Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 70 of 235
Found at i:24040468 original size:43 final size:43
Alignment explanation
Indices: 24040407--24040595 Score: 351
Period size: 43 Copynumber: 4.4 Consensus size: 43
24040397 TGCATTTCAA
24040407 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
24040450 GCCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
24040493 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
24040536 GCTCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
24040579 GCTCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
24040596 TGAAAACCAA
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 143 1.00
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:24047496 original size:189 final size:189
Alignment explanation
Indices: 24047176--24047553 Score: 729
Period size: 189 Copynumber: 2.0 Consensus size: 189
24047166 TCGTCTTGGT
24047176 ATCTTCCGATGGAAAATGCAACACGCACTTGTTGAGTAACTTCAAATTTGCCTTCAACACCAAGT
1 ATCTTCCGATGGAAAATGCAACACGCACTTGTTGAGTAACTTCAAATTTGCCTTCAACACCAAGT
*
24047241 CCTTGCAGTTGATAGGGTCGTAGATGCTTGGTAGTGGCCAAGCCATGTTTTTTTACCGTTCGAAT
66 CCTTGCAGTTGATAGGGTCGTAGATGCTTGGTAGTGGCCAAGCCAAGTTTTTTTACCGTTCGAAT
*
24047306 ACTAGCCATGTTTGACCTACTTCCACCATCAATAATGAGGCAACGAACTTTATCGTGGA
131 ACTAGCCATGTTTGACCTACTTCCACCATCAATAATGAGGCAACAAACTTTATCGTGGA
24047365 ATCTTCCGATGGAAAATGCAACACGCACTTGTTGAGTAACTTCAAATTTGCCTTCAACACCAAGT
1 ATCTTCCGATGGAAAATGCAACACGCACTTGTTGAGTAACTTCAAATTTGCCTTCAACACCAAGT
*
24047430 CCTTGCAGTTGATAGGGTCGTGGATGCTTGGTAGTGGCCAAGCCAAGTTTTTTTACCGTTCGAAT
66 CCTTGCAGTTGATAGGGTCGTAGATGCTTGGTAGTGGCCAAGCCAAGTTTTTTTACCGTTCGAAT
24047495 ACTAGCCATGTTTGACCTACTTCCACCATCAATAATGAGGCAACAAACTTTATCGTGGA
131 ACTAGCCATGTTTGACCTACTTCCACCATCAATAATGAGGCAACAAACTTTATCGTGGA
24047554 CACGGCAACG
Statistics
Matches: 186, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
189 186 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (189 bp):
ATCTTCCGATGGAAAATGCAACACGCACTTGTTGAGTAACTTCAAATTTGCCTTCAACACCAAGT
CCTTGCAGTTGATAGGGTCGTAGATGCTTGGTAGTGGCCAAGCCAAGTTTTTTTACCGTTCGAAT
ACTAGCCATGTTTGACCTACTTCCACCATCAATAATGAGGCAACAAACTTTATCGTGGA
Found at i:24047707 original size:54 final size:54
Alignment explanation
Indices: 24047640--24047747 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
24047630 GTCAACGATA
*
24047640 GTAGGTGTCAAATCTTCTTTATCTTTGTCGAATTGTCGAAATTCAGATCGCATT
1 GTAGATGTCAAATCTTCTTTATCTTTGTCGAATTGTCGAAATTCAGATCGCATT
*
24047694 GTAGATGTCAAATCTTCTTTATCTTTGTCGAATTGTCGAAATTTAGATCGCATT
1 GTAGATGTCAAATCTTCTTTATCTTTGTCGAATTGTCGAAATTCAGATCGCATT
24047748 ATCCTTTGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.42
Consensus pattern (54 bp):
GTAGATGTCAAATCTTCTTTATCTTTGTCGAATTGTCGAAATTCAGATCGCATT
Found at i:24048273 original size:12 final size:12
Alignment explanation
Indices: 24048257--24048317 Score: 59
Period size: 12 Copynumber: 4.7 Consensus size: 12
24048247 TTTTTGCTCG
24048257 ATTTTTTTTTCA
1 ATTTTTTTTTCA
* *
24048269 CTTTTTTTTTGA
1 ATTTTTTTTTCA
24048281 ATTTTTTTTTCA
1 ATTTTTTTTTCA
24048293 ATCAAATTTTTTTTCGA
1 AT----TTTTTTTTC-A
24048310 ATTTTTTT
1 ATTTTTTT
24048318 GATTTTTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
12 22 0.55
13 6 0.15
16 9 0.22
17 3 0.08
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.70
Consensus pattern (12 bp):
ATTTTTTTTTCA
Found at i:24048273 original size:24 final size:24
Alignment explanation
Indices: 24048246--24048292 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
24048236 TCTTTTCTTT
24048246 TTTTTTGCTCG-ATTTTTTTTTCAC
1 TTTTTT-CTCGAATTTTTTTTTCAC
* *
24048270 TTTTTTTTTGAATTTTTTTTTCA
1 TTTTTTCTCGAATTTTTTTTTCA
24048293 ATCAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.72
Consensus pattern (24 bp):
TTTTTTCTCGAATTTTTTTTTCAC
Found at i:24051325 original size:74 final size:74
Alignment explanation
Indices: 24051199--24051345 Score: 267
Period size: 74 Copynumber: 2.0 Consensus size: 74
24051189 CCCTGCACAG
* * *
24051199 AACTTCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGTGGAATCTATACATATAT
1 AACTTCAATACTGATACCGTTTCTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATAT
24051264 GGTACGACA
66 GGTACGACA
24051273 AACTTCAATACTGATACCGTTTCTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATAT
1 AACTTCAATACTGATACCGTTTCTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATAT
24051338 GGTACGAC
66 GGTACGAC
24051346 TCCTAATTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (74 bp):
AACTTCAATACTGATACCGTTTCTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATAT
GGTACGACA
Found at i:24052211 original size:34 final size:34
Alignment explanation
Indices: 24052168--24052236 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
24052158 ACCTATCAAT
*
24052168 TCAATTTCATATCAATTCATGCATTCACATTCCA
1 TCAATTTCATATCAATTCATGCATTCACAATCCA
24052202 TCAATTTCATATCAATTCATGCATTCACAATCCA
1 TCAATTTCATATCAATTCATGCATTCACAATCCA
24052236 T
1 T
24052237 ATACTCATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (34 bp):
TCAATTTCATATCAATTCATGCATTCACAATCCA
Found at i:24052567 original size:27 final size:27
Alignment explanation
Indices: 24052537--24052714 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
24052527 ATATTGAGCC
* *
24052537 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
24052564 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
24052591 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* ** * *
24052619 CGCACACTTAGGGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
24052646 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
24052673 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
24052700 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24052715 GTACAATTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24052676 original size:82 final size:81
Alignment explanation
Indices: 24052557--24052710 Score: 220
Period size: 82 Copynumber: 1.9 Consensus size: 81
24052547 GTGCTATATA
* *
24052557 ATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
24052622 ACACTTAGGGCCGCATG
65 ACACTTAGGGCCGCATG
* * ** *
24052639 ATCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGC
1 ATCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGC
24052703 ACACTTAG
65 ACACTTAG
24052711 TGCTGTACAA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
81 13 0.20
82 51 0.80
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (81 bp):
ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGGGCCGCATG
Found at i:24055711 original size:22 final size:22
Alignment explanation
Indices: 24055686--24055761 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
24055676 TTCCTTGAAT
24055686 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
24055708 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
24055732 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
24055755 ATGTGAT
1 ATGTGAT
24055762 GGATGTGGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:24055735 original size:47 final size:47
Alignment explanation
Indices: 24055605--24055789 Score: 200
Period size: 47 Copynumber: 3.9 Consensus size: 47
24055595 TTGTAACTTT
* *
24055605 GAATGGCCAATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCC
1 GAATGGCCAATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCC
* * * * *
24055652 GAATGGCCAATTTG-TG--TTTG-AACTTTCCTTGAATATGTGATAAGGCC
1 GAATGGCCAATGTGATGAATGTGAAAGTGT--AT--ATATGTGATAAGGCC
24055699 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
24055746 GAATGGCCAATGTGATGGATGTGGAAGTGTATAAATGTGATAAG
1 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
24055790 TCCCGAAGGG
Statistics
Matches: 116, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 3 0.03
45 1 0.01
46 2 0.02
47 96 0.83
48 2 0.02
49 1 0.01
50 3 0.03
51 4 0.03
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.30
Consensus pattern (47 bp):
GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:24067292 original size:46 final size:46
Alignment explanation
Indices: 24067225--24067716 Score: 669
Period size: 46 Copynumber: 10.7 Consensus size: 46
24067215 GATATTAATT
* * *
24067225 TCGTTGAGTTGAGTCCGAGTTCAATTACGGATGCGAATGTCTGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
* * *
24067271 TCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCGAAC
24067318 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
24067364 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
24067410 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
24067456 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
24067502 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
* * *
24067548 TCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCGAAC
* * * *
24067595 TCGTTGAGTTGAATCCGAGTTCACCTATGGATGCGAACG-CCTGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAAC
* * *
24067641 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
*
24067687 TCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGG
24067717 GCGGGTTACA
Statistics
Matches: 406, Mismatches: 20, Indels: 40
0.87 0.04 0.09
Matches are distributed among these distances:
42 4 0.01
43 10 0.02
45 8 0.02
46 308 0.76
47 58 0.14
48 5 0.01
50 9 0.02
51 4 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
Found at i:24075948 original size:93 final size:93
Alignment explanation
Indices: 24075789--24075974 Score: 354
Period size: 93 Copynumber: 2.0 Consensus size: 93
24075779 CCACCCAACC
24075789 GCTACACGCCACAGAAATATGCAGCATGGCTGCCAGATACAGAAAATGTGACAGAGTCACCAGAT
1 GCTACACGCCACAGAAATATGCAGCATGGCTGCCAGATACAGAAAATGTGACAGAGTCACCAGAT
* *
24075854 ACAGATATTTTGTGGCAGTGCCACCAGA
66 ACAAATATGTTGTGGCAGTGCCACCAGA
24075882 GCTACACGCCACAGAAATATGCAGCATGGCTGCCAGATACAGAAAATGTGACAGAGTCACCAGAT
1 GCTACACGCCACAGAAATATGCAGCATGGCTGCCAGATACAGAAAATGTGACAGAGTCACCAGAT
24075947 ACAAATATGTTGTGGCAGTGCCACCAGA
66 ACAAATATGTTGTGGCAGTGCCACCAGA
24075975 ACAGATATAT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (93 bp):
GCTACACGCCACAGAAATATGCAGCATGGCTGCCAGATACAGAAAATGTGACAGAGTCACCAGAT
ACAAATATGTTGTGGCAGTGCCACCAGA
Found at i:24076362 original size:78 final size:78
Alignment explanation
Indices: 24076233--24076390 Score: 307
Period size: 78 Copynumber: 2.0 Consensus size: 78
24076223 TTTAGCCAGA
24076233 AACACTTACCGAGCGTTCTTACCGAATTGGGCCCGTTGGCCCATTAACCCAGTTTTGGCCCATTA
1 AACACTTACCGAGCGTTCTTACCGAATTGGGCCCGTTGGCCCATTAACCCAGTTTTGGCCCATTA
24076298 AGCCCAAAATATC
66 AGCCCAAAATATC
24076311 AACACTTACCGAGCGTTCTTACCGAATTGGGCCCGTTGGCCCATTAACCCAGTTTTGGCCCATTA
1 AACACTTACCGAGCGTTCTTACCGAATTGGGCCCGTTGGCCCATTAACCCAGTTTTGGCCCATTA
*
24076376 AGCCTAAAATATC
66 AGCCCAAAATATC
24076389 AA
1 AA
24076391 AAAGCACGAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (78 bp):
AACACTTACCGAGCGTTCTTACCGAATTGGGCCCGTTGGCCCATTAACCCAGTTTTGGCCCATTA
AGCCCAAAATATC
Found at i:24077012 original size:70 final size:70
Alignment explanation
Indices: 24076899--24077037 Score: 269
Period size: 70 Copynumber: 2.0 Consensus size: 70
24076889 ATGTAAGAAG
*
24076899 ACTAAGTTTTGGAGAAGACTTACCACCGATTCCTTAGTGAATGATTCCAATGAGTTTCCCACTCG
1 ACTAAGTTTTGGAGAAGACTTACCACCGATTCCTTAGTGAATGATTCCAATAAGTTTCCCACTCG
24076964 ATCCT
66 ATCCT
24076969 ACTAAGTTTTGGAGAAGACTTACCACCGATTCCTTAGTGAATGATTCCAATAAGTTTCCCACTCG
1 ACTAAGTTTTGGAGAAGACTTACCACCGATTCCTTAGTGAATGATTCCAATAAGTTTCCCACTCG
24077034 ATCC
66 ATCC
24077038 CGATGTAGAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (70 bp):
ACTAAGTTTTGGAGAAGACTTACCACCGATTCCTTAGTGAATGATTCCAATAAGTTTCCCACTCG
ATCCT
Found at i:24080324 original size:43 final size:43
Alignment explanation
Indices: 24080167--24080325 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
24080157 ATATGTTTTT
* * * *
24080167 CGTGTAAAACCACATTTGGGACGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTA
* * *
24080211 CGTGTAAGACCATGTCTGGGACGATGGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
** * * *
24080253 CGTGTAAGACCTTGTTTGAGATAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCACGTCTGGGA-CGTTGGCATCGATATTTGATTA
*
24080296 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
24080326 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 30 0.32
43 36 0.39
44 27 0.29
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:24083447 original size:55 final size:56
Alignment explanation
Indices: 24083382--24083496 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
24083372 AGCATGGCTG
* *
24083382 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
24083438 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
24083493 CCAG
1 CCAG
24083497 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:24083459 original size:27 final size:27
Alignment explanation
Indices: 24083407--24083496 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
24083397 GTGACAGAGT
24083407 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
24083436 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
24083463 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
24083491 CACCAG
1 CACCAG
24083497 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:24083649 original size:28 final size:28
Alignment explanation
Indices: 24083602--24083666 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
24083592 AAATTAACCC
*
24083602 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
24083630 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
24083658 TAGGGGTAT
1 TAGGGGTAT
24083667 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:24084752 original size:12 final size:13
Alignment explanation
Indices: 24084733--24084765 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24084723 GGGTTCGGCT
24084733 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
24084746 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
24084758 ATGGAGAA
1 ATGGAGAA
24084766 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:24086577 original size:212 final size:211
Alignment explanation
Indices: 24086204--24086626 Score: 765
Period size: 212 Copynumber: 2.0 Consensus size: 211
24086194 TTTCCAAAAC
24086204 CGAGATGTGAATCTAGGATCCCGATCAGAGATAATCGAAACCGAAACTCCATGCAGTCGCACAAT
1 CGAGATGTGAATCTAGGATCCCGATCAGAGATAATCGAAACCGAAACTCCATGCAGTCGCACAAT
* *
24086269 CTCCGCCACATACAACTTGGCTAACTTCTGAAGAGAAAAGTCTGTGCGAACAGGTATAAAATGAG
66 CTCCGCCACATACAACTTGGCTAACTTCTGAAGAGAAAAGTCTGTACAAACAGGTATAAAATGAG
* *
24086334 CCGACTTGGTCAACCTATCCACAATCACCCATATCGAGTCTTTCTTCGATGGTGTCAAGGGTAGC
131 CCGACTTGGTCAACCTATCCACAACCACCCATATCGAGTCTTTCTTCGATGGTGACAAGGGTAGC
24086399 CCACTCACAAAGTCCA
196 CCACTCACAAAGTCCA
* *
24086415 NCGAGATGTGAATCTAGGATCCCGATCAGAGATAATCGAAACTGGAACTCCATGCAGTCGCACAA
1 -CGAGATGTGAATCTAGGATCCCGATCAGAGATAATCGAAACCGAAACTCCATGCAGTCGCACAA
*
24086480 TCTCCGCCACATACAACTTGGCTAACTTCTGAAGAGAAAATTCTGTACAAACAGGTATAAAATGA
65 TCTCCGCCACATACAACTTGGCTAACTTCTGAAGAGAAAAGTCTGTACAAACAGGTATAAAATGA
24086545 GCCGACTTGGTCAACCTATCCACAACCACCCATATCGAGTCTTTCTTCGATGGTGACAAGGGTAG
130 GCCGACTTGGTCAACCTATCCACAACCACCCATATCGAGTCTTTCTTCGATGGTGACAAGGGTAG
*
24086610 TCCACTCACAAAGTCCA
195 CCCACTCACAAAGTCCA
24086627 TGGTTACCCT
Statistics
Matches: 203, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
212 203 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (211 bp):
CGAGATGTGAATCTAGGATCCCGATCAGAGATAATCGAAACCGAAACTCCATGCAGTCGCACAAT
CTCCGCCACATACAACTTGGCTAACTTCTGAAGAGAAAAGTCTGTACAAACAGGTATAAAATGAG
CCGACTTGGTCAACCTATCCACAACCACCCATATCGAGTCTTTCTTCGATGGTGACAAGGGTAGC
CCACTCACAAAGTCCA
Found at i:24091492 original size:28 final size:29
Alignment explanation
Indices: 24091441--24091503 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
24091431 GTGACAGAGT
* *
24091441 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGATACAGATAATTTATGGCA-TAGC
24091470 CACCAGA-ACAGATAATTTATGGCATAGC
1 CACCAGATACAGATAATTTATGGCATAGC
24091498 CACCAG
1 CACCAG
24091504 GACGCTTCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.03
28 23 0.74
29 7 0.23
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (29 bp):
CACCAGATACAGATAATTTATGGCATAGC
Found at i:24091657 original size:28 final size:28
Alignment explanation
Indices: 24091609--24091669 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
24091599 AAATTAACCC
24091609 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTCATTTTGCACACA
* *
24091637 TAGGGGTATAATGGT-AGTTTTGCATACA
1 TAGGGGTATAAAGGTCA-TTTTGCACACA
24091665 TAGGG
1 TAGGG
24091670 ATGTTCTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.31
Consensus pattern (28 bp):
TAGGGGTATAAAGGTCATTTTGCACACA
Found at i:24097393 original size:12 final size:13
Alignment explanation
Indices: 24097374--24097406 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24097364 GGGTTCGGCT
24097374 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
24097387 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
24097399 ATGGAGAA
1 ATGGAGAA
24097407 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:24110069 original size:28 final size:28
Alignment explanation
Indices: 24110010--24110069 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
24110000 TATCATTATG
* * **
24110010 ATCTTAAATGTGGAAGTCCATCTGTATG
1 ATCTTAAATGTGGAAGTCCATCCGAACA
24110038 ATCTTAAATGTGGAAGTCC-TCCGAAACA
1 ATCTTAAATGTGGAAGTCCATCCG-AACA
24110066 ATCT
1 ATCT
24110070 AACGTAGAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (28 bp):
ATCTTAAATGTGGAAGTCCATCCGAACA
Found at i:24117965 original size:14 final size:14
Alignment explanation
Indices: 24117946--24117972 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24117936 AAATTACAGA
24117946 ATTACCCTTATAAT
1 ATTACCCTTATAAT
24117960 ATTACCCTTATAA
1 ATTACCCTTATAA
24117973 CATGACAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTACCCTTATAAT
Found at i:24118305 original size:24 final size:24
Alignment explanation
Indices: 24118137--24118328 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
24118127 GAGGAAGTGC
*
24118137 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
* *
24118161 AAATGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
24118185 AAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
*
24118209 AAAAGGGCTTATGCCCCAGTTACT
1 AAAAGGGCTTATGCCCCAGTTATT
24118233 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
24118257 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * * *
24118281 AAAAGGGCTTTTTCCCTAGTAATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
24118305 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
24118329 ATGATAAAGT
Statistics
Matches: 151, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
24 142 0.94
25 9 0.06
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:24119045 original size:24 final size:24
Alignment explanation
Indices: 24119013--24119059 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
24119003 AATTTAAACT
*
24119013 CGATATAACAAAGTGTGGCAATGA
1 CGATATAACAAACTGTGGCAATGA
24119037 CGATATAACAAACTGTGGCAATG
1 CGATATAACAAACTGTGGCAATG
24119060 GTTGTGGGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (24 bp):
CGATATAACAAACTGTGGCAATGA
Found at i:24123421 original size:109 final size:109
Alignment explanation
Indices: 24123230--24123446 Score: 434
Period size: 109 Copynumber: 2.0 Consensus size: 109
24123220 ACCAAATTTG
24123230 TAAGGAGATGTTTGACATGTCAACAAGTGAGCATCAACTGCCTTCGGGATTGTTACAGCCGGTAA
1 TAAGGAGATGTTTGACATGTCAACAAGTGAGCATCAACTGCCTTCGGGATTGTTACAGCCGGTAA
24123295 AGATACCACTTTAGAAGTGGGAAAGGGTAACTATGGACTTTGTA
66 AGATACCACTTTAGAAGTGGGAAAGGGTAACTATGGACTTTGTA
24123339 TAAGGAGATGTTTGACATGTCAACAAGTGAGCATCAACTGCCTTCGGGATTGTTACAGCCGGTAA
1 TAAGGAGATGTTTGACATGTCAACAAGTGAGCATCAACTGCCTTCGGGATTGTTACAGCCGGTAA
24123404 AGATACCACTTTAGAAGTGGGAAAGGGTAACTATGGACTTTGT
66 AGATACCACTTTAGAAGTGGGAAAGGGTAACTATGGACTTTGT
24123447 GAGTGGGTTG
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (109 bp):
TAAGGAGATGTTTGACATGTCAACAAGTGAGCATCAACTGCCTTCGGGATTGTTACAGCCGGTAA
AGATACCACTTTAGAAGTGGGAAAGGGTAACTATGGACTTTGTA
Found at i:24126577 original size:20 final size:20
Alignment explanation
Indices: 24126511--24126577 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
24126501 ATTTTGATAA
*
24126511 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
24126531 ACATGACATGTATGATATGA
1 ACATGATATGTATGATATGC
24126551 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
24126571 ACATGAT
1 ACATGAT
24126578 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:24126658 original size:23 final size:23
Alignment explanation
Indices: 24126628--24126700 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
24126618 AGGAAGTGCA
24126628 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
24126651 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
24126674 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
24126698 AAA
1 AAA
24126701 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:24126717 original size:25 final size:24
Alignment explanation
Indices: 24126627--24126721 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
24126617 GAGGAAGTGC
24126627 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
24126651 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
24126674 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
24126698 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
24126722 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.35
24 31 0.48
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:24134880 original size:24 final size:24
Alignment explanation
Indices: 24134853--24135020 Score: 198
Period size: 24 Copynumber: 7.0 Consensus size: 24
24134843 GGAGGAAGTG
24134853 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
24134877 CAAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
24134901 AAAAAGGGCTTATGCCCTAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
24134924 CTAAAA-GGCTTATGCCCCAGTTAT
1 C-AAAAGGGCTTATGCCCCAGTTAT
*
24134948 TAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* * * *
24134972 TAAAAGGGATTTTGCCCCAGTAAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
24134996 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
24135021 ATGATAAAGT
Statistics
Matches: 127, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
23 20 0.16
24 98 0.77
25 9 0.07
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:24134977 original size:71 final size:72
Alignment explanation
Indices: 24134854--24135020 Score: 221
Period size: 71 Copynumber: 2.3 Consensus size: 72
24134844 GAGGAAGTGC
* *
24134854 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCTAGTTATAAAAAGGGCTTATGCCCT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAAGGGATTATGCCCT
24134919 AGTTACT
66 AGTTACT
* * * *
24134926 AAAA-GGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAAAAGGGATTTTGCCCC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAAGGGATTATGCCCT
* *
24134990 AGTAATT
66 AGTTACT
*
24134997 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
24135021 ATGATAAAGT
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
71 63 0.76
72 9 0.11
73 11 0.13
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAAGGGATTATGCCCT
AGTTACT
Found at i:24135923 original size:447 final size:447
Alignment explanation
Indices: 24135089--24135939 Score: 1684
Period size: 447 Copynumber: 1.9 Consensus size: 447
24135079 CCACATGGTN
24135089 GGAGAGTAGCAGATGGTGGGTCGAGTAGTCTCCCCAAATGGGCTTGCATTCATTTGTTTTTATTG
1 GGAGAGTAGCAGATGGTGGGTCGAGTAGTCTCCCCAAATGGGCTTGCATTCATTTGTTTTTATTG
24135154 ACGATACATGCGATATTGAAATGGGCCTATGGGCCATACCATTTACAGTAATAGGCTTCGGCCTA
66 ACGATACATGCGATATTGAAATGGGCCTATGGGCCATACCATTTACAGTAATAGGCTTCGGCCTA
24135219 GTTATATGATTTATGAAAAGGCTACGGCCCAGTATATACATATTGAGATTGGACTTGGGCTAAGG
131 GTTATATGATTTATGAAAAGGCTACGGCCCAGTATATACATATTGAGATTGGACTTGGGCTAAGG
24135284 CCCAGCAGGTTGATATTGATTTGGGCTCTGAAAGGGGCTTGTTGCACACTGAGTTTCCAAAATCA
196 CCCAGCAGGTTGATATTGATTTGGGCTCTGAAAGGGGCTTGTTGCACACTGAGTTTCCAAAATCA
24135349 CCCTCTTTCCTTAACCTTGCAGGTGAGCCTTAATATGGGGACTTGGAGCCGGAGGGGATTCAGAG
261 CCCTCTTTCCTTAACCTTGCAGGTGAGCCTTAATATGGGGACTTGGAGCCGGAGGGGATTCAGAG
24135414 TGGCCACGGTGATCGCCTTTGGGCTTTTAAATAAGCATTGGTTTTCTTTAAATTTCCTTTAATTT
326 TGGCCACGGTGATCGCCTTTGGGCTTTTAAATAAGCATTGGTTTTCTTTAAATTTCCTTTAATTT
24135479 TTATTTATTATTGGATGGATTGAGTTATTCCCCACATGGTTGTTGGTTGGTACGGGT
391 TTATTTATTATTGGATGGATTGAGTTATTCCCCACATGGTTGTTGGTTGGTACGGGT
*
24135536 GGAGAGTAGCGGATGGTGGGTCGAGTAGTCTCCCCAAATGGGCTTGCATTCATTTGTTTTTATTG
1 GGAGAGTAGCAGATGGTGGGTCGAGTAGTCTCCCCAAATGGGCTTGCATTCATTTGTTTTTATTG
24135601 ACGATACATGCGATATTGAAATGGGCCTATGGGCCATACCATTTACAGTAATAGGCTTCGGCCTA
66 ACGATACATGCGATATTGAAATGGGCCTATGGGCCATACCATTTACAGTAATAGGCTTCGGCCTA
24135666 GTTATATGATTTATGAAAAGGCTACGGCCCAGTATATACATATTGAGATTGGACTTGGGCTAAGG
131 GTTATATGATTTATGAAAAGGCTACGGCCCAGTATATACATATTGAGATTGGACTTGGGCTAAGG
24135731 CCCAGCAGGTTGATATTGATTTGGGCTCTGAAAGGGGCTTGTTGCACACTGAGTTTCCAAAATCA
196 CCCAGCAGGTTGATATTGATTTGGGCTCTGAAAGGGGCTTGTTGCACACTGAGTTTCCAAAATCA
24135796 CCCTCTTTCCTTAACCTTGCAGGTGAGCCTTAATATGGGGACTTGGAGCCGGAGGGGATTCAGAG
261 CCCTCTTTCCTTAACCTTGCAGGTGAGCCTTAATATGGGGACTTGGAGCCGGAGGGGATTCAGAG
24135861 TGGCCACGGTGATCGCCTTTGGGCTTTTAAATAAGCATTGGTTTTCTTTAAATTTCCTTTAATTT
326 TGGCCACGGTGATCGCCTTTGGGCTTTTAAATAAGCATTGGTTTTCTTTAAATTTCCTTTAATTT
*
24135926 TTATTTATTCTTGG
391 TTATTTATTATTGG
24135940 GTTGTAATAA
Statistics
Matches: 402, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
447 402 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (447 bp):
GGAGAGTAGCAGATGGTGGGTCGAGTAGTCTCCCCAAATGGGCTTGCATTCATTTGTTTTTATTG
ACGATACATGCGATATTGAAATGGGCCTATGGGCCATACCATTTACAGTAATAGGCTTCGGCCTA
GTTATATGATTTATGAAAAGGCTACGGCCCAGTATATACATATTGAGATTGGACTTGGGCTAAGG
CCCAGCAGGTTGATATTGATTTGGGCTCTGAAAGGGGCTTGTTGCACACTGAGTTTCCAAAATCA
CCCTCTTTCCTTAACCTTGCAGGTGAGCCTTAATATGGGGACTTGGAGCCGGAGGGGATTCAGAG
TGGCCACGGTGATCGCCTTTGGGCTTTTAAATAAGCATTGGTTTTCTTTAAATTTCCTTTAATTT
TTATTTATTATTGGATGGATTGAGTTATTCCCCACATGGTTGTTGGTTGGTACGGGT
Found at i:24142440 original size:4 final size:4
Alignment explanation
Indices: 24142431--24142478 Score: 55
Period size: 4 Copynumber: 11.8 Consensus size: 4
24142421 TCTATTTTAA
24142431 TTTC TTTC TTTC TTTC TTTC -TT- TTTC TTTC TTTTC TTTTC TTTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC -TTTC -TTTC TTT
24142479 AATTTTTCCC
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
3 4 0.10
4 23 0.56
5 14 0.34
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:24142467 original size:5 final size:5
Alignment explanation
Indices: 24142431--24142478 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
24142421 TCTATTTTAA
24142431 TTTC- TTTC- TTTC- TTTC- TTTCT TTT-T CTTTCT TTTCT TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT -TTTCT TTTCT TTTCT TTTCT
24142477 TT
1 TT
24142479 AATTTTTCCC
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
4 17 0.41
5 23 0.56
6 1 0.02
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:24142484 original size:10 final size:9
Alignment explanation
Indices: 24142431--24142478 Score: 64
Period size: 10 Copynumber: 5.3 Consensus size: 9
24142421 TCTATTTTAA
24142431 TTTC-TTTC
1 TTTCTTTTC
24142439 TTTC-TTTC
1 TTTCTTTTC
24142447 TTTCTTTTTC
1 TTTC-TTTTC
24142457 TTTCTTTTC
1 TTTCTTTTC
24142466 TTTTCTTTTC
1 -TTTCTTTTC
24142476 TTT
1 TTT
24142479 AATTTTTCCC
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
8 12 0.32
9 8 0.22
10 17 0.46
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:24146296 original size:166 final size:166
Alignment explanation
Indices: 24146022--24146353 Score: 664
Period size: 166 Copynumber: 2.0 Consensus size: 166
24146012 GGGGGTGGCA
24146022 GGAGTTGGTGTTGAATTTAAATACTGATGATGGAGGGATCCTACATCGGGAAGCTAACATAAGAG
1 GGAGTTGGTGTTGAATTTAAATACTGATGATGGAGGGATCCTACATCGGGAAGCTAACATAAGAG
24146087 TGGATGCGAAGCTGGCTTTAAATAATGAGAACCATGAGGAAACTAAAGGTACCTTTCTTGGCTGA
66 TGGATGCGAAGCTGGCTTTAAATAATGAGAACCATGAGGAAACTAAAGGTACCTTTCTTGGCTGA
24146152 TCCCTTTCGCTTTATGGCTTGCTCGTTTGGGTTGGG
131 TCCCTTTCGCTTTATGGCTTGCTCGTTTGGGTTGGG
24146188 GGAGTTGGTGTTGAATTTAAATACTGATGATGGAGGGATCCTACATCGGGAAGCTAACATAAGAG
1 GGAGTTGGTGTTGAATTTAAATACTGATGATGGAGGGATCCTACATCGGGAAGCTAACATAAGAG
24146253 TGGATGCGAAGCTGGCTTTAAATAATGAGAACCATGAGGAAACTAAAGGTACCTTTCTTGGCTGA
66 TGGATGCGAAGCTGGCTTTAAATAATGAGAACCATGAGGAAACTAAAGGTACCTTTCTTGGCTGA
24146318 TCCCTTTCGCTTTATGGCTTGCTCGTTTGGGTTGGG
131 TCCCTTTCGCTTTATGGCTTGCTCGTTTGGGTTGGG
24146354 CATTGGCTAA
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
166 166 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (166 bp):
GGAGTTGGTGTTGAATTTAAATACTGATGATGGAGGGATCCTACATCGGGAAGCTAACATAAGAG
TGGATGCGAAGCTGGCTTTAAATAATGAGAACCATGAGGAAACTAAAGGTACCTTTCTTGGCTGA
TCCCTTTCGCTTTATGGCTTGCTCGTTTGGGTTGGG
Found at i:24146766 original size:27 final size:27
Alignment explanation
Indices: 24146734--24146794 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
24146724 CTCGATTTAA
*
24146734 AAAATTATTGAAATACCCCTGTAGGGT
1 AAAATTATCGAAATACCCCTGTAGGGT
* * *
24146761 AGAATTATCGAAATACCCTTGTGGGGT
1 AAAATTATCGAAATACCCCTGTAGGGT
24146788 AAAATTA
1 AAAATTA
24146795 CCTTTTTGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.30
Consensus pattern (27 bp):
AAAATTATCGAAATACCCCTGTAGGGT
Found at i:24147061 original size:27 final size:26
Alignment explanation
Indices: 24146990--24147104 Score: 158
Period size: 27 Copynumber: 4.3 Consensus size: 26
24146980 TGTAGGAAGC
24146990 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
24147017 GCTTCTGGTGGCTATGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
*
24147045 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
24147071 GTATCTGGTGTCTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
24147098 GTTCTGG
1 GTTCTGG
24147105 CAGCCATGCT
Statistics
Matches: 83, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
26 14 0.17
27 42 0.51
28 27 0.33
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:24151214 original size:27 final size:27
Alignment explanation
Indices: 24151184--24151242 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
24151174 CAATTTAAAA
*
24151184 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTATAGAAATACCCCTGTAGGGTAG
24151211 AATTATAGAAATACCCCTGTAGGGTAG
1 AATTATAGAAATACCCCTGTAGGGTAG
24151238 AATTA
1 AATTA
24151243 CCGAGATACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (27 bp):
AATTATAGAAATACCCCTGTAGGGTAG
Found at i:24151537 original size:27 final size:27
Alignment explanation
Indices: 24151466--24151580 Score: 108
Period size: 27 Copynumber: 4.3 Consensus size: 27
24151456 TAGAGGAAGC
*
24151466 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAGTATCT
* **
24151493 CTTTCTTATGGCTATGCCACAAGTATCT
1 -GTTCTGGTGGCTATGCCACAAGTATCT
* * *
24151521 ATTCTGGTGGCTCTGCCAC-AGTGTCT
1 GTTCTGGTGGCTATGCCACAAGTATCT
* * *
24151547 GTATCTGGTGACTCTGTCACAA-TATCT
1 GT-TCTGGTGGCTATGCCACAAGTATCT
24151574 GTTCTGG
1 GTTCTGG
24151581 CAACCATGCT
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 12 0.17
27 36 0.50
28 24 0.33
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTATGCCACAAGTATCT
Found at i:24152821 original size:23 final size:23
Alignment explanation
Indices: 24152789--24152834 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
24152779 TGTGCACGAG
24152789 CCAAACGTTTCAAGGAGGCTATT
1 CCAAACGTTTCAAGGAGGCTATT
*
24152812 CCAAATGTTTCAAGGAGGCTATT
1 CCAAACGTTTCAAGGAGGCTATT
24152835 TCGGCCTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (23 bp):
CCAAACGTTTCAAGGAGGCTATT
Found at i:24153173 original size:28 final size:28
Alignment explanation
Indices: 24153133--24153208 Score: 134
Period size: 28 Copynumber: 2.7 Consensus size: 28
24153123 CATGTTATTA
24153133 ATGTTATTAATGTGTCTTAGTTTAATAC
1 ATGTTATTAATGTGTCTTAGTTTAATAC
24153161 ATGTTATTAATGTGTCTTAGTTTAATAC
1 ATGTTATTAATGTGTCTTAGTTTAATAC
* *
24153189 TTGTTTTTAATGTGTCTTAG
1 ATGTTATTAATGTGTCTTAG
24153209 CTACTGCTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.53
Consensus pattern (28 bp):
ATGTTATTAATGTGTCTTAGTTTAATAC
Found at i:24157460 original size:32 final size:32
Alignment explanation
Indices: 24157424--24157501 Score: 122
Period size: 32 Copynumber: 2.5 Consensus size: 32
24157414 TCATTATTTT
*
24157424 AAGTATAATTTCATAATAGTTCATTTCTAGTC
1 AAGTATAATTTCATAATAGTTCATTTCGAGTC
24157456 AAGTATAATTTCATAATAGTTCATTTCGAGTC
1 AAGTATAATTTCATAATAGTTCATTTCGAGTC
* *
24157488 TAG-ATCATTTCATA
1 AAGTATAATTTCATA
24157502 TCAGAAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
31 10 0.23
32 33 0.77
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (32 bp):
AAGTATAATTTCATAATAGTTCATTTCGAGTC
Found at i:24158303 original size:17 final size:18
Alignment explanation
Indices: 24158261--24158306 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
24158251 TACCATTTAC
* *
24158261 CATTTATTGAGCATTATT
1 CATTTATCGGGCATTATT
*
24158279 -ATTAATCGGGCATT-TT
1 CATTTATCGGGCATTATT
24158295 CATTTATCGGGC
1 CATTTATCGGGC
24158307 TATAACGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.43
Consensus pattern (18 bp):
CATTTATCGGGCATTATT
Found at i:24165620 original size:31 final size:32
Alignment explanation
Indices: 24165506--24165668 Score: 240
Period size: 32 Copynumber: 5.2 Consensus size: 32
24165496 CACGGCTTAC
*
24165506 AGCCATCAGTAGCAGTAATATGATCGGCACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
* *
24165538 AGCCAACAGTAGCTGTAATATGATTGGCACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
**
24165570 AGCCATCAGTAGCTGTAATATGATCAACACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
*
24165602 AGCCATCAGTA-CTGTAATATGATCGGCATAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
* *
24165633 AGCCATCAGTA-CTGTAATATGATCGGTACCA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
24165664 AGCCA
1 AGCCA
24165669 CTGGTAAATA
Statistics
Matches: 118, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 50 0.42
32 68 0.58
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (32 bp):
AGCCATCAGTAGCTGTAATATGATCGGCACAA
Found at i:24165716 original size:22 final size:22
Alignment explanation
Indices: 24165685--24165745 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
24165675 AATATGATTT
*
24165685 GCACAAAGCCATAATCAACATA
1 GCACAGAGCCATAATCAACATA
* * ** *
24165707 GCACAGAGCCATATTTAAGTTG
1 GCACAGAGCCATAATCAACATA
24165729 GCACAGAGCCATAATCA
1 GCACAGAGCCATAATCA
24165746 GATTAAGCAG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.18
Consensus pattern (22 bp):
GCACAGAGCCATAATCAACATA
Found at i:24166139 original size:27 final size:27
Alignment explanation
Indices: 24166109--24166218 Score: 139
Period size: 27 Copynumber: 4.1 Consensus size: 27
24166099 TACCATACAA
*
24166109 GGGTATTTCGATAATTTTACAAATCGG
1 GGGTATTTTGATAATTTTACAAATCGG
* *
24166136 GGGTATTTTGACAATTTTACAAATTGG
1 GGGTATTTTGATAATTTTACAAATCGG
**
24166163 GGGTATTTTTCTAATTTTACAAATCGG
1 GGGTATTTTGATAATTTTACAAATCGG
* * * *
24166190 GGGTATTTTGGTAATCTAACAAACCGG
1 GGGTATTTTGATAATTTTACAAATCGG
24166217 GG
1 GG
24166219 TCTTAACGAC
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGATAATTTTACAAATCGG
Found at i:24176901 original size:47 final size:47
Alignment explanation
Indices: 24176639--24176899 Score: 351
Period size: 47 Copynumber: 5.5 Consensus size: 47
24176629 GATGAAATTG
* * * **
24176639 ATGTAAAAGTATATATATGTGATAGGGCCGAGTGGCCAGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAGGGCCGAGTGACCAACGTGATGA
* *
24176686 ATGTGAAAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGA
1 ATGTGAAAG--TGTATATATGTGATAGGGCCGAGTGACCAACGTGATGA
* *
24176735 ATGTGAAAGTTTATATATGTGATAGGGTCGAGTGACCAACGTGATGA
1 ATGTGAAAGTGTATATATGTGATAGGGCCGAGTGACCAACGTGATGA
*
24176782 ATGTGAAAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGA
1 ATGTGAAAGTGTATATATGTGATAGGGCCGAGTGACCAACGTGATGA
* * * *
24176829 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAGGGCCGAGTGACCAACGTGATGA
* * *
24176876 ATATGGAAGTGTATAAATGTGATA
1 ATGTGAAAGTGTATATATGTGATA
24176900 AGTCCCGAAG
Statistics
Matches: 197, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 152 0.77
49 45 0.23
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAGGGCCGAGTGACCAACGTGATGA
Found at i:24181033 original size:31 final size:32
Alignment explanation
Indices: 24180907--24181068 Score: 184
Period size: 32 Copynumber: 5.1 Consensus size: 32
24180897 CACGGCTTAC
*
24180907 AGCCATCAGTAGCGGTAATATGATCGGCACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
* * * * * *
24180939 AGTCAACAGCAGTTGTAATATGATTGACACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
* *
24180971 AGCCATCAGTAGCTTTAATATAATCGGCACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
* *
24181003 AGCCGTCAGTA-CTGTAATATGATCGACACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
* * *
24181034 AGCCATCAATA-CTGTAATATGATTGGCACCA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
24181065 AGCC
1 AGCC
24181069 GTTGGTAAAT
Statistics
Matches: 106, Mismatches: 24, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
31 47 0.44
32 59 0.56
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (32 bp):
AGCCATCAGTAGCTGTAATATGATCGGCACAA
Found at i:24181534 original size:27 final size:26
Alignment explanation
Indices: 24181506--24181620 Score: 104
Period size: 27 Copynumber: 4.3 Consensus size: 26
24181496 ATTTTACCCT
*
24181506 ACAGGGGTATTTTGGTAATTTTACACT
1 ACAGGGGTATTTTGGTAATTTTACA-A
* * * * *
24181533 ACAAGGGTATCTCGATGATTTTACAA
1 ACAGGGGTATTTTGGTAATTTTACAA
*
24181559 ATCGGGGGTATTTTGGTAATTTTACAA
1 A-CAGGGGTATTTTGGTAATTTTACAA
** *
24181586 ATTGAGGGTATTTTGGTAATCTTACAA
1 ACAG-GGGTATTTTGGTAATTTTACAA
*
24181613 ACTGGGGT
1 ACAGGGGT
24181621 CTTAAAGACC
Statistics
Matches: 70, Mismatches: 16, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
26 6 0.09
27 64 0.91
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.37
Consensus pattern (26 bp):
ACAGGGGTATTTTGGTAATTTTACAA
Found at i:24191400 original size:27 final size:27
Alignment explanation
Indices: 24191368--24191428 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
24191358 CTCAACTTGT
24191368 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTAC
* ***
24191395 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTAC
24191422 AAAATTA
1 AAAATTA
24191429 TTGAAATACC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCTCGATTTAC
Found at i:24191454 original size:27 final size:27
Alignment explanation
Indices: 24191432--24191591 Score: 248
Period size: 27 Copynumber: 5.9 Consensus size: 27
24191422 AAAATTATTG
24191432 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTATAGGGTAGAATTACTA
24191459 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTATAGGGTAGAATTACTA
24191486 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTATAGGGTAGAATTACTA
*
24191513 AAATACCCCTATAGGGTAGAATTACCA
1 AAATACCCCTATAGGGTAGAATTACTA
* * * * * *
24191540 AAATACCCTTGTAAGGTAGAAATGCCA
1 AAATACCCCTATAGGGTAGAATTACTA
*
24191567 AAATACCCCTGTAGGGTAGAATTAC
1 AAATACCCCTATAGGGTAGAATTAC
24191592 CGAGATACCC
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.24
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAGAATTACTA
Found at i:24191599 original size:27 final size:27
Alignment explanation
Indices: 24191432--24191620 Score: 243
Period size: 27 Copynumber: 7.0 Consensus size: 27
24191422 AAAATTATTG
*
24191432 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTATAGGGTAGAATTACCA
*
24191459 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTATAGGGTAGAATTACCA
*
24191486 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTATAGGGTAGAATTACCA
24191513 AAATACCCCTATAGGGTAGAATTACCA
1 AAATACCCCTATAGGGTAGAATTACCA
* * * * *
24191540 AAATACCCTTGTAAGGTAGAAATGCCA
1 AAATACCCCTATAGGGTAGAATTACCA
* *
24191567 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTATAGGGTAGAATTACCA
* * * * *
24191594 AGATACCCTTGTGGGGTAAAATTACCA
1 AAATACCCCTATAGGGTAGAATTACCA
24191621 TTTTGCCCTT
Statistics
Matches: 146, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAGAATTACCA
Found at i:24191629 original size:27 final size:27
Alignment explanation
Indices: 24191599--24191662 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
24191589 TACCGAGATA
* *
24191599 CCCTTGTGGGGTAAAATTACCATTTTG
1 CCCTTGTGGGGTAAAATGACCATTCTG
* * *
24191626 CCCTTAG-GGTGTTAAATGACTATTCTG
1 CCCTT-GTGGGGTAAAATGACCATTCTG
24191653 CCCTTGTGGG
1 CCCTTGTGGG
24191663 CAAGTGACTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACCATTCTG
Found at i:24191886 original size:55 final size:53
Alignment explanation
Indices: 24191815--24191929 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 53
24191805 GGAGGAAAAG
* *
24191815 TTCTGGTGGCTATGCCACAAATATATGTTTCCGGTGGCTATGCCACAAATATCTA
1 TTCTGGTGGCTATGCCAC-AATATATGTATCCGGTGACTATGCCAC-AATATCTA
* * * * * *
24191870 TTCTGGTTGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTA
1 TTCTGGTGGCTATGCCACAATATATGTATCCGGTGACTATGCCACAATATCTA
24191923 TTCTGGT
1 TTCTGGT
24191930 AGCCATGCTG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 15 0.29
54 21 0.40
55 16 0.31
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (53 bp):
TTCTGGTGGCTATGCCACAATATATGTATCCGGTGACTATGCCACAATATCTA
Found at i:24191901 original size:27 final size:27
Alignment explanation
Indices: 24191815--24191929 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
24191805 GGAGGAAAAG
* *
24191815 TTCTGGTGGCTATGCCACAAATATATGT
1 TTCTGGTGGCTATGCCACAAATATCT-A
*
24191843 TTCCGGTGGCTATGCCACAAATATCTA
1 TTCTGGTGGCTATGCCACAAATATCTA
* * *
24191870 TTCTGGTTGCTCTGCCAC-AATATCTG
1 TTCTGGTGGCTATGCCACAAATATCTA
* * *
24191896 TATCTGGTGACTCTGTCAC-AATATCTA
1 T-TCTGGTGGCTATGCCACAAATATCTA
24191923 TTCTGGT
1 TTCTGGT
24191930 AGCCATGCTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
26 14 0.19
27 37 0.49
28 24 0.32
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (27 bp):
TTCTGGTGGCTATGCCACAAATATCTA
Found at i:24192200 original size:31 final size:32
Alignment explanation
Indices: 24192165--24192229 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 32
24192155 TGTTTCTTAT
* *
24192165 TCTG-TAATGGGCTAAGGCCCATTTGGTACTG
1 TCTGTTAATGGGCTAAGGCCCAATTGATACTG
24192196 TCTGTTATAATGGGCTAAGGCCCAATTGATACTG
1 TCTG-T-TAATGGGCTAAGGCCCAATTGATACTG
24192230 AAACTGTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 4 0.14
34 25 0.86
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (32 bp):
TCTGTTAATGGGCTAAGGCCCAATTGATACTG
Found at i:24200146 original size:18 final size:18
Alignment explanation
Indices: 24200104--24200146 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
24200094 GCCCATTCCG
* *
24200104 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
24200122 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
24200140 AAGTATG
1 AAGTATG
24200147 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:24200654 original size:27 final size:27
Alignment explanation
Indices: 24200623--24200800 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24200613 TAAATTGTAC
24200623 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
24200650 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24200676 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
24200704 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
24200732 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24200759 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24200786 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24200801 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24200737 original size:82 final size:81
Alignment explanation
Indices: 24200624--24200779 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24200614 AAATTGTACA
* *
24200624 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
24200688 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
24200705 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
24200770 TGCGAGTTGA
65 TGCGAATTGA
24200780 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:24200791 original size:82 final size:81
Alignment explanation
Indices: 24200620--24200800 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
24200610 GATTAAATTG
* *
24200620 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
24200685 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
24200701 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
24200765 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
24200783 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24200801 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:24209431 original size:22 final size:22
Alignment explanation
Indices: 24209406--24209461 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
24209396 ATACAAAGCC
*
24209406 ACACGCCTGTGTAAGACAAGTG
1 ACACGCCTGTGTAAGACAAGGG
* *
24209428 ACAC-ACTCGTGTAAGACAGGGG
1 ACACGCCT-GTGTAAGACAAGGG
*
24209450 ACACGCCCGTGT
1 ACACGCCTGTGT
24209462 GCTCTAGACA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 2 0.07
22 24 0.89
23 1 0.04
ACGTcount: A:0.29, C:0.27, G:0.29, T:0.16
Consensus pattern (22 bp):
ACACGCCTGTGTAAGACAAGGG
Found at i:24210897 original size:46 final size:46
Alignment explanation
Indices: 24210830--24210997 Score: 194
Period size: 46 Copynumber: 3.6 Consensus size: 46
24210820 TATTTGGGCA
24210830 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCG
* ** * * * *
24210876 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAT-TTATGGATGCGA-GCG
* * * *
24210923 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCG
* *
24210969 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
24210998 GCTTATGGGC
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
46 64 0.65
47 35 0.35
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCG
Found at i:24210985 original size:93 final size:93
Alignment explanation
Indices: 24210826--24210998 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
24210816 GGGATATTTG
* * *
24210826 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
24210891 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
24210919 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
24210984 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
24210999 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:24213356 original size:44 final size:44
Alignment explanation
Indices: 24213293--24213376 Score: 159
Period size: 44 Copynumber: 1.9 Consensus size: 44
24213283 CATGTATAGT
*
24213293 ATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGCTCGC
1 ATCCATAATGAACTCGGACCAACTCAACGAGCTCCGATGCTCGC
24213337 ATCCATAATGAACTCGGACCAACTCAACGAGCTCCGATGC
1 ATCCATAATGAACTCGGACCAACTCAACGAGCTCCGATGC
24213377 CTCATACAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (44 bp):
ATCCATAATGAACTCGGACCAACTCAACGAGCTCCGATGCTCGC
Found at i:24217686 original size:24 final size:24
Alignment explanation
Indices: 24217629--24217785 Score: 126
Period size: 26 Copynumber: 6.5 Consensus size: 24
24217619 GAACTCACCG
* * *
24217629 CAGCTCGTATGAGCTTATTGATATGT
1 CAGCTCGTAAGAGCTTACTG-T-TCT
24217655 CAGCTCGTAAGAGCTTACTGTTCT
1 CAGCTCGTAAGAGCTTACTGTTCT
* *
24217679 CAGCTCGTATGAACTTACTG-T-T
1 CAGCTCGTAAGAGCTTACTGTTCT
* *
24217701 CAGCTCGTTAGAGCTTACCGTT-T
1 CAGCTCGTAAGAGCTTACTGTTCT
*
24217724 CTGCTC-TATAGAGCTTACTGTTCAT
1 CAGCTCGTA-AGAGCTTACTGTTC-T
* *
24217749 CAGCTCAGGAAGAGCTTACCGTTCAT
1 CAGCTC-GTAAGAGCTTACTGTTC-T
*
24217775 -AGCTCGAAAGA
1 CAGCTCGTAAGA
24217786 ACGGAAAATG
Statistics
Matches: 109, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
22 18 0.17
23 20 0.18
24 25 0.23
25 12 0.11
26 33 0.30
27 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACTGTTCT
Found at i:24217714 original size:46 final size:45
Alignment explanation
Indices: 24217654--24217771 Score: 130
Period size: 46 Copynumber: 2.5 Consensus size: 45
24217644 TATTGATATG
*
24217654 TCAGCTCGTAAGAGCTTACTGTTCTCAGCTCGTAT-GAACTTACTGT
1 TCAGCTCGTAAGAGCTTACCGTT-TCAGCTC-TATAGAACTTACTGT
* * *
24217700 TCAGCTCGTTAGAGCTTACCGTTTCTGCTCTATAGAGCTTACTGTT
1 TCAGCTCGTAAGAGCTTACCGTTTCAGCTCTATAGAACTTACTG-T
*
24217746 CATCAGCTCAGGAAGAGCTTACCGTT
1 --TCAGCTC-GTAAGAGCTTACCGTT
24217772 CATAGCTCGA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
44 3 0.05
45 15 0.25
46 22 0.36
48 7 0.11
49 14 0.23
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (45 bp):
TCAGCTCGTAAGAGCTTACCGTTTCAGCTCTATAGAACTTACTGT
Found at i:24217925 original size:20 final size:20
Alignment explanation
Indices: 24217900--24217938 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24217890 TATGGTAAAG
24217900 TACTATTGATACGAATGAAT
1 TACTATTGATACGAATGAAT
* *
24217920 TACTATTTATACGATTGAA
1 TACTATTGATACGAATGAA
24217939 AGTAAAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (20 bp):
TACTATTGATACGAATGAAT
Found at i:24219645 original size:47 final size:46
Alignment explanation
Indices: 24219564--24219736 Score: 183
Period size: 47 Copynumber: 3.7 Consensus size: 46
24219554 GGTAAGGTGC
* *
24219564 CGATGCCATGTCCCAGACACGGTCTTACATTGACTCATATCTCAAGT
1 CGATG-CATGTCCCAGACATGGTCTTACACTGACTCATATCTCAAGT
* *
24219611 CGAAGCTATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGT
1 CGATGC-ATGTCCCAGACATGGTCTTACACTGACTCAT-ATCTC-AAGT
* *
24219659 CGATGCATGTCCCAGACAT-GTCTTACACTAGCACTCGT-T-TCAATGC
1 CGATGCATGTCCCAGACATGGTCTTACACT-G-ACTCATATCTCAA-GT
*
24219705 CGATGCCATGTCCCAAACATGGTCTTACACTG
1 CGATG-CATGTCCCAGACATGGTCTTACACTG
24219737 GTTCTCGTAA
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
45 1 0.01
46 21 0.19
47 64 0.59
48 21 0.19
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGACTCATATCTCAAGT
Found at i:24222690 original size:8 final size:8
Alignment explanation
Indices: 24222667--24222713 Score: 67
Period size: 8 Copynumber: 5.6 Consensus size: 8
24222657 CGGCAAAAGT
24222667 CGAAATGC
1 CGAAATGC
24222675 CGAAAAATGC
1 CG--AAATGC
24222685 CGAAATGC
1 CGAAATGC
24222693 CGAAATGC
1 CGAAATGC
24222701 CGAAATGC
1 CGAAATGC
*
24222709 TGAAA
1 CGAAA
24222714 AGTTGAAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 28 0.78
10 8 0.22
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (8 bp):
CGAAATGC
Found at i:24222721 original size:24 final size:25
Alignment explanation
Indices: 24222661--24222739 Score: 83
Period size: 24 Copynumber: 3.2 Consensus size: 25
24222651 ATGAATCGGC
24222661 AAAAGTCGAAATGCCGAAAAATGCCG
1 AAAAGTCGAAATGCCG-AAAATGCCG
* * *
24222687 AAATGCCGAAATGCCG-AAATGCTG
1 AAAAGTCGAAATGCCGAAAATGCCG
* *
24222711 AAAAGTTGAAATGCC-AAAAAGCC-
1 AAAAGTCGAAATGCCGAAAATGCCG
24222734 AAAAGT
1 AAAAGT
24222740 TTGGCTACTG
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
23 6 0.14
24 24 0.55
26 14 0.32
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (25 bp):
AAAAGTCGAAATGCCGAAAATGCCG
Found at i:24222730 original size:16 final size:16
Alignment explanation
Indices: 24222661--24222733 Score: 65
Period size: 16 Copynumber: 4.4 Consensus size: 16
24222651 ATGAATCGGC
*
24222661 AAAAGTCGAAATGCCGA
1 AAAAGCCGAAATGCC-A
*
24222678 AAAATGCCGAAATGCCG
1 AAAA-GCCGAAATGCCA
* **
24222695 AAATGCCGAAATGCTG
1 AAAAGCCGAAATGCCA
**
24222711 AAAAGTTGAAATGCCA
1 AAAAGCCGAAATGCCA
24222727 AAAAGCC
1 AAAAGCC
24222734 AAAAGTTTGG
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
16 27 0.61
17 7 0.16
18 10 0.23
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:24222987 original size:29 final size:28
Alignment explanation
Indices: 24222930--24223046 Score: 103
Period size: 29 Copynumber: 4.1 Consensus size: 28
24222920 GTGAGCATGA
* * * *
24222930 ATATGAATGTGACTGGACCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
24222958 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * *
24222987 ATATACAGGTGATTTGGGCTTGATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
24223016 ATATGAATGAGA-TGGGCC-AAGTGGGCC
1 ATATAAATGTGATTGGGCCTAA-TGGGCC
24223043 ATAT
1 ATAT
24223047 GCATGTATGT
Statistics
Matches: 73, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 15 0.21
28 11 0.15
29 46 0.63
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:24224120 original size:17 final size:18
Alignment explanation
Indices: 24224087--24224121 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24224077 TTTTAAGAAG
24224087 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
24224105 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
24224122 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:24235583 original size:30 final size:30
Alignment explanation
Indices: 24235549--24235605 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
24235539 TTTCGAGCAG
*
24235549 AGGGGCAAAATGGTCATTTTGCCAAAGCTT
1 AGGGGCAAAATGGTCATTTTACCAAAGCTT
*
24235579 AGGGGTAAAATGGTCATTTTACCAAAG
1 AGGGGCAAAATGGTCATTTTACCAAAG
24235606 GTGTAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.26
Consensus pattern (30 bp):
AGGGGCAAAATGGTCATTTTACCAAAGCTT
Found at i:24236091 original size:94 final size:94
Alignment explanation
Indices: 24235930--24236804 Score: 1566
Period size: 94 Copynumber: 9.3 Consensus size: 94
24235920 ACTTGTGTGA
24235930 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
24235995 TGGGACATGACATCGGCATCAAGATGAGT
66 TGGGACATGACATCGGCATCAAGATGAGT
24236024 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
24236089 TGGGACATGACATCGGCATCAAGATGAGT
66 TGGGACATGACATCGGCATCAAGATGAGT
24236118 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
24236183 TGGGACATGACATCGGCATCAAGATGAGT
66 TGGGACATGACATCGGCATCAAGATGAGT
24236212 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
24236277 TGGGACATGACATCGGCATCAAGATGAGT
66 TGGGACATGACATCGGCATCAAGATGAGT
24236306 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
24236371 TGGGACATGACATCGGCATCAAGATGAGT
66 TGGGACATGACATCGGCATCAAGATGAGT
24236400 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
24236465 TGGGACATGACATCGGCATCAAGATGAGT
66 TGGGACATGACATCGGCATCAAGATGAGT
24236494 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
24236559 TGGGACATGACATCGGCATCAAGATGAGT
66 TGGGACATGACATCGGCATCAAGATGAGT
24236588 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
*
24236653 TGGGACATGACATCGGCATCAAGGTGAGT
66 TGGGACATGACATCGGCATCAAGATGAGT
* * * * *
24236682 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGTAAGCCAGTGTAAGA-CATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GACTACAATATGTGAGCCAGTGTAAGACCATGT
* * * *
24236745 -TGGGACATG-CATTGG-TTGCGAGATGTGT
65 CTGGGACATGACATCGGCAT-CAAGATGAGT
*
24236773 -C-AATGTAAGACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
24236805 GCACCTTACC
Statistics
Matches: 765, Mismatches: 12, Indels: 12
0.97 0.02 0.02
Matches are distributed among these distances:
89 8 0.01
90 17 0.02
91 17 0.02
92 9 0.01
93 5 0.01
94 706 0.92
95 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAATATGTGAGCCAGTGTAAGACCATGTC
TGGGACATGACATCGGCATCAAGATGAGT
Found at i:24236767 original size:45 final size:44
Alignment explanation
Indices: 24235933--24236803 Score: 428
Period size: 47 Copynumber: 18.6 Consensus size: 44
24235923 TGTGTGAGCT
* * * *
24235933 AGTGTAAGACATGTCTGGGACATGCATC-GACTACAATATGTGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGT--GCC
* * *
24235979 AGTGTAAGACCATGTCTGGGACATGACATCGGCATCAAGATGA-GTGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCAGCCTC--GA-GACGTGCC
* * * *
24236027 AGTGTAAGACATGTCTGGGACATGCATC-GACTACAATATGTGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGT--GCC
* * *
24236073 AGTGTAAGACCATGTCTGGGACATGACATCGGCATCAAGATGA-GTGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCAGCCTC--GA-GACGTGCC
* * * *
24236121 AGTGTAAGACATGTCTGGGACATGCATC-GACTACAATATGTGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGT--GCC
* * *
24236167 AGTGTAAGACCATGTCTGGGACATGACATCGGCATCAAGATGA-GTGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCAGCCTC--GA-GACGTGCC
* * * *
24236215 AGTGTAAGACATGTCTGGGACATGCATC-GACTACAATATGTGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGT--GCC
* * *
24236261 AGTGTAAGACCATGTCTGGGACATGACATCGGCATCAAGATGA-GTGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCAGCCTC--GA-GACGTGCC
* * * *
24236309 AGTGTAAGACATGTCTGGGACATGCATC-GACTACAATATGTGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGT--GCC
* * *
24236355 AGTGTAAGACCATGTCTGGGACATGACATCGGCATCAAGATGA-GTGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCAGCCTC--GA-GACGTGCC
* * * *
24236403 AGTGTAAGACATGTCTGGGACATGCATC-GACTACAATATGTGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGT--GCC
* * *
24236449 AGTGTAAGACCATGTCTGGGACATGACATCGGCATCAAGATGA-GTGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCAGCCTC--GA-GACGTGCC
* * * *
24236497 AGTGTAAGACATGTCTGGGACATGCATC-GACTACAATATGTGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGT--GCC
* * *
24236543 AGTGTAAGACCATGTCTGGGACATGACATCGGCATCAAGATGA-GTGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCAGCCTC--GA-GACGTGCC
* * * *
24236591 AGTGTAAGACATGTCTGGGACATGCATC-GACTACAATATGTGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGT--GCC
* * * *
24236637 AGTGTAAGACCATGTCTGGGACATGACATCGGCATCAAGGTGA-GTGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCAGCCTC---GAGACGTGCC
24236685 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGT--GCC
* ** * *
24236731 AGTGTAAGACATGT-TGGGACATGCAT-TGGTTGCGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGTGCC
*
24236774 AATGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
24236804 GGCACCTTAC
Statistics
Matches: 655, Mismatches: 86, Indels: 167
0.72 0.09 0.18
Matches are distributed among these distances:
43 20 0.03
44 30 0.05
45 41 0.06
46 149 0.23
47 240 0.37
48 128 0.20
49 16 0.02
50 23 0.04
51 8 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTGCC
Found at i:24244396 original size:47 final size:48
Alignment explanation
Indices: 24244345--24244501 Score: 153
Period size: 47 Copynumber: 3.3 Consensus size: 48
24244335 TGCTATGTTT
* *
24244345 CAGACATGGTCTTACATTGGCTCAT-ATCTCAAGTCGAAGCCATGTCC
1 CAGACATGGTCTTACACTAGCTCATCATCTCAAGTCGAAGCCATGTCC
* ** *
24244392 CAGACATGGTCTTACACTAACT-ATCATCTTGTAGTCGACG-CATGTCC
1 CAGACATGGTCTTACACTAGCTCATCATC-TCAAGTCGAAGCCATGTCC
* * * *
24244439 CAGACAT-GTCTTACACTAGCAC-TCGTCTCAATTCCGATGCCATGTCC
1 CAGACATGGTCTTACACTAGCTCATCATCTCAAGT-CGAAGCCATGTCC
* *
24244486 TAGACATAGTCTTACA
1 CAGACATGGTCTTACA
24244502 TTGGTTCTCG
Statistics
Matches: 90, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
45 3 0.03
46 22 0.24
47 49 0.54
48 16 0.18
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (48 bp):
CAGACATGGTCTTACACTAGCTCATCATCTCAAGTCGAAGCCATGTCC
Found at i:24257797 original size:28 final size:28
Alignment explanation
Indices: 24257765--24257834 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
24257755 AATGAGATTG
24257765 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
24257793 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
24257821 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
24257835 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:24265276 original size:37 final size:37
Alignment explanation
Indices: 24265235--24265335 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 37
24265225 TTATCAAAAC
*
24265235 TAGAATCAAAATGAGAATCAGAATCAGAATCAGGTGA
1 TAGAATCAAAATCAGAATCAGAATCAGAATCAGGTGA
* * * *
24265272 TAGAATCAGAATCAAAATCAGAATTAGAATTAGGTGA
1 TAGAATCAAAATCAGAATCAGAATCAGAATCAGGTGA
* * * * *
24265309 CAAAATTAGAATCAGAATCAGTATCAG
1 TAGAATCAAAATCAGAATCAGAATCAG
24265336 GTAACAGAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.22
Consensus pattern (37 bp):
TAGAATCAAAATCAGAATCAGAATCAGAATCAGGTGA
Found at i:24265304 original size:6 final size:6
Alignment explanation
Indices: 24265236--24265301 Score: 62
Period size: 6 Copynumber: 10.8 Consensus size: 6
24265226 TATCAAAACT
* * *
24265236 AGAATC AAAATG AGAATC AGAATC AGAATC AGGTGAT- AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* *
24265285 AAAATC AGAATT AGAAT
1 AGAATC AGAATC AGAAT
24265302 TAGGTGACAA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
5 2 0.04
6 42 0.88
7 2 0.04
8 2 0.04
ACGTcount: A:0.52, C:0.11, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:24265350 original size:37 final size:35
Alignment explanation
Indices: 24265236--24265357 Score: 108
Period size: 37 Copynumber: 3.5 Consensus size: 35
24265226 TATCAAAACT
*
24265236 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGA
1 AGAATCAAAATTAGAATCAGAATCAGAATCAGGT-A
* * * * *
24265272 TAGAATCAGAATCAAAATCAGAATTAGAATTAGGT-
1 -AGAATCAAAATTAGAATCAGAATCAGAATCAGGTA
*
24265307 -G-A-CAAAATTAGAATCAGAATCAGTATCAGGTAA
1 AGAATCAAAATTAGAATCAGAATCAGAATCAGGT-A
*
24265340 CAGAATCAAAATTGGAAT
1 -AGAATCAAAATTAGAAT
24265358 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
31 23 0.34
32 1 0.01
33 1 0.01
35 1 0.01
36 1 0.01
37 40 0.60
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (35 bp):
AGAATCAAAATTAGAATCAGAATCAGAATCAGGTA
Found at i:24265828 original size:27 final size:27
Alignment explanation
Indices: 24265798--24266332 Score: 532
Period size: 27 Copynumber: 19.2 Consensus size: 27
24265788 TAACACCCTA
* *
24265798 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
* *
24265825 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTAAAATGGTAATTCTGTAAATCG
** * *
24265852 AGGGTAAAACAGTAATTTTGTAAATCA
1 AGGGTAAAATGGTAATTCTGTAAATCG
*
24265879 AGGGTAAAATGGTAATTCTGTGAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
** *
24265906 AGGGTAAAATAATAATTTTGTAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
*
24265933 AGGGTAAAATGGTAATTTTGTAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
* * *
24265960 AGGGTAAAATAGTAATTCTGTAAAACAATA
1 AGGGTAAAATGGTAATTCTGTAAATC---G
***
24265990 ATTCTATAAATAGAGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTA-AAAT----GGT-A-------ATTCTGTAAATCG
*
24266030 AGGGTAAAACGGTAAATT-TGTAAATCG
1 AGGGTAAAATGGT-AATTCTGTAAATCG
*
24266057 AGGGTAAAATAGTAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
* * * *
24266084 AGGGTAAAACGATAATTCTATAAGTCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
**
24266111 AGGGTAAAATAATAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
* *
24266138 AGGGTAAAATGATAATTTTGTAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
* * *
24266165 AGAGTAAAATAGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
*
24266192 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
**
24266219 AGGGTAAAATAATAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
** *
24266246 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
*
24266273 AGGGTAAAATAGTAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
* * *
24266300 ATGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
24266327 AGGGTA
1 AGGGTA
24266333 CTTTGGTAAT
Statistics
Matches: 425, Mismatches: 66, Indels: 34
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.01
27 386 0.91
28 3 0.01
30 3 0.01
31 4 0.01
35 7 0.02
36 1 0.00
39 3 0.01
40 3 0.01
43 11 0.03
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.29
Consensus pattern (27 bp):
AGGGTAAAATGGTAATTCTGTAAATCG
Found at i:24265867 original size:54 final size:54
Alignment explanation
Indices: 24265798--24266332 Score: 698
Period size: 54 Copynumber: 10.1 Consensus size: 54
24265788 TAACACCCTA
* * * *
24265798 AGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
* * * * *
24265852 AGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAATGGTAATTCTGTGAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
* * * *
24265906 AGGGTAAAATAATAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
* * *
24265960 AGGGTAAAATAGTAATTCTGT-AA---A----ACAA---TAATTCTATAAATAG
1 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
*
24266003 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAAATT-TGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGT-AATTCTGTAAATCG
* * *
24266057 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAGTCG
1 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
* * * *
24266111 AGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAATGATAATTTTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
* *
24266165 AGAGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
* * *
24266219 AGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
* *
24266273 AGGGTAAAATAGTAATTCTGTAAATCGATGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
24266327 AGGGTA
1 AGGGTA
24266333 CTTTGGTAAT
Statistics
Matches: 421, Mismatches: 47, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
43 32 0.08
44 2 0.00
46 3 0.01
47 1 0.00
50 1 0.00
51 3 0.01
53 6 0.01
54 369 0.88
55 4 0.01
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.29
Consensus pattern (54 bp):
AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
Found at i:24265905 original size:81 final size:81
Alignment explanation
Indices: 24265798--24266332 Score: 637
Period size: 81 Copynumber: 6.7 Consensus size: 81
24265788 TAACACCCTA
* * *** *
24265798 AGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACA
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAACA
* * *
24265863 GTAATTTTGTAAATCA
66 GTAATTCTATAAATCG
* * **
24265879 AGGGTAAAATGGTAATTCTGTGAATCGAGGGTAAAATAATAATTTTGTAAATCGAGGGTAAAATG
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAACA
* *
24265944 GTAATTTTGTAAATCG
66 GTAATTCTATAAATCG
* * * *
24265960 AGGGTAAAATAGTAATTC------T-----GTAAAACAATAATTCTATAAATAGAGGGTAAAACA
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAACA
*
24266014 GTAATTCTGTAAATCG
66 GTAATTCTATAAATCG
* *
24266030 AGGGTAAAACGGTAAATT-TGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAAC
1 AGGGTAAAATGGT-AATTCTGTAAATCGAGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAAC
*
24266094 -GATAATTCTATAAGTCG
65 AG-TAATTCTATAAATCG
** * * * *
24266111 AGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAATGATAATTTTGTAAATCGAGAGTAAAATA
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAACA
24266176 GTAATTCTATAAATCG
66 GTAATTCTATAAATCG
*
24266192 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAACA
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAACA
24266257 GTAATTCTATAAATCG
66 GTAATTCTATAAATCG
* * *** *
24266273 AGGGTAAAATAGTAATTCTGTAAATCGATGGTAAAACGGTAATTTTGTAAATCGAGGGTA
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAATAATTCTGTAAATCGAGGGTA
24266333 CTTTGGTAAT
Statistics
Matches: 389, Mismatches: 50, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
70 55 0.14
71 4 0.01
75 1 0.00
76 1 0.00
80 5 0.01
81 322 0.83
82 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.29
Consensus pattern (81 bp):
AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAACA
GTAATTCTATAAATCG
Found at i:24265983 original size:43 final size:43
Alignment explanation
Indices: 24265936--24266080 Score: 119
Period size: 43 Copynumber: 3.1 Consensus size: 43
24265926 TAAATCGAGG
24265936 GTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCT
1 GTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCT
*** * * * *
24265979 GTAAAACAATAATTCTATAAATAGAGGGTAAAACAGTAATTCT
1 GTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCT
*
24266022 GTAAATCGAGGGTAAAACGGTAAATTTGTAAATCGAGGGTAAAATAGTAATTCT
1 GTAAA---A---T-----GGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCT
24266076 GTAAA
1 GTAAA
24266081 TCGAGGGTAA
Statistics
Matches: 76, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
43 41 0.54
46 1 0.01
54 34 0.45
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (43 bp):
GTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCT
Found at i:24266354 original size:27 final size:27
Alignment explanation
Indices: 24266310--24266371 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
24266300 ATGGTAAAAC
**
24266310 GGTAATTTTGTAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTACTTT
* *
24266337 GGTAATTTTACAAGTCGAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTACTTT
*
24266364 AGTAATTT
1 GGTAATTT
24266372 GGTAAAACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.42
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTACTTT
Found at i:24268214 original size:28 final size:28
Alignment explanation
Indices: 24268178--24268292 Score: 115
Period size: 29 Copynumber: 4.0 Consensus size: 28
24268168 GTGAGCATGA
* *
24268178 ATATGAATGTAATTGGGCCTAACGGGCC
1 ATATAAATGTAATTGGGCCTAATGGGCC
* *
24268206 ATATAAATGTGATTTGGGCCTAATGGACC
1 ATATAAATGT-AATTGGGCCTAATGGGCC
*
24268235 ATATACAGATG-ATTTGGGCCTAATGGGCC
1 ATATA-A-ATGTAATTGGGCCTAATGGGCC
* * * *
24268264 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTAATTGGGCCTAATGGGCC
24268292 A
1 A
24268293 AATACAGGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.03
28 26 0.36
29 41 0.56
30 1 0.01
31 3 0.04
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (28 bp):
ATATAAATGTAATTGGGCCTAATGGGCC
Found at i:24268227 original size:29 final size:29
Alignment explanation
Indices: 24268190--24268292 Score: 129
Period size: 29 Copynumber: 3.6 Consensus size: 29
24268180 ATGAATGTAA
*
24268190 TTGGGCCTAACGGGCCATATAAATGTGAT
1 TTGGGCCTAATGGGCCATATAAATGTGAT
* *
24268219 TTGGGCCTAATGGACCATATACA-GATGAT
1 TTGGGCCTAATGGGCCATATAAATG-TGAT
* *
24268248 TTGGGCCTAATGGGCCATATGAATATGA-
1 TTGGGCCTAATGGGCCATATAAATGTGAT
*
24268276 TTGGGCTTAATGGGCCA
1 TTGGGCCTAATGGGCCA
24268293 AATACAGGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
28 17 0.27
29 47 0.73
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATAAATGTGAT
Found at i:24268263 original size:58 final size:57
Alignment explanation
Indices: 24268190--24268299 Score: 157
Period size: 58 Copynumber: 1.9 Consensus size: 57
24268180 ATGAATGTAA
* *
24268190 TTGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGACCATATACAGATGAT
1 TTGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATGGACCAAATACAGATGAT
* * * *
24268248 TTGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAAATACAG
1 TTGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGACCAAATACAG
24268300 GTATGTGAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 21 0.46
58 25 0.54
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (57 bp):
TTGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGACCAAATACAGATGAT
Found at i:24269040 original size:27 final size:26
Alignment explanation
Indices: 24269010--24269090 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 26
24269000 ATTTTGTTAA
*
24269010 GTGGCTTTGCCACATTATCTATTTCTG
1 GTGGCTTTGCCACAATATCTA-TTCTG
* * *
24269037 GTGGCTATGCCACAAATATCTGTTCTA
1 GTGGCTTTGCCAC-AATATCTATTCTG
24269064 GTGGCTTTGCCACAATATCTATTCTG
1 GTGGCTTTGCCACAATATCTATTCTG
24269090 G
1 G
24269091 CAGCCATGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
26 12 0.26
27 28 0.61
28 6 0.13
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (26 bp):
GTGGCTTTGCCACAATATCTATTCTG
Found at i:24269218 original size:6 final size:6
Alignment explanation
Indices: 24269209--24269395 Score: 98
Period size: 6 Copynumber: 30.3 Consensus size: 6
24269199 TTTCATTCAC
* * * * *
24269209 ATTCTG ATTCTG ATTC-G GTTACTTG ATACTG ATTCTG AGTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
24269259 ATTCTG ATTCTG ATTCTT ATTCTA ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * *
24269308 ATTCT- ATCACCTA ATTGTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
24269358 ATTTTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
24269396 AATGCTTCTT
Statistics
Matches: 136, Mismatches: 28, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
5 9 0.07
6 108 0.79
7 12 0.09
8 7 0.05
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:24269240 original size:25 final size:25
Alignment explanation
Indices: 24269212--24269274 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
24269202 CATTCACATT
* * *
24269212 CTGATTCTGATTCGGTTACTTGATA
1 CTGATTCTGATTCGGTCACCTAATA
* * *
24269237 CTGATTCTGAGTCTGTCACCTAATT
1 CTGATTCTGATTCGGTCACCTAATA
24269262 CTGATTCTGATTC
1 CTGATTCTGATTC
24269275 TTATTCTAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (25 bp):
CTGATTCTGATTCGGTCACCTAATA
Found at i:24269319 original size:25 final size:25
Alignment explanation
Indices: 24269268--24269337 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
24269258 AATTCTGATT
* * * *
24269268 CTGATTCTTATTCTAATTCTGTTAC
1 CTGATTCTGATTCTGATTCTATCAC
*
24269293 CTGATACTGATTCTGATTCTATCAC
1 CTGATTCTGATTCTGATTCTATCAC
* *
24269318 CTAATTGTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCT
24269338 GATTCTGATT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTATCAC
Found at i:24269334 original size:37 final size:37
Alignment explanation
Indices: 24269259--24269387 Score: 138
Period size: 37 Copynumber: 3.5 Consensus size: 37
24269249 CTGTCACCTA
* *
24269259 ATTCTGATTCTGATTCT-T-ATTCTAATTCTG-TTACCTG
1 ATTCTGATTCTGATTCTATCA-CCTAATTGTGATT--CTG
*
24269296 ATACTGATTCTGATTCTATCACCTAATTGTGATTCTG
1 ATTCTGATTCTGATTCTATCACCTAATTGTGATTCTG
* * *
24269333 ATTCTGATTCTGATTCTGTCACCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTATCACCTAATTGTGATTCTG
* *
24269370 ATTCTCATTTTGATTCTA
1 ATTCTGATTCTGATTCTA
24269388 GTTCTGATAA
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
37 67 0.85
38 9 0.11
39 3 0.04
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (37 bp):
ATTCTGATTCTGATTCTATCACCTAATTGTGATTCTG
Found at i:24269371 original size:62 final size:62
Alignment explanation
Indices: 24269209--24269374 Score: 242
Period size: 62 Copynumber: 2.7 Consensus size: 62
24269199 TTTCATTCAC
* * * *
24269209 ATTCTGATTCTGATTCGGTTACTTGATACTGATTCTGAGTCTGTCACCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATCACCTAATTCTGATTCTG
* * *
24269271 ATTCTTATTCTAATTCTGTTACCTGATACTGATTCTGATTCTATCACCTAATTGTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATCACCTAATTCTGATTCTG
* **
24269333 ATTCTGATTCTGATTCTGTCACCTGATTTTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCT
24269375 CATTTTGATT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 92 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.46
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATCACCTAATTCTGATTCTG
Found at i:24271412 original size:68 final size:66
Alignment explanation
Indices: 24271265--24271450 Score: 211
Period size: 68 Copynumber: 2.8 Consensus size: 66
24271255 ATATAGTTCG
* *
24271265 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACCTAGC--CA-ATTTATCTCGT
1 GCTCTCTTGTACACATGGTGTACACTCAGTACCACCCATGTGACCTAGCTACATATATATCTCGT
24271327 A
66 A
* *
24271328 GCTCTCTTGT-CTACATGGTGTACACAT-AGTATCACCCATGTGACCTAGCTACATCATAATGTC
1 GCTCTCTTGTAC-ACATGGTGTACAC-TCAGTACCACCCATGTGACCTAGCTACAT-AT-ATATC
*
24271391 TTGTA
62 TCGTA
* * * **
24271396 GCTCTCTTGTACACATGATGTGCACTCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGTACACATGGTGTACACTCAGTACCACCCATGTGACCTAGCTACATA
24271451 CTATCTGTAT
Statistics
Matches: 103, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
62 1 0.01
63 43 0.42
64 1 0.01
65 2 0.02
67 4 0.04
68 51 0.50
69 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (66 bp):
GCTCTCTTGTACACATGGTGTACACTCAGTACCACCCATGTGACCTAGCTACATATATATCTCGT
A
Found at i:24274869 original size:29 final size:29
Alignment explanation
Indices: 24274814--24274937 Score: 117
Period size: 29 Copynumber: 4.3 Consensus size: 29
24274804 GTGAGCATGA
* * *
24274814 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
24274842 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
** * *
24274871 ATATTTAGGTGATTTGGGCCTAATGAGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * *
24274900 ATATGAATAT-AATTGGGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
24274928 AGATACATGT
1 ATATAAATGT
24274938 ATGTGAATTT
Statistics
Matches: 77, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
28 32 0.42
29 45 0.58
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:24285827 original size:40 final size:40
Alignment explanation
Indices: 24285790--24285974 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
24285780 GCTACTCGTT
*
24285790 CAATTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAATTGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
24285830 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAATTGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
24285870 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCA
1 CAATTGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
24285909 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAATTGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
24285950 CAA-AGCCTTCGGGACTTAGCCCGGA
1 CAATTGCCTTCGGGACTTAGCCCGGA
24285975 CATCATTCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAATTGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:24285893 original size:79 final size:81
Alignment explanation
Indices: 24285794--24285974 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 81
24285784 CTCGTTCAAT
* * *
24285794 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCGGAT
1 TGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGAT
* *
24285857 TTAGTAAC-TCGCACAAA
64 ATAGTAACTTAGCACAAA
* * **
24285874 TGCCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCACAAATGCCTTCGGATCTTAGTCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATAT
* *
24285938 GGTCACTTAGCACAAA
66 AGTAACTTAGCACAAA
24285954 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAGCCCGGA
24285975 CATCATTCAA
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 53 0.62
80 30 0.35
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (81 bp):
TGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATAT
AGTAACTTAGCACAAA
Found at i:24287693 original size:20 final size:20
Alignment explanation
Indices: 24287668--24287708 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
24287658 CTTAATGACC
24287668 CAGCTCCTCTTCTCTGTAAT
1 CAGCTCCTCTTCTCTGTAAT
24287688 CAGCTCCTCTTCTCTGTAAT
1 CAGCTCCTCTTCTCTGTAAT
24287708 C
1 C
24287709 CTACCTGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.37, G:0.10, T:0.39
Consensus pattern (20 bp):
CAGCTCCTCTTCTCTGTAAT
Found at i:24293734 original size:46 final size:47
Alignment explanation
Indices: 24293677--24293805 Score: 156
Period size: 46 Copynumber: 2.7 Consensus size: 47
24293667 ACATCTCATA
*
24293677 GCTGATGCATGTCCCAAACATGTCTTACACTGGCTTA-T-GTCTCGAG
1 GCTGATGCATGTCCCAAACATGTCTTACACTGGC-TACTCGTCTCAAG
* * *
24293723 GCTGAAGCATGTCCCAAACATGTCTTACACTAGC-ACTCGTCTCAAT
1 GCTGATGCATGTCCCAAACATGTCTTACACTGGCTACTCGTCTCAAG
* *
24293769 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 GCTGATG-CATGTCCCAAACAT-GTCTTACACTGGCT
24293806 CTCAAAATGT
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 43 0.61
47 13 0.19
48 12 0.17
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
GCTGATGCATGTCCCAAACATGTCTTACACTGGCTACTCGTCTCAAG
Found at i:24293828 original size:47 final size:46
Alignment explanation
Indices: 24293777--24293898 Score: 183
Period size: 47 Copynumber: 2.7 Consensus size: 46
24293767 ATGCCGATGC
24293777 CATGTCCCAGACATGGTCTTACACTGGCTCTCAAAATGTGGCTAATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCAAAATGT-GCTAATG
* * *
24293824 CATGTCCTAAACATGGTCTTACACTGGCTCTCAAAATGTGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCAAAATGTGCTAATG
* *
24293870 TATGTCCCAGACAT-GTCATACACTGGCTC
1 CATGTCCCAGACATGGTCTTACACTGGCTC
24293899 ACACAAGTAA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 14 0.21
46 17 0.25
47 37 0.54
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTCAAAATGTGCTAATG
Found at i:24300554 original size:16 final size:17
Alignment explanation
Indices: 24300527--24300559 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
24300517 ATGGCAAGTG
24300527 TGATGTTAATCGTGGTA
1 TGATGTTAATCGTGGTA
24300544 TGATG-TAATCGTGGTA
1 TGATGTTAATCGTGGTA
24300560 AGATAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.24, C:0.06, G:0.30, T:0.39
Consensus pattern (17 bp):
TGATGTTAATCGTGGTA
Found at i:24304098 original size:17 final size:18
Alignment explanation
Indices: 24304065--24304099 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24304055 TTTTAAGAAA
24304065 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
24304083 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
24304100 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:24305857 original size:20 final size:20
Alignment explanation
Indices: 24305788--24305851 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
24305778 CTTTGATAGT
* *
24305788 CCTGTTTGCACTTCGGTGCC
1 CCTGTTTGCACATCAGTGCC
* *
24305808 CCTGTTTGCATATCTGTGCC
1 CCTGTTTGCACATCAGTGCC
24305828 CCTGTTTGCACATCAGTGCC
1 CCTGTTTGCACATCAGTGCC
24305848 CCTG
1 CCTG
24305852 ACTGCATGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.09, C:0.34, G:0.22, T:0.34
Consensus pattern (20 bp):
CCTGTTTGCACATCAGTGCC
Found at i:24307963 original size:29 final size:29
Alignment explanation
Indices: 24307925--24307981 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
24307915 AGGTGTTAGC
*
24307925 ATGAAAATACCTAAAATGACTATTTTGTT
1 ATGAAAATACCTAAAAGGACTATTTTGTT
24307954 ATGAAAATACCTAAAAGGACTATTTTGT
1 ATGAAAATACCTAAAAGGACTATTTTGT
24307982 ATAAGTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (29 bp):
ATGAAAATACCTAAAAGGACTATTTTGTT
Found at i:24308662 original size:46 final size:45
Alignment explanation
Indices: 24308470--24308676 Score: 141
Period size: 46 Copynumber: 4.4 Consensus size: 45
24308460 ATTATGGGCT
* * * * * *
24308470 AGTGAAAGACATGTGTGGGACATGCATCGGCCAC-ATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GACG-TAGCC
* ** * * *
24308516 TGTGTAAGACCATGTCTGGGATGTGGCATCGGCAACGGGACG-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGACGTA--GCC
* * *
24308564 AGTGTAAGACATGTCCGGGACATGCATCGGCCT-CAAAACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGACGT-AGCC
* * *
24308610 AATGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACG-TAGCC
24308656 AGTGTAAGACCATGTCTGGGA
1 AGTGTAAGA-CATGTCTGGGA
24308677 TATGGTATCG
Statistics
Matches: 124, Mismatches: 26, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
45 2 0.02
46 64 0.52
47 35 0.28
48 23 0.19
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTAGCC
Found at i:24309761 original size:101 final size:101
Alignment explanation
Indices: 24309586--24309786 Score: 366
Period size: 101 Copynumber: 2.0 Consensus size: 101
24309576 CCGAGATCGT
24309586 CGCCGAAGTCGAACACGAGGTGTTAACAGACTTCAAACCACTTATTAAAAATTTCCCAGACAAGC
1 CGCCGAAGTCGAACACGAGGTGTTAACAGACTTCAAACCACTTATTAAAAATTTCCCAGACAAGC
* *
24309651 TGTCACTCTGCGTACTAGTTGTTTTAAAAATCATAC
66 TGTCACTCTGCGTACTAGTCGCTTTAAAAATCATAC
* *
24309687 CGCCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACCACTTATTAAAAATTTCCCAGACAAGT
1 CGCCGAAGTCGAACACGAGGTGTTAACAGACTTCAAACCACTTATTAAAAATTTCCCAGACAAGC
24309752 TGTCACTCTGCGTACTAGTCGCTTTAAAAATCATA
66 TGTCACTCTGCGTACTAGTCGCTTTAAAAATCATA
24309787 TCTTGAGTTC
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 96 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (101 bp):
CGCCGAAGTCGAACACGAGGTGTTAACAGACTTCAAACCACTTATTAAAAATTTCCCAGACAAGC
TGTCACTCTGCGTACTAGTCGCTTTAAAAATCATAC
Found at i:24310326 original size:279 final size:279
Alignment explanation
Indices: 24309818--24310374 Score: 1008
Period size: 279 Copynumber: 2.0 Consensus size: 279
24309808 ATCCAGTTCC
*
24309818 GTGAATTTTCCATAAAACTAAACTCATATTCCCATCTACATATTTTTTTCTAGAATTTTTGGTCG
1 GTGAATTTTCCATAAAACTAAACTCATATTCCCATCTACATATTTTTTTCTAGAATTTTTGGTCA
*
24309883 GGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACACTGACCTTT
66 GGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATATTACAGGGATCGACTACACTGACCTTT
24309948 GCGCATTACGACTTGGATATATCCCTGTACAGGGCTTCAATACTAATTTCGTTTGTTTCTATAGA
131 GCGCATTACGACTTGGATATATCCCTGTACAGGGCTTCAATACTAATTTCGTTTGTTTCTATAGA
*
24310013 AACTAGACTCAAAGGGGAATCTATGCTAATATAGCATGACTTCTAATTATCTCTGGTTAATTTAT
196 AACTAGACTCAAAGGGGAATCTATGCTAATATAGCATGACTTCTAATTATCTCTAGTTAATTTAT
24310078 AATGAATTTCCAAAGTCGA
261 AATGAATTTCCAAAGTCGA
* * *
24310097 GTGAATTTTCCCTGAAACTAGACTCATATTCCCATCTACATATTTTTTTCTAGAATTTTTGGTCA
1 GTGAATTTTCCATAAAACTAAACTCATATTCCCATCTACATATTTTTTTCTAGAATTTTTGGTCA
24310162 GGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATATTACAGGGATCGACTACACTGACCTTT
66 GGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATATTACAGGGATCGACTACACTGACCTTT
* * **
24310227 TCGCATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATACTGGTTTCGTTTGTTTCTATAGA
131 GCGCATTACGACTTGGATATATCCCTGTACAGGGCTTCAATACTAATTTCGTTTGTTTCTATAGA
24310292 AACTAGACTCAAAGGGGAATCTATGC-ACATATAGCATGACTTCTAATTATCTCTAGTTAATTTA
196 AACTAGACTCAAAGGGGAATCTATGCTA-ATATAGCATGACTTCTAATTATCTCTAGTTAATTTA
24310356 TAATGAATTTCCAAAGTCG
260 TAATGAATTTCCAAAGTCG
24310375 GATCAGGGAA
Statistics
Matches: 267, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
278 1 0.00
279 266 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (279 bp):
GTGAATTTTCCATAAAACTAAACTCATATTCCCATCTACATATTTTTTTCTAGAATTTTTGGTCA
GGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATATTACAGGGATCGACTACACTGACCTTT
GCGCATTACGACTTGGATATATCCCTGTACAGGGCTTCAATACTAATTTCGTTTGTTTCTATAGA
AACTAGACTCAAAGGGGAATCTATGCTAATATAGCATGACTTCTAATTATCTCTAGTTAATTTAT
AATGAATTTCCAAAGTCGA
Found at i:24320294 original size:28 final size:28
Alignment explanation
Indices: 24320227--24320324 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
24320217 ATATTAAGTC
24320227 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTCAGTGCTATATAATCAAACT
*
24320254 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATCAAACT
* * * *
24320282 CGCACACTCAGTGCTGTACAATTTAAACC
1 CGCACACTCAGTGCTATATAA-TCAAACT
*
24320311 CGCACACTTAGTGC
1 CGCACACTCAGTGC
24320325 CAATCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
29 18 0.29
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTCAGTGCTATATAATCAAACT
Found at i:24321230 original size:163 final size:163
Alignment explanation
Indices: 24320960--24321283 Score: 639
Period size: 163 Copynumber: 2.0 Consensus size: 163
24320950 GCTCATTCGA
24320960 CATTCACAAAATCATACCATTAGAATTCATGTACAATACCGAACCTTTAGACATTCAAACATCTA
1 CATTCACAAAATCATACCATTAGAATTCATGTACAATACCGAACCTTTAGACATTCAAACATCTA
24321025 CTCTATTCTTTTCAAATCATCTAAACGGCAACACTCACATTCTAGCATTTAAATACAAAACATTT
66 CTCTATTCTTTTCAAATCATCTAAACGGCAACACTCACATTCTAGCATTTAAATACAAAACATTT
24321090 ATTCAAGTAACTAAGCAAGTCCAAGTTCGGCAG
131 ATTCAAGTAACTAAGCAAGTCCAAGTTCGGCAG
24321123 CATTCACAAAATCATACCATTAGAATTCATGTACAATACCGAACCTTTAGACATTCAAACATCTA
1 CATTCACAAAATCATACCATTAGAATTCATGTACAATACCGAACCTTTAGACATTCAAACATCTA
*
24321188 CTCTATTCTTTTCAAATCATCTAAACGGCAACACTCACATTCTAGCATTTAAATACTAAACATTT
66 CTCTATTCTTTTCAAATCATCTAAACGGCAACACTCACATTCTAGCATTTAAATACAAAACATTT
24321253 ATTCAAGTAACTAAGCAAGTCCAAGTTCGGC
131 ATTCAAGTAACTAAGCAAGTCCAAGTTCGGC
24321284 TATTACACAT
Statistics
Matches: 160, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 160 1.00
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.29
Consensus pattern (163 bp):
CATTCACAAAATCATACCATTAGAATTCATGTACAATACCGAACCTTTAGACATTCAAACATCTA
CTCTATTCTTTTCAAATCATCTAAACGGCAACACTCACATTCTAGCATTTAAATACAAAACATTT
ATTCAAGTAACTAAGCAAGTCCAAGTTCGGCAG
Found at i:24332930 original size:30 final size:30
Alignment explanation
Indices: 24332896--24332955 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
24332886 ATTTAATAGG
24332896 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
24332926 AACTTTTGTATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
24332956 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:24341656 original size:47 final size:46
Alignment explanation
Indices: 24341597--24341765 Score: 166
Period size: 45 Copynumber: 3.6 Consensus size: 46
24341587 AGAGCCTATA
*
24341597 TAAGACAATGTCTGGGACATGGCATCGGCATCGAGACGAGT-GCTAGTG
1 TAAGAC-ATGTCTGGGACAT-GCATCGGCATCGAGACG-GTAGCCAGTG
* * *
24341645 TATGACATGTCTGGGACATGCA-CGGCCTCGAGACGTTAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCATCGAGACGGTAGCCAGTG
* * * *
24341690 TAAGATATGTCTGGGACATGCATCGGC-TACGA-ATTGATAGTCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCAT-CGAGA-CGGTAGCCAGTG
*
24341736 TAAGACCATGTCTGGGATATGGCATCGGCA
1 TAAGA-CATGTCTGGGACAT-GCATCGGCA
24341766 CCCTACCCCA
Statistics
Matches: 103, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
44 1 0.01
45 40 0.39
46 24 0.23
47 25 0.24
48 13 0.13
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGGCATCGAGACGGTAGCCAGTG
Found at i:24361809 original size:55 final size:53
Alignment explanation
Indices: 24361667--24361860 Score: 163
Period size: 55 Copynumber: 3.6 Consensus size: 53
24361657 TTACCATTTA
* *
24361667 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTCC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATCC
* * * * * ** * * *
24361720 CACGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACTCACCAATCC
* * * * * **
24361775 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATTT
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATCC
* * *
24361829 CATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CATGTCTTGACATGGTCTTACATGGTATCCTT
24361861 AAGCCCTAAT
Statistics
Matches: 108, Mismatches: 31, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
53 33 0.31
54 36 0.33
55 39 0.36
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATCC
Found at i:24361978 original size:13 final size:13
Alignment explanation
Indices: 24361960--24361993 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
24361950 AATCATCAAG
24361960 GAATAAATTTACA
1 GAATAAATTTACA
24361973 GAATAAATTTACA
1 GAATAAATTTACA
*
24361986 AAATAAAT
1 GAATAAAT
24361994 ATATAGATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (13 bp):
GAATAAATTTACA
Found at i:24376979 original size:48 final size:48
Alignment explanation
Indices: 24376882--24376999 Score: 137
Period size: 48 Copynumber: 2.5 Consensus size: 48
24376872 ACCACAATTA
* * *
24376882 ATGAGAGCCAGTGTAAGACCATGCCTGGGACATGACATTAGCGTTGAT
1 ATGAGAGCCAGTGTAAGACCATGCCTGGGACATGACATCAGCATGGAT
* * * *
24376930 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGAT
1 ATGAGAGCCAGTGTAAGACCATGCCTGGGACATGACATCAGCATGGAT
* * * *
24376978 ATGTGTGTCATTGTAAGACCAT
1 ATGAGAGCCAGTGTAAGACCAT
24377000 ATCGGGATAT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGCCTGGGACATGACATCAGCATGGAT
Done.