Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 76 of 167
Found at i:24196532 original size:47 final size:47
Alignment explanation
Indices: 24196481--24196797 Score: 483
Period size: 47 Copynumber: 6.7 Consensus size: 47
24196471 TTAGGATTCT
* * * *
24196481 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATAGCCG
24196528 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
24196575 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
*
24196622 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
*
24196669 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
* * * * * *
24196716 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
* * *
24196763 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
24196798 TCCCGAAGGG
Statistics
Matches: 252, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 251 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
Found at i:24203706 original size:21 final size:21
Alignment explanation
Indices: 24203657--24203698 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
24203647 GTGATGTTAG
*
24203657 TTGATGAAATATGAAATATAT
1 TTGATGAAATATGAAAGATAT
24203678 TTGATGAAATATGAAAGATAT
1 TTGATGAAATATGAAAGATAT
24203699 GTTTTGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.36
Consensus pattern (21 bp):
TTGATGAAATATGAAAGATAT
Found at i:24204169 original size:14 final size:15
Alignment explanation
Indices: 24204132--24204173 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
24204122 AATTATGAAC
24204132 TATATATGCTGAAATG
1 TATATATG-TGAAATG
*
24204148 TATA-ATGTGATA-G
1 TATATATGTGAAATG
24204161 TATATATGTGAAA
1 TATATATGTGAAA
24204174 GCCGAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.22
14 11 0.48
15 3 0.13
16 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (15 bp):
TATATATGTGAAATG
Found at i:24211913 original size:157 final size:157
Alignment explanation
Indices: 24211627--24211940 Score: 619
Period size: 157 Copynumber: 2.0 Consensus size: 157
24211617 TCATAGCTAT
24211627 TGCTCTTTATCTAAGTAATCACCTTTAATTCCAAATTGACAAGGTTGACATCCTTACTAATGATT
1 TGCTCTTTATCTAAGTAATCACCTTTAATTCCAAATTGACAAGGTTGACATCCTTACTAATGATT
*
24211692 CATTCAAATCACTCAAAGTGTTTAAGGTTCAATAATCAAGCACTCAACAGTCAAACATGAAAAGT
66 CATTCAAATCACTCAAAGTGCTTAAGGTTCAATAATCAAGCACTCAACAGTCAAACATGAAAAGT
24211757 TATTACCATAGGCTTGCATGAAAATCA
131 TATTACCATAGGCTTGCATGAAAATCA
24211784 TGCTCTTTATCTAAGTAATCACCTTTAATTCCAAATTGACAAGGTTGACATCCTTACTAATGATT
1 TGCTCTTTATCTAAGTAATCACCTTTAATTCCAAATTGACAAGGTTGACATCCTTACTAATGATT
24211849 CATTCAAATCACTCAAAGTGCTTAAGGTTCAATAATCAAGCACTCAACAGTCAAACATGAAAAGT
66 CATTCAAATCACTCAAAGTGCTTAAGGTTCAATAATCAAGCACTCAACAGTCAAACATGAAAAGT
24211914 TATTACCATAGGCTTGCATGAAAATCA
131 TATTACCATAGGCTTGCATGAAAATCA
24211941 AATCTCCACC
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (157 bp):
TGCTCTTTATCTAAGTAATCACCTTTAATTCCAAATTGACAAGGTTGACATCCTTACTAATGATT
CATTCAAATCACTCAAAGTGCTTAAGGTTCAATAATCAAGCACTCAACAGTCAAACATGAAAAGT
TATTACCATAGGCTTGCATGAAAATCA
Found at i:24214627 original size:25 final size:25
Alignment explanation
Indices: 24214594--24214641 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
24214584 AATTATAATT
**
24214594 TTAATAGAATTATAAAAATAAATTAA
1 TTAATAGAAAAATAAAAA-AAATTAA
24214620 TTAA-AGAAAAATAAAAAAAATT
1 TTAATAGAAAAATAAAAAAAATT
24214642 GGCAAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 11 0.55
26 4 0.20
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (25 bp):
TTAATAGAAAAATAAAAAAAATTAA
Found at i:24220236 original size:22 final size:21
Alignment explanation
Indices: 24220195--24220236 Score: 50
Period size: 22 Copynumber: 1.9 Consensus size: 21
24220185 TTTCAAAATG
24220195 TCAATCACCAAACTCATAATAA
1 TCAATCACCAAACT-ATAATAA
24220217 TCAATCAACCTAAACT-TAAT
1 TCAATC-ACC-AAACTATAAT
24220237 TACATAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
22 10 0.56
23 3 0.17
24 5 0.28
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (21 bp):
TCAATCACCAAACTATAATAA
Found at i:24221273 original size:11 final size:11
Alignment explanation
Indices: 24221257--24221282 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24221247 CAAAGCCCAC
24221257 ATCACAATAAT
1 ATCACAATAAT
24221268 ATCACAATAAT
1 ATCACAATAAT
24221279 ATCA
1 ATCA
24221283 TACATGAAAT
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:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:24221319 original size:149 final size:149
Alignment explanation
Indices: 24221049--24221344 Score: 475
Period size: 149 Copynumber: 2.0 Consensus size: 149
24221039 TGAGCCCAAT
* * * *
24221049 TCAATAACGGTGGCCTTTGGGCCTTAGCCTATGTCAGCCTCAGTTGGGCCAAAGCCCACATCGCA
1 TCAATAACGGTAGCCTTTGGGCCTTAGCCCATATCAGCCTCAGTTGGGCCAAAGCCCACATCACA
* * * * *
24221114 ATAATATCACAATAATATTATACGTGCAATGCTGTTCAACCCATCCCAATAATCCAACCGCTACA
66 ATAATATCACAATAATATCATACATGAAATGCTGTGCAACCCACCCCAATAATCCAACCGCTACA
**
24221179 CACCAACTTTGTCCCCCAG
131 CACCAACTCCGTCCCCCAG
*
24221198 TCAATAACGGTAGCCTTTGGGCCTTAGCCCATATTAGCCTCAGTTGGGCCAAAGCCCACATCACA
1 TCAATAACGGTAGCCTTTGGGCCTTAGCCCATATCAGCCTCAGTTGGGCCAAAGCCCACATCACA
*
24221263 ATAATATCACAATAATATCATACATGAAATGCTGTGCAACCCACCCCAATAATCCAACTGCTACA
66 ATAATATCACAATAATATCATACATGAAATGCTGTGCAACCCACCCCAATAATCCAACCGCTACA
24221328 CACCAACTCCGTCCCCC
131 CACCAACTCCGTCCCCC
24221345 GGTACACATC
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
149 134 1.00
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.23
Consensus pattern (149 bp):
TCAATAACGGTAGCCTTTGGGCCTTAGCCCATATCAGCCTCAGTTGGGCCAAAGCCCACATCACA
ATAATATCACAATAATATCATACATGAAATGCTGTGCAACCCACCCCAATAATCCAACCGCTACA
CACCAACTCCGTCCCCCAG
Found at i:24222020 original size:29 final size:28
Alignment explanation
Indices: 24221960--24222044 Score: 109
Period size: 29 Copynumber: 3.0 Consensus size: 28
24221950 ACATACATGT
* *
24221960 ATATGGCCCACTAGGCCCAATCTCATTC
1 ATATGGCCCATTAGGCCCAATCACATTC
24221988 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCC-AATCACATTC
**
24222017 ATATGGCCCATCCGGCCCGAATCA-ATTC
1 ATATGGCCCATTAGGCCC-AATCACATTC
24222045 CAAGCCATGT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 21 0.41
29 30 0.59
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACATTC
Found at i:24234404 original size:24 final size:24
Alignment explanation
Indices: 24234376--24234452 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
24234366 GCTCCTCCTA
24234376 AGCTGATAAATAAT-AGCTCTATTG
1 AGCTGA-AAATAATAAGCTCTATTG
**
24234400 AGCTGAAAATGGTAAGCTCTATTG
1 AGCTGAAAATAATAAGCTCTATTG
* * *
24234424 AGCTG--AACAATAAGCTCTTTTA
1 AGCTGAAAATAATAAGCTCTATTG
24234446 AGCTGAA
1 AGCTGAA
24234453 TCGGTAAGCT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
22 17 0.40
23 5 0.12
24 21 0.49
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.30
Consensus pattern (24 bp):
AGCTGAAAATAATAAGCTCTATTG
Found at i:24234463 original size:23 final size:23
Alignment explanation
Indices: 24234411--24234509 Score: 83
Period size: 23 Copynumber: 4.3 Consensus size: 23
24234401 GCTGAAAATG
* *
24234411 GTAAGCTCTATTGAGCTGAA-CA
1 GTAAGCTCTAATAAGCTGAATCA
* ** *
24234433 ATAAGCTCTTTTAAGCTGAATCG
1 GTAAGCTCTAATAAGCTGAATCA
* * *
24234456 GTAAGCTCCAATGAGCTGAAACA
1 GTAAGCTCTAATAAGCTGAATCA
* * *
24234479 GTAAGCTCTTACAAGTTGAATCA
1 GTAAGCTCTAATAAGCTGAATCA
24234502 GTAAGCTC
1 GTAAGCTC
24234510 ATACGAGTTG
Statistics
Matches: 59, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
22 17 0.29
23 42 0.71
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (23 bp):
GTAAGCTCTAATAAGCTGAATCA
Found at i:24234471 original size:45 final size:46
Alignment explanation
Indices: 24234410--24234509 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 46
24234400 AGCTGAAAAT
* * **
24234410 GGTAAGCTCTATTGAGCTG-AACAATAAGCTCTTTTAAGCTGAATC
1 GGTAAGCTCCAATGAGCTGAAACAATAAGCTCTTACAAGCTGAATC
* *
24234455 GGTAAGCTCCAATGAGCTGAAACAGTAAGCTCTTACAAGTTGAATC
1 GGTAAGCTCCAATGAGCTGAAACAATAAGCTCTTACAAGCTGAATC
*
24234501 AGTAAGCTC
1 GGTAAGCTC
24234510 ATACGAGTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 17 0.36
46 30 0.64
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (46 bp):
GGTAAGCTCCAATGAGCTGAAACAATAAGCTCTTACAAGCTGAATC
Found at i:24234518 original size:23 final size:23
Alignment explanation
Indices: 24234449--24234519 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
24234439 TCTTTTAAGC
* * *
24234449 TGAATCGGTAAGCTCCA-ATGAGC
1 TGAATCAGTAAGCT-CATACGAGT
* * *
24234472 TGAAACAGTAAGCTCTTACAAGT
1 TGAATCAGTAAGCTCATACGAGT
24234495 TGAATCAGTAAGCTCATACGAGT
1 TGAATCAGTAAGCTCATACGAGT
24234518 TG
1 TG
24234520 TGGTGAGTCC
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 1 0.03
23 37 0.97
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (23 bp):
TGAATCAGTAAGCTCATACGAGT
Found at i:24263363 original size:47 final size:49
Alignment explanation
Indices: 24263138--24263659 Score: 866
Period size: 49 Copynumber: 10.9 Consensus size: 49
24263128 NNNNNNNNNN
*
24263138 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
24263187 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
24263236 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
24263285 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT-
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
* * * * * * *
24263333 T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
24263379 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
24263428 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
24263477 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
24263524 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
24263571 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
24263618 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
24263660 CTATCATTTC
Statistics
Matches: 454, Mismatches: 15, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 212 0.47
48 1 0.00
49 240 0.53
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
Found at i:24263474 original size:192 final size:192
Alignment explanation
Indices: 24263138--24263656 Score: 898
Period size: 192 Copynumber: 2.7 Consensus size: 192
24263128 NNNNNNNNNN
24263138 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATACACTTTCACA
1 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACA
* *
24263203 TTCATCACGTCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACGTCGGCCA
64 TTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCA
*
24263268 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
129 TTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
* * * * * * *
24263332 TTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATT
1 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
*
24263397 CATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
66 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
24263462 AGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
131 AGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
*
24263524 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
1 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
24263589 CATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT
66 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
24263652 AGGCC
131 AGGCC
24263657 TTACTATCAT
Statistics
Matches: 305, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
190 40 0.13
192 226 0.74
194 39 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (192 bp):
TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
AGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
Found at i:24270294 original size:68 final size:68
Alignment explanation
Indices: 24270210--24270366 Score: 201
Period size: 68 Copynumber: 2.3 Consensus size: 68
24270200 CTTAAAATTA
* * * *
24270210 AGCTGTTCGAATGTGTTAGATTCACTATTCAAAGCA-TCATCATTTATGCTGTTTTATTTGGTAA
1 AGCTGTCCGAATGTGTTAGATTCACTATTCAAAGCACT-ACCATATATGCTGTTTTATTTAGTAA
24270274 ATGT
65 ATGT
* * * * *
24270278 AGCTGTCCGAATGTGTTAAATTCATTGTTCGATGCACTACCATATATGCTGTTTTATTTAGTAAA
1 AGCTGTCCGAATGTGTTAGATTCACTATTCAAAGCACTACCATATATGCTGTTTTATTTAGTAAA
24270343 TGT
66 TGT
*
24270346 AGCTGTCCGAATCTGTT-GATT
1 AGCTGTCCGAATGTGTTAGATT
24270367 TCACAGTTAA
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
67 3 0.04
68 73 0.95
69 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (68 bp):
AGCTGTCCGAATGTGTTAGATTCACTATTCAAAGCACTACCATATATGCTGTTTTATTTAGTAAA
TGT
Found at i:24275734 original size:27 final size:27
Alignment explanation
Indices: 24275696--24275757 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
24275686 ATGTCAGAAG
24275696 CTGTATCTAAATGGGCTAAGGCCTAAA
1 CTGTATCTAAATGGGCTAAGGCCTAAA
24275723 CTGTATCTAAATGGGCTAAGGCCTAAA
1 CTGTATCTAAATGGGCTAAGGCCTAAA
24275750 CTGTATCT
1 CTGTATCT
24275758 GAATCTGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (27 bp):
CTGTATCTAAATGGGCTAAGGCCTAAA
Found at i:24283808 original size:249 final size:247
Alignment explanation
Indices: 24283358--24283843 Score: 670
Period size: 249 Copynumber: 2.0 Consensus size: 247
24283348 TAGAAACAAT
* * *
24283358 GGAATTCATAGCTTGATTAAAGAGTTAATGATATCTTCTCATTGACATTGTGCGGATTGATAAAC
1 GGAATTCATAGCTCGATTAAAGAGTTAATGATATCCTCTCATTGACATTATGCGGATTGATAAAC
* *** * *
24283423 ATGGAAAGTGGTCACGGTTTGCTTGTTCTCAAACAAGCAATTTATTACAGTAATTTGTTGACAGT
66 ATGGAAAATAACCACGGTTTGCTTGTTCTCAAACAAGCAATTTATCACAGTAATTTGTTGACAAT
* * *
24283488 GATTATATTAATCATTAAGAAGAGACAATAGTGACAATAGGATAAAATAGGATTGTATTGAGTGA
131 GATCATATTAATCATTAAGAAGACACAACAGTGACAATAGGATAAAATAGGATTGTATTGAGTGA
* * * *
24283553 ACGGATTTAACTAAAATGACTTAATGATATCATATGATGGTATTAGCAATAA
196 ACGGATTTAACTAAAAGGAATCAATGATATCATATGAGGGTATTAGCAATAA
* * * *
24283605 GGAATTTATAGCTCGATTAAAGAGTTAATGATATCCTCTCATTGGCATTATGTGGATTGATAAAT
1 GGAATTCATAGCTCGATTAAAGAGTTAATGATATCCTCTCATTGACATTATGCGGATTGATAAAC
* * *
24283670 AT-GAAATATAACCACGGTTTACTCTTGTTCTCAAACAAGCAATTTATCATAGTCATTTGTTGAC
66 ATGGAAA-ATAACCACGGTTT--GCTTGTTCTCAAACAAGCAATTTATCACAGTAATTTGTTGAC
* * * *
24283734 AATGGTCATATTAATCATTAAGAATACACAACGGTGACAAT-GAGATAAAATATGATTGTATTGA
128 AATGATCATATTAATCATTAAGAAGACACAACAGTGACAATAG-GATAAAATAGGATTGTATTGA
*
24283798 GTGAACGGATTTAACTCAAAGGAATCAATGATATCATATGAGGGTA
192 GTGAACGGATTTAACTAAAAGGAATCAATGATATCATATGAGGGTA
24283844 ACACACACAT
Statistics
Matches: 207, Mismatches: 28, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
246 4 0.02
247 69 0.33
248 1 0.00
249 133 0.64
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (247 bp):
GGAATTCATAGCTCGATTAAAGAGTTAATGATATCCTCTCATTGACATTATGCGGATTGATAAAC
ATGGAAAATAACCACGGTTTGCTTGTTCTCAAACAAGCAATTTATCACAGTAATTTGTTGACAAT
GATCATATTAATCATTAAGAAGACACAACAGTGACAATAGGATAAAATAGGATTGTATTGAGTGA
ACGGATTTAACTAAAAGGAATCAATGATATCATATGAGGGTATTAGCAATAA
Found at i:24285220 original size:26 final size:25
Alignment explanation
Indices: 24285191--24285245 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
24285181 CAAGTTTTAG
24285191 TTTTGGAAACAAATTTAAAACTTTGA
1 TTTT-GAAACAAATTTAAAACTTTGA
****
24285217 TTTTTCCTCAAATTTAAAACTTTGA
1 TTTTGAAACAAATTTAAAACTTTGA
24285242 TTTT
1 TTTT
24285246 TCCTTTTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (25 bp):
TTTTGAAACAAATTTAAAACTTTGA
Found at i:24285228 original size:25 final size:25
Alignment explanation
Indices: 24285200--24285249 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
24285190 GTTTTGGAAA
24285200 CAAATTTAAAACTTTGATTTTTCCT
1 CAAATTTAAAACTTTGATTTTTCCT
24285225 CAAATTTAAAACTTTGATTTTTCCT
1 CAAATTTAAAACTTTGATTTTTCCT
24285250 TTTCATTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.48
Consensus pattern (25 bp):
CAAATTTAAAACTTTGATTTTTCCT
Found at i:24287114 original size:56 final size:56
Alignment explanation
Indices: 24287028--24287139 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
24287018 TAACTAAAGG
*
24287028 AAGTGATTTTGTTGAAGGGACTACACCAGAGAATTGTTAATTATGAGCCATCTATT
1 AAGTGATTTTGTTGAAGGGACTACACCAGAGAATTGTTAATTATAAGCCATCTATT
* *
24287084 AAGTGATTTTGTTGAAGGGACTACACCAGAGAATTGTTGATTGTAAGCCATCTATT
1 AAGTGATTTTGTTGAAGGGACTACACCAGAGAATTGTTAATTATAAGCCATCTATT
24287140 TAATTTTGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (56 bp):
AAGTGATTTTGTTGAAGGGACTACACCAGAGAATTGTTAATTATAAGCCATCTATT
Found at i:24293904 original size:18 final size:19
Alignment explanation
Indices: 24293869--24293905 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24293859 ATTATTAAGA
24293869 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
24293888 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
24293906 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:24293967 original size:21 final size:19
Alignment explanation
Indices: 24293929--24293967 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
24293919 TGTTAAAATA
*
24293929 TGATTAAATTATTTATTAC
1 TGATTAAATAATTTATTAC
24293948 TGATTATAATAATCTTATTA
1 TGATTA-AATAAT-TTATTA
24293968 AAATTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (19 bp):
TGATTAAATAATTTATTAC
Found at i:24294135 original size:44 final size:45
Alignment explanation
Indices: 24294070--24294160 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
24294060 ACCTCTATTC
* * *
24294070 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
*** *
24294114 CATTCAACCAAACAGTGGATTAGCTATTCCACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
24294159 CA
1 CA
24294161 CCTCTAATCC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 19 0.49
45 20 0.51
ACGTcount: A:0.36, C:0.30, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:24294164 original size:16 final size:16
Alignment explanation
Indices: 24294143--24294189 Score: 85
Period size: 17 Copynumber: 2.9 Consensus size: 16
24294133 TTAGCTATTC
24294143 CACCTCTAATCCAATA
1 CACCTCTAATCCAATA
24294159 CACCTCTAATCCCAATA
1 CACCTCTAAT-CCAATA
24294176 CACCTCTAATCCAA
1 CACCTCTAATCCAA
24294190 ACGCAGCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 14 0.47
17 16 0.53
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.23
Consensus pattern (16 bp):
CACCTCTAATCCAATA
Found at i:24313290 original size:197 final size:197
Alignment explanation
Indices: 24313053--24313448 Score: 783
Period size: 197 Copynumber: 2.0 Consensus size: 197
24313043 GCCTCTAGAT
24313053 TACCAATTGGTGTTTGGCTGGATGCTTAACAATAATCATCAACCAATAACTAGGCATAGTGTGGT
1 TACCAATTGGTGTTTGGCTGGATGCTTAACAATAATCATCAACCAATAACTAGGCATAGTGTGGT
24313118 GTTCAAATGTCATATGAGCTATGATACTTGTTTGTATTCTTGGAGTATTTCGAAGATATTTGCTT
66 GTTCAAATGTCATATGAGCTATGATACTTGTTTGTATTCTTGGAGTATTTCGAAGATATTTGCTT
24313183 GTAAATCTGGATCTTGTGGTGGTTTATTATTTGAATGCAGTTGATATCACTGTGATATCCGACAA
131 GTAAATCTGGATCTTGTGGTGGTTTATTATTTGAATGCAGTTGATATCACTGTGATATCCGACAA
24313248 TC
196 TC
*
24313250 TACCAATTGGTGTTTGGCTGGATGCTTAACAATAATCATCAACCAATAACTAGGCATAGTTTGGT
1 TACCAATTGGTGTTTGGCTGGATGCTTAACAATAATCATCAACCAATAACTAGGCATAGTGTGGT
24313315 GTTCAAATGTCATATGAGCTATGATACTTGTTTGTATTCTTGGAGTATTTCGAAGATATTTGCTT
66 GTTCAAATGTCATATGAGCTATGATACTTGTTTGTATTCTTGGAGTATTTCGAAGATATTTGCTT
24313380 GTAAATCTGGATCTTGTGGTGGTTTATTATTTGAATGCAGTTGATATCACTGTGATATCCGACAA
131 GTAAATCTGGATCTTGTGGTGGTTTATTATTTGAATGCAGTTGATATCACTGTGATATCCGACAA
24313445 TC
196 TC
24313447 TA
1 TA
24313449 GGTCATGAAG
Statistics
Matches: 198, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
197 198 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (197 bp):
TACCAATTGGTGTTTGGCTGGATGCTTAACAATAATCATCAACCAATAACTAGGCATAGTGTGGT
GTTCAAATGTCATATGAGCTATGATACTTGTTTGTATTCTTGGAGTATTTCGAAGATATTTGCTT
GTAAATCTGGATCTTGTGGTGGTTTATTATTTGAATGCAGTTGATATCACTGTGATATCCGACAA
TC
Found at i:24316434 original size:14 final size:15
Alignment explanation
Indices: 24316415--24316444 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24316405 TCTCAGTTAG
24316415 TTTC-TTTTTCTTTT
1 TTTCTTTTTTCTTTT
24316429 TTTCTTTTTTCTTTT
1 TTTCTTTTTTCTTTT
24316444 T
1 T
24316445 ATGTATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTCTTTTTTCTTTT
Found at i:24319707 original size:24 final size:24
Alignment explanation
Indices: 24319654--24319722 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
24319644 GAGCTGATGG
**
24319654 ACAGTAAGCTCTATTGAGCTG-AA
1 ACAGTAAGCTCTAACGAGCTGAAA
* *
24319677 ACGGTAAGCTCTAACAAGCTGAAA
1 ACAGTAAGCTCTAACGAGCTGAAA
*
24319701 ACAGTAAGCTCTTACGAGCTGA
1 ACAGTAAGCTCTAACGAGCTGA
24319723 TATATCGGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 17 0.45
24 21 0.55
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (24 bp):
ACAGTAAGCTCTAACGAGCTGAAA
Found at i:24319736 original size:26 final size:24
Alignment explanation
Indices: 24319669--24319746 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
24319659 AAGCTCTATT
*
24319669 GAGCTG-AAACGGTAAGCTCTAAC
1 GAGCTGAAAACGGTAAGCTCTTAC
* *
24319692 AAGCTGAAAACAGTAAGCTCTTAC
1 GAGCTGAAAACGGTAAGCTCTTAC
* * *
24319716 GAGCTGATATATCGGTAAGCTCATCC
1 GAGCTGA-A-AACGGTAAGCTCTTAC
24319742 GAGCT
1 GAGCT
24319747 ATGGTGAGTC
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
23 5 0.11
24 21 0.48
25 1 0.02
26 17 0.39
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (24 bp):
GAGCTGAAAACGGTAAGCTCTTAC
Found at i:24320653 original size:21 final size:20
Alignment explanation
Indices: 24320624--24320662 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
24320614 TTTTTTTTTT
*
24320624 ACTATTTTATCATAATTAATA
1 ACTAATTTATCAT-ATTAATA
*
24320645 ACTAATTTATTATATTAA
1 ACTAATTTATCATATTAA
24320663 CCTTTTAATA
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:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (20 bp):
ACTAATTTATCATATTAATA
Found at i:24324902 original size:105 final size:105
Alignment explanation
Indices: 24324761--24324970 Score: 377
Period size: 105 Copynumber: 2.0 Consensus size: 105
24324751 AAATGTCCTA
* *
24324761 ATTGATATGACCTTGATAGTTGGAGATGTAATTAGAATGACTTGAAATTTCGGGACCAATTTAGA
1 ATTGATATGACCTTGATAGTTAGAGATGTAATTAGAATGACTTGAAATTTAGGGACCAATTTAGA
24324826 ATGAGGGTCATAAGGTGCAATTAG-TCCATATATTTATTTT
66 ATGAGGGTCATAAGGTGCAATTAGCT-CATATATTTATTTT
*
24324866 ATTGATATGACCTTGATAGTTAGAGATGTAATTAGAATGACTTGAAATTTAGGGATCAATTTAGA
1 ATTGATATGACCTTGATAGTTAGAGATGTAATTAGAATGACTTGAAATTTAGGGACCAATTTAGA
24324931 ATGAGGGTCATAAGGTGCAATTAGCTCATATATTTATTTT
66 ATGAGGGTCATAAGGTGCAATTAGCTCATATATTTATTTT
24324971 TAAATTTTGG
Statistics
Matches: 101, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
105 100 0.99
106 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (105 bp):
ATTGATATGACCTTGATAGTTAGAGATGTAATTAGAATGACTTGAAATTTAGGGACCAATTTAGA
ATGAGGGTCATAAGGTGCAATTAGCTCATATATTTATTTT
Found at i:24326380 original size:13 final size:13
Alignment explanation
Indices: 24326362--24326392 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
24326352 AAATTAAAGC
24326362 TATATTATAACCA
1 TATATTATAACCA
24326375 TATATTATAACCA
1 TATATTATAACCA
24326388 TATAT
1 TATAT
24326393 ACAACTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
TATATTATAACCA
Found at i:24332406 original size:26 final size:27
Alignment explanation
Indices: 24332368--24332419 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
24332358 AATAAATGTT
* * *
24332368 TATTATTATAAATAGTATGAAATATTG
1 TATTATTAAAAATAATATAAAATATTG
24332395 TATT-TTAAAAATAATATAAAATATT
1 TATTATTAAAAATAATATAAAATATT
24332420 CTATATTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (27 bp):
TATTATTAAAAATAATATAAAATATTG
Found at i:24332878 original size:16 final size:18
Alignment explanation
Indices: 24332859--24332895 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
24332849 ATTAAGATAA
24332859 ATATTATTTA-ATTT-TG
1 ATATTATTTATATTTATG
24332875 ATATTATTTATATTTATG
1 ATATTATTTATATTTATG
24332893 ATA
1 ATA
24332896 AATATTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
17 4 0.21
18 5 0.26
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATATTATTTATATTTATG
Found at i:24332900 original size:22 final size:20
Alignment explanation
Indices: 24332854--24332902 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 20
24332844 TAAATATTAA
24332854 GATAAATATTATTTAATTTT
1 GATAAATATTATTTAATTTT
24332874 G----ATATTATTTATATTTAT
1 GATAAATATTATTTA-ATTT-T
24332892 GATAAATATTA
1 GATAAATATTA
24332903 AATTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
16 10 0.43
17 4 0.17
18 2 0.09
20 1 0.04
22 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (20 bp):
GATAAATATTATTTAATTTT
Found at i:24334409 original size:9 final size:10
Alignment explanation
Indices: 24334385--24334446 Score: 61
Period size: 11 Copynumber: 5.8 Consensus size: 10
24334375 CACAAAAGTC
24334385 CTCTCATAATT
1 CTCTCA-AATT
24334396 CTCTCTAAATT
1 CTCTC-AAATT
24334407 CTCTCCAAATT
1 CTCT-CAAATT
24334418 CTCTCAAATTT
1 CTCTCAAA-TT
* *
24334429 CTTTCATATT
1 CTCTCAAATT
*
24334439 TTCTCAAA
1 CTCTCAAA
24334447 ACTCTCTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
10 11 0.26
11 30 0.70
12 2 0.05
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:24335601 original size:7 final size:7
Alignment explanation
Indices: 24335589--24335614 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24335579 TAATCGTTTC
24335589 GTATTTA
1 GTATTTA
24335596 GTATTTA
1 GTATTTA
24335603 GTATTTA
1 GTATTTA
24335610 GTATT
1 GTATT
24335615 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:24336145 original size:30 final size:30
Alignment explanation
Indices: 24336111--24336172 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
24336101 AATGACAATG
24336111 CGGGCCCATCAACAACG-CCTACACAATCAC
1 CGGGCCCATCAACAACGACC-ACACAATCAC
* * *
24336141 CGGGCCTATCAACAGCGACCACACAGTCAC
1 CGGGCCCATCAACAACGACCACACAATCAC
24336171 CG
1 CG
24336173 AACCCAACAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.31, C:0.42, G:0.18, T:0.10
Consensus pattern (30 bp):
CGGGCCCATCAACAACGACCACACAATCAC
Found at i:24340063 original size:126 final size:126
Alignment explanation
Indices: 24339838--24340407 Score: 863
Period size: 126 Copynumber: 4.5 Consensus size: 126
24339828 CCAAATAGGA
* * *
24339838 ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATAAATTTGCTGACAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * * * * *
24339903 ATTTAAAGCATTTTGGACACTATTTTTTTAGAAACGTCTTCTCAAAATTATTTTTTTAGAT
66 ACTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
*
24339964 ACTACTGTAGCAAAAGAGCGCCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * *
24340029 GCTTGAAGTGTTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAT
66 ACTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * **
24340090 ACTACTGTAGCAAAAGAGCGTCCACGTGAGAGTTTTTTTTTAGTAATTTTATTGACAGTGCATCC
1 ACTACTGTAGCAAAAGAGCGTCCACGTGAGAG-CTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
24340155 TGCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTTAAAATTA-TTTTTCAAAT
65 TACTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * *
24340216 ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGTAATTTTGCTGATAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
24340281 ACTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
66 ACTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
** * * * *
24340342 ACTACTGTAGCAAAAGAGCGTCCACGCAAAAGCTTTTTTCAGTACTTTTGTTGATAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
24340407 A
66 A
24340408 ATTTAATTAA
Statistics
Matches: 405, Mismatches: 37, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 77 0.19
126 252 0.62
127 76 0.19
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (126 bp):
ACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
ACTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
Found at i:24340505 original size:22 final size:21
Alignment explanation
Indices: 24340474--24340514 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
24340464 AATAGTTAAT
*
24340474 TTAATTAATTAACCTTAAACC
1 TTAATTAATTAACCCTAAACC
24340495 TTAATTTAATTAACCCTAAA
1 TTAA-TTAATTAACCCTAAA
24340515 ACCATAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAATTAATTAACCCTAAACC
Found at i:24340575 original size:15 final size:15
Alignment explanation
Indices: 24340506--24340581 Score: 62
Period size: 15 Copynumber: 4.5 Consensus size: 15
24340496 TAATTTAATT
*
24340506 AACCCTAAAACCATA
1 AACCCTAAAACCTTA
*
24340521 AACACAATAAAACCTTA
1 AAC-C-CTAAAACCTTA
24340538 AACCCTAATATACTAATCTTA
1 AACCCTAA-A-AC----CTTA
24340559 AACCCTAAAACCTTA
1 AACCCTAAAACCTTA
24340574 AACCCTAA
1 AACCCTAA
24340582 TTTAATTGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
15 18 0.36
16 3 0.06
17 14 0.28
19 2 0.04
20 1 0.02
21 12 0.24
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCTAAAACCTTA
Found at i:24340680 original size:140 final size:139
Alignment explanation
Indices: 24340420--24340680 Score: 436
Period size: 140 Copynumber: 1.9 Consensus size: 139
24340410 TTAATTAATT
24340420 AACCCTAAAAACTCTAAACCCTAATTTAATTAATTTTTTAAATTAATAGTTAATTTAATTAATTA
1 AACCCTAAAAACTCTAAACCCTAATTTAATTAATTTTTTAAATTAATAGTTAATTTAATTAATTA
* *
24340485 ACCTTAAACCTTAATTTAATTAACCCTAAAACCATAAACACAATAAAACCTTAAACCCTAATATA
66 ACCCTAAACCTTAATTTAATTAACCCTAAAACCATAAACACAATAAAACCATAAACCCTAATATA
24340550 CTAATCTTA
131 CTAATCTTA
* *
24340559 AACCCTAAAACCT-TAAACCCTAATTTAATTGATTTTTTTAAAATTAATAGTTAATTTAATTAAT
1 AACCCTAAAAACTCTAAACCCTAATTTAATT-AATTTTTT-AAATTAATAGTTAATTTAATTAAT
*
24340623 TAACCCTAAA-CTCTAATTTAGTTAACCCTAAAACCATAAACACAATAAAACCATAAAC
64 TAACCCTAAACCT-TAATTTAATTAACCCTAAAACCATAAACACAATAAAACCATAAAC
24340681 TCTTAAAGCC
Statistics
Matches: 114, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
138 17 0.15
139 21 0.18
140 76 0.67
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.34
Consensus pattern (139 bp):
AACCCTAAAAACTCTAAACCCTAATTTAATTAATTTTTTAAATTAATAGTTAATTTAATTAATTA
ACCCTAAACCTTAATTTAATTAACCCTAAAACCATAAACACAATAAAACCATAAACCCTAATATA
CTAATCTTA
Found at i:24340806 original size:22 final size:22
Alignment explanation
Indices: 24340775--24340821 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
24340765 ATAGTTAATT
24340775 TAATTAATTAATCC-T-AAACCC
1 TAATTAATTAA-CCTTAAAACCC
24340796 TAATCTAATTAACCTTAAAACCC
1 TAAT-TAATTAACCTTAAAACCC
24340819 TAA
1 TAA
24340822 GCACAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.26
22 8 0.35
23 9 0.39
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (22 bp):
TAATTAATTAACCTTAAAACCC
Found at i:24343174 original size:21 final size:22
Alignment explanation
Indices: 24343148--24343194 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
24343138 CTCTGCTCAA
*
24343148 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
24343169 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
24343191 ACTC
1 ACTC
24343195 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:24347439 original size:36 final size:36
Alignment explanation
Indices: 24347394--24347466 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
24347384 GTGTTATATG
*
24347394 ATTATTTTAGATTTTGGGAGTCTCGTGGTGGCTTTT
1 ATTATTTTAGATTCTGGGAGTCTCGTGGTGGCTTTT
24347430 ATTATTTTAGATTCTGGGAGTCTCGTGGTGGCTTTT
1 ATTATTTTAGATTCTGGGAGTCTCGTGGTGGCTTTT
24347466 A
1 A
24347467 CATCGAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.15, C:0.10, G:0.27, T:0.48
Consensus pattern (36 bp):
ATTATTTTAGATTCTGGGAGTCTCGTGGTGGCTTTT
Found at i:24349787 original size:35 final size:35
Alignment explanation
Indices: 24349713--24349894 Score: 157
Period size: 35 Copynumber: 5.1 Consensus size: 35
24349703 TACTTACTTG
* * * *
24349713 TATGGCCGAATACACATGGTTCATTATATCATCACA
1 TATGGCCGAATATACA-AGTTCAATATAACATCACA
* * *
24349749 TATGGCCGAATATACAAGTACAATATATCATCATA
1 TATGGCCGAATATACAAGTTCAATATAACATCACA
* * *
24349784 TATGACCGAATATATAAGTTCAATAAAACATCACA
1 TATGGCCGAATATACAAGTTCAATATAACATCACA
* * * *
24349819 TATAGTCGAATATTCAAGTTTAATATAACATCACA
1 TATGGCCGAATATACAAGTTCAATATAACATCACA
* * * * * *
24349854 TGTGGCCAAATATATATAAGTTGAATACATCATCACA
1 TATGGCC-GA-ATATACAAGTTCAATATAACATCACA
24349891 TATG
1 TATG
24349895 TACATACCTA
Statistics
Matches: 116, Mismatches: 28, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
35 76 0.66
36 16 0.14
37 24 0.21
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (35 bp):
TATGGCCGAATATACAAGTTCAATATAACATCACA
Found at i:24349844 original size:70 final size:72
Alignment explanation
Indices: 24349742--24349893 Score: 173
Period size: 70 Copynumber: 2.1 Consensus size: 72
24349732 TTCATTATAT
* * * *
24349742 CATCACATATGGCCGAATATACAAGTACAATATATCATCATATATGACC-GA-ATATATAAGTTC
1 CATCACATATAGCCGAATATACAAGTACAATATAACATCACATATGACCAAATATATATAAGTTC
24349805 AATAAAA
66 AATAAAA
* * ** * * *
24349812 CATCACATATAGTCGAATATTCAAGTTTAATATAACATCACATGTGGCCAAATATATATAAGTTG
1 CATCACATATAGCCGAATATACAAGTACAATATAACATCACATATGACCAAATATATATAAGTTC
* *
24349877 AATACAT
66 AATAAAA
24349884 CATCACATAT
1 CATCACATAT
24349894 GTACATACCT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
70 40 0.60
71 1 0.01
72 26 0.39
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (72 bp):
CATCACATATAGCCGAATATACAAGTACAATATAACATCACATATGACCAAATATATATAAGTTC
AATAAAA
Found at i:24355739 original size:25 final size:24
Alignment explanation
Indices: 24355711--24355772 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
24355701 GGAAGCTCAT
* *
24355711 AAGAACTATAATCGAGAAGTTCACA
1 AAGAACCAT-ATCGAAAAGTTCACA
*
24355736 AAGAACCATATTGAAAAGTTCACA
1 AAGAACCATATCGAAAAGTTCACA
* *
24355760 AAAAATCATATCG
1 AAGAACCATATCG
24355773 GGAAGCTCCG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 23 0.74
25 8 0.26
ACGTcount: A:0.50, C:0.16, G:0.13, T:0.21
Consensus pattern (24 bp):
AAGAACCATATCGAAAAGTTCACA
Found at i:24362978 original size:47 final size:46
Alignment explanation
Indices: 24362917--24363009 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 46
24362907 AGGGATAAAG
*
24362917 TTTCATTTTCAAACCTTGGGGAAAAAGTGTAAATATGCAAAAGTTTA
1 TTTCATTTCCAAACCTTGGGGAAAAAGTGT-AATATGCAAAAGTTTA
*
24362964 TTTCATTTCCAAACCTTGGGGAAAAAGTGTAATATGTAAAAGTTTA
1 TTTCATTTCCAAACCTTGGGGAAAAAGTGTAATATGCAAAAGTTTA
24363010 GGGGCAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 15 0.34
47 29 0.66
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (46 bp):
TTTCATTTCCAAACCTTGGGGAAAAAGTGTAATATGCAAAAGTTTA
Found at i:24363554 original size:53 final size:54
Alignment explanation
Indices: 24363375--24363581 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
24363365 ATTAGGGTTT
* * * * *
24363375 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGGAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * * * * * * *
24363429 AAGGAAATCATGGAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * *
24363484 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * *
24363537 AAGGATACCACGTAAGACCATGTCAAGACATGGCCATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
24363582 TAAAAAGGAA
Statistics
Matches: 122, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 45 0.37
54 35 0.29
55 42 0.34
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:24364244 original size:30 final size:30
Alignment explanation
Indices: 24364208--24364266 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
24364198 GCAAGCAAAG
24364208 TAAGTCTATATTATGAGATATTTAAATTTA
1 TAAGTCTATATTATGAGATATTTAAATTTA
24364238 TAAGTCTATATTATGAGATATTTAAATTT
1 TAAGTCTATATTATGAGATATTTAAATTT
24364267 CTGTAAGACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.47
Consensus pattern (30 bp):
TAAGTCTATATTATGAGATATTTAAATTTA
Found at i:24370558 original size:53 final size:54
Alignment explanation
Indices: 24370376--24370582 Score: 238
Period size: 53 Copynumber: 3.8 Consensus size: 54
24370366 ATTAGGGTTT
* * *
24370376 AAGGATACCAAGTAAGATCATGCCAAGGCATGG-AATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAA-TGGTAAGTTCTATAAGGC
* * * * * * * *
24370430 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGT-AAGTTCTATAAGGC
* * *
24370485 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCTATAAGGC
* *
24370538 AAGGATACCACGTAAGACCATGTCAAGGCATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTT
24370583 TAAAAAGGAA
Statistics
Matches: 124, Mismatches: 27, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
53 47 0.38
54 33 0.27
55 44 0.35
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCTATAAGGC
Found at i:24374321 original size:140 final size:140
Alignment explanation
Indices: 24374066--24374746 Score: 673
Period size: 140 Copynumber: 5.0 Consensus size: 140
24374056 AGTACTGAGA
* * ** *
24374066 CGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGGCTTGCCAACATATGCTTTGG-ACT
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCTGACATATGCTTTGGCA-A
* * * * * ** * * **
24374130 ACACTTTGTATAAGGTTTGAGATGTTCATATCTAAGGCAAAGCTTACATAAGAGTTGGCTTTGCC
65 ACCCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGCTTTGCC
*
24374195 CAACACTGTGC
130 CAACACTATGC
** * * * * *
24374206 CGACACTTTTGGGTAGACACTTTCCCAAGTGTAGGGATAGACTTGTTGACACACAG-TTTGGCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCTGACATA-TGCTTTGGCAA
**
24374270 ACCCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAAATTT-CT
65 ACCCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGCTTTGC-
*
24374334 CCAACACTATAC
129 CCAACACTATGC
* * * *
24374346 CGACACTTTTGGGCCGGCAATTTCCTAAGTGTTGGGATAGACTTGCTGACATATGCTTTGGCCAT
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCTGACATATGCTTTGGCAAA
* * * * * *
24374411 CCCTTTTTATAAGCGTTGGGATATGCATGCCTAGGGCAACACTTAAATAAGAGTCAGCTTTGTCG
66 CCCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGCTTTGCCC
24374476 AACACTATGC
131 AACACTATGC
* * * *
24374486 CAACGCTTTTGGGCCGACACTTTCTTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGG-ATA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCTGACATATGCTTTGGCA-A
* * *
24374550 ACTCTTTGTAT-AGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAATC-GCCTTTGT
65 ACCCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAG-CTTTGC
24374613 CCAACA-T-T--
129 CCAACACTATGC
* * * *
24374621 ----A----T--GCCGACACTTTCCTAAGTGTTGGAATAGACTTGCCGACATACGCTTTGGCCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCTGACATATGCTTTGGCAAA
* * * * * * * *
24374676 CTCTTTGCATAAGGGTCGGGATATGCATGCCTAAGACAACACTTAAATAAGAGTCGGTTTTGTCC
66 CCCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGCTTTGCCC
24374741 AACACT
131 AACACT
24374747 TAAATTTGAT
Statistics
Matches: 458, Mismatches: 72, Indels: 35
0.81 0.13 0.06
Matches are distributed among these distances:
125 57 0.12
126 51 0.11
127 3 0.01
137 1 0.00
138 2 0.00
139 53 0.12
140 289 0.63
141 2 0.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (140 bp):
CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCTGACATATGCTTTGGCAAA
CCCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGCTTTGCCC
AACACTATGC
Found at i:24374559 original size:280 final size:274
Alignment explanation
Indices: 24374066--24374746 Score: 742
Period size: 280 Copynumber: 2.5 Consensus size: 274
24374056 AGTACTGAGA
* * * *
24374066 CGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGGCTTGCCAACATATGCTTTGGAC-T
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGGCCAT
* * * ** * * *
24374130 ACACTTTGTATAAGGTTTGAGATGTTCATATCTAAGGCAA-AGCTTACATAAGAGTTGGCTTTGC
66 -CACTTTGTATAAGG-TTGGGATATGCATGCCTAAGGCAACA-CTTAAATAAGAGTCGGCTTTGT
* * * **
24374194 CCAACACTGTGCCGACACTTTTGGGTAGACACTTTCCCAAGTGTAGGGATAGACTTGTTGACACA
128 CCAACACTATGCCAACACTTTTGGGCAGACACTTTCCCAAGTGTAGGGATAGACTTGCCGACACA
*
24374259 CAGTTTGGCAAACCCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAG
193 CAGTTTGGCAAACCCTTTGTAT-AGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAA
24374324 TCAAATTTCTCCAACACTAT
257 TCAAATTTCTCCAACA-T-T
* * *
24374344 ACCGACACTTTTGGGCCGGCAATTTCCTAAGTGTTGGGATAGACTTGCTGACATATGCTTTGGCC
1 --CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGGCC
* * * *
24374409 ATCCCTTTTTATAAGCGTTGGGATATGCATGCCTAGGGCAACACTTAAATAAGAGTCAGCTTTGT
64 ATCACTTTGTATAAG-GTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGT
* * * ** * *
24374474 CGAACACTATGCCAACGCTTTTGGGCCGACACTTTCTTAAGTGTTGGGATAGACTTGCCGACATA
128 CCAACACTATGCCAACACTTTTGGGCAGACACTTTCCCAAGTGTAGGGATAGACTTGCCGACACA
* *
24374539 -TGCTTTGG-ATAACTCTTTGTATAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGA
193 CAG-TTTGGCA-AACCCTTTGTATAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGA
*** *
24374602 ATCGCCTTTGTCCAACATT
256 ATCAAATTTCTCCAACATT
* * *
24374621 ----A----T--GCCGACACTTTCCTAAGTGTTGGAATAGACTTGCCGACATACGCTTTGGCCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGGCCAT
* * * * *
24374676 CTCTTTGCATAAGGGTCGGGATATGCATGCCTAAGACAACACTTAAATAAGAGTCGGTTTTGTCC
66 CACTTTGTATAA-GGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCC
24374741 AACACT
130 AACACT
24374747 TAAATTTGAT
Statistics
Matches: 342, Mismatches: 53, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
265 107 0.31
266 1 0.00
267 1 0.00
271 1 0.00
277 1 0.00
278 1 0.00
279 55 0.16
280 172 0.50
281 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (274 bp):
CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGGCCAT
CACTTTGTATAAGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCA
ACACTATGCCAACACTTTTGGGCAGACACTTTCCCAAGTGTAGGGATAGACTTGCCGACACACAG
TTTGGCAAACCCTTTGTATAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAATCAA
ATTTCTCCAACATT
Found at i:24381551 original size:35 final size:35
Alignment explanation
Indices: 24381505--24381791 Score: 155
Period size: 35 Copynumber: 8.0 Consensus size: 35
24381495 CCTTAGACAT
* * **
24381505 GTTTATTCCAACATTTTTAAGATTGTTTTAAACGG
1 GTTTATCCCAACCTTTTTAAGATTGCCTTAAACGG
* * *
24381540 GTTTATCCCAACCTTTTAAAGGTTGCCTTAGACGG
1 GTTTATCCCAACCTTTTTAAGATTGCCTTAAACGG
* * * *
24381575 GTCTATCCCAACCTTTTTAAAGGTTGTCTTAGATA-AG
1 GTTTATCCCAACCTTTTT-AAGATTGCCTTA-A-ACGG
* * ** *
24381612 GTATATCCCAACCTTTTTAAGGTTATAC-TAGACGG
1 GTTTATCCCAACCTTTTTAAGATT-GCCTTAAACGG
* * ** * *
24381647 ATCTATCTTAACCTTTTTAAAGATTGCCTTAGACAAG
1 GTTTATCCCAACCTTTTT-AAGATTGCCTTAAAC-GG
* * * * * *
24381684 GTCTATCCCAACCTTTTTACGGTTGCTTTAGATGG
1 GTTTATCCCAACCTTTTTAAGATTGCCTTAAACGG
* * * * *
24381719 GTCTATCCCAATCTTTTTTAAGGGTTGCCTTAGACAAG
1 GTTTATCCCAA-CCTTTTTAA-GATTGCCTTAAAC-GG
* *
24381757 GTCTATCCCAACCTTTTTAAGGGTTGCCTTAAACG
1 GTTTATCCCAACCTTTTTAA-GATTGCCTTAAACG
24381792 AGTCTATTGT
Statistics
Matches: 200, Mismatches: 41, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
34 1 0.00
35 72 0.36
36 47 0.23
37 67 0.34
38 13 0.06
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (35 bp):
GTTTATCCCAACCTTTTTAAGATTGCCTTAAACGG
Found at i:24381600 original size:36 final size:36
Alignment explanation
Indices: 24381536--24381798 Score: 264
Period size: 37 Copynumber: 7.3 Consensus size: 36
24381526 ATTGTTTTAA
*
24381536 ACGGGTTTATCCCAACC-TTTTAAAGGTTGCCTTAG
1 ACGGGTCTATCCCAACCTTTTTAAAGGTTGCCTTAG
*
24381571 ACGGGTCTATCCCAACCTTTTTAAAGGTTGTCTTAG
1 ACGGGTCTATCCCAACCTTTTTAAAGGTTGCCTTAG
** * **
24381607 ATAAGGTATATCCCAACCTTTTT-AAGGTTATAC-TAG
1 A-CGGGTCTATCCCAACCTTTTTAAAGGTT-GCCTTAG
* ** *
24381643 ACGGATCTATCTTAACCTTTTTAAAGATTGCCTTAG
1 ACGGGTCTATCCCAACCTTTTTAAAGGTTGCCTTAG
* * *
24381679 ACAAGGTCTATCCCAACCTTTTT-ACGGTTGCTTTAG
1 AC-GGGTCTATCCCAACCTTTTTAAAGGTTGCCTTAG
* * *
24381715 ATGGGTCTATCCCAATCTTTTTTAAGGGTTGCCTTAG
1 ACGGGTCTATCCCAA-CCTTTTTAAAGGTTGCCTTAG
* * *
24381752 ACAAGGTCTATCCCAACCTTTTTAAGGGTTGCCTTAA
1 AC-GGGTCTATCCCAACCTTTTTAAAGGTTGCCTTAG
*
24381789 ACGAGTCTAT
1 ACGGGTCTAT
24381799 TGTAACACCC
Statistics
Matches: 185, Mismatches: 34, Indels: 17
0.78 0.14 0.07
Matches are distributed among these distances:
35 44 0.24
36 61 0.33
37 68 0.37
38 12 0.06
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (36 bp):
ACGGGTCTATCCCAACCTTTTTAAAGGTTGCCTTAG
Found at i:24381635 original size:72 final size:72
Alignment explanation
Indices: 24381543--24381798 Score: 325
Period size: 72 Copynumber: 3.5 Consensus size: 72
24381533 TAAACGGGTT
* *
24381543 TATCCCAACCTTTTAAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAAGGTTGTCTTAGA
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGA
* *
24381608 TAAGGTA
66 CAAGGTC
** * ** *
24381615 TATCCCAACCTTTTTAAGGTTATAC-TAGACGGATCTATCTTAACCTTTTTAAAGATTGCCTTAG
1 TATCCCAACCTTTTTAAGGTT-GCCTTAGACGGGTCTATCCCAACCTTTTTAAAGGTTGCCTTAG
24381679 ACAAGGTC
65 ACAAGGTC
* * * * *
24381687 TATCCCAACCTTTTTACGGTTGCTTTAGATGGGTCTATCCCAATCTTTTTTAAGGGTTGCCTTAG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAA-CCTTTTTAAAGGTTGCCTTAG
24381752 ACAAGGTC
65 ACAAGGTC
* *
24381760 TATCCCAACCTTTTTAAGGGTTGCCTTAAACGAGTCTAT
1 TATCCCAACCTTTTTAA-GGTTGCCTTAGACGGGTCTAT
24381799 TGTAACACCC
Statistics
Matches: 154, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
72 94 0.61
73 43 0.28
74 17 0.11
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (72 bp):
TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGA
CAAGGTC
Found at i:24383179 original size:27 final size:27
Alignment explanation
Indices: 24383149--24383326 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24383139 ATATTGAGTC
* * * *
24383149 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24383176 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24383203 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24383231 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24383258 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24383285 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24383312 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24383327 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24383288 original size:82 final size:81
Alignment explanation
Indices: 24383170--24383325 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24383160 TGCTATATAA
* *
24383170 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24383235 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24383252 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24383316 CACTTAGTGC
65 CACTTAGTGC
24383326 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24391656 original size:27 final size:27
Alignment explanation
Indices: 24391626--24391803 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24391616 ATATTGAGTC
* * * *
24391626 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24391653 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24391680 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24391708 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24391735 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24391762 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24391789 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24391804 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24391765 original size:82 final size:81
Alignment explanation
Indices: 24391647--24391802 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24391637 TGCTATATAA
* *
24391647 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24391712 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24391729 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24391793 CACTTAGTGC
65 CACTTAGTGC
24391803 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24396985 original size:25 final size:25
Alignment explanation
Indices: 24396957--24397004 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
24396947 TATGACTTTT
*
24396957 ATGAGTTTCCCGTTACATGGCTCAC
1 ATGAGCTTCCCGTTACATGGCTCAC
* *
24396982 ATGAGCTTCTCGTTATATGGCTC
1 ATGAGCTTCCCGTTACATGGCTC
24397005 GAGAGAGAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACATGGCTCAC
Found at i:24398588 original size:70 final size:75
Alignment explanation
Indices: 24398514--24398689 Score: 193
Period size: 70 Copynumber: 2.3 Consensus size: 75
24398504 ATGTGAACAA
* *
24398514 ATTGGAAATTAAAAGTGATTTGAATT-AAGT-AATTGAATT-AT-G-AATTATGTGAATATTTGA
1 ATTGGAAACTAAAAGTGATTTGAATTGAA-TAAATTGAATTAATAGAAAATATGTGAATATTTGA
24398574 AA-GTATATTG
65 AATGTATATTG
*
24398584 ATTGGAAACTAAAAGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAAATATGTGAGTATT
1 ATTGGAAACTAAAAGTGATTTGAATTGAAT-AAATTGAATT-AAT--AGAAAATATGTGAATATT
24398649 TGAAATGTATATTG
62 TGAAATGTATATTG
* * * *
24398663 ATTGAAAAGTAATTAGTGGTTTGAATT
1 ATTGGAAACTAA-AAGTGATTTGAATT
24398690 TGATTGAAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
70 26 0.30
71 2 0.02
72 9 0.10
74 2 0.02
77 1 0.01
78 18 0.20
79 18 0.20
80 12 0.14
ACGTcount: A:0.41, C:0.01, G:0.20, T:0.38
Consensus pattern (75 bp):
ATTGGAAACTAAAAGTGATTTGAATTGAATAAATTGAATTAATAGAAAATATGTGAATATTTGAA
ATGTATATTG
Found at i:24399044 original size:21 final size:22
Alignment explanation
Indices: 24399016--24399079 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
24399006 GCTTTGCCGA
24399016 TCAGGCACTATATGTGTCGTAT
1 TCAGGCACTATATGTGTCGTAT
* * *
24399038 T-AGGCACCATGTATGTCGT-T
1 TCAGGCACTATATGTGTCGTAT
*
24399058 TCAGGCACTTTATGTGTCGTAT
1 TCAGGCACTATATGTGTCGTAT
24399080 ACTGCTTCTG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (22 bp):
TCAGGCACTATATGTGTCGTAT
Found at i:24401126 original size:64 final size:64
Alignment explanation
Indices: 24401047--24401176 Score: 224
Period size: 64 Copynumber: 2.0 Consensus size: 64
24401037 CCCGACTTAA
24401047 TTCTAATGCGTGTTTTGGACCGCGAGGGCTCACATAATAGACAATATGATTGATTATGATTAGT
1 TTCTAATGCGTGTTTTGGACCGCGAGGGCTCACATAATAGACAATATGATTGATTATGATTAGT
* * * *
24401111 TTCTAATGCGTGTTTTGGACCTCTAGGGCTTACATAATGGACAATATGATTGATTATGATTAGT
1 TTCTAATGCGTGTTTTGGACCGCGAGGGCTCACATAATAGACAATATGATTGATTATGATTAGT
24401175 TT
1 TT
24401177 ATGATATGAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (64 bp):
TTCTAATGCGTGTTTTGGACCGCGAGGGCTCACATAATAGACAATATGATTGATTATGATTAGT
Found at i:24407970 original size:63 final size:63
Alignment explanation
Indices: 24407893--24408019 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
24407883 GATTTCGAGA
24407893 TTGAATTTGTGTTCCGAGAAATACAGAATTAATTCAAATAATTCTGAGTGAAGCTCACAGTAG
1 TTGAATTTGTGTTCCGAGAAATACAGAATTAATTCAAATAATTCTGAGTGAAGCTCACAGTAG
24407956 TTGAATTTGTGTTCCGAGAAATACAGAATTAATTCAAATAATTCTGAGTGAAGCTCACAGTAG
1 TTGAATTTGTGTTCCGAGAAATACAGAATTAATTCAAATAATTCTGAGTGAAGCTCACAGTAG
24408019 T
1 T
24408020 CATTTATCTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (63 bp):
TTGAATTTGTGTTCCGAGAAATACAGAATTAATTCAAATAATTCTGAGTGAAGCTCACAGTAG
Found at i:24413532 original size:12 final size:12
Alignment explanation
Indices: 24413515--24413539 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24413505 ATTGACACTC
24413515 TATAAATATTTA
1 TATAAATATTTA
24413527 TATAAATATTTA
1 TATAAATATTTA
24413539 T
1 T
24413540 GGCTCAGTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATAAATATTTA
Found at i:24419105 original size:25 final size:25
Alignment explanation
Indices: 24419077--24419127 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
24419067 ATATATTGTT
24419077 CCTATCATAGATTTCTAAGTTCTTG
1 CCTATCATAGATTTCTAAGTTCTTG
24419102 CCTATCATAGATTTCTAAGTTCTTG
1 CCTATCATAGATTTCTAAGTTCTTG
24419127 C
1 C
24419128 TATATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.43
Consensus pattern (25 bp):
CCTATCATAGATTTCTAAGTTCTTG
Found at i:24424500 original size:20 final size:20
Alignment explanation
Indices: 24424471--24424509 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
24424461 TGTAAAATTT
24424471 ATTAAATAATATTTTATATA
1 ATTAAATAATATTTTATATA
*
24424491 ATTAATTAATATTTTATAT
1 ATTAAATAATATTTTATAT
24424510 TTAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTAAATAATATTTTATATA
Found at i:24427249 original size:47 final size:45
Alignment explanation
Indices: 24427183--24427356 Score: 176
Period size: 47 Copynumber: 3.7 Consensus size: 45
24427173 GTTATGGTTG
*
24427183 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CACATTATGAGA
*
24427229 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATT---ATGAGA
* * *
24427277 GCTAGTGTAAGACATGTCTGAGACATGCATCGGCTACGA-GATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC-AC-ATTATGAGA
24427323 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCG
24427357 ACTTGAGATA
Statistics
Matches: 109, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
45 6 0.06
46 31 0.28
47 42 0.39
48 27 0.25
49 2 0.02
50 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCACATTATGAGA
Found at i:24427344 original size:94 final size:93
Alignment explanation
Indices: 24427183--24427364 Score: 278
Period size: 94 Copynumber: 1.9 Consensus size: 93
24427173 GTTATGGTTG
* * *
24427183 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCCACATTATGAGAGCTAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGAGACATGCATCGGCCACATGATGAGAGCTAGTGTAAGACCATGTC
24427248 TGGGACATGGCATCGACATTGAGACGAGA
66 TGGGACATGGCATCGAC-TTGAGACGAGA
* *
24427277 GCTAGTGTAAGACATGTCTGAGACATGCATCGGCTACGA-GATGATAG-TCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGAGACATGCATCGGCCAC-ATGATGAGAGCT-AGTGTAAGACCATG
24427340 TCTGGGACATGGCATCGACTTGAGA
64 TCTGGGACATGGCATCGACTTGAGA
24427365 TATAAGCCAG
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
93 7 0.09
94 73 0.90
95 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGAGACATGCATCGGCCACATGATGAGAGCTAGTGTAAGACCATGTC
TGGGACATGGCATCGACTTGAGACGAGA
Found at i:24427365 original size:47 final size:46
Alignment explanation
Indices: 24427223--24427404 Score: 217
Period size: 47 Copynumber: 3.9 Consensus size: 46
24427213 CGGCCACATT
*
24427223 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAG
1 ATGATAGC-AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAG
* * * * *
24427271 ACGAGAGCTAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCTACGAG
1 ATGATAGC-AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAG
24427317 ATGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAG
1 ATGATAG-CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAG
*
24427364 AT-ATAAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGA
1 ATGAT-AG-CAGTGTAAGACCATGTCTGGGACATGGCATCGA
24427405 AACCTTACCC
Statistics
Matches: 118, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
45 1 0.01
46 26 0.22
47 66 0.56
48 25 0.21
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
ATGATAGCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAG
Found at i:24427387 original size:94 final size:95
Alignment explanation
Indices: 24427232--24427403 Score: 260
Period size: 94 Copynumber: 1.8 Consensus size: 95
24427222 TATGAGAGCT
* * *
24427232 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAAAGCCAGTGTAAAACATGTCTG
24427297 AGACAT-GCATCGGCTACGAGATGATAGTC
66 AGACATGGCATCGGCTACGAGATGATAGTC
*
24427326 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGA-TATAAGCCAGTGTAAAACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGA-AAGCCAGTGTAAAA-CATGTC
*
24427389 TGGGACATGGCATCG
64 TGAGACATGGCATCG
24427404 AAACCTTACC
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
92 1 0.01
93 17 0.24
94 46 0.66
95 6 0.09
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAAAGCCAGTGTAAAACATGTCTG
AGACATGGCATCGGCTACGAGATGATAGTC
Found at i:24444578 original size:45 final size:45
Alignment explanation
Indices: 24444514--24444606 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
24444504 TAGGTACCTG
24444514 TACCACTCATAACACGGTTATAGTTTCCTTGTTAACTTGAAATCA
1 TACCACTCATAACACGGTTATAGTTTCCTTGTTAACTTGAAATCA
24444559 TACCACTCATAACACGGTTATAGTTTCCTTGTTAACTTGAAATCA
1 TACCACTCATAACACGGTTATAGTTTCCTTGTTAACTTGAAATCA
24444604 TAC
1 TAC
24444607 TTTCACCGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (45 bp):
TACCACTCATAACACGGTTATAGTTTCCTTGTTAACTTGAAATCA
Found at i:24444817 original size:46 final size:44
Alignment explanation
Indices: 24444723--24444891 Score: 153
Period size: 46 Copynumber: 3.7 Consensus size: 44
24444713 ATATCTGTGT
24444723 CGATGCCATGTCCCAGACATGGTCTTACACTCACACATCTCGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTCACACATCTCGTAGC
** *
24444769 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCG-AGGC
1 CGATGCATGTCCCAGACATGTCTTACACT--CACACATCTCGTA-GC
* * * * * *
24444815 CGATGCATGTCCCAAACATGCCTTACACTAGCACTCATTTC-AATGT
1 CGATGCATGTCCCAGACATGTCTTACACT--CACACATCTCGTA-GC
24444861 CGATGCCATGTCCCAGACATGGTCTTACACT
1 CGATG-CATGTCCCAGACAT-GTCTTACACT
24444892 AGCTCACAAT
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
44 10 0.10
45 15 0.15
46 55 0.54
47 13 0.13
48 9 0.09
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTCACACATCTCGTAGC
Found at i:24458627 original size:40 final size:40
Alignment explanation
Indices: 24458583--24458844 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
24458573 GCTCCTCGTT
* *
24458583 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
24458623 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
24458663 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
24458702 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
24458741 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
24458780 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
24458821 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24458845 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:24464056 original size:46 final size:46
Alignment explanation
Indices: 24463989--24464163 Score: 314
Period size: 46 Copynumber: 3.8 Consensus size: 46
24463979 TGTAACCCGC
* * * *
24463989 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
24464035 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
24464081 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
24464127 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24464164 TGCTCAACCA
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:24471944 original size:36 final size:36
Alignment explanation
Indices: 24471900--24471972 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
24471890 TAATGTTAAT
24471900 ATTAAATAAAACAAAAGTTAAAGTTATCATCTTTTA
1 ATTAAATAAAACAAAAGTTAAAGTTATCATCTTTTA
24471936 ATTAAATAAAACAAAAGTTAAAGTTATCATCTTTTA
1 ATTAAATAAAACAAAAGTTAAAGTTATCATCTTTTA
24471972 A
1 A
24471973 CCTTTGTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (36 bp):
ATTAAATAAAACAAAAGTTAAAGTTATCATCTTTTA
Found at i:24472487 original size:71 final size:71
Alignment explanation
Indices: 24472411--24472545 Score: 159
Period size: 71 Copynumber: 1.9 Consensus size: 71
24472401 TATTTTTCAA
* * * *
24472411 TATTATTAAACATACA-TATTTAATTATTTATA-TTTAGTCTT-ATAATAAATTATTAATATAAT
1 TATTATTAAA-ATAAATTATTTAA-TATTTAAATTTTA-TCTTAATAATAAATTATCAAAATAAT
24472473 AAATATAAT
63 AAATATAAT
** *
24472482 TATTATTTTAATAAATTATTTAATATTTAAATTTTATTTTAATAATAAATTATCAAAATAATAA
1 TATTATTAAAATAAATTATTTAATATTTAAATTTTATCTTAATAATAAATTATCAAAATAATAA
24472546 TTTTAAATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
70 14 0.26
71 40 0.74
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (71 bp):
TATTATTAAAATAAATTATTTAATATTTAAATTTTATCTTAATAATAAATTATCAAAATAATAAA
TATAAT
Found at i:24472505 original size:24 final size:21
Alignment explanation
Indices: 24472454--24472497 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
24472444 TTAGTCTTAT
24472454 AATA-AATTATTAATATAATA
1 AATATAATTATTAATATAATA
* *
24472474 AATATAATTATTATTTTAATA
1 AATATAATTATTAATATAATA
24472495 AAT
1 AAT
24472498 TATTTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATAATTATTAATATAATA
Found at i:24472610 original size:15 final size:15
Alignment explanation
Indices: 24472590--24472643 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
24472580 ATTCAATATT
24472590 AATATTTTAATAATA
1 AATATTTTAATAATA
*
24472605 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
24472624 AATATATTAATAATA
1 AATATTTTAATAATA
24472639 AATAT
1 AATAT
24472644 GCCATAAGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 16 0.50
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:24473947 original size:25 final size:25
Alignment explanation
Indices: 24473918--24473986 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
24473908 GTTTTGACCC
24473918 ACAGCTCGTGAGAGCATACCGACTT
1 ACAGCTCGTGAGAGCATACCGACTT
* **
24473943 ACAGCTCGTGAGAGCATATCGTTTT
1 ACAGCTCGTGAGAGCATACCGACTT
*
24473968 ACAGCTCGTGTGAGCATAC
1 ACAGCTCGTGAGAGCATAC
24473987 AAGTACAAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (25 bp):
ACAGCTCGTGAGAGCATACCGACTT
Found at i:24481463 original size:16 final size:15
Alignment explanation
Indices: 24481429--24481461 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
24481419 AGTAAAAAAG
24481429 AAACGTAAAAATTTT
1 AAACGTAAAAATTTT
24481444 AAACGTAAAAATTTT
1 AAACGTAAAAATTTT
24481459 AAA
1 AAA
24481462 ACAAACCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (15 bp):
AAACGTAAAAATTTT
Found at i:24483130 original size:6 final size:6
Alignment explanation
Indices: 24483114--24483155 Score: 75
Period size: 6 Copynumber: 6.8 Consensus size: 6
24483104 ATACCTAAAA
24483114 AAAAGC AAAAAGC AAAAGC AAAAGC AAAAGC AAAAGC AAAAG
1 AAAAGC -AAAAGC AAAAGC AAAAGC AAAAGC AAAAGC AAAAG
24483156 ATGACCATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.69, C:0.14, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAGC
Found at i:24484627 original size:41 final size:41
Alignment explanation
Indices: 24484570--24484651 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
24484560 TGGCAGAATC
24484570 TTTAGTTATTTCCTTCTTTGTCTCTGCTGCTGCTGTGGTTA
1 TTTAGTTATTTCCTTCTTTGTCTCTGCTGCTGCTGTGGTTA
24484611 TTTAGTTATTTCCTTCTTTGTCTCTGCTGCTGCTGTGGTTA
1 TTTAGTTATTTCCTTCTTTGTCTCTGCTGCTGCTGTGGTTA
24484652 CCTCCTCTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.07, C:0.20, G:0.20, T:0.54
Consensus pattern (41 bp):
TTTAGTTATTTCCTTCTTTGTCTCTGCTGCTGCTGTGGTTA
Found at i:24494529 original size:42 final size:42
Alignment explanation
Indices: 24494480--24494586 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
24494470 AGATTACGTG
****
24494480 TAAGACCATATCTGGGATATGGAATCGATATGAGATTTTGTA
1 TAAGACCATATCTGGGATATGGAATCGATATGAGATCCCATA
* * * *
24494522 TAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCCATG
1 TAAGACCATATCTGGGATA-TGGAATCGATATGAGATCCCATA
*
24494565 TAAGACCATATCTAGGATATGG
1 TAAGACCATATCTGGGATATGG
24494587 CATTGGTATG
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 20 0.38
43 33 0.62
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGAATCGATATGAGATCCCATA
Found at i:24506338 original size:23 final size:25
Alignment explanation
Indices: 24506299--24506366 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 25
24506289 GCTGATGGAT
*
24506299 AGTAAGCTC-TATTAAGCTGA-A-TC
1 AGTAAGCTCATA-CAAGCTGATAGTC
24506322 AGTAAGCTCATACAAGCTGATATGTC
1 AGTAAGCTCATACAAGCTGATA-GTC
* *
24506348 GGTAAGCTCATACTAGCTG
1 AGTAAGCTCATACAAGCTG
24506367 TGGTGAGTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 16 0.42
24 3 0.08
26 19 0.50
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (25 bp):
AGTAAGCTCATACAAGCTGATAGTC
Found at i:24517109 original size:21 final size:20
Alignment explanation
Indices: 24517077--24517120 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
24517067 ATGCATGCAT
24517077 AAAACCCAAACCCA-AATCCA
1 AAAACCCAAA-CCATAATCCA
24517097 AAAACCTCAAACCATAATCCA
1 AAAACC-CAAACCATAATCCA
24517118 AAA
1 AAA
24517121 TAAGGCTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.57, C:0.34, G:0.00, T:0.09
Consensus pattern (20 bp):
AAAACCCAAACCATAATCCA
Found at i:24541054 original size:15 final size:15
Alignment explanation
Indices: 24541006--24541048 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
24540996 TCTTGCAATT
24541006 TATTGTATAGA-TCAA
1 TATTGTATA-ATTCAA
24541021 -ATTAGTATAATTCAA
1 TATT-GTATAATTCAA
24541036 TATTGTATAATTC
1 TATTGTATAATTC
24541049 GTTATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.16
15 18 0.72
16 3 0.12
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (15 bp):
TATTGTATAATTCAA
Found at i:24543597 original size:37 final size:37
Alignment explanation
Indices: 24543547--24543623 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
24543537 CCATGCACAA
24543547 TAAACAAAAAAGGGTGAGTTTACGTAAACTCAGTGTG
1 TAAACAAAAAAGGGTGAGTTTACGTAAACTCAGTGTG
24543584 TAAACAAAAAAGGGTGAGTTTACGTAAACTCAGTGTG
1 TAAACAAAAAAGGGTGAGTTTACGTAAACTCAGTGTG
24543621 TAA
1 TAA
24543624 TCCCACAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (37 bp):
TAAACAAAAAAGGGTGAGTTTACGTAAACTCAGTGTG
Found at i:24550293 original size:126 final size:126
Alignment explanation
Indices: 24550058--24550710 Score: 868
Period size: 126 Copynumber: 5.2 Consensus size: 126
24550048 GAAAAAAACA
* * * * * * * * *
24550058 TCCAGTTGGGAGATTTTTTCATTACTTCTACTAATAGTGCATCCTCCTTGAAGC-ATTTTCAACC
1 TCCAGCTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACC
* *
24550122 TATTTTTTCAAAACCATCTTCTCAAAATTATTTTTTTAGAAACAACTATACAAAAAGAGCG
66 TATTTTTTCAAAACCATCTTCTCAAAATTATTTTTTCAGAAACAACTGTACAAAAAGAGCG
* * * *
24550183 TCTAGTTGGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTTAACC
1 TCCAGCTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACC
* *
24550248 TATTTTTCCAAAACCATCATCTCAAAATTATTTTTTCAGAAACAACTGTACAAAAAGAGCG
66 TATTTTTTCAAAACCATCTTCTCAAAATTATTTTTTCAGAAACAACTGTACAAAAAGAGCG
* * * * * *
24550309 TCTAGTTGGGAGCTTTTTTTAGTACTTTTGCTAACAGTGCATCTTGCTTGAAGCATTTTTCAACC
1 TCCAGCTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACC
* * * *
24550374 TATTTTTTCACAACCATCTTCTCAAAATTA-TTTTTCAGAAGCAATTGTACAAAAA-AACG
66 TATTTTTTCAAAACCATCTTCTCAAAATTATTTTTTCAGAAACAACTGTACAAAAAGAGCG
* * * * * * *
24550433 TCCAACTGGGAGC-TTTTTGAGTACTTTTGCTGATAGTGGATCTTGCTTGGAGCGTTTTTAAACC
1 TCCAGCTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACC
* *
24550497 TATTTTTTCAGAACAATCTTCTCAAAATTATTTTTTCAGAAACAACTGTACAAAAAGAGCG
66 TATTTTTTCAAAACCATCTTCTCAAAATTATTTTTTCAGAAACAACTGTACAAAAAGAGCG
* * * * *
24550558 TCCAGCTGAGAGTTTTTTTTAGTACTTTTGTTGACAGTGCATCCTGCTTGAAGTGTTTTTCAACC
1 TCCAGCTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACC
* *
24550623 T-TTTTTTTAGAACCATCTTCTCAAAATTA-TTTTTCAGAAACAACTGTACAAAAAGAGCG
66 TATTTTTTCAAAACCATCTTCTCAAAATTATTTTTTCAGAAACAACTGTACAAAAAGAGCG
*
24550682 TCCAGCTAGGAGCTTTTTTCAGTACTTTT
1 TCCAGCTGGGAGCTTTTTTCAGTACTTTT
24550711 ACTAACTATA
Statistics
Matches: 466, Mismatches: 58, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
123 72 0.15
124 91 0.20
125 108 0.23
126 195 0.42
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (126 bp):
TCCAGCTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACC
TATTTTTTCAAAACCATCTTCTCAAAATTATTTTTTCAGAAACAACTGTACAAAAAGAGCG
Found at i:24550526 original size:249 final size:251
Alignment explanation
Indices: 24550058--24550710 Score: 918
Period size: 249 Copynumber: 2.6 Consensus size: 251
24550048 GAAAAAAACA
* * * * * *
24550058 TCCAGTTGGGAGATTTTTTCATTACTTCTACTAATAGTGCATCCTCCTTGAAGCA-TTTTCAACC
1 TCCAGTTGGGAGATTTTTTTAGTACTTTTGCTAACAGTGCATCCTGCTTGAAGCATTTTTCAACC
* * *
24550122 TATTTTTTCAAAACCATCTTCTCAAAATTATTTTTTTAGAAACAACTATACAAAAAGAGCGTCTA
66 TATTTTTTCAAAACCATCTTCTCAAAATTA-TTTTTCAGAAACAACTGTACAAAAAGAGCGTCCA
* * *
24550187 GTTGGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTTAACCTATT
130 GCTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTAAACCTATT
*
24550252 TTTCCAAAACCATCATCTCAAAATTATTTTTTCAGAAACAACTGTACAAAAAGAGCG
195 TTTCCAAAACAATCATCTCAAAATTATTTTTTCAGAAACAACTGTACAAAAAGAGCG
* * *
24550309 TCTAGTTGGGAGCTTTTTTTAGTACTTTTGCTAACAGTGCATCTTGCTTGAAGCATTTTTCAACC
1 TCCAGTTGGGAGATTTTTTTAGTACTTTTGCTAACAGTGCATCCTGCTTGAAGCATTTTTCAACC
* * * * *
24550374 TATTTTTTCACAACCATCTTCTCAAAATTATTTTTCAGAAGCAATTGTACAAAAA-AACGTCCAA
66 TATTTTTTCAAAACCATCTTCTCAAAATTATTTTTCAGAAACAACTGTACAAAAAGAGCGTCCAG
* * * * *
24550438 CTGGGAGC-TTTTTGAGTACTTTTGCTGATAGTGGATCTTGCTTGGAGCGTTTTTAAACCTATTT
131 CTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTAAACCTATTT
* * *
24550502 TTTCAGAACAATCTTCTCAAAATTATTTTTTCAGAAACAACTGTACAAAAAGAGCG
196 TTCCAAAACAATCATCTCAAAATTATTTTTTCAGAAACAACTGTACAAAAAGAGCG
* * * * * **
24550558 TCCAGCTGAGAGTTTTTTTTAGTACTTTTGTTGACAGTGCATCCTGCTTGAAGTGTTTTTCAACC
1 TCCAGTTGGGAGATTTTTTTAGTACTTTTGCTAACAGTGCATCCTGCTTGAAGCATTTTTCAACC
* *
24550623 T-TTTTTTTAGAACCATCTTCTCAAAATTATTTTTCAGAAACAACTGTACAAAAAGAGCGTCCAG
66 TATTTTTTCAAAACCATCTTCTCAAAATTATTTTTCAGAAACAACTGTACAAAAAGAGCGTCCAG
*
24550687 CTAGGAGCTTTTTTCAGTACTTTT
131 CTGGGAGCTTTTTTCAGTACTTTT
24550711 ACTAACTATA
Statistics
Matches: 353, Mismatches: 46, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
248 49 0.14
249 172 0.49
250 27 0.08
251 67 0.19
252 38 0.11
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (251 bp):
TCCAGTTGGGAGATTTTTTTAGTACTTTTGCTAACAGTGCATCCTGCTTGAAGCATTTTTCAACC
TATTTTTTCAAAACCATCTTCTCAAAATTATTTTTCAGAAACAACTGTACAAAAAGAGCGTCCAG
CTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTAAACCTATTT
TTCCAAAACAATCATCTCAAAATTATTTTTTCAGAAACAACTGTACAAAAAGAGCG
Found at i:24551733 original size:24 final size:24
Alignment explanation
Indices: 24551706--24551751 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
24551696 AATTATATTT
24551706 TCTAAAAAATTAATAATAAAAATA
1 TCTAAAAAATTAATAATAAAAATA
24551730 TCTAAAAAATTAATAATAAAAA
1 TCTAAAAAATTAATAATAAAAA
24551752 ATTTTAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (24 bp):
TCTAAAAAATTAATAATAAAAATA
Found at i:24551744 original size:15 final size:14
Alignment explanation
Indices: 24551708--24551754 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
24551698 TTATATTTTC
24551708 TAAAAAATTAATAA
1 TAAAAAATTAATAA
*
24551722 T-AAAAA-T-AT-C
1 TAAAAAATTAATAA
24551732 TAAAAAATTAATAA
1 TAAAAAATTAATAA
24551746 TAAAAAATT
1 TAAAAAATT
24551755 TTAAGTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
10 1 0.04
11 7 0.26
12 2 0.07
13 7 0.26
14 10 0.37
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAAAAATTAATAA
Found at i:24552104 original size:13 final size:14
Alignment explanation
Indices: 24552079--24552110 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
24552069 ATTCAATTTT
24552079 TATTTACATTAAAA
1 TATTTACATTAAAA
24552093 TATTTA-ATTAAAA
1 TATTTACATTAAAA
24552106 T-TTTA
1 TATTTA
24552111 GAATAGTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.22
13 8 0.44
14 6 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTTACATTAAAA
Found at i:24552470 original size:27 final size:25
Alignment explanation
Indices: 24552403--24552472 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
24552393 ACTACATTTT
** *
24552403 AAATTATATATTTATTTTTTAATAA
1 AAATTATATATTTAAATTTGAATAA
* **
24552428 AAATAATATAAGTAAATTTGAATATTA
1 AAATTATATATTTAAATTTGAATA--A
24552455 AAATTATATATTTAAATT
1 AAATTATATATTTAAATT
24552473 AATGTAAACA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 18 0.53
27 16 0.47
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (25 bp):
AAATTATATATTTAAATTTGAATAA
Found at i:24600432 original size:45 final size:45
Alignment explanation
Indices: 24600334--24600584 Score: 366
Period size: 45 Copynumber: 5.6 Consensus size: 45
24600324 CCGGTATTTT
* * *
24600334 GCCTGCTAGGCTCGAA-GCCCG-ATA-TCAT-TCACCGACATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACTGGCATTATA
* *
24600376 GCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCATTGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATA
**
24600421 GCCTAATAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATA
* *
24600466 GCCTGCTAGGCTCAAAGGCCTGAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATA
* *
24600511 GCCTGCGAAGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATA
24600556 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
24600585 CTGTACGATA
Statistics
Matches: 188, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
42 16 0.09
43 5 0.03
44 5 0.03
45 162 0.86
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATA
Found at i:24601334 original size:38 final size:37
Alignment explanation
Indices: 24601273--24601376 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 37
24601263 TAAAGACCCA
** *
24601273 CAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCCCG
1 CAGGCTTCGTGCT-GTATTATATCCGGGATAAATCCCG
24601311 CAGGCTTCGTGCTAGTATTATATCCGGGATAAATCCCG
1 CAGGCTTCGTGCT-GTATTATATCCGGGATAAATCCCG
* * *
24601349 CAGGCCTAGTGCTGATATTATATTCGGG
1 CAGGCTTCGTGCTG-TATTATATCCGGG
24601377 CCTTCGTGCC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
37 1 0.02
38 57 0.98
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (37 bp):
CAGGCTTCGTGCTGTATTATATCCGGGATAAATCCCG
Found at i:24601430 original size:43 final size:43
Alignment explanation
Indices: 24601376--24601472 Score: 167
Period size: 43 Copynumber: 2.3 Consensus size: 43
24601366 TTATATTCGG
24601376 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTACTCAA
1 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTACTCAA
* **
24601419 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTCGG
1 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTACTCAA
24601462 GCCTTCGTGCC
1 GCCTTCGTGCC
24601473 AAATTATTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.12, C:0.27, G:0.32, T:0.29
Consensus pattern (43 bp):
GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTACTCAA
Found at i:24601508 original size:25 final size:25
Alignment explanation
Indices: 24601474--24601634 Score: 277
Period size: 25 Copynumber: 6.4 Consensus size: 25
24601464 CTTCGTGCCA
*
24601474 AATTATTAAGAACAAATTTAACCAG
1 AATTATTAAGAACAAATTTAACCGG
24601499 AATTATTAAGAACAAATTTAACCGG
1 AATTATTAAGAACAAATTTAACCGG
*
24601524 AATTATTAAGAACAAATTTAACCGA
1 AATTATTAAGAACAAATTTAACCGG
*
24601549 AATTATTAAGAACAAATTTAATCGG
1 AATTATTAAGAACAAATTTAACCGG
*
24601574 AATTATTAAGAGCAAATTTAACCGG
1 AATTATTAAGAACAAATTTAACCGG
*
24601599 AATTATTAAGAACAAATTTAACCAG
1 AATTATTAAGAACAAATTTAACCGG
24601624 AATTATTAAGA
1 AATTATTAAGA
24601635 GCAAGTTAAC
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 128 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.29
Consensus pattern (25 bp):
AATTATTAAGAACAAATTTAACCGG
Found at i:24609794 original size:3 final size:3
Alignment explanation
Indices: 24609786--24609862 Score: 91
Period size: 3 Copynumber: 25.7 Consensus size: 3
24609776 GATCTTGAAG
* * * * * *
24609786 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAG AAG AAG AAG AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
24609834 AAG AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24609863 GATCCCAAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:24611123 original size:11 final size:10
Alignment explanation
Indices: 24611102--24611135 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
24611092 AAATGCTAGT
24611102 GAAAAAAAAA
1 GAAAAAAAAA
24611112 GAAAAGAAAAA
1 GAAAA-AAAAA
24611123 GAAGAAAAAAA
1 GAA-AAAAAAA
24611134 GA
1 GA
24611136 GAGCATATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.23
11 15 0.68
12 2 0.09
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:24618490 original size:27 final size:27
Alignment explanation
Indices: 24618460--24618637 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24618450 ATATTGAGTC
* * * *
24618460 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24618487 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24618514 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24618542 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24618569 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24618596 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24618623 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24618638 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24618599 original size:82 final size:81
Alignment explanation
Indices: 24618481--24618636 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24618471 TGCTATATAA
* *
24618481 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24618546 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24618563 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24618627 CACTTAGTGC
65 CACTTAGTGC
24618637 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24620395 original size:19 final size:19
Alignment explanation
Indices: 24620371--24620410 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
24620361 GTAGACTGGG
24620371 AAACCTCTGACACTTGAAC
1 AAACCTCTGACACTTGAAC
**
24620390 AAACCTCTGACGGTTGAAC
1 AAACCTCTGACACTTGAAC
24620409 AA
1 AA
24620411 GTTTTTGGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.20
Consensus pattern (19 bp):
AAACCTCTGACACTTGAAC
Found at i:24622340 original size:27 final size:27
Alignment explanation
Indices: 24622310--24622507 Score: 281
Period size: 27 Copynumber: 7.3 Consensus size: 27
24622300 TACTGAAATG
** *
24622310 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
24622337 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
24622364 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
24622391 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
24622418 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
24622445 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
24622472 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCGTTTTA
24622499 CCCTCGATT
1 CCCTCGATT
24622508 GTGAAATTAC
Statistics
Matches: 155, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 153 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:24622425 original size:81 final size:81
Alignment explanation
Indices: 24622310--24622507 Score: 317
Period size: 81 Copynumber: 2.4 Consensus size: 81
24622300 TACTGAAATG
* *
24622310 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
*
24622375 CAAAATTACCGTTTTA
66 CAAAATTACCATTTTA
*
24622391 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
24622456 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * *
24622472 CCCTC-AGTTTACAAAATTACCGTTTTACCCTCGATT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTCGATT
24622508 GTGAAATTAC
Statistics
Matches: 109, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 1 0.01
81 108 0.99
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.38
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:24622580 original size:54 final size:54
Alignment explanation
Indices: 24622506--24622661 Score: 181
Period size: 54 Copynumber: 2.9 Consensus size: 54
24622496 TTACCCTCGA
* * *
24622506 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* * ** *
24622560 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* **
24622614 TTGTGAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCGAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
24622662 CCTGATTTAC
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
53 4 0.05
54 81 0.92
55 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:24622676 original size:81 final size:81
Alignment explanation
Indices: 24622539--24622688 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
24622529 TGTAGGATAG
* ** *
24622539 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAGAAA
24622604 TACCACTAGTTTGTGA
66 TACCACTAGTTTGTGA
* *
24622620 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTATAGA
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACAGA
24622683 AATACC
64 AATACC
24622689 CTTGACTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
80 5 0.08
81 56 0.92
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAGAAA
TACCACTAGTTTGTGA
Found at i:24622677 original size:54 final size:54
Alignment explanation
Indices: 24622539--24622746 Score: 179
Period size: 54 Copynumber: 3.8 Consensus size: 54
24622529 TGTAGGATAG
* ** * *
24622539 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCACTAGTTTACAAAATTACCGAAATACCCTC-AATTTGTAA
* ***
24622593 AATTACCGAAATACCACTAGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCACTAGTTTACAAAATTACCGAAATACCCTCAATTTGTAA
* ** * * *
24622647 AATTACCAAAATACCCCT-GATTTACAAAATTATAGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCACTAG-TTTACAAAATTACCGAAATACCC-TCAATTTGT-AA
* * * *
24622703 AATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 AATTACCA-AAATACCACTAGTTTACAAAATTACCGAAATACCCT
24622747 TGGTTTGTAG
Statistics
Matches: 128, Mismatches: 20, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
53 1 0.01
54 81 0.63
55 9 0.07
56 36 0.28
57 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCACTAGTTTACAAAATTACCGAAATACCCTCAATTTGTAA
Found at i:24622678 original size:27 final size:27
Alignment explanation
Indices: 24622539--24622664 Score: 191
Period size: 27 Copynumber: 4.7 Consensus size: 27
24622529 TGTAGGATAG
24622539 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
24622566 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
24622593 AATTACCGAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
24622620 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
24622647 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
24622665 GATTTACAAA
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
26 3 0.03
27 83 0.92
28 4 0.04
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:24622685 original size:27 final size:27
Alignment explanation
Indices: 24622655--24622748 Score: 111
Period size: 27 Copynumber: 3.4 Consensus size: 27
24622645 AAAATTACCA
*
24622655 AAATACCCCTGATTTACAAAATTATAG
1 AAATACCCTTGATTTACAAAATTATAG
24622682 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTGA-TTTAC--AAAATTATAG
* *
24622711 AAATACCATTGGTTTACAAAATTACT-G
1 AAATACCCTTGATTTACAAAATTA-TAG
24622738 AAATACCCTTG
1 AAATACCCTTG
24622749 GTTTGTAGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
27 30 0.52
28 7 0.12
29 21 0.36
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATACCCTTGATTTACAAAATTATAG
Found at i:24622858 original size:27 final size:27
Alignment explanation
Indices: 24622805--24622869 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
24622795 TACCCCTAAT
*
24622805 AGGTAAAAAGACCGTAAAGCTCCTGTA
1 AGGTAAAATGACCGTAAAGCTCCTGTA
24622832 AGGTAAAATGACCGTAATA-C-CCTTGTA
1 AGGTAAAATGACCGTAA-AGCTCC-TGTA
*
24622859 TGGTAAAATGA
1 AGGTAAAATGA
24622870 GGAATATGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 2 0.06
27 31 0.91
28 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCTCCTGTA
Found at i:24623725 original size:25 final size:25
Alignment explanation
Indices: 24623691--24623748 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
24623681 ACGGGCTCTA
24623691 CCCCAGTTTACC-GAAAAGGGATTTG
1 CCCCAGTTTACCAG-AAAGGGATTTG
* *
24623716 CCCCAGTTTATCAGAAAGGGCTTTG
1 CCCCAGTTTACCAGAAAGGGATTTG
24623741 CCCCAGTT
1 CCCCAGTT
24623749 ATTAAAAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 29 0.97
26 1 0.03
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (25 bp):
CCCCAGTTTACCAGAAAGGGATTTG
Found at i:24623761 original size:24 final size:23
Alignment explanation
Indices: 24623704--24623775 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 23
24623694 CAGTTTACCG
*
24623704 AAAAGGGATTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAG-TTATC
*
24623728 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
24623752 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
24623776 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 4 0.10
24 13 0.32
25 24 0.59
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:24623955 original size:42 final size:42
Alignment explanation
Indices: 24623896--24624029 Score: 259
Period size: 42 Copynumber: 3.2 Consensus size: 42
24623886 TAGTCTCCCC
24623896 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
24623938 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
24623980 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
24624022 AAATGGGC
1 AAATGGGC
24624030 CTAAGGGCCA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:24624088 original size:31 final size:31
Alignment explanation
Indices: 24624053--24624229 Score: 338
Period size: 31 Copynumber: 5.7 Consensus size: 31
24624043 CGTTTACAGT
24624053 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
24624084 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
24624115 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
24624146 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
24624177 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
24624208 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
24624230 TCAAGACTAA
Statistics
Matches: 145, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
30 5 0.03
31 140 0.97
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:24628464 original size:46 final size:45
Alignment explanation
Indices: 24628367--24628530 Score: 192
Period size: 46 Copynumber: 3.6 Consensus size: 45
24628357 TATCTGTGCC
* * *
24628367 GATGCATGTCTCAGGCATGTCTTACACTAGC--ACATCTCGTAGCG
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCG-AGCT
*
24628411 GATGCATGTCCCAGACATGTCTTACACTACCTTACATCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGA-GCT
* *
24628457 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATG-T
1 GATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCGA-GCT
*
24628502 CGATGCATGTCCCAGACATGCCTTACACT
1 -GATGCATGTCCCAGACATGTCTTACACT
24628531 GGCTCACTTA
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
44 28 0.26
45 2 0.02
46 75 0.71
47 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGCT
Found at i:24631787 original size:35 final size:35
Alignment explanation
Indices: 24631736--24631808 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
24631726 ACTCTAGACA
24631736 TAGAACAACGTTCTGTATGAAAAGGAGAAGAACAG
1 TAGAACAACGTTCTGTATGAAAAGGAGAAGAACAG
* *
24631771 TAGAGCAACGTTCTGTATGGAAAGGAGAAGAACAG
1 TAGAACAACGTTCTGTATGAAAAGGAGAAGAACAG
24631806 TAG
1 TAG
24631809 TAGGAACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.29, T:0.18
Consensus pattern (35 bp):
TAGAACAACGTTCTGTATGAAAAGGAGAAGAACAG
Found at i:24637279 original size:26 final size:26
Alignment explanation
Indices: 24637232--24637281 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
24637222 TAATATCAAG
*
24637232 AATATAACTTAAAAGCATTTAAATCA
1 AATATAACTTAAAAGCAATTAAATCA
*
24637258 AATATAA-TTTAAAGCTAATTAAAT
1 AATATAACTTAAAAGC-AATTAAAT
24637282 ATAAGAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (26 bp):
AATATAACTTAAAAGCAATTAAATCA
Done.