Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 100 of 172
Found at i:28818687 original size:3 final size:3
Alignment explanation
Indices: 28818674--28818704 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
28818664 AACCTTCATT
28818674 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
28818705 GAAGAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:28823523 original size:68 final size:67
Alignment explanation
Indices: 28823342--28823592 Score: 181
Period size: 65 Copynumber: 3.8 Consensus size: 67
28823332 TGAGACGGGA
* * * * * *
28823342 TCATCATTTACACTGATCTTAGAACATCTATCTCAATTTAT-AGGAATTCTTGAACAAATGAGAT
1 TCATCA-TTACACTGATCTTAGGACTTTTATCTCATTTTATCA-GAATTCTAGAACAAAGGAGAT
**
28823406 GGGG
64 GGAC
** * * *
28823410 TCAT--TTACACCAAGCCTAGGACTTTCT-TCCTCATTTGATCAGAATTCTAGAACAAAGGAGAT
1 TCATCATTACACTGATCTTAGGACTTT-TAT-CTCATTTTATCAGAATTCTAGAACAAAGGAGAT
28823472 GGAC
64 GGAC
* * **
28823476 TCATCATTCACACTGATCTTAGGACTTTTATCTCATTTTATCAGAATTCTTGATCAAACAAGATG
1 TCATCATT-ACACTGATCTTAGGACTTTTATCTCATTTTATCAGAATTCTAGAACAAAGGAGATG
**
28823541 GGG
65 GAC
* * ** * * *
28823544 TAAT--TTGCACCAATTTTAGGACTTCTATCTCATTTTATCGGAATTCTAG
1 TCATCATTACACTGATCTTAGGACTTTTATCTCATTTTATCAGAATTCTAG
28823593 TCTAGAACAA
Statistics
Matches: 144, Mismatches: 32, Indels: 17
0.75 0.17 0.09
Matches are distributed among these distances:
65 51 0.35
66 36 0.25
67 1 0.01
68 40 0.28
69 16 0.11
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (67 bp):
TCATCATTACACTGATCTTAGGACTTTTATCTCATTTTATCAGAATTCTAGAACAAAGGAGATGG
AC
Found at i:28823632 original size:70 final size:70
Alignment explanation
Indices: 28823479--28823722 Score: 257
Period size: 71 Copynumber: 3.5 Consensus size: 70
28823469 GATGGACTCA
* * * * *
28823479 TCATTCACACTGATCTTAGGACTTTTATCTCATTTTATCAGAATTC---T-T-GATCAAACAAGA
1 TCATTTACACTGATCTTAGGACTTCTATCTCATTTTATCGGAATTCTAGTCTAGAACAAACAAAA
28823539 TGGGG
66 TGGGG
* * ** *
28823544 TAATTTGCACCAATTTTAGGACTTCTATCTCATTTTATCGGAATTCTAGTCTAGAACAAACAAAA
1 TCATTTACACTGATCTTAGGACTTCTATCTCATTTTATCGGAATTCTAGTCTAGAACAAACAAAA
28823609 TGGGG
66 TGGGG
* * * **
28823614 TCATTTACACTGATTTTAGGACTTCTGTCTCATCTTTTTCGGAATTCTAGTCTAGAACAAATTAA
1 TCATTTACACTGATCTTAGGACTTCTATCTCAT-TTTATCGGAATTCTAGTCTAGAACAAACAAA
* *
28823679 ACGGGA
65 ATGGGG
* *
28823685 TCATTTAC-GTCGATCTTAGGACTTCTATCTCATCTTAT
1 TCATTTACACT-GATCTTAGGACTTCTATCTCATTTTAT
28823723 AAGCTGTATG
Statistics
Matches: 147, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
65 38 0.26
68 1 0.01
69 1 0.01
70 47 0.32
71 60 0.41
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (70 bp):
TCATTTACACTGATCTTAGGACTTCTATCTCATTTTATCGGAATTCTAGTCTAGAACAAACAAAA
TGGGG
Found at i:28828598 original size:47 final size:47
Alignment explanation
Indices: 28828529--28828622 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
28828519 AGAAAAAAAA
28828529 GAAAAAGAAAAAGAAAAAAACAACATGCACTAAATTGAAATCTGACT
1 GAAAAAGAAAAAGAAAAAAACAACATGCACTAAATTGAAATCTGACT
28828576 GAAAAAGAAAAAGAAAAAAACAACATGCACTAAATTGAAATCTGACT
1 GAAAAAGAAAAAGAAAAAAACAACATGCACTAAATTGAAATCTGACT
28828623 TAATGTTGCG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.15
Consensus pattern (47 bp):
GAAAAAGAAAAAGAAAAAAACAACATGCACTAAATTGAAATCTGACT
Found at i:28835893 original size:27 final size:28
Alignment explanation
Indices: 28835849--28835920 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 28
28835839 CTCGACTTGT
* *
28835849 AAAATTA-CCAAAGTACCCCTGA-TTTGC
1 AAAATTATCGAAAG-ACCCCTCATTTTGC
*
28835876 AAAATTATCGAAAGA-CCCTCATTTTGG
1 AAAATTATCGAAAGACCCCTCATTTTGC
*
28835903 AAAATTATCGAAATACCC
1 AAAATTATCGAAAGACCC
28835921 TTATAGGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
26 5 0.13
27 26 0.68
28 7 0.18
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.26
Consensus pattern (28 bp):
AAAATTATCGAAAGACCCCTCATTTTGC
Found at i:28838960 original size:41 final size:41
Alignment explanation
Indices: 28838910--28839012 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
28838900 TGATCCAGTA
*
28838910 CACCGGCATTAAGCTTGCTAGACGTATAGTCTGAAATATTT
1 CACCGGCATTAAGCTTGCTAGACGTATAGTCTAAAATATTT
* *
28838951 CACCAGCATTAAGCCTGCTAGACGTATAGTCTAAAATATTT
1 CACCGGCATTAAGCTTGCTAGACGTATAGTCTAAAATATTT
* *
28838992 CACCGGCACTAAGTTTGCTAG
1 CACCGGCATTAAGCTTGCTAG
28839013 GCACAAACCT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (41 bp):
CACCGGCATTAAGCTTGCTAGACGTATAGTCTAAAATATTT
Found at i:28845781 original size:5 final size:5
Alignment explanation
Indices: 28845771--28845796 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
28845761 TGAGCATTCG
28845771 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
28845797 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:28847842 original size:20 final size:20
Alignment explanation
Indices: 28847819--28847880 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
28847809 AAAGCATACT
*
28847819 TGGCACACAAAGTACATTCC
1 TGGCACACAAAGTGCATTCC
* * *
28847839 TGGCACA-TAAGCGCATAT-T
1 TGGCACACAAAGTGCAT-TCC
28847858 TGGCACACAAAGTGCATTCC
1 TGGCACACAAAGTGCATTCC
28847878 TGG
1 TGG
28847881 TGCATAAATG
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (20 bp):
TGGCACACAAAGTGCATTCC
Found at i:28847894 original size:39 final size:39
Alignment explanation
Indices: 28847812--28847894 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 39
28847802 TGTACAAAAA
*
28847812 GCATACTTGGCACACAAAGTACATTCCTGGCACATAAGC
1 GCATACTTGGCACACAAAGTACATTCCTGGCACATAAAC
* * ** *
28847851 GCATATTTGGCACACAAAGTGCATTCCTGGTGCATAAAT
1 GCATACTTGGCACACAAAGTACATTCCTGGCACATAAAC
28847890 GCATA
1 GCATA
28847895 ATCTCATACA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (39 bp):
GCATACTTGGCACACAAAGTACATTCCTGGCACATAAAC
Found at i:28862540 original size:6 final size:6
Alignment explanation
Indices: 28862526--28862556 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
28862516 ACCATGCCCG
*
28862526 ACATAT ACATGT ACATAT ACATAT ACATAT A
1 ACATAT ACATAT ACATAT ACATAT ACATAT A
28862557 TATAACACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.32
Consensus pattern (6 bp):
ACATAT
Found at i:28862810 original size:49 final size:49
Alignment explanation
Indices: 28862738--28862836 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
28862728 AAAAAAATAG
28862738 AGTAAAATCTTGGGTAGGAAATGAAGATTTTACCTGAATTAACTCTACT
1 AGTAAAATCTTGGGTAGGAAATGAAGATTTTACCTGAATTAACTCTACT
*
28862787 AGTAAAATTTTGGGTAGGAAATGAAGATTTTACCTGAATTAACTCTACT
1 AGTAAAATCTTGGGTAGGAAATGAAGATTTTACCTGAATTAACTCTACT
28862836 A
1 A
28862837 ACATGATGAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.33
Consensus pattern (49 bp):
AGTAAAATCTTGGGTAGGAAATGAAGATTTTACCTGAATTAACTCTACT
Found at i:28866211 original size:91 final size:92
Alignment explanation
Indices: 28866048--28866259 Score: 268
Period size: 91 Copynumber: 2.3 Consensus size: 92
28866038 ACTATTATTC
* * * * * *
28866048 AAAATGTTCATATTATTTTTGTATTTGT--AAATCAATTTTAGTCAGTATTATTTTTTGGTCAAA
1 AAAATATTCGTATTATTTTTGTATATGTAAAAATCAATTTTAGCCAGTATTATTTATCGGTCAAA
* *
28866111 TTTTATATTTTCGTATATTAATTTTGT
66 TTTTATATTTTCGTATATCAATTTTCT
* * * * *
28866138 AAAATATTTGTATTATTTTTGGATATGTAAAAAT-ATTTTTAGCCCGTATTATTTATCGGTCGAA
1 AAAATATTCGTATTATTTTTGTATATGTAAAAATCAATTTTAGCCAGTATTATTTATCGGTCAAA
28866202 TTTTATATTTTCGTATATCAATTTTCT
66 TTTTATATTTTCGTATATCAATTTTCT
* *
28866229 AAAATGTTCGTATTATTTTTGTATCTGTAAA
1 AAAATATTCGTATTATTTTTGTATATGTAAA
28866260 TAAAATTTAA
Statistics
Matches: 103, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
90 23 0.22
91 76 0.74
92 4 0.04
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (92 bp):
AAAATATTCGTATTATTTTTGTATATGTAAAAATCAATTTTAGCCAGTATTATTTATCGGTCAAA
TTTTATATTTTCGTATATCAATTTTCT
Found at i:28866347 original size:16 final size:17
Alignment explanation
Indices: 28866322--28866355 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
28866312 GAATGTTTGT
28866322 ATTTTCTTATATATGTA
1 ATTTTCTTATATATGTA
*
28866339 ATTTT-TTATATCTGTA
1 ATTTTCTTATATATGTA
28866355 A
1 A
28866356 ATAAAATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (17 bp):
ATTTTCTTATATATGTA
Found at i:28877025 original size:96 final size:96
Alignment explanation
Indices: 28876909--28877103 Score: 381
Period size: 96 Copynumber: 2.0 Consensus size: 96
28876899 AATGCACAAA
*
28876909 TTTCAACTAGCTTATGCTTATTGTTAAGAATTAACCCCTTGAAGTAGTTAACAATCCCCAAAGTA
1 TTTCAACTAGCTTATGCTTATTGTTAAGAATTAACCCCTTGAAGTAGTTAACAATCCCCAAAGAA
28876974 ACAAGAAAAACATCACCATAAAGTACATATT
66 ACAAGAAAAACATCACCATAAAGTACATATT
28877005 TTTCAACTAGCTTATGCTTATTGTTAAGAATTAACCCCTTGAAGTAGTTAACAATCCCCAAAGAA
1 TTTCAACTAGCTTATGCTTATTGTTAAGAATTAACCCCTTGAAGTAGTTAACAATCCCCAAAGAA
28877070 ACAAGAAAAACATCACCATAAAGTACATATT
66 ACAAGAAAAACATCACCATAAAGTACATATT
28877101 TTT
1 TTT
28877104 AAGTTTAAAC
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 98 1.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (96 bp):
TTTCAACTAGCTTATGCTTATTGTTAAGAATTAACCCCTTGAAGTAGTTAACAATCCCCAAAGAA
ACAAGAAAAACATCACCATAAAGTACATATT
Found at i:28892626 original size:20 final size:20
Alignment explanation
Indices: 28892603--28892643 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
28892593 CTATTCAAAC
* *
28892603 AATATTACTTGAATAGTTAT
1 AATATTACATGAATAATTAT
*
28892623 AATATTAGATGAATAATTAT
1 AATATTACATGAATAATTAT
28892643 A
1 A
28892644 TGTCTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.41
Consensus pattern (20 bp):
AATATTACATGAATAATTAT
Found at i:28894072 original size:22 final size:23
Alignment explanation
Indices: 28894030--28894072 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
28894020 TGACATTAGT
*
28894030 GTAATTTTTAAAGTTATGTAAGG
1 GTAATTTTTAAAGTTAAGTAAGG
28894053 GTAATTTTGT-AA-TTAAGTAA
1 GTAATTTT-TAAAGTTAAGTAA
28894073 TTAATGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 10 0.56
24 1 0.06
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (23 bp):
GTAATTTTTAAAGTTAAGTAAGG
Found at i:28896241 original size:56 final size:56
Alignment explanation
Indices: 28896162--28896273 Score: 161
Period size: 56 Copynumber: 2.0 Consensus size: 56
28896152 ATTCAGTAGG
** * *
28896162 CTCACACGGCTTAACACACGGGCGTGTGGCTTGGCCGTGTGACCCAAGTCAGTATA
1 CTCACACGGCTTAACACACGGGCGTGTGGCTCAGCCATGTGACACAAGTCAGTATA
* * *
28896218 CTCACACGGCTTAGCACATGGGCGTGTGGCTCAGCCATGTGTCACAAGTCAGTATA
1 CTCACACGGCTTAACACACGGGCGTGTGGCTCAGCCATGTGACACAAGTCAGTATA
28896274 TTCAAATTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.22
Consensus pattern (56 bp):
CTCACACGGCTTAACACACGGGCGTGTGGCTCAGCCATGTGACACAAGTCAGTATA
Found at i:28897513 original size:105 final size:101
Alignment explanation
Indices: 28897335--28897528 Score: 280
Period size: 105 Copynumber: 1.9 Consensus size: 101
28897325 ATTTGACGGA
* *
28897335 TAAGACCATGGTTGGACCATGGCAATGTTCAAATGTAAGACCATAGCTGGGCTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATATACAAATGTAAGACCATAGCTGGGCTATGGCATTTTAA
28897400 TGAAAAGACCATAACTAGGTTATGACACCTTGAACG
66 TGAAAAGACCATAACTAGGTTATGACACCTTGAACG
**
28897436 TAAGACCATGGTTGGACCATGGCAGTATAAATACATGTGTAAGACCATAGCTGGGCTATGGCATT
1 TAAGACCATGGTTGGACCATGGCA--AT--ATACAAATGTAAGACCATAGCTGGGCTATGGCATT
* * * *
28897501 TTGATGATAAGACCATAATTGGGTTATG
62 TTAATGAAAAGACCATAACTAGGTTATG
28897529 GCACTAAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
101 24 0.30
103 2 0.02
105 55 0.68
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATATACAAATGTAAGACCATAGCTGGGCTATGGCATTTTAA
TGAAAAGACCATAACTAGGTTATGACACCTTGAACG
Found at i:28897544 original size:105 final size:101
Alignment explanation
Indices: 28897335--28897566 Score: 277
Period size: 105 Copynumber: 2.3 Consensus size: 101
28897325 ATTTGACGGA
* *
28897335 TAAGACCATGGTTGGACCATGGCAATGTTCAAATGTAAGACCATAGCTGGGCTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATATACAAATGTAAGACCATAGCTGGGCTATGGCATTTTAA
**
28897400 TGAAAAGACCATAACTAGGTTATGACACCTTGAACG
66 TGAAAAGACCATAACTAGGTTATGACACCTAAAACG
**
28897436 TAAGACCATGGTTGGACCATGGCAGTATAAATACATGTGTAAGACCATAGCTGGGCTATGGCATT
1 TAAGACCATGGTTGGACCATGGCA--AT--ATACAAATGTAAGACCATAGCTGGGCTATGGCATT
* * * * * *
28897501 TTGATGATAAGACCATAATTGGGTTATGGCA-CTAAAAATG
62 TTAATGAAAAGACCATAACTAGGTTATGACACCT-AAAACG
** *
28897541 TAAGACCATGGCAGGGCCATGGCAAT
1 TAAGACCATGGTTGGACCATGGCAAT
28897567 GCATGTGTAA
Statistics
Matches: 111, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
101 24 0.22
103 4 0.04
104 2 0.02
105 81 0.73
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATATACAAATGTAAGACCATAGCTGGGCTATGGCATTTTAA
TGAAAAGACCATAACTAGGTTATGACACCTAAAACG
Found at i:28899590 original size:46 final size:46
Alignment explanation
Indices: 28899523--28899615 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
28899513 ATATAAGTAA
28899523 ACCATCTTGCCTCACTACTGTGTGAAAACCTACATTTCTACTCCCT
1 ACCATCTTGCCTCACTACTGTGTGAAAACCTACATTTCTACTCCCT
28899569 ACCATCTTGCCTCACTACTGTGTGAAAACCTACATTTCTACTCCCT
1 ACCATCTTGCCTCACTACTGTGTGAAAACCTACATTTCTACTCCCT
28899615 A
1 A
28899616 TCCTTTTTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.25, C:0.34, G:0.09, T:0.32
Consensus pattern (46 bp):
ACCATCTTGCCTCACTACTGTGTGAAAACCTACATTTCTACTCCCT
Found at i:28908177 original size:6 final size:6
Alignment explanation
Indices: 28908166--28908217 Score: 59
Period size: 7 Copynumber: 8.0 Consensus size: 6
28908156 AAATATATTT
*
28908166 TTTTTA TTTTTA TTTTTA TTTTTTAA TTTTTCA TTTTTCA TTTTTA ATTTTA
1 TTTTTA TTTTTA TTTTTA -TTTTT-A TTTTT-A TTTTT-A TTTTTA TTTTTA
28908218 AAATATATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 18 0.43
7 23 0.55
8 1 0.02
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:28908187 original size:21 final size:22
Alignment explanation
Indices: 28908161--28908210 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 22
28908151 ATAATAAATA
*
28908161 TATTTTTTTTATTTTT-ATTTT
1 TATTTTTTTAATTTTTCATTTT
28908182 TA-TTTTTTAATTTTTCATTTT
1 TATTTTTTTAATTTTTCATTTT
28908203 TCATTTTT
1 T-ATTTTT
28908211 AATTTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 12 0.48
21 8 0.32
22 1 0.04
23 4 0.16
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (22 bp):
TATTTTTTTAATTTTTCATTTT
Found at i:28908230 original size:14 final size:14
Alignment explanation
Indices: 28908213--28908246 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
28908203 TCATTTTTAA
28908213 TTTT-AAAATATATT
1 TTTTAAAAATA-ATT
28908227 TTTTAAAAATAATT
1 TTTTAAAAATAATT
28908241 TTTTAA
1 TTTTAA
28908247 TGTTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTAAAAATAATT
Found at i:28917727 original size:6 final size:6
Alignment explanation
Indices: 28917716--28917750 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
28917706 ATATTTATTA
28917716 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
28917751 AATAATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TTAAAT
Found at i:28921391 original size:22 final size:22
Alignment explanation
Indices: 28921343--28921393 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
28921333 CAAGTCTCAA
* *
28921343 ATCATATCATAGCATATCGCAT
1 ATCATATCATAGCATAACACAT
* *
28921365 GTCATATCGTAGCATAACACAT
1 ATCATATCATAGCATAACACAT
28921387 ATCATAT
1 ATCATAT
28921394 ATTAACATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (22 bp):
ATCATATCATAGCATAACACAT
Found at i:28934655 original size:19 final size:21
Alignment explanation
Indices: 28934633--28934675 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
28934623 TATATTAACT
*
28934633 TATATCATATAAT-ATA-AAA
1 TATATAATATAATAATATAAA
*
28934652 TATATAATATTATAATATAAA
1 TATATAATATAATAATATAAA
28934673 TAT
1 TAT
28934676 TAAAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 3 0.15
21 6 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TATATAATATAATAATATAAA
Found at i:28934656 original size:14 final size:15
Alignment explanation
Indices: 28934639--28934685 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
28934629 AACTTATATC
28934639 ATATAATA-TAAAAT
1 ATATAATATTAAAAT
*
28934653 ATATAATATTATAAT
1 ATATAATATTAAAAT
*
28934668 ATA-AATATTAAAAA
1 ATATAATATTAAAAT
28934682 ATAT
1 ATAT
28934686 TTTGAGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 20 0.71
15 8 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATATAATATTAAAAT
Found at i:28935538 original size:29 final size:29
Alignment explanation
Indices: 28935479--28935542 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
28935469 AATCTCAAAA
*
28935479 TTATACAAAATTTTGATTTAATATGTAATT
1 TTATACAAAATTTTGAATT-ATATGTAATT
*
28935509 TTATACAAGAATTTTGAATT-TGTGTAATT
1 TTATACAA-AATTTTGAATTATATGTAATT
28935538 TTATA
1 TTATA
28935543 TGTGAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 13 0.42
30 8 0.26
31 10 0.32
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (29 bp):
TTATACAAAATTTTGAATTATATGTAATT
Found at i:28938086 original size:135 final size:135
Alignment explanation
Indices: 28937844--28938254 Score: 687
Period size: 135 Copynumber: 3.0 Consensus size: 135
28937834 AGTGGGAGGC
28937844 TCTGGATCATATTGTCTATATCCAATGGTATTAGTTTCGTTATTATTAACAGCATTCACCTGCCT
1 TCTGGATCATATTGTCTATATCCAATGGTATTAGTTTCGTTATTATTAACAGCATTCACCTGCCT
*
28937909 CGAGTTTGAAGCAGACAAATCAGATCCTCCATCTTTCTTGGCCCAATTCCTCGTCTTTTCCGGTT
66 CGAGTTTGAAGCAGACAAATCAGATCCTCCATCTTTCTTGGCCCAATTCCTCGTCTTTTCCAGTT
28937974 TTTCT
131 TTTCT
* * *
28937979 TCTGGATCATATTGTCTATATCCGACGGTATTAGTTTCATTATTATTAACAGCATTCACCTGCCT
1 TCTGGATCATATTGTCTATATCCAATGGTATTAGTTTCGTTATTATTAACAGCATTCACCTGCCT
* * * * *
28938044 CAAGTTTGAAGCAGAAAAATCGGATCCTCCATCTTTTTTGGCCCAATTCCTCGTCTTTTCCTGTT
66 CGAGTTTGAAGCAGACAAATCAGATCCTCCATCTTTCTTGGCCCAATTCCTCGTCTTTTCCAGTT
28938109 TTTCT
131 TTTCT
*
28938114 TCTGGATCATATTGTCTATCTCCAATGGTATTAGTTTCGTTATTATTAACAGCATTCACCTGCCT
1 TCTGGATCATATTGTCTATATCCAATGGTATTAGTTTCGTTATTATTAACAGCATTCACCTGCCT
* *
28938179 CGAGTTTGAAGCAGACGAATCAGATCCTCCTCCATCTTTCTTGGCCCAATTCCTCGACTTTTCCA
66 CGAGTTTGAAGCAGACAAATCAGA---TCCTCCATCTTTCTTGGCCCAATTCCTCGTCTTTTCCA
28938244 GTTTTTCT
128 GTTTTTCT
28938252 TCT
1 TCT
28938255 CTAGTTGCTT
Statistics
Matches: 254, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
135 208 0.82
138 46 0.18
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.39
Consensus pattern (135 bp):
TCTGGATCATATTGTCTATATCCAATGGTATTAGTTTCGTTATTATTAACAGCATTCACCTGCCT
CGAGTTTGAAGCAGACAAATCAGATCCTCCATCTTTCTTGGCCCAATTCCTCGTCTTTTCCAGTT
TTTCT
Found at i:28941262 original size:24 final size:24
Alignment explanation
Indices: 28941234--28941309 Score: 143
Period size: 24 Copynumber: 3.2 Consensus size: 24
28941224 ATTGGAGAAC
28941234 ATAAACTTTAATCTTAGCAACGAA
1 ATAAACTTTAATCTTAGCAACGAA
28941258 ATAAACTTTAATCTTAGCAACGAA
1 ATAAACTTTAATCTTAGCAACGAA
*
28941282 ATAAACTTTAATCTTAGCAACAAA
1 ATAAACTTTAATCTTAGCAACGAA
28941306 ATAA
1 ATAA
28941310 GGATGTCCCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.29
Consensus pattern (24 bp):
ATAAACTTTAATCTTAGCAACGAA
Found at i:28942521 original size:83 final size:82
Alignment explanation
Indices: 28942382--28942623 Score: 405
Period size: 83 Copynumber: 2.9 Consensus size: 82
28942372 TAGTCATGAG
*
28942382 TGTTCACCAAATAAGTTCATAAAAAATGACAATTTCAAATAAATTAAAAGCAATTAAA-AGTATA
1 TGTTCACCAAATAAGTTCAT-AAAAATGACAATTTAAAATAAATTAAAAGCAATTAAATA-TATA
28942446 CATTAACCAAATTCAATTA
64 CATTAACCAAATTCAATTA
* * *
28942465 TGTTCACCGAATAAGTTCATAAAAAGTAACAATTTAAAATAAATTAAAAGCCATTAAATATATAC
1 TGTTCACCAAATAAGTTCATAAAAA-TGACAATTTAAAATAAATTAAAAGCAATTAAATATATAC
28942530 ATTAACCAAATTCAATTA
65 ATTAACCAAATTCAATTA
28942548 TGTTCACCAAATAAGTTCATAAAAATGACAATTTAAAATAAATTAAAAGCAATTAAATATATACA
1 TGTTCACCAAATAAGTTCATAAAAATGACAATTTAAAATAAATTAAAAGCAATTAAATATATACA
*
28942613 TTAACCGAATT
66 TTAACCAAATT
28942624 TAAATTGCCG
Statistics
Matches: 149, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
82 53 0.36
83 95 0.64
84 1 0.01
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (82 bp):
TGTTCACCAAATAAGTTCATAAAAATGACAATTTAAAATAAATTAAAAGCAATTAAATATATACA
TTAACCAAATTCAATTA
Found at i:28946001 original size:31 final size:31
Alignment explanation
Indices: 28945963--28946024 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
28945953 TTAGAGGAGA
28945963 ATGAAAGAAATAATGAAAACTAGATAGAGCT
1 ATGAAAGAAATAATGAAAACTAGATAGAGCT
* *
28945994 ATGAAAGAAATGATGAAAACTTGATAGAGCT
1 ATGAAAGAAATAATGAAAACTAGATAGAGCT
28946025 CATTGACACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.06, G:0.21, T:0.21
Consensus pattern (31 bp):
ATGAAAGAAATAATGAAAACTAGATAGAGCT
Found at i:28950201 original size:11 final size:11
Alignment explanation
Indices: 28950164--28950206 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
28950154 GACAAGTCTT
*
28950164 TTTTTAAAATA
1 TTTTTATAATA
28950175 TTTTT-TAATA
1 TTTTTATAATA
*
28950185 -TTTTATTATA
1 TTTTTATAATA
28950195 TTTTTATAATA
1 TTTTTATAATA
28950206 T
1 T
28950207 ACTTGTCAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 4 0.15
10 8 0.30
11 15 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTTATAATA
Found at i:28960836 original size:18 final size:19
Alignment explanation
Indices: 28960813--28960848 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
28960803 ATCTAAGAAA
28960813 ATTAAAAATTAT-TAAATT
1 ATTAAAAATTATATAAATT
*
28960831 ATTAAAAGTTATATAAAT
1 ATTAAAAATTATATAAAT
28960849 ATAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
ATTAAAAATTATATAAATT
Found at i:28966783 original size:12 final size:11
Alignment explanation
Indices: 28966762--28966797 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
28966752 TTAATACATG
28966762 ATATAAAAATA
1 ATATAAAAATA
28966773 ATATCAAAAATA
1 ATAT-AAAAATA
28966785 ATATGAAAAATA
1 ATAT-AAAAATA
28966797 A
1 A
28966798 ATTAATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:28967204 original size:18 final size:18
Alignment explanation
Indices: 28967144--28967216 Score: 76
Period size: 18 Copynumber: 3.9 Consensus size: 18
28967134 ATATATTATG
*
28967144 ATTTTAGTAAATTCATATA
1 ATTTTATTAAATT-ATATA
**
28967163 ATAATATTTAATATTA-ATA
1 ATTTTA-TTAA-ATTATATA
28967182 ATTTTATTAAATTATATA
1 ATTTTATTAAATTATATA
*
28967200 TTTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
28967217 TTAAAAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
17 4 0.09
18 23 0.51
19 11 0.24
20 4 0.09
21 3 0.07
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (18 bp):
ATTTTATTAAATTATATA
Found at i:28967260 original size:120 final size:120
Alignment explanation
Indices: 28967106--28968073 Score: 1771
Period size: 120 Copynumber: 8.1 Consensus size: 120
28967096 TTCAAATTTT
* * * * *
28967106 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAATAATATT
1 ATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA-T
* * *
28967171 TAA-TATTAATAATTTTATTAAATTATATATTTTTATTA-AATTATATTTAAAAATA
65 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATA
28967226 ATTAAT-TTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
1 ATT-ATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
28967290 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
65 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
28967346 ATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATT
1 ATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATT
28967411 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
66 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
28967466 ATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATT
1 ATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATT
28967531 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
66 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
*
28967586 ATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGACTATT
1 ATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATT
28967651 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
66 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
*
28967706 ATTATGTTAATTTATATTTTATAGTATTATATATTATGATTTGAGTAAATTCATATAAGAATATT
1 ATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATT
28967771 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
66 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
*
28967826 ATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATT
1 ATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATT
*
28967891 AATTATTAATAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
66 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
*
28967946 ATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATT
1 ATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATT
28968011 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
66 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
28968066 ATTATGTT
1 ATTATGTT
28968074 TAAATATGAT
Statistics
Matches: 828, Mismatches: 16, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
119 6 0.01
120 818 0.99
121 4 0.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
ATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATT
AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
Found at i:28967341 original size:15 final size:15
Alignment explanation
Indices: 28967306--28967357 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
28967296 TTAAGAATTT
*
28967306 TATTAAATTAT-ATA
1 TATTTAATTATAATA
28967320 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
28967334 TATTTAATAATAAT-
1 TATTTAATTATAATA
28967348 TATGTTAATT
1 TAT-TTAATT
28967358 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:28967461 original size:15 final size:15
Alignment explanation
Indices: 28967426--28967477 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
28967416 TTAAGAATTT
*
28967426 TATTAAATTAT-ATA
1 TATTTAATTATAATA
28967440 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
28967454 TATTTAATAATAAT-
1 TATTTAATTATAATA
28967468 TATGTTAATT
1 TAT-TTAATT
28967478 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:28967581 original size:15 final size:15
Alignment explanation
Indices: 28967546--28967597 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
28967536 TTAAGAATTT
*
28967546 TATTAAATTAT-ATA
1 TATTTAATTATAATA
28967560 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
28967574 TATTTAATAATAAT-
1 TATTTAATTATAATA
28967588 TATGTTAATT
1 TAT-TTAATT
28967598 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:28967696 original size:16 final size:16
Alignment explanation
Indices: 28967675--28967717 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
28967665 TTATTAAATT
28967675 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
28967691 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
28967706 AT-TATGTTAATT
1 ATATATTTTAATT
28967718 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:28967816 original size:16 final size:16
Alignment explanation
Indices: 28967795--28967957 Score: 59
Period size: 15 Copynumber: 10.8 Consensus size: 16
28967785 TTATTAAATT
28967795 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
28967811 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
28967826 AT-TATGTTAA-T-T-
1 ATATATTTTAATTATA
* *
28967838 -TATATTTTATAGTATC
1 ATATATTTTA-ATTATA
* *
28967854 ATATATTATGATT-TGA
1 ATATATTTTAATTAT-A
* *
28967870 GTA-A-ATTAA-TATA
1 ATATATTTTAATTATA
* *
28967883 AGA-ATATTAATTATTA
1 ATATATTTTAATTA-TA
*
28967899 ATA-ATTTT-ATTAAATT
1 ATATATTTTAATT--ATA
28967915 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
28967931 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
28967946 AT-TATGTTAATT
1 ATATATTTTAATT
28967958 TATATTTTAT
Statistics
Matches: 109, Mismatches: 21, Indels: 35
0.66 0.13 0.21
Matches are distributed among these distances:
11 1 0.01
12 6 0.06
13 6 0.06
14 13 0.12
15 39 0.36
16 28 0.26
17 13 0.12
18 3 0.03
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:28967917 original size:69 final size:68
Alignment explanation
Indices: 28967844--28968037 Score: 174
Period size: 54 Copynumber: 3.1 Consensus size: 68
28967834 AATTTATATT
28967844 TTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAATAATTTTAT
1 TTATAGTATCATATATTATGATTT-AGTAAATTAATATAAGAATATTAATTATTAATAATTTTAT
28967909 TAAA
65 TAAA
** *
28967913 -T-TA-TAT-AT-T-TTA--A-TTA-T-AA-T-ATAT-TTAATAATAATTATGT--TAATTTATA
1 TTATAGTATCATATATTATGATTTAGTAAATTAATATAAGAATATTAATTAT-TAATAATTT-TA
28967962 TT---
64 TTAAA
* *
28967964 TTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTT-AGTAAATTAATATAAGAATATTAATTATTAATAATTTTAT
28968029 TAAA
65 TAAA
28968033 TTATA
1 TTATA
28968038 TATTTTAATT
Statistics
Matches: 96, Mismatches: 7, Indels: 44
0.65 0.05 0.30
Matches are distributed among these distances:
52 1 0.01
53 8 0.08
54 18 0.19
55 7 0.07
56 2 0.02
57 5 0.05
58 1 0.01
59 2 0.02
60 4 0.04
61 2 0.02
62 1 0.01
63 5 0.05
64 2 0.02
65 7 0.07
66 18 0.19
67 7 0.07
68 1 0.01
69 5 0.05
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (68 bp):
TTATAGTATCATATATTATGATTTAGTAAATTAATATAAGAATATTAATTATTAATAATTTTATT
AAA
Found at i:28967935 original size:18 final size:18
Alignment explanation
Indices: 28967889--28967936 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
28967879 TATAAGAATA
*
28967889 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
28967905 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
28967922 TTAATTATAATATAT
1 TTAATTATAATATAT
28967937 TTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:28968056 original size:16 final size:16
Alignment explanation
Indices: 28968035--28968076 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
28968025 TTATTAAATT
*
28968035 ATATATTTTAATTATA
1 ATATATTTTAATAATA
28968051 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
28968066 AT-TATGTTTAA
1 ATATAT-TTTAA
28968077 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:28968061 original size:15 final size:15
Alignment explanation
Indices: 28968026--28968067 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
28968016 TTAAGAATTT
*
28968026 TATTAAATTAT-ATA
1 TATTTAATTATAATA
28968040 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
28968054 TATTTAATAATAAT
1 TATTTAATTATAAT
28968068 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:28968312 original size:16 final size:16
Alignment explanation
Indices: 28968291--28968328 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
28968281 TTGATTTGCT
28968291 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
28968307 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
28968323 ATTACA
1 ATTACA
28968329 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:28975326 original size:18 final size:19
Alignment explanation
Indices: 28975291--28975337 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
28975281 CTAAAAATAA
28975291 TTAAAATATTATAAAAAAT-
1 TTAAAAT-TTATAAAAAATC
**
28975310 TTAAAATTTATGGAAAATC
1 TTAAAATTTATAAAAAATC
28975329 TATAAAATT
1 T-TAAAATT
28975338 AATTAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.38
19 8 0.33
20 7 0.29
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
TTAAAATTTATAAAAAATC
Found at i:28975448 original size:19 final size:19
Alignment explanation
Indices: 28975426--28975563 Score: 68
Period size: 19 Copynumber: 6.8 Consensus size: 19
28975416 ATTTTAAAAC
28975426 ATTATAAAAACTATTAAAT
1 ATTATAAAAACTATTAAAT
*
28975445 ATTATAAAATATTATTAAGAT
1 ATTATAAAA-ACTATTAA-AT
* *
28975466 CTTATGAAAA-TATTAAATAGAT
1 ATTATAAAAACTATT--A-A-AT
*
28975488 ATTATAAAAAAT-TTAGAAT
1 ATTATAAAAACTATTA-AAT
28975507 ATTATATAAAA-TAATTAAA-
1 ATTATA-AAAACT-ATTAAAT
* * *
28975526 ATGATAAAATCTATAAAAATT
1 ATTATAAAAACTAT-TAAA-T
*
28975547 GTTATAAAAACTTATTA
1 ATTATAAAAAC-TATTA
28975564 GAAGTATATT
Statistics
Matches: 92, Mismatches: 13, Indels: 26
0.70 0.10 0.20
Matches are distributed among these distances:
18 5 0.05
19 31 0.34
20 16 0.17
21 22 0.24
22 17 0.18
23 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (19 bp):
ATTATAAAAACTATTAAAT
Found at i:28975497 original size:22 final size:21
Alignment explanation
Indices: 28975426--28975524 Score: 68
Period size: 22 Copynumber: 4.8 Consensus size: 21
28975416 ATTTTAAAAC
28975426 ATTATAAAAACTATT-A-A-AT
1 ATTATAAAAA-TATTAATAGAT
*
28975445 ATTAT-AAAATATTATTAAGAT
1 ATTATAAAAATATTAAT-AGAT
* *
28975466 CTTATGAAAATATTAAATAGAT
1 ATTATAAAAATATT-AATAGAT
28975488 ATTATAAAAA-ATT--TAGAAT
1 ATTATAAAAATATTAATAG-AT
28975507 ATTATATAAAATAATTAA
1 ATTATA-AAAAT-ATTAA
28975525 AATGATAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
17 4 0.06
18 7 0.11
19 13 0.21
20 5 0.08
21 9 0.14
22 23 0.37
23 2 0.03
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
ATTATAAAAATATTAATAGAT
Found at i:28975783 original size:24 final size:26
Alignment explanation
Indices: 28975756--28975820 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 26
28975746 GTAAGAATAA
*
28975756 AAAAAAATTTAAAACTTAGAA-T-TT
1 AAAAAAATTTAAAAATTAGAAGTATT
* *
28975780 AAAAGAATTTAAAAATTATAAGTTATT
1 AAAAAAATTTAAAAATTAGAAG-TATT
28975807 AAAAAAATATTAAA
1 AAAAAAAT-TTAAA
28975821 TGTTAATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 18 0.55
26 1 0.03
27 9 0.27
28 5 0.15
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (26 bp):
AAAAAAATTTAAAAATTAGAAGTATT
Found at i:28977933 original size:28 final size:31
Alignment explanation
Indices: 28977876--28977950 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 31
28977866 TAGGTAATGA
* * *
28977876 AATATATTTTAGGTACTACTTGTGACAAAA-
1 AATATAGTTTAGGTACTAATTGTGAAAAAAC
28977906 AA-A-AGTTTAGGTACTAATT-TGAGAAAAAC
1 AATATAGTTTAGGTACTAATTGTGA-AAAAAC
28977935 AATATAGTTTAGGTAC
1 AATATAGTTTAGGTAC
28977951 CATTTTTTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
27 3 0.08
28 18 0.47
29 3 0.08
30 3 0.08
31 11 0.29
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (31 bp):
AATATAGTTTAGGTACTAATTGTGAAAAAAC
Found at i:28982398 original size:17 final size:19
Alignment explanation
Indices: 28982362--28982404 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
28982352 CGAAATTAAG
28982362 AGAAATAAGAATGAGAGAGA
1 AGAAA-AAGAATGAGAGAGA
28982382 AGAAAAAGAA-GAG-GAGA
1 AGAAAAAGAATGAGAGAGA
*
28982399 ATAAAA
1 AGAAAA
28982405 TCGAAGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 3 0.14
19 5 0.23
20 5 0.23
ACGTcount: A:0.65, C:0.00, G:0.28, T:0.07
Consensus pattern (19 bp):
AGAAAAAGAATGAGAGAGA
Found at i:28983437 original size:19 final size:19
Alignment explanation
Indices: 28983386--28983437 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
28983376 AGTGAGATGG
**
28983386 CAACAAAATAATGATAAAA
1 CAACAAAATAATGGGAAAA
*
28983405 CAACAAAACAATGGGAAAA
1 CAACAAAATAATGGGAAAA
*
28983424 CAAGAAAATAATGG
1 CAACAAAATAATGG
28983438 ATTTTTTTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.63, C:0.12, G:0.13, T:0.12
Consensus pattern (19 bp):
CAACAAAATAATGGGAAAA
Found at i:28988980 original size:42 final size:42
Alignment explanation
Indices: 28988933--28989089 Score: 235
Period size: 42 Copynumber: 3.7 Consensus size: 42
28988923 ATTGTTTTAC
* *
28988933 TTTCTGTTTAGCTCTTATGAGCTTCTGATT-AACTCTTACGAG
1 TTTCTGTTCAGCTCTTATGAGCTTCTG-TTAAACTCTTAAGAG
* *
28988975 TTTCTGTTTAGCTCTTATGAGCTTCTGTTAAACTCTTATGAG
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTAAACTCTTAAGAG
* * *
28989017 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTGTTAAGAG
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTAAACTCTTAAGAG
28989059 TTTCTGTTCAGCTCTTATGAGCTTCTGTTAA
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTAA
28989090 GCTTTCGAGC
Statistics
Matches: 106, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 2 0.02
42 104 0.98
ACGTcount: A:0.18, C:0.19, G:0.17, T:0.45
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTATGAGCTTCTGTTAAACTCTTAAGAG
Found at i:28989033 original size:63 final size:62
Alignment explanation
Indices: 28988934--28989103 Score: 200
Period size: 63 Copynumber: 2.7 Consensus size: 62
28988924 TTGTTTTACT
* * * * * *
28988934 TTCTGTTTAGCTCTTATGAGCTTCTGATTAACTCTTACGAGTTTCTGTTTAGCTCTTATGAGC
1 TTCTGTTAAGCTCTTATGAGCTTCTG-TTAGCTCTTACGAGCTTCTGTTCAACTCTTAAGAGC
* * * *
28988997 TTCTGTTAAACTCTTATGAGTTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTGTTAAGAGT
1 TTCTGTTAAGCTCTTATGAGCTTCTGTT-AGCTCTTACGAGCTTCTGTTCAACTCTTAAGAGC
*
28989060 TTCTGTTCAGCTCTTATGAGCTTCTGTTAAGCT-TT-CGAGCTTCT
1 TTCTGTTAAGCTCTTATGAGCTTCTGTT-AGCTCTTACGAGCTTCT
28989104 ATTAGTGTAT
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
61 9 0.10
62 4 0.04
63 79 0.86
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.45
Consensus pattern (62 bp):
TTCTGTTAAGCTCTTATGAGCTTCTGTTAGCTCTTACGAGCTTCTGTTCAACTCTTAAGAGC
Found at i:28989092 original size:21 final size:21
Alignment explanation
Indices: 28988934--28989092 Score: 178
Period size: 21 Copynumber: 7.6 Consensus size: 21
28988924 TTGTTTTACT
*
28988934 TTCTGTTTAGCTCTTATGAGC
1 TTCTGTTAAGCTCTTATGAGC
* *
28988955 TTCTGATTAA-CTCTTACGAGT
1 TTCTG-TTAAGCTCTTATGAGC
*
28988976 TTCTGTTTAGCTCTTATGAGC
1 TTCTGTTAAGCTCTTATGAGC
* *
28988997 TTCTGTTAAACTCTTATGAGT
1 TTCTGTTAAGCTCTTATGAGC
* *
28989018 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTAAGCTCTTATGAGC
* * *
28989039 TTCTGTTCAA-CTGTTAAGAGT
1 TTCTGTT-AAGCTCTTATGAGC
*
28989060 TTCTGTTCAGCTCTTATGAGC
1 TTCTGTTAAGCTCTTATGAGC
28989081 TTCTGTTAAGCT
1 TTCTGTTAAGCT
28989093 TTCGAGCTTC
Statistics
Matches: 112, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
20 4 0.04
21 104 0.93
22 4 0.04
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.45
Consensus pattern (21 bp):
TTCTGTTAAGCTCTTATGAGC
Found at i:28994934 original size:24 final size:24
Alignment explanation
Indices: 28994875--28994934 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
28994865 CCACTCATCG
*
28994875 CCTTATTTCTCATTCTCTCACATT
1 CCTTATTTCTCCTTCTCTCACATT
* *
28994899 CCTTATTTCTCCTTCTTTCACCTT
1 CCTTATTTCTCCTTCTCTCACATT
28994923 CCTTATTTCTCC
1 CCTTATTTCTCC
28994935 ATGTAGGAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.12, C:0.37, G:0.00, T:0.52
Consensus pattern (24 bp):
CCTTATTTCTCCTTCTCTCACATT
Found at i:28997358 original size:12 final size:12
Alignment explanation
Indices: 28997341--28997374 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
28997331 TGGCCCGCCC
28997341 ATATTAATTTTT
1 ATATTAATTTTT
*
28997353 ATATTATTTTTT
1 ATATTAATTTTT
28997365 ATA-TAATTTT
1 ATATTAATTTT
28997375 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:28997542 original size:30 final size:30
Alignment explanation
Indices: 28997498--28997560 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
28997488 ACCTAATAAG
*
28997498 CAAATGCCTCTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
28997528 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
28997558 CAA
1 CAA
28997561 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:29006968 original size:24 final size:26
Alignment explanation
Indices: 29006921--29006973 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
29006911 TATTACGATA
*
29006921 AAATATAAGATAAATAAAAATGCATT
1 AAATATAAAATAAATAAAAATGCATT
*
29006947 AAATA-AAAATAAAT-AAATTGCATT
1 AAATATAAAATAAATAAAAATGCATT
29006971 AAA
1 AAA
29006974 AGAAAAACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 12 0.48
25 8 0.32
26 5 0.20
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (26 bp):
AAATATAAAATAAATAAAAATGCATT
Found at i:29006979 original size:25 final size:25
Alignment explanation
Indices: 29006930--29006980 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
29006920 AAAATATAAG
*
29006930 ATAAATAAAAATGCATTAAATAAAA
1 ATAAATAAAAATGCATTAAAGAAAA
*
29006955 ATAAAT-AAATTGCATTAAAAGAAAA
1 ATAAATAAAAATGCATT-AAAGAAAA
29006980 A
1 A
29006981 CGAAAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.24
Consensus pattern (25 bp):
ATAAATAAAAATGCATTAAAGAAAA
Found at i:29009426 original size:27 final size:27
Alignment explanation
Indices: 29009378--29009443 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
29009368 ACATATTTTC
29009378 TCAAAATTTTA-TCAGGGATAAAATCA
1 TCAAAATTTTACTCAGGGATAAAATCA
*
29009404 TCAAAAATTTTACT-AGAGG-TAAAATCG
1 TC-AAAATTTTACTCAG-GGATAAAATCA
*
29009431 TCAAAGTTTTACT
1 TCAAAATTTTACT
29009444 GGGAGTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 12 0.34
27 20 0.57
28 3 0.09
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (27 bp):
TCAAAATTTTACTCAGGGATAAAATCA
Found at i:29009451 original size:26 final size:26
Alignment explanation
Indices: 29009378--29009454 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 26
29009368 ACATATTTTC
*
29009378 TCAAAATTTTATCAGGGA-TAAAATCA
1 TCAAAATTTTA-CTGGGAGTAAAATCA
* *
29009404 TCAAAAATTTTACT-AGAGGTAAAATCG
1 TC-AAAATTTTACTGGGA-GTAAAATCA
*
29009431 TCAAAGTTTTACTGGGAGTAAAAT
1 TCAAAATTTTACTGGGAGTAAAAT
29009455 AGGGATGAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
25 2 0.05
26 20 0.48
27 20 0.48
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (26 bp):
TCAAAATTTTACTGGGAGTAAAATCA
Found at i:29010189 original size:298 final size:297
Alignment explanation
Indices: 29009653--29010249 Score: 1185
Period size: 298 Copynumber: 2.0 Consensus size: 297
29009643 CTCTTCTAGT
29009653 TGGACTAAGAAGTTATTTTTCTATTTGAAATAAATCTTTACAATTCAACAAGTGTTCTATCTTCT
1 TGGACTAAGAAGTTATTTTTCTATTTGAAATAAATCTTTACAATTCAACAAGTGTTCTATCTTCT
29009718 CTTCTTATAAATAGATGGCATCGGTAACACACAACTTTAAGAAATTGTTACTCTGTCGAAAAATA
66 CTTCTTATAAATAGATGGCATCGGTAACACACAACTTTAAGAAATTGTTACTCTGTCGAAAAATA
29009783 GAGAGTTTATTCTCAACTATTAGATATATTTTTCTAGAATAACAATTTTATTGGTTTCTATTAAA
131 GAGAGTTTATTCTCAACTATTAGATATATTTTTCTAGAATAACAATTTTATTGGTTTCTATTAAA
29009848 GAAGAGAGAAGTTTTGTTTTCACCTCAAATAAAAAAGAGAAACTTTTTTTTTTAGTTTTGTGTTT
196 GAAGAGAGAAGTTTTGTTTTCACCTCAAATAAAAAAGAGAAAC-TTTTTTTTTAGTTTTGTGTTT
29009913 CGATTCAATTAGTTCGAGCTCACACTCGAAGCAGTTCA
260 CGATTCAATTAGTTCGAGCTCACACTCGAAGCAGTTCA
29009951 TGGACTAAGAAGTTATTTTTCTATTTGAAATAAATCTTTACAATTCAACAAGTGTTCTATCTTCT
1 TGGACTAAGAAGTTATTTTTCTATTTGAAATAAATCTTTACAATTCAACAAGTGTTCTATCTTCT
29010016 CTTCTTATAAATAGATGGCATCGGTAACACACAACTTTAAGAAATTGTTACTCTGTCGAAAAATA
66 CTTCTTATAAATAGATGGCATCGGTAACACACAACTTTAAGAAATTGTTACTCTGTCGAAAAATA
29010081 GAGAGTTTATTCTCAACTATTAGATATATTTTTCTAGAATAACAATTTTATTGGTTTCTATTAAA
131 GAGAGTTTATTCTCAACTATTAGATATATTTTTCTAGAATAACAATTTTATTGGTTTCTATTAAA
29010146 GAAGAGAGAAGTTTTGTTTTCACCTCAAATAAAAAAGAGAAACTTTTTTTTTAGTTTTGTGTTTC
196 GAAGAGAGAAGTTTTGTTTTCACCTCAAATAAAAAAGAGAAACTTTTTTTTTAGTTTTGTGTTTC
29010211 GATTCAATTAGTTCGAGCTCACACTCGAAGCAGTTCA
261 GATTCAATTAGTTCGAGCTCACACTCGAAGCAGTTCA
29010248 TG
1 TG
29010250 ATATGAAAAT
Statistics
Matches: 299, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
297 61 0.20
298 238 0.80
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (297 bp):
TGGACTAAGAAGTTATTTTTCTATTTGAAATAAATCTTTACAATTCAACAAGTGTTCTATCTTCT
CTTCTTATAAATAGATGGCATCGGTAACACACAACTTTAAGAAATTGTTACTCTGTCGAAAAATA
GAGAGTTTATTCTCAACTATTAGATATATTTTTCTAGAATAACAATTTTATTGGTTTCTATTAAA
GAAGAGAGAAGTTTTGTTTTCACCTCAAATAAAAAAGAGAAACTTTTTTTTTAGTTTTGTGTTTC
GATTCAATTAGTTCGAGCTCACACTCGAAGCAGTTCA
Found at i:29025526 original size:11 final size:12
Alignment explanation
Indices: 29025493--29025533 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
29025483 CCACATTCGT
29025493 AAATATATGTAA
1 AAATATATGTAA
29025505 AAATATATGTAA
1 AAATATATGTAA
*
29025517 AAAT-TGTGTATA
1 AAATATATGTA-A
29025529 AAATA
1 AAATA
29025534 ATATATAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 5 0.19
12 21 0.81
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (12 bp):
AAATATATGTAA
Found at i:29037870 original size:24 final size:24
Alignment explanation
Indices: 29037838--29037919 Score: 78
Period size: 24 Copynumber: 3.3 Consensus size: 24
29037828 GTGCTTCCCA
29037838 TTAATTGCT-TTTCGGAGCTACCCG
1 TTAATTGCTCTTT-GGAGCTACCCG
*
29037862 TTAATTGCTCTTTGGAGCTACCCA
1 TTAATTGCTCTTTGGAGCTACCCG
* * *
29037886 TT-ATAGACTCTTTTTGAGCTTCCCG
1 TTAATTG-CTC-TTTGGAGCTACCCG
29037911 TTATATTGC
1 TTA-ATTGC
29037920 CCGGTTAAGC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
23 3 0.06
24 24 0.51
25 16 0.34
26 1 0.02
27 3 0.06
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.41
Consensus pattern (24 bp):
TTAATTGCTCTTTGGAGCTACCCG
Found at i:29042237 original size:11 final size:12
Alignment explanation
Indices: 29042210--29042236 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
29042200 AAAAAATGAT
29042210 AAAATCTTCAAA
1 AAAATCTTCAAA
29042222 AAAATCTTCAAA
1 AAAATCTTCAAA
29042234 AAA
1 AAA
29042237 TAAAAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAATCTTCAAA
Found at i:29042625 original size:16 final size:16
Alignment explanation
Indices: 29042606--29042645 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
29042596 ATTTGATAAA
29042606 TATTAAATTATATTA-T
1 TATTAAATT-TATTATT
29042622 TATTTAAATTTATTATT
1 TA-TTAAATTTATTATT
29042639 TATTAAA
1 TATTAAA
29042646 AACAAGAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTAAATTTATTATT
Found at i:29043452 original size:21 final size:21
Alignment explanation
Indices: 29043422--29043467 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
29043412 GGTTTAGAGA
*
29043422 TTTTTTTATATT-TTTAAGTT
1 TTTTTTTATATTCTTTAAATT
29043442 TTTTTTATATATTCTTTAAATT
1 TTTTTT-TATATTCTTTAAATT
29043464 TTTT
1 TTTT
29043468 ATAATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.26
21 6 0.26
22 11 0.48
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTTTATATTCTTTAAATT
Found at i:29049779 original size:125 final size:124
Alignment explanation
Indices: 29049530--29050051 Score: 670
Period size: 125 Copynumber: 4.2 Consensus size: 124
29049520 TATAAAATCA
* * * * * * *
29049530 AAGCAGGATGATTTATCAGAAGGATTTTTGAACTCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
29049595 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTT-AAAAACGCTTC
* * * * * *
29049655 AAGTAGGATGCTTTGTGAGAAGAATTTGTGAAATCACGCTCTCGTGGATGCGCTTTTACTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * * *
29049720 TGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAATGCTTC
66 AGGTCCTGGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAACGCTTC
* * * * *
29049780 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCTCCCACGTGGGCGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * * *
29049845 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAATATAAAACAACGCTAT-
66 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGT-TTAAA-AACGCT-TC
*
29049906 AAGCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * * *
29049970 TTGGTCCTGGAAAAATAATTTCAACTTGACGTTTCTGAGCAAATAGTATAAAACCGCTTC
65 TAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAACGCTTC
*
29050030 TAGCAGGATGCTTTATGAGAAG
1 AAGCAGGATGCTTTATGAGAAG
29050052 TGTAACAGGT
Statistics
Matches: 336, Mismatches: 54, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
123 3 0.01
124 54 0.16
125 140 0.42
126 136 0.40
127 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (124 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAACGCTTC
Found at i:29049988 original size:250 final size:250
Alignment explanation
Indices: 29049530--29050051 Score: 744
Period size: 250 Copynumber: 2.1 Consensus size: 250
29049520 TATAAAATCA
* * * * *
29049530 AAGCAGGATGATTTATCAGAAGGATTTTTGAACTCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAACTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
29049595 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGTA
66 AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAATATAAAAAACGCTTCAAGCA
* * *
29049660 GGATGCTTTGTGAGAAGAATTTGTGAAATCACGCTCTCGTGGATGCGCTTTTACTACAGTTGGTC
131 GCATGCTTTGTGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTACTACAGTTGGTC
* * * * *
29049725 CTAGAAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAATGCTTC
196 CTAGAAGAAATAATTTCAACTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
* * *
29049780 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCTCCCACGTGGGCGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAACTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
29049845 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAATATAAAACAACGCTAT-AAG
66 AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAATATAAAA-AACGCT-TCAAG
* *
29049909 CAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTG
129 CAGCATGCT-TTGTGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTACTACAGTTG
* *
29049973 GTCCTGGAA-AAATAATTTCAACTTGACGTTTCTGAGCAAATAGTATAAAACCGCTTC
193 GTCCTAGAAGAAATAATTTCAACTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
* *
29050030 TAGCAGGATGCTTTATGAGAAG
1 AAGCAGGATGCTTTATAAGAAG
29050052 TGTAACAGGT
Statistics
Matches: 241, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
250 166 0.69
251 72 0.30
252 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (250 bp):
AAGCAGGATGCTTTATAAGAAGAATTTGTGAACTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAATATAAAAAACGCTTCAAGCA
GCATGCTTTGTGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTACTACAGTTGGTC
CTAGAAGAAATAATTTCAACTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
Found at i:29051413 original size:25 final size:26
Alignment explanation
Indices: 29051385--29051433 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
29051375 TATTTTAATG
29051385 TTATTATCA-TTA-TCATATTATACCA
1 TTATTATCATTTATTCAT-TTATACCA
*
29051410 TTATTATTATTTATTCATTTATAC
1 TTATTATCATTTATTCATTTATAC
29051434 TTTTTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.38
26 9 0.43
27 4 0.19
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (26 bp):
TTATTATCATTTATTCATTTATACCA
Found at i:29051502 original size:24 final size:22
Alignment explanation
Indices: 29051457--29051506 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
29051447 AATTTTGTTA
* *
29051457 TATATATATACATGCGTTTTTT
1 TATATATATACATGCATATTTT
29051479 TATATATATACATGTACATATTTT
1 TATATATATACATG--CATATTTT
29051503 TATA
1 TATA
29051507 CATTGTCTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 14 0.58
24 10 0.42
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (22 bp):
TATATATATACATGCATATTTT
Found at i:29052210 original size:109 final size:106
Alignment explanation
Indices: 29052020--29052248 Score: 377
Period size: 109 Copynumber: 2.1 Consensus size: 106
29052010 TACGCATACT
* * *
29052020 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGTTTTGGAAATTCGAGAAAACGTGCCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATATTTTGGTTTGGAAATTCAAGAAAACGTGCCC
*
29052085 TAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 TAATGTGCTGGGTTTCGA--CTTCTCGTTCGACCAAATAGCCA
*
29052128 AATATCCTTTTAAAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCAAGAAAGCGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATATTTTG-GTTTGGAAATTCAAGAAAACGTGCC
29052193 CTAATGTGCTGGGTTTCGACTTCTCGTTCGACCAAATAGCCA
65 CTAATGTGCTGGGTTTCGACTTCTCGTTCGACCAAATAGCCA
*
29052235 AATATCCTCTTAAA
1 AATATCCTTTTAAA
29052249 TCTAAATCCA
Statistics
Matches: 114, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
107 35 0.31
108 38 0.33
109 41 0.36
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (106 bp):
AATATCCTTTTAAAAATTTCAAAATAAGGCAATATTTTGGTTTGGAAATTCAAGAAAACGTGCCC
TAATGTGCTGGGTTTCGACTTCTCGTTCGACCAAATAGCCA
Found at i:29055834 original size:21 final size:21
Alignment explanation
Indices: 29055808--29056855 Score: 930
Period size: 21 Copynumber: 48.7 Consensus size: 21
29055798 TCAAATTATA
29055808 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
29055829 TTTAAGTTAAAGGTTTAGAGTT
1 TTTAAGTT-AAGGGTTAGGGTT
29055851 TTTAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
* * *
29055873 TTAAAATTAAAGGTTTAGGGTT
1 TTTAAGTT-AAGGGTTAGGGTT
**
29055895 TTT-AGATT-AGGGTTAGATTT
1 TTTAAG-TTAAGGGTTAGGGTT
* *
29055915 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
29055937 TTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
29055958 TTTAAGTTAAGGTTTTATGGTT
1 TTTAAGTTAAGG-GTTAGGGTT
29055980 TTTAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
**
29056002 TTTAAGTTAAGATTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
29056023 TTTAGGTTAAGGGTTAGTGTT
1 TTTAAGTTAAGGGTTAGGGTT
* **
29056044 TTTAGGTT--GATTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
29056063 TTTAAGTTAAAGGTTAGGGGT
1 TTTAAGTTAAGGGTTAGGGTT
*
29056084 TTTGAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
29056106 TTTAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
* *
29056128 TTAAAGTTAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
29056149 GTTAGGTTAAGGGTTAGTGTT
1 TTTAAGTTAAGGGTTAGGGTT
29056170 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
29056192 TTTAATTTAAGGGTTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTT
29056212 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
29056234 TTTAAGTTAAGGTTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTT
29056255 TTTAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
* * *
29056277 TTAAAGTTAAGGTTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
29056298 TTTAGGTTAAGGGTTAAGGTTTATGGT
1 TTTAAGTTAAGGGTT-AGG-----GTT
* * * * * *
29056325 TTTTAGGTTAAGGGTTGGGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
* * *
29056347 TTTAGGTTAAGGATTTATGGTT
1 TTTAAGTTAAGG-GTTAGGGTT
* *
29056369 TTTAATTTAAGGGTTAGTGTT
1 TTTAAGTTAAGGGTTAGGGTT
29056390 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
29056412 TTAAAGTTAAGGATTTAGGGTT
1 TTTAAGTTAAGG-GTTAGGGTT
* * * *
29056434 TTAAAGTTATGGTTTAGAGTT
1 TTTAAGTTAAGGGTTAGGGTT
* **
29056455 TTTAGGTTAAGGGTTAATGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
29056476 TTTAGGTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGG-TTAGGGTT
29056498 TTTAAGTT-A-----AGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
29056513 TTAAAGTTAAGGTTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
29056534 TTCAGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
29056555 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
**
29056577 TTTAAGTTAAGGGTTAGTTTT
1 TTTAAGTTAAGGGTTAGGGTT
*
29056598 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
29056620 TTTAGGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGG-TTAGGGTT
*
29056642 TTTAAGTTAAAGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
29056663 TTTAGGTTAAGGGTTAGGATT
1 TTTAAGTTAAGGGTTAGGGTT
* *
29056684 TTTAATTTAAGGGTTAGTGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
29056705 TTTAATTTAAGAGTTTAGAGTTT
1 TTTAAGTTAAG-GGTTAG-GGTT
* *
29056728 TTTAGGTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
29056750 TTAAAGTTAATGGTTAGGGTTT
1 TTTAAGTTAAGGGTTAGGG-TT
* *
29056772 TAGGTTAAGGGTTTAGGGTTAGTGTT
1 T---TTAA--GTTAAGGGTTAGGGTT
* *
29056798 TTTAGGTTAAGGGTTTAGGGGT
1 TTTAAGTTAAGGG-TTAGGGTT
29056820 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
29056841 TTTAGGTTAAGGGTT
1 TTTAAGTTAAGGGTT
29056856 TAAGGTTTGT
Statistics
Matches: 828, Mismatches: 153, Indels: 92
0.77 0.14 0.09
Matches are distributed among these distances:
15 12 0.01
16 1 0.00
19 15 0.02
20 27 0.03
21 367 0.44
22 353 0.43
23 23 0.03
25 3 0.00
26 3 0.00
27 23 0.03
28 1 0.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:29056347 original size:28 final size:28
Alignment explanation
Indices: 29056282--29056340 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
29056272 GGGTTTTAAA
29056282 GTTAAGGTTTATGGTTTTTAGGTTAAGG
1 GTTAAGGTTTATGGTTTTTAGGTTAAGG
29056310 GTTAAGGTTTATGGTTTTTAGGTTAAGG
1 GTTAAGGTTTATGGTTTTTAGGTTAAGG
29056338 GTT
1 GTT
29056341 GGGGTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.47
Consensus pattern (28 bp):
GTTAAGGTTTATGGTTTTTAGGTTAAGG
Found at i:29056527 original size:14 final size:15
Alignment explanation
Indices: 29056495--29056524 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29056485 AGGGTTTAGA
*
29056495 GTTTTTAAGTTAAGG
1 GTTTTAAAGTTAAGG
29056510 GTTTTAAAGTTAAGG
1 GTTTTAAAGTTAAGG
29056525 TTTATGGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (15 bp):
GTTTTAAAGTTAAGG
Found at i:29056784 original size:14 final size:13
Alignment explanation
Indices: 29056761--29056813 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
29056751 TAAAGTTAAT
29056761 GGTTAGGGTTTTA
1 GGTTAGGGTTTTA
29056774 GGTTAAGGG-TTTA
1 GGTT-AGGGTTTTA
*
29056787 GGGTTAGTGTTTTTA
1 -GGTTAG-GGTTTTA
29056802 GGTTAAGGGTTT
1 GGTT-AGGGTTT
29056814 AGGGGTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
13 10 0.30
14 17 0.52
15 6 0.18
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (13 bp):
GGTTAGGGTTTTA
Found at i:29056807 original size:28 final size:27
Alignment explanation
Indices: 29056761--29056817 Score: 96
Period size: 28 Copynumber: 2.1 Consensus size: 27
29056751 TAAAGTTAAT
29056761 GGTTAGGGTTTTAGGTTAAGGGTTTAG
1 GGTTAGGGTTTTAGGTTAAGGGTTTAG
*
29056788 GGTTAGTGTTTTTAGGTTAAGGGTTTAG
1 GGTTAG-GGTTTTAGGTTAAGGGTTTAG
29056816 GG
1 GG
29056818 GTTTTAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.18, C:0.00, G:0.40, T:0.42
Consensus pattern (27 bp):
GGTTAGGGTTTTAGGTTAAGGGTTTAG
Found at i:29056857 original size:43 final size:43
Alignment explanation
Indices: 29055808--29056855 Score: 1036
Period size: 43 Copynumber: 24.3 Consensus size: 43
29055798 TCAAATTATA
* * *
29055808 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAAGGTTTAGAGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
29055851 TTTAAGTTAAGGGTCTAGGGTTTTAAAATTAAAGGTTTAGGGTT
1 TTTAGGTTAAGGGT-TAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* ** * *
29055895 TTTAGATT-AGGGTTAGATTTTTTAGGTTAAGGGTTTATGGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
** * *
29055937 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTTATGGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
29055980 TTTAAGTTAAGGGTCTAGGGTTTTTAAGTTAA-GATTTAGGGTT
1 TTTAGGTTAAGGGT-TAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
29056023 TTTAGGTTAAGGGTTAGTGTTTTTAGGTT---GATTTAGGGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
29056063 TTTAAGTTAAAGGTTAGGGGTTTTGAGTTAAGGGTTTAGGGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
29056106 TTTAAGTTAAGGGTCTAGGGTTTTAAAGTTAA-GGTTTAGGGTT
1 TTTAGGTTAAGGGT-TAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
29056149 GTTAGGTTAAGGGTTAGTGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
**
29056192 TTTAATTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAGGGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
29056234 TTTAAGTTAAGGTTTATGGTTTTTAAGTTAAGGGTCTAGGGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * * * *
29056277 TTAAAGTTAAGGTTTATGGTTTTTAGGTTAAGGGTTAAGGTTTATGGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAA--G----GGTTTAGGGTT
* * * *
29056326 TTTAGGTTAAGGGTTGGGGTTTTTAGGTTAAGGATTTATGGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
** *
29056369 TTTAATTTAAGGGTTAGTGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * * * *
29056412 TTAAAGTTAAGGATTTAGGGTTTTAAAGTT-ATGGTTTAGAGTT
1 TTTAGGTTAAGG-GTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
** * *
29056455 TTTAGGTTAAGGGTTAATGTTTTTAGGTTAAGGGTTTAGAGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
29056498 TTTAAGTT-A-----AGGGTTTTAAAGTTAA-GGTTTATGGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
29056534 TTCAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* ** *
29056577 TTTAAGTTAAGGGTTAGTTTTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
29056620 TTTAGGTTAAGGGTTTAGGATTTTTAAGTTAAAGG-TTAGGGTT
1 TTTAGGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
29056663 TTTAGGTTAAGGGTTAGGATTTTTAATTTAAGGG-TTAGTGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
** * * * *
29056705 TTTAATTTAAGAGTTTAGAGTTTTTTAGGTTAAGGGTTTAGTGTT
1 TTTAGGTTAAG-GGTTAG-GGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
29056750 TTAAAGTTAATGGTTAGGG-TTTTAGGTTAAGGGTTTAGGGTTAGTGTT
1 TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA--G---G-GTT
*
29056798 TTTAGGTTAAGGGTTTAGGGGTTTTAAGTTAAGGG-TTAGGGTT
1 TTTAGGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
29056841 TTTAGGTTAAGGGTT
1 TTTAGGTTAAGGGTT
29056856 TAAGGTTTGT
Statistics
Matches: 848, Mismatches: 121, Indels: 73
0.81 0.12 0.07
Matches are distributed among these distances:
36 15 0.02
37 13 0.02
40 34 0.04
42 177 0.21
43 404 0.48
44 116 0.14
45 17 0.02
47 2 0.00
48 13 0.02
49 44 0.05
50 13 0.02
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (43 bp):
TTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:29057434 original size:18 final size:18
Alignment explanation
Indices: 29057408--29057473 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 18
29057398 GACTCGAAAA
* *
29057408 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
29057426 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
29057444 AGGTTAGGATACATAAAAGGGCT
1 AGG--A--A-ACATAAAAGGGCT
29057467 AGGAAAC
1 AGGAAAC
29057474 GCACCTGGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
18 20 0.51
19 1 0.03
20 1 0.03
21 1 0.03
23 16 0.41
ACGTcount: A:0.44, C:0.09, G:0.29, T:0.18
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:29057452 original size:23 final size:23
Alignment explanation
Indices: 29057422--29057469 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
29057412 AACATATAAG
29057422 GGTTAGGATACATAAAAGGGCTA
1 GGTTAGGATACATAAAAGGGCTA
29057445 GGTTAGGATACATAAAAGGGCTA
1 GGTTAGGATACATAAAAGGGCTA
29057468 GG
1 GG
29057470 AAACGCACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.21
Consensus pattern (23 bp):
GGTTAGGATACATAAAAGGGCTA
Found at i:29058072 original size:7 final size:7
Alignment explanation
Indices: 29058062--29058087 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
29058052 TTATATACAT
29058062 AATACTA
1 AATACTA
29058069 AATACTA
1 AATACTA
29058076 AATACTA
1 AATACTA
29058083 AATAC
1 AATAC
29058088 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:29058292 original size:20 final size:20
Alignment explanation
Indices: 29058255--29058292 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
29058245 TTTATTTTTA
*
29058255 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
29058275 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
29058293 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:29059291 original size:51 final size:51
Alignment explanation
Indices: 29059230--29059327 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
29059220 AATTATTTAA
*
29059230 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGGAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
29059281 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
29059328 GAGAAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.26, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:29059303 original size:11 final size:11
Alignment explanation
Indices: 29059289--29059362 Score: 66
Period size: 11 Copynumber: 6.6 Consensus size: 11
29059279 ATAAATATGG
29059289 ATTTGAGAGAA
1 ATTTGAGAGAA
*
29059300 ATTTTGA-AGGA
1 A-TTTGAGAGAA
29059311 ATTTGAGAGCAA
1 ATTTGAGAG-AA
29059323 A-TTGAGAGAAA
1 ATTTGAGAG-AA
29059334 ATTT-AGAAGAA
1 ATTTGAG-AGAA
29059345 A-TTGAGAGGAA
1 ATTTGAGA-GAA
29059356 ATTTGAG
1 ATTTGAG
29059363 GTAGGATTAG
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
10 8 0.15
11 28 0.54
12 16 0.31
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.27
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:29059328 original size:33 final size:33
Alignment explanation
Indices: 29059291--29059358 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
29059281 AAATATGGAT
* *
29059291 TTGAGAG-AAATTTTGAAGGAATTTGAGAGCAAA
1 TTGAGAGAAAATTTAGAA-GAAATTGAGAGCAAA
*
29059324 TTGAGAGAAAATTTAGAAGAAATTGAGAGGAAA
1 TTGAGAGAAAATTTAGAAGAAATTGAGAGCAAA
29059357 TT
1 TT
29059359 TGAGGTAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 22 0.71
34 9 0.29
ACGTcount: A:0.46, C:0.01, G:0.26, T:0.26
Consensus pattern (33 bp):
TTGAGAGAAAATTTAGAAGAAATTGAGAGCAAA
Found at i:29060580 original size:12 final size:12
Alignment explanation
Indices: 29060534--29060581 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
29060524 ATTTAATCAC
29060534 TTTAATATTAAA
1 TTTAATATTAAA
29060546 -TTAATA-TAATA
1 TTTAATATTAA-A
* *
29060557 TTTATTACTAAA
1 TTTAATATTAAA
29060569 TTTAATATTAAA
1 TTTAATATTAAA
29060581 T
1 T
29060582 CTTGTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
12 17 0.57
13 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:29060680 original size:25 final size:25
Alignment explanation
Indices: 29060626--29060680 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
29060616 AAACATTAAA
*
29060626 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
29060651 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
29060675 TATTAA
1 T-TTAA
29060681 GACAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:29062320 original size:16 final size:16
Alignment explanation
Indices: 29062299--29062329 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29062289 CTATGCATAC
*
29062299 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
29062315 AAAATACAAAAGACA
1 AAAATACAAAAGACA
29062330 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:29068950 original size:30 final size:30
Alignment explanation
Indices: 29068916--29068980 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
29068906 ACTTGTTTTA
29068916 TTGTTAATTTTGTTATTATTTTAGAAGCAT
1 TTGTTAATTTTGTTATTATTTTAGAAGCAT
29068946 TTGTTAATTTTGTTATTATTTTAGAAGCAT
1 TTGTTAATTTTGTTATTATTTTAGAAGCAT
29068976 TTGTT
1 TTGTT
29068981 TGTTAAGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAAGCAT
Found at i:29077508 original size:34 final size:34
Alignment explanation
Indices: 29077431--29077509 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
29077421 AAATAAAATG
* * *
29077431 AAAATATAAAAGATATGTATATGTATATACATTT
1 AAAATATAAAAGAAATGAATATGTATATACATAT
* **
29077465 ACAGCATAAAAGAAATGAATATGTATATATC-TAT
1 AAAATATAAAAGAAATGAATATGTATATA-CATAT
29077499 AAAATATAAAA
1 AAAATATAAAA
29077510 TATATAAAAG
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.32
Consensus pattern (34 bp):
AAAATATAAAAGAAATGAATATGTATATACATAT
Found at i:29079396 original size:44 final size:44
Alignment explanation
Indices: 29079338--29079450 Score: 210
Period size: 44 Copynumber: 2.6 Consensus size: 44
29079328 ACCAGTATGG
29079338 GAAGACAAGATCTACTTTTTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTACTTTTTTCGATCTACTTCACGCCAATACAT
29079382 GAAGACAAGATCTACTTTTTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTACTTTTTTCGATCTACTTCACGCCAATACAT
*
29079426 GAAGACAAGATCTGC-TTTTTCGATC
1 GAAGACAAGATCTACTTTTTTCGATC
29079451 GATTCCACTG
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
43 10 0.15
44 58 0.85
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (44 bp):
GAAGACAAGATCTACTTTTTTCGATCTACTTCACGCCAATACAT
Found at i:29079602 original size:174 final size:174
Alignment explanation
Indices: 29079387--29079890 Score: 875
Period size: 174 Copynumber: 2.9 Consensus size: 174
29079377 TACATGAAGA
* * *
29079387 CAAGATCTACTTT-TTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTTTCGATC
1 CAAGATCT-GTTTCTTT-GATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCGATC
*
29079451 GATTCCACTGCCGACCGAGGAGGTAGAATTACTAGCTTCAATATACTCCACTGCAACTTCAGGGA
64 GATTCCACTGCCGACCGAGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGA
*
29079516 GGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGG
129 GGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAAGGAGG
29079562 CAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCGATCGA
1 CAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCGATCGA
29079627 TTCCACTGCCGACCGAGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGG
66 TTCCACTGCCGACCGAGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGG
*
29079692 TAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAAGGAGG
131 TAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAAGGAGG
*
29079736 CAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTTTCGATCGA
1 CAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCGATCGA
* *
29079801 TTCCACTGCCGATCGGGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGG
66 TTCCACTGCCGACCGAGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGG
* * *
29079866 TAAAATCTGCCGTCTACGATCTGCT
131 TAAAATCCGCCATCTTCGATCTGCT
29079891 TTGCTGTCTA
Statistics
Matches: 315, Mismatches: 13, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
174 304 0.97
175 11 0.03
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (174 bp):
CAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCGATCGA
TTCCACTGCCGACCGAGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGG
TAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAAGGAGG
Found at i:29080094 original size:132 final size:132
Alignment explanation
Indices: 29079816--29080982 Score: 1546
Period size: 132 Copynumber: 8.9 Consensus size: 132
29079806 CTGCCGATCG
* * * * * *
29079816 GGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCGTCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
** * * * * * **
29079881 ACGATCTGCT---TTGCTGTCTATGCAAGAAGACAAGATCTAAAATCTTCAATCTATTCCACTGC
66 TTGATCTGCTCCACTACTG-CT-T--AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGC
29079943 TGCCCA
127 TGCCCA
* *
29079949 GGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
* ** ** *
29080014 TTGACCTGCTCCACTACTGCTTAGGGAGGCAAGATCTAAAATCTTCAATCTATTCCGCTGCTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
29080079 CA
131 CA
* *
29080081 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
* * ***
29080146 TTGATTTGCTCCACTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCTATTCCACTGCTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
29080211 CA
131 CA
* ** * **
29080213 GGGAAGTAGAATTATTGGCTTCAATACACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
*
29080278 TTGATCTG----ACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
29080339 CA
131 CA
* *
29080341 GGG-AGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGAAGGTAAAATCCACCATC
1 GGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
*
29080405 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGC
65 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
29080470 CCA
130 CCA
* * *
29080473 GGG-AGATAGAATTTCCGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCGCCATC
1 GGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
* * * * * * *
29080537 CTTGATATGCTCCACTACTGCTTAGGGAAATAAGATTTATAATCTTCAATCTATTCTACTACTGC
65 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
*
29080602 CGA
130 CCA
* * * *
29080605 AGGAAGTAGAATTACTGGTTTCAATGTACTCCACTGTAACCAT-AGAGAGGTAAAATCCGTCATC
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC-TCAGGGAGGTAAAATCCGCCATC
* * * *
29080669 TTTGATCTGCTCTACTACTGCTTAAGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGC
65 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
29080734 CCA
130 CCA
* * * * *
29080737 GGG-AGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGTGAGGTAAAATCTGTCATC
1 GGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
* * *
29080801 TTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGC
65 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
29080866 CCA
130 CCA
* *
29080869 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
* *
29080934 TTGATCTACTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
66 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
29080983 TTGCTTCGCT
Statistics
Matches: 922, Mismatches: 99, Indels: 27
0.88 0.09 0.03
Matches are distributed among these distances:
127 2 0.00
128 114 0.12
131 3 0.00
132 727 0.79
133 69 0.07
134 1 0.00
135 2 0.00
136 4 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCT
TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
CA
Found at i:29080346 original size:44 final size:44
Alignment explanation
Indices: 29080296--29080480 Score: 133
Period size: 44 Copynumber: 4.2 Consensus size: 44
29080286 ACTACTGCTT
*
29080296 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCC
* * * **
29080340 AGGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTGTAACCTC
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGTTGCC-C
* * * **** ** * ** **
29080384 AGGAAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCC
*
29080428 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCC
29080472 AGGGAGATA
1 AGGGAGATA
29080481 GAATTTCCGG
Statistics
Matches: 96, Mismatches: 39, Indels: 12
0.65 0.27 0.08
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 22 0.23
44 53 0.55
45 16 0.17
47 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCC
Found at i:29080529 original size:392 final size:391
Alignment explanation
Indices: 29079816--29080969 Score: 1657
Period size: 392 Copynumber: 2.9 Consensus size: 391
29079806 CTGCCGATCG
* * ** *
29079816 GGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCGTCT
1 GGGAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
** * * *
29079881 ACGATCTG-CTTTGCTGTCTATGCAAGAAGACAAGATCTAAAATCTTCAATCTATTCCACTGCTG
66 TTGATCTGAC--TACTG-CT-T--AAGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
*
29079945 CCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACC
125 CCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCA-GGAGGTAAAATCCACC
* ** ** * *
29080010 ATCTTTGACCTGCTCCACTACTGCTTAGGGAGGCAAGATCTAAAATCTTCAATCTATTCCGCTGC
189 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGT
29080075 TGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCG
254 TGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCG
* *
29080140 CCATCTTTGATTTGCTCCACTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCTATTCCACT
319 CCATCTTTGATATGCTCCACTACTGCTTAGGGAGATAAGATCCAAAATCTTCAATCTATTCCACT
*
29080205 GCTGCCCA
384 ACTGCCCA
* * *
29080213 GGGAAGTAGAATTATTGGCTTCAATACACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCT
1 GGGAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* * * *
29080278 TTGATCTGACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGG
66 TTGATCTGACTACTGCTTAAGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGG
29080343 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGAAGGTAAAATCCACCATCTTT
131 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGG-AGGTAAAATCCACCATCTTT
29080408 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCA
195 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCA
* * *
29080473 GGG-AGATAGAATTTCCGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCGCCATC
260 GGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATC
* * ** * *
29080537 CTTGATATGCTCCACTACTGCTTAGGGAAATAAGATTTATAATCTTCAATCTATTCTACTACTGC
324 TTTGATATGCTCCACTACTGCTTAGGGAGATAAGATCCAAAATCTTCAATCTATTCCACTACTGC
*
29080602 CGA
389 CCA
* * * * * * *
29080605 AGGAAGTAGAATTACTGGTTTCAATGTACTCCACTGTAACCATAGAGAGGTAAAATCCGTCATCT
1 GGGAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
29080670 TTGATCTGCTCTACTACTGCTTAAGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
66 TTGATCTG----ACTACTGCTTAAGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
* * ***
29080735 CAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGTGAGGTAAAATCTGTCAT
127 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAG-GAGGTAAAATCCACCAT
* *
29080800 CTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTG
191 CTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTG
29080865 CCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA-TCTGC
256 CCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTC-GC
* * *
29080929 CATCTTTGATCTACTCTACTACTGCTTAGGGAGATAAGATC
320 CATCTTTGATATGCTCCACTACTGCTTAGGGAGATAAGATC
29080970 TGTAATCTTC
Statistics
Matches: 679, Mismatches: 68, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
391 4 0.01
392 339 0.50
394 1 0.00
395 4 0.01
396 264 0.39
397 66 0.10
398 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (391 bp):
GGGAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
TTGATCTGACTACTGCTTAAGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGG
GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGAGGTAAAATCCACCATCTTTG
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAG
GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTT
TGATATGCTCCACTACTGCTTAGGGAGATAAGATCCAAAATCTTCAATCTATTCCACTACTGCCC
A
Found at i:29080859 original size:44 final size:44
Alignment explanation
Indices: 29080673--29080860 Score: 105
Period size: 44 Copynumber: 4.3 Consensus size: 44
29080663 GTCATCTTTG
* * * * *
29080673 ATCTGCTCTACTACTGCTTA-AGGAGACAAGATCTGAAATCTTCA
1 ATCTACTCCACTACTGCTCAGA-GAGATAAGATCTGTAATCTTCA
* * * * * *
29080717 ATCTATTCCACTGCTGCCCAGGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTACTGCTCAGAGAGATAAGATCTGTAAT--CTTCA
* * ** * * * * *
29080760 ATATACTCCACTGCAACCTCAGTGAGGTAAAATCTGTCATCTTCG
1 ATCTACTCCACTAC-TGCTCAGAGAGATAAGATCTGTAATCTTCA
* *
29080805 ATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTCAGAGAGATAAGATCTGTAATCTTCA
*
29080849 ATCTATTCCACT
1 ATCTACTCCACT
29080861 GTTGCCCAGG
Statistics
Matches: 101, Mismatches: 36, Indels: 14
0.67 0.24 0.09
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 20 0.20
44 58 0.57
45 17 0.17
46 1 0.01
47 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (44 bp):
ATCTACTCCACTACTGCTCAGAGAGATAAGATCTGTAATCTTCA
Found at i:29082328 original size:8 final size:7
Alignment explanation
Indices: 29082291--29082325 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
29082281 TTAGCCTCTC
29082291 CATTTTT
1 CATTTTT
29082298 -ACTTTTT
1 CA-TTTTT
29082305 CATTTTT
1 CATTTTT
29082312 CATTTTT
1 CATTTTT
29082319 CATTTTT
1 CATTTTT
29082326 TCACATCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 1 0.04
7 24 0.92
8 1 0.04
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:29083292 original size:20 final size:20
Alignment explanation
Indices: 29083267--29083307 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
29083257 GGTTTGGCAG
*
29083267 AAAAAATC-TGAAGGAATGAA
1 AAAAAATCGT-AAAGAATGAA
29083287 AAAAAATCGTAAAGAATGAA
1 AAAAAATCGTAAAGAATGAA
29083307 A
1 A
29083308 GAACATTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.63, C:0.05, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAAAATCGTAAAGAATGAA
Found at i:29086177 original size:41 final size:40
Alignment explanation
Indices: 29086121--29086266 Score: 129
Period size: 41 Copynumber: 3.6 Consensus size: 40
29086111 TGATTCGATA
29086121 CACCGGC-TTATAGCCTGCTAGACCTATAGTCCGAAATGTAT
1 CACCGGCATTA-AGCCTGCTAGACCTATAGTCCGAAAT-TAT
* * *
29086162 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTG-AATTAATT
1 CACCGGCATTAAGCCTGCTAGACCTATAGTCCGAAATT-A-T
* *
29086203 CACCGGCATTAAGCCTGCTAGGCAC-ATAG-CCTGAATTATAT
1 CACCGGCATTAAGCCTGCTAGAC-CTATAGTCC-GAAAT-TAT
* **
29086244 CACCAGCATCCAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
29086267 AATAAGTCTG
Statistics
Matches: 86, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
39 1 0.01
40 5 0.06
41 73 0.85
42 6 0.07
43 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACCTATAGTCCGAAATTAT
Found at i:29086274 original size:82 final size:82
Alignment explanation
Indices: 29086121--29086276 Score: 185
Period size: 82 Copynumber: 1.9 Consensus size: 82
29086111 TGATTCGATA
* * * *
29086121 CACCGGCTTATAGCCTGCTAGACCTATAGTCCGAAATGTATCACCGGCATTAAGCCTGCTAGACG
1 CACCGGCTTATAGCCTGCTAGACCTATAGTCCGAAATATATCACCAGCATCAAGCCTGCTAGACA
29086186 TAAAGTCTGAATTAATT
66 TAAAGTCTGAATTAATT
* * *
29086203 CACCGGCATTA-AGCCTGCTAGGCAC-ATAG-CCTGAATTATATCACCAGCATCCAGCCTGCTAG
1 CACCGGC-TTATAGCCTGCTAGAC-CTATAGTCC-GAAATATATCACCAGCATCAAGCCTGCTAG
29086265 ACA-ATAAGTCTG
63 ACATA-AAGTCTG
29086277 GTTTACATTC
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
81 3 0.05
82 56 0.89
83 4 0.06
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (82 bp):
CACCGGCTTATAGCCTGCTAGACCTATAGTCCGAAATATATCACCAGCATCAAGCCTGCTAGACA
TAAAGTCTGAATTAATT
Found at i:29087610 original size:19 final size:18
Alignment explanation
Indices: 29087568--29087613 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
29087558 TATTCAAAGC
29087568 AACAATTTCAAAAACGTA
1 AACAATTTCAAAAACGTA
29087586 AA-AATTATCAAAAACCG-A
1 AACAATT-TCAAAAA-CGTA
29087604 AACAATTTCA
1 AACAATTTCA
29087614 TACCTTAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.16
18 15 0.60
19 6 0.24
ACGTcount: A:0.57, C:0.17, G:0.04, T:0.22
Consensus pattern (18 bp):
AACAATTTCAAAAACGTA
Found at i:29093946 original size:41 final size:40
Alignment explanation
Indices: 29093890--29094035 Score: 154
Period size: 41 Copynumber: 3.6 Consensus size: 40
29093880 TGATTCGATA
29093890 CACCGGC-TTATAGCCTGCTAGACCTATAGTCTGAAATGTAT
1 CACCGGCATTA-AGCCTGCTAGACCTATAGTCTGAAAT-TAT
* *
29093931 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTG-AATTAATT
1 CACCGGCATTAAGCCTGCTAGACCTATAGTCTGAAATT-A-T
* * *
29093972 CACCGGCATTAAGCCTGCTAGGCAC-ATAGCCTGAATTATAT
1 CACCGGCATTAAGCCTGCTAGAC-CTATAGTCTGAAAT-TAT
**
29094013 CACCGGCATCCAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
29094036 AATAAGTCTG
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
39 1 0.01
40 4 0.04
41 77 0.87
42 6 0.07
43 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACCTATAGTCTGAAATTAT
Found at i:29094043 original size:82 final size:82
Alignment explanation
Indices: 29093890--29094045 Score: 201
Period size: 82 Copynumber: 1.9 Consensus size: 82
29093880 TGATTCGATA
* * * *
29093890 CACCGGCTTATAGCCTGCTAGACCTATAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGACG
1 CACCGGCTTATAGCCTGCTAGACCTATAGCCTGAAATATATCACCGGCATCAAGCCTGCTAGACA
29093955 TAAAGTCTGAATTAATT
66 TAAAGTCTGAATTAATT
* * *
29093972 CACCGGCATTA-AGCCTGCTAGGCAC-ATAGCCTGAATTATATCACCGGCATCCAGCCTGCTAGA
1 CACCGGC-TTATAGCCTGCTAGAC-CTATAGCCTGAAATATATCACCGGCATCAAGCCTGCTAGA
29094035 CA-ATAAGTCTG
64 CATA-AAGTCTG
29094046 GTTTACATTC
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
81 1 0.02
82 59 0.92
83 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (82 bp):
CACCGGCTTATAGCCTGCTAGACCTATAGCCTGAAATATATCACCGGCATCAAGCCTGCTAGACA
TAAAGTCTGAATTAATT
Found at i:29095384 original size:19 final size:18
Alignment explanation
Indices: 29095342--29095387 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
29095332 TATTCAAAGC
29095342 AACAATTTCAAAAACGTA
1 AACAATTTCAAAAACGTA
29095360 AA-AATTATCAAAAACCG-A
1 AACAATT-TCAAAAA-CGTA
29095378 AACAATTTCA
1 AACAATTTCA
29095388 TACCTTAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.16
18 15 0.60
19 6 0.24
ACGTcount: A:0.57, C:0.17, G:0.04, T:0.22
Consensus pattern (18 bp):
AACAATTTCAAAAACGTA
Found at i:29098012 original size:34 final size:34
Alignment explanation
Indices: 29097935--29098018 Score: 82
Period size: 34 Copynumber: 2.5 Consensus size: 34
29097925 AAATAAAATG
* *
29097935 AAAATATAAAAAATATGTATATGTATATACATTT
1 AAAATATAAAAAATATGAATATGTATATACATAT
* **
29097969 ACAGCATAAAAGAA-ATGAATATGTATATATC-TAT
1 AAAATATAAAA-AATATGAATATGTATATA-CATAT
*
29098003 AAAATATAAAATATAT
1 AAAATATAAAAAATAT
29098019 AAAAGCTAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
33 1 0.03
34 34 0.89
35 3 0.08
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (34 bp):
AAAATATAAAAAATATGAATATGTATATACATAT
Found at i:29100077 original size:174 final size:174
Alignment explanation
Indices: 29099844--29100521 Score: 1187
Period size: 174 Copynumber: 3.9 Consensus size: 174
29099834 TATGGGAAGA
* * * *
29099844 CAAGATCTACTTT-TTTCGATCTACTTCACGCCAATACATGAAGACTAGATCTGCTTTTTCGATC
1 CAAGATCT-GTTTCTTT-GATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCGATC
*
29099908 GATTCCACTGCCGACCGAGGAGGTAGAATTACTAGCTTCAATATACTCCACTGCAACTTCAGGGA
64 GATTCCACTGCCGACCGAGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGA
*
29099973 GGTAAAATCCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGG
129 GGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGG
29100019 CAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCGATCGA
1 CAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCGATCGA
29100084 TTCCACTGCCGACCGAGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGG
66 TTCCACTGCCGACCGAGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGG
29100149 TAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGG
131 TAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGG
29100193 CAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCGATCGA
1 CAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCGATCGA
*
29100258 TTCCACTGCCGACCGAGGAGGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGG
66 TTCCACTGCCGACCGAGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGG
*
29100323 TAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGG
131 TAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGG
* *
29100367 CAAGATCTGTTTCTTTGATCTACTTCTCGCCAGTACATGAAGACAAGATCTATTTTTTCGATCGA
1 CAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCGATCGA
* *
29100432 TTCCACTGCCGACCGGGGAGGTAGAATTACTGGCTTCAATATACTCTACTGCAACTTCAGGGAGG
66 TTCCACTGCCGACCGAGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGG
** * *
29100497 TAAAATCTACCGTCTACGATCTGCT
131 TAAAATCCGCCATCTTCGATCTGCT
29100522 TTGCTGTCTA
Statistics
Matches: 484, Mismatches: 18, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
174 473 0.98
175 11 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (174 bp):
CAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCGATCGA
TTCCACTGCCGACCGAGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGG
TAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGG
Found at i:29100722 original size:132 final size:132
Alignment explanation
Indices: 29100431--29101617 Score: 1571
Period size: 132 Copynumber: 9.0 Consensus size: 132
29100421 TTTTCGATCG
* * * * * * * *
29100431 ATTCCACTGCCGACCGGGGAGGTAGAATTACTGGCTTCAATATACTCTACTGCAACTTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
** * ** * * * * * **
29100496 GTAAAATCTACCGTCTACGATCTGCT---TTGCTGTCTATGCAAGAAGACAAGATCTAAAATCTT
66 GTAAAATCCGCCATCTTTGATCTGCTCCACTACTG-CT-T--AGGGAGATAAGATCTGTAATCTT
29100558 CAATCT
127 CAATCT
*
29100564 ATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
* * ** **
29100629 GTAAAATCCACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGGCAAGATCTAAAATCTTCAAT
66 GTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
29100694 CT
131 CT
* *
29100696 ATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
* * * ***
29100761 GTAAAATTCGCCATCTTTGATTTGCTCCACTACTGCTTAGGGAGACAAGATCCAAAATCTTCAAT
66 GTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
29100826 CT
131 CT
* ** *
29100828 ATTCCACTGCTGCCCAGGGAAGTAGAATTATTGGCTTCAATACACTCCACTGTAACCACAGGGAG
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
**
29100893 GTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
66 GTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
29100958 CT
131 CT
*
29100960 ATTCCACTGTTGCCCAGGG-AGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGA
1 ATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGA
* *
29101024 GGTAAAATCCACTATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA
65 GGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA
29101089 TCT
130 TCT
* * *
29101092 ATTCCACTGTTGCCCAGGG-AGATAGAATTTCCGGCTTCAATGTACTCCACTGTAACCTCAGGGA
1 ATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGA
* * * * * * *
29101156 GGTAAAATTCGCCATCCTTGATATGCTTCACTACTGCTTAGGGAAATAAGATTTATAATCTTCAA
65 GGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA
*
29101221 TAT
130 TCT
* * * * *
29101224 ATTCTACTGCTGCCGAAGGAAGTAGAATTACTGGTTTCAATGTACTCCACTGTAACCAT-AGAGA
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC-TCAGGGA
* * * *
29101288 GGTAAAATCCGTCATCTTTGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGAAATCTTCAA
65 GGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA
29101353 TCT
130 TCT
* * *
29101356 ATTCCACTGCTGCCCAGGG-AGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGTGA
1 ATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGA
* * *
29101420 GGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATCTTCAA
65 GGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA
29101485 TCT
130 TCT
**
29101488 ATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCAT-AGGGA
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC-TCAGGGA
* *
29101552 GGTAAAATCCGCCATCTTTGATCTACTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA
65 GGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA
29101617 T
130 T
29101618 TTGCTTCGCT
Statistics
Matches: 941, Mismatches: 103, Indels: 21
0.88 0.10 0.02
Matches are distributed among these distances:
131 5 0.01
132 846 0.90
133 83 0.09
134 1 0.00
135 2 0.00
136 4 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
GTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
CT
Found at i:29101011 original size:43 final size:44
Alignment explanation
Indices: 29100819--29101144 Score: 134
Period size: 44 Copynumber: 7.4 Consensus size: 44
29100809 GATCCAAAAT
* * *
29100819 CTTCAATCTATTCCACTGCTGCCCAGGGA-AGTAGAAT-TATTGG
1 CTTCAATCTACTCCACTGTTGCCCAGGGAGA-TAGAATCTACTGG
** * * ***
29100862 CTTCAATAC-ACTCCACTGTAACCACAGGGAGGTAAAATCTACCAT
1 CTTCAAT-CTACTCCACTGTTGCC-CAGGGAGATAGAATCTACTGG
** * ** ** *
29100907 CTTTGATCTGCTCCACTACTGCTTAGGGAGATA-AGATCTGTAAT--
1 CTTCAATCTACTCCACTGTTGCCCAGGGAGATAGA-ATC--TACTGG
*
29100951 CTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAAT-TACTGG
1 CTTCAATCTACTCCACTGTTGCCCAGGGAGATAGAATCTACTGG
* ** * * * **
29100994 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACTAT
1 CTTCAATCTACTCCACTGTTGCC-CAGGGAGATAGAATCTACTGG
** * ** ** *
29101039 CTTTGATCTGCTCCACTACTGCTTAGGGAGATA-AGATCTGTAAT--
1 CTTCAATCTACTCCACTGTTGCCCAGGGAGATAGA-ATC--TACTGG
* * *
29101083 CTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAAT-TTCCGG
1 CTTCAATCTACTCCACTGTTGCCCAGGGAGATAGAATCTACTGG
*
29101126 CTTCAATGTACTCCACTGT
1 CTTCAATCTACTCCACTGT
29101145 AACCTCAGGG
Statistics
Matches: 198, Mismatches: 66, Indels: 38
0.66 0.22 0.13
Matches are distributed among these distances:
41 4 0.02
43 55 0.28
44 101 0.51
45 34 0.17
46 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGTTGCCCAGGGAGATAGAATCTACTGG
Found at i:29102971 original size:8 final size:7
Alignment explanation
Indices: 29102927--29102968 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
29102917 TTAGCCTCTC
29102927 CATTTTT
1 CATTTTT
29102934 -ACTTTTT
1 CA-TTTTT
29102941 CATTTTT
1 CATTTTT
29102948 CA-TTTT
1 CATTTTT
29102954 CATCTTTT
1 CAT-TTTT
29102962 CATTTTT
1 CATTTTT
29102969 TCACATCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.23
7 16 0.52
8 8 0.26
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:29103943 original size:20 final size:20
Alignment explanation
Indices: 29103918--29103958 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
29103908 GGTTTGGCAG
*
29103918 AAAAAATC-TGAAGGAATGAA
1 AAAAAATCGT-AAAGAATGAA
29103938 AAAAAATCGTAAAGAATGAA
1 AAAAAATCGTAAAGAATGAA
29103958 A
1 A
29103959 GAACATTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.63, C:0.05, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAAAATCGTAAAGAATGAA
Found at i:29106830 original size:41 final size:40
Alignment explanation
Indices: 29106774--29106919 Score: 138
Period size: 41 Copynumber: 3.6 Consensus size: 40
29106764 TGATTCGATA
29106774 CACCGGC-TTATAGCCTGCTAGACCTATAGTCCGAAATGTAT
1 CACCGGCATTA-AGCCTGCTAGACCTATAGTCCGAAAT-TAT
* * *
29106815 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTG-AATTAATT
1 CACCGGCATTAAGCCTGCTAGACCTATAGTCCGAAATT-A-T
* *
29106856 CACCGGCATTAAGCCTGCTAGGCAC-ATAG-CCTGAATTATAT
1 CACCGGCATTAAGCCTGCTAGAC-CTATAGTCC-GAAAT-TAT
**
29106897 CACCGGCATCCAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
29106920 AATAAGTCTG
Statistics
Matches: 87, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
39 1 0.01
40 5 0.06
41 74 0.85
42 6 0.07
43 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACCTATAGTCCGAAATTAT
Found at i:29106927 original size:82 final size:82
Alignment explanation
Indices: 29106774--29106929 Score: 194
Period size: 82 Copynumber: 1.9 Consensus size: 82
29106764 TGATTCGATA
* * *
29106774 CACCGGCTTATAGCCTGCTAGACCTATAGTCCGAAATGTATCACCGGCATTAAGCCTGCTAGACG
1 CACCGGCTTATAGCCTGCTAGACCTATAGTCCGAAATATATCACCGGCATCAAGCCTGCTAGACA
29106839 TAAAGTCTGAATTAATT
66 TAAAGTCTGAATTAATT
* * *
29106856 CACCGGCATTA-AGCCTGCTAGGCAC-ATAG-CCTGAATTATATCACCGGCATCCAGCCTGCTAG
1 CACCGGC-TTATAGCCTGCTAGAC-CTATAGTCC-GAAATATATCACCGGCATCAAGCCTGCTAG
29106918 ACA-ATAAGTCTG
63 ACATA-AAGTCTG
29106930 GTTTACATTC
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
81 3 0.05
82 57 0.89
83 4 0.06
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (82 bp):
CACCGGCTTATAGCCTGCTAGACCTATAGTCCGAAATATATCACCGGCATCAAGCCTGCTAGACA
TAAAGTCTGAATTAATT
Found at i:29110889 original size:34 final size:34
Alignment explanation
Indices: 29110812--29110895 Score: 82
Period size: 34 Copynumber: 2.5 Consensus size: 34
29110802 AAATAAAATG
* *
29110812 AAAATATAAAAAATATGTATATGTATATACATTT
1 AAAATATAAAAAATATGAATATGTATATACATAT
* **
29110846 ACAGCATAAAAGAA-ATGAATATGTATATATC-TAT
1 AAAATATAAAA-AATATGAATATGTATATA-CATAT
*
29110880 AAAATATAAAATATAT
1 AAAATATAAAAAATAT
29110896 AAAAGCTAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
33 1 0.03
34 34 0.89
35 3 0.08
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (34 bp):
AAAATATAAAAAATATGAATATGTATATACATAT
Found at i:29119250 original size:18 final size:17
Alignment explanation
Indices: 29119203--29119253 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
29119193 TGCAACTAGT
*
29119203 CAGAGGAAAAAAGAAAG
1 CAGAGGAAAAAAGGAAG
* * *
29119220 CAAAGCAAAAAAGGATG
1 CAGAGGAAAAAAGGAAG
29119237 CAGAGGAAAGAAAGGAA
1 CAGAGGAAA-AAAGGAA
29119254 CATCTCCTTC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.61, C:0.08, G:0.29, T:0.02
Consensus pattern (17 bp):
CAGAGGAAAAAAGGAAG
Found at i:29121231 original size:6 final size:6
Alignment explanation
Indices: 29121215--29121249 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
29121205 ACAATGTTGG
* *
29121215 AAATGA TAATGA CAATGA AAATGA AAATGA AAATG
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATG
29121250 GAAGGTGCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (6 bp):
AAATGA
Found at i:29127621 original size:18 final size:19
Alignment explanation
Indices: 29127581--29127622 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
29127571 GCAAATGGAT
* * *
29127581 CATTTCTCATTTTCTTTTT
1 CATTTCTCATTTCCATTTC
29127600 CATTTC-CATTTCCATTTC
1 CATTTCTCATTTCCATTTC
29127618 CATTT
1 CATTT
29127623 TTGAGAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.60
Consensus pattern (19 bp):
CATTTCTCATTTCCATTTC
Found at i:29138132 original size:31 final size:31
Alignment explanation
Indices: 29138088--29138190 Score: 102
Period size: 31 Copynumber: 3.3 Consensus size: 31
29138078 GGCCTAATAG
*
29138088 CCACTCGCCCGTGTAGCATGCCTGTGTGGGC
1 CCACACGCCCGTGTAGCATGCCTGTGTGGGC
** ** *
29138119 CTGCACGTTCGTGTAACATGTCC-GTGTGGGC
1 CCACACGCCCGTGTAGCATG-CCTGTGTGGGC
*
29138150 CCACACGCCCATGTAGCATG-CTCGTGTGGGC
1 CCACACGCCCGTGTAGCATGCCT-GTGTGGGC
*
29138181 CCACATGCCC
1 CCACACGCCC
29138191 AATTTGGCCT
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 1 0.02
31 53 0.95
32 2 0.04
ACGTcount: A:0.14, C:0.35, G:0.29, T:0.22
Consensus pattern (31 bp):
CCACACGCCCGTGTAGCATGCCTGTGTGGGC
Done.