Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, whole genome shotgun sequence
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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 52 of 138
Found at i:10917675 original size:1 final size:1
Alignment explanation
Indices: 10917671--10917733 Score: 63
Period size: 1 Copynumber: 63.0 Consensus size: 1
10917661 CATTTTCCTC
* * * * * * *
10917671 TTTTTTTCTTTTTTTTCTTTTTTTTTTTTTTTTCTCTTTTTTTCTTTTTTTATTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10917734 CTTTCACCCA
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:10917680 original size:8 final size:8
Alignment explanation
Indices: 10917669--10917737 Score: 70
Period size: 8 Copynumber: 8.6 Consensus size: 8
10917659 TCCATTTTCC
10917669 TCTTTTTT
1 TCTTTTTT
10917677 TCTTTTTTT
1 TC-TTTTTT
10917686 TCTTTTTTT
1 TC-TTTTTT
*
10917695 TTTTTTTT
1 TCTTTTTT
*
10917703 TCTCTTTT
1 TCTTTTTT
*
10917711 T-TTCTTT
1 TCTTTTTT
*
10917718 T-TTTATT
1 TCTTTTTT
10917725 TCTTTTTT
1 TCTTTTTT
10917733 TCTTT
1 TCTTT
10917738 CACCCATTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
7 10 0.20
8 25 0.49
9 16 0.31
ACGTcount: A:0.01, C:0.12, G:0.00, T:0.87
Consensus pattern (8 bp):
TCTTTTTT
Found at i:10917683 original size:17 final size:17
Alignment explanation
Indices: 10917653--10917720 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
10917643 TCTCTGTTCA
* * *
10917653 CTTTTTTCCATTTTCCT
1 CTTTTTTTCTTTTTTCT
10917670 CTTTTTTTCTTTTTTTTCT
1 CTTTTTTTC--TTTTTTCT
* *
10917689 TTTTTTTTTTTTTTTCT
1 CTTTTTTTCTTTTTTCT
10917706 CTTTTTTTCTTTTTT
1 CTTTTTTTCTTTTTT
10917721 TATTTCTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
17 29 0.69
19 13 0.31
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.82
Consensus pattern (17 bp):
CTTTTTTTCTTTTTTCT
Found at i:10917686 original size:20 final size:19
Alignment explanation
Indices: 10917663--10917737 Score: 109
Period size: 18 Copynumber: 4.0 Consensus size: 19
10917653 CTTTTTTCCA
*
10917663 TTTTCCTCTTTTTTTCTTT
1 TTTTTCTCTTTTTTTCTTT
10917682 TTTTTCT-TTTTTTT-TTT
1 TTTTTCTCTTTTTTTCTTT
10917699 TTTTTCTCTTTTTTTCTTT
1 TTTTTCTCTTTTTTTCTTT
*
10917718 TTTTATTTCTTTTTTTCTTT
1 TTTT-TCTCTTTTTTTCTTT
10917738 CACCCATTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
17 10 0.20
18 14 0.27
19 13 0.25
20 14 0.27
ACGTcount: A:0.01, C:0.13, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTCTCTTTTTTTCTTT
Found at i:10918642 original size:19 final size:21
Alignment explanation
Indices: 10918618--10918666 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
10918608 GATAACAAAT
10918618 GAAATCC-CATTGC-CTAAAA
1 GAAATCCACATTGCTCTAAAA
*
10918637 GAAATCCTAACATTTCTCTAAAA
1 GAAATCC--ACATTGCTCTAAAA
10918660 GAAATCC
1 GAAATCC
10918667 TAAAATGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 7 0.28
22 5 0.20
23 13 0.52
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (21 bp):
GAAATCCACATTGCTCTAAAA
Found at i:10923872 original size:14 final size:15
Alignment explanation
Indices: 10923845--10923877 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10923835 CTCAAAATAC
*
10923845 TTTTGAGAATTTTTA
1 TTTTGAGAAATTTTA
10923860 TTTT-AGAAATTTTA
1 TTTTGAGAAATTTTA
10923874 TTTT
1 TTTT
10923878 CAAGGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (15 bp):
TTTTGAGAAATTTTA
Found at i:10923947 original size:61 final size:59
Alignment explanation
Indices: 10923860--10924056 Score: 190
Period size: 60 Copynumber: 3.3 Consensus size: 59
10923850 AGAATTTTTA
*
10923860 TTTTAGAAA-TTTTATTTTCAAGGAAAATTGATACCTTCAACTTTTCCTTAAAAATATT
1 TTTTTGAAATTTTTATTTTCAAGGAAAATTGATACCTTCAACTTTTCCTTAAAAATATT
* * * * * *
10923918 TTTCTTGATAATTTTTATTTTTAAAGAAAA-TGGTA-CTTCCAACTTTTCCTCAAAATGTTTTTT
1 TTT-TTGA-AATTTTTATTTTCAAGGAAAATTGATACCTT-CAACTTTTCCTTAAAA---ATATT
* * * *
10923981 TTTTTGAAA-TTTTAATTTCAAGGAAAATTGATACTTTCAACTTTTCC-TCAAAATA-C
1 TTTTTGAAATTTTTATTTTCAAGGAAAATTGATACCTTCAACTTTTCCTTAAAAATATT
10924037 TTTTTGAAAGTTTTTATTTT
1 TTTTTGAAA-TTTTTATTTT
10924057 AGAAATTTTA
Statistics
Matches: 110, Mismatches: 18, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
56 9 0.08
57 1 0.01
58 11 0.10
59 6 0.05
60 39 0.35
61 32 0.29
62 6 0.05
63 6 0.05
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.49
Consensus pattern (59 bp):
TTTTTGAAATTTTTATTTTCAAGGAAAATTGATACCTTCAACTTTTCCTTAAAAATATT
Found at i:10924062 original size:72 final size:73
Alignment explanation
Indices: 10923974--10924114 Score: 212
Period size: 72 Copynumber: 1.9 Consensus size: 73
10923964 TCCTCAAAAT
* * * *
10923974 GTTTTTTTTTTTGAAATTTTAATTTCAAGGAAAATTGATACTTTCAA-CTTTTCCTCAAAATACT
1 GTTTTTATTTTAGAAATTTTAATTTCAAGGAAAATTAATACTTTCAATCTTTTCCTAAAAATACT
10924038 TTTTGAAA
66 TTTTGAAA
* * *
10924046 GTTTTTATTTTAGAAATTTTATTTTCAAGGAAAATTAATACTTTCAATTTTTTCCTAAAAATATT
1 GTTTTTATTTTAGAAATTTTAATTTCAAGGAAAATTAATACTTTCAATCTTTTCCTAAAAATACT
10924111 TTTT
66 TTTT
10924115 AAAAACCTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
72 43 0.70
73 18 0.30
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (73 bp):
GTTTTTATTTTAGAAATTTTAATTTCAAGGAAAATTAATACTTTCAATCTTTTCCTAAAAATACT
TTTTGAAA
Found at i:10924269 original size:58 final size:58
Alignment explanation
Indices: 10924123--10924306 Score: 169
Period size: 57 Copynumber: 3.2 Consensus size: 58
10924113 TTAAAAACCT
* * * * ** * *
10924123 TTTTATCTTTAGGGAAAATTGATACTTTCAGCTTTCCCGCAAAAACATA-TTTTTTAT
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCCTTCAAAAATATATTTTTTTAA
* * * * * *
10924180 TTTTGTGTTCAA-AGGAAATTAATACATTCAACTTTCCTTCAAAAATATATTTTTTTAA
1 TTTTATTTTTAAGA-AAAATTGATACTTTCAACTTTCCTTCAAAAATATATTTTTTTAA
10924238 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTT-CTCTCAAAAATAT-TTTTTTTGGAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCCT-TCAAAAATATATTTTTTT---AA
10924298 TTTTATTTT
1 TTTTATTTT
10924307 AGGAAAATCA
Statistics
Matches: 101, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
57 45 0.45
58 44 0.44
59 1 0.01
60 11 0.11
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.48
Consensus pattern (58 bp):
TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCCTTCAAAAATATATTTTTTTAA
Found at i:10924314 original size:58 final size:56
Alignment explanation
Indices: 10924059--10924314 Score: 180
Period size: 58 Copynumber: 4.4 Consensus size: 56
10924049 TTTATTTTAG
* * **
10924059 AAATTTTATTTTCAAGGAAAATTAATACTTTCAATTTTTTC-CTAAAAATATTTTTTAA
1 AAATTTTATTTT--AGGAAAATTAATACTTTCAACTTTCTCTC-AAAAATATTTTTTTT
* * * * * *
10924117 AAACCTTTTTATCTTTAGGGAAAATTGATACTTTCAGCTTTCCCGCAAAAACATATTTTTT
1 AAA---TTTTAT-TTTA-GGAAAATTAATACTTTCAACTTTCTCTCAAAAATATTTTTTTT
* * * *
10924178 -ATTTTTGTGTTCAAAGG-AAATTAATACATTCAACTTTC-CTTCAAAAATATATTTTTTT
1 AAATTTTAT-TT--TAGGAAAATTAATACTTTCAACTTTCTC-TCAAAAATAT-TTTTTTT
* *
10924236 -AATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCTCTCAAAAATATTTTTTTT
1 AAATTTTA-TTTT-AGGAAAATTAATACTTTCAACTTTCTCTCAAAAATATTTTTTTT
10924293 GGAAATTTTATTTTAGGAAAAT
1 --AAATTTTATTTTAGGAAAAT
10924315 CAAAAATAAA
Statistics
Matches: 155, Mismatches: 26, Indels: 34
0.72 0.12 0.16
Matches are distributed among these distances:
56 1 0.01
57 42 0.27
58 54 0.35
59 7 0.05
60 9 0.06
61 38 0.25
62 4 0.03
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (56 bp):
AAATTTTATTTTAGGAAAATTAATACTTTCAACTTTCTCTCAAAAATATTTTTTTT
Found at i:10924346 original size:10 final size:10
Alignment explanation
Indices: 10924331--10924363 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10924321 TAAAAATAAA
10924331 AAATTAAATT
1 AAATTAAATT
10924341 AAATTAAA-T
1 AAATTAAATT
10924350 AAATTAAAATT
1 AAATT-AAATT
10924361 AAA
1 AAA
10924364 AAAATTAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.29
10 11 0.52
11 4 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATTAAATT
Found at i:10924359 original size:15 final size:15
Alignment explanation
Indices: 10924335--10924371 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
10924325 AATAAAAAAT
10924335 TAAATT-AAATTAAA
1 TAAATTAAAATTAAA
10924349 TAAATTAAAATTAAA
1 TAAATTAAAATTAAA
*
10924364 AAAATTAA
1 TAAATTAA
10924372 GGAATACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAATTAAAATTAAA
Found at i:10924368 original size:19 final size:19
Alignment explanation
Indices: 10924311--10924368 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
10924301 TATTTTAGGA
* * *
10924311 AAATCAAAAATAAAAATAAA
1 AAATTAAAATTAAAAA-AAT
*
10924331 AAATT-AAATTAAATTAAAT
1 AAATTAAAATTAAA-AAAAT
10924350 AAATTAAAATTAAAAAAAT
1 AAATTAAAATTAAAAAAAT
10924369 TAAGGAATAC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATTAAAATTAAAAAAAT
Found at i:10924702 original size:19 final size:18
Alignment explanation
Indices: 10924678--10924716 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
10924668 CCTTTCAGAT
10924678 TTCCCTTTTTTTCTCTCTC
1 TTCCCTTTTTTTCTC-CTC
10924697 TTCCCTTTTTTTCTCCTC
1 TTCCCTTTTTTTCTCCTC
10924715 TT
1 TT
10924717 TCTCTCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
TTCCCTTTTTTTCTCCTC
Found at i:10925684 original size:19 final size:21
Alignment explanation
Indices: 10925651--10925689 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
10925641 AGATAAATAT
*
10925651 AATAATAATG-TTTTTAAAAA
1 AATAATAATGATTTTGAAAAA
10925671 AATAA-AATGATTTTGAAAA
1 AATAATAATGATTTTGAAAA
10925690 CTTTACTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (21 bp):
AATAATAATGATTTTGAAAAA
Found at i:10926288 original size:13 final size:14
Alignment explanation
Indices: 10926270--10926339 Score: 60
Period size: 13 Copynumber: 5.4 Consensus size: 14
10926260 TATAGATTTT
*
10926270 TGAAACTC-TAAAG
1 TGAAACTCTTAAAA
*
10926283 TGAAAC-CCTAAAA
1 TGAAACTCTTAAAA
10926296 TGAAA-TCTTAAAA
1 TGAAACTCTTAAAA
*
10926309 TGAAAC-CTTAAAG
1 TGAAACTCTTAAAA
*
10926322 TAAAAC-CTTAAAA
1 TGAAACTCTTAAAA
*
10926335 CGAAA
1 TGAAA
10926340 TCCTAGAACC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
12 1 0.02
13 46 0.98
ACGTcount: A:0.53, C:0.16, G:0.10, T:0.21
Consensus pattern (14 bp):
TGAAACTCTTAAAA
Found at i:10926307 original size:26 final size:26
Alignment explanation
Indices: 10926270--10926320 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10926260 TATAGATTTT
*
10926270 TGAAACTCTAAAGTGAAACCCTAAAA
1 TGAAACTCTAAAATGAAACCCTAAAA
*
10926296 TGAAA-TCTTAAAATGAAACCTTAAA
1 TGAAACTC-TAAAATGAAACCCTAAA
10926321 GTAAAACCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.51, C:0.16, G:0.10, T:0.24
Consensus pattern (26 bp):
TGAAACTCTAAAATGAAACCCTAAAA
Found at i:10926331 original size:26 final size:26
Alignment explanation
Indices: 10926278--10926344 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 26
10926268 TTTGAAACTC
* * *
10926278 TAAAGTGAAACCCTAAAATGAAATCT
1 TAAAATGAAACCCTAAAATAAAACCT
* *
10926304 TAAAATGAAACCTTAAAGTAAAACCT
1 TAAAATGAAACCCTAAAATAAAACCT
* *
10926330 TAAAACGAAATCCTA
1 TAAAATGAAACCCTA
10926345 GAACCTAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.52, C:0.16, G:0.09, T:0.22
Consensus pattern (26 bp):
TAAAATGAAACCCTAAAATAAAACCT
Found at i:10926422 original size:38 final size:39
Alignment explanation
Indices: 10926348--10926422 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
10926338 AATCCTAGAA
* ** *
10926348 CCTAAATGCAAATCTTAAACCCTTAATGAAACCCTAAGT
1 CCTAAATGCAAAACTTAAACCCCAAATAAAACCCTAAGT
*
10926387 CCTAAATG-AAAACTTAAACCCCAAATAAAATCCTAA
1 CCTAAATGCAAAACTTAAACCCCAAATAAAACCCTAA
10926423 AACTCGAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
38 23 0.74
39 8 0.26
ACGTcount: A:0.47, C:0.25, G:0.05, T:0.23
Consensus pattern (39 bp):
CCTAAATGCAAAACTTAAACCCCAAATAAAACCCTAAGT
Found at i:10927764 original size:288 final size:286
Alignment explanation
Indices: 10927349--10927987 Score: 713
Period size: 288 Copynumber: 2.2 Consensus size: 286
10927339 CTGAGCTTGG
* ** ** * *
10927349 ATTTTTATAAAACTTTCCAGATCTTAATTTTTTAATATTTAATGATTTTTGGTGCATTTGAAATC
1 ATTTTCATAAAACTTTTTAGATCTTAATTTAATAATATTTAATGATTTTTGGTGTATTTAAAATC
* * * **
10927414 ACAGTCATACCCCAAAAAGTCAAATTATCAAAACACCCCTATAAAAAGTTTTTTTGTAATTTGAC
66 ACAATCATACCCCAAAAAGTCAAATTACCAAAACACCCCTATAAAAAGTATTTTCATAATTTGAC
* *
10927479 C-TTTCAGAGCTT-GAATTTGCATGAAACATTTCAGATCTTATTTTCATAATATTTCATGATTTT
131 CTTTTC-GAGCTTCG-ATTTGCATGAAACATTTCAGATATTAATTTCATAATATTTCATGATTTT
* ** * *
10927542 T-GATGTATTTGAAATCATAGCTGTATCC-CAAAAAATGTGAAATTA-TCAAAATACCC-ATAAA
194 TGGA-GCATTTGAAATCATAGCAATA-CCTC-AAAAATATAAAATTACT-AAAATACCCTATAAA
* *
10927603 GGGTATTTTCATAATTTGACCTTTTCAAGGTCAA
255 -GGTA-TTTCATAATTTAACCTTTTCAAGCTCAA
* * *
10927637 ATTTTCATGAAACTTTTTAGATCTTAATTTAATAACA-TTAATGATTTTTGGTGTATTTAAAATT
1 ATTTTCATAAAACTTTTTAGATCTTAATTTAATAATATTTAATGATTTTTGGTGTATTTAAAATC
* * * * * **
10927701 ACAATCGTACCCTAAAAAGTATGAAATTACCAAAATATCCCTAT-AAGGGTATTTTCATAATTTG
66 ACAATCATACCCCAAAAAG--TCAAATTACCAAAACACCCCTATAAAAAGTATTTTCATAATTTG
* * *
10927765 ACCTTTTCGAGCTTCGATTTTCATGAAACTTTTTAGATATTAATTTCATAATATTTCATGATTTT
129 ACCTTTTCGAGCTTCGATTTGCATGAAACATTTCAGATATTAATTTCATAATATTTCATGATTTT
10927830 TGGAGCATTTGAAATCATAGCAATACCTCAAAAATATAAAATTACTAAAATACCCTTATAAAGGT
194 TGGAGCATTTGAAATCATAGCAATACCTCAAAAATATAAAATTACTAAAATACCC-TATAAAGGT
* * ** ***
10927895 ATTTCGTAATTTAACTTTTTTGAGCTTGG
258 ATTTCATAATTTAACCTTTTCAAGCTCAA
* *
10927924 ATTTTCATAAAACTTTTTAGAT-TTAAATTTCATAATATTTTATGATTTTTGGTGT-TTTAAAAT
1 ATTTTCATAAAACTTTTTAGATCTT-AATTTAATAATATTTAATGATTTTTGGTGTATTTAAAAT
10927987 C
65 C
10927988 CCAAAAATGA
Statistics
Matches: 294, Mismatches: 46, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
286 2 0.01
287 122 0.41
288 139 0.47
289 31 0.11
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.41
Consensus pattern (286 bp):
ATTTTCATAAAACTTTTTAGATCTTAATTTAATAATATTTAATGATTTTTGGTGTATTTAAAATC
ACAATCATACCCCAAAAAGTCAAATTACCAAAACACCCCTATAAAAAGTATTTTCATAATTTGAC
CTTTTCGAGCTTCGATTTGCATGAAACATTTCAGATATTAATTTCATAATATTTCATGATTTTTG
GAGCATTTGAAATCATAGCAATACCTCAAAAATATAAAATTACTAAAATACCCTATAAAGGTATT
TCATAATTTAACCTTTTCAAGCTCAA
Found at i:10927953 original size:143 final size:144
Alignment explanation
Indices: 10927317--10927975 Score: 628
Period size: 144 Copynumber: 4.6 Consensus size: 144
10927307 AGTATTTTTA
* * ** **
10927317 GTATTTTCGTAATTTGACC-TTTCTGAGCTTGGATTTTTATAAAACTTTCCAGATCTTAATTTTT
1 GTATTTTCGTAATTTGACCTTTTC-GAGCTTGGATTTTCATGAAACTTTTTAGATCTTAATTTCA
* * * * *
10927381 TAATATTTAATGATTTTTGGTGCATTTGAAATCACAGTC-ATACCCCAAAAA-GTCAAATTATCA
65 TAATATTTAATGATTTTTGGAGCATTTGAAATCATAG-CAATACCCAAAAAATATGAAATTATCA
* *
10927444 AAACACCCCTATAAAAA
129 AAATACCCCTAT-AAAG
* * * * * * *
10927461 GTTTTTTTGTAATTTGACC-TTTCAGAGCTTGAATTTGCATGAAACATTTCAGATCTTATTTTCA
1 GTATTTTCGTAATTTGACCTTTTC-GAGCTTGGATTTTCATGAAACTTTTTAGATCTTAATTTCA
* * ** *
10927525 TAATATTTCATGATTTTT-GATGTATTTGAAATCATAGCTGTATCCCAAAAAATGTGAAATTATC
65 TAATATTTAATGATTTTTGGA-GCATTTGAAATCATAGCAATA-CCCAAAAAATATGAAATTATC
10927589 AAAATA-CCC-ATAAAGG
128 AAAATACCCCTATAAA-G
* * * *** *
10927605 GTATTTTCATAATTTGACCTTTTCAAGGTCAAATTTTCATGAAACTTTTTAGATCTTAATTTAAT
1 GTATTTTCGTAATTTGACCTTTTCGAGCTTGGATTTTCATGAAACTTTTTAGATCTTAATTTCAT
* * * * * *
10927670 AACA-TTAATGATTTTTGGTGTATTTAAAAT--TA-CAATCGTACCCTAAAAAGTATGAAATTAC
66 AATATTTAATGATTTTTGGAGCATTTGAAATCATAGCAA---TACCC-AAAAAATATGAAATTAT
* *
10927731 CAAAATATCCCTATAAGG
127 CAAAATACCCCTATAAAG
* * *
10927749 GTATTTTCATAATTTGACCTTTTCGAGCTTCGATTTTCATGAAACTTTTTAGATATTAATTTCAT
1 GTATTTTCGTAATTTGACCTTTTCGAGCTTGGATTTTCATGAAACTTTTTAGATCTTAATTTCAT
* *
10927814 AATATTTCATGATTTTTGGAGCATTTGAAATCATAGCAATACCTC-AAAAATATAAAATTA-CTA
66 AATATTTAATGATTTTTGGAGCATTTGAAATCATAGCAATACC-CAAAAAATATGAAATTATC-A
*
10927877 AAATACCCTTATAAAG
129 AAATACCCCTATAAAG
* * * *
10927893 GTA-TTTCGTAATTTAACTTTTTTGAGCTTGGATTTTCATAAAACTTTTTAGAT-TTAAATTTCA
1 GTATTTTCGTAATTTGACCTTTTCGAGCTTGGATTTTCATGAAACTTTTTAGATCTT-AATTTCA
*
10927956 TAATATTTTATGATTTTTGG
65 TAATATTTAATGATTTTTGG
10927976 TGTTTTAAAA
Statistics
Matches: 428, Mismatches: 67, Indels: 41
0.80 0.12 0.08
Matches are distributed among these distances:
140 1 0.00
141 2 0.00
142 5 0.01
143 120 0.28
144 234 0.55
145 45 0.11
146 16 0.04
147 2 0.00
148 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.41
Consensus pattern (144 bp):
GTATTTTCGTAATTTGACCTTTTCGAGCTTGGATTTTCATGAAACTTTTTAGATCTTAATTTCAT
AATATTTAATGATTTTTGGAGCATTTGAAATCATAGCAATACCCAAAAAATATGAAATTATCAAA
ATACCCCTATAAAG
Found at i:10929413 original size:211 final size:210
Alignment explanation
Indices: 10929028--10929413 Score: 498
Period size: 211 Copynumber: 1.8 Consensus size: 210
10929018 ATTTTTTTTT
*
10929028 AAATTACTAAAGTATTGGAATATTTAGAAACTCTTTTCAATACAATTTTTTATTAATTTGAACAA
1 AAATTACTAAAGTATTGAAATATTTAGAAACTCTTTTCAATACAATTTTTTATTAATTTGAACAA
* * *
10929093 TTCTATTAAAAAATAAAAAATAACTATTTATTAAAATAAGTTTTTTTTAATAAAATGTAATAAAC
66 TTCTATTAAAAAATAAAAAATAAATATTTATTAAAACAAGATTTTTTTAATAAAATGTAATAAAC
* *
10929158 TAAAAATTTTCGATGATGGAACTTCGAAAAGTCTTAGTAGTGATTTCTAAAAATTTCTTGGGTGA
131 TAAAAATTTTCAATGATGGAACTTCGAAAAGTCTGAGTAGTGATTTCTAAAAATTTCTTGGGTGA
10929223 GAAAAGATTTTTAAA
196 GAAAAGATTTTTAAA
*
10929238 AAATTA-TCAAAGTATTGAAATATTTAGAAACTCTTTTCAATATAATTTTTTAATTAATTTGAAC
1 AAATTACT-AAAGTATTGAAATATTTAGAAACTCTTTTCAATACAATTTTTT-ATTAATTTGAAC
* * * *
10929302 AATTCTCTTAAGGAGATGAAAAATATAAATATTTA-TAAAAGCATGCATTTTTTT-ATAAAAT-T
64 AATTCTATTAA-AAAAT-AAAAA-ATAAATATTTATTAAAA-CAAG-ATTTTTTTAATAAAATGT
* * * * * *
10929364 -AT-AAGTGAGAATTTTCAATGATGGGATTTCAGGAAA-TCTGAGTAGTGATT
124 AATAAACTAAAAATTTTCAATGATGGAACTTC-GAAAAGTCTGAGTAGTGATT
10929414 CTTGAGAATT
Statistics
Matches: 151, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
209 1 0.01
210 47 0.31
211 57 0.38
212 9 0.06
213 11 0.07
214 19 0.13
215 7 0.05
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (210 bp):
AAATTACTAAAGTATTGAAATATTTAGAAACTCTTTTCAATACAATTTTTTATTAATTTGAACAA
TTCTATTAAAAAATAAAAAATAAATATTTATTAAAACAAGATTTTTTTAATAAAATGTAATAAAC
TAAAAATTTTCAATGATGGAACTTCGAAAAGTCTGAGTAGTGATTTCTAAAAATTTCTTGGGTGA
GAAAAGATTTTTAAA
Found at i:10929470 original size:210 final size:210
Alignment explanation
Indices: 10929028--10929476 Score: 477
Period size: 210 Copynumber: 2.1 Consensus size: 210
10929018 ATTTTTTTTT
* * *
10929028 AAATTACTAAAGTATTGGAATATTTAGAAACTCTTTTCAATACAATTTTTTATTAATTTGAACAA
1 AAATTACCAAAATATTGAAATATTTAGAAACTCTTTTCAATACAATTTTTTATTAATTTGAACAA
* * *
10929093 TTCTATTAAAAAATAAAAAATAACTATTTATTAAAATAAGTTTTTTTTAATAAAATGTAATAAAC
66 TTCTATTAAAAAATAAAAAATAAATATTTATTAAAACAAGATTTTTTTAATAAAATGTAATAAAC
* * * * *
10929158 TAAAAATTTTCGATGATGGAACTTCGAAAAGTCTTAGTAGTGATTTCTAAAAATTTCTTGGGTGA
131 TAAAAATTTTCAATGATGGAACTTCGAAAAGTCTGAGTAGTGATTTCTAAAAATTTCCTAGATGA
**
10929223 GAAAAGATTTTTAAA
196 GAAAAGATTACTAAA
* * *
10929238 AAATTATCAAAGTATTGAAATATTTAGAAACTCTTTTCAATATAATTTTTTAATTAATTTGAACA
1 AAATTACCAAAATATTGAAATATTTAGAAACTCTTTTCAATACAATTTTTT-ATTAATTTGAACA
* * * *
10929303 ATTCTCTTAAGGAGATGAAAAATATAAATATTTA-TAAAAGCATGCATTTTTTT-ATAAAAT-T-
65 ATTCTATTAA-AAAAT-AAAAA-ATAAATATTTATTAAAA-CAAG-ATTTTTTTAATAAAATGTA
* * * * * * * *
10929364 AT-AAGTGAGAATTTTCAATGATGGGATTTCAGGAAA-TCTGAGTAGTGA-TTCTTGAGAA-TTC
125 ATAAACTAAAAATTTTCAATGATGGAACTTC-GAAAAGTCTGAGTAGTGATTTC-TAAAAATTTC
10929425 ACTAGATGAGAAAAG-TCTACT-AA
188 -CTAGATGAGAAAAGAT-TACTAAA
*
10929448 AAATTGCCAAAATATTGAAATATTTAGAA
1 AAATTACCAAAATATTGAAATATTTAGAA
10929477 GTTTATTTCC
Statistics
Matches: 200, Mismatches: 29, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
210 82 0.41
211 72 0.36
212 9 0.05
213 11 0.05
214 19 0.09
215 7 0.04
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.38
Consensus pattern (210 bp):
AAATTACCAAAATATTGAAATATTTAGAAACTCTTTTCAATACAATTTTTTATTAATTTGAACAA
TTCTATTAAAAAATAAAAAATAAATATTTATTAAAACAAGATTTTTTTAATAAAATGTAATAAAC
TAAAAATTTTCAATGATGGAACTTCGAAAAGTCTGAGTAGTGATTTCTAAAAATTTCCTAGATGA
GAAAAGATTACTAAA
Found at i:10931611 original size:30 final size:30
Alignment explanation
Indices: 10931572--10931646 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 30
10931562 GATAATACAT
10931572 GTATTGCATCCCATTC-ACATCAATGGATA
1 GTATTGCATCCCATTCAACATCAATGGATA
10931601 GTACTTGCATCCCA-TCAACATCAATGGATA
1 GTA-TTGCATCCCATTCAACATCAATGGATA
*
10931631 GTATATGTATCCCATT
1 GTAT-TGCATCCCATT
10931647 TATGCACATG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
29 6 0.15
30 34 0.83
31 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (30 bp):
GTATTGCATCCCATTCAACATCAATGGATA
Found at i:10936378 original size:10 final size:9
Alignment explanation
Indices: 10936360--10936411 Score: 52
Period size: 10 Copynumber: 5.4 Consensus size: 9
10936350 TGATGGTTAT
10936360 AAAAAAATA
1 AAAAAAATA
10936369 AAATAAAATA
1 AAA-AAAATA
*
10936379 AAAAAAACA
1 AAAAAAATA
10936388 CAAAAAAGA-A
1 -AAAAAA-ATA
10936398 AAAGAAAATA
1 AAA-AAAATA
10936408 AAAA
1 AAAA
10936412 CAAAGACAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
9 13 0.35
10 23 0.62
11 1 0.03
ACGTcount: A:0.85, C:0.04, G:0.04, T:0.08
Consensus pattern (9 bp):
AAAAAAATA
Found at i:10936400 original size:29 final size:30
Alignment explanation
Indices: 10936360--10936420 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
10936350 TGATGGTTAT
*
10936360 AAAAAAATAAAATAAAATAAAAA-AAACAC
1 AAAAAAATAAAAGAAAATAAAAACAAACAC
*
10936389 AAAAAAGA-AAAAGAAAATAAAAACAAAGAC
1 AAAAAA-ATAAAAGAAAATAAAAACAAACAC
10936419 AA
1 AA
10936421 GTTTTTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.82, C:0.07, G:0.05, T:0.07
Consensus pattern (30 bp):
AAAAAAATAAAAGAAAATAAAAACAAACAC
Found at i:10936788 original size:12 final size:13
Alignment explanation
Indices: 10936768--10936799 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10936758 TTAAATATTC
*
10936768 AGAAAAAAAAAAG
1 AGAAAAAAAAAGG
10936781 AGAAAAAAAAAGG
1 AGAAAAAAAAAGG
10936794 AGAAAA
1 AGAAAA
10936800 GAAAGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAGG
Found at i:10938434 original size:70 final size:71
Alignment explanation
Indices: 10938319--10938466 Score: 192
Period size: 70 Copynumber: 2.1 Consensus size: 71
10938309 TTTGCATTAC
* * * *
10938319 TTGCATTCATACTTACGTGTGCATAATGAGAAAGACATTTGCATTCA-CATCTATATCA-AAAAA
1 TTGCATTCATACTCACATGTGCATAATGAGAAAGACATTTACATTCAGC-TCTACATCATAAAAA
*
10938382 TAGACAT
65 AAGACAT
* * * *
10938389 TTGCATTCATACTCACATTTGCATCATGAGAAAGATATTTACATTCAGCTCTACATTATAAAAAA
1 TTGCATTCATACTCACATGTGCATAATGAGAAAGACATTTACATTCAGCTCTACATCATAAAAAA
10938454 AGACAT
66 AGACAT
10938460 TTGCATT
1 TTGCATT
10938467 TACATCGCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
70 48 0.72
71 19 0.28
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (71 bp):
TTGCATTCATACTCACATGTGCATAATGAGAAAGACATTTACATTCAGCTCTACATCATAAAAAA
AGACAT
Found at i:10938564 original size:112 final size:110
Alignment explanation
Indices: 10938366--10938619 Score: 332
Period size: 112 Copynumber: 2.3 Consensus size: 110
10938356 TTTGCATTCA
* * * *
10938366 CATCTATATCA-AAAAATAGACATTTGCATTCATACTCACATTTGCATCATGAGAAAGATATTTA
1 CATCTACATCACAAAAA-AGACATTCGCATTTATACTCACATTTGCATCATGAGAAAGACATTTA
* *
10938430 CATTCAGCTCTACATTATAAAAAAAGACATTTGCATTTACATCGCTTG
65 CATTCAGCTCTACA-T-TACAAAAAGACATTTGCATTTACATAGCTTG
* *
10938478 CATCTGCATCACAAAAAAGACATTCGCATTTATACTCGCATTTGCATCATGAGAAAGACATTTAC
1 CATCTACATCACAAAAAAGACATTCGCATTTATACTCACATTTGCATCATGAGAAAGACATTTAC
* * * *
10938543 ATTCAGCTCTACATTACAAAAAGATATTTGGATTTGCATATCTTG
66 ATTCAGCTCTACATTACAAAAAGACATTTGCATTTACATAGCTTG
*
10938588 CATCTACATTACAAAAAAG-CTTATTCGCATTT
1 CATCTACATCACAAAAAAGAC--ATTCGCATTT
10938620 GGATCACTCC
Statistics
Matches: 125, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
109 1 0.01
110 42 0.34
111 11 0.09
112 66 0.53
113 5 0.04
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.33
Consensus pattern (110 bp):
CATCTACATCACAAAAAAGACATTCGCATTTATACTCACATTTGCATCATGAGAAAGACATTTAC
ATTCAGCTCTACATTACAAAAAGACATTTGCATTTACATAGCTTG
Found at i:10938805 original size:13 final size:13
Alignment explanation
Indices: 10938787--10938811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10938777 ATAAGACATT
10938787 TGCATTTGCATCA
1 TGCATTTGCATCA
10938800 TGCATTTGCATC
1 TGCATTTGCATC
10938812 CCAAAAAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (13 bp):
TGCATTTGCATCA
Found at i:10939386 original size:87 final size:87
Alignment explanation
Indices: 10939181--10939426 Score: 325
Period size: 87 Copynumber: 2.8 Consensus size: 87
10939171 ACCCATATAC
* * * * *
10939181 ATTTCCAAGAGCTCCAGGCAAAGCATTTTAAATTTTTAAAATTTCAACGCCTCTATTATGA-GAG
1 ATTTCTAAGACCTCCAGGCAAAGTATTTTAAATTTTTAAAGTTTCAACGCCTTTATTATGATGAG
* *
10939245 CATTTAAAGACCTCCAAGCATA
66 CATTCAAAAACCTCCAAGCATA
*
10939267 ATTTTTAAGACCTCCAGGCAAAGCT-TTTTAAATTTTTAAAGTTTCAACGCCTTTATTATGATGA
1 ATTTCTAAGACCTCCAGGCAAAG-TATTTTAAATTTTTAAAGTTTCAACGCCTTTATTATGATGA
* ****
10939331 GCATTCAAAAATCTTTGGGCATA
65 GCATTCAAAAACCTCCAAGCATA
* * *
10939354 ATTTCTAAGACCTCCAAGCAAAGTATTATAAATTTTTAAAGTTTCAACGCCTTTATTACGATGAG
1 ATTTCTAAGACCTCCAGGCAAAGTATTTTAAATTTTTAAAGTTTCAACGCCTTTATTATGATGAG
10939419 CATTCAAA
66 CATTCAAA
10939427 GATTCTTTAG
Statistics
Matches: 140, Mismatches: 17, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
86 55 0.39
87 85 0.61
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (87 bp):
ATTTCTAAGACCTCCAGGCAAAGTATTTTAAATTTTTAAAGTTTCAACGCCTTTATTATGATGAG
CATTCAAAAACCTCCAAGCATA
Found at i:10940360 original size:144 final size:144
Alignment explanation
Indices: 10940108--10940786 Score: 732
Period size: 144 Copynumber: 4.7 Consensus size: 144
10940098 TAAAATTATT
* * * * * *
10940108 AAAATACCCCTATAAGGGTATTTTTATAAGTTGACCTTCCTAACCTCA-AGTTTTTATGAAACAT
1 AAAATACCCCTATAAGGGTATTTTCATAATTTGACCTTCCTAAGCTTAGA-TTTTCATGAAACTT
* * *
10940172 TTTAGATCTTAATTTCATAATATTTTATGATTTTTTGTGCATTTGAAATCACAGTC-GTACTTAA
65 TTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAG-CAGTACCTAA
*
10940236 AAAGTGTGAAATTATC
129 AAAGTGTGAAATTACC
*
10940252 AAAATACCCCTATAAGGGTATTTTCATAATTTGACCTTCCTAAGCTTAGATTTTCATCAAA-TTT
1 AAAATACCCCTATAAGGGTATTTTCATAATTTGACCTTCCTAAGCTTAGATTTTCATGAAACTTT
* * *
10940316 TTCAAATCTTAATTTCATAATATTTTATGATTTTTGGTGCATTTGAAATCACAGCCA-TACCTAG
66 TT-AGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAG-CAGTACCTAA
10940380 AAAGTGTGAAATTACC
129 AAAGTGTGAAATTACC
* * *
10940396 AAAATGCCCTTCTATAAAGGGTATTTATC-TAATTTGACCTT-TTCAAGCTTGGATTTTCATGAA
1 AAAATACCC--CTAT-AAGGGTATTT-TCATAATTTGACCTTCCT-AAGCTTAGATTTTCATGAA
* *
10940459 A-TTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGATGCA-TTGAAATCATAGCAGTAC
61 ACTTTTT-AGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAGCAGTAC
*
10940522 CTAAGAAGTGTGAAATTACC
125 CTAAAAAGTGTGAAATTACC
* * * * * * *
10940542 AAAATACCCTTATAAAGGTATTTTCATAATTTGATCTTCTTTAGCTTGGATTTTAATGAAACTTT
1 AAAATACCCCTATAAGGGTATTTTCATAATTTGACCTTCCTAAGCTTAGATTTTCATGAAACTTT
* * ** * *
10940607 TTAGATCTTAATTTTATAATATTTAAAAATTTTTGGTGCATTTGAAATTATAGCAGTACCTTGAA
66 TTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAGCAGTACC-T-AA
** * *
10940672 AAA-AATAAAATTACT
129 AAAGTGTGAAATTACC
* ** * *** * *
10940687 AAAATATCTTTACAAGGGTATTTTCATAATTTAGTTTTTCC-GAGCTCAGATTTTCAT-AGAACT
1 AAAATACCCCTATAAGGGTATTTTCATAATTT-GACCTTCCTAAGCTTAGATTTTCATGA-AACT
*
10940750 TTTTAGATTTTAATTTCATAATATTTCATGATTTTTG
64 TTTTAGATCTTAATTTCATAATATTTCATGATTTTTG
10940787 ATGTTTTAAA
Statistics
Matches: 462, Mismatches: 56, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
142 2 0.00
143 75 0.16
144 160 0.35
145 88 0.19
146 54 0.12
147 81 0.18
148 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (144 bp):
AAAATACCCCTATAAGGGTATTTTCATAATTTGACCTTCCTAAGCTTAGATTTTCATGAAACTTT
TTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAGCAGTACCTAAAA
AGTGTGAAATTACC
Found at i:10940642 original size:290 final size:289
Alignment explanation
Indices: 10940171--10940789 Score: 761
Period size: 290 Copynumber: 2.1 Consensus size: 289
10940161 TTATGAAACA
* *
10940171 TTTTAGATCTTAATTTCATAATATTTTATGATTTTTTG-TGCATTTGAAATCACAGTCGTACTTA
1 TTTTAGATCTTAATTTCATAATATTTCATGA-TTTTTGATGCATTTGAAATCACAGTCGTACCTA
* *
10940235 AAAAGTGTGAAATTATCAAAATACCCCTATAAGGGTATTTTCATAATTTGACCTTCCTAAGCTTA
65 AAAAGTGTGAAATTACCAAAATACCCCTATAAAGGTATTTTCATAATTTGACCTTCCTAAGCTTA
* * **
10940300 GATTTTCATCAAATTTTTCAAATCTTAATTTCATAATATTTTATGATTTTTGGTGCATTTGAAAT
130 GATTTTAATCAAATTTTTCAAATCTTAATTTCATAATATTTAAAAATTTTTGGTGCATTTGAAAT
*** * *
10940365 CACAGCCA-TACCTAG-AAAGTGTGAAATTACCAAAATGCCCTTCTATAAAGGGTATTTATC-TA
195 CACAG-CAGTACCTAGAAAAAAATAAAATTACCAAAAT-ACCTT-TA-AAAGGGTATTT-TCATA
**
10940427 ATTTGACCTTTT-CAAGCTTGGATTTTCAT-GAAAT
255 ATTT-ACCTTTTCCAAGCTCAGATTTTCATAGAAAT
*
10940461 TTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGATGCA-TTGAAATCATAG-CAGTACCT
1 TTTT-AGATCTTAATTTCATAATATTTCATGATTTTTGATGCATTTGAAATCACAGTC-GTACCT
* * * * *
10940524 AAGAAGTGTGAAATTACCAAAATACCCTTATAAAGGTATTTTCATAATTTGATCTTCTTTAGCTT
64 AAAAAGTGTGAAATTACCAAAATACCCCTATAAAGGTATTTTCATAATTTGACCTTCCTAAGCTT
* * * *
10940589 GGATTTTAATGAAACTTTTT-AGATCTTAATTTTATAATATTTAAAAATTTTTGGTGCATTTGAA
129 AGATTTTAATCAAA-TTTTTCAAATCTTAATTTCATAATATTTAAAAATTTTTGGTGCATTTGAA
* * * * * *
10940653 ATTATAGCAGTACCTTGAAAAAAATAAAATTACTAAAATATCTTTACAAGGGTATTTTCATAATT
193 ATCACAGCAGTACCTAGAAAAAAATAAAATTACCAAAATACCTTTAAAAGGGTATTTTCATAATT
** * *
10940718 TAGTTTTTCCGAGCTCAGATTTTCATAGAACT
258 TACCTTTTCCAAGCTCAGATTTTCATAGAAAT
*
10940750 TTTTAGATTTTAATTTCATAATATTTCATGATTTTTGATG
1 TTTTAGATCTTAATTTCATAATATTTCATGATTTTTGATG
10940790 TTTTAAAATC
Statistics
Matches: 284, Mismatches: 36, Indels: 20
0.84 0.11 0.06
Matches are distributed among these distances:
287 7 0.02
288 65 0.23
289 13 0.05
290 148 0.52
291 51 0.18
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (289 bp):
TTTTAGATCTTAATTTCATAATATTTCATGATTTTTGATGCATTTGAAATCACAGTCGTACCTAA
AAAGTGTGAAATTACCAAAATACCCCTATAAAGGTATTTTCATAATTTGACCTTCCTAAGCTTAG
ATTTTAATCAAATTTTTCAAATCTTAATTTCATAATATTTAAAAATTTTTGGTGCATTTGAAATC
ACAGCAGTACCTAGAAAAAAATAAAATTACCAAAATACCTTTAAAAGGGTATTTTCATAATTTAC
CTTTTCCAAGCTCAGATTTTCATAGAAAT
Found at i:10941471 original size:21 final size:22
Alignment explanation
Indices: 10941438--10941478 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
10941428 CGGTATACTT
*
10941438 TTTTTATATATAACAATAATGA
1 TTTTAATATATAACAATAATGA
*
10941460 TTTTAATA-ATAATAATAAT
1 TTTTAATATATAACAATAAT
10941479 AAAATTGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TTTTAATATATAACAATAATGA
Found at i:10942612 original size:18 final size:18
Alignment explanation
Indices: 10942591--10942625 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10942581 TAATTGTTTT
10942591 AATAA-TAATAATAATGAA
1 AATAAGTAA-AATAATGAA
10942609 AATAAGTAAAATAATGA
1 AATAAGTAAAATAATGA
10942626 TTAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
AATAAGTAAAATAATGAA
Found at i:10942953 original size:31 final size:31
Alignment explanation
Indices: 10942918--10942989 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
10942908 CTTAAACACT
* * * *
10942918 AACCCTAAAAATCCAAAATCCCTTAAGTCCA
1 AACCCTAAAAATCCAAAACCCCTAAAATCAA
* *
10942949 AACCCCATAAAATCCGAAACCCCTAAAATCAA
1 AACCCTA-AAAATCCAAAACCCCTAAAATCAA
10942981 AACCCTAAA
1 AACCCTAAA
10942990 CCTTCCATAC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
31 8 0.24
32 25 0.76
ACGTcount: A:0.49, C:0.33, G:0.03, T:0.15
Consensus pattern (31 bp):
AACCCTAAAAATCCAAAACCCCTAAAATCAA
Found at i:10942977 original size:16 final size:15
Alignment explanation
Indices: 10942920--10942989 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 15
10942910 TAAACACTAA
*
10942920 CCCTAAAAATCCAAAAT
1 CCCT-AAAATCC-AAAC
* *
10942937 CCCTTAAGTCCAAAC
1 CCCTAAAATCCAAAC
10942952 CCCATAAAATCCGAAAC
1 CCC-TAAAATCC-AAAC
*
10942969 CCCTAAAAT-CAAAA
1 CCCTAAAATCCAAAC
10942983 CCCTAAA
1 CCCTAAA
10942990 CCTTCCATAC
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
14 10 0.22
15 7 0.16
16 17 0.38
17 11 0.24
ACGTcount: A:0.47, C:0.34, G:0.03, T:0.16
Consensus pattern (15 bp):
CCCTAAAATCCAAAC
Found at i:10949737 original size:90 final size:90
Alignment explanation
Indices: 10949584--10949752 Score: 320
Period size: 90 Copynumber: 1.9 Consensus size: 90
10949574 TAAGTTGCAT
*
10949584 GGAACGCTTTGCTGAAAGTGTTCAACCAAGCTTATGTCAAGCATAACATTTTTGTTGAGAAGGTA
1 GGAACGCTTTGCTGAAAGTGTTCAACCAAGCTTATGTCAAGCATAACATTTTTGTTGAAAAGGTA
10949649 GATCACATGGTTGGAAAGCTACATA
66 GATCACATGGTTGGAAAGCTACATA
*
10949674 GGAACGCTTTGCTGAAAGTGTTCAACCAAGCTTATGTCGAGCATAACATTTTTGTTGAAAAGGTA
1 GGAACGCTTTGCTGAAAGTGTTCAACCAAGCTTATGTCAAGCATAACATTTTTGTTGAAAAGGTA
10949739 GATCACATGGTTGG
66 GATCACATGGTTGG
10949753 GAATATTATA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 77 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (90 bp):
GGAACGCTTTGCTGAAAGTGTTCAACCAAGCTTATGTCAAGCATAACATTTTTGTTGAAAAGGTA
GATCACATGGTTGGAAAGCTACATA
Found at i:10950894 original size:16 final size:16
Alignment explanation
Indices: 10950873--10950909 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
10950863 ATGTTCTCCA
* *
10950873 TTTTTCATTTCTTTCT
1 TTTTTCATTACTATCT
10950889 TTTTTCATTACTATCT
1 TTTTTCATTACTATCT
10950905 TTTTT
1 TTTTT
10950910 GCCGTTGCTA
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:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTCATTACTATCT
Found at i:10954406 original size:9 final size:9
Alignment explanation
Indices: 10954403--10954436 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
10954393 AAAAATGTAA
10954403 AAAAAATAT
1 AAAAAATAT
10954412 AAAAAATAT
1 AAAAAATAT
10954421 AAAAAATAT
1 AAAAAATAT
10954430 ATAAAAA
1 A-AAAAA
10954437 AGAAAGAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.79
10 5 0.21
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAAATAT
Found at i:10954407 original size:11 final size:11
Alignment explanation
Indices: 10954391--10954437 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
10954381 TATTTTGCTT
*
10954391 AAAAAAATGTA
1 AAAAAAATATA
10954402 AAAAAAATAT-
1 AAAAAAATATA
10954412 -AAAAAATATA
1 AAAAAAATATA
*
10954422 AAAAATATATA
1 AAAAAAATATA
10954433 AAAAA
1 AAAAA
10954438 GAAAGAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 9 0.28
11 23 0.72
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (11 bp):
AAAAAAATATA
Found at i:10954417 original size:20 final size:20
Alignment explanation
Indices: 10954392--10954437 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
10954382 ATTTTGCTTA
*
10954392 AAAAAATGTAAAAAAAATAT
1 AAAAAATATAAAAAAAATAT
*
10954412 AAAAAATATAAAAAATATAT
1 AAAAAATATAAAAAAAATAT
10954432 AAAAAA
1 AAAAAA
10954438 GAAAGAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAAAATATAAAAAAAATAT
Found at i:10955626 original size:109 final size:109
Alignment explanation
Indices: 10955473--10955989 Score: 677
Period size: 109 Copynumber: 4.7 Consensus size: 109
10955463 AGTTATTGTT
* * * * ** * * *
10955473 ACTTTTATTTCTTAGACTTACGGTTCAAT-CCTGATCGTCATTAATCTTTGACTCATGGATTAAT
1 ACTTTTATTTCTTTGACTTGCGGTTCAGTCCCAG-TTATCTTTAATCTTTGACTCGTGGTTTAAT
* *
10955537 CTCGATCATTCTTATAGCTTCTCGACTTACGATTTAATCATAGTC
65 CCCGATCATTCTTATAGCTTCTCGACTTACGATTTAATCCTAGTC
10955582 ACTTTTATTTCTTTGACTTGCGGTTCAGTCCCAGTTATCTTTAATCTTTGACTCGTGGTTTAAT-
1 ACTTTTATTTCTTTGACTTGCGGTTCAGTCCCAGTTATCTTTAATCTTTGACTCGTGGTTTAATC
** * *
10955646 CATAGTCATTCTTATAGCTTATCGACTTACGGTTTAATCCTAGTC
66 CCGA-TCATTCTTATAGCTTCTCGACTTACGATTTAATCCTAGTC
* * * * *
10955691 ACTTTTATTTCTCTAACTTACGGTTCAGTCTC-GATT-TTTGTTAATCTTTGACTCGTGGTTTAA
1 ACTTTTATTTCTTTGACTTGCGGTTCAGTCCCAG-TTATCT-TTAATCTTTGACTCGTGGTTTAA
* * *
10955754 TCCCGATCATTCTTATAGCTTCTCGACTTGCGGTTTAATCCTAGTT
64 TCCCGATCATTCTTATAGCTTCTCGACTTACGATTTAATCCTAGTC
* *
10955800 GCTTTTATTTCTTTGACTTGCGGTTCAGTCTCAGTTATCTTTAATCTTTGACTCGTGGTTTAATC
1 ACTTTTATTTCTTTGACTTGCGGTTCAGTCCCAGTTATCTTTAATCTTTGACTCGTGGTTTAATC
10955865 CCGATCATTCTTATAGCTTCTCGACTTAC-AGTTTAATCCTAGTC
66 CCGATCATTCTTATAGCTTCTCGACTTACGA-TTTAATCCTAGTC
* *
10955909 ACTTTTATTTCTCTGACTTGCGATTC-GATCCCAGTTATCTTTAATCTTTGACTCGTGGTTTAAT
1 ACTTTTATTTCTTTGACTTGCGGTTCAG-TCCCAGTTATCTTTAATCTTTGACTCGTGGTTTAAT
* *
10955973 CCTGATCATTTTTATAG
65 CCCGATCATTCTTATAG
10955990 TTTTTGAATT
Statistics
Matches: 360, Mismatches: 39, Indels: 18
0.86 0.09 0.04
Matches are distributed among these distances:
108 5 0.01
109 347 0.96
110 8 0.02
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (109 bp):
ACTTTTATTTCTTTGACTTGCGGTTCAGTCCCAGTTATCTTTAATCTTTGACTCGTGGTTTAATC
CCGATCATTCTTATAGCTTCTCGACTTACGATTTAATCCTAGTC
Found at i:10956197 original size:69 final size:70
Alignment explanation
Indices: 10956072--10956207 Score: 195
Period size: 69 Copynumber: 2.0 Consensus size: 70
10956062 TAACTCGCTA
* * **
10956072 TTCAATCTCGATCTCTTTAAATCTAAAAATTATAGTTTAATCTTGATTGTTGTTATTCTTTGACT
1 TTCAATCTCGATCTCTTTAAATCTAAAAATCACAGTTTAATCTCAATTGTTGTTATTCTTTGACT
10956137 CGCGG
66 CGCGG
* *
10956142 TTCAATC-CTGATCTCTTTAAATC-CAAAATCACAGTTTAATCTCAATTGTTGTTATTTTTTGAC
1 TTCAATCTC-GATCTCTTTAAATCTAAAAATCACAGTTTAATCTCAATTGTTGTTATTCTTTGAC
10956205 TCG
65 TCG
10956208 TTGTTTAATC
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
69 38 0.64
70 21 0.36
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.45
Consensus pattern (70 bp):
TTCAATCTCGATCTCTTTAAATCTAAAAATCACAGTTTAATCTCAATTGTTGTTATTCTTTGACT
CGCGG
Found at i:10956241 original size:45 final size:45
Alignment explanation
Indices: 10956177--10956267 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
10956167 AAATCACAGT
* *
10956177 TTAATCTCAATTGTTGTTATTTTTTGACTCGTTGTTTAATCTCGG
1 TTAATCTCAATTGTTGTTATTTTCTGACTCGTGGTTTAATCTCGG
10956222 TTAATCTCAATTGTTGTTATTTTCTGACTCGTGGTTTAATCTCGG
1 TTAATCTCAATTGTTGTTATTTTCTGACTCGTGGTTTAATCTCGG
10956267 T
1 T
10956268 CTCTTTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.18, C:0.14, G:0.16, T:0.52
Consensus pattern (45 bp):
TTAATCTCAATTGTTGTTATTTTCTGACTCGTGGTTTAATCTCGG
Found at i:10956407 original size:45 final size:46
Alignment explanation
Indices: 10956349--10956444 Score: 158
Period size: 45 Copynumber: 2.1 Consensus size: 46
10956339 TTTAATCCAA
* *
10956349 AATCATAGTTTAATCTCGATTGTTGTTATTTTCTGACTCGTTGTTT
1 AATCCTAGTTTAATCTCGATTGTTGTTATTTTCTGACTCGTAGTTT
*
10956395 AATCCTAG-TTAATCTCGATTGTTGTTATTTTTTGACTCGTAGTTT
1 AATCCTAGTTTAATCTCGATTGTTGTTATTTTCTGACTCGTAGTTT
10956440 AATCC
1 AATCC
10956445 CGGTCTCTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 40 0.85
46 7 0.15
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.50
Consensus pattern (46 bp):
AATCCTAGTTTAATCTCGATTGTTGTTATTTTCTGACTCGTAGTTT
Found at i:10956556 original size:180 final size:182
Alignment explanation
Indices: 10956133--10956580 Score: 704
Period size: 180 Copynumber: 2.5 Consensus size: 182
10956123 GTTATTCTTT
* * *
10956133 GACTCGCGGTTCAATCCTGATCTCTTTAAATCCAAAATCACAGTTTAATCTCAATTGTTGTTATT
1 GACTCGCGGTTCAATCCCGATTTCTTT-AATCCAAAATCACAGTTTAATCTCGATTGTTGTTATT
* * *
10956198 TTTTGACTCGTTGTTTAAT-CTCGGTTAATCTCAATTGTTGTTATTTTCTGACTCGTGGTTTAAT
65 TTCTGACTCGTTGTTTAATCCTCAGTTAATCTCAATTGTTGTTATTTTCTGACTCGTAGTTTAAT
* * *
10956262 CTCGGTCTCTTTATTTTTTTGACTTGTGATTCAATCCAAATTGACGTTATTCT
130 CCCGGTCTCTTTATTTTTCTGACTTGTGATTCAATCCAAATTGACGTTATTCC
* *
10956315 GACTCGCGGTTCAATCTCGATTTCTTTAATCCAAAATCATAGTTTAATCTCGATTGTTGTTATTT
1 GACTCGCGGTTCAATCCCGATTTCTTTAATCCAAAATCACAGTTTAATCTCGATTGTTGTTATTT
* *
10956380 TCTGACTCGTTGTTTAATCCT-AGTTAATCTCGATTGTTGTTATTTTTTGACTCGTAGTTTAATC
66 TCTGACTCGTTGTTTAATCCTCAGTTAATCTCAATTGTTGTTATTTTCTGACTCGTAGTTTAATC
*
10956444 CCGGTCTCTTTA-TTTTCTGACTTGTGATTCAATCCAAGTTGACGTTATTCC
131 CCGGTCTCTTTATTTTTCTGACTTGTGATTCAATCCAAATTGACGTTATTCC
* *
10956495 GACTCACGGTTCAATCCCGATTTCTTTAATCCAAAATCGCAGTTTAATCTCGATTGTTGTTATTT
1 GACTCGCGGTTCAATCCCGATTTCTTTAATCCAAAATCACAGTTTAATCTCGATTGTTGTTATTT
* *
10956560 TCTGACTTGTGGTTTAATCCT
66 TCTGACTCGTTGTTTAATCCT
10956581 GGTCTTTTTA
Statistics
Matches: 245, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
180 116 0.47
181 103 0.42
182 26 0.11
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (182 bp):
GACTCGCGGTTCAATCCCGATTTCTTTAATCCAAAATCACAGTTTAATCTCGATTGTTGTTATTT
TCTGACTCGTTGTTTAATCCTCAGTTAATCTCAATTGTTGTTATTTTCTGACTCGTAGTTTAATC
CCGGTCTCTTTATTTTTCTGACTTGTGATTCAATCCAAATTGACGTTATTCC
Found at i:10956645 original size:135 final size:135
Alignment explanation
Indices: 10956403--10956752 Score: 522
Period size: 135 Copynumber: 2.6 Consensus size: 135
10956393 TTAATCCTAG
*
10956403 TTAATCTCGATTGTTGTTATTTTTTGACTCGTAGTTTAATCCCGGTCTCTTTATTTTCTGACTTG
1 TTAATCTCGATTGTTGTTATTTTTTGACTCGTAGTTTAATCCCGGTCTCTTTATTTTTTGACTTG
10956468 TGATTCAATCCAAGTTGACGTTATTCCGACTCACGGTTCAATCCCGATTTCTTTAATCCAAAATC
66 TGATTCAATCCAAGTTGACGTTATTCCGACTCACGGTTCAATCCCGATTTCTTTAATCCAAAATC
*
10956533 GCAGT
131 ACAGT
* * * * * *
10956538 TTAATCTCGATTGTTGTTATTTTCTGACTTGTGGTTTAATCCTGGTCTTTTTATTTTTTGACTCG
1 TTAATCTCGATTGTTGTTATTTTTTGACTCGTAGTTTAATCCCGGTCTCTTTATTTTTTGACTTG
* * **
10956603 TGATTCAATCCAAGTTGACGTTATTCTGACTCGCGGTTCAATCTTGATTTCTTTAATCCAAAATC
66 TGATTCAATCCAAGTTGACGTTATTCCGACTCACGGTTCAATCCCGATTTCTTTAATCCAAAATC
*
10956668 ATAGT
131 ACAGT
* * * *
10956673 TTAATCTCGATTGTTATT-TTTTTTTACTCGTAGTTTAATCCCAGTCTCTTTATATTTTGACTTG
1 TTAATCTCGATTGTTGTTATTTTTTGACTCGTAGTTTAATCCCGGTCTCTTTATTTTTTGACTTG
* *
10956737 TGATTTAATCTAAGTT
66 TGATTCAATCCAAGTT
10956753 CAATCCTGAT
Statistics
Matches: 190, Mismatches: 25, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
134 51 0.27
135 139 0.73
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (135 bp):
TTAATCTCGATTGTTGTTATTTTTTGACTCGTAGTTTAATCCCGGTCTCTTTATTTTTTGACTTG
TGATTCAATCCAAGTTGACGTTATTCCGACTCACGGTTCAATCCCGATTTCTTTAATCCAAAATC
ACAGT
Found at i:10958558 original size:17 final size:15
Alignment explanation
Indices: 10958530--10958577 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
10958520 AAAATTCTTT
10958530 AAATCCAAACCCCATA
1 AAATCCAAACCCC-TA
10958546 AAATCCGAAACCCCTA
1 AAATCC-AAACCCCTA
*
10958562 AAAT-CAAAACCCTA
1 AAATCCAAACCCCTA
10958576 AA
1 AA
10958578 CCTTCCATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 10 0.33
15 1 0.03
16 12 0.40
17 7 0.23
ACGTcount: A:0.52, C:0.33, G:0.02, T:0.12
Consensus pattern (15 bp):
AAATCCAAACCCCTA
Found at i:10960745 original size:211 final size:208
Alignment explanation
Indices: 10960318--10960768 Score: 529
Period size: 211 Copynumber: 2.1 Consensus size: 208
10960308 AAGATTTTTG
* * * *
10960318 AAAATTACCAAAATATTGAAATATTTAAAAACTCTTTTCAATACAAATTTTTATTAATTTGTACA
1 AAAATTATCAAAGTATTGAAATATTTAGAAACTCTTTTCAATACAAATTTTTATTAATTTGAACA
*
10960383 ATTCTCTTATAAAATAAAAAATAAATATTTATAAAAATAGGTCTTTTTTTAATAAAATCTAGTAA
66 ATTCTCTTATAAAATAAAAAATAAATATTTATAAAAACAGGTCTTTTTTTAATAAAATCTAG-AA
* * * * * *
10960448 ACTAAAAATTTTCGATGACAGAATTTCAGGAAGTCCAAGTAGTGATTCTCGATAATTTCTAGGTA
130 AATAAAAATTTTCGATGACAGAATTTCAAGAAATCCAAGTAATGATTCTCGAAAATTACTA-G-A
**
10960513 AGAAAATGGTTTCTAA
193 AGAAAAAAGTTTCTAA
* *
10960529 AAAATTATCAAAGTAATGAAATATTTAGAAACTCTTTTCAATACAATTTTTTAATTAATTTGAAC
1 AAAATTATCAAAGTATTGAAATATTTAGAAACTCTTTTCAATACAAATTTTT-ATTAATTTGAAC
* * *
10960594 AATTCTCTT-TAAGAGATGAAAAATATAAATATTTATAAAAGCATG-CATTTTTTTTATAAAAT-
65 AATTCTCTTATAA-A-AT-AAAAA-ATAAATATTTATAAAAACAGGTC-TTTTTTTAATAAAATC
* * ** *
10960656 TA-AATAATGATAATTTTCGATGATGGGATTTCAAGAAATCCAAGTAATGATTC-CGAAAATTCA
125 TAGAA-AATAAAAATTTTCGATGACAGAATTTCAAGAAATCCAAGTAATGATTCTCGAAAATT-A
10960719 CTA-AATGAAAAAAGTCTTCT-A
188 CTAGAA-GAAAAAAGT-TTCTAA
10960740 AAAATTATCAAAGTATTGAAATATTTAGA
1 AAAATTATCAAAGTATTGAAATATTTAGA
10960769 TGTTTCTTTT
Statistics
Matches: 206, Mismatches: 24, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
210 2 0.01
211 86 0.42
212 34 0.17
213 44 0.21
214 8 0.04
215 32 0.16
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (208 bp):
AAAATTATCAAAGTATTGAAATATTTAGAAACTCTTTTCAATACAAATTTTTATTAATTTGAACA
ATTCTCTTATAAAATAAAAAATAAATATTTATAAAAACAGGTCTTTTTTTAATAAAATCTAGAAA
ATAAAAATTTTCGATGACAGAATTTCAAGAAATCCAAGTAATGATTCTCGAAAATTACTAGAAGA
AAAAAGTTTCTAA
Found at i:10960828 original size:18 final size:17
Alignment explanation
Indices: 10960789--10960830 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
10960779 CAATATGAAA
10960789 AATTTTTATTTTATAAT
1 AATTTTTATTTTATAAT
*
10960806 TATTTTTATTGTT-TAAAT
1 AATTTTTATT-TTAT-AAT
10960824 AATTTTT
1 AATTTTT
10960831 TCTAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
AATTTTTATTTTATAAT
Found at i:10963483 original size:290 final size:288
Alignment explanation
Indices: 10962924--10963628 Score: 751
Period size: 290 Copynumber: 2.4 Consensus size: 288
10962914 GTACTGGAAG
** ** *
10962924 AAATGTAAAATTACTAAAATACCCCTATAAGGGTATTTTTATAATTTGACC--TTCCTGACCTCA
1 AAATGTAAAATTACTAAAATACCTTTATAAGGGTATTTACATAATTT-ACCTTTTCC-GAGCTCA
* * * **
10962987 -AGTTTTTATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTTATGCATTTGAAA
64 GA-TTTTCATAAAACTTTTCAGATCTTAATTTCATAATATTTCATAATTTTTGGTGCA-TTGAAA
* * * * *
10963051 TCACAGTCGTACCCT-GAAAAGTGTGAAATTATCAAAATACCCTTATAATACCCCTATAAGGGTA
127 TCATAGCCGTA-CCTAG-GAAGTATGAAATTA-C---A-A-----A-GATACCCCTATAAGGGTA
* * *
10963115 TTTTTGTAATTTGACCTTCCTAAGCTTAGATTTTCATCAAAATTTTCAGATCTTAATTTCATAAT
179 TTTTTATAATTTGACCTTCCTAAGCTCAGATTTTCATCAAAATTTTCAAATCTTAATTTCATAAT
* * * *
10963180 ATTTCATGATTTTTGGTGCATTTGAACTCACAGGCA-TACC-TGGA
244 ATTTCAAGATTTTTGGTGCATTTGAAATCA-AAGCAGTACCTTGAA
* * * *
10963224 AAGTGTGAAATTA-TCAAAATACCCTTTTATAAGGGTATTTACGTAATTTGACCTTTTTCGAGCT
1 AAATGTAAAATTACT-AAAATA-CC-TTTATAAGGGTATTTACATAATTT-ACCTTTTCCGAGCT
* * *
10963288 TAGATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCTTAATTTTTGGTGCATTGAAA
62 CAGATTTTCATAAAACTTTTCAGATCTTAATTTCATAATATTTCATAATTTTTGGTGCATTGAAA
*
10963353 TCATAGCCGTACCTAGGAAGTATGAAATTACAAAGATACCCTTATAAGGGTATTTTTATAATTTG
127 TCATAGCCGTACCTAGGAAGTATGAAATTACAAAGATACCCCTATAAGGGTATTTTTATAATTTG
* * * * *
10963418 ACCTTCTTGAA-CTCGGATTTTCATGAAACTTTTCAAATCTTAATTTTATAATATTTCAAGATTT
192 ACCTTCCT-AAGCTCAGATTTTCATCAAAATTTTCAAATCTTAATTTCATAATATTTCAAGATTT
*
10963482 TTGGTGCATTTGAAATTAAAGCAGTACCTTGAA
256 TTGGTGCATTTGAAATCAAAGCAGTACCTTGAA
* * ** *
10963515 AAATGTAAAATTACTAAAATATCTTTATAGGGGTATTTTTATAATTTAGCTTTTCCGAGCTCAGA
1 AAATGTAAAATTACTAAAATACCTTTATAAGGGTATTTACATAATTTACCTTTTCCGAGCTCAGA
* * *
10963580 TTTTCATAAAACTTTTTAGATTTTAATTTCATAATATTTCATGATTTTT
66 TTTTCATAAAACTTTTCAGATCTTAATTTCATAATATTTCATAATTTTT
10963629 TATTTTTAAA
Statistics
Matches: 345, Mismatches: 49, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
288 59 0.17
289 24 0.07
290 102 0.30
291 23 0.07
292 1 0.00
296 1 0.00
297 1 0.00
299 1 0.00
300 18 0.05
301 17 0.05
302 39 0.11
303 55 0.16
304 4 0.01
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (288 bp):
AAATGTAAAATTACTAAAATACCTTTATAAGGGTATTTACATAATTTACCTTTTCCGAGCTCAGA
TTTTCATAAAACTTTTCAGATCTTAATTTCATAATATTTCATAATTTTTGGTGCATTGAAATCAT
AGCCGTACCTAGGAAGTATGAAATTACAAAGATACCCCTATAAGGGTATTTTTATAATTTGACCT
TCCTAAGCTCAGATTTTCATCAAAATTTTCAAATCTTAATTTCATAATATTTCAAGATTTTTGGT
GCATTTGAAATCAAAGCAGTACCTTGAA
Found at i:10963966 original size:17 final size:18
Alignment explanation
Indices: 10963944--10963979 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
10963934 AATGGATGGT
10963944 GCTGGAAG-GAAGGGGGG
1 GCTGGAAGAGAAGGGGGG
10963961 GCTGGAAGAAGAAGGGGGG
1 GCTGGAAG-AGAAGGGGGG
10963980 AGGTGAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
19 9 0.53
ACGTcount: A:0.28, C:0.06, G:0.61, T:0.06
Consensus pattern (18 bp):
GCTGGAAGAGAAGGGGGG
Found at i:10966056 original size:2 final size:2
Alignment explanation
Indices: 10966049--10966074 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10966039 CTTAATTGGA
10966049 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10966075 CTAAAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10966596 original size:17 final size:16
Alignment explanation
Indices: 10966566--10966609 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
10966556 AATGGTCTCC
* *
10966566 TTTTTTCTTTTTTTTT
1 TTTTTTGTTTTTTTGT
10966582 TTTTTTGTTTCTTTTGT
1 TTTTTTGTTT-TTTTGT
*
10966599 TCTTTTGTTTT
1 TTTTTTGTTTT
10966610 ATAAGTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (16 bp):
TTTTTTGTTTTTTTGT
Found at i:10969724 original size:30 final size:29
Alignment explanation
Indices: 10969688--10969757 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 29
10969678 CAATCAAGAG
*
10969688 GTCAATTAAGTGAAAATAAATATTTAAAAA
1 GTCAATTAA-TAAAAATAAATATTTAAAAA
10969718 GTCAATTGAATAAAAATAAATATTTAAAAA
1 GTCAATT-AATAAAAATAAATATTTAAAAA
* *
10969748 CTTAATTAAT
1 GTCAATTAAT
10969758 TGTAATAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.08
30 31 0.86
31 2 0.06
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (29 bp):
GTCAATTAATAAAAATAAATATTTAAAAA
Found at i:10973258 original size:19 final size:18
Alignment explanation
Indices: 10973232--10973267 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
10973222 GTTTACGTGA
*
10973232 GTTTAAGTTGAATTTTAG
1 GTTTAAGTTGAAGTTTAG
10973250 GTTTGAAGTTGAAGTTTA
1 GTTT-AAGTTGAAGTTTA
10973268 AAAGAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (18 bp):
GTTTAAGTTGAAGTTTAG
Found at i:10974512 original size:13 final size:13
Alignment explanation
Indices: 10974496--10974521 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10974486 AAAAATTTAG
10974496 AAATAAAAATAAA
1 AAATAAAAATAAA
10974509 AAATAAAAATAAA
1 AAATAAAAATAAA
10974522 TTATGAGGAT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:10975928 original size:13 final size:13
Alignment explanation
Indices: 10975912--10975937 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10975902 AAAAATTTAG
10975912 AAATAAAAATAAA
1 AAATAAAAATAAA
10975925 AAATAAAAATAAA
1 AAATAAAAATAAA
10975938 TCCTGAGGAT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:10984427 original size:17 final size:17
Alignment explanation
Indices: 10984405--10984452 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
10984395 TTTAAAAAAC
*
10984405 AGAAAAATGAAAAATGA
1 AGAAAAATGAAAAATAA
* *
10984422 ATAAAAATGAAAGATAA
1 AGAAAAATGAAAAATAA
10984439 AGAAAAATGAAAAA
1 AGAAAAATGAAAAA
10984453 AAAAATGAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (17 bp):
AGAAAAATGAAAAATAA
Found at i:10985694 original size:87 final size:86
Alignment explanation
Indices: 10985502--10986004 Score: 388
Period size: 87 Copynumber: 5.8 Consensus size: 86
10985492 GATTGTTGAG
** * * ** *
10985502 GAGCTTTATTTACTTTTT-TAAAGTTGTTGAGTCTATACTTA-AAGGAGCCTTATTTACTTTTTC
1 GAGCTTTATTTA-TTTTTCTAAAGTCATTGAGCCTCTGTTTAGAA-GAGCTTTATTTA-TTTTTC
* * **
10985565 AAAATTGTTGAGCTTCTGCTTAGTA
63 AAAATCGTTGAGC-TCTACTTAAAA
* * * * * *
10985590 GAGTTTTATTTACTTTTCTAAAGTCATTGAGTCTTTGTTTAGAGGAGCTTTATTCATTTTTCAAA
1 GAGCTTTATTTATTTTTCTAAAGTCATTGAGCCTCTGTTTAGAAGAGCTTTATTTATTTTTCAAA
** * *
10985655 ATTATTGAGTCTCTATTTAAAT
66 ATCGTTGAG-CTCTACTTAAAA
*
10985677 GAGCTTTATTTATTTTTC-AAAGTCATTGAGCCTCTGTTTAGAATAGCTTTATTT-TTTTT-AAA
1 GAGCTTTATTTATTTTTCTAAAGTCATTGAGCCTCTGTTTAGAAGAGCTTTATTTATTTTTCAAA
* * * ** *
10985739 GTCGTTGAACCTCTGCTTGGAG
66 ATCGTTG-AGCTCTACTTAAAA
* * * * * * *
10985761 GAGTTTTATTTACTTTTCAAAAGTCATTGAGCCTCTGTTTGGAGGAGTTTTATTTACTTTTCAGA
1 GAGCTTTATTTATTTTTCTAAAGTCATTGAGCCTCTGTTTAGAAGAGCTTTATTTATTTTTCA-A
* *
10985826 AGTCATTGAGCTTCTACTTAAAA
65 AATCGTTGAGC-TCTACTTAAAA
* * * * * * * *
10985849 AACCTTTATTTATTTATTTTTTAAAGTCGTGGAGCCTCTATTTGGAAGAGCCTTATTTATTTTTC
1 GAGCTTTATTTA--T-TTTTCTAAAGTCATTGAGCCTCTGTTTAGAAGAGCTTTATTTATTTTTC
*
10985914 AAAAGTCGTTGAGCCTTTACTTAAAA
63 AAAA-TCGTTGAG-CTCTACTTAAAA
* ** * *
10985940 GAGCCTTATTTATTTCAC-AAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTATTTACTTTTCAAA
1 GAGCTTTATTTATTTTTCTAAAGTCATTGAGCCTCTGTTTAGAAGAGCTTTATTTATTTTTCAAA
10986004 A
66 A
10986005 GTCATGGAGC
Statistics
Matches: 329, Mismatches: 72, Indels: 29
0.77 0.17 0.07
Matches are distributed among these distances:
84 30 0.09
85 38 0.12
86 35 0.11
87 88 0.27
88 66 0.20
89 2 0.01
90 2 0.01
91 67 0.20
92 1 0.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.45
Consensus pattern (86 bp):
GAGCTTTATTTATTTTTCTAAAGTCATTGAGCCTCTGTTTAGAAGAGCTTTATTTATTTTTCAAA
ATCGTTGAGCTCTACTTAAAA
Found at i:10985887 original size:91 final size:89
Alignment explanation
Indices: 10985765--10986014 Score: 276
Period size: 91 Copynumber: 2.8 Consensus size: 89
10985755 TTGGAGGAGT
* * * *
10985765 TTTATTTACTTTTCAAAAGTCATTGAGCCTCTGTTTGGAGGAGTTTTATTTACTTTTCAGAAGTC
1 TTTATTTA-TTTT-AAAAGTCGTTGAGCCTCTGTTTGGAAGAGCTTTATTTACTTTTCAAAAGTC
10985830 ATTGAGCTTCTACTTAAAA-AACCTTTA
64 ATTGAGCTT-TACTTAAAAGAACC-TTA
* * * * * *
10985857 TTTATTTATTTTTTAAAGTCGTGGAGCCTCTATTTGGAAGAGCCTTATTTATTTTTCAAAAGTCG
1 TTTATTTA-TTTTAAAAGTCGTTGAGCCTCTGTTTGGAAGAGCTTTATTTACTTTTCAAAAGTCA
*
10985922 TTGAGCCTTTACTTAAAAGAGCCTTA
65 TTGAG-CTTTACTTAAAAGAACCTTA
* *
10985948 TTTATTTCA----CAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTATTTACTTTTCAAAAGTCA
1 TTTATTT-ATTTTAAAAGTCGTTGAGCCTCTGTTTGGAAGAGCTTTATTTACTTTTCAAAAGTCA
*
10986009 TGGAGC
65 TTGAGC
10986015 CTCTGTTTAG
Statistics
Matches: 135, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
86 1 0.01
87 49 0.36
91 66 0.49
92 19 0.14
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (89 bp):
TTTATTTATTTTAAAAGTCGTTGAGCCTCTGTTTGGAAGAGCTTTATTTACTTTTCAAAAGTCAT
TGAGCTTTACTTAAAAGAACCTTA
Found at i:10985928 original size:44 final size:44
Alignment explanation
Indices: 10985546--10986050 Score: 391
Period size: 44 Copynumber: 11.5 Consensus size: 44
10985536 ATACTTAAAG
* ** * * *
10985546 GAGCCTTATTTACTTTTTCAAAA-TTGTTGAGCTTCTGCTTAGTA
1 GAGCTTTATTTA-TTTTTCAAAAGTCATTGAGCCTCTGTTTAGAA
* * * * * *
10985590 GAGTTTTATTTACTTTTCTAAAGTCATTGAGTCTTTGTTTAGAG
1 GAGCTTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAA
* * * *
10985634 GAGCTTTATTCATTTTTCAAAA-TTATTGAGTCTCTATTTA-AA
1 GAGCTTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAA
10985676 TGAGCTTTATTTATTTTTC-AAAGTCATTGAGCCTCTGTTTAGAA
1 -GAGCTTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAA
* * * * * *
10985720 TAGCTTTATTT-TTTTT--AAAGTCGTTGAACCTCTGCTTGGAG
1 GAGCTTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAA
* * * *
10985761 GAGTTTTATTTACTTTTCAAAAGTCATTGAGCCTCTGTTTGGAG
1 GAGCTTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAA
* * * * ** *
10985805 GAGTTTTATTTACTTTTCAGAAGTCATTGAGCTTCTACTTAAAA
1 GAGCTTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAA
* * ** * * * *
10985849 AACCTTTATTTATTTATTTTTTAAAGTCGTGGAGCCTCTATTTGGAA
1 GAGCTTTATTTA--T-TTTTCAAAAGTCATTGAGCCTCTGTTTAGAA
* * * ** *
10985896 GAGCCTTATTTATTTTTCAAAAGTCGTTGAGCCTTTACTTAAAA
1 GAGCTTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAA
* *
10985940 GAGCCTTATTTA--TTTCACAAAGTCGTTGAGCCTCTGTTTAGAA
1 GAGCTTTATTTATTTTTCA-AAAGTCATTGAGCCTCTGTTTAGAA
* * *
10985983 GAGCTTTATTTACTTTTCAAAAGTCATGGAGCCTCTGTTTAGAG
1 GAGCTTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAA
* *
10986027 GAGCTTT-TATATTATTCCAAAAGT
1 GAGCTTTATTTATT-TTTCAAAAGT
10986051 TTGAGTATGT
Statistics
Matches: 370, Mismatches: 77, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
41 29 0.08
42 18 0.05
43 101 0.27
44 185 0.50
45 6 0.02
47 31 0.08
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (44 bp):
GAGCTTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAA
Found at i:10986551 original size:20 final size:20
Alignment explanation
Indices: 10986528--10986567 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10986518 TGAAAATTCT
* *
10986528 TAGATTTTGGTGAATTTTTC
1 TAGATTCTGATGAATTTTTC
10986548 TAGATTCTGATGAATTTTTC
1 TAGATTCTGATGAATTTTTC
10986568 GACGATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (20 bp):
TAGATTCTGATGAATTTTTC
Found at i:10987543 original size:49 final size:48
Alignment explanation
Indices: 10987478--10987570 Score: 159
Period size: 49 Copynumber: 1.9 Consensus size: 48
10987468 AGATAAAAAA
*
10987478 AAATTTTAAATAGACCCAAATGGTGAAAAATTTAGAAATCAAAAAAAGG
1 AAATTCTAAATAGACCCAAATGGTGAAAAATTTAGAAAT-AAAAAAAGG
*
10987527 AAATTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATAAAAA
1 AAATTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATAAAAA
10987571 TAAAAAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
48 5 0.12
49 37 0.88
ACGTcount: A:0.55, C:0.09, G:0.13, T:0.24
Consensus pattern (48 bp):
AAATTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATAAAAAAAGG
Found at i:10987578 original size:13 final size:13
Alignment explanation
Indices: 10987562--10987587 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10987552 AAAAATTTAG
10987562 AAATAAAAATAAA
1 AAATAAAAATAAA
10987575 AAATAAAAATAAA
1 AAATAAAAATAAA
10987588 TTTCTATGAT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:10992334 original size:20 final size:20
Alignment explanation
Indices: 10992309--10992364 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
10992299 AACACTTGCA
10992309 TAAACCCTAAACCAAACCCT
1 TAAACCCTAAACCAAACCCT
*
10992329 TAAA-CCTCAAACCAAGCCCT
1 TAAACCCT-AAACCAAACCCT
*
10992349 TAAACCCTGAACCAAA
1 TAAACCCTAAACCAAA
10992365 TCAAACCCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 3 0.10
20 25 0.81
21 3 0.10
ACGTcount: A:0.45, C:0.38, G:0.04, T:0.14
Consensus pattern (20 bp):
TAAACCCTAAACCAAACCCT
Found at i:10992391 original size:20 final size:20
Alignment explanation
Indices: 10992366--10992410 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
10992356 TGAACCAAAT
10992366 CAAACCCAAACCCTAAATCC
1 CAAACCCAAACCCTAAATCC
*
10992386 CAAA-CCAAACCCTCAATCC
1 CAAACCCAAACCCTAAATCC
10992405 CTAAAC
1 C-AAAC
10992411 TTAAACCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.11
Consensus pattern (20 bp):
CAAACCCAAACCCTAAATCC
Found at i:10992492 original size:18 final size:20
Alignment explanation
Indices: 10992469--10992512 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
10992459 CTAAATCTCA
10992469 AAACCCTA-AACTAAA-CAC
1 AAACCCTATAACTAAACCAC
*
10992487 AAACCC-ATAACTAAACCCC
1 AAACCCTATAACTAAACCAC
10992506 AAACCCT
1 AAACCCT
10992513 GAAGCAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 13 0.59
19 8 0.36
ACGTcount: A:0.50, C:0.39, G:0.00, T:0.11
Consensus pattern (20 bp):
AAACCCTATAACTAAACCAC
Found at i:10992583 original size:19 final size:19
Alignment explanation
Indices: 10992518--10992619 Score: 82
Period size: 19 Copynumber: 5.2 Consensus size: 19
10992508 ACCCTGAAGC
10992518 AAACCCTAAACCAAATC--
1 AAACCCTAAACCAAATCTT
*
10992535 AAACCCTAAACTCTTACTAAGTCCT
1 AAACCCTAAAC-C--A--AA-TCTT
*
10992560 AAACCTTAAACCAAATCTT
1 AAACCCTAAACCAAATCTT
** *
10992579 AAACCCTAAACTGAATCTC
1 AAACCCTAAACCAAATCTT
*
10992598 AAACCCTAAACCAAACCTT
1 AAACCCTAAACCAAATCTT
10992617 AAA
1 AAA
10992620 TCGTAAAAAG
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
17 11 0.16
18 1 0.01
19 36 0.54
20 3 0.04
22 3 0.04
23 2 0.03
24 1 0.01
25 10 0.15
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.21
Consensus pattern (19 bp):
AAACCCTAAACCAAATCTT
Found at i:10994266 original size:10 final size:10
Alignment explanation
Indices: 10994246--10994304 Score: 66
Period size: 10 Copynumber: 5.8 Consensus size: 10
10994236 AAAAAAGTCT
*
10994246 AGAAGAAAAA
1 AGAAAAAAAA
**
10994256 AGCCAAAAAA
1 AGAAAAAAAA
10994266 AGAAAAAAAA
1 AGAAAAAAAA
10994276 AGAAAAAAAA
1 AGAAAAAAAA
10994286 AGAAAGCAAAAA
1 AGAAA--AAAAA
10994298 A-AAAAAA
1 AGAAAAAA
10994305 GGAATTATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
9 3 0.07
10 30 0.71
11 3 0.07
12 6 0.14
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:10994632 original size:31 final size:31
Alignment explanation
Indices: 10994590--10994665 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 31
10994580 TTTAGCTGAC
*
10994590 ACCA-AAATGAGATCTAAGCCCAGCTTAACT
1 ACCATAAATGAGATCTAAGCCCAACTTAACT
* * * *
10994620 AGCATAAATGAGATTTTAAGCCTAATTTAACT
1 ACCATAAATGAGA-TCTAAGCCCAACTTAACT
*
10994652 ACCATCAATGAGAT
1 ACCATAAATGAGAT
10994666 TTATGCTCAG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 3 0.08
31 9 0.24
32 25 0.68
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (31 bp):
ACCATAAATGAGATCTAAGCCCAACTTAACT
Found at i:10994717 original size:32 final size:32
Alignment explanation
Indices: 10994680--10994743 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
10994670 GCTCAGTTTA
10994680 GTTGATACCA-ATGAAATTTCAAGTCTATTTTG
1 GTTGATA-CAGATGAAATTTCAAGTCTATTTTG
* * *
10994712 GTTGATACAGATGAGATTTTAAGTTTATTTTG
1 GTTGATACAGATGAAATTTCAAGTCTATTTTG
10994744 CCTAGTACTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 2 0.07
32 26 0.93
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.44
Consensus pattern (32 bp):
GTTGATACAGATGAAATTTCAAGTCTATTTTG
Found at i:10996869 original size:17 final size:17
Alignment explanation
Indices: 10996847--10996880 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10996837 ATTGTATATG
10996847 CTATAACATTAAATAAC
1 CTATAACATTAAATAAC
10996864 CTATAACATTAAATAAC
1 CTATAACATTAAATAAC
10996881 TGTATAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (17 bp):
CTATAACATTAAATAAC
Found at i:11002654 original size:20 final size:20
Alignment explanation
Indices: 11002609--11002676 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
11002599 GCTATCCATC
* *
11002609 CATCCATATAACATCAATAA
1 CATCCATAAAACATCAACAA
* *
11002629 CTTCCATAAAACATCCACAA
1 CATCCATAAAACATCAACAA
11002649 CATCCATCAAATACATCATACAA
1 CATCCAT-AAA-ACATCA-ACAA
11002672 -ATCCA
1 CATCCA
11002677 AAAGGAATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 22 0.56
21 3 0.08
22 10 0.26
23 4 0.10
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (20 bp):
CATCCATAAAACATCAACAA
Found at i:11003647 original size:102 final size:102
Alignment explanation
Indices: 11003501--11004001 Score: 528
Period size: 102 Copynumber: 4.9 Consensus size: 102
11003491 CAATTGTCAC
** * * * * * *
11003501 CACAA-GCAAAATACACAATAGTTTTCACATTTC-CTATATATGATCTCATCATGATATACTATT
1 CACAATGCAAAATATGCAATAGTTTTCACATTTCAC-AAATGTAATCTCATCGTAATATACTATA
* * * *
11003564 AACATAGTTCATTAAAAATTACAATACACAACCATCAT
65 AACATAGTTAATCAACAATCACAATACACAACCATCAT
* * * * * *
11003602 TACAATGTAAAATATGCAATAGTTTTCACATTTCATAAATGTGATCTCATTGTAATGTACTATAA
1 CACAATGCAAAATATGCAATAGTTTTCACATTTCACAAATGTAATCTCATCGTAATATACTATAA
* *
11003667 AGATAGTTAATCAACAATCACAATACACAACCATCAA
66 ACATAGTTAATCAACAATCACAATACACAACCATCAT
* * * * *
11003704 CACAATGTAAAATATGCAATAGTTTTCACA--ACACCAAAGGTAATCTCATCGCAATACACTATA
1 CACAATGCAAAATATGCAATAGTTTTCACATTTCA-CAAATGTAATCTCATCGTAATATACTATA
* *
11003767 AACATAGTTGATCAACAATCACAATACACAATCATCAT
65 AACATAGTTAATCAACAATCACAATACACAACCATCAT
* * * * * * *
11003805 CACAACGCAAAAAACGCTATAGTTTTTATATTTCACAAATGTAATCTTA-CTGTAATATACTATA
1 CACAATGCAAAATATGCAATAGTTTTCACATTTCACAAATGTAATCTCATC-GTAATATACTATA
* * * * * *
11003869 AAGATAGTTTATCAATAATTACAATATACAATCATCAT
65 AACATAGTTAATCAACAATCACAATACACAACCATCAT
* * *
11003907 TACAATGCAAAATATGCAATAGTTTTCACA-TTCACAAATGTAATCTCATTGCAATATACTATAA
1 CACAATGCAAAATATGCAATAGTTTTCACATTTCACAAATGTAATCTCATCGTAATATACTATAA
* *
11003971 AGATAGTTAAGCAACAATCACAATACACAAC
66 ACATAGTTAATCAACAATCACAATACACAAC
11004002 TAGAATTATA
Statistics
Matches: 329, Mismatches: 64, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
100 2 0.01
101 139 0.42
102 186 0.57
103 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (102 bp):
CACAATGCAAAATATGCAATAGTTTTCACATTTCACAAATGTAATCTCATCGTAATATACTATAA
ACATAGTTAATCAACAATCACAATACACAACCATCAT
Found at i:11003829 original size:203 final size:203
Alignment explanation
Indices: 11003558--11004001 Score: 566
Period size: 203 Copynumber: 2.2 Consensus size: 203
11003548 ATCATGATAT
* * * * * * * * * *
11003558 ACTATTAACATAGTTCATTAAAAATTACAATACACAACCATCATTACAATGTAAAATATGCAATA
1 ACTATAAACATAGTTAATCAACAATCACAATACACAACCATCATCACAACGCAAAAAACGCAATA
* * * *
11003623 GTTTTCACATTTCATAAATGTGATCTCATTGTAATGTACTATAAAGATAGTTAATCAACAATCAC
66 GTTTTCACATTTCACAAATGTAATCTCACTGTAATATACTATAAAGATAGTTAATCAACAATCAC
*
11003688 AATACACAACCATCAACACAATGTAAAATATGCAATAGTTTTCACA-ACACCAAAGGTAATCTCA
131 AATACACAACCATCAACACAATGCAAAATATGCAATAGTTTTCACATACA-CAAAGGTAATCTCA
11003752 TCGCAATAC
195 TCGCAATAC
* * *
11003761 ACTATAAACATAGTTGATCAACAATCACAATACACAATCATCATCACAACGCAAAAAACGCTATA
1 ACTATAAACATAGTTAATCAACAATCACAATACACAACCATCATCACAACGCAAAAAACGCAATA
* * * * * *
11003826 GTTTTTATATTTCACAAATGTAATCTTACTGTAATATACTATAAAGATAGTTTATCAATAATTAC
66 GTTTTCACATTTCACAAATGTAATCTCACTGTAATATACTATAAAGATAGTTAATCAACAATCAC
* * ** * *
11003891 AATATACAATCATCATTACAATGCAAAATATGCAATAGTTTTCACATTCACAAATGTAATCTCAT
131 AATACACAACCATCAACACAATGCAAAATATGCAATAGTTTTCACATACACAAAGGTAATCTCAT
* *
11003956 TGCAATAT
196 CGCAATAC
* *
11003964 ACTATAAAGATAGTTAAGCAACAATCACAATACACAAC
1 ACTATAAACATAGTTAATCAACAATCACAATACACAAC
11004002 TAGAATTATA
Statistics
Matches: 205, Mismatches: 35, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
203 203 0.99
204 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (203 bp):
ACTATAAACATAGTTAATCAACAATCACAATACACAACCATCATCACAACGCAAAAAACGCAATA
GTTTTCACATTTCACAAATGTAATCTCACTGTAATATACTATAAAGATAGTTAATCAACAATCAC
AATACACAACCATCAACACAATGCAAAATATGCAATAGTTTTCACATACACAAAGGTAATCTCAT
CGCAATAC
Found at i:11004093 original size:23 final size:21
Alignment explanation
Indices: 11004056--11004100 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 21
11004046 AGTTTTTACA
11004056 TCACACAACATACAAGATATTAT
1 TCACACAACATAC-A-ATATTAT
11004079 TCACACAATCA-ACAATATTAT
1 TCACACAA-CATACAATATTAT
11004100 T
1 T
11004101 TACAAAGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 8 0.38
22 1 0.05
23 10 0.48
24 2 0.10
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (21 bp):
TCACACAACATACAATATTAT
Found at i:11013914 original size:3 final size:3
Alignment explanation
Indices: 11013906--11013936 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11013896 CTAACATATT
11013906 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
11013937 TTTCTATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:11018761 original size:47 final size:47
Alignment explanation
Indices: 11018702--11018795 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
11018692 ACAAAAAGTC
*
11018702 ATAAAAATTCATTATGCATATTGCAAAACAACACAATCACAACAAAA
1 ATAAAAATTCATTATGCATATTACAAAACAACACAATCACAACAAAA
*
11018749 ATAAAAATTCATTATGCATATTACAAGACAACACAATCACAACAAAA
1 ATAAAAATTCATTATGCATATTACAAAACAACACAATCACAACAAAA
11018796 TATTATTGGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.55, C:0.19, G:0.04, T:0.21
Consensus pattern (47 bp):
ATAAAAATTCATTATGCATATTACAAAACAACACAATCACAACAAAA
Found at i:11018916 original size:17 final size:17
Alignment explanation
Indices: 11018881--11018916 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11018871 TTTCTCTAAG
*
11018881 GCACTCCTACATATAGA
1 GCACTCCTACATACAGA
*
11018898 GCACTCCTACATACGGA
1 GCACTCCTACATACAGA
11018915 GC
1 GC
11018917 TTGTTCTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (17 bp):
GCACTCCTACATACAGA
Found at i:11021977 original size:14 final size:14
Alignment explanation
Indices: 11021958--11021984 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11021948 TTTTTATATT
11021958 ATTTTAATTTAATA
1 ATTTTAATTTAATA
11021972 ATTTTAATTTAAT
1 ATTTTAATTTAAT
11021985 TATTAATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTTAATTTAATA
Found at i:11023188 original size:20 final size:20
Alignment explanation
Indices: 11023144--11023189 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
11023134 TAGGATTCGG
11023144 TTTTTTCTGTTTTTGTTTTT
1 TTTTTTCTGTTTTTGTTTTT
*
11023164 GTTTTTCT-TTCTTT-TTATTT
1 TTTTTTCTGTT-TTTGTT-TTT
11023184 TTTTTT
1 TTTTTT
11023190 AAACAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.85
Consensus pattern (20 bp):
TTTTTTCTGTTTTTGTTTTT
Found at i:11025040 original size:88 final size:87
Alignment explanation
Indices: 11024937--11025172 Score: 269
Period size: 87 Copynumber: 2.7 Consensus size: 87
11024927 CAAAGATAAT
* * * * *
11024937 AACAAAGACCACATTTTAAATCTTAAAAATGTTATCCTTATTAAAATTATAGAATTCT-ATAAA-
1 AACAAAGATCACATTTTTAATCTTAAAAATGTTATCCTTGTTGAAACTATAGAATTCTGA-AAAG
*
11025000 TAAAAATTTTTCATAATATATTTTC
65 T--AAATTTTCCATAATATATTTTC
* ** * ** *
11025025 AACAATGATCACATTTTTTTTCTTAAAAATGTCATGGTTGTTGAAACTATAAAATTCTGAAAAGT
1 AACAAAGATCACATTTTTAATCTTAAAAATGTTATCCTTGTTGAAACTATAGAATTCTGAAAAGT
11025090 AAATTTTCCATAATATATTTTC
66 AAATTTTCCATAATATATTTTC
* * * * *
11025112 AACAAAAATTACGTTTTTAATCTTAAAAATATTATCTTTGTTGAAACTATAGAATTCTGAA
1 AACAAAGATCACATTTTTAATCTTAAAAATGTTATCCTTGTTGAAACTATAGAATTCTGAA
11025173 TCTTTGTTGA
Statistics
Matches: 122, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
87 71 0.58
88 49 0.40
89 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (87 bp):
AACAAAGATCACATTTTTAATCTTAAAAATGTTATCCTTGTTGAAACTATAGAATTCTGAAAAGT
AAATTTTCCATAATATATTTTC
Found at i:11025915 original size:2 final size:2
Alignment explanation
Indices: 11025908--11025946 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
11025898 TTTTATGTGA
11025908 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
11025947 ATATATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11025951 original size:2 final size:2
Alignment explanation
Indices: 11025946--11025977 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11025936 TCTCTCTCTC
11025946 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11025978 TATTCTTTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:11026259 original size:3 final size:3
Alignment explanation
Indices: 11026251--11026281 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11026241 TGAGGTAAGT
11026251 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11026282 ATACAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11034803 original size:49 final size:49
Alignment explanation
Indices: 11034731--11034826 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
11034721 GTCACTAAGG
* * * *
11034731 CAAGTCTCATTACTTAAGTTATGATACCAAAATTGATAGTCTTCAAAGA
1 CAAGTCTCACTACTTAAGTTATGATACAAAAACTGATAGTCATCAAAGA
* *
11034780 CAAGTCTCCCTACTTCAA-TTATGATGCAAAAACTGATAGTCATCAAA
1 CAAGTCTCACTACTT-AAGTTATGATACAAAAACTGATAGTCATCAAA
11034827 ATTCTTCTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
49 38 0.95
50 2 0.05
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (49 bp):
CAAGTCTCACTACTTAAGTTATGATACAAAAACTGATAGTCATCAAAGA
Found at i:11039969 original size:14 final size:14
Alignment explanation
Indices: 11039931--11039968 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
11039921 ATCAACAATT
*
11039931 TTATATATTTTTAA
1 TTATTTATTTTTAA
11039945 TTATTTATTTTT-A
1 TTATTTATTTTTAA
11039958 TT-TTTATTTTT
1 TTATTTATTTTT
11039969 TACTTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.39
13 3 0.13
14 11 0.48
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTTATTTTTAA
Found at i:11040766 original size:27 final size:25
Alignment explanation
Indices: 11040726--11040779 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
11040716 AAATAGAAAG
11040726 ATATTATTTAATCTAATTCTATTTATA
1 ATATTATTTAATCTAA-TCTA-TTATA
*
11040753 ATATTATCTT-ATCTTATCTATTATA
1 ATATTAT-TTAATCTAATCTATTATA
11040778 AT
1 AT
11040780 CTTGTGTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 7 0.28
26 4 0.16
27 12 0.48
28 2 0.08
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (25 bp):
ATATTATTTAATCTAATCTATTATA
Found at i:11042166 original size:21 final size:21
Alignment explanation
Indices: 11042140--11042180 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11042130 TTTATTTGAA
11042140 ATTATTAAAATTTAA-ATTTTG
1 ATTATTAAAA-TTAAGATTTTG
*
11042161 ATTATTGAAATTAAGATTTT
1 ATTATTAAAATTAAGATTTT
11042181 CATATAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (21 bp):
ATTATTAAAATTAAGATTTTG
Found at i:11043878 original size:18 final size:20
Alignment explanation
Indices: 11043835--11043883 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 20
11043825 TATAGATATG
11043835 TATAAAAT-TATATAAATTA
1 TATAAAATCTATATAAATTA
* *
11043854 CAAAAAATCTATAT-AA-TA
1 TATAAAATCTATATAAATTA
*
11043872 TATAAAAGCTAT
1 TATAAAATCTAT
11043884 CCCCTTTCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 11 0.46
19 8 0.33
20 5 0.21
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (20 bp):
TATAAAATCTATATAAATTA
Found at i:11044915 original size:15 final size:15
Alignment explanation
Indices: 11044867--11044915 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
11044857 TTTCAAATGC
*
11044867 ATTTTTAT-TATGTA
1 ATTTTTATATATTTA
* * *
11044881 ATTTATAAATAATTA
1 ATTTTTATATATTTA
11044896 ATTTTTATATATTTA
1 ATTTTTATATATTTA
11044911 ATTTT
1 ATTTT
11044916 CATAATTGAT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 6 0.22
15 21 0.78
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
ATTTTTATATATTTA
Found at i:11045852 original size:5 final size:5
Alignment explanation
Indices: 11045836--11045869 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
11045826 ATACATATGT
*
11045836 ATAAA TATAAA ATAAA ATAAA ATAAT ATAAA ATA
1 ATAAA -ATAAA ATAAA ATAAA ATAAA ATAAA ATA
11045870 GAATTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (5 bp):
ATAAA
Found at i:11045865 original size:15 final size:15
Alignment explanation
Indices: 11045836--11045879 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11045826 ATACATATGT
*
11045836 ATAAATATAAAATAAA
1 ATAAA-ATAATATAAA
11045852 ATAAAATAATATAAA
1 ATAAAATAATATAAA
* *
11045867 ATAGAATTATATA
1 ATAAAATAATATA
11045880 TATAGTTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (15 bp):
ATAAAATAATATAAA
Found at i:11046215 original size:13 final size:14
Alignment explanation
Indices: 11046167--11046240 Score: 53
Period size: 14 Copynumber: 5.1 Consensus size: 14
11046157 AAGTTTATCT
11046167 AATTAAAAA-AAAA
1 AATTAAAAAGAAAA
* *
11046180 AAGTGAAAGGAAGCAAA
1 AA-TTAAA--AAGAAAA
*
11046197 ATTTAAAAA-AAAA
1 AATTAAAAAGAAAA
11046210 AATTAAAAAGAAAA
1 AATTAAAAAGAAAA
* *
11046224 GATGAAAAAGTAAAA
1 AATTAAAAAG-AAAA
11046239 AA
1 AA
11046241 AAAATGGAAG
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
13 13 0.28
14 18 0.39
15 5 0.11
16 6 0.13
17 4 0.09
ACGTcount: A:0.73, C:0.01, G:0.12, T:0.14
Consensus pattern (14 bp):
AATTAAAAAGAAAA
Found at i:11050120 original size:3 final size:3
Alignment explanation
Indices: 11050112--11050157 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
11050102 TCTTCAAATG
11050112 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
11050158 GTTGAAGCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:11051264 original size:17 final size:18
Alignment explanation
Indices: 11051221--11051265 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
11051211 GTTAAGAGAC
11051221 TAATATATGTCTTATTTTT
1 TAATATAT-TCTTATTTTT
*
11051240 TAAAATATTCTTA-TTTT
1 TAATATATTCTTATTTTT
11051257 TAATATATT
1 TAATATATT
11051266 AAAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 12 0.50
18 5 0.21
19 7 0.29
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (18 bp):
TAATATATTCTTATTTTT
Found at i:11055087 original size:21 final size:21
Alignment explanation
Indices: 11055054--11055094 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
11055044 GAAAAATAGG
11055054 ACAACAACAAAAAATATATAT
1 ACAACAACAAAAAATATATAT
*
11055075 ACAA-AACACAAAAT-TATAT
1 ACAACAACAAAAAATATATAT
11055094 A
1 A
11055095 AAAATAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.66, C:0.15, G:0.00, T:0.20
Consensus pattern (21 bp):
ACAACAACAAAAAATATATAT
Found at i:11058385 original size:19 final size:19
Alignment explanation
Indices: 11058356--11058399 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
11058346 ATCAGAACAG
11058356 AAAAAAGCAAAAAAAT-TT
1 AAAAAAGCAAAAAAATATT
*
11058374 AAAAAAGTCAAAATAATATT
1 AAAAAAG-CAAAAAAATATT
11058394 AAAAAA
1 AAAAAA
11058400 AATCGTTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
19 8 0.35
20 8 0.35
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.18
Consensus pattern (19 bp):
AAAAAAGCAAAAAAATATT
Found at i:11059997 original size:3 final size:3
Alignment explanation
Indices: 11059989--11060020 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
11059979 TTAATTAAAT
11059989 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11060021 TAAGATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11068504 original size:24 final size:25
Alignment explanation
Indices: 11068466--11068525 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
11068456 CTCAATGATG
* *
11068466 AAAAAAAAGAGCAAATAGTAAAAAG-
1 AAAAAAAA-AACAAATAGCAAAAAGC
* *
11068491 AAAAATAAAACAAATAGCAAAGAGC
1 AAAAAAAAAACAAATAGCAAAAAGC
11068516 AAAAAAAAAA
1 AAAAAAAAAA
11068526 GATGTGCACC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.75, C:0.07, G:0.12, T:0.07
Consensus pattern (25 bp):
AAAAAAAAAACAAATAGCAAAAAGC
Found at i:11068511 original size:31 final size:30
Alignment explanation
Indices: 11068466--11068525 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
11068456 CTCAATGATG
* *
11068466 AAAAAAAAGAGCAAATAGTAAAAAGAAAAAT
1 AAAAAAAAGAGCAAAGAGCAAAAA-AAAAAT
* *
11068497 AAAACAAATAGCAAAGAGCAAAAAAAAAA
1 AAAAAAAAGAGCAAAGAGCAAAAAAAAAA
11068526 GATGTGCACC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.75, C:0.07, G:0.12, T:0.07
Consensus pattern (30 bp):
AAAAAAAAGAGCAAAGAGCAAAAAAAAAAT
Found at i:11069717 original size:41 final size:41
Alignment explanation
Indices: 11069672--11069752 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
11069662 AAAAGTCTTC
*
11069672 GCATTTGCATCACTTGTATGTGCATTATGAAAAAGGCATTT
1 GCATTTGCATCACTTGCATGTGCATTATGAAAAAGGCATTT
*
11069713 GCATTTGCATCACTTGCATGTGCATTGTGAAAAAGGCATT
1 GCATTTGCATCACTTGCATGTGCATTATGAAAAAGGCATT
11069753 CATATTTACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (41 bp):
GCATTTGCATCACTTGCATGTGCATTATGAAAAAGGCATTT
Found at i:11069765 original size:41 final size:41
Alignment explanation
Indices: 11069673--11069765 Score: 132
Period size: 41 Copynumber: 2.3 Consensus size: 41
11069663 AAAGTCTTCG
* **
11069673 CATTTGCATCACTTGTATGTGCATTATGAAAAAGGCATTTG
1 CATTTGCATCACTTGCATGTGCATTATGAAAAAGGCATTCA
*
11069714 CATTTGCATCACTTGCATGTGCATTGTGAAAAAGGCATTCA
1 CATTTGCATCACTTGCATGTGCATTATGAAAAAGGCATTCA
* *
11069755 TATTTACATCA
1 CATTTGCATCA
11069766 TGAGAAAGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (41 bp):
CATTTGCATCACTTGCATGTGCATTATGAAAAAGGCATTCA
Found at i:11070063 original size:26 final size:25
Alignment explanation
Indices: 11070023--11070071 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
11070013 CTTTGTAAAT
11070023 ATTAAAAAAAAAAAG-AGAAAAGAAA
1 ATTAAAAAAAAAAAGCA-AAAAGAAA
11070048 ATTAGAAAAAAAAAAGCAAAAAGA
1 ATTA-AAAAAAAAAAGCAAAAAGA
11070072 GAAAAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 4 0.18
26 17 0.77
27 1 0.05
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.08
Consensus pattern (25 bp):
ATTAAAAAAAAAAAGCAAAAAGAAA
Found at i:11070068 original size:20 final size:19
Alignment explanation
Indices: 11070040--11070080 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
11070030 AAAAAAAGAG
**
11070040 AAAAGAAAATTAGAAAAAA
1 AAAAGAAAAAGAGAAAAAA
11070059 AAAAGCAAAAAGAGAAAAAA
1 AAAAG-AAAAAGAGAAAAAA
11070079 AA
1 AA
11070081 GTCTATCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.05
Consensus pattern (19 bp):
AAAAGAAAAAGAGAAAAAA
Found at i:11070132 original size:31 final size:33
Alignment explanation
Indices: 11070065--11070132 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
11070055 AAAAAAAAGC
* *
11070065 AAAAAGAGAAAAAAAAGTCTATCATAAAAGATT
1 AAAAAAAGAAAAAAAAGTCTATCATAAAAGACT
* * *
11070098 AAAAAAAGAAAAAATAGT-T-TGATAAGAGACT
1 AAAAAAAGAAAAAAAAGTCTATCATAAAAGACT
11070129 AAAA
1 AAAA
11070133 TATCAAAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 13 0.43
32 1 0.03
33 16 0.53
ACGTcount: A:0.65, C:0.04, G:0.13, T:0.18
Consensus pattern (33 bp):
AAAAAAAGAAAAAAAAGTCTATCATAAAAGACT
Found at i:11070263 original size:23 final size:23
Alignment explanation
Indices: 11070233--11070285 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
11070223 CCAAATAAGA
*
11070233 TTTAAGCCCA-ATTTAGCTAGCAC
1 TTTAAGCCCAGA-TTAACTAGCAC
* *
11070256 TTTAAGCCTAGATTAACTGGCAC
1 TTTAAGCCCAGATTAACTAGCAC
11070279 TTTAAGC
1 TTTAAGC
11070286 TTAGATTAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (23 bp):
TTTAAGCCCAGATTAACTAGCAC
Found at i:11070315 original size:22 final size:23
Alignment explanation
Indices: 11070290--11070339 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
11070280 TTAAGCTTAG
*
11070290 ATTAGCTGACAC-ATAAGCCCAA
1 ATTAGCTGACACTATAAACCCAA
* * *
11070312 ATTAGGTGGCACTTTAAACCCAA
1 ATTAGCTGACACTATAAACCCAA
11070335 ATTAG
1 ATTAG
11070340 TTGGTACCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (23 bp):
ATTAGCTGACACTATAAACCCAA
Found at i:11070411 original size:23 final size:23
Alignment explanation
Indices: 11070381--11070443 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
11070371 AAATGATATT
11070381 TAAGCCCAGTTTAGCTAG-CACAC
1 TAAGCCCA-TTTAGCTAGTCACAC
* *
11070404 TAAGCCCAATCTAG-TTGTCACAC
1 TAAGCCC-ATTTAGCTAGTCACAC
11070427 TAAGCCCATTCTAGCTA
1 TAAGCCCATT-TAGCTA
11070444 ACACTCAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
22 4 0.12
23 26 0.81
24 2 0.06
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (23 bp):
TAAGCCCATTTAGCTAGTCACAC
Found at i:11070892 original size:103 final size:102
Alignment explanation
Indices: 11070713--11071002 Score: 335
Period size: 103 Copynumber: 2.9 Consensus size: 102
11070703 ATGATCTCTA
* * *
11070713 AGACCTCTAGGACAACATTTTAAATTTTC-AAGATTTCAATGCCTCTAATACAAAGAGCATTCAA
1 AGACCTCTAGAAAAACATTTTAAAATTTCAAAG-TTTCAATGCCTCTAATAC-AAGAGCATTCAA
* * *
11070777 AGATGTTGAGATTTGTAAATCC-CCTGGGCATTATCTTTT-
64 AGATGTTGAGATTTGTAAAACCTCC-GAGCATAAT-TTTTG
* * * *
11070816 AGACCTCTAAGCAAAACATTTTAAAATTTCAAAGTTTTAATGTCTCTGATACAAGAGCATTCAAA
1 AGACCTCT-AGAAAAACATTTTAAAATTTCAAAGTTTCAATGCCTCTAATACAAGAGCATTCAAA
* *
11070881 AATGTTAAGATTTGTAAAACCTCCGAGCATAATTTTTG
65 GATGTTGAGATTTGTAAAACCTCCGAGCATAATTTTTG
* *
11070919 AGACCTCTGGGAAAAACATTTT--AA---CAAAGTTTCAATACCTCTAATACCAAGAGCATTCAA
1 AGACCTCT-AGAAAAACATTTTAAAATTTCAAAGTTTCAATGCCTCTAATA-CAAGAGCATTCAA
11070979 AGATGTTGAGATTTGTAAAACCTC
64 AGATGTTGAGATTTGTAAAACCTC
11071003 TGGACATAAT
Statistics
Matches: 162, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
98 18 0.11
99 35 0.22
101 2 0.01
102 4 0.02
103 65 0.40
104 35 0.22
105 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.32
Consensus pattern (102 bp):
AGACCTCTAGAAAAACATTTTAAAATTTCAAAGTTTCAATGCCTCTAATACAAGAGCATTCAAAG
ATGTTGAGATTTGTAAAACCTCCGAGCATAATTTTTG
Found at i:11071033 original size:22 final size:22
Alignment explanation
Indices: 11071008--11071049 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11070998 ACCTCTGGAC
*
11071008 ATAATCTGTAAGACTTCCAGGT
1 ATAATCTGTAAGACCTCCAGGT
*
11071030 ATAATTTGTAAGACCTCCAG
1 ATAATCTGTAAGACCTCCAG
11071050 AAAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (22 bp):
ATAATCTGTAAGACCTCCAGGT
Found at i:11071344 original size:15 final size:13
Alignment explanation
Indices: 11071324--11071389 Score: 60
Period size: 15 Copynumber: 4.6 Consensus size: 13
11071314 CAAATTTATT
11071324 AAAAAAAATCAAAACA
1 AAAAAAAAT--AAA-A
11071340 AAAAAAAACTAAGAA
1 AAAAAAAA-TAA-AA
11071355 AAAAAAAAGTAAAA
1 AAAAAAAA-TAAAA
**
11071369 CCAAAAAATAAAA
1 AAAAAAAATAAAA
11071382 AAAAAAAA
1 AAAAAAAA
11071390 GACTTTTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
13 11 0.26
14 8 0.19
15 14 0.33
16 9 0.21
17 1 0.02
ACGTcount: A:0.83, C:0.08, G:0.03, T:0.06
Consensus pattern (13 bp):
AAAAAAAATAAAA
Found at i:11071388 original size:31 final size:30
Alignment explanation
Indices: 11071324--11071389 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
11071314 CAAATTTATT
11071324 AAAAAAAATCAAAACAAAAAAAAACTAAGAAA
1 AAAAAAAATCAAAACAAAAAAAAAC-AA-AAA
* * *
11071356 AAAAAAAGT-AAAACCAAAAAATA-AAAAA
1 AAAAAAAATCAAAACAAAAAAAAACAAAAA
11071384 AAAAAA
1 AAAAAA
11071390 GACTTTTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 9 0.29
29 2 0.06
31 12 0.39
32 8 0.26
ACGTcount: A:0.83, C:0.08, G:0.03, T:0.06
Consensus pattern (30 bp):
AAAAAAAATCAAAACAAAAAAAAACAAAAA
Found at i:11071645 original size:3 final size:3
Alignment explanation
Indices: 11071639--11071674 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
11071629 AATAATAATA
11071639 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11071675 GATCATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11077327 original size:43 final size:44
Alignment explanation
Indices: 11077245--11077335 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 44
11077235 AAAAAACAAA
*
11077245 AAAAAAATTTCTAAATAAACCAAAATGGTGGAAAATTTAGAAAT
1 AAAAAAATTTCTAAATAAACCAAAATGATGGAAAATTTAGAAAT
* * * * *
11077289 AAAAAAA-TTGTAAATAGACCCAAATGAT-GAGAACTTTAGATAT
1 AAAAAAATTTCTAAATAAACCAAAATGATGGA-AAATTTAGAAAT
11077332 AAAA
1 AAAA
11077336 CTTGTAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.05
43 31 0.77
44 7 0.17
ACGTcount: A:0.56, C:0.08, G:0.12, T:0.24
Consensus pattern (44 bp):
AAAAAAATTTCTAAATAAACCAAAATGATGGAAAATTTAGAAAT
Found at i:11098539 original size:217 final size:217
Alignment explanation
Indices: 11098158--11098594 Score: 784
Period size: 217 Copynumber: 2.0 Consensus size: 217
11098148 AGTCTGTTCA
*
11098158 ATAAGATTAAAAACATATATCTTAAAATATACAACTATGCCAGATTATACTACTAATTAAGTCTA
1 ATAAGATTAAAAACATATATCTTAAAATATACAACTATGACAGATTATACTACTAATTAAGTCTA
* *
11098223 ATGTGATAGAATGATAAGTTCTCAGGTTGACTTTTACACCCATCTAGAGAGATGCAAATAACCTC
66 ATGTGATAGAATGATAAGTTCTCAAGTTGACTTTTACACCCACCTAGAGAGATGCAAATAACCTC
**
11098288 AACATGGCCTCCATAACTAAGAATCTAACATTTTAAGCTTTCAGTTCTGGCCAACAATAACTCCA
131 AACATGGCCTCCATAACTAAGAATCTAACATTTTAAGCTTGAAGTTCTGGCCAACAATAACTCCA
*
11098353 ATTTCATGTAACTTGCATGCAT
196 ATTGCATGTAACTTGCATGCAT
*
11098375 ATAAGATTAAAAACATATATCTTAAAATATACAACTATGACAGATTATGCTACTAATTAAGTCTA
1 ATAAGATTAAAAACATATATCTTAAAATATACAACTATGACAGATTATACTACTAATTAAGTCTA
11098440 ATGTGATAGAATGATAAGTTCTCAAGTTGACTTTTACACCCACCTAGAGAGATGCAAATAACCTC
66 ATGTGATAGAATGATAAGTTCTCAAGTTGACTTTTACACCCACCTAGAGAGATGCAAATAACCTC
* * *
11098505 TACATGGCCTCCATAACTAAGAATCTATCATTTTAAGCTTGAAGTTCTGGCCACCAATAACTCCA
131 AACATGGCCTCCATAACTAAGAATCTAACATTTTAAGCTTGAAGTTCTGGCCAACAATAACTCCA
11098570 ATTGCATGTAACTTGCATGCAT
196 ATTGCATGTAACTTGCATGCAT
11098592 ATA
1 ATA
11098595 CTTTTATTTT
Statistics
Matches: 210, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
217 210 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (217 bp):
ATAAGATTAAAAACATATATCTTAAAATATACAACTATGACAGATTATACTACTAATTAAGTCTA
ATGTGATAGAATGATAAGTTCTCAAGTTGACTTTTACACCCACCTAGAGAGATGCAAATAACCTC
AACATGGCCTCCATAACTAAGAATCTAACATTTTAAGCTTGAAGTTCTGGCCAACAATAACTCCA
ATTGCATGTAACTTGCATGCAT
Found at i:11105862 original size:22 final size:22
Alignment explanation
Indices: 11105837--11105893 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
11105827 TGGATCATAT
*
11105837 TACAAAAAAAATTCTAATA-AAA
1 TACAAAAAAAATT-TAAAATAAA
*
11105859 TAC-ATAAAAATTTAAAATAAA
1 TACAAAAAAAATTTAAAATAAA
*
11105880 TAAAATAAAAAATT
1 TACAA-AAAAAATT
11105894 ATCGAAATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 4 0.14
21 13 0.46
22 4 0.14
23 7 0.25
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
TACAAAAAAAATTTAAAATAAA
Found at i:11109084 original size:18 final size:19
Alignment explanation
Indices: 11109063--11109098 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11109053 TTAAAACCTT
11109063 TAAAAAG-AAAAAAAAAGA
1 TAAAAAGCAAAAAAAAAGA
11109081 TAAAAAGCAAAAAAAAAG
1 TAAAAAGCAAAAAAAAAG
11109099 TTGAGTTCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.06
Consensus pattern (19 bp):
TAAAAAGCAAAAAAAAAGA
Done.