGTGAGTTCA
51893811 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
* *
51893876 TAAGACCATGCCAAGGCATGGCATTGATAAGTTTTATAAGGCAAGGAAATCATGTAAGACCATGT
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAAGAAATCATGTAAGACCATGT
* *
51893941 CAAGACATGGCATTTATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
131 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATGCCAAGGCATGG
51894006 CATTGGTGAGTTCA
196 CATTGGTGAGTTCA
* *
51894020 TAAGGA-AAGGTTACCACGTAAGACCATGT
1 TAA-GACAAGGATACCATGTAAGACCATGT
51894049 CAAGACAAGG
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
209 226 0.99
210 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (209 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAAGAAATCATGTAAGACCATGT
CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATGCCAAGGCATGG
CATTGGTGAGTTCA
Found at i:51894086 original size:108 final size:109
Alignment explanation
Indices: 51893872--51894082 Score: 255
Period size: 108 Copynumber: 2.0 Consensus size: 109
51893862 ATAAGGATAT
* * * *
51893872 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTCATAAGGAAAGGAAACCACGTAAGACC
* * * * * * **
51893937 ATGTCAAGACATGGCATTTATGAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACAAGGCAATGATAAGTTACAAAAAGAAAAAGGTCC
* * **
51893981 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGAAAGGTTACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTCATAAGGAAAGGAAACCACGTAAGACC
*
51894045 ATGTCAAGACAAGGCAATGGTAAGTT-CAAAAAGAAAAA
66 ATGTCAAGACAAGGCAATGATAAGTTACAAAAAGAAAAA
51894083 AGGTTCCTGA
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
107 8 0.09
108 44 0.52
109 33 0.39
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.22
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTCATAAGGAAAGGAAACCACGTAAGACC
ATGTCAAGACAAGGCAATGATAAGTTACAAAAAGAAAAAGGTCC
Found at i:51906026 original size:54 final size:54
Alignment explanation
Indices: 51905968--51906105 Score: 162
Period size: 53 Copynumber: 2.6 Consensus size: 54
51905958 TAGGCACTTT
*
51905968 GGCTTCCTTTACATTGATAGGCACAAAA-GCTTCTTTTACATGGGTA-CCGAGAAA
1 GGCTTCCTTTACATTGATAGGCACAAAAGGCTTCTTTTACA-GGGTAGCC-AAAAA
*
51906022 GGCTTCCTTTACA-TGAATA-GCA-ATAAAGGCTTCTTTTATAGGGTAGCCAAAAA
1 GGCTTCCTTTACATTG-ATAGGCACA-AAAGGCTTCTTTTACAGGGTAGCCAAAAA
* *
51906075 GGCTTCCTTTACATGGATAGCCAC-AAAGGCT
1 GGCTTCCTTTACATTGATAGGCACAAAAGGCT
51906106 CCCATTACAG
Statistics
Matches: 73, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
52 1 0.01
53 40 0.55
54 32 0.44
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (54 bp):
GGCTTCCTTTACATTGATAGGCACAAAAGGCTTCTTTTACAGGGTAGCCAAAAA
Found at i:51906102 original size:27 final size:27
Alignment explanation
Indices: 51905933--51906127 Score: 153
Period size: 27 Copynumber: 7.3 Consensus size: 27
51905923 TATTTTAATT
* *
51905933 GCCACAAGGGCTTCCTTTACATGGTTA
1 GCCACAAAGGCTTCCTTTACATGGATA
* *** *
51905960 GGCACTTTGGCTTCCTTTACATTGATA
1 GCCACAAAGGCTTCCTTTACATGGATA
* * * *
51905987 GGCACAAAAGCTTCTTTTACATGGGTA
1 GCCACAAAGGCTTCCTTTACATGGATA
* *
51906014 -CCGAGAAAGGCTTCCTTTACATGAATA
1 GCC-ACAAAGGCTTCCTTTACATGGATA
* * * * *
51906041 GCAATAAAGGCTTCTTTTATA-GGGTA
1 GCCACAAAGGCTTCCTTTACATGGATA
*
51906067 GCCAAAAAGGCTTCCTTTACATGGATA
1 GCCACAAAGGCTTCCTTTACATGGATA
* * *
51906094 GCCACAAAGGCTCCCATTACA-GAGATT
1 GCCACAAAGGCTTCCTTTACATG-GATA
51906121 GCCACAA
1 GCCACAA
51906128 GTCTTTGTTT
Statistics
Matches: 130, Mismatches: 34, Indels: 8
0.76 0.20 0.05
Matches are distributed among these distances:
26 22 0.17
27 107 0.82
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (27 bp):
GCCACAAAGGCTTCCTTTACATGGATA
Found at i:51908092 original size:35 final size:36
Alignment explanation
Indices: 51908042--51908113 Score: 119
Period size: 35 Copynumber: 2.0 Consensus size: 36
51908032 TTGGGAAAAC
*
51908042 TATAGGGGCTGTGCATGTTTTGGGGTTTTGAGTTTT
1 TATAGGGGCTATGCATGTTTTGGGGTTTTGAGTTTT
*
51908078 TATA-GGGCTATGCATGTTTTGGGGTTTTGGGTTTT
1 TATAGGGGCTATGCATGTTTTGGGGTTTTGAGTTTT
51908113 T
1 T
51908114 CTCTTCATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 30 0.88
36 4 0.12
ACGTcount: A:0.11, C:0.06, G:0.35, T:0.49
Consensus pattern (36 bp):
TATAGGGGCTATGCATGTTTTGGGGTTTTGAGTTTT
Found at i:51909742 original size:27 final size:27
Alignment explanation
Indices: 51909704--51909756 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
51909694 AAGTGTATTA
*
51909704 TACTGGTGGCTTTGCCACATATACTGC
1 TACTAGTGGCTTTGCCACATATACTGC
*
51909731 TACTAGTGGCTTTGCTACATATACTG
1 TACTAGTGGCTTTGCCACATATACTG
51909757 ATTCTGGCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
TACTAGTGGCTTTGCCACATATACTGC
Found at i:51909769 original size:27 final size:27
Alignment explanation
Indices: 51909712--51909773 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
51909702 TATACTGGTG
* * **
51909712 GCTTTGCCACATATACTGCTACTAGTG
1 GCTTTGCTACATATACTGATACTAGCA
* *
51909739 GCTTTGCTACATATACTGATTCTGGCA
1 GCTTTGCTACATATACTGATACTAGCA
51909766 GCTTTGCT
1 GCTTTGCT
51909774 GCGATACTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (27 bp):
GCTTTGCTACATATACTGATACTAGCA
Found at i:51917418 original size:24 final size:24
Alignment explanation
Indices: 51917391--51917447 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
51917381 ATATTTTAGG
51917391 GATGAATAAGGACCAAATTGAATA
1 GATGAATAAGGACCAAATTGAATA
*
51917415 GATGAATTAGGACCAAATTGAATA
1 GATGAATAAGGACCAAATTGAATA
51917439 GATGAATAA
1 GATGAATAA
51917448 CTATGAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.49, C:0.07, G:0.21, T:0.23
Consensus pattern (24 bp):
GATGAATAAGGACCAAATTGAATA
Found at i:51917661 original size:11 final size:11
Alignment explanation
Indices: 51917613--51917664 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
51917603 ATTAGATAAA
51917613 TATTATTTTAT
1 TATTATTTTAT
*
51917624 TAATATTTTAAT
1 TATTATTTT-AT
* *
51917636 AATACATTTTAT
1 TAT-TATTTTAT
51917648 TATTATTTTAT
1 TATTATTTTAT
51917659 TATTAT
1 TATTAT
51917665 ATAAAGAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 21 0.64
12 7 0.21
13 5 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:51919857 original size:46 final size:46
Alignment explanation
Indices: 51919790--51920063 Score: 372
Period size: 46 Copynumber: 6.0 Consensus size: 46
51919780 AGTGTGCTCT
** *
51919790 CTGATATGAAATGTGTAAGACCATGGTTGAGAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
51919836 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
51919882 CTGATATGAAATGAATAAGACAATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
51919928 GTGATATGAAATGAATAACACCATGGTTGAAAGATA-CATTGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCA-TGGCAAC
* * *
51919974 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
51920020 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGATACTATGGCA
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
51920064 TCATGTCAAA
Statistics
Matches: 210, Mismatches: 15, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 3 0.01
46 205 0.98
47 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:51923205 original size:11 final size:11
Alignment explanation
Indices: 51923157--51923208 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
51923147 ATTAGATAAA
51923157 TATTATTTTAT
1 TATTATTTTAT
*
51923168 TAATATTTTAAT
1 TATTATTTT-AT
* *
51923180 AATACATTTTAT
1 TAT-TATTTTAT
51923192 TATTATTTTAT
1 TATTATTTTAT
51923203 TATTAT
1 TATTAT
51923209 ATAAAGAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 21 0.64
12 7 0.21
13 5 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:51925332 original size:46 final size:46
Alignment explanation
Indices: 51925280--51925599 Score: 426
Period size: 46 Copynumber: 7.0 Consensus size: 46
51925270 AGTGTGCTCT
*
51925280 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
51925326 CTGATATGAAATGTGTAAGACCATGGTTGAAGGATTCTATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
51925372 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
51925418 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCGTGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
51925464 GTGATATGAAATGAATAAGACCATGTTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
51925510 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
51925556 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
51925600 TCATGTCAAA
Statistics
Matches: 250, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 249 1.00
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:51925705 original size:13 final size:13
Alignment explanation
Indices: 51925687--51925743 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
51925677 ATCAGATGAC
51925687 AAATGGTTATATG
1 AAATGGTTATATG
* *
51925700 AAATGGTTGTGTG
1 AAATGGTTATATG
* * *
51925713 AAATGTTTACAAG
1 AAATGGTTATATG
*
51925726 AACTGGTTATATGG
1 AAATGGTTATAT-G
51925740 AAAT
1 AAAT
51925744 ATATATACAA
Statistics
Matches: 31, Mismatches: 12, Indels: 1
0.70 0.27 0.02
Matches are distributed among these distances:
13 27 0.87
14 4 0.13
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.35
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:51927974 original size:89 final size:90
Alignment explanation
Indices: 51927844--51928039 Score: 313
Period size: 89 Copynumber: 2.2 Consensus size: 90
51927834 TCCATCAACA
* *
51927844 TAAACCAATTACCTTACAGGGACTTACAGTCAGATGAATTCATCTATGTTCAGATC-ATATTCAA
1 TAAACAAATTACCTTACAGAGACTTACAGTCAGATGAATTCATCTATGTTCAGATCAATATTCAA
* *
51927908 TAAATAACAAATCTTTCAAATTCAT
66 CAAATAAAAAATCTTTCAAATTCAT
* * * *
51927933 TAAACAAATTACCTTACCGAGATTTACAGTCAGATGGATTCATTTATGTTCAGATCAATATTCAA
1 TAAACAAATTACCTTACAGAGACTTACAGTCAGATGAATTCATCTATGTTCAGATCAATATTCAA
51927998 CAAATAAAAAATCTTTCAAATTCAT
66 CAAATAAAAAATCTTTCAAATTCAT
51928023 TAAACAAATTACCTTAC
1 TAAACAAATTACCTTAC
51928040 TAAGATTTTC
Statistics
Matches: 98, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 50 0.51
90 48 0.49
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (90 bp):
TAAACAAATTACCTTACAGAGACTTACAGTCAGATGAATTCATCTATGTTCAGATCAATATTCAA
CAAATAAAAAATCTTTCAAATTCAT
Found at i:51928046 original size:90 final size:88
Alignment explanation
Indices: 51927844--51928047 Score: 300
Period size: 90 Copynumber: 2.3 Consensus size: 88
51927834 TCCATCAACA
* * * *
51927844 TAAACCAATTACCTTACAGGGACTTACAGTCAGATGAATTCATCTATGTTCAGATCATATTCAAT
1 TAAACAAATTACCTTACA-AGATTTACAGTCAGATGAATTCATCTATGTTCAGATCATATTCAAC
*
51927909 AAATAACAAATCTTTCAAATTCAT
65 AAATAAAAAATCTTTCAAATTCAT
* * *
51927933 TAAACAAATTACCTTACCGAGATTTACAGTCAGATGGATTCATTTATGTTCAGATCAATATTCAA
1 TAAACAAATTACCTTA-CAAGATTTACAGTCAGATGAATTCATCTATGTTCAGATC-ATATTCAA
51927998 CAAATAAAAAATCTTTCAAATTCAT
64 CAAATAAAAAATCTTTCAAATTCAT
51928023 TAAACAAATTACCTTACTAAGATTT
1 TAAACAAATTACCTTAC-AAGATTT
51928048 TCCATTTGAA
Statistics
Matches: 103, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
89 49 0.48
90 54 0.52
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (88 bp):
TAAACAAATTACCTTACAAGATTTACAGTCAGATGAATTCATCTATGTTCAGATCATATTCAACA
AATAAAAAATCTTTCAAATTCAT
Found at i:51951168 original size:27 final size:27
Alignment explanation
Indices: 51951127--51951180 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
51951117 TGTCATGTGA
* *
51951127 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
51951154 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
51951181 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:51952209 original size:29 final size:28
Alignment explanation
Indices: 51952163--51952217 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
51952153 TAATAGCTAA
*
51952163 AGGTATTAAATAGCTATAGTAAGTAAATT
1 AGGTATTAAATAGATATAGTAA-TAAATT
*
51952192 AGGTAATTAAAT-GATATATTAATAAA
1 AGGT-ATTAAATAGATATAGTAATAAA
51952218 ACAAAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 4 0.17
29 12 0.52
30 7 0.30
ACGTcount: A:0.49, C:0.02, G:0.15, T:0.35
Consensus pattern (28 bp):
AGGTATTAAATAGATATAGTAATAAATT
Found at i:51953364 original size:22 final size:23
Alignment explanation
Indices: 51953325--51953367 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
51953315 GAAGTCCTAC
*
51953325 CCGTCCATCCTCTACACTCCACT
1 CCGTCCAGCCTCTACACTCCACT
51953348 CCGTCCAGCC-CTACACTCCA
1 CCGTCCAGCCTCTACACTCCA
51953368 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.19, C:0.53, G:0.07, T:0.21
Consensus pattern (23 bp):
CCGTCCAGCCTCTACACTCCACT
Found at i:51960108 original size:46 final size:46
Alignment explanation
Indices: 51960041--51960169 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
51960031 TGTAATCCGC
* * * *
51960041 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
51960087 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
51960133 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
51960170 TGTTCAACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:51960188 original size:46 final size:45
Alignment explanation
Indices: 51960046--51960188 Score: 155
Period size: 46 Copynumber: 3.1 Consensus size: 45
51960036 TCCGCCCATA
* * **
51960046 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GTATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACCATCC-T
* *
51960091 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACCATCC-T
* *
51960137 AAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTC-ACCATCCT
51960184 AGTGA
1 AGTGA
51960189 CATGTCACTT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 81 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACCATCCT
Found at i:51963752 original size:34 final size:34
Alignment explanation
Indices: 51963714--51963780 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
51963704 CAAGTATTAG
*
51963714 TGTGGGCCTTAGCCCATAACAGTAGCAGTATCAA
1 TGTGGGCCTTAGCCCATAACAGTAACAGTATCAA
*
51963748 TGTGGGCCTTAGCCCATTACAGTAACAGTATCA
1 TGTGGGCCTTAGCCCATAACAGTAACAGTATCA
51963781 GTAATGCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (34 bp):
TGTGGGCCTTAGCCCATAACAGTAACAGTATCAA
Found at i:51965039 original size:19 final size:19
Alignment explanation
Indices: 51965015--51965053 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
51965005 TTTATGTTGC
51965015 AATTAGTCCATTTAAAGAA
1 AATTAGTCCATTTAAAGAA
51965034 AATTAGTCCATTTAAAGAA
1 AATTAGTCCATTTAAAGAA
51965053 A
1 A
51965054 GGGTGGACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (19 bp):
AATTAGTCCATTTAAAGAA
Found at i:51970075 original size:29 final size:29
Alignment explanation
Indices: 51970005--51970117 Score: 126
Period size: 29 Copynumber: 3.9 Consensus size: 29
51969995 ACTCCTACAA
* *
51970005 ACATGTATATGACCCA-CTAGGCCCAA-T-
1 ACATTTATATGGCCCATC-AGGCCCAATTC
51970032 ATCATTTATATGGCCCATGCA-GCCCAATTC
1 A-CATTTATATGGCCCAT-CAGGCCCAATTC
*
51970062 ACGTTTATATGGCCCATCAGGCCCAATTC
1 ACATTTATATGGCCCATCAGGCCCAATTC
* *
51970091 ACATTCATATGGCCCATTAGGCCCAAT
1 ACATTTATATGGCCCATCAGGCCCAAT
51970118 CTCATTATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
27 1 0.01
28 21 0.28
29 50 0.68
30 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
ACATTTATATGGCCCATCAGGCCCAATTC
Done.