Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 78 of 170
Found at i:23616235 original size:19 final size:19
Alignment explanation
Indices: 23616213--23616250 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
23616203 TCAATCATTC
23616213 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
23616232 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
23616251 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:23626844 original size:21 final size:20
Alignment explanation
Indices: 23626804--23626844 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23626794 GCAAGTATGA
* *
23626804 TTTTTTATTTTATCTGAGTT
1 TTTTTTATGTTATCTAAGTT
23626824 TTTTTTATGTTATCATAAGTT
1 TTTTTTATGTTATC-TAAGTT
23626845 ATGGAATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.66
Consensus pattern (20 bp):
TTTTTTATGTTATCTAAGTT
Found at i:23630417 original size:22 final size:23
Alignment explanation
Indices: 23630368--23630426 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 23
23630358 TCTTCTATTT
* *
23630368 CTTGATTCTCTCTTGGTGGTTTTC
1 CTTGATTCTCTCTAGGTGG-TTTA
23630392 CTTGATTCTCTCTAGGTGG-TTA
1 CTTGATTCTCTCTAGGTGGTTTA
*
23630414 CTTGATTTTCTCT
1 CTTGATTCTCTCT
23630427 TTCTCCAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 14 0.44
24 18 0.56
ACGTcount: A:0.08, C:0.20, G:0.19, T:0.53
Consensus pattern (23 bp):
CTTGATTCTCTCTAGGTGGTTTA
Found at i:23631501 original size:23 final size:23
Alignment explanation
Indices: 23631458--23631501 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
23631448 TTTGTTAACA
* * *
23631458 CACTTCGGTGTTGTCCTATTAAG
1 CACTTCGGTGCTATCCCATTAAG
23631481 CACTTCGGTGCTATCCCATTA
1 CACTTCGGTGCTATCCCATTA
23631502 CACGCTCCGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (23 bp):
CACTTCGGTGCTATCCCATTAAG
Found at i:23637553 original size:30 final size:32
Alignment explanation
Indices: 23637517--23637578 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
23637507 ACTCTTTTTT
* *
23637517 TCTCTCCTATTTT-TTT-TTTGAAACCAAAAA
1 TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
23637547 TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
1 TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
23637579 AAAATTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 12 0.43
31 3 0.11
32 13 0.46
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.44
Consensus pattern (32 bp):
TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
Found at i:23638186 original size:20 final size:19
Alignment explanation
Indices: 23638135--23638186 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
23638125 ATATAAAATT
23638135 AAATTATAAAAAAACTGTAA
1 AAATTAT-AAAAAACTGTAA
*
23638155 AAATTTATAAAAATCATG-AA
1 AAA-TTATAAAAAAC-TGTAA
*
23638175 AAATTATCAAAA
1 AAATTATAAAAA
23638187 TTTTTCTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 8 0.29
20 14 0.50
21 6 0.21
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (19 bp):
AAATTATAAAAAACTGTAA
Found at i:23639413 original size:125 final size:125
Alignment explanation
Indices: 23639170--23639736 Score: 668
Period size: 125 Copynumber: 4.5 Consensus size: 125
23639160 GATAAAATCA
* * * * * *
23639170 AAGCAGGATGAC-TTATCAGAAGGATTTTTGAAGTCGCGCCCTCGTGCACGCGCTTTTGCTACAA
1 AAGCAGGATG-CTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * *
23639234 TAGGTCTTGGAAAAATAATTTAGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACA-CTTC
65 TAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGCTT-AAAAACAGCTTC
* * * * *
23639295 AAGTAGGATGCTTTGTGAGAAGAATTTGTGAAATTGCGCCCTCGTGGACGCACTTTTACTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * * *
23639360 TGGTCCTGGAAGAAATAATTTTGAGTTGACATTTTTGAGCAAATAGCTTAAAAAAATGCTTC
66 AGGTCCTGGAA-AAATAATTTTGACTTGACGTTTCTGAGCAAATAGCTTAAAAACA-GCTTC
*
23639422 AAGCAGGATGCTTTAT-AGGAAGAATTTGTGAAGTCGCG-CCTACGTGGACGCGCTTTTGCTACA
1 AAGCAGGATGCTTTATGA-GAAGAATTTGTGAAATCGCGCCCT-CGTGGACGCGCTTTTGCTACA
* * *
23639485 GTAGGTCCT-GAAAAAGTAATTTTGAGTTGACGTTT-TCGAGAAAATAG-TATAAAAA-ATGCTG
64 GTAGGTCCTGGAAAAA-TAATTTTGACTTGACGTTTCT-GAGCAAATAGCT-TAAAAACA-GCTT
23639546 C
125 C
* * *
23639547 AAGCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCCCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * * *
23639611 TTGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGCATAAAATC-GCTTC
65 TAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGCTTAAAAACAGCTTC
* * *
23639671 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGAGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
23639736 A
66 A
23639737 ACATGTTTGG
Statistics
Matches: 378, Mismatches: 47, Indels: 35
0.82 0.10 0.08
Matches are distributed among these distances:
123 2 0.01
124 61 0.16
125 167 0.44
126 85 0.22
127 63 0.17
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGCTTAAAAACAGCTTC
Found at i:23639591 original size:252 final size:249
Alignment explanation
Indices: 23639170--23639736 Score: 736
Period size: 252 Copynumber: 2.3 Consensus size: 249
23639160 GATAAAATCA
* * *
23639170 AAGCAGGATGAC-TTATCA-GAAGGATTTTTGAAGTCGCGCCCT-CGTGCACGCGCTTTTGCTAC
1 AAGCAGGATG-CTTTAT-AGGAAGAATTTGTGAAGTCGCG-CCTACGTGGACGCGCTTTTGCTAC
* * * * *
23639232 AATAGGTCTTGGAAAAATAATTTAGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACACTTCAA
63 AGTAGGTCCTGGAAAAATAATTTAGACTTGACGTTTCTGAGAAAATAGTATAAAAAACACTGCAA
* * * *
23639297 GTAGGATGCTTTGTGAGAAGAATTTGTGAAATTGCGCCCTCGTGGACGCACTTTTACTACAGTTG
128 GCAGCATGCTTTGTGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCACTTTTACTACAGTTG
* * *
23639362 GTCCTGGAAGAAATAATTTTGAGTTGACATTTTTGAGCAAATAGCTTAAAAAAAT-GCTTC
193 GTCCTGGAA-AAATAATTTCGACTTGACATTTCTGAGCAAATAGC---AAAAAATCGCTTC
23639422 AAGCAGGATGCTTTATAGGAAGAATTTGTGAAGTCGCGCCTACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAGGAAGAATTTGTGAAGTCGCGCCTACGTGGACGCGCTTTTGCTACAGT
* * **
23639487 AGGTCCT-GAAAAAGTAATTTTGAGTTGACGTTT-TCGAGAAAATAGTATAAAAAATGCTGCAAG
66 AGGTCCTGGAAAAA-TAATTTAGACTTGACGTTTCT-GAGAAAATAGTATAAAAAACACTGCAAG
* *
23639550 CAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCCCTTTTGCTACAGTTG
129 CAGCATGCT-TTGTGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCACTTTTACTACAGTTG
* *
23639614 GTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGCATAAAATCGCTTC
193 GTCCTGGAAAAATAATTTCGACTTGACATTTCTGAGCAAATAGCAAAAAATCGCTTC
* * * *
23639671 TAGCAGGATGCTTTAT-GAGAAGAATTTGTGAAATCGAGCCCACGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCTTTATAG-GAAGAATTTGTGAAGTCGCGCCTACGTGGACGCGCTTTTGCTACAG
23639735 TA
65 TA
23639737 ACATGTTTGG
Statistics
Matches: 280, Mismatches: 27, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
248 7 0.03
249 65 0.23
251 43 0.15
252 163 0.58
253 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (249 bp):
AAGCAGGATGCTTTATAGGAAGAATTTGTGAAGTCGCGCCTACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTAGACTTGACGTTTCTGAGAAAATAGTATAAAAAACACTGCAAGCA
GCATGCTTTGTGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCACTTTTACTACAGTTGGTC
CTGGAAAAATAATTTCGACTTGACATTTCTGAGCAAATAGCAAAAAATCGCTTC
Found at i:23640913 original size:22 final size:22
Alignment explanation
Indices: 23640872--23641203 Score: 338
Period size: 22 Copynumber: 15.0 Consensus size: 22
23640862 TCAAATTATA
23640872 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
23640893 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
23640915 TTAAAGTTAAAGGTCTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
23640937 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
23640959 TTCAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
23640980 TTTAGGTTAAGGGTTTAGGGGT
1 TTTAAGTTAAGGGTTTAGGGTT
*
23641002 TTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
23641023 TTTAAGTTAAGGGTTTAAGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* *
23641044 TTTAAGGTTTTAAAGTTAAGGGTTTAGGGTA
1 TTTAA-G--TT-AAG----GGT-TTAGGGTT
* *
23641075 TTAAAGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
23641097 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
23641118 TTTAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
23641139 TTTAATTTAAAGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
23641161 TTTAAGTTAAGGGGTTAAGGG-T
1 TTTAAGTTAA-GGGTTTAGGGTT
23641183 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
23641204 AGAGTTTTTA
Statistics
Matches: 259, Mismatches: 36, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
20 5 0.02
21 97 0.37
22 127 0.49
23 9 0.03
24 2 0.01
25 3 0.01
27 2 0.01
28 2 0.01
29 2 0.01
30 6 0.02
31 4 0.02
ACGTcount: A:0.26, C:0.01, G:0.31, T:0.42
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:23640994 original size:43 final size:43
Alignment explanation
Indices: 23640875--23641203 Score: 385
Period size: 43 Copynumber: 7.4 Consensus size: 43
23640865 AATTATATTT
*
23640875 AAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTA
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* * *
23640918 AAGTTAAAGGTCTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTC
1 AAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
*
23640962 AAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGGTTTT-
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA-GGGTTTTA
*
23641005 AATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTAAGGTTTTA
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTT-A-G------GGTTTTA
* * *
23641056 AAGTTAAGGGTTTAGGGTATTAAAGTTAAAGGTTTAGGGTTTTA
1 AAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* *
23641100 AAGTTAAGGGTTAGGGTTTTTAGGTTAAGGG-TTAGGGTTTTT
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* * * *
23641142 AATTTAAAGGTTTAAGGTTTTTAAGTTAAGGGGTTAAGGGTTTT-
1 AAGTT-AAGGGTTAGGGTTTTTAAGTTAA-GGGTTTAGGGTTTTA
23641186 AAGTTAAGGGTTAGGGTT
1 AAGTTAAGGGTTAGGGTT
23641204 AGAGTTTTTA
Statistics
Matches: 246, Mismatches: 26, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
42 14 0.06
43 112 0.46
44 73 0.30
45 9 0.04
50 7 0.03
51 10 0.04
52 21 0.09
ACGTcount: A:0.26, C:0.01, G:0.31, T:0.42
Consensus pattern (43 bp):
AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
Found at i:23641050 original size:16 final size:14
Alignment explanation
Indices: 23641026--23641069 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
23641016 TAGGGTTTTT
23641026 AAGTTAAGGGTTTA
1 AAGTTAAGGGTTTA
* *
23641040 AGGTTTTAAGGTTTTA
1 AAG--TTAAGGGTTTA
23641056 AAGTTAAGGGTTTA
1 AAGTTAAGGGTTTA
23641070 GGGTATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 12 0.50
16 12 0.50
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.41
Consensus pattern (14 bp):
AAGTTAAGGGTTTA
Found at i:23641060 original size:30 final size:30
Alignment explanation
Indices: 23641019--23641078 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
23641009 TAAGGGTTAG
* *
23641019 GGTTTTTAAGTTAAGGGTTTAAGGTTTTAA
1 GGTTTTAAAGTTAAGGGTTTAAGGTATTAA
*
23641049 GGTTTTAAAGTTAAGGGTTTAGGGTATTAA
1 GGTTTTAAAGTTAAGGGTTTAAGGTATTAA
23641079 AGTTAAAGGT
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:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (30 bp):
GGTTTTAAAGTTAAGGGTTTAAGGTATTAA
Found at i:23641090 original size:52 final size:50
Alignment explanation
Indices: 23640999--23641100 Score: 141
Period size: 52 Copynumber: 2.0 Consensus size: 50
23640989 AGGGTTTAGG
* * * *
23640999 GGTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTAA
1 GGTTTTAAGTTAAGGGTTAGGGTATTAAAGTTAAAGGTTTAAGGTTTTAA
*
23641049 GGTTTTAAAGTTAAGGGTTTAGGGTATTAAAGTTAAAGGTTTAGGGTTTTAA
1 GGTTTT-AAGTTAAGGG-TTAGGGTATTAAAGTTAAAGGTTTAAGGTTTTAA
23641101 AGTTAAGGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
50 6 0.13
51 9 0.20
52 30 0.67
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (50 bp):
GGTTTTAAGTTAAGGGTTAGGGTATTAAAGTTAAAGGTTTAAGGTTTTAA
Found at i:23641112 original size:138 final size:138
Alignment explanation
Indices: 23640898--23641188 Score: 440
Period size: 138 Copynumber: 2.1 Consensus size: 138
23640888 GGGTTTTAAA
* * * * * * *
23640898 GTTAAGGGTTTAGGGTTTTAAAGTTAAAGGTCTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTCA
1 GTTAAGGTTTTAAGGTTTTAAAGTTAAAGGTCTAGGGTATTAAAGTTAAAGGTTTAGGGTTTTAA
*
23640963 AGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGGTTTTAATTT-AAGGGTTAGGGTTTTTA
66 AGTTAAGGGTTAGGGTTTTTAGGTTAAGGG-TTAGGGGTTTTAATTTAAAGGGTTAAGGTTTTTA
23641027 AGTTAAGGG
130 AGTTAAGGG
* * *
23641036 TTTAAGGTTTTAAGGTTTTAAAGTTAAGGGTTTAGGGTATTAAAGTTAAAGGTTTAGGGTTTTAA
1 GTTAAGGTTTTAAGGTTTTAAAGTTAAAGGTCTAGGGTATTAAAGTTAAAGGTTTAGGGTTTTAA
* *
23641101 AGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAATTTAAAGGTTTAAGGTTTTTAA
66 AGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTAGGGGTTTTAATTTAAAGGGTTAAGGTTTTTAA
23641166 GTTAAGGG
131 GTTAAGGG
23641174 GTTAAGGGTTTTAAG
1 GTTAA-GGTTTTAAG
23641189 TTAAGGGTTA
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
137 15 0.11
138 113 0.82
139 9 0.07
ACGTcount: A:0.26, C:0.01, G:0.31, T:0.42
Consensus pattern (138 bp):
GTTAAGGTTTTAAGGTTTTAAAGTTAAAGGTCTAGGGTATTAAAGTTAAAGGTTTAGGGTTTTAA
AGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTAGGGGTTTTAATTTAAAGGGTTAAGGTTTTTAA
GTTAAGGG
Found at i:23641193 original size:65 final size:63
Alignment explanation
Indices: 23640872--23641203 Score: 335
Period size: 65 Copynumber: 5.0 Consensus size: 63
23640862 TCAAATTATA
* * *
23640872 TTTAAGTT-AAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTAAAGTTAAAGGTCTATGGT
1 TTTAAGTTAAAGGTTTAGGGTTTTAAAGTTAAGGG-TTAGGGTTTT-AAGTTAAGGGT-TAGGGT
23640936 T
63 T
* * * *
23640937 TTTAAGTTAAGGGTTTAGGGTTTTCAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGGT
1 TTTAAGTTAAAGGTTTAGGGTTTTAAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGG-TTAGGGTT
* * *
23641002 TTTAA-TTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTAAGGTTTTAAAGTTAAGGG
1 TTTAAGTTAAAGGTTTAGGGTTTTAAAGTTAAGGG-TT-A-G------GGTTTT-AAGTTAAGGG
*
23641066 TTTAGGGTA
56 -TTAGGGTT
* *
23641075 TTAAAGTTAAAGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAAGGTTTAGGGTTTTAAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTAGGGTT
* * *
23641139 TTTAATTTAAAGGTTTAAGGTTTTTAAGTTAAGGGGTTAAGGGTTTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAAGGTTTAGGGTTTTAAAGTTAA-GGGTT-AGGGTTTTAAGTTAAGGGTTAGGGTT
23641204 AGAGTTTTTA
Statistics
Matches: 225, Mismatches: 25, Indels: 34
0.79 0.09 0.12
Matches are distributed among these distances:
64 60 0.27
65 71 0.32
66 37 0.16
67 1 0.00
71 1 0.00
72 5 0.02
73 24 0.11
74 26 0.12
ACGTcount: A:0.26, C:0.01, G:0.31, T:0.42
Consensus pattern (63 bp):
TTTAAGTTAAAGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTAAGTTAAGGGTTAGGGTT
Found at i:23641202 original size:27 final size:27
Alignment explanation
Indices: 23641172--23641224 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
23641162 TTAAGTTAAG
23641172 GGGTTA-AGGGTTTTAAGTTAAGGGTTA
1 GGGTTAGA-GGTTTTAAGTTAAGGGTTA
* *
23641199 GGGTTAGAGTTTTTAGGTTAAGGGTT
1 GGGTTAGAGGTTTTAAGTTAAGGGTT
23641225 TAAGGTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.40
Consensus pattern (27 bp):
GGGTTAGAGGTTTTAAGTTAAGGGTTA
Found at i:23641223 original size:86 final size:87
Alignment explanation
Indices: 23641045--23641225 Score: 201
Period size: 86 Copynumber: 2.1 Consensus size: 87
23641035 GTTTAAGGTT
* * *
23641045 TTAA-GGTTTTAAAGTTAAGGGTTTAGGGTATTAAAGTTAAAGGTTTAGGGTTTTAAAGTTAAGG
1 TTAAGGGTTTTAAAGTTAAAGGTTTAAGGTATTAAAGTTAAAGGTTAAGGGTTTTAAAGTTAAGG
**
23641109 GTTAGGGTTTTTAGGTTAAGGG
66 GTTAGGGTTTAGAGGTTAAGGG
* * * * *
23641131 TT-AGGGTTTTTAATTTAAAGGTTTAAGGTTTTTAAGTTAAGGGGTTAAGGGTTTT-AAGTTAAG
1 TTAAGGGTTTTAAAGTTAAAGGTTTAAGGTATTAAAGTTAA-AGGTTAAGGGTTTTAAAGTTAAG
* *
23641194 GGTTAGGG-TTAGAGTTTTTA-GG
65 GGTTAGGGTTTAGAG-GTTAAGGG
23641216 TTAAGGGTTT
1 TTAAGGGTTT
23641226 AAGGTTTGTC
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
85 9 0.11
86 58 0.73
87 12 0.15
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.42
Consensus pattern (87 bp):
TTAAGGGTTTTAAAGTTAAAGGTTTAAGGTATTAAAGTTAAAGGTTAAGGGTTTTAAAGTTAAGG
GTTAGGGTTTAGAGGTTAAGGG
Found at i:23641230 original size:14 final size:14
Alignment explanation
Indices: 23641173--23641231 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
23641163 TAAGTTAAGG
23641173 GGTTAAGGGTTTTAA
1 GGTTAAGGG-TTTAA
*
23641188 -GTTAAGGG-TTAG
1 GGTTAAGGGTTTAA
* *
23641200 GGTT-AGAGTTTTTA
1 GGTTAAG-GGTTTAA
23641214 GGTTAAGGGTTTAA
1 GGTTAAGGGTTTAA
23641228 GGTT
1 GGTT
23641232 TGTCAATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
12 5 0.15
13 4 0.12
14 23 0.68
15 2 0.06
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.41
Consensus pattern (14 bp):
GGTTAAGGGTTTAA
Found at i:23643377 original size:28 final size:27
Alignment explanation
Indices: 23643310--23643379 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
23643300 AGAATATGAT
* *
23643310 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
23643337 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
23643365 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
23643380 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:23643395 original size:55 final size:53
Alignment explanation
Indices: 23643255--23643406 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
23643245 TAAATTGTAC
* *
23643255 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
23643308 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
23643363 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
23643407 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:23643411 original size:27 final size:27
Alignment explanation
Indices: 23643256--23643411 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
23643246 AAATTGTACA
* *
23643256 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
23643283 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
23643310 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
23643337 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
23643365 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
23643392 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
23643412 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:23651437 original size:28 final size:27
Alignment explanation
Indices: 23651370--23651439 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
23651360 AGAATATGAT
* *
23651370 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
23651397 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
23651425 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
23651440 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:23651455 original size:55 final size:53
Alignment explanation
Indices: 23651315--23651466 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
23651305 TAAATTGTAC
* *
23651315 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
23651368 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
23651423 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
23651467 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:23651471 original size:27 final size:27
Alignment explanation
Indices: 23651316--23651471 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
23651306 AAATTGTACA
* *
23651316 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
23651343 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
23651370 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
23651397 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
23651425 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
23651452 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
23651472 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:23653119 original size:18 final size:18
Alignment explanation
Indices: 23653093--23653136 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23653083 GAGTCGAAAA
* *
23653093 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
23653111 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
23653129 AGGAAACA
1 AGGAAACA
23653137 CACCTGGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.09, G:0.27, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:23653763 original size:7 final size:7
Alignment explanation
Indices: 23653753--23653784 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
23653743 TTATATACAT
23653753 AATACTA
1 AATACTA
23653760 AATACTA
1 AATACTA
23653767 AATACT-
1 AATACTA
23653773 AATACTA
1 AATACTA
23653780 AATAC
1 AATAC
23653785 CAATTGACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:23653778 original size:13 final size:14
Alignment explanation
Indices: 23653753--23653784 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
23653743 TTATATACAT
23653753 AATACTAAATACTA
1 AATACTAAATACTA
23653767 AATACT-AATACTA
1 AATACTAAATACTA
23653780 AATAC
1 AATAC
23653785 CAATTGACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (14 bp):
AATACTAAATACTA
Found at i:23653990 original size:20 final size:20
Alignment explanation
Indices: 23653953--23653990 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23653943 TTTATTTTTA
*
23653953 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
23653973 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
23653991 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:23654974 original size:51 final size:51
Alignment explanation
Indices: 23654930--23655027 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
23654920 AATTATTTAA
23654930 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
23654981 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
23655028 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:23655003 original size:11 final size:11
Alignment explanation
Indices: 23654989--23655065 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
23654979 ATAAATATGG
23654989 ATTTGAGAGAA
1 ATTTGAGAGAA
*
23655000 ATTTTGA-AGGA
1 A-TTTGAGAGAA
23655011 ATTTGAGAGCAA
1 ATTTGAGAG-AA
23655023 A-TTGAGAGGAA
1 ATTTGAGA-GAA
23655034 ATTT-AGAAGAA
1 ATTTGAG-AGAA
23655045 A-TTGAGAGAAA
1 ATTTGAGAG-AA
23655056 ATTTGAGAGA
1 ATTTGAGAGA
23655066 GGATTAGTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
10 9 0.16
11 28 0.51
12 18 0.33
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:23655028 original size:33 final size:33
Alignment explanation
Indices: 23654989--23655065 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
23654979 ATAAATATGG
* * *
23654989 ATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAA
1 ATTTGAGAGAAATTTAGAA-GAAATTGAGAGAAA
23655023 A-TTGAGAGGAAATTTAGAAGAAATTGAGAGAAA
1 ATTTGAGA-GAAATTTAGAAGAAATTGAGAGAAA
23655056 ATTTGAGAGA
1 ATTTGAGAGA
23655066 GGATTAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
33 21 0.55
34 17 0.45
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (33 bp):
ATTTGAGAGAAATTTAGAAGAAATTGAGAGAAA
Found at i:23655819 original size:22 final size:21
Alignment explanation
Indices: 23655797--23655836 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23655787 AATTATTAAT
* *
23655797 ATAATTAT-TAATTTTTTGAA
1 ATAAATATATAATATTTTGAA
23655817 ATAAATATATAATATTTTGA
1 ATAAATATATAATATTTTGA
23655837 GTATACTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
ATAAATATATAATATTTTGAA
Found at i:23656473 original size:61 final size:61
Alignment explanation
Indices: 23656378--23656500 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
23656368 TAACGACGAG
*
23656378 TATGCTTGAAACAAATTTGTACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
1 TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
23656439 TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
1 TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
23656500 T
1 T
23656501 GATCTATCCC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (61 bp):
TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
Found at i:23663256 original size:27 final size:26
Alignment explanation
Indices: 23663211--23663263 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
23663201 TTCCTATTTA
*
23663211 AAAAAGCTTTAATTTTTTAATTATTTTT
1 AAAAAGCTTTAATATTTT-ATT-TTTTT
*
23663239 AAAAAGTTTTAA-ATTTTATTTTTTT
1 AAAAAGCTTTAATATTTTATTTTTTT
23663264 GAATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 5 0.22
26 3 0.13
27 4 0.17
28 11 0.48
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (26 bp):
AAAAAGCTTTAATATTTTATTTTTTT
Found at i:23664382 original size:7 final size:7
Alignment explanation
Indices: 23664368--23664414 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
23664358 TAGTCGATTG
23664368 GTATTTA
1 GTATTTA
*
23664375 GCATTTA
1 GTATTTA
23664382 GTATTTA
1 GTATTTA
23664389 GTATTTA
1 GTATTTA
23664396 GTATTTA
1 GTATTTA
23664403 GTATTTA
1 GTATTTA
23664410 GTATT
1 GTATT
23664415 ATGTATTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.55
Consensus pattern (7 bp):
GTATTTA
Found at i:23665099 original size:18 final size:18
Alignment explanation
Indices: 23665068--23665110 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
23665058 TGCCAGGTAC
** *
23665068 GTATCCTAGTCCTTTTAT
1 GTATCCTAACCCTTATAT
23665086 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
23665104 GTTTCCT
1 GTATCCT
23665111 TTTTCTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:23669033 original size:126 final size:126
Alignment explanation
Indices: 23668808--23669209 Score: 610
Period size: 126 Copynumber: 3.2 Consensus size: 126
23668798 CCAAACATGC
* * * * * *
23668808 GCTACTGTAGCAAAAGCGTGTCCACGTAGAAGCTTCTTTCAGTACT-TCTGCTGACAAAGCATCC
1 GCTACTATACCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTAT-TGCTGACAAAGCATCC
* *
23668872 TACTTAAAGCATTTTTGACACCATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
65 TGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
23668934 GCTACTATACCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
1 GCTACTATACCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
* *
23668999 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAAGTATTTTTTCAAGA
66 GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
* *
23669060 GCTACTATACCAAAAGTGCGTCCACATGGGAGCTTCTTTCAGTACTATTGTTGACAAAGCATCCT
1 GCTACTATACCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
* * * *
23669125 GCTTAAAGCCTTTTTGACACTATTTTCTCAGAAATGTCTACTCAAAATTATTTTTT-AGGA
66 GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
* * *
23669185 GCTACTGTAGCAAAAACGCGTCCAC
1 GCTACTATACCAAAAGCGCGTCCAC
23669210 GTAAGAGCTT
Statistics
Matches: 254, Mismatches: 21, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
125 24 0.09
126 229 0.90
127 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (126 bp):
GCTACTATACCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
Found at i:23669400 original size:98 final size:95
Alignment explanation
Indices: 23669263--23669441 Score: 243
Period size: 98 Copynumber: 1.9 Consensus size: 95
23669253 CTAAACCCCA
* * * * * *
23669263 AACCCTAATTTATTTGTGTTTTTACTTAAAAATCTTAAACACTAAAGCCTAATCTAATTTTTTTA
1 AACCCTAATTTATTTGTATTTTTACTTAAAAAACATAAACACGAAA-CCTAATCCAA--TTTTGA
23669328 AAAATTTATAATTAATTTACTCAAGTAACCCTG
63 AAAATTTATAATTAATTTACTCAAGTAACCCTG
*
23669361 AACCCTAATTTATTTG-ATTTTTCCTTAAAAAACAATAAACACGAAACCTAATCCAATTTTGAAA
1 AACCCTAATTTATTTGTATTTTTACTTAAAAAAC-ATAAACACGAAACCTAATCCAATTTTGAAA
*
23669425 AATTTATGATTAATTTA
65 AATTTATAATTAATTTA
23669442 ATTGACAAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
95 23 0.32
97 23 0.32
98 26 0.36
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (95 bp):
AACCCTAATTTATTTGTATTTTTACTTAAAAAACATAAACACGAAACCTAATCCAATTTTGAAAA
ATTTATAATTAATTTACTCAAGTAACCCTG
Found at i:23669532 original size:35 final size:33
Alignment explanation
Indices: 23669492--23669557 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
23669482 TTTTCTCTAA
*
23669492 AACCCTAAACCTAAAAACACCAAAACTCTAACCCT
1 AACCCTAAACC-AAAAAC-CCAAAACCCTAACCCT
*
23669527 AACCCTAAACCAATAACCCAAAACCCTAACC
1 AACCCTAAACCAAAAACCCAAAACCCTAACC
23669558 GCAGGACACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 13 0.45
34 5 0.17
35 11 0.38
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.12
Consensus pattern (33 bp):
AACCCTAAACCAAAAACCCAAAACCCTAACCCT
Found at i:23671560 original size:48 final size:47
Alignment explanation
Indices: 23671497--23671587 Score: 137
Period size: 48 Copynumber: 1.9 Consensus size: 47
23671487 AACACACCAT
* **
23671497 TTGTGGACAAGCCACCACATAATTGCTGATAAACGGCAACATAACACA
1 TTGTAGACAAGCCACCACATAATTGCCAAT-AACGGCAACATAACACA
*
23671545 TTGTAGACAAGCCACCACATAATTGCCAATAACGGCCACATAA
1 TTGTAGACAAGCCACCACATAATTGCCAATAACGGCAACATAA
23671588 TTGCAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 12 0.31
48 27 0.69
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.19
Consensus pattern (47 bp):
TTGTAGACAAGCCACCACATAATTGCCAATAACGGCAACATAACACA
Found at i:23677679 original size:56 final size:56
Alignment explanation
Indices: 23677593--23677707 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
23677583 CATGCGACCA
23677593 TTAAATACTTACTCACAAAGAAAGATGCTAAACTGAGGTTAATTCGATGGATAATC
1 TTAAATACTTACTCACAAAGAAAGATGCTAAACTGAGGTTAATTCGATGGATAATC
23677649 TTAAATACTTACTCACAAAGAAAGATGCTAAACTGAGGTTAATTCGATGGATAATC
1 TTAAATACTTACTCACAAAGAAAGATGCTAAACTGAGGTTAATTCGATGGATAATC
23677705 TTA
1 TTA
23677708 CTCCCAGAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (56 bp):
TTAAATACTTACTCACAAAGAAAGATGCTAAACTGAGGTTAATTCGATGGATAATC
Found at i:23682786 original size:5 final size:5
Alignment explanation
Indices: 23682776--23682802 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
23682766 AAAACACATT
23682776 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
23682803 CGATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:23691236 original size:3 final size:3
Alignment explanation
Indices: 23691228--23691259 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
23691218 GGTTCTACAT
*
23691228 TTG TTG TTG TTG TTG TTG TTG TTT TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
23691260 TCTATTGCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (3 bp):
TTG
Found at i:23696395 original size:40 final size:40
Alignment explanation
Indices: 23696311--23696494 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
23696301 TTGAATGCTG
* * * *
23696311 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
23696350 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
23696391 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
23696431 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
23696471 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
23696495 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:23696448 original size:80 final size:81
Alignment explanation
Indices: 23696311--23696491 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
23696301 TTGAATGCTG
* * *
23696311 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
23696375 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
23696391 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
23696452 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
23696471 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
23696492 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:23696515 original size:39 final size:38
Alignment explanation
Indices: 23696392--23696541 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
23696382 GTTATTAATT
* ** * *
23696392 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
23696432 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
23696471 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
23696511 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
23696542 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:23702918 original size:22 final size:22
Alignment explanation
Indices: 23702890--23702932 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
23702880 GCATGTTGTG
23702890 AAAATGATGGGTTTGCATGTCA
1 AAAATGATGGGTTTGCATGTCA
23702912 AAAATGATGGGTTTGCATGTC
1 AAAATGATGGGTTTGCATGTC
23702933 CCCAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (22 bp):
AAAATGATGGGTTTGCATGTCA
Found at i:23704290 original size:40 final size:40
Alignment explanation
Indices: 23704206--23704389 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
23704196 TTGAATGCTG
* * * *
23704206 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
23704245 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
23704286 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
23704326 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
23704366 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
23704390 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:23704343 original size:80 final size:81
Alignment explanation
Indices: 23704206--23704386 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
23704196 TTGAATGCTG
* * *
23704206 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
23704270 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
23704286 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
23704347 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
23704366 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
23704387 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:23704410 original size:39 final size:38
Alignment explanation
Indices: 23704287--23704436 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
23704277 GTTATTAATT
* ** * *
23704287 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
23704327 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
23704366 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
23704406 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
23704437 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:23708290 original size:21 final size:21
Alignment explanation
Indices: 23708260--23708318 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
23708250 CCTCCAAAAA
*
23708260 AAGCTAATAAAAGCTGAACAG
1 AAGCTCATAAAAGCTGAACAG
*
23708281 AAGCTCATAAGAGCTGAACAG
1 AAGCTCATAAAAGCTGAACAG
23708302 AAGCTCA-AAAGAGCTGA
1 AAGCTCATAAA-AGCTGA
23708319 TCCACCCGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 2 0.06
21 32 0.94
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (21 bp):
AAGCTCATAAAAGCTGAACAG
Found at i:23710506 original size:41 final size:41
Alignment explanation
Indices: 23710449--23710566 Score: 146
Period size: 41 Copynumber: 2.9 Consensus size: 41
23710439 AGCGGCAATT
* *
23710449 CTCAGATCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATG
1 CTCAGATCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATG
** **
23710490 CTCAGATCTTTAGCGGCATTTTCCAAAAAGCGCTACTAATG
1 CTCAGATCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATG
* ** *
23710531 CTCGGGGCTTTAGCGGCATTTTTGAAAAAGTGCCGC
1 CTCAGATCTTTAGCGGCATTTTTGAAAAAGCGCCGC
23710567 AAAAACATTT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (41 bp):
CTCAGATCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATG
Found at i:23711005 original size:14 final size:15
Alignment explanation
Indices: 23710972--23711005 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
23710962 TAAGGTTTAT
23710972 AGATTATGGAATTAG
1 AGATTATGGAATTAG
23710987 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
*
23711001 GGATT
1 AGATT
23711006 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:23711190 original size:89 final size:89
Alignment explanation
Indices: 23711092--23711267 Score: 280
Period size: 89 Copynumber: 2.0 Consensus size: 89
23711082 TTCAATGTCA
* *
23711092 AGTTAGGGTTTAGGGTTTAGACCAATTAGTGTGTTTTAATTTATATATTAAATAATGTTTAGGGG
1 AGTTAGGGTTTAGGATTTAGACCAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGG
23711157 TTAGGGGTTAGGGATTCGGGGTCG
66 TTAGGGGTTAGGGATTCGGGGTCG
* ** *
23711181 AGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGGG
1 AGTTAGGGTTTAGGATTTAGACCAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGG
* *
23711246 TTAGGGGTTAGGGGTTTGGGGT
66 TTAGGGGTTAGGGATTCGGGGT
23711268 TTGGGGTTAA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 79 1.00
ACGTcount: A:0.25, C:0.02, G:0.31, T:0.42
Consensus pattern (89 bp):
AGTTAGGGTTTAGGATTTAGACCAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGG
TTAGGGGTTAGGGATTCGGGGTCG
Found at i:23711251 original size:7 final size:7
Alignment explanation
Indices: 23711239--23711276 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
23711229 TAAATAAGGT
23711239 TTAGGGG
1 TTAGGGG
23711246 TTAGGGG
1 TTAGGGG
23711253 TTAGGGG
1 TTAGGGG
*
23711260 TTTGGGG
1 TTAGGGG
*
23711267 TTTGGGG
1 TTAGGGG
23711274 TTA
1 TTA
23711277 AGAGTTAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.11, C:0.00, G:0.53, T:0.37
Consensus pattern (7 bp):
TTAGGGG
Found at i:23711267 original size:21 final size:22
Alignment explanation
Indices: 23711236--23711276 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23711226 TATTAAATAA
23711236 GGTTTAGGGGTTAGGGGTTAGG
1 GGTTTAGGGGTTAGGGGTTAGG
*
23711258 GGTTT-GGGGTTTGGGGTTA
1 GGTTTAGGGGTTAGGGGTTA
23711277 AGAGTTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.10, C:0.00, G:0.54, T:0.37
Consensus pattern (22 bp):
GGTTTAGGGGTTAGGGGTTAGG
Found at i:23712415 original size:22 final size:23
Alignment explanation
Indices: 23712385--23712449 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 23
23712375 AAAATCCCCT
23712385 CCCCTTAAAATCCCCAACTTTCC
1 CCCCTTAAAATCCCCAACTTTCC
* *
23712408 CGCC-TAAAATCCCTAA-TTTCC
1 CCCCTTAAAATCCCCAACTTTCC
* *
23712429 CCCCTTGAAACCCCCAACTTT
1 CCCCTTAAAATCCCCAACTTT
23712450 ACAAACATAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 8 0.24
22 20 0.59
23 6 0.18
ACGTcount: A:0.26, C:0.45, G:0.03, T:0.26
Consensus pattern (23 bp):
CCCCTTAAAATCCCCAACTTTCC
Found at i:23716404 original size:43 final size:43
Alignment explanation
Indices: 23716308--23716577 Score: 353
Period size: 43 Copynumber: 6.3 Consensus size: 43
23716298 AGATTATGTT
* ** * * * *
23716308 TTTAGCGGCGTTTTTGCTAGAAGCACTGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
**
23716350 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * *
23716393 TTTAGTGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCGTGGTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
23716436 TTTAGCGGCGTTTGTGGGGAAAGTGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
23716479 TTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
23716522 TTTAGCGGCGTTTGTGGGAAAAGCGTCGTTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
23716565 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
23716578 TTTTCTGAAA
Statistics
Matches: 200, Mismatches: 27, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
42 31 0.16
43 169 0.85
ACGTcount: A:0.19, C:0.15, G:0.33, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:23716667 original size:22 final size:22
Alignment explanation
Indices: 23716642--23716683 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
23716632 GGCACTTCTT
*
23716642 AAAGCGCCGCTAAAGGCCTAAA
1 AAAGCGCCGCTAAAAGCCTAAA
23716664 AAAGCGCCGCTAAAAGCCTA
1 AAAGCGCCGCTAAAAGCCTA
23716684 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.29, G:0.21, T:0.10
Consensus pattern (22 bp):
AAAGCGCCGCTAAAAGCCTAAA
Found at i:23718141 original size:26 final size:24
Alignment explanation
Indices: 23718107--23718158 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
23718097 TATATACTAA
*
23718107 ATCAATTAATAATAAAATAATAAAAT
1 ATCAATTAAAAATAAAAT--TAAAAT
* *
23718133 ATCATTTAAAAATCAAATTAAAAT
1 ATCAATTAAAAATAAAATTAAAAT
23718157 AT
1 AT
23718159 TAATAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.35
26 15 0.65
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATCAATTAAAAATAAAATTAAAAT
Found at i:23719594 original size:18 final size:17
Alignment explanation
Indices: 23719553--23719595 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
23719543 GTTTACAAAT
23719553 ATTTTTAAATTATTGAA
1 ATTTTTAAATTATTGAA
* *
23719570 ATCTTTTCAATTATTTATA
1 AT-TTTTAAATTATTGA-A
23719589 ATTTTTA
1 ATTTTTA
23719596 CTTGATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.10
18 16 0.76
19 3 0.14
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (17 bp):
ATTTTTAAATTATTGAA
Found at i:23728889 original size:29 final size:29
Alignment explanation
Indices: 23728856--23728922 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
23728846 TTCTTAAATG
*
23728856 ATAATCACTCTCAGACTTTTGTTTGGCGA
1 ATAATCACTCTCAGACTCTTGTTTGGCGA
* * *
23728885 ATAATCACTGTCAGACTCTTGTTTTGCTA
1 ATAATCACTCTCAGACTCTTGTTTGGCGA
23728914 ATAATCACT
1 ATAATCACT
23728923 ATGACTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (29 bp):
ATAATCACTCTCAGACTCTTGTTTGGCGA
Found at i:23732509 original size:7 final size:7
Alignment explanation
Indices: 23732493--23732529 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
23732483 AGAAGGGCCT
23732493 CCCT-CC
1 CCCTCCC
23732499 CCCTCCC
1 CCCTCCC
23732506 CCCTCCC
1 CCCTCCC
23732513 CCCTCCC
1 CCCTCCC
23732520 CCCTCCC
1 CCCTCCC
23732527 CCC
1 CCC
23732530 AATGAGTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.13
7 26 0.87
ACGTcount: A:0.00, C:0.86, G:0.00, T:0.14
Consensus pattern (7 bp):
CCCTCCC
Found at i:23735580 original size:9 final size:9
Alignment explanation
Indices: 23735566--23735596 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23735556 GTTAAACGAA
23735566 TCGAGTTAT
1 TCGAGTTAT
*
23735575 TCGAGTTAA
1 TCGAGTTAT
23735584 TCGAGTTAT
1 TCGAGTTAT
23735593 TCGA
1 TCGA
23735597 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:23743271 original size:30 final size:30
Alignment explanation
Indices: 23743235--23743294 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
23743225 AGTAAGTTAT
23743235 GATACCTTTTCAGACTAGTTTCAGATAATC
1 GATACCTTTTCAGACTAGTTTCAGATAATC
*
23743265 GATACCTTTTCAGTCTAGTTTCAGATAATC
1 GATACCTTTTCAGACTAGTTTCAGATAATC
23743295 ACAGCACTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.38
Consensus pattern (30 bp):
GATACCTTTTCAGACTAGTTTCAGATAATC
Found at i:23758814 original size:34 final size:33
Alignment explanation
Indices: 23758785--23758848 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
23758775 AAAAAATCAA
* * *
23758785 AATCAAAGTCAAAAAAATGAAAATGAAAAAAATC
1 AATCAAAATCAAAAAAATAAAAAT-AAAAAAAAC
23758819 AATCAAAATCAAAAAAATAAAAATAAAAAA
1 AATCAAAATCAAAAAAATAAAAATAAAAAA
23758849 GAAAAAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 6 0.21
34 22 0.79
ACGTcount: A:0.73, C:0.08, G:0.05, T:0.14
Consensus pattern (33 bp):
AATCAAAATCAAAAAAATAAAAATAAAAAAAAC
Found at i:23758841 original size:40 final size:40
Alignment explanation
Indices: 23758779--23758854 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
23758769 AAAAAGAAAA
** * *
23758779 AATCAAAATCAAAGTCAAAAAAATGAAAATGAAAAAAATC
1 AATCAAAATCAAAGAAAAAAAAATAAAAAAGAAAAAAATC
23758819 AATCAAAATCAAA-AAAATAAAAATAAAAAAGAAAAA
1 AATCAAAATCAAAGAAAA-AAAAATAAAAAAGAAAAA
23758855 GGAAAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.06
40 29 0.94
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (40 bp):
AATCAAAATCAAAGAAAAAAAAATAAAAAAGAAAAAAATC
Found at i:23758854 original size:14 final size:15
Alignment explanation
Indices: 23758783--23758848 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 15
23758773 AGAAAAAATC
* *
23758783 AAAATCAAAGTCAAA
1 AAAATAAAAATCAAA
* *
23758798 AAAATGAAAATGAAA
1 AAAATAAAAATCAAA
23758813 AAAATCAATCAAAATCAAA
1 AAAAT--A--AAAATCAAA
23758832 AAAATAAAAAT-AAA
1 AAAATAAAAATCAAA
23758846 AAA
1 AAA
23758849 GAAAAAGGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 6 0.14
15 22 0.52
17 1 0.02
19 13 0.31
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.14
Consensus pattern (15 bp):
AAAATAAAAATCAAA
Found at i:23759749 original size:7 final size:7
Alignment explanation
Indices: 23759739--23759774 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
23759729 GGAAAAAATG
23759739 ATGAAAA
1 ATGAAAA
23759746 ATG-AAA
1 ATGAAAA
23759752 ATGAAAA
1 ATGAAAA
23759759 ATGAAAAA
1 ATG-AAAA
23759767 ATGAAAA
1 ATGAAAA
23759774 A
1 A
23759775 GTAAAAGTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.22
7 14 0.52
8 7 0.26
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
ATGAAAA
Found at i:23759757 original size:13 final size:13
Alignment explanation
Indices: 23759739--23759765 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23759729 GGAAAAAATG
23759739 ATGAAAAATGAAA
1 ATGAAAAATGAAA
23759752 ATGAAAAATGAAA
1 ATGAAAAATGAAA
23759765 A
1 A
23759766 AATGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:23759766 original size:21 final size:22
Alignment explanation
Indices: 23759732--23759773 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
23759722 AAAAAAAGGA
23759732 AAAAATGATGAAAAATGAAAATG
1 AAAAATGA-GAAAAATGAAAATG
23759755 AAAAATGA-AAAAATGAAAA
1 AAAAATGAGAAAAATGAAAA
23759774 AGTAAAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAATGAGAAAAATGAAAATG
Found at i:23759768 original size:8 final size:8
Alignment explanation
Indices: 23759723--23759774 Score: 56
Period size: 8 Copynumber: 6.6 Consensus size: 8
23759713 CTTTGAGTAA
*
23759723 AAAAAAGG
1 AAAAAATG
23759731 AAAAAATG
1 AAAAAATG
23759739 ATGAAAAATG
1 A--AAAAATG
23759749 --AAAATG
1 AAAAAATG
23759755 -AAAAATG
1 AAAAAATG
23759762 AAAAAATG
1 AAAAAATG
23759770 AAAAA
1 AAAAA
23759775 GTAAAAGTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
6 6 0.15
7 6 0.15
8 20 0.51
10 7 0.18
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:23759780 original size:15 final size:15
Alignment explanation
Indices: 23759739--23759774 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
23759729 GGAAAAAATG
23759739 ATGAAAAATG--AAA
1 ATGAAAAATGAAAAA
23759752 ATGAAAAATGAAAAA
1 ATGAAAAATGAAAAA
23759767 ATGAAAAA
1 ATGAAAAA
23759775 GTAAAAGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.48
15 11 0.52
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (15 bp):
ATGAAAAATGAAAAA
Found at i:23759780 original size:21 final size:22
Alignment explanation
Indices: 23759732--23759780 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
23759722 AAAAAAAGGA
*
23759732 AAAAATGATGAAAAATGAAAATG
1 AAAAATGA-GAAAAATGAAAAAG
23759755 AAAAATGA-AAAAATGAAAAAG
1 AAAAATGAGAAAAATGAAAAAG
*
23759776 TAAAA
1 AAAAA
23759781 GTGGAGAGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 16 0.67
23 8 0.33
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAATGAGAAAAATGAAAAAG
Found at i:23761269 original size:119 final size:120
Alignment explanation
Indices: 23761057--23761294 Score: 406
Period size: 119 Copynumber: 2.0 Consensus size: 120
23761047 GAAGACGACG
* * *
23761057 AATCTTATCTTCACGAGTAAGGAAGCCGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTG
1 AATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAGCAGTG
* *
23761122 GAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATATCGGAGCAGATCA
66 GAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCAGAGCAGATCA
*
23761177 AATCTTATCTTCAAGTGTAA-GAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAGCAGTG
1 AATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAGCAGTG
*
23761241 GAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATC
66 GAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCAGAGCAGATC
23761295 GAAGACGGCG
Statistics
Matches: 111, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
119 93 0.84
120 18 0.16
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (120 bp):
AATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAGCAGTG
GAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCAGAGCAGATCA
Found at i:23761569 original size:44 final size:44
Alignment explanation
Indices: 23761521--23761729 Score: 182
Period size: 44 Copynumber: 4.8 Consensus size: 44
23761511 GAAAATGGCG
* * *
23761521 AATCTTATCTCCCTGAGGTTACAGTGGAGCAAATTGAAGTCAGA
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGA
*
23761565 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGCCAGTA
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAG-A
*
23761610 TGGTGAATCTTATCTCCCTGAGGTT-------A-CAGATTGAAGCCAAA
1 -----AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGA
** * *
23761651 AATCTTATCTCCCTGATATTACAGCGGGGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGA
* * * * *
23761695 AATCCTATTTCCCTGAGATTACAGTGGAGCGGATT
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATT
23761730 AAAATAAAGG
Statistics
Matches: 134, Mismatches: 17, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
36 18 0.13
41 1 0.01
42 12 0.09
43 1 0.01
44 81 0.60
45 1 0.01
50 20 0.15
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGA
Found at i:23761881 original size:217 final size:219
Alignment explanation
Indices: 23761651--23762268 Score: 1062
Period size: 217 Copynumber: 2.8 Consensus size: 219
23761641 TGAAGCCAAA
* * *
23761651 AATCTTATCTCCCTGATATTACAGCGGGGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATTTCCCTGAGATTA
*
23761716 CAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAG
*
23761781 GTCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTAAGCAG
131 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTAAGCAG
23761846 TAGTGGAGCTAATCGAAAAT-G-G
196 TAGTGGAGCTAATCGAAAATGGTG
** *
23761868 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGATTCTAGTAATCCTATCTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATTTCCCTGAGATTA
* * *
23761933 CAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAATTACAGTAGAGTAGACCGCATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAG
*
23761998 GTCTTATGTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTAAGCAG
131 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTAAGCAG
23762063 TAGTGGAGCTAATCGAAAATGGTG
196 TAGTGGAGCTAATCGAAAATGGTG
23762087 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATTTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATTTCCCTGAGATTA
* * *
23762152 TAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAG
*
23762217 TTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTAT-AGATCTTA
131 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT-TCAGATCTTA
23762269 CTTCCTAGGC
Statistics
Matches: 375, Mismatches: 23, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
217 203 0.54
218 1 0.00
219 170 0.45
220 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (219 bp):
AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATTTCCCTGAGATTA
CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAG
GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTAAGCAG
TAGTGGAGCTAATCGAAAATGGTG
Found at i:23761965 original size:44 final size:44
Alignment explanation
Indices: 23761648--23762185 Score: 145
Period size: 44 Copynumber: 12.3 Consensus size: 44
23761638 GATTGAAGCC
* * * ***
23761648 AAAAATCTTATCTCCCTGATATTACAGCGGGGCAGATTGAAGCC
1 AAAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAT
** * * *
23761692 AGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGATT-AAAAT
1 AAAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAT
* * * * * * * * *
23761735 AAAGGATCTCATCTCTCTAAAATTACAGTAGAGTAGATCG--CAT
1 AAA-AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAT
* ** * ** **
23761778 -CAGGTCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATT
1 AAAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-AA-T
** * * * *
23761823 TCAGATCTTATCTCCCTAAGCAGT--AGTGGAGCTA-ATCGAAAAT
1 AAAAATCTTATCTCCCTGAG-ATTACAGTGGAGC-AGATTGAAAAT
** * ***
23761866 -GGAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGATTCT
1 AAAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAT
** * *
23761909 AGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAAT
1 AAAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAT
* * * * ** *
23761952 AAAAGATCTTATCTCTCTGAAATTACAGTAGAGTAGACCG--CAT
1 AAAA-ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAT
* ** * ** **
23761995 -CAGGTCTTATGTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
1 AAAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-AA-T
** * * * *
23762040 TCAGATCTTATCTCCCTAAGCAGT--AGTGGAGCTA-ATCGAAAAT
1 AAAAATCTTATCTCCCTGAG-ATTACAGTGGAGC-AGATTGAAAAT
*** * **
23762083 GGTGAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT
1 -AAAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAT
** * * * **
23762128 AGTAATCCTATTTCCCTGAGATTATAGTGGAGTGGATT-AAAAT
1 AAAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAT
*
23762171 AAAGGATCTTATCTC
1 AAA-AATCTTATCTC
23762186 TCTAAAGTTA
Statistics
Matches: 354, Mismatches: 113, Indels: 54
0.68 0.22 0.10
Matches are distributed among these distances:
41 58 0.16
42 18 0.05
43 31 0.09
44 172 0.49
45 37 0.10
46 34 0.10
47 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
AAAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAT
Found at i:23762335 original size:50 final size:50
Alignment explanation
Indices: 23762281--23762530 Score: 189
Period size: 50 Copynumber: 5.0 Consensus size: 50
23762271 TCCTAGGCGG
*
23762281 TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACAT
1 TGCAGTGGAACAGATTAAAGCTACAACAGCGAATCATGCTTCCCCGACAT
** * * * ** *
23762331 TGCAGTTAAAAAGATTAAAGCTACAACAGTGAAT-ATTACTTCCTGGGCGA-
1 TGCAGTGGAACAGATTAAAGCTACAACAGCGAATCA-TGCTTCCCCGAC-AT
* * * *
23762381 TACAGTCGAACAGATTAAAGCCACAACAGCGAATCAAGCTTCCCCGACAT
1 TGCAGTGGAACAGATTAAAGCTACAACAGCGAATCATGCTTCCCCGACAT
* ** * * * * ** * *
23762431 TACAGTTAAAAAGATTAAAGCTACAACAACGAATCTTACTTCCTAGGCAG
1 TGCAGTGGAACAGATTAAAGCTACAACAGCGAATCATGCTTCCCCGACAT
* * ** * * *
23762481 TGCAGTGGAACAAATTAAGGCTACAATGGTGAATCTTGCTTTCCCGACAT
1 TGCAGTGGAACAGATTAAAGCTACAACAGCGAATCATGCTTCCCCGACAT
23762531 CATAGTTAAG
Statistics
Matches: 148, Mismatches: 48, Indels: 8
0.73 0.24 0.04
Matches are distributed among these distances:
49 2 0.01
50 144 0.97
51 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.22
Consensus pattern (50 bp):
TGCAGTGGAACAGATTAAAGCTACAACAGCGAATCATGCTTCCCCGACAT
Found at i:23762515 original size:100 final size:99
Alignment explanation
Indices: 23762263--23762556 Score: 372
Period size: 100 Copynumber: 2.9 Consensus size: 99
23762253 AGAATTATAG
23762263 ATCTTACTTCCTAGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGA
1 ATCTTACTTCCTAGGC-GTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGA
* **
23762328 CATTGCAGTTAAAAAGATTAAAGCTACAACAGTGA
65 CATTACAGTTAAAAAGATTAAAGCTACAACAACGA
* * * * *
23762363 ATATTACTTCCTGGGCGATACAGTCGAACAGATTAAAGCCACAACAGCGAATCAAGCTTCCCCGA
1 ATCTTACTTCCTAGGCG-TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGA
23762428 CATTACAGTTAAAAAGATTAAAGCTACAACAACGA
65 CATTACAGTTAAAAAGATTAAAGCTACAACAACGA
* * * ** * * *
23762463 ATCTTACTTCCTAGGCAGTGCAGTGGAACAAATTAAGGCTACAATGGTGAATCTTGCTTTCCCGA
1 ATCTTACTTCCTAGGC-GTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGA
* * ** *
23762528 CATCATAGTTAAGCAGATTAAAGTTACAA
65 CATTACAGTTAAAAAGATTAAAGCTACAA
23762557 ATTACAAATC
Statistics
Matches: 166, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
99 1 0.01
100 164 0.99
101 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.23
Consensus pattern (99 bp):
ATCTTACTTCCTAGGCGTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGAC
ATTACAGTTAAAAAGATTAAAGCTACAACAACGA
Found at i:23767016 original size:51 final size:51
Alignment explanation
Indices: 23766889--23767019 Score: 217
Period size: 51 Copynumber: 2.6 Consensus size: 51
23766879 CGGATCACAT
* *
23766889 TTATCACTTGTCACTTGTCACTGATCAGATAAGCGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATTAGATAAGCGTACCTAAAGCTACCAC
* *
23766940 TTATCACTTGTCACCTGTCACTGATTAGATAAGTGTACCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATTAGATAAGCGTACCTAAAGCTACCAC
*
23766991 TTATCACTCGTCACTTGTCACTGATTAGA
1 TTATCACTTGTCACTTGTCACTGATTAGA
23767020 AGTACTCAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
51 74 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATTAGATAAGCGTACCTAAAGCTACCAC
Found at i:23784764 original size:22 final size:23
Alignment explanation
Indices: 23784738--23784781 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
23784728 TAACAATTTA
23784738 ATAAATATATAAATTT-ATTATC
1 ATAAATATATAAATTTAATTATC
*
23784760 ATAAATATATAAGTTTAATTAT
1 ATAAATATATAAATTTAATTAT
23784782 TATTTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATAAATATATAAATTTAATTATC
Found at i:23785083 original size:21 final size:21
Alignment explanation
Indices: 23785057--23785097 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
23785047 CACTATTTCT
*
23785057 AATCTCACTGCTACAGTATCC
1 AATCTCACTGCTACAATATCC
23785078 AATCTCACTGCTACAATATC
1 AATCTCACTGCTACAATATC
23785098 ACCACTATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.07, T:0.29
Consensus pattern (21 bp):
AATCTCACTGCTACAATATCC
Found at i:23791743 original size:26 final size:28
Alignment explanation
Indices: 23791711--23791767 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
23791701 CTTATTTCTT
23791711 TTTCAATCT-CTTTTTCTT-TTT-TTTTC
1 TTTCAATCTCCTTTTT-TTATTTCTTTTC
*
23791737 TTTCAATTTCCTTTTTTTATTTCTTTTC
1 TTTCAATCTCCTTTTTTTATTTCTTTTC
23791765 TTT
1 TTT
23791768 TTCTTTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 10 0.37
27 9 0.33
28 8 0.30
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTCAATCTCCTTTTTTTATTTCTTTTC
Found at i:23791764 original size:18 final size:18
Alignment explanation
Indices: 23791729--23791785 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 18
23791719 TCTTTTTCTT
*
23791729 TTTTTTTCTTTCAATTTCC
1 TTTTTTTATTTCAATTT-C
*
23791748 TTTTTTTATTTC-TTTTC
1 TTTTTTTATTTCAATTTC
23791765 TTTTTCTT-TTTC-A-TTC
1 TTTTT-TTATTTCAATTTC
23791781 TTTTT
1 TTTTT
23791786 CCCTTGTTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 8 0.24
17 10 0.29
18 5 0.15
19 11 0.32
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTTTATTTCAATTTC
Found at i:23791773 original size:23 final size:21
Alignment explanation
Indices: 23791719--23791775 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
23791709 TTTTTCAATC
23791719 TCTTTTTC-TTTTTTTTTCTT
1 TCTTTTTCTTTTTTTTTTCTT
* *
23791739 TCAATTTCCTTTTTTTATTTCTTT
1 TC-TTTTTCTTTTTTT-TTTC-TT
23791763 TCTTTTTCTTTTT
1 TCTTTTTCTTTTT
23791776 CATTCTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.07
21 4 0.14
22 6 0.21
23 13 0.45
24 4 0.14
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (21 bp):
TCTTTTTCTTTTTTTTTTCTT
Found at i:23802415 original size:50 final size:50
Alignment explanation
Indices: 23802340--23802475 Score: 191
Period size: 50 Copynumber: 2.7 Consensus size: 50
23802330 ACCAATCGAG
**
23802340 AACACGCCTTTGCACAAAGTGCCTAGCTGGTAGGCTAACATCCCTTCAGA
1 AACACGCCTTTGCACAAAGTGCCTAGCCCGTAGGCTAACATCCCTTCAGA
*
23802390 AACACGCCTTTGCACAAAGTGCCTAGCCCGTAGGCTAACATCCCTTCGGA
1 AACACGCCTTTGCACAAAGTGCCTAGCCCGTAGGCTAACATCCCTTCAGA
* ** * * *
23802440 AACACGTCTGGGCACCAAGTGCCAAGCCCGAAGGCT
1 AACACGCCTTTGCACAAAGTGCCTAGCCCGTAGGCT
23802476 TTACATCTGC
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.27, C:0.32, G:0.22, T:0.18
Consensus pattern (50 bp):
AACACGCCTTTGCACAAAGTGCCTAGCCCGTAGGCTAACATCCCTTCAGA
Found at i:23808952 original size:18 final size:19
Alignment explanation
Indices: 23808929--23808980 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
23808919 CCATTTTATA
23808929 TTCCATTTCACATATCA-T
1 TTCCATTTCACATATCATT
*
23808947 TTCCATTTCTCA-A-CAATT
1 TTCCATTTCACATATC-ATT
23808965 TTCCATTTCA-ATATCA
1 TTCCATTTCACATATCA
23808981 AATATCTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 1 0.04
17 3 0.11
18 23 0.82
19 1 0.04
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (19 bp):
TTCCATTTCACATATCATT
Found at i:23809189 original size:37 final size:37
Alignment explanation
Indices: 23809138--23809213 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
23809128 TGACATCCAA
* * *
23809138 TGTCTCATTAGTTAAATCGAAGCAAATTGGAACCCAG
1 TGTCTCATCAGTTAAACCAAAGCAAATTGGAACCCAG
* *
23809175 TGTCTCATCGGTTAAACCAAAGTAAATTGGAACCCAG
1 TGTCTCATCAGTTAAACCAAAGCAAATTGGAACCCAG
23809212 TG
1 TG
23809214 CCTTATCGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (37 bp):
TGTCTCATCAGTTAAACCAAAGCAAATTGGAACCCAG
Found at i:23809758 original size:15 final size:17
Alignment explanation
Indices: 23809738--23809770 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
23809728 TAGTATTATA
23809738 ATAAATT-T-TTATTTG
1 ATAAATTATGTTATTTG
23809753 ATAAATTATGTTATTTG
1 ATAAATTATGTTATTTG
23809770 A
1 A
23809771 AATAGTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
ATAAATTATGTTATTTG
Found at i:23813713 original size:11 final size:11
Alignment explanation
Indices: 23813697--23813723 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
23813687 CTTTTTCTTC
23813697 ATTTTGTTTTT
1 ATTTTGTTTTT
23813708 ATTTTGTTTTT
1 ATTTTGTTTTT
23813719 ATTTT
1 ATTTT
23813724 AACATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.11, C:0.00, G:0.07, T:0.81
Consensus pattern (11 bp):
ATTTTGTTTTT
Found at i:23821289 original size:17 final size:15
Alignment explanation
Indices: 23821252--23821290 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
23821242 CATAATATTT
23821252 TTTTTTCATTTTTCA
1 TTTTTTCATTTTTCA
23821267 TATTTTTCTATTTTTCA
1 T-TTTTTC-ATTTTTCA
*
23821284 CTTTTTC
1 TTTTTTC
23821291 GATCACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 12 0.57
17 8 0.38
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTTCATTTTTCA
Found at i:23823687 original size:8 final size:8
Alignment explanation
Indices: 23823661--23823723 Score: 71
Period size: 8 Copynumber: 8.1 Consensus size: 8
23823651 GGGTTTAAGG
23823661 TTTAT-TT
1 TTTATATT
23823668 TTATATATT
1 TT-TATATT
*
23823677 TTTATAGT
1 TTTATATT
23823685 TTTA-ATT
1 TTTATATT
23823692 TTT-TATAT
1 TTTATAT-T
23823700 TTTATATT
1 TTTATATT
23823708 TTTATATT
1 TTTATATT
23823716 TTTA-ATT
1 TTTATATT
23823723 T
1 T
23823724 CTTTATATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
7 13 0.27
8 29 0.59
9 7 0.14
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
TTTATATT
Found at i:23823694 original size:15 final size:14
Alignment explanation
Indices: 23823674--23823723 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 14
23823664 ATTTTTATAT
23823674 ATTTTTATAGTTTTA
1 ATTTTTATA-TTTTA
23823689 ATTTTTTATATTTTA
1 A-TTTTTATATTTTA
23823704 TATTTTTATATTTTTA
1 -ATTTTTATA-TTTTA
23823720 ATTT
1 ATTT
23823724 CTTTATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 18 0.56
16 14 0.44
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (14 bp):
ATTTTTATATTTTA
Found at i:23823706 original size:31 final size:32
Alignment explanation
Indices: 23823661--23823745 Score: 109
Period size: 31 Copynumber: 2.6 Consensus size: 32
23823651 GGGTTTAAGG
*
23823661 TTTATTTTTATATATTTTTATAGTTTTAATTT-
1 TTTATATTT-TATATTTTTATAGTTTTAATTTC
*
23823693 TTTATATTTTATATTTTTATATTTTTAATTTC
1 TTTATATTTTATATTTTTATAGTTTTAATTTC
*
23823725 TTTATATATATTATTTTTTTA
1 TTTATAT-T-TTATATTTTTA
23823746 AATAATTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
31 21 0.45
32 15 0.32
33 1 0.02
34 10 0.21
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (32 bp):
TTTATATTTTATATTTTTATAGTTTTAATTTC
Found at i:23823772 original size:27 final size:29
Alignment explanation
Indices: 23823718--23823772 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
23823708 TTTATATTTT
23823718 TAATTTCTTTATATATATTATTTTTTTAAA
1 TAATTTCTTTATATATA-TATTTTTTTAAA
*
23823748 TAATTT-TTTATATATA-CTTTTTTTA
1 TAATTTCTTTATATATATATTTTTTTA
23823773 GATGTAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
29 10 0.42
30 6 0.25
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (29 bp):
TAATTTCTTTATATATATATTTTTTTAAA
Found at i:23834168 original size:4 final size:4
Alignment explanation
Indices: 23834159--23834195 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
23834149 CTGAATCTGT
*
23834159 TTTA TTTA TTTA TTTA TTTA TTTA TTTC TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
23834196 ACTTTTGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:23839239 original size:51 final size:51
Alignment explanation
Indices: 23839121--23839363 Score: 280
Period size: 51 Copynumber: 4.8 Consensus size: 51
23839111 TATCATTCAA
* * *
23839121 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AACTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCGG
* *
23839171 TTCACGTAATAGCCTGCACATAGTACTACACACGTGACCATTAA-TATCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TAACTATCCGG
* *
23839222 TACACGTAGTAGCCTGCACATAGTACTACACATGTGATCA-AAGCTATCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAA-CTATCCGG
** * * * **
23839273 TATGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TTTC-ATTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACTA-TCCGG
* *
23839323 TACACGTAGTAGCCTACACATAGTACTGCACACGTGACCAT
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
23839364 CGCTTTCACT
Statistics
Matches: 163, Mismatches: 23, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
49 3 0.02
50 74 0.45
51 84 0.52
52 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCGG
Found at i:23839259 original size:101 final size:101
Alignment explanation
Indices: 23839121--23839359 Score: 340
Period size: 101 Copynumber: 2.4 Consensus size: 101
23839111 TATCATTCAA
* *
23839121 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAA-CTTTCCGGT-T-CACGTAATAG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAAGCTATCCGGTATGCA--TAATAG
*
23839183 CCTGCACATAGTACTACACACGTGACCATTAATATCCGG
64 CCTGCACATAGTACTACACACGCGACCATTAAT-TCCGG
* * *
23839222 TACACGTAGTAGCCTGCACATAGTACTACACATGTGATCAAAGCTATCCGGTATGCATAGTAGCC
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAAGCTATCCGGTATGCATAATAGCC
* * *
23839287 TGCACATAGTACTACACATGCGACCTTTCATTCCGG
66 TGCACATAGTACTACACACGCGACCATTAATTCCGG
*
23839323 TACACGTAGTAGCCTACACATAGTACTGCACACGTGA
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGA
23839360 CCATCGCTTT
Statistics
Matches: 124, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
101 79 0.64
102 42 0.34
103 1 0.01
104 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (101 bp):
TACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAAGCTATCCGGTATGCATAATAGCC
TGCACATAGTACTACACACGCGACCATTAATTCCGG
Found at i:23842268 original size:10 final size:9
Alignment explanation
Indices: 23842253--23842300 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
23842243 TATGAGTTTT
23842253 AAAAAAATC
1 AAAAAAATC
23842262 AAAAAAAATC
1 -AAAAAAATC
23842272 --AAAAATC
1 AAAAAAATC
23842279 AAAAAAATC
1 AAAAAAATC
*
23842288 AAAAAAATG
1 AAAAAAATC
23842297 AAAA
1 AAAA
23842301 TGATGGAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
7 7 0.20
9 19 0.54
10 9 0.26
ACGTcount: A:0.79, C:0.08, G:0.02, T:0.10
Consensus pattern (9 bp):
AAAAAAATC
Found at i:23842293 original size:17 final size:18
Alignment explanation
Indices: 23842254--23842293 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
23842244 ATGAGTTTTA
23842254 AAAAAATCAAAAAAAATC
1 AAAAAATCAAAAAAAATC
23842272 -AAAAATC-AAAAAAATC
1 AAAAAATCAAAAAAAATC
23842288 AAAAAA
1 AAAAAA
23842294 ATGAAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAAAATCAAAAAAAATC
Found at i:23842300 original size:16 final size:17
Alignment explanation
Indices: 23842255--23842292 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
23842245 TGAGTTTTAA
23842255 AAAAATCAAAAAAAATC
1 AAAAATCAAAAAAAATC
23842272 AAAAATC-AAAAAAATC
1 AAAAATCAAAAAAAATC
23842288 AAAAA
1 AAAAA
23842293 AATGAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAAATCAAAAAAAATC
Found at i:23842325 original size:17 final size:17
Alignment explanation
Indices: 23842305--23842346 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
23842295 TGAAAATGAT
23842305 GGAAAAAG-AAAAGCAAA
1 GGAAAAAGAAAAAG-AAA
23842322 GGAAAAAGAAAAAGAAA
1 GGAAAAAGAAAAAGAAA
*
23842339 AGAAAAAG
1 GGAAAAAG
23842347 GAGAGGCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (17 bp):
GGAAAAAGAAAAAGAAA
Found at i:23842334 original size:7 final size:6
Alignment explanation
Indices: 23842306--23842346 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
23842296 GAAAATGATG
* *
23842306 GAAAAA G-AAAA GCAAAG GAAAAA GAAAAA G-AAAA GAAAAA G
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA G
23842347 GAGAGGCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:23842339 original size:11 final size:11
Alignment explanation
Indices: 23842306--23842346 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
23842296 GAAAATGATG
23842306 GAAAAAGAAAA
1 GAAAAAGAAAA
* *
23842317 GCAAAGGAAAAA
1 GAAAAAG-AAAA
23842329 GAAAAAGAAAA
1 GAAAAAGAAAA
23842340 GAAAAAG
1 GAAAAAG
23842347 GAGAGGCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:23843322 original size:59 final size:62
Alignment explanation
Indices: 23843221--23843341 Score: 158
Period size: 59 Copynumber: 2.0 Consensus size: 62
23843211 AAGGAGAAGG
* * ** *
23843221 GACCAAGGTGAAAACCTGTAAAGGACGCTTTGAGTCTTAAAAA-AAAAGA-AAAAAGAAAAA
1 GACCAAGGTGAAAACCCGCAAAGGACGCTTTGAGTCCAAAAAATAAAAAATAAAAAGAAAAA
* *
23843281 GACCAAGGTG-AAACCCGCAAAGGGCGCTTTGAGTCCAAAAAATAAAAAATAAAAAGTAAAA
1 GACCAAGGTGAAAACCCGCAAAGGACGCTTTGAGTCCAAAAAATAAAAAATAAAAAGAAAAA
23843342 CTAGAGAGGC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 27 0.52
60 15 0.29
61 10 0.19
ACGTcount: A:0.52, C:0.14, G:0.20, T:0.14
Consensus pattern (62 bp):
GACCAAGGTGAAAACCCGCAAAGGACGCTTTGAGTCCAAAAAATAAAAAATAAAAAGAAAAA
Found at i:23844723 original size:45 final size:45
Alignment explanation
Indices: 23844603--23844874 Score: 431
Period size: 45 Copynumber: 6.1 Consensus size: 45
23844593 GGAGTGGATT
23844603 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
23844648 GAAGATAGCAG-TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
23844692 GAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
23844737 GAAGATAGCAGATCTTGTCTTCCTATACTGGCAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
23844782 GAAAATAGCAGATCTTGTCTTCCTGTGTTTGCAGCGAAGTAGA-C
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
23844826 TGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
1 -GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
23844872 GAA
1 GAA
23844875 TACACCAGCC
Statistics
Matches: 209, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
44 44 0.21
45 164 0.78
46 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:23845024 original size:89 final size:89
Alignment explanation
Indices: 23844737--23844992 Score: 280
Period size: 89 Copynumber: 2.9 Consensus size: 89
23844727 AAAGTAGATC
* ** * * * * * *
23844737 GAAGATAGCAGATCTTGTCTTCCTATACTGGCAGCAAAGTAGATCGAAAATAGCAGATCTTGTCT
1 GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAATACACCA-ACCTTGCCT
* * * * * *
23844802 TCCTGTGTTTGCAGCGAAGTAGACT
65 CCCTGAGTTTGCAACGGAGCAAACT
* * *
23844827 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAATACACCAGCCTTGCCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAATACACCAACCTTGCCTC
23844892 CCTGAGTTTGCAACGGAGCAAACT
66 CCTGAGTTTGCAACGGAGCAAACT
* * * *
23844916 AAAAACAGCAAATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAA-AGCACCAACCTTGCCT
1 GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAATA-CACCAACCTTGCCT
*
23844980 CTCTGAGTTTGCA
65 CCCTGAGTTTGCA
23844993 GTGGATTAGG
Statistics
Matches: 141, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
88 1 0.01
89 92 0.65
90 48 0.34
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (89 bp):
GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAATACACCAACCTTGCCTC
CCTGAGTTTGCAACGGAGCAAACT
Found at i:23845355 original size:44 final size:44
Alignment explanation
Indices: 23845296--23845407 Score: 127
Period size: 44 Copynumber: 2.5 Consensus size: 44
23845286 ATAACCACCT
* *** *
23845296 TTATTTCCTTGAAGTTGCAGTGGAACCGGTTGAAGATATCAA-TC
1 TTATCTCCTTGAAGTTGCAGTGGAACAAATTGAAGATA-CAAGTA
* * *
23845340 TTATCTCCTTAAAGTTGCAGTGGGACAAATTGAAGTTACAAGTA
1 TTATCTCCTTGAAGTTGCAGTGGAACAAATTGAAGATACAAGTA
*
23845384 TTATCTCCCTGAAGTTGCAGTGGA
1 TTATCTCCTTGAAGTTGCAGTGGA
23845408 GTAGACTGAG
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 3 0.05
44 53 0.95
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (44 bp):
TTATCTCCTTGAAGTTGCAGTGGAACAAATTGAAGATACAAGTA
Found at i:23853072 original size:32 final size:32
Alignment explanation
Indices: 23853036--23853104 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
23853026 ATATTTCATT
23853036 AATTTATTAAACAATTACTTGATTTTAACAAC
1 AATTTATTAAACAATTACTTGATTTTAACAAC
*
23853068 AATTTATTAAACAATTACTTGGTTTTAACAAC
1 AATTTATTAAACAATTACTTGATTTTAACAAC
23853100 AATTT
1 AATTT
23853105 TAAGTAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (32 bp):
AATTTATTAAACAATTACTTGATTTTAACAAC
Found at i:23859158 original size:96 final size:94
Alignment explanation
Indices: 23859053--23859235 Score: 285
Period size: 95 Copynumber: 1.9 Consensus size: 94
23859043 CTCTAGTTAA
* * * *
23859053 ATATTTAATTGGACATTGGAAACCCTTATGATCTTTTGAACTACACTAATAACATTGCACAAAAG
1 ATATTTAATTGGACACTAGAAACCCTTATGATCTTTTGAACT-CACCAATAACAGTGCACAAAAG
*
23859118 GTGATATCTCAATTGTATTCTCTCTATTTGG
65 GTGATATCTCAATCGTATT-TCTCTATTTGG
* *
23859149 ATATTTAATTGGACACTAGAAGCTCTTATGATCTTTTGAACTCACCAATAACAGTGCACAAAAGG
1 ATATTTAATTGGACACTAGAAACCCTTATGATCTTTTGAACTCACCAATAACAGTGCACAAAAGG
23859214 TGATATCTCAATCGTATTTCTC
66 TGATATCTCAATCGTATTTCTC
23859236 CTTTCATTTG
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
94 4 0.05
95 38 0.47
96 38 0.47
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (94 bp):
ATATTTAATTGGACACTAGAAACCCTTATGATCTTTTGAACTCACCAATAACAGTGCACAAAAGG
TGATATCTCAATCGTATTTCTCTATTTGG
Found at i:23860546 original size:17 final size:17
Alignment explanation
Indices: 23860509--23860556 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
23860499 GACTTTAGAA
*
23860509 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
23860525 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
23860542 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
23860557 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:23861857 original size:46 final size:46
Alignment explanation
Indices: 23861783--23861873 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
23861773 TGGAAAAGTA
* *
23861783 TGAAATGTAGGTATGATGTTTCAGTGAAGAAAACCATACTGAGTTG
1 TGAAAAGTAGGTATGATATTTCAGTGAAGAAAACCATACTGAGTTG
*
23861829 TGAAAAGTAGGTATGGTATTTCCA-TGAAGAAAACCATACTGAGTT
1 TGAAAAGTAGGTATGATATTT-CAGTGAAGAAAACCATACTGAGTT
23861874 ATAGCAATGT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 39 0.95
47 2 0.05
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (46 bp):
TGAAAAGTAGGTATGATATTTCAGTGAAGAAAACCATACTGAGTTG
Found at i:23867268 original size:75 final size:75
Alignment explanation
Indices: 23867185--23867341 Score: 296
Period size: 75 Copynumber: 2.1 Consensus size: 75
23867175 ACTCTAGTGC
*
23867185 TTCAAAAGATTTGTTTTATGTTTTGATTTATCTTAGCTTGAGAAATAAAGTTATGTGATTTTAAA
1 TTCAAAAGATTTGTTGTATGTTTTGATTTATCTTAGCTTGAGAAATAAAGTTATGTGATTTTAAA
23867250 ATGTGCATCT
66 ATGTGCATCT
23867260 TTCAAAAGATTTGTTGTATGTTTTGATTTATCTTAGCTTGAGAAATAAAGTTATGTGATTTTAAA
1 TTCAAAAGATTTGTTGTATGTTTTGATTTATCTTAGCTTGAGAAATAAAGTTATGTGATTTTAAA
23867325 ATGTGCATCT
66 ATGTGCATCT
23867335 TTGCAAA
1 TT-CAAA
23867342 TGTGAAAATT
Statistics
Matches: 80, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
75 76 0.95
76 4 0.05
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (75 bp):
TTCAAAAGATTTGTTGTATGTTTTGATTTATCTTAGCTTGAGAAATAAAGTTATGTGATTTTAAA
ATGTGCATCT
Found at i:23867671 original size:31 final size:29
Alignment explanation
Indices: 23867601--23867676 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
23867591 GACTCAGGTT
* *
23867601 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
23867630 ACGTTTTAGTCACTTATGTTATCACGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
23867661 ACATTTTAGTCACTTA
1 ACATTTTAGTCACTTA
23867677 GCCGTTAGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 19 0.49
30 2 0.05
31 18 0.46
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.46
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:23869041 original size:49 final size:47
Alignment explanation
Indices: 23868914--23869058 Score: 137
Period size: 49 Copynumber: 3.0 Consensus size: 47
23868904 GTTGCATTGC
* ** * *
23868914 AACTCGGGCTCCCAATTCAATGTGGTTATATGGTCATGGGTTTAAGTAT
1 AACT-GGGCTCCCAGTT-AATGTGGTTATGCGGTCACGGGTTCAAGTAT
* * ** *
23868963 AACTAGGACTCCTAGTTGACGGTGATTATGCGGTCACGGGTTCAAGTAT
1 AACT-GGGCTCCCAGTT-AATGTGGTTATGCGGTCACGGGTTCAAGTAT
*
23869012 AACTGGGCCTCCCAGTTAATGATGGTTATGCAGTCACGGGTTCAAGT
1 AACTGGG-CTCCCAGTTAATG-TGGTTATGCGGTCACGGGTTCAAGT
23869059 TTCATGACAC
Statistics
Matches: 76, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
48 4 0.05
49 72 0.95
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (47 bp):
AACTGGGCTCCCAGTTAATGTGGTTATGCGGTCACGGGTTCAAGTAT
Found at i:23870264 original size:18 final size:18
Alignment explanation
Indices: 23870241--23870277 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23870231 AATCAAAGAA
23870241 ATTACAAAATATAAAATT
1 ATTACAAAATATAAAATT
23870259 ATTACAAAATATAAAATT
1 ATTACAAAATATAAAATT
23870277 A
1 A
23870278 AGACGACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATTACAAAATATAAAATT
Found at i:23882025 original size:53 final size:51
Alignment explanation
Indices: 23881952--23882144 Score: 241
Period size: 50 Copynumber: 3.8 Consensus size: 51
23881942 CCGGTTCACA
*
23881952 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGGTACACG
* * * * *
23882003 TAGTAGCCTCTGCACATTGTACTACACATGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAG-C-CTGCACATAGTACTACACATGTGA-CCATCA-CTATCTGGTACACG
*
23882056 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATCTGGTACACG
*
23882106 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
23882145 TTCACTTTCA
Statistics
Matches: 120, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
49 4 0.03
50 41 0.34
51 30 0.25
52 3 0.03
53 40 0.33
54 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGGTACACG
Found at i:23885536 original size:16 final size:16
Alignment explanation
Indices: 23885515--23885547 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23885505 ATTTGCGAAC
23885515 CTATATTACGTTATAA
1 CTATATTACGTTATAA
23885531 CTATATTACGTTATAA
1 CTATATTACGTTATAA
23885547 C
1 C
23885548 CCATTTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (16 bp):
CTATATTACGTTATAA
Found at i:23888823 original size:21 final size:20
Alignment explanation
Indices: 23888799--23888837 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
23888789 ATTTGGTAGC
* *
23888799 TTGTCTACATTATCTGGTGGG
1 TTGTCCACAATAT-TGGTGGG
23888820 TTGTCCACAATATTGGTG
1 TTGTCCACAATATTGGTG
23888838 TGTTAATAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.18, C:0.15, G:0.26, T:0.41
Consensus pattern (20 bp):
TTGTCCACAATATTGGTGGG
Done.