Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4970990
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 21
Found at i:2173911 original size:14 final size:14
Alignment explanation
Indices: 2173889--2173927 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2173879 TTTGGTAAAG
2173889 TCAACGGTCAACAA
1 TCAACGGTCAACAA
*
2173903 TCAATGGTCAACAA
1 TCAACGGTCAACAA
* *
2173917 TTAACGTTCAA
1 TCAACGGTCAA
2173928 TGAAGGTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (14 bp):
TCAACGGTCAACAA
Found at i:2174830 original size:18 final size:17
Alignment explanation
Indices: 2174799--2174832 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
2174789 TAAAAGAAGT
2174799 AGTACAGGAAAAGATAC
1 AGTACAGGAAAAGATAC
2174816 AGTACAGGAAAAAGATA
1 AGTACAGG-AAAAGATA
2174833 TAGTTCAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.24, T:0.12
Consensus pattern (17 bp):
AGTACAGGAAAAGATAC
Found at i:2180169 original size:24 final size:25
Alignment explanation
Indices: 2180137--2180187 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 25
2180127 CAAATCTAAT
2180137 CCGATCCAAAAAA-ATAACCGAAAA
1 CCGATCCAAAAAACATAACCGAAAA
2180161 CCGATCCAAAAAATCGATAACCGAAAA
1 CCGATCCAAAAAA-C-ATAACCGAAAA
2180188 AAACCGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 13 0.54
27 11 0.46
ACGTcount: A:0.55, C:0.25, G:0.10, T:0.10
Consensus pattern (25 bp):
CCGATCCAAAAAACATAACCGAAAA
Found at i:2180198 original size:16 final size:17
Alignment explanation
Indices: 2180168--2180200 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2180158 AAACCGATCC
*
2180168 AAAAAATCGATAACCGA
1 AAAAAACCGATAACCGA
2180185 AAAAAACCGA-AACCGA
1 AAAAAACCGATAACCGA
2180201 TTTAGTGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.21, G:0.12, T:0.06
Consensus pattern (17 bp):
AAAAAACCGATAACCGA
Found at i:2185369 original size:24 final size:24
Alignment explanation
Indices: 2185303--2185374 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
2185293 CTTTTTTGAC
*
2185303 ATCTGATCTGAAATCTGTTCTGAT
1 ATCTGATCTGAATTCTGTTCTGAT
* * *
2185327 -TCCTAACCTGGATTCTGTTCTGAT
1 AT-CTGATCTGAATTCTGTTCTGAT
* *
2185351 ATCTGATCTGAATTATGTTTTGAT
1 ATCTGATCTGAATTCTGTTCTGAT
2185375 TTCCGATATA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
23 1 0.03
24 35 0.95
25 1 0.03
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (24 bp):
ATCTGATCTGAATTCTGTTCTGAT
Found at i:2198762 original size:18 final size:17
Alignment explanation
Indices: 2198739--2198772 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2198729 TAATGAAAGT
2198739 AATAATATAATCAAAATA
1 AATAATA-AATCAAAATA
*
2198757 AATAATAAATGAAAAT
1 AATAATAAATCAAAAT
2198773 GATGAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
AATAATAAATCAAAATA
Found at i:2201477 original size:61 final size:61
Alignment explanation
Indices: 2201390--2201504 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 61
2201380 GAAAGGTGAT
* * *
2201390 ACGACCTTATGTATCATGTTCGGATTAACACTATAGCATAAGCTTAGTGCAGGTGGTAGGC
1 ACGACCTTATGTATCATGTCCAGATTAACACTATAGCATAACCTTAGTGCAGGTGGTAGGC
* * * * *
2201451 ACGACCTTATGTGT-ATTGTCCAGATTAGCACTATGGCGTAACCTTAGTGTAGGT
1 ACGACCTTATGTATCA-TGTCCAGATTAACACTATAGCATAACCTTAGTGCAGGT
2201505 TTAGCACTAC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
60 1 0.02
61 44 0.98
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (61 bp):
ACGACCTTATGTATCATGTCCAGATTAACACTATAGCATAACCTTAGTGCAGGTGGTAGGC
Found at i:2201603 original size:20 final size:20
Alignment explanation
Indices: 2201556--2201604 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
2201546 CCTCATGGTT
*
2201556 GTATATGGGCTATTGTCTATT
1 GTATAT-GGCTATTGTCTATG
* * *
2201577 ATTTATGGCTATTGTTTATG
1 GTATATGGCTATTGTCTATG
2201597 GTATATGG
1 GTATATGG
2201605 TTATGGAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.20, C:0.06, G:0.24, T:0.49
Consensus pattern (20 bp):
GTATATGGCTATTGTCTATG
Found at i:2201663 original size:44 final size:44
Alignment explanation
Indices: 2201605--2201707 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 44
2201595 TGGTATATGG
* *
2201605 TTATGGAAAAATGGTAAGTATATTGAT-AAATAAGCTTATGAGC
1 TTATGGATAAATGGTAAGTATATTGATAAAATAAGCTTACGAGC
* *
2201648 TTATGGATTAAATGGTATGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGA-TAAATGGTAAGTATATTGATAAAATAAGCTTACGAGC
2201693 TTATGGGATAAATGG
1 TTAT-GGATAAATGG
2201708 AAAATAAACG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
43 7 0.13
44 17 0.32
45 26 0.49
46 3 0.06
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (44 bp):
TTATGGATAAATGGTAAGTATATTGATAAAATAAGCTTACGAGC
Found at i:2212481 original size:16 final size:16
Alignment explanation
Indices: 2212460--2212490 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2212450 TAATTAAACA
2212460 AACATAAACGAACATG
1 AACATAAACGAACATG
*
2212476 AACATAAACGGACAT
1 AACATAAACGAACAT
2212491 AAACGTTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.19, G:0.13, T:0.13
Consensus pattern (16 bp):
AACATAAACGAACATG
Found at i:2214337 original size:949 final size:950
Alignment explanation
Indices: 2212474--2214383 Score: 3274
Period size: 949 Copynumber: 2.0 Consensus size: 950
2212464 TAAACGAACA
2212474 TGAACATAAACGGACATAAACGTTAGAGACCCTACCTTCCATTGTTCTTTCATGAAAAATAGTCG
1 TGAACATAAACGGACATAAACGTTAGAGACCCTACCTTCCATTGTTCTTTCATGAAAAATAGTCG
* * **
2212539 ACAATGCAAATCAACCAAATATACAGTGATAAATAGCGTAAGCGTTGATTATTAGTGATGAAATG
66 ACAATGCAAATCAACCAAATATACAGTGATAAATAGCGTAAGAGCTGATTAGCAGTGATGAAATG
*
2212604 TTTGAAGATATCAGATAATTTGATTGATCTTTTAAAGATATTAAATGATTCACACGACTTTAATT
131 TTTGAAGATATCAGATAATTTGATCGATCTTTTAAAGATATTAAATGATTCACACGACTTTAATT
2212669 TAACGCTATAACATTTATCTTAGTGGTCCATGATTACATATGAACAATCATTTTCCACTAAGTTA
196 TAACGCTATAACATTTATCTTAGTGGTCCATGATTA-ATATGAACAATCATTTTCCACTAAGTTA
2212734 TTCTAATAAATTCGCCGGCTAAAAGTTTTGTGACATCAATGTCAGACTTTAGTGAGATTTGTTAA
260 TTCTAATAAATTCGCCGGCTAAAAGTTTTGTGACATCAATGTCAGACTTTAGTGAGATTTGTTAA
*
2212799 TAATGGTCTTTTCTGTTGGCAGAGTAGAAAATTTAACAGCATGAAGATTTCGAACGGTACAAATT
325 TAATGGTCTTTTCTGTTGGCAGAGTAGAAAATTTAACAGCATAAAGATTTCGAACGGTACAAATT
* *
2212864 GAACTACAAGGCAATAACATATATCTGAAATCCCTCCGATGCTACATATCGAATTGATATTATTG
390 GAACTACAAGGCAATAACATAGATCTGAAATCCCTCCGATGCTACATATCGAACTGATATTATTG
*
2212929 CTAAACCACCATTCAAAATTTTAACGTACCTAAAGTCTACTCCACAACTAAAGGTCACACAAGAA
455 ATAAACCACCATTCAAAATTTTAACGTACCTAAAGTCTACTCCACAACTAAAGGT-ACACAAGAA
* * *
2212994 CTATGAAAACAAAAGTTCGTTGTCAAAGTGTATTTTCTACTTATTAATGGGTTCTTCCTGGAAAA
519 CTATGAAAACAAAAGTTCATTGTCAAAGTGTATTTTCTACTTATTAATGGATTCTTCCTGAAAAA
2213059 CCCATTACTTCCGCTATACACTCTTTTTCAGAAATTGCATAGAAACCTTTGTTTTGTTTTCTGGA
584 CCCATTACTTCCGCTATACACTCTTTTTCAGAAATTGCATAGAAACCTTTGTTTTGTTTTCTGGA
2213124 AATTCTATATTTTTCTCTTTACTGATGCTCATATACTTGATTGTTACCTTTATCTTCCCATCTAT
649 AATTCTATATTTTTCTCTTTACTGATGCTCATATACTTGATTGTTACCTTTATCTTCCCATCTAT
* * *
2213189 TTCTATAAAAAAGTATGATGTTTCTTGATTTTAGATGTGAAGATACTCGCAATAACTTTACATAT
714 TTCTATAAAAAAGTATGACGTTTCTTAATTTTAGATGTGAAGATACCCGCAATAACTTTACATAT
* *
2213254 CAACTATTAAGCCAAATAAAACAGAGAAAGAGATGAAAATAGACTAAAACTTCAGATTGCACTAT
779 CAACTATTAAGCCAAATAAAACAGAGAAAAAGATGAAAATAGACTAAAACTTCAGATTGCACTAC
* *
2213319 AATATAACTTGTTTTGAAGCTTTCACTGATCATCTCCACTCTCCAGTGAACACTAGGGTTTGGGG
844 AATATAACTTGTTTTGAAGCTTTCACCGATCATCTCCACTCTCCAGTGAACACTAGGGTCT-GGG
* *
2213384 AAAAAAA-GGGAAAATGAATATAGGTGTGAGGTACCTTACAGG
908 AAAAAAAGGGGAAAATGAATATAGGTGCGAGGTACCTCACAGG
*
2213426 TGAACATAAACGGACATAAACGTTGGAGACCCTACCTTCCATTGTTC-TTCATG-AAAATAGTCG
1 TGAACATAAACGGACATAAACGTTAGAGACCCTACCTTCCATTGTTCTTTCATGAAAAATAGTCG
*
2213489 ACAATGCAAATCAACCAAATCTACA-TGATAAATAGCGTAAGAGCTGATTAGCAGTGATGAAATG
66 ACAATGCAAATCAACCAAATATACAGTGATAAATAGCGTAAGAGCTGATTAGCAGTGATGAAATG
2213553 TTTGAAGATATCAGAT-ATTTCGATCGATCTTTTAAAGATATTAAATGATTCACACGACTTTAAT
131 TTTGAAGATATCAGATAATTT-GATCGATCTTTTAAAGATATTAAATGATTCACACGACTTTAAT
* *
2213617 TTAACGCTATAACATTTATCTTAGTGGTCCATTATT-ATATGAACAATCATTTTCCACTACGTTA
195 TTAACGCTATAACATTTATCTTAGTGGTCCATGATTAATATGAACAATCATTTTCCACTAAGTTA
2213681 TTCTAATAAATTCGCCGGCTAAAAGTTTTGTGACATCAATGTCAGACTTTAGTGAGACTTTGTTA
260 TTCTAATAAATTCGCCGGCTAAAAGTTTTGTGACATCAATGTCAGACTTTAGTGAGA-TTTGTTA
2213746 ATAATGGTCTTTTCTGTTGGCAGAGTAGAAAATTTAACAGCATAAAGA-TTCGAACGGTACAAAT
324 ATAATGGTCTTTTCTGTTGGCAGAGTAGAAAATTTAACAGCATAAAGATTTCGAACGGTACAAAT
2213810 TGAACTACAAGGCAAT-ACATAGATCTGAAATCCCTCCGATGCTACATA-CGTAACT-ATATTAT
389 TGAACTACAAGGCAATAACATAGATCTGAAATCCCTCCGATGCTACATATCG-AACTGATATTAT
*
2213872 TTATAAACCACCATTCAAAATTTTAACGTACCTAAAGTCTACTCCACAACTAAAGGT-CACAAGA
453 TGATAAACCACCATTCAAAATTTTAACGTACCTAAAGTCTACTCCACAACTAAAGGTACACAAGA
2213936 ACTATGAAAACAAAAGTTCATTGTC-AAGTGTATTTTCTACTTATTAATGGATTCTTCCTGAAAA
518 ACTATGAAAACAAAAGTTCATTGTCAAAGTGTATTTTCTACTTATTAATGGATTCTTCCTGAAAA
2214000 ACCCATTACTTCCGCTATTACACTCTTTTTCAGAAATTGCATAGAAACCTTTGTTTTGTTTTCTG
583 ACCCATTACTTCCGCTA-TACACTCTTTTTCAGAAATTGCATAGAAACCTTTGTTTTGTTTTCTG
*
2214065 GCAAATTCTATATATTTTTCTGTTTACTGATGCTCATATACTTCCGATTGTTACCTTTATCTTCC
647 G-AAATTC--TATATTTTTCTCTTTACTGATGCTCATATACTT--GATTGTTACCTTTATCTTCC
2214130 CATCTATTTCTAT-AAAAAGTATGACGTTTTCTTAAGTTTTAGATGTGAAGATACCCGCAATAAC
707 CATCTATTTCTATAAAAAAGTATGACG-TTTCTTAA-TTTTAGATGTGAAGATACCCGCAATAAC
* *
2214194 TTTACATATCAACTATTAAGCCAAATAAAACAGAGAAAAATATGAAAATAGACTTGTAAAACTTT
770 TTTACATATCAACTATTAAGCCAAATAAAACAGAGAAAAAGATGAAAATAGAC---TAAAACTTC
2214259 AGATTGCACTACAATATAACTTGTTTTGAAGC-TTCACCGATCATCTCCACTCTCCAGTGAACAC
832 AGATTGCACTACAATATAACTTGTTTTGAAGCTTTCACCGATCATCTCCACTCTCCAGTGAACAC
* *
2214323 TAGGGTCT-GGAAAAAAAGGGGAAAATGAATATAGGTGCGAGGTGCCTCACGGG
897 TAGGGTCTGGGAAAAAAAGGGGAAAATGAATATAGGTGCGAGGTACCTCACAGG
*
2214376 TTAACATA
1 TGAACATA
2214384 TTGGATTTAA
Statistics
Matches: 911, Mismatches: 32, Indels: 32
0.93 0.03 0.03
Matches are distributed among these distances:
942 54 0.06
943 79 0.09
944 6 0.01
945 64 0.07
946 66 0.07
947 128 0.14
948 98 0.11
949 215 0.24
950 72 0.08
951 44 0.05
952 85 0.09
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (950 bp):
TGAACATAAACGGACATAAACGTTAGAGACCCTACCTTCCATTGTTCTTTCATGAAAAATAGTCG
ACAATGCAAATCAACCAAATATACAGTGATAAATAGCGTAAGAGCTGATTAGCAGTGATGAAATG
TTTGAAGATATCAGATAATTTGATCGATCTTTTAAAGATATTAAATGATTCACACGACTTTAATT
TAACGCTATAACATTTATCTTAGTGGTCCATGATTAATATGAACAATCATTTTCCACTAAGTTAT
TCTAATAAATTCGCCGGCTAAAAGTTTTGTGACATCAATGTCAGACTTTAGTGAGATTTGTTAAT
AATGGTCTTTTCTGTTGGCAGAGTAGAAAATTTAACAGCATAAAGATTTCGAACGGTACAAATTG
AACTACAAGGCAATAACATAGATCTGAAATCCCTCCGATGCTACATATCGAACTGATATTATTGA
TAAACCACCATTCAAAATTTTAACGTACCTAAAGTCTACTCCACAACTAAAGGTACACAAGAACT
ATGAAAACAAAAGTTCATTGTCAAAGTGTATTTTCTACTTATTAATGGATTCTTCCTGAAAAACC
CATTACTTCCGCTATACACTCTTTTTCAGAAATTGCATAGAAACCTTTGTTTTGTTTTCTGGAAA
TTCTATATTTTTCTCTTTACTGATGCTCATATACTTGATTGTTACCTTTATCTTCCCATCTATTT
CTATAAAAAAGTATGACGTTTCTTAATTTTAGATGTGAAGATACCCGCAATAACTTTACATATCA
ACTATTAAGCCAAATAAAACAGAGAAAAAGATGAAAATAGACTAAAACTTCAGATTGCACTACAA
TATAACTTGTTTTGAAGCTTTCACCGATCATCTCCACTCTCCAGTGAACACTAGGGTCTGGGAAA
AAAAGGGGAAAATGAATATAGGTGCGAGGTACCTCACAGG
Found at i:2217732 original size:234 final size:226
Alignment explanation
Indices: 2217329--2217788 Score: 832
Period size: 234 Copynumber: 2.0 Consensus size: 226
2217319 ATAGACTTGA
2217329 TTGCTAAATGAACTAAGTAACCTCAATGACTGAGAATTAATAAGTAATTTGGATGGGTCTGGAAC
1 TTGCTAAATGAACTAAGTAACCTCAATGACTGAGAATTAATAAGTAATTTGGATGGGTCTGGAAC
2217394 GTGTTGAACTTACATAACTGTCCTTATGGGTCATAAACCAGAATCAAGTACATCAGTATTTCCTA
66 GTGTTGAACTTACATAACTGTCCTTATGGGTCATAAACCAGAATCAAGTACATCAGTATTTCCTA
2217459 ATCGTTGAAAGTTGGAAATGAAATAAATGCCATTTGAAGATCTATTCAGTGATGATTCCGAAGAT
131 ATCGTTGAAAGTTGGAAATGAAATAAATGCCATTTGAAGATCTATTCAGTGATGATTCCGAAGAT
2217524 GATCTATGGACAAAAAGTTTTGGCATTAAAG
196 GATCTATGGACAAAAAGTTTTGGCATTAAAG
2217555 TTGCTAAATGAACTAAGTAACCTCAATGACTGAGAATTAA-AAGTAATTTGGATGGGTCTGGGAA
1 TTGCTAAATGAACTAAGTAACCTCAATGACTGAGAATTAATAAGTAATTTGGATGGGTCT-GGAA
2217619 CGCTGTTGAACTTACATAATATACTGTCCTTATGGGTCATAAACCACGAATCAAGTACATCAGTA
65 CG-TGTTGAACTTAC---ATA-ACTGTCCTTATGGGTCATAAACCA-GAATCAAGTACATCAGTA
2217684 TTTCCTAATATCGTTGAAAGTTGGAAATGAAATAAATGCCATTTGAAGATCTATTCAGTGATGAT
124 TTTCCT-A-ATCGTTGAAAGTTGGAAATGAAATAAATGCCATTTGAAGATCTATTCAGTGATGAT
2217749 TCCGAAGATGATCTATGGACAAAAAGTTTTGGCATTAAAG
187 TCCGAAGATGATCTATGGACAAAAAGTTTTGGCATTAAAG
2217789 AATAAATTCC
Statistics
Matches: 225, Mismatches: 0, Indels: 10
0.96 0.00 0.04
Matches are distributed among these distances:
225 19 0.08
226 46 0.20
227 12 0.05
230 3 0.01
231 24 0.11
232 24 0.11
233 1 0.00
234 96 0.43
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (226 bp):
TTGCTAAATGAACTAAGTAACCTCAATGACTGAGAATTAATAAGTAATTTGGATGGGTCTGGAAC
GTGTTGAACTTACATAACTGTCCTTATGGGTCATAAACCAGAATCAAGTACATCAGTATTTCCTA
ATCGTTGAAAGTTGGAAATGAAATAAATGCCATTTGAAGATCTATTCAGTGATGATTCCGAAGAT
GATCTATGGACAAAAAGTTTTGGCATTAAAG
Found at i:2218224 original size:24 final size:24
Alignment explanation
Indices: 2218156--2218228 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
2218146 AAATATTTTA
*
2218156 TCTGATATCTAATCTGAATTATGT
1 TCTGATATCTAATATGAATTATGT
* * * * * *
2218180 TCTAATTTTTTACATGGATTATGT
1 TCTGATATCTAATATGAATTATGT
* *
2218204 TCTGATATCTGATTTGAATTATGT
1 TCTGATATCTAATATGAATTATGT
2218228 T
1 T
2218229 TTGTTTTTTA
Statistics
Matches: 35, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.51
Consensus pattern (24 bp):
TCTGATATCTAATATGAATTATGT
Found at i:2218619 original size:139 final size:140
Alignment explanation
Indices: 2218272--2218641 Score: 465
Period size: 139 Copynumber: 2.6 Consensus size: 140
2218262 TGTTTTATTT
* * **
2218272 GGGGTATTGTTGGAGGAAGTATATTTGCAGGCTCCTCAGCTTTGTGCTCAGGGCCTTACTGGTTG
1 GGGGCATTGTTGGAGGAAGAATACATGCAGGCTCCTCAGCTTTGTGCTCAGGGCCTTACTGGTTG
** *
2218337 TGCAGAGTGTATGGTTATGGGGAACCTACACATTATGGTTGTGCGTTTAGAGGGATTACTAAGGT
66 TGC-G-G-GT-T-G-TAT--GG--TTTACACATTATGGTTGTGCGTTTAGAAGGATTACTAAGGT
*
2218402 TTTTAAAATATTTTATTTGA
121 TTTTAAAATATTTTAATTGA
* ** *
2218422 GGGGCATTGTTGGAGGAAGCATACATGTTGGCTCCTCAGCTTTTTGCTCAGGGCCTTACTGGTTG
1 GGGGCATTGTTGGAGGAAGAATACATGCAGGCTCCTCAGCTTTGTGCTCAGGGCCTTACTGGTTG
* *
2218487 TGCGGGTTGTATGGTTTACACATTATGGTTGTGCAG-TTGGAAGGATTACTATGGTTTTTAAAAT
66 TGCGGGTTGTATGGTTTACACATTATGGTTGTGC-GTTTAGAAGGATTACTAAGGTTTTTAAAAT
2218551 ATTTTAATTG-
130 ATTTTAATTGA
* * *
2218561 GGGGCGTTGTTGGAGGAAGAATACATGCAGGCACCTCGGCTTTGTGCTCAGGGCCTTACTGGTTG
1 GGGGCATTGTTGGAGGAAGAATACATGCAGGCTCCTCAGCTTTGTGCTCAGGGCCTTACTGGTTG
*
2218626 TGCGGGGTGTATGGTT
66 TGCGGGTTGTATGGTT
2218642 ATGGGGAACC
Statistics
Matches: 198, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
139 73 0.37
140 52 0.26
141 1 0.01
142 2 0.01
144 3 0.02
145 1 0.01
146 1 0.01
147 2 0.01
148 1 0.01
149 1 0.01
150 61 0.31
ACGTcount: A:0.20, C:0.14, G:0.31, T:0.35
Consensus pattern (140 bp):
GGGGCATTGTTGGAGGAAGAATACATGCAGGCTCCTCAGCTTTGTGCTCAGGGCCTTACTGGTTG
TGCGGGTTGTATGGTTTACACATTATGGTTGTGCGTTTAGAAGGATTACTAAGGTTTTTAAAATA
TTTTAATTGA
Found at i:2225711 original size:22 final size:21
Alignment explanation
Indices: 2225696--2225764 Score: 79
Period size: 23 Copynumber: 3.2 Consensus size: 21
2225686 GGAATCGATA
2225696 CCCCCTTGAAGGGGAACCAATT
1 CCCCCTTG-AGGGGAACCAATT
2225718 CCCCCTTTGCAGGGGAACCAATT
1 CCCCC-TTG-AGGGGAACCAATT
* *
2225741 CCCCC-T-AGGGGAATCGATT
1 CCCCCTTGAGGGGAACCAATT
2225760 CCCCC
1 CCCCC
2225765 CTGGGGTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
19 16 0.37
21 1 0.02
22 5 0.12
23 21 0.49
ACGTcount: A:0.22, C:0.38, G:0.22, T:0.19
Consensus pattern (21 bp):
CCCCCTTGAGGGGAACCAATT
Found at i:2225731 original size:23 final size:23
Alignment explanation
Indices: 2225696--2225746 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
2225686 GGAATCGATA
2225696 CCCCC-TTGAAGGGGAACCAATT
1 CCCCCTTTGAAGGGGAACCAATT
*
2225718 CCCCCTTTGCAGGGGAACCAATT
1 CCCCCTTTGAAGGGGAACCAATT
2225741 CCCCCT
1 CCCCCT
2225747 AGGGGAATCG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.22, C:0.39, G:0.20, T:0.20
Consensus pattern (23 bp):
CCCCCTTTGAAGGGGAACCAATT
Found at i:2232271 original size:14 final size:14
Alignment explanation
Indices: 2232253--2232290 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
2232243 AAATATAATC
2232253 ATTTTCATATTTAT
1 ATTTTCATATTTAT
*
2232267 GTTTTC-T-TTTAT
1 ATTTTCATATTTAT
2232279 ATTTTCATATTT
1 ATTTTCATATTT
2232291 CTTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
12 10 0.50
13 2 0.10
14 8 0.40
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (14 bp):
ATTTTCATATTTAT
Found at i:2235597 original size:35 final size:35
Alignment explanation
Indices: 2235558--2235676 Score: 141
Period size: 35 Copynumber: 3.4 Consensus size: 35
2235548 TCGATGAAAC
2235558 TGGTAATTCCTTATATAGGTTTAGACCGATCGAAT
1 TGGTAATTCCTTATATAGGTTTAGACCGATCGAAT
* * * * *
2235593 TGGTAATTCCTTACAACAGG-TTAAACTCGGTCAAAT
1 TGGTAATTCCTTA-TATAGGTTTAGAC-CGATCGAAT
* **
2235629 TGGTAATTCCTTATATAGGTTTAGACGGATCGAGC
1 TGGTAATTCCTTATATAGGTTTAGACCGATCGAAT
2235664 TGGTAATTCCTTA
1 TGGTAATTCCTTA
2235677 CGGATCTAAG
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
35 39 0.57
36 29 0.43
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (35 bp):
TGGTAATTCCTTATATAGGTTTAGACCGATCGAAT
Found at i:2235630 original size:36 final size:35
Alignment explanation
Indices: 2235537--2235641 Score: 113
Period size: 35 Copynumber: 3.0 Consensus size: 35
2235527 TGAAGTCTCT
* * * *
2235537 ACAGGTTCAACTCGATGAAACTGGTAATTCCTTAT
1 ACAGGTTAAACTCGATCAAATTGGTAATTCCTTAA
* * *
2235572 ATAGGTTTAGAC-CGATCGAATTGGTAATTCCTTACA
1 ACAGG-TTAAACTCGATCAAATTGGTAATTCCTTA-A
*
2235608 ACAGGTTAAACTCGGTCAAATTGGTAATTCCTTA
1 ACAGGTTAAACTCGATCAAATTGGTAATTCCTTA
2235642 TATAGGTTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
35 28 0.50
36 28 0.50
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (35 bp):
ACAGGTTAAACTCGATCAAATTGGTAATTCCTTAA
Found at i:2235653 original size:71 final size:71
Alignment explanation
Indices: 2235537--2235677 Score: 219
Period size: 71 Copynumber: 2.0 Consensus size: 71
2235527 TGAAGTCTCT
* * *
2235537 ACAGGTTCAACTCGATGAAACTGGTAATTCCTTATATAGGTTTAGACCGATCGAATTGGTAATTC
1 ACAGGTTAAACTCGATCAAACTGGTAATTCCTTATATAGGTTTAGACCGATCGAACTGGTAATTC
2235602 CTTACA
66 CTTACA
* * * *
2235608 ACAGGTTAAACTCGGTCAAATTGGTAATTCCTTATATAGGTTTAGACGGATCGAGCTGGTAATTC
1 ACAGGTTAAACTCGATCAAACTGGTAATTCCTTATATAGGTTTAGACCGATCGAACTGGTAATTC
2235673 CTTAC
66 CTTAC
2235678 GGATCTAAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (71 bp):
ACAGGTTAAACTCGATCAAACTGGTAATTCCTTATATAGGTTTAGACCGATCGAACTGGTAATTC
CTTACA
Found at i:2243017 original size:35 final size:35
Alignment explanation
Indices: 2242977--2243114 Score: 109
Period size: 35 Copynumber: 3.9 Consensus size: 35
2242967 AAGTCTCTAC
* *
2242977 AGGTTCAGCTCGATCAAACTGGTAATTCATTATAT
1 AGGTTCAGCTCGATCAAACTGGTAATTCCTTATAA
* * * *
2243012 AGGTTCA--TACCACTCAAACTAGTAATTCCTTACAGC
1 AGGTTCAGCT-CGA-TCAAACTGGTAATTCCTTATA-A
* * * *
2243048 ATGTTCAACTCGGTCAAATTGGTAATTCCTTATAA
1 AGGTTCAGCTCGATCAAACTGGTAATTCCTTATAA
** * *
2243083 AGGTTCAGAACGATCGAGCTGGTAATTCCTTA
1 AGGTTCAGCTCGATCAAACTGGTAATTCCTTA
2243115 CAGATCTAAG
Statistics
Matches: 78, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
33 1 0.01
34 2 0.03
35 49 0.63
36 24 0.31
37 1 0.01
38 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (35 bp):
AGGTTCAGCTCGATCAAACTGGTAATTCCTTATAA
Found at i:2243108 original size:71 final size:71
Alignment explanation
Indices: 2242979--2243117 Score: 172
Period size: 71 Copynumber: 2.0 Consensus size: 71
2242969 GTCTCTACAG
* * *
2242979 GTTCAGCTCGATCAAACTGGTAATTCATTATATAGGTTCATACCACTCAAACTAGTAATTCCTTA
1 GTTCAACTCGATCAAACTGGTAATTCATTATAAAGGTTCAAACCACTCAAACTAGTAATTCCTTA
2243044 CAGCAT
66 CAGCAT
* * * * * * *
2243050 GTTCAACTCGGTCAAATTGGTAATTCCTTATAAAGGTTCAGAACGA-TCGAGCTGGTAATTCCTT
1 GTTCAACTCGATCAAACTGGTAATTCATTATAAAGGTTCA-AACCACTCAAACTAGTAATTCCTT
2243114 ACAG
65 ACAG
2243118 ATCTAAGGTG
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
71 54 0.95
72 3 0.05
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (71 bp):
GTTCAACTCGATCAAACTGGTAATTCATTATAAAGGTTCAAACCACTCAAACTAGTAATTCCTTA
CAGCAT
Found at i:2244358 original size:20 final size:19
Alignment explanation
Indices: 2244306--2244358 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
2244296 ATACAGATTC
2244306 AAGTGGTATTGATACCAAG
1 AAGTGGTATTGATACCAAG
* * *
2244325 AAGGGGTATCGATACCATG
1 AAGTGGTATTGATACCAAG
*
2244344 ATGATGGTATTGATA
1 AAG-TGGTATTGATA
2244359 ACATTTACTC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (19 bp):
AAGTGGTATTGATACCAAG
Found at i:2244874 original size:54 final size:55
Alignment explanation
Indices: 2244791--2244948 Score: 212
Period size: 54 Copynumber: 2.9 Consensus size: 55
2244781 TAAGCATGCA
* * *
2244791 AAAACTTAAGAAAATCCATACCAAGTGTATGAATCTCGGTATGGGCACTACGTGTGC
1 AAAAC-TAAG-AAATTCATACTAAGTGTATGAATTTCGGTATGGGCACTACGTGTGC
* * **
2244848 -AAACTAAGAAATTCATACTAAGTGTATTAATTTCCGTAT-GGCACTTTGTGTGC
1 AAAACTAAGAAATTCATACTAAGTGTATGAATTTCGGTATGGGCACTACGTGTGC
*
2244901 AAAACTAAGAAATTCATACTAAGTGTATGGATTTCGGTATGGGCACTA
1 AAAACTAAGAAATTCATACTAAGTGTATGAATTTCGGTATGGGCACTA
2244949 GAAATTCATA
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
53 12 0.14
54 62 0.70
55 10 0.11
56 4 0.05
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (55 bp):
AAAACTAAGAAATTCATACTAAGTGTATGAATTTCGGTATGGGCACTACGTGTGC
Found at i:2244953 original size:40 final size:40
Alignment explanation
Indices: 2244908--2244988 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
2244898 TGCAAAACTA
*
2244908 AGAAATTCATACTAAGTGTATGGATTTCGGTATGGGCACT
1 AGAAATTCATACTAAGTGTATGAATTTCGGTATGGGCACT
*
2244948 AGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACT
1 AGAAATTCATACTAAGTGTATGAATTTCGGTATGGGCACT
2244988 A
1 A
2244989 TGTGTGCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.33
Consensus pattern (40 bp):
AGAAATTCATACTAAGTGTATGAATTTCGGTATGGGCACT
Found at i:2245029 original size:94 final size:94
Alignment explanation
Indices: 2244854--2245029 Score: 282
Period size: 94 Copynumber: 1.9 Consensus size: 94
2244844 GTGCAAACTA
* * *
2244854 AGAAATTCATACTAAGTGTATTAATTTCCGTATGGCACTTTGTGTGCAAAACTAAGAAATTCATA
1 AGAAATTCATACTAAGTGTATGAATTTCCGTATGGCACTATGTGTGCAAAACTAAGAAATACATA
*
2244919 CTAAGTGTATGGATTTCGGTATGGGCACT
66 CTAAGTGTATGAATTTCGGTATGGGCACT
*
2244948 AGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTATGTGTGC-AAACTAAGAAATACAT
1 AGAAATTCATACTAAGTGTATGAATTTCCGTAT-GGCACTATGTGTGCAAAACTAAGAAATACAT
*
2245012 ACTAAGTGTATTAATTTC
65 ACTAAGTGTATGAATTTC
2245030 CTTATAGGAA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
94 62 0.83
95 13 0.17
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (94 bp):
AGAAATTCATACTAAGTGTATGAATTTCCGTATGGCACTATGTGTGCAAAACTAAGAAATACATA
CTAAGTGTATGAATTTCGGTATGGGCACT
Found at i:2245432 original size:68 final size:68
Alignment explanation
Indices: 2245246--2245563 Score: 505
Period size: 68 Copynumber: 4.7 Consensus size: 68
2245236 GATAAATGGT
* * * * *
2245246 CTAACTGTGCATTTGATAGAAATGTGTCGATTATGCCAATTAGATGCAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
2245311 GGC
66 GGC
* *
2245314 CTAAATGTGAATTTGACA-AAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
2245378 GGC
66 GGC
*
2245381 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGCGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
2245446 GGC
66 GGC
* * *
2245449 CTAACTGTGCATTTGATAGAAAGGTGTAAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
2245514 GGC
66 GGC
* *
2245517 CTAACTGTGCATTTGGC-GAAAGGTGTCAATTATGCTAGTTAGATGAA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2245564 TGGTTAAAGA
Statistics
Matches: 232, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
67 90 0.39
68 142 0.61
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (68 bp):
CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
GGC
Found at i:2245463 original size:135 final size:136
Alignment explanation
Indices: 2245246--2245563 Score: 505
Period size: 135 Copynumber: 2.4 Consensus size: 136
2245236 GATAAATGGT
* * * * * *
2245246 CTAACTGTGCATTTGATAGAAATGTGTCGATTATGCCAATTAGATGCAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGCGCCTTTGA
*
2245311 GGCCTAAATGTGAATTTGACA-AAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
66 GGCCTAAATGTGAATTTGACAGAAAGGTGTAAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
2245375 TGAGGC
131 TGAGGC
2245381 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGCGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGCGCCTTTGA
* * * *
2245446 GGCCTAACTGTGCATTTGATAGAAAGGTGTAAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTT
66 GGCCTAAATGTGAATTTGACAGAAAGGTGTAAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
2245511 TGAGGC
131 TGAGGC
* *
2245517 CTAACTGTGCATTTGGC-GAAAGGTGTCAATTATGCTAGTTAGATGAA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2245564 TGGTTAAAGA
Statistics
Matches: 169, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
135 106 0.63
136 63 0.37
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (136 bp):
CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGCGCCTTTGA
GGCCTAAATGTGAATTTGACAGAAAGGTGTAAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGAGGC
Found at i:2245871 original size:81 final size:81
Alignment explanation
Indices: 2245522--2246088 Score: 714
Period size: 81 Copynumber: 7.1 Consensus size: 81
2245512 GAGGCCTAAC
* *
2245522 TGTGCATTTGGC-GAAAGGTGTCAATTATGCTAGTTAGATGAATGGTTAAAGA-CTGTTGAGTAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGATC-GTTGAGTAA
2245585 AAGATAAATGGCC-AGT
65 AAGATAAATGGCCTAGT
* * * * *
2245601 TATGCATTTGGCATAAAGGTGTCCATTATGCCAGTTAGATGAACGGTTAAACACCGTTGAGTAAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGATCGTTGAGTAAA
*
2245666 AGATAAATGGCCTAGC
66 AGATAAATGGCCTAGT
* * ** *
2245682 T-TGCATTTGGCAGAAAGATGTCAATTATTCCAGTTAGATGAACGGTTAAAGAAAGATGAGTAAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGATCGTTGAGTAAA
2245746 AG----AT--CCTAGT
66 AGATAAATGGCCTAGT
* * * *
2245756 TGTACATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAAGATCGTTGAGTAAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGATCGTTGAGTAAA
*
2245821 AGACAAATGGCCTAGT
66 AGATAAATGGCCTAGT
* * *
2245837 TGTGTATTTAGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGA-CTGTTGAGTAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGATC-GTTGAGTAA
2245901 AAGATAAATGGCCTAGT
65 AAGATAAATGGCCTAGT
* * * *
2245918 TGTGCATTTGGTAGAAA--TGTCAATTATGACAGTTAGATGAATGGTTAAAG-TCCATTGAGTAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGAT-CGTTGAGTAA
* *
2245980 AAGATAAATGGTCTAGC
65 AAGATAAATGGCCTAGT
* *
2245997 TGTGCATTTGGCATAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAAGAAT-GTTGAGTAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAG-ATCGTTGAGTAA
* *
2246061 AAGATAAATGGCATAAT
65 AAGATAAATGGCCTAGT
2246078 TGTGCATTTGG
1 TGTGCATTTGG
2246089 TAATTTAGTG
Statistics
Matches: 422, Mismatches: 49, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
74 6 0.01
75 56 0.13
76 2 0.00
79 82 0.19
80 116 0.27
81 159 0.38
83 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (81 bp):
TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGATCGTTGAGTAAA
AGATAAATGGCCTAGT
Found at i:2246090 original size:160 final size:161
Alignment explanation
Indices: 2245514--2246088 Score: 767
Period size: 160 Copynumber: 3.6 Consensus size: 161
2245504 GTGCCTTTGA
* * * *
2245514 GGCCTAACTGTGCATTTGGC-GAAAGGTGTCAATTATGCTAGTTAGATGAATGGTTAAAGACTGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGAATGT
* * *
2245578 TGAGTAAAAGATAAATGGCC-AGTTATGCATTTGGCATAAAGGTGTCCATTATGCCAGTTAGATG
66 TGAGTAAAAGATAAATGGCCTAGTTGTGCATTTGGCAGAAA-GTGTCAATTATGCCAGTTAGATG
**
2245642 AACGGTTAAACACCGTTGAGTAAAAGATAAAT
130 AACGGTTAAAGTCCGTTGAGTAAAAGATAAAT
* * * *
2245674 GGCCTAGCT-TGCATTTGGCAGAAAGATGTCAATTATTCCAGTTAGATGAACGGTTAAAGAAAGA
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGAATGT
* *
2245738 TGAGTAAAAG----AT--CCTAGTTGTACATTTGACAGAAATGTGTCAATTATGCCAGTTAGATG
66 TGAGTAAAAGATAAATGGCCTAGTTGTGCATTTGGCAGAAA-GTGTCAATTATGCCAGTTAGATG
* *
2245797 AACGATTAAAGAT-CGTTGAGTAAAAGACAAAT
130 AACGGTTAAAG-TCCGTTGAGTAAAAGATAAAT
* * * * *
2245829 GGCCTAGTTGTGTATTTAGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACTGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGAATGT
* *
2245894 TGAGTAAAAGATAAATGGCCTAGTTGTGCATTTGGTAGAAA-TGTCAATTATGACAGTTAGATGA
66 TGAGTAAAAGATAAATGGCCTAGTTGTGCATTTGGCAGAAAGTGTCAATTATGCCAGTTAGATGA
* *
2245958 ATGGTTAAAGTCCATTGAGTAAAAGATAAAT
131 ACGGTTAAAGTCCGTTGAGTAAAAGATAAAT
* * *
2245989 GGTCTAGCTGTGCATTTGGCATAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAAGAATGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGAATGT
* *
2246054 TGAGTAAAAGATAAATGGCATAATTGTGCATTTGG
66 TGAGTAAAAGATAAATGGCCTAGTTGTGCATTTGG
2246089 TAATTTAGTG
Statistics
Matches: 359, Mismatches: 45, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
154 2 0.01
155 73 0.20
156 59 0.16
159 11 0.03
160 194 0.54
162 20 0.06
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (161 bp):
GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGAATGT
TGAGTAAAAGATAAATGGCCTAGTTGTGCATTTGGCAGAAAGTGTCAATTATGCCAGTTAGATGA
ACGGTTAAAGTCCGTTGAGTAAAAGATAAAT
Found at i:2250511 original size:13 final size:14
Alignment explanation
Indices: 2250493--2250522 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2250483 TGGAAGTGTT
2250493 AAAAAT-AATTTAA
1 AAAAATGAATTTAA
2250506 AAAAATGAATTTAA
1 AAAAATGAATTTAA
2250520 AAA
1 AAA
2250523 TCAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AAAAATGAATTTAA
Found at i:2250997 original size:12 final size:12
Alignment explanation
Indices: 2250980--2251004 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2250970 TTATATTATC
2250980 ATTATTTAGTTT
1 ATTATTTAGTTT
2250992 ATTATTTAGTTT
1 ATTATTTAGTTT
2251004 A
1 A
2251005 AAAATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
ATTATTTAGTTT
Found at i:2262240 original size:45 final size:45
Alignment explanation
Indices: 2262139--2262253 Score: 158
Period size: 45 Copynumber: 2.6 Consensus size: 45
2262129 TCAAGATTAC
*
2262139 TATAAAATAATATTTGTTCACAATTTTATTAAAAATTGAAATAAT
1 TATAAAATAATATTTGTTCATAATTTTATTAAAAATTGAAATAAT
** * * * *
2262184 TATGGAGTAATATTTGTCCATAATTTTATTAAAGATTGAGATAAT
1 TATAAAATAATATTTGTTCATAATTTTATTAAAAATTGAAATAAT
*
2262229 TATAAAATAATATTCGTTCATAATT
1 TATAAAATAATATTTGTTCATAATT
2262254 CTAAGACGGT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (45 bp):
TATAAAATAATATTTGTTCATAATTTTATTAAAAATTGAAATAAT
Found at i:2262889 original size:20 final size:20
Alignment explanation
Indices: 2262860--2262901 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2262850 TGATACCAGT
*
2262860 AACACTTGACACATGATACC
1 AACACGTGACACATGATACC
* *
2262880 AACACGTGACTCGTGATACC
1 AACACGTGACACATGATACC
2262900 AA
1 AA
2262902 TGACACATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.29, G:0.14, T:0.19
Consensus pattern (20 bp):
AACACGTGACACATGATACC
Found at i:2262912 original size:23 final size:22
Alignment explanation
Indices: 2262843--2262913 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 22
2262833 AACCGAATGG
* *
2262843 TGACACGTGATACCAGTAACACT
1 TGACACGTGATACCAAT-ACACA
* *
2262866 TGACACATGATACC-A-ACACG
1 TGACACGTGATACCAATACACA
*
2262886 TGACTCGTGATACCAATGACACA
1 TGACACGTGATACCAAT-ACACA
2262909 TGACA
1 TGACA
2262914 TCATTCGATT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
20 16 0.42
21 1 0.03
23 21 0.55
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.20
Consensus pattern (22 bp):
TGACACGTGATACCAATACACA
Found at i:2265350 original size:15 final size:15
Alignment explanation
Indices: 2265330--2265358 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2265320 AATTTAAATA
2265330 AGATATAAAACAGTT
1 AGATATAAAACAGTT
2265345 AGATATAAAACAGT
1 AGATATAAAACAGT
2265359 GCAATTTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (15 bp):
AGATATAAAACAGTT
Found at i:2266373 original size:30 final size:30
Alignment explanation
Indices: 2266329--2266397 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
2266319 CCAACATTTA
* * *
2266329 GTCCTTTTGTAATATGGTCCCATCGTAACC
1 GTCCGTTTGCAATATGGTCCCAACGTAACC
*
2266359 GTCCGTTTGCAATATGGTCCCAACTTAACC
1 GTCCGTTTGCAATATGGTCCCAACGTAACC
*
2266389 GTCTGTTTG
1 GTCCGTTTG
2266398 ACTCCGTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (30 bp):
GTCCGTTTGCAATATGGTCCCAACGTAACC
Found at i:2268107 original size:17 final size:17
Alignment explanation
Indices: 2268085--2268171 Score: 138
Period size: 17 Copynumber: 5.1 Consensus size: 17
2268075 AATTAAGCTT
* *
2268085 TAGTTTAATAAATGAAC
1 TAGTTTGATGAATGAAC
2268102 TAGTTTGATGAATGAAC
1 TAGTTTGATGAATGAAC
2268119 TAGTTTGATGAATGAAC
1 TAGTTTGATGAATGAAC
2268136 TAGTTTGATGAATGAAC
1 TAGTTTGATGAATGAAC
* *
2268153 TAGTTTAATTAATGAAC
1 TAGTTTGATGAATGAAC
2268170 TA
1 TA
2268172 ACTTTTTTCA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 66 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (17 bp):
TAGTTTGATGAATGAAC
Found at i:2268202 original size:18 final size:17
Alignment explanation
Indices: 2268181--2268222 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
2268171 AACTTTTTTC
*
2268181 AATGAACTAGATGCTTTA
1 AATGAACTACATGC-TTA
2268199 AATGCAA-TACATGCTTA
1 AATG-AACTACATGCTTA
2268216 AATGAAC
1 AATGAAC
2268223 AACACACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
16 2 0.10
17 7 0.33
18 10 0.48
19 2 0.10
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (17 bp):
AATGAACTACATGCTTA
Found at i:2271165 original size:11 final size:11
Alignment explanation
Indices: 2271149--2271201 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
2271139 TTACTTGCTA
2271149 TTTATTTGTTG
1 TTTATTTGTTG
* *
2271160 TTTATTTTTTAT
1 TTTATTTGTT-G
*
2271172 TTTAGTTGTTG
1 TTTATTTGTTG
*
2271183 TTTATTTGTTA
1 TTTATTTGTTG
2271194 TTTATTTG
1 TTTATTTG
2271202 CTGTGAATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
11 26 0.76
12 8 0.24
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (11 bp):
TTTATTTGTTG
Found at i:2271180 original size:23 final size:23
Alignment explanation
Indices: 2271149--2271196 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
2271139 TTACTTGCTA
* *
2271149 TTTATTTGTTGTTTATTTTTTAT
1 TTTAGTTGTTGTTTATTTGTTAT
2271172 TTTAGTTGTTGTTTATTTGTTAT
1 TTTAGTTGTTGTTTATTTGTTAT
2271195 TT
1 TT
2271197 ATTTGCTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.75
Consensus pattern (23 bp):
TTTAGTTGTTGTTTATTTGTTAT
Found at i:2272775 original size:35 final size:35
Alignment explanation
Indices: 2272720--2272796 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
2272710 TCTAAACCTT
* *
2272720 AAATTCAAGTATTTTAGAATTTGGGGTTTAGAATA
1 AAATTGAATTATTTTAGAATTTGGGGTTTAGAATA
* *
2272755 TAATTGAATTATTTTGGAATTTGGGGTTTAGAATA
1 AAATTGAATTATTTTAGAATTTGGGGTTTAGAATA
2272790 AAATTGA
1 AAATTGA
2272797 GGAATGTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.42
Consensus pattern (35 bp):
AAATTGAATTATTTTAGAATTTGGGGTTTAGAATA
Found at i:2275408 original size:22 final size:23
Alignment explanation
Indices: 2275383--2275426 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2275373 AATTAATATT
2275383 ATTATATTATATAATAT-TATAA
1 ATTATATTATATAATATATATAA
* *
2275405 ATTATGTTGTATAATATATATA
1 ATTATATTATATAATATATATA
2275427 TTTACAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (23 bp):
ATTATATTATATAATATATATAA
Found at i:2276854 original size:27 final size:28
Alignment explanation
Indices: 2276776--2276864 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 28
2276766 TGATTCATTT
*
2276776 TTTATTGTTATCTTTTAATTTA-TTTTAT-
1 TTTATTTTTATC-TTTAATTTACTTTT-TC
* ** *
2276804 TTTATTTTGAT-TTTCTTTTTCTTTTTC
1 TTTATTTTTATCTTTAATTTACTTTTTC
2276831 TTTATTTTTATCTTT-ATTTAC-TTTTC
1 TTTATTTTTATCTTTAATTTACTTTTTC
2276857 TTATATTT
1 TT-TATTT
2276865 GTTTTATTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
26 14 0.29
27 23 0.47
28 12 0.24
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (28 bp):
TTTATTTTTATCTTTAATTTACTTTTTC
Found at i:2280925 original size:95 final size:95
Alignment explanation
Indices: 2280753--2281015 Score: 332
Period size: 95 Copynumber: 2.7 Consensus size: 95
2280743 AGATTATAAT
* * * * * **
2280753 ATTATATACATACAATAAAGCTTGAGCTGTCCCTATAAAGCAATTGGTTAAACACCCCGAATTTA
1 ATTATA-ATATACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACACCCCGGCTTTA
*
2280818 TGGATAAGATTCAACTAGCCTGACAAAGGTG
65 TGGATAAGATTCAACTAGCCTGACAAAGGCG
*
2280849 ATTATAATATACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTAT
1 ATTATAATATACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACACCCCGGCTTTAT
* * *
2280914 GGATAATATTCAGCTAGCCTGATAAAGGCG
66 GGATAAGATTCAACTAGCCTGACAAAGGCG
* *
2280944 ATTATAATATCTGTACAATGATA--TTGAGTTATCCCTCTAGAGCAATTGGTTAAACACCCTGGC
1 ATTATAATA----TACAAT-AAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACACCCCGGC
2281007 TTTATGGAT
61 TTTATGGAT
2281016 CAAGCTAGTT
Statistics
Matches: 147, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
95 86 0.59
96 6 0.04
98 47 0.32
99 6 0.04
100 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACACCCCGGCTTTAT
GGATAAGATTCAACTAGCCTGACAAAGGCG
Found at i:2281956 original size:59 final size:55
Alignment explanation
Indices: 2281864--2282004 Score: 165
Period size: 55 Copynumber: 2.5 Consensus size: 55
2281854 GCTAGAGTCA
* *** * *
2281864 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAAGCTACACCATTCACTCGAGATTGG
1 ATTTCAACTTCACAACGAAGGATATCCAACTCAAAAC--CAAC-TT-ACTCGAGATTGG
* *
2281923 ATTTCAACTTCATAACGAAGGATATCCAACTCAAAACCAACTTACTCTAGATTGG
1 ATTTCAACTTCACAACGAAGGATATCCAACTCAAAACCAACTTACTCGAGATTGG
*
2281978 ATTTCAACTTCACGACGAAGGATATCC
1 ATTTCAACTTCACAACGAAGGATATCC
2282005 CATTCCAGGC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
55 36 0.50
56 2 0.03
57 3 0.04
59 31 0.43
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (55 bp):
ATTTCAACTTCACAACGAAGGATATCCAACTCAAAACCAACTTACTCGAGATTGG
Found at i:2282135 original size:119 final size:120
Alignment explanation
Indices: 2281974--2282190 Score: 328
Period size: 119 Copynumber: 1.8 Consensus size: 120
2281964 TTACTCTAGA
* * * * *
2281974 TTGGATTTCAACTTCACGACGAAGGATATCCCATTCCAGGCTCAACTTTACAACGAA-GGGCCAT
1 TTGGATTTCAACTTCACAACGAAGGATATCCAAGTCAAGGCTCAACTTCACAACGAAGGGGCCAT
*
2282038 CCACAATTTCAACTTCACAACGAAGGATATCGTGTCTGCCAGCAACATATAATAC
66 CCACAATTTCAACTCCACAACGAAGGATATCGTGTCTGCCAGCAACATATAATAC
* *
2282093 TTGGATTTCAACTTCACAACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCAT
1 TTGGATTTCAACTTCACAACGAAGGATATCCAAGTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * *
2282158 CCACTATTTCAACTCCACGACGGAGGATATCGT
66 CCACAATTTCAACTCCACAACGAAGGATATCGT
2282191 ACCCACAAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
119 50 0.58
120 36 0.42
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (120 bp):
TTGGATTTCAACTTCACAACGAAGGATATCCAAGTCAAGGCTCAACTTCACAACGAAGGGGCCAT
CCACAATTTCAACTCCACAACGAAGGATATCGTGTCTGCCAGCAACATATAATAC
Found at i:2282204 original size:43 final size:41
Alignment explanation
Indices: 2282155--2282274 Score: 141
Period size: 43 Copynumber: 2.9 Consensus size: 41
2282145 ACGAAGGGGC
*
2282155 CATCCACTATTTCAACTCCACGACGGAGGATATCGTACCCA
1 CATCCACTATTTCAACTCCACGACGGAGGATATCATACCCA
* * * *
2282196 CAAATCCACGATTTCAACTCCATGACAGAGGATATCATGCCCA
1 C--ATCCACTATTTCAACTCCACGACGGAGGATATCATACCCA
* * * *
2282239 CGTCCACTATTTCAACTTCACGATGAAGGATATCAT
1 CATCCACTATTTCAACTCCACGACGGAGGATATCAT
2282275 GCCAACTCTA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 29 0.45
43 36 0.55
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (41 bp):
CATCCACTATTTCAACTCCACGACGGAGGATATCATACCCA
Found at i:2283178 original size:22 final size:22
Alignment explanation
Indices: 2283153--2283209 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
2283143 TCATCTGCCT
2283153 TAATTAATATTATTATATTATA
1 TAATTAATATTATTATATTATA
* * *
2283175 TAA-TATTATAAATTATGTTATA
1 TAATTAATAT-TATTATATTATA
2283197 TAATATATATATT
1 TAAT-TA-ATATT
2283210 TACAACTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 6
0.70 0.14 0.16
Matches are distributed among these distances:
21 5 0.19
22 16 0.62
24 2 0.08
25 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TAATTAATATTATTATATTATA
Found at i:2284263 original size:4 final size:4
Alignment explanation
Indices: 2284254--2284342 Score: 65
Period size: 4 Copynumber: 21.2 Consensus size: 4
2284244 TTATTATTCT
* *
2284254 TTTA TTTA TTTA TTTTA TTTTA TTTA TATGTA TATA TTTTC TTTA -TTA
1 TTTA TTTA TTTA -TTTA -TTTA TTTA T-T-TA TTTA -TTTA TTTA TTTA
* * *
2284302 TTCA TCTTA TTTA TTTG TTTA TTTT TTTA TTT- TTTA TTTA T
1 TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
2284343 ACTTCTTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
3 6 0.09
4 44 0.65
5 15 0.22
6 3 0.04
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:2284511 original size:18 final size:18
Alignment explanation
Indices: 2284488--2284539 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
2284478 TTGATTCATT
2284488 TTTTATCGTTATA-TTTTA
1 TTTTAT-GTTATATTTTTA
* *
2284506 TTTTATTTTTTATTTTTA
1 TTTTATGTTATATTTTTA
*
2284524 TTTTAT-TTTTATTTTT
1 TTTTATGTTATATTTTT
2284540 TTCTTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (18 bp):
TTTTATGTTATATTTTTA
Found at i:2284516 original size:12 final size:12
Alignment explanation
Indices: 2284485--2284549 Score: 62
Period size: 12 Copynumber: 5.3 Consensus size: 12
2284475 TATTTGATTC
*
2284485 ATTTTTTATCGTT
1 ATTTTTTAT-TTT
*
2284498 ATATTTTATTTT
1 ATTTTTTATTTT
2284510 ATTTTTTATTTT
1 ATTTTTTATTTT
*
2284522 -TATTTTATTTTT
1 ATTTTTTA-TTTT
2284534 ATTTTTT-TCTTT
1 ATTTTTTAT-TTT
2284546 ATTT
1 ATTT
2284550 ACTTTTCTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
11 7 0.16
12 24 0.55
13 13 0.30
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (12 bp):
ATTTTTTATTTT
Found at i:2284540 original size:18 final size:18
Alignment explanation
Indices: 2284496--2284549 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
2284486 TTTTTTATCG
*
2284496 TTATATTTTATTTTATTT
1 TTATTTTTTATTTTATTT
2284514 TT-TATTTTTATTTTATTT
1 TTAT-TTTTTATTTTATTT
2284532 TTATTTTTT-TCTTTATTT
1 TTATTTTTTAT-TTTATTT
2284550 ACTTTTCTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.06
18 29 0.91
19 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (18 bp):
TTATTTTTTATTTTATTT
Found at i:2284555 original size:23 final size:24
Alignment explanation
Indices: 2284485--2284549 Score: 89
Period size: 23 Copynumber: 2.7 Consensus size: 24
2284475 TATTTGATTC
2284485 ATTTTTTATCGTTATATTTTA-TTTT
1 ATTTTTTATC-TT-TATTTTATTTTT
*
2284510 ATTTTTTATTTTTATTTTATTTTT
1 ATTTTTTATCTTTATTTTATTTTT
2284534 ATTTTTT-TCTTTATTT
1 ATTTTTTATCTTTATTT
2284550 ACTTTTCTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.41
24 13 0.35
25 9 0.24
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (24 bp):
ATTTTTTATCTTTATTTTATTTTT
Found at i:2284604 original size:27 final size:26
Alignment explanation
Indices: 2284512--2284632 Score: 76
Period size: 27 Copynumber: 4.7 Consensus size: 26
2284502 TTTATTTTAT
* *
2284512 TTTTTATT-TTTATTTT-ATTT-TTA
1 TTTTTCTTCTTTATTTTCTTTTCTTA
*
2284535 TTTTT-TTCTTTATTTACTTTTCTTA
1 TTTTTCTTCTTTATTTTCTTTTCTTA
* * *
2284560 TCTTTGCTT-TATTTTTTTCTTTCCTTA
1 T-TTTTCTTCT-TTATTTTCTTTTCTTA
2284587 TTTTATCTTCTTTATTTTCATTTGTCTT-
1 TTTT-TCTTCTTTATTTTC-TTT-TCTTA
2284615 TTATATT-TTCTTTATTTT
1 TT-T-TTCTTCTTTATTTT
2284633 AAATTTATTT
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
22 2 0.03
23 12 0.16
24 3 0.04
25 4 0.05
26 7 0.09
27 26 0.34
28 17 0.22
29 5 0.06
30 1 0.01
ACGTcount: A:0.12, C:0.11, G:0.02, T:0.75
Consensus pattern (26 bp):
TTTTTCTTCTTTATTTTCTTTTCTTA
Found at i:2284649 original size:28 final size:27
Alignment explanation
Indices: 2284587--2284650 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
2284577 TCTTTCCTTA
* * *
2284587 TTTTATCTTCTTTATTTTCATTTGTCT
1 TTTTATTTTCTTTATTTTAATTTATCT
2284614 TTTATATTTTCTTTATTTTAAATTTAT-T
1 TTT-TATTTTCTTTATTTT-AATTTATCT
2284642 TATTTATTT
1 T-TTTATTT
2284651 ATTTATTACC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.10
28 21 0.68
29 7 0.23
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.72
Consensus pattern (27 bp):
TTTTATTTTCTTTATTTTAATTTATCT
Found at i:2288485 original size:35 final size:35
Alignment explanation
Indices: 2288441--2288525 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 35
2288431 ATGATCACTG
*
2288441 GAAACACATCCTTTGATGAAATAATATGACTCTTA
1 GAAACACATCCTTTGATGAAATAACATGACTCTTA
* * * * *
2288476 GAAAGACATCATTTAATGAAATAACATTACTTTTA
1 GAAACACATCCTTTGATGAAATAACATGACTCTTA
*
2288511 -AAATATCATCCTTTG
1 GAAACA-CATCCTTTG
2288526 TGATATAGGT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
34 4 0.10
35 36 0.90
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.34
Consensus pattern (35 bp):
GAAACACATCCTTTGATGAAATAACATGACTCTTA
Found at i:2292632 original size:23 final size:23
Alignment explanation
Indices: 2292606--2292657 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
2292596 ACCTTATTAA
2292606 ACACTCCAAAGAAAAGTAGGATG
1 ACACTCCAAAGAAAAGTAGGATG
*
2292629 ACACTCCAACGAAAAGTAGGATG
1 ACACTCCAAAGAAAAGTAGGATG
2292652 ACACTC
1 ACACTC
2292658 AATTCTCTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.13
Consensus pattern (23 bp):
ACACTCCAAAGAAAAGTAGGATG
Found at i:2294037 original size:21 final size:21
Alignment explanation
Indices: 2294008--2294047 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2293998 AAAGGCTAGC
*
2294008 TAGGTGAGTGAGTAGCTTATG
1 TAGGAGAGTGAGTAGCTTATG
2294029 TAGGAGAGTGAGTAGCTTA
1 TAGGAGAGTGAGTAGCTTA
2294048 GCTGGCACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.38, T:0.30
Consensus pattern (21 bp):
TAGGAGAGTGAGTAGCTTATG
Found at i:2299222 original size:7 final size:7
Alignment explanation
Indices: 2299210--2299252 Score: 70
Period size: 7 Copynumber: 6.3 Consensus size: 7
2299200 ATAAGTAACC
2299210 TATTATA
1 TATTATA
2299217 TATTATA
1 TATTATA
2299224 TATTATA
1 TATTATA
2299231 TATTATA
1 TATTATA
*
2299238 TAATATA
1 TATTATA
2299245 TA-TATA
1 TATTATA
2299251 TA
1 TA
2299253 AGCTTGCACG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
6 6 0.17
7 29 0.83
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
TATTATA
Found at i:2299225 original size:2 final size:2
Alignment explanation
Indices: 2299213--2299252 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
2299203 AGTAACCTAT
2299213 TA TA TA T- TA TA TA T- TA TA TA T- TA TA TA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2299251 TA
1 TA
2299253 AGCTTGCACG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
1 4 0.12
2 30 0.88
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:2302548 original size:78 final size:78
Alignment explanation
Indices: 2302455--2302604 Score: 248
Period size: 78 Copynumber: 1.9 Consensus size: 78
2302445 CAAAAGAAAG
*
2302455 AGTATATCTCTTGGTATATCCATAATGAATTATT-TTTTTTCAAATCACCAAGGTCTTCCCCAAT
1 AGTATATATCTTGGTATATCCATAATGAATTATTCTTTTTTCAAATCACCAAGGTCTT-CCCAAT
2302519 AATAAGTGTCTGAT
65 AATAAGTGTCTGAT
* **
2302533 AGTATATATGTTGGTATATCCATAATGAATTATTCTTTTTTCAAATGGCCAAGGTCTTCCCAATA
1 AGTATATATCTTGGTATATCCATAATGAATTATTCTTTTTTCAAATCACCAAGGTCTTCCCAATA
2302598 ATAAGTG
66 ATAAGTG
2302605 ACTGGCGTGC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 46 0.69
79 21 0.31
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.39
Consensus pattern (78 bp):
AGTATATATCTTGGTATATCCATAATGAATTATTCTTTTTTCAAATCACCAAGGTCTTCCCAATA
ATAAGTGTCTGAT
Found at i:2303483 original size:48 final size:48
Alignment explanation
Indices: 2303372--2303674 Score: 204
Period size: 48 Copynumber: 6.3 Consensus size: 48
2303362 CATTGTTTTG
* * * * * *
2303372 CATTTAACTTACATTAATGGCACCTTTCTGCCAAAATTGCACCATTTTG-
1 CATTTAACTTGCATTAGTGGCACCTTTATG-CAAAAATGCACC-GTTAGA
* * * *
2303421 TATCTAACTTGCATTAGTGGCACTTTTATGCTAAAATGCACCGTTAGA
1 CATTTAACTTGCATTAGTGGCACCTTTATGCAAAAATGCACCGTTAGA
* * *
2303469 CATTTATCTTGCATTAGTGGCACCTTTATGCCAAAAAATGCACCATT--T
1 CATTTAACTTGCATTAGTGGCACCTTTATG-C-AAAAATGCACCGTTAGA
* * * * * *
2303517 CATCTAACTTGCATTAATGGCACCTTTCTGCCAAAATGCACTGTTAGG
1 CATTTAACTTGCATTAGTGGCACCTTTATGCAAAAATGCACCGTTAGA
* * * * *
2303565 CATTTAACTTGCA-TAATGACACCTTTCTGGCAAAAATGCACCATT--T
1 CATTTAACTTGCATTAGTGGCACCTTTAT-GCAAAAATGCACCGTTAGA
* * * * * * * *
2303611 CATCTAACTTGTATCAGTGCCACATTTCTACAAAAAATGCACCGTTAGG
1 CATTTAACTTGCATTAGTGGCACCTTTATGC-AAAAATGCACCGTTAGA
* *
2303660 CATTTAGCTTTCATT
1 CATTTAACTTGCATT
2303675 TTAGAGTAGT
Statistics
Matches: 199, Mismatches: 45, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
46 23 0.12
47 42 0.21
48 87 0.44
49 35 0.18
50 12 0.06
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.34
Consensus pattern (48 bp):
CATTTAACTTGCATTAGTGGCACCTTTATGCAAAAATGCACCGTTAGA
Found at i:2303557 original size:96 final size:95
Alignment explanation
Indices: 2303371--2303674 Score: 367
Period size: 96 Copynumber: 3.2 Consensus size: 95
2303361 GCATTGTTTT
* * *
2303371 GCATTTAACTTACATTAATGGCACCTTTCTGCCAAAATTGCACCATTTTGTATCTAACTTGCATT
1 GCATTTAACTTGCATTAATGGCACCTTTCTGCCAAAAATGCACCA-TTT-CATCTAACTTGCATT
* * *
2303436 AGTGGCACTTTTATGCTAAAATGCACCGTTAG
64 AGTGGCACATTTCTGCAAAAATGCACCGTTAG
* * * *
2303468 ACATTTATCTTGCATTAGTGGCACCTTTATGCCAAAAAATGCACCATTTCATCTAACTTGCATTA
1 GCATTTAACTTGCATTAATGGCACCTTTCTGCC-AAAAATGCACCATTTCATCTAACTTGCATTA
* * * *
2303533 ATGGCACCTTTCTGCCAAAATGCACTGTTAG
65 GTGGCACATTTCTGCAAAAATGCACCGTTAG
* * * *
2303564 GCATTTAACTTGCA-TAATGACACCTTTCTGGCAAAAATGCACCATTTCATCTAACTTGTATCAG
1 GCATTTAACTTGCATTAATGGCACCTTTCTGCCAAAAATGCACCATTTCATCTAACTTGCATTAG
* *
2303628 TGCCACATTTCTACAAAAAATGCACCGTTAG
66 TGGCACATTTCTGC-AAAAATGCACCGTTAG
* *
2303659 GCATTTAGCTTTCATT
1 GCATTTAACTTGCATT
2303675 TTAGAGTAGT
Statistics
Matches: 176, Mismatches: 28, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
94 40 0.23
95 40 0.23
96 54 0.31
97 31 0.18
98 11 0.06
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.34
Consensus pattern (95 bp):
GCATTTAACTTGCATTAATGGCACCTTTCTGCCAAAAATGCACCATTTCATCTAACTTGCATTAG
TGGCACATTTCTGCAAAAATGCACCGTTAG
Found at i:2307267 original size:21 final size:20
Alignment explanation
Indices: 2307239--2307277 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2307229 AATTACAGGA
*
2307239 ATTTATGGCCTCTACAAAAT
1 ATTTATGGCCTCAACAAAAT
2307259 ATTTCATGGCCTCAACAAA
1 ATTT-ATGGCCTCAACAAA
2307278 GACCTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAT
Found at i:2314575 original size:10 final size:10
Alignment explanation
Indices: 2314560--2314594 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
2314550 TGCACATAAT
*
2314560 TTTAGTTACA
1 TTTAGTTGCA
2314570 TTTAGTTGCA
1 TTTAGTTGCA
2314580 TTTAGTTGCA
1 TTTAGTTGCA
2314590 TTTAG
1 TTTAG
2314595 GTTATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (10 bp):
TTTAGTTGCA
Found at i:2322690 original size:20 final size:20
Alignment explanation
Indices: 2322662--2322730 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
2322652 GGAATCCATG
2322662 GTATCGATACCTTTCTCTTA
1 GTATCGATACCTTTCTCTTA
* *
2322682 GTATTGATACC---CACTTCA
1 GTATCGATACCTTTCTCTT-A
2322700 GTATCGATACCTTTCTCTTA
1 GTATCGATACCTTTCTCTTA
*
2322720 GTATTGATACC
1 GTATCGATACC
2322731 CACTTCAGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
17 4 0.10
18 11 0.28
20 21 0.52
21 4 0.10
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.41
Consensus pattern (20 bp):
GTATCGATACCTTTCTCTTA
Found at i:2322708 original size:18 final size:18
Alignment explanation
Indices: 2322681--2322747 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 18
2322671 CCTTTCTCTT
*
2322681 AGTATTGATACCCACTTC
1 AGTATCGATACCCACTTC
*
2322699 AGTATCGATACCTTTCTCTT-
1 AGTATCGATACC---CACTTC
*
2322719 AGTATTGATACCCACTTC
1 AGTATCGATACCCACTTC
2322737 AGTATCGATAC
1 AGTATCGATAC
2322748 TAATTGCATC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
17 4 0.10
18 21 0.52
20 11 0.28
21 4 0.10
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (18 bp):
AGTATCGATACCCACTTC
Found at i:2322713 original size:38 final size:38
Alignment explanation
Indices: 2322662--2322747 Score: 172
Period size: 38 Copynumber: 2.3 Consensus size: 38
2322652 GGAATCCATG
2322662 GTATCGATACCTTTCTCTTAGTATTGATACCCACTTCA
1 GTATCGATACCTTTCTCTTAGTATTGATACCCACTTCA
2322700 GTATCGATACCTTTCTCTTAGTATTGATACCCACTTCA
1 GTATCGATACCTTTCTCTTAGTATTGATACCCACTTCA
2322738 GTATCGATAC
1 GTATCGATAC
2322748 TAATTGCATC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (38 bp):
GTATCGATACCTTTCTCTTAGTATTGATACCCACTTCA
Found at i:2325120 original size:35 final size:35
Alignment explanation
Indices: 2325081--2325165 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 35
2325071 GATTTAGTTC
2325081 TTGGTGAAGCAACATGAC-CATTTG-AAAGGAATCAT
1 TTGGTGAAGCAACATGACTC--TTGAAAAGGAATCAT
* * *
2325116 TTGGTGAAACAACACGACTCTTGAAAAGGAATCCT
1 TTGGTGAAGCAACATGACTCTTGAAAAGGAATCAT
*
2325151 TTGGTGAAGTAACAT
1 TTGGTGAAGCAACAT
2325166 AACTTTTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
34 3 0.07
35 38 0.90
36 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.26
Consensus pattern (35 bp):
TTGGTGAAGCAACATGACTCTTGAAAAGGAATCAT
Found at i:2330672 original size:24 final size:24
Alignment explanation
Indices: 2330635--2330681 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
2330625 ATGAATGTTG
* * *
2330635 TTCTGATTTCTGATATGGATTCTA
1 TTCTGATATATGATATGAATTCTA
*
2330659 TTCTGATATATGATTTGAATTCT
1 TTCTGATATATGATATGAATTCT
2330682 GTTTTGATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (24 bp):
TTCTGATATATGATATGAATTCTA
Found at i:2340591 original size:22 final size:23
Alignment explanation
Indices: 2340564--2340611 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
2340554 ATATTAATCT
2340564 AATTAAAAATTAATT-TTTAT-TA
1 AATTAAAAATT-ATTATTTATGTA
*
2340586 AATTAAAAGTTATTATTTATGTA
1 AATTAAAAATTATTATTTATGTA
2340609 AAT
1 AAT
2340612 AGTTCGTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
AATTAAAAATTATTATTTATGTA
Found at i:2341915 original size:31 final size:29
Alignment explanation
Indices: 2341883--2341965 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 29
2341873 ATAAAGTTTA
2341883 AAAAAATATAAAATACTTATTAAATTTATT
1 AAAAAATATAAAATA-TTATTAAATTTATT
* * *
2341913 AAAAGATAATAAATTATTAATAAATTTATCT
1 AAAAAAT-ATAAAATATTATTAAATTTAT-T
* *
2341944 AAATACTATAAAATAATTATTA
1 AAAAAATATAAAAT-ATTATTA
2341966 TATTATCGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
30 24 0.57
31 18 0.43
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.39
Consensus pattern (29 bp):
AAAAAATATAAAATATTATTAAATTTATT
Found at i:2343149 original size:53 final size:55
Alignment explanation
Indices: 2343103--2343212 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 55
2343093 TATTTTTTAT
*
2343103 AATAAA-TT-AAAAAATGTAAAACAAAATAATATGGCCATGAGTTTATTAAATAA
1 AATAAATTTAAAAAAATGTAAAACAAAATAATATGGCCATGAGTTTATTTAATAA
* * * *
2343156 AATAAATTTTAAAAAAATGTAAAATAAAATAATGTGTCCATGAGTTTATTTATTAA
1 AATAAA-TTTAAAAAAATGTAAAACAAAATAATATGGCCATGAGTTTATTTAATAA
2343212 A
1 A
2343213 GTGTAAATTG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 6 0.12
55 2 0.04
56 41 0.84
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.33
Consensus pattern (55 bp):
AATAAATTTAAAAAAATGTAAAACAAAATAATATGGCCATGAGTTTATTTAATAA
Found at i:2345647 original size:29 final size:29
Alignment explanation
Indices: 2345614--2345672 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2345604 AAGTCGAGCT
2345614 TGAAAATTTTAAGCTCGCGAGTTTTCGAG
1 TGAAAATTTTAAGCTCGCGAGTTTTCGAG
2345643 TGAAAATTTTAAGCTCGCGAGTTTTCGAG
1 TGAAAATTTTAAGCTCGCGAGTTTTCGAG
2345672 T
1 T
2345673 CAAGTCGAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.36
Consensus pattern (29 bp):
TGAAAATTTTAAGCTCGCGAGTTTTCGAG
Found at i:2346896 original size:24 final size:24
Alignment explanation
Indices: 2346864--2346939 Score: 107
Period size: 24 Copynumber: 3.2 Consensus size: 24
2346854 TATTAGGCTA
2346864 AACATAAATGAACGAAAGTAAACG
1 AACATAAATGAACGAAAGTAAACG
*
2346888 AACATAAATGAACAAAAGTAAACG
1 AACATAAATGAACGAAAGTAAACG
* * * *
2346912 AACATTAACGAACGAACGTAAATG
1 AACATAAATGAACGAAAGTAAACG
2346936 AACA
1 AACA
2346940 AACATATTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.58, C:0.14, G:0.14, T:0.13
Consensus pattern (24 bp):
AACATAAATGAACGAAAGTAAACG
Found at i:2347727 original size:16 final size:17
Alignment explanation
Indices: 2347696--2347730 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
2347686 TGGTTGCAGC
2347696 ACTCATTGCACATTATG
1 ACTCATTGCACATTATG
2347713 ACTCATTGC-CATTATG
1 ACTCATTGCACATTATG
2347729 AC
1 AC
2347731 CCTCATCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (17 bp):
ACTCATTGCACATTATG
Found at i:2353839 original size:117 final size:116
Alignment explanation
Indices: 2353629--2353841 Score: 261
Period size: 117 Copynumber: 1.8 Consensus size: 116
2353619 ATATATTTAT
* * * *
2353629 AAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGGCTTCTAGGTGCCTTAAGACAGCTATT
1 AAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGTGCCTTAAGACAGCTACT
* * *
2353694 TTTTTCGATATTAAAAAATATATAATTAAAATAATTAATATATGATTTAAA
66 TTCTTCAATATTAAAAAATAAATAATTAAAATAATTAATATATGATTTAAA
* ** * *
2353745 AAATAAAAATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGTTGTTTTAAGACTGC-C
1 AAAT-AAAATATTTATTTATTTAAAAATATCAGAAAA-GGACATCCAGGTGCCTTAAGACAGCTA
2353809 CTTTCTT-AATATTGAAAATAATAAAT-ATTAAAA
64 CTTTCTTCAATATT-AAAA-AATAAATAATTAAAA
2353842 CATGATTAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
116 9 0.11
117 48 0.59
118 24 0.30
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (116 bp):
AAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGTGCCTTAAGACAGCTACT
TTCTTCAATATTAAAAAATAAATAATTAAAATAATTAATATATGATTTAAA
Found at i:2353903 original size:22 final size:22
Alignment explanation
Indices: 2353857--2353924 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
2353847 TTAAAATAGG
*
2353857 TTAA-AAATAATTAAATAAGTT-T
1 TTAATAAATAAATAAAT-A-TTAT
2353879 TTAATAAATAAATAAATATTAT
1 TTAATAAATAAATAAATATTAT
* * *
2353901 TTATTAGATAAATATATA-TAT
1 TTAATAAATAAATAAATATTAT
2353922 TTA
1 TTA
2353925 TGACTAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 8 0.20
22 21 0.52
23 11 0.28
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (22 bp):
TTAATAAATAAATAAATATTAT
Found at i:2353939 original size:3 final size:3
Alignment explanation
Indices: 2353931--2353960 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
2353921 TTTATGACTA
*
2353931 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2353961 TAAGAGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2355471 original size:22 final size:24
Alignment explanation
Indices: 2355435--2355500 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 24
2355425 TGGGCTTGTA
*
2355435 ATAATTATTTAATAATAAT-ATAAT
1 ATAA-TATATAATAATAATAATAAT
2355459 AT-ATATA-ATATAATAATAAT-AT
1 ATAATATATA-ATAATAATAATAAT
*
2355481 TTAATA-ATAATAATAATAAT
1 ATAATATATAATAATAATAAT
2355501 TTTAATAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
21 1 0.03
22 26 0.72
23 7 0.19
24 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATAATATATAATAATAATAATAAT
Found at i:2355478 original size:25 final size:22
Alignment explanation
Indices: 2355433--2355509 Score: 96
Period size: 21 Copynumber: 3.8 Consensus size: 22
2355423 TTTGGGCTTG
2355433 TAATAATTATTTAATAATAAT-A
1 TAATAA-TATTTAATAATAATAA
2355455 TAAT-ATA--T-ATAAT-ATAA
1 TAATAATATTTAATAATAATAA
2355472 TAATAATATTTAATAATAATAA
1 TAATAATATTTAATAATAATAA
2355494 TAATAAT-TTTAATAAT
1 TAATAATATTTAATAAT
2355510 GATTTAAGTA
Statistics
Matches: 49, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
16 2 0.04
17 10 0.20
18 4 0.08
20 3 0.06
21 15 0.31
22 15 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAATAATATTTAATAATAATAA
Found at i:2355509 original size:3 final size:3
Alignment explanation
Indices: 2355444--2355500 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
2355434 AATAATTATT
*
2355444 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TATT TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA
2355488 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
2355501 TTTAATAATG
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 6 0.13
3 36 0.77
4 5 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:2355892 original size:75 final size:76
Alignment explanation
Indices: 2355689--2356131 Score: 793
Period size: 75 Copynumber: 5.9 Consensus size: 76
2355679 ACTGAAGGGT
* *
2355689 TTTGAAAATATCAAAAAGCCCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
*
2355754 GACCCTAAGGC
66 GACCCGAAGGC
*
2355765 TTTGAAAACATCAAAAAGCTCTCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
*
2355830 GACCCTAAGGC
66 GACCCGAAGGC
2355841 TTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
2355905 GACCCGAAGG-
66 GACCCGAAGGC
2355915 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
2355980 GACCCGAAGGC
66 GACCCGAAGGC
* *
2355991 TTTGAAAACATTAAAAAGCTCCCGAAGGTTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
2356056 GACCCGAAGG-
66 GACCCGAAGGC
*
2356066 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
2356131 G
66 G
2356132 TGGGAAATAG
Statistics
Matches: 355, Mismatches: 10, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
74 3 0.01
75 203 0.57
76 149 0.42
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (76 bp):
TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
GACCCGAAGGC
Found at i:2355999 original size:151 final size:151
Alignment explanation
Indices: 2355689--2356131 Score: 798
Period size: 151 Copynumber: 2.9 Consensus size: 151
2355679 ACTGAAGGGT
* *
2355689 TTTGAAAATATCAAAAAGCCCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
* *
2355754 GACCCTAAGGCTTTGAAAACATCAAAAAGCTCTCGAAGGCTTTTTGGAAACATCATGCACTGCAG
66 GACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
*
2355819 GACTTACAGATGACCCTAAGGC
130 GACTTACAGATGACCCGAAGGC
2355841 TTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
2355905 GACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGG
66 GACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGG
2355970 ACTTACAGATGACCCGAAGGC
131 ACTTACAGATGACCCGAAGGC
* *
2355991 TTTGAAAACATTAAAAAGCTCCCGAAGGTTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
*
2356056 GACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGG
66 GACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGG
2356121 ACTTACAGATG
131 ACTTACAGATG
2356132 TGGGAAATAG
Statistics
Matches: 282, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
150 77 0.27
151 202 0.72
152 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (151 bp):
TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
GACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGG
ACTTACAGATGACCCGAAGGC
Found at i:2356083 original size:226 final size:226
Alignment explanation
Indices: 2355689--2356131 Score: 798
Period size: 226 Copynumber: 2.0 Consensus size: 226
2355679 ACTGAAGGGT
*
2355689 TTTGAAAATATCAAAAAGCCCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCCCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
* *
2355754 GACCCTAAGGCTTTGAAAACATCAAAAAGCTCTCGAAGGCTTTTTGGAAACATCATGCACTGCAG
66 GACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
*
2355819 GACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCA
131 GACTTACAGATGACCCGAAGGCTTTAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCA
*
2355884 TGCACTGCAGGACTTACAGATGACCCGAAGG
196 TGCACTGAAGGACTTACAGATGACCCGAAGG
*
2355915 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCCCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
* *
2355980 GACCCGAAGGCTTTGAAAACATTAAAAAGCTCCCGAAGGTTTTTTGGAAACATCATGCACTGCAG
66 GACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
2356045 GACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATC
131 GACTTACAGATGACCCGAAGGCTTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATC
2356109 ATGCACTGAAGGACTTACAGATG
195 ATGCACTGAAGGACTTACAGATG
2356132 TGGGAAATAG
Statistics
Matches: 208, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
225 3 0.01
226 205 0.99
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (226 bp):
TTTGAAAACATCAAAAAGCCCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
GACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
GACTTACAGATGACCCGAAGGCTTTAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCA
TGCACTGAAGGACTTACAGATGACCCGAAGG
Found at i:2357073 original size:22 final size:23
Alignment explanation
Indices: 2356973--2357071 Score: 152
Period size: 22 Copynumber: 4.5 Consensus size: 23
2356963 AATAAAGCTT
2356973 TCATCTTTGAAAAAG-GAATCTA
1 TCATCTTTGAAAAAGAGAATCTA
2356995 TCATCTTT-AAAAAGAGAATCTA
1 TCATCTTTGAAAAAGAGAATCTA
2357017 TCATCTTTG-AAAAGAGAATCTA
1 TCATCTTTGAAAAAGAGAATCTA
* *
2357039 TCATCTTTGAAGAA-TGAATCTA
1 TCATCTTTGAAAAAGAGAATCTA
2357061 TCATCTTTGAA
1 TCATCTTTGAA
2357072 GAGTGTAGAT
Statistics
Matches: 72, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
21 6 0.08
22 63 0.88
23 3 0.04
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (23 bp):
TCATCTTTGAAAAAGAGAATCTA
Found at i:2359586 original size:113 final size:114
Alignment explanation
Indices: 2359419--2359641 Score: 403
Period size: 113 Copynumber: 2.0 Consensus size: 114
2359409 GATCATGCAG
* * *
2359419 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
2359484 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
*
2359533 TTCATCTTTCAAATCCAATGATTGGTT-TGGGGTTCATACCAAATCAGATCAGATAACTCAAATA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
2359597 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAG
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAG
2359642 AACGTGGCAC
Statistics
Matches: 105, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
113 79 0.75
114 26 0.25
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:2366218 original size:23 final size:23
Alignment explanation
Indices: 2366192--2366245 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
2366182 AAATGCTTGC
2366192 AAATAAAATGAAATAATATA-TAT
1 AAATAAAATGAAATAATA-AGTAT
**
2366215 AAATACTATGAAATAATAAGTAT
1 AAATAAAATGAAATAATAAGTAT
*
2366238 ATATAAAA
1 AAATAAAA
2366246 ATTTGAAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.30
Consensus pattern (23 bp):
AAATAAAATGAAATAATAAGTAT
Found at i:2367038 original size:23 final size:24
Alignment explanation
Indices: 2367012--2367056 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
2367002 TAAATAAGTT
2367012 TTTAATAAATAAA-ATAAATATTA
1 TTTAATAAATAAATATAAATATTA
* * *
2367035 TTTATTAGATAAATATATATAT
1 TTTAATAAATAAATATAAATAT
2367057 ATATATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
TTTAATAAATAAATATAAATATTA
Found at i:2367084 original size:3 final size:3
Alignment explanation
Indices: 2367076--2367108 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
2367066 TTTATGACTA
*
2367076 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2367109 TAAGAGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2368603 original size:11 final size:12
Alignment explanation
Indices: 2368587--2368652 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 12
2368577 TTTGGGCTTG
*
2368587 TAATAAT-TATT
1 TAATAATATATA
2368598 TAATAATA-ATA
1 TAATAATATATA
2368609 TAATATATATAATA
1 TAATA-ATAT-ATA
*
2368623 TAATAATTATATT
1 TAATAA-TATATA
2368636 TAATAATA-ATAA
1 TAATAATATAT-A
2368648 TAATA
1 TAATA
2368653 GTTTTAATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
11 16 0.35
12 10 0.22
13 9 0.20
14 11 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATAATATATA
Found at i:2368604 original size:3 final size:3
Alignment explanation
Indices: 2368598--2368666 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
2368588 AATAATTATT
* *
2368598 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TTA TATT TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA
* **
2368642 TAA TAA TAA TAG TTT TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
2368667 TTAAGTAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
2 6 0.12
3 41 0.79
4 5 0.10
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:2368625 original size:22 final size:23
Alignment explanation
Indices: 2368598--2368652 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
2368588 AATAATTATT
2368598 TAATAATAATATA-ATATATATAA
1 TAATAATAATATATATATA-ATAA
*
2368621 T-ATAATAAT-TATATTTAATAA
1 TAATAATAATATATATATAATAA
2368642 TAATAATAATA
1 TAATAATAATA
2368653 GTTTTAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 7 0.25
22 20 0.71
23 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATAATAATATATATATAATAA
Found at i:2368641 original size:16 final size:18
Alignment explanation
Indices: 2368589--2368666 Score: 77
Period size: 19 Copynumber: 4.0 Consensus size: 18
2368579 TGGGCTTGTA
2368589 ATAATTATTTAATAATAAT
1 ATAA-TATTTAATAATAAT
2368608 ATAATATATATAAT-ATAAT
1 ATAATAT-T-TAATAATAAT
*
2368627 AATTATATTTAATAATAAT
1 -ATAATATTTAATAATAAT
2368646 AATAATAGTTTTAATAATAAT
1 -ATAATA--TTTAATAATAAT
2368667 TTAAGTAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.14
19 22 0.43
20 10 0.20
21 12 0.24
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (18 bp):
ATAATATTTAATAATAAT
Found at i:2374054 original size:20 final size:21
Alignment explanation
Indices: 2374024--2374064 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
2374014 ATACTATACG
2374024 CTATAGTAGTA-CTGATACTAC
1 CTATAGTAGTATC-GATACTAC
2374045 CTAT-GTAGTATCGATACTAC
1 CTATAGTAGTATCGATACTAC
2374065 TCCTTTGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (21 bp):
CTATAGTAGTATCGATACTAC
Found at i:2379815 original size:22 final size:20
Alignment explanation
Indices: 2379761--2379820 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
2379751 CCATTTTGTG
2379761 CACTTGGTATCGATACTACT
1 CACTTGGTATCGATACTACT
* *
2379781 CACATAGTATCGATACTACT
1 CACTTGGTATCGATACTACT
*
2379801 CTTGCTTGGTATCGATACTA
1 C--ACTTGGTATCGATACTA
2379821 TAGCGTAGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 19 0.58
22 14 0.42
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (20 bp):
CACTTGGTATCGATACTACT
Found at i:2379905 original size:14 final size:14
Alignment explanation
Indices: 2379886--2379912 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2379876 ATATACTTGA
2379886 ATGGTATCGATACC
1 ATGGTATCGATACC
2379900 ATGGTATCGATAC
1 ATGGTATCGATAC
2379913 TACTAAAAAA
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:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (14 bp):
ATGGTATCGATACC
Found at i:2383509 original size:174 final size:174
Alignment explanation
Indices: 2383207--2383562 Score: 657
Period size: 174 Copynumber: 2.1 Consensus size: 174
2383197 GAATGTTGAA
2383207 AATCTTTAATTGTTTGATGATCTCACGTAGGCTCTTTTTGTTTTTCTCAACTCTTCTTTATCTCA
1 AATCTTTAATTGTTTGATGATCTCACGTAGGCTCTTTTTGTTTTTCTCAACTCTTCTTTATCTCA
2383272 TTCTTCTCCTCCTTTATCCTTCATTTCCTCTCAACCTAGAACTAATAAAGATGATAGCTTGGTGT
66 TTCTTCTCCTCCTTTATCCTTCATTTCCTCTCAACCTAGAACTAATAAAGATGATAGCTTGGTGT
2383337 CCTTGCAACTATAGTTTGGCAATTTAAAGGTAAG-AACTTAACCC-T
131 CCTTGCAAC--TA-TTTGGCAATTTAAAGGTAAGAAACTTAACCCTT
2383382 AATCTTTAATTGTTTGATGATCTCACGTAGGCTCTTTTTGTTTTTCTCAACTCTTCTTTATCTC-
1 AATCTTTAATTGTTTGATGATCTCACGTAGGCTCTTTTTGTTTTTCTCAACTCTTCTTTATCTCA
2383446 TTCTTCTCCTCCTTTATCCTTCATTTCCTCTCAACCTAGAACTAATAAAGATGATAGCTTGGTGT
66 TTCTTCTCCTCCTTTATCCTTCATTTCCTCTCAACCTAGAACTAATAAAGATGATAGCTTGGTGT
2383511 CCTTGCAACTATTTGGCAATTTAAAGGTAAGAAACTTAACCCTT
131 CCTTGCAACTATTTGGCAATTTAAAGGTAAGAAACTTAACCCTT
2383555 AA-CTTTAA
1 AATCTTTAA
2383563 AGCTTTAAAT
Statistics
Matches: 179, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
171 20 0.11
172 18 0.10
173 3 0.02
174 74 0.41
175 64 0.36
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (174 bp):
AATCTTTAATTGTTTGATGATCTCACGTAGGCTCTTTTTGTTTTTCTCAACTCTTCTTTATCTCA
TTCTTCTCCTCCTTTATCCTTCATTTCCTCTCAACCTAGAACTAATAAAGATGATAGCTTGGTGT
CCTTGCAACTATTTGGCAATTTAAAGGTAAGAAACTTAACCCTT
Found at i:2384447 original size:41 final size:41
Alignment explanation
Indices: 2384386--2384471 Score: 138
Period size: 41 Copynumber: 2.1 Consensus size: 41
2384376 GTATCGATAC
*
2384386 TCAA-GAAAGAGTATTGATATCGACCCTTTGTTATCAACCT
1 TCAATGAAAGAGTATCGATATCGACCCTTTGTTATCAACCT
* *
2384426 TCAATGAAAGAGTATCGATATCGACCCTTTGTTATTAGCCT
1 TCAATGAAAGAGTATCGATATCGACCCTTTGTTATCAACCT
2384467 TCAAT
1 TCAAT
2384472 AAGTCAGTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 4 0.10
41 38 0.90
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (41 bp):
TCAATGAAAGAGTATCGATATCGACCCTTTGTTATCAACCT
Found at i:2385540 original size:6 final size:6
Alignment explanation
Indices: 2385526--2385585 Score: 72
Period size: 6 Copynumber: 10.3 Consensus size: 6
2385516 TTGTCTTTTT
* *
2385526 CTTCT- CTTCTC CTTCTC CTTCTC CTTCTT CTTTTC CTTCTC CTTCAT-
1 CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTC-TC
2385573 CTTCT- CTTCTC CT
1 CTTCTC CTTCTC CT
2385586 CCAAGCTCCA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
5 11 0.23
6 36 0.75
7 1 0.02
ACGTcount: A:0.02, C:0.43, G:0.00, T:0.55
Consensus pattern (6 bp):
CTTCTC
Found at i:2398709 original size:17 final size:17
Alignment explanation
Indices: 2398681--2398727 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 17
2398671 AATCTGTCCG
2398681 TTGACTTTGACCGACCC
1 TTGACTTTGACCGACCC
2398698 ATTGAC-TTGACCCGACCC
1 -TTGACTTTGA-CCGACCC
2398716 TTGACTTTGACC
1 TTGACTTTGACC
2398728 AGAGTTGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.19, C:0.34, G:0.17, T:0.30
Consensus pattern (17 bp):
TTGACTTTGACCGACCC
Found at i:2400400 original size:21 final size:23
Alignment explanation
Indices: 2400359--2400411 Score: 92
Period size: 21 Copynumber: 2.4 Consensus size: 23
2400349 TTAGGCATTA
2400359 TATCAAAATTAGTTATCAATTTT
1 TATCAAAATTAGTTATCAATTTT
2400382 TATCAAAATTAG-T-TCAATTTT
1 TATCAAAATTAGTTATCAATTTT
2400403 TATCAAAAT
1 TATCAAAAT
2400412 GATCATTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 17 0.57
22 1 0.03
23 12 0.40
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (23 bp):
TATCAAAATTAGTTATCAATTTT
Found at i:2403529 original size:2 final size:2
Alignment explanation
Indices: 2403522--2403566 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2403512 AAAATGCGTA
2403522 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2403564 AT A
1 AT A
2403567 CGCGTGTAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2404480 original size:33 final size:33
Alignment explanation
Indices: 2404438--2404500 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
2404428 AATGACGTAT
2404438 ATTGAAGGCCCATATTAATAACTATTAACATAG
1 ATTGAAGGCCCATATTAATAACTATTAACATAG
* ** *
2404471 ATTGAAGGCCTATATTGGTAATTATTAACA
1 ATTGAAGGCCCATATTAATAACTATTAACA
2404501 AATTCGTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (33 bp):
ATTGAAGGCCCATATTAATAACTATTAACATAG
Found at i:2409700 original size:17 final size:17
Alignment explanation
Indices: 2409666--2409718 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
2409656 TCAATAAAGT
* *
2409666 TAGTTCTTTAATGAAAC
1 TAGTTCATTAATTAAAC
* * *
2409683 TAGTTTATTCATTTAAC
1 TAGTTCATTAATTAAAC
2409700 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
2409717 TA
1 TA
2409719 ACTCTTGGAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:2410049 original size:17 final size:17
Alignment explanation
Indices: 2410027--2410072 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
2410017 GTGTAGGATG
2410027 TCTACATTCATCTTATA
1 TCTACATTCATCTTATA
*
2410044 TCTACATTCATCTTATG
1 TCTACATTCATCTTATA
2410061 TCTACATTCATC
1 TCTACATTCATC
2410073 CTCCTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.46
Consensus pattern (17 bp):
TCTACATTCATCTTATA
Found at i:2417155 original size:17 final size:17
Alignment explanation
Indices: 2417135--2417180 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
2417125 ATCAAAGAGT
2417135 TAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
* *
2417152 TAGTTAAATGAATGAAC
1 TAGTTTAATTAATGAAC
2417169 TAGTTTAATTAA
1 TAGTTTAATTAA
2417181 AGAAAAGTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:2417517 original size:17 final size:17
Alignment explanation
Indices: 2417492--2417549 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
2417482 TTAAATTCAA
* *
2417492 TAAATTAGTTCTTTAAT
1 TAAACTAGTTCATTAAT
*
2417509 TAAACTAGTTCATTCAT
1 TAAACTAGTTCATTAAT
*
2417526 TTAACTAGTTCATTAAT
1 TAAACTAGTTCATTAAT
2417543 TAAACTA
1 TAAACTA
2417550 ACTCTTTGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (17 bp):
TAAACTAGTTCATTAAT
Found at i:2418824 original size:13 final size:13
Alignment explanation
Indices: 2418806--2418832 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2418796 ATGAGCCTAA
2418806 CCCATCAGACCAT
1 CCCATCAGACCAT
2418819 CCCATCAGACCAT
1 CCCATCAGACCAT
2418832 C
1 C
2418833 AACACCAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.48, G:0.07, T:0.15
Consensus pattern (13 bp):
CCCATCAGACCAT
Found at i:2427714 original size:2 final size:2
Alignment explanation
Indices: 2427707--2427753 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
2427697 TTTTAAACAT
*
2427707 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2427749 TA TA T
1 TA TA T
2427754 GTATGTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2429893 original size:20 final size:20
Alignment explanation
Indices: 2429868--2429944 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
2429858 TGCACTTAGC
*
2429868 GCATCGATTCATCCATCCAT
1 GCATCGATGCATCCATCCAT
2429888 GCATCGATGCATCC-TGCCAT
1 GCATCGATGCATCCAT-CCAT
*
2429908 GCATTGATGCATCCATCCAT
1 GCATCGATGCATCCATCCAT
* *
2429928 GCATTGATGCATGCATC
1 GCATCGATGCATCCATC
2429945 GATGTATCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 50 0.96
21 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (20 bp):
GCATCGATGCATCCATCCAT
Found at i:2429923 original size:40 final size:40
Alignment explanation
Indices: 2429868--2429984 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 40
2429858 TGCACTTAGC
*
2429868 GCATCGATTCATCCATCCATGCATCGATGCATCCTGCCAT
1 GCATCGATGCATCCATCCATGCATCGATGCATCCTGCCAT
*
2429908 GCATTGATGCATCCATCCATGCAT---TG-A---TG-CAT
1 GCATCGATGCATCCATCCATGCATCGATGCATCCTGCCAT
*
2429940 GCATCGATGTATCC-TGCCATGCATCGATGCATCCTGCCAT
1 GCATCGATGCATCCAT-CCATGCATCGATGCATCCTGCCAT
2429980 GCATC
1 GCATC
2429985 CATGTATCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
31 1 0.02
32 23 0.36
33 2 0.03
35 2 0.03
36 2 0.03
37 2 0.03
39 2 0.03
40 30 0.47
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (40 bp):
GCATCGATGCATCCATCCATGCATCGATGCATCCTGCCAT
Found at i:2429941 original size:32 final size:32
Alignment explanation
Indices: 2429905--2429971 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
2429895 TGCATCCTGC
* *
2429905 CATGCATTGATGCATCCAT-CCATGCATTGATG
1 CATGCATCGATGCATCC-TGCCATGCATCGATG
*
2429937 CATGCATCGATGTATCCTGCCATGCATCGATG
1 CATGCATCGATGCATCCTGCCATGCATCGATG
2429969 CAT
1 CAT
2429972 CCTGCCATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 1 0.03
32 30 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (32 bp):
CATGCATCGATGCATCCTGCCATGCATCGATG
Found at i:2429947 original size:52 final size:52
Alignment explanation
Indices: 2429885--2429983 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
2429875 TTCATCCATC
*
2429885 CATGCATCGATGCATCCTGCCATGCATTGATGCATCCAT-CCATGCATTGATG
1 CATGCATCGATGCATCCTGCCATGCATCGATGCATCC-TGCCATGCATTGATG
*
2429937 CATGCATCGATGTATCCTGCCATGCATCGATGCATCCTGCCATGCAT
1 CATGCATCGATGCATCCTGCCATGCATCGATGCATCCTGCCATGCAT
2429984 CCATGTATCA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 1 0.02
52 43 0.98
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (52 bp):
CATGCATCGATGCATCCTGCCATGCATCGATGCATCCTGCCATGCATTGATG
Found at i:2429960 original size:20 final size:20
Alignment explanation
Indices: 2429937--2429984 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
2429927 TGCATTGATG
*
2429937 CATGCATCGATGTATCCTGC
1 CATGCATCGATGCATCCTGC
2429957 CATGCATCGATGCATCCTGC
1 CATGCATCGATGCATCCTGC
2429977 CATGCATC
1 CATGCATC
2429985 CATGTATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.27
Consensus pattern (20 bp):
CATGCATCGATGCATCCTGC
Found at i:2431311 original size:25 final size:25
Alignment explanation
Indices: 2431283--2431330 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
2431273 GGAAGATGAT
2431283 TTACTCTCTTCCAAAGGAGTGGCCG
1 TTACTCTCTTCCAAAGGAGTGGCCG
*
2431308 TTACTCTCTTCCAAAGTAGTGGC
1 TTACTCTCTTCCAAAGGAGTGGC
2431331 AATCTAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (25 bp):
TTACTCTCTTCCAAAGGAGTGGCCG
Found at i:2433302 original size:29 final size:30
Alignment explanation
Indices: 2433233--2433291 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
2433223 CAATTTAAGG
*
2433233 CAAAATGTTTTTGGACTTAAATTGAATTTA
1 CAAAATGTTTTTGGACTTAAATTAAATTTA
*
2433263 CAAAATATTTTTGGACTT-AATTAAATTTA
1 CAAAATGTTTTTGGACTTAAATTAAATTTA
2433292 TTCAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTAAATTAAATTTA
Found at i:2433478 original size:20 final size:20
Alignment explanation
Indices: 2433449--2433494 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2433439 TTGCACTTAG
*
2433449 TGCATTGATGCATCCATCCA
1 TGCATCGATGCATCCATCCA
* *
2433469 TGCATCGATGCATGCATCGA
1 TGCATCGATGCATCCATCCA
2433489 TGCATC
1 TGCATC
2433495 CTACTATGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCATCCATCCA
Found at i:2433487 original size:12 final size:12
Alignment explanation
Indices: 2433456--2433493 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
2433446 TAGTGCATTG
* *
2433456 ATGCATCCATCC
1 ATGCATCGATGC
2433468 ATGCATCGATGC
1 ATGCATCGATGC
2433480 ATGCATCGATGC
1 ATGCATCGATGC
2433492 AT
1 AT
2433494 CCTACTATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (12 bp):
ATGCATCGATGC
Done.