Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 45 of 199
Found at i:13417227 original size:262 final size:264
Alignment explanation
Indices: 13416710--13417235 Score: 876
Period size: 262 Copynumber: 2.0 Consensus size: 264
13416700 GGATCGAGAG
* * * *
13416710 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTATCTTCCTATAT
1 CAGATCTTGTCTTCACATATTGGTCGCGAAGTAGATCGAAGAAAGCAGATCCTATCTTCCTATAT
*
13416775 TGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA
66 TGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGAAGA
* *
13416840 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTAT
131 AAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTAT
* *
13416905 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCA
196 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
13416970 GAAA
261 GAAA
** * *
13416974 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG-TAGCAGATCCTATCTTCCTATAT
1 CAGATCTTGTCTTCACATATTGGTCGCGAAGTAGATCGAAGAAAGCAGATCCTATCTTCCTATAT
*
13417037 TGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGCAGA
66 TGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGAAGA
* *
13417102 AAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTAT
131 AAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTAT
* *
13417167 ATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAA
196 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
13417232 GAAA
261 GAAA
13417236 GCCGATCGAC
Statistics
Matches: 244, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
262 209 0.86
263 15 0.06
264 20 0.08
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (264 bp):
CAGATCTTGTCTTCACATATTGGTCGCGAAGTAGATCGAAGAAAGCAGATCCTATCTTCCTATAT
TGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGAAGA
AAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTAT
ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
GAAA
Found at i:13417736 original size:21 final size:22
Alignment explanation
Indices: 13417695--13417751 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
13417685 AAACCCAACT
*
13417695 AACCTAGCCCAATACCCTAAACC
1 AACCTAGCCCAATA-CCTAAAAC
13417718 AACCTAGCCCAAT-CCTAAAAC
1 AACCTAGCCCAATACCTAAAAC
*
13417739 TACCTGAGCCCAA
1 AACCT-AGCCCAA
13417752 ATTTTAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 11 0.35
22 7 0.23
23 13 0.42
ACGTcount: A:0.39, C:0.40, G:0.07, T:0.14
Consensus pattern (22 bp):
AACCTAGCCCAATACCTAAAAC
Found at i:13420154 original size:106 final size:106
Alignment explanation
Indices: 13419962--13420162 Score: 366
Period size: 106 Copynumber: 1.9 Consensus size: 106
13419952 AAAATTTTTC
13419962 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
13420027 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
* *
13420068 TAAATAAGGCGATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
13420133 TTCTCGTTCGACTAAACAGCCAAATATCCT
66 TTCTCGTTCGACCAAACAGCCAAATATCCT
13420163 CTTAAAGCTT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 91 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
Found at i:13436109 original size:14 final size:12
Alignment explanation
Indices: 13436059--13436104 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
13436049 ATATACATAC
13436059 TTATATATATTT
1 TTATATATATTT
*
13436071 TATATTTTATAATTT
1 T-TA-TATAT-ATTT
13436086 TTATATATATTT
1 TTATATATATTT
13436098 TTATATA
1 TTATATA
13436105 CATATACGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 12 0.41
13 6 0.21
14 6 0.21
15 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATATATATTT
Found at i:13448710 original size:131 final size:131
Alignment explanation
Indices: 13448318--13448985 Score: 1185
Period size: 132 Copynumber: 5.1 Consensus size: 131
13448308 TGAAGTCATT
*
13448318 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCTTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAA-GTAGCAGATCCTATCTTCCTA
*
13448383 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
65 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
13448448 AG
130 AG
*
13448450 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG-TAGCAGATCCTATCTTCCTA
13448515 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
65 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
13448580 AG
130 AG
13448582 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGTAGCAGATCCTATCTTCCTAT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGTAGCAGATCCTATCTTCCTAT
13448647 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCA
66 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCA
13448712 G
131 G
13448713 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAATGTAGCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAA-GTAGCAGATCCTATCTTCCTA
*
13448778 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGC
65 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
13448843 AG
130 AG
* * *
13448845 AAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTT-CTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG-TAGCAGATCCTATCTTCCTA
* * * *
13448909 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
65 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
13448974 AG
130 AG
*
13448976 AAAGCCGATC
1 AAAGCAGATC
13448986 GACGATGGCA
Statistics
Matches: 519, Mismatches: 14, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
131 205 0.39
132 314 0.61
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (131 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGTAGCAGATCCTATCTTCCTAT
ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCA
G
Found at i:13448786 original size:263 final size:263
Alignment explanation
Indices: 13448318--13448985 Score: 1196
Period size: 263 Copynumber: 2.5 Consensus size: 263
13448308 TGAAGTCATT
*
13448318 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCTTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAA-GTAGCAGATCCTATCTTCCTA
13448383 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
65 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
*
13448448 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCC
130 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCC
*
13448513 TATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
195 TATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATC
13448578 GCAG
260 GCAG
13448582 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGTAGCAGATCCTATCTTCCTAT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGTAGCAGATCCTATCTTCCTAT
*
13448647 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCA
66 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAA
13448712 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAATG-TAGCAGATCCTATCTTCC
131 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAA-GATAGCAGATCCTATCTTCC
13448776 TATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATC
195 TATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATC
13448841 GCAG
260 GCAG
* * *
13448845 AAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTT-CTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG-TAGCAGATCCTATCTTCCTA
* * *
13448909 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
65 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
*
13448974 AGAAAGCCGATC
130 AGAAAGCAGATC
13448986 GACGATGGCA
Statistics
Matches: 390, Mismatches: 12, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
263 332 0.85
264 58 0.15
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (263 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGTAGCAGATCCTATCTTCCTAT
ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAA
GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCT
ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATCG
CAG
Found at i:13449478 original size:21 final size:22
Alignment explanation
Indices: 13449437--13449493 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
13449427 AAACCCAACT
*
13449437 AACCTAGCCCAATACCCTAAACC
1 AACCTAGCCCAATA-CCTAAAAC
13449460 AACCTAGCCCAAT-CCTAAAAC
1 AACCTAGCCCAATACCTAAAAC
*
13449481 TACCTGAGCCCAA
1 AACCT-AGCCCAA
13449494 ATTTTAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 11 0.35
22 7 0.23
23 13 0.42
ACGTcount: A:0.39, C:0.40, G:0.07, T:0.14
Consensus pattern (22 bp):
AACCTAGCCCAATACCTAAAAC
Found at i:13451187 original size:18 final size:20
Alignment explanation
Indices: 13451162--13451205 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
13451152 CTATTTAAAC
13451162 ATATTTTT-TCACACTT-CAT
1 ATATTTTTAT-ACACTTACAT
13451181 A-ATTTTTATACACTTACAT
1 ATATTTTTATACACTTACAT
13451200 ATATTT
1 ATATTT
13451206 ATGCATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 12 0.55
19 6 0.27
20 4 0.18
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTTTTATACACTTACAT
Found at i:13451837 original size:106 final size:106
Alignment explanation
Indices: 13451701--13451901 Score: 348
Period size: 106 Copynumber: 1.9 Consensus size: 106
13451691 AAAATTTTTC
13451701 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAAAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAAAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
13451766 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
* * **
13451807 TAAATAAGGCGATATTTTGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAAAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
13451872 TTCTCGTTCGACTAAACAGCCAAATATCCT
66 TTCTCGTTCGACCAAACAGCCAAATATCCT
13451902 CTTAAAGCTT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 89 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAAAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
Found at i:13468345 original size:82 final size:82
Alignment explanation
Indices: 13468242--13468399 Score: 196
Period size: 82 Copynumber: 1.9 Consensus size: 82
13468232 TACATATTAG
* * *
13468242 TTTGGAAACAAAACAATATCAAATAAAAT-ATTGTTAAACGGTGGGAATAAATCCCGAAACATAT
1 TTTGGAAACAAAACAATATCAAAT-AAATCATTATTAAACGGTGGAAATAAATCCCGAAACAGAT
* *
13468306 TTTATTTTATTTCTTGTT
65 TTAATTTAATTTCTTGTT
* * *
13468324 TTTGGCAAA-AAAATCAA-ATCAAATAAATCTTTATTAAGCGGTGGAAATAAATCCTGAAACAGA
1 TTTGG-AAACAAAA-CAATATCAAATAAATCATTATTAAACGGTGGAAATAAATCCCGAAACAGA
13468387 TTTAATTTAATTT
64 TTTAATTTAATTT
13468400 AATTTCTTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
81 4 0.06
82 55 0.85
83 6 0.09
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (82 bp):
TTTGGAAACAAAACAATATCAAATAAATCATTATTAAACGGTGGAAATAAATCCCGAAACAGATT
TAATTTAATTTCTTGTT
Found at i:13473313 original size:22 final size:24
Alignment explanation
Indices: 13473287--13473330 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13473277 GAAAAATATT
13473287 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
13473309 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
13473331 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:13473444 original size:9 final size:9
Alignment explanation
Indices: 13473430--13473457 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
13473420 TTTTGTTACA
13473430 ACAATTAAT
1 ACAATTAAT
13473439 ACAATTAAT
1 ACAATTAAT
13473448 ACAATTAAT
1 ACAATTAAT
13473457 A
1 A
13473458 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:13473500 original size:67 final size:68
Alignment explanation
Indices: 13473400--13473608 Score: 361
Period size: 67 Copynumber: 3.1 Consensus size: 68
13473390 TCAAGTTTGT
* * *
13473400 TTTACTAATCAAATATTAAATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
13473465 AAA
66 AAA
13473468 TTTACTAATCAAATGTTAGA-TTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
13473532 AAA
66 AAA
13473535 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
13473598 AAT
66 AAA
13473601 TTTACTAA
1 TTTACTAA
13473609 CAATTAATTT
Statistics
Matches: 136, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
66 27 0.20
67 67 0.49
68 42 0.31
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:13473509 original size:9 final size:9
Alignment explanation
Indices: 13473497--13473524 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
13473487 ATTTATTACA
13473497 ACAATTAAT
1 ACAATTAAT
13473506 ACAATTAAT
1 ACAATTAAT
13473515 ACAATTAAT
1 ACAATTAAT
13473524 A
1 A
13473525 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:13473618 original size:16 final size:16
Alignment explanation
Indices: 13473597--13473638 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
13473587 AATAATTTGA
*
13473597 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
13473613 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
13473629 TAGTTTTAAT
1 TAATTTTAAT
13473639 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:13473622 original size:22 final size:23
Alignment explanation
Indices: 13473612--13473673 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
13473602 TTACTAACAA
* * *
13473612 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
13473634 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
13473657 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
13473674 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:13474722 original size:22 final size:22
Alignment explanation
Indices: 13474697--13474742 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
13474687 TTTTTTCTTC
* *
13474697 TTCTTTTTCCTTTTATTTAATT
1 TTCTTTCTCATTTTATTTAATT
* *
13474719 TTCTTTCTCATTTTCTTTATTT
1 TTCTTTCTCATTTTATTTAATT
13474741 TT
1 TT
13474743 TATTCTTCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (22 bp):
TTCTTTCTCATTTTATTTAATT
Found at i:13474723 original size:28 final size:28
Alignment explanation
Indices: 13474689--13474758 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
13474679 TCTTGCATTT
13474689 TTTTCTTCTTCTTTTTCCTTT-TATTTAA
1 TTTTCTTCTTCTTTTT-CTTTATATTTAA
* * *
13474717 TTTTCTT-TCTCATTTTCTTTATTTTTTA
1 TTTTCTTCT-TCTTTTTCTTTATATTTAA
13474745 TTCTTCTTCTTCTT
1 TT-TTCTTCTTCTT
13474759 CTCCTCCTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
27 5 0.15
28 20 0.59
29 8 0.24
30 1 0.03
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.73
Consensus pattern (28 bp):
TTTTCTTCTTCTTTTTCTTTATATTTAA
Found at i:13481382 original size:42 final size:42
Alignment explanation
Indices: 13481336--13481467 Score: 147
Period size: 42 Copynumber: 3.1 Consensus size: 42
13481326 AGCTCTCACG
* *
13481336 AGCTTCTGTTTAACTCATATAAGTTTCTGTTCAGCTCTTTTA
1 AGCTTCTGTTTAACCCATATAAGTTTCCGTTCAGCTCTTTTA
* * * *
13481378 AGCTTCCGTTTAACCCTTATGAGTTTCCGTTCAGCTCTTTTG
1 AGCTTCTGTTTAACCCATATAAGTTTCCGTTCAGCTCTTTTA
* * ** * * *
13481420 AGCTTCTGTTTAACCCTTTTTGGTTTTCGTTCAGCTCTTATG
1 AGCTTCTGTTTAACCCATATAAGTTTCCGTTCAGCTCTTTTA
13481462 AGCTTC
1 AGCTTC
13481468 CATTCAACCC
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.16, C:0.23, G:0.15, T:0.46
Consensus pattern (42 bp):
AGCTTCTGTTTAACCCATATAAGTTTCCGTTCAGCTCTTTTA
Found at i:13481438 original size:21 final size:21
Alignment explanation
Indices: 13481335--13481439 Score: 75
Period size: 21 Copynumber: 5.0 Consensus size: 21
13481325 TAGCTCTCAC
* *
13481335 GAGCTTCTGTTTAACTCATAT
1 GAGCTTCTGTTTAACTCTTTT
* * * *
13481356 AAGTTTCTGTTCAGCTCTTTT
1 GAGCTTCTGTTTAACTCTTTT
* * * *
13481377 AAGCTTCCGTTTAACCCTTAT
1 GAGCTTCTGTTTAACTCTTTT
* * * *
13481398 GAGTTTCCGTTCAGCTCTTTT
1 GAGCTTCTGTTTAACTCTTTT
*
13481419 GAGCTTCTGTTTAACCCTTTT
1 GAGCTTCTGTTTAACTCTTTT
13481440 TGGTTTTCGT
Statistics
Matches: 61, Mismatches: 23, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (21 bp):
GAGCTTCTGTTTAACTCTTTT
Found at i:13481477 original size:42 final size:43
Alignment explanation
Indices: 13481359--13481487 Score: 156
Period size: 42 Copynumber: 3.0 Consensus size: 43
13481349 CTCATATAAG
*
13481359 TTTCTGTTCAGCTCTTTTAAGCTTCCGTTTAACCC-TTATGAGT
1 TTTC-GTTCAGCTCTTTTGAGCTTCCGTTTAACCCTTTATGAGT
* * *
13481402 TTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTTTTG-GT
1 TTTCGTTCAGCTCTTTTGAGCTTCCGTTTAACCCTTTATGAGT
* * * *
13481444 TTTCGTTCAGCTCTTATGAGCTTCCATTCAACCC-TTATGGGT
1 TTTCGTTCAGCTCTTTTGAGCTTCCGTTTAACCCTTTATGAGT
13481486 TT
1 TT
13481488 CTATTTAACA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
41 4 0.05
42 63 0.85
43 7 0.09
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.47
Consensus pattern (43 bp):
TTTCGTTCAGCTCTTTTGAGCTTCCGTTTAACCCTTTATGAGT
Found at i:13481480 original size:21 final size:21
Alignment explanation
Indices: 13481456--13481515 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
13481446 TCGTTCAGCT
*
13481456 CTTATGAGCTTCCATTCAACC
1 CTTATGAGCTTCCATTCAACA
* * * *
13481477 CTTATGGGTTTCTATTTAACA
1 CTTATGAGCTTCCATTCAACA
*
13481498 CTTATGTGCTTCCATTCA
1 CTTATGAGCTTCCATTCA
13481516 GTCTTCGGGC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.42
Consensus pattern (21 bp):
CTTATGAGCTTCCATTCAACA
Found at i:13488643 original size:21 final size:20
Alignment explanation
Indices: 13488619--13488690 Score: 54
Period size: 21 Copynumber: 3.5 Consensus size: 20
13488609 CCTTACGAGT
13488619 TTCTGTTCAGCTCTTTTAAGC
1 TTCTGTTCAGCTCTTTT-AGC
* * * * *
13488640 TTCTGTTTAACCCTTTTTGG
1 TTCTGTTCAGCTCTTTTAGC
* *
13488660 TTTTCGTTCAGCTCTTATGAGC
1 TTCT-GTTCAGCTCTT-TTAGC
13488682 TTCTGTTCA
1 TTCTGTTCA
13488691 ACCATTATAG
Statistics
Matches: 36, Mismatches: 13, Indels: 4
0.68 0.25 0.08
Matches are distributed among these distances:
20 4 0.11
21 27 0.75
22 5 0.14
ACGTcount: A:0.12, C:0.22, G:0.15, T:0.50
Consensus pattern (20 bp):
TTCTGTTCAGCTCTTTTAGC
Found at i:13488704 original size:42 final size:42
Alignment explanation
Indices: 13488552--13488725 Score: 156
Period size: 42 Copynumber: 4.1 Consensus size: 42
13488542 TAACTCTCAC
* * *
13488552 GAGCTTCTGTTTAACTCA-TATAAGTTTTCGTTCAGCTATTTT
1 GAGCTTCTGTTTAAC-CATTATAGGTTTTCGTTCAGCTCTTAT
* * * *
13488594 GAGCTTTTGTTTAACCCTTA-CGAG-TTTCTGTTCAGCTCTTTT
1 GAGCTTCTGTTTAACCATTATAG-GTTTTC-GTTCAGCTCTTAT
* * * *
13488636 AAGCTTCTGTTTAACCCTTTTTGGTTTTCGTTCAGCTCTTAT
1 GAGCTTCTGTTTAACCATTATAGGTTTTCGTTCAGCTCTTAT
* * * *
13488678 GAGCTTCTGTTCAACCATTATAGGTTTTTGTTTAGCACTTAT
1 GAGCTTCTGTTTAACCATTATAGGTTTTCGTTCAGCTCTTAT
*
13488720 GTGCTT
1 GAGCTT
13488726 TCGTTCAGCC
Statistics
Matches: 108, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
41 5 0.05
42 98 0.91
43 5 0.05
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (42 bp):
GAGCTTCTGTTTAACCATTATAGGTTTTCGTTCAGCTCTTAT
Found at i:13490974 original size:27 final size:27
Alignment explanation
Indices: 13490917--13490979 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
13490907 CCATCTCGAT
* * * *
13490917 GGACCATCTTGTGTTTAGTGTCCCATT
1 GGACTATCTCGTGTTTACTGTCCCATC
*
13490944 GGACTATCTCGTGTTTACTGTCCCGTC
1 GGACTATCTCGTGTTTACTGTCCCATC
13490971 GGACTATCT
1 GGACTATCT
13490980 ATGATGTCGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.38
Consensus pattern (27 bp):
GGACTATCTCGTGTTTACTGTCCCATC
Found at i:13491146 original size:45 final size:45
Alignment explanation
Indices: 13491077--13491163 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
13491067 GTCTTTCAGC
* * *
13491077 TATCATGATGCCATAGCGTATTTCAGTTATGGCCTTACTCATCCT
1 TATCATGATGCCATAACATATTTCAATTATGGCCTTACTCATCCT
* * *
13491122 TATCATGATGTCATAACATCTTTCAATTATGGTCTTACTCAT
1 TATCATGATGCCATAACATATTTCAATTATGGCCTTACTCAT
13491164 TTTAGGCATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (45 bp):
TATCATGATGCCATAACATATTTCAATTATGGCCTTACTCATCCT
Found at i:13493339 original size:14 final size:14
Alignment explanation
Indices: 13493320--13493349 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13493310 ATTAAATTAA
13493320 ATTTTTAAAAAAAT
1 ATTTTTAAAAAAAT
*
13493334 ATTTTTAAAAATAT
1 ATTTTTAAAAAAAT
13493348 AT
1 AT
13493350 ACCAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTTTAAAAAAAT
Found at i:13500241 original size:21 final size:21
Alignment explanation
Indices: 13500202--13500243 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13500192 TTTTTTTAGG
*
13500202 ATGTGAATTGGATGGAATTGA
1 ATGTGAATTGGATGAAATTGA
* *
13500223 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGATGAAATTGA
13500244 GTTAAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (21 bp):
ATGTGAATTGGATGAAATTGA
Found at i:13502981 original size:18 final size:18
Alignment explanation
Indices: 13502960--13502994 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13502950 ATAAAAAAAT
*
13502960 AAATATGTATATATATAA
1 AAATATGTACATATATAA
13502978 AAATATGTACATATATA
1 AAATATGTACATATATA
13502995 TAGGTGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (18 bp):
AAATATGTACATATATAA
Found at i:13503247 original size:36 final size:37
Alignment explanation
Indices: 13503207--13503288 Score: 98
Period size: 36 Copynumber: 2.2 Consensus size: 37
13503197 ATATAAATAC
*
13503207 ATATATATACT-TATAAAAATAA-AAATAT-GTATATGT
1 ATATATATA-TATATAAAAA-AAGAAATATAGTATACGT
*
13503243 ATATAGATATATATAAAAAAAGAAATATGAGTATACGT
1 ATATATATATATATAAAAAAAGAAATAT-AGTATACGT
13503281 ATATATAT
1 ATATATAT
13503289 TAAACAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
35 3 0.08
36 22 0.56
38 14 0.36
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (37 bp):
ATATATATATATATAAAAAAAGAAATATAGTATACGT
Found at i:13503430 original size:3 final size:3
Alignment explanation
Indices: 13503419--13503483 Score: 76
Period size: 3 Copynumber: 21.3 Consensus size: 3
13503409 CAATAATACC
* * * *
13503419 AAT ACT AAT AAT AGT AAG GAT 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
*
13503467 AAT AAT AGAT GAT AAT A
1 AAT AAT A-AT AAT AAT A
13503484 CATTAAATTA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
3 49 0.96
4 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13510062 original size:4 final size:4
Alignment explanation
Indices: 13510053--13510117 Score: 62
Period size: 4 Copynumber: 15.5 Consensus size: 4
13510043 CAACCCAATT
*
13510053 TTTA TTTA TTTA TTTA TTTA TTTTC TTTA CTTTA TTTA -TTA CTTTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA -TTTA -TTTA
13510104 TTT- TATTA TTTA TT
1 TTTA T-TTA TTTA TT
13510118 ACTTATTTGG
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
3 4 0.08
4 33 0.63
5 15 0.29
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:13511127 original size:19 final size:20
Alignment explanation
Indices: 13511087--13511132 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
13511077 TAAAAAATAT
*
13511087 AAAT-AATAAATCAAAATCA
1 AAATAAATAAATCAAAAACA
*
13511106 AAATAAATAAAT-AAAAAGA
1 AAATAAATAAATCAAAAACA
13511125 AAA-AAATA
1 AAATAAATA
13511133 TAATTTGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 12 0.50
20 7 0.29
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.17
Consensus pattern (20 bp):
AAATAAATAAATCAAAAACA
Found at i:13511708 original size:15 final size:15
Alignment explanation
Indices: 13511683--13511717 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
13511673 GACTCTATTT
*
13511683 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
13511697 TAATTAATATTAAGA
1 TAATTAATATTAAGA
13511712 TAATTA
1 TAATTA
13511718 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:13512749 original size:23 final size:22
Alignment explanation
Indices: 13512717--13512778 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
13512707 CCCGGCCCGT
* *
13512717 TTTTTAATTAAAATTATAATTATA
1 TTTTT-ATTAAAATTAAAACTA-A
13512741 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
13512763 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
13512779 TTGTTATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 16 0.46
23 14 0.40
24 5 0.14
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:13512773 original size:16 final size:16
Alignment explanation
Indices: 13512752--13512804 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
13512742 TTTTATTAAA
*
13512752 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
13512768 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
13512784 ATCAAAATTAATTGTT
1 ATTAAAATTAATTGTT
13512800 ATTAA
1 ATTAA
13512805 CATTGTATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:13512941 original size:83 final size:85
Alignment explanation
Indices: 13512854--13513022 Score: 306
Period size: 83 Copynumber: 2.0 Consensus size: 85
13512844 TTTATAAAAT
13512854 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
13512919 AT-T-AATTATTAATTGTTA
66 ATATAAATTATTAATTGTTA
*
13512937 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
13513002 ATATCAAATTATTAATTGTTA
66 ATAT-AAATTATTAATTGTTA
13513023 ATTGTATTAA
Statistics
Matches: 82, Mismatches: 1, Indels: 3
0.95 0.01 0.03
Matches are distributed among these distances:
83 66 0.80
84 1 0.01
86 15 0.18
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.49
Consensus pattern (85 bp):
CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
ATATAAATTATTAATTGTTA
Found at i:13513084 original size:10 final size:10
Alignment explanation
Indices: 13513069--13513094 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
13513059 TTAGTAAAAT
13513069 TATCAAATTA
1 TATCAAATTA
13513079 TATCAAATTA
1 TATCAAATTA
13513089 TATCAA
1 TATCAA
13513095 GTTTACCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (10 bp):
TATCAAATTA
Found at i:13515476 original size:43 final size:43
Alignment explanation
Indices: 13515370--13515626 Score: 185
Period size: 43 Copynumber: 6.0 Consensus size: 43
13515360 TATAAATAAG
* * * * *
13515370 CGCCGCTAAAGGTCAGGATCTTTAGCGG-CGCTTTTCCAAAAA
1 CGCCGCTAAAGATCATGACCTTTAGCGGCCCCTTTTCCACAAA
* ** ** *
13515412 CTCTACTAAAGGCCATGACCTTTAGCGGCCCCTTTCCCACAAA
1 CGCCGCTAAAGATCATGACCTTTAGCGGCCCCTTTTCCACAAA
** *** *
13515455 CGCCGCTAAAGATCATGACCTTTAGCGG-TGCTTATAAAAAAAA
1 CGCCGCTAAAGATCATGACCTTTAGCGGCCCCTT-TTCCACAAA
* * * * *
13515498 TGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTTCCACAAA
1 CGCCGCTAAAGATCATGACCTTTAGCGGCCCCTTTTCCACAAA
* * * * * **
13515541 TGCCGCTATAGATCTTGACCTTTAGCGGCGCTTTTTGAACAAA
1 CGCCGCTAAAGATCATGACCTTTAGCGGCCCCTTTTCCACAAA
* * * * *
13515584 CGCCGCTACAGATCATGACTTTTAGCGGCGCTTTTTTCACAAA
1 CGCCGCTAAAGATCATGACCTTTAGCGGCCCCTTTTCCACAAA
13515627 TGCCTCTGAA
Statistics
Matches: 172, Mismatches: 40, Indels: 5
0.79 0.18 0.02
Matches are distributed among these distances:
42 25 0.15
43 145 0.84
44 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (43 bp):
CGCCGCTAAAGATCATGACCTTTAGCGGCCCCTTTTCCACAAA
Found at i:13515627 original size:86 final size:86
Alignment explanation
Indices: 13515425--13515630 Score: 277
Period size: 86 Copynumber: 2.4 Consensus size: 86
13515415 TACTAAAGGC
* * * * * *
13515425 CATGACCTTTAGCGGCCCCTTTCCCACAAACGCCGCTAAAGATCATGACCTTTAGCGGTGCTTAT
1 CATGACTTTTAGCGGCGCTTTTTCCACAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTAT
* *
13515490 AAAAAAAATGCCGCTATAGAT
66 AAAAAAAACGCCGCTACAGAT
* * *
13515511 CATGACTTTTAGCGGCGCTTTTTCCACAAATGCCGCTATAGATCTTGACCTTTAGCGGCGCTTTT
1 CATGACTTTTAGCGGCGCTTTTTCCACAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTAT
** *
13515576 TGAACAAACGCCGCTACAGAT
66 AAAAAAAACGCCGCTACAGAT
*
13515597 CATGACTTTTAGCGGCGCTTTTTTCACAAATGCC
1 CATGACTTTTAGCGGCGCTTTTTCCACAAATGCC
13515631 TCTGAAACAT
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 105 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (86 bp):
CATGACTTTTAGCGGCGCTTTTTCCACAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTAT
AAAAAAAACGCCGCTACAGAT
Found at i:13515721 original size:21 final size:21
Alignment explanation
Indices: 13515697--13515742 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
13515687 CTCTGCTCTG
* *
13515697 CTCTGCTTCCTTTGCTACAGC
1 CTCTGCTTCCCTCGCTACAGC
*
13515718 CTCTGCTTCCCTCGCTACCGC
1 CTCTGCTTCCCTCGCTACAGC
13515739 CTCT
1 CTCT
13515743 ACTTTAAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.07, C:0.46, G:0.13, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTACAGC
Found at i:13517760 original size:9 final size:9
Alignment explanation
Indices: 13517743--13517935 Score: 176
Period size: 9 Copynumber: 22.8 Consensus size: 9
13517733 CATGTATTAA
*
13517743 GTAAATTAT
1 GTAAGTTAT
13517752 GTAAGTTAT
1 GTAAGTTAT
*
13517761 GT--CTTAT
1 GTAAGTTAT
*
13517768 ATAAGTTAT
1 GTAAGTTAT
13517777 GTAAGTTAT
1 GTAAGTTAT
13517786 GT-A-TTAT
1 GTAAGTTAT
*
13517793 GTATGTTAT
1 GTAAGTTAT
*
13517802 GTAAGTTGT
1 GTAAGTTAT
*
13517811 GT-A-TGAT
1 GTAAGTTAT
*
13517818 GTATGTTAT
1 GTAAGTTAT
*
13517827 GTAAGTTGT
1 GTAAGTTAT
*
13517836 GT-AG-AAT
1 GTAAGTTAT
*
13517843 GTAAGCTAT
1 GTAAGTTAT
13517852 GTAAGTTAT
1 GTAAGTTAT
13517861 GTAAGTTAT
1 GTAAGTTAT
*
13517870 GTAAGTTGT
1 GTAAGTTAT
*
13517879 GT-A-TAAT
1 GTAAGTTAT
13517886 GTAAGTTAT
1 GTAAGTTAT
*
13517895 GAAAGTTAT
1 GTAAGTTAT
13517904 GT-A-TTAT
1 GTAAGTTAT
13517911 GTAAGTTAT
1 GTAAGTTAT
*
13517920 TTAAGTTAT
1 GTAAGTTAT
13517929 GTAAGTT
1 GTAAGTT
13517936 GTTGAAGTCT
Statistics
Matches: 146, Mismatches: 26, Indels: 24
0.74 0.13 0.12
Matches are distributed among these distances:
7 28 0.19
8 10 0.07
9 108 0.74
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:13517767 original size:16 final size:16
Alignment explanation
Indices: 13517748--13517778 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13517738 ATTAAGTAAA
*
13517748 TTATGTAAGTTATGTC
1 TTATATAAGTTATGTC
13517764 TTATATAAGTTATGT
1 TTATATAAGTTATGT
13517779 AAGTTATGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (16 bp):
TTATATAAGTTATGTC
Found at i:13517776 original size:25 final size:25
Alignment explanation
Indices: 13517734--13517935 Score: 178
Period size: 25 Copynumber: 8.0 Consensus size: 25
13517724 ATATATATTC
* *
13517734 ATGTATTAAGTAAATTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
* *
13517759 ATGTCTTATATAAGTTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
*
13517784 ATGTATTATGTATGTTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
* * *
13517809 GTGTATGATGTATGTTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
* ** *
13517834 GTGTAGAATGTAAGCTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
* *
13517859 ATGTAAGTTATGTAAGTTGTGT-A-TA
1 ATGT-A-TTATGTAAGTTATGTAAGTT
*
13517884 ATGTAAGTTATGAAAGTTATGT-A-TT
1 ATGT-A-TTATGTAAGTTATGTAAGTT
*
13517909 ATGTAAGTTATTTAAGTTATGTAAGTT
1 ATGT-A-TTATGTAAGTTATGTAAGTT
13517936 GTTGAAGTCT
Statistics
Matches: 149, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
25 133 0.89
26 3 0.02
27 13 0.09
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (25 bp):
ATGTATTATGTAAGTTATGTAAGTT
Found at i:13517807 original size:34 final size:35
Alignment explanation
Indices: 13517703--13517931 Score: 126
Period size: 34 Copynumber: 6.7 Consensus size: 35
13517693 AGTATAAATG
* * *
13517703 AGTTATGTAAGTTATGATATGATATATAT-TCATGT-
1 AGTTATGTAAGTTATG-TA-GTTATGTATGTTATGTA
* * * *
13517738 A-TTAAGTAAATTATGTAAGTTATG--TCTTATATA
1 AGTTATGTAAGTTATGT-AGTTATGTATGTTATGTA
13517771 AGTTATGTAAGTTATGTA-TTATGTATGTTATGTA
1 AGTTATGTAAGTTATGTAGTTATGTATGTTATGTA
* * * *
13517805 AGTTGTGT-A-TGATGTATGTTATGTAAGTTGTGT-
1 AGTTATGTAAGTTATGTA-GTTATGTATGTTATGTA
* * *
13517838 AG-AATGTAAGCTATGTAAGTTATGTAAGTTATGTA
1 AGTTATGTAAGTTATGT-AGTTATGTATGTTATGTA
* * * *
13517873 AGTTGTGT-A-TAATGTAAGTTATGAAAGTTATGT-
1 AGTTATGTAAGTTATGT-AGTTATGTATGTTATGTA
*
13517906 A-TTATGTAAGTTATTTAAGTTATGTA
1 AGTTATGTAAGTTATGT-AGTTATGTA
13517932 AGTTGTTGAA
Statistics
Matches: 151, Mismatches: 28, Indels: 31
0.72 0.13 0.15
Matches are distributed among these distances:
31 1 0.01
32 23 0.15
33 13 0.09
34 106 0.70
35 5 0.03
36 3 0.02
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (35 bp):
AGTTATGTAAGTTATGTAGTTATGTATGTTATGTA
Found at i:13517935 original size:34 final size:34
Alignment explanation
Indices: 13517743--13517935 Score: 151
Period size: 34 Copynumber: 5.5 Consensus size: 34
13517733 CATGTATTAA
* * *
13517743 GTAAATTATGTAAGTTATGTCTTATATAAGTTAT
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
13517777 GTAAGTTATGT-A-TTATGTATGTTATGTAAGTTGTGTATGAT
1 GTAAGTTATGTAAGTTATGTA--TTATGTAA-----GT-T-AT
* * ** *
13517818 GTATGTTATGTAAGTTGTGTAGAATGTAAGCTAT
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
* *
13517852 GTAAGTTATGTAAGTTATGTAAGTTGTGT-A-TAAT
1 GTAAGTTATGTAAGTTATGT-A-TTATGTAAGTTAT
*
13517886 GTAAGTTATGAAAGTTATGTATTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
*
13517920 TTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
13517936 GTTGAAGTCT
Statistics
Matches: 124, Mismatches: 20, Indels: 30
0.71 0.11 0.17
Matches are distributed among these distances:
32 11 0.09
33 3 0.02
34 75 0.60
35 3 0.02
36 4 0.03
39 2 0.02
40 1 0.01
41 18 0.15
42 1 0.01
43 6 0.05
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (34 bp):
GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
Found at i:13518124 original size:64 final size:64
Alignment explanation
Indices: 13518050--13518439 Score: 298
Period size: 64 Copynumber: 6.1 Consensus size: 64
13518040 AAATTGTTTA
* * ** *
13518050 TTATAAAATTTGATCTTTAAATTATTTAAGTTATGTATTATGTAAAATCTTTAAATTATGTAAG
1 TTATGAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGTAAGTTCTGTAAATTATGTAAG
* * * * * *
13518114 TTATAAAATTTGATATTTAAATTATGTAACTTATGTATTATGTAAGTTAC-GTAAGTTGT-TTA-
1 TTATGAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGTAAGTT-CTGTAAATTATGTAAG
** ** *
13518176 TTATGAAATTTGATCTTTAAATTATGTAAGTTATGTAAGAAATGTAAGAACATG-ATATT-TG-A
1 TTATGAAATTTGATCTTTAAATTATGTAAGTTATGT-A-TTATGTAAGTTC-TGTAAATTATGTA
**
13518238 TC
63 AG
* ** * * *
13518240 TT-T-AACTTATG-TACGTTATGTATTATGTAAGTTATGCAAATTATGTAAGTTATGTAAGA-AA
1 TTATGAAATT-TGAT-C-TT-TAAATTATGTAAGTTATG--TATTATGTAAGTTCTGTAA-ATTA
*
13518301 TGTAGG
59 TGTAAG
* * * * *
13518307 TTATGATATTTGATCTTTAACTTATATACGTTATGTATTATGTAAGTTCTTTAAATTATGTAAG
1 TTATGAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGTAAGTTCTGTAAATTATGTAAG
* * *
13518371 TTATGAAATTTGCTCTTTAAATTATGTAA-TTGATGTATTATGTAAGTTATGTAAATTGTGTAAG
1 TTATGAAATTTGATCTTTAAATTATGTAAGTT-ATGTATTATGTAAGTTCTGTAAATTATGTAAG
13518435 TTATG
1 TTATG
13518440 TAAGAAATGT
Statistics
Matches: 251, Mismatches: 53, Indels: 44
0.72 0.15 0.13
Matches are distributed among these distances:
62 38 0.15
63 12 0.05
64 145 0.58
65 26 0.10
66 17 0.07
67 5 0.02
68 4 0.02
69 4 0.02
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (64 bp):
TTATGAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGTAAGTTCTGTAAATTATGTAAG
Found at i:13518260 original size:9 final size:9
Alignment explanation
Indices: 13518246--13518521 Score: 106
Period size: 9 Copynumber: 30.6 Consensus size: 9
13518236 GATCTTTAAC
*
13518246 TTATGTACG
1 TTATGTAAG
13518255 TTATGT-A-
1 TTATGTAAG
13518262 TTATGTAAG
1 TTATGTAAG
* *
13518271 TTATGCAAA
1 TTATGTAAG
13518280 TTATGTAAG
1 TTATGTAAG
13518289 TTATGTAAG
1 TTATGTAAG
** *
13518298 AAATGTAGG
1 TTATGTAAG
*
13518307 TTATG-ATAT
1 TTATGTA-AG
* *
13518316 TTGATCTTTAAC
1 TT-A--TGTAAG
* *
13518328 TTATATACG
1 TTATGTAAG
13518337 TTATGT-A-
1 TTATGTAAG
13518344 TTATGTAAG
1 TTATGTAAG
* * *
13518353 TTCTTTAAA
1 TTATGTAAG
13518362 TTATGTAAG
1 TTATGTAAG
*
13518371 TTATGAAATTTG
1 TTATGTAA---G
* * * *
13518383 CTCTTTAAA
1 TTATGTAAG
13518392 TTATGTAA-
1 TTATGTAAG
13518400 TTGATGT-A-
1 TT-ATGTAAG
13518408 TTATGTAAG
1 TTATGTAAG
*
13518417 TTATGTAAA
1 TTATGTAAG
*
13518426 TTGTGTAAG
1 TTATGTAAG
13518435 TTATGTAAG
1 TTATGTAAG
**
13518444 AAATGTAAG
1 TTATGTAAG
*
13518453 TTATG-ATAT
1 TTATGTA-AG
* *
13518462 TTGATCTTTAAA
1 TT-A--TGTAAG
*
13518474 TTATGTACG
1 TTATGTAAG
13518483 TTATGT-A-
1 TTATGTAAG
13518490 TTATGTAAG
1 TTATGTAAG
*
13518499 TTATGTAAA
1 TTATGTAAG
*
13518508 TTACGTAAG
1 TTATGTAAG
13518517 TTATG
1 TTATG
13518522 AAATTTGCTG
Statistics
Matches: 192, Mismatches: 53, Indels: 44
0.66 0.18 0.15
Matches are distributed among these distances:
7 22 0.11
8 11 0.06
9 140 0.73
10 2 0.01
11 2 0.01
12 13 0.07
13 2 0.01
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:13518337 original size:82 final size:83
Alignment explanation
Indices: 13518194--13518375 Score: 294
Period size: 82 Copynumber: 2.2 Consensus size: 83
13518184 TTTGATCTTT
*
13518194 AAATTATGTAAGTTATGTAAGAAATGTAAGAACATGATATTTGATCTTTAACTTATGTACGTTAT
1 AAATTATGTAAGTTATGTAAGAAATGTAAGAACATGATATTTGATCTTTAACTTATATACGTTAT
13518259 GTATTATGTAAGTTATGC
66 GTATTATGTAAGTTATGC
***
13518277 AAATTATGTAAGTTATGTAAGAAATGT-AGGTTATGATATTTGATCTTTAACTTATATACGTTAT
1 AAATTATGTAAGTTATGTAAGAAATGTAAGAACATGATATTTGATCTTTAACTTATATACGTTAT
* **
13518341 GTATTATGTAAGTTCTTT
66 GTATTATGTAAGTTATGC
13518359 AAATTATGTAAGTTATG
1 AAATTATGTAAGTTATG
13518376 AAATTTGCTC
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 65 0.71
83 27 0.29
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.43
Consensus pattern (83 bp):
AAATTATGTAAGTTATGTAAGAAATGTAAGAACATGATATTTGATCTTTAACTTATATACGTTAT
GTATTATGTAAGTTATGC
Found at i:13518407 original size:146 final size:146
Alignment explanation
Indices: 13518196--13518530 Score: 485
Period size: 146 Copynumber: 2.3 Consensus size: 146
13518186 TGATCTTTAA
* * ** * * * *
13518196 ATTATGTAAGTTATGTAAGA-AATGTAAGAACATGATATTTGATCTTTAACTTATGTACGTTATG
1 ATTATGTAAGTTATGTAA-ATTACGTAAG-TTATGAAATTTGCTCTTTAAATTATGTACATTATG
*
13518260 TATTATGTAAGTTATGCAAATTATGTAAGTTATGTAAGAAATGTAGGTTATGATATTTGATCTTT
64 TATTATGTAAGTTATGCAAATTATGTAAGTTATGTAAGAAATGTAAGTTATGATATTTGATCTTT
*
13518325 AACTTATATACGTTATGT
129 AAATTATATACGTTATGT
* * *
13518343 ATTATGTAAGTTCTTTAAATTATGTAAGTTATGAAATTTGCTCTTTAAATTATGTA-ATTGATGT
1 ATTATGTAAGTTATGTAAATTACGTAAGTTATGAAATTTGCTCTTTAAATTATGTACATT-ATGT
* *
13518407 ATTATGTAAGTTATGTAAATTGTGTAAGTTATGTAAGAAATGTAAGTTATGATATTTGATCTTTA
65 ATTATGTAAGTTATGCAAATTATGTAAGTTATGTAAGAAATGTAAGTTATGATATTTGATCTTTA
*
13518472 AATTATGTACGTTATGT
130 AATTATATACGTTATGT
13518489 ATTATGTAAGTTATGTAAATTACGTAAGTTATGAAATTTGCT
1 ATTATGTAAGTTATGTAAATTACGTAAGTTATGAAATTTGCT
13518531 GTCTTAATAA
Statistics
Matches: 169, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
145 2 0.01
146 144 0.85
147 23 0.14
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.44
Consensus pattern (146 bp):
ATTATGTAAGTTATGTAAATTACGTAAGTTATGAAATTTGCTCTTTAAATTATGTACATTATGTA
TTATGTAAGTTATGCAAATTATGTAAGTTATGTAAGAAATGTAAGTTATGATATTTGATCTTTAA
ATTATATACGTTATGT
Found at i:13518433 original size:82 final size:82
Alignment explanation
Indices: 13518364--13518521 Score: 255
Period size: 82 Copynumber: 1.9 Consensus size: 82
13518354 TCTTTAAATT
*
13518364 ATGTAAGTTATGAAATTTGCTCTTTAAATTATGTA-ATTGATGTATTATGTAAGTTATGTAAATT
1 ATGTAAGTTATGAAATTTGATCTTTAAATTATGTACATT-ATGTATTATGTAAGTTATGTAAATT
*
13518428 GTGTAAGTTATGTAAGAA
65 ATGTAAGTTATGTAAGAA
* *
13518446 ATGTAAGTTATGATATTTGATCTTTAAATTATGTACGTTATGTATTATGTAAGTTATGTAAATTA
1 ATGTAAGTTATGAAATTTGATCTTTAAATTATGTACATTATGTATTATGTAAGTTATGTAAATTA
*
13518511 CGTAAGTTATG
66 TGTAAGTTATG
13518522 AAATTTGCTG
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
82 68 0.97
83 2 0.03
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (82 bp):
ATGTAAGTTATGAAATTTGATCTTTAAATTATGTACATTATGTATTATGTAAGTTATGTAAATTA
TGTAAGTTATGTAAGAA
Found at i:13518434 original size:18 final size:18
Alignment explanation
Indices: 13518246--13518526 Score: 133
Period size: 18 Copynumber: 17.1 Consensus size: 18
13518236 GATCTTTAAC
*
13518246 TTATGTACGTTATGT--A
1 TTATGTAAGTTATGTAAA
*
13518262 TTATGTAAGTTATGCAAA
1 TTATGTAAGTTATGTAAA
13518280 TTATGTAAGTTATGTAAGA
1 TTATGTAAGTTATGTAA-A
* * *
13518299 -AATGTAGGTTATG-ATA
1 TTATGTAAGTTATGTAAA
*
13518315 TT-TG--A-TCT-T-TAAC
1 TTATGTAAGT-TATGTAAA
* *
13518328 TTATATACGTTATGT--A
1 TTATGTAAGTTATGTAAA
* *
13518344 TTATGTAAGTTCTTTAAA
1 TTATGTAAGTTATGTAAA
13518362 TTATGTAAGTTATG-AAA
1 TTATGTAAGTTATGTAAA
*
13518379 TT-TGCT---CT-T-TAAA
1 TTATG-TAAGTTATGTAAA
13518392 TTATGTAA-TTGATGT--A
1 TTATGTAAGTT-ATGTAAA
13518408 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGTAAA
*
13518426 TTGTGTAAGTTATGTAAGA
1 TTATGTAAGTTATGTAA-A
* *
13518445 -AATGTAAGTTATG-ATA
1 TTATGTAAGTTATGTAAA
13518461 TT-TG--A-TCT-T-TAAA
1 TTATGTAAGT-TATGTAAA
*
13518474 TTATGTACGTTATGT--A
1 TTATGTAAGTTATGTAAA
13518490 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGTAAA
*
13518508 TTACGTAAGTTATG-AAA
1 TTATGTAAGTTATGTAAA
13518525 TT
1 TT
13518527 TGCTGTCTTA
Statistics
Matches: 198, Mismatches: 30, Indels: 73
0.66 0.10 0.24
Matches are distributed among these distances:
13 18 0.09
14 9 0.05
15 1 0.01
16 62 0.31
17 20 0.10
18 86 0.43
19 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.46
Consensus pattern (18 bp):
TTATGTAAGTTATGTAAA
Found at i:13520445 original size:147 final size:149
Alignment explanation
Indices: 13520233--13520539 Score: 317
Period size: 147 Copynumber: 2.1 Consensus size: 149
13520223 GTTTTATGCC
* * * * *
13520233 AAAACGCCACT-CATAACATTGAAAAACGACGACGTTTTCCATGACTGAACTAACAAATTCGCGG
1 AAAACGCCACTACATAACATGGAAAAACGACGACGTATTCCATGACTGAAATAACAAATCCACGG
* * ** *
13520297 CGTTTCTACA-TAAGCGCCACTAAATAACCCC-GAAAACGATGTCGTTTCCCGA-ACAGTTATG-
66 CGTTTATAAACT-AGCGCCACTAAATAACCCCAG-AAACGACATCGTTTCCC-ACACAATTATGT
**
13520358 ACCAAT-TTCTGGCGTTTTGGTTT
128 A--AATGTTCTGGCGTTTTGGCAT
* * **
13520381 AAAACGCCACTAC-TAACCTGGAAAAACGATGACGTATT-CATGACT-AAATGAACCCATCCACG
1 AAAACGCCACTACATAACATGGAAAAACGACGACGTATTCCATGACTGAAAT-AACAAATCCACG
* * *
13520443 GCGTTTATAAACTTGTGCCACTAAATAACCGCAGAAACGACATCGTTTCCCACACAATTATGTAA
65 GCGTTTATAAACTAGCGCCACTAAATAACCCCAGAAACGACATCGTTTCCCACACAATTATGTAA
*
13520508 ATGTTTTGGCGTTTTGGCAT
130 ATGTTCTGGCGTTTTGGCAT
13520528 AAAACGCCACTA
1 AAAACGCCACTA
13520540 AAAACATAGT
Statistics
Matches: 132, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
146 7 0.05
147 89 0.67
148 35 0.27
149 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (149 bp):
AAAACGCCACTACATAACATGGAAAAACGACGACGTATTCCATGACTGAAATAACAAATCCACGG
CGTTTATAAACTAGCGCCACTAAATAACCCCAGAAACGACATCGTTTCCCACACAATTATGTAAA
TGTTCTGGCGTTTTGGCAT
Found at i:13523013 original size:102 final size:106
Alignment explanation
Indices: 13522784--13523039 Score: 385
Period size: 113 Copynumber: 2.4 Consensus size: 106
13522774 TTAAATGCTT
*
13522784 ACTTTTATAATATACAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTATA
1 ACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTATA
*
13522849 TTAACAAAAAAAAAAAAACACTACTCATCCACTTAGACTTAGATGCAT
66 TTAAC----AAAAAAAAACACTACTCATCCAC-T--ACTTAGATGCAC
*
13522897 ACTTTTATAATATATAGAATTTTAAATTAATAACACTTTAAACTACTAATTAACTTGCTGTTATA
1 ACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTATA
*
13522962 TTAAC-AAAAAAAGCACTACTCAT-C-C-ACTTAGATGCAC
66 TTAACAAAAAAAAACACTACTCATCCACTACTTAGATGCAC
13522999 ACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAA
1 ACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAA
13523040 TTTGTTATAA
Statistics
Matches: 138, Mismatches: 5, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
102 51 0.37
106 1 0.01
107 1 0.01
108 17 0.12
113 68 0.49
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.37
Consensus pattern (106 bp):
ACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTATA
TTAACAAAAAAAAACACTACTCATCCACTACTTAGATGCAC
Found at i:13525070 original size:14 final size:14
Alignment explanation
Indices: 13525053--13525098 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
13525043 TGGAGGACCA
13525053 GAGGTGGATCGGTG
1 GAGGTGGATCGGTG
*
13525067 GAGGTCTTGA-CGGTG
1 GAGG--TGGATCGGTG
13525082 GAGGTGGATCGGTG
1 GAGGTGGATCGGTG
13525096 GAG
1 GAG
13525099 ACAGGCAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 3 0.11
14 12 0.44
15 9 0.33
16 3 0.11
ACGTcount: A:0.15, C:0.09, G:0.54, T:0.22
Consensus pattern (14 bp):
GAGGTGGATCGGTG
Found at i:13525252 original size:22 final size:22
Alignment explanation
Indices: 13525221--13525264 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13525211 AAACTTAAAA
*
13525221 TAAAACTAAAACTAT-TATATTT
1 TAAAAATAAAA-TATATATATTT
13525243 TAAAAATAAAATATATATATTT
1 TAAAAATAAAATATATATATTT
13525265 AATATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAAATAAAATATATATATTT
Found at i:13526619 original size:30 final size:30
Alignment explanation
Indices: 13526576--13526677 Score: 177
Period size: 30 Copynumber: 3.4 Consensus size: 30
13526566 ACAACATGGT
* *
13526576 ACACGAGCGTGTCACTTGGCCGTGTGAGCC
1 ACACGGGCATGTCACTTGGCCGTGTGAGCC
13526606 ACACGGGCATGTCACTTGGCCGTGTGAGCC
1 ACACGGGCATGTCACTTGGCCGTGTGAGCC
*
13526636 ACACGGGCGTGTCACTTGGCCGTGTGAGCC
1 ACACGGGCATGTCACTTGGCCGTGTGAGCC
13526666 ACACGGGCATGT
1 ACACGGGCATGT
13526678 GTCCCCTGAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.20
Consensus pattern (30 bp):
ACACGGGCATGTCACTTGGCCGTGTGAGCC
Found at i:13533003 original size:26 final size:26
Alignment explanation
Indices: 13532961--13533039 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 26
13532951 AGAATGTGAA
*
13532961 AAAAAAAATCTTT-AAATTTTAAAAAT
1 AAAAATAAT-TTTAAAATTTTAAAAAT
*
13532987 AAAAATAATTTTAAAATATATGAAAAAT
1 AAAAATAATTTTAAAAT-T-TTAAAAAT
*
13533015 ATAAAAT--TTTTCAAAAATTTAAAAA
1 A-AAAATAATTTT-AAAATTTTAAAAA
13533040 ATTGTGTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
25 3 0.07
26 18 0.41
27 6 0.14
28 12 0.27
29 5 0.11
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (26 bp):
AAAAATAATTTTAAAATTTTAAAAAT
Found at i:13540803 original size:39 final size:39
Alignment explanation
Indices: 13540739--13540826 Score: 122
Period size: 39 Copynumber: 2.2 Consensus size: 39
13540729 AGATTTTGGG
* * *
13540739 TTGTTTGTTTGTTATTTATTGTTTGAATGTGTTGGGTTAT
1 TTGTTT-TTTGTTATTTATTCTTTGAATGTGCTGAGTTAT
* *
13540779 TTGTTTTTTGTTATTTGTTCTTTGATTGTGCTGAGTTAT
1 TTGTTTTTTGTTATTTATTCTTTGAATGTGCTGAGTTAT
13540818 TTGTTTTTT
1 TTGTTTTTT
13540827 TTAATGGAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 37 0.86
40 6 0.14
ACGTcount: A:0.10, C:0.02, G:0.22, T:0.66
Consensus pattern (39 bp):
TTGTTTTTTGTTATTTATTCTTTGAATGTGCTGAGTTAT
Found at i:13542835 original size:61 final size:60
Alignment explanation
Indices: 13542740--13542867 Score: 177
Period size: 61 Copynumber: 2.1 Consensus size: 60
13542730 CACGACATCT
* * *
13542740 ATGGATGTCAAGTTTATTGTCTACTACATGTTGAAATGACAACTCAATGAACTT-GACACCC
1 ATGGATGTCAAGTTCATTGTCTACTACATATTGAAATGA-AACTCAATGAA-TTCGACACAC
** *
13542801 ATGGATGTTGAGTTCATTGTCTACTACATATTGAAATGAAACTCAATGAATTCGACATAC
1 ATGGATGTCAAGTTCATTGTCTACTACATATTGAAATGAAACTCAATGAATTCGACACAC
13542861 ATGGATG
1 ATGGATG
13542868 CTAAATTCAC
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
59 2 0.03
60 23 0.38
61 35 0.58
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (60 bp):
ATGGATGTCAAGTTCATTGTCTACTACATATTGAAATGAAACTCAATGAATTCGACACAC
Found at i:13543566 original size:3 final size:3
Alignment explanation
Indices: 13543558--13543592 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
13543548 TCAACCATTG
13543558 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
13543593 GTGTTAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:13546320 original size:19 final size:20
Alignment explanation
Indices: 13546296--13546333 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13546286 AAAAAAAATT
13546296 AAAATT-CAAAATATTTATA
1 AAAATTCCAAAATATTTATA
*
13546315 AAAATTCCAAAATTTTTAT
1 AAAATTCCAAAATATTTAT
13546334 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTCCAAAATATTTATA
Found at i:13546338 original size:26 final size:26
Alignment explanation
Indices: 13546309--13546358 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
13546299 ATTCAAAATA
*
13546309 TTTATAAAAATTCCAAAATTTTTATT
1 TTTAAAAAAATTCCAAAATTTTTATT
**
13546335 TTTAAAAAAATTTTAAAATTTTTA
1 TTTAAAAAAATTCCAAAATTTTTA
13546359 AAAAAAATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTAAAAAAATTCCAAAATTTTTATT
Found at i:13546344 original size:18 final size:19
Alignment explanation
Indices: 13546323--13546364 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
13546313 TAAAAATTCC
*
13546323 AAAATTTT-TATTTTTAAA
1 AAAATTTTAAATTTTTAAA
13546341 AAAATTTTAAAATTTTTAAA
1 AAAATTTT-AAATTTTTAAA
13546361 AAAA
1 AAAA
13546365 ATCTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
20 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATTTTAAATTTTTAAA
Found at i:13546357 original size:20 final size:20
Alignment explanation
Indices: 13546332--13546374 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
13546322 CAAAATTTTT
* *
13546332 ATTTTTAAAAAAATTTTAAA
1 ATTTTTAAAAAAAATCTAAA
13546352 ATTTTTAAAAAAAATCTAAA
1 ATTTTTAAAAAAAATCTAAA
13546372 ATT
1 ATT
13546375 ATATATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTTTTAAAAAAAATCTAAA
Found at i:13546930 original size:25 final size:25
Alignment explanation
Indices: 13546902--13546950 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13546892 AAATAATAAG
*
13546902 ATTTGTTAACTCGACTCGACTCGAA
1 ATTTGTTAACTCGACTCAACTCGAA
* * *
13546927 ATTTTTTGACTCGATTCAACTCGA
1 ATTTGTTAACTCGACTCAACTCGA
13546951 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (25 bp):
ATTTGTTAACTCGACTCAACTCGAA
Found at i:13552378 original size:18 final size:20
Alignment explanation
Indices: 13552341--13552379 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
13552331 ATTACAAAAT
*
13552341 AATTCAAAATCATTTTTAAA
1 AATTCAAAATCATTTATAAA
13552361 AATT-AAAAT-ATTTATAAA
1 AATTCAAAATCATTTATAAA
13552379 A
1 A
13552380 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 5 0.28
20 4 0.22
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTCAAAATCATTTATAAA
Found at i:13552411 original size:31 final size:31
Alignment explanation
Indices: 13552352--13552412 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
13552342 ATTCAAAATC
* * *
13552352 ATTTTTAAAAATTAAAATATTTATAAAATTT
1 ATTTTTAAAAATTAAAAAATTAAAAAAATTT
*
13552383 ATTTTTTAAAATTAAAAAATTAAAAAAATT
1 ATTTTTAAAAATTAAAAAATTAAAAAAATT
13552413 CTAAAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
ATTTTTAAAAATTAAAAAATTAAAAAAATTT
Found at i:13556745 original size:22 final size:24
Alignment explanation
Indices: 13556695--13556745 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
13556685 TTGCAATGCT
13556695 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
13556720 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
13556741 TTTAT
1 TTTAT
13556746 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:13558085 original size:13 final size:13
Alignment explanation
Indices: 13558067--13558130 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
13558057 TTCTTTATCA
13558067 CTTTTAAAAAGTG
1 CTTTTAAAAAGTG
*
13558080 CTTTTAAAAAATG
1 CTTTTAAAAAGTG
*
13558093 -TTGTGAAAAAGTG
1 CTT-TTAAAAAGTG
* *
13558106 CTTTTTAGAAGTG
1 CTTTTAAAAAGTG
* *
13558119 ATTTTGAAAAGT
1 CTTTTAAAAAGT
13558131 TTAATTTAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
12 2 0.05
13 36 0.90
14 2 0.05
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.39
Consensus pattern (13 bp):
CTTTTAAAAAGTG
Found at i:13558310 original size:33 final size:30
Alignment explanation
Indices: 13558273--13558338 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
13558263 ATTTTAGTAA
*
13558273 TAATATAAAAAATATCATAACTTGTTAATATTT
1 TAATATAAAAAATAT-A-AA-TTGTAAATATTT
**
13558306 TAATATATGAAATATAAATTGTAAATATTT
1 TAATATAAAAAATATAAATTGTAAATATTT
13558336 TAA
1 TAA
13558339 GCAATAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 14 0.47
31 2 0.07
32 1 0.03
33 13 0.43
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (30 bp):
TAATATAAAAAATATAAATTGTAAATATTT
Found at i:13559929 original size:15 final size:15
Alignment explanation
Indices: 13559902--13559934 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
13559892 TTAAAAATTA
13559902 ATAATATTTTTATAT
1 ATAATATTTTTATAT
13559917 ATAAT-TTTATTATAT
1 ATAATATTT-TTATAT
13559932 ATA
1 ATA
13559935 TATAATTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATAATATTTTTATAT
Found at i:13565441 original size:16 final size:17
Alignment explanation
Indices: 13565397--13565448 Score: 70
Period size: 18 Copynumber: 3.1 Consensus size: 17
13565387 AAAGGGAAAA
13565397 TTCCAAAAATGAAAAGT
1 TTCCAAAAATGAAAAGT
*
13565414 TTACCAAAAATGACAA-T
1 TT-CCAAAAATGAAAAGT
*
13565431 TTCCTAAAATGAAAAGT
1 TTCCAAAAATGAAAAGT
13565448 T
1 T
13565449 ATCAAGAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 11 0.37
17 7 0.23
18 12 0.40
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (17 bp):
TTCCAAAAATGAAAAGT
Found at i:13566362 original size:41 final size:40
Alignment explanation
Indices: 13566305--13566381 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 40
13566295 CGTGCATTCG
*
13566305 GGGATTTAGCGGCGTTTTTTATGAA-GCGCCGCTAAAGCTTA
1 GGGATTTAGCGGCG-TTTTTAAGAATGCGCCGC-AAAGCTTA
13566346 GGGATTTAGCGGCGTTTTTAAGAATGCGCCGCAAAG
1 GGGATTTAGCGGCGTTTTTAAGAATGCGCCGCAAAG
13566382 AAACCTAAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
40 13 0.38
41 21 0.62
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (40 bp):
GGGATTTAGCGGCGTTTTTAAGAATGCGCCGCAAAGCTTA
Found at i:13568688 original size:134 final size:131
Alignment explanation
Indices: 13568503--13568765 Score: 463
Period size: 134 Copynumber: 2.0 Consensus size: 131
13568493 AGGGTTTCTA
* *
13568503 AAGTGCAAAGCATAAAGGTGAATTGACTCGGAACGACCATAGTTGCACAATGTTATCAACCTCAA
1 AAGTGCAAAGCATAAAGGTGAATTGACTCAGAACGACCATAGCTGCACAATGTTATCAACCTCAA
13568568 GTGGTTGTTTTTCACTATAGAATTCTAAAAAGTTGTAATGACGTACATTGAACTATTGCCCATAA
66 GT-G--GTTTTTCACTATAGAATTCTAAAAAGTTGTAATGACGTACATTGAACTATTGCCCATAA
13568633 CCTC
128 CCTC
*
13568637 AAGTGCAAAGCATAAAGGTGAATTGACTCAGAACGACCATAGCTGCGCAATGTTATCAACCTCAA
1 AAGTGCAAAGCATAAAGGTGAATTGACTCAGAACGACCATAGCTGCACAATGTTATCAACCTCAA
*
13568702 GTGGTTTTTCACTATAGAATTCTAAGAAGTTGTAATGACGTACATTGAACTATTGCCCATAACC
66 GTGGTTTTTCACTATAGAATTCTAAAAAGTTGTAATGACGTACATTGAACTATTGCCCATAACC
13568766 CACTTATTAA
Statistics
Matches: 125, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
131 60 0.48
133 1 0.01
134 64 0.51
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (131 bp):
AAGTGCAAAGCATAAAGGTGAATTGACTCAGAACGACCATAGCTGCACAATGTTATCAACCTCAA
GTGGTTTTTCACTATAGAATTCTAAAAAGTTGTAATGACGTACATTGAACTATTGCCCATAACCT
C
Found at i:13575630 original size:23 final size:23
Alignment explanation
Indices: 13575572--13575635 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
13575562 TAAGGATTTG
13575572 ATTTGAATTAATTC-A-AATCCT
1 ATTTGAATTAATTCAATAATCCT
* *
13575593 ATTTCTATTTAAATTCAATAATCCT
1 ATTT-GAATT-AATTCAATAATCCT
* *
13575618 ATTTGGATTAATTTAATA
1 ATTTGAATTAATTCAATA
13575636 TTTTTCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 4 0.12
22 3 0.09
23 13 0.39
24 3 0.09
25 10 0.30
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.47
Consensus pattern (23 bp):
ATTTGAATTAATTCAATAATCCT
Found at i:13576449 original size:46 final size:46
Alignment explanation
Indices: 13576392--13576485 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
13576382 TTATTTTAAT
13576392 ATGGTTAAAATATGACATAAATTCTTTTACTTTTCTTAAATTTGTA
1 ATGGTTAAAATATGACATAAATTCTTTTACTTTTCTTAAATTTGTA
13576438 ATGGTTAAAATATGACATAAATTCTTTTACTTTTCTTAAATTTGTA
1 ATGGTTAAAATATGACATAAATTCTTTTACTTTTCTTAAATTTGTA
13576484 AT
1 AT
13576486 TTAGTCCTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (46 bp):
ATGGTTAAAATATGACATAAATTCTTTTACTTTTCTTAAATTTGTA
Found at i:13579249 original size:20 final size:21
Alignment explanation
Indices: 13579205--13579250 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
13579195 TTATTAATTT
*
13579205 TTTAAAAAAACTATAAAAATA
1 TTTAAAAAAAATATAAAAATA
*
13579226 -TTAAAAAAAAT-TAGAAATA
1 TTTAAAAAAAATATAAAAATA
13579245 TTTAAA
1 TTTAAA
13579251 CATAGTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
TTTAAAAAAAATATAAAAATA
Found at i:13579765 original size:18 final size:17
Alignment explanation
Indices: 13579737--13579788 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
13579727 ATTTTCTGTA
13579737 TTTTATAAATTTTAAGAAT
1 TTTTAT-AATTTTAA-AAT
* *
13579756 TTTTATAATTATTTAATT
1 TTTTATAATT-TTAAAAT
13579774 TTTTATAA-TTTAAAA
1 TTTTATAATTTTAAAA
13579789 AATCAAGTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 4 0.14
17 1 0.04
18 14 0.50
19 9 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTTATAATTTTAAAAT
Found at i:13580360 original size:19 final size:19
Alignment explanation
Indices: 13580338--13580376 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13580328 ACCATTGTCA
*
13580338 TCCATCGTAATAAAATTTT
1 TCCACCGTAATAAAATTTT
* *
13580357 TCCACCTTAATCAAATTTT
1 TCCACCGTAATAAAATTTT
13580376 T
1 T
13580377 TATTAACTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.44
Consensus pattern (19 bp):
TCCACCGTAATAAAATTTT
Found at i:13581300 original size:9 final size:9
Alignment explanation
Indices: 13581283--13581313 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13581273 TCATGTTGAT
13581283 TCGAATAAC
1 TCGAATAAC
*
13581292 TCGATTAAC
1 TCGAATAAC
13581301 TCGAATAAC
1 TCGAATAAC
13581310 TCGA
1 TCGA
13581314 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:13592263 original size:24 final size:24
Alignment explanation
Indices: 13592231--13592276 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13592221 TATTAGTTGA
*
13592231 AAGAAATGGAAATCGATTTTTTTT
1 AAGAAATGGAAATCAATTTTTTTT
*
13592255 AAGAAATGGAATTCAATTTTTT
1 AAGAAATGGAAATCAATTTTTT
13592277 CTCGAATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.41
Consensus pattern (24 bp):
AAGAAATGGAAATCAATTTTTTTT
Found at i:13592363 original size:55 final size:55
Alignment explanation
Indices: 13592289--13592398 Score: 166
Period size: 55 Copynumber: 2.0 Consensus size: 55
13592279 CGAATTAGGT
* * * *
13592289 TTGAATTTTGAAATTGATATTATTAAAATAAATTTATCTTAATGTCATCCTTGAC
1 TTGAATTTTAAAATCGATATTACTAAAATAAATTTATCTGAATGTCATCCTTGAC
* *
13592344 TTGAATTTTAAAATCGATATTGCTAAAATAGATTTATCTGAATGTCATCCTTGAC
1 TTGAATTTTAAAATCGATATTACTAAAATAAATTTATCTGAATGTCATCCTTGAC
13592399 CTAAATAGGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (55 bp):
TTGAATTTTAAAATCGATATTACTAAAATAAATTTATCTGAATGTCATCCTTGAC
Found at i:13592640 original size:30 final size:30
Alignment explanation
Indices: 13592570--13592645 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
13592560 TTTTAATTTG
**
13592570 ATTAATTTTTGTTCTCATATCTTTTGAATT
1 ATTAATTTTTAATCTCATATCTTTTGAATT
*
13592600 AGTTAA-TTTTAATCTCATATTTTTTGAATT
1 A-TTAATTTTTAATCTCATATCTTTTGAATT
*
13592630 -TTAAATTTTTAGTCTC
1 ATT-AATTTTTAATCTC
13592646 GATCCAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 2 0.05
29 2 0.05
30 31 0.79
31 4 0.10
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.58
Consensus pattern (30 bp):
ATTAATTTTTAATCTCATATCTTTTGAATT
Found at i:13596212 original size:30 final size:30
Alignment explanation
Indices: 13596178--13596242 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
13596168 ACTTATTTTA
13596178 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
13596208 TTGTTAATTTTGTTATTATTTTGAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
13596238 TTGTT
1 TTGTT
13596243 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:13600130 original size:22 final size:23
Alignment explanation
Indices: 13600102--13600146 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13600092 TTGCTGTAAA
* *
13600102 TATATTTA-TTTTATCGTTTTAT
1 TATATTTACTTATATCCTTTTAT
13600124 TATATTTACTTATATCCTTTTAT
1 TATATTTACTTATATCCTTTTAT
13600147 AATTTCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.64
Consensus pattern (23 bp):
TATATTTACTTATATCCTTTTAT
Found at i:13601006 original size:73 final size:73
Alignment explanation
Indices: 13600887--13601030 Score: 243
Period size: 73 Copynumber: 2.0 Consensus size: 73
13600877 TCTCGAATTT
* *
13600887 AAAAAGGGGATCATGCCCAGTAAGTTAGGACACAATCTTTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAA
*
13600952 TTTGAGAA
66 CTTGAGAA
* *
13600960 AAAAAAGGGATCATGCCTAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAA
13601025 CTTGAG
66 CTTGAG
13601031 TTTGAAGAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (73 bp):
AAAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAA
CTTGAGAA
Found at i:13601790 original size:21 final size:21
Alignment explanation
Indices: 13601767--13601809 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
13601757 TAATTTTAGA
13601767 ATAATA-ATACATAT-TAAA-
1 ATAATATATACATATATAAAG
13601785 ATAATATATACATATATAAAG
1 ATAATATATACATATATAAAG
13601806 ATAA
1 ATAA
13601810 AAGAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.27
19 8 0.36
20 4 0.18
21 4 0.18
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAATATATACATATATAAAG
Found at i:13604212 original size:16 final size:17
Alignment explanation
Indices: 13604191--13604222 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13604181 AAATATGCAA
13604191 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
13604207 TCACATAACTTCATAT
1 TCACATAACTTCATAT
13604223 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:13604526 original size:43 final size:42
Alignment explanation
Indices: 13604383--13604553 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 42
13604373 GACTCGTACA
* * *
13604383 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACA-ATCG
* *
13604426 ATGCC-ACTGTCCCAAACAGGGTCTTACAC--AAATCA-AATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAA-CACAAT-CG
*
13604467 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAA-TCG
* * **
13604510 ATGCCAACGTCTCAGACGTGGTCTTACACAAAAACACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACA-ATCG
13604553 A
1 A
13604554 AATCCTATGT
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
40 2 0.02
41 29 0.27
42 7 0.07
43 66 0.62
44 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAATCG
Found at i:13604533 original size:84 final size:84
Alignment explanation
Indices: 13604383--13604541 Score: 216
Period size: 84 Copynumber: 1.9 Consensus size: 84
13604373 GACTCGTACA
* * *
13604383 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAAACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAAACAGGGT
13604448 CTTACACAAATCAAATACG
66 CTTACACAAATCAAATACG
* * *
13604467 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAAC-GTCTCAGAC-GT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCGATGCC-ACTGTCCCAAACAG-
13604529 GGTCTTACACAAA
63 GGTCTTACACAAA
13604542 AACACATATC
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
83 2 0.03
84 62 0.94
85 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAAACAGGGT
CTTACACAAATCAAATACG
Found at i:13606463 original size:43 final size:43
Alignment explanation
Indices: 13606402--13606493 Score: 184
Period size: 43 Copynumber: 2.1 Consensus size: 43
13606392 AAATGAAAAA
13606402 TTTTTTAGAATCACCTCTGTTTTTGTATTCTATTTTTTTAACC
1 TTTTTTAGAATCACCTCTGTTTTTGTATTCTATTTTTTTAACC
13606445 TTTTTTAGAATCACCTCTGTTTTTGTATTCTATTTTTTTAACC
1 TTTTTTAGAATCACCTCTGTTTTTGTATTCTATTTTTTTAACC
13606488 TTTTTT
1 TTTTTT
13606494 CATACAATAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.17, C:0.15, G:0.07, T:0.61
Consensus pattern (43 bp):
TTTTTTAGAATCACCTCTGTTTTTGTATTCTATTTTTTTAACC
Found at i:13610033 original size:21 final size:21
Alignment explanation
Indices: 13610009--13610048 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13609999 GCATATAAAT
13610009 TATAACTTATAATTATTTTTG
1 TATAACTTATAATTATTTTTG
* *
13610030 TATAATTTTTAATTATTTT
1 TATAACTTATAATTATTTT
13610049 CCAAAGTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (21 bp):
TATAACTTATAATTATTTTTG
Found at i:13610602 original size:51 final size:50
Alignment explanation
Indices: 13610482--13610723 Score: 195
Period size: 51 Copynumber: 4.8 Consensus size: 50
13610472 TATCATTCGA
* * * *
13610482 TACATGTAGTAGCCTTCACATAGTAC-ACACATGTGATCA-AACTTTCCGG
1 TACACGTAGTAGCCTACACATAGTACTACACATGTGACCATAA-TATCCGG
* * *
13610531 TTCACGTAGTAGCCTGCACATAGTACTACACATGTGACCATTAATATCCGA
1 TACACGTAGTAGCCTACACATAGTACTACACATGTGACCA-TAATATCCGG
* * * * * *
13610582 TACACGTAGTATCCTACACATAATACTACACACGTGATCGA-AGCTATCTGG
1 TACACGTAGTAGCCTACACATAGTACTACACATGTGA-CCATA-ATATCCGG
** * * * * * * *
13610633 TATGCATTGTAGCCTGCACATAGTACTACACATGCGACCTTTCAT-TCTGG
1 TACACGTAGTAGCCTACACATAGTACTACACATGTGACC-ATAATATCCGG
* *
13610683 TACATGTAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TACACGTAGTAGCCTACACATAGTACTACACATGTGACCAT
13610724 CACTTTCACT
Statistics
Matches: 149, Mismatches: 37, Indels: 14
0.75 0.19 0.07
Matches are distributed among these distances:
49 24 0.16
50 50 0.34
51 71 0.48
52 4 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (50 bp):
TACACGTAGTAGCCTACACATAGTACTACACATGTGACCATAATATCCGG
Found at i:13610703 original size:101 final size:98
Alignment explanation
Indices: 13610474--13610719 Score: 298
Period size: 101 Copynumber: 2.5 Consensus size: 98
13610464 TTAACTATTA
* * *
13610474 TCATTCGATACATGTAGTAGCCTTCACATAGTAC-ACACATGTGATCAAACTTTCCGGTTCACGT
1 TCATTCGATACATGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTATCCGGTTCAC-T
*
13610538 AGTAGCCTGCACATAGTACTACACATGTGACCAT
65 AGTAGCCTGCACATAGTACTACACATGCGACCAT
* * * * * *
13610572 TAATATCCGATACACGTAGTATCCTACACATAATACTACACACGTGATCGAAGCTATCTGGTATG
1 TCAT-T-CGATACATGTAGTAGCCTACACATAGTACTACACACGTGATC-AAACTATCCGGT-T-
* *
13610637 CA-TTGTAGCCTGCACATAGTACTACACATGCGACCTT
61 CACTAGTAGCCTGCACATAGTACTACACATGCGACCAT
*
13610674 TCATTCTGGTACATGTAGTAGCCTACACATAGTACTACACACGTGA
1 TCATTC-GATACATGTAGTAGCCTACACATAGTACTACACACGTGA
13610720 CCATCACTTT
Statistics
Matches: 124, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
98 3 0.02
99 1 0.01
100 26 0.21
101 47 0.38
102 44 0.35
103 1 0.01
104 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (98 bp):
TCATTCGATACATGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTATCCGGTTCACTA
GTAGCCTGCACATAGTACTACACATGCGACCAT
Found at i:13612933 original size:19 final size:20
Alignment explanation
Indices: 13612909--13612947 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
13612899 GGACTGAATT
13612909 GAATTT-AAAAACAAAAAAC
1 GAATTTAAAAAACAAAAAAC
13612928 GAATTTAGAAAAACAAAAAA
1 GAATTTA-AAAAACAAAAAA
13612948 AAAGGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (20 bp):
GAATTTAAAAAACAAAAAAC
Found at i:13614750 original size:99 final size:99
Alignment explanation
Indices: 13614519--13615299 Score: 1303
Period size: 99 Copynumber: 7.9 Consensus size: 99
13614509 TACAATGTTG
* * * * * * *
13614519 GGGAAACTAGATCTGCCATCGTAGCTTCAATCTGTTCCACCGCACCG-TCAGAAAAGTAAGATCC
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAG-GAAGTAAGATCC
*
13614583 GCCTTTGTGGCTTCAATCTTTTTAATTGCAATATCA
65 GCCGTTGTGGCTTCAATC-TTTTAATTGCAATATCA
* * * *
13614619 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAAATCTG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
*
13614684 TCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
* *
13614718 GGGAAACCAGATCTGTCGTCGTAGTTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
*
13614783 CCGTTGTGGCTTCAATCTTTTAATTACAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
* * * *
13614817 GGGAAACCAGATCTGCCGTCATAGCTTTAATCTGTTTCGCTGCACTGCTAAGGAAGTAAGATCCA
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
13614882 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATC-TTTTAATTGCAATATCA
*
13614917 GGGAAACCAAATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
*
13614982 TCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
*
13615016 GGGAAACCAGATCTGCCATCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
13615081 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
13615115 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
*
13615180 CCATTGTGGCTTCAATCTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
*
13615214 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
13615279 CCGTTGTGGCTTCAATCTTTT
66 CCGTTGTGGCTTCAATCTTTT
13615300 TACTTTTCAA
Statistics
Matches: 640, Mismatches: 39, Indels: 5
0.94 0.06 0.01
Matches are distributed among these distances:
99 478 0.75
100 159 0.25
101 3 0.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (99 bp):
GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
Found at i:13615055 original size:298 final size:298
Alignment explanation
Indices: 13614519--13615299 Score: 1332
Period size: 298 Copynumber: 2.6 Consensus size: 298
13614509 TACAATGTTG
* * * * * * *
13614519 GGGAAACTAGATCTGCCATCGTAGCTTCAATCTGTTCCACCGCACCG-TCAGAAAAGTAAGATCC
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAG-GAAGTAAGATCC
* *
13614583 GCCTTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCA
65 GCCATTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTAGCTTCA
* *
13614648 ATCTGTTCCACTGCACTGCTAAGGAAGTAAAATCTGTCGTTGTGGCTTCAATCTTTTAATTGCAA
130 ATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTGTCGTTGTGGCTTCAATCTTTTAATTGCAA
* * *
13614713 TATCAGGGAAACCAGATCTGTCGTCGTAGTTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAG
195 TATCAGGGAAACCAGATCTGCCATCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAG
13614778 ATCCGCCGTTGTGGCTTCAATCTTTTAATTACAATATCA
260 ATCCGCCGTTGTGGCTTCAATCTTTTAATTACAATATCA
* * * *
13614817 GGGAAACCAGATCTGCCGTCATAGCTTTAATCTGTTTCGCTGCACTGCTAAGGAAGTAAGATCCA
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
* *
13614882 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAAATCTGCCGTCGTAGCTTCAA
66 CCATTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTAGCTTCAA
*
13614947 TCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCGTCGTTGTGGCTTCAATCTTTTAATTGCAAT
131 TCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTGTCGTTGTGGCTTCAATCTTTTAATTGCAAT
13615012 ATCAGGGAAACCAGATCTGCCATCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGA
196 ATCAGGGAAACCAGATCTGCCATCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGA
*
13615077 TCCGCCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
261 TCCGCCGTTGTGGCTTCAATCTTTTAATTACAATATCA
13615115 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
13615180 CCATTGTGGCTTCAATC-TTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTAGCTTCAA
66 CCATTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTAGCTTCAA
*
13615244 TCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTT
131 TCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTGTCGTTGTGGCTTCAATCTTTT
13615300 TACTTTTCAA
Statistics
Matches: 453, Mismatches: 29, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
297 100 0.22
298 350 0.77
299 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (298 bp):
GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
CCATTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTAGCTTCAA
TCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTGTCGTTGTGGCTTCAATCTTTTAATTGCAAT
ATCAGGGAAACCAGATCTGCCATCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGA
TCCGCCGTTGTGGCTTCAATCTTTTAATTACAATATCA
Found at i:13615227 original size:397 final size:398
Alignment explanation
Indices: 13614519--13615301 Score: 1318
Period size: 397 Copynumber: 2.0 Consensus size: 398
13614509 TACAATGTTG
* * *
13614519 GGGAAACTAGATCTGCCATCGTAGCTTCAATCTGTTCCACCGCACCGTCAGAAAAGTAAGATCCG
1 GGGAAACCAAATCTGCCATCGTAGCTTCAATCTGTTCCACCGCACCGTAAGAAAAGTAAGATCCG
* *
13614584 CCTTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCATCGTAGCTTCAA
* *
13614649 TCTGTTCCACTGCACTGCTAAGGAAGTAAAATCTGTCGTTGTGGCTTCAATCTTTTAATTGCAAT
131 TCTGTTCCACTGCACTGCTAAGGAAGTAAAATCCGCCGTTGTGGCTTCAATCTTTTAATTGCAAT
* *
13614714 ATCAGGGAAACCAGATCTGTCGTCGTAGTTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGA
196 ATCAGGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGA
*
13614779 TCCGCCGTTGTGGCTTCAATCTTTTAATTACAATATCAGGGAAACCAGATCTGCCGTCATAGCTT
261 TCCGCCATTGTGGCTTCAATCTTTTAATTACAATATCAGGGAAACCAGATCTGCCGTCATAGCTT
* *
13614844 TAATCTGTTTCGCTGCACTGCTAAGGAAGTAAGATCCACCGTTGTGGCTTCAATCTTTTTAATTG
326 CAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCACCGTTGTGGCTTCAATCTTTTTAATTG
13614909 CAATATCA
391 CAATATCA
* * * * *
13614917 GGGAAACCAAATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAG-GAAGTAAGATCC
1 GGGAAACCAAATCTGCCATCGTAGCTTCAATCTGTTCCACCGCACCG-TAAGAAAAGTAAGATCC
* *
13614981 GTCGTTGTGGCTTCAATC-TTTTAATTGCAATATCAGGGAAACCAGATCTGCCATCGTAGCTTCA
65 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCATCGTAGCTTCA
* *
13615045 ATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAATTGCAA
130 ATCTGTTCCACTGCACTGCTAAGGAAGTAAAATCCGCCGTTGTGGCTTCAATCTTTTAATTGCAA
13615110 TATCAGGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAG
195 TATCAGGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAG
* *
13615175 ATCCGCCATTGTGGCTTCAATCTTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTAGCT
260 ATCCGCCATTGTGGCTTCAATCTTTTAATTACAATATCAGGGAAACCAGATCTGCCGTCATAGCT
**
13615240 TCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTA
325 TCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCACCGTTGTGGCTTCAATCTTTTTA
13615302 CTTTTCAACC
Statistics
Matches: 359, Mismatches: 25, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
397 288 0.80
398 68 0.19
399 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (398 bp):
GGGAAACCAAATCTGCCATCGTAGCTTCAATCTGTTCCACCGCACCGTAAGAAAAGTAAGATCCG
CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCATCGTAGCTTCAA
TCTGTTCCACTGCACTGCTAAGGAAGTAAAATCCGCCGTTGTGGCTTCAATCTTTTAATTGCAAT
ATCAGGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGA
TCCGCCATTGTGGCTTCAATCTTTTAATTACAATATCAGGGAAACCAGATCTGCCGTCATAGCTT
CAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCACCGTTGTGGCTTCAATCTTTTTAATTG
CAATATCA
Found at i:13627042 original size:36 final size:36
Alignment explanation
Indices: 13626974--13627048 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
13626964 AAAGTAAAAC
* *
13626974 AAATGTTTTTTAAATATATATATATATAAAGATATAT
1 AAATGTTTTGTAAATAAATATATATATAAAGATA-AT
* *
13627011 AAATGTTTTGTAAA-AAATGTATTTATAAAGATAAT
1 AAATGTTTTGTAAATAAATATATATATAAAGATAAT
13627046 AAA
1 AAA
13627049 AGAATATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 5 0.15
36 16 0.47
37 13 0.38
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (36 bp):
AAATGTTTTGTAAATAAATATATATATAAAGATAAT
Found at i:13627230 original size:19 final size:20
Alignment explanation
Indices: 13627206--13627244 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
13627196 GGACTGAATT
13627206 GAATTT-AAAAACAAAAAAC
1 GAATTTAAAAAACAAAAAAC
13627225 GAATTTAGAAAAACAAAAAA
1 GAATTTA-AAAAACAAAAAA
13627245 AAGGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (20 bp):
GAATTTAAAAAACAAAAAAC
Found at i:13629539 original size:17 final size:17
Alignment explanation
Indices: 13629517--13629549 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13629507 ACACGGGCTG
13629517 GCCACACACCCATGTGA
1 GCCACACACCCATGTGA
*
13629534 GCCACACGCCCATGTG
1 GCCACACACCCATGTG
13629550 CCAGCCCGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.42, G:0.21, T:0.12
Consensus pattern (17 bp):
GCCACACACCCATGTGA
Found at i:13643016 original size:17 final size:18
Alignment explanation
Indices: 13642976--13643020 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
13642966 ATTGCCTTCA
*
13642976 GTTTATTTAAAAGTATTT
1 GTTTATCTAAAAGTATTT
*
13642994 GGTTATCTAAAA-TATTT
1 GTTTATCTAAAAGTATTT
*
13643011 TTTTATCTAA
1 GTTTATCTAA
13643021 TTACTATGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.53
Consensus pattern (18 bp):
GTTTATCTAAAAGTATTT
Found at i:13653098 original size:15 final size:16
Alignment explanation
Indices: 13653061--13653099 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
13653051 CATTATATAG
13653061 AAGTG-AAGTGATACA
1 AAGTGAAAGTGATACA
13653076 AAGTGAAAG-GATACA
1 AAGTGAAAGTGATACA
13653091 AAGTGAAAG
1 AAGTGAAAG
13653100 AGGGTTCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 20 0.87
16 3 0.13
ACGTcount: A:0.51, C:0.05, G:0.28, T:0.15
Consensus pattern (16 bp):
AAGTGAAAGTGATACA
Found at i:13654006 original size:16 final size:15
Alignment explanation
Indices: 13653985--13654016 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
13653975 CTGATATACG
13653985 AAAAAGGAAAAAGAAA
1 AAAAAGGAAAAA-AAA
13654001 AAAAAGGAAAAAAAA
1 AAAAAGGAAAAAAAA
13654016 A
1 A
13654017 TTTGGGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAGGAAAAAAAA
Found at i:13654358 original size:118 final size:113
Alignment explanation
Indices: 13654008--13654569 Score: 813
Period size: 116 Copynumber: 5.0 Consensus size: 113
13653998 AAAAAAAAGG
* *
13654008 AAAAAAAAATTTGGGTGGTGGCCTGTCAATGGCCGGCACTCAACAGTAAAAAAAATTTTGAATTT
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAATTTTGAA-TT
13654073 TTTCTTTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAGTAA
65 TTTC--TTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAGTAA
* * *
13654124 AAAAAAAAA-TTGGGTGTTGGCCTGTCAATGGCCAGCACCCAACAGTAAAAAAAAATTTGAATTT
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAATTTTGAA-TT
*
13654188 TTTCTTTTTTTT-GTGTCAGAATCAGATATAAAATATAAGAAAAAAAGTAAA
65 TTTCTTTTTTTTCGTGTCAGAATCAGATAT-AAATATACG-AAAAAAGT-AA
* *
13654239 AAAAAAAAATTTGGGTGCGGGCCTGTCAATGGCCGGCACCCAACAGAAAAAAAAATTTTGAATTT
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAATTTTGAATTT
13654304 GTTCTTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAGTTAA
66 -TTC-TTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAG-TAA
*** *
13654355 AAAATAATTTTTTTGGGTGCTGGTCTGTCAATGGCCGGCACCCAACAGTAAAAAAAATTTTGAA-
1 AAAA-AA-AAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAATTTTGAAT
*
13654419 ------TTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAA-T-T
64 TTTTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAGTAA
13654461 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAATTTTGAATTT
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAATTTTGAATTT
*
13654526 TTCTTTTTTTTCGTGTTAGAATCAGATATAAATATACGAAAAAA
66 TTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAA
13654570 AATGTCAATG
Statistics
Matches: 406, Mismatches: 23, Indels: 39
0.87 0.05 0.08
Matches are distributed among these distances:
104 52 0.13
105 2 0.00
106 4 0.01
107 1 0.00
109 40 0.10
111 39 0.10
112 17 0.04
113 16 0.04
114 8 0.02
115 69 0.17
116 72 0.18
117 19 0.05
118 67 0.17
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (113 bp):
AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAATTTTGAATTT
TTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAGTAA
Found at i:13654635 original size:88 final size:88
Alignment explanation
Indices: 13654484--13654658 Score: 307
Period size: 88 Copynumber: 2.0 Consensus size: 88
13654474 GGTGCTGGCC
* *
13654484 TGTCAATGGCCGGCACCCAACAGTAAAAAAAATTTTGAATTTTTCTTTTTTTTCGTGTTAGAATC
1 TGTCAATGGCCGGCACCCAACAATAAAAAAAATTTTGAATTTTTCTTTTTTTTCGTGTCAGAATC
*
13654549 AGATATAAATATACGAAAAAAAA
66 AAATATAAATATACGAAAAAAAA
13654572 TGTCAATGGCCGGCACCCAACAATAAAAAAAATTTTGAATTTTT-TCTTTTTTTCGTGTCAGAAT
1 TGTCAATGGCCGGCACCCAACAATAAAAAAAATTTTGAATTTTTCT-TTTTTTTCGTGTCAGAAT
13654636 CAAATATAAATATACGAAAAAAA
65 CAAATATAAATATACGAAAAAAA
13654659 TTCCTTTTTT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
87 1 0.01
88 82 0.99
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.33
Consensus pattern (88 bp):
TGTCAATGGCCGGCACCCAACAATAAAAAAAATTTTGAATTTTTCTTTTTTTTCGTGTCAGAATC
AAATATAAATATACGAAAAAAAA
Found at i:13654783 original size:108 final size:107
Alignment explanation
Indices: 13654652--13655071 Score: 422
Period size: 108 Copynumber: 3.8 Consensus size: 107
13654642 TAAATATACG
* *
13654652 AAAAAAATTCCTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAGAAAAAATTCAAAT
1 AAAAAAATT-TTTTTTTAGTATATTTATATCTGATTCTGACACGAAAAAAAGAAAAAATTCAAA-
*****
13654717 TTTTTTTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCA
64 AAAAATTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCA
* * * *
13654761 AAAAAAATTTTTTTTTAATATATTTATATCTAATTCTGGCATGAAAAAAAAAAGAAAAAATTCAA
1 AAAAAAATTTTTTTTTAGTATATTTATATCTGATTCTGACACG---AAAAAAAGAAAAAATTCAA
*
13654826 AAAAAATTTACTGTTGGGTGCCGGCCATTGACAGACCAGCA-CCA
63 AAAAAATTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCA
*
13654870 AAAAAATTTTTTTTTTACTTTTTTCGTATATTTATATCTGATTCTGACACG---AAAA-AAAAAA
1 AAAAAAATTTTTTTTTA--------GTATATTTATATCTGATTCTGACACGAAAAAAAGAAAAAA
*
13654931 TTCAAAAAAAAAATTTACTGTTGGGTGCCGGCCATTGACAGGCTAGCACCCA
58 TTC--AAAAAAAATTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCA
***** * *
13654983 AATTTTTTTTTTATTTTTTCGTATATTTATATCTGATTCTAACAC-AAAAAAAGAAAAAATT-AA
1 AA--AAAAATTT-TTTTTTAGTATATTTATATCTGATTCTGACACGAAAAAAAGAAAAAATTCAA
* *
13655046 AAAAAAATTACTGTTGGGTGCTGGCC
63 AAAAAATTTACTGTTGGGTGCCGGCC
13655072 CCCAAAAAAA
Statistics
Matches: 263, Mismatches: 27, Indels: 43
0.79 0.08 0.13
Matches are distributed among these distances:
108 78 0.30
109 28 0.11
110 47 0.18
111 32 0.12
112 41 0.16
113 5 0.02
115 4 0.02
116 6 0.02
117 22 0.08
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (107 bp):
AAAAAAATTTTTTTTTAGTATATTTATATCTGATTCTGACACGAAAAAAAGAAAAAATTCAAAAA
AAATTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCA
Found at i:13654939 original size:13 final size:13
Alignment explanation
Indices: 13654921--13654945 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13654911 TTCTGACACG
13654921 AAAAAAAAAATTC
1 AAAAAAAAAATTC
13654934 AAAAAAAAAATT
1 AAAAAAAAAATT
13654946 TACTGTTGGG
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:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAAAAAATTC
Found at i:13656424 original size:24 final size:25
Alignment explanation
Indices: 13656364--13656457 Score: 77
Period size: 24 Copynumber: 3.8 Consensus size: 25
13656354 AAAGGTTTCA
* *
13656364 AAATAAACA-AAAA-AATTTGACAT
1 AAATAAATATAAAACAATTTGAAAT
*
13656387 AAATAAAATATAAAACAGTTTGAAAT
1 AAAT-AAATATAAAACAATTTGAAAT
* * *
13656413 AAAT-AATTTAAAGCAATTTAAAAT
1 AAATAAATATAAAACAATTTGAAAT
* *
13656437 AAACAATACATAAAACAATTT
1 AAATAA-ATATAAAACAATTT
13656458 AAAAGAATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
23 4 0.07
24 23 0.42
25 5 0.09
26 23 0.42
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (25 bp):
AAATAAATATAAAACAATTTGAAAT
Found at i:13656606 original size:25 final size:25
Alignment explanation
Indices: 13656577--13656641 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
13656567 ATAATGCCCA
13656577 AAATAATATAAAAACAGTTTAAGAT
1 AAATAATATAAAAACAGTTTAAGAT
13656602 AAATAATATAAAAACAGTTTAAGAT
1 AAATAATATAAAAACAGTTTAAGAT
13656627 AAATAATATATAAAA
1 AAATAATATA-AAAA
13656642 TTTAAAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
25 35 0.90
26 4 0.10
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (25 bp):
AAATAATATAAAAACAGTTTAAGAT
Found at i:13658148 original size:43 final size:43
Alignment explanation
Indices: 13658100--13658206 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 43
13658090 ACTCTGCTGT
* * * * * * *
13658100 AACTTCAGGGGATGAGATTTGTGTTTTTAGTCTGCTCCACTGC
1 AACTTCAGGGGATAAGACTTGTATCTTCAATCTGCCCCACTGC
*
13658143 AACTTCAGGGAGATAAGACTTGTATCTTCAATCTGCCCCACTGT
1 AACTTCAGGG-GATAAGACTTGTATCTTCAATCTGCCCCACTGC
13658187 AACTTCAGGGGGATAAGACT
1 AACTTCA-GGGGATAAGACT
13658207 GGTGGCTTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 10 0.19
44 41 0.76
45 3 0.06
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (43 bp):
AACTTCAGGGGATAAGACTTGTATCTTCAATCTGCCCCACTGC
Found at i:13658220 original size:44 final size:44
Alignment explanation
Indices: 13658130--13658220 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 44
13658120 GTGTTTTTAG
* * * *
13658130 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAA
1 TCTGCCCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAA
* * *
13658174 TCTGCCCCACTGTAACTTCAGGGGGATAAGACTGGTGGCTTAAA
1 TCTGCCCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAA
13658218 TCT
1 TCT
13658221 ACTTCCCTAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTGCCCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAA
Found at i:13658498 original size:174 final size:174
Alignment explanation
Indices: 13658208--13658541 Score: 535
Period size: 174 Copynumber: 1.9 Consensus size: 174
13658198 GATAAGACTG
* * *
13658208 GTGGCTTAAATCTACTTCCCTACTAACTTGGGAAGATAAGATTTGTTGTCTTCGATCTGCTCCAC
1 GTGGCTTAAATCGACTTCCCTACTAACTTGGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCAC
* * *
13658273 AACTGCTTAGGGAGACAAGATCAACTTTCGATCTGCTTCACTGCCAATACAGGAAGACAATATCT
66 AACAGCTTAGGGAGACAAGACCAACTTTCGATCTGCTTCACTGCCAATACAGGAAGACAATATAT
*
13658338 ACAATCTTTAACCTACTCCACTGCTGCTCAGGGAGATAGGACCA
131 ACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCA
* *
13658382 GTGGCTTAAATTCGA-TTCCCTACTACCTTGGGAATATAAGATTCGTCGTCTTCGATCTGCTCCA
1 GTGGCTTAAA-TCGACTTCCCTACTAACTTGGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCA
* * * *
13658446 CTACAGCTTAGGGAGACAGGACCAGCTTTCGATCTGCTTCACTGCTAATACAGGAAGACAATATA
65 CAACAGCTTAGGGAGACAAGACCAACTTTCGATCTGCTTCACTGCCAATACAGGAAGACAATATA
13658511 TACAATCTTCAACCTACTCCACTGCTGCTCA
130 TACAATCTTCAACCTACTCCACTGCTGCTCA
13658542 AGGCGATAAG
Statistics
Matches: 146, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
174 143 0.98
175 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (174 bp):
GTGGCTTAAATCGACTTCCCTACTAACTTGGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCAC
AACAGCTTAGGGAGACAAGACCAACTTTCGATCTGCTTCACTGCCAATACAGGAAGACAATATAT
ACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCA
Found at i:13658626 original size:45 final size:45
Alignment explanation
Indices: 13658573--13659820 Score: 1333
Period size: 45 Copynumber: 27.8 Consensus size: 45
13658563 ATCTGTTTCA
*
13658573 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTTG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
* * * **
13658618 CTGCCAATACAGGAAGATAAGATCTACAATCTTCGATCTACTTTA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
* * * *
13658663 CTGCCAATACAGGAAAACAAGATTTGCTATCTTTGACCTACTTCG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
* * * *
13658708 CTACTAATACAGGAAGACAAGATCTACAATCTTCGATCTACTTCG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
* * * *
13658753 TTGCCAATACAGGAAGACAAGATCTACAATCTTCGACCTACTTCG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
** * *
13658798 CTGCCAATACAAAAAGATAAGATCTGCTATCTTCGACCTACTTCG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
* *
13658843 CTGCCAATACAGGAAGACAAGATCTGCTATATTC-AGTCTACTTCA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGA-TCTACTTCG
* * *
13658888 CTGTCAATACATGAAGACAAGA-CTTACTATCTTCGATCTACTTCG
1 CTGCCAATACAGGAAGACAAGATC-TGCTATCTTCGATCTACTTCG
* * * * * *
13658933 CTACCAATATAGGAAAACAAGATCTACAATCTTCGATCTACTTTG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
* * *
13658978 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAACCTATTTCG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
*
13659023 CTGCCAATACAGGAAGACAAGA-CATGCTATCTT-TAGTCTACTTCG
1 CTGCCAATACAGGAAGACAAGATC-TGCTATCTTCGA-TCTACTTCG
* * * *
13659068 CTGCCAATACAGGAAGATAA-AACTTGTTATCTTCGATCTACTTTG
1 CTGCCAATACAGGAAGACAAGATC-TGCTATCTTCGATCTACTTCG
* * * * *
13659113 CTGCCAATACAGGAAGATAAGATCTACAATCTTTGATCTACTTTG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
** * * *
13659158 CTGCTGATACAGGAAGACAAGATCTACTATCTTTGACCTACTTCG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
* *
13659203 CTGCCAATACAGGAAGACAAGATCT-ATAATCTTC-AGTCTACTTTG
1 CTGCCAATACAGGAAGACAAGATCTGCT-ATCTTCGA-TCTACTTCG
*
13659248 CTGCCAATACAAGAAGACAAGA-CTTGCTATCTTCGATCTACTTCG
1 CTGCCAATACAGGAAGACAAGATC-TGCTATCTTCGATCTACTTCG
* * * **
13659293 CTGCCAATACAGAAAGACAAGATCTACAATCTTCGATCTACTTTA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
*
13659338 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGACCTACTTCG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
* *
13659383 CTGCCAATACAGGAAGACAAGATCT-ATAATCTTC-AGTCTACTTTG
1 CTGCCAATACAGGAAGACAAGATCTGCT-ATCTTCGA-TCTACTTCG
*
13659428 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGACCTACTTCG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
* * * * *
13659473 TTGCCAATACAGGAATACAAGATCTGTTATCTT-TAGTTTACTTCG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGA-TCTACTTCG
* *
13659518 CTGCCAATACAGGAAGACAAGA-CTTGCTATATTTGATCTACTTCG
1 CTGCCAATACAGGAAGACAAGATC-TGCTATCTTCGATCTACTTCG
* * *
13659563 CTGCCAATACAGGAAGACAAGATCTACTATCTTCAACCTACTTCG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
* * * *
13659608 CTGCTAATACAAGAAGACAAGA-CTTGCTATTTTCGATCTACTTCA
1 CTGCCAATACAGGAAGACAAGATC-TGCTATCTTCGATCTACTTCG
* * * * *
13659653 CTGTCAATATAGGAAGACAAGATCTGCTATATTCGATCCACTTTG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
* * * * ** * * *
13659698 CTACCAATACAAGAAGATAATATCTAATATCTTC-AGTCTGCTCCA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGA-TCTACTTCG
* * * * * * *
13659743 CTGCAAACT-CAGGGAGGTC-AG-GCTGGTGTCTTCGATCTGCTTCG
1 CTGCCAA-TACA-GGAAGACAAGATCTGCTATCTTCGATCTACTTCG
**
13659787 CTGCCGGTACAGGAAGACAAGATCTGCTATCTTC
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTC
13659821 TTTAATATAT
Statistics
Matches: 1000, Mismatches: 171, Indels: 64
0.81 0.14 0.05
Matches are distributed among these distances:
43 6 0.01
44 37 0.04
45 940 0.94
46 17 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (45 bp):
CTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG
Found at i:13660418 original size:45 final size:45
Alignment explanation
Indices: 13660362--13660448 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
13660352 AGCTCGAAAT
* * * *
13660362 GAATGAATTAATCAAGATAGCAAATTTTACTAGAATACAAAATGA
1 GAATAAATTAATCAAAATAGCAAATTTTACCAAAATACAAAATGA
* * *
13660407 GAATAAATTAATCAAAATGGCATATTTTTCCAAAATACAAAA
1 GAATAAATTAATCAAAATAGCAAATTTTACCAAAATACAAAA
13660449 ATGAATAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (45 bp):
GAATAAATTAATCAAAATAGCAAATTTTACCAAAATACAAAATGA
Found at i:13660788 original size:25 final size:24
Alignment explanation
Indices: 13660729--13660793 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
13660719 TGCCCTCTCC
13660729 TTTTTCTTTTTTCTTTTTTCGTTCT
1 TTTTTCTTTTTTCTTTTTTC-TTCT
*
13660754 TCTTTCTTTTTTCTTTTCTT-TTCT
1 TTTTTCTTTTTTCTTTT-TTCTTCT
* *
13660778 ATTTT-TATTTTCTTTT
1 TTTTTCTTTTTTCTTTT
13660794 CATGAAACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 10 0.29
24 7 0.20
25 16 0.46
26 2 0.06
ACGTcount: A:0.03, C:0.15, G:0.02, T:0.80
Consensus pattern (24 bp):
TTTTTCTTTTTTCTTTTTTCTTCT
Found at i:13660793 original size:18 final size:17
Alignment explanation
Indices: 13660737--13660794 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 17
13660727 CCTTTTTCTT
*
13660737 TTTTCTTTTTTCGTTCTTC
1 TTTTCTTTTTT-ATT-TTC
*
13660756 -TTTCTTTTTTCTTTTC
1 TTTTCTTTTTTATTTTC
13660772 TTTTCTATTTTTATTTTC
1 TTTTCT-TTTTTATTTTC
13660790 TTTTC
1 TTTTC
13660795 ATGAAACATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 3 0.09
17 7 0.20
18 25 0.71
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTCTTTTTTATTTTC
Found at i:13661275 original size:15 final size:14
Alignment explanation
Indices: 13661226--13661291 Score: 53
Period size: 15 Copynumber: 4.5 Consensus size: 14
13661216 CAGTAGAGTT
*
13661226 TTTTTTGTTTTTTA
1 TTTTTTCTTTTTTA
* *
13661240 TTTTCTTGTTTTTTT
1 TTTT-TTCTTTTTTA
13661255 TGTTTTTCTTTTTTA
1 T-TTTTTCTTTTTTA
*
13661270 CTTTTTTCTCTTTCT-
1 -TTTTTTCT-TTTTTA
13661285 TTTTTTC
1 TTTTTTC
13661292 ATTGTACTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.25
15 25 0.57
16 8 0.18
ACGTcount: A:0.03, C:0.11, G:0.05, T:0.82
Consensus pattern (14 bp):
TTTTTTCTTTTTTA
Found at i:13661276 original size:21 final size:21
Alignment explanation
Indices: 13661250--13661289 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13661240 TTTTCTTGTT
* *
13661250 TTTTTTGTTTTTCTTTTTTAC
1 TTTTTTCTCTTTCTTTTTTAC
13661271 TTTTTTCTCTTTCTTTTTT
1 TTTTTTCTCTTTCTTTTTT
13661290 TCATTGTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (21 bp):
TTTTTTCTCTTTCTTTTTTAC
Done.