Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 281 of 295
Found at i:95761473 original size:42 final size:42
Alignment explanation
Indices: 95761414--95761531 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
95761404 TTAAGGTTAC
95761414 TGAGATTACGTGTAAGACCATATATGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATATGGGATATGGCATCGATA
* ** * *
95761456 TGAGACTT-CGTGTAAGACGATAGCTGGGCTATTGGTATCGATA
1 TGAGA-TTACGTGTAAGACCATATATGGGATA-TGGCATCGATA
* * *
95761499 CGAGATTACATGTAAGACCATATTTGGGATATG
1 TGAGATTACGTGTAAGACCATATATGGGATATG
95761532 ACATTAGTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 28 0.45
43 34 0.55
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATATGGGATATGGCATCGATA
Found at i:95764323 original size:32 final size:32
Alignment explanation
Indices: 95764285--95764345 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
95764275 TAATCGGGAC
*
95764285 GAGTTATTAAATTAAACTAATTAATTTATTAT
1 GAGTTATTAAATTAAACTAATCAATTTATTAT
* *
95764317 GAGTTATTAAATTCAAGTAATCAATTTAT
1 GAGTTATTAAATTAAACTAATCAATTTAT
95764346 AAATTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (32 bp):
GAGTTATTAAATTAAACTAATCAATTTATTAT
Found at i:95765714 original size:92 final size:91
Alignment explanation
Indices: 95765499--95765737 Score: 252
Period size: 91 Copynumber: 2.6 Consensus size: 91
95765489 GTAATTAAGC
* * ** ** *
95765499 CCCTATTTTTTTGTTGCACTCAATTAGATATTTGAACTTTCAAAATGTTTAAAAAAAGACCCTAA
1 CCCT-TTTTTTT-TTGCACTCAATTGGATACTTGAACTACCAAAATGCATCAAAAAAGACCCTAA
* *
95765564 AACTTTTTCCAAAAAAAAAGCAATTAAA
64 AACTTTTTCAAAAAAAAAAACAATTAAA
* * *
95765592 CCCTACTTTTTTTT-CACTCAATTAGG-TACTTGAACTACCAAAATGCATCAAAAATG-CCCTCA
1 CCCT-TTTTTTTTTGCACTCAATT-GGATACTTGAACTACCAAAATGCATCAAAAAAGACCCTAA
*
95765654 AAC-TTTTCAAAAAAAAAAAAACAATTAAG
64 AACTTTTTC--AAAAAAAAAAACAATTAAA
* *
95765683 CATCTTTTTTTTTTGCACTCAATTGGATACTTGAATTACCAAAATGCATCAAAAA
1 C-CCTTTTTTTTTTGCACTCAATTGGATACTTGAACTACCAAAATGCATCAAAAA
95765738 GGCTATGGGT
Statistics
Matches: 124, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
89 5 0.04
90 8 0.06
91 59 0.48
92 41 0.33
93 11 0.09
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.33
Consensus pattern (91 bp):
CCCTTTTTTTTTTGCACTCAATTGGATACTTGAACTACCAAAATGCATCAAAAAAGACCCTAAAA
CTTTTTCAAAAAAAAAAACAATTAAA
Found at i:95766874 original size:3 final size:3
Alignment explanation
Indices: 95766866--95766900 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
95766856 TTGAGTGCAA
*
95766866 AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
95766901 ACAGGGGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:95767478 original size:16 final size:16
Alignment explanation
Indices: 95767445--95767492 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
95767435 GGTTTTAGAT
*
95767445 AAAATATTAAATTT-AA
1 AAAATA-TATATTTAAA
95767461 AAAATGA-ATATTTAAA
1 AAAAT-ATATATTTAAA
95767477 AAAATATATATTTAAA
1 AAAATATATATTTAAA
95767493 TTATGGTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 6 0.21
16 21 0.75
17 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
AAAATATATATTTAAA
Found at i:95771121 original size:26 final size:26
Alignment explanation
Indices: 95771062--95771123 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
95771052 TTTATAAATT
**
95771062 TTTTAAATTAAAACTTAAACTACAAC
1 TTTTAAAAAAAAACTTAAACTACAAC
* *
95771088 CTTCAAAAAAAAATCTTAAACTACAA-
1 TTTTAAAAAAAAA-CTTAAACTACAAC
95771114 TTTTAAAAAA
1 TTTTAAAAAA
95771124 GTAATGTTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
26 17 0.59
27 12 0.41
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.31
Consensus pattern (26 bp):
TTTTAAAAAAAAACTTAAACTACAAC
Found at i:95771122 original size:27 final size:26
Alignment explanation
Indices: 95771071--95771123 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
95771061 TTTTTAAATT
95771071 AAAACTTAAACTACAACCTTCAAAAAA
1 AAAACTTAAACTACAACCTT-AAAAAA
* **
95771098 AAATCTTAAACTACAATTTTAAAAAA
1 AAAACTTAAACTACAACCTTAAAAAA
95771124 GTAATGTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (26 bp):
AAAACTTAAACTACAACCTTAAAAAA
Found at i:95772606 original size:30 final size:30
Alignment explanation
Indices: 95772570--95772629 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
95772560 AGTTTTCAAT
*
95772570 ATCCACATGGGCAGGCCACACGCCTATGTG
1 ATCCACACGGGCAGGCCACACGCCTATGTG
* *
95772600 ATCCACACGGGTAGGCCACATGCCTATGTG
1 ATCCACACGGGCAGGCCACACGCCTATGTG
95772630 CCAGCCCGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.23, C:0.32, G:0.27, T:0.18
Consensus pattern (30 bp):
ATCCACACGGGCAGGCCACACGCCTATGTG
Found at i:95774094 original size:190 final size:189
Alignment explanation
Indices: 95773724--95774104 Score: 541
Period size: 190 Copynumber: 2.0 Consensus size: 189
95773714 AAACTAAGGT
*
95773724 CATAGGAAATCATTACGGTATTTCTTTAGTGTATGAGATTAGTGGCAATTAGGCCTATGTTTTCA
1 CATAAGAAATCATTACGGTATTTCTTTAGTGTATGAGATTAGTGGCAATTAGGCCTATGTTTTCA
* * * *
95773789 AGTTGTTCTTACATGTAACTGAATTGATTATGAATGCATAGTAAAATTAAATAGGTTCTTGTAGC
66 AGTCGTTCTTACATATAACTGAATTAATTATGAATGCATAGTAAAATTAAACAGGTTCTTGTAGC
* ** * * *
95773854 ATCCGGTACTCGGAACCAGGGATCAGGTCAGGTATGGGGTATTTCAATTCCGCTTAGTAA
131 ATCCGGTACCCGG-ACCAACGATCAGGTCAGGTATGAGGTATTACAATTCCACTTAGTAA
*
95773914 CATAAGAAATCATTATGGTATTTCTTTAGTGTATGAGATTAGTGGCAATTAGGCCTATGTTTTCA
1 CATAAGAAATCATTACGGTATTTCTTTAGTGTATGAGATTAGTGGCAATTAGGCCTATGTTTTCA
* * * *
95773979 AGTCGTTCTTACATATAATTGAATTAATTATGAATGTATAGTAAACTTAAACGGGTTCTTGTAGC
66 AGTCGTTCTTACATATAACTGAATTAATTATGAATGCATAGTAAAATTAAACAGGTTCTTGTAGC
** *
95774044 ATCCGGTACCCAGG-CCTAACGATTGGGTCGGGTATGAGGTGA-TACAATTCCACTTAGTAA
131 ATCCGGTACCC-GGACC-AACGATCAGGTCAGGTATGAGGT-ATTACAATTCCACTTAGTAA
95774104 C
1 C
95774105 CACAATAGGG
Statistics
Matches: 169, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
189 2 0.01
190 164 0.97
191 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (189 bp):
CATAAGAAATCATTACGGTATTTCTTTAGTGTATGAGATTAGTGGCAATTAGGCCTATGTTTTCA
AGTCGTTCTTACATATAACTGAATTAATTATGAATGCATAGTAAAATTAAACAGGTTCTTGTAGC
ATCCGGTACCCGGACCAACGATCAGGTCAGGTATGAGGTATTACAATTCCACTTAGTAA
Found at i:95774131 original size:44 final size:44
Alignment explanation
Indices: 95774068--95774155 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
95774058 CCTAACGATT
95774068 GGGTCGGGTATGAGGTGATACAATTCCACTTAGTAACCACAATA
1 GGGTCGGGTATGAGGTGATACAATTCCACTTAGTAACCACAATA
95774112 GGGTCGGGTATGAGGTGATACAATTCCACTTAGTAACCACAATA
1 GGGTCGGGTATGAGGTGATACAATTCCACTTAGTAACCACAATA
95774156 TAATTCCTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (44 bp):
GGGTCGGGTATGAGGTGATACAATTCCACTTAGTAACCACAATA
Found at i:95775753 original size:27 final size:27
Alignment explanation
Indices: 95775721--95775773 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
95775711 GGACCTACTC
95775721 ATGCT-ATTATAAAAGAAAAAAAAATCT
1 ATGCTAATTATAAAA-AAAAAAAAATCT
*
95775748 ATGCTAAATTATTAAAAAAAAAAAAT
1 ATGCT-AATTATAAAAAAAAAAAAAT
95775774 AGCTGACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 5 0.22
28 10 0.43
29 8 0.35
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (27 bp):
ATGCTAATTATAAAAAAAAAAAAATCT
Found at i:95776471 original size:18 final size:19
Alignment explanation
Indices: 95776442--95776477 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
95776432 TATACAATAG
95776442 TTATTATTGGGTTAAATTA
1 TTATTATTGGGTTAAATTA
*
95776461 TTATT-TTGGGTTGAATT
1 TTATTATTGGGTTAAATT
95776478 TAACGAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (19 bp):
TTATTATTGGGTTAAATTA
Found at i:95778128 original size:30 final size:31
Alignment explanation
Indices: 95778071--95778137 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
95778061 TTAACATCCA
95778071 AATGACTCAAATAAAAACTTTCAAATAGTTC
1 AATGACTCAAATAAAAACTTTCAAATAGTTC
* * ** *
95778102 AATGACTTAAA-AATAACTTTTGAATAGTTT
1 AATGACTCAAATAAAAACTTTCAAATAGTTC
95778132 AATGAC
1 AATGAC
95778138 CATTTTGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (31 bp):
AATGACTCAAATAAAAACTTTCAAATAGTTC
Found at i:95781711 original size:16 final size:17
Alignment explanation
Indices: 95781683--95781717 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
95781673 TTACAATTTG
95781683 ATTTTATAATTAAAGTT
1 ATTTTATAATTAAAGTT
*
95781700 ATTTTA-AATTAAATTT
1 ATTTTATAATTAAAGTT
95781716 AT
1 AT
95781718 ATAACTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTTATAATTAAAGTT
Found at i:95784150 original size:14 final size:14
Alignment explanation
Indices: 95784115--95784178 Score: 82
Period size: 14 Copynumber: 4.9 Consensus size: 14
95784105 ATTTAATAAA
95784115 TAAAAATAAAAA--
1 TAAAAATAAAAATC
95784127 TAAAAATAAAAATC
1 TAAAAATAAAAATC
*
95784141 TAAAACTAAAAATC
1 TAAAAATAAAAATC
*
95784155 TAAAACTAAAAA--
1 TAAAAATAAAAATC
95784167 TAAAAATAAAAA
1 TAAAAATAAAAA
95784179 ACATATAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
12 23 0.48
14 25 0.52
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAAAATAAAAATC
Found at i:95784177 original size:5 final size:6
Alignment explanation
Indices: 95784112--95784178 Score: 80
Period size: 6 Copynumber: 10.5 Consensus size: 6
95784102 ATAATTTAAT
* *
95784112 AAATAA AAATAA AAATAA AAATAA AAATCTAA AACTAA AAATCTAA AACTAA
1 AAATAA AAATAA AAATAA AAATAA AAA--TAA AAATAA AAA--TAA AAATAA
95784164 AAATAA AAATAA AAA
1 AAATAA AAATAA AAA
95784179 ACATATAATT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
6 43 0.81
8 10 0.19
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:95784179 original size:20 final size:20
Alignment explanation
Indices: 95784112--95784180 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
95784102 ATAATTTAAT
95784112 AAAT-AAAAA-TAAAAATAA
1 AAATAAAAAACTAAAAATAA
* *
95784130 AAATAAAAATCTAAAACTAA
1 AAATAAAAAACTAAAAATAA
**
95784150 AAATCTAAAACTAAAAATAA
1 AAATAAAAAACTAAAAATAA
95784170 AAATAAAAAAC
1 AAATAAAAAAC
95784181 ATATAATTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
18 4 0.10
19 4 0.10
20 33 0.80
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAAAAACTAAAAATAA
Found at i:95784212 original size:9 final size:9
Alignment explanation
Indices: 95784198--95784265 Score: 100
Period size: 9 Copynumber: 7.6 Consensus size: 9
95784188 TTTATACAAA
95784198 TAATTCGGT
1 TAATTCGGT
95784207 TAATTCGGT
1 TAATTCGGT
* *
95784216 TAATTTGGG
1 TAATTCGGT
95784225 TAATTCGGT
1 TAATTCGGT
*
95784234 TAATTCGAT
1 TAATTCGGT
95784243 TAATTCGGT
1 TAATTCGGT
*
95784252 AAATTCGGT
1 TAATTCGGT
95784261 TAATT
1 TAATT
95784266 TTATACTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:95784668 original size:43 final size:43
Alignment explanation
Indices: 95784549--95784677 Score: 183
Period size: 44 Copynumber: 3.0 Consensus size: 43
95784539 CATAGGATTC
95784549 CGATATGTGATT-CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
* * *
95784591 CGATTTGTGATTTACGTGTAAGACC-CTGTTTGGGACAG-TGGCAT
1 CGATATGTGA-TTACATGTAAGACCAC-GTCTGGGAC-GTTGGCAT
95784635 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
95784678 TGTTCGAGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 11
0.82 0.07 0.12
Matches are distributed among these distances:
42 10 0.13
43 30 0.40
44 34 0.45
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (43 bp):
CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:95786922 original size:3 final size:3
Alignment explanation
Indices: 95786909--95786985 Score: 52
Period size: 3 Copynumber: 26.3 Consensus size: 3
95786899 TCCATTTCTC
* * *
95786909 TTA TT- TTA TTA TTA TT- TTA TTTA TT- TTA CTA TTA TTA TCA TCA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
95786952 TCA TCA TTA TTA TTA TCA TTT TTA TTT TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
95786986 CTTTAGTATA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
2 6 0.10
3 51 0.85
4 3 0.05
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:95789370 original size:70 final size:70
Alignment explanation
Indices: 95789284--95789425 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 70
95789274 TTGAGATTTG
*
95789284 ATTTGGTTAGTTGCCTAACTATGTTCGATTATTTGAATTGCTGAATTTTATTTAAAAAAATCAAT
1 ATTTGGTTAGTTGCCTAACTATGTTCCATTATTTGAATTGCTGAATTTTATTTAAAAAAATCAAT
95789349 AAAAA
66 AAAAA
95789354 ATTTGGTTAGTTGCCTAACTATGTTCCATTATTTGAATTGCTGAATTTTATTTAAAAAAATCAAT
1 ATTTGGTTAGTTGCCTAACTATGTTCCATTATTTGAATTGCTGAATTTTATTTAAAAAAATCAAT
95789419 AAAAA
66 AAAAA
95789424 AT
1 AT
95789426 CAAAATAAAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (70 bp):
ATTTGGTTAGTTGCCTAACTATGTTCCATTATTTGAATTGCTGAATTTTATTTAAAAAAATCAAT
AAAAA
Found at i:95790071 original size:36 final size:36
Alignment explanation
Indices: 95790024--95790095 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
95790014 TTAAGAAAAG
95790024 TTAACTTGCATGTGGGTTGGGGATTTTGTTTGAGGA
1 TTAACTTGCATGTGGGTTGGGGATTTTGTTTGAGGA
95790060 TTAACTTGCATGTGGGTTGGGGATTTTGTTTGAGGA
1 TTAACTTGCATGTGGGTTGGGGATTTTGTTTGAGGA
95790096 CAAGCAAACG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.17, C:0.06, G:0.36, T:0.42
Consensus pattern (36 bp):
TTAACTTGCATGTGGGTTGGGGATTTTGTTTGAGGA
Found at i:95795642 original size:20 final size:21
Alignment explanation
Indices: 95795600--95795652 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
95795590 AGAATTTTCA
* *
95795600 AAAATTTTAAAAGGTTTAATT
1 AAAATTTTCAAAGGTTAAATT
95795621 AAAATTTTCAAA-GTTAAATT
1 AAAATTTTCAAAGGTTAAATT
95795641 AAAATTTTCAAA
1 AAAATTTTCAAA
95795653 ATTTTTGAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.40
Consensus pattern (21 bp):
AAAATTTTCAAAGGTTAAATT
Found at i:95798516 original size:47 final size:47
Alignment explanation
Indices: 95798458--95798551 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
95798448 TAATTCCACT
* *
95798458 TGACAATCTCAATTTAT-AGTTAAAATTTTAAATTAGTTCCTAAAACA
1 TGACAACCTCAAATTATCA-TTAAAATTTTAAATTAGTTCCTAAAACA
95798505 TGACAACCTCAAATTATCATTAAAATTTTAAATTAGTTCCTAAAACA
1 TGACAACCTCAAATTATCATTAAAATTTTAAATTAGTTCCTAAAACA
95798552 AAAAATGTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 43 0.98
48 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (47 bp):
TGACAACCTCAAATTATCATTAAAATTTTAAATTAGTTCCTAAAACA
Found at i:95800610 original size:23 final size:24
Alignment explanation
Indices: 95800584--95800632 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
95800574 GTGCATGCAC
*
95800584 GCCACTTGA-AATTAATGCTAACA
1 GCCACCTGATAATTAATGCTAACA
*
95800607 GCCACCTGATAATTAATTCTAACA
1 GCCACCTGATAATTAATGCTAACA
95800631 GC
1 GC
95800633 TTTAAGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (24 bp):
GCCACCTGATAATTAATGCTAACA
Found at i:95804510 original size:46 final size:46
Alignment explanation
Indices: 95804237--95804509 Score: 395
Period size: 46 Copynumber: 5.9 Consensus size: 46
95804227 TTTGACATGA
* * * * *
95804237 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* *
95804283 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * *
95804329 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
95804375 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * *
95804421 TGCCATGGTATCTTTCAACCTTGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
95804467 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
95804510 GAGAGCACAC
Statistics
Matches: 211, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 207 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:95806646 original size:11 final size:11
Alignment explanation
Indices: 95806630--95806688 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
95806620 CTTTATATAC
95806630 TAATAAAATAA
1 TAATAAAATAA
95806641 TAATAAAATAA
1 TAATAAAATAA
* *
95806652 TAGTAAAATATCT
1 TAATAAAATA--A
* *
95806665 TATTAAAATAT
1 TAATAAAATAA
95806676 TAATAAAATAA
1 TAATAAAATAA
95806687 TA
1 TA
95806689 TTTATCTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
11 32 0.78
13 9 0.22
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:95809253 original size:41 final size:41
Alignment explanation
Indices: 95809208--95809550 Score: 528
Period size: 41 Copynumber: 8.3 Consensus size: 41
95809198 TATTCGGGCT
*
95809208 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGT
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
*
95809249 TTATTGCCTAGCATGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* * *
95809290 TTATTGCCTAGCAGGCTTTGTGCCAGTGTTTTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
*
95809331 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* *
95809372 TTATTGCCTAGCAAGCTTTGTGCCGGTGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
95809413 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* *
95809454 TTATTGCCTAGCAGGCTTTATATGCCTGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGC
* *
95809497 TTATTGCCTAGTAGGCTCTGTGCCGGTGTATTATA-CTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATC-AGGC
95809538 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
95809551 AATTTTATGT
Statistics
Matches: 280, Mismatches: 18, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
40 2 0.01
41 239 0.85
42 3 0.01
43 36 0.13
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
Found at i:95828842 original size:13 final size:13
Alignment explanation
Indices: 95828824--95828848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95828814 CTCGGTAGGG
95828824 ACACGCCCGTGTA
1 ACACGCCCGTGTA
95828837 ACACGCCCGTGT
1 ACACGCCCGTGT
95828849 GCGATTACTT
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:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:95830169 original size:15 final size:17
Alignment explanation
Indices: 95830141--95830173 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
95830131 GAATAATACG
95830141 AAAATAATACTATATAA
1 AAAATAATACTATATAA
95830158 AAAATATATA-TATATA
1 AAAATA-ATACTATATA
95830174 CGTATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATAATACTATATAA
Found at i:95831275 original size:27 final size:27
Alignment explanation
Indices: 95831227--95831385 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
95831217 GCGAGGCTGC
* *
95831227 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
95831254 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
95831280 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
95831307 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
95831334 CAGATATATGTGGCAAAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
95831361 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
95831386 GATGCTTCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:95831320 original size:54 final size:54
Alignment explanation
Indices: 95831227--95831385 Score: 241
Period size: 54 Copynumber: 3.0 Consensus size: 54
95831217 GCGAGGCTGC
* * * *
95831227 CAGATAT-TGTGACGAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
* *
95831280 CAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
95831334 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
95831386 GATGCTTCCT
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 12 0.12
54 84 0.88
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:95833043 original size:26 final size:26
Alignment explanation
Indices: 95833007--95833090 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
95832997 CATGAAATTC
95833007 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
95833033 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
95833059 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
95833085 TTATCA
1 TTATCA
95833091 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:95833718 original size:3 final size:3
Alignment explanation
Indices: 95833694--95833756 Score: 92
Period size: 3 Copynumber: 20.7 Consensus size: 3
95833684 AAGTACTTAT
*
95833694 TAA TAA TAT TATA TAA -ATA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
95833740 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
95833757 CAAAAGAAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 1 0.02
3 51 0.93
4 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:95833901 original size:27 final size:29
Alignment explanation
Indices: 95833871--95833938 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 29
95833861 CATAAAGAGT
*
95833871 ATATATATATAATAAAAATA-TACAT-TA
1 ATATATATATAATAAAAATAGTAAATATA
*
95833898 ATATTTATA-AATAAAAATAGTAAATATA
1 ATATATATATAATAAAAATAGTAAATATA
95833926 ATA-ATA-ATAATAA
1 ATATATATATAATAA
95833939 TACTATTAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 11 0.31
27 19 0.54
28 5 0.14
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (29 bp):
ATATATATATAATAAAAATAGTAAATATA
Found at i:95833931 original size:3 final size:3
Alignment explanation
Indices: 95833923--95834009 Score: 52
Period size: 3 Copynumber: 28.0 Consensus size: 3
95833913 AATAGTAAAT
* * * *
95833923 ATA ATA ATA ATA ATA ATA CTA TTA AGT- ATA GT- ATAA ATA ATA TGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA AT-A ATA ATA -ATA
* * *
95833969 CATA ACA GTA ATA ATA ATA AGTA ACA ATA ATA ATA ATA ATA
1 -ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
95834010 CAGAAATTCA
Statistics
Matches: 64, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
2 2 0.03
3 52 0.81
4 10 0.16
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:95833999 original size:19 final size:19
Alignment explanation
Indices: 95833971--95834007 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
95833961 AATATGTACA
*
95833971 TAACAGTAATAATAATAAG
1 TAACAATAATAATAATAAG
95833990 TAACAATAATAATAATAA
1 TAACAATAATAATAATAA
95834008 TACAGAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
TAACAATAATAATAATAAG
Found at i:95834057 original size:16 final size:16
Alignment explanation
Indices: 95834033--95834066 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
95834023 AAGTAAACAT
*
95834033 AATATAATAATATTAA
1 AATAAAATAATATTAA
*
95834049 AATAAAATAATTTTAA
1 AATAAAATAATATTAA
95834065 AA
1 AA
95834067 AATACTATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:95838864 original size:6 final size:7
Alignment explanation
Indices: 95838846--95838870 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
95838836 AAAAAAGTCC
95838846 ATTTTTT
1 ATTTTTT
95838853 ATTTTTT
1 ATTTTTT
95838860 ATTTTTT
1 ATTTTTT
95838867 ATTT
1 ATTT
95838871 ACGTTTTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
ATTTTTT
Found at i:95849660 original size:40 final size:40
Alignment explanation
Indices: 95849616--95849692 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
95849606 ACAGTATCAT
**
95849616 TTGGTGTGTAGGGCTGGATGGGTTGATTTTATCCCCATAC
1 TTGGTGTGTAGGGCTGGATGGGGCGATTTTATCCCCATAC
*
95849656 TTGGTGTGTAGGGCTGGGTGGGGCGATTTTATCCCCA
1 TTGGTGTGTAGGGCTGGATGGGGCGATTTTATCCCCA
95849693 CATGGTGTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.13, C:0.16, G:0.36, T:0.35
Consensus pattern (40 bp):
TTGGTGTGTAGGGCTGGATGGGGCGATTTTATCCCCATAC
Found at i:95866698 original size:28 final size:30
Alignment explanation
Indices: 95866667--95866728 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
95866657 TATATATTAT
95866667 TATTTATA-A-AAGATATTTAT-TAATTAAA
1 TATTTATATATAAGATATTTATGTAA-TAAA
*
95866695 TATTTATATTATAAGATTTTTATGTAATAAA
1 TATTTATA-TATAAGATATTTATGTAATAAA
95866726 TAT
1 TAT
95866729 ATTAAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.28
30 1 0.03
31 17 0.59
32 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (30 bp):
TATTTATATATAAGATATTTATGTAATAAA
Found at i:95866717 original size:31 final size:32
Alignment explanation
Indices: 95866676--95866738 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
95866666 TTATTTATAA
*
95866676 AAGATATTTAT-TAATTAAATAT-TTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
95866707 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
95866739 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Found at i:95866826 original size:2 final size:2
Alignment explanation
Indices: 95866815--95866844 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
95866805 TTAAGTTAAC
95866815 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
95866845 AAGTAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95866902 original size:15 final size:15
Alignment explanation
Indices: 95866854--95866902 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
95866844 AAAGTAAAAC
95866854 AAAAGAAAAAGAAATG
1 AAAAGAAAAAG-AATG
*
95866870 AAAAAAAAAAG-ATAG
1 AAAAGAAAAAGAAT-G
*
95866885 AAAAGAAACAGAATG
1 AAAAGAAAAAGAATG
95866900 AAA
1 AAA
95866903 CCAAACAGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 2 0.07
15 14 0.50
16 12 0.43
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (15 bp):
AAAAGAAAAAGAATG
Found at i:95868605 original size:47 final size:47
Alignment explanation
Indices: 95868539--95868655 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
95868529 AATATTGTTA
* *
95868539 CTGT-TACCGTTACTGTTACTGTTTCGGATTTGTTTCGATGAGGTACT
1 CTGTGTACCG-TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACT
95868586 CTGTGTACCGTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACT
1 CTGTGTACCGTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACT
* *
95868633 CTGTGTACCGTATTGCTACTGTT
1 CTGTGTACCGTACTGTTACTGTT
95868656 ACTGTTACTG
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
47 60 0.92
48 5 0.08
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.42
Consensus pattern (47 bp):
CTGTGTACCGTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACT
Found at i:95868838 original size:18 final size:18
Alignment explanation
Indices: 95868785--95868868 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
95868775 AGATCGACTG
* *
95868785 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGATTA
**
95868804 TTACTGAATAACGGATTA
1 TTACTGAATAATTGATTA
* *
95868822 TTATTGAATAATTGATTG
1 TTACTGAATAATTGATTA
* * *
95868840 TTACCGAATAACTT-ACTG
1 TTACTGAATAA-TTGATTA
95868858 TTACTGAATAA
1 TTACTGAATAA
95868869 ATAATCGTTC
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
18 39 0.75
19 13 0.25
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (18 bp):
TTACTGAATAATTGATTA
Found at i:95868866 original size:36 final size:37
Alignment explanation
Indices: 95868780--95868868 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 37
95868770 TGGAAAGATC
*
95868780 GACTGTTACTGAATAACTTAATTGTTACTGAATAACG
1 GACTGTTACTGAATAACTTAATTGTTACCGAATAACG
* * * * *
95868817 GATTATTATTGAATAA-TTGATTGTTACCGAATAACT
1 GACTGTTACTGAATAACTTAATTGTTACCGAATAACG
*
95868853 TACTGTTACTGAATAA
1 GACTGTTACTGAATAA
95868869 ATAATCGTTC
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
36 29 0.69
37 13 0.31
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (37 bp):
GACTGTTACTGAATAACTTAATTGTTACCGAATAACG
Found at i:95872476 original size:26 final size:26
Alignment explanation
Indices: 95872446--95872498 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
95872436 TTTGCTGTTT
*
95872446 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
95872472 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
95872498 T
1 T
95872499 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:95877921 original size:26 final size:25
Alignment explanation
Indices: 95877880--95877960 Score: 137
Period size: 25 Copynumber: 3.2 Consensus size: 25
95877870 TGATACAAAT
*
95877880 TGATAAT-GGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
95877905 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
95877930 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
95877955 TGATAA
1 TGATAA
95877961 GAATTTCATG
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
25 40 0.74
26 14 0.26
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:95879488 original size:25 final size:25
Alignment explanation
Indices: 95879440--95879488 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
95879430 ACAGTTTTAC
95879440 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
95879465 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
95879489 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:95883075 original size:31 final size:32
Alignment explanation
Indices: 95883034--95883096 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
95883024 TTATTTATAA
*
95883034 AAGATATTTAT-TAATTAAATAT-TTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
95883065 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
95883097 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Found at i:95883166 original size:15 final size:17
Alignment explanation
Indices: 95883146--95883177 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
95883136 AAATATTTGA
95883146 TATTAA-TTAA-ATATT
1 TATTAAGTTAACATATT
95883161 TATTAAGTTAACATATT
1 TATTAAGTTAACATATT
95883178 ATATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
TATTAAGTTAACATATT
Found at i:95884677 original size:19 final size:20
Alignment explanation
Indices: 95884655--95884702 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
95884645 AATTATATTG
95884655 AATTAAAAAAAATAT-AATT
1 AATTAAAAAAAATATGAATT
**
95884674 AATTAATTAAAATATGAATT
1 AATTAAAAAAAATATGAATT
95884694 AATTGAAAA
1 AATT-AAAA
95884703 CTGAAAAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 13 0.57
20 8 0.35
21 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
AATTAAAAAAAATATGAATT
Found at i:95884845 original size:12 final size:12
Alignment explanation
Indices: 95884828--95884852 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95884818 GCCGACTACT
95884828 GTTACTGTTACC
1 GTTACTGTTACC
95884840 GTTACTGTTACC
1 GTTACTGTTACC
95884852 G
1 G
95884853 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:95884958 original size:47 final size:47
Alignment explanation
Indices: 95884883--95884999 Score: 173
Period size: 47 Copynumber: 2.5 Consensus size: 47
95884873 GATATTGTTA
* * *
95884883 CTGT-TACCGTTACTGTTATTGTTTCGGATTTGTTCCGATGAGGTACT
1 CTGTGTACCG-TACTGTTACTGTTCCGGATTTGTTCAGATGAGGTACT
95884930 CTGTGTACCGTACTGTTACTGTTCCGGATTTGTTCAGATGAGGTACT
1 CTGTGTACCGTACTGTTACTGTTCCGGATTTGTTCAGATGAGGTACT
* *
95884977 CTGTGTACCGTATTGCTACTGTT
1 CTGTGTACCGTACTGTTACTGTT
95885000 ACTGTTACTG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 59 0.92
48 5 0.08
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.42
Consensus pattern (47 bp):
CTGTGTACCGTACTGTTACTGTTCCGGATTTGTTCAGATGAGGTACT
Found at i:95885174 original size:18 final size:18
Alignment explanation
Indices: 95885126--95885263 Score: 109
Period size: 18 Copynumber: 7.7 Consensus size: 18
95885116 GAAAGATCAC
* *
95885126 TGTTATTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
*
95885145 TGTTACTGAATAACTGAT
1 TGTTACTGAATAATTGAT
* *
95885163 TATTATTGAATAATTGAT
1 TGTTACTGAATAATTGAT
*
95885181 TGTTACCGAATAATTGAT
1 TGTTACTGAATAATTGAT
* *
95885199 TGTTACCGAATAACTT-AC
1 TGTTACTGAATAA-TTGAT
* * *
95885217 TGTTACTGAAAAAATAAT
1 TGTTACTGAATAATTGAT
* * *
95885235 CGTT-CTGATTAATTGGT
1 TGTTACTGAATAATTGAT
*
95885252 TGTTAATGAATA
1 TGTTACTGAATA
95885264 TTACTGATTG
Statistics
Matches: 93, Mismatches: 23, Indels: 7
0.76 0.19 0.06
Matches are distributed among these distances:
17 12 0.13
18 67 0.72
19 14 0.15
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:95888653 original size:5 final size:6
Alignment explanation
Indices: 95888637--95888661 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
95888627 TTCACTCAAC
95888637 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
95888662 TAGAGTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:95900956 original size:15 final size:15
Alignment explanation
Indices: 95900936--95900970 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
95900926 TGTTATAAAA
95900936 TATTATTAATAGTT-T
1 TATTATTAATA-TTCT
95900951 TATTATTAATATTCT
1 TATTATTAATATTCT
95900966 TATTA
1 TATTA
95900971 ATACACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (15 bp):
TATTATTAATATTCT
Found at i:95901859 original size:4 final size:4
Alignment explanation
Indices: 95901850--95901879 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
95901840 CATTCTACCA
*
95901850 TTAT TTAT TTAT TTAT TCAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
95901880 GCTTGCGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:95903233 original size:25 final size:24
Alignment explanation
Indices: 95903205--95903297 Score: 64
Period size: 25 Copynumber: 3.8 Consensus size: 24
95903195 TATACGTATG
*
95903205 AGATAATATCAAAAATATATACATA
1 AGATAATAT-AAAAATATATAAATA
* * *
95903230 AGATGATATATAAATAATCTAAATA
1 AGATAATATAAAAAT-ATATAAATA
* *
95903255 ATATAATATTGAAAAATATATATAT-
1 AGATAATA-T-AAAAATATATAAATA
*
95903280 ACATAATA-AAAACATATA
1 AGATAATATAAAA-ATATA
95903298 CTTAACGTAG
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
22 4 0.07
23 5 0.09
24 5 0.09
25 28 0.52
26 7 0.13
27 5 0.09
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.31
Consensus pattern (24 bp):
AGATAATATAAAAATATATAAATA
Found at i:95903452 original size:3 final size:3
Alignment explanation
Indices: 95903446--95903531 Score: 56
Period size: 3 Copynumber: 29.0 Consensus size: 3
95903436 AGAAATATAC
* *
95903446 TAA TAA TGA TAA TAA TAA TAA TAA TAG TAA TAA T-A TAA -ATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * *
95903490 T-A TACA TACA -AG T-G TAA TAA TAA TAAA TAA CAA TAA TAA TAA
1 TAA TA-A TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
95903532 ATATAAAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
2 7 0.10
3 51 0.76
4 9 0.13
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:95907083 original size:46 final size:46
Alignment explanation
Indices: 95907031--95907293 Score: 337
Period size: 46 Copynumber: 5.9 Consensus size: 46
95907021 GTGCTCTCTA
95907031 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
95907077 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC--
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
95907121 ---TG---TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* * *
95907161 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCGTGGCAACGTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* * ** *
95907207 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* * * * *
95907253 ACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
95907294 TCACGTCAAA
Statistics
Matches: 194, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 36 0.19
41 2 0.01
43 2 0.01
45 1 0.01
46 153 0.79
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:95907180 original size:84 final size:85
Alignment explanation
Indices: 95907038--95907293 Score: 336
Period size: 84 Copynumber: 2.9 Consensus size: 85
95907028 CTAATATGAA
95907038 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
95907103 AAAGATACCATGGCAACCTG
66 AAAGATACCATGGCAACCTG
*
95907123 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
* *
95907187 AAAGATACCGTGGCAACGTG
66 AAAGATACCATGGCAACCTG
* * * *
95907207 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGAC
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTGTAAGAC
* * *
95907271 CATAGTTGAAAGACACTATGGCA
58 CATGGTTGAAAGATACCATGGCA
95907294 TCACGTCAAA
Statistics
Matches: 150, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
84 81 0.54
87 2 0.01
90 1 0.01
91 1 0.01
92 65 0.43
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (85 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
AAAGATACCATGGCAACCTG
Found at i:95907599 original size:23 final size:25
Alignment explanation
Indices: 95907554--95907600 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
95907544 AATAAATATA
*
95907554 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
95907579 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
95907601 ATGAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:95908808 original size:14 final size:15
Alignment explanation
Indices: 95908789--95908822 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
95908779 AATATGAGTT
95908789 GATTTTTGAAAA-CA
1 GATTTTTGAAAAGCA
95908803 GA-TTTTGAAAAGCA
1 GATTTTTGAAAAGCA
95908817 GATTTT
1 GATTTT
95908823 GAAGATACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.50
14 6 0.33
15 3 0.17
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (15 bp):
GATTTTTGAAAAGCA
Found at i:95908810 original size:13 final size:14
Alignment explanation
Indices: 95908792--95908825 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
95908782 ATGAGTTGAT
95908792 TTTTGAAAA-CAGA
1 TTTTGAAAAGCAGA
95908805 TTTTGAAAAGCAGA
1 TTTTGAAAAGCAGA
95908819 TTTTGAA
1 TTTTGAA
95908826 GATACCTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (14 bp):
TTTTGAAAAGCAGA
Found at i:95908825 original size:88 final size:87
Alignment explanation
Indices: 95908673--95909052 Score: 275
Period size: 88 Copynumber: 4.4 Consensus size: 87
95908663 GTGATCTTGA
** * * * *
95908673 GCTCAACTCATTTCTCGCAATATGAATTGAATCTTTAAAAACAGACATTAAAAATAGAAATTGAA
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTGAAAACAGACATTAAAAACAGAAATTGAA
* * *
95908738 AATAGCTC-AGCACGTGAGCCAAG
65 AATACCTCGA-CACATGACCCAAG
** * **
95908761 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGATTTTGAAAAGCAGATTTTGAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGACATT-AAAAACAGAAATTGAA
* * *
95908826 GATACCTCGACATATGACCCGAG
65 AATACCTCGACACATGACCCAAG
**
95908849 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AA-A-A-A-TATCAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGACATTAAAAACAGAAATTGAAA
* * **
95908908 ATACCTC-A-GCGT-ATCCTGAG
66 ATACCTCGACACATGA-CCCAAG
* ** *
95908928 GCTCAACTCACATCTTACAATATGAGTTGATTTTTTTTGAAAAGCAGGA-ATTGAAAAGCAGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAA-CA-GACATT-AAAAACAGAAA
* * * *
95908992 TTTAAAATACCTC-A-GCGTG-CCCTGAG
60 TTGAAAATACCTCGACACATGACCC-AAG
*
95909018 GCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
95909053 TTGAAAGACA
Statistics
Matches: 238, Mismatches: 38, Indels: 33
0.77 0.12 0.11
Matches are distributed among these distances:
78 1 0.00
79 33 0.14
80 1 0.00
81 18 0.08
82 7 0.03
84 3 0.01
85 1 0.00
86 3 0.01
87 20 0.08
88 91 0.38
89 4 0.02
90 56 0.24
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (87 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGACATTAAAAACAGAAATTGAAA
ATACCTCGACACATGACCCAAG
Found at i:95908983 original size:14 final size:14
Alignment explanation
Indices: 95908964--95908998 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
95908954 TTGATTTTTT
*
95908964 TTGAAAAGCAGGAA
1 TTGAAAAGCAGAAA
95908978 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
*
95908992 TTTAAAA
1 TTGAAAA
95908999 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.06, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:95909031 original size:169 final size:164
Alignment explanation
Indices: 95908722--95909133 Score: 444
Period size: 169 Copynumber: 2.5 Consensus size: 164
95908712 AACAGACATT
* * * *
95908722 AAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAG--CGT-ATCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
95908786 GTTGA--TTTTTGAAAACAGATTTTGAAAAGCAGATTTTGAAGATACCTCGACATATGACCCGAG
63 GTTGATTTTTTTGAAAACAGATATTGAAAAGCAGAATTTGAAAATACCTCGACA-ATGACCCGAG
95908849 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
127 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAA
* **
95908888 AATATCAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACATCTTACAATATGA
1 AA-A--AACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
95908953 GTTGATTTTTTTTGAAAAGCAGGA-ATTGAAAAGCAGAAATTT-AAAATACCTC-AGC-GTG-CC
63 GTTGA-TTTTTTTGAAAA-CA-GATATTGAAAAGCAG-AATTTGAAAATACCTCGA-CAATGACC
* ***
95909013 CTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTG
123 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAA
* * ** * * *
95909056 AAAGACAGAAATCGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAACATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
95909121 GATTTTTTTGAAA
66 GATTTTTTTGAAA
95909134 CAAAAATAAA
Statistics
Matches: 209, Mismatches: 25, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
164 11 0.05
165 54 0.26
166 5 0.02
167 34 0.16
168 5 0.02
169 60 0.29
170 11 0.05
171 23 0.11
172 6 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (164 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTGAAAACAGATATTGAAAAGCAGAATTTGAAAATACCTCGACAATGACCCGAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTTTAAA
Found at i:95909049 original size:90 final size:89
Alignment explanation
Indices: 95908896--95909058 Score: 272
Period size: 90 Copynumber: 1.8 Consensus size: 89
95908886 AAAATATCAA
*
95908896 CAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACATCTTACAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACATCTTACAATATGAGTTGA-TT
95908961 TTTTTGAAAAGCAGGAATTGAAAAG
65 TTTTTGAAAAGCAGGAATTGAAAAG
* * * *
95908986 CAGAAATTTAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACATCTTACAATATGAGTTGATTT
95909051 TTTTGAAA
66 TTTTGAAA
95909059 GACAGAAATC
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 11 0.16
90 57 0.84
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (89 bp):
CAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACATCTTACAATATGAGTTGATTT
TTTTGAAAAGCAGGAATTGAAAAG
Found at i:95909101 original size:75 final size:74
Alignment explanation
Indices: 95908982--95909133 Score: 223
Period size: 75 Copynumber: 2.0 Consensus size: 74
95908972 CAGGAATTGA
** * * *
95908982 AAAGCAGAAATTTAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTG
1 AAAGCAGAAATCGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTG
95909047 ATTTTTTTG
66 ATTTTTTTG
* * *
95909056 AAAGACAGAAATCGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAACATGAGTT
1 AAAG-CAGAAATCGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAACATGAGTT
95909121 GATTTTTTTG
65 GATTTTTTTG
95909131 AAA
1 AAA
95909134 CAAAAATAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
74 4 0.06
75 65 0.94
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (74 bp):
AAAGCAGAAATCGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTG
ATTTTTTTG
Found at i:95909120 original size:165 final size:167
Alignment explanation
Indices: 95908759--95909133 Score: 446
Period size: 165 Copynumber: 2.3 Consensus size: 167
95908749 ACGTGAGCCA
* *
95908759 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGATTTTGAAAAGCAGATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGATATTGAAAAGCAGAATT
*
95908822 TGAAGATACCTCGACATATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
66 TGAAAATACCTCGACA-ATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
* *
95908887 AAATATCAACAGAAATTGAAAATACCTCAGCGTATCCTG
130 AAATA-CAACAGAAATCGAAAATACCTCAACGTATCCTG
* **
95908926 AGGCTCAACTCACATCTTACAATATGAGTTGATTTTTTTTGAAAAGCAGGA-ATTGAAAAGCAGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAA-CA-GATATTGAAAAGCAG-
* *
95908990 AATTT-AAAATACCTC-AGC-GTG-CCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTT
62 AATTTGAAAATACCTCGA-CAATGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*** * * * *
95909051 TT-TTGAA-A-GACAGAAATCGAAAATACCTCAATGTGTCTTG
125 TTGAAAAATACAACAGAAATCGAAAATACCTCAACGTATCCTG
*
95909091 AGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
95909134 CAAAAATAAA
Statistics
Matches: 179, Mismatches: 21, Indels: 19
0.82 0.10 0.09
Matches are distributed among these distances:
164 11 0.06
165 54 0.30
167 30 0.17
168 5 0.03
169 39 0.22
170 11 0.06
171 23 0.13
172 6 0.03
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (167 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGATATTGAAAAGCAGAATT
TGAAAATACCTCGACAATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
AATACAACAGAAATCGAAAATACCTCAACGTATCCTG
Found at i:95909293 original size:11 final size:11
Alignment explanation
Indices: 95909277--95909302 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
95909267 ATGATAAGCA
95909277 TATGTTTGTCG
1 TATGTTTGTCG
95909288 TATGTTTGTCG
1 TATGTTTGTCG
95909299 TATG
1 TATG
95909303 CCCGTCTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.12, C:0.08, G:0.27, T:0.54
Consensus pattern (11 bp):
TATGTTTGTCG
Found at i:95920176 original size:22 final size:21
Alignment explanation
Indices: 95920148--95920243 Score: 58
Period size: 22 Copynumber: 4.4 Consensus size: 21
95920138 AAATATACAA
95920148 TATAAAAATATACATACAATAG
1 TATAAAAATATACATA-AATAG
*
95920170 TATAAAAGGTATATA-ACT-AATAA
1 TATAAAA---ATATACA-TAAATAG
95920193 TATTAAAATATATACAT-AATAG
1 TA-TAAAA-ATATACATAAATAG
*
95920215 TATATAAAAATATA-ATATATA-
1 --TATAAAAATATACATAAATAG
95920236 TATAAAAA
1 TATAAAAA
95920244 ACATATACAC
Statistics
Matches: 62, Mismatches: 3, Indels: 21
0.72 0.03 0.24
Matches are distributed among these distances:
19 8 0.13
21 2 0.03
22 26 0.42
23 12 0.19
24 8 0.13
25 6 0.10
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (21 bp):
TATAAAAATATACATAAATAG
Found at i:95920250 original size:17 final size:19
Alignment explanation
Indices: 95920187--95920243 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
95920177 GGTATATAAC
95920187 TAATA-ATAT-TAAAATATA
1 TAATATATATATAAAA-ATA
95920205 TACATAATAGTATATAAAAATA
1 TA-AT-ATA-TATATAAAAATA
95920227 TAATATATATATAAAAA
1 TAATATATATATAAAAA
95920244 ACATATACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
18 2 0.06
19 12 0.35
20 4 0.12
21 3 0.09
22 8 0.24
23 5 0.15
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
TAATATATATATAAAAATA
Found at i:95920382 original size:3 final size:3
Alignment explanation
Indices: 95920374--95920400 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
95920364 TATATACATC
95920374 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
95920401 TTTTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:95920462 original size:23 final size:23
Alignment explanation
Indices: 95920429--95920589 Score: 80
Period size: 23 Copynumber: 6.6 Consensus size: 23
95920419 AATACTTCAT
95920429 AAATATATACATATATATATTAA
1 AAATATATACATATATATATTAA
*
95920452 AAATGAT-TACATA-ATAATATTTA
1 AAAT-ATATACATATAT-ATATTAA
*
95920475 AAGTATATACATATAATATAGTTATTGA
1 AAATATATACATAT-ATATA-TTA---A
* *
95920503 AAATAAATACAATATATATAGTATTA
1 AAATATATAC-ATATATATA-T-TAA
*
95920529 AAA-ATGTACATA-ATAGTTATTAA
1 AAATATATACATATATA--TATTAA
* * *
95920552 AAATATACGTATGAGATA-ATATCAA
1 AAATATA--TA-CATATATATATTAA
95920577 AAATATATACATA
1 AAATATATACATA
95920590 AGATGATATA
Statistics
Matches: 105, Mismatches: 15, Indels: 37
0.67 0.10 0.24
Matches are distributed among these distances:
22 6 0.06
23 35 0.33
24 11 0.10
25 22 0.21
26 6 0.06
27 3 0.03
28 17 0.16
29 5 0.05
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.35
Consensus pattern (23 bp):
AAATATATACATATATATATTAA
Found at i:95920512 original size:28 final size:27
Alignment explanation
Indices: 95920439--95920533 Score: 76
Period size: 28 Copynumber: 3.7 Consensus size: 27
95920429 AAATATATAC
* *
95920439 ATATATA-TATTAAAAATGATTAC-AT
1 ATATATAGTATTAAAAATAAATACAAT
* * *
95920464 A-ATA-A-TATTTAAAGTATATAC-AT
1 ATATATAGTATTAAAAATAAATACAAT
*
95920487 ATAATATAGTTATTGAAAATAAATACAAT
1 AT-ATATAG-TATTAAAAATAAATACAAT
95920516 ATATATAGTATTAAAAAT
1 ATATATAGTATTAAAAAT
95920534 GTACATAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
23 15 0.27
24 3 0.05
25 4 0.07
26 1 0.02
27 9 0.16
28 19 0.35
29 4 0.07
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (27 bp):
ATATATAGTATTAAAAATAAATACAAT
Found at i:95920593 original size:25 final size:24
Alignment explanation
Indices: 95920565--95920636 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 24
95920555 TATACGTATG
*
95920565 AGATAATATCAAAAATATATACATA
1 AGATAATAT-AAAAATATATAAATA
* * *
95920590 AGATGATATATAAATAATCTAAATA
1 AGATAATATAAAAAT-ATATAAATA
*
95920615 ATATAATATTGAAAAATATATA
1 AGATAATA-T-AAAAATATATA
95920637 TATACATAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
24 5 0.14
25 21 0.58
26 5 0.14
27 5 0.14
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (24 bp):
AGATAATATAAAAATATATAAATA
Found at i:95920885 original size:13 final size:13
Alignment explanation
Indices: 95920863--95920892 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
95920853 ATACAAGTGT
*
95920863 AATAATAATAATA
1 AATAACAATAATA
95920876 AATAACAATAATA
1 AATAACAATAATA
95920889 AATA
1 AATA
95920893 TATAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
AATAACAATAATA
Found at i:95920904 original size:22 final size:19
Alignment explanation
Indices: 95920863--95920901 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
95920853 ATACAAGTGT
*
95920863 AATAATAATAATAAATAAC
1 AATAATAATAATAAAAAAC
95920882 AATAATAAATATATAAAAAA
1 AATAAT-AATA-ATAAAAAA
95920902 ACAGAATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 4 0.24
21 7 0.41
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAATAATAATAAAAAAC
Found at i:95922918 original size:3 final size:3
Alignment explanation
Indices: 95922910--95922941 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
95922900 AAACTAACCA
95922910 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
95922942 CATTTTGAAC
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:95923727 original size:20 final size:20
Alignment explanation
Indices: 95923555--95923729 Score: 154
Period size: 20 Copynumber: 8.8 Consensus size: 20
95923545 CATAGATGCA
***
95923555 AAACAGGGGCATATATGTGC
1 AAACAGGGGCACCGATGTGC
* * * *
95923575 AATCAGGGGCACCAAAGTAC
1 AAACAGGGGCACCGATGTGC
*
95923595 AAACAGGGGCA-CGCATGTGG
1 AAACAGGGGCACCG-ATGTGC
* *
95923615 AAATAGGGGCATCGATGTGC
1 AAACAGGGGCACCGATGTGC
* **
95923635 AAACAGCGGCACAAATGTGC
1 AAACAGGGGCACCGATGTGC
* *
95923655 TAATAGGGGCACCGATGTGC
1 AAACAGGGGCACCGATGTGC
* *
95923675 AAACAAGGGCACTGATGTGC
1 AAACAGGGGCACCGATGTGC
* *
95923695 TAACAAGGGCACCGATGTGC
1 AAACAGGGGCACCGATGTGC
*
95923715 AAATAGGGGCACCGA
1 AAACAGGGGCACCGA
95923730 AGTGTATACA
Statistics
Matches: 121, Mismatches: 32, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
19 1 0.01
20 118 0.98
21 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.31, T:0.14
Consensus pattern (20 bp):
AAACAGGGGCACCGATGTGC
Found at i:95925127 original size:21 final size:21
Alignment explanation
Indices: 95925101--95925143 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
95925091 TATAGGAAGG
*
95925101 CAAAAAGAG-CAAGAAATGGGC
1 CAAAAACAGACAA-AAATGGGC
95925122 CAAAAACAGACAAAAATGGGC
1 CAAAAACAGACAAAAATGGGC
95925143 C
1 C
95925144 TAATTCAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.53, C:0.19, G:0.23, T:0.05
Consensus pattern (21 bp):
CAAAAACAGACAAAAATGGGC
Found at i:95927179 original size:27 final size:27
Alignment explanation
Indices: 95926788--95927278 Score: 587
Period size: 27 Copynumber: 18.2 Consensus size: 27
95926778 AAAGTACTCC
*
95926788 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
95926815 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
95926842 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
95926869 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
95926896 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
95926923 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
** **
95926950 TAATTTATAGAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
95926977 CGATTTATAGAATTACCGCTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
** *
95927004 CGATTGGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
95927031 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* **
95927058 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
** *
95927085 TAATTTATAGAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* **
95927112 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
95927139 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
95927166 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
95927193 TGATTTATAGAATTACTAG-TTTACCCT
1 CGATTTATAGAATTAC-CGTTTTACCCT
* *
95927220 C-AGTTTATAAAATTATCGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
95927247 CGATTTATAGAATTATCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
95927274 TGATT
1 CGATT
95927279 GTGAAATTAC
Statistics
Matches: 405, Mismatches: 49, Indels: 20
0.85 0.10 0.04
Matches are distributed among these distances:
26 5 0.01
27 395 0.98
28 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTATAGAATTACCGTTTTACCCT
Found at i:95927313 original size:27 final size:27
Alignment explanation
Indices: 95927283--95927478 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
95927273 TTGATTGTGA
*
95927283 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
95927310 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
95927337 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95927364 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
95927391 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
95927418 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
95927445 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
95927472 AATTACC
1 AATTACC
95927479 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:95927715 original size:27 final size:26
Alignment explanation
Indices: 95927677--95927759 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
95927667 CGGAGGAAGC
*
95927677 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
95927704 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
95927730 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
95927757 GTT
1 GTT
95927760 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:95927879 original size:22 final size:22
Alignment explanation
Indices: 95927847--95927905 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
95927837 CCCGTTATTA
*
95927847 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
95927869 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
95927891 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
95927906 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:95928270 original size:6 final size:6
Alignment explanation
Indices: 95928261--95928440 Score: 187
Period size: 6 Copynumber: 29.8 Consensus size: 6
95928251 TTGCATTCAC
*
95928261 ATTCTG ATTCTG ATTCTG --TCAAG TAATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTC-TG -A-TTCTG ATTCTG ATTCTG ATTCTG
* *
95928310 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
*
95928358 -TTACTG ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
95928406 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
95928441 CATTTTGGTT
Statistics
Matches: 149, Mismatches: 8, Indels: 34
0.78 0.04 0.18
Matches are distributed among these distances:
4 2 0.01
5 12 0.08
6 122 0.82
7 9 0.06
8 2 0.01
9 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:95929596 original size:22 final size:22
Alignment explanation
Indices: 95929545--95929596 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
95929535 TTAGGAACGC
*
95929545 TTAATTTTTATTACTTTAGCCA
1 TTAATTTTTATTACTTTAGCAA
* * *
95929567 TTATTTTTTATT-TTTTTGCAA
1 TTAATTTTTATTACTTTAGCAA
95929588 TTTAATTTT
1 -TTAATTTT
95929597 GTTTTTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.23, C:0.08, G:0.04, T:0.65
Consensus pattern (22 bp):
TTAATTTTTATTACTTTAGCAA
Found at i:95932550 original size:35 final size:35
Alignment explanation
Indices: 95932423--95932553 Score: 138
Period size: 35 Copynumber: 3.6 Consensus size: 35
95932413 CCTCATTGAA
* * *
95932423 ATACCATACCTACATTTTACAACTCGGTATGGGA-A
1 ATACCATACCTACATTTCACAACTCAGTAT-GGATG
* ** *
95932458 ATGCCATACCTACATTTCTTAGCTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--TG
95932495 ATAATACCATACCTACATTTCACAACTCAGTATGGATG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATG
95932533 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
95932554 CTTTGCCATG
Statistics
Matches: 79, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
34 3 0.04
35 45 0.57
38 2 0.03
40 29 0.37
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:95938594 original size:21 final size:20
Alignment explanation
Indices: 95938568--95938609 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
95938558 TATATGAAGG
*
95938568 CAAAAAGAGAAAGAAATGGGC
1 CAAAAACAGAAA-AAATGGGC
*
95938589 CAAAAACAGACAAAATGGGC
1 CAAAAACAGAAAAAATGGGC
95938609 C
1 C
95938610 TAATTCAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.55, C:0.17, G:0.24, T:0.05
Consensus pattern (20 bp):
CAAAAACAGAAAAAATGGGC
Found at i:95944022 original size:18 final size:18
Alignment explanation
Indices: 95943995--95944034 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
95943985 AAACTTACTC
*
95943995 AACAAAAGTTGTTTATTT
1 AACAAAAGTTATTTATTT
*
95944013 AACAATAGTTATTTATTT
1 AACAAAAGTTATTTATTT
95944031 AACA
1 AACA
95944035 CTAAAGGCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.42
Consensus pattern (18 bp):
AACAAAAGTTATTTATTT
Found at i:95944738 original size:21 final size:21
Alignment explanation
Indices: 95944714--95944757 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
95944704 CAGAGGTCAA
95944714 ACACCCGTGTGGCCAAGGGAC
1 ACACCCGTGTGGCCAAGGGAC
* *
95944735 ACACCTGTGTGGCCATGGGAC
1 ACACCCGTGTGGCCAAGGGAC
95944756 AC
1 AC
95944758 GTCAGTGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.32, G:0.32, T:0.14
Consensus pattern (21 bp):
ACACCCGTGTGGCCAAGGGAC
Found at i:95944849 original size:21 final size:21
Alignment explanation
Indices: 95944825--95944874 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
95944815 CAACCCAGAC
95944825 GCCTGTGTGGCCAAGGGACAT
1 GCCTGTGTGGCCAAGGGACAT
* *
95944846 GCCTGTATGGCCATGGGACAT
1 GCCTGTGTGGCCAAGGGACAT
*
95944867 GCCCGTGT
1 GCCTGTGT
95944875 CATAGGCCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.16, C:0.26, G:0.36, T:0.22
Consensus pattern (21 bp):
GCCTGTGTGGCCAAGGGACAT
Found at i:95944912 original size:109 final size:109
Alignment explanation
Indices: 95944720--95944936 Score: 276
Period size: 109 Copynumber: 2.0 Consensus size: 109
95944710 TCAAACACCC
* * *
95944720 GTGTGGCCAAGGGACACACCTGTGTGGCCATGGGACACGTCAGTGTCTCAGGCCGGGTCCGACCC
1 GTGTGGCCAAGGGACACACCTGTATGGCCATGGGACACGCCAGTGTCTCAGGCCGGGTCCAACCC
* * * *
95944785 CATATAACTTACTGACTTGGGTTACACGGCCAACCCAGACGCCT
66 CATATAACTTACTAACTTGGGTCACACGACCAACCCACACGCCT
** * * *
95944829 GTGTGGCCAAGGGACATGCCTGTATGGCCATGGGACATGCCCGTGTCAT-AGGCCGTGTCCAACC
1 GTGTGGCCAAGGGACACACCTGTATGGCCATGGGACACGCCAGTGTC-TCAGGCCGGGTCCAACC
* *
95944893 CCGTGTAA-TTCACTAACTTGGGTCACACGACCAACCCACACGCC
65 CCATATAACTT-ACTAACTTGGGTCACACGACCAACCCACACGCC
95944937 CATGTGTCAG
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
108 2 0.02
109 89 0.97
110 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.27, T:0.19
Consensus pattern (109 bp):
GTGTGGCCAAGGGACACACCTGTATGGCCATGGGACACGCCAGTGTCTCAGGCCGGGTCCAACCC
CATATAACTTACTAACTTGGGTCACACGACCAACCCACACGCCT
Found at i:95949604 original size:46 final size:46
Alignment explanation
Indices: 95949540--95949877 Score: 415
Period size: 46 Copynumber: 7.5 Consensus size: 46
95949530 CAACCTGTGT
* *
95949540 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGA
*
95949586 GTAAGACCATAGTTGAAAGATACCATGGCAACCTG---TG---T--
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGA
* * * *
95949624 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAAGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGA
* *
95949670 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGA
*
95949716 ATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGA
* * * **
95949762 GTAAGACGATGGTTGAAAGATACCGTGGCAACATGACGGGAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATGA
* * *
95949809 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATGA
* *
95949855 GTAAAACCATAGTTGAAAGATAC
1 GTAAGACCATGGTTGAAAGATAC
95949878 TATGACATCA
Statistics
Matches: 260, Mismatches: 23, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
38 33 0.13
40 1 0.00
41 2 0.01
43 2 0.01
46 182 0.70
47 40 0.15
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGA
Found at i:95949623 original size:84 final size:86
Alignment explanation
Indices: 95949488--95949877 Score: 475
Period size: 84 Copynumber: 4.4 Consensus size: 86
95949478 AGTGTGCTCT
95949488 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTG-TG-TAAGACCATG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGATGATAAGACCATG
95949551 GTTGAAAGATACCATGGCAAC
66 GTTGAAAGATACCATGGCAAC
*
95949572 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTGTG-TG-TAAGACCATG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGATGATAAGACCATG
95949635 GTTGAAAGATACCATGGCAAC
66 GTTGAAAGATACCATGGCAAC
* * *
95949656 GTGATATGAAAAGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG--ATG-ATAAG
95949721 ACCATGGTTGAAAGATACCATGGCAAC
60 ACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
95949748 CTGACATGAAATGAGTAAGACGATGGTTGAAAGATACCGTGGCAACATGACGGGAAAATGAATAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT---GTG---ATG-ATAA
95949813 GACCATGGTTGAAAGATACCATGGCAAC
59 GACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
95949841 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
95949878 TATGACATCA
Statistics
Matches: 275, Mismatches: 18, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
84 128 0.47
87 2 0.01
90 2 0.01
92 74 0.27
93 68 0.25
95 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (86 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGATGATAAGACCATG
GTTGAAAGATACCATGGCAAC
Found at i:95949724 original size:130 final size:129
Alignment explanation
Indices: 95949498--95949877 Score: 454
Period size: 130 Copynumber: 2.9 Consensus size: 129
95949488 CTGATATGAA
*
95949498 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG-T-----GTGTAAGACCATGGTTGAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGAAAAGTGTAAGACCATGGTTGAA
* *
95949557 AGATACCATGGCAACCTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTG
66 AGATACCATGGCAACATGATATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACCTG
*
95949621 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAAGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG--ATGAAAAGTGTAAGACCATGGTTG
* * *
95949685 AAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCT
64 AAAGATACCATGGCAACATGATATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACCT
95949750 G
129 G
* * *
95949751 ACATGAAATGAGTAAGACGATGGTTGAAAGATACCGTGGCAACATGACGGGAAAA-TGAATAAGA
1 --ATG---T--GTAAGACCATGGTTGAAAGATACCATGGCAACATGA--TGAAAAGTG--TAAGA
* * *
95949815 CCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
55 CCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGAGTAAGACCATAGTTGAAAGATAC
95949878 TATGACATCA
Statistics
Matches: 221, Mismatches: 15, Indels: 26
0.84 0.06 0.10
Matches are distributed among these distances:
122 37 0.17
125 1 0.00
130 79 0.36
133 2 0.01
136 2 0.01
137 2 0.01
138 38 0.17
139 60 0.27
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (129 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGAAAAGTGTAAGACCATGGTTGAA
AGATACCATGGCAACATGATATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACCTG
Found at i:95951143 original size:209 final size:210
Alignment explanation
Indices: 95950770--95951188 Score: 515
Period size: 209 Copynumber: 2.0 Consensus size: 210
95950760 ATTTAACACC
* * * **
95950770 TTTAGCTAATAGAACAAAACTTTTGCGCTTTATGCAATTTAGTCATTTTTCACAAATTGAGTACA
1 TTTAGCTAATAGAACAAAACTTTCGCACTTTAAGCAATTTAGTCATTTTTCACAAATTGAACACA
** * * * * * *
95950835 CAAATGGTAAAATTTCTTAACGAAATTTTTATACCATAATTCTAACATGCTTTAAATATTAAAAT
66 CAAACAGTAAAATTTCTTAACGAAATCTTTATACAATAATACTAACATGATTTAAACATCAAAAT
* ** *
95950900 AATATTAAAATAAATTTTACAACCTCAGATTTGTGGTTCTGAAACCACTGTTCCGATTTCACTAA
131 AATATTAAAATAAATTTTACAACCTCAGATTTGTGGTCCCAAAACCACTGTTCCGATATCACTAA
95950965 AAAC-TGGCCGTTACA
196 AAACAT-GCCGTTACA
* * * *
95950980 TTTAGCTAATAGAACATAACTTTCGCACTTTAAGCGATTTAGTCCTTTTTCAC-AATTGAACATA
1 TTTAGCTAATAGAACAAAACTTTCGCACTTTAAGCAATTTAGTCATTTTTCACAAATTGAACACA
* * *
95951044 CAAACAGTAAAATTTCTTAACGAAATCTTTATTCAATGATACTATCAT-ATTGTAGAACA-CAAA
66 CAAACAGTAAAATTTCTTAACGAAATCTTTATACAATAATACTAACATGATT-TA-AACATCAAA
** * *
95951107 ATAATATTAAAATAAATTTTATGACCTC-GAATTTGTGGTCCCAAAACTAGTGTTCCGATATCAC
129 ATAATATTAAAATAAATTTTACAACCTCAG-ATTTGTGGTCCCAAAACCACTGTTCCGATATCAC
95951171 TAAAAACATGCCGTTACA
193 TAAAAACATGCCGTTACA
95951189 AAACTCATAA
Statistics
Matches: 177, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
208 3 0.02
209 123 0.69
210 51 0.29
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (210 bp):
TTTAGCTAATAGAACAAAACTTTCGCACTTTAAGCAATTTAGTCATTTTTCACAAATTGAACACA
CAAACAGTAAAATTTCTTAACGAAATCTTTATACAATAATACTAACATGATTTAAACATCAAAAT
AATATTAAAATAAATTTTACAACCTCAGATTTGTGGTCCCAAAACCACTGTTCCGATATCACTAA
AAACATGCCGTTACA
Found at i:95956984 original size:20 final size:20
Alignment explanation
Indices: 95956947--95956985 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
95956937 TATGTTTATC
* *
95956947 TGTTTTGAATTTAATTAACG
1 TGTTTTAAATATAATTAACG
*
95956967 TGTTTTAAATATAGTTAAC
1 TGTTTTAAATATAATTAAC
95956986 ATTATATTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (20 bp):
TGTTTTAAATATAATTAACG
Found at i:95965840 original size:12 final size:12
Alignment explanation
Indices: 95965823--95965847 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95965813 ATGTAAGTGA
95965823 TCTTGATGATTT
1 TCTTGATGATTT
95965835 TCTTGATGATTT
1 TCTTGATGATTT
95965847 T
1 T
95965848 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:95966782 original size:44 final size:46
Alignment explanation
Indices: 95966529--95966790 Score: 137
Period size: 47 Copynumber: 5.7 Consensus size: 46
95966519 TGATTTGTGC
* ** * *
95966529 GCCAGTGTAATACATGTCTGGGACATGTTTCGGCC--ACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTGACA-GA-GATA
* * * * * **
95966575 GCCAGTATAAGACCATGTCTGAGACCTGGCATCGGCAT-CCAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTGACAGA-GATA
* * * * * *
95966623 GCTAGTGTAAAACATGCCTGGGACATGCTTCAGCCAT-ATTATGAG-T-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TGA-CA-GAGATA
* *
95966669 GCCAGAGTAAGACATGTCTGGGACATGCATTGGCCTGGACAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-GACAGAGATA
* * * * *
95966716 GCCAGTGTAAGACGTGTTTGGGACACGCATCGG-CT-A-AGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTGACAGAGAT-A
*
95966760 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
95966791 AGCACGCATA
Statistics
Matches: 163, Mismatches: 42, Indels: 24
0.71 0.18 0.10
Matches are distributed among these distances:
43 5 0.03
44 28 0.17
45 4 0.02
46 48 0.29
47 53 0.33
48 21 0.13
49 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTGACAGAGATA
Found at i:95972123 original size:45 final size:45
Alignment explanation
Indices: 95972072--95972159 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
95972062 TTGGAAGGAG
95972072 CAATTCATTACCTTGGCTGGTTGGAGGAGATTTTAACAATATTAA
1 CAATTCATTACCTTGGCTGGTTGGAGGAGATTTTAACAATATTAA
95972117 CAATTCATTACCTTGGCTGGTTGGAGGAGATTTTAACAATATT
1 CAATTCATTACCTTGGCTGGTTGGAGGAGATTTTAACAATATT
95972160 CTCTTAGCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (45 bp):
CAATTCATTACCTTGGCTGGTTGGAGGAGATTTTAACAATATTAA
Found at i:95987706 original size:46 final size:46
Alignment explanation
Indices: 95987656--95987828 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
95987646 TGGTTGAGCA
95987656 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
95987702 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
95987747 CATACGAACTCGTTGAGTTGAATCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
95987795 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
95987829 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.57
47 26 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:95987817 original size:93 final size:93
Alignment explanation
Indices: 95987653--95987823 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
95987643 GGATGGTTGA
* * * * *
95987653 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATACGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
95987718 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
95987746 GCATACGAACTCGTTGAGTTGAATCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATACGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
95987811 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
95987824 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATACGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:95989601 original size:39 final size:39
Alignment explanation
Indices: 95989511--95989712 Score: 241
Period size: 39 Copynumber: 5.1 Consensus size: 39
95989501 CTGAATTTAA
** *
95989511 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGC
*
95989551 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGCTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGC
*
95989590 CTGGA-ATTAGTAACTCGCACAAATGCCTTCGGGCTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGCTTAGC
* *
95989629 CCAGA-ATTAGTAACTCGCATAAATGCCTTCGGGCTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGCTTAGC
* *
95989668 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGC
95989708 CCGGA
1 CCGGA
95989713 CATCATTCGA
Statistics
Matches: 144, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
38 1 0.01
39 96 0.67
40 47 0.33
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGC
Found at i:95992737 original size:16 final size:17
Alignment explanation
Indices: 95992712--95992747 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
95992702 CCTAATTCTT
95992712 ACACAAAAAAACCC-TA
1 ACACAAAAAAACCCTTA
*
95992728 ACACATAAAAACCCTTA
1 ACACAAAAAAACCCTTA
95992745 ACA
1 ACA
95992748 AGTCGGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.58, C:0.31, G:0.00, T:0.11
Consensus pattern (17 bp):
ACACAAAAAAACCCTTA
Found at i:95994225 original size:190 final size:188
Alignment explanation
Indices: 95993889--95994259 Score: 582
Period size: 190 Copynumber: 2.0 Consensus size: 188
95993879 GTGTGCCCAG
95993889 CACACTCTTCAAAATCAGCATATTTCCTAAATCTTGAAAAAAAATGACCTATTTTTTGCCAATAA
1 CACACTCTTCAAAATCAGCATATTTCCTAAATCTTGAAAAAAAATGACCTATTTTTTGCCAATAA
*
95993954 AAAAATCAACATATATTGCCTGTTTAGCCCATATTATGAGTGTGCCATAATTCAATATATATTCT
66 AAAAATCAACATACATTGCCTGTTTAGCCCATATTATGAGTGTGCCATAATTCAATATATATTCT
** *
95994019 TAAGGTTTTGAACTTTTGATGCA-AATATGACAACAATATCGAACGACATACGTTTTCA
131 TAAAATTTTAAACTTTTGATGCAGAA-ATGACAACAATATCGAACGACATACGTTTTCA
* * *
95994077 CACACTCTCTCTAAAATCAGCCTATTTTCTAAATCTTGAAAAAAAATGACCTCTTTTTTGCCAAT
1 CACACTCT-TC-AAAATCAGCATATTTCCTAAATCTTGAAAAAAAATGACCTATTTTTTGCCAAT
* * * * * *
95994142 AAAAAAATCGACATACATTGCTTGTTTATCCTATATTGTGAGTGTGCCATAATTTAATATATATT
64 AAAAAAATCAACATACATTGCCTGTTTAGCCCATATTATGAGTGTGCCATAATTCAATATATATT
*
95994207 CTTAAAATTTTAAACTTTTGATGCAGAAATGACAACAATATTGAACGACATAC
129 CTTAAAATTTTAAACTTTTGATGCAGAAATGACAACAATATCGAACGACATAC
95994260 TTAAAATTTC
Statistics
Matches: 166, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
188 8 0.05
189 2 0.01
190 154 0.93
191 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (188 bp):
CACACTCTTCAAAATCAGCATATTTCCTAAATCTTGAAAAAAAATGACCTATTTTTTGCCAATAA
AAAAATCAACATACATTGCCTGTTTAGCCCATATTATGAGTGTGCCATAATTCAATATATATTCT
TAAAATTTTAAACTTTTGATGCAGAAATGACAACAATATCGAACGACATACGTTTTCA
Found at i:95998707 original size:20 final size:22
Alignment explanation
Indices: 95998668--95998707 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
95998658 TTATTACTAT
*
95998668 TATTATTTTGTTATTCTAATAC
1 TATTATTATGTTATTCTAATAC
95998690 TATTATTAT-TTA-TCTAAT
1 TATTATTATGTTATTCTAAT
95998708 TTTTATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 3 0.18
22 8 0.47
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (22 bp):
TATTATTATGTTATTCTAATAC
Found at i:95998715 original size:15 final size:14
Alignment explanation
Indices: 95998689--95998775 Score: 70
Period size: 15 Copynumber: 6.0 Consensus size: 14
95998679 TATTCTAATA
*
95998689 CTATTATTATTTAT
1 CTATTTTTATTTAT
95998703 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
* *
95998718 CTATTTATATTTCT
1 CTATTTTTATTTAT
*
95998732 ACTATTATTATATT-T
1 -CTATTTTTAT-TTAT
95998747 CTATTTATTATATT-T
1 CTATTT-TTAT-TTAT
*
95998762 CTATTTCTATTTAT
1 CTATTTTTATTTAT
95998776 ATACTAATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
13 2 0.03
14 21 0.34
15 36 0.59
16 2 0.03
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.64
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:95998728 original size:29 final size:28
Alignment explanation
Indices: 95998692--95998802 Score: 84
Period size: 29 Copynumber: 3.8 Consensus size: 28
95998682 TCTAATACTA
95998692 TTATTATTTATCTAATTTTTATTTATCTAT
1 TTATTATTT-TCT-ATTTTTATTTATCTAT
*
95998722 TTA-TATTTCTACTATTATTATATT-TCTAT
1 TTATTATTT-T-CTATTTTTAT-TTATCTAT
* *
95998751 TTATTATATTTCTATTTCTATTTATATACT
1 TTATTAT-TTTCTATTTTTATTTATCTA-T
* *
95998781 AATATTATTTTC-ATTATTATTT
1 -TTATTATTTTCTATTTTTATTT
95998803 TTCTTATATA
Statistics
Matches: 66, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
28 2 0.03
29 40 0.61
30 16 0.24
31 8 0.12
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (28 bp):
TTATTATTTTCTATTTTTATTTATCTAT
Found at i:95998736 original size:44 final size:44
Alignment explanation
Indices: 95998687--95998806 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 44
95998677 GTTATTCTAA
95998687 TACTATTATTAT-TTATCTAATTT-TTAT-TTATCTATTTATATTTC
1 TACTATTATTATATT-TCT-ATTTATTATATT-TCTATTTATATTTC
* *
95998731 TACTATTATTATATTTCTATTTATTATATTTCTATTTCTATTTATA
1 TACTATTATTATATTTCTATTTATTATATTTCTATTTATA-TT-TC
* *
95998777 TACTAATATTAT-TTTC-A-TTATTATTTTTCT
1 TACTATTATTATATTTCTATTTATTATATTTCT
95998807 TATATATGTT
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
43 16 0.24
44 29 0.43
45 10 0.15
46 12 0.18
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (44 bp):
TACTATTATTATATTTCTATTTATTATATTTCTATTTATATTTC
Found at i:95998744 original size:17 final size:15
Alignment explanation
Indices: 95998722--95998767 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
95998712 ATTTATCTAT
95998722 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
95998739 TTATATTTCTATTTA
1 TTATATTTCTATTTA
95998754 TTATATTTCTATTT
1 TTATATTTCTATTT
95998768 CTATTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 17 0.59
16 1 0.03
17 11 0.38
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:95998883 original size:4 final size:4
Alignment explanation
Indices: 95998839--95998863 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
95998829 TTATTAACAT
95998839 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
95998864 ATCGTGTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:95998922 original size:3 final size:3
Alignment explanation
Indices: 95998914--95998944 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
95998904 TTTAAAACTT
95998914 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
95998945 ATTTCTATGT
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:95999018 original size:6 final size:7
Alignment explanation
Indices: 95998915--95999018 Score: 57
Period size: 6 Copynumber: 15.9 Consensus size: 7
95998905 TTAAAACTTT
95998915 TATTAT-
1 TATTATA
95998921 TATTAT-
1 TATTATA
95998927 TATTAT-
1 TATTATA
95998933 TATTAT-
1 TATTATA
95998939 TATTATA
1 TATTATA
*
95998946 T-TTCTA
1 TATTATA
*
95998952 T-GTATA
1 TATTATA
95998958 TATT-TA
1 TATTATA
95998964 TATT-TA
1 TATTATA
*
95998970 TACTTATG
1 TA-TTATA
*
95998978 TATCAATA
1 TAT-TATA
*
95998986 TCATTATT
1 T-ATTATA
*
95998994 TTTTATA
1 TATTATA
95999001 TATTAT-
1 TATTATA
95999007 TATTATA
1 TATTATA
95999014 T-TTAT
1 TATTAT
95999019 TTATAGTATA
Statistics
Matches: 79, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
6 53 0.67
7 15 0.19
8 9 0.11
9 2 0.03
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (7 bp):
TATTATA
Found at i:96001453 original size:30 final size:29
Alignment explanation
Indices: 96001419--96001484 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
96001409 ATAATTCACA
* * *
96001419 AAAATTGGATCAAATCAAAATTTCATATAT
1 AAAATTAGATAAAATC-AAAGTTCATATAT
*
96001449 AAAATTATATAAAATCAAAGTTCATATAT
1 AAAATTAGATAAAATCAAAGTTCATATAT
*
96001478 ATAATTA
1 AAAATTA
96001485 CACATTAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAATTAGATAAAATCAAAGTTCATATAT
Found at i:96001495 original size:31 final size:28
Alignment explanation
Indices: 96001430--96001512 Score: 71
Period size: 29 Copynumber: 2.8 Consensus size: 28
96001420 AAATTGGATC
* *
96001430 AAATCAAAATTTCATATATAAAATTATATA
1 AAATC-AAA-TTCATATATATAATTACATA
*
96001460 AAATCAAAGTTCATATATATAATTACACATT
1 AAATCAAA-TTCATATATATAATT--ACATA
96001491 AAATCATAATT--TATATATAATT
1 AAATCA-AATTCATATATATAATT
96001513 TTAATAGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
29 28 0.61
30 5 0.11
31 11 0.24
32 2 0.04
ACGTcount: A:0.52, C:0.08, G:0.01, T:0.39
Consensus pattern (28 bp):
AAATCAAATTCATATATATAATTACATA
Found at i:96001764 original size:18 final size:18
Alignment explanation
Indices: 96001741--96001775 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
96001731 TTATGATAAA
96001741 TTTTCATTTCTCATTAAT
1 TTTTCATTTCTCATTAAT
96001759 TTTTCATTTCTCATTAA
1 TTTTCATTTCTCATTAA
96001776 CTAACAATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTCATTTCTCATTAAT
Done.