Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 97 of 362
Found at i:31325857 original size:33 final size:34
Alignment explanation
Indices: 31325783--31325862 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
31325773 GTTTGCATTT
* *
31325783 TATATTGATACTGTTATTGAATTGGGTTAAGGCC
1 TATATTGATACTGTTACTGAATTGGGCTAAGGCC
* *
31325817 TATATTGATATTGTTACTGTA-TGGGCTAAGGCTC
1 TATATTGATACTGTTACTGAATTGGGCTAAGGC-C
*
31325851 TA-ATTGAGACTG
1 TATATTGATACTG
31325863 GACTGATACT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
33 18 0.46
34 21 0.54
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (34 bp):
TATATTGATACTGTTACTGAATTGGGCTAAGGCC
Found at i:31335668 original size:2 final size:2
Alignment explanation
Indices: 31335661--31335714 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
31335651 GATATAAATT
*
31335661 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CG CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
31335703 CA CA CA CA CA CA
1 CA CA CA CA CA CA
31335715 TATATAATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.48, C:0.50, G:0.02, T:0.00
Consensus pattern (2 bp):
CA
Found at i:31337183 original size:17 final size:17
Alignment explanation
Indices: 31337161--31337193 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31337151 ATAAGCACAA
31337161 TTAAACAAGTTAAATGT
1 TTAAACAAGTTAAATGT
31337178 TTAAACAAGTTAAATG
1 TTAAACAAGTTAAATG
31337194 GCTGTAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (17 bp):
TTAAACAAGTTAAATGT
Found at i:31337278 original size:50 final size:48
Alignment explanation
Indices: 31337235--31337330 Score: 156
Period size: 50 Copynumber: 2.0 Consensus size: 48
31337225 TTAATTGCCG
31337235 AAATTATTTAAGCAACTAAAGAAAATTAAAAACAACTTAATTAATTAAGC
1 AAATTATTTAAGCAACTAAAGAAAATT-AAAACAACTTAATTAATT-AGC
* *
31337285 TAATTATTTAAGCAACTAAAGACAATTAAAACAACTTAATTAATTA
1 AAATTATTTAAGCAACTAAAGAAAATTAAAACAACTTAATTAATTA
31337331 AACTAAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 1 0.02
49 18 0.41
50 25 0.57
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.30
Consensus pattern (48 bp):
AAATTATTTAAGCAACTAAAGAAAATTAAAACAACTTAATTAATTAGC
Found at i:31339062 original size:18 final size:19
Alignment explanation
Indices: 31339011--31339082 Score: 71
Period size: 18 Copynumber: 3.9 Consensus size: 19
31339001 TTTCTCGCAC
31339011 TCTTTCTTTTCTTTCTTCAA
1 TCTTTCTTTTCTTT-TTCAA
*
31339031 TCTTT-TTATCTTTTTCAA
1 TCTTTCTTTTCTTTTTCAA
*
31339049 T-TTTCTTTTATTTTTC-A
1 TCTTTCTTTTCTTTTTCAA
*
31339066 -CATTCTTTTTCTTTTTC
1 TCTTTC-TTTTCTTTTTC
31339083 TTTCTCCTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 7 0.16
18 25 0.57
19 7 0.16
20 5 0.11
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.69
Consensus pattern (19 bp):
TCTTTCTTTTCTTTTTCAA
Found at i:31339082 original size:36 final size:37
Alignment explanation
Indices: 31339013--31339082 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
31339003 TCTCGCACTC
*
31339013 TTTCTTTTCTTTCTTCAATCTTTTTATCTTTTTCAAT
1 TTTCTTTTATTTCTTCAATCTTTTTATCTTTTTCAAT
31339050 TTTCTTTTATTT-TTCACAT-TCTTTT-TCTTTTTC
1 TTTCTTTTATTTCTTCA-ATCT-TTTTATCTTTTTC
31339083 TTTCTCCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
36 13 0.43
37 17 0.57
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.70
Consensus pattern (37 bp):
TTTCTTTTATTTCTTCAATCTTTTTATCTTTTTCAAT
Found at i:31341002 original size:17 final size:17
Alignment explanation
Indices: 31340982--31341014 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31340972 ATAAGCACAA
31340982 TTAAACAAGTTAAATGT
1 TTAAACAAGTTAAATGT
31340999 TTAAACAAGTTAAATG
1 TTAAACAAGTTAAATG
31341015 GCTATAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (17 bp):
TTAAACAAGTTAAATGT
Found at i:31341099 original size:50 final size:49
Alignment explanation
Indices: 31341056--31341154 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 49
31341046 TTAATTGTCG
*
31341056 AAATTATTTAAGCAACTAAAGAAAATTAAAAACAATTTAATTAATTAAAC
1 AAATTATTTAAGCAACTAAAGAAAATTAAAAA-AACTTAATTAATTAAAC
* ** *
31341106 TAATTATTTATTCAACTAAAGACAATTAAAAAAACTTAATTAATTAAAC
1 AAATTATTTAAGCAACTAAAGAAAATTAAAAAAACTTAATTAATTAAAC
31341155 TAAAATAACT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 16 0.36
50 28 0.64
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (49 bp):
AAATTATTTAAGCAACTAAAGAAAATTAAAAAAACTTAATTAATTAAAC
Found at i:31353733 original size:33 final size:33
Alignment explanation
Indices: 31353691--31353756 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
31353681 CCAGAAGAAC
31353691 AATTTTTCGCTATATCTAACTCCGAGGTACCTT
1 AATTTTTCGCTATATCTAACTCCGAGGTACCTT
*
31353724 AATTTTTCGCTATATCTAACTCTGAGGTACCTT
1 AATTTTTCGCTATATCTAACTCCGAGGTACCTT
31353757 GGTTTGCATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (33 bp):
AATTTTTCGCTATATCTAACTCCGAGGTACCTT
Found at i:31355620 original size:16 final size:16
Alignment explanation
Indices: 31355601--31355637 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
31355591 TTTCATTAAG
31355601 TTTTTAAGACTCATTT
1 TTTTTAAGACTCATTT
*
31355617 TTTTTAAGATTCATTT
1 TTTTTAAGACTCATTT
*
31355633 GTTTT
1 TTTTT
31355638 CCTTTCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.62
Consensus pattern (16 bp):
TTTTTAAGACTCATTT
Found at i:31360288 original size:41 final size:41
Alignment explanation
Indices: 31360243--31360328 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 41
31360233 TGGAATAAAC
* * *
31360243 TTTTAA-CGTGTTTAGTTATTTTAGTTTAATTAATTAAGTTG
1 TTTTAATCGTATTTAGTTA-CTTACTTTAATTAATTAAGTTG
*
31360284 TTTTAATTGTATTTAGTTACTTACTTTAATTAATTAAGTTG
1 TTTTAATCGTATTTAGTTACTTACTTTAATTAATTAAGTTG
31360325 TTTT
1 TTTT
31360329 TAATTTTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 30 0.75
42 10 0.25
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (41 bp):
TTTTAATCGTATTTAGTTACTTACTTTAATTAATTAAGTTG
Found at i:31360301 original size:42 final size:42
Alignment explanation
Indices: 31360253--31360348 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
31360243 TTTTAACGTG
* *
31360253 TTTAGTTATTTTAGTTTAATTAATTAAGTTG-TTTTAATTGTA
1 TTTAGTTA-CTTACTTTAATTAATTAAGTTGTTTTTAATTGTA
* *
31360295 TTTAGTTACTTACTTTAATTAATTAAGTTGTTTTTAATTTTC
1 TTTAGTTACTTACTTTAATTAATTAAGTTGTTTTTAATTGTA
*
31360337 TTTAGTTGCTTA
1 TTTAGTTACTTA
31360349 AATAATTTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 20 0.42
42 28 0.58
ACGTcount: A:0.26, C:0.04, G:0.10, T:0.59
Consensus pattern (42 bp):
TTTAGTTACTTACTTTAATTAATTAAGTTGTTTTTAATTGTA
Found at i:31360355 original size:41 final size:41
Alignment explanation
Indices: 31360269--31360355 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
31360259 TATTTTAGTT
**
31360269 TAATTAATTAAGTTGTTTTAATTGTATTTAGTTACTTACTT
1 TAATTAATTAAGTTGTTTTAATTGTATTTAGTTACTTACAA
* * *
31360310 TAATTAATTAAGTTGTTTTTAATTTTCTTTAGTTGCTTA-AA
1 TAATTAATTAAGTTG-TTTTAATTGTATTTAGTTACTTACAA
31360351 TAATT
1 TAATT
31360356 TCGGCAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 20 0.50
42 20 0.50
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (41 bp):
TAATTAATTAAGTTGTTTTAATTGTATTTAGTTACTTACAA
Found at i:31363309 original size:93 final size:92
Alignment explanation
Indices: 31363146--31363499 Score: 323
Period size: 93 Copynumber: 3.8 Consensus size: 92
31363136 GTGCCGGTGT
* * * * * *
31363146 AAGACCTGTCTGGGACATGCTTCAGATACAT-TATGAGAGCCAGTGTATGACCATGTTTGGGACA
1 AAGACATGTCTAGGACATGCATCA-A-CCATATATGAGAGCCAGTGTAAGACCATGTCTGGGACA
* *
31363210 TAGCATCGGCATCCAGACAAG-GCTAGTGC
64 TGGCATCGGCAT-CAGAGAAGTGCTAGTGC
* *
31363239 AAGACATGTCTGGGGCATGCATCAACCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACAT
1 AAGACATGTCTAGGACATGCATCAACCATA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACAT
* * *
31363304 GGCATCGGCA-CAGAGATGAGTGCCAGAGT
65 GGCATCGGCATCAGAGA--AGTGCTAGTGC
* *
31363333 AAGACATGTCTAGGACATGCATCAGCC-TCGATA-GAGATAGCCACTGTAAGA-C-TGTCTGGGA
1 AAGACATGTCTAGGACATGCATCAACCAT--ATATGAG--AGCCAGTGTAAGACCATGTCTGGGA
* ** *
31363394 CA-CGCATCGGC-T-AGGAGTTGTGCTAGTGG
62 CATGGCATCGGCATCA-GAGAAGTGCTAGTGC
* *
31363423 AAGGCATGTCTAGGACATGCATCAATACGCATATATGAGAGCTAGTGTAAGACCATGTCTGGGAC
1 AAGACATGTCTAGGACATGCATC-A-AC-CATATATGAGAGCCAGTGTAAGACCATGTCTGGGAC
31363488 ATGGCATCGGCA
63 ATGGCATCGGCA
31363500 ATATATCCCA
Statistics
Matches: 215, Mismatches: 26, Indels: 38
0.77 0.09 0.14
Matches are distributed among these distances:
90 29 0.13
91 21 0.10
92 17 0.08
93 94 0.44
94 41 0.19
95 13 0.06
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (92 bp):
AAGACATGTCTAGGACATGCATCAACCATATATGAGAGCCAGTGTAAGACCATGTCTGGGACATG
GCATCGGCATCAGAGAAGTGCTAGTGC
Found at i:31374260 original size:17 final size:17
Alignment explanation
Indices: 31374240--31374272 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31374230 AGTCGTATGC
31374240 AGATCTGAAGCGCAAGG
1 AGATCTGAAGCGCAAGG
31374257 AGATCTGAAGCGCAAG
1 AGATCTGAAGCGCAAG
31374273 AAGGGTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.33, T:0.12
Consensus pattern (17 bp):
AGATCTGAAGCGCAAGG
Found at i:31379455 original size:51 final size:50
Alignment explanation
Indices: 31379334--31379464 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 50
31379324 ATTGTGAGAA
* * * *
31379334 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTATACCAGATTGCTAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCATACCAGATAGCTAGAT
* * * * ** *
31379384 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCTATAGCTTTGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCATACCAGATAGC-TAGAT
31379435 CACGTGTGTAGTACTAAGTGCAGGCTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTA
31379465 GGTGTATGTG
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 36 0.54
51 31 0.46
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGCATACCAGATAGCTAGAT
Found at i:31379476 original size:32 final size:32
Alignment explanation
Indices: 31379439--31379503 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
31379429 TTTGATCACG
31379439 TGTGTAGTACTAAGTGCAGGCTACTAGGTGTA
1 TGTGTAGTACTAAGTGCAGGCTACTAGGTGTA
31379471 TGTGTAGTACTAAGTGCAGGCTACTAGGTGTA
1 TGTGTAGTACTAAGTGCAGGCTACTAGGTGTA
31379503 T
1 T
31379504 CAAATGGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.12, G:0.31, T:0.32
Consensus pattern (32 bp):
TGTGTAGTACTAAGTGCAGGCTACTAGGTGTA
Found at i:31379530 original size:50 final size:50
Alignment explanation
Indices: 31379470--31379808 Score: 351
Period size: 50 Copynumber: 6.8 Consensus size: 50
31379460 TACTAGGTGT
* * *
31379470 ATGTGTAGTACTAAGTGCAGGCTACTAGGTGTATCAAATGGTTAGGTCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCAC
* * * * *
31379520 GTGTATAGTACTAAGTGCAGGATACTACGTGTACCAGATTGTTAGGTCGC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCAC
* * * * *
31379570 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCA-ATCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTT-AGGTCAC
* *
31379621 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCAC
* *** * * * *
31379671 ATGTGTAGTACTAAGTGCATGCTACTATACGTACCCGACAGCTTCA-ATCA-
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGGTT-AGGTCAC
* * * * *
31379721 GTGTGTAGTACTAAGTGCAGTCTACTACGTGTACCAAATTGTTAGGCCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCAC
* *
31379771 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
31379809 GAGCTTCGGT
Statistics
Matches: 229, Mismatches: 53, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
48 1 0.00
49 5 0.02
50 176 0.77
51 45 0.20
52 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCAC
Found at i:31379533 original size:133 final size:132
Alignment explanation
Indices: 31379338--31379596 Score: 329
Period size: 133 Copynumber: 2.0 Consensus size: 132
31379328 TGAGAACACG
* * * *
31379338 TGTGTAGTACTAAGTGCAAGCTACTACGTATACCAGATTGCTAGGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAAGCTACTACGTATACCAAATGGCTAGGTCACATGTATAGTACTAAGT
* * ** * *
31379403 GCAGGCTACTATGCGTACCCTATAGCTTTGATCACGTGTGTAGTACTAAGTGCAGGCTACTAGGT
66 GCAGGATACTACGCGTACCAGATAG-TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTAGGT
31379468 GTA
130 GTA
* * * * * *
31379471 TGTGTAGTACTAAGTGCAGGCTACTAGGTGTATCAAATGGTTAGGTCACGTGTATAGTACTAAGT
1 TGTGTAGTACTAAGTGCAAGCTACTACGTATACCAAATGGCTAGGTCACATGTATAGTACTAAGT
* * * *
31379536 GCAGGATACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
66 GCAGGATACTACGCGTACCAGATAGTTAGATCACATGTGTAGTACTAAGTGCAGGCTACTA
31379597 TGCGTACCCG
Statistics
Matches: 106, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
132 32 0.30
133 74 0.70
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (132 bp):
TGTGTAGTACTAAGTGCAAGCTACTACGTATACCAAATGGCTAGGTCACATGTATAGTACTAAGT
GCAGGATACTACGCGTACCAGATAGTTAGATCACATGTGTAGTACTAAGTGCAGGCTACTAGGTG
TA
Found at i:31379546 original size:82 final size:83
Alignment explanation
Indices: 31379378--31379552 Score: 226
Period size: 82 Copynumber: 2.1 Consensus size: 83
31379368 TACCAGATTG
* * ** * *
31379378 CTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCTATAGCTTTGATCACGTGTG
1 CTAGGT-GTATGTGTAGTACTAAGTGCAGGCTACTAGGCGTACCAAATAGCTTAGATCACGTGTA
*
31379443 TAGTACTAAGTGCAGGCTA
65 TAGTACTAAGTGCAGGATA
* * * *
31379462 CTAGGTGTATGTGTAGTACTAAGTGCAGGCTACTAGGTGTATCAAAT-GGTTAGGTCACGTGTAT
1 CTAGGTGTATGTGTAGTACTAAGTGCAGGCTACTAGGCGTACCAAATAGCTTAGATCACGTGTAT
31379526 AGTACTAAGTGCAGGATA
66 AGTACTAAGTGCAGGATA
*
31379544 CTACGTGTA
1 CTAGGTGTA
31379553 CCAGATTGTT
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
82 38 0.48
83 35 0.44
84 6 0.08
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (83 bp):
CTAGGTGTATGTGTAGTACTAAGTGCAGGCTACTAGGCGTACCAAATAGCTTAGATCACGTGTAT
AGTACTAAGTGCAGGATA
Found at i:31379814 original size:100 final size:100
Alignment explanation
Indices: 31379470--31379815 Score: 482
Period size: 100 Copynumber: 3.4 Consensus size: 100
31379460 TACTAGGTGT
* * * * * *
31379470 ATGTGTAGTACTAAGTGCAGGCTACTAGGTGTATCA-AATGGTT-AGGTCACGTGTATAGTACTA
1 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAA-GCTTCA-ATCACGTGTGTAGTACTA
*
31379533 AGTGCAGGATACTACGTGTACCAGATTGTTAGGTCGC
64 AGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGC
* *
31379570 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCAATCACATGTGTAGTACTAA
1 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA-AGCTTCAATCACGTGTGTAGTACTAA
31379635 GTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGC
65 GTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGC
* * *
31379671 ATGTGTAGTACTAAGTGCATGCTACTATACGTACCCGACAGCTTCAATCA-GTGTGTAGTACTAA
1 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA-AGCTTCAATCACGTGTGTAGTACTAA
* * * *
31379735 GTGCAGTCTACTACGTGTACCAAATTGTTAGGCCAC
65 GTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGC
31379771 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAGAGCTTC
1 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA-AGCTTC
31379816 GGTTACAAGG
Statistics
Matches: 222, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
100 118 0.53
101 102 0.46
102 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (100 bp):
ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAGCTTCAATCACGTGTGTAGTACTAAG
TGCAGGCTACTACGTGTACCAGATTGTTAGGTCGC
Found at i:31382793 original size:8 final size:8
Alignment explanation
Indices: 31382780--31382805 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
31382770 CTTAAACGTA
31382780 CATAATTT
1 CATAATTT
31382788 CATAATTT
1 CATAATTT
31382796 CATAATTT
1 CATAATTT
31382804 CA
1 CA
31382806 AAAAATGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (8 bp):
CATAATTT
Found at i:31384634 original size:6 final size:6
Alignment explanation
Indices: 31384623--31384650 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
31384613 TGATGACATA
31384623 ATAAAC ATAAAC ATAAAC ATAAAC ATAA
1 ATAAAC ATAAAC ATAAAC ATAAAC ATAA
31384651 GTTTATTCAT
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:0.68, C:0.14, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAC
Found at i:31385042 original size:48 final size:48
Alignment explanation
Indices: 31384988--31385266 Score: 391
Period size: 48 Copynumber: 5.9 Consensus size: 48
31384978 CATGTTAGTG
* * * *
31384988 CCGATGCCATGTCCCAAACATGGTATTATACTAGCACACATATCATCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCA
* **
31385036 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCA
* *
31385084 CCGATGCCATCTCCCAGACATGATCTTACACTGGCACACATATCATCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCA
*
31385132 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCA
* * * *
31385180 CCAATGCCATGTCCCAAACATGGTCATACACTGGCACACATGTCATC-
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCA
* * *
31385227 CCGATGCCATGCCCCAGACATGATCTTGCACTGGCA-ACAT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACAT
31385267 TGCAGCTTGT
Statistics
Matches: 206, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
46 4 0.02
47 30 0.15
48 172 0.83
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.24
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCA
Found at i:31388670 original size:22 final size:23
Alignment explanation
Indices: 31388645--31388690 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31388635 CAACCAAAAC
31388645 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
31388667 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
31388690 A
1 A
31388691 TGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:31393358 original size:46 final size:46
Alignment explanation
Indices: 31393305--31393572 Score: 239
Period size: 46 Copynumber: 5.8 Consensus size: 46
31393295 TATTTGGGCA
*
31393305 TCCAAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
31393351 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
31393396 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * *
31393444 TCCGAACTCATTGAGTTGAGTCCGAGTTCA-TGA--AATG-TAACTAG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC--G
* * * *
31393488 GCATCGAACACATTGAGTTGAGTCCGAGTTCACTTATGGATGC-AAGCG
1 TC--CAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CG
* * *
31393536 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31393573 GTGGGTTACA
Statistics
Matches: 183, Mismatches: 21, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
42 6 0.03
43 7 0.04
44 2 0.01
45 5 0.03
46 114 0.62
47 31 0.17
48 5 0.03
49 5 0.03
50 5 0.03
51 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:31393460 original size:93 final size:93
Alignment explanation
Indices: 31393301--31393565 Score: 426
Period size: 93 Copynumber: 2.9 Consensus size: 93
31393291 AGCATATTTG
* *
31393301 GGCATCCAAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
*
31393366 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
*
31393394 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
*
31393459 TTGAGTCCGAGTTCATGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* * * *
31393487 GGCAT-CGAACACATTGAGTTGAGTCCGAGTTCACTTATGGATGC-AAGCGTCCGAGCTCGTTGA
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CGTCCGAACTCGTTGA
31393550 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
31393566 CTTATGGGTG
Statistics
Matches: 160, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
91 2 0.01
92 65 0.41
93 93 0.58
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:31396558 original size:15 final size:15
Alignment explanation
Indices: 31396535--31396594 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
31396525 GTATCGTATC
*
31396535 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
31396550 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
* * ** *
31396565 CTGGGTTTCTCAATG
1 TTGGATTTCTTTATT
31396580 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
31396595 CGGTTTTCTT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.60
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:31396572 original size:30 final size:30
Alignment explanation
Indices: 31396536--31396604 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
31396526 TATCGTATCT
* *
31396536 TGGGTTTCTTTATTTTGGATTTCTTTATTC
1 TGGGTTTCTTAATGTTGGATTTCTTTATTC
*
31396566 TGGGTTTCTCAATGTTGGATTTCTTTATTC
1 TGGGTTTCTTAATGTTGGATTTCTTTATTC
*
31396596 -GGTTTTCTT
1 TGGGTTTCTT
31396605 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.10, C:0.12, G:0.19, T:0.59
Consensus pattern (30 bp):
TGGGTTTCTTAATGTTGGATTTCTTTATTC
Found at i:31401253 original size:46 final size:46
Alignment explanation
Indices: 31401200--31401292 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
31401190 CAGTGGTATG
*
31401200 AAAAGTGACTCCTCTACCTAAGTCGAAACCTCACCCACAATGCAAA
1 AAAAGTGACTCCTCTACCAAAGTCGAAACCTCACCCACAATGCAAA
*
31401246 AAAAGTGACTCCTCTACCAAAGTCGAAATCTCACCCACAATGCAAA
1 AAAAGTGACTCCTCTACCAAAGTCGAAACCTCACCCACAATGCAAA
31401292 A
1 A
31401293 TCTTGGCCTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.41, C:0.31, G:0.11, T:0.17
Consensus pattern (46 bp):
AAAAGTGACTCCTCTACCAAAGTCGAAACCTCACCCACAATGCAAA
Found at i:31403218 original size:29 final size:28
Alignment explanation
Indices: 31403176--31403231 Score: 103
Period size: 29 Copynumber: 2.0 Consensus size: 28
31403166 CGAGTTATAT
31403176 TGATTTGGCTTCGGGCCATAGATATCAGC
1 TGATTTGGCTTCGGGCCAT-GATATCAGC
31403205 TGATTTGGCTTCGGGCCATGATATCAG
1 TGATTTGGCTTCGGGCCATGATATCAG
31403232 TATTTCGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.32
Consensus pattern (28 bp):
TGATTTGGCTTCGGGCCATGATATCAGC
Found at i:31413507 original size:56 final size:57
Alignment explanation
Indices: 31413436--31413575 Score: 160
Period size: 58 Copynumber: 2.5 Consensus size: 57
31413426 AACCCTACAT
* * ** **
31413436 ACATGCATATGGCCCACTT-GTCCC-ATC-TCATTCATATGGCTTATTAGGCCCAGTTC
1 ACATTCATATGGCCCA-TTAGGCCCAATCAT-ATTCATATGGCCCATTAGGCCCAAATC
31413492 ACATTCATATGGCCCATTAGGCCCAAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
* *
31413550 ATATTCATATGACCCATTAGGCCCAA
1 ACATTCATATGGCCCATTAGGCCCAA
31413576 ATAACCTTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
55 2 0.03
56 19 0.26
57 2 0.03
58 48 0.67
59 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (57 bp):
ACATTCATATGGCCCATTAGGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
Found at i:31413588 original size:29 final size:29
Alignment explanation
Indices: 31413465--31413577 Score: 172
Period size: 29 Copynumber: 3.9 Consensus size: 29
31413455 GTCCCATCTC
** ** *
31413465 ATTCATATGGCTTATTAGGCCCAGTTCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAT
31413494 ATTCATATGGCCCATTAGGCCCAAATCAT
1 ATTCATATGGCCCATTAGGCCCAAATCAT
31413523 ATTCATATGGCCCATTAGGCCCAAATCAT
1 ATTCATATGGCCCATTAGGCCCAAATCAT
*
31413552 ATTCATATGACCCATTAGGCCCAAAT
1 ATTCATATGGCCCATTAGGCCCAAAT
31413578 AACCTTTATA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 78 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (29 bp):
ATTCATATGGCCCATTAGGCCCAAATCAT
Found at i:31413679 original size:18 final size:19
Alignment explanation
Indices: 31413647--31413692 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
31413637 TTACCTATTA
*
31413647 TGGGCCCA-ATAGCCCA-T
1 TGGGCCCATTTAGCCCATT
31413664 TGGGCCCATTTAGCCCATT
1 TGGGCCCATTTAGCCCATT
*
31413683 TTGGCCCATT
1 TGGGCCCATT
31413693 AGGCCAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.32
18 7 0.28
19 10 0.40
ACGTcount: A:0.17, C:0.33, G:0.22, T:0.28
Consensus pattern (19 bp):
TGGGCCCATTTAGCCCATT
Found at i:31413694 original size:18 final size:17
Alignment explanation
Indices: 31413647--31413694 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
31413637 TTACCTATTA
*
31413647 TGGGCCCAATAGCCCAT
1 TGGGCCCATTAGCCCAT
31413664 TGGGCCCATTTAGCCCATT
1 TGGGCCCA-TTAGCCCA-T
*
31413683 TTGGCCCATTAG
1 TGGGCCCATTAG
31413695 GCCAATTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 8 0.30
18 11 0.41
19 8 0.30
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (17 bp):
TGGGCCCATTAGCCCAT
Found at i:31428573 original size:45 final size:46
Alignment explanation
Indices: 31428475--31428633 Score: 164
Period size: 45 Copynumber: 3.4 Consensus size: 46
31428465 TCATGAGAAC
* **
31428475 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGACG--AGT
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTA-CAAGACGTAAGT
* * * *
31428521 GCTAGTGTAAGATATGTGTGGGACATG-GTCGACTACGAGACGTAAGT
1 -C-AGTGTAAGACATGTCTGGGACATGCATCGACTACAAGACGTAAGT
*
31428568 CAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGACGTAAGT
1 CAGTGTAAGACATGTCTGGGACATGCATCGACTACAAGACGTAAGT
31428614 CAGTGTAAGACCATGTCTGG
1 CAGTGTAAGA-CATGTCTGG
31428634 TCATGGCATA
Statistics
Matches: 96, Mismatches: 10, Indels: 12
0.81 0.08 0.10
Matches are distributed among these distances:
45 32 0.33
46 30 0.31
47 25 0.26
48 9 0.09
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (46 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGACTACAAGACGTAAGT
Found at i:31428621 original size:46 final size:46
Alignment explanation
Indices: 31428430--31428633 Score: 179
Period size: 46 Copynumber: 4.4 Consensus size: 46
31428420 ATTGTGAGCT
* * * *
31428430 AGTGTAAGGCATGTCTAGGACATGCATCGGCCATATCATGA-GAA-CC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-TATCAAGACGAAGTC
**
31428476 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGACG-AGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATCAAGACGAAGT-C
* * * * *
31428523 TAGTGTAAGATATGTGTGGGACATG-GTCGACTA-CGAGACGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCTATCAAGACG-AAGTC
31428569 AGTGTAAGACATGTCTGGGACATGCATCGGCTA-CAAGACGTAAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTATCAAGACG-AAGTC
31428615 AGTGTAAGACCATGTCTGG
1 AGTGTAAGA-CATGTCTGG
31428634 TCATGGCATA
Statistics
Matches: 131, Mismatches: 16, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
45 37 0.28
46 39 0.30
47 39 0.30
48 16 0.12
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTATCAAGACGAAGTC
Found at i:31431252 original size:42 final size:43
Alignment explanation
Indices: 31431173--31431274 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 43
31431163 TCCCGGATGT
* * ** *
31431173 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAA
1 GGTCTTACATGTAAATCAATATCAATGCCGATGTCCCAAACAA
*
31431216 GGTCTTACATG-AAATCAGATA-CAATGCCGATGTCCCAAACAT
1 GGTCTTACATGTAAATCA-ATATCAATGCCGATGTCCCAAACAA
* *
31431258 GGTCTTATACGTAAATC
1 GGTCTTACATGTAAATC
31431275 TCAATCGAGG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 30 0.61
43 19 0.39
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAATATCAATGCCGATGTCCCAAACAA
Found at i:31435537 original size:17 final size:18
Alignment explanation
Indices: 31435515--31435548 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31435505 CACATTGAAG
31435515 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
31435532 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
31435549 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:31436714 original size:29 final size:29
Alignment explanation
Indices: 31436647--31436771 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
31436637 AAGTTTACAT
* * *
31436647 ACATGCATACGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
31436675 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
31436704 ACATTCGTATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
31436733 ACATTCATATGACCCATTAGGCCCAACTC
1 ACATTCATATGGCCCATTAGGCCCAAATC
31436762 ACATTCATAT
1 ACATTCATAT
31436772 ACATGCTTTC
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 20 0.24
29 65 0.76
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:31441569 original size:28 final size:28
Alignment explanation
Indices: 31441529--31441615 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
31441519 AGTAGTTGGA
*
31441529 CCTGATGGGCCATATGAATATGATTGAG
1 CCTGATGGGCCATATGAAGATGATTGAG
* *
31441557 CCTGATGGGCCATATGAAGGTGATTGGG
1 CCTGATGGGCCATATGAAGATGATTGAG
* *
31441585 CCTGATGGGCCATGTGAACGA-GATTGGG
1 CCTGATGGGCCATATGAA-GATGATTGAG
31441613 CCT
1 CCT
31441616 AAAGGGGCCA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
28 52 0.98
29 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.25
Consensus pattern (28 bp):
CCTGATGGGCCATATGAAGATGATTGAG
Found at i:31441917 original size:27 final size:27
Alignment explanation
Indices: 31441887--31442200 Score: 357
Period size: 27 Copynumber: 11.7 Consensus size: 27
31441877 TAATAAAGAG
* * *
31441887 AAATTATTGAAATACCCTCGACTTGCA
1 AAATTATCGAAATACCCTCGATTTGTA
31441914 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
31441941 AAATTATCAAAATATCCTCGA-TTATA
1 AAATTATCGAAATACCCTCGATTTGTA
*
31441967 AAATTA-CTAAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
31441994 AAATTACCGAAATACTCC-CAATTTGTG
1 AAATTATCGAAATAC-CCTCGATTTGTA
* *
31442021 AAATTATCTAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
31442048 AAATTATCGAAATACCCTCGATTTATA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
31442075 CAATTA-CTGAAACACACTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
31442102 AAATTACCGAAATACCCTAGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
31442129 AAATTACCGAATTACCCTAGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
31442156 AAATTATCGAAACACCCCCGAATTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
31442183 AAATTATCGAAATACCCT
1 AAATTATCGAAATACCCT
31442201 TGTAGTGCAA
Statistics
Matches: 244, Mismatches: 36, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.00
26 25 0.10
27 214 0.88
28 4 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:31442212 original size:27 final size:27
Alignment explanation
Indices: 31442098--31442240 Score: 110
Period size: 27 Copynumber: 5.3 Consensus size: 27
31442088 ACACTCGATT
* * *
31442098 TGTAAAATTACCGAAATACCCTAG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* * * *
31442125 TGTAAAATTACCGAATTACCCTAG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* ** * *
31442152 TGTAAAATTATCGAAACACCCCCGAAT
1 TGTAAAATTATCGAAATACCCTTGTAG
31442179 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* * * *
31442206 TGCAAAATTACCAAAATACCCTTATAG
1 TGTAAAATTATCGAAATACCCTTGTAG
31442233 TGTAAAAT
1 TGTAAAAT
31442241 GACCGATATA
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
27 98 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:31442251 original size:27 final size:27
Alignment explanation
Indices: 31442179--31442270 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 27
31442169 ACCCCCGAAT
* * *
31442179 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTATAG
* * *
31442206 TGCAAAATTACCAAAATACCCTTATAG
1 TGTAAAATGACCGAAATACCCTTATAG
* * *
31442233 TGTAAAATGACCGATATACCCCTATCG
1 TGTAAAATGACCGAAATACCCTTATAG
*
31442260 GGTAAAATGAC
1 TGTAAAATGAC
31442271 TATTTTGCCC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTATAG
Found at i:31442254 original size:81 final size:81
Alignment explanation
Indices: 31441921--31442246 Score: 210
Period size: 81 Copynumber: 4.0 Consensus size: 81
31441911 GCAAAATTAT
* * * * * * * ** *
31441921 CGAAATACCCTCGATTTGTAAAATTATCAAAATATCCTCGAT-TATAAAATTACTAAAATACCCT
1 CGAAACACCCCCGAATTGTAAAATTACCGAAATACCCTAGATGTGCAAAATTACCAAAATACCCT
* * *
31441985 CGATTTGTAAAATTAC
66 AGATGTGTAAAATGAC
* * * * * * * * * * *
31442001 CGAAATACTCCC-AATTTGTGAAATTATCTAAACACCCTCGATTTGTAAAATTATCGAAATACCC
1 CGAAACACCCCCGAA-TTGTAAAATTACCGAAATACCCTAGATGTGCAAAATTACCAAAATACCC
* * * * *
31442065 TCGATTTATACAATTAC
65 TAGATGTGTAAAATGAC
* * * * * * * *
31442082 TGAAACACACTCGATTTGTAAAATTACCGAAATACCCTAGATTTGTAAAATTACCGAATTACCCT
1 CGAAACACCCCCGAATTGTAAAATTACCGAAATACCCTAGATGTGCAAAATTACCAAAATACCCT
* * *
31442147 AGATTTGTAAAATTAT
66 AGATGTGTAAAATGAC
* *
31442163 CGAAACACCCCCGAATTGTAAAATTATCGAAATACCCTTG-TAGTGCAAAATTACCAAAATACCC
1 CGAAACACCCCCGAATTGTAAAATTACCGAAATACCCTAGAT-GTGCAAAATTACCAAAATACCC
*
31442227 T-TATAGTGTAAAATGAC
65 TAGAT-GTGTAAAATGAC
31442244 CGA
1 CGA
31442247 TATACCCCTA
Statistics
Matches: 198, Mismatches: 43, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
79 1 0.01
80 36 0.18
81 160 0.81
82 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (81 bp):
CGAAACACCCCCGAATTGTAAAATTACCGAAATACCCTAGATGTGCAAAATTACCAAAATACCCT
AGATGTGTAAAATGAC
Found at i:31444174 original size:30 final size:31
Alignment explanation
Indices: 31444140--31444231 Score: 107
Period size: 32 Copynumber: 2.9 Consensus size: 31
31444130 TGGTACGGCC
*
31444140 TAGCACAC-GGCCTAG-GCACGAGCGTGTGCA
1 TAGCACACAGG-CTAGAACACGAGCGTGTGCA
* *
31444170 TAGCACACAGGCTAGACACACGGGTGTGTGCA
1 TAGCACACAGGCTAGA-ACACGAGCGTGTGCA
*
31444202 TAGCACACAGGCTAGACACACGGGCGTGTG
1 TAGCACACAGGCTAGA-ACACGAGCGTGTG
31444232 GTCTGGTCGT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
30 12 0.22
31 2 0.04
32 41 0.75
ACGTcount: A:0.26, C:0.27, G:0.33, T:0.14
Consensus pattern (31 bp):
TAGCACACAGGCTAGAACACGAGCGTGTGCA
Found at i:31444204 original size:32 final size:32
Alignment explanation
Indices: 31444156--31444231 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
31444146 ACGGCCTAGG
*
31444156 CACGAGCGTGTGCATAGCACACAGGCTAGACA
1 CACGGGCGTGTGCATAGCACACAGGCTAGACA
*
31444188 CACGGGTGTGTGCATAGCACACAGGCTAGACA
1 CACGGGCGTGTGCATAGCACACAGGCTAGACA
31444220 CACGGGCGTGTG
1 CACGGGCGTGTG
31444232 GTCTGGTCGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.33, T:0.14
Consensus pattern (32 bp):
CACGGGCGTGTGCATAGCACACAGGCTAGACA
Found at i:31448940 original size:285 final size:285
Alignment explanation
Indices: 31448428--31448999 Score: 1135
Period size: 285 Copynumber: 2.0 Consensus size: 285
31448418 TAGCTGAGTT
31448428 ATACATTTCTGATATTGTGAGATTACATGGTGTGCCATTGTCAATAGTGTCAGATAGAAACTCGA
1 ATACATTTCTGATATTGTGAGATTACATGGTGTGCCATTGTCAATAGTGTCAGATAGAAACTCGA
31448493 GATTTACATCGCAATTCTGTAAGAAGTTGCAAGATGCTCTGGGTACTAAATTGCACTTTAGTACT
66 GATTTACATCGCAATTCTGTAAGAAGTTGCAAGATGCTCTGGGTACTAAATTGCACTTTAGTACT
31448558 GCTTTTCATCCACAAACAGATGGTCAATCTGAATGGATATTCAGATACTTGAGGATATGTTGAGA
131 GCTTTTCATCCACAAACAGATGGTCAATCTGAATGGATATTCAGATACTTGAGGATATGTTGAGA
*
31448623 TGTTGCATTCTTGAGTTTTTAGGTATGTGGGAACAATATCTACCTTTGATGGAATTTGCTTATAA
196 TGTTGCATTCTTGAGTTTTTAGGTACGTGGGAACAATATCTACCTTTGATGGAATTTGCTTATAA
31448688 TAACAGTTTTCAGTCGAGCATTAAA
261 TAACAGTTTTCAGTCGAGCATTAAA
31448713 ATACATTTCTGATATTGTGAGATTACATGGTGTGCCATTGTCAATAGTGTCAGATAGAAACTCGA
1 ATACATTTCTGATATTGTGAGATTACATGGTGTGCCATTGTCAATAGTGTCAGATAGAAACTCGA
31448778 GATTTACATCGCAATTCTGTAAGAAGTTGCAAGATGCTCTGGGTACTAAATTGCACTTTAGTACT
66 GATTTACATCGCAATTCTGTAAGAAGTTGCAAGATGCTCTGGGTACTAAATTGCACTTTAGTACT
31448843 GCTTTTCATCCACAAACAGATGGTCAATCTGAATGGATATTCAGATACTTGAGGATATGTTGAGA
131 GCTTTTCATCCACAAACAGATGGTCAATCTGAATGGATATTCAGATACTTGAGGATATGTTGAGA
31448908 TGTTGCATTCTTGAGTTTTTAGGTACGTGGGAACAATATCTACCTTTGATGGAATTTGCTTATAA
196 TGTTGCATTCTTGAGTTTTTAGGTACGTGGGAACAATATCTACCTTTGATGGAATTTGCTTATAA
31448973 TAACAGTTTTCAGTCGAGCATTAAA
261 TAACAGTTTTCAGTCGAGCATTAAA
31448998 AT
1 AT
31449000 GACACCATAC
Statistics
Matches: 286, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
285 286 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Consensus pattern (285 bp):
ATACATTTCTGATATTGTGAGATTACATGGTGTGCCATTGTCAATAGTGTCAGATAGAAACTCGA
GATTTACATCGCAATTCTGTAAGAAGTTGCAAGATGCTCTGGGTACTAAATTGCACTTTAGTACT
GCTTTTCATCCACAAACAGATGGTCAATCTGAATGGATATTCAGATACTTGAGGATATGTTGAGA
TGTTGCATTCTTGAGTTTTTAGGTACGTGGGAACAATATCTACCTTTGATGGAATTTGCTTATAA
TAACAGTTTTCAGTCGAGCATTAAA
Found at i:31454284 original size:47 final size:49
Alignment explanation
Indices: 31454176--31454302 Score: 149
Period size: 47 Copynumber: 2.7 Consensus size: 49
31454166 CATGAGAGCC
* *
31454176 AATGTAAGACCATGTCTGGCACATGGCATCGG-TAATGAGACGAATGCT
1 AATGTAAGACCATGTCTGGGACATGGCATCGGCTAACGAGACGAATGCT
31454224 AATGTAAGA-CATGTCTGGGACAT-GCATCGGCT-ACGAGACGTAA-G-T
1 AATGTAAGACCATGTCTGGGACATGGCATCGGCTAACGAGACG-AATGCT
* * *
31454269 CAGTGTAAGACCATGTTTGGGACGTGGCATCGGC
1 -AATGTAAGACCATGTCTGGGACATGGCATCGGC
31454303 ACCTTACCCC
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
45 1 0.01
46 23 0.33
47 28 0.41
48 17 0.25
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (49 bp):
AATGTAAGACCATGTCTGGGACATGGCATCGGCTAACGAGACGAATGCT
Found at i:31455335 original size:42 final size:42
Alignment explanation
Indices: 31455286--31455380 Score: 172
Period size: 42 Copynumber: 2.3 Consensus size: 42
31455276 GGCATGTCAT
*
31455286 GGCCGTGTGAAGGACACGGGCCAGGGACACAGGCGTGTGCCA
1 GGCCGTGTGAAGGACACGAGCCAGGGACACAGGCGTGTGCCA
*
31455328 GGCCGTGTGAAGGACACGAGCCAGGGACACGGGCGTGTGCCA
1 GGCCGTGTGAAGGACACGAGCCAGGGACACAGGCGTGTGCCA
31455370 GGCCGTGTGAA
1 GGCCGTGTGAA
31455381 AACCCCTATA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.21, C:0.25, G:0.43, T:0.11
Consensus pattern (42 bp):
GGCCGTGTGAAGGACACGAGCCAGGGACACAGGCGTGTGCCA
Found at i:31457286 original size:18 final size:18
Alignment explanation
Indices: 31457265--31457305 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
31457255 ATAATCAGTA
31457265 ATTCAGTAACAGTCAAAT
1 ATTCAGTAACAGTCAAAT
* *
31457283 ATTCAGTAGCAGTCAATT
1 ATTCAGTAACAGTCAAAT
31457301 ATTCA
1 ATTCA
31457306 ATACCTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (18 bp):
ATTCAGTAACAGTCAAAT
Found at i:31458459 original size:4 final size:4
Alignment explanation
Indices: 31458450--31458490 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
31458440 CCTTTTCTCC
*
31458450 CTTT CTTT CTTT CTTT CTTT CCTTT CATTC CTTT CTTT CTT
1 CTTT CTTT CTTT CTTT CTTT -CTTT C-TTT CTTT CTTT CTT
31458491 CCCCTGTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 26 0.79
5 7 0.21
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.68
Consensus pattern (4 bp):
CTTT
Found at i:31460826 original size:39 final size:39
Alignment explanation
Indices: 31460766--31460923 Score: 181
Period size: 39 Copynumber: 4.1 Consensus size: 39
31460756 AACATGTTTT
* * ** *
31460766 TGAGTATTGTGATACAAGCTTGAATGGCATACGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGCGATTATA
* ** *
31460805 TGAGTAATGTGATATATGCTTGAACATTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGCGATTATA
* *
31460844 TGAGTATTGTGATATGTGCTTAAATGTTATGCGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGCGATTATA
* * * *
31460883 TGAGTATTATGATATATGCTTAAATTTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGCGATTATA
31460922 TG
1 TG
31460924 TTTAAATTTT
Statistics
Matches: 100, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 100 1.00
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.42
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGCGATTATA
Found at i:31460947 original size:23 final size:23
Alignment explanation
Indices: 31460895--31460947 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
31460885 AGTATTATGA
*
31460895 TATATGCTTAAATTTTATGTGAT
1 TATATGTTTAAATTTTATGTGAT
31460918 TATATGTTTAAATTTTATGTGAT
1 TATATGTTTAAATTTTATGTGAT
31460941 TATATGT
1 TATATGT
31460948 GTAATGTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.55
Consensus pattern (23 bp):
TATATGTTTAAATTTTATGTGAT
Found at i:31471882 original size:41 final size:41
Alignment explanation
Indices: 31471761--31471978 Score: 276
Period size: 41 Copynumber: 5.3 Consensus size: 41
31471751 GTGTAGTACA
* ** **
31471761 TAGCCGAAGCTATTTCA-AATCGCACACTAAGTGCCATACA
1 TAGCCGAAGCTATCTCATTCTCGCACACTAAGTGCCATATG
* * *
31471801 TAGCCAAAGCTATCACATTTCTTGCACACTAAGTGCCATATG
1 TAGCCGAAGCTATCTCA-TTCTCGCACACTAAGTGCCATATG
*
31471843 TAGCCGAAGCTATCTCATTCTCACACACTAAGTGCCATATG
1 TAGCCGAAGCTATCTCATTCTCGCACACTAAGTGCCATATG
* *
31471884 TGGCCGAAGCTATCTCATTCTCACACACTAAGTGCCATATG
1 TAGCCGAAGCTATCTCATTCTCGCACACTAAGTGCCATATG
* * * *
31471925 TGGCCGAAGCTATCTCATTCTCGTACACTAACTGCCATATA
1 TAGCCGAAGCTATCTCATTCTCGCACACTAAGTGCCATATG
*
31471966 TAGTCGAAGCTAT
1 TAGCCGAAGCTAT
31471979 GATGAATCGC
Statistics
Matches: 157, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
40 14 0.09
41 110 0.70
42 33 0.21
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (41 bp):
TAGCCGAAGCTATCTCATTCTCGCACACTAAGTGCCATATG
Found at i:31474131 original size:17 final size:17
Alignment explanation
Indices: 31474111--31474143 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31474101 GTTTTAAAAG
31474111 ATAAAAAATTTTCACAA
1 ATAAAAAATTTTCACAA
31474128 ATAAAAAATTTTCACA
1 ATAAAAAATTTTCACA
31474144 TAAGATGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAAAAATTTTCACAA
Found at i:31476827 original size:40 final size:41
Alignment explanation
Indices: 31476750--31476836 Score: 122
Period size: 40 Copynumber: 2.1 Consensus size: 41
31476740 CTTGGTCTCG
**
31476750 AAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTTCA
1 AAGGGCTTTAAAGCCAGTGCTAATAACCGAACTTAGTTTCA
* * *
31476791 AAGGGCTTTAAAGCCAGTG-TCATAACCGGACTTAGTTTCG
1 AAGGGCTTTAAAGCCAGTGCTAATAACCGAACTTAGTTTCA
31476831 AAGGGC
1 AAGGGC
31476837 CTTCGAGCCA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 24 0.59
41 17 0.41
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (41 bp):
AAGGGCTTTAAAGCCAGTGCTAATAACCGAACTTAGTTTCA
Found at i:31476906 original size:41 final size:41
Alignment explanation
Indices: 31476737--31476894 Score: 153
Period size: 41 Copynumber: 3.9 Consensus size: 41
31476727 GTCTAAATCT
31476737 GAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAACC
1 GAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAACC
* * * * ** *
31476778 GAACTTAGTTTCAAAGGGCTTTAAAGCCAGTG-TCATAACC
1 GAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAACC
* * * * *
31476818 G-GACTTAGTTTCGAAGGGCCTTCGAGCCAGTGGTCTAAT--TC
1 GAG-CTTGGTCTCGAAGGGCTTTTGAGCCAGT-G-CTAATAACC
31476859 GAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
1 GAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
31476895 GAATCGGGCT
Statistics
Matches: 94, Mismatches: 18, Indels: 12
0.76 0.15 0.10
Matches are distributed among these distances:
39 4 0.04
40 33 0.35
41 53 0.56
42 1 0.01
43 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (41 bp):
GAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAACC
Found at i:31477439 original size:13 final size:13
Alignment explanation
Indices: 31477421--31477446 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31477411 CAAAATGCTT
31477421 ATTCTCTGTTTTA
1 ATTCTCTGTTTTA
31477434 ATTCTCTGTTTTA
1 ATTCTCTGTTTTA
31477447 TAGATTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (13 bp):
ATTCTCTGTTTTA
Found at i:31479473 original size:40 final size:39
Alignment explanation
Indices: 31479350--31479573 Score: 229
Period size: 40 Copynumber: 5.7 Consensus size: 39
31479340 TTGAATGCTG
* * *
31479350 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTATAAA
* * * *
31479389 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACAAGT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTATAA-A
* * *
31479429 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TAAA
* *
31479469 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TAAA
* *
31479509 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TAAA
* *
31479548 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31479574 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 55 0.35
40 99 0.63
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATAAA
Found at i:31479486 original size:80 final size:78
Alignment explanation
Indices: 31479350--31479573 Score: 245
Period size: 79 Copynumber: 2.8 Consensus size: 78
31479340 TTGAATGCTG
* * * * *
31479350 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGATATATCCGGACTAAGAT-CCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGC-GAGTTATAAATCCGGGCTAAG-TCCCGAAGGCATTT
*
31479414 GTGCGAGATA-CAAGT
64 GTGCGAGATATCAA-A
* * *
31479429 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGTTA-TAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
31479494 GTGCGAGTTATTAAA
64 GTGCGAGATATCAAA
* * * *
31479509 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTTA-TAAATCCGGGCTAAGTCCCGAAGGCATTTG
31479574 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
79 61 0.50
80 59 0.48
81 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTTATAAATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATATCAAA
Found at i:31479591 original size:79 final size:80
Alignment explanation
Indices: 31479429--31479606 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
31479419 AGATACAAGT
* * * * *
31479429 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
31479494 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * *
31479509 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
31479573 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
31479588 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
31479607 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:31482617 original size:40 final size:40
Alignment explanation
Indices: 31482562--31482703 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
31482552 TATTCGAATG
31482562 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
31482602 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAATGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
31482642 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
31482682 ATATCC-GGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
31482704 TACTTGGGTT
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 13 0.14
40 79 0.84
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:31494795 original size:50 final size:50
Alignment explanation
Indices: 31494741--31494848 Score: 137
Period size: 50 Copynumber: 2.2 Consensus size: 50
31494731 ATGGAAGACT
* * *
31494741 TAATTAAAGATACACACTTAACTATGAT-AAGAGTTACATAATGCATGTCA
1 TAATTAAAGATACAAACTTAACTATCATGAA-AGTTACATAATGCATGACA
* * *
31494791 TAATTTAAGATGCAAACTTAACTGTCATGAAAGTTACATAATGCATGACA
1 TAATTAAAGATACAAACTTAACTATCATGAAAGTTACATAATGCATGACA
*
31494841 TAACTAAA
1 TAATTAAA
31494849 TCATGAACTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 47 0.96
51 2 0.04
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (50 bp):
TAATTAAAGATACAAACTTAACTATCATGAAAGTTACATAATGCATGACA
Found at i:31519007 original size:21 final size:23
Alignment explanation
Indices: 31518983--31519035 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
31518973 TAGGAATAGT
31518983 TAGG-GTAC-ATATGTCATGAAA
1 TAGGAGTACTATATGTCATGAAA
* * *
31519004 TAGGATTCCTATATGTCATGACA
1 TAGGAGTACTATATGTCATGAAA
31519027 TAGGA-TACT
1 TAGGAGTACT
31519036 TTGTGTGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 4 0.15
22 5 0.19
23 17 0.65
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (23 bp):
TAGGAGTACTATATGTCATGAAA
Found at i:31520579 original size:21 final size:21
Alignment explanation
Indices: 31520547--31520595 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
31520537 ATATAAATGA
*
31520547 ATTTAT-CATCAATTTAATTC-
1 ATTTATGC-TCAATTGAATTCT
31520567 ACTTTATGCTCAATTGAATTCT
1 A-TTTATGCTCAATTGAATTCT
31520589 ATTTATG
1 ATTTATG
31520596 ATACGATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.04
21 22 0.88
22 2 0.08
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (21 bp):
ATTTATGCTCAATTGAATTCT
Found at i:31537728 original size:30 final size:30
Alignment explanation
Indices: 31537693--31537772 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
31537683 CAAGGAAACC
* *
31537693 GAATAAAGAAATCCAAGATAGAGAAATCCA
1 GAATAAAGAAATCCAAGATAAAGAAATACA
* * *
31537723 GAATAAAGAATTCC-AGAATAAAGAGATATA
1 GAATAAAGAAATCCAAG-ATAAAGAAATACA
* *
31537753 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
31537773 TGATACTATG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
29 2 0.05
30 36 0.90
31 2 0.05
ACGTcount: A:0.56, C:0.11, G:0.17, T:0.15
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAATACA
Found at i:31537732 original size:15 final size:15
Alignment explanation
Indices: 31537693--31537746 Score: 74
Period size: 15 Copynumber: 3.6 Consensus size: 15
31537683 CAAGGAAACC
31537693 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
31537708 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
*
31537723 GAATAAAGAATTCCA
1 GAATAAAGAAATCCA
31537738 GAATAAAGA
1 GAATAAAGA
31537747 GATATAGGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.03
15 32 0.94
16 1 0.03
ACGTcount: A:0.57, C:0.11, G:0.17, T:0.15
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:31540764 original size:46 final size:45
Alignment explanation
Indices: 31540697--31540863 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 45
31540687 GCCCATAAGC
*
31540697 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCAT-AGT
* *
31540743 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCAT-AGT
* ** * *
31540790 GAACTCGGACTCAACTTAACGAGTTTAGACATTCGCATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATA-GT
31540836 GAACTCGGACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGTTCGG
31540864 ATGCCCAAAC
Statistics
Matches: 97, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 1 0.01
46 52 0.54
47 25 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAGT
Found at i:31540855 original size:93 final size:93
Alignment explanation
Indices: 31540696--31540868 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
31540686 CGCCCATAAG
* * *
31540696 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATGAGTGAACTCGGACTCAACTCA
31540761 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
31540789 CGAACTCGGACTCAACTTAACGAGTTTAGACATTCGCATCCAT-AGGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATGA-GTGAACTCGGACTCAACTC
31540853 AACGAGTTCGGATGCC
65 AACGAGTTCGGATGCC
31540869 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATGAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:31547871 original size:22 final size:20
Alignment explanation
Indices: 31547841--31547881 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
31547831 CATGTGTGAA
31547841 AATTCCATGTTTGAATTTAGTC
1 AATTCCATG--TGAATTTAGTC
*
31547863 AATTGCATGTGAATTTAGT
1 AATTCCATGTGAATTTAGT
31547882 TAATAGGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (20 bp):
AATTCCATGTGAATTTAGTC
Found at i:31549390 original size:40 final size:40
Alignment explanation
Indices: 31549335--31549770 Score: 692
Period size: 40 Copynumber: 10.9 Consensus size: 40
31549325 CTCGCCGATG
*
31549335 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
31549375 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
31549415 ATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
31549455 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
31549495 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
31549535 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
31549575 ATCAGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
31549615 ATCTGGGCTAAGTCCAGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
** *
31549655 ATCCGGGCTAAGTCTTGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
31549695 ATCAGGGTTAACTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
31549735 ATCCGGGCTAGGTCCCAAAGAGCATTCATGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
31549771 ATGTGTATTC
Statistics
Matches: 368, Mismatches: 28, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 368 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
Found at i:31549984 original size:25 final size:25
Alignment explanation
Indices: 31549934--31549984 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
31549924 TGTGTAACAA
* *
31549934 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
31549959 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
31549984 C
1 C
31549985 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:31551233 original size:4 final size:4
Alignment explanation
Indices: 31551219--31551251 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
31551209 TTTATATTAT
31551219 ATAA CATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA -ATAA ATAA ATAA ATAA ATAA ATAA ATAA
31551252 GGGAAAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:31554279 original size:118 final size:118
Alignment explanation
Indices: 31554071--31554306 Score: 454
Period size: 118 Copynumber: 2.0 Consensus size: 118
31554061 GAAAAGGGGA
31554071 GACAGAGAAAAGGGGTAAGGAATTACCCCAAGGAAGCCGATTGATCCATTTCAGAAGCAGGATTC
1 GACAGAGAAAAGGGGTAAGGAATTACCCCAAGGAAGCCGATTGATCCATTTCAGAAGCAGGATTC
*
31554136 ATCATCAAGACTGAAGATCTCTCCTCAATTCCCTTTCAGGATTTTTTGATTTT
66 ATCATCAAGACTGAAGATCTCTCCTCAATTCCCTTTCAGGAGTTTTTGATTTT
31554189 GACAGAGAAAAGGGGTAAGGAATTACCCCAAGGAAGCCGATTGATCCATTTCAGAAGCAGGATTC
1 GACAGAGAAAAGGGGTAAGGAATTACCCCAAGGAAGCCGATTGATCCATTTCAGAAGCAGGATTC
*
31554254 ATCATCAAGACTGGAGATCTCTCCTCAATTCCCTTTCAGGAGTTTTTGATTTT
66 ATCATCAAGACTGAAGATCTCTCCTCAATTCCCTTTCAGGAGTTTTTGATTTT
31554307 CTTTATGTTT
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (118 bp):
GACAGAGAAAAGGGGTAAGGAATTACCCCAAGGAAGCCGATTGATCCATTTCAGAAGCAGGATTC
ATCATCAAGACTGAAGATCTCTCCTCAATTCCCTTTCAGGAGTTTTTGATTTT
Found at i:31555408 original size:34 final size:34
Alignment explanation
Indices: 31555331--31555396 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
31555321 TGATTGCATT
* *
31555331 ACTATTACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTAATACTGATACTGTAATGGGCTAAGGCCCAC
*
31555365 ACTAATACTGATACTGTAATGGGCTATGGCCC
1 ACTAATACTGATACTGTAATGGGCTAAGGCCC
31555397 TTACTGATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (34 bp):
ACTAATACTGATACTGTAATGGGCTAAGGCCCAC
Found at i:31562344 original size:20 final size:20
Alignment explanation
Indices: 31562307--31562365 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
31562297 TAGAAAAATC
*
31562307 AAAAGAAAAAGAGCAAGAAAA
1 AAAAGAAAAAGA-AAAGAAAA
*
31562328 AAAAGAAAAAGAAAAGAAAC
1 AAAAGAAAAAGAAAAGAAAA
**
31562348 ACGAGAAAAAG-AAAGAAA
1 AAAAGAAAAAGAAAAGAAA
31562366 CAAGTGAGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.21
20 15 0.44
21 12 0.35
ACGTcount: A:0.76, C:0.05, G:0.19, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAAGAAAAGAAAA
Found at i:31565308 original size:9 final size:9
Alignment explanation
Indices: 31565296--31565378 Score: 103
Period size: 9 Copynumber: 8.9 Consensus size: 9
31565286 TTATTGTTAC
31565296 ATGTGTTTA
1 ATGTGTTTA
*
31565305 ATGTGTTCA
1 ATGTGTTTA
31565314 ATGTGTTTA
1 ATGTGTTTA
*
31565323 ATTTGTTTA
1 ATGTGTTTA
31565332 ATGTGTGATTA
1 ATGTGT--TTA
31565343 ATGTGTTTA
1 ATGTGTTTA
*
31565352 ATGTATTTA
1 ATGTGTTTA
31565361 ATGTGTTTTA
1 ATGTG-TTTA
*
31565371 ATATGTTT
1 ATGTGTTT
31565379 GTTAAATGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
9 47 0.73
10 8 0.12
11 9 0.14
ACGTcount: A:0.24, C:0.01, G:0.19, T:0.55
Consensus pattern (9 bp):
ATGTGTTTA
Found at i:31567409 original size:79 final size:81
Alignment explanation
Indices: 31567273--31567455 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
31567263 TCGAATGATG
* * *
31567273 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
31567337 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
31567352 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
31567414 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
31567432 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
31567456 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:31567471 original size:40 final size:40
Alignment explanation
Indices: 31567274--31567457 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
31567264 CGAATGATGT
* * * *
31567274 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
31567314 CCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
31567354 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
31567392 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
31567433 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
31567458 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:31567479 original size:79 final size:79
Alignment explanation
Indices: 31567326--31567480 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
31567316 GGACTAAGAT
* * **
31567326 CCGAAGGTATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
31567391 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
31567405 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
31567468 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
31567481 ATTCTGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:31571039 original size:38 final size:39
Alignment explanation
Indices: 31570989--31571104 Score: 164
Period size: 38 Copynumber: 3.0 Consensus size: 39
31570979 TTAAAAACAA
* *
31570989 ATATTAAAGATGTTCAAACTATGACATAATTAAAGAC-C
1 ATATTAATGATGTTCAAATTATGACATAATTAAAGACTC
*
31571027 ATATTAATGATGTTCAGATTATGACATAATTAAA-ACTC
1 ATATTAATGATGTTCAAATTATGACATAATTAAAGACTC
* **
31571065 ATATTAATGATGATCAAATTAAAACATAATTAAAGACTC
1 ATATTAATGATGTTCAAATTATGACATAATTAAAGACTC
31571104 A
1 A
31571105 AACTATAATA
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
37 2 0.03
38 62 0.90
39 5 0.07
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.32
Consensus pattern (39 bp):
ATATTAATGATGTTCAAATTATGACATAATTAAAGACTC
Found at i:31575613 original size:18 final size:19
Alignment explanation
Indices: 31575592--31575628 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
31575582 ATATTTCAGA
31575592 CTTTTGATA-CTTTATGAG
1 CTTTTGATACCTTTATGAG
*
31575610 CTTTTTATACCTTTATGAG
1 CTTTTGATACCTTTATGAG
31575629 TTTAATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.51
Consensus pattern (19 bp):
CTTTTGATACCTTTATGAG
Found at i:31582440 original size:39 final size:39
Alignment explanation
Indices: 31582270--31582491 Score: 213
Period size: 40 Copynumber: 5.7 Consensus size: 39
31582260 TTGAATGCTG
* *
31582270 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTAAA
* *
31582310 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATAC-AAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAAA
* * * *
31582349 TTTCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAA
* * *
31582390 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAA
*
31582429 TCCGGGTTAAGTCCCGAAGGCA-TTGT--GAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAA
* *
31582466 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31582492 AACGAGGAGC
Statistics
Matches: 154, Mismatches: 20, Indels: 18
0.80 0.10 0.09
Matches are distributed among these distances:
36 3 0.02
37 25 0.16
38 6 0.04
39 31 0.20
40 78 0.51
41 11 0.07
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAA
Found at i:31582480 original size:37 final size:38
Alignment explanation
Indices: 31582270--31582524 Score: 171
Period size: 40 Copynumber: 6.5 Consensus size: 38
31582260 TTGAATGCTG
* * * *
31582270 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGT-C-GAGT-ACTAAA
** *
31582310 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGT-CGAG-TACTAAA
* * * *
31582349 TTTCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTCGT-CGAG-TACTAAA
*
31582390 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGT-CGAGTACTAAA
31582429 TCCGGGTTAAGTCCCGAAGGCATT-GT-GAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTCGAG-TACTAAA
* * * * * * *
31582466 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTCG-TCGAGTA-CTAAA
*
31582506 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
31582525 TACGTGATTT
Statistics
Matches: 178, Mismatches: 26, Indels: 23
0.78 0.11 0.10
Matches are distributed among these distances:
36 3 0.02
37 27 0.15
38 3 0.02
39 47 0.26
40 87 0.49
41 11 0.06
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (38 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTCGAGTACTAAA
Found at i:31582513 original size:76 final size:78
Alignment explanation
Indices: 31582352--31582524 Score: 190
Period size: 76 Copynumber: 2.2 Consensus size: 78
31582342 ATACAAATTT
* * * * *
31582352 CGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGT
1 CGGGTTAAGTCCCGAAGGCCATTGT-CGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGA
* * *
31582417 GCGAGTATTAAATC
65 ACGAGGACTAAATC
* * *
31582431 CGGGTTAAGTCCCGAAGG-CATTGT-GAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAA
1 CGGGTTAAGTCCCGAAGGCCATTGTCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
*
31582494 CGAGGAGCTATATC
66 CGAGGA-CTAAATC
*
31582508 C-GGTTAAATCCCGAAGG
1 CGGGTTAAGTCCCGAAGG
31582525 TACGTGATTT
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
76 52 0.65
77 6 0.08
78 5 0.06
79 17 0.21
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (78 bp):
CGGGTTAAGTCCCGAAGGCCATTGTCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
CGAGGACTAAATC
Found at i:31590167 original size:38 final size:37
Alignment explanation
Indices: 31590120--31590301 Score: 122
Period size: 39 Copynumber: 4.7 Consensus size: 37
31590110 TTGAATGCTG
*
31590120 TCCGGCTAAGTCCCGAAGGCTTTGTGCTAAG-T-GAAT
1 TCCGGCTAAGTCCCGAAGGCTTTGTGC-AAGATACAAT
*
31590156 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACAAT
1 -TCCGG-CTAAG-TCCCGAAGGC-TTTGTGCAAGATACAAT
* * *
31590196 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCC-GGCTAAGTCCCGAAGG-CTTTGTGCAAGATAC-AAT
* * *
31590236 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTATTA-AA-
1 TCC-GGCTAAGTCCCGAAGGC-TTTGTGCAAG-A-TACAAT
* *
31590275 TCCGGGTTAAGTCCCGAAGGCATTGTG
1 TCC-GGCTAAGTCCCGAAGGCTTTGTG
31590302 AGTTACTAAA
Statistics
Matches: 126, Mismatches: 7, Indels: 23
0.81 0.04 0.15
Matches are distributed among these distances:
37 5 0.04
38 20 0.16
39 59 0.47
40 39 0.31
41 1 0.01
42 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (37 bp):
TCCGGCTAAGTCCCGAAGGCTTTGTGCAAGATACAAT
Found at i:31590251 original size:40 final size:40
Alignment explanation
Indices: 31590170--31590337 Score: 229
Period size: 39 Copynumber: 4.3 Consensus size: 40
31590160 GGACTAAGAT
*
31590170 CCGAAGGCATTTGTGCGAGATAC-AATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
*
31590209 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* *
31590249 CCGAAGGCATTCGTGCGAG-TATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * *
31590288 CCGAAGGCA-TTGT--GAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
31590325 CCGAAGGCATTTG
1 CCGAAGGCATTTG
31590338 AACGAGGAGC
Statistics
Matches: 116, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
36 3 0.03
37 25 0.22
38 6 0.05
39 50 0.43
40 32 0.28
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:31590256 original size:79 final size:76
Alignment explanation
Indices: 31590170--31590337 Score: 223
Period size: 79 Copynumber: 2.2 Consensus size: 76
31590160 GGACTAAGAT
*
31590170 CCGAAGGCATTTGTGCGAG-A-TACAATTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGTATTA-AA-TCCGGGTTAAGTCCCGAAGG-CATTGT--GAGATACT
* *
31590233 AAATCCGGGTTAAGTC
61 AAAACCGGGCTAAGTC
* *
31590249 CCGAAGGCATTCGTGCGAGTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGAGTTACTAAAAC
1 CCGAAGGCATTTGTGCGAGTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGAGATACTAAAAC
*
31590314 CGGGCTATGTC
66 CGGGCTAAGTC
31590325 CCGAAGGCATTTG
1 CCGAAGGCATTTG
31590338 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
76 32 0.40
78 5 0.06
79 38 0.47
80 3 0.04
81 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (76 bp):
CCGAAGGCATTTGTGCGAGTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGAGATACTAAAAC
CGGGCTAAGTC
Found at i:31590359 original size:76 final size:78
Alignment explanation
Indices: 31590196--31590370 Score: 203
Period size: 76 Copynumber: 2.3 Consensus size: 78
31590186 GAGATACAAT
* * *
31590196 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGT-CGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
31590261 GTGCGAGTATTAAA
65 GAACGAGGACTAAA
* * *
31590275 TCCGGGTTAAGTCCCGAAGG-CATTGT-GAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCCATTGTCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
*
31590338 AACGAGGAGCTATA
66 AACGAGGA-CTAAA
*
31590352 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
31590371 TACGTGATTT
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
76 52 0.63
77 6 0.07
78 5 0.06
79 20 0.24
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGGACTAAA
Found at i:31595255 original size:27 final size:27
Alignment explanation
Indices: 31595221--31595398 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31595211 TAAATTGTAC
31595221 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31595248 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31595274 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31595302 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31595330 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31595357 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31595384 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31595399 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31595328 original size:82 final size:81
Alignment explanation
Indices: 31595222--31595377 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31595212 AAATTGTACA
* *
31595222 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31595286 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31595303 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31595368 TGCGAGTTGA
65 TGCGAATTGA
31595378 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31595389 original size:82 final size:81
Alignment explanation
Indices: 31595218--31595398 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
31595208 GGTTAAATTG
* *
31595218 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31595283 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31595299 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31595363 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31595381 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31595399 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31603082 original size:27 final size:27
Alignment explanation
Indices: 31603051--31603228 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31603041 TAAATTGTAC
31603051 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31603078 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31603104 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31603132 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31603160 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31603187 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31603214 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31603229 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31603165 original size:82 final size:81
Alignment explanation
Indices: 31603052--31603207 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31603042 AAATTGTACA
* *
31603052 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31603116 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31603133 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31603198 TGCGAGTTGA
65 TGCGAATTGA
31603208 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31603219 original size:82 final size:81
Alignment explanation
Indices: 31603048--31603228 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
31603038 GATTAAATTG
* *
31603048 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31603113 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31603129 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31603193 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31603211 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31603229 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31615938 original size:49 final size:49
Alignment explanation
Indices: 31615872--31616109 Score: 244
Period size: 49 Copynumber: 4.8 Consensus size: 49
31615862 TAGCCAAAGC
* * *
31615872 TATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCAACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
* * * ** *
31615921 TATCCGGTACACGTAGTAGCATGCACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACC-AAT
* * * * * * * *
31615971 CATCTGATACACGTAGTAGCCTGCACTTAGTGCTATACACGTG-ATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTAC--TACACATGCAACCAA-T
* * *
31616022 TATCGGGTACACATAATAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
*
31616071 TATCCAGTACACATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
31616110 CGTGACCTCA
Statistics
Matches: 152, Mismatches: 32, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
49 83 0.55
50 35 0.23
51 28 0.18
52 6 0.04
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
Found at i:31616109 original size:26 final size:26
Alignment explanation
Indices: 31616029--31616109 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
31616019 AGTTATCGGG
*
31616029 TACACATAATAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
* * * *
31616055 TACACAT-G-CGAC--CAATTA-TCCAG
1 TACACATAGTAGCCTGCACTTAGT--AC
31616078 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
31616104 TACACA
1 TACACA
31616110 CGTGACCTCA
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 8 0.21
24 3 0.08
25 2 0.05
26 14 0.36
27 5 0.13
28 1 0.03
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACTTAGTAC
Found at i:31620493 original size:14 final size:14
Alignment explanation
Indices: 31620474--31620501 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31620464 TGCAAAGTCT
31620474 CCATCATGTGACTG
1 CCATCATGTGACTG
31620488 CCATCATGTGACTG
1 CCATCATGTGACTG
31620502 TCCTTGTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (14 bp):
CCATCATGTGACTG
Found at i:31622883 original size:40 final size:40
Alignment explanation
Indices: 31622828--31622907 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
31622818 GACCCTCGTG
*
31622828 GTAACGAGTTCAACCACTTTTTAGCTTTGTTCCTCAATGA
1 GTAACAAGTTCAACCACTTTTTAGCTTTGTTCCTCAATGA
31622868 GTAACAAGTTCAACCACTTTTTAGCTTTGTTCCTCAATGA
1 GTAACAAGTTCAACCACTTTTTAGCTTTGTTCCTCAATGA
31622908 AAAGGGAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.38
Consensus pattern (40 bp):
GTAACAAGTTCAACCACTTTTTAGCTTTGTTCCTCAATGA
Found at i:31626458 original size:19 final size:21
Alignment explanation
Indices: 31626434--31626472 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
31626424 CCATGTTAGT
31626434 TTAAGTC-TGCATT-ATTAAA
1 TTAAGTCTTGCATTAATTAAA
31626453 TTAAGTCTTGCATTAATTAA
1 TTAAGTCTTGCATTAATTAA
31626473 CTCATCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
TTAAGTCTTGCATTAATTAAA
Found at i:31626633 original size:9 final size:9
Alignment explanation
Indices: 31626615--31626687 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
31626605 TTTATTTAAG
31626615 TTAA-GTGT
1 TTAATGTGT
31626623 TTAATGTGT
1 TTAATGTGT
31626632 TT--TGTGT
1 TTAATGTGT
31626639 TTAATAAGTGT
1 TTAAT--GTGT
31626650 TTAAATGTGT
1 TT-AATGTGT
*
31626660 TTAATATG-
1 TTAATGTGT
31626668 TT--TGT-T
1 TTAATGTGT
31626674 TTAATGTGT
1 TTAATGTGT
31626683 TTAAT
1 TTAAT
31626688 TGCATGTGTC
Statistics
Matches: 53, Mismatches: 2, Indels: 19
0.72 0.03 0.26
Matches are distributed among these distances:
6 4 0.08
7 7 0.13
8 9 0.17
9 18 0.34
10 6 0.11
11 6 0.11
12 3 0.06
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (9 bp):
TTAATGTGT
Found at i:31626660 original size:21 final size:22
Alignment explanation
Indices: 31626634--31626687 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
31626624 TAATGTGTTT
31626634 TGTGTTTAATAAG-TGTTTAAA
1 TGTGTTTAATAAGTTGTTTAAA
* *
31626655 TGTGTTTAATATGTTTGTTTTAA
1 TGTGTTTAATAAG-TTGTTTAAA
31626678 TGTGTTTAAT
1 TGTGTTTAAT
31626688 TGCATGTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 12 0.41
23 17 0.59
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (22 bp):
TGTGTTTAATAAGTTGTTTAAA
Found at i:31632171 original size:18 final size:20
Alignment explanation
Indices: 31632150--31632193 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
31632140 TCTTTTAATG
31632150 TTTCTTTTT-TTCT-TTCTT
1 TTTCTTTTTGTTCTCTTCTT
*
31632168 TTTCATTTTTGTTTTCTTCTT
1 TTTC-TTTTTGTTCTCTTCTT
31632189 TTTCT
1 TTTCT
31632194 CTCATTTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 4 0.18
19 5 0.23
20 4 0.18
21 9 0.41
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTCTTTTTGTTCTCTTCTT
Found at i:31636460 original size:30 final size:29
Alignment explanation
Indices: 31636426--31636486 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
31636416 ATGAATTAGA
31636426 AGTTTTGGCACTAAG-AGTGCGATTTAAACT
1 AGTTTTGGCACTAAGTA-TGCGATTT-AACT
31636456 AGTTTTGGCACTAAGTATGCGATTTAACT
1 AGTTTTGGCACTAAGTATGCGATTTAACT
31636485 AG
1 AG
31636487 CTTCAGCTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 6 0.20
30 23 0.77
31 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (29 bp):
AGTTTTGGCACTAAGTATGCGATTTAACT
Found at i:31646638 original size:30 final size:29
Alignment explanation
Indices: 31646602--31646662 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
31646592 ATGAATCGGA
31646602 AGTTTTGGCACTAAGAGTGCGATTTAAACT
1 AGTTTTGGCACTAAGAGTGCGATTT-AACT
*
31646632 AGTTTTGGCACTAAGTGTGCGATTTAACT
1 AGTTTTGGCACTAAGAGTGCGATTTAACT
31646661 AG
1 AG
31646663 CTTCGGCTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 6 0.20
30 24 0.80
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (29 bp):
AGTTTTGGCACTAAGAGTGCGATTTAACT
Found at i:31648610 original size:80 final size:80
Alignment explanation
Indices: 31648526--31648706 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
31648516 CTCATTCAAT
* * *
31648526 GCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-A
1 GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA
*
31648588 TTAGT-A-TCTCGCACAAA
64 -TAGTCACT-TAGCACAAA
**
31648605 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATAT
1 -GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAACCCGGATAT
31648670 AGTCACTTAGCACAAA
65 AGTCACTTAGCACAAA
*
31648686 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
31648707 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:31648666 original size:40 final size:40
Alignment explanation
Indices: 31648523--31648706 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
31648513 TAACTCATTC
* *
31648523 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
31648563 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
31648603 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
31648643 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
31648684 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31648707 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:31656461 original size:79 final size:80
Alignment explanation
Indices: 31656362--31656582 Score: 202
Period size: 80 Copynumber: 2.8 Consensus size: 80
31656352 CTCGTTCAAG
* * ** * *
31656362 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
31656425 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
31656441 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
31656506 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
31656521 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
31656583 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 74 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:31656513 original size:80 final size:80
Alignment explanation
Indices: 31656402--31656582 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
31656392 CTCATTCAAT
* * *
31656402 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
31656465 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
31656481 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
31656545 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
31656562 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
31656583 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:31656542 original size:40 final size:40
Alignment explanation
Indices: 31656399--31656582 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
31656389 TAACTCATTC
* *
31656399 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
31656439 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
31656479 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
31656519 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
31656560 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31656583 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:31659514 original size:20 final size:20
Alignment explanation
Indices: 31659470--31659514 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
31659460 AAACTAAATC
*
31659470 GAGCTCAAATGAGTTGAGTT
1 GAGCTCAAATGAGCTGAGTT
* * *
31659490 AAGCTCAAGTGAGCTGATTT
1 GAGCTCAAATGAGCTGAGTT
31659510 GAGCT
1 GAGCT
31659515 AGATGGAGCT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (20 bp):
GAGCTCAAATGAGCTGAGTT
Found at i:31669098 original size:15 final size:15
Alignment explanation
Indices: 31669075--31669112 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
31669065 ACTCACTTTT
*
31669075 TCTTGTTCACTCGTA
1 TCTTTTTCACTCGTA
31669090 TCTTTTTCACTCGTA
1 TCTTTTTCACTCGTA
31669105 TCTTTTTC
1 TCTTTTTC
31669113 TAACTCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.11, C:0.26, G:0.08, T:0.55
Consensus pattern (15 bp):
TCTTTTTCACTCGTA
Found at i:31669270 original size:18 final size:17
Alignment explanation
Indices: 31669211--31669302 Score: 51
Period size: 18 Copynumber: 5.2 Consensus size: 17
31669201 ATAACACTCA
* * *
31669211 TTTCTTGCTCACTATCT
1 TTTCTTTCTCAATCTCT
31669228 TTTCTTTCTTCAATCTCT
1 TTTCTTTC-TCAATCTCT
* *
31669246 CTCTCTTTCTCAATTTTCT
1 -TTTCTTTCTCAA-TCTCT
*
31669265 TTTCTTGCTCAGATGCT-T
1 TTTCTTTCTCA-AT-CTCT
** *
31669283 TTTCAATCTAAATCTCT
1 TTTCTTTCTCAATCTCT
31669300 TTT
1 TTT
31669303 TTGATTTCCT
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
16 2 0.04
17 13 0.23
18 29 0.51
19 13 0.23
ACGTcount: A:0.14, C:0.26, G:0.04, T:0.55
Consensus pattern (17 bp):
TTTCTTTCTCAATCTCT
Found at i:31672364 original size:23 final size:23
Alignment explanation
Indices: 31672329--31672416 Score: 90
Period size: 23 Copynumber: 3.8 Consensus size: 23
31672319 GACTCACCAC
*
31672329 AGCTCATATGAGCTTACTGATTT
1 AGCTCATAAGAGCTTACTGATTT
*
31672352 AGCTCGTAAGAGCTTACTG-TTT
1 AGCTCATAAGAGCTTACTGATTT
* ** *
31672374 CTGCTCATTGGAGCTTACCGATTT
1 -AGCTCATAAGAGCTTACTGATTT
31672398 AGCTCGA-AAGAGCTTACTG
1 AGCTC-ATAAGAGCTTACTG
31672417 TTCAACTCAA
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
22 3 0.06
23 44 0.86
24 4 0.08
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (23 bp):
AGCTCATAAGAGCTTACTGATTT
Found at i:31672397 original size:46 final size:46
Alignment explanation
Indices: 31672330--31672418 Score: 144
Period size: 46 Copynumber: 1.9 Consensus size: 46
31672320 ACTCACCACA
* *
31672330 GCTCATATGAGCTTACTGATTTAGCTCGTAAGAGCTTACTGTTTCT
1 GCTCATATGAGCTTACCGATTTAGCTCGAAAGAGCTTACTGTTTCT
31672376 GCTCAT-TGGAGCTTACCGATTTAGCTCGAAAGAGCTTACTGTT
1 GCTCATAT-GAGCTTACCGATTTAGCTCGAAAGAGCTTACTGTT
31672419 CAACTCAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 1 0.03
46 39 0.98
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (46 bp):
GCTCATATGAGCTTACCGATTTAGCTCGAAAGAGCTTACTGTTTCT
Found at i:31672445 original size:46 final size:45
Alignment explanation
Indices: 31672347--31672464 Score: 121
Period size: 46 Copynumber: 2.6 Consensus size: 45
31672337 TGAGCTTACT
* ** * ** *
31672347 GATTTAGCTCGTAAGAGCTTACTGTTTCTGCTCATTGGAGCTTACC
1 GATTTAGCTCGAAAGAGCTTACTG-TTCAACTCAATAAAGCCTACC
31672393 GATTTAGCTCGAAAGAGCTTACTGTTCAACTCAATAAAGCCTACC
1 GATTTAGCTCGAAAGAGCTTACTGTTCAACTCAATAAAGCCTACC
* *
31672438 GTTTTTAGCTC-AATAGAGCTTATTGTT
1 G-ATTTAGCTCGAA-AGAGCTTACTGTT
31672465 TATCAGCTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
45 18 0.30
46 43 0.70
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (45 bp):
GATTTAGCTCGAAAGAGCTTACTGTTCAACTCAATAAAGCCTACC
Found at i:31679767 original size:41 final size:43
Alignment explanation
Indices: 31679668--31679771 Score: 117
Period size: 41 Copynumber: 2.5 Consensus size: 43
31679658 CAATGTCAAC
* *
31679668 GTCCCAGACATGGTCTTACATGCTATCTCATATCGATGCCACT
1 GTCCCAGACATGGTCTTACATGCAATCTAATATCGATGCCACT
* * *
31679711 GTCCCGGACAGGGTCTTAC-T-CGAATCTAATA-CGATGTCGA-T
1 GTCCCAGACATGGTCTTACATGC-AATCTAATATCGATG-CCACT
31679752 GTCCCAGACATGGTCTTACA
1 GTCCCAGACATGGTCTTACA
31679772 CATAAGCACA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
41 24 0.47
42 10 0.20
43 17 0.33
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGCAATCTAATATCGATGCCACT
Found at i:31679805 original size:45 final size:45
Alignment explanation
Indices: 31679753--31679874 Score: 131
Period size: 45 Copynumber: 2.7 Consensus size: 45
31679743 GATGTCGATG
* *
31679753 TCCCAGACATGGTCTTACA-CATAAGCACATATATCAATGCCAACA
1 TCCCAGACGTGGTCTTACATCA-AAACACATATATCAATGCCAACA
* * * *
31679798 TCCCAGACGTGGTCTTACATGAAAACACATATATCGATTCCAACG
1 TCCCAGACGTGGTCTTACATCAAAACACATATATCAATGCCAACA
* * *
31679843 TCTCC-GACGTGGTCTTACTTGAAAATACATAT
1 TC-CCAGACGTGGTCTTACATCAAAACACATAT
31679875 GAAAATCCTA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
45 64 0.96
46 3 0.04
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (45 bp):
TCCCAGACGTGGTCTTACATCAAAACACATATATCAATGCCAACA
Found at i:31682658 original size:27 final size:26
Alignment explanation
Indices: 31682616--31682726 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
31682606 AGGAAGCGTC
* *
31682616 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
31682643 CTGGTGGCTCTACCACATATATCTCTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
31682670 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
31682697 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
31682723 CTGG
1 CTGG
31682727 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 16 0.22
27 56 0.76
28 2 0.03
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Done.