Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold205
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: 1179939
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.30
Warning! 53951 characters in sequence are not A, C, G, or T
File 5 of 7
Found at i:748707 original size:34 final size:35
Alignment explanation
Indices: 748669--748735 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
748659 CCTTACAACA
748669 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
748703 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
748736 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:749305 original size:20 final size:20
Alignment explanation
Indices: 749280--749352 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
749270 ATCTTTTTTT
749280 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
749300 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
749321 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
749341 ATGTATCGATAC
1 ATGTATCGATAC
749353 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:749331 original size:41 final size:42
Alignment explanation
Indices: 749258--749352 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
749248 CTGCCAAGAA
*
749258 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
749300 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
749341 ATGTATCGATAC
1 ATGTATCGATAC
749353 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:752227 original size:166 final size:166
Alignment explanation
Indices: 751963--752393 Score: 575
Period size: 166 Copynumber: 2.6 Consensus size: 166
751953 AATTTTTCTT
* *
751963 AATTTTTAAAATTCATTAAATATCATTATTTATTTCATATTAA-TCAAGTTTTCAAAAATTCATT
1 AATTTTTAAAATTCA-TAAAAATTATTATTTATTTCATATTAATTC-AGTTTTCAAAAATTCATT
* * *
752027 CATTTTAATTCTTTTTTGATTTTTTTCTTTGAAACTTTTCTTTTTTT-GAAATACGGTGTTTTCT
64 CATTTTCATTCATTTTTGATTTTTTTCTTTGAAAC-TTTCTTTTTTTCGAAATACGATGTTTTCT
* *
752091 ACTCAGTAAATTTTTTCGAGGGGATTTTTCTTAG-TTTTC
128 ACTCAGAAAATTTTTTCGAGAGGATTTTTC-TAGATTTTC
* *
752130 AATTTTTAAAATTCATCAAAAATTATTATTTATTTCATATTAATTCAG-TTTAAAAAATTAATTC
1 AATTTTTAAAATTCAT-AAAAATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTC
* *
752194 ATTTTCATTCATTTTTGATTTTTTTCCTTGAAACTTTCTTTTTTTCTAAATACGATGTTTTCTAC
65 ATTTTCATTCATTTTTGATTTTTTTCTTTGAAACTTTCTTTTTTTCGAAATACGATGTTTTCTAC
* * *
752259 TCCGAAAATTTTTTTGAGAGGATTTTTCTCGATTTTC
130 TCAGAAAATTTTTTCGAGAGGATTTTTCTAGATTTTC
* * * * *
752296 AATTTTTATAATTCCTAAAACATTATCATTTAATTCAAATTAATTCAGTTTTCAAAAATTCATTC
1 AATTTTTAAAATTCATAAAA-ATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTC
* *
752361 ATTTTCA-TGAGTTTTTGAATTTTTTCTTTGAAA
65 ATTTTCATTCA-TTTTTGATTTTTTTCTTTGAAA
752394 TCCCTATTTT
Statistics
Matches: 233, Mismatches: 24, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
165 17 0.07
166 132 0.57
167 82 0.35
168 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (166 bp):
AATTTTTAAAATTCATAAAAATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
TTTTCATTCATTTTTGATTTTTTTCTTTGAAACTTTCTTTTTTTCGAAATACGATGTTTTCTACT
CAGAAAATTTTTTCGAGAGGATTTTTCTAGATTTTC
Found at i:752367 original size:18 final size:19
Alignment explanation
Indices: 752332--752367 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
752322 CATTTAATTC
752332 AAATTAATTCAGTTTTCAA
1 AAATTAATTCAGTTTTCAA
*
752351 AAATTCATTCA-TTTTCA
1 AAATTAATTCAGTTTTCA
752368 TGAGTTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.44
Consensus pattern (19 bp):
AAATTAATTCAGTTTTCAA
Found at i:752450 original size:166 final size:162
Alignment explanation
Indices: 751963--752450 Score: 500
Period size: 166 Copynumber: 2.9 Consensus size: 162
751953 AATTTTTCTT
* *
751963 AATTTTTAAAATTCATTAAATATCATTATTTATTTCATATTAA-TCAAGTTTTCAAAAATTCATT
1 AATTTTTAAAATTCA-TAAAAATTATTATTTATTTCATATTAATTC-AGTTTTCAAAAATTCATT
* * ** *
752027 CATTTTAATTCTTTTTTGATTTTTTTCTTTGAAACTTTTCTTTTTTTGAAATACGGTGTTTTCTA
64 CATTTTCA-TCATTTTTGATTTTTTTCTTTGAAAC-TTTCTTTTTTCAAAATAC-GAGTTTTCTA
* * *
752092 CTCAGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTTC
126 TTCA-TAAATTTTTTCGAGAGGATTTTTCTGAGTTTTC
* *
752130 AATTTTTAAAATTCATCAAAAATTATTATTTATTTCATATTAATTCAG-TTTAAAAAATTAATTC
1 AATTTTTAAAATTCAT-AAAAATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTC
* *
752194 ATTTTCATTCATTTTTGATTTTTTTCCTTGAAACTTTCTTTTTTTCTAAATACGATGTTTTCTAC
65 ATTTTCA-TCATTTTTGATTTTTTTCTTTGAAACTTTC-TTTTTTCAAAATACGA-GTTTTCTA-
* *
752259 TCCGA-AAATTTTTTTGAGAGGATTTTTCTCGA-TTTTC
126 TTC-ATAAATTTTTTCGAGAGGATTTTTCT-GAGTTTTC
* * * * *
752296 AATTTTTATAATTCCTAAAACATTATCATTTAATTCAAATTAATTCAGTTTTCAAAAATTCATTC
1 AATTTTTAAAATTCATAAAA-ATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTC
* * ** * * *
752361 ATTTTCATGAGTTTTTGAATTTTTTCTTTGAAA-TCCCTATTTTCCAAAAAACTGAGTTTTCCAT
65 ATTTTCATCA-TTTTTGATTTTTTTCTTTGAAACTTTCT-TTTTTCAAAATAC-GAGTTTTCTA-
* * *
752425 TTCATAAATATTTTCGTGCGGATTTT
126 TTCATAAATTTTTTCGAGAGGATTTT
752451 CTTTGGCATA
Statistics
Matches: 271, Mismatches: 37, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
165 11 0.04
166 171 0.63
167 86 0.32
168 3 0.01
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.51
Consensus pattern (162 bp):
AATTTTTAAAATTCATAAAAATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
TTTTCATCATTTTTGATTTTTTTCTTTGAAACTTTCTTTTTTCAAAATACGAGTTTTCTATTCAT
AAATTTTTTCGAGAGGATTTTTCTGAGTTTTC
Found at i:754286 original size:164 final size:163
Alignment explanation
Indices: 754015--754615 Score: 810
Period size: 164 Copynumber: 3.7 Consensus size: 163
754005 TATATTCCTA
* ** * * *
754015 ATATTCCCATGGGTATCCGTGGGGGTATAGAAGGTTTCAAAAACTTTTCGTATCTTTTCGGGTAT
1 ATATTCCTAT-GGTATCCGTAAGGGTATAAAAGATTTCAAAAACTTTTCGTATCTTTTTGGGTAT
* * * *
754080 CTATTAAGGTATGAAATAATTTTTTTTTCAAAAATAAATAAATAATATTAAATTTACTCCCGTTA
65 CCATTAAGGTACGAAATGATTTTTTTTTCAAAAATAAATAAATAATATTAAATTTACTCCCATTA
*
754145 ATTATAACAAATATTAATCATTTTTAAATCTTTT
130 ATTACAACAAATATTAATCATTTTTAAATCTTTT
* * * *
754179 ATATTCCTATAGGTATTCATATGGGTATAAAAGATTTCAAAAGCTTTTCGTATCTTTTTGGGTAT
1 ATATTCCTAT-GGTATCCGTAAGGGTATAAAAGATTTCAAAAACTTTTCGTATCTTTTTGGGTAT
* *
754244 CCAATAAGGTACAAAATGATTTTTTTTTCAAAAATAAATAAATAATATTAAATTTACTCCCATTA
65 CCATTAAGGTACGAAATGATTTTTTTTTCAAAAATAAATAAATAATATTAAATTTACTCCCATTA
754309 ATTACAACAAATATTAATCATTTTTAAATCTTTT
130 ATTACAACAAATATTAATCATTTTTAAATCTTTT
* *
754343 ACATTCCTATGTGTATCCGTAAGGGTATAAAAGATTTCAAAAACTTTTTGTATCTTTTTGGGTAT
1 ATATTCCTATG-GTATCCGTAAGGGTATAAAAGATTTCAAAAACTTTTCGTATCTTTTTGGGTAT
* * * *
754408 CCATTAAGGTACTAAATGA--TCTTTTTCAAAAATAAATTAATAATATTAAATTCACTCCTCATT
65 CCATTAAGGTACGAAATGATTTTTTTTTCAAAAATAAATAAATAATATTAAATTTACTCC-CATT
* * * *
754471 AATTACAATAAACATTAATCGTTTTTTAATCTTTT
129 AATTACAACAAATATTAATCATTTTTAAATCTTTT
* * * ** *
754506 ATATTCTTATGGGTATCCGTAGGGGTATAAAAGATTTAAAAAAACTTTTCACATTTTTTTGGGTA
1 ATATTCCTAT-GGTATCCGTAAGGGTATAAAAGATTT-CAAAAACTTTTCGTATCTTTTTGGGTA
* * *
754571 TCCATTAAGGTACGGAATGATTTTTTTTCCAAATATAAATAAATA
64 TCCATTAAGGTACGAAATGATTTTTTTTTCAAAAATAAATAAATA
754616 TCAATTACTT
Statistics
Matches: 385, Mismatches: 46, Indels: 10
0.87 0.10 0.02
Matches are distributed among these distances:
162 36 0.09
163 68 0.18
164 262 0.68
166 19 0.05
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (163 bp):
ATATTCCTATGGTATCCGTAAGGGTATAAAAGATTTCAAAAACTTTTCGTATCTTTTTGGGTATC
CATTAAGGTACGAAATGATTTTTTTTTCAAAAATAAATAAATAATATTAAATTTACTCCCATTAA
TTACAACAAATATTAATCATTTTTAAATCTTTT
Found at i:754741 original size:131 final size:130
Alignment explanation
Indices: 754500--754734 Score: 294
Period size: 131 Copynumber: 1.8 Consensus size: 130
754490 CGTTTTTTAA
** * * * *
754500 TCTTTTATATTCTTATGGGTATCCGTAGGGGTATAAAAGATTTAAAAAAACTTTTCACATTTTTT
1 TCTTTTATATTCCCATCGGTATACGTAGGGGTACAAAAGATTTAAAAAAACTTTTCACATCTTTT
* * *
754565 TGGGTATCCATTAAGGTACGGAATGATTTTTTTTCCAAATATAAATAAATATCAATTACTTTCAT
66 CGAGTATCCATTAAGGTACGGAA-GATTTTTTTTACAAATATAAATAAATATCAATTACTTTCAT
754630 G
130 G
* ** ***
754631 TCTTTTATATTCCCATCGGTATATGTAGGGGTACAAAAGATTTTGAAAAACTTTTTGTATCTTTT
1 TCTTTTATATTCCCATCGGTATACGTAGGGGTACAAAAGATTTAAAAAAACTTTTCACATCTTTT
*
754696 CGAGTATCCATTAAGGTAC-GAA-ATTATTTTTTAGAAATA
66 CGAGTATCCATTAAGGTACGGAAGATT-TTTTTTACAAATA
754735 ATTAAATTAA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
128 3 0.03
129 11 0.13
130 3 0.03
131 70 0.80
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (130 bp):
TCTTTTATATTCCCATCGGTATACGTAGGGGTACAAAAGATTTAAAAAAACTTTTCACATCTTTT
CGAGTATCCATTAAGGTACGGAAGATTTTTTTTACAAATATAAATAAATATCAATTACTTTCATG
Found at i:756060 original size:156 final size:155
Alignment explanation
Indices: 755404--756310 Score: 875
Period size: 156 Copynumber: 5.9 Consensus size: 155
755394 CTTAGATAAC
* * ** * * *
755404 CACCGGGTCCACTTTTATATCGAAGGTGGGTATTTAGGATAGGTTCATTC-CTTTTATAGTTCTT
1 CACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCA-TCGCATTTCTAG-TCTT
* * * * ** * * *
755468 TTTAAGTCCTTTAGTGG-TACCAGGATACTTTCATGTTGAAGG--TGGC-TAAGGGTATTTTTGT
64 TTTAAGTCCTTTAG-GGTTACCGGGATACTTTTACGTCGAAGGTATCCCATAGGGGCATTTTCGT
* * * *
755529 AA-TTTTTAAAATCC-AGACATAGG-TCAT
128 AATTTTTTAGAA-CCGAGTCCTAGGCT-GT
** * * * * * * *
755556 CACTGGGTCAGCTTTTATGCCGAAGGTGGGTATTTAGGATAAGTTCACCTCTTTTATAGTCTTTT
1 CACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCGCATTTCTAGTCTTTT
* * * * * * * *
755621 TAAGTCTTTTAGGGGTATCGAGATACTTTCATGTCGAAGGTATCCCTTAGAGGCATTTTCGTAAT
66 TAAGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATCCCATAGGGGCATTTTCGTAAT
* * * * *
755686 TTTCTAAAACCAACT-CTAGGTTGT
131 TTTTTAGAACCGAGTCCTAGGCTGT
* * *
755710 CACCAGGTCCGCTTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGTCCTTT
1 CACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCGCATTTCTAGT-CTTT
* * * ** *
755775 TTAAGTCCTTTAGGG-TACCGGAATACTTTCACGTCGAAGTTATCCC-TAGGGGTGTTTTGGTAA
65 TTAAGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATCCCATAGGGGCATTTTCGTAA
*
755838 TTTTTTTAGAGCCGAGTCCTAGGCTGT
130 -TTTTTTAGAACCGAGTCCTAGGCTGT
* * * * *
755865 CACCAGGTCCACTTTTATGTCAAAGGTGGGCATTTAGGATAGGTTCATCACATTTCTAGTCATTT
1 CACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCGCATTTCTAGTCTTTT
* * * *
755930 TAAGTCCTTTAGGGTTACCGGGGTACTTTTACGTCGAAGGTATACCTATAGGGGCATTTTCATAC
66 TAAGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTAT-CCCATAGGGGCATTTTCGTAA
*
755995 TTTTTTAGAACCGAGTCCTAGGTTGT
130 TTTTTTAGAACCGAGTCCTAGGCTGT
* * *
756021 CACTAGGTCCGCTTTTATGCCGAAGGTGGGCATTAAGGATAGGTTTATCGCATTTCTAGTCTTTT
1 CACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCGCATTTCTAGTCTTTT
* * * * * * * *
756086 TAAGTCCTTTAAGGTTGCTGGGGTACTTTTATGTCAAAGGTATACCCATAGGGGTATTTTCGTAC
66 TAAGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTAT-CCCATAGGGGCATTTTCGTAA
* *
756151 TTTCTTAGAACTGAGTCCTAGGCTGT
130 TTTTTTAGAACCGAGTCCTAGGCTGT
* * * * *
756177 CACC-GGGCCTGCTTTTATGCTGAAGGTGGGCATTTATGATAGGTTTATTGCATTTCTAGTCTTT
1 CACCAGGTCC-GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCGCATTTCTAGTCTTT
* * * * *
756241 TTAAGTCCTTTAGGGTTGCCGAGATACTTTTACGCCGAAGGTATCCCCTAGGGGCATTTTCATAA
65 TTAAGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATCCCATAGGGGCATTTTCGTAA
756306 TTTTT
130 TTTTT
756311 CTTGAACTTA
Statistics
Matches: 634, Mismatches: 106, Indels: 27
0.83 0.14 0.04
Matches are distributed among these distances:
150 2 0.00
151 39 0.06
152 50 0.08
153 15 0.02
154 124 0.20
155 139 0.22
156 253 0.40
157 12 0.02
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (155 bp):
CACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCGCATTTCTAGTCTTTT
TAAGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATCCCATAGGGGCATTTTCGTAAT
TTTTTAGAACCGAGTCCTAGGCTGT
Found at i:768307 original size:23 final size:22
Alignment explanation
Indices: 768281--768333 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
768271 TCATCCGTAA
*
768281 AAAAAAAAAAAAGATAAAAAAAT
1 AAAAAAAAAAAAGA-AAAAAAAC
*
768304 AAAAAACAAAAAGAAAAAAAAC
1 AAAAAAAAAAAAGAAAAAAAAC
*
768326 AACAAAAA
1 AAAAAAAA
768334 GGGTCCGGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.87, C:0.06, G:0.04, T:0.04
Consensus pattern (22 bp):
AAAAAAAAAAAAGAAAAAAAAC
Found at i:768324 original size:15 final size:15
Alignment explanation
Indices: 768279--768333 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
768269 TGTCATCCGT
*
768279 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAC
768294 ATAAAAAAATAAAAAAC
1 A-AAAAAAA-AAAAAAC
*
768311 AAAAAGAAAAAAAAC
1 AAAAAAAAAAAAAAC
768326 AACAAAAA
1 AA-AAAAA
768334 GGGTCCGGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 10 0.29
16 17 0.50
17 7 0.21
ACGTcount: A:0.87, C:0.05, G:0.04, T:0.04
Consensus pattern (15 bp):
AAAAAAAAAAAAAAC
Found at i:768334 original size:18 final size:16
Alignment explanation
Indices: 768279--768333 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
768269 TGTCATCCGT
*
768279 AAAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAACA
*
768295 TAAAAAAATAAAAAACA
1 -AAAAAAAAAAAAAACA
768312 AAAAGAAAAAAAACAACA
1 AAAA-AAAAAAAA-AACA
768330 AAAA
1 AAAA
768334 GGGTCCGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
16 4 0.12
17 21 0.64
18 8 0.24
ACGTcount: A:0.87, C:0.05, G:0.04, T:0.04
Consensus pattern (16 bp):
AAAAAAAAAAAAAACA
Found at i:769400 original size:37 final size:37
Alignment explanation
Indices: 769359--769443 Score: 161
Period size: 37 Copynumber: 2.3 Consensus size: 37
769349 TGCCACAATC
*
769359 ATGCATTTGTGGCATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
769396 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
769433 ATGCATTTGTG
1 ATGCATTTGTG
769444 CTTCATCTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
Found at i:769850 original size:29 final size:28
Alignment explanation
Indices: 769813--770257 Score: 495
Period size: 29 Copynumber: 15.6 Consensus size: 28
769803 CCTTCTAAAA
* *
769813 CCCATAAGTCAATGGCATCTTTTCAAAAG
1 CCCACAAGTCAGTGGCATCTTTTC-AAAG
* *
769842 CCCACAAGTCAGTGGAACCCTTTTCAAAG
1 CCCACAAGTCAGTGGCA-TCTTTTCAAAG
769871 CCCACAAGTCAGTGGCATCTTTTCAAAAG
1 CCCACAAGTCAGTGGCATCTTTTC-AAAG
*
769900 CCCACAAGTCAGTGGCACTTTTTTCAAAG
1 CCCACAAGTCAGTGGCA-TCTTTTCAAAG
769929 CCCACAAGTCAGTGGCATCTTTTCAAAAG
1 CCCACAAGTCAGTGGCATCTTTTC-AAAG
*
769958 CCCACAAGTCAGTGGCACCCTTTT-AAAG
1 CCCACAAGTCAGTGGCA-TCTTTTCAAAG
* * * *
769986 CCCACAAGTTAGTGACAACCTTT-AGAAG
1 CCCACAAGTCAGTGGCATCTTTTCA-AAG
*
770014 CCCACAAGTCAGTGGCACCTTTTTCAAAG
1 CCCACAAGTCAGTGGCATC-TTTTCAAAG
*
770043 CCCACAAGTCAGTGGCATTTTTTCAAAAG
1 CCCACAAGTCAGTGGCATCTTTTC-AAAG
* * *
770072 CTCAGAAGTCAGTGGCACCTTTTTCAAAG
1 CCCACAAGTCAGTGGCATC-TTTTCAAAG
*
770101 CCCACAAGTTAGTGGCATCTTTTCAAAAG
1 CCCACAAGTCAGTGGCATCTTTTC-AAAG
* * *
770130 CCTACAAGTTAGTGGCACCTTTTCAAAG
1 CCCACAAGTCAGTGGCATCTTTTCAAAG
* * *
770158 CCCACAAGTCAGTGGCAAC-CTTCAAAAA
1 CCCACAAGTCAGTGGCATCTTTTC-AAAG
* *
770186 TCCATAAGTCAGTGGCATCTTTTCAAAG
1 CCCACAAGTCAGTGGCATCTTTTCAAAG
* * *
770214 CCCACAAGTCAATGGCAAC-CTTCAAAG
1 CCCACAAGTCAGTGGCATCTTTTCAAAG
770241 CCCACAAGGT-AGTGGCA
1 CCCACAA-GTCAGTGGCA
770258 ACCTTCAAAA
Statistics
Matches: 357, Mismatches: 45, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
27 28 0.08
28 119 0.33
29 187 0.52
30 23 0.06
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (28 bp):
CCCACAAGTCAGTGGCATCTTTTCAAAG
Found at i:769908 original size:58 final size:58
Alignment explanation
Indices: 769813--770262 Score: 583
Period size: 58 Copynumber: 7.9 Consensus size: 58
769803 CCTTCTAAAA
* * *
769813 CCCATAAGTCAATGGCATCTTTTCAAAAGCCCACAAGTCAGTGGAACCCTTTTCAAAG
1 CCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG
**
769871 CCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACTTTTTTCAAAG
1 CCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG
769929 CCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAG
1 CCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG
* * * * * *
769986 CCCACAAGTTAGTGACAACCTTT-AGAAGCCCACAAGTCAGTGGCACCTTTTTCAAAG
1 CCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG
* * * *
770043 CCCACAAGTCAGTGGCATTTTTTCAAAAGCTCAGAAGTCAGTGGCACCTTTTTCAAAG
1 CCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG
* * *
770101 CCCACAAGTTAGTGGCATCTTTTCAAAAGCCTACAAGTTAGTGGCA-CCTTTTCAAAG
1 CCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG
* * ** * *
770158 CCCACAAGTCAGTGGCAAC-CTTCAAAAATCCATAAGTCAGTGGCA-TCTTTTCAAAG
1 CCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG
* * * *
770214 CCCACAAGTCAATGGCAAC-CTTC-AAAGCCCACAAGGT-AGTGGCAACCTT
1 CCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAA-GTCAGTGGCACCCTT
770263 CAAAAGCACA
Statistics
Matches: 346, Mismatches: 42, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
55 15 0.04
56 84 0.24
57 72 0.21
58 175 0.51
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (58 bp):
CCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG
Found at i:770125 original size:172 final size:171
Alignment explanation
Indices: 769834--770262 Score: 614
Period size: 172 Copynumber: 2.5 Consensus size: 171
769824 ATGGCATCTT
*
769834 TTCAAAAGCCCACAAGTCAGTGGAACCCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAA
*
769899 GCCCACAAGTCAGTGGCACTTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACA
65 GCCCACAAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACA
*
769964 AGTCAGTGGCACCCTTTT-AAAGCCCACAAGTTAGTGACAACC
130 AGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGACAACC
* * *
770006 TTTAGAAGCCCACAAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTCAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCACC-TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAA
* * * *
770071 GCTCAGAAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCTACA
65 GCCCACAAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACA
* *
770136 AGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACC
130 AGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGACAACC
** * * * * *
770178 TTCAAAAATCCATAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAATGGCAAC-CTTC-AAAG
1 TTCAAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAG
770241 CCCACAAGGT-AGTGGCAACCTT
66 CCCACAA-GTCAGTGGC-ACCTT
770263 CAAAAGCACA
Statistics
Matches: 229, Mismatches: 24, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
169 15 0.07
170 10 0.04
171 33 0.14
172 171 0.75
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (171 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAG
CCCACAAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAA
GTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGACAACC
Found at i:771168 original size:13 final size:13
Alignment explanation
Indices: 771150--771175 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
771140 ACATAAGTGT
771150 TGTATCGATACAA
1 TGTATCGATACAA
771163 TGTATCGATACAA
1 TGTATCGATACAA
771176 AGCTACCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:771225 original size:20 final size:20
Alignment explanation
Indices: 771200--771237 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
771190 CTGCCAAGGA
771200 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
771220 AATGTATCGATACATTAT
1 AATGTATCGATACATTAT
771238 ATCGATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:771242 original size:13 final size:13
Alignment explanation
Indices: 771224--771248 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
771214 TTATTCAATG
771224 TATCGATACATTA
1 TATCGATACATTA
771237 TATCGATACATT
1 TATCGATACATT
771249 GATCTTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:771246 original size:33 final size:33
Alignment explanation
Indices: 771204--771267 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
771194 CAAGGAAATG
771204 TATCGATACATT-ATTCAATGTATCGATACATTA
1 TATCGATACATTGA-TCAATGTATCGATACATTA
**
771237 TATCGATACATTGATCTTTGTATCGATACAT
1 TATCGATACATTGATCAATGTATCGATACAT
771268 CGGTGAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.41
Consensus pattern (33 bp):
TATCGATACATTGATCAATGTATCGATACATTA
Found at i:784688 original size:13 final size:13
Alignment explanation
Indices: 784665--784707 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
784655 TATTTTTTTC
*
784665 TTTTTCCTCTCTT
1 TTTTTTCTCTCTT
*
784678 TTTTTTTTCTC-T
1 TTTTTTCTCTCTT
784690 TTTTTTCTCTCTT
1 TTTTTTCTCTCTT
784703 TTTTT
1 TTTTT
784708 CTCCAAGTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTCTCTCTT
Found at i:784692 original size:12 final size:12
Alignment explanation
Indices: 784665--784710 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
784655 TATTTTTTTC
*
784665 TTTTTCCTCTCTT
1 TTTTTTCTCTC-T
*
784678 TTTTTTTTCTCT
1 TTTTTTCTCTCT
784690 TTTTTTCTCTCT
1 TTTTTTCTCTCT
784702 TTTTTTCTC
1 TTTTTTCTC
784711 CAAGTTCCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 21 0.70
13 9 0.30
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTCTCTCT
Found at i:784692 original size:23 final size:22
Alignment explanation
Indices: 784657--784707 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
784647 TATTTTTCTA
*
784657 TTTTTTTCTTTTTCCTCTCTTT
1 TTTTTTTCTTTTTCCTCTCTCT
**
784679 TTTTTTTCTCTTTTTTTCTCTCT
1 TTTTTTTCT-TTTTCCTCTCTCT
784702 TTTTTT
1 TTTTTT
784708 CTCCAAGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTTTCTTTTTCCTCTCTCT
Found at i:784693 original size:25 final size:23
Alignment explanation
Indices: 784657--784707 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 23
784647 TATTTTTCTA
784657 TTTTTTTCTTTTTCCTCTCTTTT
1 TTTTTTTCTTTTTCCTCTCTTTT
*
784680 TTTTTTCTCTTTTTTTCTCTCTTTT
1 TTTTTT-TC-TTTTTCCTCTCTTTT
784705 TTT
1 TTT
784708 CTCCAAGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 6 0.24
24 2 0.08
25 17 0.68
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTTTCTTTTTCCTCTCTTTT
Found at i:787126 original size:42 final size:42
Alignment explanation
Indices: 786988--788151 Score: 465
Period size: 42 Copynumber: 27.7 Consensus size: 42
786978 CAAAGAATAA
* * * *
786988 AGCCGATAGGTAGATAAAGGATAAAGAAGTCTCCCAGGTTTG
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
* * * * *
787030 AGCTGATGGGCAAATAAACGATAAAGAAGTCTCCCAGGTCTG
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
* * *
787072 AGCCCATGGGTAGACAAAAGATAAAGAAGTTTCCCAGGTTTG
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
* * * *
787114 AGCCGATAGGTAGACAAAAAGATGAAGAAGTC-CCCCGGACCTG
1 AGCCGATGGGTAGAC-AAAAGATAAAGAAGTCTCCCAGG-TCTG
* * * * *
787157 AGTCGACGGGCAGACAAAGGATAAAGAAGTCTCACAGGTCTG
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
* * * * ***
787199 AGCTGACGGATAGACTAAAGATAAAGAAGTCTCCTTCGTCTG
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
** *** ** * * *
787241 AGCTAACAAGCCGACAAATA-ATAAAGAAGTCTCTCGGGTCCG
1 AGCCGATGGGTAGACAAA-AGATAAAGAAGTCTCCCAGGTCTG
* * * *
787283 AGCCAATGGGTAGACAAGAAGATGAAGAAGTC-CCTC-GAGCCTA
1 AGCCGATGGGTAGACAA-AAGATAAAGAAGTCTCC-CAG-GTCTG
* * * * *** *
787326 AGCCAACGGGCAGACAAAGGATAAAGAAGTCTTTTAGGTCTA
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
* *** * * *
787368 AGCTGACAAGCAGACAAAAGATTAAA-AAGTCTCCCGGGTCGG
1 AGCCGATGGGTAGACAAAAGA-TAAAGAAGTCTCCCAGGTCTG
* ** * * * *
787410 AGTCGACAGGTAGACAAAAAGATGAAGAAGTC-CCCTGTGCCTA
1 AGCCGATGGGTAGAC-AAAAGATAAAGAAGTCTCCCAG-GTCTG
* * * * ** * *
787453 AGTCGATGGGCAGACAAAGGATAAAAAAGTCTCATAGATCTA
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
* * * * * * *
787495 AGTCGACGGGCAGACAAAAGATAAAAAAGTCTCTCTA-GCCTA
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTC-CCAGGTCTG
* * ** *
787537 AGCCGATGGGCAAAGTAAAGATGAAA-AAGTCTCCTC-GGTCTA
1 AGCCGATGGGTAGACAAAAGAT-AAAGAAGTCTCC-CAGGTCTG
* * * * * *
787579 AGCTGATGGGTTGATAAATGATAAACAAGTCTCCCAAGTCTG
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
* * * * * ** * *
787621 AGTCGACGGGTAAATAAAAGATGAAGAAGTCTCTGAGCT-TA
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
* *** * * * *
787662 AGCCAACATGCAGACAAAGGATATAGAAGTCT-CCTGAGTCTG
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAG-GTCTG
** ** * * * * * * *
787704 AGCTAACAGGCA-AAAAAAGATAAAAAAAGTCTCTCAAGCCTA
1 AGCCGATGGGTAGACAAAAGAT-AAAGAAGTCTCCCAGGTCTG
* * * * *
787746 AGCCGATGGGCATACAAAGGATATAGAAGTCTCCAAGGTCTG
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
* * ** *
787788 AGTCGATGGGTAGACAAAAGATAAAAAAGTCTCCTGGGTCTA
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
* * ** * * * * *
787830 AGCTGACGGACCA-ACAAAGGATAAAAAAGTCTCACAAGTCTA
1 AGCCGATGG-GTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
* *
787872 AGCCAATGGGTA-AGCAAAAGATAAAAAAGTCTCCCCA-GTCTG
1 AGCCGATGGGTAGA-CAAAAGATAAAGAAGTCT-CCCAGGTCTG
** * * * *
787914 AGTTGATGGGCAGACAAAGGATAAAGAAGTCTCCTAGCTCTG
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
* * * * * * *
787956 AGCCGACGGGCATACAAAAGATAAAAAAGTC-CTCAAGTCTA
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
* * ** * *
787997 AGCCAACGGGCCGACAAAAGATAAAGAAGTCTCCCGGGCCTG
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
* ** * * * *
788039 AGCCAACAGGCAAACAAAAGATGAAGAAGTCTCTCAGGTCTG
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
* * * * * *
788081 AACTGAGGGGTAGACAAAGGATAAAAAAGTCTCCC-GAGTCTA
1 AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAG-GTCTG
* * *
788123 AGCTGACGGGCT-GACAAATGATAAAGAAG
1 AGCCGATGGG-TAGACAAAAGATAAAGAAG
788152 ATTTTCGGGT
Statistics
Matches: 835, Mismatches: 253, Indels: 68
0.72 0.22 0.06
Matches are distributed among these distances:
40 1 0.00
41 74 0.09
42 648 0.78
43 112 0.13
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (42 bp):
AGCCGATGGGTAGACAAAAGATAAAGAAGTCTCCCAGGTCTG
Found at i:787349 original size:127 final size:128
Alignment explanation
Indices: 787210--787527 Score: 321
Period size: 127 Copynumber: 2.5 Consensus size: 128
787200 GCTGACGGAT
* *
787210 AGACTAAA-GATAAAGAAGTCTCCTT-CGTCTGAGCTAACAAGCCGACAAATA-A-TAAAGAAGT
1 AGAC-AAAGGATAAAGAAGTCTCCTTACGTCTAAGCTAACAAGCAGACAAA-AGATTAAA-AAGT
* ** *
787271 CTCTCGGGTCCGAGCCAATGGGTAGACAAGAAGATGAAGAAGT-CCCTCGAGCCTAAGCCAACGG
63 CTCCCGGGTCCGAGCCAACAGGTAGACAAAAAGATGAAGAAGTCCCCT-GAGCCTAAGCCAACGG
787335 GC
127 GC
* * *
787337 AGACAAAGGATAAAGAAGTCT-TTTAGGTCTAAGCTGACAAGCAGACAAAAGATTAAAAAGTCTC
1 AGACAAAGGATAAAGAAGTCTCCTTACGTCTAAGCTAACAAGCAGACAAAAGATTAAAAAGTCTC
* * * * * * *
787401 CCGGGTCGGAGTCGACAGGTAGACAAAAAGATGAAGAAGTCCCCTGTGCCTAAGTCGATGGGC
66 CCGGGTCCGAGCCAACAGGTAGACAAAAAGATGAAGAAGTCCCCTGAGCCTAAGCCAACGGGC
* * * ** *
787464 AGACAAAGGATAAAAAAGTCT-CATA-GATCTAAG-TCGACGGGCAGACAAAAGATAAAAAAGTC
1 AGACAAAGGATAAAGAAGTCTCCTTACG-TCTAAGCT-AACAAGCAGACAAAAGATTAAAAAGTC
787526 TC
64 TC
787528 TCTAGCCTAA
Statistics
Matches: 162, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
126 8 0.05
127 146 0.90
128 8 0.05
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (128 bp):
AGACAAAGGATAAAGAAGTCTCCTTACGTCTAAGCTAACAAGCAGACAAAAGATTAAAAAGTCTC
CCGGGTCCGAGCCAACAGGTAGACAAAAAGATGAAGAAGTCCCCTGAGCCTAAGCCAACGGGC
Found at i:787855 original size:335 final size:335
Alignment explanation
Indices: 787453--788074 Score: 754
Period size: 335 Copynumber: 1.9 Consensus size: 335
787443 CCTGTGCCTA
* *
787453 AGTCGATGGGCAGACAAAGGATAAAAAAGTCTCATAGATCTAAGTCGACGGGCAGACAAAAGATA
1 AGTCGATGGGCAGACAAAAGATAAAAAAGTCTCATAGATCTAAGTCGACGGCCAGACAAAAGATA
* * * * * * *
787518 AAAAAGTCTCTCTAGCCTAAGCCGATGGGCAAAG-TAAAGATGAAAAAGTCTCCTCGGTCTAAGC
66 AAAAAGTCTCACAAGCCTAAGCCAATGGG-AAAGCAAAAGATAAAAAAGTCTCCCCAGTCTAAGC
** * * * * * *
787582 TGATGGGTTGATAAATGATAAACAAGTCTCCCAAG-TCTGAGTCGACGGGTAAATAAAAGATGAA
130 TGATGGGCAGACAAAGGATAAACAAGTCT-CCAAGCTCTGAGCCGACGGGCAAACAAAAGATAAA
* * * * * * * *
787646 GAAGT-CTCTGAG-CTTAAGCCAACATGCAGACAAAGGATATAGAAGTCTCCTGAGTCTGAGCTA
194 AAAGTCCTC-AAGTC-TAAGCCAACAGGCAGACAAAAGATAAAGAAGTCTCCCGAGCCTGAGCCA
787709 ACAGGCAAA-AAAAGATAAAAAAAGTCTCTCAAGCCTAAGCCGATGGGCATACAAAGGATATAGA
257 ACAGGCAAACAAAAGAT-AAAAAAGTCTCTCAAGCCTAAGCCGATGGGCATACAAAGGATATAGA
787773 AGTCTCCAAGGTCTG
321 AGTCTCCAAGGTCTG
* * * * *
787788 AGTCGATGGGTAGACAAAAGATAAAAAAGTCTCCTGGGTCTAAG-CTGACGGACCA-ACAAAGGA
1 AGTCGATGGGCAGACAAAAGATAAAAAAGTCTCATAGATCTAAGTC-GACGG-CCAGACAAAAGA
* * *
787851 TAAAAAAGTCTCACAAGTCTAAGCCAATGGGTAAGCAAAAGATAAAAAAGTCTCCCCAGTCTGAG
64 TAAAAAAGTCTCACAAGCCTAAGCCAATGGGAAAGCAAAAGATAAAAAAGTCTCCCCAGTCTAAG
* * * *
787916 TTGATGGGCAGACAAAGGATAAAGAAGTCTCCTAGCTCTGAGCCGACGGGCATACAAAAGATAAA
129 CTGATGGGCAGACAAAGGATAAACAAGTCTCCAAGCTCTGAGCCGACGGGCAAACAAAAGATAAA
* * *
787981 AAAGTCCTCAAGTCTAAGCCAACGGGCCGACAAAAGATAAAGAAGTCTCCCGGGCCTGAGCCAAC
194 AAAGTCCTCAAGTCTAAGCCAACAGGCAGACAAAAGATAAAGAAGTCTCCCGAGCCTGAGCCAAC
* *
788046 AGGCAAACAAAAGATGAAGAAGTCTCTCA
259 AGGCAAACAAAAGATAAAAAAGTCTCTCA
788075 GGTCTGAACT
Statistics
Matches: 238, Mismatches: 42, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
334 8 0.03
335 217 0.91
336 13 0.05
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (335 bp):
AGTCGATGGGCAGACAAAAGATAAAAAAGTCTCATAGATCTAAGTCGACGGCCAGACAAAAGATA
AAAAAGTCTCACAAGCCTAAGCCAATGGGAAAGCAAAAGATAAAAAAGTCTCCCCAGTCTAAGCT
GATGGGCAGACAAAGGATAAACAAGTCTCCAAGCTCTGAGCCGACGGGCAAACAAAAGATAAAAA
AGTCCTCAAGTCTAAGCCAACAGGCAGACAAAAGATAAAGAAGTCTCCCGAGCCTGAGCCAACAG
GCAAACAAAAGATAAAAAAGTCTCTCAAGCCTAAGCCGATGGGCATACAAAGGATATAGAAGTCT
CCAAGGTCTG
Found at i:788166 original size:126 final size:125
Alignment explanation
Indices: 787843--788194 Score: 307
Period size: 125 Copynumber: 2.8 Consensus size: 125
787833 TGACGGACCA
* * * ** *
787843 ACAAAGGATAAAAAAGTCTCACAAGTCTAAGCCAATGGG-TAAGCAAAAGATAAAAAAGTCTCCC
1 ACAAAAGATAAAAAAGTC-CCCAAGTCTAAGCCAACGGGCCGA-CAAAAGATAAAGAAGTCTCCC
** * *** * * * * * * * * * *
787907 CAGTCTGAGTTGATGGGCAGACAAAGGATAAAGAAGTCTC-CTAGCTCTGAGCCGACGGGCAT
64 GGGCCTGAGCCAACGGACAAACAAAAGATAAAGAAGTCTCTC-AGGTCTGAACTGAGGGGTAG
*
787969 ACAAAAGATAAAAAAGTCCTCAAGTCTAAGCCAACGGGCCGACAAAAGATAAAGAAGTCTCCCGG
1 ACAAAAGATAAAAAAGTCCCCAAGTCTAAGCCAACGGGCCGACAAAAGATAAAGAAGTCTCCCGG
*
788034 GCCTGAGCCAACAGG-CAAACAAAAGATGAAGAAGTCTCTCAGGTCTGAACTGAGGGGTAG
66 GCCTGAGCCAAC-GGACAAACAAAAGATAAAGAAGTCTCTCAGGTCTGAACTGAGGGGTAG
* * ** * * **
788094 ACAAAGGATAAAAAAGTCTCCCGAGTCTAAGCTGACGGGCTGACAAATGATAAAGAAGAT-TTTC
1 ACAAAAGATAAAAAAGTC-CCCAAGTCTAAGCCAACGGGCCGACAAAAGATAAAGAAG-TCTCCC
* * *
788158 GGGTCTGAGCTAACGGACAGACAAAAGATAAAGAAGT
64 GGGCCTGAGCCAACGGACAAACAAAAGATAAAGAAGT
788195 TTCTTATGCC
Statistics
Matches: 185, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
125 98 0.53
126 86 0.46
127 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.16
Consensus pattern (125 bp):
ACAAAAGATAAAAAAGTCCCCAAGTCTAAGCCAACGGGCCGACAAAAGATAAAGAAGTCTCCCGG
GCCTGAGCCAACGGACAAACAAAAGATAAAGAAGTCTCTCAGGTCTGAACTGAGGGGTAG
Found at i:793827 original size:13 final size:13
Alignment explanation
Indices: 793809--793833 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
793799 AATTCAAGTA
793809 TGTATCGATACAT
1 TGTATCGATACAT
793822 TGTATCGATACA
1 TGTATCGATACA
793834 AAGTGAGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:793918 original size:13 final size:13
Alignment explanation
Indices: 793900--793925 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
793890 TACCAAGAAC
793900 ATGTATCGATACA
1 ATGTATCGATACA
793913 ATGTATCGATACA
1 ATGTATCGATACA
793926 TCTGGTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:794605 original size:19 final size:19
Alignment explanation
Indices: 794577--794615 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
794567 AAATTAGTAC
*
794577 TCCCCCTTAACAAATTATT
1 TCCCCCTTAACAAAATATT
*
794596 TCCCCTTTAACAAAATATT
1 TCCCCCTTAACAAAATATT
794615 T
1 T
794616 AATACTCTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.38
Consensus pattern (19 bp):
TCCCCCTTAACAAAATATT
Found at i:800354 original size:229 final size:229
Alignment explanation
Indices: 799953--800411 Score: 918
Period size: 229 Copynumber: 2.0 Consensus size: 229
799943 TGAAGACGTC
799953 ACCATCCTTACTTGTTGGAACTCGTGGTCCATTTACAATGATCTTTAATACTTCATAGTCGTTGG
1 ACCATCCTTACTTGTTGGAACTCGTGGTCCATTTACAATGATCTTTAATACTTCATAGTCGTTGG
800018 CTTGAATGAACAATCTCATTCTTGTTCTCCAATACGAGTAGTTGTGTCTATTGAAGTATAGAGGT
66 CTTGAATGAACAATCTCATTCTTGTTCTCCAATACGAGTAGTTGTGTCTATTGAAGTATAGAGGT
800083 CTCATAGTCAAGTGACCTTCGAGTCCAATGGCATTTGAATTTGTCTCTAATGCCATAAGACACAT
131 CTCATAGTCAAGTGACCTTCGAGTCCAATGGCATTTGAATTTGTCTCTAATGCCATAAGACACAT
800148 TTCTCCTTAGTTCACCATTTGTTGAGAAGCTTTG
196 TTCTCCTTAGTTCACCATTTGTTGAGAAGCTTTG
800182 ACCATCCTTACTTGTTGGAACTCGTGGTCCATTTACAATGATCTTTAATACTTCATAGTCGTTGG
1 ACCATCCTTACTTGTTGGAACTCGTGGTCCATTTACAATGATCTTTAATACTTCATAGTCGTTGG
800247 CTTGAATGAACAATCTCATTCTTGTTCTCCAATACGAGTAGTTGTGTCTATTGAAGTATAGAGGT
66 CTTGAATGAACAATCTCATTCTTGTTCTCCAATACGAGTAGTTGTGTCTATTGAAGTATAGAGGT
800312 CTCATAGTCAAGTGACCTTCGAGTCCAATGGCATTTGAATTTGTCTCTAATGCCATAAGACACAT
131 CTCATAGTCAAGTGACCTTCGAGTCCAATGGCATTTGAATTTGTCTCTAATGCCATAAGACACAT
800377 TTCTCCTTAGTTCACCATTTGTTGAGAAGCTTTG
196 TTCTCCTTAGTTCACCATTTGTTGAGAAGCTTTG
800411 A
1 A
800412 TCATGAAGTT
Statistics
Matches: 230, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 230 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (229 bp):
ACCATCCTTACTTGTTGGAACTCGTGGTCCATTTACAATGATCTTTAATACTTCATAGTCGTTGG
CTTGAATGAACAATCTCATTCTTGTTCTCCAATACGAGTAGTTGTGTCTATTGAAGTATAGAGGT
CTCATAGTCAAGTGACCTTCGAGTCCAATGGCATTTGAATTTGTCTCTAATGCCATAAGACACAT
TTCTCCTTAGTTCACCATTTGTTGAGAAGCTTTG
Found at i:801348 original size:13 final size:13
Alignment explanation
Indices: 801330--801355 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
801320 TACCAAGAAC
801330 ATGTATCGATACA
1 ATGTATCGATACA
801343 ATGTATCGATACA
1 ATGTATCGATACA
801356 TCTGTGTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:802932 original size:18 final size:18
Alignment explanation
Indices: 802905--802947 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
802895 CTTATCTTTT
*
802905 TTTTTCTTTTTTTTCCA-
1 TTTTTCTTTTTTTTTCAC
802922 TTTTTCTTTTTTTTTCAC
1 TTTTTCTTTTTTTTTCAC
802940 TTTTTCTT
1 TTTTTCTT
802948 CATTACACGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTTTTTTTCAC
Found at i:806707 original size:154 final size:151
Alignment explanation
Indices: 806425--806999 Score: 597
Period size: 154 Copynumber: 3.8 Consensus size: 151
806415 CTAGAAAATT
* * * *
806425 AGGATACCTTCGACGTAAAAATATCTGATACCCCTAAAAGACTTAAAAAGGATTTTTAAATGGGA
1 AGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGACTTAAAAAGGA----TAAA-GGGA
*** *** *
806490 TGAACCTATCCTAAATATTCACCTTCGGCATAAAAGCGGAGTTAGTGACAACCTAGGAGTTGGTT
61 TGAACCTATCCTAAATGCACACCTTCGGCATAAAAGCGGACCCAGTGATAACCTAGGAGTTGGTT
* * *
806555 CCAAAAAATTATGAAAATGCCCCTAG
126 CTAAAAAATTATGAAAATACCTCTAG
*
806581 AGGATACCTTCGATGTAAAAGTACCCGATACCCCTAAAGGAC-TAAAAAGGATTTTAAGAGGGAT
1 AGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGACTTAAAAAGGA---TAA-AGGGAT
* * * * *
806645 GAACCTATCCCAAATATC-CACCTTCGGCATAAAATCGGACCCAGTGATGACGTAGGAGTTGGTT
62 GAACCTATCCTAAAT-GCACACCTTCGGCATAAAAGCGGACCCAGTGATAACCTAGGAGTTGGTT
* *
806709 CTGAAAAATTACGAAAATACCTCTA-
126 CTAAAAAATTATGAAAATACCTCTAG
* * * * *
806734 AGGGATACCTTCGACGTAAAAGTACTCGATACCTCTCAAGGATTTAAAAA-GATAAAAGGATGAA
1 A-GGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGACTTAAAAAGGATAAAGGGATGAA
* * * * * * * *
806798 CCAATCCTAAATGCACACCTTTGGCATAGAAGCGGACCCGGTGATAACCTAAGACTCGATTCTAA
65 CCTATCCTAAATGCACACCTTCGGCATAAAAGCGGACCCAGTGATAACCTAGGAGTTGGTTCTAA
806863 GAAAATTACT-AAAATACCTCTAG
130 -AAAATTA-TGAAAATACCTCTAG
* * * * * *
806886 -GGAATATCTTCGACATATAAGTACCCAATACCTCTAAAGGGCTTAAAAAGG-TAAAGGGATGAA
1 AGG-ATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGACTTAAAAAGGATAAAGGGATGAA
*
806949 CCTATCCTAAATGCACACCTTCGGCATAAAAGCGAACCCAGTGATAACCTA
65 CCTATCCTAAATGCACACCTTCGGCATAAAAGCGGACCCAGTGATAACCTA
807000 TGATTCGATT
Statistics
Matches: 354, Mismatches: 55, Indels: 25
0.82 0.13 0.06
Matches are distributed among these distances:
149 1 0.00
150 59 0.17
151 117 0.33
152 1 0.00
153 1 0.00
154 122 0.34
155 16 0.05
156 37 0.10
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (151 bp):
AGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGACTTAAAAAGGATAAAGGGATGAAC
CTATCCTAAATGCACACCTTCGGCATAAAAGCGGACCCAGTGATAACCTAGGAGTTGGTTCTAAA
AAATTATGAAAATACCTCTAG
Found at i:807049 original size:151 final size:149
Alignment explanation
Indices: 806425--807060 Score: 562
Period size: 151 Copynumber: 4.2 Consensus size: 149
806415 CTAGAAAATT
* * * * * *
806425 AGGATACCTTCGACGTAAAAATATCTGATACCCCTAAAAGACTTAAAAAGGATTTTTAAATGGGA
1 AGGATACCTTCGACATAAAAGTACCCGATACCTCTAAAGGACTTAAAAAGG-----TAAA-GGGA
*** *** * *
806490 TGAACCTATCCTAAATATTCACCTTCGGCATAAAAGCGGAGTTAGTGACAACCTAGGAGTTGGTT
60 TGAACCTATCCTAAATGCACACCTTCGGCATAAAAGCGGACCCAGTGATAACCTAGGAGTTGATT
* * *
806555 CCAAAAAATTA-TGAAAATGCCCCTA
125 CAAAAAAATTACT-AAAATACCTCTA
** *
806580 GAGGATACCTTCGATGTAAAAGTACCCGATACCCCTAAAGGAC-TAAAAAGGATTTTAAGAGGGA
1 -AGGATACCTTCGACATAAAAGTACCCGATACCTCTAAAGGACTTAAAAAGG----TAA-AGGGA
* * * * * *
806644 TGAACCTATCCCAAATATC-CACCTTCGGCATAAAATCGGACCCAGTGATGACGTAGGAGTTGGT
60 TGAACCTATCCTAAAT-GCACACCTTCGGCATAAAAGCGGACCCAGTGATAACCTAGGAGTTGAT
** *
806708 TCTGAAAAATTACGAAAATACCTCTA
124 TCAAAAAAATTACTAAAATACCTCTA
* * * * * *
806734 AGGGATACCTTCGACGTAAAAGTACTCGATACCTCTCAAGGATTTAAAAAGATAAAAGGATGAAC
1 A-GGATACCTTCGACATAAAAGTACCCGATACCTCTAAAGGACTTAAAAAGGTAAAGGGATGAAC
* * * * * * * *
806799 CAATCCTAAATGCACACCTTTGGCATAGAAGCGGACCCGGTGATAACCTAAGACTCGATTCTAAG
65 CTATCCTAAATGCACACCTTCGGCATAAAAGCGGACCCAGTGATAACCTAGGAGTTGATTC-AAA
806864 AAAATTACTAAAATACCTCTA
129 AAAATTACTAAAATACCTCTA
* * * * *
806885 GGGAATATCTTCGACATATAAGTACCCAATACCTCTAAAGGGCTTAAAAAGGTAAAGGGATGAAC
1 AGG-ATACCTTCGACATAAAAGTACCCGATACCTCTAAAGGACTTAAAAAGGTAAAGGGATGAAC
* *
806950 CTATCCTAAATGCACACCTTCGGCATAAAAGCGAACCCAGTGATAACCTATGA-TTCGATTCAAA
65 CTATCCTAAATGCACACCTTCGGCATAAAAGCGGACCCAGTGATAACCTAGGAGTT-GATTC-AA
*
807014 AAAAATTACTAAAATGCC-CTTCA
128 AAAAATTACTAAAATACCTC-T-A
* * *
807037 AGGATACATTCGACAGAGAAGTAC
1 AGGATACCTTCGACATAAAAGTAC
807061 TTGGCTCTCC
Statistics
Matches: 398, Mismatches: 71, Indels: 27
0.80 0.14 0.05
Matches are distributed among these distances:
149 1 0.00
150 59 0.15
151 162 0.41
152 3 0.01
153 1 0.00
154 119 0.30
155 16 0.04
156 37 0.09
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (149 bp):
AGGATACCTTCGACATAAAAGTACCCGATACCTCTAAAGGACTTAAAAAGGTAAAGGGATGAACC
TATCCTAAATGCACACCTTCGGCATAAAAGCGGACCCAGTGATAACCTAGGAGTTGATTCAAAAA
AATTACTAAAATACCTCTA
Found at i:808432 original size:19 final size:19
Alignment explanation
Indices: 808408--808454 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
808398 TATTTTTCTA
*
808408 TTTTTTTCTTTTTACTTTC
1 TTTTTTTCTTTTTACTCTC
*
808427 TTTTTTAT-TTTTTTCTCTC
1 TTTTTT-TCTTTTTACTCTC
808446 TTTTTTTCT
1 TTTTTTTCT
808455 CGAAGTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 1 0.04
19 22 0.92
20 1 0.04
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTTCTTTTTACTCTC
Found at i:808432 original size:21 final size:19
Alignment explanation
Indices: 808402--808452 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
808392 TCCTACTATT
*
808402 TTTCTATTTTTTTCTTTTTAC
1 TTTCT-TTTTTTT-TTTTTTC
*
808423 TTTCTTTTTTATTTTTTTC
1 TTTCTTTTTTTTTTTTTTC
*
808442 TCTCTTTTTTT
1 TTTCTTTTTTT
808453 CTCGAAGTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 15 0.58
20 6 0.23
21 5 0.19
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTCTTTTTTTTTTTTTTC
Found at i:808612 original size:13 final size:14
Alignment explanation
Indices: 808590--808625 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
808580 TCCATTTTTT
808590 TCATTTTTTTATTG
1 TCATTTTTTTATTG
*
808604 TCATTTTTTTCTTG
1 TCATTTTTTTATTG
808618 TCATTTTT
1 TCATTTTT
808626 GATTGGATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.72
Consensus pattern (14 bp):
TCATTTTTTTATTG
Found at i:819159 original size:202 final size:203
Alignment explanation
Indices: 818880--819280 Score: 590
Period size: 202 Copynumber: 2.0 Consensus size: 203
818870 TTCAAATGAT
*
818880 ATATTGTTAGAAAGCTAACTTAAAAAACATTAATTCCAAAACTTATGACTTGCCCAAAAATTCAA
1 ATATTATTAGAAAGCTAACTTAAAAAACATTAATTCC-AAACTTATGACTTGCCCAAAAATTCAA
*
818945 ATCAAAGGTGAAAATATTAATGCAAAAAGGTCTAATTATA-GAGCATAATAAACCTAAATGACAA
65 ATCAAAGGTGAAAATATTAATGCAAAAAGGTCTAATTATAGGA-CATAATAAACATAAATGACAA
* *
819009 GTAGAAACCTAGTTTGTTACTTATCCAAATAAACTAGAGAATAGATAAAACTTACGACATTAGAA
129 GTAGAAACCTAGTTTGTTACTTATCCAAACAAACTAGAGAAAAGATAAAACTTACGACATTAGAA
819074 AGCTATCTGA
194 AGCTATCTGA
** * *
819084 ATATTATTAGAAAGCTAACTTAATGAACGTTAATTCC-AATTTATGACTTGCCCAAAAATTCAAA
1 ATATTATTAGAAAGCTAACTTAAAAAACATTAATTCCAAACTTATGACTTGCCCAAAAATTCAAA
* * * * * * *
819148 TCAAGGGTGAAAATATTAATGCAACAAGGTCTGATTGTAGGACATAGTAGACATATATGACAAGT
66 TCAAAGGTGAAAATATTAATGCAAAAAGGTCTAATTATAGGACATAATAAACATAAATGACAAGT
* * * * *
819213 AGAAACCTAGTTTGTTACTTATCCAAACAGACTCGAGAAAAGGTAAAACTTGCGACATTGGAAAG
131 AGAAACCTAGTTTGTTACTTATCCAAACAAACTAGAGAAAAGATAAAACTTACGACATTAGAAAG
819278 CTA
196 CTA
819281 CTTGAACAAA
Statistics
Matches: 176, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
202 141 0.80
203 2 0.01
204 33 0.19
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (203 bp):
ATATTATTAGAAAGCTAACTTAAAAAACATTAATTCCAAACTTATGACTTGCCCAAAAATTCAAA
TCAAAGGTGAAAATATTAATGCAAAAAGGTCTAATTATAGGACATAATAAACATAAATGACAAGT
AGAAACCTAGTTTGTTACTTATCCAAACAAACTAGAGAAAAGATAAAACTTACGACATTAGAAAG
CTATCTGA
Found at i:821226 original size:21 final size:21
Alignment explanation
Indices: 821201--821240 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
821191 CAACTAAAAT
821201 AAAAGAAAAAAAAAAGAGAAA
1 AAAAGAAAAAAAAAAGAGAAA
* *
821222 AAAAGAGAAAGAAAAGAGA
1 AAAAGAAAAAAAAAAGAGA
821241 GAAGAAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAAAAAAGAGAAA
Found at i:821230 original size:23 final size:23
Alignment explanation
Indices: 821196--821243 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
821186 AGATTCAACT
821196 AAAATAAAAGAAAAAAAAAAGAG
1 AAAATAAAAGAAAAAAAAAAGAG
* *
821219 AAAA-AAAGAGAAAGAAAAGAGAG
1 AAAATAAA-AGAAAAAAAAAAGAG
821242 AA
1 AA
821244 GAAATAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (23 bp):
AAAATAAAAGAAAAAAAAAAGAG
Found at i:821237 original size:11 final size:11
Alignment explanation
Indices: 821201--821268 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 11
821191 CAACTAAAAT
* *
821201 AAAAGAAAAAA
1 AAAAGAGAAAG
821212 AAAAGAGAAA-
1 AAAAGAGAAAG
821222 AAAAGAGAAAG
1 AAAAGAGAAAG
821233 AAAAGAGAGAAG
1 AAAAGAGA-AAG
*
821245 -AAATAGAAA-
1 AAAAGAGAAAG
* *
821254 CAAAGAGATAG
1 AAAAGAGAAAG
821265 AAAA
1 AAAA
821269 AAATAAGGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
10 19 0.40
11 26 0.54
12 3 0.06
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:821237 original size:32 final size:32
Alignment explanation
Indices: 821201--821268 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
821191 CAACTAAAAT
821201 AAAAGAAAAAAAAAAGAGAAAAAAAGAGAAAG
1 AAAAGAAAAAAAAAAGAGAAAAAAAGAGAAAG
* * * * * *
821233 AAAAGAGAGAAGAAATAGAAACAAAGAGATAG
1 AAAAGAAAAAAAAAAGAGAAAAAAAGAGAAAG
821265 AAAA
1 AAAA
821269 AAATAAGGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (32 bp):
AAAAGAAAAAAAAAAGAGAAAAAAAGAGAAAG
Found at i:823049 original size:97 final size:97
Alignment explanation
Indices: 822968--823197 Score: 370
Period size: 97 Copynumber: 2.4 Consensus size: 97
822958 TATTGGGAAT
* *
822968 ACTCCAACCCCATTCCTCCGAGGGGATACTCTAACCCCGCTTTTAAACACATCAAAGTTTAAATC
1 ACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAAGTTTAAATC
*
823033 TGATTCTCACTTAAATTGTCACCATCGGGGAC
66 TGATTCTCACTTAAATTGTCATCATCGGGGAC
* * * * *
823065 ACTTCAACCCCATTCCTCCGAGGGGATACTCCAACCCTACTTTTAAACGCATCAAAGTTTTAATT
1 ACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAAGTTTAAATC
*
823130 TTATTCTCACTTAAATTGTCATCATCGGGGAC
66 TGATTCTCACTTAAATTGTCATCATCGGGGAC
*
823162 ATTCCAACCCCATTCCTCCGAGGGGATACTCCAACC
1 ACTCCAACCCCATTCCTCCGAGGGGATACTCCAACC
823198 TCGTTTTTCA
Statistics
Matches: 122, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 122 1.00
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (97 bp):
ACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAAGTTTAAATC
TGATTCTCACTTAAATTGTCATCATCGGGGAC
Found at i:825645 original size:335 final size:333
Alignment explanation
Indices: 825108--825743 Score: 787
Period size: 335 Copynumber: 1.9 Consensus size: 333
825098 AATTTTCCTA
* * * *
825108 TTTTTGAAATATAGAGTTTTCTATTCCGTAATTTTTTTGGGGAGATTTTTCTTGGTTTTTAATTT
1 TTTTTGAAATATAGAGTTTTCTATTCCGTAATTGTTTTGGGCAGATTTTTATTGGTATTTAATTT
* * *
825173 TTAAAATTCATCAAATACTGTTATTTAATTCATATTAAATTAGTTCTAAAAAATTCATTCATTTT
66 TTAAAATTCATCAAATACTATTATTTAATTCATATTAAATCAGTTCTAAAAAATTCATTCATCTT
* *** *
825238 CAAAAAATATTTGAAATTTTTCCTTAAAACTCTCATTTTTTTGAAATACAGAGTTTTCTACTCTG
131 CAAAAAATATTTGAAATTTTTCCTTAAAACTCTCATATTTCCAAAATACAGAGTTTTCTACTCCG
* * *
825303 TAATTTTTTTCGGGGAGA-TTTTTCTTAGTTTTTAATTTTTAAAATTTATCAAATATTATTATGT
196 TAA-TTTTTTCGGGGAGATTTTTTCTTAGTTTTTAATTTTTAAAATTCATAAAAAATTATTATGT
* *
825367 AAATCCTATTAAATCAATTCTCAAAAATTCATTCATTTTCATAAATTTTTGAATATTTTCCTTGA
260 AAATCATATTAAATCAATTCTCAAAAATTCATTCATGTTCATAAATTTTTGAATATTTTCCTTGA
825432 AAATCCTTT
325 AAATCCTTT
* * *
825441 TTTTTCGAAATATGGAGTTTTCTACTT-TGTAAATTGTTTTGGGCA-TTTTTTATTGGTGATTTA
1 TTTTT-GAAATATAGAGTTTTCTA-TTCCGT-AATTGTTTTGGGCAGATTTTTATTGGT-ATTTA
* * * *
825504 ATTTTTAAAATTCATCAAATATTATTATTTTAA-TCATATTAAATCAGTTTTTAAAAATTCTTTC
62 ATTTTTAAAATTCATCAAATACTATTA-TTTAATTCATATTAAATCAGTTCTAAAAAATTCATTC
** * * * * * * * *
825568 ATCTTC-ATGAGTTTTTGAATTTTTTCCTTGAAATTTTCCTATTTCCAAAATACGGAGTTTTCTA
126 ATCTTCAAAAAATATTTGAAATTTTTCCTTAAAACTCTCATATTTCCAAAATACAGAGTTTTCTA
* *
825632 CTCCGTAAATTTTTTCGGGGAGATTTTTTTTTTGTTTTTAATTTTTAAAATTCATAAAAAATTAT
191 CTCCGT-AATTTTTTCGGGGAGATTTTTTCTTAGTTTTTAATTTTTAAAATTCATAAAAAATTAT
* ** * * * *
825697 TATTTATTTCATATTAAATTAGTTTTCAAAAATTCATTTATGTTCAT
255 TATGTAAATCATATTAAATCAATTCTCAAAAATTCATTCATGTTCAT
825744 TCATTTTTCA
Statistics
Matches: 253, Mismatches: 43, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
333 5 0.02
334 92 0.36
335 151 0.60
336 5 0.02
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (333 bp):
TTTTTGAAATATAGAGTTTTCTATTCCGTAATTGTTTTGGGCAGATTTTTATTGGTATTTAATTT
TTAAAATTCATCAAATACTATTATTTAATTCATATTAAATCAGTTCTAAAAAATTCATTCATCTT
CAAAAAATATTTGAAATTTTTCCTTAAAACTCTCATATTTCCAAAATACAGAGTTTTCTACTCCG
TAATTTTTTCGGGGAGATTTTTTCTTAGTTTTTAATTTTTAAAATTCATAAAAAATTATTATGTA
AATCATATTAAATCAATTCTCAAAAATTCATTCATGTTCATAAATTTTTGAATATTTTCCTTGAA
AATCCTTT
Found at i:825759 original size:167 final size:167
Alignment explanation
Indices: 825098--825760 Score: 701
Period size: 167 Copynumber: 4.0 Consensus size: 167
825088 TTTCTTTTAC
* * * *
825098 AATTTTCCTATTTTTGAAATATAGAGTTTTCTATTCCGT-AATTTTTTTGGGGAGATTTTTCTTG
1 AATTTTCCTATTTTCGAAATACAGAGTTTTCTACTCCGTAAATTTTTTCGGGGAGATTTTTCTTG
* * * * *
825162 GTTTTTAATTTTTAAAATTCATCAAATACTGTTATTTAATTCATATTAAATTAGTTCTAAAAAAT
66 GTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAAATCATATTAAATCAGTTCTCAAAAAT
* * * *
825227 TCATTCATTTTCAAAAAATATTTGAAATTTTTCCTTAA
131 TCATTCATTTTC-ATAAATTTTTGAATTTTTTCCTTGA
* * * * * * * *
825265 AACTCTCATTTTTTTGAAATACAGAGTTTTCTACTCTGTAATTTTTTTCGGGGAGATTTTTCTTA
1 AATTTTCCTATTTTCGAAATACAGAGTTTTCTACTCCGTAAATTTTTTCGGGGAGATTTTTCTTG
* * * *
825330 GTTTTTAATTTTTAAAATTTATCAAATATTATTATGTAAATCCTATTAAATCAATTCTCAAAAAT
66 GTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAAATCATATTAAATCAGTTCTCAAAAAT
*
825395 TCATTCATTTTCATAAATTTTTGAATATTTTCCTTGAA
131 TCATTCATTTTCATAAATTTTTGAATTTTTTCCTTG-A
** ** * * *
825433 AATCCTTT--T-TTTTCGAAATATGGAGTTTTCTACTTTGTAAATTGTTTT-GGGCA-TTTTTTA
1 AAT--TTTCCTATTTTCGAAATACAGAGTTTTCTACTCCGTAAATT-TTTTCGGGGAGATTTTTC
* * * *
825493 TTGGTGATTTAATTTTTAAAATTCATCAAATATTATTATTTTAATCATATTAAATCAGTTTTTAA
63 TTGGT-TTTTAATTTTTAAAATTCATCAAATATTATTATTTAAATCATATTAAATCAGTTCTCAA
* * * *
825558 AAATTCTTTCATCTTCATGAGTTTTTGAATTTTTTCCTTGA
127 AAATTCATTCATTTTCATAAATTTTTGAATTTTTTCCTTGA
* * * *
825599 AATTTTCCTATTTCCAAAATACGGAGTTTTCTACTCCGTAAATTTTTTCGGGGAGATTTTTTTTT
1 AATTTTCCTATTTTCGAAATACAGAGTTTTCTACTCCGTAAATTTTTTCGGGGAGA-TTTTTCTT
* * * ** * *
825664 TGTTTTTAATTTTTAAAATTCATAAAAAATTATTATTTATTTCATATTAAATTAGTTTTCAAAAA
65 GGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAAATCATATTAAATCAGTTCTCAAAAA
* * ** *
825729 TTCATTTATGTTCATTCATTTTT-CATTTTTTC
130 TTCATTCATTTTCATAAATTTTTGAATTTTTTC
825761 TTCAAAATCT
Statistics
Matches: 412, Mismatches: 72, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
164 3 0.01
166 18 0.04
167 211 0.51
168 169 0.41
169 9 0.02
170 2 0.00
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (167 bp):
AATTTTCCTATTTTCGAAATACAGAGTTTTCTACTCCGTAAATTTTTTCGGGGAGATTTTTCTTG
GTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAAATCATATTAAATCAGTTCTCAAAAAT
TCATTCATTTTCATAAATTTTTGAATTTTTTCCTTGA
Found at i:827464 original size:164 final size:164
Alignment explanation
Indices: 827177--827497 Score: 425
Period size: 164 Copynumber: 2.0 Consensus size: 164
827167 TATTGTAGTA
** **
827177 AAAATTAAATATTAATAATTTTTTAATCTTTTATATTCCTATGGGGGTCCGTAAAGGTATAAAAG
1 AAAATTAAATATTAATAATTTTTTAATCTTGCATATTCCTATGGGAATCCGTAAAGGTATAAAAG
** * * *
827242 ATTTCAAAAACTTTTTGTATCTTTTAGGGTTTCCATTAAAGTGTGAAATGGTATTTTTCAAAAAT
66 ATTTCAAAAACTTTTCATATCTTTTACGATTTCCATTAAAGTGTGAAATGGCATTTTTCAAAAAT
**
827307 AAATAAATTAAATTAAATTAACACTTTCATAATT
131 AAATAAACAAAATTAAATTAACACTTTCATAATT
* *
827341 AAAA-TAAATATTAATCATTTTTTTAAATCTTGCATATTCCTATGGGAATCCGTAAGGGTATAAA
1 AAAATTAAATATTAAT-AATTTTTT-AATCTTGCATATTCCTATGGGAATCCGTAAAGGTATAAA
** *
827405 AGATTTC-AAAACTTTTCATATCTTTT-CGATTTCTTTTTAAG-GTACGAAATGGCATTTTTCAA
64 AGATTTCAAAAACTTTTCATATCTTTTACGATTTCCATTAAAGTGT--GAAATGGCATTTTTCAA
*
827467 AAATAAATAAACAAAATTAAATTGACACTTT
127 AAATAAATAAACAAAATTAAATTAACACTTT
827498 TGTAGACACT
Statistics
Matches: 136, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
162 2 0.01
163 21 0.15
164 72 0.53
165 41 0.30
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (164 bp):
AAAATTAAATATTAATAATTTTTTAATCTTGCATATTCCTATGGGAATCCGTAAAGGTATAAAAG
ATTTCAAAAACTTTTCATATCTTTTACGATTTCCATTAAAGTGTGAAATGGCATTTTTCAAAAAT
AAATAAACAAAATTAAATTAACACTTTCATAATT
Found at i:827835 original size:19 final size:21
Alignment explanation
Indices: 827790--827840 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
827780 TCAATAATTT
* *
827790 GTATCGATACATTCAGTAAAT
1 GTATCGATACATTAAGTAAAC
827811 GTATCGATACA-TAAGT-AAC
1 GTATCGATACATTAAGTAAAC
827830 GTATCGATACA
1 GTATCGATACA
827841 GTGTATCGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.46
20 4 0.14
21 11 0.39
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (21 bp):
GTATCGATACATTAAGTAAAC
Found at i:830331 original size:51 final size:51
Alignment explanation
Indices: 830275--830462 Score: 252
Period size: 51 Copynumber: 3.6 Consensus size: 51
830265 TTAAGTTTCT
*
830275 CAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
* * *
830326 TAATTTTTCACAATCGGAGATACTCCAACCTCGGTTTTATTT-TCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACAC
* ** * * *
830377 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGGTTTTATTT-CTAAAACAC
830430 CAATTTTTCACAATCGGGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
830463 TTAATCATCG
Statistics
Matches: 116, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 1 0.01
51 52 0.45
52 48 0.41
53 15 0.13
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
Found at i:830472 original size:27 final size:27
Alignment explanation
Indices: 830442--830516 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
830432 ATTTTTCACA
830442 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
* * *
830469 ATCGGAGATACTCCAACCCCGTTATTT
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
830496 TTGAGGGGATACTCCAACCCC
1 AT-CGGGGATACTCCAACCCC
830517 CGGTTTTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 25 0.61
28 16 0.39
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:830560 original size:80 final size:79
Alignment explanation
Indices: 830469--830648 Score: 252
Period size: 79 Copynumber: 2.3 Consensus size: 79
830459 CCCGTTAATC
* * *
830469 ATCGGAGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCCGGTTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTCTCGAGGGGATACTCCAA-CCCCGGTTTTATTTCTAAAA
* * * *
830534 CATCAATTTTTCATA
65 CACCAATTCTCCACA
* *
830549 ATCGGGGATACTCCAACCCCATTATTCTCGAGGGGATACTCGAACCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTCTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
830614 ACCAATTCTCCACA
66 ACCAATTCTCCACA
* *
830628 ATCGAGGATATTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
830649 GCTTTATTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 49 0.56
80 39 0.44
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTCTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
ACCAATTCTCCACA
Found at i:830568 original size:52 final size:51
Alignment explanation
Indices: 830274--830568 Score: 246
Period size: 52 Copynumber: 5.6 Consensus size: 51
830264 GTTAAGTTTC
830274 TCAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
* * *
830325 -CTAATTTTTCACAATCGGAGATACTCCAACCTCGGTTTTATTT-TCAAAACA
1 TC-AATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACA
* * * * * *
830376 CCAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACA
1 TCAATTTTTC-ATAATCGGGGATACTCCAACCCCGGTTTTATTT-CTAAAACA
* * * * * *
830429 CCAATTTTTCACAATCGGGGATACTCCAACCCC-G-TTAATCATCGGAGATAC-
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTAT-TTC-TA-AAACA
* *
830480 TCCAACCCCGTTATTT-TTGA--GGGGATACTCCAACCCCCGGTTTTATTTCTAAAACA
1 T-CAA-----TT-TTTCATAATCGGGGATACTCCAA-CCCCGGTTTTATTTCTAAAACA
830536 TCAATTTTTCATAATCGGGGATACTCCAACCCC
1 TCAATTTTTCATAATCGGGGATACTCCAACCCC
830569 ATTATTCTCG
Statistics
Matches: 191, Mismatches: 30, Indels: 46
0.72 0.11 0.17
Matches are distributed among these distances:
49 3 0.02
50 11 0.06
51 57 0.30
52 67 0.35
53 15 0.08
55 19 0.10
56 6 0.03
57 6 0.03
58 7 0.04
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
Found at i:830646 original size:51 final size:51
Alignment explanation
Indices: 830582--830749 Score: 144
Period size: 51 Copynumber: 3.3 Consensus size: 51
830572 ATTCTCGAGG
* * *
830582 GGATACTCGAACCCCGGTTTTATTTCTAAAACACCAA-TTCTCCACAATCGA
1 GGATATTCCAACCCCGGCTTTATTTCTAAAACACCAATTTCT-CACAATCGA
* *** *
830633 GGATATTCCAACCCCGGCTTTATTT-TCAAAATATTGATTTCTCACAATCGG
1 GGATATTCCAACCCCGGCTTTATTTCT-AAAACACCAATTTCTCACAATCGA
* * *** * *
830684 GGATACTT-CAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATCGG
1 GGATA-TTCCAACCCCGGCTTTATTTCTAAAACACCAATTTCTCACAATCGA
*
830735 GGATACTCCAACCCC
1 GGATATTCCAACCCC
830750 ATTATTTTCA
Statistics
Matches: 101, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
50 2 0.02
51 92 0.91
52 7 0.07
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (51 bp):
GGATATTCCAACCCCGGCTTTATTTCTAAAACACCAATTTCTCACAATCGA
Found at i:830786 original size:79 final size:80
Alignment explanation
Indices: 830681--830836 Score: 217
Period size: 79 Copynumber: 1.9 Consensus size: 80
830671 TTCTCACAAT
* * * *
830681 CGGGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGA-TTTCTCATAATC-GGGGATACTCC
1 CGGGGATACTCCAACCCCGACCTTATTTCTAAAAAATCGATTTTCT-ATAATCAGGGGATACTCC
830744 AACCCCATTATTTTCA
65 AACCCCATTATTTTCA
** *
830760 CGGGGATACTCCAACCCCGATTTTATTTTTAAAAAATCGATTTTCTATAATCGAGGGGATACTCC
1 CGGGGATACTCCAACCCCGACCTTATTTCTAAAAAATCGATTTTCTATAATC-AGGGGATACTCC
830825 AACCCCATTATT
65 AACCCCATTATT
830837 ATCTCCAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
79 39 0.58
80 5 0.07
81 23 0.34
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (80 bp):
CGGGGATACTCCAACCCCGACCTTATTTCTAAAAAATCGATTTTCTATAATCAGGGGATACTCCA
ACCCCATTATTTTCA
Found at i:830814 original size:181 final size:183
Alignment explanation
Indices: 830500--830830 Score: 461
Period size: 181 Copynumber: 1.8 Consensus size: 183
830490 TTATTTTTGA
** *
830500 GGGGATACTCCAACCCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCCGGCCTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAA
* * *
830565 CCCCATTATTCTCGAGGGGATACTCGAACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAAT
66 CCCCATTATTCTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAAACCAATTCTCCACAAT
*
830630 CGA-GGATATTCCAACCCCGGCTTTATTTTCAAAATATTGATTTCTCACAATC
131 CGAGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGATTTCTCACAATC
* * **
830682 GGGGATACTTCAA-CCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCCGGCCTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAA
* * * * * * *
830746 CCCCATTATTTTC-ACGGGGATACTCCAACCCCGATTTTATTTTTAAAAAATCGATTTTCTATAA
66 CCCCATTATTCTCGA-GGGGATACTCCAACCCCGATTTTATTTCTAAAAAACCAATTCTCCACAA
830810 TCGAGGGGATACTCCAACCCC
130 TCGA-GGGATACTCCAACCCC
830831 ATTATTATCT
Statistics
Matches: 128, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
180 1 0.01
181 101 0.79
182 12 0.09
183 14 0.11
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (183 bp):
GGGGATACTCCAACCCCCGGCCTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAA
CCCCATTATTCTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAAACCAATTCTCCACAAT
CGAGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGATTTCTCACAATC
Found at i:832776 original size:13 final size:13
Alignment explanation
Indices: 832758--832783 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
832748 GCCAAGGAAA
832758 TGTATCGATACAT
1 TGTATCGATACAT
832771 TGTATCGATACAT
1 TGTATCGATACAT
832784 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:832847 original size:20 final size:19
Alignment explanation
Indices: 832821--832928 Score: 93
Period size: 20 Copynumber: 5.8 Consensus size: 19
832811 GTTTACCAAG
832821 ATGTATCGATACATTTTGCA
1 ATGTATCGATACATTTT-CA
*
832841 TTGTATCGATACA--TT--
1 ATGTATCGATACATTTTCA
*
832856 A--TATCGATACATTGCTCA
1 ATGTATCGATACATT-TTCA
*
832874 TTGTATCGATACATTTTACA
1 ATGTATCGATACATTTT-CA
*
832894 ATGTATCGATATATTTTACA
1 ATGTATCGATACATTTT-CA
*
832914 ATGTATTGATACATT
1 ATGTATCGATACATT
832929 CAGGTATTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
13 10 0.14
16 1 0.01
18 2 0.03
19 1 0.01
20 57 0.80
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (19 bp):
ATGTATCGATACATTTTCA
Found at i:832860 original size:13 final size:13
Alignment explanation
Indices: 832839--832868 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
832829 ATACATTTTG
*
832839 CATTGTATCGATA
1 CATTATATCGATA
832852 CATTATATCGATA
1 CATTATATCGATA
832865 CATT
1 CATT
832869 GCTCATTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (13 bp):
CATTATATCGATA
Found at i:832866 original size:33 final size:33
Alignment explanation
Indices: 832824--832888 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
832814 TACCAAGATG
*
832824 TATCGATACATT-TTGCATTGTATCGATACATTA
1 TATCGATACATTGCT-CATTGTATCGATACATTA
832857 TATCGATACATTGCTCATTGTATCGATACATT
1 TATCGATACATTGCTCATTGTATCGATACATT
832889 TTACAATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (33 bp):
TATCGATACATTGCTCATTGTATCGATACATTA
Found at i:835318 original size:28 final size:27
Alignment explanation
Indices: 835285--835355 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
835275 TTCACAATTG
835285 GGGATACTCCAACCCCATTATTTCATCGA
1 GGGATACTCCAACCCCATTATTT--TCGA
* *
835314 -GGATACTCTAACCCCGTTATTTTCGA
1 GGGATACTCCAACCCCATTATTTTCGA
835340 GGGGATACTCCAACCC
1 -GGGATACTCCAACCC
835356 TGGCTTTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.11
28 33 0.89
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (27 bp):
GGGATACTCCAACCCCATTATTTTCGA
Found at i:835434 original size:28 final size:28
Alignment explanation
Indices: 835394--835467 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
835384 TTTCATAATT
* * *
835394 GGGGGTACTCCAAGCCCGTTATGTCATC
1 GGGGATACTCCAACCCCGTTATGTCATA
* * *
835422 GGGGATACTCCAATCCCGTTATTTCCTA
1 GGGGATACTCCAACCCCGTTATGTCATA
835450 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
835468 ATTTTATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.24
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATGTCATA
Found at i:835474 original size:110 final size:110
Alignment explanation
Indices: 835272--835474 Score: 289
Period size: 110 Copynumber: 1.8 Consensus size: 110
835262 AAAACATCAA
* * *
835272 TTTTTCACAATTGGGGATACTCCAACCCCATTATTTCATCGAGGATACTCTAACCCCGTTATTTT
1 TTTTTCACAATTGGGGATACTCCAACCCCATTATGTCATCGAGGATACTCCAACCCCGTTATTTC
* *
835337 CGAGGGGATACTCCAACCCTGGCTTTATATCTAAATTATTGATTT
66 CGAGGGGATACTCCAACCCCGACTTTATATCTAAATTATTGATTT
* * * * * *
835382 TTTTTCATAATTGGGGGTACTCCAAGCCCGTTATGTCATCGGGGATACTCCAATCCCGTTATTTC
1 TTTTTCACAATTGGGGATACTCCAACCCCATTATGTCATCGAGGATACTCCAACCCCGTTATTTC
* *
835447 CTAGGGGATACTCCAACCCCGATTTTAT
66 CGAGGGGATACTCCAACCCCGACTTTAT
835475 TTTTAAAATA
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
110 80 1.00
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
TTTTTCACAATTGGGGATACTCCAACCCCATTATGTCATCGAGGATACTCCAACCCCGTTATTTC
CGAGGGGATACTCCAACCCCGACTTTATATCTAAATTATTGATTT
Found at i:835492 original size:110 final size:110
Alignment explanation
Indices: 835272--835512 Score: 281
Period size: 110 Copynumber: 2.2 Consensus size: 110
835262 AAAACATCAA
* * *
835272 TTTTTCACAATTGGGGATACTCCAACCCCATTATTTCATCGAGGATACTCTAACCCCGTTATTTT
1 TTTTTCACAATTGGGGATACTCCAACCCCATTATGTCATCGAGGATACTCCAACCCCGTTATTTC
* * * ***
835337 CGAGGGGATACTCCAACCCTGGCTTTATATCTAAATTATTGATTT
66 CGAGGGGATACTCCAACCCCGACTTTATATCTAAAATACCAATTT
* * * * * *
835382 TTTTTCATAATTGGGGGTACTCCAAGCCCGTTATGTCATCGGGGATACTCCAATCCCGTTATTTC
1 TTTTTCACAATTGGGGATACTCCAACCCCATTATGTCATCGAGGATACTCCAACCCCGTTATTTC
* * * *
835447 CTAGGGGATACTCCAACCCCGATTTTATTTTTAAAATACCAA--T
66 CGAGGGGATACTCCAACCCCGACTTTATATCTAAAATACCAATTT
*
835490 TTTTT-ACAATCGGGGATACTCCA
1 TTTTTCACAATTGGGGATACTCCA
835513 GCTTCGATTT
Statistics
Matches: 109, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
107 15 0.14
108 6 0.06
110 88 0.81
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (110 bp):
TTTTTCACAATTGGGGATACTCCAACCCCATTATGTCATCGAGGATACTCCAACCCCGTTATTTC
CGAGGGGATACTCCAACCCCGACTTTATATCTAAAATACCAATTT
Found at i:835508 original size:51 final size:51
Alignment explanation
Indices: 835450--835566 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
835440 TTATTTCCTA
* * * * *
835450 GGGGATACTCCAACCCCGATTTTATTTTTAAAATACCAATTTTTTACAATC
1 GGGGATACTCCAACCCCGATTTTACTTTCAAAACACCAATTTCTCACAATC
* **
835501 GGGGATACTCCAGCTTCGATTTTACTTTCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACCCCGATTTTACTTTCAAAACACCAATTTCTCACAATC
835552 GGGGATACTCCAACC
1 GGGGATACTCCAACC
835567 TCGTTATTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTACTTTCAAAACACCAATTTCTCACAATC
Found at i:835652 original size:130 final size:130
Alignment explanation
Indices: 835419--835654 Score: 298
Period size: 130 Copynumber: 1.8 Consensus size: 130
835409 CCGTTATGTC
* ** * *
835419 ATCGGGGATACTCCAATCCCGTTATTTCCTAGGGGATACTCCAACCCCGATTTTATTTTTAAAAT
1 ATCGGGGATACTCCAATCCCGTTATTTCCTAGAGGATACTCCAACCCCGACCTTATTTCTAAAAC
* * * * *
835484 ACCAATTTTTTACAATCGGGGATACTCCAGCTTCGATTTTACTTTCAAAACACCAATTTCTCACA
66 ACCAATTTTTCACAATCGAGGATACTCAACCCTCGATTTTACTTTCAAAACACCAATTTCTCACA
* *
835549 ATCGGGGATACTCCAA-CCTCGTTATTTTC-ACGAGGATACTCCAACCCCGGCCTTATTTCTAAA
1 ATCGGGGATACTCCAATCC-CGTTATTTCCTA-GAGGATACTCCAACCCCGACCTTATTTCTAAA
* *
835612 GCATCAATTTTTCACAATCGAGGATACTCAAACCCT-GATTTTA
64 ACACCAATTTTTCACAATCGAGGATACTC-AACCCTCGATTTTA
835655 TTTTTAGAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
129 3 0.03
130 83 0.93
131 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (130 bp):
ATCGGGGATACTCCAATCCCGTTATTTCCTAGAGGATACTCCAACCCCGACCTTATTTCTAAAAC
ACCAATTTTTCACAATCGAGGATACTCAACCCTCGATTTTACTTTCAAAACACCAATTTCTCACA
Found at i:847563 original size:1 final size:1
Alignment explanation
Indices: 847552--847658 Score: 79
Period size: 1 Copynumber: 107.0 Consensus size: 1
847542 ATTCTCTTCT
* * * * * * * * *
847552 AAAAAATAAAAAAAAACAAAACAAAAATAAAAATAAAAAAAAGACAAAAACAAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
847617 ACAAAAACAAAAAAACAAAAAAAAAACAAAACAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
847659 GAGAGAAAAG
Statistics
Matches: 76, Mismatches: 30, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.03
Consensus pattern (1 bp):
A
Found at i:847572 original size:6 final size:6
Alignment explanation
Indices: 847559--847651 Score: 92
Period size: 6 Copynumber: 16.3 Consensus size: 6
847549 TCTAAAAAAT
* * *
847559 AAAA-A AAAAC- AAAACA AAAATA AAAATA AAAA-A AAGACA AAAAC-
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA
847603 AAAA-A AAAACA AAAACA AAAACAAA AAAACA AAAA-A AAAAC- AAAACA
1 AAAACA AAAACA AAAACA AAAAC--A AAAACA AAAACA AAAACA AAAACA
847650 AA
1 AA
847652 GAAAAAAGAG
Statistics
Matches: 76, Mismatches: 3, Indels: 17
0.79 0.03 0.18
Matches are distributed among these distances:
5 31 0.41
6 39 0.51
8 6 0.08
ACGTcount: A:0.86, C:0.11, G:0.01, T:0.02
Consensus pattern (6 bp):
AAAACA
Found at i:847578 original size:16 final size:16
Alignment explanation
Indices: 847552--847658 Score: 96
Period size: 16 Copynumber: 6.6 Consensus size: 16
847542 ATTCTCTTCT
*
847552 AAAAAATAAAAAAAAAC
1 AAAAAA-AAAACAAAAC
*
847569 AAAACAAAAATA-AAAAT
1 AAAA-AAAAA-ACAAAAC
*
847586 AAAAAAAAGACAAAA-
1 AAAAAAAAAACAAAAC
847601 ACAAAAAAAAACAAAA-
1 A-AAAAAAAAACAAAAC
*
847617 ACAAAAACAAA-AAAAC
1 A-AAAAAAAAACAAAAC
847633 AAAAAAAAAACAAAAC
1 AAAAAAAAAACAAAAC
847649 AAAGAAAAAA
1 AAA-AAAAAA
847659 GAGAGAAAAG
Statistics
Matches: 78, Mismatches: 5, Indels: 14
0.80 0.05 0.14
Matches are distributed among these distances:
15 14 0.18
16 40 0.51
17 21 0.27
18 3 0.04
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAACAAAAC
Found at i:847582 original size:28 final size:28
Alignment explanation
Indices: 847551--847647 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 28
847541 CATTCTCTTC
847551 TAAAAAATAAAAAAAAACAAAACAAAAA
1 TAAAAAATAAAAAAAAACAAAACAAAAA
847579 T-AAAAATAAAAAAAAGACAAAAACAAAAA
1 TAAAAAATAAAAAAAA-AC-AAAACAAAAA
* *
847608 -AAAACAA-AAACAAAAACAAAAAAACAAA
1 TAAAA-AATAAAAAAAAACAAAACAA-AAA
* *
847636 AAAAAAACAAAA
1 TAAAAAATAAAA
847648 CAAAGAAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
27 20 0.34
28 10 0.17
29 27 0.46
30 2 0.03
ACGTcount: A:0.86, C:0.09, G:0.01, T:0.04
Consensus pattern (28 bp):
TAAAAAATAAAAAAAAACAAAACAAAAA
Found at i:848793 original size:54 final size:55
Alignment explanation
Indices: 848729--848982 Score: 210
Period size: 55 Copynumber: 4.4 Consensus size: 55
848719 CTCCTTTCAC
848729 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAG-CCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
848782 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * ** * * * *
848837 CCCTCCAGTCCTCAAAGATTAGGGCGCCTTTTTTCTTTTAAAGCCCACATAAGCTAGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCC---TTTC----AAAGCCCACACAAGTTGGTGGCA
* * *
848899 CC-TTCAGTCTTCAAAGAGCAGGATGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGA------CGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
848959 -CTTCCTAGTCCACAAAGAGCAGGA
1 CCTTTC-AGTCCTCAAAGAGCAGGA
848983 TGCTCTCTCC
Statistics
Matches: 157, Mismatches: 27, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
53 5 0.03
54 28 0.18
55 39 0.25
58 3 0.02
59 1 0.01
60 22 0.14
61 32 0.20
62 21 0.13
64 3 0.02
67 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:848993 original size:61 final size:61
Alignment explanation
Indices: 848754--848995 Score: 259
Period size: 61 Copynumber: 4.1 Consensus size: 61
848744 GAGCAGGACG
* *
848754 CCTTTCAAAG-CCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATG------
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
* * ** ** *
848808 CCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCCAGTCCTCAAAGATTAGGGCGCCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG-CTTTCT
* * * * *
848870 TCTTTTAAAGCCCACATAAGCTAGTGGCACCTT-CAGTCTTCAAAGAGCAGGATGCTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
* *
848930 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCACAAAGAGCAGGATGCTCTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAGAGCAGGATGCTTTCT
848991 CCTTT
1 CCTTT
848996 CGCCTTTTTG
Statistics
Matches: 151, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
54 9 0.06
55 37 0.25
59 3 0.02
60 31 0.21
61 44 0.29
62 27 0.18
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
Found at i:849155 original size:61 final size:60
Alignment explanation
Indices: 849026--849259 Score: 287
Period size: 61 Copynumber: 3.9 Consensus size: 60
849016 GTAGGATGCC
* *
849026 TTTT-AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCC
1 TTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTT-TCT
* * * *
849086 TTTT-AAAGCCCACACAAGTTTGTGGCACTTTTCAATCCTCAAAGAGCAGGATG-CTTTCT
1 TTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGACGCCTTTCT
* *
849145 TTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGGGTAGGACGCCTTT-T
1 TTTT-CAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGACGCCTTTCT
* * *
849206 CTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAAAGCAGGAC
1 -TTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGAC
849260 ACACTTCCTT
Statistics
Matches: 150, Mismatches: 17, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
59 6 0.04
60 32 0.21
61 101 0.67
62 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (60 bp):
TTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTCT
Found at i:849161 original size:215 final size:215
Alignment explanation
Indices: 848789--849190 Score: 587
Period size: 215 Copynumber: 1.9 Consensus size: 215
848779 GCACCTTTCA
* *
848789 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCCAGTCCTCAAAG
1 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCCTCCAGTCCTCAAAG
** * * * * * *
848854 ATTAGGGCGCCTTTTTTCTTTTAAAGCCCACATAAGCTAGTGGCACCTTCAGTCTTCAAAGAGCA
66 AGCAGGACGCCTTTCTCCTTTTAAAGCCCACACAAGCTAGTGGCACCTTCAATCCTCAAAGAGCA
848919 GGATGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCACAAAGAGCAGGA
131 GGATGCTTTCT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCACAAAGAGCAGGA
848983 TGCTCTCTCCTTTCGCCTTTTT
194 TGCTCTCTCCTTTCGCCTTTTT
* *
849005 GTCCTCAAAGAGTAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCA-CCTTCAGTCCTCAAAG
1 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCCTCCAGTCCTCAAAG
* * *
849069 AGCAGGACGCC-TTCTCCTTTTAAAGCCCACACAAGTTTGTGGCACTTTTCAATCCTCAAAGAGC
66 AGCAGGACGCCTTTCTCCTTTTAAAGCCCACACAAGCTAGTGGCAC-CTTCAATCCTCAAAGAGC
*
849133 AGGATGCTTTCT-TTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAG
130 AGGATGCTTTCTCTTTT--AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCACAAAG
849191 GGTAGGACGC
Statistics
Matches: 166, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
213 4 0.02
214 29 0.17
215 85 0.51
216 48 0.29
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (215 bp):
GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCCTCCAGTCCTCAAAG
AGCAGGACGCCTTTCTCCTTTTAAAGCCCACACAAGCTAGTGGCACCTTCAATCCTCAAAGAGCA
GGATGCTTTCTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCACAAAGAGCAGGATG
CTCTCTCCTTTCGCCTTTTT
Found at i:849222 original size:122 final size:121
Alignment explanation
Indices: 849030--849258 Score: 361
Period size: 122 Copynumber: 1.9 Consensus size: 121
849020 GATGCCTTTT
849030 AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGC
1 AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGC
* *
849095 CCACACAAGTTTGTGGCACTTTTCAATCCTCAAAGAGCAGGATGCTTTCTTTTTGC
66 CCACACAAGTTGGTGGCACTTTTCAATCCTCAAAAAGCAGGATGCTTTCTTTTTGC
* * * *
849151 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGGGTAGGACGCCTT-TTCTTTTCAAA
1 AAAGCCCACACAAGCTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAA
* *
849215 GCCCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAAAGCAGGA
64 GCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAAAAGCAGGA
849259 CACACTTCCT
Statistics
Matches: 98, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
121 33 0.34
122 65 0.66
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (121 bp):
AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGC
CCACACAAGTTGGTGGCACTTTTCAATCCTCAAAAAGCAGGATGCTTTCTTTTTGC
Found at i:849341 original size:42 final size:42
Alignment explanation
Indices: 849242--849379 Score: 125
Period size: 42 Copynumber: 3.2 Consensus size: 42
849232 GCACTTTTCA
* * * * *
849242 GTCCTCAAAAAGCAGGACACACTTCCTTCCCTTCTTTTCTCTTTT
1 GTCCTCAAAGAGCAAGACACATTTCATTTCC--CTTTT-TCTTTT
*
849287 GTCCTCAAAGAGCAAGACACACTTT-ATTTTCCTTTTTCTTTT
1 GTCCTCAAAGAGCAAGACACA-TTTCATTTCCCTTTTTCTTTT
* * ** * *
849329 GTCCTCAGAGAGCAGGACGTATTTCGTTTCCCTTTTTCCTTT
1 GTCCTCAAAGAGCAAGACACATTTCATTTCCCTTTTTCTTTT
849371 GTCCTCAAA
1 GTCCTCAAA
849380 AAATGGGACG
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
41 3 0.04
42 45 0.58
43 5 0.06
45 22 0.29
46 2 0.03
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.39
Consensus pattern (42 bp):
GTCCTCAAAGAGCAAGACACATTTCATTTCCCTTTTTCTTTT
Found at i:850249 original size:20 final size:20
Alignment explanation
Indices: 850224--850330 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
850214 TTACCCAGAC
*
850224 GTATCGATACATTTTACATT
1 GTATCGATACATTCTACATT
850244 GTATCGATACATTGCT-CATT
1 GTATCGATACATT-CTACATT
850264 GTATC--T--A---TACATT
1 GTATCGATACATTCTACATT
*
850277 ATATCGATACATTGCT-CATT
1 GTATCGATACATT-CTACATT
* *
850297 GTATCGATACATTTTACAAT
1 GTATCGATACATTCTACATT
850317 GTATCGATACATTC
1 GTATCGATACATTC
850331 AGGCATTTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 22
0.71 0.06 0.22
Matches are distributed among these distances:
12 1 0.01
13 8 0.11
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 1 0.01
20 54 0.77
21 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (20 bp):
GTATCGATACATTCTACATT
Found at i:850282 original size:33 final size:33
Alignment explanation
Indices: 850238--850309 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
850228 CGATACATTT
* *
850238 TACATTGTATCGATACATTGCTCATTGTATCTA
1 TACATTATATCGATACATTGCTCATTGTATCGA
850271 TACATTATATCGATACATTGCTCATTGTATCGA
1 TACATTATATCGATACATTGCTCATTGTATCGA
850304 TACATT
1 TACATT
850310 TTACAATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (33 bp):
TACATTATATCGATACATTGCTCATTGTATCGA
Found at i:850320 original size:53 final size:53
Alignment explanation
Indices: 850225--850329 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
850215 TACCCAGACG
* * *
850225 TATCGATACATTTTACATTGTATCGATACATTGCTCATTGTATCTATACATTA
1 TATCGATACATTCTACATTGTATCGATACATTGCTCAATGTATCGATACATTA
*
850278 TATCGATACATTGCT-CATTGTATCGATACATT-TTACAATGTATCGATACATT
1 TATCGATACATT-CTACATTGTATCGATACATTGCT-CAATGTATCGATACATT
850330 CAGGCATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
52 1 0.02
53 44 0.96
54 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (53 bp):
TATCGATACATTCTACATTGTATCGATACATTGCTCAATGTATCGATACATTA
Found at i:852755 original size:28 final size:28
Alignment explanation
Indices: 852684--852755 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
852674 TTTCACAATT
*
852684 GGGGATACTCCAACCCCATTATTTCATC
1 GGGGATACTCCTACCCCATTATTTCATC
*
852712 GGGGATACT-CTAACCCCGTTATTTC-T-
1 GGGGATACTCCT-ACCCCATTATTTCATC
852738 GAGAGGATACTCCTACCC
1 G-G-GGATACTCCTACCC
852756 TGGTTTTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 1 0.03
27 3 0.08
28 32 0.84
29 2 0.05
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (28 bp):
GGGGATACTCCTACCCCATTATTTCATC
Found at i:852826 original size:109 final size:109
Alignment explanation
Indices: 852672--852908 Score: 284
Period size: 109 Copynumber: 2.2 Consensus size: 109
852662 AAAACATAAA
* *
852672 TTTTTCACAATTGGGGATACTCCAACCCCATTATTTCATCGGGGATACTCTAACCCCGTTA-TTT
1 TTTTTCACAATTGGGGATACTCCAACCCCATTATTTCATCAGGGATACTCCAACCCCGTTATTTT
* *
852736 CTGAGAGGATACTCCT-ACCCTGGTTTTATATCTAAAATATTGATT
66 C-GAGAGGATACT-CTAACCCCGATTTTATATCTAAAATATTGATT
* * ** * *
852781 TTTTTCATAATTGGGGGTACTCCAACCCTGTTATTTCATCAGGGATACTCCAATCCCGTTCTTTT
1 TTTTTCACAATTGGGGATACTCCAACCCCATTATTTCATCAGGGATACTCCAACCCCGTTATTTT
* * ** *
852846 CGAGGGGATACTCTAACCCCGATTTTATTTCTAAAATA-CCA-A
66 CGAGAGGATACTCTAACCCCGATTTTATATCTAAAATATTGATT
*
852888 TTTTTCACAATCGGGGATACT
1 TTTTTCACAATTGGGGATACT
852909 TCAGCTCCGA
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
107 18 0.17
108 3 0.03
109 83 0.77
110 4 0.04
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.36
Consensus pattern (109 bp):
TTTTTCACAATTGGGGATACTCCAACCCCATTATTTCATCAGGGATACTCCAACCCCGTTATTTT
CGAGAGGATACTCTAACCCCGATTTTATATCTAAAATATTGATT
Found at i:852919 original size:51 final size:51
Alignment explanation
Indices: 852864--852962 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
852854 TACTCTAACC
* * *
852864 CCGATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTTCAGCT
1 CCGATTTTACTTCCAAAACACCAATTTTTCACAATCGGGGATACTTCAGCT
852915 CCGATTTTACTTCCAAAACACCAATTTTTCACAATCGGGGATACTTCA
1 CCGATTTTACTTCCAAAACACCAATTTTTCACAATCGGGGATACTTCA
852963 ACCCCGTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.34
Consensus pattern (51 bp):
CCGATTTTACTTCCAAAACACCAATTTTTCACAATCGGGGATACTTCAGCT
Found at i:853072 original size:130 final size:131
Alignment explanation
Indices: 852818--853101 Score: 279
Period size: 130 Copynumber: 2.2 Consensus size: 131
852808 CTGTTATTTC
* * * * **
852818 ATCA-GGGATACTCCAATCCCGTTCTTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAA
1 ATCAGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACCTTATTTCTAAAA
* ** * *
852882 TACCAATTTTTCACAATCGGGGATACTTCAGCTCCGATTTTACTTCCAAAACACCAATTTTTCAC
66 CACCAATTTTTCACAATCGGGGATACACCAACTCCGATTTTACTTCCAAAACACCAATTTTCCAC
852947 A
131 A
* *
852948 ATC-GGGGATACTTCAACCCCGTTATTTTC-ACAGGGATACTCCAACCCCGGCCTTATTTCTAAA
1 ATCAGGGGATACTCCAACCCCGTTATTTTCGA-AGGGATACTCCAACCCCGACCTTATTTCTAAA
* * * * * * * * * *
853011 GCATCGATTTTTCACAATCGGGGATACACCAAC-CCTGTTTTTATTTTCAGAATATCGATTTTCC
65 ACACCAATTTTTCACAATCGGGGATACACCAACTCC-GATTTTACTTCCAAAACACCAATTTTCC
**
853075 ATG
129 ACA
* *
853078 ATCAGGGGATACTCTAGCCCCGTT
1 ATCAGGGGATACTCCAACCCCGTT
853102 GTTATCTCCA
Statistics
Matches: 122, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
129 3 0.02
130 102 0.84
131 17 0.14
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (131 bp):
ATCAGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACCTTATTTCTAAAA
CACCAATTTTTCACAATCGGGGATACACCAACTCCGATTTTACTTCCAAAACACCAATTTTCCAC
A
Found at i:855990 original size:17 final size:17
Alignment explanation
Indices: 855948--855983 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
855938 GCAAAAAGAA
855948 TGAAAAAATCACATTTT
1 TGAAAAAATCACATTTT
855965 TGAAAAAATCACATTTT
1 TGAAAAAATCACATTTT
855982 TG
1 TG
855984 TCCAAATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (17 bp):
TGAAAAAATCACATTTT
Found at i:859787 original size:82 final size:81
Alignment explanation
Indices: 859648--860281 Score: 222
Period size: 82 Copynumber: 7.8 Consensus size: 81
859638 AGCCAGGGCA
* * * * ** * * *
859648 AAACTAATAAAGCCAATAGATTTAAAG-GGTTGACCAAAGTGAAATCGATAAAATCAACTAATTA
1 AAACTAATAAAGCCAATAG-GTTAGAGAGGTTAACCAAGGCAAAACCAATAAAGTCAACTAATTA
859712 TAGGAGTTGG-CT-AGCG
65 -AGGAGTTGGTCTAAGCG
* * * * ** * *
859728 TAAAATTGATAAAGCTAATAGGTTTGAGAGGTTAACCAAGGTGAAACCAATGAAGTCAACCAATT
1 --AAACTAATAAAGCCAATAGGTTAGAGAGGTTAACCAAGGCAAAACCAATAAAGTCAACTAATT
*
859793 GGAAGG-GTTGGTGTAAGCG
64 --AAGGAGTTGGTCTAAGCG
* ** *
859812 AAACTAATAAAGCCAATAGGTTAGAGGGGTTAACCAAGGCAAAACTGATAAAGTCAACTTATTAG
1 AAACTAATAAAGCCAATAGGTTAGAGAGGTTAACCAAGGCAAAACCAATAAAGTCAACTAATTA-
* * *
859877 AGGAGTTTG-CCAAGGTG
65 AGGAGTTGGTCTAA-GCG
* * ** * ** * * *
859894 AAACCAATAAAGCTAATAATTTAGAGTGGTTAA-GTAGAGCAAAATCGATGAAA-TCAACCAATC
1 AAACTAATAAAGCCAATAGGTTAGAGAGGTTAACCAAG-GCAAAACCAAT-AAAGTCAACTAAT-
* * * *
859957 TTAGGGGTTGG-CCATAGTG
63 TAAGGAGTTGGTCTA-AGCG
* * * * * * * * * * *
859976 AAACTGATAAAGCCAACAAGTTTA-AGAGGTTGACTAGGGTAGAACCAATAAAATTAACCAATTT
1 AAACTAATAAAGCCAA-TAGGTTAGAGAGGTTAACCAAGGCAAAACCAATAAAGTCAACTAA-TT
* * *
860040 AAGGGGTTGG-CAAAGGCA
64 AAGGAGTTGGTCTAA-GCG
** * * ** * * * **
860058 AAACCGATAAAGCCAATTGGTTAGAGGGGTTAA-TTAGGCCGAAACCTACAAAGTCAACCCATTA
1 AAACTAATAAAGCCAATAGGTTAGAGAGGTTAACCAAGG-CAAAACCAATAAAGTCAACTAATTA
* * *
860122 GAGGAGTTGGCCAAAGTG
65 -AGGAGTTGGTCTAAGCG
* * * * * ** *
860140 AAACCAATAAAGCCAATAGG-TAAAG-GGACTAACTAGGGCAAAATTAATAAAGTCAACCAATTA
1 AAACTAATAAAGCCAATAGGTTAGAGAGG-TTAACCAAGGCAAAACCAATAAAGTCAACTAATT-
* *
860203 AAGCG-GCTGG-CCAAG-G
64 AAG-GAGTTGGTCTAAGCG
* * * * *
860219 CAAACTGATAAAGCCAATAGGTTTGAG-GGTTGACCAAGCCAAAACCAATAAAGTCAACCAATT
1 -AAACTAATAAAGCCAATAGGTTAGAGAGGTTAACCAAGGCAAAACCAATAAAGTCAACTAATT
860282 TATGAGGTTG
Statistics
Matches: 418, Mismatches: 107, Indels: 56
0.72 0.18 0.10
Matches are distributed among these distances:
79 1 0.00
80 52 0.12
81 61 0.15
82 279 0.67
83 20 0.05
84 5 0.01
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (81 bp):
AAACTAATAAAGCCAATAGGTTAGAGAGGTTAACCAAGGCAAAACCAATAAAGTCAACTAATTAA
GGAGTTGGTCTAAGCG
Found at i:860503 original size:41 final size:41
Alignment explanation
Indices: 860436--860527 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
860426 CCAATAATCT
* * * *
860436 CAACCAATTAGAGGGATTGGCTAGGGCAAA-ATCGATAAAGC
1 CAACTAATTAGAGGGAATGACTAGGGCAAAGCT-GATAAAGC
* * *
860477 CAACTAATTTGAGGGAATGACTAGGGCAGAGCTGATAAAGT
1 CAACTAATTAGAGGGAATGACTAGGGCAAAGCTGATAAAGC
860518 CAACTAATTA
1 CAACTAATTA
860528 CAGAGGTTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 41 0.98
42 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (41 bp):
CAACTAATTAGAGGGAATGACTAGGGCAAAGCTGATAAAGC
Found at i:860891 original size:22 final size:24
Alignment explanation
Indices: 860861--860904 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
860851 CCTCTCAATC
860861 TCTTCAAGA-ATTATACCCCAAAT
1 TCTTCAAGAGATTATACCCCAAAT
*
860884 TCTT-AAGAGATTGTACCCCAA
1 TCTTCAAGAGATTATACCCCAA
860905 GGTTGAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (24 bp):
TCTTCAAGAGATTATACCCCAAAT
Found at i:861442 original size:32 final size:33
Alignment explanation
Indices: 861401--861462 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
861391 TTTCAAGGTG
* *
861401 TATTGATACTATG-AATATGTATTGATACAATA
1 TATTGATACTAAGCAATATGTATCGATACAATA
861433 TATTGATACTAAGCAATATGTATCGATACA
1 TATTGATACTAAGCAATATGTATCGATACA
861463 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (33 bp):
TATTGATACTAAGCAATATGTATCGATACAATA
Found at i:861545 original size:20 final size:20
Alignment explanation
Indices: 861520--861572 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
861510 AGTCAACCTT
861520 TATGTATCGATACAAATTCC
1 TATGTATCGATACAAATTCC
861540 TATGTATCGATACAAATTCC
1 TATGTATCGATACAAATTCC
861560 TATGTATCGATAC
1 TATGTATCGATAC
861573 TTTGGATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
TATGTATCGATACAAATTCC
Found at i:862077 original size:33 final size:33
Alignment explanation
Indices: 862040--862117 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
862030 TATGTTTTCA
862040 ATCGATACATTGTATCGATACATGCA-CAATTGT
1 ATCGATACATTGTATCGATACATG-ATCAATTGT
* * *
862073 ATCGATATAATGTATCGATACATGATGAATTGT
1 ATCGATACATTGTATCGATACATGATCAATTGT
*
862106 ATCTATACATTG
1 ATCGATACATTG
862118 CTTTAAATGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 1 0.03
33 37 0.97
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (33 bp):
ATCGATACATTGTATCGATACATGATCAATTGT
Found at i:870195 original size:34 final size:34
Alignment explanation
Indices: 870114--870203 Score: 146
Period size: 35 Copynumber: 2.6 Consensus size: 34
870104 CTATAACAAA
* *
870114 AAGGGGGAGAAA-TTTTTGAAATAAATTTTTATC
1 AAGGGGGAGAAATTTTTTTAAATAAAGTTTTATC
870147 AAGGGGGAGAAAATTTTTTTAAATAAAGTTTTATC
1 AAGGGGGAG-AAATTTTTTTAAATAAAGTTTTATC
870182 AAGGGGGAGAAATTTTTTTAAA
1 AAGGGGGAGAAATTTTTTTAAA
870204 ACAAGAGCCT
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
33 9 0.17
34 16 0.30
35 28 0.53
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (34 bp):
AAGGGGGAGAAATTTTTTTAAATAAAGTTTTATC
Found at i:870793 original size:13 final size:13
Alignment explanation
Indices: 870775--870801 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
870765 ACATTATGCT
870775 TTGTATCGATACA
1 TTGTATCGATACA
870788 TTGTATCGATACA
1 TTGTATCGATACA
870801 T
1 T
870802 GCACAATTGT
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:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:871745 original size:13 final size:15
Alignment explanation
Indices: 871703--871736 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
871693 AGAGGTTAAC
871703 AAAGGTGAAACTAAT
1 AAAGGTGAAACTAAT
871718 AAAGGTGAAACTAAT
1 AAAGGTGAAACTAAT
871733 AAAG
1 AAAG
871737 TCAACTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.21, T:0.18
Consensus pattern (15 bp):
AAAGGTGAAACTAAT
Found at i:871789 original size:40 final size:40
Alignment explanation
Indices: 871745--871849 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
871735 AGTCAACTAA
* *
871745 TTAGA-GTGGTTGGCCAGGGCAAAACCGTAAAGCCAATAGG
1 TTAGAGGT-GTTGACCAGGGCAAAACCATAAAGCCAATAGG
* *
871785 TTAGAGGTGTTGACTAGGGCAAAACCATAAAGCTAATAGG
1 TTAGAGGTGTTGACCAGGGCAAAACCATAAAGCCAATAGG
* *
871825 TTAGAGGTGCTGACCAGGGCGAAAC
1 TTAGAGGTGTTGACCAGGGCAAAAC
871850 TGATAAAGTC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 55 0.96
41 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.19
Consensus pattern (40 bp):
TTAGAGGTGTTGACCAGGGCAAAACCATAAAGCCAATAGG
Found at i:872013 original size:41 final size:40
Alignment explanation
Indices: 871963--872190 Score: 123
Period size: 41 Copynumber: 5.5 Consensus size: 40
871953 GGCAAAACCA
*
871963 ATAAAGTCAACCAATTAGAAGGGTTGACTAAGGTAAAACTG
1 ATAAAGTCAACCAATTAGAAGGGTT-ACTAAGGTGAAACTG
* * *
872004 ATAAAGTCAACTAATTA-AAGGAGTTGGCT-AGAATGAAACTG
1 ATAAAGTCAACCAATTAGAAGG-GTT-ACTAAG-GTGAAACTG
* * * * *
872045 ATAAAG-CTAA-TATGTTAGAGGGGTTAAC-CA-GTACAAAACTG
1 ATAAAGTC-AACCA-ATTAGAAGGGTT-ACTAAGGT--GAAACTG
* * *
872086 ATAAAGTCAACCAATTAGAAGAGTTAGCCAAGGCGAAA-TCG
1 ATAAAGTCAACCAATTAGAAGGGTTA-CTAAGGTGAAACT-G
* * *
872127 ATAAAGCCAA-CAAGTTAG-AGAGGTTACTTGAGGTGAAACTA
1 ATAAAGTCAACCAA-TTAGAAG-GGTTAC-TAAGGTGAAACTG
872168 ATAAAGTCAACCAATTAGCAAGG
1 ATAAAGTCAACCAATTAG-AAGG
872191 TTGGCTAGGG
Statistics
Matches: 142, Mismatches: 24, Indels: 41
0.69 0.12 0.20
Matches are distributed among these distances:
39 1 0.01
40 17 0.12
41 110 0.77
42 11 0.08
43 3 0.02
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.21
Consensus pattern (40 bp):
ATAAAGTCAACCAATTAGAAGGGTTACTAAGGTGAAACTG
Found at i:872130 original size:82 final size:82
Alignment explanation
Indices: 871977--872391 Score: 298
Period size: 82 Copynumber: 5.1 Consensus size: 82
871967 AGTCAACCAA
* * * * * **
871977 TTAGAAGGGTTGACTAAGGT-AAAACTGATAAAGTCAACTAATTA-AAGGAGTT-GGCTAGAATG
1 TTAGAGGGGTTGACT-AGGTCAAAACTAATAAAGTCAACCAATTAGAA-GAGTTAGCCAAG-GCG
* * *
872039 AAA-CTGATAAAGCTAATATG
63 AAATC-GATAAAGCCAACAGG
* * *
872059 TTAGAGGGGTTAACCA-GTACAAAACTGATAAAGTCAACCAATTAGAAGAGTTAGCCAAGGCGAA
1 TTAGAGGGGTTGACTAGGT-CAAAACTAATAAAGTCAACCAATTAGAAGAGTTAGCCAAGGCGAA
*
872123 ATCGATAAAGCCAACAAG
65 ATCGATAAAGCCAACAGG
* * * * *
872141 TTAGAGAGGTT-ACTTGAGGT-GAAACTAATAAAGTCAACCAATTAGCAAG-GTTGGCTAGGGCG
1 TTAGAGGGGTTGAC-T-AGGTCAAAACTAATAAAGTCAACCAATTAG-AAGAGTTAGCCAAGGCG
* *
872203 AGATCGATAAAGCCAATAGG
63 AAATCGATAAAGCCAACAGG
* * * * * * * * * *
872223 TTTGAGGGG-TGGCTAGGGCAAAACTAATAAAGTCAACCACTTTA-AGGGGTTGGCTAGGGCAAA
1 TTAGAGGGGTTGACTAGGTCAAAACTAATAAAGTCAACCA-ATTAGAAGAGTTAGCCAAGGCGAA
* *
872286 ATCGAAAAAGCTAACAGG
65 ATCGATAAAGCCAACAGG
*
872304 TTAGAGGGGTTGACTAGGTCAAAACTAATAATA-TCAACCAATTAGAAGCA-TTAGCCAGGGC-A
1 TTAGAGGGGTTGACTAGGTCAAAACTAATAA-AGTCAACCAATTAGAAG-AGTTAGCCAAGGCGA
* * *
872366 AAACTAATAAAGCCAACAAG
64 AATC-GATAAAGCCAACAGG
872386 TTAGAG
1 TTAGAG
872392 AAGTTGACCA
Statistics
Matches: 269, Mismatches: 46, Indels: 36
0.77 0.13 0.10
Matches are distributed among these distances:
80 7 0.03
81 67 0.25
82 181 0.67
83 12 0.04
84 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (82 bp):
TTAGAGGGGTTGACTAGGTCAAAACTAATAAAGTCAACCAATTAGAAGAGTTAGCCAAGGCGAAA
TCGATAAAGCCAACAGG
Found at i:872284 original size:41 final size:42
Alignment explanation
Indices: 872162--872391 Score: 133
Period size: 41 Copynumber: 5.6 Consensus size: 42
872152 ACTTGAGGTG
* * *
872162 AAACTAATAAAGTCAACCA-ATTAGCA-AGGTTGGCTAGGGCG
1 AAACTAATAAAGTCAACCACGTTAG-AGGGGTTGGCTAGGGCA
* * * * * *
872203 AGA-TCGATAAAGCCAA-TAGGTTTGAGGGG-TGGCTAGGGCA
1 AAACT-AATAAAGTCAACCACGTTAGAGGGGTTGGCTAGGGCA
*
872243 AAACTAATAAAGTCAACCACTTTA-AGGGGTTGGCTAGGGCA
1 AAACTAATAAAGTCAACCACGTTAGAGGGGTTGGCTAGGGCA
* * * *
872284 AAATCGAA-AAAG-CTAA-CAGGTTAGAGGGGTTGACTAGGTCA
1 AAA-CTAATAAAGTC-AACCACGTTAGAGGGGTTGGCTAGGGCA
* * ** * *
872325 AAACTAATAATA-TCAACCA-ATTAGAAGCATTAGCCAGGGCA
1 AAACTAATAA-AGTCAACCACGTTAGAGGGGTTGGCTAGGGCA
* *
872366 AAACTAATAAAGCCAA-CAAGTTAGAG
1 AAACTAATAAAGTCAACCACGTTAGAG
872392 AAGTTGACCA
Statistics
Matches: 142, Mismatches: 32, Indels: 30
0.70 0.16 0.15
Matches are distributed among these distances:
40 41 0.29
41 94 0.66
42 7 0.05
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.20
Consensus pattern (42 bp):
AAACTAATAAAGTCAACCACGTTAGAGGGGTTGGCTAGGGCA
Found at i:872616 original size:204 final size:204
Alignment explanation
Indices: 872207--872725 Score: 476
Period size: 204 Copynumber: 2.5 Consensus size: 204
872197 AGGGCGAGAT
* * * * * *
872207 CGATAAAGCCAATAGGTTTGAGGGG-TGGCTAGGGCAAAACTAATAAAGTCAACCACTTTAAGGG
1 CGATAAAGCCAATAGATATAAGGGGTTGACCAAGGC-AAACTAATAAAGTCAACCACTTTAAGGG
* * * * *
872271 GTTGGCTAGGGCAAAATCGAAAAAGCTAACAGGTTAGAGGGGTTGACTAGGTCAAAACTAATAAT
65 GTTGGCTAGGGCAAAATCGAAAAAGCCAACAGGTTAGAGGGGTTGACCAAGACAAAACTAATAAA
* * *
872336 ATCAACCAATTAGAAGCATTAGCCAGGGCAAAACTAATAAAGCCAACAAGTTAGAGAAGTTGACC
130 ACCAACCAATTAGAAGAATTAGCAAGGGCAAAACTAATAAAGCCAACAAGTTAGAGAAGTTGACC
872401 AAAGAGAAAC
195 AAAGAGAAAC
* * * *
872411 CGATAAAGCTAATAGATATAAGGGGTTGACCAAGGCAAACTGATAAATTCAACCAGTTTAAGGGG
1 CGATAAAGCCAATAGATATAAGGGGTTGACCAAGGCAAACTAATAAAGTCAACCACTTTAAGGGG
* * * *
872476 TTGGCTAGGGCAAAATC-AATAAAGCCAATAGGTTAGAGGGGTTGGCCAAGACATAACTGATAAA
66 TTGGCTAGGGCAAAATCGAA-AAAGCCAACAGGTTAGAGGGGTTGACCAAGACAAAACTAATAAA
* * * * * * *
872540 ACCAACTAATTTGAAGAATTGATCAA-GGCGAAACCT-ATAAAGTCAACCAGTTAGAGTAGTTG-
130 ACCAACCAATTAGAAGAATT-AGCAAGGGC-AAAACTAATAAAGCCAACAAGTTAGAGAAGTTGA
* * *
872602 GCTAGGATGAAAC
193 CCAAAGA-GAAAC
* * ** * * * * * * *
872615 CGATAATGCCAATAGCT-TAGAGAAGTTGACTAGGGCGAAACTGATGAAGTCAACTA-ATTAGAA
1 CGATAAAGCCAATAGATATA-AGGGGTTGACCAAGGC-AAACTAATAAAGTCAACCACTTTA-AG
* ** * * *
872678 GGGTTAGCTAGGGTGAAATTGATAAAGCTAACAGGTTAGAGGGGTTGA
63 GGGTTGGCTAGGGCAAAATCGAAAAAGCCAACAGGTTAGAGGGGTTGA
872726 GTAGGGCAAA
Statistics
Matches: 254, Mismatches: 52, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
203 8 0.03
204 175 0.69
205 70 0.28
206 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (204 bp):
CGATAAAGCCAATAGATATAAGGGGTTGACCAAGGCAAACTAATAAAGTCAACCACTTTAAGGGG
TTGGCTAGGGCAAAATCGAAAAAGCCAACAGGTTAGAGGGGTTGACCAAGACAAAACTAATAAAA
CCAACCAATTAGAAGAATTAGCAAGGGCAAAACTAATAAAGCCAACAAGTTAGAGAAGTTGACCA
AAGAGAAAC
Found at i:872989 original size:41 final size:41
Alignment explanation
Indices: 872918--873060 Score: 108
Period size: 41 Copynumber: 3.5 Consensus size: 41
872908 AGTTAACCAA
* * * *
872918 TTGAAGAGGTTGGCTAAGACAAAACCAATAAAGCCAACAGGT
1 TTGAA-AGGTTGACTAGGGCAAAACAAATAAAGCCAACAGGT
** ** * *
872960 TTGAAAGGTTGACTAGGGTGAAACAAATAAAGTTAGCCA-AT
1 TTGAAAGGTTGACTAGGGCAAAACAAATAAAGCCA-ACAGGT
* * * **
873001 TAGAAGGGTTGGCTAGGGCAAAACTGATAAAGCCAACAGGT
1 TTGAAAGGTTGACTAGGGCAAAACAAATAAAGCCAACAGGT
* *
873042 TTAAAAGGTTAACTAGGGC
1 TTGAAAGGTTGACTAGGGC
873061 GAAGCTGATA
Statistics
Matches: 73, Mismatches: 26, Indels: 5
0.70 0.25 0.05
Matches are distributed among these distances:
40 2 0.03
41 64 0.88
42 7 0.10
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (41 bp):
TTGAAAGGTTGACTAGGGCAAAACAAATAAAGCCAACAGGT
Found at i:873072 original size:82 final size:82
Alignment explanation
Indices: 872858--873072 Score: 236
Period size: 82 Copynumber: 2.6 Consensus size: 82
872848 GCCTCGGGTG
* * ** * * * *
872858 AAACCAATAAAG-CAATAGGTTTGAGGGGTTAACTAAGCCAAAATTGATAAAGTTAACCAATTGA
1 AAACCAATAAAGCCAACAGGTTTAAAAGGTTAACTAGGGCGAAACTGATAAAGTTAACCAATTGA
872922 AGAGGTTGGCTAAGACA
66 AGAGGTTGGCTAAGACA
* * * ** *
872939 AAACCAATAAAGCCAACAGGTTTGAAAGGTTGACTAGGGTGAAACAAATAAAGTTAGCCAATTAG
1 AAACCAATAAAGCCAACAGGTTTAAAAGGTTAACTAGGGCGAAACTGATAAAGTTAACCAATT-G
* *
873004 AAG-GGTTGGCTAGGGCA
65 AAGAGGTTGGCTAAGACA
** *
873021 AAACTGATAAAGCCAACAGGTTTAAAAGGTTAACTAGGGCGAAGCTGATAAA
1 AAACCAATAAAGCCAACAGGTTTAAAAGGTTAACTAGGGCGAAACTGATAAA
873073 ATATACCAAA
Statistics
Matches: 110, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
81 12 0.11
82 94 0.85
83 4 0.04
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.20
Consensus pattern (82 bp):
AAACCAATAAAGCCAACAGGTTTAAAAGGTTAACTAGGGCGAAACTGATAAAGTTAACCAATTGA
AGAGGTTGGCTAAGACA
Found at i:873159 original size:41 final size:41
Alignment explanation
Indices: 873114--873242 Score: 122
Period size: 41 Copynumber: 3.1 Consensus size: 41
873104 GATGAAATCA
*
873114 ATAAAGTCAACCAATTTGAGGGGTTG-GCTAGTGCAAGAT-CG
1 ATAAAGTCAACCAATTTGAGGGGTTGAGCCAG-GCAA-ATCCG
873155 ATAAAAGT-AA-CAAGTTTGAGGGGTTGAGCCAGGCAAATCCG
1 AT-AAAGTCAACCAA-TTTGAGGGGTTGAGCCAGGCAAATCCG
* * * ** * *
873196 ATAAAGTCAACTAATTTAAGAGGTTGTTCCAGGTAAAACCG
1 ATAAAGTCAACCAATTTGAGGGGTTGAGCCAGGCAAATCCG
873237 ATAAAG
1 ATAAAG
873243 CCAATAGGTT
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
40 10 0.14
41 53 0.72
42 11 0.15
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (41 bp):
ATAAAGTCAACCAATTTGAGGGGTTGAGCCAGGCAAATCCG
Found at i:874691 original size:54 final size:55
Alignment explanation
Indices: 874586--874696 Score: 134
Period size: 54 Copynumber: 2.0 Consensus size: 55
874576 AATAATAACT
* * * *
874586 TGGGCAAAACCAAGACTCAATAAAAATGCCTAGATAGAACTAGAAACCTAAACAA
1 TGGGCAAAACCAAGACTCAATAAAAATGACTAGATAAAACTAAAAAACTAAACAA
* ** * *
874641 TGGGTAAAACCAAGACTCAA-GGAAATGACTTGATAAAACTAAAAAACTAAATAA
1 TGGGCAAAACCAAGACTCAATAAAAATGACTAGATAAAACTAAAAAACTAAACAA
874695 TG
1 TG
874697 ACTTCGGTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
54 28 0.60
55 19 0.40
ACGTcount: A:0.51, C:0.16, G:0.15, T:0.17
Consensus pattern (55 bp):
TGGGCAAAACCAAGACTCAATAAAAATGACTAGATAAAACTAAAAAACTAAACAA
Found at i:874940 original size:60 final size:60
Alignment explanation
Indices: 874400--874928 Score: 437
Period size: 60 Copynumber: 8.9 Consensus size: 60
874390 AACTAGCAAT
* ** * * *
874400 AATGACTTGGGTAAAACCAAGACTCGAGGAAATGGTCTCGATAAAACCAGAAACCT-AAC
1 AATGACTTGGGTAAAACCAAGACTCAACAAAATGGCCTAGATAAAACTAGAAACCTAAAC
* * * * * ** * *
874459 ACTGACATGGGCATAACAAAGACTCAATGAAATGGCTTGGATAAAAACTAGAAACCT-AAC
1 AATGACTTGGGTAAAACCAAGACTCAACAAAATGGCCTAGAT-AAAACTAGAAACCTAAAC
* ** * * * * * * * *
874519 ATTGACTTAAGCAAAACCAAAACTCAACAAAATTGCTTGGAAAAAACTAAAAACCTAAAT
1 AATGACTTGGGTAAAACCAAGACTCAACAAAATGGCCTAGATAAAACTAGAAACCTAAAC
* * * *
874579 AATAACTTGGGCAAAACCAAGACTCAATAAAAAT-GCCTAGATAGAACTAGAAACCTAAAC
1 AATGACTTGGGTAAAACCAAGACTCAA-CAAAATGGCCTAGATAAAACTAGAAACCTAAAC
** * * * * *
874639 -A--A--TGGGTAAAACCAAGACTCAAGGAAAT-GACTTGATAAAACTAAAAAACTAAAT
1 AATGACTTGGGTAAAACCAAGACTCAACAAAATGGCCTAGATAAAACTAGAAACCTAAAC
* * * * *
874693 AATGACTTCGGTAAAACCAATACTCAACAAAATGGCCTAGACAAAACCAAAAACCTAAAC
1 AATGACTTGGGTAAAACCAAGACTCAACAAAATGGCCTAGATAAAACTAGAAACCTAAAC
* * * * * * *
874753 AAAGACTAGGGTGAAACCAAGACTCAACTAAAGGGCCTAGATAAAACTAGAAATCTAAAT
1 AATGACTTGGGTAAAACCAAGACTCAACAAAATGGCCTAGATAAAACTAGAAACCTAAAC
* * * * * *
874813 AATGACTTGGGTAAAACCAAAACTCAACTAAATGGTCTGGATAAAACCAAAAACCTAAAC
1 AATGACTTGGGTAAAACCAAGACTCAACAAAATGGCCTAGATAAAACTAGAAACCTAAAC
* ** * *
874873 AATGACTTGGGTGAAACCAAGACTCAATTAAATGGCCTCGATAAAACCAGAAACCT
1 AATGACTTGGGTAAAACCAAGACTCAACAAAATGGCCTAGATAAAACTAGAAACCT
874929 TAATGTTGAC
Statistics
Matches: 377, Mismatches: 84, Indels: 17
0.79 0.18 0.04
Matches are distributed among these distances:
54 24 0.06
55 20 0.05
57 2 0.01
59 68 0.18
60 258 0.68
61 5 0.01
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.18
Consensus pattern (60 bp):
AATGACTTGGGTAAAACCAAGACTCAACAAAATGGCCTAGATAAAACTAGAAACCTAAAC
Found at i:875227 original size:45 final size:45
Alignment explanation
Indices: 875170--875255 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
875160 AAATAATCTC
875170 AATGCAAGTGTCAACAAATAAGCAAAATACAAATGAAATGATGTA
1 AATGCAAGTGTCAACAAATAAGCAAAATACAAATGAAATGATGTA
* * * *
875215 AATGCTAA-TGTCATCTAATAAGCAAAATGCTAATGAAATGA
1 AATGC-AAGTGTCAACAAATAAGCAAAATACAAATGAAATGA
875256 AACAGAACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
45 34 0.94
46 2 0.06
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (45 bp):
AATGCAAGTGTCAACAAATAAGCAAAATACAAATGAAATGATGTA
Found at i:875937 original size:21 final size:22
Alignment explanation
Indices: 875911--875952 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
875901 ACTCATGTTC
875911 ATTGTATCGATACAT-AAACTA
1 ATTGTATCGATACATGAAACTA
*
875932 ATTGTATCTATACATGAAACT
1 ATTGTATCGATACATGAAACT
875953 GGTAGTAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (22 bp):
ATTGTATCGATACATGAAACTA
Found at i:879412 original size:79 final size:79
Alignment explanation
Indices: 879281--879500 Score: 241
Period size: 79 Copynumber: 2.8 Consensus size: 79
879271 AACGGGGCTA
* * * * * **
879281 GAGTATCCCTGATTAT-AGAAAATCGGTGTTTTGAAAATAAAATTAG-GATTGGAGTATCCCCGC
1 GAGTATCCCCGATTGTGA-AAAATCGATGTTTAGGAAATAAAAACAGAG-TTGGAGTATCCCCGC
879344 GAAAATAACGAGATTG
64 GAAAATAACGAGATTG
** * *
879360 GAGTATCCCCGATTGTGAAAAATCGATGCTTTA-GAAAT-AAGGCTGGAGTTGGAGTATCCCCGT
1 GAGTATCCCCGATTGTGAAAAATCGATG-TTTAGGAAATAAAAAC-AGAGTTGGAGTATCCCCGC
*
879423 GAAAATAACGAGGTTG
64 GAAAATAACGAGATTG
* * *
879439 GAGTATCCCCGATTGTGAGAAATTGGTGTTTAGGAAATAAAAACAGAGTTGGAGTATCCCCG
1 GAGTATCCCCGATTGTGAAAAATCGATGTTTAGGAAATAAAAACAGAGTTGGAGTATCCCCG
879501 ATTAAGAAAA
Statistics
Matches: 118, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
78 6 0.05
79 104 0.88
80 8 0.07
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (79 bp):
GAGTATCCCCGATTGTGAAAAATCGATGTTTAGGAAATAAAAACAGAGTTGGAGTATCCCCGCGA
AAATAACGAGATTG
Found at i:879498 original size:51 final size:51
Alignment explanation
Indices: 879429--879550 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
879419 CCGTGAAAAT
** *
879429 AACGAGGTTGGAGTATCCCCGATTGTGAGAAATTGGT-GTTTAGGAAATAAA
1 AACGAGGTTGGAGTATCCCCGATTAAGAAAAATTGGTAGTTTA-GAAATAAA
*
879480 AAC-AGAGTTGGAGTATCCCCGATTAAGAAAAATTGGTATTTTAGAAATAAA
1 AACGAG-GTTGGAGTATCCCCGATTAAGAAAAATTGGTAGTTTAGAAATAAA
* *
879531 ATCGAGGTTTGAGTATCCCC
1 AACGAGGTTGGAGTATCCCC
879551 TCGGAAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
50 2 0.03
51 54 0.87
52 6 0.10
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (51 bp):
AACGAGGTTGGAGTATCCCCGATTAAGAAAAATTGGTAGTTTAGAAATAAA
Found at i:879639 original size:109 final size:107
Alignment explanation
Indices: 879486--879710 Score: 297
Period size: 109 Copynumber: 2.1 Consensus size: 107
879476 TAAAAACAGA
* *** * *
879486 GTTGGAGTATCCCCGATTAAGAAAAATTGGTATTTTAGAAATAAAATCGAGGTTTGAGTATCCCC
1 GTTGGAGTACCCCCGATTAAGAAAAATCAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
* * * *
879551 TCGGAAATAACAGGATTGGAGTATCCTCGATGACATAACGGG
66 TCGAAAATAACAGGATTAGAGTATCCTCGATGAAATAACGAG
* * *
879593 GTTGGAGTACCCCCCGATTATGAAAAAATCAATATTTTAGATATAAAGCCGAGGTTGGAGTATCC
1 GTTGGAGTA-CCCCCGATTAAG-AAAAATCAATATTTTAGAAATAAAACCGAGGTTGGAGTATCC
* *
879658 CCTCGAAAATAACGGGGTTAGAGTATCCTCGATGAAATAACGAG
64 CCTCGAAAATAACAGGATTAGAGTATCCTCGATGAAATAACGAG
879702 GTTGGAGTA
1 GTTGGAGTA
879711 TCCCTAATCA
Statistics
Matches: 101, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
107 9 0.09
108 10 0.10
109 82 0.81
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (107 bp):
GTTGGAGTACCCCCGATTAAGAAAAATCAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
TCGAAAATAACAGGATTAGAGTATCCTCGATGAAATAACGAG
Found at i:879685 original size:28 final size:29
Alignment explanation
Indices: 879642--879714 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 29
879632 GATATAAAGC
879642 CGAGGTTGGAGTATCCCCTCGA-AAATAA
1 CGAGGTTGGAGTATCCCCTCGAGAAATAA
* *
879670 CGGGGTTAGAGTAT--CCTCGATGAAATAA
1 CGAGGTTGGAGTATCCCCTCGA-GAAATAA
879698 CGAGGTTGGAGTATCCC
1 CGAGGTTGGAGTATCCC
879715 TAATCATGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
26 6 0.16
28 30 0.81
30 1 0.03
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (29 bp):
CGAGGTTGGAGTATCCCCTCGAGAAATAA
Found at i:879728 original size:109 final size:109
Alignment explanation
Indices: 879516--879764 Score: 299
Period size: 109 Copynumber: 2.3 Consensus size: 109
879506 GAAAAATTGG
* * * *
879516 TATTTTAGAAATAAAATCGAGGTTTGAGTATCCCCTCGGAAATAACAGGATTGGAGTATCCTCGA
1 TATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACAGGATTAGAGTATCCTCGA
* * * *
879581 TGACATAACGGGGTTGGAGTACCCCCCGATTATGAAAAAATCAA
66 TGAAATAACGAGGTTGGAGTACCCCCCAATCATGAAAAAATCAA
* * * *
879625 TATTTTAGATATAAAGCCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCTCGA
1 TATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACAGGATTAGAGTATCCTCGA
* * *
879690 TGAAATAACGAGGTTGGAGTA-TCCCTAATCATGAAAAAAT-GA
66 TGAAATAACGAGGTTGGAGTACCCCCCAATCATGAAAAAATCAA
* *
879732 TGTTTT-GAAAATAAAATCG-GAGTTGGAGTATCC
1 TATTTTAG-AAATAAAACCGAG-GTTGGAGTATCC
879765 TTGATTGCGG
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
106 2 0.02
107 26 0.22
108 15 0.13
109 76 0.64
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (109 bp):
TATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACAGGATTAGAGTATCCTCGA
TGAAATAACGAGGTTGGAGTACCCCCCAATCATGAAAAAATCAA
Found at i:879841 original size:51 final size:51
Alignment explanation
Indices: 879722--879849 Score: 139
Period size: 51 Copynumber: 2.5 Consensus size: 51
879712 CCCTAATCAT
* * * * ** **
879722 GAAAAAATGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCTTGATTGC
1 GAAAAATTGATGTTTTGGAAATAAAATCGAAGTTAGAGTATCCCCGATTAA
** * *
879773 GGTAAATCGATGCTTTGGAAATAAAATCGAAGTTAGAGTATCCCCGATTAA
1 GAAAAATTGATGTTTTGGAAATAAAATCGAAGTTAGAGTATCCCCGATTAA
*
879824 GAAAAATTAATGTTTTGGAAATAAAA
1 GAAAAATTGATGTTTTGGAAATAAAA
879850 CCGAGATTGG
Statistics
Matches: 60, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.30
Consensus pattern (51 bp):
GAAAAATTGATGTTTTGGAAATAAAATCGAAGTTAGAGTATCCCCGATTAA
Found at i:882193 original size:20 final size:19
Alignment explanation
Indices: 882168--882241 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
882158 AAAATGCCTG
*
882168 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
882188 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
882208 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
*
882228 AATGTATCAATACA
1 AATGTATCGATACA
882242 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:887302 original size:20 final size:19
Alignment explanation
Indices: 887260--887331 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
887250 AAAATGCCTG
*
887260 AATGTATCGATACATTA-C
1 AATGTATCGATACAATAGC
887278 AATGTATCGATACAATAAGC
1 AATGTATCGATACAAT-AGC
887298 AATGTATCGATACAAT-GC
1 AATGTATCGATACAATAGC
887316 AAAATGTATCGATACA
1 --AATGTATCGATACA
887332 TCTGGGTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
18 17 0.35
19 1 0.02
20 31 0.63
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATAGC
Found at i:887379 original size:20 final size:20
Alignment explanation
Indices: 887356--887401 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
887346 GATTGTATTG
887356 ATACAATGAACAATGTATCA
1 ATACAATGAACAATGTATCA
* *
887376 ATACAATGAACAATTTATCG
1 ATACAATGAACAATGTATCA
887396 ATACAA
1 ATACAA
887402 ATTGTGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (20 bp):
ATACAATGAACAATGTATCA
Found at i:888343 original size:61 final size:61
Alignment explanation
Indices: 888224--888377 Score: 168
Period size: 61 Copynumber: 2.5 Consensus size: 61
888214 GGACAAAGGA
* * * *
888224 GAAAAGGAAAAGGCGTCCTGCTTTTTGAGGACTAAAAAGTGCTACCAACTCGTGTGGGCTTT
1 GAAAA-GAAAAGGCGTCCTGCTCTTTGAGGACGAAAAAGTGCCACCAACTCGTATGGGCTTT
** * * *
888286 GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACGGGAAGGTGCCACTAACTTGTATGGGCTTT
1 GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACGAAAAAGTGCCACCAACTCGTATGGGCTTT
* *
888347 -ACAAAGAGAAA-ACATCCTGCTCTTTGAGGAC
1 GA-AAAGA-AAAGGCGTCCTGCTCTTTGAGGAC
888378 TAAAGGGTAA
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
60 1 0.01
61 70 0.89
62 8 0.10
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (61 bp):
GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACGAAAAAGTGCCACCAACTCGTATGGGCTTT
Found at i:888550 original size:61 final size:61
Alignment explanation
Indices: 888448--888579 Score: 178
Period size: 61 Copynumber: 2.1 Consensus size: 61
888438 GTAGGCTTTG
* *
888448 AAAGGCATCCTACTCTTTGAGGACTGGAAAATGCCAGCAACTTGTGTGGGCTTT-AAAAGGA
1 AAAGGCATCCTACTCTTTGAGGACT-GAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGA
* * *
888509 AAAGGCATCCTGCTCTTTGAGGACT-AAAGGGTGTCACCAACTCGTGTGGGCTTTGAAAAGGA
1 AAAGGCATCCTACTCTTTGAGGACTGAAA--ATGCCACCAACTCGTGTGGGCTTTGAAAAGGA
888571 AAAGGCATC
1 AAAGGCATC
888580 TTAAATGTGC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
59 3 0.05
61 44 0.70
62 16 0.25
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (61 bp):
AAAGGCATCCTACTCTTTGAGGACTGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGA
Found at i:888668 original size:108 final size:108
Alignment explanation
Indices: 888479--888723 Score: 418
Period size: 108 Copynumber: 2.3 Consensus size: 108
888469 GACTGGAAAA
* * * *
888479 TGCCAGCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGTC
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATGCTCTTTGAAGACTAAAGGGTGCC
*
888544 ACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCATCTTAAATG
66 ACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCATCTTAAAGG
888587 TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATGCTCTTTGAAGACTAAAGGGTGCC
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATGCTCTTTGAAGACTAAAGGGTGCC
* *
888652 ACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCGTCTTGAAGG
66 ACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCATCTTAAAGG
*
888695 TGCCACCAACTTCTGTGGGCTTTAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGG
888724 CGTCCTACTC
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 129 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (108 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATGCTCTTTGAAGACTAAAGGGTGCC
ACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCATCTTAAAGG
Found at i:888768 original size:102 final size:103
Alignment explanation
Indices: 888508--888784 Score: 362
Period size: 108 Copynumber: 2.7 Consensus size: 103
888498 CTTTAAAAGG
*
888508 AAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGTCACCAACTCGTGTGGGCTTTGAAAAGGAAA
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAA
* *
888573 AGGCATCTTAAATGTGCCACCAACTTGTGTGGGCTTTAAAA
66 AGGCATCTTAAAGGTGCCACCAACTTCTGTGGGCTTT---A
* *
888614 GGAAAAGGCATCATGCTCTTTGAAGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGGA
1 --AAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGGA
* *
888679 AAAGGCGTCTTGAAGGTGCCACCAACTTCTGTGGGCTTT-
64 AAAGGCATCTTAAAGGTGCCACCAACTTCTGTGGGCTTTA
* * ** * *
888718 AAAAGGCGTCCTACTCTTTGAGGACTAGAA-AATGCCACTAACTTGTGTGGGCTTT-AAAAGGAA
1 AAAAGGCATCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAA
888781 AAGG
65 AAGG
888785 TATCCTGCTC
Statistics
Matches: 153, Mismatches: 15, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
101 12 0.08
102 44 0.29
103 2 0.01
108 95 0.62
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (103 bp):
AAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAA
AGGCATCTTAAAGGTGCCACCAACTTCTGTGGGCTTTA
Found at i:888773 original size:271 final size:272
Alignment explanation
Indices: 888423--888946 Score: 874
Period size: 271 Copynumber: 1.9 Consensus size: 272
888413 GGACTGGGAA
* * *
888423 GTGCCACCAACTTGTGTAGGCTTTGAAAGGCATCCTACTCTTTGAGGACTGGAAAATGCCAGCAA
1 GTGCCACCAACTTCTGTAGGCTTTAAAAGGCATCCTACTCTTTGAGGACTAGAAAATGCCAGCAA
*
888488 CTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGTCACCAACTCG
66 CTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCG
* *
888553 TGTGGGCTTTGAAAAGGAAAAGGCATCTT-AAATGTGCCACCAACTTGTGTGGGCTTT-AAAAGG
131 TGTGGGCTTTGAAAAGGAAAAGGCATCTTGAAA-GTGCCACCAACTTGTGTGGCCTTTAAAAAGA
* *
888616 AAAAGGCATCATGCTCTTTGAAGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAA
195 AAAAGACATCATGCTCTTTGAAGACTAAAGGGTGCCACCAACTCGTGTGGACTTTGAAAAGGAAA
888681 AGGCGTCTTGAAG
260 AGGCGTCTTGAAG
* *
888694 GTGCCACCAACTTCTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAGAAAATGCCA-CTA
1 GTGCCACCAACTTCTGTAGGCTTTAAAAGGCATCCTACTCTTTGAGGACTAGAAAATGCCAGC-A
*
888758 ACTTGTGTGGGCTTTAAAAGGAAAAGGTATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTC
65 ACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTC
888823 GTGTGGGCTTTGAAAAGGAAAAGGCATCTTGAAAGTGCCACCAACTTGTGTGGCCTTTAAAAAGA
130 GTGTGGGCTTTGAAAAGGAAAAGGCATCTTGAAAGTGCCACCAACTTGTGTGGCCTTTAAAAAGA
* * * *
888888 AAAAGACGTCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGACTTTGAAA
195 AAAAGACATCATGCTCTTTGAAGACTAAAGGGTGCCACCAACTCGTGTGGACTTTGAAA
888947 GGCGTCCTGC
Statistics
Matches: 235, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
270 1 0.00
271 173 0.74
272 61 0.26
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (272 bp):
GTGCCACCAACTTCTGTAGGCTTTAAAAGGCATCCTACTCTTTGAGGACTAGAAAATGCCAGCAA
CTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCG
TGTGGGCTTTGAAAAGGAAAAGGCATCTTGAAAGTGCCACCAACTTGTGTGGCCTTTAAAAAGAA
AAAGACATCATGCTCTTTGAAGACTAAAGGGTGCCACCAACTCGTGTGGACTTTGAAAAGGAAAA
GGCGTCTTGAAG
Found at i:888784 original size:163 final size:161
Alignment explanation
Indices: 888587--889179 Score: 628
Period size: 163 Copynumber: 3.5 Consensus size: 161
888577 ATCTTAAATG
* *
888587 TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATGCTCTTTGAAGACTAAAGGGTGCC
1 TGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCC
*
888652 ACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCGTCTTGAAGGTGCCACCAACTTCTGTGGGCTT
65 ACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCATCTTGAAGGTGCCACCAACTTCTGTGGGCTT
*
888717 TAAAAGGCGTCCTACTCTTTGAGGACTAGAAAA
130 TAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAA
* *
888750 TGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGTATCCTGCTCTTTGAGGACTAAAGGGTGCC
1 TGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCC
* * *
888815 ACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCATCTTGAAAGTGCCACCAACTTGTGTGGCCTT
65 ACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCATCTTGAAGGTGCCACCAACTTCTGTGGGCTT
**
888880 TAAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAAATGG
130 T-AAAAG-----G-CGTCCTGCTCTTTGAGGACTAAA-AA
* * * * ***
888920 TGCCACCAACTCGTGTGGACTTT-----GAAAGGCGTCCTGCTATTTGAGGACTAAAAAATGCCA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCA
** *
888980 CCAACTTATGTAGGCTTTGAAAA-GAAAAGGCATCCTACTCTTTGAGGACTAGAAGGTGCCACCA
66 CCAACTCGTGTGGGCTTTGAAAAGGAAAAGG----C-A-TC--T------T-GAAGGTGCCACCA
889044 AC-TCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAA
116 ACTTC-TGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT-AAAAA
*
889091 TGCCACCAACTTGTAGTGGGCTTTGAAAAAGG-AAGGCGTCCTGCTCTTTGAGGACTGAAA-GGT
1 TGCCACCAACTTGT-GTGGGCTTT--AAAAGGAAAGGCATCCTGCTCTTTGAGGACT-AAAGGGT
*
889154 GCCACCAACTTGTGTGGGCTTTGAAA
62 GCCACCAACTCGTGTGGGCTTTGAAA
889180 GACGTCCTAC
Statistics
Matches: 361, Mismatches: 35, Indels: 53
0.80 0.08 0.12
Matches are distributed among these distances:
163 130 0.36
164 55 0.15
165 1 0.00
167 1 0.00
168 1 0.00
169 5 0.01
170 40 0.11
171 34 0.09
172 12 0.03
177 7 0.02
178 71 0.20
179 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (161 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCA
CCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCATCTTGAAGGTGCCACCAACTTCTGTGGGCTTT
AAAAGGCGTCCTGCTCTTTGAGGACTAAAAA
Done.