Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 108 of 276
Found at i:34177964 original size:26 final size:24
Alignment explanation
Indices: 34177916--34177963 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
34177906 ATCGCCGACT
34177916 TCACATATATTTTATTAAAAAAAG
1 TCACATATATTTTATTAAAAAAAG
34177940 TCACATATATAATTT-TTAAAAAAA
1 TCACATATAT--TTTATTAAAAAAA
34177964 AATATTGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
25 9 0.41
26 3 0.14
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (24 bp):
TCACATATATTTTATTAAAAAAAG
Found at i:34178478 original size:14 final size:14
Alignment explanation
Indices: 34178459--34178498 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
34178449 TGGTTCAACT
34178459 ATCTTATCATTTTC
1 ATCTTATCATTTTC
34178473 ATCTTATCATTTTC
1 ATCTTATCATTTTC
34178487 A--TTATCATTTTC
1 ATCTTATCATTTTC
34178499 TTGTTCTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 11 0.42
14 15 0.58
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (14 bp):
ATCTTATCATTTTC
Found at i:34183352 original size:14 final size:12
Alignment explanation
Indices: 34183333--34183369 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 12
34183323 ACGTTGGTCT
34183333 TTATCATTTTCA
1 TTATCATTTTCA
34183345 TCTTATCATTTTCA
1 --TTATCATTTTCA
34183359 TTATCATTTTC
1 TTATCATTTTC
34183370 TTGTTCTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.48
14 12 0.52
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATCATTTTCA
Found at i:34194054 original size:21 final size:22
Alignment explanation
Indices: 34194025--34194065 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
34194015 GAACGTATTG
*
34194025 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
34194047 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
34194066 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:34198971 original size:40 final size:40
Alignment explanation
Indices: 34198916--34198993 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
34198906 GGAAAAAAAA
34198916 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
34198956 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
34198994 GTTACATCCG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:34200918 original size:27 final size:27
Alignment explanation
Indices: 34200887--34201064 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34200877 TAAATTGTAC
34200887 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34200914 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34200940 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34200968 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34200996 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34201023 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34201050 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34201065 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34201001 original size:82 final size:81
Alignment explanation
Indices: 34200888--34201043 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34200878 AAATTGTACA
* *
34200888 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34200952 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
34200969 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34201034 TGCGAGTTGA
65 TGCGAATTGA
34201044 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34201055 original size:82 final size:81
Alignment explanation
Indices: 34200884--34201064 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
34200874 GATTAAATTG
* *
34200884 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34200949 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
34200965 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34201029 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34201047 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34201065 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34211190 original size:36 final size:36
Alignment explanation
Indices: 34211143--34211217 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
34211133 TATTTTGAGT
34211143 ATAACATTATGATCATTTTGTATATATGGTCTTATG
1 ATAACATTATGATCATTTTGTATATATGGTCTTATG
34211179 ATAACATTATGATCATTTTGTATATATGGTCTTATG
1 ATAACATTATGATCATTTTGTATATATGGTCTTATG
34211215 ATA
1 ATA
34211218 TGGTTATTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (36 bp):
ATAACATTATGATCATTTTGTATATATGGTCTTATG
Found at i:34219451 original size:40 final size:40
Alignment explanation
Indices: 34219353--34219615 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
34219343 TCCTCGTTCA
* * * * *
34219353 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
34219392 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
34219432 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
34219472 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
34219512 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
34219552 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
34219592 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34219616 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:34227403 original size:40 final size:40
Alignment explanation
Indices: 34227305--34227567 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
34227295 TCCTCGTTCA
* * * * *
34227305 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
34227344 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
34227384 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
34227424 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
34227464 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
34227504 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
34227544 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34227568 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:34230672 original size:46 final size:47
Alignment explanation
Indices: 34230616--34230786 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 47
34230606 ACATCTCGTA
*
34230616 GCCGATGCATGTCTCAGACATGTCTTACACTGGCT-TACGTTACGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACGTTACGAG
* * * *
34230662 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTA-GTCT-CAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACGT-TACGAG
* * * * *
34230708 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCT-CATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTACGTTACGAG
* *
34230756 GCCAATGCATGTGCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
34230787 AGCACATAAA
Statistics
Matches: 102, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
46 53 0.52
47 27 0.26
48 22 0.22
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACGTTACGAG
Found at i:34230764 original size:94 final size:92
Alignment explanation
Indices: 34230616--34230789 Score: 233
Period size: 94 Copynumber: 1.9 Consensus size: 92
34230606 ACATCTCGTA
* * * * *
34230616 GCCGATGCATGTCTCAGACATGTCTTACACTGGCTTACGTTACGAGGCCGATGCATGTCCCAAAC
1 GCCGATGCATATCCCAGACATGTCTTACACTGGCTTACATAACGAGGCCAATGCATGTCCCAAAC
34230681 ATGTCTTACACTAGCTCTAGTCTCAAT
66 ATGTCTTACACTAGCTCTAGTCTCAAT
* * *
34230708 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCAATGCATGTGCCA
1 GCCGATG-CATATCCCAGACAT-GTCTTACACTGGCT-TACATAACGAGGCCAATGCATGTCCCA
*
34230772 GACATGTCTTACACTAGC
63 AACATGTCTTACACTAGC
34230790 ACATAAATGA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 7 0.10
93 12 0.17
94 50 0.71
95 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (92 bp):
GCCGATGCATATCCCAGACATGTCTTACACTGGCTTACATAACGAGGCCAATGCATGTCCCAAAC
ATGTCTTACACTAGCTCTAGTCTCAAT
Found at i:34236364 original size:33 final size:33
Alignment explanation
Indices: 34236322--34236419 Score: 178
Period size: 33 Copynumber: 3.0 Consensus size: 33
34236312 GTTCTACTAG
*
34236322 ATACTTAGTTGTTATAGCGAAATGTTGTTATAT
1 ATACTTAGTTGTTATAGTGAAATGTTGTTATAT
34236355 ATACTTAGTTGTTATAGTGAAATGTTGTTATAT
1 ATACTTAGTTGTTATAGTGAAATGTTGTTATAT
*
34236388 ATACTTCGTTGTTATAGTGAAATGTTGTTATA
1 ATACTTAGTTGTTATAGTGAAATGTTGTTATA
34236420 GTGAGTGACT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.47
Consensus pattern (33 bp):
ATACTTAGTTGTTATAGTGAAATGTTGTTATAT
Found at i:34236367 original size:17 final size:16
Alignment explanation
Indices: 34236344--34236403 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 16
34236334 TATAGCGAAA
34236344 TGTTGTTATATATACT
1 TGTTGTTATATATACT
*
34236360 TAGTTGTTATAGTGA-A-A
1 T-GTTGTTATA-T-ATACT
34236377 TGTTGTTATATATACT
1 TGTTGTTATATATACT
34236393 TCGTTGTTATA
1 T-GTTGTTATA
34236404 GTGAAATGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
14 1 0.03
15 2 0.06
16 11 0.31
17 19 0.53
18 2 0.06
19 1 0.03
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.52
Consensus pattern (16 bp):
TGTTGTTATATATACT
Found at i:34236421 original size:16 final size:16
Alignment explanation
Indices: 34236329--34236423 Score: 81
Period size: 16 Copynumber: 5.8 Consensus size: 16
34236319 TAGATACTTA
*
34236329 GTTGTTATAGCGAAAT
1 GTTGTTATAGTGAAAT
*
34236345 GTTGTTATA-T-ATACTT
1 GTTGTTATAGTGA-A-AT
34236361 AGTTGTTATAGTGAAAT
1 -GTTGTTATAGTGAAAT
*
34236378 GTTGTTATA-T-ATACTT
1 GTTGTTATAGTGA-A-AT
34236394 CGTTGTTATAGTGAAAT
1 -GTTGTTATAGTGAAAT
34236411 GTTGTTATAGTGA
1 GTTGTTATAGTGA
34236424 GTGACTTTTG
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 2 0.03
15 3 0.05
16 33 0.52
17 20 0.31
18 4 0.06
19 2 0.03
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.46
Consensus pattern (16 bp):
GTTGTTATAGTGAAAT
Found at i:34237773 original size:42 final size:42
Alignment explanation
Indices: 34237722--34237801 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
34237712 ACCATATCTA
34237722 GGATATGGCATCAG-TATGAGATTTCGTGGAAGAACATATATG
1 GGATATGGCAT-AGATATGAGATTTCGTGGAAGAACATATATG
* * *
34237764 GGATATGGCATTGATATGAGATTTCGTGTAAGACCATA
1 GGATATGGCATAGATATGAGATTTCGTGGAAGAACATA
34237802 GCTGGGCTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.03
42 33 0.97
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.30
Consensus pattern (42 bp):
GGATATGGCATAGATATGAGATTTCGTGGAAGAACATATATG
Found at i:34245055 original size:16 final size:16
Alignment explanation
Indices: 34245034--34245065 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34245024 GTCAATAAGT
34245034 AAAGGCCAAACACCAA
1 AAAGGCCAAACACCAA
34245050 AAAGGCCAAACACCAA
1 AAAGGCCAAACACCAA
34245066 GTACCTTCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.31, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAGGCCAAACACCAA
Found at i:34245714 original size:125 final size:125
Alignment explanation
Indices: 34245492--34245746 Score: 465
Period size: 125 Copynumber: 2.0 Consensus size: 125
34245482 CTTTAGTCGA
** *
34245492 ATTTGCTTAGAATAGCAGTTTTCAGTCGAGTATAAAGATCGCACCGTACAAGGCATTCTATGGTC
1 ATTTGCTTAGAATAAAAGTTTTCAGTCGAGTATAAAGATCGCACCATACAAGGCATTCTATGGTC
*
34245557 GCAAGTGTCAAACTCTATTGTACTAGACCGAGCTTAGTGGGAGACAAAATCACGGGGTTG
66 GCAAGTGTCAAACTCTATTGTACTAGACCGAGCTCAGTGGGAGACAAAATCACGGGGTTG
34245617 ATTTGCTTAGAATAAAAGTTTTCAGTCGAGTATAAAGATCGCACCATACAAGGCATTCTATGGTC
1 ATTTGCTTAGAATAAAAGTTTTCAGTCGAGTATAAAGATCGCACCATACAAGGCATTCTATGGTC
*
34245682 GCAAGTGTCAAACTCTATTGTACTAGACCGAGCTCAGTGGGAGACAAATTCACGGGGTTG
66 GCAAGTGTCAAACTCTATTGTACTAGACCGAGCTCAGTGGGAGACAAAATCACGGGGTTG
34245742 ATTTG
1 ATTTG
34245747 GTTAAAGAAA
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (125 bp):
ATTTGCTTAGAATAAAAGTTTTCAGTCGAGTATAAAGATCGCACCATACAAGGCATTCTATGGTC
GCAAGTGTCAAACTCTATTGTACTAGACCGAGCTCAGTGGGAGACAAAATCACGGGGTTG
Found at i:34250384 original size:79 final size:81
Alignment explanation
Indices: 34250242--34250424 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
34250232 TACTCGTTCA
* * *
34250242 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
* *
34250306 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* **
34250322 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-AGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
* *
34250384 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
34250401 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
34250425 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 58 0.66
80 28 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:34250424 original size:40 final size:40
Alignment explanation
Indices: 34250221--34250424 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
34250211 CGGAATTTAA
** *
34250221 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34250261 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34250301 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
34250340 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-AGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
34250380 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34250420 CCGGA
1 CCGGA
34250425 CATCATTCGA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.23
40 93 0.68
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34251621 original size:56 final size:56
Alignment explanation
Indices: 34251554--34251673 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
34251544 TATTAGTTTA
34251554 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
34251610 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
34251666 TTGCCCAT
1 TTGCCCAT
34251674 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:34257044 original size:49 final size:49
Alignment explanation
Indices: 34256988--34257114 Score: 175
Period size: 49 Copynumber: 2.6 Consensus size: 49
34256978 TGTTGTGTGT
* *
34256988 CAGTGTAAGACCTATCTAGGACATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * *
34257037 CAGTGTAAGACCTATTTGGGACATGGCATCGACCTCGATATATGAAAGT
1 CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGC
* *
34257086 CAGTGTAAGACCTGTCTGGGACACGGCAT
1 CAGTGTAAGACCTATCTGGGACATGGCAT
34257115 TGACTTTAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 1 0.01
49 68 0.99
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:34257245 original size:136 final size:135
Alignment explanation
Indices: 34257069--34257328 Score: 405
Period size: 136 Copynumber: 1.9 Consensus size: 135
34257059 ATGGCATCGA
* * *
34257069 CCTCGATATATGAAAGTCAGTGTAAGACCTGTCTGGGACACGGCATTGACTTTAATGTGCTAG-C
1 CCTCGATATATGAAAGTCACTGTAAGACCAGTCTGGGACACGGCATCGACTTTAATGTGCTAGAC
* * * *
34257133 AAGTGTTAGACCATGTCTGGGACATGGCGTCGGCATTTTATCCCATGTTCGGGGCTATTGAGTAT
66 -AGTG-TAAACCATGTCTGGGACATGGCGTCAGCATTTTAACCCATGTTCAGGGCTATTGAGTAT
34257198 GCATTGG
129 GCATTGG
* *
34257205 CCTCGATATATGAAAGTCACTGTATGACCAGTCTGGGACACTGCATCGACTTTAATGTGCTAGAC
1 CCTCGATATATGAAAGTCACTGTAAGACCAGTCTGGGACACGGCATCGACTTTAATGTGCTAGAC
*
34257270 AGTGTAAACCATGTCTGGGACATGGTGTCAGCATTTTAACCCATGTTCAGGGCTATTGA
66 AGTGTAAACCATGTCTGGGACATGGCGTCAGCATTTTAACCCATGTTCAGGGCTATTGA
34257329 ATATTCGGTA
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
135 50 0.44
136 62 0.55
137 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (135 bp):
CCTCGATATATGAAAGTCACTGTAAGACCAGTCTGGGACACGGCATCGACTTTAATGTGCTAGAC
AGTGTAAACCATGTCTGGGACATGGCGTCAGCATTTTAACCCATGTTCAGGGCTATTGAGTATGC
ATTGG
Found at i:34258471 original size:21 final size:20
Alignment explanation
Indices: 34258438--34258476 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
34258428 TCATAATGGA
*
34258438 CACATGGGCGTGTTGCCCTTC
1 CACACGGGCGTG-TGCCCTTC
*
34258459 CACACGGGTGTGTGCCCT
1 CACACGGGCGTGTGCCCT
34258477 GCTTCAAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.10, C:0.33, G:0.31, T:0.26
Consensus pattern (20 bp):
CACACGGGCGTGTGCCCTTC
Found at i:34260057 original size:27 final size:27
Alignment explanation
Indices: 34260027--34260141 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 27
34260017 AGGGCAAAAT
* * *
34260027 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
34260054 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34260081 AGTAATTCTAACCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
34260108 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
34260135 GGTAATT
1 GGTAATT
34260142 TCACAAATCA
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:34260156 original size:27 final size:27
Alignment explanation
Indices: 34260126--34260302 Score: 123
Period size: 27 Copynumber: 6.6 Consensus size: 27
34260116 TACCCTACAA
*
34260126 GGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTCGGTAATTTTACAAATCAG
* ** * *
34260153 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTACAAATCAG
* *
34260180 TGGTATTTTGGTAATTTTACAAATC-G
1 GGGTATTTCGGTAATTTTACAAATCAG
*
34260206 AGGGTATTTCAGTAATTTTAC-AATC-G
1 -GGGTATTTCGGTAATTTTACAAATCAG
* * * * * *
34260232 AAGGTATTTCAGTAACTTTATAAACCGG
1 -GGGTATTTCGGTAATTTTACAAATCAG
*
34260260 GGGTACTTT-GATAATTTTAC-AA-CGAG
1 GGGTA-TTTCGGTAATTTTACAAATC-AG
*
34260286 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
34260303 GGTAAACTAA
Statistics
Matches: 118, Mismatches: 26, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
25 4 0.03
26 37 0.31
27 73 0.62
28 4 0.03
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCAG
Found at i:34260168 original size:54 final size:54
Alignment explanation
Indices: 34260041--34260168 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
34260031 ATTTTACCCC
* * * * **
34260041 ACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTAACCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAACAA
* * *
34260095 ACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGGTAATT-TCACAA
1 ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAACAA
* *
34260148 ATCAGGGGTATTTTGGTAATT
1 A-CAAGGGTATTTCGGTAATT
34260169 TTGTAAACCA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 4 0.07
54 57 0.93
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (54 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAACAA
Found at i:34260195 original size:81 final size:80
Alignment explanation
Indices: 34260026--34260195 Score: 175
Period size: 81 Copynumber: 2.1 Consensus size: 80
34260016 AAGGGCAAAA
* **
34260026 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTA
1 TGGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCAAATAGGGGTATTTTAGTAATTCTA
*
34260091 ACCTACAAGGGTATTT
66 AAC-ACAAGGGTATTT
* * * * *
34260107 CGATAATTCTACCCTACAAGGGTATTTCGGTAATT-T-CACAAATCAGGGGTATTTTGGTAATTT
1 TGGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTAC-CAAAT-AGGGGTATTTTAGTAA--T
* *
34260170 TGTAAAC-CAATGGTATTT
62 TCTAAACACAAGGGTATTT
34260188 TGGTAATT
1 TGGTAATT
34260196 TTACAAATCG
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
79 1 0.01
80 4 0.06
81 61 0.85
83 6 0.08
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (80 bp):
TGGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCAAATAGGGGTATTTTAGTAATTCTA
AACACAAGGGTATTT
Found at i:34260237 original size:26 final size:26
Alignment explanation
Indices: 34260181--34260302 Score: 124
Period size: 26 Copynumber: 4.6 Consensus size: 26
34260171 GTAAACCAAT
**
34260181 GGTATTTTGGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTAC-AATCGAG
*
34260208 GGTATTTCAGTAATTTTACAATCGAA
1 GGTATTTCAGTAATTTTACAATCGAG
* *
34260234 GGTATTTCAGTAACTTTATA-AACCGGG
1 GGTATTTCAGTAA-TTT-TACAATCGAG
*
34260261 GGTACTTTGA-TAATTTTACAA-CGAGG
1 GGTA-TTTCAGTAATTTTACAATCGA-G
34260287 GGTATTTCAGTAATTT
1 GGTATTTCAGTAATTT
34260303 GGTAAACTAA
Statistics
Matches: 80, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
25 8 0.10
26 35 0.44
27 31 0.39
28 6 0.08
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (26 bp):
GGTATTTCAGTAATTTTACAATCGAG
Found at i:34266749 original size:28 final size:27
Alignment explanation
Indices: 34266692--34266843 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
34266682 TAAATTGTGC
* *
34266692 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
34266719 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
34266747 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
34266774 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
34266802 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
34266829 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34266844 GACTTAATAA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:34266757 original size:55 final size:55
Alignment explanation
Indices: 34266692--34266843 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
34266682 TAAATTGTGC
* *
34266692 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
34266747 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
34266802 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
34266844 GACTTAATAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:34270854 original size:21 final size:20
Alignment explanation
Indices: 34270830--34270868 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
34270820 TCATAATGGC
*
34270830 CACACGAGTGTGTTGCCCTTT
1 CACACGAGCGTG-TGCCCTTT
*
34270851 CACATGAGCGTGTGCCCT
1 CACACGAGCGTGTGCCCT
34270869 GCTTCAAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.15, C:0.31, G:0.26, T:0.28
Consensus pattern (20 bp):
CACACGAGCGTGTGCCCTTT
Found at i:34273270 original size:35 final size:35
Alignment explanation
Indices: 34273224--34273292 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
34273214 TACCAAAGAG
*
34273224 TTCTGAACTTATTCAGAAAATTCTACATGAAGCAA
1 TTCTGAACTTATTCAGAAAATTCTACACGAAGCAA
*
34273259 TTCTGAACTTATTCAGAAAATTCTATACGAAGCA
1 TTCTGAACTTATTCAGAAAATTCTACACGAAGCA
34273293 CACAATGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (35 bp):
TTCTGAACTTATTCAGAAAATTCTACACGAAGCAA
Found at i:34275537 original size:46 final size:45
Alignment explanation
Indices: 34275470--34275636 Score: 149
Period size: 46 Copynumber: 3.6 Consensus size: 45
34275460 TATGTGTGCT
*
34275470 AGTGTAATACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATGAGAGCC
* * *
34275516 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT-ATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGA---GAGCC
* * * * * * *
34275564 AATGTAAGCCATGTTTGGGACATGCATCAG-CATTGAGACGAGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA--CAGATGAGAGCC
*
34275610 AGTGTAAGACATGTCTAGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
34275637 AGGCCTTGCG
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
45 1 0.01
46 58 0.60
47 3 0.03
48 33 0.34
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGAGAGCC
Found at i:34275619 original size:94 final size:95
Alignment explanation
Indices: 34275516--34275687 Score: 240
Period size: 94 Copynumber: 1.8 Consensus size: 95
34275506 CATGAGAGCC
* * ** *
34275516 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTTAAGCCAATGTAAG-CCATGTTT
1 AGTGTAAGACATGTCTAGGACATGCATAGGCCTCGAGATATACAAGCCAATGTAAGACC-TGTCT
34275580 GGGACAT-GCATCAGCATTGAGACGAGTGCT
65 GGGACATGGCATCAGCATTGAGACGAGTGCT
* * * *
34275610 AGTGTAAGACATGTCTAGGACATGCATAGGCCTTGCGATATACAAGCTAGTGTAAGACCTGTCTG
1 AGTGTAAGACATGTCTAGGACATGCATAGGCCTCGAGATATACAAGCCAATGTAAGACCTGTCTG
34275675 GGACATGGCATCA
66 GGACATGGCATCA
34275688 ACTTGTGGTA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
94 59 0.88
95 8 0.12
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (95 bp):
AGTGTAAGACATGTCTAGGACATGCATAGGCCTCGAGATATACAAGCCAATGTAAGACCTGTCTG
GGACATGGCATCAGCATTGAGACGAGTGCT
Found at i:34276196 original size:23 final size:23
Alignment explanation
Indices: 34276170--34276214 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
34276160 AGGAATTTCG
34276170 GCTGGACAAGGGAGAAGAATGGA
1 GCTGGACAAGGGAGAAGAATGGA
*
34276193 GCTGGACAGGGGAGAAGAATGG
1 GCTGGACAAGGGAGAAGAATGG
34276215 CTGATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.47, T:0.09
Consensus pattern (23 bp):
GCTGGACAAGGGAGAAGAATGGA
Found at i:34294148 original size:441 final size:441
Alignment explanation
Indices: 34293326--34294206 Score: 1744
Period size: 441 Copynumber: 2.0 Consensus size: 441
34293316 GATTTAAGAC
* *
34293326 CCGATGACTATATGTGGTGACTATGTCCGGGTTAAGACCCGCTGACTTCGTGTGGAGATTTCATC
1 CCGATGACTATATGTGGTGACTATGTCCGGCTTAAGACCCGCTGACTTCGTCTGGAGATTTCATC
34293391 TGAGCTAAAGGTCTCGCCGATAATCCGAGTAGAGTTTAAAGCTATAAGACTTCACAATAAGAATT
66 TGAGCTAAAGGTCTCGCCGATAATCCGAGTAGAGTTTAAAGCTATAAGACTTCACAATAAGAATT
34293456 GCTTATAAATATATTCAATGCGAAAGGTTAAACAGGTGTGTACTCCGAGTTTATATGTGAGCTTG
131 GCTTATAAATATATTCAATGCGAAAGGTTAAACAGGTGTGTACTCCGAGTTTATATGTGAGCTTG
34293521 ATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGACTATTCCTAT
196 ATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGACTATTCCTAT
34293586 GATTATGTGGCATCGGATTAGTGTGAAAGGTTATGTGAAATTATACAGTATATCTATGTTACATG
261 GATTATGTGGCATCGGATTAGTGTGAAAGGTTATGTGAAATTATACAGTATATCTATGTTACATG
34293651 AGCTCACTTTTATGTGAAAGTTTATCTGGCTATTATATATGATGAGATGTGCATATTCGATAAAG
326 AGCTCACTTTTATGTGAAAGTTTATCTGGCTATTATATATGATGAGATGTGCATATTCGATAAAG
34293716 GGATGATATACCCAAAGGAAGAGTGAAATAAAAATACGAACAACCATGTTT
391 GGATGATATACCCAAAGGAAGAGTGAAATAAAAATACGAACAACCATGTTT
34293767 CCGATGACTATATGTGGTGACTATGTCCGGCTTAAGACCCGCTGACTTCGTCTGGAGATTTCATC
1 CCGATGACTATATGTGGTGACTATGTCCGGCTTAAGACCCGCTGACTTCGTCTGGAGATTTCATC
34293832 TGAGCTAAAGGTCTCGCCGATAATCCGAGTAGAGTTTAAAGCTATAAGACTTCACAATAAGAATT
66 TGAGCTAAAGGTCTCGCCGATAATCCGAGTAGAGTTTAAAGCTATAAGACTTCACAATAAGAATT
34293897 GCTTATAAATATATTCAATGCGAAAGGTTAAACAGGTGTGTACTCCGAGTTTATATGTGAGCTTG
131 GCTTATAAATATATTCAATGCGAAAGGTTAAACAGGTGTGTACTCCGAGTTTATATGTGAGCTTG
34293962 ATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGACTATTCCTAT
196 ATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGACTATTCCTAT
34294027 GATTATGTGGCATCGGATTAGTGTGAAAGGTTATGTGAAATTATACAGTATATCTATGTTACATG
261 GATTATGTGGCATCGGATTAGTGTGAAAGGTTATGTGAAATTATACAGTATATCTATGTTACATG
34294092 AGCTCACTTTTATGTGAAAGTTTATCTGGCTATTATATATGATGAGATGTGCATATTCGATAAAG
326 AGCTCACTTTTATGTGAAAGTTTATCTGGCTATTATATATGATGAGATGTGCATATTCGATAAAG
34294157 GGATGATATACCCAAAGGAAGAGTGAAATAAAAATACGAACAACCATGTT
391 GGATGATATACCCAAAGGAAGAGTGAAATAAAAATACGAACAACCATGTT
34294207 ATAATTTGAT
Statistics
Matches: 438, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
441 438 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (441 bp):
CCGATGACTATATGTGGTGACTATGTCCGGCTTAAGACCCGCTGACTTCGTCTGGAGATTTCATC
TGAGCTAAAGGTCTCGCCGATAATCCGAGTAGAGTTTAAAGCTATAAGACTTCACAATAAGAATT
GCTTATAAATATATTCAATGCGAAAGGTTAAACAGGTGTGTACTCCGAGTTTATATGTGAGCTTG
ATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGACTATTCCTAT
GATTATGTGGCATCGGATTAGTGTGAAAGGTTATGTGAAATTATACAGTATATCTATGTTACATG
AGCTCACTTTTATGTGAAAGTTTATCTGGCTATTATATATGATGAGATGTGCATATTCGATAAAG
GGATGATATACCCAAAGGAAGAGTGAAATAAAAATACGAACAACCATGTTT
Found at i:34306600 original size:46 final size:48
Alignment explanation
Indices: 34306532--34306652 Score: 165
Period size: 46 Copynumber: 2.6 Consensus size: 48
34306522 TGATATGTGT
* *
34306532 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACA-AGAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACATACAA
* * *
34306579 -CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACATACAA
* *
34306626 GCTAGTGTAAGACCTGTTTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
34306653 GCGTCAACTT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
46 38 0.58
47 3 0.05
48 24 0.37
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACATACAA
Found at i:34306779 original size:49 final size:48
Alignment explanation
Indices: 34306581--34306797 Score: 153
Period size: 49 Copynumber: 4.5 Consensus size: 48
34306571 GACAAGAACT
* * *
34306581 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGCGATAT-ACAAGC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGTGATATGA-AAGC
* * * * * * *
34306628 TAGTGTAAGACCTGTTTGGGACATGGCGTC-AACTTGTGGTGTG---TC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGTGATATGAAAGC
* * *
34306673 AGTGTAAGACCTGTCTGGGACATGGCATCTACACT-GAT-AGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCG-TGATATGAAAG-C
* * * *
34306722 AGTCTAAGACCTGTATGGGACATGGCATCGGCCTCGTTATATGAAAGC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGTGATATGAAAGC
*
34306770 AAGTGTAAGACCATGTCTAGGACATGGC
1 -AGTGTAAGACC-TGTCTGGGACATGGC
34306798 GTCAGCATCT
Statistics
Matches: 130, Mismatches: 26, Indels: 24
0.72 0.14 0.13
Matches are distributed among these distances:
44 27 0.21
45 5 0.04
46 3 0.02
48 31 0.24
49 51 0.39
50 13 0.10
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGTGATATGAAAGC
Found at i:34322706 original size:46 final size:47
Alignment explanation
Indices: 34322493--34322706 Score: 192
Period size: 46 Copynumber: 4.7 Consensus size: 47
34322483 TGCAGATGCC
*
34322493 ATGTCCTAGACATGGTCTTACACT-G-ACACATTTTGTA-GCCGATGA
1 ATGTCCCAGACAT-GTCTTACACTAGCACACATTTTGTAGGCCGATGA
** * * * *
34322538 ATGTCCCAGACATGTCTTACACTAGCTTACATCTCG-AGGCTGATGC
1 ATGTCCCAGACATGTCTTACACTAGCACACATTTTGTAGGCCGATGA
* * * * * * ** * *
34322584 ATGTCCCAAACATGTCTTCCACTAGCTCTC-GTCTCAATGCCGATGTC
1 ATGTCCCAGACATGTCTTACACTAGCACACATTTTGTAGGCCGATG-A
34322631 ATGTCCCAGACATGGTCTTACACT-G-ACACATTTTGTA-GCCGATGA
1 ATGTCCCAGACAT-GTCTTACACTAGCACACATTTTGTAGGCCGATGA
34322676 ATGTCCCAGACATGTCTTACACTAGCACACA
1 ATGTCCCAGACATGTCTTACACTAGCACACA
34322707 AATGACCCAA
Statistics
Matches: 133, Mismatches: 27, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
44 20 0.15
45 28 0.21
46 59 0.44
47 17 0.13
48 9 0.07
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
ATGTCCCAGACATGTCTTACACTAGCACACATTTTGTAGGCCGATGA
Found at i:34327082 original size:46 final size:45
Alignment explanation
Indices: 34327017--34327140 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 45
34327007 ATCTCGAGGC
*
34327017 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAA-T-GA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AAGTGGA
* *
34327063 CGATGCATGTCCTAGACATGTCTTACACTGGCTCTCATAATGTGGA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAA-GTGGA
*
34327109 TGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
34327141 ACACATATCA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
43 2 0.03
44 1 0.01
45 1 0.01
46 65 0.94
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGGA
Found at i:34342499 original size:24 final size:24
Alignment explanation
Indices: 34342467--34342516 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
34342457 ATCATAAATA
34342467 TATTTTTTAATTTATTAAATAATG
1 TATTTTTTAATTTATTAAATAATG
* *
34342491 TATTTTTTATTTTATTAATTAATG
1 TATTTTTTAATTTATTAAATAATG
34342515 TA
1 TA
34342517 AAATAAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
TATTTTTTAATTTATTAAATAATG
Found at i:34345519 original size:55 final size:55
Alignment explanation
Indices: 34345442--34345551 Score: 139
Period size: 55 Copynumber: 2.0 Consensus size: 55
34345432 AAAATTCAAC
** * * * * * * *
34345442 AAATTTGGCGTTCAATATTTACAAAATTTTTCATTTTAGTTTTAATTCTAAAAAT
1 AAATTTGGCCCTCAATAATTACAAAATCTATCAATTTAATCTTAACTCTAAAAAT
34345497 AAATTTGGCCCTCAATAATTACAAAATCTATCAATTTAATCTTAACTCTAAAAAT
1 AAATTTGGCCCTCAATAATTACAAAATCTATCAATTTAATCTTAACTCTAAAAAT
34345552 TTAAAAATAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (55 bp):
AAATTTGGCCCTCAATAATTACAAAATCTATCAATTTAATCTTAACTCTAAAAAT
Found at i:34350229 original size:7 final size:6
Alignment explanation
Indices: 34350190--34350240 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
34350180 AAGTATTAGG
* * * *
34350190 AAAATA CAAATA AACAGA AAAAT- AAAATA AAAACTA AAAATG AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAATA AAAATA
34350238 AAA
1 AAA
34350241 GGAATTGACT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
5 5 0.14
6 24 0.69
7 6 0.17
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:34360677 original size:23 final size:23
Alignment explanation
Indices: 34360645--34360690 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
34360635 GCATGACGAT
*
34360645 GGTAGTTGACCTAGGGTTAAGGA
1 GGTAGCTGACCTAGGGTTAAGGA
*
34360668 GGTAGCTGACTTAGGGTTAAGGA
1 GGTAGCTGACCTAGGGTTAAGGA
34360691 TGACAATCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.09, G:0.39, T:0.26
Consensus pattern (23 bp):
GGTAGCTGACCTAGGGTTAAGGA
Found at i:34364930 original size:62 final size:62
Alignment explanation
Indices: 34364864--34364986 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 62
34364854 GAGACTCATT
34364864 GGATATTGTTTCGAAGAATTGAGAAAGATTGGTTTGTACTAATTTTCATCCAATTGGTTTGG
1 GGATATTGTTTCGAAGAATTGAGAAAGATTGGTTTGTACTAATTTTCATCCAATTGGTTTGG
*
34364926 GGATATTGTTTCGAAGAATTGAGAAAGATTGGTTTGTACTAATTTTCATCTAATTGGTTTG
1 GGATATTGTTTCGAAGAATTGAGAAAGATTGGTTTGTACTAATTTTCATCCAATTGGTTTG
34364987 TACTAATTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (62 bp):
GGATATTGTTTCGAAGAATTGAGAAAGATTGGTTTGTACTAATTTTCATCCAATTGGTTTGG
Found at i:34364984 original size:25 final size:25
Alignment explanation
Indices: 34364953--34365003 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
34364943 ATTGAGAAAG
34364953 ATTGGTTTGTACTAATTTTCATCTA
1 ATTGGTTTGTACTAATTTTCATCTA
*
34364978 ATTGGTTTGTACTAATTTTCTTCTA
1 ATTGGTTTGTACTAATTTTCATCTA
34365003 A
1 A
34365004 CGCCACCCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (25 bp):
ATTGGTTTGTACTAATTTTCATCTA
Found at i:34368160 original size:30 final size:30
Alignment explanation
Indices: 34368126--34368197 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
34368116 GTTTAGGGGT
*
34368126 AAAATGGTCATTATGTGAAAGTCTAGGGAC
1 AAAATGGTCATTATGTGAAAGTCTAGGGAA
34368156 AAAATGGTCATTATGTGAAAGTCTAGGGAA
1 AAAATGGTCATTATGTGAAAGTCTAGGGAA
34368186 AAAATGGTCATT
1 AAAATGGTCATT
34368198 TTGCCCAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
AAAATGGTCATTATGTGAAAGTCTAGGGAA
Found at i:34368776 original size:48 final size:47
Alignment explanation
Indices: 34368678--34368900 Score: 161
Period size: 48 Copynumber: 4.7 Consensus size: 47
34368668 AAATGTAAGC
* * **
34368678 CAGTGTAAGA-CATGTTTGGGGCAT-GCATCGGCTAC-A-AGATATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG-TACGATAGAGGTGT
34368722 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTACG-ATAGAGGTGT
* * * *
34368770 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGGATATGTGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTAC-GATA-GAG-GTGT
* * * * *** *
34368819 CTAGTGCAAGACCATGTCTGAGACATGGCGTCAGCCT-CGATTTTGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATC-G-GTACGATAGAGGT-GT
* *
34368869 TAATGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
34368901 ACATTACACC
Statistics
Matches: 143, Mismatches: 23, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 7 0.05
47 1 0.01
48 44 0.31
49 33 0.23
50 31 0.22
51 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGATAGAGGTGT
Found at i:34373940 original size:5 final size:5
Alignment explanation
Indices: 34373930--34373982 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
34373920 AATAAACAAA
* *
34373930 AAAAT AAAAT AAAAT AAAAT AAAAACT AAAATTT TAAAT AAAAG AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAA-T AAAA--T AAAAT AAAAT AAAAT
34373979 AAAA
1 AAAA
34373983 GATATGGACT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
5 27 0.68
6 8 0.20
7 5 0.12
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:34373946 original size:22 final size:23
Alignment explanation
Indices: 34373912--34373961 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
34373902 AAGTCTTAGG
34373912 AAAATACAAATAAACA-AAAAAAT
1 AAAATACAAATAAA-ATAAAAAAT
*
34373935 AAAATA-AAATAAAATAAAAACT
1 AAAATACAAATAAAATAAAAAAT
34373957 AAAAT
1 AAAAT
34373962 TTTAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (23 bp):
AAAATACAAATAAAATAAAAAAT
Found at i:34375497 original size:16 final size:17
Alignment explanation
Indices: 34375476--34375508 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
34375466 TTAGCCAAGC
34375476 AATAATAAACAA-AAGT
1 AATAATAAACAATAAGT
34375492 AATAATAAACAATAAGT
1 AATAATAAACAATAAGT
34375509 TAGCAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (17 bp):
AATAATAAACAATAAGT
Found at i:34375585 original size:17 final size:19
Alignment explanation
Indices: 34375541--34375598 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 19
34375531 AGAAAACAAA
*
34375541 AATAAAGAAATAGTAAAAT
1 AATAAATAAATAGTAAAAT
* *
34375560 AAGATATAAAT-G-AAAAT
1 AATAAATAAATAGTAAAAT
*
34375577 AATAAATAAATAATACAAAT
1 AATAAATAAATAGTA-AAAT
34375597 AA
1 AA
34375599 AGAATAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 9 0.30
20 6 0.20
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (19 bp):
AATAAATAAATAGTAAAAT
Found at i:34377604 original size:25 final size:27
Alignment explanation
Indices: 34377556--34377605 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
34377546 GGATCAGCCA
34377556 AGCAATAAAAAAAATAAACAATAAGTC
1 AGCAATAAAAAAAATAAACAATAAGTC
*
34377583 AGCAATAAAAATAA-AAAC-ATAAG
1 AGCAATAAAAAAAATAAACAATAAG
34377606 AAAACAGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 4 0.18
27 13 0.59
ACGTcount: A:0.68, C:0.10, G:0.08, T:0.14
Consensus pattern (27 bp):
AGCAATAAAAAAAATAAACAATAAGTC
Found at i:34377670 original size:16 final size:16
Alignment explanation
Indices: 34377628--34377661 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
34377618 AAGAAATGGT
*
34377628 AAAATAAGAAGTAAATA
1 AAAATAATAA-TAAATA
34377645 AAAATAATAATAAATA
1 AAAATAATAATAAATA
34377661 A
1 A
34377662 TACTAATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAATAATAATAAATA
Found at i:34380003 original size:53 final size:53
Alignment explanation
Indices: 34379959--34380404 Score: 446
Period size: 53 Copynumber: 8.4 Consensus size: 53
34379949 CATGTCGTGA
* *
34379959 CATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATGAACTCATCAATGCCATGCCTTGG
* * * * **
34380012 CATGGTCTTACATGGGA-CCTTTTCCTTACAGTAACTCATCAATGCCATGTCTTAA
1 CATGGTCTTACATGGTATCC-TTGCCTTA-TG-AACTCATCAATGCCATGCCTTGG
* * *
34380067 CATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCATCAATGCCATGCCTTGG
* * ***
34380121 CATGGTCTTACATGATATCCTTGTC-T-T--AC-CA--AATGCCATGTTCC-AAA
1 CATGGTCTTACATGGTATCCTTGCCTTATGAACTCATCAATGCCATG--CCTTGG
*
34380168 CATGGTCTTACATGGTATCCTTGTCTTATGAACTCAAT-AATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATGAACTC-ATCAATGCCATGCCTTGG
* *
34380221 CATGGTCTTACATGGTATCCTTGTCTTATGAACTCAACAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATGAACTCATCAATGCCATGCCTTGG
* * * * *
34380274 CATGGTCTTACATGG-AACCTTTTCGTTATAGTAACTCATCAATGCCATGTCTTGA
1 CATGGTCTTACATGGTATCC-TTGCCTTAT-G-AACTCATCAATGCCATGCCTTGG
* * * * *
34380329 CATGGTCTTACATGATTTCTTTGCCTTATAGAACTTATCAATGGCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCATCAATGCCATGCCTTGG
*
34380383 CATGGTCTTACATGATATCCTT
1 CATGGTCTTACATGGTATCCTT
34380405 ATCTTAGTGC
Statistics
Matches: 326, Mismatches: 47, Indels: 39
0.79 0.11 0.09
Matches are distributed among these distances:
46 9 0.03
47 24 0.07
48 4 0.01
49 3 0.01
51 2 0.01
52 10 0.03
53 95 0.29
54 92 0.28
55 84 0.26
56 3 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
CATGGTCTTACATGGTATCCTTGCCTTATGAACTCATCAATGCCATGCCTTGG
Found at i:34380225 original size:100 final size:100
Alignment explanation
Indices: 34380052--34380344 Score: 299
Period size: 100 Copynumber: 2.9 Consensus size: 100
34380042 GTAACTCATC
** * *
34380052 AATGCCATGTCTTAACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCC
1 AATGCCATGTCCAAACATGGTCTTACATGATATCCTTGCCTTATAGAACTAATCAATGCCATGCC
34380117 TTGGCATGGTCTTACATGATATCCTTGTCTTACCA
66 TTGGCATGGTCTTACATGATATCCTTGTCTTACCA
* *
34380152 AATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTAT-GAACTCAAT-AATGCCATG
1 AATGCCATG-TCCAAACATGGTCTTACATGATATCCTTGCCTTATAGAACT-AATCAATGCCATG
*
34380215 CCTTGGCATGGTCTTACATGGTATCCTTGTCTTATGAACTCAA
64 CCTTGGCATGGTCTTACATGATATCCTTGTC-T-T--AC-C-A
*** * * *
34380258 CAATGCCATG-CCTTGGCATGGTCTTACATGGA-A-CCTTTTCGTTATAGTAACTCATCAATGCC
1 -AATGCCATGTCC-AAACATGGTCTTACAT-GATATCC-TTGCCTTATAG-AACTAATCAATGCC
* *
34380320 ATGTCTTGACATGGTCTTACATGAT
61 ATGCCTTGGCATGGTCTTACATGAT
34380345 TTCTTTGCCT
Statistics
Matches: 160, Mismatches: 18, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
100 53 0.33
101 33 0.21
102 1 0.01
104 2 0.01
105 5 0.03
106 21 0.13
107 13 0.08
108 32 0.20
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (100 bp):
AATGCCATGTCCAAACATGGTCTTACATGATATCCTTGCCTTATAGAACTAATCAATGCCATGCC
TTGGCATGGTCTTACATGATATCCTTGTCTTACCA
Found at i:34380524 original size:45 final size:45
Alignment explanation
Indices: 34380459--34380544 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
34380449 CCTTAATCAA
*
34380459 TACCGATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCT
1 TACCAATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCT
* *
34380504 TACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
1 TACCAATGCCATGTCTTGACATGGTCTTACACGGGATCCTT
34380545 AACCGTCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.34
Consensus pattern (45 bp):
TACCAATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCT
Found at i:34380599 original size:44 final size:44
Alignment explanation
Indices: 34380550--34380633 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
34380540 TCCTTAACCG
* * *
34380550 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCTA
1 TCAATTCCTACTTAAATGCCATGGTA-CAACCATGGACTTTTCTA
* *
34380594 TCAATTCTTACTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTACTTAAATGCCATGGTACAACCATGGACTTT
34380634 GAGATATCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (44 bp):
TCAATTCCTACTTAAATGCCATGGTACAACCATGGACTTTTCTA
Found at i:34381047 original size:24 final size:24
Alignment explanation
Indices: 34381018--34381065 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
34381008 TATTAAACAT
*
34381018 ATGAACTTACCTCGATACCAAAAC
1 ATGAACTTACCCCGATACCAAAAC
*
34381042 ATGAACTTACCCCGATACCCAAAC
1 ATGAACTTACCCCGATACCAAAAC
34381066 GACCATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.33, G:0.08, T:0.19
Consensus pattern (24 bp):
ATGAACTTACCCCGATACCAAAAC
Found at i:34381844 original size:21 final size:21
Alignment explanation
Indices: 34381805--34381846 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
34381795 AAATATAATG
34381805 GTCTAATTACTAAATAAGGAC
1 GTCTAATTACTAAATAAGGAC
34381826 GTCTAATTACTAAATAAGGAC
1 GTCTAATTACTAAATAAGGAC
34381847 CTCCACTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (21 bp):
GTCTAATTACTAAATAAGGAC
Found at i:34382421 original size:21 final size:21
Alignment explanation
Indices: 34382397--34382441 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
34382387 AATTTGTTGG
*
34382397 TAATGTGTTGGTTTTATTGTC
1 TAATGTGTTGGTTTTAGTGTC
34382418 TAATGTGTTGGTTTTAGTGTC
1 TAATGTGTTGGTTTTAGTGTC
34382439 TAA
1 TAA
34382442 CATGTTTGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.04, G:0.24, T:0.53
Consensus pattern (21 bp):
TAATGTGTTGGTTTTAGTGTC
Found at i:34382447 original size:21 final size:21
Alignment explanation
Indices: 34382402--34382447 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
34382392 GTTGGTAATG
* **
34382402 TGTTGGTTTTATTGTCTAATG
1 TGTTGGTTTTAGTGTCTAACA
34382423 TGTTGGTTTTAGTGTCTAACA
1 TGTTGGTTTTAGTGTCTAACA
34382444 TGTT
1 TGTT
34382448 TGAGCATAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.07, G:0.24, T:0.54
Consensus pattern (21 bp):
TGTTGGTTTTAGTGTCTAACA
Found at i:34392080 original size:18 final size:18
Alignment explanation
Indices: 34392059--34392097 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
34392049 TCTCTTTTTA
*
34392059 TTTTTAGCTTTCTTGTTC
1 TTTTTAGATTTCTTGTTC
* *
34392077 TTTTTCGATTTCTTTTTC
1 TTTTTAGATTTCTTGTTC
34392095 TTT
1 TTT
34392098 CATTTTTCTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.05, C:0.15, G:0.08, T:0.72
Consensus pattern (18 bp):
TTTTTAGATTTCTTGTTC
Found at i:34392403 original size:102 final size:102
Alignment explanation
Indices: 34392223--34392407 Score: 289
Period size: 102 Copynumber: 1.8 Consensus size: 102
34392213 GATACAAATG
* * *
34392223 ACTCAGAACGGAAAGACTCTTGTTGGGTATGAATGGAATGAATTACATACCAAAAACGATCCGTT
1 ACTCAGAACAGAAAGACTCTTGTTAGGTATGAATAGAATGAATTACATACCAAAAACGATCCGTT
*
34392288 TGAAACTATGAGACATAGTCTTTCATAACAAACCTCA
66 TGAAACTACGAGACATAGTCTTTCATAACAAACCTCA
* * *
34392325 ACTCAGAATAGAAAGACTCTTGTTAGGTATGAATAGAATGAATTACATACGAAAAATGATCCGTT
1 ACTCAGAACAGAAAGACTCTTGTTAGGTATGAATAGAATGAATTACATACCAAAAACGATCCGTT
* *
34392390 TGAATCTGCGAGACATAG
66 TGAAACTACGAGACATAG
34392408 ACTCTTGTTG
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 74 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (102 bp):
ACTCAGAACAGAAAGACTCTTGTTAGGTATGAATAGAATGAATTACATACCAAAAACGATCCGTT
TGAAACTACGAGACATAGTCTTTCATAACAAACCTCA
Found at i:34393139 original size:18 final size:18
Alignment explanation
Indices: 34393116--34393150 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
34393106 TGGCCCAATT
34393116 CAGTAACAGTAAACAGTG
1 CAGTAACAGTAAACAGTG
34393134 CAGTAACAGTAAACAGT
1 CAGTAACAGTAAACAGT
34393151 ATGCAAGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAAACAGTG
Found at i:34397298 original size:27 final size:27
Alignment explanation
Indices: 34397222--34397299 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
34397212 AAACATACAT
* * *
34397222 CACATAAGGCCAAAACAGTCATCTGAG
1 CACATAAGGGCAAAACAGTCATTTGAC
* * * *
34397249 CATATAAGGGCAATATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTGAC
34397276 CACATAAGGGCAAAACAGTCATTT
1 CACATAAGGGCAAAACAGTCATTT
34397300 CATCAAATTG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTGAC
Found at i:34397442 original size:17 final size:17
Alignment explanation
Indices: 34397409--34397446 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
34397399 AAGCCTATAA
34397409 CACAGCCCATGTGGGCC
1 CACAGCCCATGTGGGCC
*
34397426 CACATGCCCGTGT-GGCC
1 CACA-GCCCATGTGGGCC
34397443 CACA
1 CACA
34397447 AAGCCCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.18, C:0.42, G:0.26, T:0.13
Consensus pattern (17 bp):
CACAGCCCATGTGGGCC
Found at i:34397452 original size:18 final size:18
Alignment explanation
Indices: 34397412--34397453 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
34397402 CCTATAACAC
34397412 AGCCCATGTGGGCCCACA
1 AGCCCATGTGGGCCCACA
* *
34397430 TGCCCGTGT-GGCCCACAA
1 AGCCCATGTGGGCCCAC-A
34397448 AGCCCA
1 AGCCCA
34397454 AAAGTGGCCT
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.21, C:0.40, G:0.26, T:0.12
Consensus pattern (18 bp):
AGCCCATGTGGGCCCACA
Found at i:34399076 original size:13 final size:13
Alignment explanation
Indices: 34399058--34399085 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34399048 TTTGCACCTG
34399058 CCCAGACTTGAAC
1 CCCAGACTTGAAC
34399071 CCCAGACTTGAAC
1 CCCAGACTTGAAC
34399084 CC
1 CC
34399086 ATATTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.43, G:0.14, T:0.14
Consensus pattern (13 bp):
CCCAGACTTGAAC
Found at i:34402545 original size:104 final size:104
Alignment explanation
Indices: 34402423--34402646 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
34402413 AATGGATATC
34402423 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
34402488 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
34402527 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
34402592 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
34402631 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
34402647 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:34403008 original size:29 final size:29
Alignment explanation
Indices: 34402975--34403038 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
34402965 TAATCCACCA
34402975 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
34403004 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
34403034 CCCAA
1 CCCAA
34403039 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:34403012 original size:30 final size:30
Alignment explanation
Indices: 34402982--34403038 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
34402972 CCACCCAACT
34402982 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
34403011 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
34403039 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:34409065 original size:40 final size:40
Alignment explanation
Indices: 34409034--34409124 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
34409024 GGACTAAGAT
* *
34409034 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
34409074 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
34409114 CCGAAGGCATT
1 CCGAAGGCATT
34409125 GTATGAGTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 2 0.04
40 46 0.96
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
Found at i:34409145 original size:39 final size:40
Alignment explanation
Indices: 34409034--34409161 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
34409024 GGACTAAGAT
* * * * *
34409034 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTCGTACGAGTTCTAAAATCCGGGTTAAGTC
* *
34409074 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTACGAGTTCTAAAATCCGGGTTAAGTC
* * * *
34409114 CCGAAGGCATT-GTATGAGTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTCGTACGAGTT-CTAAAATCCGGGTTAAGTC
34409153 CCGAAGGCA
1 CCGAAGGCA
34409162 CTTGAACGAG
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 26 0.34
40 51 0.66
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTACGAGTTCTAAAATCCGGGTTAAGTC
Found at i:34416936 original size:40 final size:39
Alignment explanation
Indices: 34416905--34417114 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
34416895 GGACTAAGAT
* *
34416905 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
34416945 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
34416985 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
34417025 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
34417065 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
34417104 CCGAAGGCATT
1 CCGAAGGCATT
34417115 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:34417068 original size:120 final size:120
Alignment explanation
Indices: 34416852--34417114 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
34416842 TTGAATGCTG
* *
34416852 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
34416916 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
34416972 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
34417035 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
34417091 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
34417115 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:34417134 original size:79 final size:80
Alignment explanation
Indices: 34416853--34417149 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
34416843 TGAATGCTGT
* ** * * * **
34416853 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
34416916 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
34416933 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
34416997 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
34417013 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
34417077 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
34417092 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
34417150 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:34422356 original size:47 final size:45
Alignment explanation
Indices: 34422288--34422647 Score: 173
Period size: 47 Copynumber: 7.6 Consensus size: 45
34422278 TTTGTGTGCT
34422288 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAGAGCC
* *
34422334 AGTGTAAGTACATGTCTGGGACATGGCATTGG--CATTGAGGTGAGAGCA
1 AGTGTAAG-ACATGTCTGGGACAT-GCATCGGCCCATT-A--TGAGAGCC
* * * *
34422382 AGTGTAAGACATGTTTGGAACATGCATCAGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-C-ATTATG-AGAGCC
* * * ** * *
34422428 AGTGTAAGACATGTCTTGGACATGCATCAG-CTACGA-GATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGA-GAGCC
* ** * *
34422472 AGTGTAAGACCATGTCTGGGACATGGCATCGATACAGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG--GCCCAT-TATGAGAGCC
* * * * *
34422522 AGTGTAAGACCATGTTTGGTACATGGCATCGGCCTTGATT-TCGATAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCC--CATTAT-GAGAGCC
* * *
34422571 AATGTAAGACCATGTCTGGGACATAGCATC-G-AC-TTGATGGATGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-AT-GA-GAGCC
34422618 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
34422648 AGCACTATAC
Statistics
Matches: 244, Mismatches: 44, Indels: 51
0.72 0.13 0.15
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 15 0.06
45 18 0.07
46 54 0.22
47 59 0.24
48 25 0.10
49 33 0.14
50 35 0.14
51 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAGAGCC
Found at i:34422438 original size:46 final size:46
Alignment explanation
Indices: 34422288--34422650 Score: 215
Period size: 46 Copynumber: 7.7 Consensus size: 46
34422278 TTTGTGTGCT
* * *
34422288 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGAGAGCC
** * * * *
34422334 AGTGTAAGTACATGTCTGGGACATGGCATTGGCATTGAGGTGAGAGCA
1 AGTGTAAG-ACATGTCTGGGACAT-GCATCAGCCTCGAGATGAGAGCC
* *
34422382 AGTGTAAGACATGTTTGGAACATGCATCAGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATG-AGAGCC
* * *
34422428 AGTGTAAGACATGTCTTGGACATGCATCAG-CTACGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGATGAGAGCC
* * *
34422472 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ATACAGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCT-C-GAGA--TGAGAGCC
* * * * ** * *
34422522 AGTGTAAGACCATGTTTGGTACATGGCATCGGCCTTGATTTCGATAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGAT-GAGAGCC
* * * *
34422571 AATGTAAGACCATGTCTGGGACATAGCATC-GACT--TGATGGATGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGAT-GA-GAGCC
34422618 AGTGTAAGACCATGTCTGGGACATGGCATCAGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC
34422651 ACTATACCGT
Statistics
Matches: 250, Mismatches: 49, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
44 11 0.04
45 19 0.08
46 67 0.27
47 59 0.24
48 28 0.11
49 31 0.12
50 33 0.13
51 1 0.00
52 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGAGAGCC
Found at i:34428419 original size:42 final size:42
Alignment explanation
Indices: 34428366--34428490 Score: 157
Period size: 42 Copynumber: 3.0 Consensus size: 42
34428356 ACCGGGATGT
34428366 GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
1 GATTT-GTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
* **
34428409 GATTTGTGTAAGACCATGTTTGGGACATTGGTGTCGATATGA
1 GATTTGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
*
34428451 GATTCGTGTAAGA-C-TGTAGCTGGG-CTATTGGCATCGATAT
1 GATTTGTGTAAGACCATGT--CTGGGAC-ATTGGCATCGATAT
34428491 ACTATAACAT
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
40 3 0.04
41 2 0.03
42 62 0.86
43 5 0.07
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.33
Consensus pattern (42 bp):
GATTTGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
Found at i:34434264 original size:17 final size:15
Alignment explanation
Indices: 34434234--34434271 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 15
34434224 TATAACCCTT
34434234 TCATTCCCTCATTCA
1 TCATTCCCTCATTCA
34434249 TCATTCCTCATCATTCA
1 TCATTCC-C-TCATTCA
34434266 TCATTC
1 TCATTC
34434272 TCTCTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.33
16 1 0.05
17 13 0.62
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (15 bp):
TCATTCCCTCATTCA
Found at i:34438043 original size:12 final size:12
Alignment explanation
Indices: 34438028--34438053 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34438018 CACTCTCCCC
34438028 AAAATCACTCCT
1 AAAATCACTCCT
34438040 AAAATCACTCCT
1 AAAATCACTCCT
34438052 AA
1 AA
34438054 GATCGCTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATCACTCCT
Found at i:34451232 original size:5 final size:5
Alignment explanation
Indices: 34451222--34451299 Score: 54
Period size: 6 Copynumber: 14.8 Consensus size: 5
34451212 TATGTCTTTC
* *
34451222 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT CAAAAG AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAAT AAAAT
34451269 AAAAAT AAAAT AAAAAT AAAACT -AAAT AAAA
1 -AAAAT AAAAT -AAAAT AAAA-T AAAAT AAAA
34451300 AAATATGAGG
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
3 3 0.05
4 1 0.02
5 27 0.46
6 28 0.47
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:34451251 original size:6 final size:6
Alignment explanation
Indices: 34451242--34451304 Score: 60
Period size: 6 Copynumber: 10.8 Consensus size: 6
34451232 AATAAAATTG
* * *
34451242 AAATGA AAATAA AAATCA AAA-GA AAATAA AAAT-A AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
34451288 AACTAA ATAA-AA AAATA
1 AAATAA A-AATAA AAATA
34451305 TGAGGTTTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 11 0.23
6 35 0.74
7 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:34451254 original size:17 final size:17
Alignment explanation
Indices: 34451232--34451294 Score: 74
Period size: 17 Copynumber: 3.7 Consensus size: 17
34451222 AAAATAAAAT
* *
34451232 AATAAAATTGAAATGAA
1 AATAAAAATAAAATGAA
34451249 AATAAAAATCAAAA-GAA
1 AATAAAAAT-AAAATGAA
*
34451266 AATAAAAATAAAATAAA
1 AATAAAAATAAAATGAA
*
34451283 AATAAAACTAAA
1 AATAAAAATAAA
34451295 TAAAAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
16 4 0.10
17 33 0.82
18 3 0.08
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (17 bp):
AATAAAAATAAAATGAA
Found at i:34451273 original size:11 final size:11
Alignment explanation
Indices: 34451222--34451304 Score: 67
Period size: 11 Copynumber: 7.0 Consensus size: 11
34451212 TATGTCTTTC
34451222 AAAATAAAATAA
1 AAAATAAAAT-A
* *
34451234 TAAAATTGAAATG
1 -AAAA-TAAAATA
*
34451247 AAAATAAAAATC
1 AAAAT-AAAATA
*
34451259 AAAAGAAAATA
1 AAAATAAAATA
34451270 AAAATAAAATA
1 AAAATAAAATA
34451281 AAAATAAAACTA
1 AAAATAAAA-TA
*
34451293 AATAAAAAAATA
1 AA-AATAAAATA
34451305 TGAGGTTTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
11 25 0.43
12 18 0.31
13 10 0.17
14 5 0.09
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:34451300 original size:17 final size:18
Alignment explanation
Indices: 34451223--34451301 Score: 67
Period size: 17 Copynumber: 4.6 Consensus size: 18
34451213 ATGTCTTTCA
* *
34451223 AAATAAAATAATAAAATTG
1 AAATAAAA-AATAAAAATC
*
34451242 AAAT-GAAAATAAAAATC
1 AAATAAAAAATAAAAATC
* *
34451259 AAA-AGAAAATAAAAATA
1 AAATAAAAAATAAAAATC
*
34451276 AAAT-AAAAATAAAACT-
1 AAATAAAAAATAAAAATC
34451292 AAATAAAAAA
1 AAATAAAAAA
34451302 ATATGAGGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
16 4 0.08
17 41 0.80
18 2 0.04
19 4 0.08
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.18
Consensus pattern (18 bp):
AAATAAAAAATAAAAATC
Found at i:34456687 original size:13 final size:13
Alignment explanation
Indices: 34456669--34456693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34456659 GGTTTGTTTA
34456669 TTAAACTAATTAT
1 TTAAACTAATTAT
34456682 TTAAACTAATTA
1 TTAAACTAATTA
34456694 ACTGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:34458104 original size:27 final size:27
Alignment explanation
Indices: 34458053--34458406 Score: 307
Period size: 27 Copynumber: 13.1 Consensus size: 27
34458043 GCCGAAATGG
* * *
34458053 TGACTGAAATA-CCCCGTATAGTAAAA
1 TGACCGAAATACCCCCATAGAGTAAAA
*
34458079 TGACCGAAATACCCCCATAGAATAAAA
1 TGACCGAAATACCCCCATAGAGTAAAA
* * ** *
34458106 TGACTGAAATACCCACATATTGTATAA
1 TGACCGAAATACCCCCATAGAGTAAAA
* *
34458133 TGACCAAAATACCCTCATAGAGTAAAA
1 TGACCGAAATACCCCCATAGAGTAAAA
* * *
34458160 TGACTGAAATACCCTCATAAAGTAAAA
1 TGACCGAAATACCCCCATAGAGTAAAA
* * * *
34458187 TAATCGAAATACCCTCATAGGGTAAAA
1 TGACCGAAATACCCCCATAGAGTAAAA
* *
34458214 TGACCGAAATACCCCTATAGGGTAAAA
1 TGACCGAAATACCCCCATAGAGTAAAA
* * *
34458241 TAATCGAAATACCCCCATAGGGTAAAA
1 TGACCGAAATACCCCCATAGAGTAAAA
* * *
34458268 TAACCGAAATACCCTCATAAAGTAAAA
1 TGACCGAAATACCCCCATAGAGTAAAA
* *
34458295 TGACCGAAATACCCCTATAAAGTAAAA
1 TGACCGAAATACCCCCATAGAGTAAAA
* * *** *
34458322 TGACTGTAATACCCTTGTAGGGTAAAA
1 TGACCGAAATACCCCCATAGAGTAAAA
* **
34458349 TGACCGAAATATCCTTATA-AGGTAAAA
1 TGACCGAAATACCCCCATAGA-GTAAAA
* * ** *
34458376 TGACTGTAATACCCCTGTAAAGTAAAA
1 TGACCGAAATACCCCCATAGAGTAAAA
34458403 TGAC
1 TGAC
34458407 TAATTTTCCC
Statistics
Matches: 271, Mismatches: 54, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
26 10 0.04
27 260 0.96
28 1 0.00
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (27 bp):
TGACCGAAATACCCCCATAGAGTAAAA
Found at i:34458145 original size:54 final size:53
Alignment explanation
Indices: 34458053--34458406 Score: 350
Period size: 54 Copynumber: 6.6 Consensus size: 53
34458043 GCCGAAATGG
* * *
34458053 TGACTGAAATACCCCGTATAGTAAAATGACCGAAATACCCCCATAGAATAAAA
1 TGACTGAAATACCCCATAAAGTAAAATGACCGAAATACCCCCATAGAGTAAAA
** * * *
34458106 TGACTGAAATACCCACATATTGTATAATGACCAAAATACCCTCATAGAGTAAAA
1 TGACTGAAATACCC-CATAAAGTAAAATGACCGAAATACCCCCATAGAGTAAAA
* * * *
34458160 TGACTGAAATACCCTCATAAAGTAAAATAATCGAAATACCCTCATAGGGTAAAA
1 TGACTGAAATACCC-CATAAAGTAAAATGACCGAAATACCCCCATAGAGTAAAA
* ** * * *
34458214 TGACCGAAATACCCCTATAGGGTAAAATAATCGAAATACCCCCATAGGGTAAAA
1 TGACTGAAATACCCC-ATAAAGTAAAATGACCGAAATACCCCCATAGAGTAAAA
* * * *
34458268 TAACCGAAATACCCTCATAAAGTAAAATGACCGAAATACCCCTATAAAGTAAAA
1 TGACTGAAATACCC-CATAAAGTAAAATGACCGAAATACCCCCATAGAGTAAAA
* ** ** * **
34458322 TGACTGTAATACCCTTGTAGGGTAAAATGACCGAAATATCCTTATA-AGGTAAAA
1 TGACTGAAATACCC-CATAAAGTAAAATGACCGAAATACCCCCATAGA-GTAAAA
* *
34458376 TGACTGTAATACCCCTGTAAAGTAAAATGAC
1 TGACTGAAATACCCC-ATAAAGTAAAATGAC
34458407 TAATTTTCCC
Statistics
Matches: 258, Mismatches: 38, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
53 16 0.06
54 241 0.93
55 1 0.00
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (53 bp):
TGACTGAAATACCCCATAAAGTAAAATGACCGAAATACCCCCATAGAGTAAAA
Found at i:34458216 original size:81 final size:81
Alignment explanation
Indices: 34458053--34458407 Score: 360
Period size: 81 Copynumber: 4.4 Consensus size: 81
34458043 GCCGAAATGG
* * * *
34458053 TGACTGAAATACCCCGTAT--AGTAAAATGACCGAAATACCCCCATAGAA-TAAAATGACTGAAA
1 TGACCGAAATACCCC-TATAGAGTAAAATGACTGAAATACCCCCATA-AAGTAAAATAACCGAAA
* ** *
34458115 TACCCACATATTGTATAA
64 TACCCTCATAAGGTAAAA
* * *
34458133 TGACCAAAATA-CCCTCATAGAGTAAAATGACTGAAATACCCTCATAAAGTAAAATAATCGAAAT
1 TGACCGAAATACCCCT-ATAGAGTAAAATGACTGAAATACCCCCATAAAGTAAAATAACCGAAAT
*
34458197 ACCCTCATAGGGTAAAA
65 ACCCTCATAAGGTAAAA
* * **
34458214 TGACCGAAATACCCCTATAGGGTAAAAT-AATCGAAATACCCCCATAGGGTAAAATAACCGAAAT
1 TGACCGAAATACCCCTATAGAGTAAAATGACT-GAAATACCCCCATAAAGTAAAATAACCGAAAT
*
34458278 ACCCTCATAAAGTAAAA
65 ACCCTCATAAGGTAAAA
* * *** ** *
34458295 TGACCGAAATACCCCTATAAAGTAAAATGACTGTAATACCCTTGTAGGGTAAAATGACCGAAATA
1 TGACCGAAATACCCCTATAGAGTAAAATGACTGAAATACCCCCATAAAGTAAAATAACCGAAATA
* *
34458360 TCCTTATAAGGTAAAA
66 CCCTCATAAGGTAAAA
* * * *
34458376 TGACTGTAATACCCCTGTAAAGTAAAATGACT
1 TGACCGAAATACCCCTATAGAGTAAAATGACT
34458408 AATTTTCCCT
Statistics
Matches: 234, Mismatches: 34, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.00
79 5 0.02
80 13 0.06
81 209 0.89
82 6 0.03
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (81 bp):
TGACCGAAATACCCCTATAGAGTAAAATGACTGAAATACCCCCATAAAGTAAAATAACCGAAATA
CCCTCATAAGGTAAAA
Found at i:34458761 original size:22 final size:23
Alignment explanation
Indices: 34458736--34458778 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
34458726 TAGCCCCACA
34458736 TGGTGTATAG-GGCTGGATGGAG
1 TGGTGTATAGAGGCTGGATGGAG
34458758 TGGTGTATAGAGGCTGGATGG
1 TGGTGTATAGAGGCTGGATGG
34458779 GTAGCATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.19, C:0.05, G:0.49, T:0.28
Consensus pattern (23 bp):
TGGTGTATAGAGGCTGGATGGAG
Found at i:34460883 original size:13 final size:13
Alignment explanation
Indices: 34460865--34460890 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34460855 TTTAGTTTAA
34460865 TTAGTTAATTAGT
1 TTAGTTAATTAGT
34460878 TTAGTTAATTAGT
1 TTAGTTAATTAGT
34460891 CTAATAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:34463460 original size:20 final size:22
Alignment explanation
Indices: 34463423--34463463 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
34463413 AGCACTAACA
34463423 TATTTTGATTTCTTTATTTCTT
1 TATTTTGATTTCTTTATTTCTT
34463445 TATTTT-ATTT-TTTATTTCT
1 TATTTTGATTTCTTTATTTCT
34463464 AACACTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 4 0.21
22 6 0.32
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (22 bp):
TATTTTGATTTCTTTATTTCTT
Found at i:34465689 original size:6 final size:6
Alignment explanation
Indices: 34465678--34465717 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
34465668 TCCTCTTATC
* * *
34465678 TTTTTA TTTTTA TTTTTA TTTTTG TTCTTA TTTTTC TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
34465718 CATTACAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.10, C:0.05, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:34468382 original size:22 final size:23
Alignment explanation
Indices: 34468337--34468378 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
34468327 AAATTTTCTC
34468337 TTTGCTTTAGTTTAATCAGTTAA
1 TTTGCTTTAGTTTAATCAGTTAA
*
34468360 TTTG-TTTAG-TTAATTAGTT
1 TTTGCTTTAGTTTAATCAGTT
34468379 TAATAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (23 bp):
TTTGCTTTAGTTTAATCAGTTAA
Found at i:34468674 original size:24 final size:24
Alignment explanation
Indices: 34468647--34468697 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
34468637 TAGTAGAGTG
34468647 AACTGAAACTGTAGTAAACTGGTA
1 AACTGAAACTGTAGTAAACTGGTA
*
34468671 AACTGAAACTGTAGTAAATTGGTA
1 AACTGAAACTGTAGTAAACTGGTA
34468695 AAC
1 AAC
34468698 ACCGATAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (24 bp):
AACTGAAACTGTAGTAAACTGGTA
Found at i:34470043 original size:26 final size:26
Alignment explanation
Indices: 34470014--34470065 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
34470004 TTCTTGTTGT
34470014 TTCTCTGCTCACTCTCAACTCTTTCC
1 TTCTCTGCTCACTCTCAACTCTTTCC
*
34470040 TTCTCTGCTCACTCTCAATTCTTTCC
1 TTCTCTGCTCACTCTCAACTCTTTCC
34470066 CCTCTTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.12, C:0.40, G:0.04, T:0.44
Consensus pattern (26 bp):
TTCTCTGCTCACTCTCAACTCTTTCC
Found at i:34470922 original size:27 final size:27
Alignment explanation
Indices: 34470842--34470924 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
34470832 AATGGTGATC
* *
34470842 GAAATA-CCCTCATAGGGTAAAATGACA
1 GAAATACCCCT-ATAAGGTAAAATGACT
*
34470869 GAAATACCCCTATAAGGAAAAATGACT
1 GAAATACCCCTATAAGGTAAAATGACT
* *
34470896 GTAATACCCCTGTAAGGTAAAATGACT
1 GAAATACCCCTATAAGGTAAAATGACT
34470923 GA
1 GA
34470925 TTTTCCTTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 44 0.92
28 4 0.08
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.20
Consensus pattern (27 bp):
GAAATACCCCTATAAGGTAAAATGACT
Found at i:34481889 original size:21 final size:20
Alignment explanation
Indices: 34481861--34481900 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
34481851 CAAAACTTGT
34481861 ATAACTATCATCAAA-CATTC
1 ATAACTATCAT-AAATCATTC
34481881 ATAATCTATCATAAATCATT
1 ATAA-CTATCATAAATCATT
34481901 AAAATACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATAAATCATTC
Found at i:34484078 original size:37 final size:37
Alignment explanation
Indices: 34484028--34484102 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
34484018 AATGTTAATT
34484028 TACCCCTTTTGGAATTAATTGATAAAATACCAAAATA
1 TACCCCTTTTGGAATTAATTGATAAAATACCAAAATA
*
34484065 TACCCCTTTTGGAATTAATTGATAAAATACTAAAATA
1 TACCCCTTTTGGAATTAATTGATAAAATACCAAAATA
34484102 T
1 T
34484103 GCCAAGTACT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.35
Consensus pattern (37 bp):
TACCCCTTTTGGAATTAATTGATAAAATACCAAAATA
Found at i:34485179 original size:70 final size:70
Alignment explanation
Indices: 34485105--34485261 Score: 226
Period size: 71 Copynumber: 2.2 Consensus size: 70
34485095 GAACCTAAAT
*
34485105 AATTTGAAAAT-CTAGTACATATCGAGACACAGGTACCCCTTTGTTGCGACACGCAACTTTGAAG
1 AATTTGAAAATACTAGT-CATATCGAGACACAGGTACCCCTATGTTGCGACACGCAACTTTGAAG
34485169 TATTAA
65 TATTAA
* * * * * *
34485175 AATTTGAAAATACCAAGTCCTGTTGTGACACATGTACCCCTATGTTGCGACACGCAACTTTGAAG
1 AATTTGAAAATA-CTAGTCATATCGAGACACAGGTACCCCTATGTTGCGACACGCAACTTTGAAG
34485240 TATTAA
65 TATTAA
34485246 AATTTGAAAATACTAG
1 AATTTGAAAATACTAG
34485262 GCTGTGTCAC
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
70 14 0.18
71 59 0.77
72 4 0.05
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (70 bp):
AATTTGAAAATACTAGTCATATCGAGACACAGGTACCCCTATGTTGCGACACGCAACTTTGAAGT
ATTAA
Found at i:34489349 original size:13 final size:13
Alignment explanation
Indices: 34489313--34489370 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
34489303 ATCCCAGATG
34489313 AAGAAAAGAAAAT
1 AAGAAAAGAAAAT
*
34489326 GAGTAAAAAGAAAAT
1 AAG--AAAAGAAAAT
34489341 AAGAAAAGAAAGA-
1 AAGAAAAGAAA-AT
* *
34489354 AAGAAAATAAAAA
1 AAGAAAAGAAAAT
34489367 AAGA
1 AAGA
34489371 GATATACTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
12 1 0.03
13 24 0.63
14 1 0.03
15 12 0.32
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (13 bp):
AAGAAAAGAAAAT
Found at i:34489937 original size:11 final size:11
Alignment explanation
Indices: 34489921--34489959 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
34489911 TATCTTTGCA
34489921 TTTTTCTTTTT
1 TTTTTCTTTTT
*
34489932 TTTTTCTTTTG
1 TTTTTCTTTTT
*
34489943 TTTTTATTTTT
1 TTTTTCTTTTT
34489954 CTTTTT
1 -TTTTT
34489960 TGTTCGCTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.87
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:34492609 original size:17 final size:19
Alignment explanation
Indices: 34492587--34492621 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
34492577 CAATTCAAAT
34492587 TCAAATT-CA-TATTTTCA
1 TCAAATTACACTATTTTCA
34492604 TCAAATTACACTATTTTC
1 TCAAATTACACTATTTTC
34492622 CATTCTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (19 bp):
TCAAATTACACTATTTTCA
Found at i:34495564 original size:23 final size:24
Alignment explanation
Indices: 34495525--34495572 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
34495515 TTTATTTGAT
34495525 AATATGTTTTGATATAACAAATTAA
1 AATATGTTTTGATATAA-AAATTAA
*
34495550 AATAT-TTTTGA-ATAAAAGTTAA
1 AATATGTTTTGATATAAAAATTAA
34495572 A
1 A
34495573 GTTGAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 4 0.18
24 6 0.27
25 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (24 bp):
AATATGTTTTGATATAAAAATTAA
Found at i:34495698 original size:20 final size:20
Alignment explanation
Indices: 34495673--34495714 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
34495663 CCAACTTTAA
34495673 AATCAAGTTAAAA-TGATTTT
1 AATCAAG-TAAAAGTGATTTT
*
34495693 AATCAAGTAAAAGTTATTTT
1 AATCAAGTAAAAGTGATTTT
34495713 AA
1 AA
34495715 CTAGTCAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (20 bp):
AATCAAGTAAAAGTGATTTT
Found at i:34503063 original size:20 final size:20
Alignment explanation
Indices: 34503040--34503077 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
34503030 AACATGGTAT
34503040 GTATGATATGCACATGATAC
1 GTATGATATGCACATGATAC
34503060 GTATGATATGCACATGAT
1 GTATGATATGCACATGAT
34503078 GTATTCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
GTATGATATGCACATGATAC
Found at i:34503189 original size:24 final size:24
Alignment explanation
Indices: 34503126--34503232 Score: 153
Period size: 24 Copynumber: 4.4 Consensus size: 24
34503116 GGAGGAAGTG
34503126 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
34503150 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
* * *
34503175 TAAAATGGCTTATGCCCTAATTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
34503199 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
34503222 TAAAAGAGGCT
1 TAAAAG-GGCT
34503233 AGACCTCCAG
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
23 16 0.22
24 34 0.47
25 23 0.32
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:34509823 original size:45 final size:45
Alignment explanation
Indices: 34509724--34509895 Score: 244
Period size: 45 Copynumber: 3.9 Consensus size: 45
34509714 CTGAATTCAT
* * *
34509724 TCACCGGCATT-TCGCCTGCTAGGCTC-GAAGCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGT-ATC
34509766 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
* *
34509811 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
* *
34509856 TCACGGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATA
34509896 ATACTGTGCG
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
42 11 0.09
43 14 0.12
44 7 0.06
45 86 0.72
46 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
Found at i:34510621 original size:45 final size:45
Alignment explanation
Indices: 34510522--34510738 Score: 343
Period size: 45 Copynumber: 4.9 Consensus size: 45
34510512 CTGAATTCAT
* * *
34510522 TCACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
*
34510564 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
34510609 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
34510654 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
34510699 TCACGGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
34510739 ATACTGTGCG
Statistics
Matches: 164, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
42 11 0.07
43 16 0.10
44 5 0.03
45 131 0.80
46 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:34511336 original size:47 final size:47
Alignment explanation
Indices: 34511276--34511465 Score: 317
Period size: 47 Copynumber: 4.0 Consensus size: 47
34511266 AAAATTTTCT
* * *
34511276 TTAACTAAGTAACTTATCCGGAAATAATAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
*
34511323 TTAACTAAATAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
* *
34511370 TTAACTAAGTAACTTGTCCGGAAATATTTAGAGAAAATTTAACAAGC
1 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
*
34511417 TTAACTAAGTAACTTCTCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
34511464 TT
1 TT
34511466 TAAATTCAAC
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:34516092 original size:20 final size:20
Alignment explanation
Indices: 34516067--34516125 Score: 118
Period size: 20 Copynumber: 3.0 Consensus size: 20
34516057 TAAAAGAGTA
34516067 TGTTTTAAATAAGAGGTCAC
1 TGTTTTAAATAAGAGGTCAC
34516087 TGTTTTAAATAAGAGGTCAC
1 TGTTTTAAATAAGAGGTCAC
34516107 TGTTTTAAATAAGAGGTCA
1 TGTTTTAAATAAGAGGTCA
34516126 TCCAATAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (20 bp):
TGTTTTAAATAAGAGGTCAC
Found at i:34523197 original size:35 final size:35
Alignment explanation
Indices: 34523158--34523228 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
34523148 CGTCATGCCC
* * *
34523158 AGCGTTGTGCCCACGACTCTAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
34523193 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
34523228 A
1 A
34523229 AAAGAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.28, C:0.31, G:0.24, T:0.17
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
Found at i:34526893 original size:17 final size:16
Alignment explanation
Indices: 34526865--34526913 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 16
34526855 AGTGTGTGTT
*
34526865 TAAAAATAAAATATAA
1 TAAATATAAAATATAA
34526881 TAAATAGTAAAATAT-A
1 TAAATA-TAAAATATAA
34526897 -AAATATAAAA-ATAA
1 TAAATATAAAATATAA
34526911 TAA
1 TAA
34526914 TAACAACACA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 2 0.07
14 6 0.21
15 7 0.24
16 6 0.21
17 8 0.28
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
TAAATATAAAATATAA
Found at i:34526898 original size:7 final size:7
Alignment explanation
Indices: 34526865--34526915 Score: 52
Period size: 7 Copynumber: 7.0 Consensus size: 7
34526855 AGTGTGTGTT
34526865 TAAAA-A
1 TAAAATA
34526871 TAAAATA
1 TAAAATA
34526878 TAATAAATA
1 T-A-AAATA
34526887 GTAAAATA
1 -TAAAATA
34526895 TAAAATA
1 TAAAATA
34526902 TAAAA-A
1 TAAAATA
34526908 TAATAATA
1 TAA-AATA
34526916 ACAACACATG
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
6 9 0.23
7 16 0.41
8 7 0.18
9 6 0.15
10 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (7 bp):
TAAAATA
Found at i:34526899 original size:24 final size:22
Alignment explanation
Indices: 34526865--34526909 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 22
34526855 AGTGTGTGTT
34526865 TAAAAATAAAATATAATAAATAG
1 TAAAAATAAAATATAA-AAATAG
34526888 TAAAATATAAAATATAAAAATA
1 TAAAA-ATAAAATATAAAAATA
34526910 ATAATAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (22 bp):
TAAAAATAAAATATAAAAATAG
Found at i:34529519 original size:27 final size:27
Alignment explanation
Indices: 34529488--34529665 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34529478 TAAATTGTAC
34529488 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34529515 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34529541 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34529569 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34529597 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34529624 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34529651 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34529666 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Done.