Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 85 of 141
Found at i:24293468 original size:18 final size:19
Alignment explanation
Indices: 24293423--24293468 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
24293413 TGTATTTTGC
* *
24293423 ATACTTTTTTTTATATTCG
1 ATACTTTTTTTTATAATCA
*
24293442 A-ACTATTTTTT-TAATCA
1 ATACTTTTTTTTATAATCA
24293459 ATACTTTTTT
1 ATACTTTTTT
24293469 CCTTCAATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 5 0.23
18 16 0.73
19 1 0.05
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.61
Consensus pattern (19 bp):
ATACTTTTTTTTATAATCA
Found at i:24306317 original size:156 final size:157
Alignment explanation
Indices: 24305736--24306659 Score: 1266
Period size: 156 Copynumber: 5.9 Consensus size: 157
24305726 CAAATTCACT
* * * *
24305736 AACATCTTTTAAAATAAAACAAAAAATGATGAGAAAATGTGGGAAACAAAAATCATTCTTGTATC
1 AACATCTTTCAAAAT-AAA-AAAAAATGATGAGAAAATGCGGGGAACAAAAATCATTCTCGTATC
* * * * * *
24305801 TCGATATATGTATTTATTGATATGTTTTTTTCAATACCGTTTTATATTGGTATGCATCGATCTGT
64 TCGAGATATGTATTTATTGATATGTTTTTATCAATATCGATTTATATCGGTATGTATCGATCTGT
* *
24305866 ATCCATTGATATAATATAAAATGATGCGG
129 ATCCATTGATACAATATAAAATGATGCGA
* *
24305895 AACATCTTTCAAAATAATAAAAAAAATTGATAAGAAAAATGCGGGGAACAAAAATTATTCTCGTA
1 AACATCTTTCAAAAT-A-AAAAAAAA-TGATGAG-AAAATGCGGGGAACAAAAATCATTCTCGTA
** * * *
24305960 TCTTAATATATGTATTTATTAATATGTTTTTATCAATATCGATTTATATTGGTATGTATCGATCT
62 TCTCGAGATATGTATTTATTGATATGTTTTTATCAATATCGATTTATATCGGTATGTATCGATCT
* * * *
24306025 GCATCCGTTGATACAATATGAAATCATGCGA
127 GTATCCATTGATACAATATAAAATGATGCGA
*
24306056 AACATCTTTCAAAATAAAAAAAAATGATGAGAAAATGCGGGGAACAAAACTCATTCTCGTATCTC
1 AACATCTTTCAAAATAAAAAAAAATGATGAGAAAATGCGGGGAACAAAAATCATTCTCGTATCTC
* * * *
24306121 AAGATATGTATTTATTGATATGTGTTTATCAATATCGATTTATATCGGTATGTACCGATCTATAT
66 GAGATATGTATTTATTGATATGTTTTTATCAATATCGATTTATATCGGTATGTATCGATCTGTAT
*
24306186 CCATTGATACAATATAAAATCATGCGA
131 CCATTGATACAATATAAAATGATGCGA
* *
24306213 AACATCTTTCAAAAT-AAAAAAAATGACGAGAAAATGCGGGGAACAAAAATCATTCTCATATCTC
1 AACATCTTTCAAAATAAAAAAAAATGATGAGAAAATGCGGGGAACAAAAATCATTCTCGTATCTC
* * **
24306277 GAGATATGTATTTATTTATATGTTTTGATCAATATCGATTTATATCGGTATGTATTTATCTGTAT
66 GAGATATGTATTTATTGATATGTTTTTATCAATATCGATTTATATCGGTATGTATCGATCTGTAT
24306342 CCATTGATACAATATAAAATGATGCGA
131 CCATTGATACAATATAAAATGATGCGA
* *
24306369 AACATCTTTCAAAAT-AAAAAAAATCATGAGAAAATGCAGGGAACAAAAATCATTCTCGTATCTC
1 AACATCTTTCAAAATAAAAAAAAATGATGAGAAAATGCGGGGAACAAAAATCATTCTCGTATCTC
*
24306433 -AGGATATGTATTTATT-AGTATG--TTT-T---GATC-A---ATATCGGTATGTATCGATCTGT
66 GA-GATATGTATTTATTGA-TATGTTTTTATCAATATCGATTTATATCGGTATGTATCGATCTGT
24306486 ATCCATTGATACAATATAAAATGATGCGA
129 ATCCATTGATACAATATAAAATGATGCGA
*
24306515 AATATCTTTCAAAATAAAAAAAAATTG-TGAGAAAATGCGGGGAACAAAAATCATTCTCGTATCT
1 AACATCTTTCAAAATAAAAAAAAA-TGATGAGAAAATGCGGGGAACAAAAATCATTCTCGTATCT
* ** *
24306579 CGAGATATATATTTATTGATATGTTTTTATCAATATCGATTTATATATGTATGTATCGATATGTA
65 CGAGATATGTATTTATTGATATGTTTTTATCAATATCGATTTATATCGGTATGTATCGATCTGTA
*
24306644 TCCGTTGATACAATAT
130 TCCATTGATACAATAT
24306660 TTTAATATTT
Statistics
Matches: 685, Mismatches: 61, Indels: 40
0.87 0.08 0.05
Matches are distributed among these distances:
146 63 0.09
147 62 0.09
148 3 0.00
149 4 0.01
150 4 0.01
153 4 0.01
154 3 0.00
155 2 0.00
156 207 0.30
157 164 0.24
158 6 0.01
159 30 0.04
160 9 0.01
161 124 0.18
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (157 bp):
AACATCTTTCAAAATAAAAAAAAATGATGAGAAAATGCGGGGAACAAAAATCATTCTCGTATCTC
GAGATATGTATTTATTGATATGTTTTTATCAATATCGATTTATATCGGTATGTATCGATCTGTAT
CCATTGATACAATATAAAATGATGCGA
Found at i:24306633 original size:459 final size:466
Alignment explanation
Indices: 24305736--24306659 Score: 1306
Period size: 459 Copynumber: 2.0 Consensus size: 466
24305726 CAAATTCACT
* * * **
24305736 AACATCTTTTAAAATAAAACAAAAAATGATGAGAAAATGTGGGAAACAAAAATCATTCTTGTATC
1 AACATCTTTCAAAAT-AAACAAAAAATGACGAGAAAATGCGGGAAACAAAAATCATTCTCATATC
* ** * *
24305801 TCGATATATGTATTTATTGATATGTTTTTTTCAATACCGTTTTATATTGGTATGCATCGATCTGT
65 TCGAGATATGTATTTATTGATATGTTTTGATCAATACCGATTTATATCGGTATGCATCGATCTGT
* * *
24305866 ATCCATTGATATAATATAAAATGATGCGGAACATCTTTCAAAATAATAAAAAAAATTGATAAGAA
130 ATCCATTGATACAATATAAAATGATGCGAAACATCTTTC-AAATAATAAAAAAAATTCATAAGAA
* * * * *
24305931 AAATGCGGGGAACAAAAATTATTCTCGTATCTTAATATATGTATTTATTAATATGTTTTTATCAA
194 AAATGCAGGGAACAAAAATCATTCTCGTATCTCAAGATATGTATTTATTAATATGTTTTGATCAA
* *
24305996 TATCGATTTATATTGGTATGTATCGATCTGCATCCGTTGATACAATATGAAATCATGCGAAACAT
259 TATC---------TGGTATGTATCGATCTGCATCCATTGATACAATATAAAATCATGCGAAACAT
*
24306061 CTTTCAAAATAAAAAAAAATGATGAGAAAATGCGGGGAACAAAACTCATTCTCGTATCTCAAGAT
315 CTTTCAAAATAAAAAAAAATGATGAGAAAATGCGGGGAACAAAAATCATTCTCGTATCTCAAGAT
* * *
24306126 ATGTATTTATTGATATGTGTTTATCAATATCGATTTATATCGGTATGTACCGATCTATATCCATT
380 ATATATTTATTGATATGTGTTTATCAATATCGATTTATATAGGTATGTACCGATATATATCCATT
24306191 GATACAATATAAAATCATGCGA
445 GATACAATATAAAATCATGCGA
*
24306213 AACATCTTTCAAAAT-AA-AAAAAATGACGAGAAAATGCGGGGAACAAAAATCATTCTCATATCT
1 AACATCTTTCAAAATAAACAAAAAATGACGAGAAAATGCGGGAAACAAAAATCATTCTCATATCT
* * * **
24306276 CGAGATATGTATTTATTTATATGTTTTGATCAATATCGATTTATATCGGTATGTATTTATCTGTA
66 CGAGATATGTATTTATTGATATGTTTTGATCAATACCGATTTATATCGGTATGCATCGATCTGTA
*
24306341 TCCATTGATACAATATAAAATGATGCGAAACATCTTTC-AA-AATAAAAAAAA-TCATGAG-AAA
131 TCCATTGATACAATATAAAATGATGCGAAACATCTTTCAAATAATAAAAAAAATTCATAAGAAAA
* *
24306402 ATGCAGGGAACAAAAATCATTCTCGTATCTCAGGATATGTATTTATTAGTATGTTTTGATCAATA
196 ATGCAGGGAACAAAAATCATTCTCGTATCTCAAGATATGTATTTATTAATATGTTTTGATCAATA
* * *
24306467 TC-GGTATGTATCGATCTGTATCCATTGATACAATATAAAATGATGCGAAATATCTTTCAAAATA
261 TCTGGTATGTATCGATCTGCATCCATTGATACAATATAAAATCATGCGAAACATCTTTCAAAATA
*
24306531 AAAAAAAATTG-TGAGAAAATGCGGGGAACAAAAATCATTCTCGTATCTCGAGATATATATTTAT
326 AAAAAAAA-TGATGAGAAAATGCGGGGAACAAAAATCATTCTCGTATCTCAAGATATATATTTAT
* * * * *
24306595 TGATATGTTTTTATCAATATCGATTTATATATGTATGTATCGATATGTATCCGTTGATACAATAT
390 TGATATGTGTTTATCAATATCGATTTATATAGGTATGTACCGATATATATCCATTGATACAATAT
24306660 TTTAATATTT
Statistics
Matches: 404, Mismatches: 42, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
459 173 0.43
460 2 0.00
469 63 0.16
470 5 0.01
471 11 0.03
472 2 0.00
474 132 0.33
475 2 0.00
477 14 0.03
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (466 bp):
AACATCTTTCAAAATAAACAAAAAATGACGAGAAAATGCGGGAAACAAAAATCATTCTCATATCT
CGAGATATGTATTTATTGATATGTTTTGATCAATACCGATTTATATCGGTATGCATCGATCTGTA
TCCATTGATACAATATAAAATGATGCGAAACATCTTTCAAATAATAAAAAAAATTCATAAGAAAA
ATGCAGGGAACAAAAATCATTCTCGTATCTCAAGATATGTATTTATTAATATGTTTTGATCAATA
TCTGGTATGTATCGATCTGCATCCATTGATACAATATAAAATCATGCGAAACATCTTTCAAAATA
AAAAAAAATGATGAGAAAATGCGGGGAACAAAAATCATTCTCGTATCTCAAGATATATATTTATT
GATATGTGTTTATCAATATCGATTTATATAGGTATGTACCGATATATATCCATTGATACAATATA
AAATCATGCGA
Found at i:24307358 original size:157 final size:155
Alignment explanation
Indices: 24307073--24307381 Score: 422
Period size: 157 Copynumber: 2.0 Consensus size: 155
24307063 AGCTTATTGT
* *
24307073 ATGATGCAAAACATCTTTCAAAATAAAAAAATGATGGGAAAATGCAGGGAACAAAAATTATTCTC
1 ATGATGCAAAACATCTTTCAAAATAAAAAAATGATGGGAAAATGCAGGAAACAAAAATTACTCTC
* *
24307138 GTATCTTGAGATATGTATTTATTGATATGTTTGGATCAATATTGAGTTATATCGATAAGTATCGA
66 GTATCTCGAGATATGTATTTATTGATATGTTTGGATCAATATCGAGTTATATCGATAAGTATCGA
*
24307203 TCTTTATCCATTGATACAATATAAA
131 TCTGTATCCATTGATACAATATAAA
* * * *
24307228 ATGATGCGAAACATCTTTCAAAATAAAAAAAAATGTTGTGAAAATG-TGGCAAACAAAAATTACT
1 ATGATGCAAAACATCTTTCAAAAT--AAAAAAATGATGGGAAAATGCAGG-AAACAAAAATTACT
* * * * **
24307292 CTTGTATCTCGAGATATGTATTTATTGATATGTTTTGATCAATATCGATTTATATTGATATTTAT
63 CTCGTATCTCGAGATATGTATTTATTGATATGTTTGGATCAATATCGAGTTATATCGATAAGTAT
** *
24307357 CGATCTGTATCTGTTGATATAATAT
128 CGATCTGTATCCATTGATACAATAT
24307382 TTTAATATTT
Statistics
Matches: 133, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
155 23 0.17
156 2 0.02
157 108 0.81
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (155 bp):
ATGATGCAAAACATCTTTCAAAATAAAAAAATGATGGGAAAATGCAGGAAACAAAAATTACTCTC
GTATCTCGAGATATGTATTTATTGATATGTTTGGATCAATATCGAGTTATATCGATAAGTATCGA
TCTGTATCCATTGATACAATATAAA
Found at i:24307801 original size:41 final size:41
Alignment explanation
Indices: 24307738--24307846 Score: 182
Period size: 41 Copynumber: 2.7 Consensus size: 41
24307728 TTTCGGGACA
* *
24307738 TTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCTGGTTT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
*
24307779 TTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGTCT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
*
24307820 TTAGCAGCGTTTTTGGAAAAGCGCCGC
1 TTAGCGGCGTTTTTGGAAAAGCGCCGC
24307847 AAAAACATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.31
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
Found at i:24308237 original size:22 final size:20
Alignment explanation
Indices: 24308188--24308265 Score: 75
Period size: 22 Copynumber: 3.6 Consensus size: 20
24308178 TATGATTTAG
*
24308188 AGTTTAAGGTTTAATAGTTACT
1 AGTTTAAGGTTT-ATGGTTA-T
*
24308210 ATTTTAAGGTTTATGGATTAT
1 AGTTTAAGGTTTATGG-TTAT
*
24308231 GAGTTTAAGGGTTATGGTTTAT
1 -AGTTTAAGGTTTATGG-TTAT
*
24308253 AGTTTATGGTTTA
1 AGTTTAAGGTTTA
24308266 AGATTTAGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 15 0.32
22 32 0.68
ACGTcount: A:0.27, C:0.01, G:0.23, T:0.49
Consensus pattern (20 bp):
AGTTTAAGGTTTATGGTTAT
Found at i:24308257 original size:7 final size:7
Alignment explanation
Indices: 24308212--24308300 Score: 61
Period size: 7 Copynumber: 12.6 Consensus size: 7
24308202 TAGTTACTAT
*
24308212 TTTAAGG
1 TTTATGG
24308219 TTTATGG
1 TTTATGG
*
24308226 ATTATGAG
1 TTTATG-G
*
24308234 TTTAAGG
1 TTTATGG
*
24308241 GTTATGG
1 TTTATGG
*
24308248 TTTATAG
1 TTTATGG
24308255 TTTATGG
1 TTTATGG
* *
24308262 TTTAAGA
1 TTTATGG
*
24308269 TTTAGGG
1 TTTATGG
*
24308276 TTTAAGG
1 TTTATGG
* **
24308283 GTTGCGG
1 TTTATGG
24308290 TTTATGG
1 TTTATGG
24308297 TTTA
1 TTTA
24308301 ATGTTATAGG
Statistics
Matches: 61, Mismatches: 20, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
7 56 0.92
8 5 0.08
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.47
Consensus pattern (7 bp):
TTTATGG
Found at i:24308258 original size:21 final size:21
Alignment explanation
Indices: 24308168--24308301 Score: 74
Period size: 21 Copynumber: 6.3 Consensus size: 21
24308158 AAGGTTTTTG
* *
24308168 GTTT-AGGGTATATGATTTAGA
1 GTTTAAGGGT-TATGGTTTATA
* *
24308189 GTTTAAGGTTTAATAG-TTACTA
1 GTTTAAGGGTT-ATGGTTTA-TA
* * *
24308211 TTTTAAGGTTTATGGATTATGA
1 GTTTAAGGGTTATGGTTTAT-A
24308233 GTTTAAGGGTTATGGTTTATA
1 GTTTAAGGGTTATGGTTTATA
* * * * **
24308254 GTTTATGGTTTAAGATTTAGG
1 GTTTAAGGGTTATGGTTTATA
** *
24308275 GTTTAAGGGTTGCGGTTTATG
1 GTTTAAGGGTTATGGTTTATA
24308296 GTTTAA
1 GTTTAA
24308302 TGTTATAGGT
Statistics
Matches: 87, Mismatches: 21, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
21 49 0.56
22 38 0.44
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.46
Consensus pattern (21 bp):
GTTTAAGGGTTATGGTTTATA
Found at i:24308339 original size:21 final size:21
Alignment explanation
Indices: 24308315--24308378 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
24308305 TATAGGTTAA
24308315 GGGTTGAGGTTTAAGGTTTAG
1 GGGTTGAGGTTTAAGGTTTAG
24308336 GGGTTGAGAG-TTAAGAG-TTAG
1 GGGTTGAG-GTTTAAG-GTTTAG
* *
24308357 GGGTTTAGGATTTAGGGTTTAG
1 GGGTTGAGG-TTTAAGGTTTAG
24308379 ATTAATTAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 1 0.03
21 25 0.69
22 10 0.28
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (21 bp):
GGGTTGAGGTTTAAGGTTTAG
Found at i:24308505 original size:16 final size:17
Alignment explanation
Indices: 24308486--24308524 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
24308476 AAATTCTTTA
24308486 TAAATAATTT-ATATAT
1 TAAATAATTTAATATAT
24308502 TAAATAATTTAATATAT
1 TAAATAATTTAATATAT
24308519 TAAATA
1 TAAATA
24308525 TAGTGTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAATAATTTAATATAT
Found at i:24308735 original size:21 final size:22
Alignment explanation
Indices: 24308711--24308751 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
24308701 ATGGTTTATT
24308711 GTTTAAGGGTT-GGGATTTAAA
1 GTTTAAGGGTTAGGGATTTAAA
* *
24308732 GTTTAGGGGTTAGGGGTTTA
1 GTTTAAGGGTTAGGGATTTA
24308752 GGGGTTTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGATTTAAA
Found at i:24308754 original size:8 final size:8
Alignment explanation
Indices: 24308732--24308760 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
24308722 GGGATTTAAA
24308732 GTTTAGGG
1 GTTTAGGG
24308740 G-TTAGGG
1 GTTTAGGG
24308747 GTTTAGGG
1 GTTTAGGG
24308755 GTTTAG
1 GTTTAG
24308761 AGTTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.14, C:0.00, G:0.48, T:0.38
Consensus pattern (8 bp):
GTTTAGGG
Found at i:24309204 original size:39 final size:39
Alignment explanation
Indices: 24309161--24309245 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
24309151 AATAAAATCA
*
24309161 CTAAAAATAAGCATTAGCGGCGCTTTTCGAAAAACGCCG
1 CTAAAAATAAGCATTAGCGGCGCTTTTAGAAAAACGCCG
* * * *
24309200 CTAAAAATGAGCATTAGTGGCGTTTTTAGAAAAGCGCCG
1 CTAAAAATAAGCATTAGCGGCGCTTTTAGAAAAACGCCG
*
24309239 CAAAAAA
1 CTAAAAA
24309246 ACTAGGCCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (39 bp):
CTAAAAATAAGCATTAGCGGCGCTTTTAGAAAAACGCCG
Found at i:24310074 original size:38 final size:38
Alignment explanation
Indices: 24309994--24310075 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 38
24309984 GGTTACAAAC
* * * *
24309994 TTTATCTGTTTTTTATATGTTTATCTCACAAATTTTCT
1 TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTCG
24310032 TTTATCTGCTTTTTACATGTTTATCTCACAAA-GTTCGG
1 TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTC-G
24310070 TTTATC
1 TTTATC
24310076 AATTGTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 3 0.08
38 36 0.92
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.55
Consensus pattern (38 bp):
TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTCG
Found at i:24313485 original size:43 final size:43
Alignment explanation
Indices: 24313424--24313688 Score: 442
Period size: 43 Copynumber: 6.2 Consensus size: 43
24313414 ATGCAACTCG
24313424 CGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGC
1 CGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGC
* * *
24313467 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAAAAGCGT
1 CGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGC
*
24313510 CGCTAAAGATCATGGTCTATAGCGGCGTTTGTGGGAAAAGCGC
1 CGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGC
* * *
24313553 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAAAAGCGT
1 CGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGC
*
24313596 CGCTAAAGATCATGGTCTTTAGCGTCGTTTGTGGGAAAAGCGC
1 CGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGC
*
24313639 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG-AAAGCGC
1 CGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGC
24313681 CGCTAAAG
1 CGCTAAAG
24313689 TTAGCGACGC
Statistics
Matches: 205, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
42 15 0.07
43 190 0.93
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (43 bp):
CGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGC
Found at i:24313569 original size:86 final size:86
Alignment explanation
Indices: 24313424--24313688 Score: 487
Period size: 86 Copynumber: 3.1 Consensus size: 86
24313414 ATGCAACTCG
24313424 CGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAG
1 CGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAG
24313489 CGGCGTTTGTCGGAAAAGCGT
66 CGGCGTTTGTCGGAAAAGCGT
*
24313510 CGCTAAAGATCATGGTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAG
1 CGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAG
24313575 CGGCGTTTGTCGGAAAAGCGT
66 CGGCGTTTGTCGGAAAAGCGT
*
24313596 CGCTAAAGATCATGGTCTTTAGCGTCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAG
1 CGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAG
* *
24313661 CGGCGTTTGT-GGGAAAGCGC
66 CGGCGTTTGTCGGAAAAGCGT
24313681 CGCTAAAG
1 CGCTAAAG
24313689 TTAGCGACGC
Statistics
Matches: 174, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
85 16 0.09
86 158 0.91
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (86 bp):
CGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAG
CGGCGTTTGTCGGAAAAGCGT
Found at i:24313795 original size:22 final size:21
Alignment explanation
Indices: 24313758--24313802 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
24313748 TTTAGCGGCG
* *
24313758 CTAAAAAACGCTGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
24313779 CTAAAAAAGCGCCGCTAAAAGC
1 CTAAAAAA-CGCCGCTAAAAGC
24313801 CT
1 CT
24313803 GTTTTGGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.42, C:0.27, G:0.18, T:0.13
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:24314676 original size:7 final size:7
Alignment explanation
Indices: 24314664--24314688 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24314654 GATATAATGC
24314664 AAAATTA
1 AAAATTA
24314671 AAAATTA
1 AAAATTA
24314678 AAAATTA
1 AAAATTA
24314685 AAAA
1 AAAA
24314689 GGGTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTA
Found at i:24314802 original size:3 final size:3
Alignment explanation
Indices: 24314794--24314822 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
24314784 AAGGTATTTA
24314794 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24314823 ATGAAAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:24321364 original size:17 final size:17
Alignment explanation
Indices: 24321326--24321373 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 17
24321316 TTGATAATAT
24321326 AAATTATTAATATATGAA
1 AAATTATTAA-ATATGAA
24321344 AAATTATCTAAATAT-AA
1 AAATTAT-TAAATATGAA
24321361 AAATTATATAAAT
1 AAATTAT-TAAAT
24321374 TTTGAAAGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 14 0.50
18 11 0.39
19 3 0.11
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
AAATTATTAAATATGAA
Found at i:24330530 original size:52 final size:52
Alignment explanation
Indices: 24330446--24330680 Score: 209
Period size: 52 Copynumber: 4.5 Consensus size: 52
24330436 ATGGTACTTG
* * * * *
24330446 CTAAATAAATTACCGGCTTAAAGCCTGATAAATAACCACCAGCTCAAAACCTA
1 CTAAATAAA-CACCGGCTCAAAGCCTGCTAAATAACCACCGGCTCAAAGCCTA
* * *
24330499 CTAAATAAACACCGGCTCAAAGCCTGCTAAATGACCATCGGCTCAAAGCCTG
1 CTAAATAAACACCGGCTCAAAGCCTGCTAAATAACCACCGGCTCAAAGCCTA
* * * * * * * * *
24330551 TTAAATAATCACTGGTTTAAGGCTTACTAAATAATCACCGGCTCAAAGCCTA
1 CTAAATAAACACCGGCTCAAAGCCTGCTAAATAACCACCGGCTCAAAGCCTA
* * * ** * * * **
24330603 CTACATAAAAACCGACTCAAAGCCTGCTAAATAATAACCGGGTCTAGGCCCG
1 CTAAATAAACACCGGCTCAAAGCCTGCTAAATAACCACCGGCTCAAAGCCTA
*
24330655 CTAAATAAACACCGACTCAAAGCCTG
1 CTAAATAAACACCGGCTCAAAGCCTG
24330681 TTAGATAATT
Statistics
Matches: 143, Mismatches: 39, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
52 134 0.94
53 9 0.06
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.20
Consensus pattern (52 bp):
CTAAATAAACACCGGCTCAAAGCCTGCTAAATAACCACCGGCTCAAAGCCTA
Found at i:24330579 original size:78 final size:78
Alignment explanation
Indices: 24330495--24330680 Score: 212
Period size: 78 Copynumber: 2.4 Consensus size: 78
24330485 CAGCTCAAAA
* ** * * *
24330495 CCTACTAAATAAACACCGGCTCAAAGCCTGCTAAATGACCATCGGCTCAAAGCCTGTTAAATAAT
1 CCTACTAAATAAACACCGGCTCAAAGCCTGCTAAATAAAAACCGACTCAAAGCCTGCTAAATAAT
* * *
24330560 CA-CTGGTTTAAGG
66 AACCGGGTCT-AGG
* * * *
24330573 CTTACTAAATAATCACCGGCTCAAAGCCTACTACATAAAAACCGACTCAAAGCCTGCTAAATAAT
1 CCTACTAAATAAACACCGGCTCAAAGCCTGCTAAATAAAAACCGACTCAAAGCCTGCTAAATAAT
24330638 AACCGGGTCTAGG
66 AACCGGGTCTAGG
** *
24330651 CCCGCTAAATAAACACCGACTCAAAGCCTG
1 CCTACTAAATAAACACCGGCTCAAAGCCTG
24330681 TTAGATAATT
Statistics
Matches: 88, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 83 0.94
79 5 0.06
ACGTcount: A:0.37, C:0.28, G:0.15, T:0.20
Consensus pattern (78 bp):
CCTACTAAATAAACACCGGCTCAAAGCCTGCTAAATAAAAACCGACTCAAAGCCTGCTAAATAAT
AACCGGGTCTAGG
Found at i:24330641 original size:26 final size:26
Alignment explanation
Indices: 24330444--24330689 Score: 163
Period size: 26 Copynumber: 9.4 Consensus size: 26
24330434 ACATGGTACT
* *
24330444 TGCTAAATAAATTACCGGCTTAAAGCC
1 TGCTAAAT-AATAACCGGCTCAAAGCC
* ** * *
24330471 TGATAAATAACCACCAGCTCAAAACC
1 TGCTAAATAATAACCGGCTCAAAGCC
*
24330497 TACTAAATAA-ACACCGGCTCAAAGCC
1 TGCTAAATAATA-ACCGGCTCAAAGCC
* ** *
24330523 TGCTAAATGACCATCGGCTCAAAGCC
1 TGCTAAATAATAACCGGCTCAAAGCC
* * * * * * *
24330549 TGTTAAATAATCACTGGTTTAAGGCT
1 TGCTAAATAATAACCGGCTCAAAGCC
* *
24330575 TACTAAATAATCACCGGCTCAAAGCC
1 TGCTAAATAATAACCGGCTCAAAGCC
* * * *
24330601 TACTACATAAAAACCGACTCAAAGCC
1 TGCTAAATAATAACCGGCTCAAAGCC
* * *
24330627 TGCTAAATAATAACCGGGTCTAGGCC
1 TGCTAAATAATAACCGGCTCAAAGCC
* *
24330653 CGCTAAATAA-ACACCGACTCAAAGCC
1 TGCTAAATAATA-ACCGGCTCAAAGCC
* *
24330679 TGTTAGATAAT
1 TGCTAAATAAT
24330690 TACTTTATTC
Statistics
Matches: 165, Mismatches: 50, Indels: 8
0.74 0.22 0.04
Matches are distributed among these distances:
25 1 0.01
26 157 0.95
27 7 0.04
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (26 bp):
TGCTAAATAATAACCGGCTCAAAGCC
Found at i:24343623 original size:14 final size:13
Alignment explanation
Indices: 24343604--24343633 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
24343594 TTGAAAAATT
24343604 AATAGATATAAGTG
1 AATAGATATAA-TG
24343618 AATAGATATAATG
1 AATAGATATAATG
24343631 AAT
1 AAT
24343634 GAAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (13 bp):
AATAGATATAATG
Found at i:24344702 original size:19 final size:19
Alignment explanation
Indices: 24344680--24344737 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
24344670 TAATAAATAA
24344680 TAAATTTTAGTAAAATTAT
1 TAAATTTTAGTAAAATTAT
* *
24344699 TAAATTTTAATAAAAAT-T
1 TAAATTTTAGTAAAATTAT
* *
24344717 TAAAATTTATGAAAAATTAT
1 TAAATTTTA-GTAAAATTAT
24344737 T
1 T
24344738 TTTTTATAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 9 0.29
19 20 0.65
20 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
TAAATTTTAGTAAAATTAT
Found at i:24344776 original size:9 final size:9
Alignment explanation
Indices: 24344741--24344795 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
24344731 AATTATTTTT
24344741 TTATAAAAA
1 TTATAAAAA
*
24344750 TCATAAAAA
1 TTATAAAAA
*
24344759 TATAAAAAAA
1 T-TATAAAAA
* *
24344769 TTGTAAAACT
1 TTATAAAA-A
24344779 TTATAAAAA
1 TTATAAAAA
24344788 TTATAAAA
1 TTATAAAA
24344796 CAATTGATGA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
9 22 0.61
10 14 0.39
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (9 bp):
TTATAAAAA
Found at i:24344796 original size:19 final size:19
Alignment explanation
Indices: 24344691--24344796 Score: 76
Period size: 19 Copynumber: 5.7 Consensus size: 19
24344681 AAATTTTAGT
* *
24344691 AAAATTATTAAATTTTAATA
1 AAAATTATAAAACTTT-ATA
24344711 AAAATT-TAAAA-TTTATGA
1 AAAATTATAAAACTTTAT-A
***
24344729 AAAATTAT--TTTTTTATA
1 AAAATTATAAAACTTTATA
* * * *
24344746 AAAATCATAAAAATATAAA
1 AAAATTATAAAACTTTATA
*
24344765 AAAATTGTAAAACTTTATA
1 AAAATTATAAAACTTTATA
24344784 AAAATTATAAAAC
1 AAAATTATAAAAC
24344797 AATTGATGAC
Statistics
Matches: 66, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
17 10 0.15
18 15 0.23
19 35 0.53
20 6 0.09
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATTATAAAACTTTATA
Found at i:24344994 original size:10 final size:10
Alignment explanation
Indices: 24344981--24345058 Score: 54
Period size: 10 Copynumber: 7.8 Consensus size: 10
24344971 TATAAAATTT
*
24344981 TATTTTTTTA
1 TATTTTTATA
*
24344991 TATTTCTATA
1 TATTTTTATA
24345001 TA-TTTTATA
1 TATTTTTATA
24345010 -ATTTTT-TA
1 TATTTTTATA
24345018 CTATTTTTATA
1 -TATTTTTATA
* * *
24345029 AAATTTTACAA
1 TATTTTTA-TA
*
24345040 TTTTTTTGATA
1 TATTTTT-ATA
24345051 TATTTTTA
1 TATTTTTA
24345059 CGATTTTTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
8 3 0.06
9 10 0.20
10 23 0.45
11 14 0.27
12 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (10 bp):
TATTTTTATA
Found at i:24345013 original size:28 final size:29
Alignment explanation
Indices: 24344971--24345051 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 29
24344961 ATTACGACTT
24344971 TATAAAATTTT---ATTTTTTTATATTTC
1 TATAAAATTTTACAATTTTTTTATATTTC
* * *
24344997 TAT-ATATTTTATAA-TTTTTTACTATTTT
1 TATAAAATTTTACAATTTTTTTA-TATTTC
24345025 TATAAAATTTTACAATTTTTTTGATAT
1 TATAAAATTTTACAATTTTTTT-ATAT
24345052 ATTTTTACGA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
25 6 0.14
26 3 0.07
27 7 0.16
28 9 0.20
29 9 0.20
30 9 0.20
31 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (29 bp):
TATAAAATTTTACAATTTTTTTATATTTC
Found at i:24345025 original size:19 final size:19
Alignment explanation
Indices: 24345003--24345044 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
24344993 TTTCTATATA
** *
24345003 TTTTATAATTTTTTACTAT
1 TTTTATAAAATTTTACAAT
24345022 TTTTATAAAATTTTACAAT
1 TTTTATAAAATTTTACAAT
24345041 TTTT
1 TTTT
24345045 TTGATATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTATAAAATTTTACAAT
Found at i:24351798 original size:26 final size:24
Alignment explanation
Indices: 24351748--24351800 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
24351738 GCTGTTATAA
*
24351748 AAAATTATAAAATAAAAATTAATT
1 AAAATTATAAAATAAAAAATAATT
24351772 AAAATTATATAAATGAAAAAA-ATATT
1 AAAATTATA-AAAT-AAAAAATA-ATT
24351798 AAA
1 AAA
24351801 GAATATTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 9 0.36
25 5 0.20
26 11 0.44
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAATTATAAAATAAAAAATAATT
Found at i:24358952 original size:16 final size:14
Alignment explanation
Indices: 24358930--24358973 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
24358920 TTGGGTTTAA
24358930 AAAATTATTTAATT
1 AAAATTATTTAATT
*
24358944 GAGAAATTAATTAATT
1 -A-AAATTATTTAATT
24358960 AAAATTAATTTAAT
1 AAAATT-ATTTAAT
24358974 ATGTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 5 0.20
15 8 0.32
16 12 0.48
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (14 bp):
AAAATTATTTAATT
Found at i:24360559 original size:2 final size:2
Alignment explanation
Indices: 24360552--24360596 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
24360542 ACATAGGAAA
24360552 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24360594 AG A
1 AG A
24360597 ATCTATTGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24363005 original size:21 final size:21
Alignment explanation
Indices: 24362979--24363137 Score: 97
Period size: 21 Copynumber: 7.6 Consensus size: 21
24362969 AAGCCCGAAG
* *
24362979 GCTAAACAGAAGCTCATGAGA
1 GCTAAACAGAAACTCATAAGA
*
24363000 GCTAAACAGAAACCTC-TAAGG
1 GCTAAACAGAAA-CTCATAAGA
* * * *
24363021 GTTGAACAGAAGCTCATAAAA
1 GCTAAACAGAAACTCATAAGA
* * * *
24363042 GCTTAACGGAAACCCATAAGG
1 GCTAAACAGAAACTCATAAGA
*
24363063 GTTAAACAGAAACTCA-ATAGA
1 GCTAAACAGAAACTCATA-AGA
* * *
24363084 GCTGAACGGAAACTCATATGA
1 GCTAAACAGAAACTCATAAGA
* * * * *
24363105 GTTAAATAGAAGCTCGTGAGA
1 GCTAAACAGAAACTCATAAGA
*
24363126 GCTAAACGGAAA
1 GCTAAACAGAAA
24363138 GTAAACACGA
Statistics
Matches: 98, Mismatches: 36, Indels: 8
0.69 0.25 0.06
Matches are distributed among these distances:
20 4 0.04
21 90 0.92
22 4 0.04
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (21 bp):
GCTAAACAGAAACTCATAAGA
Found at i:24363030 original size:42 final size:43
Alignment explanation
Indices: 24362981--24363137 Score: 178
Period size: 42 Copynumber: 3.7 Consensus size: 43
24362971 GCCCGAAGGC
*
24362981 TAAACAGAAGCTCATGAGAGCTAAACAGAAACCTC-TAAGGGT
1 TAAACAGAAGCTCATGAGAGCTAAACGGAAACCTCATAAGGGT
* * * *
24363023 TGAACAGAAGCTCATAAAAGCTTAACGGAAACC-CATAAGGGT
1 TAAACAGAAGCTCATGAGAGCTAAACGGAAACCTCATAAGGGT
* * * *
24363065 TAAACAGAAACTCAAT-AGAGCTGAACGGAAA-CTCATATGAGT
1 TAAACAGAAGCTC-ATGAGAGCTAAACGGAAACCTCATAAGGGT
* *
24363107 TAAATAGAAGCTCGTGAGAGCTAAACGGAAA
1 TAAACAGAAGCTCATGAGAGCTAAACGGAAA
24363138 GTAAACACGA
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
41 3 0.03
42 91 0.95
43 2 0.02
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (43 bp):
TAAACAGAAGCTCATGAGAGCTAAACGGAAACCTCATAAGGGT
Found at i:24363919 original size:17 final size:18
Alignment explanation
Indices: 24363897--24363931 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24363887 GACCTACTTG
24363897 TAAAAATCTCAA-AAAAA
1 TAAAAATCTCAAGAAAAA
*
24363914 TAAAAATTTCAAGAAAAA
1 TAAAAATCTCAAGAAAAA
24363932 GGGAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.20
Consensus pattern (18 bp):
TAAAAATCTCAAGAAAAA
Found at i:24365385 original size:11 final size:11
Alignment explanation
Indices: 24365369--24365393 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24365359 ACTAACAATT
24365369 TTTTTTTATAA
1 TTTTTTTATAA
24365380 TTTTTTTATAA
1 TTTTTTTATAA
24365391 TTT
1 TTT
24365394 CTAACATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTTATAA
Found at i:24365440 original size:21 final size:21
Alignment explanation
Indices: 24365416--24365466 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
24365406 TATTTATGGT
*
24365416 ATTTATTTA-TAATTTTCTGTA
1 ATTTATTTATTAATTTT-TATA
*
24365437 ATTT-GTTATTAATTTTTATA
1 ATTTATTTATTAATTTTTATA
24365457 ATTTTATTTA
1 A-TTTATTTA
24365467 GTTTTTGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 7 0.29
21 14 0.58
22 3 0.12
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (21 bp):
ATTTATTTATTAATTTTTATA
Found at i:24385749 original size:17 final size:18
Alignment explanation
Indices: 24385713--24385749 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
24385703 AATCTCTTGA
24385713 ATTTTAGTTCTTTATATT
1 ATTTTAGTTCTTTATATT
24385731 ATTTTA-TT-TTTATTATT
1 ATTTTAGTTCTTTA-TATT
24385748 AT
1 AT
24385750 AAAAACCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.22
17 8 0.44
18 6 0.33
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (18 bp):
ATTTTAGTTCTTTATATT
Found at i:24388904 original size:28 final size:28
Alignment explanation
Indices: 24388842--24388909 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
24388832 AAATTCTTTC
* * *
24388842 GATGTCACGAAAACGGTAAACTGCCAGG
1 GATGTCGCGACAACAGTAAACTGCCAGG
*
24388870 GATGTCGCGACAACAGTAAACTGTCAGG
1 GATGTCGCGACAACAGTAAACTGCCAGG
*
24388898 GATGTCGTGACA
1 GATGTCGCGACA
24388910 CGGAACACCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (28 bp):
GATGTCGCGACAACAGTAAACTGCCAGG
Found at i:24389450 original size:27 final size:27
Alignment explanation
Indices: 24389380--24389452 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
24389370 CACATTTACA
* * * *
24389380 AGATAGTCCTAACGGACTT-CTACATT
1 AGATAGTCTTAACGAACTTCCCACACT
* *
24389406 AGATAGTTTTGATC-AACTTCCCACACT
1 AGATAGTCTT-AACGAACTTCCCACACT
24389433 AGATAGTCTTAACGAACTTC
1 AGATAGTCTTAACGAACTTC
24389453 TCACGAATAC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
26 14 0.39
27 22 0.61
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (27 bp):
AGATAGTCTTAACGAACTTCCCACACT
Found at i:24391313 original size:109 final size:109
Alignment explanation
Indices: 24391181--24391400 Score: 431
Period size: 109 Copynumber: 2.0 Consensus size: 109
24391171 ACCGTCCATC
24391181 TTTCCCACTTCCTCTCATCTCTCAATTTTTTTTCTCTACTTTCTCACTTGTGCCACCGTTACACC
1 TTTCCCACTTCCTCTCATCTCTCAATTTTTTTTCTCTACTTTCTCACTTGTGCCACCGTTACACC
24391246 TAGTTTTCTCCATTGTTGTGTTTCCCCATTCTCCTTCTTTCTTA
66 TAGTTTTCTCCATTGTTGTGTTTCCCCATTCTCCTTCTTTCTTA
*
24391290 TTTCCCTCTTCCTCTCATCTCTCAATTTTTTTTCTCTACTTTCTCACTTGTGCCACCGTTACACC
1 TTTCCCACTTCCTCTCATCTCTCAATTTTTTTTCTCTACTTTCTCACTTGTGCCACCGTTACACC
24391355 TAGTTTTCTCCATTGTTGTGTTTCCCCATTCTCCTTCTTTCTTA
66 TAGTTTTCTCCATTGTTGTGTTTCCCCATTCTCCTTCTTTCTTA
24391399 TT
1 TT
24391401 GTTTTATTCA
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 110 1.00
ACGTcount: A:0.11, C:0.33, G:0.06, T:0.50
Consensus pattern (109 bp):
TTTCCCACTTCCTCTCATCTCTCAATTTTTTTTCTCTACTTTCTCACTTGTGCCACCGTTACACC
TAGTTTTCTCCATTGTTGTGTTTCCCCATTCTCCTTCTTTCTTA
Found at i:24396217 original size:20 final size:20
Alignment explanation
Indices: 24396173--24396219 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
24396163 GATACTTATA
* *
24396173 GTTTTCACTTTGGTGCCCTT
1 GTTTGCACTTTGGTGCCCAT
* *
24396193 TTTTGCACTTTGGTTCCCAT
1 GTTTGCACTTTGGTGCCCAT
24396213 GTTTGCA
1 GTTTGCA
24396220 TTATGGTACT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.23, G:0.19, T:0.49
Consensus pattern (20 bp):
GTTTGCACTTTGGTGCCCAT
Found at i:24397180 original size:9 final size:9
Alignment explanation
Indices: 24397166--24397268 Score: 118
Period size: 9 Copynumber: 11.4 Consensus size: 9
24397156 GTAGTGATTC
*
24397166 AATTCGGTA
1 AATTCGGTT
*
24397175 AATTCGGGT
1 AATTCGGTT
* *
24397184 AATTTGGGT
1 AATTCGGTT
24397193 AATTCGGTT
1 AATTCGGTT
24397202 AATTCGGTT
1 AATTCGGTT
*
24397211 AATTCGATT
1 AATTCGGTT
24397220 AATTC-GTAT
1 AATTCGGT-T
*
24397229 AATTCAGTT
1 AATTCGGTT
*
24397238 AATTCGGGT
1 AATTCGGTT
*
24397247 AATTTGGTT
1 AATTCGGTT
24397256 AATTCGGTT
1 AATTCGGTT
24397265 AATT
1 AATT
24397269 TTTAACCAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
8 1 0.01
9 77 0.96
10 2 0.03
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:24401079 original size:15 final size:16
Alignment explanation
Indices: 24401050--24401082 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
24401040 TTTGGAATTA
24401050 AAAAATATATTAAATGT
1 AAAAATATA-TAAATGT
24401067 AAAAATATA-AAATGT
1 AAAAATATATAAATGT
24401082 A
1 A
24401083 TTTTGGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
AAAAATATATAAATGT
Found at i:24401774 original size:9 final size:9
Alignment explanation
Indices: 24401757--24401793 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
24401747 TATAGTTTGA
24401757 TATTCGAAT
1 TATTCGAAT
*
24401766 TATTTGAAT
1 TATTCGAAT
*
24401775 TATTCGAGT
1 TATTCGAAT
24401784 TATTCGAAT
1 TATTCGAAT
24401793 T
1 T
24401794 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:24405190 original size:17 final size:17
Alignment explanation
Indices: 24405168--24405207 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
24405158 GTGTAATTAA
**
24405168 TTTAACATTTTTTTTAT
1 TTTAACATTAATTTTAT
24405185 TTTAACATTAATTTTAT
1 TTTAACATTAATTTTAT
*
24405202 TATAAC
1 TTTAAC
24405208 TTCTTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTAACATTAATTTTAT
Found at i:24415773 original size:10 final size:10
Alignment explanation
Indices: 24415758--24415785 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
24415748 GGATATTTTT
24415758 AACACTTTAC
1 AACACTTTAC
24415768 AACACTTTAC
1 AACACTTTAC
24415778 AACACTTT
1 AACACTTT
24415786 TTTTTACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (10 bp):
AACACTTTAC
Found at i:24417316 original size:22 final size:21
Alignment explanation
Indices: 24417286--24417326 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
24417276 TATTTTTATT
24417286 TTTATTTTG-AGGAATTTAATC
1 TTTATTTTGTA-GAATTTAATC
24417307 TTTATATTTGTAGAATTTAA
1 TTTAT-TTTGTAGAATTTAA
24417327 AAGTATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 12 0.67
23 1 0.06
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (21 bp):
TTTATTTTGTAGAATTTAATC
Found at i:24428307 original size:11 final size:11
Alignment explanation
Indices: 24428291--24428396 Score: 68
Period size: 11 Copynumber: 10.4 Consensus size: 11
24428281 TATTTTTTAA
24428291 TTTTAAAATAC
1 TTTTAAAATAC
24428302 TTTTAAAATAC
1 TTTTAAAATAC
** *
24428313 TTTT--TTTAA
1 TTTTAAAATAC
24428322 TTTTAAAATA-
1 TTTTAAAATAC
* **
24428332 TTTTTAAATTT
1 TTTTAAAATAC
24428343 TTTTAAAATAC
1 TTTTAAAATAC
24428354 TTTTTAAAAT--
1 -TTTTAAAATAC
*
24428364 TTTT----TAA
1 TTTTAAAATAC
*
24428371 TTTTAAAATAT
1 TTTTAAAATAC
24428382 TTTTAAAATAC
1 TTTTAAAATAC
24428393 TTTT
1 TTTT
24428397 TTTAATTTTT
Statistics
Matches: 73, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
5 1 0.01
7 4 0.05
9 10 0.14
10 8 0.11
11 41 0.56
12 9 0.12
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:24428327 original size:20 final size:20
Alignment explanation
Indices: 24428302--24428359 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
24428292 TTTAAAATAC
24428302 TTTTAAAATACTTTTT-TTAA
1 TTTTAAAATACTTTTTATT-A
*
24428322 TTTTAAAATA-TTTTTAAATTT
1 TTTTAAAATACTTTTT--ATTA
24428343 TTTTAAAATACTTTTTA
1 TTTTAAAATACTTTTTA
24428360 AAATTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 5 0.15
20 11 0.33
21 10 0.30
22 7 0.21
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTAAAATACTTTTTATTA
Found at i:24428342 original size:49 final size:47
Alignment explanation
Indices: 24428281--24428388 Score: 146
Period size: 49 Copynumber: 2.2 Consensus size: 47
24428271 TAATAATTTT
*
24428281 TATTTTTTAA-TTTTAAAATACTTTTAAAATACTTTTTTTAATTTTAAAA
1 TATTTTTAAATTTTTAAAATACTTTTAAAA-A--TTTTTTAATTTTAAAA
*
24428330 TATTTTTAAATTTTTTTAAAATACTTTTTAAAATTTTTTAATTTTAAAA
1 TATTTTTAAA--TTTTTAAAATACTTTTAAAAATTTTTTAATTTTAAAA
24428379 TATTTTTAAA
1 TATTTTTAAA
24428389 ATACTTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
49 35 0.65
51 1 0.02
52 18 0.33
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (47 bp):
TATTTTTAAATTTTTAAAATACTTTTAAAAATTTTTTAATTTTAAAA
Found at i:24428376 original size:16 final size:17
Alignment explanation
Indices: 24428355--24428387 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
24428345 TTAAAATACT
24428355 TTTTAAAAT-TTTTTAA
1 TTTTAAAATATTTTTAA
24428371 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
24428388 AATACTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:24428404 original size:39 final size:39
Alignment explanation
Indices: 24428277--24428406 Score: 172
Period size: 39 Copynumber: 3.3 Consensus size: 39
24428267 ATAATAATAA
*
24428277 TTTTT-ATTTTTTAATTTTAAAATACTTTTAAAATACTT
1 TTTTTAATTTTTTAATTTTAAAATATTTTTAAAATACTT
** * *
24428315 TTTTTAATTTTAAAATATTTTTAAATTTTTTTAAAATACTT
1 TTTTTAATTTT-TTA-ATTTTAAAATATTTTTAAAATACTT
**
24428356 TTTAAAATTTTTTAATTTTAAAATATTTTTAAAATACTT
1 TTTTTAATTTTTTAATTTTAAAATATTTTTAAAATACTT
24428395 TTTTTAATTTTT
1 TTTTTAATTTTT
24428407 GTTTTAATTT
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
38 5 0.07
39 38 0.50
40 2 0.03
41 31 0.41
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (39 bp):
TTTTTAATTTTTTAATTTTAAAATATTTTTAAAATACTT
Found at i:24430841 original size:40 final size:40
Alignment explanation
Indices: 24430785--24430870 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
24430775 ATTGTTTATT
24430785 GAAGCTCTTTCATAGATGCCCAATTCGTTAAATTTTTAAA
1 GAAGCTCTTTCATAGATGCCCAATTCGTTAAATTTTTAAA
*
24430825 GAAGCTCTTTCGTAGATGCCCAATTCGTTAAATTTTTAAA
1 GAAGCTCTTTCATAGATGCCCAATTCGTTAAATTTTTAAA
24430865 GAAGCT
1 GAAGCT
24430871 TTTGGCGAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (40 bp):
GAAGCTCTTTCATAGATGCCCAATTCGTTAAATTTTTAAA
Found at i:24438712 original size:15 final size:16
Alignment explanation
Indices: 24438680--24438714 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
24438670 TTACTGTATG
*
24438680 ATTATTAGTATTATAT
1 ATTATTAGTATTAAAT
24438696 ATTATTA-TATTAAAT
1 ATTATTAGTATTAAAT
24438711 ATTA
1 ATTA
24438715 ATATTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTATTAGTATTAAAT
Found at i:24439159 original size:27 final size:26
Alignment explanation
Indices: 24439093--24439160 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
24439083 ATACATGTTT
* *
24439093 CATATATGCATATTCATATTTTTAAA
1 CATATATACATATACATATTTTTAAA
* *
24439119 -ATTTACTTATATATACATATTTTGTAAA
1 CATATA--TACATATACATATTTT-TAAA
24439147 CATATATACATATA
1 CATATATACATATA
24439161 ATTTAAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
25 4 0.12
27 20 0.62
28 4 0.12
29 4 0.12
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (26 bp):
CATATATACATATACATATTTTTAAA
Found at i:24445592 original size:41 final size:41
Alignment explanation
Indices: 24445547--24445861 Score: 488
Period size: 41 Copynumber: 7.7 Consensus size: 41
24445537 GGTTTTAAAA
24445547 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
24445588 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
24445629 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
24445670 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
24445711 CCTAGCAGGCTAAGTGCCGGTGAAT-TGAATCAGGCTATAAA
1 CCTAGCAGGCTAAGTGCCGGTG-ATCTGAATCAGGCTATAAG
* * * *
24445752 CCTAGCAGGCTAAGTGCTGGTGAACTGGATTAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
24445793 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * *
24445834 CCTAACAAGCTAAGTGCCAGTGAATCTG
1 CCTAGCAGGCTAAGTGCCGGTG-ATCTG
24445862 TTTAAATTAA
Statistics
Matches: 249, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.00
41 242 0.97
42 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:24456454 original size:26 final size:26
Alignment explanation
Indices: 24456424--24456481 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 26
24456414 TAATATATAC
24456424 AATTA-AAATATGTAT-AATAAAATTAA
1 AATTAGAAA-ATGTATAAAT-AAATTAA
24456450 AATTAGAAAATGTATAAATAAATTAA
1 AATTAGAAAATGTATAAATAAATTAA
24456476 AATTAG
1 AATTAG
24456482 GTTTTGGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 24 0.80
27 6 0.20
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (26 bp):
AATTAGAAAATGTATAAATAAATTAA
Found at i:24457166 original size:31 final size:29
Alignment explanation
Indices: 24457124--24457181 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
24457114 CTACTAAATA
*
24457124 ATTTATTTATTTAATATTTTTAATTTAATGC
1 ATTTATGTATTTAA-A-TTTTAATTTAATGC
*
24457155 ATTTATGTATTTAAATTTTATTTTAAT
1 ATTTATGTATTTAAATTTTAATTTAAT
24457182 CACAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.44
30 1 0.04
31 13 0.52
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (29 bp):
ATTTATGTATTTAAATTTTAATTTAATGC
Found at i:24457190 original size:31 final size:32
Alignment explanation
Indices: 24457123--24457190 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
24457113 CCTACTAAAT
* *
24457123 AATTTATTTATTTAATATTTTTAATTTAATGC
1 AATTTATGTATTTAATATTTTTAATTTAATAC
*
24457155 -ATTTATGTATTTAA-A-TTTTATTTTAATCAC
1 AATTTATGTATTTAATATTTTTAATTTAAT-AC
24457185 AATTTA
1 AATTTA
24457191 ATCTAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 11 0.35
30 2 0.06
31 18 0.58
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (32 bp):
AATTTATGTATTTAATATTTTTAATTTAATAC
Found at i:24461157 original size:23 final size:24
Alignment explanation
Indices: 24461126--24461176 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
24461116 TATTTTTCAA
24461126 AAAAAAATTTT-AACAA-CAATACT
1 AAAAAAATTTTCAA-AATCAATACT
*
24461149 AAAAGAATTTTCCAAAATCAATACT
1 AAAAAAATTTT-CAAAATCAATACT
24461174 AAA
1 AAA
24461177 CTTGTATCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 10 0.42
24 2 0.08
25 12 0.50
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.25
Consensus pattern (24 bp):
AAAAAAATTTTCAAAATCAATACT
Found at i:24470714 original size:20 final size:20
Alignment explanation
Indices: 24470689--24470728 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24470679 CGTAAAATAA
* *
24470689 TTTCTGGAAAGTGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
24470709 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
24470729 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:24471959 original size:321 final size:321
Alignment explanation
Indices: 24471377--24472019 Score: 1259
Period size: 321 Copynumber: 2.0 Consensus size: 321
24471367 ACAGACACAG
24471377 TGTGGTAAACAAGAATAATATGTAATTACATGCATGTGTGCATACACCTCTCCTTGAGTATGTAT
1 TGTGGTAAACAAGAATAATATGTAATTACATGCATGTGTGCATACACCTCTCCTTGAGTATGTAT
24471442 CTGTCTCAGAGAGAAAGATCTATATTGCAACTTAAACAACAAAAGAAACATAGATACGAAAAGAT
66 CTGTCTCAGAGAGAAAGATCTATATTGCAACTTAAACAACAAAAGAAACATAGATACGAAAAGAT
24471507 AGTCCTCATACATCAAATTCTAAACTTAAAAGAGTCATTGATTTACAATAAGCAATTTCAGATGT
131 AGTCCTCATACATCAAATTCTAAACTTAAAAGAGTCATTGATTTACAATAAGCAATTTCAGATGT
*
24471572 CAGAAACATCCATCTAGTATATATAATAATAGGTGGAATTCATTCTAGCACTTAAAATACTTCTT
196 CAGAAACATCCATCTAGTATATATAATAATAGGTGGAATTCATTCTAACACTTAAAATACTTCTT
24471637 ATGACATATCTTGTATTACTCATAGACGTAACAACCATAGCACTCCCTGAATGAAGGTAAC
261 ATGACATATCTTGTATTACTCATAGACGTAACAACCATAGCACTCCCTGAATGAAGGTAAC
24471698 TGTGGTAAACAAGAATAATATGTAATTACATGCATGTGTGCATACACCTCTCCTTGAGTATGTAT
1 TGTGGTAAACAAGAATAATATGTAATTACATGCATGTGTGCATACACCTCTCCTTGAGTATGTAT
24471763 CTGTCTCAGAGAGAAAGATCTATATTGCAACTTAAACAACAAAAGAAACATAGATACGAAAAGAT
66 CTGTCTCAGAGAGAAAGATCTATATTGCAACTTAAACAACAAAAGAAACATAGATACGAAAAGAT
24471828 AGTCCTCATACATCAAATTCTAAACTTAAAAGAGTCATTGATTTACAATAAGCAATTTCAGATGT
131 AGTCCTCATACATCAAATTCTAAACTTAAAAGAGTCATTGATTTACAATAAGCAATTTCAGATGT
24471893 CAGAAACATCCATCTAGTATATATAATAATAGGTGGAATTCATTCTAACACTTAAAATACTTCTT
196 CAGAAACATCCATCTAGTATATATAATAATAGGTGGAATTCATTCTAACACTTAAAATACTTCTT
* *
24471958 ATGACCTATCTTGTATTACTCATAGGCGTAACAACCATAGCACTCCCTGAATGAAGGTAAC
261 ATGACATATCTTGTATTACTCATAGACGTAACAACCATAGCACTCCCTGAATGAAGGTAAC
24472019 T
1 T
24472020 CTTGAGGTTA
Statistics
Matches: 319, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
321 319 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (321 bp):
TGTGGTAAACAAGAATAATATGTAATTACATGCATGTGTGCATACACCTCTCCTTGAGTATGTAT
CTGTCTCAGAGAGAAAGATCTATATTGCAACTTAAACAACAAAAGAAACATAGATACGAAAAGAT
AGTCCTCATACATCAAATTCTAAACTTAAAAGAGTCATTGATTTACAATAAGCAATTTCAGATGT
CAGAAACATCCATCTAGTATATATAATAATAGGTGGAATTCATTCTAACACTTAAAATACTTCTT
ATGACATATCTTGTATTACTCATAGACGTAACAACCATAGCACTCCCTGAATGAAGGTAAC
Found at i:24472291 original size:13 final size:11
Alignment explanation
Indices: 24472259--24472292 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
24472249 GCAGGAATTA
24472259 GTACAATATAT
1 GTACAATATAT
24472270 GTACAATATAT
1 GTACAATATAT
24472281 GTACAATATAT
1 GTACAATATAT
24472292 G
1 G
24472293 AGAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (11 bp):
GTACAATATAT
Found at i:24473182 original size:16 final size:16
Alignment explanation
Indices: 24473161--24473194 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
24473151 GGACGGAGAG
*
24473161 GAAATGAGGAGGAAAT
1 GAAATGAGAAGGAAAT
24473177 GAAATGAGAAGGAAAT
1 GAAATGAGAAGGAAAT
24473193 GA
1 GA
24473195 GAGGTTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (16 bp):
GAAATGAGAAGGAAAT
Found at i:24493309 original size:18 final size:19
Alignment explanation
Indices: 24493286--24493325 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
24493276 ATACGGCAGA
24493286 AAGAAAGG-GTAAAG-AGAG
1 AAGAAAGGTG-AAAGAAGAG
24493304 AAGAAAGGTGAAAGAAGAG
1 AAGAAAGGTGAAAGAAGAG
24493323 AAG
1 AAG
24493326 GGGGGAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.38, T:0.05
Consensus pattern (19 bp):
AAGAAAGGTGAAAGAAGAG
Found at i:24493978 original size:29 final size:31
Alignment explanation
Indices: 24493936--24493997 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 31
24493926 AAAATTTGGT
* *
24493936 AAAATTATATTTTAGTC-TCTAAAAATGATA
1 AAAATTATAATTTAATCATCTAAAAATGATA
* *
24493966 AAAATT-TAATTTAATCATTTAAAAATTATA
1 AAAATTATAATTTAATCATCTAAAAATGATA
24493996 AA
1 AA
24493998 GATATAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (31 bp):
AAAATTATAATTTAATCATCTAAAAATGATA
Found at i:24497131 original size:22 final size:22
Alignment explanation
Indices: 24497100--24497150 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
24497090 TTTTTGTATA
24497100 TTTAGAATTTAGTCTT-T-TATTT
1 TTTA-AATTTAGT-TTCTCTATTT
24497122 TTATAAATTTAGTTTCTCTATTT
1 TT-TAAATTTAGTTTCTCTATTT
24497145 TTTAAA
1 TTTAAA
24497151 ATTAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 2 0.08
22 15 0.58
23 9 0.35
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (22 bp):
TTTAAATTTAGTTTCTCTATTT
Found at i:24502563 original size:21 final size:21
Alignment explanation
Indices: 24502539--24502580 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
24502529 TAAATTTAGC
*
24502539 TCAATTTAATACAATTCACAT
1 TCAATTCAATACAATTCACAT
*
24502560 TCAATTCAATCCAATTCACAT
1 TCAATTCAATACAATTCACAT
24502581 CCTAGGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (21 bp):
TCAATTCAATACAATTCACAT
Found at i:24502576 original size:10 final size:11
Alignment explanation
Indices: 24502550--24502582 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
24502540 CAATTTAATA
*
24502550 CAATTCACATT
1 CAATTCACATC
24502561 CAATTCA-ATC
1 CAATTCACATC
24502571 CAATTCACATC
1 CAATTCACATC
24502582 C
1 C
24502583 TAGGAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (11 bp):
CAATTCACATC
Found at i:24511186 original size:25 final size:25
Alignment explanation
Indices: 24511158--24511255 Score: 92
Period size: 25 Copynumber: 3.9 Consensus size: 25
24511148 CAGCTCATGA
24511158 GAGCTTACCGATTCTCAGCTCGTAT
1 GAGCTTACCGATTCTCAGCTCGTAT
* *
24511183 GAGCTTATCGATT-TACAGCTTGTGA-
1 GAGCTTACCGATTCT-CAGCTCGT-AT
* * *
24511208 GAGCTTACTGATTCTTAGCTTGTAT
1 GAGCTTACCGATTCTCAGCTCGTAT
* * *
24511233 AAGCTTACTGATTCACAGCTCGT
1 GAGCTTACCGATTCTCAGCTCGT
24511256 GAGAACATAC
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
24 2 0.03
25 56 0.93
26 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.36
Consensus pattern (25 bp):
GAGCTTACCGATTCTCAGCTCGTAT
Found at i:24511221 original size:50 final size:50
Alignment explanation
Indices: 24511146--24511259 Score: 149
Period size: 50 Copynumber: 2.3 Consensus size: 50
24511136 GCAGACGCAC
* *
24511146 TACAGCTCATGAGAGCTTACCGATTCTCAGCTCGTATGAGCTTA-TCGATT
1 TACAGCTCGTGAGAGCTTACCGATTCTCAGCTCGTATAAGCTTACT-GATT
* * * *
24511196 TACAGCTTGTGAGAGCTTACTGATTCTTAGCTTGTATAAGCTTACTGATT
1 TACAGCTCGTGAGAGCTTACCGATTCTCAGCTCGTATAAGCTTACTGATT
*
24511246 CACAGCTCGTGAGA
1 TACAGCTCGTGAGA
24511260 ACATACCAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 54 0.98
51 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (50 bp):
TACAGCTCGTGAGAGCTTACCGATTCTCAGCTCGTATAAGCTTACTGATT
Found at i:24511277 original size:50 final size:49
Alignment explanation
Indices: 24511147--24511279 Score: 142
Period size: 50 Copynumber: 2.7 Consensus size: 49
24511137 CAGACGCACT
* * *
24511147 ACAGCTCATGAGAGCTTACCGATTCTCAGCTCGTATGAGCTTATCGATTT
1 ACAGCTCGTGAGAGCTTACCGATTCT-AGCTCGTATAAGCTTATCGATTC
* * *
24511197 ACAGCTTGTGAGAGCTTACTGATTCTTAGCTTGTATAAGCTTA-CTGATTC
1 ACAGCTCGTGAGAGCTTACCGATTC-TAGCTCGTATAAGCTTATC-GATTC
* * *
24511247 ACAGCTCGTGAGAACATACCAATTCATAGCTCG
1 ACAGCTCGTGAGAGCTTACCGATTC-TAGCTCG
24511280 AATGAGCATA
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
49 1 0.01
50 66 0.97
51 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (49 bp):
ACAGCTCGTGAGAGCTTACCGATTCTAGCTCGTATAAGCTTATCGATTC
Found at i:24511477 original size:30 final size:30
Alignment explanation
Indices: 24511438--24511499 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
24511428 TACATGAAAT
24511438 ACATGGAAAT-GAT-ATTACATGATATATTAAA
1 ACATGGAAATGGATGA-TACATG-TATA-TAAA
24511469 ACAT-GAAATGGATGATACATGTATATAAA
1 ACATGGAAATGGATGATACATGTATATAAA
24511498 AC
1 AC
24511500 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATAAA
Found at i:24519360 original size:12 final size:12
Alignment explanation
Indices: 24519343--24519375 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
24519333 ACAAAATCTA
24519343 AATTTAATTTCC
1 AATTTAATTTCC
*
24519355 AATTTAATTTCT
1 AATTTAATTTCC
24519367 AATTTAATT
1 AATTTAATT
24519376 AATTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:24521668 original size:2 final size:2
Alignment explanation
Indices: 24521661--24521703 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
24521651 ACTTCCCGCC
24521661 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
24521703 C
1 C
24521704 CCATGTACAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:24524111 original size:44 final size:44
Alignment explanation
Indices: 24524048--24524135 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
24524038 TATTTTTTGT
*
24524048 TGGGTGGTTATTAGGTTTATATAATGTTTGTAGGACTGTGAAAC
1 TGGGTGGTTATTAGGTTTATACAATGTTTGTAGGACTGTGAAAC
24524092 TGGGTGGTTATTAGGTTTATACAATGTTTGTAGGACTGTGAAAC
1 TGGGTGGTTATTAGGTTTATACAATGTTTGTAGGACTGTGAAAC
24524136 ATGTTGGGGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.25, C:0.06, G:0.30, T:0.40
Consensus pattern (44 bp):
TGGGTGGTTATTAGGTTTATACAATGTTTGTAGGACTGTGAAAC
Found at i:24529293 original size:107 final size:107
Alignment explanation
Indices: 24529107--24529300 Score: 318
Period size: 107 Copynumber: 1.8 Consensus size: 107
24529097 AAGATTCAAG
* *
24529107 AGGATATTTGGCTATTTGGTCCAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTGGTCCAACGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTCGA
24529172 AATTTTCAAACGCAAAACATTGTTTTATTTTGAAATTTTATA
66 AATTTTCAAACGCAAAACATTGTTTTATTTTGAAATTTTATA
* * * *
24529214 AGGATTTTTGGCTATTTGGTCGAACGAAAAAATCGAAACCCAACCCATTAGGGTACGTTTTCTCG
1 AGGATATTTGGCTATTTGGTCCAACG-AAAAATCGAAACCCAACACATTAGGGCACGTTTTCTCG
24529279 -AATTTTCAAACGCAAAACATTG
65 AAATTTTCAAACGCAAAACATTG
24529301 CCTTATTATT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
107 46 0.57
108 34 0.43
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (107 bp):
AGGATATTTGGCTATTTGGTCCAACGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTCGA
AATTTTCAAACGCAAAACATTGTTTTATTTTGAAATTTTATA
Found at i:24529763 original size:4 final size:4
Alignment explanation
Indices: 24529754--24529779 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
24529744 TAATAATAAT
24529754 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
24529780 AGATAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:24529906 original size:3 final size:3
Alignment explanation
Indices: 24529898--24529943 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
24529888 TAAATAAGTA
* * * *
24529898 AAT AAT AAT AAT AAT AAT AAT ATT AAT ATT AAT ATT AAT ATT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
24529944 GTAGAATAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:24529909 original size:6 final size:6
Alignment explanation
Indices: 24529898--24529943 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
24529888 TAAATAAGTA
* * *
24529898 AATAAT AATAAT AATAAT AATATT AATATT AATATT AATATT AATA
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AATA
24529944 GTAGAATAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (6 bp):
AATATT
Found at i:24530112 original size:7 final size:7
Alignment explanation
Indices: 24530100--24530149 Score: 100
Period size: 7 Copynumber: 7.1 Consensus size: 7
24530090 ATAAAAGGAC
24530100 ATAATAA
1 ATAATAA
24530107 ATAATAA
1 ATAATAA
24530114 ATAATAA
1 ATAATAA
24530121 ATAATAA
1 ATAATAA
24530128 ATAATAA
1 ATAATAA
24530135 ATAATAA
1 ATAATAA
24530142 ATAATAA
1 ATAATAA
24530149 A
1 A
24530150 ATGATATAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAA
Found at i:24533634 original size:18 final size:21
Alignment explanation
Indices: 24533605--24533661 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
24533595 GTCATTTTAA
*
24533605 ATTTTATCTATGT-TTTA-TTT
1 ATTTTAT-TATGTAGTTATTTT
24533625 ATTTT-TTATGTAGTTATTTT
1 ATTTTATTATGTAGTTATTTT
24533645 ATTTTATTAT-T-GTTATT
1 ATTTTATTATGTAGTTATT
24533662 ACCATGTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 5 0.15
19 10 0.30
20 14 0.42
21 4 0.12
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (21 bp):
ATTTTATTATGTAGTTATTTT
Found at i:24536934 original size:19 final size:18
Alignment explanation
Indices: 24536891--24536945 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
24536881 TGATAATAAT
24536891 AAAAAATAAATAAAAATA
1 AAAAAATAAATAAAAATA
* * *
24536909 TAGAAATGAAATGAAAATA
1 AAAAAAT-AAATAAAAATA
24536928 AAAAAATATAA-AAAAATA
1 AAAAAATA-AATAAAAATA
24536946 CGATAAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
AAAAAATAAATAAAAATA
Found at i:24537037 original size:8 final size:8
Alignment explanation
Indices: 24537016--24537047 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
24537006 AAAAGGATAA
24537016 ATAAAAAT
1 ATAAAAAT
24537024 AGTAAAAAT
1 A-TAAAAAT
24537033 ATAAAAAT
1 ATAAAAAT
24537041 ATAAAAA
1 ATAAAAA
24537048 AATATATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (8 bp):
ATAAAAAT
Found at i:24537038 original size:17 final size:16
Alignment explanation
Indices: 24537016--24537047 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
24537006 AAAAGGATAA
24537016 ATAAAAATAGTAAAAAT
1 ATAAAAATA-TAAAAAT
24537033 ATAAAAATATAAAAA
1 ATAAAAATATAAAAA
24537048 AATATATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (16 bp):
ATAAAAATATAAAAAT
Found at i:24537048 original size:17 final size:18
Alignment explanation
Indices: 24537016--24537053 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
24537006 AAAAGGATAA
24537016 ATAAAAATAGT-AAAAAT
1 ATAAAAATAGTAAAAAAT
24537033 ATAAAAATA-TAAAAAAAT
1 ATAAAAATAGT-AAAAAAT
24537051 ATA
1 ATA
24537054 TAAGGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.05
17 9 0.47
18 9 0.47
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (18 bp):
ATAAAAATAGTAAAAAAT
Found at i:24537753 original size:11 final size:11
Alignment explanation
Indices: 24537723--24537756 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
24537713 GGTTGAAATG
**
24537723 CCCTAAAAAAC
1 CCCTAAAATTC
24537734 CCCTAAAATTC
1 CCCTAAAATTC
24537745 CCCTAAAATTC
1 CCCTAAAATTC
24537756 C
1 C
24537757 AAAAAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (11 bp):
CCCTAAAATTC
Found at i:24538206 original size:26 final size:26
Alignment explanation
Indices: 24538168--24538217 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
24538158 GGTTTTGTAA
24538168 TTGAATTGGGTTTGTTTTGGGTTTAT
1 TTGAATTGGGTTTGTTTTGGGTTTAT
*
24538194 TTGAATTGTGTTTGTTTTGGGTTT
1 TTGAATTGGGTTTGTTTTGGGTTT
24538218 GGTTTGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.10, C:0.00, G:0.30, T:0.60
Consensus pattern (26 bp):
TTGAATTGGGTTTGTTTTGGGTTTAT
Found at i:24539978 original size:98 final size:98
Alignment explanation
Indices: 24539806--24540000 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
24539796 ACAATAAAAT
*
24539806 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAATTCC
*
24539871 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
*
24539904 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAATTCC
*
24539969 TTTAAAATCCCAAACTCGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTA
24540001 TTGTTTTTAG
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:24540272 original size:19 final size:19
Alignment explanation
Indices: 24540240--24540276 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24540230 AGAATGATGT
* *
24540240 AATGCTATATTAAATATAC
1 AATGCAATAATAAATATAC
24540259 AATGCAATAATAAATATA
1 AATGCAATAATAAATATA
24540277 ACAAAGGCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (19 bp):
AATGCAATAATAAATATAC
Found at i:24541662 original size:44 final size:44
Alignment explanation
Indices: 24541614--24541836 Score: 121
Period size: 44 Copynumber: 5.1 Consensus size: 44
24541604 TATCTTGGAA
* *
24541614 AGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATCCGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * * * *
24541658 AGATAGGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGG
1 AGATAAGATCCGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
* * * **** * *
24541702 AGACAAG-GCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATC-CGCCATCTTCAATCTGC-T-CCACTACTGCTTAGG-G
*
24541746 AGATAAGATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATCCGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
** * * * * * *
24541790 AGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGG
1 AGATAAGATCCGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
24541834 AGA
1 AGA
24541837 CAAGGCTTGG
Statistics
Matches: 126, Mismatches: 45, Indels: 16
0.67 0.24 0.09
Matches are distributed among these distances:
42 6 0.05
43 5 0.04
44 106 0.84
45 5 0.04
46 4 0.03
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (44 bp):
AGATAAGATCCGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:24541816 original size:132 final size:132
Alignment explanation
Indices: 24541579--24541910 Score: 628
Period size: 132 Copynumber: 2.5 Consensus size: 132
24541569 NNNNNNNNNN
24541579 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCC
* *
24541644 ACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAG
24541709 GC
131 GC
*
24541711 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCATCTTCGATCTGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCC
24541776 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAG
24541841 GC
131 GC
*
24541843 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCC
24541908 ACT
66 ACT
24541911 GTCAATGCAG
Statistics
Matches: 195, Mismatches: 5, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
132 195 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (132 bp):
TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCC
ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAG
GC
Found at i:24543199 original size:20 final size:19
Alignment explanation
Indices: 24543176--24543223 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
24543166 TTTCTTTCAC
24543176 TTTTATTTTTTATTTTTTTG
1 TTTT-TTTTTTATTTTTTTG
*
24543196 TTTTTGTTTTTGTTTTTTTG
1 TTTTT-TTTTTATTTTTTTG
24543216 TTTTTTTT
1 TTTTTTTT
24543224 AAATCTGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTTATTTTTTTG
Found at i:24543825 original size:32 final size:32
Alignment explanation
Indices: 24543784--24543846 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
24543774 CACAAATCCC
*
24543784 ACTCAAAAGGCAACAAGTGTGTTTTGAACATT
1 ACTCAAAAGGAAACAAGTGTGTTTTGAACATT
24543816 ACTCAAAAGGAAACAAGTGTGTTTTGAACAT
1 ACTCAAAAGGAAACAAGTGTGTTTTGAACAT
24543847 CTTTAAAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (32 bp):
ACTCAAAAGGAAACAAGTGTGTTTTGAACATT
Found at i:24547698 original size:98 final size:98
Alignment explanation
Indices: 24547526--24547720 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
24547516 ACAATAAAAT
*
24547526 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
24547591 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
24547624 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
24547689 TTTAAAATCCCAAACTTGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTA
24547721 TTGTTTTTAG
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:24548278 original size:158 final size:158
Alignment explanation
Indices: 24548099--24548414 Score: 623
Period size: 158 Copynumber: 2.0 Consensus size: 158
24548089 ATTAAAAGGC
24548099 GGAGGGGCTAAATAAAAAAATAAATAAAATTCGTAGTGGTATCACCTTCTCCCTTTTTTTAAAAT
1 GGAGGGGCTAAATAAAAAAATAAATAAAATTCGTAGTGGTATCACCTTCTCCCTTTTTTTAAAAT
24548164 CGTGAATAAGTAAAAAAAATAATCGAAAGAAAAAAAATAGTAAGCCACCTTTAAAAAACTGCCAA
66 CGTGAATAAGTAAAAAAAATAATCGAAAGAAAAAAAATAGTAAGCCACCTTTAAAAAACTGCCAA
24548229 TCGTTCTTTTTTATTCCTCCTCCTCTTT
131 TCGTTCTTTTTTATTCCTCCTCCTCTTT
24548257 GGAGGGGCTAAATAAAAAAATAAATAAAATTCGTAGTGGTATCACCTTCTCCCTTTTTTTAAAAT
1 GGAGGGGCTAAATAAAAAAATAAATAAAATTCGTAGTGGTATCACCTTCTCCCTTTTTTTAAAAT
24548322 CGTGAATAAGTAAAAAAAATAATCGAAAGAAAAAAAATAGTAAGCCACCTTTAAAAAACTGCCAA
66 CGTGAATAAGTAAAAAAAATAATCGAAAGAAAAAAAATAGTAAGCCACCTTTAAAAAACTGCCAA
*
24548387 TCGTTCTTTTTTATTCCTCCTTCTCTTT
131 TCGTTCTTTTTTATTCCTCCTCCTCTTT
24548415 TCTCATTTTT
Statistics
Matches: 157, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 157 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (158 bp):
GGAGGGGCTAAATAAAAAAATAAATAAAATTCGTAGTGGTATCACCTTCTCCCTTTTTTTAAAAT
CGTGAATAAGTAAAAAAAATAATCGAAAGAAAAAAAATAGTAAGCCACCTTTAAAAAACTGCCAA
TCGTTCTTTTTTATTCCTCCTCCTCTTT
Found at i:24548610 original size:21 final size:21
Alignment explanation
Indices: 24548556--24548629 Score: 120
Period size: 19 Copynumber: 3.7 Consensus size: 21
24548546 AATCATATAT
24548556 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
24548575 TCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATATCATA
24548594 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
24548615 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
24548630 CCTCAAAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
19 26 0.51
21 25 0.49
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:24548630 original size:40 final size:37
Alignment explanation
Indices: 24548549--24548630 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 37
24548539 ATTACAAAAT
24548549 CATAT-ATTCTAAGATTGCATATCATATCTAAGATTA
1 CATATCATTCTAAGATTGCATATCATATCTAAGATTA
* *
24548585 TATATCATATCTAAGATTGCATATATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTGC--ATATCATATCTAAGATTA
24548625 CATATC
1 CATATC
24548631 CTCAAAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
36 4 0.10
37 2 0.05
38 11 0.28
40 22 0.56
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.39
Consensus pattern (37 bp):
CATATCATTCTAAGATTGCATATCATATCTAAGATTA
Found at i:24552234 original size:58 final size:57
Alignment explanation
Indices: 24552102--24552236 Score: 182
Period size: 58 Copynumber: 2.3 Consensus size: 57
24552092 TTTAATTCAT
* **
24552102 ATAATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATATGGTTAAATTATATATTATTTTATTAAATTATATTTA
* * *
24552160 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGGTTAAATTATATATTA-TTTTATTAAATTATATTTA
24552218 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
24552237 TTAATACCAA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
57 18 0.26
58 49 0.72
59 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGGTTAAATTATATATTATTTTATTAAATTATATTTA
Found at i:24552425 original size:16 final size:16
Alignment explanation
Indices: 24552404--24552459 Score: 78
Period size: 16 Copynumber: 3.5 Consensus size: 16
24552394 TAAATTACTG
24552404 ATTACAGCTT-TATTCC
1 ATTACAG-TTCTATTCC
* *
24552420 ATTACAATTCTATTCA
1 ATTACAGTTCTATTCC
24552436 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
24552452 ATTACAGT
1 ATTACAGT
24552460 GAACCAAACG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 2 0.06
16 33 0.94
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.43
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:24553598 original size:10 final size:11
Alignment explanation
Indices: 24553583--24553631 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
24553573 AACTAAATCC
24553583 TTTCTCTC-AA
1 TTTCTCTCAAA
*
24553593 TTTCTCTCTAA
1 TTTCTCTCAAA
24553604 TATTCTCTCAAA
1 T-TTCTCTCAAA
*
24553616 TTCCTCTCAAA
1 TTTCTCTCAAA
24553627 TTTCT
1 TTTCT
24553632 ATTTAAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
10 8 0.24
11 16 0.47
12 10 0.29
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (11 bp):
TTTCTCTCAAA
Found at i:24553609 original size:22 final size:22
Alignment explanation
Indices: 24553583--24553631 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
24553573 AACTAAATCC
* *
24553583 TTTCTCTC-AATTTCTCTCTAA
1 TTTCTCTCAAATTCCTCTCAAA
24553604 TATTCTCTCAAATTCCTCTCAAA
1 T-TTCTCTCAAATTCCTCTCAAA
24553627 TTTCT
1 TTTCT
24553632 ATTTAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 11 0.46
23 12 0.50
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTCTCTCAAATTCCTCTCAAA
Found at i:24555784 original size:21 final size:22
Alignment explanation
Indices: 24555760--24555808 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
24555750 AGATCCCCAA
24555760 CCGGAAG-AACCAAAACCCCCG
1 CCGGAAGCAACCAAAACCCCCG
*
24555781 CCGG-AGCAACCACAACCCCCG
1 CCGGAAGCAACCAAAACCCCCG
*
24555802 CTGGAAG
1 CCGGAAG
24555809 TTGGACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.33, C:0.43, G:0.22, T:0.02
Consensus pattern (22 bp):
CCGGAAGCAACCAAAACCCCCG
Found at i:24555948 original size:32 final size:33
Alignment explanation
Indices: 24555907--24555981 Score: 80
Period size: 34 Copynumber: 2.3 Consensus size: 33
24555897 ACAAACATTT
* *
24555907 TAAATATTTT-GATATTATTTGATGTAATAAAA
1 TAAAAATTTTCGATATTATTTCATGTAATAAAA
* * **
24555939 TAGAAATTTTTCTATATTATTTCATGTGCTAAAA
1 TA-AAAATTTTCGATATTATTTCATGTAATAAAA
24555973 TAAAAATTT
1 TAAAAATTT
24555982 ACTTTTACAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
32 2 0.06
33 12 0.35
34 20 0.59
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (33 bp):
TAAAAATTTTCGATATTATTTCATGTAATAAAA
Found at i:24557330 original size:96 final size:94
Alignment explanation
Indices: 24557182--24557506 Score: 341
Period size: 96 Copynumber: 3.4 Consensus size: 94
24557172 AGTAACCCTA
* *
24557182 AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCTTAAACACTAAACCCTAATCTAAT
1 AACCCTAAACCCTAATTTAATTGA-TTTTTACTTAAAAACCTT-AACACTAAACCCTAATCTAAT
24557247 TTTATAAAAATTTATAATTAATTTACTCAAGT
64 TTT-TAAAAATTTATAATTAATTTACTCAAGT
* * * * *
24557279 AATCCTGAACCCTAATTTAATTGATTTTTCCTTAAAAACTCTTAACTCTAAACCTTAATCTAATT
1 AACCCTAAACCCTAATTTAATTGATTTTTACTTAAAAAC-CTTAACACTAAACCCTAATCTAA-T
*
24557344 TTTTAAAAAATTT-TAATTAAATTACTCAAGT
64 TTTT-AAAAATTTATAATTAATTTACTCAAGT
* * * * * *
24557375 AACCCTAAACCCTAATTTAATTAATTTTTTCTTAAAAAACAATAAACACGAAA-CCTAATCCAAT
1 AACCCTAAACCCTAATTTAATTGATTTTTACTT-AAAAAC-CTTAACACTAAACCCTAATCTAAT
* * ** **
24557439 TTTGAAAAATTTATAATTAATTTAATTGACA
64 TTTTAAAAATTTATAATTAATTTACTCAAGT
* * *
24557470 AACCCTAAACCCTTATTTATTTAATTTTT-CTCTAAAA
1 AACCCTAAACCCTAATTTAATTGATTTTTACT-TAAAA
24557507 CCCTAAACTT
Statistics
Matches: 194, Mismatches: 28, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
94 14 0.07
95 44 0.23
96 87 0.45
97 49 0.25
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (94 bp):
AACCCTAAACCCTAATTTAATTGATTTTTACTTAAAAACCTTAACACTAAACCCTAATCTAATTT
TTAAAAATTTATAATTAATTTACTCAAGT
Found at i:24557561 original size:27 final size:29
Alignment explanation
Indices: 24557505--24557564 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 29
24557495 TTTTCTCTAA
*
24557505 AACCCTAAACTTAAAAACACCAAAACCCT
1 AACCCTAAACTCAAAAACACCAAAACCCT
* *
24557534 AACCCTAAAC-CAATAAC-CCAAAATCCT
1 AACCCTAAACTCAAAAACACCAAAACCCT
24557561 AACC
1 AACC
24557565 GCAGAAGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 13 0.46
28 5 0.18
29 10 0.36
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (29 bp):
AACCCTAAACTCAAAAACACCAAAACCCT
Found at i:24558152 original size:27 final size:27
Alignment explanation
Indices: 24558114--24558183 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
24558104 GGTAGAGGGC
* *
24558114 CTGCCACAGGCGGCACCAGAGGTGCCA
1 CTGCCAAAGGCGGCACCAAAGGTGCCA
* *
24558141 GTGGCAAAGGCGGCACCAAAGGTGCCA
1 CTGCCAAAGGCGGCACCAAAGGTGCCA
*
24558168 CTGCCACAGGCGGCAC
1 CTGCCAAAGGCGGCAC
24558184 TAGCCCTTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.24, C:0.34, G:0.34, T:0.07
Consensus pattern (27 bp):
CTGCCAAAGGCGGCACCAAAGGTGCCA
Found at i:24558234 original size:13 final size:13
Alignment explanation
Indices: 24558216--24558270 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 13
24558206 ATTCGGCTGG
24558216 AGGAGAAGAAAGA
1 AGGAGAAGAAAGA
24558229 AGGAGAAGAAAGA
1 AGGAGAAGAAAGA
**
24558242 AAAAGAAAGAAAAGGAA
1 AGGAG-AAG-AAA-G-A
24558259 AGGAGAAGAAAG
1 AGGAGAAGAAAG
24558271 GAAAGGAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
13 16 0.47
14 4 0.12
15 6 0.18
16 4 0.12
17 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (13 bp):
AGGAGAAGAAAGA
Found at i:24558259 original size:20 final size:20
Alignment explanation
Indices: 24558236--24558318 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
24558226 AGAAGGAGAA
24558236 GAAAGAAAAAGAAAGAAAAG
1 GAAAGAAAAAGAAAGAAAAG
* * *
24558256 GAAAGGAGAAGAAAGGAAAG
1 GAAAGAAAAAGAAAGAAAAG
** *
24558276 GAAAGGAGAAGAAGAAGAGGGAGG
1 GAAA-GA-AA-AAGAA-AGAAAAG
*
24558300 GAAGGAAAAAGAAAGAAAA
1 GAAAGAAAAAGAAAGAAAA
24558319 AAATAAGTAA
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
20 24 0.50
21 6 0.12
22 3 0.06
23 7 0.15
24 8 0.17
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (20 bp):
GAAAGAAAAAGAAAGAAAAG
Found at i:24558260 original size:5 final size:5
Alignment explanation
Indices: 24558236--24558282 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
24558226 AGAAGGAGAA
* * *
24558236 GAAAG AAAAA GAAAG AAAAG GAAAG GAGAA- GAAAG GAAAG GAAAG GA
1 GAAAG GAAAG GAAAG GAAAG GAAAG GA-AAG GAAAG GAAAG GAAAG GA
24558283 GAAGAAGAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
4 2 0.06
5 30 0.88
6 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:24558866 original size:132 final size:130
Alignment explanation
Indices: 24558713--24558982 Score: 357
Period size: 132 Copynumber: 2.1 Consensus size: 130
24558703 ATAAAAAAAC
*
24558713 ACTAAATTAATACATTTCAAACACAATGTACTAAAAGAATGTAAAATAATAAAATACGAAAATAA
1 ACTAAATTAATACATTTCAAACACAATGTACTAAAAGAACGTAAAATAATAAAATACGAAAAT--
* * *
24558778 AATAT-TTTTTGAAAGTAATAAA--ATCTGGAAAAAAAATACGAACAAAGGGCCGAAATAAGAGT
64 AATATGTTTTTGAAA-CAATAAAGCTTC-GG-AAAAAAATACGAACAAAGGGCCGAAAGAAGAGT
24558840 TTTTT
126 TTTTT
* * * *
24558845 ACTAAATTAATGCATTTCAAACATAATGTACTAAAATAACGTAAAATAATAAACTACGAAAATAA
1 ACTAAATTAATACATTTCAAACACAATGTACTAAAAGAACGTAAAATAATAAAATACGAAAATAA
* * * * *
24558910 TATGTTTTTGAAACAATGAGGCTTCGGTAAAAAATCCGAGCAAAGGGCCGAAAGAAGAGTTTTTT
66 TATGTTTTTGAAACAATAAAGCTTCGGAAAAAAATACGAACAAAGGGCCGAAAGAAGAGTTTTTT
24558975 ACTAAATT
1 ACTAAATT
24558983 TATTTAAAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
130 51 0.42
131 11 0.09
132 60 0.49
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (130 bp):
ACTAAATTAATACATTTCAAACACAATGTACTAAAAGAACGTAAAATAATAAAATACGAAAATAA
TATGTTTTTGAAACAATAAAGCTTCGGAAAAAAATACGAACAAAGGGCCGAAAGAAGAGTTTTTT
Found at i:24559179 original size:157 final size:155
Alignment explanation
Indices: 24558845--24559905 Score: 1382
Period size: 157 Copynumber: 6.9 Consensus size: 155
24558835 AGAGTTTTTT
* * *
24558845 ACTAAATTAATGCATTTCAAACATAATGTACTAAAATAACGTAAAATAAT-AAACTACGAAAAT-
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTA-GAAAATA
* * *** * * * * *
24558908 A-ATATGTTT-TTGAAA-CAATGAGGCTTC-GGTAAAAAATCCGAGCAAAGGGCCGAAAGAAGAG
65 ATATATTTTTATTGAAAGTAAT-AAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGG
*
24558969 TTTTTTACTAAATTTATTTAAAAAACAC
129 TTTTTT-TTAAATTTATTTAAAAAACAC
*
24558997 ACTAAATTAATACGTTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA-TATGAAAATA
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTA-GAAAATA
*
24559061 ATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAAGGCCGAAATAAGGGT
65 ATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGT
24559126 TATTTTTTGAAATTTATTTAAAAAACAC
130 T-TTTTTT-AAATTTATTTAAAAAACAC
24559154 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAG
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATA-
* * *
24559219 TGTATATTTTT-TT-AAAGTAATAAAATTCAGGAAAAAAATACGAACAAAGGGCCAAAATAAGGG
65 -ATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGG
24559282 TTTTTTTACTAAA-TTA---AAAAAA-AC
129 TTTTTTT--TAAATTTATTTAAAAAACAC
*
24559306 AATAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA-TACGAAAATA
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTA-GAAAATA
* *
24559370 ATATATTTTTATTGAAAGTAATAAAA-TCGGG--AAAAATATGAATAAAGGGCCGAAATAA-GG-
65 ATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGT
* **
24559430 -CTTTTTAAATTTA-AAAAAAAACAC
130 TTTTTTTAAATTTATTTAAAAAACAC
* * * * *
24559454 AATTAATTAATATATTTCAAACATAACGTACTAAAATAATGTAAAATAGTAAAATTAGAAAATAA
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAA
* *
24559519 TATATTTTTATTGAAAGTAATAAAATCCGGAAAAAAAATACGAACAAAGGGCCGAAATAAGGGTT
66 TATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTT
*
24559584 TTTTTTAAAAATTTATTTAAAACACAC
131 TTTTTT--AAATTTATTTAAAAAACAC
*
24559611 ACTAAATTAATACATTTCAAAAATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAA
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAA
* * *
24559676 AATATTTTTATTGAAAGTAATAAAATCCGGGAAAATAATACGAACAAAGGGCCGAAATAAGGGTT
66 TATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTT
** * *
24559741 TTTTAAAAATATT-TTT--TAAATAC
131 TTTTTTAAAT-TTATTTAAAAAACAC
*
24559764 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAGTAATAAAATTAGAAAATAA
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAA
* * * *
24559829 TATATTTTTATTGAAAGTAAGAAAATCCGAG-AAAAAATACGAACAAAGGGCCGAAATAAGGATT
66 TATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTT
*
24559893 TTTTAATAAATTT
131 TTTT-TTAAATTT
24559906 GTTTTGAAGT
Statistics
Matches: 815, Mismatches: 62, Indels: 64
0.87 0.07 0.07
Matches are distributed among these distances:
144 4 0.00
145 3 0.00
146 4 0.00
147 6 0.01
148 87 0.11
149 29 0.04
150 9 0.01
151 33 0.04
152 168 0.21
153 110 0.13
154 12 0.01
155 17 0.02
156 51 0.06
157 268 0.33
158 5 0.01
159 9 0.01
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (155 bp):
ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAA
TATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTT
TTTTTTAAATTTATTTAAAAAACAC
Found at i:24559204 original size:309 final size:307
Alignment explanation
Indices: 24558845--24559905 Score: 1388
Period size: 309 Copynumber: 3.5 Consensus size: 307
24558835 AGAGTTTTTT
* * *
24558845 ACTAAATTAATGCATTTCAAACATAATGTACTAAAATAACGTAAAATAAT-AAACTACGAAAATA
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTA-GAAAATA
* *** * * * * *
24558909 -ATATGTTTTTGAAA-CAATGAGGCTTCGGTAAAAAATCCGAGCAAAGGGCCGAAAGAAGAG-TT
65 TATAT-TTTTTGAAAGTAAT-AAAATTCGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTT
*
24558971 TTTTACTAAATTTATTTAAAAAACACACTAAATTAATACGTTTCAAACATAATGTACTAAAATAA
128 TTTTACTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAA
24559036 TGTAAAATAATAAAATATGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAAT
193 TGTAAAATAATAAAATATGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAAT
*
24559101 ACGAACAAAAGGCCGAAATAAGGGTTATTTTTTGAAATTTATTTAAAAAACAC
258 ACGAACAAAGGGCCGAAATAAGGG-T-TTTTTT-AAATTTATTTAAAAAACAC
24559154 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAG
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATA-
* *
24559219 TGTATATTTTTTTAAAGTAATAAAATTCAGGAAAAAAATACGAACAAAGGGCCAAAATAAGGGTT
65 --TATATTTTTTGAAAGTAATAAAATTC-GGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTT
*
24559284 TTTTTACTAAA-TTA---AAAAAA-ACAATAAATTAATACATTTCAAACATAATGTACTAAAATA
127 TTTTTACTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATA
*
24559344 ATGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA-TCGGG--AAAAA
192 ATGTAAAATAATAAAATATGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAA
* * * **
24559406 TATGAATAAAGGGCCGAAATAA-GG-CTTTTTAAATTTA-AAAAAAAACAC
257 TACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACAC
* * * * *
24559454 AATTAATTAATATATTTCAAACATAACGTACTAAAATAATGTAAAATAGTAAAATTAGAAAATAA
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAAT-A
*
24559519 TATATTTTTATTGAAAGTAATAAAATCCGGAAAAAAAATACGAACAAAGGGCCGAAATAAGGGTT
65 TATA-TTTT-TTGAAAGTAATAAAATTCGG-AAAAAAATACGAACAAAGGGCCGAAATAAGGG-T
* * *
24559584 TTTTTTA-AAAATTTATTTAAAACACACACTAAATTAATACATTTCAAAAATAATGTACTAAAAT
126 TTTTTTACTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAAT
* * *
24559648 AATGTAAAATAATAAAAT-TAGAAAATAAAATATTTTTATTGAAAGTAATAAAATCCGGGAAAAT
191 AATGTAAAATAATAAAATAT-GAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAA
** *** *
24559712 AATACGAACAAAGGGCCGAAATAAGGG-TTTTTTAAAAATATTTTTTAAATAC
255 AATACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACAC
*
24559764 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAGTAATAAAATTAGAAAATAA
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAAT-A
* * *
24559829 TATATTTTTATTGAAAGTAAGAAAA-TCCGAGAAAAAATACGAACAAAGGGCCGAAATAA-GGAT
65 TATA-TTTT-TTGAAAGTAATAAAATTCGGA-AAAAAATACGAACAAAGGGCCGAAATAAGGGTT
*
24559892 TTTTTAATAAATTT
127 TTTTTACTAAATTT
24559906 GTTTTGAAGT
Statistics
Matches: 665, Mismatches: 61, Indels: 53
0.85 0.08 0.07
Matches are distributed among these distances:
298 4 0.01
299 6 0.01
300 117 0.18
301 19 0.03
302 5 0.01
304 5 0.01
305 89 0.13
306 28 0.04
307 7 0.01
308 38 0.06
309 186 0.28
310 99 0.15
312 12 0.02
313 38 0.06
314 12 0.02
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (307 bp):
ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAT
ATATTTTTTGAAAGTAATAAAATTCGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT
TACTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGT
AAAATAATAAAATATGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACG
AACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACAC
Found at i:24559619 original size:457 final size:459
Alignment explanation
Indices: 24558847--24559895 Score: 1465
Period size: 457 Copynumber: 2.3 Consensus size: 459
24558837 AGTTTTTTAC
* * *
24558847 TAAATTAATGCATTTCAAACATAATGTACTAAAATAACGTAAAATAATAAACTACGAAAAT-A-A
1 TAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
* * *** ** * * *
24558910 TATGTTT-TTGAAA-CAATGAGGCTTCGGTAAAAAATCCGAGCAAAGGGCCGAAAGAAGAGTTTT
66 TATTTTTATTGAAAGTAAT-A-AAATCGG-AAAAAATATGAACAAAGGGCCGAAATAAG-G-ATT
** * * *
24558973 TTACTAAATTTATTTAAAAAACACACTAAATTAATACGTTTCAAACATAATGTACTAAAATAATG
126 TT--TAAATTTATAAAAAAAACACAATAAATTAATACATTTCAAACATAACGTACTAAAATAATG
* *
24559038 TAAAATAATAAAATATGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATAC
189 TAAAATAATAAAATATGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGAAAAAAAATAC
*
24559103 GAACAAAAGGCCGAAATAAGGGTTATTTTTTGAAATTTATTTAAAAAACACACTAAATTAATACA
254 GAACAAAAGGCCGAAATAAGGGTTATTTTTTAAAATTTATTTAAAAAACACACTAAATTAATACA
* **
24559168 TTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTGTATATTTTT-TT
319 TTTCAAAAATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATA--AAATATTTTTATT
* **
24559232 -AAAGTAATAAAATTCAGGAAAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTTACTAA-A
382 GAAAGTAATAAAATCCAGGAAAAAAATACGAACAAAGGGCCAAAATAAGGG-TTTTTTAAAAATA
24559295 -TTAAAAAAAACAA
446 TTTAAAAAAAACAA
24559308 TAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
1 TAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
* * *
24559373 TATTTTTATTGAAAGTAATAAAATCGGGAAAAATATGAATAAAGGGCCGAAATAAGGCTTTTTAA
66 TATTTTTATTGAAAGTAATAAAATCGGAAAAAATATGAACAAAGGGCCGAAATAAGGATTTTTAA
* *
24559438 ATTTA-AAAAAAAACACAATTAATTAATATATTTCAAACATAACGTACTAAAATAATGTAAAATA
131 ATTTATAAAAAAAACACAATAAATTAATACATTTCAAACATAACGTACTAAAATAATGTAAAATA
*
24559502 GTAAAAT-TAGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGAAAAAAAATACGAACAA
196 ATAAAATAT-GAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGAAAAAAAATACGAACAA
* *
24559566 AGGGCCGAAATAAGGGTT-TTTTTTAAAAATTTATTTAAAACACACACTAAATTAATACATTTCA
260 AAGGCCGAAATAAGGGTTATTTTTT-AAAATTTATTTAAAAAACACACTAAATTAATACATTTCA
24559630 AAAATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAAAATATTTTTATTGAAAGTA
324 AAAATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAAAATATTTTTATTGAAAGTA
* * * ***
24559695 ATAAAATCCGGGAAAATAATACGAACAAAGGGCCGAAATAAGGGTTTTTTAAAAATATTTTTTAA
389 ATAAAATCCAGGAAAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTAAAAATATTTAAAAA
* *
24559760 ATACAC
454 AAACAA
*
24559766 TAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAGTAATAAAATTA-GAAAATAAT
1 TAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA-TACGAAAATAAT
* *
24559830 ATATTTTTATTGAAAGTAAGAAAATCCGAGAAAAAATACGAACAAAGGGCCGAAATAAGGATTTT
65 ATATTTTTATTGAAAGTAATAAAAT-CG-GAAAAAATATGAACAAAGGGCCGAAATAAGGATTTT
24559895 T
128 T
24559896 TAATAAATTT
Statistics
Matches: 527, Mismatches: 48, Indels: 27
0.88 0.08 0.04
Matches are distributed among these distances:
455 8 0.02
456 18 0.03
457 256 0.49
458 100 0.19
459 4 0.01
460 37 0.07
461 59 0.11
462 24 0.05
463 11 0.02
464 7 0.01
465 3 0.01
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.29
Consensus pattern (459 bp):
TAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
TATTTTTATTGAAAGTAATAAAATCGGAAAAAATATGAACAAAGGGCCGAAATAAGGATTTTTAA
ATTTATAAAAAAAACACAATAAATTAATACATTTCAAACATAACGTACTAAAATAATGTAAAATA
ATAAAATATGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGAAAAAAAATACGAACAAA
AGGCCGAAATAAGGGTTATTTTTTAAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAA
AATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAAAATATTTTTATTGAAAGTAAT
AAAATCCAGGAAAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTAAAAATATTTAAAAAAA
ACAA
Found at i:24561550 original size:12 final size:12
Alignment explanation
Indices: 24561529--24561571 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
24561519 AGATCATGAT
*
24561529 CCCGAACTAGAG
1 CCCGAGCTAGAG
24561541 CCCGAGCTAGAG
1 CCCGAGCTAGAG
* *
24561553 CCCGAGCCAGAT
1 CCCGAGCTAGAG
24561565 CCCGAGC
1 CCCGAGC
24561572 AATTACATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.26, C:0.40, G:0.28, T:0.07
Consensus pattern (12 bp):
CCCGAGCTAGAG
Found at i:24565171 original size:37 final size:38
Alignment explanation
Indices: 24565077--24565292 Score: 118
Period size: 39 Copynumber: 5.4 Consensus size: 38
24565067 CCACTAATCC
**
24565077 TAATAACTAACACAATAATAATAGTTTTTTACTCAAAATAA
1 TAATAACT-A-ACAATAATAATAGGGTTTTACT-AAAATAA
*
24565118 TACTAACTAACAATAATAATTAGGGTTTTACT-AAA-AA
1 TAATAACTAACAATAATAA-TAGGGTTTTACTAAAATAA
** *** *
24565155 TAATAACTAACAATAAT-ATAATGTAAAAACTAACAATCA
1 TAATAACTAACAATAATAATAGGGT-TTTACTAA-AATAA
* *
24565194 TACTAACTAA-AATAATAATTAGGGTTTTTACTAATCCA-AA
1 TAATAACTAACAATAATAA-TAGGG-TTTTACTAA--AATAA
* * **
24565234 TAACTAACCATAATAATAATATTAGTTTTTTACTAACAATAA
1 TAA-TAA-C-TAACAATAATAATAGGGTTTTACTAA-AATAA
* *
24565276 TACTAAGTAACAATAAT
1 TAATAACTAACAATAAT
24565293 TATTAATAAC
Statistics
Matches: 135, Mismatches: 26, Indels: 30
0.71 0.14 0.16
Matches are distributed among these distances:
35 4 0.03
36 4 0.03
37 19 0.14
38 11 0.08
39 30 0.22
40 22 0.16
41 18 0.13
42 14 0.10
43 6 0.04
44 7 0.05
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (38 bp):
TAATAACTAACAATAATAATAGGGTTTTACTAAAATAA
Found at i:24565204 original size:23 final size:23
Alignment explanation
Indices: 24565159--24565205 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
24565149 TAAAAATAAT
*
24565159 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
24565182 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
24565205 A
1 A
24565206 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:24569015 original size:15 final size:15
Alignment explanation
Indices: 24568992--24569021 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24568982 AAAGAATATT
24568992 TATAATGTTTTTATC
1 TATAATGTTTTTATC
*
24569007 TATATTGTTTTTATC
1 TATAATGTTTTTATC
24569022 CCTCAACAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (15 bp):
TATAATGTTTTTATC
Done.