Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 302 of 310
Found at i:99701529 original size:40 final size:40
Alignment explanation
Indices: 99701435--99701659 Score: 231
Period size: 40 Copynumber: 5.6 Consensus size: 40
99701425 TATTCGAACG
* *
99701435 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GCGACT
* * * * *
99701476 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-CGACT
* * *
99701516 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
* *
99701556 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
* * *
99701596 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
* * *
99701636 ACATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
99701660 CTTGCGCAAG
Statistics
Matches: 155, Mismatches: 24, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 124 0.80
41 29 0.19
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
Found at i:99701619 original size:80 final size:80
Alignment explanation
Indices: 99701435--99701659 Score: 281
Period size: 80 Copynumber: 2.8 Consensus size: 80
99701425 TATTCGAACG
* * * *
99701435 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
99701500 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * * *
99701516 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
99701581 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
99701596 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGC
99701660 CTTGCGCAAG
Statistics
Matches: 122, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
79 1 0.01
80 90 0.74
81 31 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:99701649 original size:120 final size:121
Alignment explanation
Indices: 99701435--99701659 Score: 312
Period size: 120 Copynumber: 1.9 Consensus size: 121
99701425 TATTCGAACG
** * *
99701435 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * *
99701500 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
* *
99701556 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
99701619 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCAAAGGC
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCAAAGGC
99701660 CTTGCGCAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
119 3 0.03
120 57 0.63
121 31 0.34
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (121 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
Found at i:99709918 original size:42 final size:43
Alignment explanation
Indices: 99709871--99709975 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 43
99709861 GATGTGCGAA
*
99709871 TAAGACAATGGCATCGATATATGTGTGCGAGTAAGACCA-TGT
1 TAAGACAATGGCATCGATATATGTGTACGAGTAAGACCACTGT
* *
99709913 TAAGACAATGGCATCGATATATGTGTACGAGTTAGACCACGTTT
1 TAAGACAATGGCATCGATATATGTGTACGAGTAAGACCAC-TGT
*
99709957 TAA-ACATTGGCATCGATAT
1 TAAGACAATGGCATCGATAT
99709976 GTGATTCCGA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
42 37 0.65
43 15 0.26
44 5 0.09
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (43 bp):
TAAGACAATGGCATCGATATATGTGTACGAGTAAGACCACTGT
Found at i:99710015 original size:57 final size:56
Alignment explanation
Indices: 99709927--99710063 Score: 177
Period size: 57 Copynumber: 2.4 Consensus size: 56
99709917 ACAATGGCAT
* * *
99709927 CGATATATGTGT-ACGAGTTAGACCACGTTTTAAACATTGGCATCGATATGTGATTC
1 CGATATATGTGTGA-GAGTAAGACCACATTTTAAACATTAGCATCGATATGTGATTC
* * *
99709983 CGATATATTGTGTGAGAGTAAGACCACATTTTATACGTTAGCATTGATATGTGATTC
1 CGATATA-TGTGTGAGAGTAAGACCACATTTTAAACATTAGCATCGATATGTGATTC
* *
99710040 TGATATATGTGTGCGAGTAAGACC
1 CGATATATGTGTGAGAGTAAGACC
99710064 CTGTCTAGGA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
56 23 0.32
57 47 0.66
58 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (56 bp):
CGATATATGTGTGAGAGTAAGACCACATTTTAAACATTAGCATCGATATGTGATTC
Found at i:99710089 original size:56 final size:57
Alignment explanation
Indices: 99709927--99710094 Score: 150
Period size: 57 Copynumber: 3.0 Consensus size: 57
99709917 ACAATGGCAT
* * * * *
99709927 CGATATA-TGTGT-ACGAGTTAGACCACGTTTTAAACATTGGCATCGATATGTGATTC
1 CGATATATTGTGTGA-GAGTAAGACCACATTCTAGACGTTGGCATCGATATGTGATTC
* * * *
99709983 CGATATATTGTGTGAGAGTAAGACCACATTTTATACGTTAGCATTGATATGTGATTC
1 CGATATATTGTGTGAGAGTAAGACCACATTCTAGACGTTGGCATCGATATGTGATTC
* * *
99710040 TGATATA-TGTGTGCGAGTAAGACC-C-TGTCTAGGACAG-TGGCATCAATATGTGATT
1 CGATATATTGTGTGAGAGTAAGACCACAT-TCTA-GAC-GTTGGCATCGATATGTGATT
99710095 ACATGTAAGA
Statistics
Matches: 94, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
54 1 0.01
55 4 0.04
56 40 0.43
57 48 0.51
58 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (57 bp):
CGATATATTGTGTGAGAGTAAGACCACATTCTAGACGTTGGCATCGATATGTGATTC
Found at i:99718581 original size:45 final size:45
Alignment explanation
Indices: 99718460--99718589 Score: 208
Period size: 45 Copynumber: 2.9 Consensus size: 45
99718450 TGATATCATT
* *
99718460 TCACTGGCATTATAGCCTGCTAGGCTCGAAA-GCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
99718505 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
99718550 TCACCGGCATTATAGCTTGCTAGGCTCAAAGGACCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
99718590 ATACTGTGCG
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
44 3 0.04
45 77 0.96
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:99719447 original size:47 final size:47
Alignment explanation
Indices: 99719394--99719489 Score: 158
Period size: 47 Copynumber: 2.0 Consensus size: 47
99719384 AAAATTTTCT
*
99719394 TTAACTAAGTAACTTATCTGGAAATATTAA-AGGAAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGA-GAAAATTTAACAAGC
*
99719441 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGAAAATTTAACAAGC
99719488 TT
1 TT
99719490 TAAATTCAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 45 0.98
48 1 0.02
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGAAAATTTAACAAGC
Found at i:99731618 original size:29 final size:29
Alignment explanation
Indices: 99731586--99731642 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
99731576 GCATGACTAT
*
99731586 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTAGGCCTAATGGGCCATAC
99731615 GAATGTGATTTAGGCCTAATGGGCCATA
1 GAATGTGATTTAGGCCTAATGGGCCATA
99731643 TGAGTGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
GAATGTGATTTAGGCCTAATGGGCCATAC
Found at i:99733810 original size:15 final size:15
Alignment explanation
Indices: 99733790--99733820 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
99733780 TAAAAAGTTT
99733790 ATTTTAATCAAGATG
1 ATTTTAATCAAGATG
99733805 ATTTTAATCAAGATG
1 ATTTTAATCAAGATG
99733820 A
1 A
99733821 CATAATTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (15 bp):
ATTTTAATCAAGATG
Found at i:99740271 original size:143 final size:143
Alignment explanation
Indices: 99740013--99740442 Score: 860
Period size: 143 Copynumber: 3.0 Consensus size: 143
99740003 AGTTGTTGGG
99740013 ACCTTGTTTCCATAAACCTAGCCAGTAAATATTTTTATTAAATATTTATAGAGTGGCTATATAGG
1 ACCTTGTTTCCATAAACCTAGCCAGTAAATATTTTTATTAAATATTTATAGAGTGGCTATATAGG
99740078 TGTATTGAAGTTTGATCCAAAAATTTTAACATTTAGATAGTTAATTAAAGAAAAAGAACTAAATT
66 TGTATTGAAGTTTGATCCAAAAATTTTAACATTTAGATAGTTAATTAAAGAAAAAGAACTAAATT
99740143 GTAAAAGCTGGAA
131 GTAAAAGCTGGAA
99740156 ACCTTGTTTCCATAAACCTAGCCAGTAAATATTTTTATTAAATATTTATAGAGTGGCTATATAGG
1 ACCTTGTTTCCATAAACCTAGCCAGTAAATATTTTTATTAAATATTTATAGAGTGGCTATATAGG
99740221 TGTATTGAAGTTTGATCCAAAAATTTTAACATTTAGATAGTTAATTAAAGAAAAAGAACTAAATT
66 TGTATTGAAGTTTGATCCAAAAATTTTAACATTTAGATAGTTAATTAAAGAAAAAGAACTAAATT
99740286 GTAAAAGCTGGAA
131 GTAAAAGCTGGAA
99740299 ACCTTGTTTCCATAAACCTAGCCAGTAAATATTTTTATTAAATATTTATAGAGTGGCTATATAGG
1 ACCTTGTTTCCATAAACCTAGCCAGTAAATATTTTTATTAAATATTTATAGAGTGGCTATATAGG
99740364 TGTATTGAAGTTTGATCCAAAAATTTTAACATTTAGATAGTTAATTAAAGAAAAAGAACTAAATT
66 TGTATTGAAGTTTGATCCAAAAATTTTAACATTTAGATAGTTAATTAAAGAAAAAGAACTAAATT
99740429 GTAAAAGCTGGAA
131 GTAAAAGCTGGAA
99740442 A
1 A
99740443 AGTTAATCGC
Statistics
Matches: 287, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 287 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.35
Consensus pattern (143 bp):
ACCTTGTTTCCATAAACCTAGCCAGTAAATATTTTTATTAAATATTTATAGAGTGGCTATATAGG
TGTATTGAAGTTTGATCCAAAAATTTTAACATTTAGATAGTTAATTAAAGAAAAAGAACTAAATT
GTAAAAGCTGGAA
Found at i:99742179 original size:20 final size:20
Alignment explanation
Indices: 99742156--99742195 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
99742146 ACATTAAGTT
99742156 TAAG-TTTATTACAAACTTAC
1 TAAGCTTTA-TACAAACTTAC
*
99742176 TAAGCTTTATACAAGCTTAC
1 TAAGCTTTATACAAACTTAC
99742196 CTCATTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (20 bp):
TAAGCTTTATACAAACTTAC
Found at i:99742717 original size:10 final size:10
Alignment explanation
Indices: 99742702--99742728 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
99742692 TGAATAGGCA
99742702 TAAATGGGTG
1 TAAATGGGTG
99742712 TAAATGGGTG
1 TAAATGGGTG
99742722 TAAATGG
1 TAAATGG
99742729 TATGGCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.37, T:0.30
Consensus pattern (10 bp):
TAAATGGGTG
Found at i:99747190 original size:27 final size:27
Alignment explanation
Indices: 99747099--99747165 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
99747089 TAGGGCAAAT
*
99747099 CAGTCATTTTACCTTACAGGGGTATTA
1 CAGTCATTTTACCCTACAGGGGTATTA
99747126 CAGTCATTTTACCCTACAGGGGTATTA
1 CAGTCATTTTACCCTACAGGGGTATTA
99747153 CAGTCATTTTACC
1 CAGTCATTTTACC
99747166 GTATAGGGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (27 bp):
CAGTCATTTTACCCTACAGGGGTATTA
Found at i:99747212 original size:27 final size:27
Alignment explanation
Indices: 99747182--99747282 Score: 150
Period size: 27 Copynumber: 3.7 Consensus size: 27
99747172 GGATATTTTG
99747182 GTCATTTTATCTCATAAGGGCAAAATC
1 GTCATTTTATCTCATAAGGGCAAAATC
* *
99747209 GTCATTTTATCACATAAGGGAAAAATC
1 GTCATTTTATCTCATAAGGGCAAAATC
* *
99747236 GTCATTTTATCGCATAAGGGCAAAATA
1 GTCATTTTATCTCATAAGGGCAAAATC
99747263 GTCA-TTTAGTCTCATAAGGG
1 GTCATTTTA-TCTCATAAGGG
99747283 TTCAAGTACG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 4 0.06
27 63 0.94
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (27 bp):
GTCATTTTATCTCATAAGGGCAAAATC
Found at i:99747436 original size:17 final size:18
Alignment explanation
Indices: 99747388--99747436 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
99747378 ATTATGTGGG
99747388 CCTATGTGGGCCCACACC
1 CCTATGTGGGCCCACACC
99747406 CCTATGTGGGCCCACACC
1 CCTATGTGGGCCCACACC
99747424 CCTATGT-GGCCCA
1 CCTATGTGGGCCCA
99747437 ATAAGCCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 6 0.19
18 25 0.81
ACGTcount: A:0.16, C:0.43, G:0.22, T:0.18
Consensus pattern (18 bp):
CCTATGTGGGCCCACACC
Found at i:99754504 original size:40 final size:40
Alignment explanation
Indices: 99754321--99754490 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
99754311 TCCTCGTTCA
* * * * *
99754321 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
99754360 AGTGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
99754400 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
99754440 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
99754480 AAGGCCTTCGG
1 AATGCCTTCGG
99754491 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 32 0.28
40 82 0.72
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:99768519 original size:19 final size:21
Alignment explanation
Indices: 99768491--99768533 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
99768481 TTTGTTTTTC
*
99768491 TTTCTTTTCTTC-CTAC-CAA
1 TTTCTATTCTTCTCTACACAA
99768510 TTTCTATTCTTCTCTACACAA
1 TTTCTATTCTTCTCTACACAA
99768531 TTT
1 TTT
99768534 TCTTTGTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 4 0.19
21 6 0.29
ACGTcount: A:0.19, C:0.28, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTCTATTCTTCTCTACACAA
Found at i:99769322 original size:17 final size:17
Alignment explanation
Indices: 99769300--99769341 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
99769290 ATGGGCTAAA
*
99769300 TGGGCCCAATGGGTTGT
1 TGGGCCCAATGGGCTGT
*
99769317 TGGGCCCGATGGGCTGT
1 TGGGCCCAATGGGCTGT
*
99769334 TCGGCCCA
1 TGGGCCCA
99769342 TAATAGGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.10, C:0.26, G:0.40, T:0.24
Consensus pattern (17 bp):
TGGGCCCAATGGGCTGT
Found at i:99769454 original size:29 final size:28
Alignment explanation
Indices: 99769399--99769513 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 28
99769389 GTGAGCATGA
* * *
99769399 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
99769427 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
99769456 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
** * *
99769485 ATACGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
99769513 A
1 A
99769514 GATACAGGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
28 27 0.36
29 48 0.64
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:99769520 original size:57 final size:58
Alignment explanation
Indices: 99769412--99769522 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 58
99769402 TGAATGTGAC
* * *
99769412 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATACAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
* * *
99769470 TGGGCCTAATGGGCCATACGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATACAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
99769523 ATGTGAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 24 0.51
58 23 0.49
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATACAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:99772441 original size:89 final size:89
Alignment explanation
Indices: 99772288--99772457 Score: 270
Period size: 89 Copynumber: 1.9 Consensus size: 89
99772278 ATCGTACGAC
* * * *
99772288 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCTGTGAGACACTATTCGGGCCTTTGAGCC
1 ACTATTCGGGCCTTTGAGCCTAGCAAGCTACAATACCGGTGAGACACTATTCGGGCCTTTGAGCC
99772353 TAGCAGGCTATAATGCCGTGAGAT
66 TAGCAGGCTATAATGCCGTGAGAT
* *
99772377 ACTATTCGGGCCTTTGAGCCTAGCAAGCTACAATACCGGTGAGATATTATTCGGG-CTTTCGAGC
1 ACTATTCGGGCCTTTGAGCCTAGCAAGCTACAATACCGGTGAGACACTATTCGGGCCTTT-GAGC
99772441 CTAGCAGGCTATAATGC
65 CTAGCAGGCTATAATGC
99772458 TGGTGAAAAG
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
88 4 0.05
89 70 0.95
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.27
Consensus pattern (89 bp):
ACTATTCGGGCCTTTGAGCCTAGCAAGCTACAATACCGGTGAGACACTATTCGGGCCTTTGAGCC
TAGCAGGCTATAATGCCGTGAGAT
Found at i:99772463 original size:45 final size:45
Alignment explanation
Indices: 99772288--99772546 Score: 277
Period size: 45 Copynumber: 5.9 Consensus size: 45
99772278 ATCGTACGAC
* *
99772288 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCTGTGAGAC
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
99772333 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC-GTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
* * *
99772377 ACTATTCGGGCCTTTGAGCCTAGCAAGCTACAATACCGGTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
* *
99772422 ATTATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCTGGTGA-A-
1 ACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAT
** * *
99772465 AAGATATCGGGCC-TCGAGCCTAGCAGGCGA-AATGCCGGTGA-AT
1 ACTAT-TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
** * *
99772508 GA--ATTCGGGTTTTTAAAACCTAGCAGGCTA-AATGCCGGT
1 -ACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGT
99772547 AATTTGATGA
Statistics
Matches: 186, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
41 5 0.03
42 14 0.08
43 38 0.20
44 52 0.28
45 77 0.41
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (45 bp):
ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
Found at i:99772475 original size:89 final size:89
Alignment explanation
Indices: 99772290--99772489 Score: 255
Period size: 89 Copynumber: 2.3 Consensus size: 89
99772280 CGTACGACAC
* * * *
99772290 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCTGTGAGACACTATTCGGGCCTTTGAGCCTA
1 TATTCGGGCCTTTGAGCCTAGCAAGCTACAATACCGGTGAGACACTATTCGGGCCTTTGAGCCTA
* *
99772355 GCAGGCTATAATGCCGTGAGATAC
66 GCAGGCTATAATGCCGTGAGAAAA
* *
99772379 TATTCGGGCCTTTGAGCCTAGCAAGCTACAATACCGGTGAGATATTATTCGGG-CTTTCGAGCCT
1 TATTCGGGCCTTTGAGCCTAGCAAGCTACAATACCGGTGAGACACTATTCGGGCCTTT-GAGCCT
*
99772443 AGCAGGCTATAATGCTGGTGA-AAAGA
65 AGCAGGCTATAATGC-CGTGAGAAA-A
*
99772469 TA-TCGGGCC-TCGAGCCTAGCA
1 TATTCGGGCCTTTGAGCCTAGCA
99772490 GGCGAAATGC
Statistics
Matches: 98, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
88 15 0.15
89 77 0.79
90 6 0.06
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (89 bp):
TATTCGGGCCTTTGAGCCTAGCAAGCTACAATACCGGTGAGACACTATTCGGGCCTTTGAGCCTA
GCAGGCTATAATGCCGTGAGAAAA
Found at i:99777356 original size:46 final size:47
Alignment explanation
Indices: 99777126--99777392 Score: 241
Period size: 46 Copynumber: 5.7 Consensus size: 47
99777116 GGGTGTAATA
* * *
99777126 CCGATGACATGTCCCAGATATGGTCTTACACTGGCT-CATCCATC-AAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACAT-C-TCGTAG
* * * *
99777173 TCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCTGT-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCT-ACATCTC-GTAG
* * *
99777223 CCGATGCCATGTCCCAGACATGGTCTTACATTGAC-ACCTCTATACGT-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATC--T-CGTAG
**
99777271 CCGATGCCATGTCCCAGACATGGTCTTACACTAAC-ACATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTCGTAG
*
99777317 CCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCG-AG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATCTCGTAG
99777362 CCTGATG-CATGTCCCAGACAT-GTCTTACACT
1 CC-GATGCCATGTCCCAGACATGGTCTTACACT
99777393 AGCGCATAAA
Statistics
Matches: 187, Mismatches: 20, Indels: 27
0.80 0.09 0.12
Matches are distributed among these distances:
44 11 0.06
45 20 0.11
46 46 0.25
47 28 0.15
48 43 0.23
49 6 0.03
50 30 0.16
51 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTCGTAG
Found at i:99777612 original size:150 final size:150
Alignment explanation
Indices: 99777341--99777641 Score: 602
Period size: 150 Copynumber: 2.0 Consensus size: 150
99777331 AGACATGTCT
99777341 TACACTGGCTTACATCTCGAGCCTGATGCATGTCCCAGACATGTCTTACACTAGCGCATAAATGA
1 TACACTGGCTTACATCTCGAGCCTGATGCATGTCCCAGACATGTCTTACACTAGCGCATAAATGA
99777406 CCCAAATGTCATGGCATGAATATCCGATTTGTTCCTAAGGTTCATCCGAGAGTTCTATTATCTCT
66 CCCAAATGTCATGGCATGAATATCCGATTTGTTCCTAAGGTTCATCCGAGAGTTCTATTATCTCT
99777471 ATTATCATCACGTATTTTCA
131 ATTATCATCACGTATTTTCA
99777491 TACACTGGCTTACATCTCGAGCCTGATGCATGTCCCAGACATGTCTTACACTAGCGCATAAATGA
1 TACACTGGCTTACATCTCGAGCCTGATGCATGTCCCAGACATGTCTTACACTAGCGCATAAATGA
99777556 CCCAAATGTCATGGCATGAATATCCGATTTGTTCCTAAGGTTCATCCGAGAGTTCTATTATCTCT
66 CCCAAATGTCATGGCATGAATATCCGATTTGTTCCTAAGGTTCATCCGAGAGTTCTATTATCTCT
99777621 ATTATCATCACGTATTTTCA
131 ATTATCATCACGTATTTTCA
99777641 T
1 T
99777642 TAACACAATT
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 151 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (150 bp):
TACACTGGCTTACATCTCGAGCCTGATGCATGTCCCAGACATGTCTTACACTAGCGCATAAATGA
CCCAAATGTCATGGCATGAATATCCGATTTGTTCCTAAGGTTCATCCGAGAGTTCTATTATCTCT
ATTATCATCACGTATTTTCA
Found at i:99790457 original size:28 final size:29
Alignment explanation
Indices: 99790425--99790508 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 29
99790415 TCTCTTTCAA
*
99790425 ATGGCCCATTAGGCCC-ATTCACATTTAT
1 ATGGCCCATTAGGCCCAAATCACATTTAT
* *
99790453 GTGGCCCATTAGGCCCAAATCACATTCAT
1 ATGGCCCATTAGGCCCAAATCACATTTAT
*
99790482 ATGG-CCACTAGGCCCAAATCACATTTA
1 ATGGCCCATTAGGCCCAAATCACATTTA
99790509 CAATCATGCT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 36 0.73
29 13 0.27
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATTTAT
Found at i:99791272 original size:16 final size:17
Alignment explanation
Indices: 99791240--99791276 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
99791230 GAAAATAAAA
99791240 TTTGAGATTTCGGGATT
1 TTTGAGATTTCGGGATT
*
99791257 TTTGAG-TTTTGGGATT
1 TTTGAGATTTCGGGATT
99791273 TTTG
1 TTTG
99791277 GGGCATTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.14, C:0.03, G:0.30, T:0.54
Consensus pattern (17 bp):
TTTGAGATTTCGGGATT
Found at i:99793900 original size:27 final size:27
Alignment explanation
Indices: 99793861--99793923 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 27
99793851 TGGATAAGTT
99793861 GTAGAATTATTGAAATACCCCTGTA-G
1 GTAGAATTATTGAAATACCCCTGTATG
*
99793887 GATAGAATTATTGAAATACCCTTGTATG
1 G-TAGAATTATTGAAATACCCCTGTATG
99793915 GTAGAATTA
1 GTAGAATTA
99793924 CCGAGATACC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 1 0.03
27 31 0.91
28 2 0.06
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (27 bp):
GTAGAATTATTGAAATACCCCTGTATG
Found at i:99793932 original size:27 final size:26
Alignment explanation
Indices: 99793861--99793952 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 26
99793851 TGGATAAGTT
** *
99793861 GTAGAATTATTGAAATACCCCTGTAG
1 GTAGAATTACCGAAATACCCTTGTAG
**
99793887 GATAGAATTATTGAAATACCCTTGTATG
1 G-TAGAATTACCGAAATACCCTTGTA-G
* *
99793915 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGT-AG
*
99793942 GTAAAATTACC
1 GTAGAATTACC
99793953 ATTTTTCCCC
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.02
27 54 0.95
28 2 0.04
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (26 bp):
GTAGAATTACCGAAATACCCTTGTAG
Found at i:99796707 original size:40 final size:40
Alignment explanation
Indices: 99796661--99796885 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 40
99796651 CGTGCGCAAG
* * *
99796661 GCCTTCGGGTCTTAGCCCGGATGTGGTGACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTGACTAGCACAAAT
*
99796701 GCCTTCGGGACTTAGCCCGGATATAGTCG-CTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGT-GACTAGCACAAAT
* * *
99796741 GCCTTCGGGTTTTAGCCCGGATAAAATCG-CTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGT-GACTAGCACAAAT
** * * *
99796781 GCCTTCGGGTCTTAGCCCGGATATAGCAACTCGTACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTGACTAGCACAAAT
* * * * *
99796821 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTGA-CTAGCACAAAT
*
99796862 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
99796886 CATTCGAATA
Statistics
Matches: 153, Mismatches: 29, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
40 125 0.82
41 28 0.18
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTGACTAGCACAAAT
Found at i:99807099 original size:22 final size:21
Alignment explanation
Indices: 99807071--99807124 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
99807061 TACCTAAAGT
* *
99807071 AGTTTCAGAATATTCTAATCAT
1 AGTTTCAGAA-ATTCTAAACAG
*
99807093 ATTTTCAGACAATTCTAAACAG
1 AGTTTCAGA-AATTCTAAACAG
99807115 AGTTTCAGAA
1 AGTTTCAGAA
99807125 CTTACAAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (21 bp):
AGTTTCAGAAATTCTAAACAG
Found at i:99807212 original size:14 final size:14
Alignment explanation
Indices: 99807183--99807224 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
99807173 AAATATTTCA
*
99807183 ATTTATTTACAAATC
1 ATTTCTTTA-AAATC
99807198 ATTTCTTTAAAATC
1 ATTTCTTTAAAATC
*
99807212 A-ATCTTTAAAATC
1 ATTTCTTTAAAATC
99807225 CAAATCCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 11 0.44
14 6 0.24
15 8 0.32
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTCTTTAAAATC
Found at i:99809675 original size:93 final size:93
Alignment explanation
Indices: 99809516--99809686 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
99809506 GGATGGTTGA
* * *
99809516 GCATCCGAACTCGTGGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTAAACTCGTTGAGT
1 GCATCCGAACTCGTGGAGTTGAGTCCAAGTTCACTTATAGATGCGAACGTCTAAACTCGTTGAGT
99809581 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
99809609 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATAGATGCGAACG-CTCGAGCTTGTTGAG
1 GCATCCGAACTCGTGGAGTTGAGTCCAAGTTCACTTATAGATGCGAACGTCT-AAACTCGTTGAG
99809673 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
99809687 ACTTAGGGCG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTGGAGTTGAGTCCAAGTTCACTTATAGATGCGAACGTCTAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:99809686 original size:46 final size:46
Alignment explanation
Indices: 99809521--99809691 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
99809511 GTTGAGCATC
* * *
99809521 CGAACTCGTGGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-T
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCT
* * * *
99809566 CTAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-A-ATG-TAACTAGGCAT
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAAC---GC-T
*
99809613 CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATAGATGCGAACGCT
1 -CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCT
* *
99809660 CGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
99809692 GGGCGGGTTA
Statistics
Matches: 100, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 4 0.04
46 53 0.53
47 26 0.26
48 5 0.05
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCT
Found at i:99812142 original size:41 final size:41
Alignment explanation
Indices: 99812077--99812159 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
99812067 GAAGTAGAAT
* *
99812077 GTGGGTCTTAAATCTTAGAATACTTCTACAGCCAGTGTAGG
1 GTGGGTCCTAAATCTCAGAATACTTCTACAGCCAGTGTAGG
* *
99812118 GTGGGTCCTAAATCTCAGACTACTTCTACAGCTAGTGTAGG
1 GTGGGTCCTAAATCTCAGAATACTTCTACAGCCAGTGTAGG
99812159 G
1 G
99812160 AACTTGGGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (41 bp):
GTGGGTCCTAAATCTCAGAATACTTCTACAGCCAGTGTAGG
Found at i:99817202 original size:46 final size:46
Alignment explanation
Indices: 99817152--99817277 Score: 182
Period size: 46 Copynumber: 2.7 Consensus size: 46
99817142 TGGTTGAGCA
* *
99817152 TCCGAACTCGTGGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
*
99817198 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
* * *
99817244 ACTGAGCTCGTTGAGTTGAG-TCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTTC-GAGTTCACTTA
99817278 GGGGCGGGTT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 71 0.99
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
Found at i:99820479 original size:28 final size:28
Alignment explanation
Indices: 99820445--99820501 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
99820435 TTCAAAGCCA
*
99820445 AAATGTCATTATATGACCAAATATACTT
1 AAATGTCATTATATAACCAAATATACTT
99820473 AAATGTCATTATATAACCAAATATACTT
1 AAATGTCATTATATAACCAAATATACTT
99820501 A
1 A
99820502 CACTTATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (28 bp):
AAATGTCATTATATAACCAAATATACTT
Found at i:99820931 original size:45 final size:45
Alignment explanation
Indices: 99820817--99821038 Score: 206
Period size: 45 Copynumber: 5.0 Consensus size: 45
99820807 ATGCTATCTC
* *
99820817 ATATCGATGCC-ACTATCCTAGACAG-GGTCTTACACG-AATCA-A-
1 ATATCGATGCCAAC-GTCCTAGAC-GTGGTCTTACACGAAAACACAT
* * * * *
99820859 ATA-CGATGCCGATGTCCTAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCTAGACGTGGTCTTACACGAAAACACAT
* * * *
99820903 ATATCGATGCCAACATCCCAGACGTGGTCTTACTCAAAAACACAT
1 ATATCGATGCCAACGTCCTAGACGTGGTCTTACACGAAAACACAT
* * * *
99820948 ATAT-GATGCAAACGTCCCAGACGTGGCCTTACACGAAAACATAT
1 ATATCGATGCCAACGTCCTAGACGTGGTCTTACACGAAAACACAT
* * * *
99820992 ACAGCGATGCCAACGTCCTAGACATGATCTTACACGAAAACACAT
1 ATATCGATGCCAACGTCCTAGACGTGGTCTTACACGAAAACACAT
99821037 AT
1 AT
99821039 CGAAATCCTA
Statistics
Matches: 145, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
41 26 0.18
42 8 0.06
43 1 0.01
44 39 0.27
45 71 0.49
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (45 bp):
ATATCGATGCCAACGTCCTAGACGTGGTCTTACACGAAAACACAT
Found at i:99820971 original size:44 final size:44
Alignment explanation
Indices: 99820780--99821038 Score: 188
Period size: 45 Copynumber: 5.9 Consensus size: 44
99820770 ATATTGAACA
* * ** * * *
99820780 ATGCCAACGTCCCAGACGAGGTCTTACATGCTATCTCATAT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATG
* * * *
99820823 ATGCC-ACTATCCTAGACAG-GGTCTTACACG-AATCA-A-ATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAAACACATATATG
* * * * * *
99820864 ATGCCGATGTCCTAGACATGGTCTTACACGTAACCACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATAT-G
* * *
99820909 ATGCCAACATCCCAGACGTGGTCTTACTCAAAAACACATATATG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATG
* * * * *
99820953 ATGCAAACGTCCCAGACGTGGCCTTACACGAAAACATATACAGCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATA-TG
* * *
99820998 ATGCCAACGTCCTAGACATGATCTTACACGAAAACACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATAT
99821039 CGAAATCCTA
Statistics
Matches: 172, Mismatches: 34, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
40 2 0.01
41 27 0.16
42 10 0.06
43 23 0.13
44 40 0.23
45 70 0.41
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATG
Found at i:99821605 original size:15 final size:15
Alignment explanation
Indices: 99821582--99821612 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
99821572 TCAAAAATTC
*
99821582 CAATGCAAAACATAT
1 CAATCCAAAACATAT
99821597 CAATCCAAAACATAT
1 CAATCCAAAACATAT
99821612 C
1 C
99821613 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.03, T:0.19
Consensus pattern (15 bp):
CAATCCAAAACATAT
Found at i:99830754 original size:40 final size:40
Alignment explanation
Indices: 99830717--99830862 Score: 197
Period size: 40 Copynumber: 3.6 Consensus size: 40
99830707 GCTACTCGTT
* *
99830717 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
99830757 CAAATGCCTTCGGGACTTAAACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
99830797 CAAATGCCTTCGGGACTTAACCCGGATTTGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
*
99830838 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
99830863 CATCATTCAA
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 86 0.90
41 10 0.10
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:99834938 original size:40 final size:38
Alignment explanation
Indices: 99834713--99834940 Score: 226
Period size: 38 Copynumber: 5.9 Consensus size: 38
99834703 ATTTGATGTG
*
99834713 TATCCGGGCTTAAAGACCCGCAGGCTATA-TGCTGG-AATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TAGTGCTGGTAA-TA
* ** * *
99834753 TATTCGGGTTAAATCCCATAGGCTTCGCGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATA
* * *
99834791 TATCCGGGTTAAATCCCACAGGCTTCGCGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATA
* *
99834829 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATA
* * *
99834867 TATCCGGGTTAAATCTCGCAGGCCTAGTGCTGGTACTA
1 TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATA
* * * *
99834905 TATCTGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TATCCG-GGTTAAA-TCCCGCAGGCTTAGTGCTGGT
99834941 GACTGGATTC
Statistics
Matches: 163, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
37 1 0.01
38 125 0.77
39 13 0.08
40 24 0.15
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATA
Found at i:99836773 original size:30 final size:30
Alignment explanation
Indices: 99836738--99836801 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
99836728 GTTCTAACCT
* *
99836738 TTTTCATAGCTCAATAGCTGAAGCTATCCC
1 TTTTCATAGCCCAATAACTGAAGCTATCCC
*
99836768 TTTTCATAGCCCGATAACTGAAGCTATCCC
1 TTTTCATAGCCCAATAACTGAAGCTATCCC
99836798 TTTT
1 TTTT
99836802 TCATTATTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (30 bp):
TTTTCATAGCCCAATAACTGAAGCTATCCC
Found at i:99836835 original size:30 final size:30
Alignment explanation
Indices: 99836793--99837018 Score: 129
Period size: 30 Copynumber: 7.6 Consensus size: 30
99836783 AACTGAAGCT
*
99836793 ATCCCTTTTTCATTATTTGATGGTCATCACC
1 ATCCC-TTTTCATTATTTGATGGTCGTCACC
*
99836824 ATCCCTTTTCATT-GTTGATGGTCGTCACC
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
* * * *
99836853 ATCCCTTTTCATAATTTGATTG-C-TGAAGCT
1 ATCCCTTTTCATTATTTGATGGTCGT-CA-CC
* ** ** * ***
99836883 ATCACTTTTCACAATTCAATAG-CCAAAGCC
1 ATCCCTTTTCATTATTTGATGGTCGTCA-CC
* * * *
99836913 ATCCCTTTTCACTCTTCGATGGTCGTCA-T
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
99836942 ATCCCTTTTCATTATTTGATGGTCGTCACC
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
** * * * *** *
99836972 GCCCCTTTTCATAATTTGATAGCCGAGGCT
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
99837002 ATCCCTTTTCATTATTT
1 ATCCCTTTTCATTATTT
99837019 TGATAGCTGA
Statistics
Matches: 150, Mismatches: 39, Indels: 13
0.74 0.19 0.06
Matches are distributed among these distances:
28 1 0.01
29 53 0.35
30 89 0.59
31 7 0.05
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATTATTTGATGGTCGTCACC
Found at i:99836846 original size:29 final size:30
Alignment explanation
Indices: 99836793--99836864 Score: 110
Period size: 29 Copynumber: 2.4 Consensus size: 30
99836783 AACTGAAGCT
*
99836793 ATCCCTTTTTCATTATTTGATGGTCATCACC
1 ATCCC-TTTTCATTAGTTGATGGTCATCACC
*
99836824 ATCCCTTTTCATT-GTTGATGGTCGTCACC
1 ATCCCTTTTCATTAGTTGATGGTCATCACC
99836853 ATCCCTTTTCAT
1 ATCCCTTTTCAT
99836865 AATTTGATTG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 26 0.67
30 8 0.21
31 5 0.13
ACGTcount: A:0.17, C:0.28, G:0.11, T:0.44
Consensus pattern (30 bp):
ATCCCTTTTCATTAGTTGATGGTCATCACC
Found at i:99836949 original size:29 final size:29
Alignment explanation
Indices: 99836913--99836969 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
99836903 AGCCAAAGCC
*
99836913 ATCCCTTTTCACTCTTCGATGGTCGTCAT
1 ATCCCTTTTCACTATTCGATGGTCGTCAT
* *
99836942 ATCCCTTTTCATTATTTGATGGTCGTCA
1 ATCCCTTTTCACTATTCGATGGTCGTCA
99836970 CCGCCCCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.16, C:0.26, G:0.14, T:0.44
Consensus pattern (29 bp):
ATCCCTTTTCACTATTCGATGGTCGTCAT
Found at i:99836981 original size:119 final size:120
Alignment explanation
Indices: 99836788--99837012 Score: 310
Period size: 119 Copynumber: 1.9 Consensus size: 120
99836778 CCGATAACTG
* * *
99836788 AAGCTATCCCTTTTTCATTATTTGATGGTCATCACCATCCCTTTTCATTGTTGATGGTCGTCACC
1 AAGCCATCCCTTTTTCACTATTCGATGGTCATCACCATCCCTTTTCATTGTTGATGGTCGTCACC
* * *
99836853 ATCCCTTTTCATAATTTGATTGCTGAAGCTATCACTTTTCACAATTCAATAGCCA
66 ACCCCTTTTCATAATTTGATAGCCGAAGCTATCACTTTTCACAATTCAATAGCCA
* * * *
99836908 AAGCCATCCC-TTTTCACTCTTCGATGGTCGTCA-TATCCCTTTTCATTATTTGATGGTCGTCAC
1 AAGCCATCCCTTTTTCACTATTCGATGGTCATCACCATCCCTTTTCATT-GTTGATGGTCGTCAC
* * *
99836971 CGCCCCTTTTCATAATTTGATAGCCGAGGCTATCCCTTTTCA
65 CACCCCTTTTCATAATTTGATAGCCGAAGCTATCACTTTTCA
99837013 TTATTTTGAT
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
118 13 0.14
119 69 0.76
120 9 0.10
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (120 bp):
AAGCCATCCCTTTTTCACTATTCGATGGTCATCACCATCCCTTTTCATTGTTGATGGTCGTCACC
ACCCCTTTTCATAATTTGATAGCCGAAGCTATCACTTTTCACAATTCAATAGCCA
Found at i:99837024 original size:31 final size:31
Alignment explanation
Indices: 99836974--99837047 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
99836964 TCGTCACCGC
**
99836974 CCCTTTTCA-TAATTTGATAGCCGAGGCTAT
1 CCCTTTTCATTAATTTGATAGCCGAAACTAT
* *
99837004 CCCTTTTCATTATTTTGATAGCTGAAACTAT
1 CCCTTTTCATTAATTTGATAGCCGAAACTAT
99837035 CCCTTTTCATTAA
1 CCCTTTTCATTAA
99837048 CCGATGATCA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
30 9 0.24
31 29 0.76
ACGTcount: A:0.24, C:0.23, G:0.11, T:0.42
Consensus pattern (31 bp):
CCCTTTTCATTAATTTGATAGCCGAAACTAT
Found at i:99837133 original size:12 final size:14
Alignment explanation
Indices: 99837104--99837135 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
99837094 TGACATTATA
99837104 TAAAATAATAACTT
1 TAAAATAATAACTT
99837118 TAAAAT-ATAA-TT
1 TAAAATAATAACTT
99837130 TAAAAT
1 TAAAAT
99837136 GCTATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 4 0.22
14 6 0.33
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAAATAATAACTT
Found at i:99840272 original size:42 final size:42
Alignment explanation
Indices: 99840225--99840315 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
99840215 TGTGATTTCA
*
99840225 TGTAAGACCATGTAT-GAGACATTGGTATCGATATGAGATTCG
1 TGTAAGACCATGTATAG-GACATTGGCATCGATATGAGATTCG
*
99840267 TGTAAGACCATGTCTAGGACATTGGCATCGATATGAGATTCG
1 TGTAAGACCATGTATAGGACATTGGCATCGATATGAGATTCG
99840309 TGTAAGA
1 TGTAAGA
99840316 ACATAGCTGG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTATAGGACATTGGCATCGATATGAGATTCG
Found at i:99840333 original size:42 final size:42
Alignment explanation
Indices: 99840225--99840342 Score: 143
Period size: 42 Copynumber: 2.8 Consensus size: 42
99840215 TGTGATTTCA
* * *
99840225 TGTAAGACCATGTAT-GAGACATTGGTATCGATATGAGATTCG
1 TGTAAGAACATGTCTAG-GACATTGGCATCGATATGAGATTCG
*
99840267 TGTAAGACCATGTCTAGGACATTGGCATCGATATGAGATTCG
1 TGTAAGAACATGTCTAGGACATTGGCATCGATATGAGATTCG
*
99840309 TGTAAGAACATAG-CT-GGGCTATTGGCATCGATAT
1 TGTAAGAACAT-GTCTAGGAC-ATTGGCATCGATAT
99840343 ACTATAACAT
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
41 3 0.04
42 64 0.93
43 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGAACATGTCTAGGACATTGGCATCGATATGAGATTCG
Found at i:99847216 original size:27 final size:27
Alignment explanation
Indices: 99847186--99847244 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
99847176 GAAACATAAA
99847186 GGCATAATCGTCATTTTACCATACAGG
1 GGCATAATCGTCATTTTACCATACAGG
* * *
99847213 GGCATTATGGTCATTTTACCCTACAGG
1 GGCATAATCGTCATTTTACCATACAGG
99847240 GGCAT
1 GGCAT
99847245 TATGGTCCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (27 bp):
GGCATAATCGTCATTTTACCATACAGG
Found at i:99847245 original size:27 final size:27
Alignment explanation
Indices: 99847195--99847388 Score: 204
Period size: 27 Copynumber: 7.4 Consensus size: 27
99847185 AGGCATAATC
* *
99847195 GTCATTTTACCATACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGTATTATG
*
99847222 GTCATTTTACCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGTATTATG
*
99847249 G------T-CCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
* * *
99847269 ATCATTTTTACCTTATAGGGGTATTATG
1 GTCA-TTTTACCCTACAGGGGTATTATG
*
99847297 GTCATTTTACCCTATAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTATG
* *
99847324 GTCATTTTACCCTAGAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
* * *
99847351 ATCATTTTACCCTAAAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
*
99847378 GTTATTTTACC
1 GTCATTTTACC
99847389 TATTTTGGGG
Statistics
Matches: 144, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
20 16 0.11
21 1 0.01
27 109 0.76
28 18 0.12
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTATG
Found at i:99847276 original size:47 final size:48
Alignment explanation
Indices: 99847207--99847299 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 48
99847197 CATTTTACCA
* *
99847207 TACAGGGGCATTATGGTCA-TTTTACCCTACAGGGGCATTATGGTCCC
1 TACAGGGGCATTACGATCATTTTTACCCTACAGGGGCATTATGGTCCC
* * * *
99847254 TACAGGGGTATTACGATCATTTTTACCTTATAGGGGTATTATGGTC
1 TACAGGGGCATTACGATCATTTTTACCCTACAGGGGCATTATGGTC
99847300 ATTTTACCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 16 0.41
48 23 0.59
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (48 bp):
TACAGGGGCATTACGATCATTTTTACCCTACAGGGGCATTATGGTCCC
Found at i:99847295 original size:75 final size:76
Alignment explanation
Indices: 99847196--99847388 Score: 228
Period size: 75 Copynumber: 2.5 Consensus size: 76
99847186 GGCATAATCG
* *
99847196 TCATTTTACCATACAGGGGCATTATGGTCATTTTACCCTACAGGGGCATTATGG-T-CCCTACAG
1 TCATTTTACCATAAAGGGGTATTATGGTCATTTTACCCTACAGGGGCATTATGGTTACCCTACAG
99847259 GGGTATTACGA
66 GGGTATTACGA
* * * *
99847270 TCATTTTTACCTTATAGGGGTATTATGGTCATTTTACCCTATAGGGGTATTATGGTCATTTTACC
1 TCA-TTTTACCATAAAGGGGTATTATGGTCATTTTACCCTACAGGGGCATTATGG-----TTACC
*
99847335 CTAGAGGGGTATTACGA
60 CTACAGGGGTATTACGA
* * *
99847352 TCATTTTACCCTAAAGGGGTATTACGGTTATTTTACC
1 TCATTTTACCATAAAGGGGTATTATGGTCATTTTACC
99847389 TATTTTGGGG
Statistics
Matches: 101, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
74 3 0.03
75 46 0.46
81 31 0.31
82 21 0.21
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (76 bp):
TCATTTTACCATAAAGGGGTATTATGGTCATTTTACCCTACAGGGGCATTATGGTTACCCTACAG
GGGTATTACGA
Found at i:99850851 original size:46 final size:46
Alignment explanation
Indices: 99850801--99851162 Score: 352
Period size: 46 Copynumber: 7.8 Consensus size: 46
99850791 TGGTTGAGCA
*
99850801 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
99850847 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
99850892 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
99850940 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
99850985 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
99851033 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
99851078 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
99851126 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
99851163 GCGGGTTACA
Statistics
Matches: 260, Mismatches: 29, Indels: 54
0.76 0.08 0.16
Matches are distributed among these distances:
42 6 0.02
43 15 0.06
45 9 0.03
46 117 0.45
47 84 0.32
48 9 0.03
50 14 0.05
51 6 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:99850913 original size:47 final size:47
Alignment explanation
Indices: 99850847--99851108 Score: 301
Period size: 47 Copynumber: 5.6 Consensus size: 47
99850837 GATGCGAATG
99850847 TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * * *
99850894 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
99850940 TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * * *
99850987 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
99851033 TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
*
99851080 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC
99851109 ACTTATGGAT
Statistics
Matches: 180, Mismatches: 17, Indels: 36
0.77 0.07 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.06
45 6 0.03
46 56 0.31
47 84 0.47
48 6 0.03
50 10 0.06
51 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:99850957 original size:93 final size:93
Alignment explanation
Indices: 99850798--99851155 Score: 671
Period size: 93 Copynumber: 3.8 Consensus size: 93
99850788 GGATGGTTGA
*
99850798 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
99850863 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
99850891 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
99850956 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
99850984 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
99851049 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
99851077 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
99851142 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
99851156 CTTATGGGCG
Statistics
Matches: 260, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 260 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:99853162 original size:65 final size:65
Alignment explanation
Indices: 99853086--99853216 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
99853076 TTAAAATACT
99853086 TGAGTAATCTCAAACCCCTCATCTCCTCTTTCCTTTAAGCCAAACTCTTGATTTTTTCTTCCCTA
1 TGAGTAATCTCAAACCCCTCATCTCCTCTTTCCTTTAAGCCAAACTCTTGATTTTTTCTTCCCTA
99853151 TGAGTAATCTCAAACCCCTCATCTCCTCTTTCCTTTAAGCCAAACTCTTGATTTTTTCTTCCCTA
1 TGAGTAATCTCAAACCCCTCATCTCCTCTTTCCTTTAAGCCAAACTCTTGATTTTTTCTTCCCTA
99853216 T
1 T
99853217 TTTAATCAAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.21, C:0.32, G:0.06, T:0.40
Consensus pattern (65 bp):
TGAGTAATCTCAAACCCCTCATCTCCTCTTTCCTTTAAGCCAAACTCTTGATTTTTTCTTCCCTA
Found at i:99855519 original size:46 final size:44
Alignment explanation
Indices: 99855376--99855519 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
99855366 CCCGCCCATA
* *
99855376 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
99855425 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
*
99855468 AAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
99855515 AGTGA
1 AGTGA
99855520 TATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 32 0.42
47 28 0.37
48 4 0.05
49 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:99857211 original size:132 final size:131
Alignment explanation
Indices: 99856993--99857328 Score: 348
Period size: 132 Copynumber: 2.5 Consensus size: 131
99856983 AGTGATTAAG
* * * * * * * *
99856993 AAATCAGCTAACACAGATGAGATTGTTCATGAAATTAATTCAAATGAACTTAGGTTGCAATCTTA
1 AAATCAGCTAACTCAAATAAAATTATTCATGATATTAA-TCGAATGAACTTAGGTTGCGATCTTA
* * * * * * *
99857058 TATTAGTGAGTCATTAATGATATCAGCTGCGATCTTAAATCAATGAGCAATTTAGATTAGTGACA
65 AATTAGTGAGCCATTAATGATATCAGCTACGATATTAAATCAACGAGCAATTTAGAGTACTGACA
99857123 GT
130 GT
** **
99857125 AAATTGGCTAACTCAAATAAAATTATTCATGATATTGAATCGAATGAACTTAGGCCGCGATCTTA
1 AAATCAGCTAACTCAAATAAAATTATTCATGATATT-AATCGAATGAACTTAGGTTGCGATCTTA
* * * * * ** *
99857190 AATTAGTGAGCCGTTAATGATATTAGTTATGATATTAAATTAACGAGCTGTTTAGAGTACTGATA
65 AATTAGTGAGCCATTAATGATATCAGCTACGATATTAAATCAACGAGCAATTTAGAGTACTGACA
99857255 GT
130 GT
* * * * * *
99857257 AAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGATTGTACTTAGATTGCGATATTA
1 AAATCAGCTAACTCAAATAAAATTATTCATGATATT-AATCGAATGAACTTAGGTTGCGATCTTA
99857322 AATTAGT
65 AATTAGT
99857329 AAGTTGTTTA
Statistics
Matches: 165, Mismatches: 38, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
132 163 0.99
133 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (131 bp):
AAATCAGCTAACTCAAATAAAATTATTCATGATATTAATCGAATGAACTTAGGTTGCGATCTTAA
ATTAGTGAGCCATTAATGATATCAGCTACGATATTAAATCAACGAGCAATTTAGAGTACTGACAG
T
Found at i:99857384 original size:95 final size:95
Alignment explanation
Indices: 99857220--99857836 Score: 338
Period size: 95 Copynumber: 6.7 Consensus size: 95
99857210 TATTAGTTAT
* * * * * *
99857220 GATATTAAATTAACGAGCTGTTTAGAG-TACTGATAGTAAATCAGCTAACTCAAATAAAATTGTT
1 GATATTAAATTAGCAAGCTATTTAGAGCAAC-AATATTAAATCAGCTAACTCAAATAAAATTGTT
* * * *
99857284 CATGATGTTAAATCGATTGTACTT-AGATTGC
65 AATGATGTTAAATCGAATGAACTTAAG-CTGC
* * * ** *
99857315 GATATTAAATTAGTAAGTTGTTTAGAGCAACAATATTAAATTGGCTAACT-AAGATAAAATTATT
1 GATATTAAATTAGCAAGCTATTTAGAGCAACAATATTAAATCAGCTAACTCAA-ATAAAATTGTT
*
99857379 AATGATGTTAAATTGAATGAACTTAAGCTGC
65 AATGATGTTAAATCGAATGAACTTAAGCTGC
* * *** *
99857410 GATCTTAAATTAGCAAGCTATTTGGAGCAGTGATATTAAATCAGCTAACTCAAATAAAATTGTTT
1 GATATTAAATTAGCAAGCTATTTAGAGCAACAATATTAAATCAGCTAACTCAAATAAAATTGTTA
* * * **
99857475 ATGGTGTTAAATTGAATGAATTTAAGCTAT
66 ATGATGTTAAATCGAATGAACTTAAGCTGC
* * * * ** * * *
99857505 GATCTTAAATCATCAA--TA-TTA-A--ATC-A-CCT-AA-C--TTAAAT--A---AAATTGTTC
1 GATATTAAATTAGCAAGCTATTTAGAGCAACAATATTAAATCAGCTAACTCAAATAAAATTGTTA
* *
99857553 ATGATGTTAAATCGAATGAACTTAGGCTAC
66 ATGATGTTAAATCGAATGAACTTAAGCTGC
* * * * * * * ** *
99857583 AATATTAAATCAACGAGCTGTTTGGAGCTATGATATTAAATCAGCTAACTCAAATAAAATTGTTT
1 GATATTAAATTAGCAAGCTATTTAGAGCAACAATATTAAATCAGCTAACTCAAATAAAATTGTTA
* * **
99857648 ATGATGTTAAATCGAATAAACTCAAATTGC
66 ATGATGTTAAATCGAATGAACTTAAGCTGC
* * * * * * * ** * * *
99857678 AATCTTAAATCAACGAGCCATTTGGAGCAGTAATATTAAATCAGCTAACTTAGATAAAATTGTTC
1 GATATTAAATTAGCAAGCTATTTAGAGCAACAATATTAAATCAGCTAACTCAAATAAAATTGTTA
* * * *
99857743 ATGATATTAAATCAAATGAACTTAGGTTGC
66 ATGATGTTAAATCGAATGAACTTAAGCTGC
* * ** ** * * * * * *
99857773 AATCTTAAATTAGTGAGCCGTTTGGAGTAGCGATATTAAATCAACTAACTCAAATAAAGTTGTT
1 GATATTAAATTAGCAAGCTATTTAGAGCAACAATATTAAATCAGCTAACTCAAATAAAATTGTT
99857837 CATAATAGAT
Statistics
Matches: 409, Mismatches: 92, Indels: 42
0.75 0.17 0.08
Matches are distributed among these distances:
78 45 0.11
80 1 0.00
81 3 0.01
82 1 0.00
83 4 0.01
85 2 0.00
86 3 0.01
87 3 0.01
88 2 0.00
89 1 0.00
90 4 0.01
91 1 0.00
92 3 0.01
93 2 0.00
94 2 0.00
95 326 0.80
96 6 0.01
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.34
Consensus pattern (95 bp):
GATATTAAATTAGCAAGCTATTTAGAGCAACAATATTAAATCAGCTAACTCAAATAAAATTGTTA
ATGATGTTAAATCGAATGAACTTAAGCTGC
Found at i:99857591 original size:78 final size:78
Alignment explanation
Indices: 99857442--99857594 Score: 216
Period size: 78 Copynumber: 2.0 Consensus size: 78
99857432 TGGAGCAGTG
* * * * * **
99857442 ATATTAAATCAGCTAACTCAAATAAAATTGTTTATGGTGTTAAATTGAATGAATTTAAGCTATGA
1 ATATTAAATCACCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAAGCTACAA
*
99857507 TCTTAAATCATCA
66 TATTAAATCATCA
* *
99857520 ATATTAAATCACCTAACTTAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCTACAA
1 ATATTAAATCACCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAAGCTACAA
99857585 TATTAAATCA
66 TATTAAATCA
99857595 ACGAGCTGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 65 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (78 bp):
ATATTAAATCACCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAAGCTACAA
TATTAAATCATCA
Found at i:99857634 original size:173 final size:173
Alignment explanation
Indices: 99857345--99857664 Score: 464
Period size: 173 Copynumber: 1.8 Consensus size: 173
99857335 TTTAGAGCAA
*** * *
99857345 CAATATTAAATTGGCTAACTAAGATAAAATTATTAATGATGTTAAATTGAATGAACTTAAGCTGC
1 CAATATTAAATCACCTAACTAAGATAAAATTATTAATGATGTTAAATCGAATGAACTTAAGCTAC
* * * *
99857410 GATCTTAAATTAGCAAGCTATTTGGAGCAGTGATATTAAATCAGCTAACTCAAATAAAATTGTTT
66 AATATTAAATCAACAAGCTATTTGGAGCAGTGATATTAAATCAGCTAACTCAAATAAAATTGTTT
* *
99857475 ATGGTGTTAAATTGAATGAATTTAAGCTATGATCTTAAATCAT
131 ATGATGTTAAATCGAATGAATTTAAGCTATGATCTTAAATCAT
* * *
99857518 CAATATTAAATCACCTAACTTAA-ATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCTA
1 CAATATTAAATCACCTAAC-TAAGATAAAATTATTAATGATGTTAAATCGAATGAACTTAAGCTA
* *
99857582 CAATATTAAATCAACGAGCTGTTTGGAGCTA-TGATATTAAATCAGCTAACTCAAATAAAATTGT
65 CAATATTAAATCAACAAGCTATTTGGAGC-AGTGATATTAAATCAGCTAACTCAAATAAAATTGT
99857646 TTATGATGTTAAATCGAAT
129 TTATGATGTTAAATCGAAT
99857665 AAACTCAAAT
Statistics
Matches: 129, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
173 125 0.97
174 4 0.03
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (173 bp):
CAATATTAAATCACCTAACTAAGATAAAATTATTAATGATGTTAAATCGAATGAACTTAAGCTAC
AATATTAAATCAACAAGCTATTTGGAGCAGTGATATTAAATCAGCTAACTCAAATAAAATTGTTT
ATGATGTTAAATCGAATGAATTTAAGCTATGATCTTAAATCAT
Found at i:99857737 original size:268 final size:268
Alignment explanation
Indices: 99857256--99857741 Score: 650
Period size: 268 Copynumber: 1.8 Consensus size: 268
99857246 GTACTGATAG
* * * * * *
99857256 TAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGATTGTACTTAGATTGCGATATT
1 TAAATCACCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGACTACAATATT
* ** * **
99857321 AAATTAGTAAGTTGTTTAGAGCAACAATATTAAATTGGCTAACTAAGATAAAATTATTAATGATG
66 AAATCAACAAGCTGTTTAGAGCAACAATATTAAATCAGCTAACTAAGATAAAATTATTAATGATG
* * * * * * * * *
99857386 TTAAATTGAATGAACTTAAGCTGCGATCTTAAATTAGCAAGCTATTTGGAGCAGTGATATTAAAT
131 TTAAATCGAATAAACTCAAACTGCAATCTTAAATCAACAAGCCATTTGGAGCAGTAATATTAAAT
99857451 CAGCTAACTCAAATAAAATTGTTTATGGTGTTAAATTGAATGAATTTAAGCTATGATCTTAAATC
196 CAGCTAACTCAAATAAAATTGTTTATGGTGTTAAATTGAATGAATTTAAGCTATGATCTTAAATC
99857516 ATCAATAT
261 ATCAATAT
* *
99857524 TAAATCACCTAACTTAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCTACAATATT
1 TAAATCACCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGACTACAATATT
* * * ** * *
99857589 AAATCAACGAGCTGTTTGGAGCTATGATATTAAATCAGCTAACTCAA-ATAAAATTGTTTATGAT
66 AAATCAACAAGCTGTTTAGAGCAACAATATTAAATCAGCTAACT-AAGATAAAATTATTAATGAT
* *
99857653 GTTAAATCGAATAAACTCAAATTGCAATCTTAAATCAACGAGCCATTTGGAGCAGTAATATTAAA
130 GTTAAATCGAATAAACTCAAACTGCAATCTTAAATCAACAAGCCATTTGGAGCAGTAATATTAAA
* *
99857718 TCAGCTAACTTAGATAAAATTGTT
195 TCAGCTAACTCAAATAAAATTGTT
99857742 CATGATATTA
Statistics
Matches: 183, Mismatches: 34, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
268 181 0.99
269 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (268 bp):
TAAATCACCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGACTACAATATT
AAATCAACAAGCTGTTTAGAGCAACAATATTAAATCAGCTAACTAAGATAAAATTATTAATGATG
TTAAATCGAATAAACTCAAACTGCAATCTTAAATCAACAAGCCATTTGGAGCAGTAATATTAAAT
CAGCTAACTCAAATAAAATTGTTTATGGTGTTAAATTGAATGAATTTAAGCTATGATCTTAAATC
ATCAATAT
Found at i:99857837 original size:95 final size:95
Alignment explanation
Indices: 99857520--99857839 Score: 408
Period size: 95 Copynumber: 3.4 Consensus size: 95
99857510 TAAATCATCA
* * * *
99857520 ATATTAAATCACCTAACTTAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCTACAA
1 ATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGTTGCAA
* *
99857585 TATTAAATCAACGAGCTGTTTGGAGCTA-TG
66 TCTTAAATCAACGAGCCGTTTGGAG-TAGTG
* * * **
99857615 ATATTAAATCAGCTAACTCAAATAAAATTGTTTATGATGTTAAATCGAATAAACTCAAATTGCAA
1 ATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGTTGCAA
* * *
99857680 TCTTAAATCAACGAGCCATTTGGAGCAGTA
66 TCTTAAATCAACGAGCCGTTTGGAGTAGTG
* * * *
99857710 ATATTAAATCAGCTAACTTAGATAAAATTGTTCATGATATTAAATCAAATGAACTTAGGTTGCAA
1 ATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGTTGCAA
* ** *
99857775 TCTTAAATTAGTGAGCCGTTTGGAGTAGCG
66 TCTTAAATCAACGAGCCGTTTGGAGTAGTG
* *
99857805 ATATTAAATCAACTAACTCAAATAAAGTTGTTCAT
1 ATATTAAATCAGCTAACTCAAATAAAATTGTTCAT
99857840 AATAGATAAA
Statistics
Matches: 190, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
94 1 0.01
95 189 0.99
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (95 bp):
ATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGTTGCAA
TCTTAAATCAACGAGCCGTTTGGAGTAGTG
Found at i:99869518 original size:47 final size:46
Alignment explanation
Indices: 99869434--99869553 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 46
99869424 TATAATGCTG
* * * * *
99869434 ATGCCATGTCCTAGACATGGTCTTACAGTGGCTCATCTATC-AAGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATC--TCGAAGCCA
* *
99869481 ATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGAAGCCA
99869527 ATG-CATGTCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
99869554 AGCTTACGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
44 10 0.15
45 16 0.25
46 6 0.09
47 33 0.51
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGAAGCCA
Found at i:99873200 original size:25 final size:24
Alignment explanation
Indices: 99873125--99873203 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 24
99873115 CGAATGGCCA
*
99873125 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGATGAATGTGAAAGTG-CTAT
* * *
99873150 ATGTGAT-AAGGCTGAATG-GCCA-
1 ATGTGATGAATG-TGAAAGTGCTAT
99873172 ATGTGATGAATGTGAAAGTGCATAT
1 ATGTGATGAATGTGAAAGTGC-TAT
99873197 ATGTGAT
1 ATGTGAT
99873204 AAGGCCGAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
22 12 0.29
23 6 0.14
24 5 0.12
25 19 0.45
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.32
Consensus pattern (24 bp):
ATGTGATGAATGTGAAAGTGCTAT
Found at i:99873214 original size:31 final size:30
Alignment explanation
Indices: 99873179--99873236 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
99873169 CCAATGTGAT
99873179 GAAT-GTGAAAGTGCATATATGTGATAAGGCC
1 GAATGGTGAAAGTG-ATATATGTG-TAAGGCC
* *
99873210 GAATGGTTAATGTGATATATGTGTAAG
1 GAATGGTGAAAGTGATATATGTGTAAG
99873237 TGAATATGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.17
31 13 0.54
32 7 0.29
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.31
Consensus pattern (30 bp):
GAATGGTGAAAGTGATATATGTGTAAGGCC
Found at i:99873259 original size:45 final size:46
Alignment explanation
Indices: 99873115--99873270 Score: 192
Period size: 47 Copynumber: 3.3 Consensus size: 46
99873105 AGCTTAAGAT
**
99873115 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGG
1 CGAATGGCCAATGTGATGAATGTGAAAGTGCATATATGTGATAAGG
99873161 CTGAATGGCCAATGTGATGAATGTGAAAGTGCATATATGTGATAAGG
1 C-GAATGGCCAATGTGATGAATGTGAAAGTGCATATATGTGATAAGG
** *
99873208 CCGAATGGTTAATGTGAT-ATATGTGTAAGTG-A-ATATGTGATAAGG
1 -CGAATGGCCAATGTGATGA-ATGTGAAAGTGCATATATGTGATAAGG
*
99873253 TCGAATGACCAATTGTGA
1 -CGAATGGCCAA-TGTGA
99873271 AAAGTGTGCA
Statistics
Matches: 97, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
45 21 0.22
46 8 0.08
47 67 0.69
48 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGCATATATGTGATAAGG
Found at i:99873424 original size:40 final size:39
Alignment explanation
Indices: 99873347--99873425 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
99873337 ATTGTGCTAA
* * *
99873347 GATTGTATCCGGGTTAGAGACCCGCTGGCTTCATGCTGG
1 GATTGTATCCGGGTTAAAGACCCGCAGGCTTAATGCTGG
* * *
99873386 GATTGTATCCGAGTTTAAAGTCCTGCAGGCTTAATGCTGG
1 GATTGTATCCG-GGTTAAAGACCCGCAGGCTTAATGCTGG
99873426 TGAATTAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 11 0.33
40 22 0.67
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (39 bp):
GATTGTATCCGGGTTAAAGACCCGCAGGCTTAATGCTGG
Found at i:99887476 original size:15 final size:15
Alignment explanation
Indices: 99887455--99887529 Score: 71
Period size: 15 Copynumber: 4.9 Consensus size: 15
99887445 CAATGAAAAG
*
99887455 GATGAAAAGGTTATT
1 GATGAAAAGGTTATC
*
99887470 TATGAAAAGGTTATC
1 GATGAAAAGGTTATC
* *
99887485 GATGAAAAGGTTGTT
1 GATGAAAAGGTTATC
* *
99887500 GA-AAAGAAGATTATC
1 GATGAA-AAGGTTATC
99887515 GATTGAAAAGGTTAT
1 GA-TGAAAAGGTTAT
99887530 TCAAATAATA
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
14 2 0.04
15 35 0.76
16 7 0.15
17 2 0.04
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (15 bp):
GATGAAAAGGTTATC
Found at i:99887491 original size:30 final size:30
Alignment explanation
Indices: 99887455--99887530 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
99887445 CAATGAAAAG
* * *
99887455 GATGAAAAGGTTATTTATGAA-AAGGTTATC
1 GATGAAAAGGTTATTGA-AAAGAAGATTATC
*
99887485 GATGAAAAGGTTGTTGAAAAGAAGATTATC
1 GATGAAAAGGTTATTGAAAAGAAGATTATC
99887515 GATTGAAAAGGTTATT
1 GA-TGAAAAGGTTATT
99887531 CAAATAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.05
30 25 0.64
31 12 0.31
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.32
Consensus pattern (30 bp):
GATGAAAAGGTTATTGAAAAGAAGATTATC
Found at i:99890203 original size:13 final size:13
Alignment explanation
Indices: 99890185--99890209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99890175 AGGCCGTGTG
99890185 AGGGACATGGGCC
1 AGGGACATGGGCC
99890198 AGGGACATGGGC
1 AGGGACATGGGC
99890210 GTGTACTTGG
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:0.24, C:0.20, G:0.48, T:0.08
Consensus pattern (13 bp):
AGGGACATGGGCC
Found at i:99899786 original size:43 final size:43
Alignment explanation
Indices: 99899715--99899817 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
99899705 GATATTGTGC
* * *
99899715 AAGACCGTGTCTGGGACACAGGCCTCGAT-TTGAAATTTCATGT
1 AAGACCCTGTCTGGGACACAGGCCTCGATACTG-AATTACATGT
* * *
99899758 AAGACCCTGTCTGGGATAGAGGCTTCGATACTGAATTACATGT
1 AAGACCCTGTCTGGGACACAGGCCTCGATACTGAATTACATGT
99899801 AAGACCAC-GTCTGGGAC
1 AAGACC-CTGTCTGGGAC
99899818 GTTGGAATTG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
43 48 0.94
44 3 0.06
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (43 bp):
AAGACCCTGTCTGGGACACAGGCCTCGATACTGAATTACATGT
Found at i:99910457 original size:22 final size:22
Alignment explanation
Indices: 99910430--99910523 Score: 100
Period size: 22 Copynumber: 4.3 Consensus size: 22
99910420 CCTTCAGTCG
*
99910430 TCCTGTCTACGGTGTTGAGCCA
1 TCCTGTCTACGGCGTTGAGCCA
* * * *
99910452 TTCTGTCTACTGCGTTGAGTCG
1 TCCTGTCTACGGCGTTGAGCCA
*
99910474 TCCTGTCTATGGCGTTGAG-CA
1 TCCTGTCTACGGCGTTGAGCCA
* *
99910495 GTCCTATCTACGGCGTTGAGCCG
1 -TCCTGTCTACGGCGTTGAGCCA
99910518 TCCTGT
1 TCCTGT
99910524 TAACTTAGTG
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
21 1 0.02
22 55 0.96
23 1 0.02
ACGTcount: A:0.12, C:0.27, G:0.28, T:0.34
Consensus pattern (22 bp):
TCCTGTCTACGGCGTTGAGCCA
Found at i:99910474 original size:44 final size:44
Alignment explanation
Indices: 99910425--99910523 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
99910415 TACGACCTTC
* * * *
99910425 AGTCGTCCTGTCTACGGTGTTGAGCCA-TTCTGTCTACTGCGTTG
1 AGTCGTCCTGTCTACGGCGTTGAG-CAGTCCTATCTACGGCGTTG
*
99910469 AGTCGTCCTGTCTATGGCGTTGAGCAGTCCTATCTACGGCGTTG
1 AGTCGTCCTGTCTACGGCGTTGAGCAGTCCTATCTACGGCGTTG
*
99910513 AGCCGTCCTGT
1 AGTCGTCCTGT
99910524 TAACTTAGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
43 2 0.04
44 46 0.96
ACGTcount: A:0.12, C:0.26, G:0.28, T:0.33
Consensus pattern (44 bp):
AGTCGTCCTGTCTACGGCGTTGAGCAGTCCTATCTACGGCGTTG
Found at i:99912293 original size:16 final size:16
Alignment explanation
Indices: 99912268--99912300 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
99912258 GTAACCAATT
99912268 AAAAAGGAAAATGAAA
1 AAAAAGGAAAATGAAA
*
99912284 AAAAATGAAAATGAAA
1 AAAAAGGAAAATGAAA
99912300 A
1 A
99912301 TAAACTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (16 bp):
AAAAAGGAAAATGAAA
Found at i:99913094 original size:35 final size:35
Alignment explanation
Indices: 99912988--99913098 Score: 100
Period size: 35 Copynumber: 3.2 Consensus size: 35
99912978 TTTATTTTAT
* * *
99912988 CGACCAGCGTAGGGCGCATTTATTTTTGGTTATGC
1 CGACCAGAGTAGGGCGCATTTATTTTCGGTTATAC
* * ** * *
99913023 CGA-CAGTGCTA-GGCACACATATTTGTCGGCTCTAC
1 CGACCAGAG-TAGGGCGCATTTATTT-TCGGTTATAC
*
99913058 CGACCAGAGTAGGGTGCATTTATTTTCGGTTATAC
1 CGACCAGAGTAGGGCGCATTTATTTTCGGTTATAC
99913093 CGACCA
1 CGACCA
99913099 ATGCTAGGCA
Statistics
Matches: 57, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
34 14 0.25
35 30 0.53
36 13 0.23
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (35 bp):
CGACCAGAGTAGGGCGCATTTATTTTCGGTTATAC
Found at i:99921225 original size:30 final size:30
Alignment explanation
Indices: 99921190--99921247 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
99921180 GAATTATTTT
* *
99921190 TAAAATTTAGTTG-CTCTTTTCGTAAATAA
1 TAAAAATTAGATGCCTCTTTTCGTAAATAA
*
99921219 TAAAAATTAGATGCCTCTTTTTGTAAATA
1 TAAAAATTAGATGCCTCTTTTCGTAAATA
99921248 TTTTCAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.43
Consensus pattern (30 bp):
TAAAAATTAGATGCCTCTTTTCGTAAATAA
Found at i:99922794 original size:40 final size:40
Alignment explanation
Indices: 99922749--99922979 Score: 277
Period size: 40 Copynumber: 5.8 Consensus size: 40
99922739 GGATATAACT
* * *
99922749 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
99922789 ACTCGCACAATTGCCTTCGGGACTTAGCCTGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
99922829 ACTCACACAAATTCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
99922869 ATTCGCACAAATGCCTTCGGAACTTAGCCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
99922909 ACTCGCACAGATGCCTCCGGGACTTAGCCTGGA-TTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
99922948 ACTAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
99922980 TTTTCATCCA
Statistics
Matches: 164, Mismatches: 26, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.20
40 130 0.79
41 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:99938992 original size:34 final size:33
Alignment explanation
Indices: 99938954--99939018 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
99938944 GCAATATCAA
*
99938954 TGTGGGCTTTAGCCCAATACAGTAATAGTATCGG
1 TGTGGGCCTTAGCCCAATACAGT-ATAGTATCGG
* *
99938988 TGTGGGCCTTAGCCCATTTCAGTATAGTATC
1 TGTGGGCCTTAGCCCAATACAGTATAGTATC
99939019 AGAAATGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 8 0.29
34 20 0.71
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (33 bp):
TGTGGGCCTTAGCCCAATACAGTATAGTATCGG
Found at i:99941220 original size:33 final size:35
Alignment explanation
Indices: 99941187--99941257 Score: 106
Period size: 39 Copynumber: 1.9 Consensus size: 35
99941177 TTTTGGGGCT
99941187 TTACAACTCTACCCCCTAAAGGAAATTTAGGCTTTGGTG
1 TTACAACTCTACCCCCTAAAGGAAATTTAGGC--T--TG
99941226 TTACAACTCTACCCCCTAAAGGAAATTTAGGC
1 TTACAACTCTACCCCCTAAAGGAAATTTAGGC
99941258 CTTGAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (35 bp):
TTACAACTCTACCCCCTAAAGGAAATTTAGGCTTG
Found at i:99950218 original size:27 final size:27
Alignment explanation
Indices: 99950188--99950365 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
99950178 ATATTGAGTC
* * * *
99950188 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
99950215 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
99950242 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
99950270 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
99950297 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
99950324 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
99950351 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
99950366 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:99950327 original size:82 final size:81
Alignment explanation
Indices: 99950209--99950364 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
99950199 TGCTATATAA
* *
99950209 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
99950274 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
99950291 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
99950355 CACTTAGTGC
65 CACTTAGTGC
99950365 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:99955179 original size:25 final size:25
Alignment explanation
Indices: 99955151--99955247 Score: 77
Period size: 25 Copynumber: 3.8 Consensus size: 25
99955141 TCCTGTACAT
* *
99955151 GTATGCTCACACAAGTTGTAAATCG
1 GTATGCTCACACAAGCTATAAATCG
* * *
99955176 GTATGCTCTCACGAGCTATAAATTG
1 GTATGCTCACACAAGCTATAAATCG
** *
99955201 GTATGCTCACATGAGCTATGAAAATGG
1 GTATGCTCACACAAGCTAT--AAATCG
** *
99955228 GCCTGCTCACACGAGCTATA
1 GTATGCTCACACAAGCTATA
99955248 GGTCAGAATG
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
25 38 0.64
27 21 0.36
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (25 bp):
GTATGCTCACACAAGCTATAAATCG
Found at i:99958530 original size:15 final size:15
Alignment explanation
Indices: 99958509--99958543 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
99958499 CAATGGAAAG
99958509 GATGAAAAGGTTATC
1 GATGAAAAGGTTATC
*
99958524 TATGAAAAGGTTATC
1 GATGAAAAGGTTATC
99958539 GATGA
1 GATGA
99958544 GTACTGTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.29
Consensus pattern (15 bp):
GATGAAAAGGTTATC
Found at i:99963888 original size:31 final size:32
Alignment explanation
Indices: 99963850--99963916 Score: 118
Period size: 31 Copynumber: 2.1 Consensus size: 32
99963840 ATAGTGGAAG
*
99963850 CTCAAGCTCAAATTGTATGATGGTTTTC-TTT
1 CTCAAGCTCAAATTATATGATGGTTTTCTTTT
99963881 CTCAAGCTCAAATTATATGATGGTTTTCTTTT
1 CTCAAGCTCAAATTATATGATGGTTTTCTTTT
99963913 CTCA
1 CTCA
99963917 TGTAAGTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 27 0.79
32 7 0.21
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (32 bp):
CTCAAGCTCAAATTATATGATGGTTTTCTTTT
Found at i:99968512 original size:15 final size:15
Alignment explanation
Indices: 99968492--99968531 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
99968482 TACATTTTCG
99968492 ATGAAAAGGTTATCA
1 ATGAAAAGGTTATCA
* *
99968507 ATGAAAAGGCTATCG
1 ATGAAAAGGTTATCA
*
99968522 ACGAAAAGGT
1 ATGAAAAGGT
99968532 AAGTTCAAGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.45, C:0.10, G:0.25, T:0.20
Consensus pattern (15 bp):
ATGAAAAGGTTATCA
Found at i:99972256 original size:26 final size:24
Alignment explanation
Indices: 99972196--99972263 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
99972186 ATTGAGCTGA
* * *
99972196 AACATTAAGCTCTGACGAGCTAAG
1 AACAGTAAGCTCTTACGAACTAAG
*
99972220 AACAGTAAGCTCTTACGAACTAAT
1 AACAGTAAGCTCTTACGAACTAAG
*
99972244 ATATCAGTAAGCTCATACGA
1 A-A-CAGTAAGCTCTTACGA
99972264 GCTGAGTGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 21 0.57
25 1 0.03
26 15 0.41
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.24
Consensus pattern (24 bp):
AACAGTAAGCTCTTACGAACTAAG
Found at i:99973424 original size:39 final size:40
Alignment explanation
Indices: 99973338--99973503 Score: 128
Period size: 39 Copynumber: 4.2 Consensus size: 40
99973328 ACTTGAAACC
* ** * *
99973338 AATTACCAGCAC-AAGCCTACGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACGAAGCCTGCGGGACCTTAAGCCCGGACAT
* * *
99973377 AATACCAGCTCGAAGCCTGCGGGA-CTTTAGCCCGGACAT
1 AATTCCAGCACGAAGCCTGCGGGACCTTAAGCCCGGACAT
* * * *
99973416 ATTTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATAT
1 AATTCCAGCACGAAGCCTGCGGGACCTTAAGCCCGGACAT
* * * *
99973455 AATTCCAGCAC-ATAGCCTGC-GGACCCTAAGTCTGGATAT
1 AATTCCAGCACGA-AGCCTGCGGGACCTTAAGCCCGGACAT
99973494 AATTCCAGCA
1 AATTCCAGCA
99973504 TATAGCCTAC
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
38 17 0.16
39 88 0.84
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
AATTCCAGCACGAAGCCTGCGGGACCTTAAGCCCGGACAT
Found at i:99973463 original size:78 final size:78
Alignment explanation
Indices: 99973370--99973531 Score: 177
Period size: 78 Copynumber: 2.1 Consensus size: 78
99973360 GAATTTAAAC
* * * * *
99973370 CCGG-TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGC
1 CCGGATATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCGGACATAATTCCAGCACATAGC
* *
99973432 CTGCGGACCTTAAGT
64 CTACGGACCCTAAGT
* * * * *
99973447 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCTGGATATAATTCCAGCATATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
99973512 ACGGACCCTAAGT
66 ACGGACCCTAAGT
99973525 CCGGATA
1 CCGGATA
99973532 CACATCAAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
77 8 0.11
78 62 0.89
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
ACGGACCCTAAGT
Found at i:99973509 original size:39 final size:39
Alignment explanation
Indices: 99973408--99973531 Score: 185
Period size: 39 Copynumber: 3.2 Consensus size: 39
99973398 GGACTTTAGC
* * * *
99973408 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
99973447 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* * *
99973486 CTGGATATAATTCCAGCATATAGCCTACGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
99973525 CCGGATA
1 CCGGATA
99973532 CACATCAAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:99975340 original size:19 final size:19
Alignment explanation
Indices: 99975316--99975354 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
99975306 CTCCTTTAGC
99975316 GAATTGCTTGAAGAACTAA
1 GAATTGCTTGAAGAACTAA
*
99975335 GAATTGCTTGAAGAATTAA
1 GAATTGCTTGAAGAACTAA
99975354 G
1 G
99975355 CTTCTAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (19 bp):
GAATTGCTTGAAGAACTAA
Found at i:99977262 original size:48 final size:47
Alignment explanation
Indices: 99977188--99977298 Score: 181
Period size: 48 Copynumber: 2.4 Consensus size: 47
99977178 TTCATTCCAC
99977188 CTTTTGTATT-ACCCAATTCGTAACTCATCAATTCTATATTTCACAT
1 CTTTTGTATTAACCCAATTCGTAACTCATCAATTCTATATTTCACAT
* *
99977234 CTTTTGTATTAAGCTCATTTCGTAACTCATCAATTCTATATTTCACAT
1 CTTTTGTATTAA-CCCAATTCGTAACTCATCAATTCTATATTTCACAT
99977282 CTTTTGTATT-ACCCAAT
1 CTTTTGTATTAACCCAAT
99977299 GAAACATCGT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
46 14 0.24
47 2 0.03
48 43 0.73
ACGTcount: A:0.27, C:0.23, G:0.05, T:0.45
Consensus pattern (47 bp):
CTTTTGTATTAACCCAATTCGTAACTCATCAATTCTATATTTCACAT
Found at i:99980376 original size:26 final size:26
Alignment explanation
Indices: 99980346--99980421 Score: 116
Period size: 26 Copynumber: 2.9 Consensus size: 26
99980336 ACATATTTTC
* *
99980346 TCAAAATTTTACTAGGGGAAAAATCG
1 TCAAAATTTTACTAGGGGTAAAATCA
99980372 TCAAAATTTTACTAGGGGTAAAATCA
1 TCAAAATTTTACTAGGGGTAAAATCA
* *
99980398 TCAAAATTTTGCTAAGGGTAAAAT
1 TCAAAATTTTACTAGGGGTAAAAT
99980422 AAGGATGAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATCA
Found at i:99992903 original size:40 final size:40
Alignment explanation
Indices: 99992804--99992994 Score: 251
Period size: 40 Copynumber: 4.8 Consensus size: 40
99992794 TGGATGATAA
* * * * **
99992804 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
99992844 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
99992883 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
99992923 CCGGGCTAAGTCCCGAAGGCAATTGTACGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
99992963 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
99992995 AGCTATATCC
Statistics
Matches: 134, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
39 33 0.25
40 99 0.74
41 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:99996506 original size:3 final size:3
Alignment explanation
Indices: 99996500--99996540 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
99996490 AATAATAATA
99996500 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
99996541 AATAAATGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:100001556 original size:28 final size:29
Alignment explanation
Indices: 100001506--100001562 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
100001496 TATTGCAAGC
*
100001506 GGTACACTACCTAGAGTGTTTTCA-ATAT
1 GGTACACTACCTAAAGTGTTTTCAGATAT
*
100001534 GGTACACTACCTAAATTAG-TTTCAGATAT
1 GGTACACTACCTAAAGT-GTTTTCAGATAT
100001563 TCCAATCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 20 0.80
29 5 0.20
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (29 bp):
GGTACACTACCTAAAGTGTTTTCAGATAT
Found at i:100010235 original size:62 final size:60
Alignment explanation
Indices: 100010157--100010301 Score: 159
Period size: 61 Copynumber: 2.4 Consensus size: 60
100010147 TCAAGCCTTA
* * * *
100010157 CTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAATTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAATATCAAT
* * *
100010219 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAATATCAAT
100010280 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
100010302 GTCGAGATAT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
61 38 0.53
62 30 0.42
63 4 0.06
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (60 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAATATCAAT
Found at i:100010365 original size:19 final size:20
Alignment explanation
Indices: 100010322--100010377 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
100010312 ATTGGGTCTT
100010322 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
100010342 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
100010361 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
100010378 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:100016680 original size:13 final size:13
Alignment explanation
Indices: 100016653--100016685 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
100016643 TGCTAGAAGC
100016653 AATTAAAAAGAAA
1 AATTAAAAAGAAA
100016666 AATTAGAAAAGAAA
1 AATTA-AAAAGAAA
100016680 AATTAA
1 AATTAA
100016686 GCTAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (13 bp):
AATTAAAAAGAAA
Found at i:100017860 original size:21 final size:21
Alignment explanation
Indices: 100017834--100017873 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
100017824 TAATGTCAAC
100017834 ACGGCCATGACACACGGGCGT
1 ACGGCCATGACACACGGGCGT
*
100017855 ACGGCCATGGCACACGGGC
1 ACGGCCATGACACACGGGC
100017874 ATGTGGCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.35, G:0.35, T:0.07
Consensus pattern (21 bp):
ACGGCCATGACACACGGGCGT
Found at i:100019937 original size:49 final size:49
Alignment explanation
Indices: 100019841--100020146 Score: 185
Period size: 46 Copynumber: 6.5 Consensus size: 49
100019831 AAGTCGGTTC
*
100019841 CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGA
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCTGATGA
** * * * *
100019890 TGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTTGATGC
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GCTGATGA
* * * * * * * *
100019939 CATGTCCCAAATAGGTCTTACATTGA--CACACA-A-C-AAGCTGACGC
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCTGATGA
* * *
100019983 CATGTCCCAGACAGGTCTTACACT-AGCT-TGTATATCTCGAGGCTAATG-
1 CATGTCCCAGACAGGTCTTACACTGA-CTCT-CATATATCGAGGCTGATGA
* * * * * *
100020031 CATGTCCCAGACATGTCTTACACT-AGCTCTC--GTCTCAATGCGGATG-
1 CATGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCGAGGCTGATGA
* * * * *
100020077 CATGTCCCAGACATGTCTTACACTGGCTCTCA-AAAT-GTGGCCGATG-
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCTGATGA
* *
100020123 CATGTCTCAGACATGTCTTACACT
1 CATGTCCCAGACAGGTCTTACACT
100020147 AGCACACATT
Statistics
Matches: 200, Mismatches: 45, Indels: 27
0.74 0.17 0.10
Matches are distributed among these distances:
43 1 0.00
44 27 0.14
45 1 0.00
46 71 0.35
47 4 0.02
48 29 0.14
49 67 0.34
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (49 bp):
CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCTGATGA
Found at i:100024217 original size:3 final size:3
Alignment explanation
Indices: 100024211--100024260 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
100024201 TAGTTACAGA
100024211 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
100024259 AA
1 AA
100024261 AGATGGGGGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:100024701 original size:16 final size:16
Alignment explanation
Indices: 100024680--100024751 Score: 53
Period size: 16 Copynumber: 4.5 Consensus size: 16
100024670 AGTATGAATA
100024680 ATAAAAATTGAAACGT
1 ATAAAAATTGAAACGT
*
100024696 ATAAAAATATTAAA--T
1 ATAAAAAT-TGAAACGT
* *
100024711 A-ATAAATT-AAATGCAT
1 ATAAAAATTGAAA--CGT
100024727 AATAAAAATTGAAACGT
1 -ATAAAAATTGAAACGT
100024744 ATAAAAAT
1 ATAAAAAT
100024752 ATTAAATAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
12 3 0.07
13 1 0.02
14 5 0.11
15 2 0.05
16 17 0.39
17 7 0.16
18 6 0.14
19 3 0.07
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (16 bp):
ATAAAAATTGAAACGT
Found at i:100024736 original size:48 final size:48
Alignment explanation
Indices: 100024677--100024770 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
100024667 TAAAGTATGA
100024677 ATAATAAAAATTGAAACGTATAAAAATATTAAATAATAAATTAAATGC
1 ATAATAAAAATTGAAACGTATAAAAATATTAAATAATAAATTAAATGC
100024725 ATAATAAAAATTGAAACGTATAAAAATATTAAATAATAAATTAAAT
1 ATAATAAAAATTGAAACGTATAAAAATATTAAATAATAAATTAAAT
100024771 ATTTTATTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (48 bp):
ATAATAAAAATTGAAACGTATAAAAATATTAAATAATAAATTAAATGC
Found at i:100025291 original size:10 final size:11
Alignment explanation
Indices: 100025265--100025295 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
100025255 TTATTAAAAA
100025265 ATTTTAAATTT
1 ATTTTAAATTT
100025276 ATTTTAAATTT
1 ATTTTAAATTT
*
100025287 ATTTAAAAT
1 ATTTTAAAT
100025296 AGAGAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTTTAAATTT
Found at i:100025377 original size:18 final size:19
Alignment explanation
Indices: 100025337--100025376 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
100025327 TAATATGTAT
100025337 AAATATTATAAAAATATAA
1 AAATATTATAAAAATATAA
100025356 AAATCATTATAAAAATA-AA
1 AAAT-ATTATAAAAATATAA
100025375 AA
1 AA
100025377 TATAGAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
AAATATTATAAAAATATAA
Found at i:100025425 original size:20 final size:21
Alignment explanation
Indices: 100025393--100025448 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
100025383 AAACTATAGA
* *
100025393 AAAAAATCATAAAAGAA-TTAT
1 AAAAAGTCGTAAAA-AATTTAT
*
100025414 -AAAAGTTGTAAAAAATTTAT
1 AAAAAGTCGTAAAAAATTTAT
100025434 AAAAAGTCGTAAAAA
1 AAAAAGTCGTAAAAA
100025449 TATAAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 14 0.48
21 13 0.45
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.25
Consensus pattern (21 bp):
AAAAAGTCGTAAAAAATTTAT
Found at i:100025449 original size:20 final size:20
Alignment explanation
Indices: 100025410--100025448 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
100025400 CATAAAAGAA
*
100025410 TTATAAAAGTTGTAAAAAAT
1 TTATAAAAGTCGTAAAAAAT
100025430 TTATAAAAAGTCGTAAAAA
1 TTAT-AAAAGTCGTAAAAA
100025449 TATAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (20 bp):
TTATAAAAGTCGTAAAAAAT
Found at i:100025465 original size:18 final size:19
Alignment explanation
Indices: 100025444--100025488 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
100025434 AAAAAGTCGT
100025444 AAAAATATAAAA-TTATAA
1 AAAAATATAAAATTTATAA
100025462 AAAAATATAAAATTTTATAA
1 AAAAATATAAAA-TTTATAA
100025482 AAAAATA
1 AAAAATA
100025489 ATATCTAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 12 0.48
20 13 0.52
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAATATAAAATTTATAA
Found at i:100025489 original size:18 final size:18
Alignment explanation
Indices: 100025443--100025489 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
100025433 TAAAAAGTCG
*
100025443 TAAAAATATAAAATTATA
1 TAAAAAAATAAAATTATA
*
100025461 -AAAAAATATAAAATTTTA
1 TAAAAAA-ATAAAATTATA
100025479 TAAAAAAATAA
1 TAAAAAAATAA
100025490 TATCTAGGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 5 0.20
18 14 0.56
19 6 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAAAAAATAAAATTATA
Found at i:100026311 original size:10 final size:10
Alignment explanation
Indices: 100026296--100026341 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 10
100026286 ATTTTTAAAA
100026296 ATTAAAAATT
1 ATTAAAAATT
100026306 ATT-AAAATT
1 ATTAAAAATT
*
100026315 A-TAAAAAAT
1 ATTAAAAATT
100026324 ATTAAAAAATT
1 ATT-AAAAATT
100026335 AATTAAA
1 -ATTAAA
100026342 TGTTAACATG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
8 1 0.03
9 13 0.43
10 4 0.13
11 9 0.30
12 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:100026560 original size:4 final size:4
Alignment explanation
Indices: 100026551--100026579 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
100026541 TGATTGGTAG
100026551 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
100026580 TTCACAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:100026733 original size:67 final size:68
Alignment explanation
Indices: 100026604--100026740 Score: 258
Period size: 67 Copynumber: 2.0 Consensus size: 68
100026594 GACCTTGACC
*
100026604 TTGTTGCTTTTATAATTCTTTAACAACACATTTTTTTTAGATGTGAAAAATATATAGATATGTTA
1 TTGTTGCTTTTATAATTCTTTAACAACACATTTCTTTTAGATGTGAAAAATATATAGATATGTTA
100026669 AAT
66 AAT
100026672 TTGTTGCTTTTATAATTCTTTAACAACAC-TTTCTTTTAGATGTGAAAAATATATAGATATGTTA
1 TTGTTGCTTTTATAATTCTTTAACAACACATTTCTTTTAGATGTGAAAAATATATAGATATGTTA
100026736 AAT
66 AAT
100026739 TT
1 TT
100026741 TTAAGATTTA
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
67 39 0.57
68 29 0.43
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.47
Consensus pattern (68 bp):
TTGTTGCTTTTATAATTCTTTAACAACACATTTCTTTTAGATGTGAAAAATATATAGATATGTTA
AAT
Found at i:100027853 original size:43 final size:43
Alignment explanation
Indices: 100027792--100027880 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
100027782 TAGTTAACCA
100027792 AGCAATGGATGAAAATAATAATACTTTTTCTTTTCATTTTTTT
1 AGCAATGGATGAAAATAATAATACTTTTTCTTTTCATTTTTTT
100027835 AGCAATGGATGAAAATAATAATACTTTTTCTTTTCATTTTTTT
1 AGCAATGGATGAAAATAATAATACTTTTTCTTTTCATTTTTTT
100027878 AGC
1 AGC
100027881 GTTCCTACCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (43 bp):
AGCAATGGATGAAAATAATAATACTTTTTCTTTTCATTTTTTT
Found at i:100035407 original size:28 final size:28
Alignment explanation
Indices: 100035353--100035407 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
100035343 CAAAGATAAA
* *
100035353 GTCCACCAGGATAGTAAACATGAGGTAC
1 GTCCACCAGGACAGTAAACACGAGGTAC
* *
100035381 GTCCACTAGGACAGTAAACACGGGGTA
1 GTCCACCAGGACAGTAAACACGAGGTA
100035408 AGTTTGATGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.27, T:0.16
Consensus pattern (28 bp):
GTCCACCAGGACAGTAAACACGAGGTAC
Found at i:100036242 original size:36 final size:36
Alignment explanation
Indices: 100036195--100036266 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
100036185 TGAGAGACAA
*
100036195 AAAGTAAGGATCAAACTCACAGATGTGGCGAGGTGT
1 AAAGTAAGGATCAAACTCACAGATGTGGCGAAGTGT
**
100036231 AAAGTAAGGATCAAACTCGTAGATGTGGCGAAGTGT
1 AAAGTAAGGATCAAACTCACAGATGTGGCGAAGTGT
100036267 CTAAGATACG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (36 bp):
AAAGTAAGGATCAAACTCACAGATGTGGCGAAGTGT
Done.