Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 64 of 345
Found at i:19952995 original size:13 final size:13
Alignment explanation
Indices: 19952974--19953005 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
19952964 GCTTGGATCA
*
19952974 TCATCAAATAAAT
1 TCATAAAATAAAT
19952987 TCATAAAATAAAT
1 TCATAAAATAAAT
19953000 TCATAA
1 TCATAA
19953006 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:19953252 original size:30 final size:30
Alignment explanation
Indices: 19953217--19953274 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
19953207 CCTCGACTCT
*
19953217 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
19953247 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
19953275 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:19959765 original size:42 final size:42
Alignment explanation
Indices: 19959706--19959827 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
19959696 TAGGATTAGT
*
19959706 TGAGATTACGTGTAAGACCATATCTGGGATATGGGATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
19959748 TGAGATTTCGTTTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
** * *
19959791 TGAGATCCCATGTAAGACCAAATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
19959828 TGGTATGGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 33 0.49
43 34 0.51
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:19962173 original size:37 final size:37
Alignment explanation
Indices: 19962096--19962174 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
19962086 TGTTTTGGCA
* * * *
19962096 TGTTTACGGATGGATTAGCTCTTCGAAGTATCTAGCG
1 TGTTTACAGACGGATTAGCTCTTCGAAGCATCTAGAG
* * *
19962133 TGTTTACAGACGGATTAGCTCTTCGGAGCATTTGGAG
1 TGTTTACAGACGGATTAGCTCTTCGAAGCATCTAGAG
19962170 TGTTT
1 TGTTT
19962175 TTGATTGGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.37
Consensus pattern (37 bp):
TGTTTACAGACGGATTAGCTCTTCGAAGCATCTAGAG
Found at i:19964583 original size:46 final size:46
Alignment explanation
Indices: 19964446--19964667 Score: 188
Period size: 46 Copynumber: 4.8 Consensus size: 46
19964436 TCACTTGTAT
* * * *
19964446 GAGCTAGTGTAAGACATGTTTGGGGCATGCATCGGCCAT--ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-GACGA
* * * *
19964492 GAGCAAGTGTAAGACCATGTCTAGGACATGGCATCGGCATAGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
* *
19964540 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* * *
19964587 -AGCTAGTGGAAGACATGTCTGGGACATGCATTGG-CTACGATA--A
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGA
*
19964630 GTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
19964668 ACATATATAC
Statistics
Matches: 144, Mismatches: 21, Indels: 21
0.77 0.11 0.11
Matches are distributed among these distances:
43 2 0.01
44 9 0.06
45 16 0.11
46 68 0.47
47 25 0.17
48 23 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:19965899 original size:21 final size:21
Alignment explanation
Indices: 19965873--19965951 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
19965863 TGAAATGGCC
* *
19965873 ACACGGGCATGTTGCCCTTCT
1 ACACGGGCGTGTTGCCCCTCT
*
19965894 ACACGGGCGTGTTGCCCCGCT
1 ACACGGGCGTGTTGCCCCTCT
19965915 ACACGGGCGTGTTGCCCCTCT
1 ACACGGGCGTGTTGCCCCTCT
*
19965936 AAACGGGCGTG-TGCCC
1 ACACGGGCGTGTTGCCC
19965952 TGTTTCAAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 5 0.09
21 48 0.91
ACGTcount: A:0.13, C:0.35, G:0.30, T:0.22
Consensus pattern (21 bp):
ACACGGGCGTGTTGCCCCTCT
Found at i:19971433 original size:35 final size:35
Alignment explanation
Indices: 19971387--19971554 Score: 228
Period size: 35 Copynumber: 4.8 Consensus size: 35
19971377 AGTGTTTTGT
19971387 TTGGATTAGCTCTTATGAGCATTGGCGTATTACGA
1 TTGGATTAGCTCTTATGAGCATTGGCGTATTACGA
* * *
19971422 TTGGATTAGCTCTTATGAGCACTGGCATGTTACGA
1 TTGGATTAGCTCTTATGAGCATTGGCGTATTACGA
* *
19971457 TTGGATTAGCTCTTATGAGCATTGGCGTGTTACGG
1 TTGGATTAGCTCTTATGAGCATTGGCGTATTACGA
* * * * *
19971492 TTGGACTAGCTCTTATGAGCACTGGTGTATTTCGG
1 TTGGATTAGCTCTTATGAGCATTGGCGTATTACGA
* *
19971527 TTGGATTAGCTTTTATGAGCATCGGCGT
1 TTGGATTAGCTCTTATGAGCATTGGCGT
19971555 GTTATGGTTG
Statistics
Matches: 117, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 117 1.00
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.37
Consensus pattern (35 bp):
TTGGATTAGCTCTTATGAGCATTGGCGTATTACGA
Found at i:19971502 original size:70 final size:70
Alignment explanation
Indices: 19971387--19971568 Score: 265
Period size: 70 Copynumber: 2.6 Consensus size: 70
19971377 AGTGTTTTGT
* * * *
19971387 TTGGATTAGCTCTTATGAGCATTGGCGTATTACGATTGGATTAGCTCTTATGAGCACTGGCATGT
1 TTGGATTAGCTCTTATGAGCATTGGCGTGTTACGGTTGGACTAGCTCTTATGAGCACTGGCATAT
19971452 TACGA
66 TACGA
**
19971457 TTGGATTAGCTCTTATGAGCATTGGCGTGTTACGGTTGGACTAGCTCTTATGAGCACTGGTGTAT
1 TTGGATTAGCTCTTATGAGCATTGGCGTGTTACGGTTGGACTAGCTCTTATGAGCACTGGCATAT
* *
19971522 TTCGG
66 TACGA
* * *
19971527 TTGGATTAGCTTTTATGAGCATCGGCGTGTTATGGTTGGACT
1 TTGGATTAGCTCTTATGAGCATTGGCGTGTTACGGTTGGACT
19971569 GACGATATAC
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 101 1.00
ACGTcount: A:0.19, C:0.15, G:0.29, T:0.37
Consensus pattern (70 bp):
TTGGATTAGCTCTTATGAGCATTGGCGTGTTACGGTTGGACTAGCTCTTATGAGCACTGGCATAT
TACGA
Found at i:19977741 original size:19 final size:20
Alignment explanation
Indices: 19977704--19977742 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
19977694 CACCCACGCC
19977704 ACACGCCCGTGCTCGCCACCA
1 ACACGCCCGTGC-CGCCACCA
19977725 ACACGCCCGTG-CGCCACC
1 ACACGCCCGTGCCGCCACC
19977743 CTACAGCAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.18, C:0.54, G:0.21, T:0.08
Consensus pattern (20 bp):
ACACGCCCGTGCCGCCACCA
Found at i:19979259 original size:6 final size:6
Alignment explanation
Indices: 19979248--19979293 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
19979238 TCCTCTTATC
* *
19979248 TTTTTA TTTTTA TTTTTTA TTTTTA TTTTTC TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
19979294 CAATTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
6 30 0.83
7 6 0.17
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:19979270 original size:12 final size:13
Alignment explanation
Indices: 19979243--19979288 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
19979233 TTGAATCCTC
19979243 TTATCTTTTTATTT
1 TTAT-TTTTTATTT
19979257 TTATTTTTTATTT
1 TTATTTTTTATTT
*
19979270 TTA-TTTTTCTTT
1 TTATTTTTTATTT
19979282 TTATTTT
1 TTATTTT
19979289 CATTTCAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 11 0.37
13 15 0.50
14 4 0.13
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (13 bp):
TTATTTTTTATTT
Found at i:20009312 original size:45 final size:45
Alignment explanation
Indices: 20009245--20009415 Score: 227
Period size: 45 Copynumber: 3.8 Consensus size: 45
20009235 CAAAGGATGA
* * *
20009245 CATAACGTCTTTTAGTTATGGTCTTACTCATTTTTATCATGACGC
1 CATAACATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACGC
* * * *
20009290 CATAGCAAT-TTTCAACTATGGTCTTACTCATTTTAATCATGATGC
1 CATAAC-ATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACGC
* * *
20009335 TATAACATCTTTCAGCTATAGTCTTACTCATTTTTATCATGACGT
1 CATAACATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACGC
*
20009380 CATAACATCTTTCAGCTACGGTCTTACTCATTTTTA
1 CATAACATCTTTCAGCTATGGTCTTACTCATTTTTA
20009416 GGGGTCTAAC
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
44 2 0.02
45 104 0.97
46 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.43
Consensus pattern (45 bp):
CATAACATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACGC
Found at i:20010872 original size:42 final size:42
Alignment explanation
Indices: 20010806--20010963 Score: 201
Period size: 42 Copynumber: 3.7 Consensus size: 42
20010796 TTACTAAGAT
*
20010806 TTCATGTAAGACCATATCTAGGATATGGCACCAATATGAGAC
1 TTCATGTAAGACCATATCTAGGATATGGCATCAATATGAGAC
* * * *
20010848 TTCGTGTAAGACCATATCTGGGATATGGAATCAATATGAAAC
1 TTCATGTAAGACCATATCTAGGATATGGCATCAATATGAGAC
* * * *
20010890 TTCATGTAAGACTATAGCTAGGCTATTGGCATCAATACGAGA-
1 TTCATGTAAGACCATATCTAGGATA-TGGCATCAATATGAGAC
*
20010932 TCACATGTAAGACCATATCTAGGATATGGCAT
1 T-TCATGTAAGACCATATCTAGGATATGGCAT
20010964 TGGTACGATA
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
42 64 0.66
43 33 0.34
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (42 bp):
TTCATGTAAGACCATATCTAGGATATGGCATCAATATGAGAC
Found at i:20010948 original size:85 final size:84
Alignment explanation
Indices: 20010806--20010960 Score: 213
Period size: 85 Copynumber: 1.8 Consensus size: 84
20010796 TTACTAAGAT
* * * * *
20010806 TTCATGTAAGACCATATCTAGGATATGGCACCAATATGAGACTTCGTGTAAGACCATATCTGGGA
1 TTCATGTAAGACCATAGCTAGGATATGGCACCAATACGAGACTACATGTAAGACCATATCTAGGA
20010871 TATGGAATCAATATGAAAC
66 TATGGAATCAATATGAAAC
* * *
20010890 TTCATGTAAGACTATAGCTAGGCTATTGGCATCAATACGAGA-TCACATGTAAGACCATATCTAG
1 TTCATGTAAGACCATAGCTAGGATA-TGGCACCAATACGAGACT-ACATGTAAGACCATATCTAG
20010954 GATATGG
64 GATATGG
20010961 CATTGGTACG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 23 0.38
85 38 0.62
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (84 bp):
TTCATGTAAGACCATAGCTAGGATATGGCACCAATACGAGACTACATGTAAGACCATATCTAGGA
TATGGAATCAATATGAAAC
Found at i:20022340 original size:21 final size:21
Alignment explanation
Indices: 20022315--20022379 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
20022305 TAGCCCTCGG
20022315 GCTTCTGTTTAGCACTTATGT
1 GCTTCTGTTTAGCACTTATGT
* * * *
20022336 GCTTCAG-TTAAC-CTT-CGA
1 GCTTCTGTTTAGCACTTATGT
20022354 GCTT-TCGTTTAGCACTTATGT
1 GCTTCT-GTTTAGCACTTATGT
20022375 GCTTC
1 GCTTC
20022380 AGTTAGACTT
Statistics
Matches: 31, Mismatches: 8, Indels: 9
0.65 0.17 0.19
Matches are distributed among these distances:
18 6 0.19
19 7 0.23
20 7 0.23
21 11 0.35
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.43
Consensus pattern (21 bp):
GCTTCTGTTTAGCACTTATGT
Found at i:20022345 original size:39 final size:40
Alignment explanation
Indices: 20022297--20022397 Score: 143
Period size: 39 Copynumber: 2.6 Consensus size: 40
20022287 GCTCTAGTGA
* *
20022297 GCTTTAGTTAGCCCTCGGGCTTCT-GTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCTCGTTTAGCACTTATGT
* *
20022336 GCTTCAGTTAACCTTCGAGCTT-TCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCTCGTTTAGCACTTATGT
*
20022375 GCTTCAGTTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
20022398 AGATCACGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.02
39 52 0.98
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.40
Consensus pattern (40 bp):
GCTTCAGTTAGCCTTCGGGCTTCTCGTTTAGCACTTATGT
Found at i:20024728 original size:14 final size:14
Alignment explanation
Indices: 20024709--20024746 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
20024699 CACAATTAAC
20024709 TTATACTTAAAATA
1 TTATACTTAAAATA
20024723 TTATACTTAAAATA
1 TTATACTTAAAATA
*
20024737 TTATGCTTAA
1 TTATACTTAA
20024747 GACCATTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (14 bp):
TTATACTTAAAATA
Found at i:20025470 original size:24 final size:23
Alignment explanation
Indices: 20025434--20025479 Score: 83
Period size: 24 Copynumber: 2.0 Consensus size: 23
20025424 GGGGTCACAT
20025434 GCCCGTGGGGATAGGCCGTGTGA
1 GCCCGTGGGGATAGGCCGTGTGA
20025457 GCCCTGTGGGGATAGGCCGTGTG
1 GCCC-GTGGGGATAGGCCGTGTG
20025480 GCTCACACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.11, C:0.22, G:0.48, T:0.20
Consensus pattern (23 bp):
GCCCGTGGGGATAGGCCGTGTGA
Found at i:20026737 original size:16 final size:15
Alignment explanation
Indices: 20026696--20026737 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
20026686 AATCATCATC
*
20026696 TCATATTTCCATATA
1 TCATATTTTCATATA
*
20026711 TCA-ATTATCATATA
1 TCATATTTTCATATA
20026725 TCATCATTTTCAT
1 TCAT-ATTTTCAT
20026738 GTATTTCAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 12 0.55
15 3 0.14
16 7 0.32
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (15 bp):
TCATATTTTCATATA
Found at i:20028757 original size:14 final size:14
Alignment explanation
Indices: 20028738--20028766 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20028728 TTCTCCTTTT
20028738 AGAAATTTTTTTGA
1 AGAAATTTTTTTGA
20028752 AGAAATTTTTTTGA
1 AGAAATTTTTTTGA
20028766 A
1 A
20028767 CAAAATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (14 bp):
AGAAATTTTTTTGA
Found at i:20040421 original size:45 final size:45
Alignment explanation
Indices: 20040357--20040486 Score: 174
Period size: 45 Copynumber: 2.9 Consensus size: 45
20040347 GTTGTACAGT
* *
20040357 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* * * *
20040402 ATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCAGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
20040447 ATTTTTCGGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
20040487 ATAAATTCGG
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
43 11 0.15
44 13 0.17
45 51 0.68
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
Found at i:20055793 original size:42 final size:43
Alignment explanation
Indices: 20055707--20055820 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
20055697 GTTTCAATGT
* * * * * *
20055707 CATATCCCCGATATGGTCTTACATGAAAT-ATCATATCGATGC
1 CATATCCCAGACATGGTCTTATACGAAATCATCATACCGAGGC
* *
20055749 CATGTCCCTGACATGGTCTTATACGAAATCA-CATACCGAGGC
1 CATATCCCAGACATGGTCTTATACGAAATCATCATACCGAGGC
* *
20055791 CATATCCCAGATATGGTCTTATACGGAATC
1 CATATCCCAGACATGGTCTTATACGAAATC
20055821 TTAATAACCT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 59 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
CATATCCCAGACATGGTCTTATACGAAATCATCATACCGAGGC
Found at i:20061687 original size:122 final size:123
Alignment explanation
Indices: 20061513--20061758 Score: 485
Period size: 122 Copynumber: 2.0 Consensus size: 123
20061503 CTCATTAAGG
20061513 ATTCTAAGAATATAAATTATAACCCATAATTATTTTTTTACAATTTTTAATGATTTTCCCAAATT
1 ATTCTAAGAATATAAATTATAACCCATAATTATTTTTTTACAATTTTTAATGATTTTCCCAAATT
20061578 GGAACAGGGGATTTCAAAATCATTTTGACTCTATCTCACAACAATTCAAATATCTCAT
66 GGAACAGGGGATTTCAAAATCATTTTGACTCTATCTCACAACAATTCAAATATCTCAT
20061636 ATTCTAAGAATATAAATTATAA-CCATAATTATTTTTTTACAATTTTTAATGATTTTCCCAAATT
1 ATTCTAAGAATATAAATTATAACCCATAATTATTTTTTTACAATTTTTAATGATTTTCCCAAATT
20061700 GGAACAGGGGATTTCAAAATCATTTTGACTCTATCTCACAACAATTCAAATATCTCAT
66 GGAACAGGGGATTTCAAAATCATTTTGACTCTATCTCACAACAATTCAAATATCTCAT
20061758 A
1 A
20061759 ATATGAACTT
Statistics
Matches: 123, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
122 101 0.82
123 22 0.18
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (123 bp):
ATTCTAAGAATATAAATTATAACCCATAATTATTTTTTTACAATTTTTAATGATTTTCCCAAATT
GGAACAGGGGATTTCAAAATCATTTTGACTCTATCTCACAACAATTCAAATATCTCAT
Found at i:20062145 original size:23 final size:23
Alignment explanation
Indices: 20062115--20062182 Score: 136
Period size: 23 Copynumber: 3.0 Consensus size: 23
20062105 TACAAGGTAG
20062115 TCACAAAGTCATTCTCATGACTC
1 TCACAAAGTCATTCTCATGACTC
20062138 TCACAAAGTCATTCTCATGACTC
1 TCACAAAGTCATTCTCATGACTC
20062161 TCACAAAGTCATTCTCATGACT
1 TCACAAAGTCATTCTCATGACT
20062183 TACTCATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (23 bp):
TCACAAAGTCATTCTCATGACTC
Found at i:20062548 original size:95 final size:97
Alignment explanation
Indices: 20062367--20062636 Score: 287
Period size: 95 Copynumber: 2.8 Consensus size: 97
20062357 CCATGACCTG
* *
20062367 GACATGGTCTTACACTAGCTCACACATCAAAG-TCGATGCCATGTCCCAGACATGGTCTTACATT
1 GACATGGTCTTACACTAGCTCACATATC-AAGCT-GATGCCATGTCCCAGACATGGTCTTACACT
* * *
20062431 GGCTCTCATCTATCGGTACCGATGCCATCTCCCA
64 AGCTCTCATATATCGGTACCGATGCCATCGCCCA
* * *
20062465 GACATGGTCTTACACT-G-ACACATATCAAGCTGATGCCATGTCCCAGACATGGTTTTGCACTAG
1 GACATGGTCTTACACTAGCTCACATATCAAGCTGATGCCATGTCCCAGACATGGTCTTACACTAG
* * * * *
20062528 CTCTCATATCTTGAG-GCCGATGTCATGGCCCA
66 CTCTCATATATCG-GTACCGATGCCATCGCCCA
* * * * *
20062560 AACATGGTCTTACACTAGCTCTCATATCTCAATGCCGATGCCATGTCTCAGACATGATCTTACAC
1 GACATGGTCTTACACTAGCTCACATA--TCAA-GCTGATGCCATGTCCCAGACATGGTCTTACAC
*
20062625 TAGCTTTCATAT
63 TAGCTCTCATAT
20062637 TTCCCTAGCA
Statistics
Matches: 143, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
95 69 0.48
96 10 0.07
97 6 0.04
98 16 0.11
99 4 0.03
100 38 0.27
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (97 bp):
GACATGGTCTTACACTAGCTCACATATCAAGCTGATGCCATGTCCCAGACATGGTCTTACACTAG
CTCTCATATATCGGTACCGATGCCATCGCCCA
Found at i:20062597 original size:50 final size:49
Alignment explanation
Indices: 20062349--20062637 Score: 255
Period size: 50 Copynumber: 5.9 Consensus size: 49
20062339 TAGGGTAAGG
* * ** * *
20062349 TGCCGACGCCATGACCTGGACATGGTCTTACACTAGCTCACACA-TCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATTCAA
* * * * * **
20062397 AGTCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATCTATCGG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-TCAA
* * * *
20062447 TACCGATGCCATCTCCCAGACATGGTCTTACACT-G-ACACATA-TCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATTCAA
* * * **
20062493 -GCTGATGCCATGTCCCAGACATGGTTTTGCACTAGCTCTCATATCTTGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-TCAA
* * * *
20062542 GGCCGATGTCATGGCCCAAACATGGTCTTACACTAGCTCTCATATCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-TCAA
* * *
20062592 TGCCGATGCCATGTCTCAGACATGATCTTACACTAGCTTTCATATT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATT
20062638 TCCCTAGCAT
Statistics
Matches: 187, Mismatches: 47, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
45 28 0.15
46 3 0.02
47 5 0.03
48 37 0.20
49 4 0.02
50 110 0.59
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATTCAA
Found at i:20064156 original size:77 final size:77
Alignment explanation
Indices: 20064029--20064178 Score: 300
Period size: 77 Copynumber: 1.9 Consensus size: 77
20064019 TTATAAACAC
20064029 GACAATCGAGTCAAGCATGGGGTGTTACACAACTGTTTAACATTGCTTTAAAAAATATGGTGAAA
1 GACAATCGAGTCAAGCATGGGGTGTTACACAACTGTTTAACATTGCTTTAAAAAATATGGTGAAA
20064094 AGTTAAAATCAT
66 AGTTAAAATCAT
20064106 GACAATCGAGTCAAGCATGGGGTGTTACACAACTGTTTAACATTGCTTTAAAAAATATGGTGAAA
1 GACAATCGAGTCAAGCATGGGGTGTTACACAACTGTTTAACATTGCTTTAAAAAATATGGTGAAA
20064171 AGTTAAAA
66 AGTTAAAA
20064179 CGCCCATCTT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (77 bp):
GACAATCGAGTCAAGCATGGGGTGTTACACAACTGTTTAACATTGCTTTAAAAAATATGGTGAAA
AGTTAAAATCAT
Found at i:20065185 original size:51 final size:51
Alignment explanation
Indices: 20065122--20065241 Score: 141
Period size: 51 Copynumber: 2.4 Consensus size: 51
20065112 CTCAAACTTA
* * * *
20065122 CTTCATACTTCATCCGGAATTATTACATTGTTGTTATAACTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACATTGTTGCTATAACTTCAAAAAGAG
* * * * *
20065173 CTTCATATTTCATCCGGAATAATTACTTTGTTGCTCTAGCTTTAAAAAGGG
1 CTTCATATTTCATCCGGAATAATTACATTGTTGCTATAACTTCAAAAAGAG
* *
20065224 CTTCATGTTTTATCCGGA
1 CTTCATATTTCATCCGGA
20065242 TAACTTAGTT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATAATTACATTGTTGCTATAACTTCAAAAAGAG
Found at i:20067572 original size:46 final size:46
Alignment explanation
Indices: 20067496--20067681 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 46
20067486 TTGCACATAG
* *
20067496 TCACATATCACACACCGAAGCCATAGCCCAGCCATGGTCTTACACGGA
1 TCACATAT--CACACTGATGCCATAGCCCAGCCATGGTCTTACACGGA
* ** *
20067544 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACGGAA
1 TCACATATCACACTGATGCCATAGCCCAGCCATGGTCTTACACGG-A
* * * *
20067591 GCACGTAATCACATATCTCTGATGCCATAGCCCAGCTATGGTCTTACACAGA
1 TCACAT-ATCAC--A---CTGATGCCATAGCCCAGCCATGGTCTTACACGGA
* * *
20067643 TCACATATCACACTGATGCCATGGTCCAACCATGGTCTT
1 TCACATATCACACTGATGCCATAGCCCAGCCATGGTCTT
20067682 TTCCGTCAAT
Statistics
Matches: 113, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
46 54 0.48
47 5 0.04
48 13 0.12
49 1 0.01
50 1 0.01
51 5 0.04
52 5 0.04
53 29 0.26
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (46 bp):
TCACATATCACACTGATGCCATAGCCCAGCCATGGTCTTACACGGA
Found at i:20068807 original size:23 final size:22
Alignment explanation
Indices: 20068746--20068856 Score: 136
Period size: 23 Copynumber: 5.0 Consensus size: 22
20068736 CCTGATCAGT
*
20068746 ATACGACACATAAGTGCCT-AA
1 ATACGACACACAAGTGCCTGAA
* *
20068767 A-ATGACACACGAGATGCCTGAA
1 ATACGACACACAAG-TGCCTGAA
20068789 ATACGACACACAATGTGCCTGAA
1 ATACGACACACAA-GTGCCTGAA
20068812 ATACGACACACAATGTGCCTGAA
1 ATACGACACACAA-GTGCCTGAA
*
20068835 ATACGACACATAAAGTGCCTGA
1 ATACGACACA-CAAGTGCCTGA
20068857 TCAGTAAAGC
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.11
21 6 0.08
22 3 0.04
23 58 0.73
24 3 0.04
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.17
Consensus pattern (22 bp):
ATACGACACACAAGTGCCTGAA
Found at i:20069143 original size:29 final size:28
Alignment explanation
Indices: 20069061--20069144 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
20069051 AACATACCAG
* * * *
20069061 TATAATCTTCCAAAACGCACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
20069089 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
20069117 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
20069145 GCACAAAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 31 0.63
29 18 0.37
ACGTcount: A:0.45, C:0.30, G:0.05, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:20069768 original size:51 final size:51
Alignment explanation
Indices: 20069692--20069811 Score: 159
Period size: 51 Copynumber: 2.4 Consensus size: 51
20069682 CAAACTTTTA
* * * *
20069692 CTTCATACTCCATCCAGAATTATTACCTTGTTGCTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
* * *
20069743 CTTCATATTTCATCCGGAATAATTACTTTGTTGCTCTAGCTTTAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
* *
20069794 CTTCATGTTTTATCCGGA
1 CTTCATATTTCATCCGGA
20069812 TAACTTAGTT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
Found at i:20071665 original size:45 final size:45
Alignment explanation
Indices: 20071608--20071699 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
20071598 CCAACTTACC
20071608 AATTTTTGAGCTAGTTTAGCATTGGTGTTGTGGATGAAAACTTAT
1 AATTTTTGAGCTAGTTTAGCATTGGTGTTGTGGATGAAAACTTAT
20071653 AATTTTTGAGCTAGTTTAGCATTGGTGTTGTGGATGAAAACTTAT
1 AATTTTTGAGCTAGTTTAGCATTGGTGTTGTGGATGAAAACTTAT
20071698 AA
1 AA
20071700 CTTTAAGTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (45 bp):
AATTTTTGAGCTAGTTTAGCATTGGTGTTGTGGATGAAAACTTAT
Found at i:20072399 original size:11 final size:11
Alignment explanation
Indices: 20072385--20072488 Score: 59
Period size: 11 Copynumber: 8.5 Consensus size: 11
20072375 TTTATTATTT
20072385 TAATATTTTAA
1 TAATATTTTAA
20072396 TAATATTTTAA
1 TAATATTTTAA
20072407 TAATAAATTTTAAAAA
1 TAAT--ATTTT---AA
20072423 TAATAATTTTAAA
1 TAAT-ATTTT-AA
*
20072436 TAATA-TTTAT
1 TAATATTTTAA
20072446 TCACATATTATTGAA
1 T-A-ATATT-TT-AA
*
20072461 -AATATTCAATAA
1 TAATATT--TTAA
20072473 TAATATTTTAA
1 TAATATTTTAA
20072484 TAATA
1 TAATA
20072489 AATATTTATT
Statistics
Matches: 77, Mismatches: 4, Indels: 24
0.73 0.04 0.23
Matches are distributed among these distances:
10 2 0.03
11 27 0.35
12 11 0.14
13 22 0.29
14 2 0.03
15 7 0.09
16 6 0.08
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (11 bp):
TAATATTTTAA
Found at i:20072426 original size:16 final size:16
Alignment explanation
Indices: 20072393--20072440 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 16
20072383 TTTAATATTT
20072393 TAATAAT-ATTTT-AA
1 TAATAATAATTTTAAA
20072407 TAAT-A-AATTTTAAA
1 TAATAATAATTTTAAA
20072421 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
20072436 TAATA
1 TAATA
20072441 TTTATTCACA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 9 0.31
14 7 0.24
15 9 0.31
16 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:20072494 original size:15 final size:15
Alignment explanation
Indices: 20072468--20072530 Score: 56
Period size: 15 Copynumber: 4.0 Consensus size: 15
20072458 GAAAATATTC
20072468 AATAAT-AATATTTT
1 AATAATAAATATTTT
20072482 AATAATAAATATTTATT
1 AATAATAAATA-TT-TT
* *
20072499 ACAATTATAAATATATT
1 --AATAATAAATATTTT
*
20072516 AATAATAAATGTTTT
1 AATAATAAATATTTT
20072531 GTAGTATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
14 6 0.15
15 16 0.41
16 2 0.05
17 4 0.10
18 1 0.03
19 10 0.26
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (15 bp):
AATAATAAATATTTT
Found at i:20073323 original size:13 final size:13
Alignment explanation
Indices: 20073298--20073336 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
20073288 CAGACGTATC
20073298 TTCTTTTTCTTTTT
1 TTCTTTTT-TTTTT
20073312 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
20073325 TTCTCTTTTTTT
1 TTCT-TTTTTTT
20073337 GGCAAGAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
TTCTTTTTTTTTT
Found at i:20073325 original size:15 final size:16
Alignment explanation
Indices: 20073296--20073336 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
20073286 CCCAGACGTA
*
20073296 TCTTCTTTTTCTTTTTT
1 TCTT-TTTTTCTTTTTC
20073313 TCTTTTTTT-TTTTTC
1 TCTTTTTTTCTTTTTC
20073328 TCTTTTTTT
1 TCTTTTTTT
20073337 GGCAAGAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 5 0.22
17 4 0.17
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TCTTTTTTTCTTTTTC
Found at i:20073333 original size:9 final size:8
Alignment explanation
Indices: 20073296--20073336 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
20073286 CCCAGACGTA
20073296 TCTTCTTTT
1 TCTT-TTTT
20073305 TCTTTTTT
1 TCTTTTTT
20073313 TCTTTTTT
1 TCTTTTTT
*
20073321 T-TTTTTC
1 TCTTTTTT
20073328 TCTTTTTT
1 TCTTTTTT
20073336 T
1 T
20073337 GGCAAGAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 6 0.21
8 19 0.66
9 4 0.14
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TCTTTTTT
Found at i:20073614 original size:8 final size:8
Alignment explanation
Indices: 20073601--20073695 Score: 50
Period size: 8 Copynumber: 11.2 Consensus size: 8
20073591 CATTAAAGCT
20073601 ATATAAAA
1 ATATAAAA
20073609 ATATAAAA
1 ATATAAAA
* * *
20073617 TTATTAAT
1 ATATAAAA
20073625 AT-TAAAA
1 ATATAAAA
20073632 ATATAAAA
1 ATATAAAA
20073640 A-ATTGAAAA
1 ATA-T-AAAA
*
20073649 TGGATATAAAC
1 ---ATATAAAA
* *
20073660 TTAAAAAA
1 ATATAAAA
*
20073668 ATACAAAA
1 ATATAAAA
20073676 TATTATAAAA
1 -A-TATAAAA
20073686 ATATAAAA
1 ATATAAAA
20073694 AT
1 AT
20073696 TCTCATAAAT
Statistics
Matches: 65, Mismatches: 13, Indels: 18
0.68 0.14 0.19
Matches are distributed among these distances:
7 6 0.09
8 41 0.63
9 6 0.09
10 6 0.09
11 3 0.05
12 2 0.03
13 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (8 bp):
ATATAAAA
Found at i:20073816 original size:9 final size:9
Alignment explanation
Indices: 20073766--20073829 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
20073756 CTATAATTTC
20073766 ATAAAAATT
1 ATAAAAATT
20073775 ATAAGAAA-T
1 ATAA-AAATT
*
20073784 ATTAAAATT
1 ATAAAAATT
*
20073793 GATATAAACTT
1 -ATA-AAAATT
20073804 ATAAAAATT
1 ATAAAAATT
*
20073813 ATAAAAAATC
1 AT-AAAAATT
20073823 ATAAAAA
1 ATAAAAA
20073830 CTTGAAATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
8 3 0.07
9 21 0.47
10 16 0.36
11 5 0.11
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (9 bp):
ATAAAAATT
Found at i:20073830 original size:29 final size:29
Alignment explanation
Indices: 20073764--20073832 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
20073754 TTCTATAATT
* *
20073764 TCATAAAAA-TTATAAGAAATATTAAAAT
1 TCATAAAAACTTATAAGAAATATAAAAAA
* *
20073792 TGATATAAACTTATAA-AAATTATAAAAAA
1 TCATAAAAACTTATAAGAAA-TATAAAAAA
20073821 TCATAAAAACTT
1 TCATAAAAACTT
20073833 GAAATAGACC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 10 0.30
29 23 0.70
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (29 bp):
TCATAAAAACTTATAAGAAATATAAAAAA
Found at i:20074342 original size:85 final size:87
Alignment explanation
Indices: 20074185--20074416 Score: 342
Period size: 87 Copynumber: 2.7 Consensus size: 87
20074175 AAGCACTTCC
* **
20074185 TTTTTTTTTCACTCAATTGAGCACTTGAGCTTTCAAAATGCATAAAAAAAAACCCTCAAACTTTA
1 TTTTTTTTTCACTCAATTGGGTGCTTGAGCTTTCAAAATGCATAAAAAAAAA-CCTCAAACTTTA
*
20074250 AAGAAAGAACAATTAAAACCCT-
65 AAAAAAGAACAATTAAAACCCTG
*
20074272 TTTTTTTTTCACTCAATTGGGTGCATGAGCTTTCAAAATGCAT-AAAAAAAACCTCAAACTTTAA
1 TTTTTTTTTCACTCAATTGGGTGCTTGAGCTTTCAAAATGCATAAAAAAAAACCTCAAACTTTAA
*
20074336 AAAAAGAACAATTAAACCCCTG
66 AAAAAGAACAATTAAAACCCTG
* * * * *
20074358 CTTTTTTTTCACTCAATTGGGTGCTTGAACTTTCAAAATGCATCAAAAAGATCCTCAAA
1 TTTTTTTTTCACTCAATTGGGTGCTTGAGCTTTCAAAATGCATAAAAAAAAACCTCAAA
20074417 ATTTTTCAAA
Statistics
Matches: 132, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
85 32 0.24
86 48 0.36
87 52 0.39
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (87 bp):
TTTTTTTTTCACTCAATTGGGTGCTTGAGCTTTCAAAATGCATAAAAAAAAACCTCAAACTTTAA
AAAAAGAACAATTAAAACCCTG
Found at i:20074779 original size:22 final size:23
Alignment explanation
Indices: 20074737--20074780 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
20074727 TCATTAACAT
*
20074737 TGTTCATGAATATCTTCAATTATA
1 TGTTCATGAACA-CTTCAATTATA
20074761 TGTTCATGAACA-TTCAATTA
1 TGTTCATGAACACTTCAATTA
20074781 AGTAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (23 bp):
TGTTCATGAACACTTCAATTATA
Found at i:20075026 original size:19 final size:19
Alignment explanation
Indices: 20074977--20075036 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
20074967 CCCATGCTCT
*
20074977 TATTAAATATTAGAAAAAA
1 TATTAAATTTTAGAAAAAA
** * *
20074996 TAAAAAAATTTAGAAAAAG
1 TATTAAATTTTAGAAAAAA
20075015 TATTAAATTTTA-ATAAAAA
1 TATTAAATTTTAGA-AAAAA
20075034 TAT
1 TAT
20075037 AAAAATTAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
18 1 0.03
19 30 0.97
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TATTAAATTTTAGAAAAAA
Found at i:20076258 original size:41 final size:39
Alignment explanation
Indices: 20076139--20076274 Score: 132
Period size: 41 Copynumber: 3.5 Consensus size: 39
20076129 ACCAATTTGG
* * * * *
20076139 CACCTAGTGCTTCATCGGATAATTCGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAATAATCCGAAGT-ATAAATTGA
* * ** *
20076179 CACCCAATGTCTCATCGGCTAAACCGAA--ATAAATTGA
1 CACCCAGTGCCTCATCGAATAATCCGAAGTATAAATTGA
20076216 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCCGAAGTA-TAAATTGA
*
20076257 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
20076275 CTCGAAGTCG
Statistics
Matches: 78, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 23 0.29
38 8 0.10
40 22 0.28
41 25 0.32
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGAATAATCCGAAGTATAAATTGA
Found at i:20076442 original size:15 final size:17
Alignment explanation
Indices: 20076414--20076453 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
20076404 TAATCAATAT
*
20076414 ATTCAATATATATATCA
1 ATTCAATATATATATAA
20076431 ATTCAAT-T-TATATAA
1 ATTCAATATATATATAA
20076446 ATTCAATA
1 ATTCAATA
20076454 AATTCATCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 13 0.62
16 1 0.05
17 7 0.33
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTCAATATATATATAA
Found at i:20077221 original size:195 final size:196
Alignment explanation
Indices: 20076744--20077321 Score: 980
Period size: 195 Copynumber: 3.0 Consensus size: 196
20076734 TTTGGATAAT
* *
20076744 TTTC-AATTTAGTCTCTAAACCGAGACTAACTTTTATTCTTCATATTTAATTCTTTATTTTCATG
1 TTTCTAATTTAGTCCCTAAACCGAGACTAACTTTTATTCTTCACATTTAATTCTTTATTTTCATG
* * **
20076808 CAAATTCCACTTTAGACTAAATTCAACTCTTTATTTTCACATAAATTCCTAAATTTCAAAATTTT
66 CAAATTCCACTTTAGACGAAATCCAACTCCCTATTTTCACATAAATTCCTAAATTTCAAAATTTT
**
20076873 CACAATTTAGTCGTTATTACTCAAAATTTACAATTTATTTTACAATTCAATCCTTTTTTTACCTA
131 CACAATTTAGTCCCTATTACTCAAAATTTACAATTTATTTTACAATTCAATCCTTTTTTTACCTA
20076938 A
196 A
* *
20076939 TTTCTAATTTAGTCCTTAAACCGAGGCTAACTTTTATTCTTCACATTTAATTCTTTATTTTCATG
1 TTTCTAATTTAGTCCCTAAACCGAGACTAACTTTTATTCTTCACATTTAATTCTTTATTTTCATG
20077004 CAAATTCCACTTTAGACGAAATCCAACTCCCTATTTTCACATAAATTCCTAAATTTCAAAATTTT
66 CAAATTCCACTTTAGACGAAATCCAACTCCCTATTTTCACATAAATTCCTAAATTTCAAAATTTT
* *
20077069 CTCAATTTAGTCCCTATTACTCAAAATTTACAATTTATTTTACAATTCAATCATTTTTTT-CCTA
131 CACAATTTAGTCCCTATTACTCAAAATTTACAATTTATTTTACAATTCAATCCTTTTTTTACCTA
20077133 A
196 A
*
20077134 TTTCTAATTTAGTCCCTAAACCGAGACTAACTTTTATTCTTCACATTCAATTCTTTATTTTCATG
1 TTTCTAATTTAGTCCCTAAACCGAGACTAACTTTTATTCTTCACATTTAATTCTTTATTTTCATG
* *
20077199 CAAATTCCACTTTAGACGAAATCCAACTCCCTATTTTCACATAAATCCCTAAATTTTAAAATTTT
66 CAAATTCCACTTTAGACGAAATCCAACTCCCTATTTTCACATAAATTCCTAAATTTCAAAATTTT
* * *
20077264 CACAATTTAGTCCCTATTACTTAAAATTTACAATTTATTCTATAATTCAATCCTTTTT
131 CACAATTTAGTCCCTATTACTCAAAATTTACAATTTATTTTACAATTCAATCCTTTTT
20077322 CATTTCAGAC
Statistics
Matches: 360, Mismatches: 22, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
195 187 0.52
196 173 0.48
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.44
Consensus pattern (196 bp):
TTTCTAATTTAGTCCCTAAACCGAGACTAACTTTTATTCTTCACATTTAATTCTTTATTTTCATG
CAAATTCCACTTTAGACGAAATCCAACTCCCTATTTTCACATAAATTCCTAAATTTCAAAATTTT
CACAATTTAGTCCCTATTACTCAAAATTTACAATTTATTTTACAATTCAATCCTTTTTTTACCTA
A
Found at i:20078159 original size:10 final size:10
Alignment explanation
Indices: 20078144--20078225 Score: 59
Period size: 10 Copynumber: 8.6 Consensus size: 10
20078134 ATTTATAAAA
20078144 TTTTTATAAT
1 TTTTTATAAT
20078154 TTTTTAT-A-
1 TTTTTATAAT
*
20078162 TTTCTAT-AT
1 TTTTTATAAT
20078171 ATTTTT-TAAT
1 -TTTTTATAAT
*
20078181 TTTTTA-ATT
1 TTTTTATAAT
*
20078190 TTTTTATAAA
1 TTTTTATAAT
* *
20078200 ATTTTACAA-
1 TTTTTATAAT
20078209 TTTTTATATAT
1 TTTTTATA-AT
20078220 TTTTTA
1 TTTTTA
20078226 CGATTTTTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
8 7 0.12
9 21 0.38
10 22 0.39
11 6 0.11
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:20078191 original size:7 final size:8
Alignment explanation
Indices: 20078142--20078193 Score: 59
Period size: 8 Copynumber: 6.0 Consensus size: 8
20078132 GAATTTATAA
20078142 AATTTTTAT
1 AATTTTT-T
20078151 AATTTTTT
1 AATTTTTT
*
20078159 ATATTTCTAT
1 A-ATTT-TTT
20078169 ATATTTTTT
1 A-ATTTTTT
20078178 AATTTTTT
1 AATTTTTT
20078186 AATTTTTT
1 AATTTTTT
20078194 TATAAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
8 17 0.44
9 14 0.36
10 8 0.21
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (8 bp):
AATTTTTT
Found at i:20078232 original size:57 final size:56
Alignment explanation
Indices: 20078135--20078241 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 56
20078125 TTCTTATGAA
* *
20078135 TTTATAAAATTTTTATAATTTTTTATATTTCTATATATTTTTTAATTTTTTAATTTT
1 TTTATAAAATTTTTACAATTTTTTATATTTCTATAGA-TTTTTAATTTTTTAATTTT
* *
20078192 TTTATAAAA-TTTTACAATTTTTATATATTT-TTTACGATTTTTATTTTTTT
1 TTTATAAAATTTTTACAATTTTT-TATATTTCTATA-GATTTTTAATTTTTT
20078242 CTAATTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
56 27 0.61
57 17 0.39
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (56 bp):
TTTATAAAATTTTTACAATTTTTTATATTTCTATAGATTTTTAATTTTTTAATTTT
Found at i:20078238 original size:47 final size:46
Alignment explanation
Indices: 20078144--20078253 Score: 120
Period size: 47 Copynumber: 2.4 Consensus size: 46
20078134 ATTTATAAAA
** *
20078144 TTTTTATAATTTTTTATATTTCTATATATTTTTTAATTTTTTAATT
1 TTTTTATAAAATTTTAAATTTCTATATATTTTTTAATTTTTTAATT
*
20078190 TTTTTATAAAATTTTACAATTTTTATATATTTTTTACGA-TTTTT-ATT
1 TTTTTATAAAATTTTA-AATTTCTATATATTTTTTA--ATTTTTTAATT
*
20078237 TTTTTCT--AATTTTAAAT
1 TTTTTATAAAATTTTAAAT
20078254 AAAATTTTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
44 3 0.05
45 7 0.12
46 14 0.25
47 26 0.46
48 5 0.09
49 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (46 bp):
TTTTTATAAAATTTTAAATTTCTATATATTTTTTAATTTTTTAATT
Found at i:20078451 original size:92 final size:93
Alignment explanation
Indices: 20078342--20078545 Score: 288
Period size: 91 Copynumber: 2.2 Consensus size: 93
20078332 TAATAAAAGC
* * * **
20078342 AGGGGTTTAATTGCTTTTTTTTGAAAAAGTTTGAGAGTCTTTTTGATGTATTTTGAAAGTTCAAG
1 AGGGGATTAATTGCTTTTTTTTGAAAAAGTTTGAGAGCCTTTATGATACATTTTGAAAGTTCAAG
* * *
20078407 TACCCAATTGAGTGTAAAAAAAAGA-GT
66 TACCCAAATGAGTGCAAAAAAAAAAGGT
*
20078434 AGGGGATTAATTGC-TTTTTTTGAAAAGGTTTGAGAGCCTTTATGATACATTTTGAAAGTTCAAG
1 AGGGGATTAATTGCTTTTTTTTGAAAAAGTTTGAGAGCCTTTATGATACATTTTGAAAGTTCAAG
20078498 TACCCAAATGAGTGCAAAAAAAAAAGGT
66 TACCCAAATGAGTGCAAAAAAAAAAGGT
*
20078526 A-GGGACTTAATTACTTTTTT
1 AGGGGA-TTAATTGCTTTTTT
20078546 AAAGTTTAAG
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
91 71 0.72
92 23 0.23
93 5 0.05
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (93 bp):
AGGGGATTAATTGCTTTTTTTTGAAAAAGTTTGAGAGCCTTTATGATACATTTTGAAAGTTCAAG
TACCCAAATGAGTGCAAAAAAAAAAGGT
Found at i:20078842 original size:12 final size:12
Alignment explanation
Indices: 20078825--20078862 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
20078815 GGCCAGCCCC
20078825 ATATTAATTTTT
1 ATATTAATTTTT
20078837 ATATT-ATTTTT
1 ATATTAATTTTT
*
20078848 ATA-TAATTTTA
1 ATATTAATTTTT
20078859 ATAT
1 ATAT
20078863 ATATAATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 1 0.04
11 17 0.74
12 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:20079015 original size:30 final size:30
Alignment explanation
Indices: 20078979--20079041 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
20078969 ACTTAACAAG
20078979 CAAATGTCTCTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAATAAAATTAA
*
20079009 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAATAAAATTAA
20079039 CAA
1 CAA
20079042 TAAATAAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAATAAAATTAA
Found at i:20079513 original size:28 final size:29
Alignment explanation
Indices: 20079473--20079554 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 29
20079463 TATGTTTTTA
*
20079473 AATTTAAAT-ATTTTAAATAATTTTTATT
1 AATTTTAATAATTTTAAATAATTTTTATT
*
20079501 AATTTT-ATAATTTT-AATAAGTTTATATT
1 AATTTTAATAATTTTAAATAA-TTTTTATT
* *
20079529 AATTTTAATATTTTTAATAAAATTTT
1 AATTTTAATAATTTTAA-ATAATTTT
20079555 AATAATTACT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
27 7 0.16
28 23 0.52
29 7 0.16
30 4 0.09
31 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (29 bp):
AATTTTAATAATTTTAAATAATTTTTATT
Found at i:20079524 original size:17 final size:18
Alignment explanation
Indices: 20079489--20079526 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
20079479 AATATTTTAA
* *
20079489 ATAATTTTTATTAATTTT
1 ATAATTTTTAATAAGTTT
20079507 ATAA-TTTTAATAAGTTT
1 ATAATTTTTAATAAGTTT
20079524 ATA
1 ATA
20079527 TTAATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
ATAATTTTTAATAAGTTT
Found at i:20079544 original size:20 final size:20
Alignment explanation
Indices: 20079506--20079559 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
20079496 TTATTAATTT
20079506 TATAATTTTAATAAGTTT-A
1 TATAATTTTAATAAGTTTAA
**
20079525 TATTAATTTTAATATTTTTAA
1 TA-TAATTTTAATAAGTTTAA
*
20079546 TAAAATTTTAATAA
1 TATAATTTTAATAA
20079560 TTACTAACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TATAATTTTAATAAGTTTAA
Found at i:20079561 original size:9 final size:9
Alignment explanation
Indices: 20079380--20079561 Score: 77
Period size: 9 Copynumber: 19.2 Consensus size: 9
20079370 CTAGTTCAAT
*
20079380 TTTTTATAA
1 TTTTAATAA
*
20079389 TTTTTATAA
1 TTTTAATAA
*
20079398 GTTTATATCAA
1 TTTTA-AT-AA
*
20079409 TTTTAATATTT
1 TTTTAATA--A
20079420 TTTTAAATAA
1 TTTT-AATAA
*
20079430 TTTT-TTACA
1 TTTTAATA-A
*
20079439 TTTT-ATTA
1 TTTTAATAA
*
20079447 TTTTAAAAAA
1 TTTT-AATAA
* *
20079457 TTCTAATATG
1 TTTTAATA-A
*
20079467 TTTTTA-AA
1 TTTTAATAA
*
20079475 TTTAAAT-A
1 TTTTAATAA
20079483 TTTTAAATAA
1 TTTT-AATAA
*
20079493 TTTTTATTAA
1 -TTTTAATAA
20079503 TTTT-ATAA
1 TTTTAATAA
20079511 TTTTAATAA
1 TTTTAATAA
*
20079520 GTTTATATTAA
1 -TTT-TAATAA
*
20079531 TTTTAATAT
1 TTTTAATAA
20079540 TTTTAATAAAA
1 TTTTAAT--AA
20079551 TTTTAATAA
1 TTTTAATAA
20079560 TT
1 TT
20079562 ACTAACATTA
Statistics
Matches: 130, Mismatches: 25, Indels: 36
0.68 0.13 0.19
Matches are distributed among these distances:
8 22 0.17
9 49 0.38
10 28 0.22
11 27 0.21
12 4 0.03
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTTAATAA
Found at i:20079598 original size:20 final size:18
Alignment explanation
Indices: 20079573--20079620 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
20079563 CTAACATTAA
*
20079573 TTTTTATAATGTTTATGATT
1 TTTTTATAAT-TTT-TAATT
20079593 TTTTTATCAATTTTTAATT
1 TTTTTAT-AATTTTTAATT
20079612 TTTTTATAA
1 TTTTTATAA
20079621 AAAAATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 2 0.08
19 11 0.42
20 10 0.38
21 3 0.12
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (18 bp):
TTTTTATAATTTTTAATT
Found at i:20080345 original size:29 final size:25
Alignment explanation
Indices: 20080277--20080344 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 25
20080267 ATTTGAATTT
*
20080277 TAAAATATGAAAAATAGGACTAAATT
1 TAAAATAT-AAAAATAGGACTAAATC
*
20080303 TAAAGAAATAAAAATAGAAGGACTAAATC
1 TAAA-ATATAAAAAT---AGGACTAAATC
20080332 TAAAATATAAAAA
1 TAAAATATAAAAA
20080345 AAAATATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 10 0.29
27 3 0.09
28 8 0.23
29 14 0.40
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.22
Consensus pattern (25 bp):
TAAAATATAAAAATAGGACTAAATC
Found at i:20087854 original size:5 final size:5
Alignment explanation
Indices: 20087844--20087870 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
20087834 AATTTATGGA
20087844 GGAGT GGAGT GGAGT GGAGT GGAGT GG
1 GGAGT GGAGT GGAGT GGAGT GGAGT GG
20087871 GTGATAGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.63, T:0.19
Consensus pattern (5 bp):
GGAGT
Found at i:20088949 original size:59 final size:59
Alignment explanation
Indices: 20088853--20088975 Score: 160
Period size: 60 Copynumber: 2.1 Consensus size: 59
20088843 TTGATTTTTA
* ** * *
20088853 AATTT-ATAATTTTTTTAATTTGGTATCTAAAC-TTTTTTGGGCCCAATTTGATACCTG
1 AATTTAATAATTTTTTTAATTTGGTACCTAAACTTTTTTTAAGCACAATTTGATACCTC
* *
20088910 AATTTAATATTTTTTTATAATTTGGTACCTAAGCTTTTTTTAAGCACAATTTGATACCTC
1 AATTTAATAATTTTTT-TAATTTGGTACCTAAACTTTTTTTAAGCACAATTTGATACCTC
20088970 AATTTA
1 AATTTA
20088976 TTAAATGTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
57 5 0.09
58 9 0.16
59 15 0.27
60 27 0.48
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (59 bp):
AATTTAATAATTTTTTTAATTTGGTACCTAAACTTTTTTTAAGCACAATTTGATACCTC
Found at i:20091059 original size:59 final size:56
Alignment explanation
Indices: 20090879--20091059 Score: 191
Period size: 59 Copynumber: 3.1 Consensus size: 56
20090869 CATTTGACAA
* * * *
20090879 ATACCAAATTGAACAAAAAAAATAGGTACCAAATTAGGAAAAAGAGTCAAGTTTAG
1 ATACCAAATTGACCAAAAAAATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAG
* ** * * *
20090935 GTACCAAATCAAACCCTAAAAAAGATTAAGTACCAACTTAAGAAAAAGTGTCAAGTTTGG
1 ATACCAAAT-TGA-CC-AAAAAA-ATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAG
* *
20090995 GTACCAAATTGGACCAAGAAAAATTTAGGTATCAAATTAAGAAAAAGTGTCAAGTTTAG
1 ATACCAAATT-GACCAA-AAAAA-TTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAG
20091054 ATACCA
1 ATACCA
20091060 TATATTATAT
Statistics
Matches: 101, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
56 8 0.08
57 1 0.01
58 4 0.04
59 48 0.48
60 40 0.40
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.22
Consensus pattern (56 bp):
ATACCAAATTGACCAAAAAAATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAG
Found at i:20091229 original size:20 final size:20
Alignment explanation
Indices: 20091204--20091264 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
20091194 AATAAACATG
20091204 TTATTTTAAATTATTTTATT
1 TTATTTTAAATTATTTTATT
* *
20091224 TTATTTTTAATT-TTTAATT
1 TTATTTTAAATTATTTTATT
*
20091243 TTAATTAATAAA-TATTTTATT
1 TT-ATT-TTAAATTATTTTATT
20091264 T
1 T
20091265 ATATAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 8 0.24
20 15 0.45
21 10 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTTAAATTATTTTATT
Found at i:20091270 original size:17 final size:16
Alignment explanation
Indices: 20091240--20091273 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20091230 TTAATTTTTA
20091240 ATTTTAATTAATAAAT
1 ATTTTAATTAATAAAT
*
20091256 ATTTTATTTATATAAAT
1 ATTTTAATTA-ATAAAT
20091273 A
1 A
20091274 AAATAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTAATTAATAAAT
Found at i:20091432 original size:86 final size:85
Alignment explanation
Indices: 20091271--20091429 Score: 234
Period size: 86 Copynumber: 1.9 Consensus size: 85
20091261 ATTTATATAA
*
20091271 ATAAAATAATAAATATGGAATTATATAATGAAAATAGATTTTATATTAATTCATTATGTTAAAAA
1 ATAAAAAAATAAATATGGAATTATATAATGAAAATA-ATTTTATATTAATTCATTATGTTAAAAA
20091336 TATTTTTTTAATTAATAACTT
65 TATTTTTTTAATTAATAACTT
* *
20091357 ATAAAAAAATAAATATGTAGTTATATAATGAAAAT-ATTTTATATATATCATT-ATTATGTT-AA
1 ATAAAAAAATAAATATGGAATTATATAATGAAAATAATTTTATAT-TA--ATTCATTATGTTAAA
20091419 AATATTTTTTT
63 AATATTTTTTT
20091430 TAAAAGTATC
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
84 9 0.13
85 15 0.22
86 40 0.60
87 3 0.04
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (85 bp):
ATAAAAAAATAAATATGGAATTATATAATGAAAATAATTTTATATTAATTCATTATGTTAAAAAT
ATTTTTTTAATTAATAACTT
Found at i:20092947 original size:16 final size:17
Alignment explanation
Indices: 20092913--20092947 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
20092903 ATGTATTGGG
*
20092913 TTGAGAAACTTATTTAA
1 TTGAGAAACTTAATTAA
20092930 TTGAGAAA-TTAATTAA
1 TTGAGAAACTTAATTAA
20092946 TT
1 TT
20092948 AATTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAACTTAATTAA
Found at i:20094690 original size:44 final size:43
Alignment explanation
Indices: 20094579--20094693 Score: 117
Period size: 44 Copynumber: 2.7 Consensus size: 43
20094569 AGCTCGTACA
* *
20094579 ATGCCAACGTTCAAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCAAGACATGGTCTTACATGTAATCAAATATCG
* * * * *
20094622 GTGCC-ACTGTCCCAGTCATAGTCTTACATGTAAATCATAA-GTCG
1 ATGCCAAC-GTCCAAGACATGGTCTTACATGT-AATCA-AATATCG
*
20094666 ATGCCAACGTCCTAGACATGGTCTTACA
1 ATGCCAACGTCCAAGACATGGTCTTACA
20094694 CGAAAACACA
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
42 2 0.04
43 22 0.39
44 29 0.51
45 4 0.07
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCCAACGTCCAAGACATGGTCTTACATGTAATCAAATATCG
Found at i:20099636 original size:19 final size:21
Alignment explanation
Indices: 20099585--20099629 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
20099575 TACATGGCCT
*
20099585 GACCACATGGGCGTGTCCCTA
1 GACCACACGGGCGTGTCCCTA
20099606 GACCACACGGGCGTGTCCCTA
1 GACCACACGGGCGTGTCCCTA
20099627 GAC
1 GAC
20099630 TACGGGCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.36, G:0.29, T:0.16
Consensus pattern (21 bp):
GACCACACGGGCGTGTCCCTA
Found at i:20101115 original size:27 final size:27
Alignment explanation
Indices: 20101077--20101130 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
20101067 TGTTTTATAC
20101077 TTAGGTGAGCATAGGAGAGTAAAAAGA
1 TTAGGTGAGCATAGGAGAGTAAAAAGA
20101104 TTAGGTGAGCATAGGAGAGTAAAAAGA
1 TTAGGTGAGCATAGGAGAGTAAAAAGA
20101131 GTGAGAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.33, T:0.19
Consensus pattern (27 bp):
TTAGGTGAGCATAGGAGAGTAAAAAGA
Found at i:20120264 original size:5 final size:5
Alignment explanation
Indices: 20120254--20120282 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
20120244 TAAAGCTAAT
20120254 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
20120283 TACTTCATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:20126887 original size:120 final size:121
Alignment explanation
Indices: 20126746--20126964 Score: 386
Period size: 120 Copynumber: 1.8 Consensus size: 121
20126736 TAATCATGAT
* *
20126746 AAATTTTTTGAAACTTAAATATTTTTCAAAGTTATAAAGGTTAGACGCCCGTGTGAATAGGCCGT
1 AAATTTTTTGAAACTTAAATATTTTTCAAAGTTATAAAAGTCAGACGCCCGTGTGAATAGGCCGT
20126811 GTGCCTCACACGGCATTAAACACACCCATGTGTCGAGACTAAATCGAGCTCATACA
66 GTGCCTCACACGGCATTAAACACACCCATGTGTCGAGACTAAATCGAGCTCATACA
* *
20126867 AAATTTTTTG-AACTTAAATATTTTTCAAAGTTATAAAAGTCAGATGCCCGTGTGAATATGCCGT
1 AAATTTTTTGAAACTTAAATATTTTTCAAAGTTATAAAAGTCAGACGCCCGTGTGAATAGGCCGT
*
20126931 GTGCCTCACACGGCATTAGACACACCCATGTGTC
66 GTGCCTCACACGGCATTAAACACACCCATGTGTC
20126965 TAGGTAGTGA
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
120 83 0.89
121 10 0.11
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (121 bp):
AAATTTTTTGAAACTTAAATATTTTTCAAAGTTATAAAAGTCAGACGCCCGTGTGAATAGGCCGT
GTGCCTCACACGGCATTAAACACACCCATGTGTCGAGACTAAATCGAGCTCATACA
Found at i:20134357 original size:44 final size:39
Alignment explanation
Indices: 20134309--20134403 Score: 91
Period size: 44 Copynumber: 2.3 Consensus size: 39
20134299 TAATGGTTAG
20134309 CCGAAGCTATAAGGATCGCGCACACTTAGTGCCATCTCAAATAA
1 CCGAAGCTATAAGGAT--CGCACACTTAGTG-C--CTCAAATAA
* * * *
20134353 CCGAATCTATCTCAGTATCGCACACTTAGTGCCTCATATAA
1 CCGAAGCTA--TAAGGATCGCACACTTAGTGCCTCAAATAA
20134394 CCGAAGCTAT
1 CCGAAGCTAT
20134404 TCCAGTTTGC
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
39 1 0.02
41 16 0.36
43 1 0.02
44 21 0.48
46 5 0.11
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (39 bp):
CCGAAGCTATAAGGATCGCACACTTAGTGCCTCAAATAA
Found at i:20138447 original size:13 final size:13
Alignment explanation
Indices: 20138429--20138453 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20138419 CACAAACGAG
20138429 AAAATTTTCACAC
1 AAAATTTTCACAC
20138442 AAAATTTTCACA
1 AAAATTTTCACA
20138454 AACATCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:20141722 original size:24 final size:24
Alignment explanation
Indices: 20141695--20141777 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
20141685 TCAATTTGTA
*
20141695 AGAGTTTACTATTTTCAGCTCATC
1 AGAGCTTACTATTTTCAGCTCATC
* * *
20141719 AGAGCTTACTGTTTTTAGCTCGTC
1 AGAGCTTACTATTTTCAGCTCATC
* **
20141743 AGTGCTTA-TCGTTTCAGCTCAAT-
1 AGAGCTTACTATTTTCAGCTC-ATC
20141766 AGAGCTTACTAT
1 AGAGCTTACTAT
20141778 CCATCAGATC
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
23 16 0.36
24 29 0.64
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (24 bp):
AGAGCTTACTATTTTCAGCTCATC
Found at i:20141970 original size:19 final size:19
Alignment explanation
Indices: 20141946--20142025 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 19
20141936 AAAAGCTATG
20141946 TGTTATACGGATGAATTAC
1 TGTTATACGGATGAATTAC
* *
20141965 TGTTATATGGATGAAGTAC
1 TGTTATACGGATGAATTAC
* * *
20141984 TGTTTAAATGGATGAGTTAC
1 TG-TTATACGGATGAATTAC
* * *
20142004 TATTAT-CGAATGATTTAC
1 TGTTATACGGATGAATTAC
20142022 TGTT
1 TGTT
20142026 TATATGATTG
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
18 12 0.24
19 22 0.45
20 15 0.31
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.41
Consensus pattern (19 bp):
TGTTATACGGATGAATTAC
Found at i:20142004 original size:20 final size:19
Alignment explanation
Indices: 20141954--20142004 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
20141944 TGTGTTATAC
* *
20141954 GGATGAATTACTGTTATAT
1 GGATGAGTTACTGTTAAAT
20141973 GGATGAAG-TACTGTTTAAAT
1 GGATG-AGTTACTG-TTAAAT
20141993 GGATGAGTTACT
1 GGATGAGTTACT
20142005 ATTATCGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (19 bp):
GGATGAGTTACTGTTAAAT
Found at i:20148134 original size:27 final size:27
Alignment explanation
Indices: 20148104--20148371 Score: 286
Period size: 27 Copynumber: 9.9 Consensus size: 27
20148094 CTGAATTGAC
* * *
20148104 AAAATGAATGATTTACCCTTATGTGGT
1 AAAATGACTGTTTTGCCCTTATGTGGT
* *
20148131 AAAATGACAGTTTTGCCCTTACGTGGT
1 AAAATGACTGTTTTGCCCTTATGTGGT
* * * *
20148158 ACAGTGACTGTTTTGCCCTTATATGTT
1 AAAATGACTGTTTTGCCCTTATGTGGT
20148185 AAAATGACTGTTTTGCCCTTATGTGGT
1 AAAATGACTGTTTTGCCCTTATGTGGT
* * *
20148212 AAAATGACTATTTTGCCTTTATATGGT
1 AAAATGACTGTTTTGCCCTTATGTGGT
** * *
20148239 AAAATGACCATTTTACCCCTTATATGGT
1 AAAATGACTGTTTT-GCCCTTATGTGGT
* *
20148267 AAAATGATTGTTTTTCCCTTATGTGGT
1 AAAATGACTGTTTTGCCCTTATGTGGT
* *
20148294 GAAATGACTGTTTTGCTCTTATGTGGT
1 AAAATGACTGTTTTGCCCTTATGTGGT
** *
20148321 AAGGTGACTGTTTTGCCCTTATATGGT
1 AAAATGACTGTTTTGCCCTTATGTGGT
* * *
20148348 AAGATGACTATTTTTCCC-TATGTG
1 AAAATGACTGTTTTGCCCTTATGTG
20148372 ATGTATATAT
Statistics
Matches: 201, Mismatches: 39, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
26 5 0.02
27 174 0.87
28 22 0.11
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (27 bp):
AAAATGACTGTTTTGCCCTTATGTGGT
Found at i:20148299 original size:109 final size:108
Alignment explanation
Indices: 20148119--20148366 Score: 300
Period size: 109 Copynumber: 2.3 Consensus size: 108
20148109 GAATGATTTA
* * * * *
20148119 CCCTTATGTGGTAAAATGA-CAGTTTTGCCCTTACGTGGTACAGTGACTGTTTTGCCCTTATATG
1 CCCTTATATGGTAAAATGACCA-TTTTCCCCTTACATGGTAAAATGACTGTTTTGCCCTTATATG
*
20148183 TTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTTTG
65 GTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTTTG
* * * * *
20148227 CCTTTATATGGTAAAATGACCATTTTACCCCTTATATGGTAAAATGATTGTTTTTCCCTTATGTG
1 CCCTTATATGGTAAAATGACCATTTT-CCCCTTACATGGTAAAATGACTGTTTTGCCCTTATATG
* * ** *
20148292 GTGAAATGACTGTTTTGCTCTTATGTGGTAAGGTGACTGTTTTG
65 GTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTTTG
* * *
20148336 CCCTTATATGGTAAGATGACTATTTTTCCCT
1 CCCTTATATGGTAAAATGACCATTTTCCCCT
20148367 ATGTGATGTA
Statistics
Matches: 118, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
108 25 0.21
109 93 0.79
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (108 bp):
CCCTTATATGGTAAAATGACCATTTTCCCCTTACATGGTAAAATGACTGTTTTGCCCTTATATGG
TAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTTTG
Found at i:20148742 original size:18 final size:18
Alignment explanation
Indices: 20148716--20148750 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20148706 GGACTTGCAT
20148716 ACTGCTTACTGTAACTGC
1 ACTGCTTACTGTAACTGC
* *
20148734 ACTGTTTACTGTTACTG
1 ACTGCTTACTGTAACTG
20148751 TAATGGGCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (18 bp):
ACTGCTTACTGTAACTGC
Found at i:20151266 original size:22 final size:22
Alignment explanation
Indices: 20151221--20151266 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
20151211 ATAATTCATA
**
20151221 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAAAAC
*
20151243 ATTATATTAAAGCATTTAAAAC
1 ATTATAATAAAGCATTTAAAAC
20151265 AT
1 AT
20151267 ACTACCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAAAAC
Found at i:20153828 original size:10 final size:10
Alignment explanation
Indices: 20153815--20153853 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
20153805 ATATATGAAT
*
20153815 ATATCATGAC
1 ATATCATGGC
20153825 ATATCATGTGC
1 ATATCATG-GC
20153836 ATATCATGGC
1 ATATCATGGC
20153846 ATATCATG
1 ATATCATG
20153854 TACAAATCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:20153840 original size:21 final size:21
Alignment explanation
Indices: 20153815--20153854 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
20153805 ATATATGAAT
20153815 ATATCATGACATATCATGTGC
1 ATATCATGACATATCATGTGC
*
20153836 ATATCATGGCATATCATGT
1 ATATCATGACATATCATGT
20153855 ACAAATCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (21 bp):
ATATCATGACATATCATGTGC
Found at i:20153862 original size:21 final size:21
Alignment explanation
Indices: 20153817--20153862 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
20153807 ATATGAATAT
* *
20153817 ATCATGACATATCATGTGCAT
1 ATCATGACATATCATGTACAA
*
20153838 ATCATGGCATATCATGTACAA
1 ATCATGACATATCATGTACAA
20153859 ATCA
1 ATCA
20153863 GTATCACATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (21 bp):
ATCATGACATATCATGTACAA
Found at i:20175057 original size:22 final size:22
Alignment explanation
Indices: 20175012--20175057 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
20175002 ATAATTCATA
* **
20175012 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGAATTTAAAAC
*
20175034 ATTATATTAAAGAATTTAAAAC
1 ATTATAATAAAGAATTTAAAAC
20175056 AT
1 AT
20175058 ACTACCATAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGAATTTAAAAC
Found at i:20176771 original size:22 final size:22
Alignment explanation
Indices: 20176745--20176786 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
20176735 AAATGACCAA
20176745 ATTGTATGAAATGAA-ATGTTTT
1 ATTGTAT-AAATGAATATGTTTT
*
20176767 ATTGTATAAATTAATATGTT
1 ATTGTATAAATGAATATGTT
20176787 GGATGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (22 bp):
ATTGTATAAATGAATATGTTTT
Found at i:20181282 original size:27 final size:27
Alignment explanation
Indices: 20181243--20181324 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
20181233 TTAGAATACT
*
20181243 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTT-GTAAAATTACCGAAATACCC
* *
20181271 TTAGTTTGTAAAAATACTGAAATA-CC
1 TTAGTTTGTAAAATTACCGAAATACCC
* *
20181297 TTTGACTTGTAAAATTACC-AAAGTACCC
1 TTAG-TTTGTAAAATTACCGAAA-TACCC
20181325 CGATTTACAG
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
26 8 0.18
27 27 0.61
28 9 0.20
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (27 bp):
TTAGTTTGTAAAATTACCGAAATACCC
Found at i:20181355 original size:27 final size:27
Alignment explanation
Indices: 20181320--20181503 Score: 198
Period size: 27 Copynumber: 6.9 Consensus size: 27
20181310 ATTACCAAAG
20181320 TACCC-CGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
20181346 TACTCC-CGATTTACATAATTACTGTTT
1 TAC-CCTCGATTTACAGAATTACTGTTT
* *
20181373 TACCC-CTAATTTACATAATTA-TCGTTT
1 TACCCTC-GATTTACAGAATTACT-GTTT
* * * *
20181400 TACCCTTGACTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
20181427 TACCCTCGATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
20181454 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
20181481 TACCCTTGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
20181504 AAAATACCAT
Statistics
Matches: 137, Mismatches: 14, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
26 7 0.05
27 129 0.94
28 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:20181400 original size:54 final size:54
Alignment explanation
Indices: 20181320--20181501 Score: 219
Period size: 54 Copynumber: 3.4 Consensus size: 54
20181310 ATTACCAAAG
* *
20181320 TACCCC-GATTTACAGAATTA-CTGTTTTACTCC-CGATTTACATAATTACTGTTT
1 TACCCCTGATTTACAGAATTATC-GTTTTAC-CCTCGATTTATAGAATTACTGTTT
* * * * *
20181373 TACCCCTAATTTACATAATTATCGTTTTACCCTTGACTTATAGAATTACCGTTT
1 TACCCCTGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACTGTTT
*
20181427 TA-CCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCCT-GATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACTGTTT
* *
20181481 TACCCTTGATTTACAAAATTA
1 TACCCCTGATTTACAGAATTA
20181502 CTAAAATACC
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
53 12 0.11
54 92 0.85
55 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (54 bp):
TACCCCTGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACTGTTT
Found at i:20181511 original size:27 final size:27
Alignment explanation
Indices: 20181481--20181733 Score: 138
Period size: 27 Copynumber: 9.3 Consensus size: 27
20181471 ATTACTGTTT
* *
20181481 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTGCAAAATTACCAAAA
* * *
20181508 TACCATTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTGCAAAATTACCAAAA
* * *
20181535 CACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTGCAAAATTACCAAAA
* * ** *
20181562 TACCATTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTGCAAAATTACCAAAA
** * *
20181589 TACCCTCAATTTGTAAATTTACCAAAA
1 TACCCTTGATTTGCAAAATTACCAAAA
* * *
20181616 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGATTTGCAAAATTACCA-AAA
* *
20181643 TACCCTTCACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTGC--AAAATTACCA-AAA
* * * *
20181672 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTTGATTTGCAAAATTACCAAAA
* * *
20181699 TACCCTT-AGTTTGTAGATTTACCAAAA
1 TACCCTTGA-TTTGCAAAATTACCAAAA
*
20181726 CACCCTTG
1 TACCCTTG
20181734 TAGGATGAAA
Statistics
Matches: 173, Mismatches: 43, Indels: 19
0.74 0.18 0.08
Matches are distributed among these distances:
26 2 0.01
27 145 0.84
28 8 0.05
29 18 0.10
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTGCAAAATTACCAAAA
Found at i:20181553 original size:54 final size:55
Alignment explanation
Indices: 20181495--20181725 Score: 202
Period size: 54 Copynumber: 4.2 Consensus size: 55
20181485 CTTGATTTAC
* ** *
20181495 AAAATTACTAAAATACCATTGGTTTGTAAAATTACCAAAACACCCCT-AGTTTGT
1 AAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
*** * *
20181549 AAAATTACCAAAATACCATTGGTTTGTGAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
* ** * * * * *
20181603 AAATTTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAATACCCTTCACTTTCT
1 AAAATTACCAAAATACCATTGGTTTACAAAATTACCA-AAATACCCCTCAGTTTGT
* * *
20181658 AAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTAAAATA-CCCTTAGTTTGT
1 -AAAATTACCA-AAATACCATTGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
* *
20181713 AGATTTACCAAAA
1 AAAATTACCAAAA
20181726 CACCCTTGTA
Statistics
Matches: 139, Mismatches: 31, Indels: 14
0.76 0.17 0.08
Matches are distributed among these distances:
53 5 0.04
54 83 0.60
55 19 0.14
56 31 0.22
57 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (55 bp):
AAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
Found at i:20182634 original size:26 final size:26
Alignment explanation
Indices: 20182605--20182725 Score: 208
Period size: 26 Copynumber: 4.7 Consensus size: 26
20182595 GAGGAAGTGC
*
20182605 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
20182631 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
20182657 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
20182683 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
20182709 AAAAGGGCTT-TGCCCCA
1 AAAAGGGCTTATGCCCCA
20182726 ATTATTAAAG
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 7 0.08
26 83 0.92
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:20182932 original size:42 final size:42
Alignment explanation
Indices: 20182873--20182964 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
20182863 TAGTCTCCCC
* ** *
20182873 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
20182915 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
20182957 AAATGGGC
1 AAATGGGC
20182965 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:20183023 original size:31 final size:31
Alignment explanation
Indices: 20182988--20183066 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
20182978 CGTTTACAGT
20182988 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* * *
20183019 AAAGGATTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
20183050 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
20183067 AATCGTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:20183417 original size:20 final size:21
Alignment explanation
Indices: 20183394--20183432 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
20183384 TTTTCTGGGA
*
20183394 TTAATTTATTT-TTAATAACT
1 TTAATCTATTTGTTAATAACT
*
20183414 TTAATCTGTTTGTTAATAA
1 TTAATCTATTTGTTAATAA
20183433 ATGGGCTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
TTAATCTATTTGTTAATAACT
Found at i:20185616 original size:36 final size:37
Alignment explanation
Indices: 20185545--20185623 Score: 142
Period size: 37 Copynumber: 2.2 Consensus size: 37
20185535 AATGATTTTA
*
20185545 ATGCCTAAGTTAATCTAAAGTAAGTTTATAAACACAT
1 ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
20185582 ATGCATAAGTTAATCTAAAGTAA-TTTATAAACACAT
1 ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
20185618 ATGCAT
1 ATGCAT
20185624 GTAATGGTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 19 0.46
37 22 0.54
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (37 bp):
ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
Found at i:20190848 original size:15 final size:15
Alignment explanation
Indices: 20190830--20190873 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
20190820 GAAGCCCAGA
20190830 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
20190845 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
20190860 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
20190874 TTTACAGAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:20199462 original size:16 final size:16
Alignment explanation
Indices: 20199441--20199494 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
20199431 TATATAGTCG
20199441 TCTAGATTCAAATGTA
1 TCTAGATTCAAATGTA
*
20199457 TCTAGA--CAACCATGTG
1 TCTAGATTCAA--ATGTA
20199473 TCTAGATTCAAATGTA
1 TCTAGATTCAAATGTA
20199489 TCTAGA
1 TCTAGA
20199495 CATTCTTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 3 0.09
16 26 0.81
18 3 0.09
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (16 bp):
TCTAGATTCAAATGTA
Found at i:20205459 original size:6 final size:6
Alignment explanation
Indices: 20205448--20205475 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
20205438 GTTGAGCCCG
20205448 TTCTTA TTCTTA TTCTTA TTCTTA TTCT
1 TTCTTA TTCTTA TTCTTA TTCTTA TTCT
20205476 ATGGAGAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCTTA
Found at i:20234203 original size:41 final size:41
Alignment explanation
Indices: 20234115--20234242 Score: 141
Period size: 41 Copynumber: 3.1 Consensus size: 41
20234105 ACATTATTCT
* *** * *
20234115 TAAATTGCACATATGTGCCCTTGTTTGTACTTTAATATCCT
1 TAAATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* *
20234156 TGAATTGCACATACGTTCCCTTGTTTGTACTTCGGTACCCC
1 TAAATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* * *
20234197 TAAATTGCACATACGGGCCCCTGTTTGTAC-TCTGGTAGCCC
1 TAAATTGCACATACGTGCCCTTGTTTGTACTTC-GGTACCCC
20234238 TAAAT
1 TAAAT
20234243 GTATTTTTGT
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 2 0.03
41 71 0.97
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (41 bp):
TAAATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
Found at i:20241881 original size:43 final size:43
Alignment explanation
Indices: 20241819--20241982 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 43
20241809 AGATATGATT
** ** *
20241819 TCGTGTAAGACCACATCTGGGACGTTGGCATCGATTTGAGATA
1 TCGTGTAAGACCATGTCTGGGACACTGGCATCGATTTGAAATA
**
20241862 TCGTGTAAGACTGTGTCTGGGACACTGGCATCGATTTGAAATA
1 TCGTGTAAGACCATGTCTGGGACACTGGCATCGATTTGAAATA
* ** * *
20241905 TCGTGTAAGACCATGTCT-GGAGCACTGGCATCAATTACAGATT
1 TCGTGTAAGACCATGTCTGGGA-CACTGGCATCGATTTGAAATA
* * * * *
20241948 TCATGTAAGACCCTGCCTAGGACAGTGGCATCGAT
1 TCGTGTAAGACCATGTCTGGGACACTGGCATCGAT
20241983 ATGTGATTAC
Statistics
Matches: 100, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
42 3 0.03
43 94 0.94
44 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACACTGGCATCGATTTGAAATA
Found at i:20242025 original size:20 final size:20
Alignment explanation
Indices: 20242000--20242040 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
20241990 TACATGTCAG
* *
20242000 ACCACGTTTGGGATGTTGGC
1 ACCACGTCTGGGACGTTGGC
20242020 ACCACGTCTGGGACGTTGGC
1 ACCACGTCTGGGACGTTGGC
20242040 A
1 A
20242041 TTGTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.24, G:0.34, T:0.24
Consensus pattern (20 bp):
ACCACGTCTGGGACGTTGGC
Found at i:20243892 original size:79 final size:80
Alignment explanation
Indices: 20243716--20243940 Score: 271
Period size: 79 Copynumber: 2.8 Consensus size: 80
20243706 TTGAATGATG
* * * *
20243716 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTATATCCGGGCTAAGACCCGAAGGCATT
*
20243780 TGTGTGAGATACTAAA
65 TGTGCGAGATACTAAA
*
20243796 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTATA-TCCGGGCTAAGACCCGAAGGCA
*
20243857 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
* * * * *
20243875 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTATATCCGGGCTAAGACCCGAAGGCATTT
20243940 G
66 G
20243941 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
78 1 0.01
79 66 0.53
80 49 0.39
81 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:20243904 original size:40 final size:40
Alignment explanation
Indices: 20243716--20243940 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
20243706 TTGAATGATG
* * * *
20243716 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
20243756 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
20243796 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
20243836 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
20243875 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20243916 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20243941 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 35 0.21
40 120 0.73
41 9 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20243932 original size:119 final size:120
Alignment explanation
Indices: 20243716--20243940 Score: 282
Period size: 119 Copynumber: 1.9 Consensus size: 120
20243706 TTGAATGATG
*
20243716 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
20243781 GTGTGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
20243836 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
20243898 TTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
20243941 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
118 3 0.03
119 68 0.75
120 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:20243962 original size:79 final size:79
Alignment explanation
Indices: 20243790--20243973 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 79
20243780 TGTGTGAGAT
** *
20243790 ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAG
1 ACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAG
** *
20243854 GCATTTGTGCGAGTT
65 GCATTTGAACGAGTG
* *
20243869 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGA
1 ACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGA
20243932 AGGCATTTGAACGAG-G
63 AGGCATTTGAACGAGTG
* *
20243948 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAATCCCGAAGG
20243974 TACGTGATTT
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.04
79 60 0.67
80 25 0.28
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (79 bp):
ACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGG
CATTTGAACGAGTG
Found at i:20249184 original size:21 final size:21
Alignment explanation
Indices: 20249158--20249199 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20249148 GAATCCTTAG
20249158 TTTAGTTAATTAGTTAGTTAA
1 TTTAGTTAATTAGTTAGTTAA
20249179 TTTAGTTAATTAGTTAGTTAA
1 TTTAGTTAATTAGTTAGTTAA
20249200 AACAAACCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (21 bp):
TTTAGTTAATTAGTTAGTTAA
Found at i:20262520 original size:43 final size:43
Alignment explanation
Indices: 20262473--20262559 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
20262463 AGTAAATTAA
*
20262473 ATCTGTTTAATATTCATGCTATTCAAATTAATCCAAAATTCAT
1 ATCTGTTTAATATTCATGCTATTCAAATCAATCCAAAATTCAT
20262516 ATCTGTTTAATATTCATGCTATTCAAATCAATCCAAAATTCAT
1 ATCTGTTTAATATTCATGCTATTCAAATCAATCCAAAATTCAT
20262559 A
1 A
20262560 CTTTTATAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (43 bp):
ATCTGTTTAATATTCATGCTATTCAAATCAATCCAAAATTCAT
Found at i:20264156 original size:27 final size:27
Alignment explanation
Indices: 20264118--20264169 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
20264108 ATGGTTTTAA
* *
20264118 TTTGTCTGATATAGTTTCATGCCTAAC
1 TTTGCCTGATATAGTTTCATACCTAAC
20264145 TTTGCCTGATATAGTTTCATACCTA
1 TTTGCCTGATATAGTTTCATACCTA
20264170 TCTCATACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.44
Consensus pattern (27 bp):
TTTGCCTGATATAGTTTCATACCTAAC
Found at i:20267098 original size:47 final size:46
Alignment explanation
Indices: 20267040--20267216 Score: 205
Period size: 47 Copynumber: 3.8 Consensus size: 46
20267030 ACAACTCTTA
* *
20267040 GCCGATGCATGTCCCAGACACGTCTTAGACTGGCTA-TCATCGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATC-TCGAG
* * * * *
20267087 GCCGATGCATGTCCCAAACATGTATTACACTAGCACTCATCTCCAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGAG
* * *
20267133 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCACTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CTCGAG
20267181 GCCGATGCATGTCCCAGACATGTCTTACACTGGCAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCAC
20267217 ACAAGAAATC
Statistics
Matches: 110, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
46 25 0.23
47 61 0.55
48 23 0.21
49 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGAG
Found at i:20267951 original size:12 final size:12
Alignment explanation
Indices: 20267934--20267958 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20267924 AAAAATGTAA
20267934 AAAATCATCAAG
1 AAAATCATCAAG
20267946 AAAATCATCAAG
1 AAAATCATCAAG
20267958 A
1 A
20267959 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:20273069 original size:50 final size:51
Alignment explanation
Indices: 20272958--20273187 Score: 242
Period size: 50 Copynumber: 4.6 Consensus size: 51
20272948 CTGATACGTA
* * * *
20272958 TAGTAGCTTGCACTTAGTACTACACATGCGA-TCAACAATC-CAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAATCTGAGTACACG
* *
20273007 TAATAGCCTGCACTTAGTACTACACACGTGACCTCATC-ATCTGA-TACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTCAACAATCTGAGTACACG
* *
20273057 TAGTAGCCTGCACTTAGTACTACACACGTGA-TCGAAGTC-AT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTC-AA--CAATCTGAGTACACG
* * * * *
20273108 TAGTAGCCTACACTTAGTACTACACATGCGACTTAACAATATGA-TACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAATCTGAGTACACG
*
20273158 TAGTAGCCTACACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
20273188 TATTCACAAT
Statistics
Matches: 153, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
48 2 0.01
49 29 0.19
50 76 0.50
51 45 0.29
52 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAATCTGAGTACACG
Found at i:20273153 original size:101 final size:99
Alignment explanation
Indices: 20272958--20273187 Score: 275
Period size: 101 Copynumber: 2.3 Consensus size: 99
20272948 CTGATACGTA
* * * * *
20272958 TAGTAGCTTGCACTTAGTACTACACATGCGATCAACAATCCAGTACACGTAATAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCAACAATCCAGTACACATAATAGCCTACACTTA
* * *
20273023 GTACTACACACGTGACCTCATCATCTGATACACG
66 GTACTACACACGCGACCTCAACATATGATACACG
** * *
20273057 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-ATTGAGTACGCATAGTAGCCTACAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGATC-AA--CAATCCAGTACACATAATAGCCTACAC
* *
20273121 TTAGTACTACACATGCGA-CTTAACAATATGATACACG
63 TTAGTACTACACACGCGACCTCAAC-ATATGATACACG
*
20273158 TAGTAGCCTACACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
20273188 TATTCACAAT
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
99 30 0.27
100 6 0.05
101 75 0.67
102 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCAACAATCCAGTACACATAATAGCCTACACTTA
GTACTACACACGCGACCTCAACATATGATACACG
Found at i:20279233 original size:43 final size:44
Alignment explanation
Indices: 20279172--20279289 Score: 125
Period size: 43 Copynumber: 2.7 Consensus size: 44
20279162 AGGATTTCTA
* * * * *
20279172 ATATGTGTTCTCGCGTAAGACCACGTCTGGGAA-ATTGGTATCG
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGAACAATAGCATCG
*
20279215 ATATGTGTTTTCGTGTAAGACC-CTATCT-GGAACAATAGCATCG
1 ATATGTGTTTTCGTGTAAGACCAC-GTCTGGGAACAATAGCATCG
* * *
20279258 ATATGTGATTACATGTAAGACCACGTCTGGGA
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGA
20279290 CGTTGGCATT
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
42 5 0.08
43 52 0.85
44 4 0.07
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (44 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGAACAATAGCATCG
Found at i:20288278 original size:47 final size:47
Alignment explanation
Indices: 20288224--20288684 Score: 780
Period size: 47 Copynumber: 9.7 Consensus size: 47
20288214 ATGATAGTAT
20288224 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
20288271 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
20288320 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
20288367 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
20288413 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
20288462 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
20288509 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
20288556 ATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
20288603 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
20288650 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
20288685 TCCCGAAGGG
Statistics
Matches: 393, Mismatches: 16, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
46 20 0.05
47 281 0.72
48 25 0.06
49 67 0.17
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:20288544 original size:189 final size:188
Alignment explanation
Indices: 20288224--20288684 Score: 780
Period size: 189 Copynumber: 2.4 Consensus size: 188
20288214 ATGATAGTAT
20288224 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
20288289 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 TG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
20288354 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-
129 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCG
20288413 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
20288478 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
64 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
20288543 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCG
129 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCG
* * * * * * *
20288603 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
20288668 TGTATAAATGTGATAAG
66 TGTATATATGTGATAAG
20288685 TCCCGAAGGG
Statistics
Matches: 258, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
188 54 0.21
189 137 0.53
190 20 0.08
191 47 0.18
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (188 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCG
Found at i:20298062 original size:24 final size:24
Alignment explanation
Indices: 20298030--20298078 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
20298020 AATCCAATGC
20298030 TCCTAATGCTTTAATTTCATGTTT
1 TCCTAATGCTTTAATTTCATGTTT
20298054 TCCTAATGCTTTAATTTCATGTTT
1 TCCTAATGCTTTAATTTCATGTTT
20298078 T
1 T
20298079 ACACTTAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.55
Consensus pattern (24 bp):
TCCTAATGCTTTAATTTCATGTTT
Found at i:20298257 original size:13 final size:13
Alignment explanation
Indices: 20298239--20298289 Score: 93
Period size: 13 Copynumber: 3.9 Consensus size: 13
20298229 ATGTAATAGT
20298239 ACACGGGCGTGTC
1 ACACGGGCGTGTC
20298252 ACACGGGCGTGTC
1 ACACGGGCGTGTC
20298265 ACACGGGCGTGTC
1 ACACGGGCGTGTC
*
20298278 ACATGGGCGTGT
1 ACACGGGCGTGT
20298290 TCCTGCCGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.16, C:0.27, G:0.39, T:0.18
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:20305621 original size:10 final size:11
Alignment explanation
Indices: 20305598--20305623 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20305588 ACTTGTTCTT
20305598 AAAATAAATAA
1 AAAATAAATAA
20305609 AAAATAAATAA
1 AAAATAAATAA
20305620 AAAA
1 AAAA
20305624 CATGTATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAATAA
Done.