Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 134 of 255
Found at i:43077785 original size:41 final size:40
Alignment explanation
Indices: 43077680--43077786 Score: 101
Period size: 41 Copynumber: 2.6 Consensus size: 40
43077670 AGATTATGTT
* * * *
43077680 TTTAGCGGCGTTTTTGCTAGAAGCGCGCTAAAGGTTTGTTC
1 TTTAGCGGC-TTTGTGATAGAAGCGCGCTAAAGGTGTGGTC
* *
43077721 TTTAGCGTG-TTTGTGATAAAAGCGTGCTAAAGGTAGTGGTC
1 TTTAGCG-GCTTTGTGATAGAAGCGCGCTAAAGGT-GTGGTC
*
43077762 TTTAGCGGCATTTGTG-GAGAAGCGC
1 TTTAGCGGC-TTTGTGATAGAAGCGC
43077787 CGCAGTCTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
40 22 0.42
41 24 0.45
42 7 0.13
ACGTcount: A:0.21, C:0.14, G:0.32, T:0.34
Consensus pattern (40 bp):
TTTAGCGGCTTTGTGATAGAAGCGCGCTAAAGGTGTGGTC
Found at i:43077928 original size:43 final size:43
Alignment explanation
Indices: 43077794--43077928 Score: 175
Period size: 43 Copynumber: 3.2 Consensus size: 43
43077784 CGCCGCAGTC
* * * *
43077794 TTAGCGG-GTTTGTGGGAAAAGTGCCACTAAAGGTCAAG-GTCT
1 TTAGCGGTGTTTGTAGGAGAAGCGCCGCTAAAGGTC-AGCGTCT
* * *
43077836 ATCGCGATGTTTGTAGGAGAAGCGCCGCTAAAGGTCAGCGTCT
1 TTAGCGGTGTTTGTAGGAGAAGCGCCGCTAAAGGTCAGCGTCT
*
43077879 TTAGCGGTGTTTATAGGAGAAGCGCCGCTAAAGGTCAGCGTCT
1 TTAGCGGTGTTTGTAGGAGAAGCGCCGCTAAAGGTCAGCGTCT
43077922 TTAGCGG
1 TTAGCGG
43077929 CGCTTTTCCA
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 6 0.08
43 74 0.93
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (43 bp):
TTAGCGGTGTTTGTAGGAGAAGCGCCGCTAAAGGTCAGCGTCT
Found at i:43078465 original size:15 final size:14
Alignment explanation
Indices: 43078427--43078465 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
43078417 ACATACATGC
43078427 TTCGTTCTGCTCTG
1 TTCGTTCTGCTCTG
*
43078441 TTCTGCTCTGCTCTG
1 TTC-GTTCTGCTCTG
43078456 TTTCGTTCTG
1 -TTCGTTCTG
43078466 TTCAGTTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 3 0.14
15 15 0.71
16 3 0.14
ACGTcount: A:0.00, C:0.28, G:0.21, T:0.51
Consensus pattern (14 bp):
TTCGTTCTGCTCTG
Found at i:43078507 original size:25 final size:25
Alignment explanation
Indices: 43078479--43078532 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
43078469 AGTTCAGTAT
* *
43078479 TGTTCTACTCTGTTCCATCCTGTTC
1 TGTTCTACTCTATTCAATCCTGTTC
* * *
43078504 TGTTTTGCTCTATTCAATTCTGTTC
1 TGTTCTACTCTATTCAATCCTGTTC
43078529 TGTT
1 TGTT
43078533 TGAATTGCGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.09, C:0.24, G:0.13, T:0.54
Consensus pattern (25 bp):
TGTTCTACTCTATTCAATCCTGTTC
Found at i:43079389 original size:27 final size:28
Alignment explanation
Indices: 43079334--43079389 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
43079324 GAGAAACAAA
*
43079334 AAAAAAAATCAATTAAAATGATAATTTT
1 AAAAAAAATCAATTAAAATGATAAGTTT
* *
43079362 AAAAAATATCAATTAAAAT-ATTAGTTT
1 AAAAAAAATCAATTAAAATGATAAGTTT
43079389 A
1 A
43079390 TTAATAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (28 bp):
AAAAAAAATCAATTAAAATGATAAGTTT
Found at i:43088700 original size:13 final size:14
Alignment explanation
Indices: 43088679--43088711 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
43088669 TATAGGGACC
*
43088679 AATTTATGT-TAAA
1 AATTAATGTATAAA
43088692 AATTAATGTATAAA
1 AATTAATGTATAAA
43088706 AATTAA
1 AATTAA
43088712 AATTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (14 bp):
AATTAATGTATAAA
Found at i:43088815 original size:84 final size:85
Alignment explanation
Indices: 43088676--43088840 Score: 226
Period size: 84 Copynumber: 2.0 Consensus size: 85
43088666 AAATATAGGG
* * * *
43088676 ACCAATTTATGTTAAAAATTAATGTATAAAAATTAAAATTAAAATTTAGACATTTTAGACTGACC
1 ACCAATTTATGTTAAAAATTAAAGAATAAAAATTAAAATTAAAATTTAGAAATTTTAGACAGACC
* *
43088741 AATATTAAAATTTAATAGAA
66 AAAACTAAAATTTAATAGAA
* *
43088761 ACCAATTTATGTT-AAAATTAAAGAATAATAATT-AAATTTAAATTATAGAAATTTTAGACAGAC
1 ACCAATTTATGTTAAAAATTAAAGAATAAAAATTAAAATTAAAATT-TAGAAATTTTAGACAGAC
*
43088824 CAAAACTGAAATTTAAT
65 CAAAACTAAAATTTAAT
43088841 CAAATTGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
83 10 0.14
84 47 0.67
85 13 0.19
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (85 bp):
ACCAATTTATGTTAAAAATTAAAGAATAAAAATTAAAATTAAAATTTAGAAATTTTAGACAGACC
AAAACTAAAATTTAATAGAA
Found at i:43104122 original size:21 final size:21
Alignment explanation
Indices: 43104093--43104143 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 21
43104083 AGCGCTGACA
*
43104093 TGGCAAGTTAACTAGTTGATG
1 TGGCCAGTTAACTAGTTGATG
43104114 TGGCCAG-T---TAGTTGATG
1 TGGCCAGTTAACTAGTTGATG
43104131 TGGCCAGTTAACT
1 TGGCCAGTTAACT
43104144 TGCCACGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
17 16 0.64
18 1 0.04
20 1 0.04
21 7 0.28
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (21 bp):
TGGCCAGTTAACTAGTTGATG
Found at i:43104127 original size:17 final size:17
Alignment explanation
Indices: 43104105--43104140 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
43104095 GCAAGTTAAC
43104105 TAGTTGATGTGGCCAGT
1 TAGTTGATGTGGCCAGT
43104122 TAGTTGATGTGGCCAGT
1 TAGTTGATGTGGCCAGT
43104139 TA
1 TA
43104141 ACTTGCCACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.11, G:0.33, T:0.36
Consensus pattern (17 bp):
TAGTTGATGTGGCCAGT
Found at i:43104216 original size:26 final size:26
Alignment explanation
Indices: 43104186--43104237 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
43104176 CAAAAAAAGA
43104186 AAAGATGATTGGCCAAAATGATTTTT
1 AAAGATGATTGGCCAAAATGATTTTT
*
43104212 AAAGATGATTGGCCAGAATGATTTTT
1 AAAGATGATTGGCCAAAATGATTTTT
43104238 CTTCTCATCT
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:0.37, C:0.08, G:0.21, T:0.35
Consensus pattern (26 bp):
AAAGATGATTGGCCAAAATGATTTTT
Found at i:43104332 original size:20 final size:21
Alignment explanation
Indices: 43104277--43104334 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
43104267 CCTCAACCTC
* *
43104277 TTTCTCTTTATGCTTCTGTTAT
1 TTTCTCTTCAT-CTTCTGCTAT
* **
43104299 TTTTTCTTGTTCTTCT-CTAT
1 TTTCTCTTCATCTTCTGCTAT
43104319 TTTCTCTTCATCTTCT
1 TTTCTCTTCATCTTCT
43104335 TTCTCCCACA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
20 16 0.55
21 5 0.17
22 8 0.28
ACGTcount: A:0.07, C:0.22, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTCTCTTCATCTTCTGCTAT
Found at i:43107402 original size:40 final size:40
Alignment explanation
Indices: 43107205--43107388 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
43107195 CGAATGATGT
* * * * *
43107205 CCGGGCTAAGTCCAGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * * * *
43107245 CCGGACTAAGAT-CTGAAGGCATTTGTGTGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
43107285 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43107324 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43107364 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43107389 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 31 0.26
40 83 0.69
41 7 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:43107410 original size:79 final size:79
Alignment explanation
Indices: 43107259--43107421 Score: 188
Period size: 79 Copynumber: 2.1 Consensus size: 79
43107249 ACTAAGATCT
* * **
43107259 GAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTATAA
1 GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTATAA
*
43107324 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
* * *
43107338 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTA
* *
43107401 TATCC-GGTTAAATTCC
63 TAACCGGGTTAAATCCC
43107417 GAAGG
1 GAAGG
43107422 TACGTGATTT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 45 0.63
80 24 0.34
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTATAA
CCGGGTTAAATCCC
Found at i:43108858 original size:3 final size:3
Alignment explanation
Indices: 43108845--43108919 Score: 59
Period size: 3 Copynumber: 26.0 Consensus size: 3
43108835 TTCCATTTTC
* *
43108845 TCT TAT TCT TCT TCT TTT TCT TCT TCT TCT TCT TC- TCT GT-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT TCT
* * * *
43108889 TC- TCT TAT TCT TTT TTT TC- TCT CCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
43108920 ACTGCCCAGG
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
2 7 0.12
3 49 0.86
4 1 0.02
ACGTcount: A:0.03, C:0.28, G:0.01, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:43108900 original size:28 final size:28
Alignment explanation
Indices: 43108863--43108919 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
43108853 TTCTTCTTTT
* **
43108863 TCTTCTTCTTCTTCTTCTCTGTTTCTTC
1 TCTTATTCTTCTTCTTCTCTCCTTCTTC
* *
43108891 TCTTATTCTTTTTTTTCTCTCCTTCTTC
1 TCTTATTCTTCTTCTTCTCTCCTTCTTC
43108919 T
1 T
43108920 ACTGCCCAGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.67
Consensus pattern (28 bp):
TCTTATTCTTCTTCTTCTCTCCTTCTTC
Found at i:43109252 original size:8 final size:8
Alignment explanation
Indices: 43109239--43109276 Score: 76
Period size: 8 Copynumber: 4.8 Consensus size: 8
43109229 TCATTAGTTT
43109239 ACATATAC
1 ACATATAC
43109247 ACATATAC
1 ACATATAC
43109255 ACATATAC
1 ACATATAC
43109263 ACATATAC
1 ACATATAC
43109271 ACATAT
1 ACATAT
43109277 CTCATATCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (8 bp):
ACATATAC
Found at i:43109284 original size:7 final size:7
Alignment explanation
Indices: 43109272--43109304 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
43109262 CACATATACA
43109272 CATATCT
1 CATATCT
43109279 CATATCT
1 CATATCT
43109286 CATATCT
1 CATATCT
43109293 CATATCT
1 CATATCT
43109300 CATAT
1 CATAT
43109305 TGTTTAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (7 bp):
CATATCT
Found at i:43110197 original size:85 final size:85
Alignment explanation
Indices: 43110036--43110201 Score: 237
Period size: 85 Copynumber: 2.0 Consensus size: 85
43110026 AAATATAGAG
* * * *
43110036 ACCAATTTATGTTAAAAATTAGAATATAAAATTTAAATTTAAATTTTAGACATTTTAAACTGACC
1 ACCAATTTATATTAAAAATTAGAATATAAAAATTAAATTTAAATTATAGACATTTTAAACCGACC
*
43110101 AAATTTAAAATTTAATAGGA
66 AAATCTAAAATTTAATAGGA
*
43110121 ACCAATTTATATTAAAAATTA-AAGTATAAAAATTAAATTTAAATTATAGACATTTTAGACCGAC
1 ACCAATTTATATTAAAAATTAGAA-TATAAAAATTAAATTTAAATTATAGACATTTTAAACCGAC
*
43110185 CGAAA-CTGAAATTTAAT
65 C-AAATCTAAAATTTAAT
43110202 CAAAATGCAC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
84 2 0.03
85 67 0.93
86 3 0.04
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (85 bp):
ACCAATTTATATTAAAAATTAGAATATAAAAATTAAATTTAAATTATAGACATTTTAAACCGACC
AAATCTAAAATTTAATAGGA
Found at i:43110892 original size:19 final size:20
Alignment explanation
Indices: 43110860--43110897 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
43110850 TGACAAAAAT
* *
43110860 AATATTATATAAATTTTAAA
1 AATATTATACAAATATTAAA
43110880 AATA-TATACAAATATTAA
1 AATATTATACAAATATTAA
43110898 TCTTAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
AATATTATACAAATATTAAA
Found at i:43111520 original size:30 final size:29
Alignment explanation
Indices: 43111486--43111549 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
43111476 AATAGTTATT
43111486 TTTATAAATTTTAA-AAGATTAAATTAAAAA
1 TTTATAAATTTTAAGAA-ATTAAATT-AAAA
* * *
43111516 TTTATTATTTTTAAGAAATTAAATTATAA
1 TTTATAAATTTTAAGAAATTAAATTAAAA
43111545 TTTAT
1 TTTAT
43111550 TTTTACTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 8 0.27
30 20 0.67
31 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (29 bp):
TTTATAAATTTTAAGAAATTAAATTAAAA
Found at i:43111546 original size:29 final size:30
Alignment explanation
Indices: 43111494--43111550 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
43111484 TTTTTATAAA
43111494 TTTTAAAAGATTAAATTAAAAATTTATTAT
1 TTTTAAAAGATTAAATTAAAAATTTATTAT
*
43111524 TTTTAAGAA-ATTAAATT-ATAATTTATT
1 TTTTAA-AAGATTAAATTAAAAATTTATT
43111551 TTTACTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 9 0.36
30 14 0.56
31 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (30 bp):
TTTTAAAAGATTAAATTAAAAATTTATTAT
Found at i:43113692 original size:33 final size:32
Alignment explanation
Indices: 43113655--43113717 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
43113645 CGTTTTGCTA
43113655 ATATTCTATGTTCAACCAACAATACATATTTTT
1 ATATTCTATGTTCAACCAACAA-ACATATTTTT
* *
43113688 ATATTTTATGTTCAACCACCAAACATATTT
1 ATATTCTATGTTCAACCAACAAACATATTT
43113718 ATAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 8 0.29
33 20 0.71
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.41
Consensus pattern (32 bp):
ATATTCTATGTTCAACCAACAAACATATTTTT
Found at i:43115474 original size:13 final size:13
Alignment explanation
Indices: 43115447--43115518 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
43115437 CATGGAGCTG
* *
43115447 AGTGATACTAATA
1 AGTGATACCACTA
43115460 AGTGATACTC-CTA
1 AGTGATAC-CACTA
* *
43115473 AGTGCTACCATTA
1 AGTGATACCACTA
*
43115486 AGTGCTACCACTA
1 AGTGATACCACTA
* *
43115499 AATGATACCGCTA
1 AGTGATACCACTA
43115512 AGTGATA
1 AGTGATA
43115519 TTGCTAAGTG
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
12 1 0.02
13 47 0.98
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (13 bp):
AGTGATACCACTA
Found at i:43115672 original size:39 final size:38
Alignment explanation
Indices: 43115576--43115673 Score: 94
Period size: 39 Copynumber: 2.5 Consensus size: 38
43115566 TGGTGTCGCA
* * *
43115576 AGGTGAGATCGTGAGGT-GTACTGCAAGGAAGTAGCGTG
1 AGGTGAGATC-TAAGGTGGTACTACAAGGAAGTAGCGCG
*
43115614 AGGTGAGATTGCTAA-GTGGTACTACAA-GAAGGTAGTGCG
1 AGGTGAGA-T-CTAAGGTGGTACTACAAGGAA-GTAGCGCG
43115653 AGGTGAGATCATAAGGTGGTA
1 AGGTGAGATC-TAAGGTGGTA
43115674 GCTGTTGGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
37 1 0.02
38 17 0.34
39 31 0.62
40 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.39, T:0.22
Consensus pattern (38 bp):
AGGTGAGATCTAAGGTGGTACTACAAGGAAGTAGCGCG
Found at i:43116441 original size:28 final size:29
Alignment explanation
Indices: 43116410--43116466 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
43116400 TAAAGTGATT
* *
43116410 TTTGACAAAAATGTCAATT-AGGGTTTAA
1 TTTGACAAAAATGTAAATTAAGGGGTTAA
* *
43116438 TTTGAGAAAAGTGTAAATTAAGGGGTTAA
1 TTTGACAAAAATGTAAATTAAGGGGTTAA
43116467 ATTGTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.33
Consensus pattern (29 bp):
TTTGACAAAAATGTAAATTAAGGGGTTAA
Found at i:43116996 original size:43 final size:43
Alignment explanation
Indices: 43116948--43117097 Score: 176
Period size: 43 Copynumber: 3.5 Consensus size: 43
43116938 GTTATCGAGA
*
43116948 TGTGATTACATGTAAGACCATGTCTGGGACATTGACATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGACATCGTAT
* *
43116991 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGACATCGTAT
* * * * * *
43117034 TATGATTTCTTGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGACATCGTAT
** *
43117076 ATGTGACAACACGTAAGACCAT
1 -TGTGATTACATGTAAGACCAT
43117098 ATTTGGGATA
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 2 0.02
43 89 0.98
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGACATCGTAT
Found at i:43118295 original size:42 final size:42
Alignment explanation
Indices: 43118236--43118327 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
43118226 CGTGCCCTTA
*
43118236 GCCCGTGTGCAACACTGACTTTAAAACACGGCCATGACACAC
1 GCCCGTGTACAACACTGACTTTAAAACACGGCCATGACACAC
*
43118278 GCCCGTGTACAACACTGACTTTAAAACATGGCCATGACACAC
1 GCCCGTGTACAACACTGACTTTAAAACACGGCCATGACACAC
*
43118320 GTCCGTGT
1 GCCCGTGT
43118328 GGCCTACCTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.20
Consensus pattern (42 bp):
GCCCGTGTACAACACTGACTTTAAAACACGGCCATGACACAC
Found at i:43119346 original size:47 final size:47
Alignment explanation
Indices: 43119222--43119435 Score: 154
Period size: 47 Copynumber: 4.6 Consensus size: 47
43119212 CGTGCTGATG
* * * * *
43119222 CATGTCCCAGACATGTCTTACACTAGCAC-GA-C-TCTTA-GCCGATG
1 CATGTCCCAGACATATCTTACACTGGCACTCATCATC-GAGGCCGATA
* * *
43119266 CATCTTCCAGACACATCTTACACTGGCTA-TCATCATCGAGGCCGATA
1 CATGTCCCAGACATATCTTACACTGGC-ACTCATCATCGAGGCCGATA
* * * * *
43119313 CTTGTCCCAGACATATCTTACACTGGCACTCATC-TCTACGCCAATGC
1 CATGTCCCAGACATATCTTACACTGGCACTCATCATCGAGGCCGAT-A
* * * * * *
43119360 CATGTCCTAGACATGGTCTTACACTGGCACTCATAAT-GTGGCTGATG
1 CATGTCCCAGACAT-ATCTTACACTGGCACTCATCATCGAGGCCGATA
**
43119407 CATGTCCCAGACATGGCTTACACTGGCAC
1 CATGTCCCAGACATATCTTACACTGGCAC
43119436 ACAAGAAATT
Statistics
Matches: 133, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
44 22 0.17
45 2 0.02
46 25 0.19
47 61 0.46
48 22 0.17
49 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACATATCTTACACTGGCACTCATCATCGAGGCCGATA
Found at i:43119418 original size:94 final size:92
Alignment explanation
Indices: 43119169--43119435 Score: 258
Period size: 94 Copynumber: 2.9 Consensus size: 92
43119159 ATCGAGGCTG
* * * *
43119169 ATGCCATGTCCTAGACATGGTCTTATACTAGCTCTCGTATATACGT-GCTGATGCATGTCCCAGA
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCACTC--ATA-ATGTGGCTGATGCATGTCCCAGA
* * *
43119233 CATGTCTTACACTAGCACGACTCTTAGCCG
63 CATGTCTTACACTGGCACCACTCTTAGCCA
* ** * * * * *
43119263 ATG-CATCTTCC-AGACA-CATCTTACACTGGCTA-TCATCATCGAGGCCGATACTTGTCCCAGA
1 ATGCCAT-GTCCTAGACATGGTCTTACACTGGC-ACTCATAAT-GTGGCTGATGCATGTCCCAGA
*
43119324 CATATCTTACACTGGCACTCA-TCTCTACGCCA
63 CATGTCTTACACTGGCAC-CACTCT-TA-GCCA
43119356 ATGCCATGTCCTAGACATGGTCTTACACTGGCACTCATAATGTGGCTGATGCATGTCCCAGACAT
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCACTCATAATGTGGCTGATGCATGTCCCAGACAT
*
43119421 GGCTTACACTGGCAC
66 GTCTTACACTGGCAC
43119436 ACAAGAAATT
Statistics
Matches: 136, Mismatches: 26, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
89 1 0.01
90 3 0.02
91 34 0.25
92 15 0.11
93 17 0.12
94 48 0.35
95 18 0.13
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (92 bp):
ATGCCATGTCCTAGACATGGTCTTACACTGGCACTCATAATGTGGCTGATGCATGTCCCAGACAT
GTCTTACACTGGCACCACTCTTAGCCA
Found at i:43127283 original size:43 final size:43
Alignment explanation
Indices: 43127233--43127390 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
43127223 GTTATCGAGA
* * *
43127233 TGTGATTACATGTAAGACCATGTCTGGGACATTAGTATTGTAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTAT
*
43127276 TGTGATTACGTGTAAGACCATGCCTGGGACATTAGCATCGTAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTAT
* * * ***
43127319 TATGATTTCGTGTAAGACCCTGTCTGGGACAGCGGCATCG-AT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTAT
** * *
43127361 ATGTGACAACATGTAAGACCATATCTGGGA
1 -TGTGATTACGTGTAAGACCATGTCTGGGA
43127391 TATGGCATTG
Statistics
Matches: 96, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
42 2 0.02
43 94 0.98
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTAT
Found at i:43129374 original size:40 final size:40
Alignment explanation
Indices: 43129314--43129488 Score: 287
Period size: 40 Copynumber: 4.4 Consensus size: 40
43129304 CGGATGTAAC
* *
43129314 AACCAGCACGAATGCCTTCGAGACTTAACCCGGTAATAAT
1 AACCCGCACGAATGCCTTCGAGACTTAACCCGGTTATAAT
* *
43129354 AACTCGCACGAATGCCTTCGAGACTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGAGACTTAACCCGGTTATAAT
* *
43129394 AACCCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGAGACTTAACCCGGTTATAAT
*
43129434 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGAGACTTAACCCGGTTATAAT
43129474 AACCCGCACGAATGC
1 AACCCGCACGAATGC
43129489 TGTGCACATA
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 128 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGAGACTTAACCCGGTTATAAT
Found at i:43133285 original size:45 final size:45
Alignment explanation
Indices: 43133218--43133311 Score: 109
Period size: 46 Copynumber: 2.1 Consensus size: 45
43133208 TTTCATTTTT
*
43133218 ATTTTAAGAAAACCACATTCATTTC-CAAATGATTTCATTTCTCC
1 ATTTTAAGAAAACCACAATCATTTCTCAAATGATTTCATTTCTCC
* * * * **
43133262 ATTTTGAAGAAAATCATAATCATTTCTGAATTTTTTTCATTTCTCC
1 ATTTT-AAGAAAACCACAATCATTTCTCAAATGATTTCATTTCTCC
43133308 ATTT
1 ATTT
43133312 CTATTCATTC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 5 0.12
45 17 0.41
46 19 0.46
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (45 bp):
ATTTTAAGAAAACCACAATCATTTCTCAAATGATTTCATTTCTCC
Found at i:43139025 original size:20 final size:20
Alignment explanation
Indices: 43138996--43139047 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
43138986 CGAGAACTCC
*
43138996 AAAAAATTTTCACAAAATTT
1 AAAAATTTTTCACAAAATTT
* *
43139016 CAAAATTTTTCGCAAAATTT
1 AAAAATTTTTCACAAAATTT
43139036 AAAAATTTTTCA
1 AAAAATTTTTCA
43139048 AGTTACAAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAAATTTTTCACAAAATTT
Found at i:43140385 original size:57 final size:58
Alignment explanation
Indices: 43140324--43140434 Score: 138
Period size: 58 Copynumber: 1.9 Consensus size: 58
43140314 TTCCAACACC
43140324 TGCTCACA-AGAGCTTA-ATCAGGATTACTC-GTCAAGACTAAATCCTATCTGTAACATA
1 TGCTCA-AGAGAGCTTATATCAGGATTAC-CAGTCAAGACTAAATCCTATCTGTAACATA
* * * * *
43140381 TGCTCAAGAGGGCTTATATCAGGATTACCAGTCCAGGCTAAATTCTTTCTGTAA
1 TGCTCAAGAGAGCTTATATCAGGATTACCAGTCAAGACTAAATCCTATCTGTAA
43140435 TGAGGTCAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
56 1 0.02
57 14 0.30
58 31 0.67
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (58 bp):
TGCTCAAGAGAGCTTATATCAGGATTACCAGTCAAGACTAAATCCTATCTGTAACATA
Found at i:43142045 original size:27 final size:27
Alignment explanation
Indices: 43142007--43142066 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
43141997 TATGCAACAA
* *
43142007 GTCCAATTCTTTTTGTCATTTCATATG
1 GTCCAATTCTTTCTGTAATTTCATATG
43142034 GTCCAATTCTTTCTGTAATTTCATATG
1 GTCCAATTCTTTCTGTAATTTCATATG
43142061 GTCCAA
1 GTCCAA
43142067 CAAACCGTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.47
Consensus pattern (27 bp):
GTCCAATTCTTTCTGTAATTTCATATG
Found at i:43147976 original size:29 final size:29
Alignment explanation
Indices: 43147912--43147977 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
43147902 ATTTCATTTA
* *
43147912 TTTCACAATTTAACCTCTCAATTTACACT
1 TTTCTCAATTTAACCTCTCAATATACACT
*
43147941 TTTCTCAATTTAATCC-CT-AATATACATT
1 TTTCTCAATTTAA-CCTCTCAATATACACT
43147969 TTTACTCAA
1 TTT-CTCAA
43147978 AATCAGTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 11 0.34
29 19 0.59
30 2 0.06
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (29 bp):
TTTCTCAATTTAACCTCTCAATATACACT
Found at i:43151918 original size:20 final size:19
Alignment explanation
Indices: 43151895--43151933 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
43151885 ATATAATAGT
43151895 TAATAATAA-AATAAAAGAAA
1 TAATAA-AAGAAT-AAAGAAA
43151915 TAATAAAAGAATAAAGAAA
1 TAATAAAAGAATAAAGAAA
43151934 AAGGAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (19 bp):
TAATAAAAGAATAAAGAAA
Found at i:43154918 original size:94 final size:94
Alignment explanation
Indices: 43154757--43154928 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 94
43154747 GTTATTATTT
* *
43154757 GCTAGTGTAAGACATGTGTCGGACATGCATCCACCACATTATGAGAGCCAATGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTCGGACATGCATCCACCACATGATGAGAGCCAATGTAAGACCATGTC
43154822 TGGGACATGGCATTGGCATTGAGACGAGG
66 TGGGACATGGCATTGGCATTGAGACGAGG
** * * * *
43154851 GCTAGTGTAAGACATGTCTCGGACATGCATCTGCTACGA-GATGATAGTCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTCGGACATGCATCCACCAC-ATGATGAGAGCCAATGTAAGACCATGT
43154915 CTGGGACATGGCAT
65 CTGGGACATGGCAT
43154929 GACTTGAGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
94 68 0.99
95 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTCGGACATGCATCCACCACATGATGAGAGCCAATGTAAGACCATGTC
TGGGACATGGCATTGGCATTGAGACGAGG
Found at i:43154938 original size:46 final size:46
Alignment explanation
Indices: 43154797--43154974 Score: 184
Period size: 46 Copynumber: 3.8 Consensus size: 46
43154787 CCACCACATT
* *
43154797 ATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATTGGCATTGAG
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATT-GC-TTGAG
* ** * * *
43154845 ACGAGGGCTAGTGTAAGA-CATGTCTCGGACAT-GCATCTGCTACGAG
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCAT-TGCT-TGAG
*
43154891 ATGATAGTCAGTGTAAGACCATGTCTGGGACATGGCA-TGACTTGAG
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATTG-CTTGAG
*
43154937 ATG-TGAGCCAGTGTCAGACCATGTCTGGGACATGGCAT
1 ATGAT-AGCCAGTGTAAGACCATGTCTGGGACATGGCAT
43154975 CGGCACCTTA
Statistics
Matches: 108, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.02
46 60 0.56
47 29 0.27
48 17 0.16
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (46 bp):
ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGCTTGAG
Found at i:43158107 original size:39 final size:39
Alignment explanation
Indices: 43158024--43158120 Score: 99
Period size: 39 Copynumber: 2.5 Consensus size: 39
43158014 TGAAACCAAT
* *
43158024 TACCAGTAC-AAGCCTGCGGGAATTTAAACCCGGTATAA
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
* * * *
43158062 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGG-CATAA
* *
43158101 TTCCAGCACGTAGCCTGCGG
1 TACCAGCACGAAGCCTGCGG
43158121 ACCTTAAGTC
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
38 13 0.27
39 35 0.73
ACGTcount: A:0.26, C:0.29, G:0.25, T:0.21
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
Found at i:43158144 original size:39 final size:39
Alignment explanation
Indices: 43158073--43158216 Score: 209
Period size: 39 Copynumber: 3.7 Consensus size: 39
43158063 ACCAGCTCGA
* * * * *
43158073 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACAT
*
43158112 AGCCTGCGGACCTTAAGTCCGGTTATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
43158151 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
43158190 AGCCTGCAGACCTTAAGTCCGGATATA
1 AGCCTGCGGACCTTAAGTCCGGATATA
43158217 CATCACTGAA
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
38 3 0.03
39 93 0.97
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:43158146 original size:78 final size:77
Alignment explanation
Indices: 43158053--43158216 Score: 206
Period size: 78 Copynumber: 2.1 Consensus size: 77
43158043 GAATTTAAAC
* * * *
43158053 CCGGTATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGCC
1 CCGGTATAATACCAGCAC-ATAGCCTGC-GGACCTTAAGCCCGGACATAATTCCAGCACATAGCC
*
43158116 TGCGGACCTTAAGT
64 TGCAGACCTTAAGT
* * *
43158130 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGG-TATAATACCAGCACATAGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCT
43158195 GCAGACCTTAAGT
65 GCAGACCTTAAGT
43158208 CCGGATATA
1 CCGG-TATA
43158217 CATCACTGAA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
77 8 0.11
78 67 0.89
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (77 bp):
CCGGTATAATACCAGCACATAGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCTG
CAGACCTTAAGT
Found at i:43168076 original size:23 final size:23
Alignment explanation
Indices: 43168027--43168076 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
43168017 ATGCACATTT
*
43168027 TTTTATATGTTTTAGTTTTTTAC
1 TTTTATATGTTTTAGTTGTTTAC
43168050 TTTTATATTGTTTT-GTATGTTTA-
1 TTTTATA-TGTTTTAGT-TGTTTAC
43168073 TTTT
1 TTTT
43168077 CATTTTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.16, C:0.02, G:0.10, T:0.72
Consensus pattern (23 bp):
TTTTATATGTTTTAGTTGTTTAC
Found at i:43169605 original size:5 final size:5
Alignment explanation
Indices: 43169591--43169637 Score: 76
Period size: 5 Copynumber: 9.4 Consensus size: 5
43169581 TTTAAAATCT
* *
43169591 ATATA ATATA GTATA ATATA ATACA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
43169638 TATTTTATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:43173320 original size:22 final size:22
Alignment explanation
Indices: 43173289--43173331 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
43173279 CTCTTCAGTT
43173289 TGATAAGAGTTTTGAGAGGATA
1 TGATAAGAGTTTTGAGAGGATA
*
43173311 TGATATGAGTTTTGAGAGGAT
1 TGATAAGAGTTTTGAGAGGAT
43173332 GATTCACGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (22 bp):
TGATAAGAGTTTTGAGAGGATA
Found at i:43174966 original size:19 final size:19
Alignment explanation
Indices: 43174942--43175188 Score: 95
Period size: 19 Copynumber: 13.1 Consensus size: 19
43174932 AATATAACCC
43174942 TATATATTTATTATTATTA
1 TATATATTTATTATTATTA
*
43174961 TATATATATT-TTA-TATTG
1 TATATAT-TTATTATTATTA
* *
43174979 T-TAT-TTGTTTTATT-TAA
1 TATATATT-TATTATTATTA
*
43174996 CCT-TATTTTTA-TATTATATA
1 --TATATATTTATTATTAT-TA
*
43175016 TTATATAATTATT-TTATTA
1 -TATATATTTATTATTATTA
43175035 TATATTATTTACATTATTATTA
1 TATA-TATTT--ATTATTATTA
43175057 T-T-TA-TTATATATTAGTT-
1 TATATATTTAT-TATTA-TTA
43175074 TAT-TATTTATATATTATTA
1 TATATATTTAT-TATTATTA
*
43175093 T-TATATTT-TTACTT-GTA
1 TATATATTTATTA-TTATTA
43175110 TTATATATTTATTA--ATTA
1 -TATATATTTATTATTATTA
*
43175128 TATATA-TTATATATTATAA
1 TATATATTTAT-TATTATTA
43175147 T-TAT-TTTATTATATATTA
1 TATATATTTATTAT-TATTA
* *
43175165 TTATGTCATTTTTATATTATTA
1 -TATAT-ATTTAT-TATTATTA
43175187 TA
1 TA
43175189 CTTTTTTATC
Statistics
Matches: 177, Mismatches: 15, Indels: 70
0.68 0.06 0.27
Matches are distributed among these distances:
15 1 0.01
16 8 0.05
17 28 0.16
18 41 0.23
19 53 0.30
20 20 0.11
21 7 0.04
22 16 0.09
23 3 0.02
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TATATATTTATTATTATTA
Found at i:43174976 original size:30 final size:30
Alignment explanation
Indices: 43174942--43175168 Score: 94
Period size: 30 Copynumber: 7.6 Consensus size: 30
43174932 AATATAACCC
43174942 TATATATTTATTATTATTATATATATATTT
1 TATATATTTATTATTATTATATATATATTT
* *
43174972 TATAT-TGTTATT-TGTTTTATTTA-ACCTTATTT
1 TATATAT-TTATTAT-TATTATATATA---TATTT
43175004 T-TATA-TTA-TA-TATTATATA-ATTATTT
1 TATATATTTATTATTATTATATATA-TATTT
* *
43175030 TATTATATATTATTTACATTATTAT-TATTTATTA
1 TA-TATAT-TTA-TT--ATTATTATATATATATTT
43175064 TATATTAGTTTATTA-T-TTATATAT-TATTAT
1 TATA-TA-TTTATTATTATTATATATATATT-T
* * *
43175094 TATATTTTTACTT-GTATTATATATTTATTAAT
1 TATATATTTA-TTATTATTATATATATATT--T
43175126 TATATA--TATTATATATTATA-AT-TATTT
1 TATATATTTATTAT-TATTATATATATATTT
*
43175153 TAT-TATATATTATTAT
1 TATATATTTATTATTAT
43175169 GTCATTTTTA
Statistics
Matches: 157, Mismatches: 10, Indels: 63
0.68 0.04 0.27
Matches are distributed among these distances:
26 9 0.06
27 7 0.04
28 22 0.14
29 22 0.14
30 43 0.27
31 15 0.10
32 14 0.09
33 4 0.03
34 14 0.09
35 7 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (30 bp):
TATATATTTATTATTATTATATATATATTT
Found at i:43175017 original size:7 final size:7
Alignment explanation
Indices: 43175005--43175165 Score: 99
Period size: 7 Copynumber: 23.1 Consensus size: 7
43174995 ACCTTATTTT
43175005 TATATTA
1 TATATTA
43175012 TATATTA
1 TATATTA
43175019 TATAATTA
1 TAT-ATTA
*
43175027 TTTTATTA
1 -TATATTA
43175035 TATATTA
1 TATATTA
*
43175042 TTTACATTA
1 --TATATTA
43175051 T-TATTA
1 TATATTA
*
43175057 TTTATTA
1 TATATTA
43175064 TATATTA
1 TATATTA
*
43175071 -GT-TTA
1 TATATTA
43175076 T-TATTTA
1 TATA-TTA
43175083 TATATTA
1 TATATTA
43175090 T-TATTA
1 TATATTA
*
43175096 TATTTTTA
1 TA-TATTA
*
43175104 CTTGTATTA
1 --TATATTA
43175113 TATATT-
1 TATATTA
*
43175119 TAT-TAA
1 TATATTA
43175125 T-TA-TA
1 TATATTA
43175130 TATATTA
1 TATATTA
43175137 TATATTA
1 TATATTA
43175144 TA-ATTA
1 TATATTA
*
43175150 TTTTATTA
1 -TATATTA
43175158 TATATTA
1 TATATTA
43175165 T
1 T
43175166 TATGTCATTT
Statistics
Matches: 121, Mismatches: 14, Indels: 38
0.70 0.08 0.22
Matches are distributed among these distances:
5 8 0.07
6 22 0.18
7 60 0.50
8 18 0.15
9 12 0.10
10 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (7 bp):
TATATTA
Found at i:43175056 original size:45 final size:47
Alignment explanation
Indices: 43175007--43175216 Score: 175
Period size: 45 Copynumber: 4.5 Consensus size: 47
43174997 CTTATTTTTA
43175007 TATTATATATTATATAATTATT-TTA-TTATATATTATT-TACATTAT
1 TATTATATATTATAT-ATTATTATTATTTATATATTATTATACATTAT
* * *
43175052 TATTATTTATTATATATTAGTTTATTATTTATATATTATTATTATATTTT
1 TATTATATATTATATATTA--TTATTATTTATATATTATTA-TACATTAT
* * * *
43175102 TACT-TGTATTATATA-T-TTATTAATTATATA-TATTATATATTAT
1 TATTATATATTATATATTATTATTATTTATATATTATTATACATTAT
* * * * *
43175145 AATTATTTTATTATATATTATTATGTCATTTTTATATTATTATACTTTTT
1 TATTA-TATATTATATATTATTAT-T-ATTTATATATTATTATACATTAT
*
43175195 TATCTATATATTAT-TATCATTA
1 TAT-TATATATTATATATTATTA
43175217 AAGGTTTTTT
Statistics
Matches: 133, Mismatches: 18, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
43 9 0.07
44 9 0.07
45 37 0.28
46 3 0.02
47 7 0.05
48 14 0.11
49 24 0.18
50 28 0.21
51 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (47 bp):
TATTATATATTATATATTATTATTATTTATATATTATTATACATTAT
Found at i:43175077 original size:75 final size:73
Alignment explanation
Indices: 43174942--43175165 Score: 198
Period size: 75 Copynumber: 3.0 Consensus size: 73
43174932 AATATAACCC
* * * *
43174942 TATATATTTATTATTATTATATATATATTTTA-TATTGTTATTTGTTTTAT-TTAACCTTATT-T
1 TATATATTTATT-TTATTATATAT-TATTTAATTATTATTATTTATTATATATT-A--TTATTAT
43175004 TTATATTATATAT
61 TTATATTATATAT
*
43175017 TATATAATTATTTTATTATATATTATTTACATTATTATTATTTATTATATATTAGTTTATTATTT
1 TATATATTTATTTTATTATATATTATTTA-ATTATTATTATTTATTATATATTA--TTATTATTT
43175082 ATA-TATTATTAT
63 ATATTA-TA-TAT
* * *
43175094 TATATTTTTACTTGTATTATATATT-TATTAATTA-TA-TA--TATTATATATTATAATTATTT-
1 TATATATTTA-TTTTATTATATATTAT-TTAATTATTATTATTTATTATATATTATTATTATTTA
43175153 TATTATATAT
64 TATTATATAT
43175163 TAT
1 TAT
43175166 TATGTCATTT
Statistics
Matches: 129, Mismatches: 11, Indels: 24
0.79 0.07 0.15
Matches are distributed among these distances:
69 6 0.05
70 4 0.03
71 10 0.08
73 17 0.13
74 12 0.09
75 36 0.28
76 12 0.09
77 16 0.12
78 16 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (73 bp):
TATATATTTATTTTATTATATATTATTTAATTATTATTATTTATTATATATTATTATTATTTATA
TTATATAT
Found at i:43175163 original size:94 final size:94
Alignment explanation
Indices: 43175014--43175187 Score: 239
Period size: 94 Copynumber: 1.9 Consensus size: 94
43175004 TTATATTATA
* *
43175014 TATTATATAATTATTTTATTATATATTATTTACATTATTATTATTTATTATATATTAGTTTAT-T
1 TATTATATAATTATTTAATTATATATTATTTACATTATAATTATTTATTATATATTA--TTATGT
43175078 -ATTTATATATTATTATTATATTTTTACTTG
64 CATTTATATATTATTATTATATTTTTACTTG
* *
43175108 TATTATATATTTA-TTAATTATATA-TATTATATATTATAATTATTTTATTATATATTATTATGT
1 TATTATATAATTATTTAATTATATATTATT-TACATTATAATTA-TTTATTATATATTATTATGT
*
43175171 CATTTTTATATTATTAT
64 CATTTATATATTATTAT
43175188 ACTTTTTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
92 8 0.11
93 22 0.31
94 41 0.58
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (94 bp):
TATTATATAATTATTTAATTATATATTATTTACATTATAATTATTTATTATATATTATTATGTCA
TTTATATATTATTATTATATTTTTACTTG
Found at i:43175177 original size:24 final size:23
Alignment explanation
Indices: 43175014--43175215 Score: 92
Period size: 22 Copynumber: 8.9 Consensus size: 23
43175004 TTATATTATA
*
43175014 TATTATATAATTATT-TT-ATTATA
1 TATTATAT-ATTATTATTCATT-TT
* *
43175037 TATTATTTA-CATTATT-ATTATT
1 TATTATATATTATTATTCATT-TT
43175059 TATTATATATTAGTTTATT-ATTTAT
1 TATTATATATTA--TTATTCATTT-T
* * * *
43175084 ATATTAT-TATTATATTTTTACTTG
1 -TATTATATATTAT-TATTCATTTT
* *
43175108 TATTATATATTTATTAATT-ATATA
1 TATTATATA-TTATTA-TTCATTTT
*
43175132 TATTATATATTATAATT-A-TTT
1 TATTATATATTATTATTCATTTT
43175153 TATTATATATTATTATGTCATTTT
1 TATTATATATTATTAT-TCATTTT
*
43175177 TA-TAT-TATTA-TA--CTTTTT
1 TATTATATATTATTATTCATTTT
43175195 TATCTATATATTATTA-TCATT
1 TAT-TATATATTATTATTCATT
43175216 AAAGGTTTTT
Statistics
Matches: 142, Mismatches: 18, Indels: 38
0.72 0.09 0.19
Matches are distributed among these distances:
18 7 0.05
20 3 0.02
21 26 0.18
22 27 0.19
23 27 0.19
24 23 0.16
25 23 0.16
26 6 0.04
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (23 bp):
TATTATATATTATTATTCATTTT
Found at i:43175179 original size:21 final size:21
Alignment explanation
Indices: 43175108--43175208 Score: 91
Period size: 21 Copynumber: 4.6 Consensus size: 21
43175098 TTTTTACTTG
*
43175108 TATTATATATTTATTAATTATATA
1 TATTATATA-TTA-TAATTAT-TT
43175132 TATTATATATTATAATTATTT
1 TATTATATATTATAATTATTT
*
43175153 TATTATATATTATTATGTCA-TT
1 TATTATATATTATAAT-T-ATTT
*
43175175 T-TTATATTATTATACTT-TTT
1 TATTATA-TATTATAATTATTT
43175195 TATCTATATATTAT
1 TAT-TATATATTAT
43175209 TATCATTAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
20 3 0.04
21 29 0.43
22 22 0.33
23 4 0.06
24 9 0.13
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (21 bp):
TATTATATATTATAATTATTT
Found at i:43175182 original size:26 final size:22
Alignment explanation
Indices: 43175008--43175208 Score: 67
Period size: 26 Copynumber: 8.5 Consensus size: 22
43174998 TTATTTTTAT
43175008 ATTATATATTATATAATTATTT-T
1 ATTATATA-T-TATAATTATTTAT
*
43175031 ATTATATATTAT--TTACATTATT
1 ATTATATATTATAATTA-TTTA-T
*
43175053 ATTATTTATTATATATTAGTTTATT
1 ATTATATATTATA-ATTA-TTTA-T
* *
43175078 ATTTATATATTATTATTATATTTTT
1 A-TTATATATTA-TAAT-TATTTAT
* * *
43175103 ACTTGTATTATATATTTATTAATTAT
1 A-TTATA-TAT-TA-TAATTATTTAT
43175129 ATATATTATATATTATAATTATTT-T
1 AT-TA-TATA--TTATAATTATTTAT
* *
43175154 ATTATATATTATTATGTCATTTTT
1 ATTATATATTATAAT-T-ATTTAT
*
43175178 A-TAT-TATTATACTT-TTT-T
1 ATTATATATTATAATTATTTAT
43175196 ATCTATATATTAT
1 AT-TATATATTAT
43175209 TATCATTAAA
Statistics
Matches: 138, Mismatches: 19, Indels: 44
0.69 0.09 0.22
Matches are distributed among these distances:
18 2 0.01
19 6 0.04
20 5 0.04
21 16 0.12
22 21 0.15
23 19 0.14
24 4 0.03
25 19 0.14
26 32 0.23
27 13 0.09
28 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (22 bp):
ATTATATATTATAATTATTTAT
Found at i:43175193 original size:16 final size:15
Alignment explanation
Indices: 43174998--43175216 Score: 87
Period size: 16 Copynumber: 14.0 Consensus size: 15
43174988 TTATTTAACC
43174998 TTAT-TTTTATATTA
1 TTATATTTTATATTA
*
43175012 -TATATTATATAATTA
1 TTATATTTTAT-ATTA
* *
43175027 TTTTATTATATATTA
1 TTATATTTTATATTA
*
43175042 TTTACATTATTATTATTTA
1 -TTATATT-TTA-TA-TTA
*
43175061 TTATATATTAGT-TTA
1 TTATATTTTA-TATTA
*
43175076 TTAT-TTATATATTA
1 TTATATTTTATATTA
*
43175090 TTATTATATT-T-TTA
1 TTA-TATTTTATATTA
* *
43175104 CTTGTATTATATATTTA
1 -TTATATTTTATA-TTA
*
43175121 TTA-ATTATATA-TA
1 TTATATTTTATATTA
*
43175134 TTATATATTATAATTA
1 TTATATTTTAT-ATTA
* *
43175150 TTTTATTATATATTA
1 TTATATTTTATATTA
43175165 TTATGTCATTTTTATATTA
1 TTA--T-A-TTTTATATTA
*
43175184 TTATACTTTTTTATCTA
1 TTATA-TTTTATAT-TA
43175201 -TATATTATTATCATTA
1 TTATATT-TTAT-ATTA
43175217 AAGGTTTTTT
Statistics
Matches: 155, Mismatches: 26, Indels: 46
0.68 0.11 0.20
Matches are distributed among these distances:
13 9 0.06
14 26 0.17
15 37 0.24
16 45 0.29
17 15 0.10
18 8 0.05
19 15 0.10
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (15 bp):
TTATATTTTATATTA
Found at i:43175429 original size:19 final size:19
Alignment explanation
Indices: 43175405--43175444 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
43175395 ATTATAAATA
*
43175405 TAAATTCTTTTACA-TATTT
1 TAAATT-TTATACATTATTT
43175424 TAAATTTTATACATTATTT
1 TAAATTTTATACATTATTT
43175443 TA
1 TA
43175445 CTAAACCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (19 bp):
TAAATTTTATACATTATTT
Found at i:43187733 original size:120 final size:120
Alignment explanation
Indices: 43187394--43187870 Score: 780
Period size: 120 Copynumber: 4.0 Consensus size: 120
43187384 AGGCCGCAGA
* * *
43187394 ATAGCAGATCTAGCTTTCAGATGTTTATAATGAAGC-AGATCCAAGATAATTTGGTATTCTTGTG
1 ATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGATATTCTTGTG
*
43187458 TTTACAAGAAACAAATCGAA-GACATAGCAGATTTGACTATCAGATGTTCTCAAAT
66 TTTACAAGAAACAAATC-AAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAAT
* * *
43187513 ATAGCAGATCTAGTTTTCAGATGTTTATACTGAAG-TAGATCCAAGATGATTTGGTATTCTTGTG
1 ATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGATATTCTTGTG
* *
43187577 TTTACAAGAAAGAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAAT
66 TTTACAAGAAACAAATCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAAT
43187632 ATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGATATTCTTGTG
1 ATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGATATTCTTGTG
* * *
43187697 TTTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGAC
66 TTTACAAGAAACAAATCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAAT
* * *
43187752 ATGGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCTAAGATGATTTGATATTCTTGTG
1 ATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGATATTCTTGTG
*
43187817 TTTACATGAAACAAATCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
66 TTTACAAGAAACAAATCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
43187871 CAGACTCAAG
Statistics
Matches: 335, Mismatches: 20, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
118 1 0.00
119 144 0.43
120 190 0.57
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (120 bp):
ATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGATATTCTTGTG
TTTACAAGAAACAAATCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAAT
Found at i:43189592 original size:7 final size:7
Alignment explanation
Indices: 43189580--43189747 Score: 113
Period size: 7 Copynumber: 24.1 Consensus size: 7
43189570 ACCTTATTTT
43189580 TATATTA
1 TATATTA
43189587 TATATTA
1 TATATTA
43189594 TATAATTA
1 TAT-ATTA
*
43189602 TTTTATTA
1 -TATATTA
43189610 TATATTA
1 TATATTA
*
43189617 TTTACATTA
1 --TATATTA
43189626 T-TATTA
1 TATATTA
*
43189632 TTTATTA
1 TATATTA
43189639 TATATTA
1 TATATTA
*
43189646 -GT-TTA
1 TATATTA
43189651 T-TATTTA
1 TATA-TTA
43189658 TATATTA
1 TATATTA
43189665 T-TATTA
1 TATATTA
*
43189671 TATTTTTA
1 TA-TATTA
*
43189679 CTTGTATTA
1 --TATATTA
43189688 TATATT-
1 TATATTA
*
43189694 TAT-TAA
1 TATATTA
43189700 T-TA-TA
1 TATATTA
43189705 TATATTA
1 TATATTA
43189712 TATATTA
1 TATATTA
43189719 TATATTA
1 TATATTA
43189726 TA-ATTA
1 TATATTA
*
43189732 TTTTATTA
1 -TATATTA
43189740 TATATTA
1 TATATTA
43189747 T
1 T
43189748 TATGTCATTT
Statistics
Matches: 128, Mismatches: 14, Indels: 38
0.71 0.08 0.21
Matches are distributed among these distances:
5 8 0.06
6 22 0.17
7 67 0.52
8 18 0.14
9 12 0.09
10 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (7 bp):
TATATTA
Found at i:43189628 original size:19 final size:19
Alignment explanation
Indices: 43189574--43189770 Score: 111
Period size: 20 Copynumber: 10.0 Consensus size: 19
43189564 TATTTAACCT
43189574 TATT-TTTATATTA-TATA
1 TATTATTTATATTATTATA
* *
43189591 TTATATAATTATTTTATTATA
1 -TAT-TATTTATATTATTATA
*
43189612 TATTATTTACATTATTAT-
1 TATTATTTATATTATTATA
43189630 TATTTATTATATATTAGTT-TA
1 TA-TTATT-TATATTA-TTATA
*
43189651 TTATTTATATATTATTATTATA
1 -TA-TTATTTA-TATTATTATA
* * * *
43189673 TTTTTACTTGTATTATATATT
1 -TATTATTTATATTAT-TATA
*
43189694 TATTAATTATATATATTATA
1 TATTATTTATAT-TATTATA
*
43189714 TATTA--TATATTATAATTA
1 TATTATTTATATTATTA-TA
* *
43189732 TTTTATTATATATTATTATG
1 TATTATT-TATATTATTATA
43189752 TCATT-TTTATATTATTATA
1 T-ATTATTTATATTATTATA
43189771 CTTTTTTATC
Statistics
Matches: 140, Mismatches: 22, Indels: 33
0.72 0.11 0.17
Matches are distributed among these distances:
17 4 0.03
18 16 0.11
19 29 0.21
20 44 0.31
21 31 0.22
22 16 0.11
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTATTTATATTATTATA
Found at i:43189721 original size:130 final size:130
Alignment explanation
Indices: 43189579--43189837 Score: 309
Period size: 130 Copynumber: 2.0 Consensus size: 130
43189569 AACCTTATTT
43189579 TTATATTATATAT-TATATAATTATTTTATTATATATTATT-T-ACATTATTATTATTTATTATA
1 TTATATTATATATAT-TATAATTATTTTATTATATATTATTATGACATTATTA-TA-TTATTATA
* * * *
43189641 -TATTAGTTTAT-TATTTATATATTATTATTATA-TTTTT-ACTTGTATTATATATTTATTAATT
63 CT-TT--TTTATCTATATAT-TATTATCATTAAAGTTTTTAACTTGTATTATATACTTATTAATT
43189702 ATATATA
124 ATATATA
* *
43189709 TTATA-TATTATATATTATAATTATTTTATTATATATTATTATGTCATTTTTATATTATTATACT
1 TTATATTA-TATATATTATAATTATTTTATTATATATTATTATGACATTATTATATTATTATACT
*
43189773 TTTTTATCTATATATTATTATCATTAAAGGTTTTTTAACTTGTATTATATACTTATTATTTATAT
65 TTTTTATCTATATATTATTATCATTAAA-G-TTTTTAACTTGTATTATATACTTATTAATTATAT
43189838 GTTAATAACT
Statistics
Matches: 112, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
128 16 0.14
129 8 0.07
130 45 0.40
131 10 0.09
132 33 0.29
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (130 bp):
TTATATTATATATATTATAATTATTTTATTATATATTATTATGACATTATTATATTATTATACTT
TTTTATCTATATATTATTATCATTAAAGTTTTTAACTTGTATTATATACTTATTAATTATATATA
Found at i:43189724 original size:132 final size:130
Alignment explanation
Indices: 43189580--43189837 Score: 321
Period size: 132 Copynumber: 2.0 Consensus size: 130
43189570 ACCTTATTTT
43189580 TATATTATATATTATATAATTATTTTATTATATATTATT-T-ACATTATTATTATTTATTATA-T
1 TATATTATATA-T-TATAATTATTTTATTATATATTATTATGACATTATTA-TA-TTATTATACT
* * * *
43189642 ATTAGTTTAT-TATTTATATATTATTATTATA-TTTTT-ACTTGTATTATATATTTATTAATTAT
62 -TT--TTTATCTATATAT-TATTATCATTAAAGTTTTTAACTTGTATTATATACTTATTAATTAT
43189704 ATATATTA
123 ATATATTA
* *
43189712 TATATTATATATTATAATTATTTTATTATATATTATTATGTCATTTTTATATTATTATACTTTTT
1 TATATTATATATTATAATTATTTTATTATATATTATTATGACATTATTATATTATTATACTTTTT
*
43189777 TATCTATATATTATTATCATTAAAGGTTTTTTAACTTGTATTATATACTTATTATTTATAT
66 TATCTATATATTATTATCATTAAA-G-TTTTTAACTTGTATTATATACTTATTAATTATAT
43189838 GTTAATAACT
Statistics
Matches: 111, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
128 16 0.14
129 6 0.05
130 35 0.32
131 10 0.09
132 44 0.40
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (130 bp):
TATATTATATATTATAATTATTTTATTATATATTATTATGACATTATTATATTATTATACTTTTT
TATCTATATATTATTATCATTAAAGTTTTTAACTTGTATTATATACTTATTAATTATATATATTA
Found at i:43189737 original size:101 final size:100
Alignment explanation
Indices: 43189582--43189769 Score: 258
Period size: 101 Copynumber: 1.9 Consensus size: 100
43189572 CTTATTTTTA
* *
43189582 TATTATATATTATATAATTATTTTATTATATATTATTTACATTATTATTATTTATTATATATTAG
1 TATTATATATTATATAATTATTATATTATATATTA-TTACATTATAATTATTTATTATATATTA-
43189647 TTTAT-T-ATTTATATATTATTATTATATTTTTACTTG
64 -TTATGTCATTTATATATTATTATTATATTTTTACTTG
*
43189683 TATTATATATT-TATTAATTATATATATTATATATTA-TATATTATAATTATTTTATTATATATT
1 TATTATATATTATA-TAATTAT-TATATTATATATTATTACATTATAATTA-TTTATTATATATT
*
43189746 ATTATGTCATTTTTATATTATTAT
63 ATTATGTCATTTATATATTATTAT
43189770 ACTTTTTTAT
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
99 4 0.05
100 14 0.18
101 47 0.60
102 13 0.17
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (100 bp):
TATTATATATTATATAATTATTATATTATATATTATTACATTATAATTATTTATTATATATTATT
ATGTCATTTATATATTATTATTATATTTTTACTTG
Found at i:43189759 original size:24 final size:23
Alignment explanation
Indices: 43189714--43189797 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 23
43189704 ATATATTATA
*
43189714 TATTATATATTATAATT-A-TTT
1 TATTATATATTATTATTCATTTT
43189735 TATTATATATTATTATGTCATTTT
1 TATTATATATTATTAT-TCATTTT
*
43189759 TA-TAT-TATTA-TA--CTTTTT
1 TATTATATATTATTATTCATTTT
43189777 TATCTATATATTATTA-TCATT
1 TAT-TATATATTATTATTCATT
43189798 AAAGGTTTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
18 7 0.13
20 3 0.06
21 22 0.42
22 8 0.15
23 7 0.13
24 5 0.10
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (23 bp):
TATTATATATTATTATTCATTTT
Found at i:43189766 original size:26 final size:22
Alignment explanation
Indices: 43189578--43189747 Score: 72
Period size: 23 Copynumber: 7.5 Consensus size: 22
43189568 TAACCTTATT
43189578 TTTATATTATATATTATATAATTA
1 TTTATATTATATA-T-TATAATTA
43189602 TTT-TATTATATATTAT--TTA
1 TTTATATTATATATTATAATTA
* *
43189621 CATTATTATTATTTATTATATATTA
1 -TTTA-TATTATATATTATA-ATTA
*
43189646 GTTTATTATTTATATATTATTATTA
1 -TTTA-TA-TTATATATTATAATTA
*
43189671 TATT-T-TTACTTGTATTAT-A-TA
1 T-TTATATTA--TATATTATAATTA
*
43189692 TTTATTAATTATATA-TATTATATA
1 TTTA-T-ATTATATATTATAAT-TA
*
43189716 TTATATATTATA-ATTAT-TTTA
1 TT-TATATTATATATTATAATTA
43189737 TTATATATTAT
1 TT-TATATTAT
43189748 TATGTCATTT
Statistics
Matches: 118, Mismatches: 9, Indels: 41
0.70 0.05 0.24
Matches are distributed among these distances:
19 3 0.03
20 4 0.03
21 25 0.21
22 21 0.18
23 26 0.22
24 12 0.10
25 17 0.14
26 10 0.08
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (22 bp):
TTTATATTATATATTATAATTA
Found at i:43190008 original size:19 final size:19
Alignment explanation
Indices: 43189984--43190023 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
43189974 ATTATAAATA
*
43189984 TAAATTCTTTTACA-TATTT
1 TAAATT-TTATACATTATTT
43190003 TAAATTTTATACATTATTT
1 TAAATTTTATACATTATTT
43190022 TA
1 TA
43190024 CTAAACCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (19 bp):
TAAATTTTATACATTATTT
Found at i:43190094 original size:28 final size:29
Alignment explanation
Indices: 43190041--43190101 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
43190031 AATATATTTT
* *
43190041 ATATTTTTTATAATTATTATTCTTA-TAA
1 ATATTTTTTATAATCATTATTATTATTAA
*
43190069 ATATTTTTTATTATACATTA-TATTATTAA
1 ATATTTTTTATAAT-CATTATTATTATTAA
43190098 ATAT
1 ATAT
43190102 CACATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 17 0.61
29 11 0.39
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
ATATTTTTTATAATCATTATTATTATTAA
Found at i:43192798 original size:19 final size:19
Alignment explanation
Indices: 43192776--43192829 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
43192766 TTATTATTAT
43192776 TTTTAAATGTTATTGTAAA
1 TTTTAAATGTTATTGTAAA
*
43192795 TTTT---T-TTA-T-T-AT
1 TTTTAAATGTTATTGTAAA
43192807 TTTTAAATGTTATTGTAAA
1 TTTTAAATGTTATTGTAAA
43192826 TTTT
1 TTTT
43192830 CTATAAAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 14
0.62 0.05 0.33
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 1 0.04
15 4 0.15
16 4 0.15
17 1 0.04
18 1 0.04
19 9 0.35
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (19 bp):
TTTTAAATGTTATTGTAAA
Found at i:43192806 original size:31 final size:31
Alignment explanation
Indices: 43192769--43192829 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
43192759 TGATACTTTA
43192769 TTATTATTTTTAAATGTTATTGTAAATTTTT
1 TTATTATTTTTAAATGTTATTGTAAATTTTT
43192800 TTATTATTTTTAAATGTTATTGTAAATTTT
1 TTATTATTTTTAAATGTTATTGTAAATTTT
43192830 CTATAAAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (31 bp):
TTATTATTTTTAAATGTTATTGTAAATTTTT
Found at i:43194911 original size:14 final size:14
Alignment explanation
Indices: 43194889--43194927 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
43194879 AAATAGTTAA
*
43194889 TTAAATTATTTTAT
1 TTAATTTATTTTAT
*
43194903 TTAATTTATATTAT
1 TTAATTTATTTTAT
43194917 TTAATTATATT
1 TTAATT-TATT
43194928 GTACATTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTAATTTATTTTAT
Found at i:43217960 original size:94 final size:93
Alignment explanation
Indices: 43217718--43218075 Score: 315
Period size: 94 Copynumber: 3.8 Consensus size: 93
43217708 ATACATTGTT
* * *
43217718 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGCGTGTTGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCTGATGCATGTCCCAG
* *
43217782 ACATGTCTTACACT-A-GCACAACTCT-TAGCC
63 ACATGTCTTACACTGATAC-CATCTCTGT-GCC
* * * * * *
43217812 GATG-CGTGTCCCAAACA-CGTTTTACACTGGCTATC-TCTGTCGA-GGCTGATGCATGTCCTAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCTGATGCATGTCCCAG
*
43217873 ACATGTCTTACACTGATACTCATCTCTGTTCC
63 ACATGTCTTACACTGATAC-CATCTCTGTGCC
* *
43217905 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATTATAGTATGGCTGATGCATGTTCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACA
*
43217970 TGTCTTACA--G-TAGCCCTCGTCTGGATGCC
66 TGTCTTACACTGATA-CCATC-TCT-G-TGCC
* * * * * * **
43217999 GATGCCATGTCCTAGACATGGTCTTATACTGGTTCTCATAATGTGGCTGAAACATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACA
43218064 TGTCTTACACTG
66 TGTCTTACACTG
43218076 GCGCACAAAT
Statistics
Matches: 215, Mismatches: 32, Indels: 32
0.77 0.11 0.11
Matches are distributed among these distances:
91 35 0.16
92 22 0.10
93 27 0.13
94 111 0.52
95 18 0.08
96 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACA
TGTCTTACACTGATACCATCTCTGTGCC
Found at i:43217961 original size:47 final size:46
Alignment explanation
Indices: 43217717--43218077 Score: 182
Period size: 47 Copynumber: 7.7 Consensus size: 46
43217707 GATACATTGT
* * *
43217717 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGCGTGT
1 TGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATAGTA--TG-GC
* * * *
43217767 TGATGCATGTCCCAGACATGTCTTACACTAGC-A-CA-ACTCTTAGC
1 TGATGCATGTCCCAGACATGTCTTACACTGGCTATCATAGT-ATGGC
* * * * * *
43217811 CGATGCGTGTCCCAAACACGTTTTACACTGGCTATC-TCTGTCGA-GGC
1 TGATGCATGTCCCAGACATGTCTTACACTGGCTATCAT-AGT--ATGGC
* * * * *
43217858 TGATGCATGTCCTAGACATGTCTTACACT-GATACTCAT-CTCTGTTC
1 TGATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATAGTATG-GC
* *
43217904 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATTATAGTATGGC
1 TGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATAGTATGGC
* * * ** * * *
43217952 TGATGCATGTTCCAGACATGTCTTACAGTAGCCCTCGTCTGGAT-GC
1 TGATGCATGTCCCAGACATGTCTTACACTGGCTATCAT-AGTATGGC
* * * * * * *
43217998 CGATGCCATGTCCTAGACATGGTCTTATACTGGTTCTCATAATGTGGC
1 TGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATAGTATGGC
**
43218046 TGAAACATGTCCCAGACATGTCTTACACTGGC
1 TGATGCATGTCCCAGACATGTCTTACACTGGC
43218078 GCACAAATCA
Statistics
Matches: 229, Mismatches: 63, Indels: 42
0.69 0.19 0.13
Matches are distributed among these distances:
44 27 0.12
45 3 0.01
46 43 0.19
47 83 0.36
48 48 0.21
49 20 0.09
50 5 0.02
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (46 bp):
TGATGCATGTCCCAGACATGTCTTACACTGGCTATCATAGTATGGC
Found at i:43225395 original size:18 final size:18
Alignment explanation
Indices: 43225355--43225398 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
43225345 ATATCATTCG
**
43225355 AGGATTTTAAATTCTTTT
1 AGGATTTTAAATTCTTCA
*
43225373 GGGATTTTAAATTCTTCA
1 AGGATTTTAAATTCTTCA
43225391 AGGATTTT
1 AGGATTTT
43225399 CATATAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.50
Consensus pattern (18 bp):
AGGATTTTAAATTCTTCA
Found at i:43228696 original size:2 final size:2
Alignment explanation
Indices: 43228689--43228728 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
43228679 CAGCAATGTA
43228689 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43228728 A
1 A
43228729 AAATTTTATG
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:43231849 original size:27 final size:25
Alignment explanation
Indices: 43231789--43231857 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 25
43231779 TTAGCGATTC
43231789 AATATAAATATATATTAATTATTAT
1 AATATAAATATATATTAATTATTAT
*
43231814 --T-TAACATATATAATTAATTTTTAT
1 AATATAA-ATATAT-ATTAATTATTAT
43231838 AATAT-AATATAT-TTAGATTA
1 AATATAAATATATATTA-ATTA
43231858 GGTTAGACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
22 3 0.08
23 10 0.28
24 14 0.39
25 6 0.17
26 2 0.06
27 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (25 bp):
AATATAAATATATATTAATTATTAT
Found at i:43233651 original size:26 final size:26
Alignment explanation
Indices: 43233622--43233671 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
43233612 ATAAATAAAC
43233622 AGTTAATAGAATCAGTTGGTCAAATT
1 AGTTAATAGAATCAGTTGGTCAAATT
* *
43233648 AGTTATTAGAATTAGTTGGTCAAA
1 AGTTAATAGAATCAGTTGGTCAAA
43233672 CCAGTCACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (26 bp):
AGTTAATAGAATCAGTTGGTCAAATT
Found at i:43236503 original size:18 final size:18
Alignment explanation
Indices: 43236477--43236527 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
43236467 AGGGTTTCTT
43236477 GGTTTTTTTGGGGGGTTTA
1 GGTTTTTTTGGGGGG-TTA
***
43236496 GGTTTTTTTTTTGGGTTA
1 GGTTTTTTTGGGGGGTTA
43236514 GG-TTTTTTGGGGGG
1 GGTTTTTTTGGGGGG
43236528 GGGCTTAATG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 9 0.35
18 5 0.19
19 12 0.46
ACGTcount: A:0.04, C:0.00, G:0.41, T:0.55
Consensus pattern (18 bp):
GGTTTTTTTGGGGGGTTA
Found at i:43237383 original size:30 final size:30
Alignment explanation
Indices: 43237347--43237408 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
43237337 TTTTGAAAAA
43237347 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
43237377 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
43237407 CA
1 CA
43237409 ATATAAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:43237647 original size:79 final size:77
Alignment explanation
Indices: 43237518--43237751 Score: 267
Period size: 77 Copynumber: 3.0 Consensus size: 77
43237508 AAATAGAATC
** ** * * *
43237518 TGAAAAACAGATTTTGAAAATACCTC-GACATGTGA-CTCGAGGCTCAACTCACATCTCGCAATG
1 TGAAAAACAGAAATTGAAAATACCTCAG-CGCGTGAGC-CAAGGCTCAACTCACCTCTCGCAATA
43237581 TGAGTTGATTTTTT
64 TGAGTTGATTTTTT
* * * * * *
43237595 TGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAAT
1 TGAAAAACAGAAATTG--AAAATACCTCAGCGCGTGAGC-CAAGGCTCAACTCACCTCTCGCAAT
43237659 ATGAGTTGATTTTTT
63 ATGAGTTGATTTTTT
* *
43237674 TGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATG
1 TGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATG
43237739 AGTTGATTTTTT
66 AGTTGATTTTTT
43237751 T
1 T
43237752 TTGAAAGGCG
Statistics
Matches: 134, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
76 2 0.01
77 66 0.49
79 62 0.46
80 4 0.03
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (77 bp):
TGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTT
Found at i:43237733 original size:244 final size:243
Alignment explanation
Indices: 43237180--43237990 Score: 891
Period size: 244 Copynumber: 3.3 Consensus size: 243
43237170 AACAGACATT
43237180 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * * ** *
43237245 TTGATTTTTGAAACTTAA-CTTGAAAAGCAGATTTTGAAAATACCTCGATGTGTGACT-GAAGGT
66 TTGATTTTTGAAAATGAATC-TGAAAAACAGATTTTGAAAATACCTCGACATGTGACTCG-AGGC
* *
43237308 TCAACTCACCTCTCACAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGACTCAACTCA
129 TCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA-AAT-ACCTC-
* * * * *
43237370 ACTCTCGCAGAAAT-TAAAAAGCTCAACTCACCTCTCGCAATATAAGTTGAATTTTTTTG
191 AGTGT-G-TG--ATCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
* *
43237429 AAAAAAAACAGAAATTGAAAATAGCTCAGTACGTGAGCCAAGGCTCAACTCACTTCTCGCAATAT
1 ---AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
43237494 GAGTTGATTTTTGAAAATAGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACTCGAG
63 GAGTTGATTTTTGAAAAT-GAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACTCGAG
* * * * *
43237559 GCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCA
127 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCTCA
43237624 GTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
192 GTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* *
43237676 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
** ** *
43237741 TTGATTTTTTTTTGAAAGGCGGAAAT-TGAAAAACAGAAATTGAAAATACCTCGGCATGTGAC-C
66 TTGA----TTTTTGAAA--ATG-AATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACTC
** * * * *
43237804 TGAGGCTCAACTTGCCTTTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTG--AAATTAC
124 -GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATAC
* * *
43237866 CTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG
188 CTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * ** ** *
43237919 AAAAACAGAAATTGAAAATACCTCAGCA--TG-TCTTGAGGCTCAACTCATTTCTCACAATATGA
1 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
43237981 GTTGATTTTT
65 GTTGATTTTT
43237991 TTTTGAAAAA
Statistics
Matches: 491, Mismatches: 52, Indels: 47
0.83 0.09 0.08
Matches are distributed among these distances:
237 5 0.01
240 1 0.00
241 31 0.06
243 32 0.07
244 99 0.20
246 15 0.03
247 9 0.02
248 50 0.10
249 70 0.14
250 4 0.01
251 1 0.00
252 78 0.16
253 67 0.14
254 6 0.01
255 19 0.04
256 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (243 bp):
AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGAAAATGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACTCGAGGCTC
AACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCTCAGTGT
GTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:43237752 original size:79 final size:78
Alignment explanation
Indices: 43237531--43237772 Score: 276
Period size: 79 Copynumber: 3.1 Consensus size: 78
43237521 AAAACAGATT
** * * *
43237531 TTGAAAATACCTC-GACATGTGA-CTCGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTT
1 TTGAAAATACCTCAG-CGCGTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
43237594 TTGAAAAATATAAA
65 TTGAAAGACAGAAA
* * * *
43237608 TTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 TTG--AAAATACCTCAGCGCGTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
43237672 TTTGAAAGACAGAAA
64 TTTGAAAGACAGAAA
*
43237687 TTGAAAATAGCTCAGCGCGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 TTGAAAATACCTCAGCGCGTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
* *
43237751 TTTGAAAGGCGGAAA
64 TTTGAAAGACAGAAA
43237766 TTGAAAA
1 TTGAAAA
43237773 ACAGAAATTG
Statistics
Matches: 142, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
76 2 0.01
77 50 0.35
79 86 0.61
80 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (78 bp):
TTGAAAATACCTCAGCGCGTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAGACAGAAA
Found at i:43237835 original size:93 final size:93
Alignment explanation
Indices: 43237673--43237844 Score: 229
Period size: 93 Copynumber: 1.8 Consensus size: 93
43237663 GTTGATTTTT
* * * * *
43237673 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
43237738 GAGTTGATTTTTTTTTGAAAGGCGGAAA
66 GAGTTGATTTTTTTTTGAAAGGCGGAAA
* * * ** *
43237766 TTGAAAAACAGAAATTGAAAATACCTCGGCATGTGA-CCTGAGGCTCAACTTGCCTTTCACAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCC-AAGGCTCAACTCACCTCTCACAATA
43237830 CGAGTTGATTTTTTT
65 CGAGTTGATTTTTTT
43237845 GACAACAGAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
92 2 0.03
93 65 0.97
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (93 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTTTGAAAGGCGGAAA
Found at i:43237837 original size:170 final size:168
Alignment explanation
Indices: 43237594--43238067 Score: 452
Period size: 151 Copynumber: 2.9 Consensus size: 168
43237584 GTTGATTTTT
* * ** * *
43237594 TTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTG-AAAAATACCTCAGCATGTGACCTGAAGCTCAACTCACCTCTCACAAT
* *
43237659 ATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACT
65 ACGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCA--GCGTG-GCCTAAGGCTCAACT
43237723 CACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCGGAAA
126 CACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCGGAAA
* * ** *
43237766 TTGAAAAACAGAAATTG-AAAATACCTCGGCATGTGACCTGAGGCTCAACTTGCCTTTCACAATA
1 TTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCTGAAGCTCAACTCACCTCTCACAATA
* * * *
43237830 CGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
66 CGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCT
43237895 CTCGCAATATGAGTTGA-----TTTT------------
131 CTCGCAATATGAGTTGATTTTTTTTTGAAAGGCGGAAA
* * **
43237916 TTGAAAAACAGAAATTG-AAAATACCTCAGCATGT--CTTGAGGCTCAACTCATTTCTCACAATA
1 TTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCTGAAGCTCAACTCACCTCTCACAATA
* * * * * *
43237978 TGAGTTGATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAA
66 CGAGTTGA--TTTTTTTG-AAAACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCA
** *
43238043 TTTCTCGCAATATGAGTTGAATTTT
128 CCTCTCGCAATATGAGTTGATTTTT
43238068 GAAAACAAAA
Statistics
Matches: 261, Mismatches: 32, Indels: 34
0.80 0.10 0.10
Matches are distributed among these distances:
148 29 0.11
150 41 0.16
151 59 0.23
162 4 0.02
166 2 0.01
167 37 0.14
169 19 0.07
170 55 0.21
172 15 0.06
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (168 bp):
TTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCTGAAGCTCAACTCACCTCTCACAATA
CGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCT
CTCGCAATATGAGTTGATTTTTTTTTGAAAGGCGGAAA
Found at i:43238021 original size:77 final size:74
Alignment explanation
Indices: 43237766--43238117 Score: 437
Period size: 74 Copynumber: 4.7 Consensus size: 74
43237756 AAGGCGGAAA
* * *
43237766 TTGAAAAACAGAAATTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTTGC-CTT-TCACAAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGT--CTTGAGGCTCAAC-T-CATTTCTCACAAT
*
43237829 ACGAGTTGATTTTT
62 ATGAGTTGA-TTTT
* * * * ** *
43237843 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
43237907 GTTGATTTT
66 GTTGATTTT
43237916 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
43237981 GTTGATTTTTTT
66 GTTGA---TTTT
* *
43237993 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
*
43238058 GTTGA-ATT
66 GTTGATTTT
* *
43238066 TTG-AAAACAAAAATT-AAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 TTGAAAAACAGAAATTGAAAA-TACCTCAGCATGTCTTGAGGCTCAACTCATTT
43238118 TGAACAGAAA
Statistics
Matches: 248, Mismatches: 20, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
71 4 0.02
72 42 0.17
73 15 0.06
74 86 0.35
76 26 0.10
77 75 0.30
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
GTTGATTTT
Found at i:43238049 original size:151 final size:146
Alignment explanation
Indices: 43237766--43238118 Score: 469
Period size: 151 Copynumber: 2.4 Consensus size: 146
43237756 AAGGCGGAAA
* * *
43237766 TTGAAAAACAGAAATTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTTGC-CTTTCACAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGT--CTTGAGGCTCAAC-T-CATTTTCACAATA
* * * *
43237830 CGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
62 CGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCT
*
43237895 CTCGCAATATGAGTTGATTTT
127 CTCGCAATATGAGTTGA-ATT
*
43237916 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTT-TCACAATACGA
* **
43237981 GTTGATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTT
65 GTTGA--TTTTTTTG-AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCT
43238046 CTCGCAATATGAGTTGAATT
127 CTCGCAATATGAGTTGAATT
* *
43238066 TTG-AAAACAAAAATT-AAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTT
1 TTGAAAAACAGAAATTGAAAA-TACCTCAGCATGTCTTGAGGCTCAACTCATTTT
43238119 GAACAGAAAT
Statistics
Matches: 183, Mismatches: 14, Indels: 14
0.87 0.07 0.07
Matches are distributed among these distances:
146 1 0.01
147 3 0.02
148 32 0.17
149 42 0.23
150 46 0.25
151 59 0.32
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (146 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTTCACAATACGAG
TTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCTCTCG
CAATATGAGTTGAATT
Found at i:43238137 original size:49 final size:49
Alignment explanation
Indices: 43238071--43238166 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
43238061 GAATTTTGAA
*
43238071 AACAAAAATTAAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAAAAATTAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
* *
43238120 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAAAAATTAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
43238167 CTCGCAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (49 bp):
AACAAAAATTAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:43238141 original size:121 final size:121
Alignment explanation
Indices: 43237999--43238238 Score: 417
Period size: 121 Copynumber: 2.0 Consensus size: 121
43237989 TTTTTTGAAA
*
43237999 AACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
*
43238064 TTTTGAAAACAAAAATTAAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
66 TTTTGAAAACAAAAATTAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
* * *
43238120 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
* *
43238185 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
66 TTTTGAAAACAAAAATTAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
43238239 CTCGCAATAT
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 112 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (121 bp):
AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
TTTTGAAAACAAAAATTAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:43238200 original size:72 final size:72
Alignment explanation
Indices: 43238120--43238344 Score: 283
Period size: 72 Copynumber: 3.0 Consensus size: 72
43238110 ACTCATTTTG
43238120 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
43238185 TTTTGAA
66 TTTTGAA
43238192 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
43238257 TTTTCTTTTGAA
66 -----TTTTGAA
* * * * * ** *
43238269 AGATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGC
1 A-ACAGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
43238333 TG-ATTTTGAA
62 TGAATTTTGAA
43238343 AA
1 AA
43238345 AGTAGAAATT
Statistics
Matches: 136, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
72 65 0.48
73 1 0.01
74 8 0.06
77 8 0.06
78 19 0.14
79 1 0.01
80 33 0.24
81 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:43238408 original size:54 final size:55
Alignment explanation
Indices: 43238308--43238413 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
43238298 GAACCGAGGC
* *
43238308 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
43238362 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
43238414 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 34 0.76
55 11 0.24
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:43238420 original size:13 final size:13
Alignment explanation
Indices: 43238393--43238426 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
43238383 GAGTTGATTC
*
43238393 TTGAACAACATAAA
1 TTGAA-AACAGAAA
43238407 TTGAAAACAGAAA
1 TTGAAAACAGAAA
43238420 TTGAAAA
1 TTGAAAA
43238427 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:43238474 original size:140 final size:140
Alignment explanation
Indices: 43238264--43238751 Score: 872
Period size: 140 Copynumber: 3.5 Consensus size: 140
43238254 GAATTTTCTT
*
43238264 TTGAAAGATAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
43238328 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
*
43238393 TTGAACAACATAAA
127 TTGAACAACGTAAA
43238407 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
43238472 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
43238537 ACAACGTAAA
131 ACAACGTAAA
*
43238547 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
43238612 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCTACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
43238677 ACAACGTAAA
131 ACAACGTAAA
43238687 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTC-CTCTCTCGCAATATGA
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCAC-CTCTCGCAATATGA
43238751 G
65 G
43238752 TTGAGTTTCC
Statistics
Matches: 336, Mismatches: 7, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
139 4 0.01
140 304 0.90
142 22 0.07
143 6 0.02
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:43238548 original size:54 final size:54
Alignment explanation
Indices: 43238448--43238553 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
43238438 GACCTGAGGC
*
43238448 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
43238502 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
43238554 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:43249338 original size:23 final size:24
Alignment explanation
Indices: 43249302--43249348 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
43249292 GGGTTCTTGG
43249302 TTTTTTTTGGGGGGTTAGTTTTTTC
1 TTTTTTTT-GGGGGTTAGTTTTTTC
43249327 TTTTTTTT-GGGGTTAGTTTTTT
1 TTTTTTTTGGGGGTTAGTTTTTT
43249349 GGGGGGGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.04, C:0.02, G:0.26, T:0.68
Consensus pattern (24 bp):
TTTTTTTTGGGGGTTAGTTTTTTC
Found at i:43254738 original size:13 final size:13
Alignment explanation
Indices: 43254720--43254758 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
43254710 TTTAAAAATC
*
43254720 ATAAAAATTATAA
1 ATAAAATTTATAA
43254733 ATAAAATTTAT-A
1 ATAAAATTTATAA
43254745 A-AAAATTTATAA
1 ATAAAATTTATAA
43254757 AT
1 AT
43254759 TTATAAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 9 0.39
12 4 0.17
13 10 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAAAATTTATAA
Found at i:43272389 original size:18 final size:18
Alignment explanation
Indices: 43272362--43272399 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
43272352 AATTTGGAAT
*
43272362 AAAACAGAAAATTTTGGA
1 AAAACAGAAAATTTTAGA
*
43272380 AAAACTGAAAATTTTAGA
1 AAAACAGAAAATTTTAGA
43272398 AA
1 AA
43272400 CAAAGTCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.05, G:0.13, T:0.24
Consensus pattern (18 bp):
AAAACAGAAAATTTTAGA
Found at i:43274604 original size:30 final size:31
Alignment explanation
Indices: 43274563--43274624 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
43274553 GAGAATCAGT
43274563 TGGCTAAAGAATGAGG-AGATGACAACCATC
1 TGGCTAAAGAATGAGGAAGATGACAACCATC
* *
43274593 TGGCTAGAGAATGAGGAAGATGACAACTATC
1 TGGCTAAAGAATGAGGAAGATGACAACCATC
43274624 T
1 T
43274625 TCATCTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 15 0.52
31 14 0.48
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.19
Consensus pattern (31 bp):
TGGCTAAAGAATGAGGAAGATGACAACCATC
Found at i:43275442 original size:24 final size:23
Alignment explanation
Indices: 43275411--43275463 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
43275401 AAAAAAATTA
*
43275411 AAAAATAAAAATCAATAAAGTTAT
1 AAAAATAAAAATCAATAAA-ATAT
*
43275435 AAAAAT-AAAATTAATAAAATAT
1 AAAAATAAAAATCAATAAAATAT
43275457 AAAAATA
1 AAAAATA
43275464 TATTAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 11 0.42
24 6 0.23
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (23 bp):
AAAAATAAAAATCAATAAAATAT
Found at i:43275523 original size:27 final size:26
Alignment explanation
Indices: 43275439--43275523 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
43275429 AGTTATAAAA
*
43275439 ATAAAATTAATAAAATAT-AAAAATAT
1 ATAAAATTTATAAAATATAAAAAAT-T
* * *
43275465 ATTAAAAATTATAAAAAATAACAAATT
1 A-TAAAATTTATAAAATATAAAAAATT
*
43275492 GTAAAATTTATAAAATCATAAAAAATT
1 ATAAAATTTATAAAAT-ATAAAAAATT
43275519 ATAAA
1 ATAAA
43275524 TGAAAAAAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
26 14 0.30
27 28 0.60
28 5 0.11
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (26 bp):
ATAAAATTTATAAAATATAAAAAATT
Found at i:43275815 original size:18 final size:18
Alignment explanation
Indices: 43275794--43275855 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
43275784 TTTTTTATGA
*
43275794 TTTTATAAAATTTACAACT
1 TTTTATAAAATTTA-AAAT
*
43275813 TTTTATAAATTTTTAAAAT
1 TTTTATAAA-ATTTAAAAT
* *
43275832 TTTTA-AAATTTTAATAT
1 TTTTATAAAATTTAAAAT
43275849 TTTTATA
1 TTTTATA
43275856 GTTTTATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
17 13 0.34
18 4 0.11
19 17 0.45
20 4 0.11
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTATAAAATTTAAAAT
Found at i:43275834 original size:8 final size:9
Alignment explanation
Indices: 43275812--43275853 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
43275802 AATTTACAAC
43275812 TTTTTATAAA
1 TTTTTA-AAA
43275822 TTTTTAAAA
1 TTTTTAAAA
43275831 TTTTTAAAA
1 TTTTTAAAA
*
43275840 -TTTTAATA
1 TTTTTAAAA
43275848 TTTTTA
1 TTTTTA
43275854 TAGTTTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 7 0.23
9 17 0.57
10 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:43275860 original size:9 final size:9
Alignment explanation
Indices: 43275776--43275860 Score: 57
Period size: 9 Copynumber: 9.3 Consensus size: 9
43275766 ATTCTATATA
43275776 TTTTATAATT
1 TTTTATAA-T
*
43275786 TTTTATGA-
1 TTTTATAAT
*
43275794 TTTTATAAA
1 TTTTATAAT
* *
43275803 ATTTACAACT
1 TTTTATAA-T
43275813 TTTTATAAAT
1 TTTTAT-AAT
*
43275823 TTTTAAAAT
1 TTTTATAAT
*
43275832 TTTTAAAAT
1 TTTTATAAT
*
43275841 TTTAAT-AT
1 TTTTATAAT
*
43275849 TTTTATAGT
1 TTTTATAAT
43275858 TTT
1 TTT
43275861 ATTAAAATTT
Statistics
Matches: 59, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
8 14 0.24
9 26 0.44
10 17 0.29
11 2 0.03
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:43275861 original size:17 final size:17
Alignment explanation
Indices: 43275793--43275853 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
43275783 ATTTTTTATG
43275793 ATTTTATAAAA-TTTACAA
1 ATTTT-TAAAATTTTA-AA
*
43275811 CTTTTTATAAATTTTTAAA
1 ATTTTTA-AAA-TTTTAAA
*
43275830 ATTTTTAAAATTTTAAT
1 ATTTTTAAAATTTTAAA
43275847 ATTTTTA
1 ATTTTTA
43275854 TAGTTTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 15 0.41
18 10 0.27
19 8 0.22
20 4 0.11
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTTAAAATTTTAAA
Found at i:43276781 original size:53 final size:54
Alignment explanation
Indices: 43276721--43276826 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 54
43276711 AAAAAAGAAA
43276721 TTTCTTTTACCTT-CCCAAAACTTTTACTAC-CC-AAACCTCCCAAAACTTTTTCT
1 TTTCTTTTACCTTCCCCAAAAC-TTTACTACTCCTAAACC-CCCAAAACTTTTTCT
* * *
43276774 TTTCTTTTGCTTTCCCCAAAACTTTACTTCTTCCTAAACCCCCAAAACTTTTT
1 TTTCTTTTACCTTCCCCAAAACTTTACTAC-TCCTAAACCCCCAAAACTTTTT
43276827 TTTCGAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
53 18 0.39
54 8 0.17
55 15 0.33
56 5 0.11
ACGTcount: A:0.25, C:0.33, G:0.01, T:0.42
Consensus pattern (54 bp):
TTTCTTTTACCTTCCCCAAAACTTTACTACTCCTAAACCCCCAAAACTTTTTCT
Found at i:43277572 original size:16 final size:15
Alignment explanation
Indices: 43277551--43277598 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
43277541 GATGTGAATA
43277551 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
43277567 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
43277582 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
43277598 A
1 A
43277599 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:43277574 original size:24 final size:24
Alignment explanation
Indices: 43277547--43277602 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
43277537 TAATGATGTG
*
43277547 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
43277571 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
43277595 AATAATAA
1 AATAATAA
43277603 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:43277581 original size:8 final size:8
Alignment explanation
Indices: 43277547--43277598 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
43277537 TAATGATGTG
*
43277547 AATAATAA
1 AATATTAA
43277555 AATATATAA
1 AATAT-TAA
43277564 AATA-TAA
1 AATATTAA
43277571 AATATTAA
1 AATATTAA
*
43277579 AATATCAA
1 AATATTAA
*
43277587 AATATTAG
1 AATATTAA
43277595 AATA
1 AATA
43277599 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:43277778 original size:25 final size:25
Alignment explanation
Indices: 43277750--43277798 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
43277740 CGTGATAATA
** *
43277750 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATACATACATAACATAGTG
43277775 TTAAAAATACATACATAACATAGT
1 TTAAAAATACATACATAACATAGT
43277799 TAAGATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (25 bp):
TTAAAAATACATACATAACATAGTG
Found at i:43277860 original size:25 final size:25
Alignment explanation
Indices: 43277827--43277897 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
43277817 TAACATGTAA
*
43277827 AAAAAATATATAAATAATATAATAT
1 AAAAGATATATAAATAATATAATAT
* * * *
43277852 TAAAGATATATACATAAAATAGTAT
1 AAAAGATATATAAATAATATAATAT
* **
43277877 AAAATATATATATGTAATATA
1 AAAAGATATATAAATAATATA
43277898 TGTAATATAG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (25 bp):
AAAAGATATATAAATAATATAATAT
Found at i:43277948 original size:22 final size:22
Alignment explanation
Indices: 43277923--43277971 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
43277913 AAAATATACC
*
43277923 TAATATATTA-AAAGAATATATA
1 TAATATAATATAAAGAATATA-A
*
43277945 TAATATAATATTAAGAATATAA
1 TAATATAATATAAAGAATATAA
43277967 TAATA
1 TAATA
43277972 ACAAAAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (22 bp):
TAATATAATATAAAGAATATAA
Found at i:43277964 original size:23 final size:23
Alignment explanation
Indices: 43277892--43277971 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 23
43277882 ATATATATGT
*
43277892 AATATATGTAATATAGA-ATTTAA-
1 AATATATATAATATA-ATA-TTAAG
** * *
43277915 AATATACCTAATATATTA-AAAG
1 AATATATATAATATAATATTAAG
43277937 AATATATATAATATAATATTAAG
1 AATATATATAATATAATATTAAG
43277960 AATATA-ATAATA
1 AATATATATAATA
43277972 ACAAAAAAGG
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
21 2 0.04
22 21 0.46
23 23 0.50
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (23 bp):
AATATATATAATATAATATTAAG
Found at i:43278540 original size:28 final size:29
Alignment explanation
Indices: 43278458--43278622 Score: 257
Period size: 29 Copynumber: 5.8 Consensus size: 29
43278448 AGGTACAAGT
* *
43278458 GTGGTGGAGAAG-GTGTGGTAGTGGAGTTG
1 GTGGTGGAAAAGAGTG-GCTAGTGGAGTTG
43278487 GTGGTGGAAAAGAGTGGCTAGTGGAGTTG
1 GTGGTGGAAAAGAGTGGCTAGTGGAGTTG
43278516 GTGGTGGAAAAG-GTGGCTAGTGGAGTTG
1 GTGGTGGAAAAGAGTGGCTAGTGGAGTTG
43278544 GTGGTGGAAAAGAGTGGCTAGTGGAG-TG
1 GTGGTGGAAAAGAGTGGCTAGTGGAGTTG
*
43278572 GTGGTGG-AAAGTGTGGCTAGTGGAGTTG
1 GTGGTGGAAAAGAGTGGCTAGTGGAGTTG
43278600 GTGGTGGAAAAGGAGTGGCTAGT
1 GTGGTGGAAAA-GAGTGGCTAGT
43278623 TGAGAAAAGT
Statistics
Matches: 127, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
27 17 0.13
28 46 0.36
29 51 0.40
30 13 0.10
ACGTcount: A:0.22, C:0.03, G:0.50, T:0.25
Consensus pattern (29 bp):
GTGGTGGAAAAGAGTGGCTAGTGGAGTTG
Found at i:43278546 original size:57 final size:56
Alignment explanation
Indices: 43278458--43278622 Score: 269
Period size: 57 Copynumber: 2.9 Consensus size: 56
43278448 AGGTACAAGT
* *
43278458 GTGGTGGAGAAGGTGTGGTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGTTG
1 GTGGTGGAAAAGGTG-GCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAG-TG
43278516 GTGGTGGAAAAGGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGTG
1 GTGGTGGAAAAGGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGTG
43278572 GTGGTGG-AAAGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGT
1 GTGGTGGAAAAG-GTGGCTAGTGGAGTTGGTGGTGGAAAA-GAGTGGCTAGT
43278623 TGAGAAAAGT
Statistics
Matches: 103, Mismatches: 2, Indels: 5
0.94 0.02 0.05
Matches are distributed among these distances:
55 4 0.04
56 36 0.35
57 49 0.48
58 14 0.14
ACGTcount: A:0.22, C:0.03, G:0.50, T:0.25
Consensus pattern (56 bp):
GTGGTGGAAAAGGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGTG
Found at i:43279527 original size:67 final size:66
Alignment explanation
Indices: 43279373--43279679 Score: 335
Period size: 67 Copynumber: 4.8 Consensus size: 66
43279363 TGAGCCGAGA
* *
43279373 CTCAACTCACCTCTCGCAATATG-GTTAATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTGA-AAACAGAAATT-AAAATACCTCAGCGTGT
43279437 CCGAGG
64 --GA-G
*
43279443 CTCAACTCACCTTTCGCAATATGAGTTGATTTTGAAAACA-AAATTAAAATACCTCAGCGTGTCT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTAAAATACCTCAGCGTG--T
43279507 GAG
64 GAG
*
43279510 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAACAGAAATTGAAA-A-CTCAGC--GT
1 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTGAAAACAGAAATTAAAATACCTCAGCGTGT
43279570 GAG
64 GAG
* * *
43279573 CTCAACTCA-C-CTCGCAATA-GA---GA-TTTGAAAACAG-AA-TGAAATACCTCAGCATGAG-
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTAAAATACCTCAGCGTGTGA
43279628 G
66 G
43279629 CTCAACTCACCT-TCGCAATATGAGTTGATTTTTGAAAACAGAAATTAAAAT
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAACAGAAATTAAAAT
43279680 CTGAGCCAAC
Statistics
Matches: 209, Mismatches: 7, Indels: 47
0.79 0.03 0.18
Matches are distributed among these distances:
53 5 0.02
54 7 0.03
55 12 0.06
56 10 0.05
57 13 0.06
58 2 0.01
60 2 0.01
61 11 0.05
62 1 0.00
63 24 0.11
64 2 0.01
65 6 0.03
67 35 0.17
68 23 0.11
69 18 0.09
70 28 0.13
71 10 0.05
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (66 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTAAAATACCTCAGCGTGTGA
G
Found at i:43279812 original size:68 final size:69
Alignment explanation
Indices: 43279735--43280174 Score: 519
Period size: 68 Copynumber: 6.5 Consensus size: 69
43279725 CTCATGACGA
43279735 GCTCAACTCACCTCTCGCAATATGAGTT-ATTTTGAAAACAGAAATTGAAATTACCTCA-CGTGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAA-TACCTCAGCGTGT
43279798 CCGAG
65 CCGAG
* *
43279803 GCTCAACTCACCTCTCGCAATATGAG-TGATTTTGAAAAAAGAAATTAAAATACCTCAGCGTGTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATACCTCAGCGTGTC
43279867 CTGAG
66 C-GAG
43279872 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AACAGAAATTGAAAAACAAAATGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAACAGAAATTG-------AAAT----A
* *
43279935 ACTCAGCGTG-ACGAG
54 CCTCAGCGTGTCCGAG
43279950 GCTCAACTCACCTCTC-CAATATGAG-T-A-TTTGAAAACAGAAA-TGAAATACCTCAGCGTGTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATACCTCAGCGTGTC
*
43280010 TGAG
66 CGAG
43280014 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACA-AAATTGAAATACCTCA-C--GTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATACCTCAGCGTGTC
*
43280075 TGA-
66 CGAG
*
43280078 GCTCAACTCA-CTCT-GCAATATGAGTTGA-TTTGAAAACA-AAATTAAAATA-CTCA-CGTGTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATACCTCAGCGTGTC
*
43280137 TGAG
66 CGAG
*
43280141 GCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTT
43280175 CCTTGAAAGC
Statistics
Matches: 332, Mismatches: 10, Indels: 62
0.82 0.02 0.15
Matches are distributed among these distances:
60 5 0.02
61 20 0.06
62 20 0.06
63 24 0.07
64 33 0.10
65 29 0.09
66 4 0.01
67 17 0.05
68 75 0.23
69 38 0.11
70 3 0.01
71 5 0.02
73 4 0.01
74 2 0.01
75 9 0.03
76 5 0.02
77 9 0.03
78 19 0.06
79 1 0.00
80 10 0.03
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (69 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATACCTCAGCGTGTC
CGAG
Found at i:43279920 original size:361 final size:373
Alignment explanation
Indices: 43279368--43280064 Score: 1034
Period size: 361 Copynumber: 1.9 Consensus size: 373
43279358 GCATGTGAGC
43279368 CGAGACTCAACTCACCTCTCGCAATATGGTTAATTTTGACAAACAGAAATTGAAATTACCTCAGC
1 CGAGACTCAACTCACCTCTCGCAATATGGTTAATTTTGACAAACAGAAATTGAAATTACCTCAGC
* *
43279433 GTGTCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTGAAAACAAAATTAAAATACCTC
66 GTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAAAAATTAAAATACCTC
43279498 AGCGTGTCTGAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACAGAAA-T-TG-AA
131 AGCGTGTCTGAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACAGAAATTATGAAA
*
43279560 AACTCAGCGT-GA-GCTCAACTCACCTC-GCAATA-GAG-ATTTGAAAACAG-AATGAAATACCT
196 AACTCAGCGTAGAGGCTCAACTCACCTCTCCAATATGAGTATTTGAAAACAGAAATGAAATACCT
43279619 CAGC-ATGAGGCTCAACTCACCT-TCGCAATATGAGTTGATTTTTGAAAACAGAAATTAAAATCT
261 CAGCGATGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAACA-AAATTAAAATCT
43279682 GAGCCAACTACCGCAATATGATTGAAAAAAAAAAAAAAAAAACCTCATGA
324 GAGCCAACTACCGCAATATGATTGAAAAAAAAAAAAAAAAAACCTCATGA
43279732 CGAG-CTCAACTCACCTCTCGCAATATGAGTT-ATTTTGA-AAACAGAAATTGAAATTACCTCA-
1 CGAGACTCAACTCACCTCTCGCAATATG-GTTAATTTTGACAAACAGAAATTGAAATTACCTCAG
43279793 CGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAG-TGATTTTGAAAAAAGAAATTAAAATACC
65 CGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAA-AAATTAAAATACC
43279857 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AACAGAAATTGA
129 TCAGCGTGT-CTGA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACAGAAATT--
43279920 AAAACAAAATGAAAAACTCAGCGTGACGAGGCTCAACTCACCTCTCCAATATGAGTATTTGAAAA
190 --------ATGAAAAACTCAGCGT-A-GAGGCTCAACTCACCTCTCCAATATGAGTATTTGAAAA
*
43279985 CAGAAATGAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
245 CAGAAATGAAATACCTCAGC--G-ATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
*
43280050 AAACAAAATTGAAAT
307 AAACAAAATTAAAAT
43280065 ACCTCACGTC
Statistics
Matches: 298, Mismatches: 5, Indels: 39
0.87 0.01 0.11
Matches are distributed among these distances:
360 13 0.04
361 65 0.22
362 34 0.11
363 60 0.20
364 7 0.02
373 2 0.01
374 12 0.04
377 2 0.01
378 14 0.05
379 5 0.02
380 3 0.01
381 12 0.04
382 16 0.05
385 9 0.03
386 28 0.09
387 16 0.05
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (373 bp):
CGAGACTCAACTCACCTCTCGCAATATGGTTAATTTTGACAAACAGAAATTGAAATTACCTCAGC
GTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAAAAATTAAAATACCTC
AGCGTGTCTGAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACAGAAATTATGAAA
AACTCAGCGTAGAGGCTCAACTCACCTCTCCAATATGAGTATTTGAAAACAGAAATGAAATACCT
CAGCGATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAATTAAAATCTGA
GCCAACTACCGCAATATGATTGAAAAAAAAAAAAAAAAAACCTCATGA
Found at i:43279992 original size:62 final size:65
Alignment explanation
Indices: 43279920--43280173 Score: 332
Period size: 64 Copynumber: 4.0 Consensus size: 65
43279910 CAGAAATTGA
*
43279920 AAAACAAAATGAAA-AACTCAGCGTGAC-GAGGCTCAACTCACCTCTC-CAATATGAG-T-ATTT
1 AAAACAAAATGAAATAACTCA-CGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
43279980 G
65 G
*
43279981 AAAACAGAAATGAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AAAACA-AAATGAAATAACTCA-CGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
43280046 TTG
63 TTG
*
43280049 AAAACAAAATTGAAATACCTCAC--GTCTGA-GCTCAACTCA-CTCT-GCAATATGAGTTGATTT
1 AAAACAAAA-TGAAATAACTCACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
43280109 G
65 G
* *
43280110 AAAACAAAATTAAA-ATACTCACGTGTCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTT
1 AAAACAAAATGAAATA-ACTCACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
43280174 TCCTTGAAAG
Statistics
Matches: 175, Mismatches: 4, Indels: 24
0.86 0.02 0.12
Matches are distributed among these distances:
59 1 0.01
60 9 0.05
61 19 0.11
62 28 0.16
63 25 0.14
64 33 0.19
65 32 0.18
66 1 0.01
67 5 0.03
68 22 0.13
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (65 bp):
AAAACAAAATGAAATAACTCACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTG
Found at i:43280036 original size:142 final size:133
Alignment explanation
Indices: 43279735--43280174 Score: 507
Period size: 127 Copynumber: 3.3 Consensus size: 133
43279725 CTCATGACGA
*
43279735 GCTCAACTCACCTCTCGCAATATGAGTT-A---TTTTGAAAACAGAAATTGAAATTACCTCACGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACA-AAATTGAAA-TAACTCAC--
*
43279796 GTCCGAGGCTCAACTCACCTCTCGCAATATGAGTGATTTTGAAAAAAGAAATTAAAATACCTCAG
62 GT-CGAGGCTCAACTCACCTCTC-CAATATGAGTGA-TTTGAAAACAGAAATTAAAATACCTCAG
43279861 CGTGTCCTGAG
124 CGTGT-CTGAG
43279872 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAACAGAAATTGAAAAACAAAA-TGAAA-A
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT---------TTG-AAAACAAAATTGAAATA
*
43279935 ACTCAGCGTGACGAGGCTCAACTCACCTCTCCAATATGAGT-ATTTGAAAACAGAAA-TGAAATA
56 ACTCA-CGT--CGAGGCTCAACTCACCTCTCCAATATGAGTGATTTGAAAACAGAAATTAAAATA
43279998 CCTCAGCGTGTCTGAG
118 CCTCAGCGTGTCTGAG
*
43280014 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTGAAAACAAAATTGAAATACCTCACGTCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAATTGAAATAACTCACGTC-
*
43280076 GA-GCTCAACTCA-CTCTGCAATATGAGTTGATTTGAAAACA-AAATTAAAATA-CTCA-CGTGT
65 GAGGCTCAACTCACCTCTCCAATATGAG-TGATTTGAAAACAGAAATTAAAATACCTCAGCGTGT
43280136 CTGAG
129 CTGAG
*
43280141 GCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTT
43280175 CCTTGAAAGC
Statistics
Matches: 270, Mismatches: 8, Indels: 57
0.81 0.02 0.17
Matches are distributed among these distances:
127 52 0.19
128 19 0.07
129 28 0.10
130 12 0.04
131 5 0.02
137 28 0.10
138 1 0.00
139 2 0.01
141 2 0.01
142 35 0.13
143 17 0.06
144 13 0.05
145 1 0.00
146 12 0.04
147 25 0.09
148 1 0.00
149 5 0.02
150 6 0.02
151 6 0.02
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (133 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAATTGAAATAACTCACGTCG
AGGCTCAACTCACCTCTCCAATATGAGTGATTTGAAAACAGAAATTAAAATACCTCAGCGTGTCT
GAG
Found at i:43290275 original size:15 final size:15
Alignment explanation
Indices: 43290257--43290308 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
43290247 ATACACTAAT
*
43290257 ATAATAATAGCTATA
1 ATAATAATAGCAATA
*
43290272 ATAATACTAGCAATA
1 ATAATAATAGCAATA
* * *
43290287 GTAATAATTTGTAATA
1 ATAATAA-TAGCAATA
43290303 ATAATA
1 ATAATA
43290309 TATACACAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 18 0.62
16 11 0.38
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.35
Consensus pattern (15 bp):
ATAATAATAGCAATA
Found at i:43290947 original size:24 final size:23
Alignment explanation
Indices: 43290903--43290946 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
43290893 GGTTTCTTGG
43290903 TTTTTTTTGGGGGTTAGTTTTTC
1 TTTTTTTTGGGGGTTAGTTTTTC
*
43290926 TTTTTTTT-TGGGTTAGTTTTT
1 TTTTTTTTGGGGGTTAGTTTTT
43290947 TGGGGGGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.05, C:0.02, G:0.23, T:0.70
Consensus pattern (23 bp):
TTTTTTTTGGGGGTTAGTTTTTC
Found at i:43305499 original size:3 final size:3
Alignment explanation
Indices: 43305491--43305539 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
43305481 CCTTTTGTTT
43305491 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
43305539 T
1 T
43305540 ATTTCATCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:43308416 original size:48 final size:48
Alignment explanation
Indices: 43308345--43308564 Score: 253
Period size: 48 Copynumber: 4.6 Consensus size: 48
43308335 TGTGTGCTAC
* *
43308345 TGTAAGACCATGTCTGGGACATGGAATCGGCCACCTTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACCATATGAGAGCCAG
* *
43308393 TGTAAGACCATGTTTGGGACATGGCATCGGCCACCATAGGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACCATATGAGAGCCAG
* * ** * ** *
43308441 TGTAAGACCATGTCTGGGATATGGCATC-GACATTGAGACAAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCA-CCATATGAGAGCCAG
* * * * *
43308489 TGTAAGACCACGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACCATATGAGAGCCAG
* *
43308537 TGTCAGACCATGTCTAGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
43308565 AGAAAATTCA
Statistics
Matches: 144, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
47 3 0.02
48 139 0.97
49 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.21
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCACCATATGAGAGCCAG
Done.