Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 218 of 226
Found at i:68239266 original size:44 final size:46
Alignment explanation
Indices: 68239193--68239310 Score: 122
Period size: 45 Copynumber: 2.7 Consensus size: 46
68239183 CCCATCTAGT
* **
68239193 CTTAT-CTCCTTGAAGTTGCAG-GGGAGCAGACT-AAG-TAAGCAAGT
1 CTTATCCTCC-TGAAGTTGCAGTGAGAGCAGACTGAAGAT-AGCAAAC
* *
68239237 TTTATCCTCCTGAAGTTGCAGTGAG-GCAGACTGAAGATTGCAAAC
1 CTTATCCTCCTGAAGTTGCAGTGAGAGCAGACTGAAGATAGCAAAC
*
68239282 CTTATCTTCCTGAAGTTGCAGT-AGAGCAG
1 CTTATCCTCCTGAAGTTGCAGTGAGAGCAG
68239311 GTTAAAGCCG
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
44 24 0.39
45 37 0.60
46 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (46 bp):
CTTATCCTCCTGAAGTTGCAGTGAGAGCAGACTGAAGATAGCAAAC
Found at i:68239467 original size:44 final size:42
Alignment explanation
Indices: 68239190--68239697 Score: 196
Period size: 44 Copynumber: 11.7 Consensus size: 42
68239180 GATCCCATCT
*
68239190 AGTCTTATCTCCTTGAAGTTGCAGGGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* *
68239234 AGTTTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATTGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
** * * *
68239279 AACCTTATCTTCCTGAAGTTGCAGTAGAGCAG-GTTA-AAGCCGA
1 AGTCTTATC-TCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * * * * *
68239322 TAGTCCTATCTCCCCGAAGTTGCAGTGGAGCGGA-TTAGAACCTT
1 -AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * *** * *
68239366 GGATATTATCTCTCTGAAGTTGTAG-AGAGCAGA-T-CCCATCT
1 AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
68239407 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * *
68239451 AGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGCAGATTGGA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
** * * *
68239496 AACCTTATCTCCCTGAAGTTACAGTGGAGCAG-GTTA-AAGCTGA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAGC--A
* * * * * ***
68239539 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAATTT
1 -AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * * * * * *
68239583 GGATCATAACTCTTTGAAGTTGCAGT-GAGCAGA-T-CGCATCT
1 AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
** *
68239624 AGTCTTATCTCTCTGAAGAGGTAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
*
68239668 AGTCTTATCCTCCTGAAGTTGCAATGGAGC
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGAGC
68239698 GGATTAGAAC
Statistics
Matches: 346, Mismatches: 82, Indels: 72
0.69 0.16 0.14
Matches are distributed among these distances:
40 37 0.11
41 22 0.06
42 8 0.02
43 26 0.08
44 176 0.51
45 71 0.21
46 6 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
AGTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:68239502 original size:217 final size:217
Alignment explanation
Indices: 68239104--68239690 Score: 901
Period size: 217 Copynumber: 2.7 Consensus size: 217
68239094 TCGGTGGCCA
* * * *
68239104 ATAATCCTATTTCCCTGAAGTTACAGTGGAGAGGATTAAAACATTGGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACATTGGATATTATCTCTCTGAAGT
* *
68239169 TGCAGAGAGTAGATCCCATCTAGTCTTATCTC-CTTGAAGTTGCAGGGGAGCAGACTAAGTAAGC
66 TGCAGAGAGCAGATCCCATCTAGTCTTATCTCTC-TGAAGTTGCAGTGGAGCAGACTAAGTAAGC
* *
68239233 AAGTTTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATTGCAAACCTTATCTTCCTGAAGT
130 AAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATTGCAAACCTTATCTCCCTGAAGT
*
68239298 TGCAGTAGAGCAGGTTAAAGCCG
195 TACAGTAGAGCAGGTTAAAGCCG
* * * *
68239321 ATAGTCCTATCTCCCCGAAGTTGCAGTGGAGCGGATTAGAACCTTGGATATTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACATTGGATATTATCTCTCTGAAGT
*
68239386 TGTAGAGAGCAGATCCCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
66 TGCAGAGAGCAGATCCCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* *
68239451 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGCAGATTGGAAACCTTATCTCCCTGAAGTT
131 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATTGCAAACCTTATCTCCCTGAAGTT
* *
68239516 ACAGTGGAGCAGGTTAAAGCTG
196 ACAGTAGAGCAGGTTAAAGCCG
* *
68239538 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA-ATTTGGATCA-TAACTCTTTGAA
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACA-TTGGAT-ATTATCTCTCTGAA
* * ** *
68239601 GTTGCAGTGAGCAGATCGCATCTAGTCTTATCTCTCTGAAGAGGTAGTGGAGCAGACTAAGTAAG
64 GTTGCAGAGAGCAGATCCCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
68239666 CAAGTCTTATCCTCCTGAAGTTGCA
129 CAAGTCTTATCCTCCTGAAGTTGCA
68239691 ATGGAGCGGA
Statistics
Matches: 337, Mismatches: 30, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
217 335 0.99
218 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (217 bp):
ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACATTGGATATTATCTCTCTGAAGT
TGCAGAGAGCAGATCCCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATTGCAAACCTTATCTCCCTGAAGTT
ACAGTAGAGCAGGTTAAAGCCG
Found at i:68241306 original size:23 final size:25
Alignment explanation
Indices: 68241280--68241365 Score: 72
Period size: 24 Copynumber: 3.5 Consensus size: 25
68241270 ATACGCATAT
68241280 TTATTTTTTTA-AATAT-TATGTAA
1 TTATTTTTTTATAATATATATGTAA
**
68241303 TTA-TTTTTTATTTTATATATGTAA
1 TTATTTTTTTATAATATATATGTAA
* * *
68241327 TTA-TTTTTCATAACTATAGTATATAT
1 TTATTTTTTTATAA-TATA-TATGTAA
*
68241353 TTATTTTTATATA
1 TTATTTTTTTATA
68241366 TGTATGTATA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
22 7 0.14
23 6 0.12
24 17 0.35
25 4 0.08
26 8 0.16
27 7 0.14
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (25 bp):
TTATTTTTTTATAATATATATGTAA
Found at i:68245165 original size:32 final size:32
Alignment explanation
Indices: 68245097--68245299 Score: 230
Period size: 32 Copynumber: 6.4 Consensus size: 32
68245087 AACAGGCTAC
* * * *
68245097 AAGCCATAAGT-ATAGTAATATGTTTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
68245128 AAGCCATCAGTAGCAGTGATATGATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* ** * *
68245160 CAGCCATCAGTAATGGTAATATGATCGACATA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
68245192 AAGCCATCAGTAAC-GATAATATGATCAGCACA
1 AAGCCATCAGTAACAG-TAATATGATCGGCACA
* *
68245224 AAGCCATCAGTAACAGTAATATGATCAGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
68245256 AAGCCATCAGTAACAGTAATATGACCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
68245288 AAGCCATTAGTA
1 AAGCCATCAGTA
68245300 GCATCACAGC
Statistics
Matches: 144, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
31 11 0.08
32 132 0.92
33 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:68245230 original size:96 final size:96
Alignment explanation
Indices: 68245123--68245299 Score: 264
Period size: 96 Copynumber: 1.8 Consensus size: 96
68245113 AATATGTTTG
* * * * ** *
68245123 GCACAAAGCCATCAGTAGCAGTGATATGATCGGTACACAGCCATCAGTAATGGTAATATGATCGA
1 GCACAAAGCCATCAGTAACAGTAATATGATCAGTACAAAGCCATCAGTAACAGTAATATGACCGA
*
68245188 CATAAAGCCATCAGTAACGATAATATGATCA
66 CACAAAGCCATCAGTAACGATAATATGATCA
*
68245219 GCACAAAGCCATCAGTAACAGTAATATGATCAGTACAAAGCCATCAGTAACAGTAATATGACCGG
1 GCACAAAGCCATCAGTAACAGTAATATGATCAGTACAAAGCCATCAGTAACAGTAATATGACCGA
*
68245284 CACAAAGCCATTAGTA
66 CACAAAGCCATCAGTA
68245300 GCATCACAGC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 71 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (96 bp):
GCACAAAGCCATCAGTAACAGTAATATGATCAGTACAAAGCCATCAGTAACAGTAATATGACCGA
CACAAAGCCATCAGTAACGATAATATGATCA
Found at i:68245517 original size:24 final size:23
Alignment explanation
Indices: 68245485--68245543 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
68245475 CCATGCTTAG
68245485 AATCAGTCATTCAAATCACAAACA
1 AATCAGTCATTCAAA-CACAAACA
* * *
68245509 AATCGGTCATACCAAACACAGACA
1 AATCAGTCAT-TCAAACACAAACA
68245533 AATCAGTCATT
1 AATCAGTCATT
68245544 TAACCATAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.46, C:0.25, G:0.08, T:0.20
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAAACA
Found at i:68245612 original size:27 final size:27
Alignment explanation
Indices: 68245580--68245673 Score: 125
Period size: 27 Copynumber: 3.5 Consensus size: 27
68245570 TCTCGAGAAT
*
68245580 ATTACGATCATTTTACCCTATAGGGGT
1 ATTACGATCATTTTACCCTATAGGGGC
*
68245607 ATTACGGTCATTTTACCCTATAGGGGC
1 ATTACGATCATTTTACCCTATAGGGGC
* * * *
68245634 ATTATGATCATTTTATCCTACAAGGGC
1 ATTACGATCATTTTACCCTATAGGGGC
*
68245661 ATTACGATTATTT
1 ATTACGATCATTT
68245674 AACAACCTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (27 bp):
ATTACGATCATTTTACCCTATAGGGGC
Found at i:68249213 original size:20 final size:20
Alignment explanation
Indices: 68249188--68249225 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
68249178 CAATTCCTAA
68249188 ATTACGTATTGTGATTGTCT
1 ATTACGTATTGTGATTGTCT
68249208 ATTACGTATTGTGATTGT
1 ATTACGTATTGTGATTGT
68249226 GAACGAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.50
Consensus pattern (20 bp):
ATTACGTATTGTGATTGTCT
Found at i:68254284 original size:20 final size:20
Alignment explanation
Indices: 68254259--68254298 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
68254249 AATATTTTCT
*
68254259 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
68254279 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
68254299 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:68254301 original size:34 final size:35
Alignment explanation
Indices: 68254247--68254313 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
68254237 CAAATAGCAG
* *
68254247 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
68254282 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
68254314 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:68254305 original size:14 final size:14
Alignment explanation
Indices: 68254282--68254321 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
68254272 ACAGAAAAGT
*
68254282 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
68254296 AAATCATTTTACGG
1 AAAACATTTTACAG
68254310 AAAACATTTTAC
1 AAAACATTTTAC
68254322 TGACAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:68254736 original size:15 final size:16
Alignment explanation
Indices: 68254701--68254737 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
68254691 ATAGTTTTTA
68254701 TAAAATTTTATAACCC
1 TAAAATTTTATAACCC
*
68254717 T-AAATTTTAT-ATCC
1 TAAAATTTTATAACCC
68254731 TAAAATT
1 TAAAATT
68254738 CTAGACCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 4 0.21
15 14 0.74
16 1 0.05
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAAATTTTATAACCC
Found at i:68260080 original size:25 final size:25
Alignment explanation
Indices: 68260059--68260108 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
68260049 GGCAACAGTT
68260059 CAAAGAAGAGATTTTATAAACACAA
1 CAAAGAAGAGATTTTATAAACACAA
**
68260084 CACTGAAGAGATTTTATAAACACAA
1 CAAAGAAGAGATTTTATAAACACAA
68260109 GACTCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.22
Consensus pattern (25 bp):
CAAAGAAGAGATTTTATAAACACAA
Found at i:68263905 original size:78 final size:77
Alignment explanation
Indices: 68263755--68264765 Score: 1230
Period size: 78 Copynumber: 13.2 Consensus size: 77
68263745 ATTATTTCTT
* * * * *
68263755 TTTATGTTTTTC--AAAAGTCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGG-CACATGCCG
1 TTTATGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG
*
68263817 AGGTATTTTTTAA
66 AGGTA-TTTTCAA
* * *
68263830 TTTATGTTCTTTTC-CAAGAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCGCACGC
1 TTTATG-T-TTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGC
68263894 TGAGGTATTTTTCAA
64 TGAGGTA-TTTTCAA
* * * * *
68263909 TTTTTGTTTTTC--AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG-CACATGCCG
1 TTTATGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG
*
68263971 AGGTATTTTTTAA
66 AGGTA-TTTTCAA
**** * *
68263984 TTT-TGTTTTTTTCTAAAATCAACTCATAATGCGAGAGGTGAGTTGAGTCTCGGGTCACACGCTG
1 TTTATGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG
* *
68264048 GGGTATTTTTTTAA
66 AGGTA--TTTTCAA
* * *
68264062 TTTCTGTTTTTC--AAAAATCAACTTATAATGCGAGAGGTGAGTTGAGCCTCTGGTCGCACGCTG
1 TTTATGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG
* *
68264125 AGGTATTGTAAA
66 AGGTATTTTCAA
* * *
68264137 TTTATGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGGGTTGAGTCTCGGGCCGCACGCTG
1 TTTATGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG
68264202 AGGTA-TTTCAA
66 AGGTATTTTCAA
68264213 TTTATGTTTTTCAAAAAAATCAACTCA-AATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG
1 TTTATGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG
68264277 AGGTATTTTCAA
66 AGGTATTTTCAA
*
68264289 TTTATGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGTTGAGTTGAGCCTCGGGTCGCACGCT
1 TTTATGTTTTTC-AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCT
68264354 GAGGTATTTTCAA
65 GAGGTATTTTCAA
* * *
68264367 TTTCTATTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGTCTCGGGTCGCACGCT-
1 TTTATGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG
68264431 ATGGTATTTTCAA
66 A-GGTATTTTCAA
* * * **
68264444 TTTCTGTTTTTCAAAAAAAAACAACTCCTAATGCGAGAGGTGAGTTGAGCCTCTAGTCGCACGCT
1 TTTATGTTTTTC-AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCT
68264509 GAGGTATTTTCAA
65 GAGGTATTTTCAA
* * *
68264522 TTTATGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCA
1 TTTATGTTTTTC-AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCT
68264587 GAGGTATTTTCAA
65 GAGGTATTTTCAA
* * * * *
68264600 TTTCTGTTTTTTC--AAAAATCAAATCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACAGGCT
1 TTTATG-TTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCT
68264663 GAGGTATTTTCAA
65 GAGGTATTTTCAA
* *** * * * * *
68264676 TTTCTGTTTATT-TTCAAAA--AACTCATAATCCGATAGATGAGTTGAGCTTCGGGTCGCACACT
1 TTTATGTTT-TTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCT
* *
68264738 GAGCTATTTTCGA
65 GAGGTATTTTCAA
* *
68264751 TTTCTATTTTTCAAA
1 TTTATGTTTTTCAAA
68264766 CAGAAAGAAA
Statistics
Matches: 833, Mismatches: 81, Indels: 44
0.87 0.08 0.05
Matches are distributed among these distances:
74 9 0.01
75 140 0.17
76 194 0.23
77 213 0.26
78 240 0.29
79 37 0.04
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (77 bp):
TTTATGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG
AGGTATTTTCAA
Found at i:68264059 original size:154 final size:153
Alignment explanation
Indices: 68263755--68264753 Score: 1194
Period size: 154 Copynumber: 6.5 Consensus size: 153
68263745 ATTATTTCTT
* * *
68263755 TTTATGTTTTTC-AAAAGTCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGG-CACATGCCGA
1 TTTATGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGA
* ** *
68263818 GGTATTTTTTAATTTATGTTCTTTTCCAAGAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
66 GGTA-TTTTCAATTTATGTT-TTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
*
68263883 AGGTCGCACGCTGAGGTATTTTTCAA
129 GGGTCGCACGCTGAGGTA-TTTTCAA
* * *
68263909 TTTTTGTTTTTC-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG-CACATGCCGA
1 TTTATGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGA
* *** *
68263972 GGTATTTTTTAATTT-TGTTTTTTTCTAAAATCAACTCATAATGCGAGAGGTGAGTTGAGTCTCG
66 GGTA-TTTTCAATTTATGTTTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
* * *
68264036 GGTCACACGCTGGGGTATTTTTTTAA
130 GGTCGCACGCTGAGGTA--TTTTCAA
* * * * *
68264062 TTTCTGTTTTTC-AAAAATCAACTTATAATGCGAGAGGTGAGTTGAGCCTCTGGTCGCACGCTGA
1 TTTATGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGA
* * * * *
68264126 GGTATTGTAAATTTATGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGGGTTGAGTCTCGG
66 GGTATTTTCAATTTATGTTTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
*
68264191 GCCGCACGCTGAGGTA-TTTCAA
131 GTCGCACGCTGAGGTATTTTCAA
* *
68264213 TTTATGTTTTTCAAAAAAATCAACTCA-AATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG
1 TTTATGTTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCG
* *
68264277 AGGTATTTTCAATTTATGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGTTGAGTTGAGCCTC
65 AGGTATTTTCAATTTATGTTTTT-TAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
68264342 GGGTCGCACGCTGAGGTATTTTCAA
129 GGGTCGCACGCTGAGGTATTTTCAA
* * * * *
68264367 TTTCTATTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGTCTCGGGTCGCACG-CT
1 TTTATGTTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCG
* * * *
68264431 ATGGTATTTTCAATTTCTGTTTTTCAAAAAAAAACAACTCCTAATGCGAGAGGTGAGTTGAGCCT
65 A-GGTATTTTCAATTTATGTTTTT-TAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
**
68264496 CTAGTCGCACGCTGAGGTATTTTCAA
128 CGGGTCGCACGCTGAGGTATTTTCAA
* *
68264522 TTTATGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCA
1 TTTATGTTTTTC--AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCC
* * * *
68264587 GAGGTATTTTCAATTTCTGTTTTTT-CAAAAATCAAATCATAATCCGAGAGGTGAGTTGAGCCTC
64 GAGGTATTTTCAATTTATGTTTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
* *
68264651 GGGTCACAGGCTGAGGTATTTTCAA
129 GGGTCGCACGCTGAGGTATTTTCAA
* *** * * * * * * *
68264676 TTTCTGTTTATTTTCAAAA--AACTCATAATCCGATAGATGAGTTGAGCTTCGGGTCGCACACTG
1 TTTATGTTT-TTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCG
* *
68264739 AGCTATTTTCGATTT
65 AGGTATTTTCAATTT
68264754 CTATTTTTCA
Statistics
Matches: 751, Mismatches: 82, Indels: 27
0.87 0.10 0.03
Matches are distributed among these distances:
151 65 0.09
152 112 0.15
153 138 0.18
154 238 0.32
155 128 0.17
156 69 0.09
157 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (153 bp):
TTTATGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGA
GGTATTTTCAATTTATGTTTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
GTCGCACGCTGAGGTATTTTCAA
Found at i:68265474 original size:37 final size:39
Alignment explanation
Indices: 68265401--68265489 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 39
68265391 ACGAAAAAGG
68265401 GGAGAAAAGAGAAGAAAGAAGAAAAAAGAAAGGAAGAGAA
1 GGAGAAAAGA-AAGAAAGAAGAAAAAAGAAAGGAAGAGAA
* *
68265441 GG-GAAAAGAAA-AAAGGAGGAAAAAAGGAA-GAAGAGAA
1 GGAGAAAAGAAAGAAA-GAAGAAAAAAGAAAGGAAGAGAA
68265478 GGAAGAAAAGAA
1 GG-AGAAAAGAA
68265490 GGAGAAGGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
37 13 0.30
38 14 0.32
39 15 0.34
40 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (39 bp):
GGAGAAAAGAAAGAAAGAAGAAAAAAGAAAGGAAGAGAA
Found at i:68265479 original size:23 final size:23
Alignment explanation
Indices: 68265453--68265501 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
68265443 GAAAAGAAAA
*
68265453 AAGGAGGAAAA-AAGGAAGAAGAG
1 AAGGAAGAAAAGAAGG-AGAAGAG
*
68265476 AAGGAAGAAAAGAAGGAGAAGGG
1 AAGGAAGAAAAGAAGGAGAAGAG
68265499 AAG
1 AAG
68265502 AAGGGGACGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (23 bp):
AAGGAAGAAAAGAAGGAGAAGAG
Found at i:68265495 original size:55 final size:56
Alignment explanation
Indices: 68265394--68265500 Score: 139
Period size: 54 Copynumber: 1.9 Consensus size: 56
68265384 AAACAAAACG
* *
68265394 AAAAAGGGGAGAAAAGAGAAGAAAGAAGAAAAAAGAAAGGAAGAGAAGGGAAAAGA
1 AAAAAGGGGAAAAAAGAGAAGAAAGAAGAAAAAAGAAAAGAAGAGAAGGGAAAAGA
**
68265450 AAAAAGGAGGAAAAAAG-GAAG-AAG-AGAAGGAAGAAAAGAAGGAGAAGGGAA
1 AAAAAGG-GGAAAAAAGAGAAGAAAGAAGAAAAAAGAAAAGAA-GAGAAGGGAA
68265501 GAAGGGGACG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 13 0.29
55 13 0.29
56 11 0.24
57 8 0.18
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (56 bp):
AAAAAGGGGAAAAAAGAGAAGAAAGAAGAAAAAAGAAAAGAAGAGAAGGGAAAAGA
Found at i:68265593 original size:7 final size:7
Alignment explanation
Indices: 68265581--68265623 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
68265571 TTTGAAAAGG
68265581 AAGAAGA
1 AAGAAGA
68265588 AAGAAGGA
1 AAGAA-GA
68265596 AAGAA-A
1 AAGAAGA
68265602 AAGAAGA
1 AAGAAGA
*
68265609 AAAAAGA
1 AAGAAGA
*
68265616 AAAAAGA
1 AAGAAGA
68265623 A
1 A
68265624 GAAAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
6 6 0.18
7 20 0.61
8 7 0.21
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (7 bp):
AAGAAGA
Found at i:68265596 original size:14 final size:14
Alignment explanation
Indices: 68265577--68265626 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
68265567 AGGGTTTGAA
68265577 AAGGAAGAAGAAAG
1 AAGGAAGAAGAAAG
68265591 AAGGAAAGAA-AAAG
1 AAGG-AAGAAGAAAG
* *
68265605 AAGAAAAAAGAAA-
1 AAGGAAGAAGAAAG
*
68265618 AAAGAAGAA
1 AAGGAAGAA
68265627 AAATAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 10 0.34
14 14 0.48
15 5 0.17
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAGGAAGAAGAAAG
Found at i:68265612 original size:10 final size:10
Alignment explanation
Indices: 68265575--68265629 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
68265565 TTAGGGTTTG
*
68265575 AAAAGGAAGA
1 AAAAAGAAGA
*
68265585 AGAAAGAAGGA
1 AAAAAGAA-GA
68265596 AAGAAA-AAGA
1 AA-AAAGAAGA
68265606 AGAAAA-AAGA
1 A-AAAAGAAGA
68265616 AAAAAGAAGA
1 AAAAAGAAGA
68265626 AAAA
1 AAAA
68265630 TAAAAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 4 0.11
10 25 0.66
11 6 0.16
12 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (10 bp):
AAAAAGAAGA
Found at i:68265637 original size:17 final size:17
Alignment explanation
Indices: 68265595--68265629 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
68265585 AGAAAGAAGG
68265595 AAAG-AAAAAGAAGAAA
1 AAAGAAAAAAGAAGAAA
68265611 AAAGAAAAAAGAAGAAA
1 AAAGAAAAAAGAAGAAA
68265628 AA
1 AA
68265630 TAAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAGAAGAAA
Found at i:68266356 original size:10 final size:10
Alignment explanation
Indices: 68266306--68266374 Score: 56
Period size: 10 Copynumber: 7.0 Consensus size: 10
68266296 TGGTTGTTCA
68266306 AAAAATT-TAT
1 AAAAATTAT-T
68266316 AAATAATTATT
1 AAA-AATTATT
*
68266327 TAAAA-TA-T
1 AAAAATTATT
68266335 AGAAAA-TATT
1 A-AAAATTATT
*
68266345 AAATATTATT
1 AAAAATTATT
*
68266355 AAAAATTAAT
1 AAAAATTATT
68266365 AAAAATTATT
1 AAAAATTATT
68266375 TATAATTAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
8 1 0.02
9 11 0.23
10 28 0.58
11 7 0.15
12 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (10 bp):
AAAAATTATT
Found at i:68266372 original size:20 final size:20
Alignment explanation
Indices: 68266344--68266384 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
68266334 TAGAAAATAT
*
68266344 TAAATATTATTAAAAATTAA
1 TAAAAATTATTAAAAATTAA
* *
68266364 TAAAAATTATTTATAATTAA
1 TAAAAATTATTAAAAATTAA
68266384 T
1 T
68266385 TTTAATTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAAAATTATTAAAAATTAA
Found at i:68275620 original size:79 final size:79
Alignment explanation
Indices: 68275533--68275688 Score: 267
Period size: 79 Copynumber: 2.0 Consensus size: 79
68275523 GATTTAATCC
* * *
68275533 TTTAAAAATTATAAAGATTTAGGTTATTAAAATGATAAAATTATAATTTTACTATCATAAAATTT
1 TTTAAAAATTATAAAGATTTAGGTTATTAAAACGATAAAATTACAATTTTACTATCATAAAAATT
68275598 ATAATTTAATTTCT
66 ATAATTTAATTTCT
* *
68275612 TTTAAAAATTATAAAGATTTAGGTTATTAAAACGATAAAATTACAATTTTATTATCGTAAAAATT
1 TTTAAAAATTATAAAGATTTAGGTTATTAAAACGATAAAATTACAATTTTACTATCATAAAAATT
68275677 ATAATTTAATTT
66 ATAATTTAATTT
68275689 TAATTTAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (79 bp):
TTTAAAAATTATAAAGATTTAGGTTATTAAAACGATAAAATTACAATTTTACTATCATAAAAATT
ATAATTTAATTTCT
Found at i:68275831 original size:21 final size:19
Alignment explanation
Indices: 68275807--68275846 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
68275797 TAAAAATTAA
68275807 TTAATTATAAAAATGGGATTG
1 TTAA-TATAAAAAT-GGATTG
*
68275828 TTAATATGAAAATGGATTG
1 TTAATATAAAAATGGATTG
68275847 AGATAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
TTAATATAAAAATGGATTG
Found at i:68277383 original size:3 final size:3
Alignment explanation
Indices: 68277375--68277405 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
68277365 AAAAAGGACC
68277375 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
68277406 TTGGTTCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:68280914 original size:2 final size:2
Alignment explanation
Indices: 68280907--68280936 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
68280897 GCTCAACCAC
68280907 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68280937 TGTTTTTGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68283576 original size:14 final size:14
Alignment explanation
Indices: 68283532--68283579 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
68283522 TTAATTTTGT
68283532 AAATAATATTAAAA
1 AAATAATATTAAAA
* *
68283546 AATTACAT-TTAATA
1 AAATA-ATATTAAAA
68283560 AAATAATATTAAAA
1 AAATAATATTAAAA
68283574 AAATAA
1 AAATAA
68283580 AAGAAATAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 2 0.07
14 24 0.86
15 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATAATATTAAAA
Found at i:68283587 original size:28 final size:28
Alignment explanation
Indices: 68283532--68283587 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
68283522 TTAATTTTGT
* * ***
68283532 AAATAATATTAAAAAATTACATTTAATA
1 AAATAATATTAAAAAAATAAAAGAAATA
68283560 AAATAATATTAAAAAAATAAAAGAAATA
1 AAATAATATTAAAAAAATAAAAGAAATA
68283588 GAATCTTAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (28 bp):
AAATAATATTAAAAAAATAAAAGAAATA
Found at i:68287049 original size:20 final size:21
Alignment explanation
Indices: 68287023--68287081 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 21
68287013 AAAAATATAA
68287023 ATTTTGAAATTTTTATAAATT
1 ATTTTGAAATTTTTATAAATT
* *
68287044 -TTTTG-AATTTTAAAAAATT
1 ATTTTGAAATTTTTATAAATT
*
68287063 ATTTTGAATTATTTTATAA
1 ATTTTGAAAT-TTTTATAA
68287082 TTTGTGTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 12 0.40
20 10 0.33
21 2 0.07
22 6 0.20
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTTGAAATTTTTATAAATT
Found at i:68287052 original size:19 final size:20
Alignment explanation
Indices: 68287008--68287072 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
68286998 TTTTATAATC
68287008 TTTTAAAAAATATAAATTTTGAAA
1 TTTTAAAAAAT-T--ATTTTG-AA
* *
68287032 TTTTTATAAATT-TTTTGAA
1 TTTTAAAAAATTATTTTGAA
68287051 TTTTAAAAAATTATTTTGAA
1 TTTTAAAAAATTATTTTGAA
68287071 TT
1 TT
68287073 ATTTTATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 12 0.33
20 14 0.39
23 1 0.03
24 9 0.25
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (20 bp):
TTTTAAAAAATTATTTTGAA
Found at i:68289981 original size:20 final size:20
Alignment explanation
Indices: 68289926--68289981 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
68289916 GATTCACAAA
68289926 ATTATGAGATATTAATGCTC
1 ATTATGAGATATTAATGCTC
* *
68289946 ATTA-CA-AGA-T--TGCTC
1 ATTATGAGATATTAATGCTC
68289961 ATTATGAGATATTAATGCTC
1 ATTATGAGATATTAATGCTC
68289981 A
1 A
68289982 CATTTGAGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
15 9 0.33
16 1 0.04
17 3 0.11
18 3 0.11
19 1 0.04
20 10 0.37
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (20 bp):
ATTATGAGATATTAATGCTC
Found at i:68300966 original size:3 final size:3
Alignment explanation
Indices: 68300958--68301014 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
68300948 TTATAGAAAT
68300958 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
68301006 TAA TAA TAA
1 TAA TAA TAA
68301015 AACACCCACC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:68303445 original size:69 final size:67
Alignment explanation
Indices: 68303366--68303497 Score: 194
Period size: 69 Copynumber: 1.9 Consensus size: 67
68303356 TCAGAATAAG
* * *
68303366 AAAATGTAAAATTACGTCGTTTTGATAAATGTTTACCTTTC-TAAAGTTAAAAGTCAAAATCATT
1 AAAAGGTAAAATTACGTCATTTTGATAAATGTTTA---TTCATAAAGTTAAAAGACAAAATCATT
68303430 AAGTT
63 AAGTT
*
68303435 AAAAGGTAAAATTACGTCATTTTGATAAATGTTTATTCATCAAGTTAAAAGACAAAATCATTA
1 AAAAGGTAAAATTACGTCATTTTGATAAATGTTTATTCATAAAGTTAAAAGACAAAATCATTA
68303498 TATTGTTTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
66 3 0.05
67 22 0.38
69 33 0.57
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (67 bp):
AAAAGGTAAAATTACGTCATTTTGATAAATGTTTATTCATAAAGTTAAAAGACAAAATCATTAAG
TT
Found at i:68305898 original size:40 final size:40
Alignment explanation
Indices: 68305794--68305885 Score: 139
Period size: 40 Copynumber: 2.3 Consensus size: 40
68305784 AATAAAGCAG
* * * *
68305794 GAAAACGCTTTCTCAAGGAAGTGCTTTGTCCACGTTGACT
1 GAAAACGCTTCCTCAAGGAAGCGCTTTGTCCACGTGGACA
*
68305834 GAAAACGCTTCCTCAAGGAAGCGCTTTGTTCACGTGGACA
1 GAAAACGCTTCCTCAAGGAAGCGCTTTGTCCACGTGGACA
68305874 GAAAACGCTTCC
1 GAAAACGCTTCC
68305886 CTGAGGGCGC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
GAAAACGCTTCCTCAAGGAAGCGCTTTGTCCACGTGGACA
Found at i:68307441 original size:99 final size:97
Alignment explanation
Indices: 68307239--68307458 Score: 248
Period size: 99 Copynumber: 2.2 Consensus size: 97
68307229 NNNNNCTAGC
* * **
68307239 TTTATTTGA-TTTTTCCTTAAAAACCCTAAATACTAAACTCCAATCTAATTTTTAAAAAAAATTT
1 TTTATTTGATTTTTTCCTTAAAAACCATAAACACTAAAAGCCAATCTAATTTTT--AAAAAATTT
* * * *
68307303 ATAATTAATTTACTCAAGTAACTCTAGACCCTAA
64 ATAATTAATTTAATCAAGAAACCCTAAACCCTAA
* *
68307337 TTTATTTGATTTTTTCCTTAAAAACCATAAACACTAAAAGCTAATCTAATTTTT-TAAAATTTAT
1 TTTATTTGATTTTTTCCTTAAAAACCATAAACACTAAAAGCCAATCTAATTTTTAAAAAATTTAT
* **
68307401 AATTAATTTAATTAAGAAACCCTAAATTCTAAA
66 AATTAATTTAATCAAGAAACCCTAAACCCT-AA
68307434 CTCTTATTT-ATTTTTTTCCTTAAAA
1 -T-TTATTTGA-TTTTTTCCTTAAAA
68307459 CCTTAAAATC
Statistics
Matches: 104, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
96 32 0.31
97 2 0.02
98 11 0.11
99 59 0.57
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.42
Consensus pattern (97 bp):
TTTATTTGATTTTTTCCTTAAAAACCATAAACACTAAAAGCCAATCTAATTTTTAAAAAATTTAT
AATTAATTTAATCAAGAAACCCTAAACCCTAA
Found at i:68307617 original size:40 final size:40
Alignment explanation
Indices: 68307573--68307681 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 40
68307563 CCACGTGAAC
*
68307573 ACAAAGCGCGCCCTCAG-GGAAGCGTTTTCGGTCCACGTGG
1 ACAAAGCGCGCCCT-AGAGGAAGCATTTTCGGTCCACGTGG
** * *
68307613 ACAAAGCGCTTCCTTGAGGAAGCATTTTCTGTCCACGTGG
1 ACAAAGCGCGCCCTAGAGGAAGCATTTTCGGTCCACGTGG
** * *
68307653 ACAAAGCGCTTCCTTGAGGAAGCGTTTTC
1 ACAAAGCGCGCCCTAGAGGAAGCATTTTC
68307682 CTGCTTTATC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
39 1 0.02
40 61 0.98
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.24
Consensus pattern (40 bp):
ACAAAGCGCGCCCTAGAGGAAGCATTTTCGGTCCACGTGG
Found at i:68308456 original size:21 final size:21
Alignment explanation
Indices: 68308427--68308478 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
68308417 ATAAAAATTT
*
68308427 TAATATTATTTTTTGTTATGTA
1 TAAT-TTATTTTTTATTATGTA
* *
68308449 TAATTTATATTTTATTTTGTA
1 TAATTTATTTTTTATTATGTA
*
68308470 TAGTTTATT
1 TAATTTATT
68308479 ATTATGGTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (21 bp):
TAATTTATTTTTTATTATGTA
Found at i:68310414 original size:2 final size:2
Alignment explanation
Indices: 68310407--68310441 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
68310397 AATTTTAGTT
68310407 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
68310442 TTAAAAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:68311281 original size:20 final size:20
Alignment explanation
Indices: 68311256--68311294 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
68311246 CGATTTTAAC
68311256 AAAAATTAAAAC-AAAACTAA
1 AAAAATT-AAACTAAAACTAA
68311276 AAAAATTAAACTAAAACTA
1 AAAAATTAAACTAAAACTA
68311295 CATTACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAAATTAAACTAAAACTAA
Found at i:68313472 original size:2 final size:2
Alignment explanation
Indices: 68313465--68313489 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68313455 ATTAATTTCA
68313465 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
68313490 AATTAGGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:68315245 original size:7 final size:7
Alignment explanation
Indices: 68315230--68315262 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
68315220 TTCTCTTTTG
68315230 CCCTT-C
1 CCCTTCC
68315236 CCCTTCC
1 CCCTTCC
68315243 CCCTTCC
1 CCCTTCC
68315250 CCCTTCC
1 CCCTTCC
68315257 CCCTTC
1 CCCTTC
68315263 ATTTTACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (7 bp):
CCCTTCC
Found at i:68318989 original size:32 final size:32
Alignment explanation
Indices: 68318919--68318990 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
68318909 TTTGACCATC
* *
68318919 ATTTTTAATGAAAATGCCGACTAAAACGTTAA
1 ATTTTTAATGAAAATACCAACTAAAACGTTAA
** *
68318951 GCTTTTAATGAAAATACCAACTAAAATGTTAA
1 ATTTTTAATGAAAATACCAACTAAAACGTTAA
68318983 ATTTTTAA
1 ATTTTTAA
68318991 ACATAGCAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (32 bp):
ATTTTTAATGAAAATACCAACTAAAACGTTAA
Found at i:68323587 original size:34 final size:35
Alignment explanation
Indices: 68323544--68323618 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
68323534 CATGAGCTTG
*
68323544 GTTCATCATGCAAAG-CAGATTAGAACTCACCTGA
1 GTTCATCATGCAAAGACAGATTAAAACTCACCTGA
*
68323578 GTTCATCATGCCAAGACAGATTAAAACTCACCTGA
1 GTTCATCATGCAAAGACAGATTAAAACTCACCTGA
*
68323613 GCTCAT
1 GTTCAT
68323619 TCAACAAAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
34 14 0.38
35 23 0.62
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (35 bp):
GTTCATCATGCAAAGACAGATTAAAACTCACCTGA
Found at i:68327797 original size:22 final size:22
Alignment explanation
Indices: 68327767--68327810 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
68327757 TTGATGAACC
68327767 TCAAGTTCAATTCTCCAAGTTCT
1 TCAAGTTCAATTCTCC-AGTTCT
*
68327790 TCAA-TTCAATTCTTCAGTTCT
1 TCAAGTTCAATTCTCCAGTTCT
68327811 GATTCTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 10 0.50
23 4 0.20
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.43
Consensus pattern (22 bp):
TCAAGTTCAATTCTCCAGTTCT
Found at i:68331046 original size:11 final size:11
Alignment explanation
Indices: 68331032--68331057 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
68331022 AAAATAAAAA
68331032 AAAAGTATTTT
1 AAAAGTATTTT
68331043 AAAAGTATTTT
1 AAAAGTATTTT
68331054 AAAA
1 AAAA
68331058 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:68336440 original size:18 final size:22
Alignment explanation
Indices: 68336412--68336455 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 22
68336402 CCAAACATAA
68336412 AAAAAATATCAA-CT-TTTTC-
1 AAAAAATATCAATCTATTTTCT
68336431 AAAAAA-ATCAATCTATTTTCT
1 AAAAAATATCAATCTATTTTCT
68336452 AAAA
1 AAAA
68336456 GTTATTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 5 0.23
21 4 0.18
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAAAATATCAATCTATTTTCT
Found at i:68341374 original size:2 final size:2
Alignment explanation
Indices: 68341367--68341411 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
68341357 ATCATTTTAT
68341367 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
68341409 TA T
1 TA T
68341412 GCATAACACT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:68342740 original size:42 final size:44
Alignment explanation
Indices: 68342674--68342785 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
68342664 TCGTACAATA
* * *
68342674 CCAACGTCCCAGACGTGGTATTACACGT-AATCAT-ATAT-GATG
1 CCAACGTCCCAGACATGGTCTTACACGTAAAT-ATCAAATCGATG
*
68342716 CCAATGTCCCAGACATGGTCTTACACGTAAATATCAAATCGATG
1 CCAACGTCCCAGACATGGTCTTACACGTAAATATCAAATCGATG
*
68342760 CCAACGTCCAAGACATGGTCTTACAC
1 CCAACGTCCCAGACATGGTCTTACAC
68342786 AAAATCACAT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 27 0.44
43 6 0.10
44 28 0.46
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (44 bp):
CCAACGTCCCAGACATGGTCTTACACGTAAATATCAAATCGATG
Found at i:68342910 original size:2 final size:2
Alignment explanation
Indices: 68342905--68342958 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
68342895 TAATACACAC
*
68342905 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
68342947 AT AT AG AT AT AT
1 AT AT AT AT AT AT
68342959 TCAAATTAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68345316 original size:8 final size:8
Alignment explanation
Indices: 68345303--68345333 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
68345293 AATAATCATT
68345303 ATTTTAAA
1 ATTTTAAA
68345311 ATTTTAAA
1 ATTTTAAA
68345319 ATTTTAAA
1 ATTTTAAA
68345327 ATTTTAA
1 ATTTTAA
68345334 GAGTCAAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
ATTTTAAA
Found at i:68364963 original size:2 final size:2
Alignment explanation
Indices: 68364956--68364984 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
68364946 TCTTTTTCTT
68364956 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
68364985 TTGTGATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:68368709 original size:2 final size:2
Alignment explanation
Indices: 68368702--68368746 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
68368692 CAAATGGAAA
68368702 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68368744 AT A
1 AT A
68368747 GTAGTAGTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:68373675 original size:3 final size:3
Alignment explanation
Indices: 68373667--68373704 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
68373657 AATTTAGTCA
68373667 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
68373705 AATAACTGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:68373990 original size:18 final size:17
Alignment explanation
Indices: 68373919--68373991 Score: 91
Period size: 15 Copynumber: 4.4 Consensus size: 17
68373909 TATTAAAACC
68373919 AATATTATTATTATTAT
1 AATATTATTATTATTAT
68373936 --TATTATTATTATTAT
1 AATATTATTATTATTAT
68373951 --TATTATTATTATTATT
1 AATATTATTATTATTA-T
*
68373967 ATTATTATTATTATTAT
1 AATATTATTATTATTAT
68373984 CAATATTA
1 -AATATTA
68373992 CCGTTATTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
15 29 0.57
16 1 0.02
17 1 0.02
18 20 0.39
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (17 bp):
AATATTATTATTATTAT
Found at i:68374002 original size:3 final size:3
Alignment explanation
Indices: 68373921--68373983 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
68373911 TTAAAACCAA
68373921 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
68373969 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
68373984 CAATATTACC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:68377644 original size:17 final size:17
Alignment explanation
Indices: 68377622--68377660 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
68377612 CTAATCTATA
*
68377622 TGCAATAGGGACTAAAT
1 TGCAATAAGGACTAAAT
68377639 TGCAATAAGGACTAAAT
1 TGCAATAAGGACTAAAT
68377656 TGCAA
1 TGCAA
68377661 AAAGTGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.23
Consensus pattern (17 bp):
TGCAATAAGGACTAAAT
Found at i:68378106 original size:50 final size:50
Alignment explanation
Indices: 68378018--68378124 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 50
68378008 TATATAGACC
* *
68378018 ATTGAATTTAGTTAAAGTATGAATGGTATATAAGTATATACATAAATGTT
1 ATTGAATTTAGTTAAAGTATGAAGGGTATATAAGTATATACATAAATGGT
* * * *
68378068 ATTGAATTTAGTTGAAGTAT-AAGGGTTTCATATA-TATATGCATACATGGT
1 ATTGAATTTAGTTAAAGTATGAAGGGTAT-ATA-AGTATATACATAAATGGT
68378118 -TTGAATT
1 ATTGAATT
68378125 CACATATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
49 13 0.27
50 35 0.71
51 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.41
Consensus pattern (50 bp):
ATTGAATTTAGTTAAAGTATGAAGGGTATATAAGTATATACATAAATGGT
Found at i:68379153 original size:49 final size:49
Alignment explanation
Indices: 68379099--68379193 Score: 172
Period size: 49 Copynumber: 1.9 Consensus size: 49
68379089 AATTGTTGGA
68379099 TATATATACATATATGTATGCATTCGGCATATGTGGATTATAAGTAAAG
1 TATATATACATATATGTATGCATTCGGCATATGTGGATTATAAGTAAAG
* *
68379148 TATATATATATATATGTATGCATTTGGCATATGTGGATTATAAGTA
1 TATATATACATATATGTATGCATTCGGCATATGTGGATTATAAGTA
68379194 TATGTATGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (49 bp):
TATATATACATATATGTATGCATTCGGCATATGTGGATTATAAGTAAAG
Found at i:68379413 original size:18 final size:18
Alignment explanation
Indices: 68379390--68379427 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
68379380 TTTATATGAG
68379390 TTAGTTAAACATACATTC
1 TTAGTTAAACATACATTC
68379408 TTAGTTAAACATACATTC
1 TTAGTTAAACATACATTC
68379426 TT
1 TT
68379428 TTAGATATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (18 bp):
TTAGTTAAACATACATTC
Found at i:68380170 original size:44 final size:44
Alignment explanation
Indices: 68380094--68380217 Score: 119
Period size: 45 Copynumber: 2.8 Consensus size: 44
68380084 CAATTTAGTT
* *
68380094 CCATACTATCTTTCAATTATAGTCTTAT-TCA-TTCCAGTAAAATG
1 CCATAGTATCTTTCAA-TATGGTCTT-TCTCATTTCCAGTAAAATG
** *
68380138 CCATAGTATCTTTCAACTATGGTCTTTCTCATTTCGGGTAGAATG
1 CCATAGTATCTTTCAA-TATGGTCTTTCTCATTTCCAGTAAAATG
* *
68380183 CCA-GGATATCTTTCAATCATGGTCTTTCTCGTTTC
1 CCATAG-TATCTTTCAAT-ATGGTCTTTCTCATTTC
68380218 TCAATCCAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
43 1 0.01
44 28 0.41
45 39 0.57
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (44 bp):
CCATAGTATCTTTCAATATGGTCTTTCTCATTTCCAGTAAAATG
Found at i:68384096 original size:34 final size:33
Alignment explanation
Indices: 68384001--68384135 Score: 114
Period size: 34 Copynumber: 4.0 Consensus size: 33
68383991 ATACAACATG
* * * *
68384001 ACATGATTATAATAGATCAATACGATCGCAATA
1 ACATGCTTATAATAGATCAATAAGGTAGCAATA
* * *
68384034 ACATTCTTATAGAAAG-TCGATATA-GTAGCATATA
1 ACATGCTTATA-ATAGATCAATA-AGGTAGCA-ATA
*
68384068 TCATGCTTATAATAGATCAATAAGGTAGCAATTA
1 ACATGCTTATAATAGATCAATAAGGTAGCAA-TA
* *
68384102 ACATGCTTATAATAGATTATTATA-GTAGCAATA
1 ACATGCTTATAATAGATCAATA-AGGTAGCAATA
68384135 A
1 A
68384136 ACTTCCTTAA
Statistics
Matches: 81, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
33 26 0.32
34 54 0.67
35 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (33 bp):
ACATGCTTATAATAGATCAATAAGGTAGCAATA
Found at i:68388010 original size:16 final size:16
Alignment explanation
Indices: 68387989--68388020 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
68387979 TTGATAAGGT
68387989 TCTCATAAAAATAGTG
1 TCTCATAAAAATAGTG
*
68388005 TCTCATCAAAATAGTG
1 TCTCATAAAAATAGTG
68388021 GTTCGTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (16 bp):
TCTCATAAAAATAGTG
Found at i:68391746 original size:18 final size:18
Alignment explanation
Indices: 68391688--68391728 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 18
68391678 ATTTTTTTAT
68391688 TTTTTTATTTTTAAAATA
1 TTTTTTATTTTTAAAATA
68391706 CTTTTTTATTTTTAAAATA
1 -TTTTTTATTTTTAAAATA
68391725 TTTT
1 TTTT
68391729 AAAATACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTATTTTTAAAATA
Found at i:68391757 original size:29 final size:29
Alignment explanation
Indices: 68391680--68391757 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 29
68391670 TATAATAAAT
68391680 TTTTTTATTTTTTT--ATTTTTAAAATAC
1 TTTTTTATTTTTTTAAATTTTTAAAATAC
*
68391707 TTTTTTA-TTTTTAAAATATTTTAAAATAC
1 TTTTTTATTTTTTTAAAT-TTTTAAAATAC
68391736 TTTTTTATTTTTTTAAATTTTT
1 TTTTTTATTTTTTTAAATTTTT
68391758 TTGGTGTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.11
27 7 0.16
28 2 0.04
29 22 0.49
30 9 0.20
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (29 bp):
TTTTTTATTTTTTTAAATTTTTAAAATAC
Found at i:68393070 original size:3 final size:3
Alignment explanation
Indices: 68393062--68393108 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
68393052 TAAACAAAAA
68393062 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
68393109 CTCTTGCTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:68395041 original size:17 final size:17
Alignment explanation
Indices: 68395016--68395060 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
68395006 ATAATAAAAT
68395016 ATATTTTTATTATTTTA
1 ATATTTTTATTATTTTA
* *
68395033 ATTTTTTTATAATTTTA
1 ATATTTTTATTATTTTA
68395050 ATATTTTTATT
1 ATATTTTTATT
68395061 TTTCATCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATATTTTTATTATTTTA
Found at i:68395043 original size:25 final size:25
Alignment explanation
Indices: 68395015--68395063 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
68395005 TATAATAAAA
* *
68395015 TATATTTTTATTATTTTAATTTTTT
1 TATAATTTTAATATTTTAATTTTTT
*
68395040 TATAATTTTAATATTTTTATTTTT
1 TATAATTTTAATATTTTAATTTTT
68395064 CATCTATATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (25 bp):
TATAATTTTAATATTTTAATTTTTT
Found at i:68402002 original size:16 final size:15
Alignment explanation
Indices: 68401967--68402000 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
68401957 CCCAAATCAG
* *
68401967 AAAACAATAACAGAA
1 AAAACAACAAAAGAA
68401982 AAAACAACAAAAGAA
1 AAAACAACAAAAGAA
68401997 AAAA
1 AAAA
68402001 ACCTAGCCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.12, G:0.06, T:0.03
Consensus pattern (15 bp):
AAAACAACAAAAGAA
Found at i:68406295 original size:2 final size:2
Alignment explanation
Indices: 68406288--68406321 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
68406278 ATCAAAATCT
68406288 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
68406322 CTTTTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:68406822 original size:23 final size:23
Alignment explanation
Indices: 68406778--68406825 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
68406768 AATTTATTTT
*
68406778 AATATTATATAAATATAAATATA
1 AATATTATATAAATACAAATATA
*
68406801 AATATT-TATATATACAATATATA
1 AATATTATATAAATACAA-ATATA
68406824 AA
1 AA
68406826 CATAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AATATTATATAAATACAAATATA
Found at i:68407175 original size:28 final size:26
Alignment explanation
Indices: 68407135--68407210 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 26
68407125 ATTTTTATTA
68407135 TATATTTTTTAAATTTTTATAAGAATTT
1 TATA-TTTTTAAATTTTTATAAG-ATTT
*
68407163 TATATTTTCTAAAGTTTTAT--GATTT
1 TATATTTT-TAAATTTTTATAAGATTT
*
68407188 TTTATTTTTAAATACTTTTATAA
1 TATATTTTTAAAT--TTTTATAA
68407211 TTTTTAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
24 4 0.10
25 11 0.28
26 7 0.17
27 4 0.10
28 14 0.35
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.61
Consensus pattern (26 bp):
TATATTTTTAAATTTTTATAAGATTT
Found at i:68408204 original size:8 final size:8
Alignment explanation
Indices: 68408191--68408220 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
68408181 TTAAATGATT
68408191 TTTTTTAA
1 TTTTTTAA
68408199 TTTTTTAA
1 TTTTTTAA
68408207 TTTTTTAA
1 TTTTTTAA
68408215 TTTTTT
1 TTTTTT
68408221 TTTTAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTAA
Found at i:68408242 original size:20 final size:18
Alignment explanation
Indices: 68408218--68408264 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
68408208 TTTTTAATTT
68408218 TTTTTTTAAATTTTAATAA
1 TTTTTTTAAATTTTAA-AA
**
68408237 TGTTTTACAAATTTTAAAA
1 T-TTTTTTAAATTTTAAAA
68408256 TTTTTTTAA
1 TTTTTTTAA
68408265 TTTAGAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 6 0.26
19 4 0.17
20 13 0.57
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTTTTAAATTTTAAAA
Found at i:68410071 original size:3 final size:3
Alignment explanation
Indices: 68410063--68410107 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
68410053 ATTGTTTCTT
68410063 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
68410108 AATACCTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:68411416 original size:20 final size:20
Alignment explanation
Indices: 68411387--68411424 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
68411377 TTATCCATGA
*
68411387 TCTGTTAGATACTAAAATGG
1 TCTGTCAGATACTAAAATGG
68411407 TCTGTCAGATACTAAAAT
1 TCTGTCAGATACTAAAAT
68411425 ACTAAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (20 bp):
TCTGTCAGATACTAAAATGG
Found at i:68416055 original size:17 final size:17
Alignment explanation
Indices: 68416017--68416056 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
68416007 TTGTTAGATC
68416017 TAATAAATTAAAGTGAA
1 TAATAAATTAAAGTGAA
* * *
68416034 CAATAAATTAATGTGGA
1 TAATAAATTAAAGTGAA
68416051 TAATAA
1 TAATAA
68416057 TATTTATATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (17 bp):
TAATAAATTAAAGTGAA
Found at i:68416783 original size:11 final size:11
Alignment explanation
Indices: 68416767--68416816 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
68416757 CTGCCCGAAT
68416767 TATATATTAAA
1 TATATATTAAA
**
68416778 TATATATT-TT
1 TATATATTAAA
* *
68416788 TAT-TTTTAAT
1 TATATATTAAA
68416798 TATATATTAAA
1 TATATATTAAA
68416809 TATATATT
1 TATATATT
68416817 TTTATTTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
9 3 0.10
10 7 0.23
11 21 0.68
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TATATATTAAA
Found at i:68416799 original size:24 final size:25
Alignment explanation
Indices: 68416788--68416845 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
68416778 TATATATTTT
* *
68416788 TATTTTTAATTATATATTAAATATA
1 TATTTTTATTTATATATCAAATATA
*
68416813 TATTTTTATTTTTA-ATCAAATATA
1 TATTTTTATTTATATATCAAATATA
68416837 T-TTTTTATT
1 TATTTTTATT
68416846 AAATATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 8 0.27
24 10 0.33
25 12 0.40
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
TATTTTTATTTATATATCAAATATA
Found at i:68416802 original size:31 final size:31
Alignment explanation
Indices: 68416764--68416828 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
68416754 GCCCTGCCCG
68416764 AATTATATATTAAATATATATTTTTATTTTT
1 AATTATATATTAAATATATATTTTTATTTTT
68416795 AATTATATATTAAATATATATTTTTATTTTT
1 AATTATATATTAAATATATATTTTTATTTTT
68416826 AAT
1 AAT
68416829 CAAATATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (31 bp):
AATTATATATTAAATATATATTTTTATTTTT
Found at i:68416840 original size:16 final size:16
Alignment explanation
Indices: 68416819--68416858 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
68416809 TATATATTTT
68416819 TATTTTTAATCAAATA
1 TATTTTTAATCAAATA
* *
68416835 TATTTTTTATTAAATA
1 TATTTTTAATCAAATA
68416851 TATATTTT
1 TAT-TTTT
68416859 TAGACTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTTTAATCAAATA
Found at i:68416847 original size:20 final size:18
Alignment explanation
Indices: 68416802--68416859 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 18
68416792 TTTAATTATA
*
68416802 TATTAAATATATATTTTTAT
1 TATTAAAAATATA-TTTT-T
*
68416822 TTTTAATCAAATATATTTTT
1 TATTAA--AAATATATTTTT
*
68416842 TATTAAATATATATTTTT
1 TATTAAAAATATATTTTT
68416860 AGACTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 11 0.34
20 11 0.34
21 4 0.12
22 6 0.19
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTAAAAATATATTTTT
Found at i:68416854 original size:42 final size:39
Alignment explanation
Indices: 68416767--68416914 Score: 117
Period size: 31 Copynumber: 4.0 Consensus size: 39
68416757 CTGCCCGAAT
68416767 TATATATT-AA-ATATATATTTTTA-TTTT--T--AAT-
1 TATATATTAAATATATATATTTTTATTTTTAATCAAATA
68416798 TATATATT-AA-ATATATATTTTTATTTTTAATCAAATA
1 TATATATTAAATATATATATTTTTATTTTTAATCAAATA
* * * *
68416835 TATTTTTTATTAAATATATAT-TTTTAGACTTTTAATCCGAAT-
1 TA---TATATTAAATATATATATTTT-TATTTTTAAT-CAAATA
68416877 TATATATTAAATAT-T-TATTTTTATTTTTAATCAAATA
1 TATATATTAAATATATATATTTTTATTTTTAATCAAATA
68416914 T
1 T
68416915 GGGCCGGTCA
Statistics
Matches: 94, Mismatches: 8, Indels: 24
0.75 0.06 0.19
Matches are distributed among these distances:
31 23 0.24
32 4 0.04
34 1 0.01
36 7 0.07
37 12 0.13
38 5 0.05
39 11 0.12
40 5 0.05
41 6 0.06
42 16 0.17
43 4 0.04
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (39 bp):
TATATATTAAATATATATATTTTTATTTTTAATCAAATA
Found at i:68425488 original size:19 final size:19
Alignment explanation
Indices: 68425463--68425594 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
68425453 AATTTTTGAG
68425463 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
68425482 CATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
68425501 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
68425520 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
68425541 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
68425560 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
68425579 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
68425595 ATATATGATT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
19 84 0.82
21 19 0.18
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:68425527 original size:59 final size:56
Alignment explanation
Indices: 68425463--68425601 Score: 208
Period size: 59 Copynumber: 2.4 Consensus size: 56
68425453 AATTTTTGAG
*
68425463 GATATGCAATCTTAGATATCATATGCAATCCTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT-ATATGCAATCCTAGATATGATATACAATCTTAGATAT
* *
68425520 GATATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATATAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT-ATATGCAATCCTAGATATGATATACAATCTTAGATAT
68425579 GATATGCAATCTTAGA-ATATATG
1 GATATGCAATCTTAGATATATATG
68425602 ATTTTGTAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 16 0.21
59 53 0.70
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (56 bp):
GATATGCAATCTTAGATATATATGCAATCCTAGATATGATATACAATCTTAGATAT
Found at i:68427660 original size:23 final size:21
Alignment explanation
Indices: 68427629--68427682 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
68427619 TATTGGCATT
* *
68427629 ATATTATTATTTATTATATTAGA
1 ATATAATTATTTA-AAT-TTAGA
*
68427652 ATATAATTATTTAAATTTGGA
1 ATATAATTATTTAAATTTAGA
68427673 ATATAATTAT
1 ATATAATTAT
68427683 CCTATTGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 14 0.50
22 2 0.07
23 12 0.43
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.52
Consensus pattern (21 bp):
ATATAATTATTTAAATTTAGA
Found at i:68427864 original size:39 final size:38
Alignment explanation
Indices: 68427786--68427864 Score: 88
Period size: 39 Copynumber: 2.0 Consensus size: 38
68427776 ATATTTGATA
* * * *
68427786 ATTTTAAAATGTATTTATGCATACGTTTTTTTCTCATAT
1 ATTTTAAAATATATTTATGCATACG-ATTTTTATAATAT
68427825 ATTTTAAAATATATATATATGCATAC-ATTTTTATAATAT
1 ATTTTAAAATATAT-T-TATGCATACGATTTTTATAATAT
68427864 A
1 A
68427865 CGTACTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
39 24 0.71
40 1 0.03
41 9 0.26
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.51
Consensus pattern (38 bp):
ATTTTAAAATATATTTATGCATACGATTTTTATAATAT
Found at i:68427988 original size:20 final size:19
Alignment explanation
Indices: 68427948--68428001 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
68427938 AATTTATTTG
68427948 TATATA-TATATACATACT
1 TATATATTATATACATACT
* *
68427966 TATATATTATTTATATACT
1 TATATATTATATACATACT
68427985 T-TATATATATATACATA
1 TATATAT-TATATACATA
68428002 TATGTGTACA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATATTATATACATACT
Found at i:68428624 original size:110 final size:109
Alignment explanation
Indices: 68428403--68428607 Score: 288
Period size: 110 Copynumber: 1.9 Consensus size: 109
68428393 AAAGAAAATG
68428403 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTAGGTGT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTAGGTGT
** *
68428468 CGATTTTTCTCGTTCAACCAAATGGCTTAATATCTTTCTTAAAAA
66 CGA-TTTTCTCGTTCAACCAAATGGCCAAATATCTTTATTAAAAA
** * * * *
68428513 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GGACGTGCCCTAAGGTGTTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTAGGTGT
* *
68428577 CGA-TTTCTCGTTTAACCAAATTGCCAAATAT
66 CGATTTTCTCGTTCAACCAAATGGCCAAATAT
68428608 TCTATTGAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
107 24 0.28
109 22 0.26
110 39 0.46
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTAGGTGT
CGATTTTCTCGTTCAACCAAATGGCCAAATATCTTTATTAAAAA
Found at i:68434607 original size:23 final size:25
Alignment explanation
Indices: 68434575--68434631 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
68434565 TACATCTTTG
*
68434575 CATTCATTTTGAACCAA-TATATTTT
1 CATTC-TTTTGAAACAATTATATTTT
* *
68434600 -ATTCTTTTTAAATAATTATATTTT
1 CATTCTTTTGAAACAATTATATTTT
68434624 CATTCTTT
1 CATTCTTT
68434632 CAGATCTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 8 0.30
24 12 0.44
25 7 0.26
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (25 bp):
CATTCTTTTGAAACAATTATATTTT
Found at i:68435356 original size:8 final size:8
Alignment explanation
Indices: 68435343--68435391 Score: 73
Period size: 8 Copynumber: 6.1 Consensus size: 8
68435333 AGTTCAGATT
68435343 AAAACAAA
1 AAAACAAA
68435351 AAAACAAA
1 AAAACAAA
68435359 AAAACAAA
1 AAAACAAA
68435367 AAAACAAA
1 AAAACAAA
68435375 AACAA-AAA
1 AA-AACAAA
*
68435383 AAAATAAA
1 AAAACAAA
68435391 A
1 A
68435392 GTGAAAGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 2 0.05
8 35 0.90
9 2 0.05
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.02
Consensus pattern (8 bp):
AAAACAAA
Found at i:68436881 original size:132 final size:132
Alignment explanation
Indices: 68436643--68437056 Score: 645
Period size: 132 Copynumber: 3.1 Consensus size: 132
68436633 CTGCATTGAC
*
68436643 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
68436708 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAATGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
68436773 GT
131 GT
* *
68436775 GGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCATATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
68436840 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATATTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
68436905 GT
131 GT
68436907 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG-C-C
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*** * * * * * *
68436970 CAATAATTCTACTTCCCTGGGCAACAGTGGA-ATAGATTGAAGATTTTAGATCTTATCTCCCTAA
66 CAAGCCTTGT-C-TCCCTGAGCAGCAGCGGAGA-AGGTTGAAGATTGTAGATCTTATCTCCCTAA
68437034 GCAGT
128 GCAGT
*
68437039 AGTGGAGCAGATTGAAGA
1 AGTGGAGCAGATCGAAGA
68437057 TTGCGGATTT
Statistics
Matches: 261, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
130 7 0.03
131 3 0.01
132 251 0.96
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:68436938 original size:44 final size:44
Alignment explanation
Indices: 68436754--68436939 Score: 110
Period size: 44 Copynumber: 4.2 Consensus size: 44
68436744 GAAGATTGTA
*
68436754 GATCTTATCTCCCTAAGCAGTGGTGGAGCAGATCGAAGACGGCG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
* * ** ** *
68436798 GATCTTATCTTTCC-AAG-A-TAGTGGGAAGCATATTTAAG-CCACC
1 GATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCG
* * * * * * * * * ** **
68436841 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTA
1 GA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
*
68436886 GATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
68436930 GATCTTATCT
1 GATCTTATCT
68436940 TTCCAAGATA
Statistics
Matches: 95, Mismatches: 39, Indels: 16
0.63 0.26 0.11
Matches are distributed among these distances:
42 3 0.03
43 9 0.09
44 74 0.78
45 7 0.07
46 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (44 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
Found at i:68437031 original size:44 final size:44
Alignment explanation
Indices: 68436983--68437320 Score: 118
Period size: 44 Copynumber: 7.7 Consensus size: 44
68436973 TAATTCTACT
* **
68436983 TCCCTGGGCAACAGTGGAATAGATTGAAGATTTTAGATCTTATC
1 TCCCTAGGCAACAGTGGAATAGATTGAAGATTGCAGATCTTATC
* ** ** * * *
68437027 TCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCGGATTTTACC
1 TCCCTAGGCAACAGTGGAATAGATTGAAGATTGCAGATCTTATC
* ** * * * * *
68437071 TCCCTGTGGTTACAGTGGAGTACATTGAAGCTAGTA-AT-TCTA-C
1 TCCCT-AGGCAACAGTGGAATAGATTGAAGATTGCAGATCT-TATC
* * *
68437114 TTCCCTAGGCAATAGTGGAATAGATTGAAGATTTCAGGTCTTATC
1 -TCCCTAGGCAACAGTGGAATAGATTGAAGATTGCAGATCTTATC
* ** * * * * ** * *
68437159 TCCCTAAGCAGTAGTGGAGTAGATCGAATATGGTGGATTTTACC
1 TCCCTAGGCAACAGTGGAATAGATTGAAGATTGCAGATCTTATC
* ** * * * *
68437203 TCCCTGTGGTTACAGTGGAGTACATTGAAG--T-CAGTAATCCTATA
1 TCCCT-AGGCAACAGTGGAATAGATTGAAGATTGCAG--ATCTTATC
* * * *
68437247 TCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTA-AGTCTTATC
1 TCCCTAGGCAACAGTGGAATAGATTGAAGATTGCAGA-TCTTATC
*
68437291 TCCCT--GCAGTTGCAGTGGAATAGATTGAAG
1 TCCCTAGGCA---ACAGTGGAATAGATTGAAG
68437321 CACTAGCTCC
Statistics
Matches: 203, Mismatches: 75, Indels: 31
0.66 0.24 0.10
Matches are distributed among these distances:
42 3 0.01
43 39 0.19
44 106 0.52
45 54 0.27
46 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (44 bp):
TCCCTAGGCAACAGTGGAATAGATTGAAGATTGCAGATCTTATC
Found at i:68437109 original size:132 final size:132
Alignment explanation
Indices: 68436874--68437295 Score: 480
Period size: 132 Copynumber: 3.2 Consensus size: 132
68436864 GCGGAGAAGG
* * * *
68436874 TTGAAGATTGTAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGGATCTTATC
1 TTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTA-C
* * ** * * * * * * *
68436939 TTTCC--AAG--ATAGTGGGAAGCAGATTTAAGCCCAATAATTCTACTTCCCTGGGCAACAGTGG
65 CTCCCTGTGGTTACAGT-GG-AGTACATTGAAG-TCAGTAATTCTACTTCCCTAGGCAACAGTGG
68437000 AATAGA
127 AATAGA
* *
68437006 TTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCGGATTTTACC
1 TTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
*
68437071 TCCCTGTGGTTACAGTGGAGTACATTGAAG-CTAGTAATTCTACTTCCCTAGGCAATAGTGGAAT
66 TCCCTGTGGTTACAGTGGAGTACATTGAAGTC-AGTAATTCTACTTCCCTAGGCAACAGTGGAAT
68437135 AGA
130 AGA
* * * * *
68437138 TTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAATATGGTGGATTTTACC
1 TTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
* * *
68437203 TCCCTGTGGTTACAGTGGAGTACATTGAAGTCAGTAATCCTA-TATCCCTAGTCAGCAGTGGAAT
66 TCCCTGTGGTTACAGTGGAGTACATTGAAGTCAGTAATTCTACT-TCCCTAGGCAACAGTGGAAT
*
68437267 AGG
130 AGA
*
68437270 TTGAAGATTGTA-AGTCTTATCTCCCT
1 TTGAAGATTTTAGA-TCTTATCTCCCT
68437296 GCAGTTGCAG
Statistics
Matches: 250, Mismatches: 32, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
131 6 0.02
132 227 0.91
133 11 0.04
134 2 0.01
135 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (132 bp):
TTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
TCCCTGTGGTTACAGTGGAGTACATTGAAGTCAGTAATTCTACTTCCCTAGGCAACAGTGGAATA
GA
Found at i:68437144 original size:264 final size:264
Alignment explanation
Indices: 68436643--68437186 Score: 588
Period size: 264 Copynumber: 2.1 Consensus size: 264
68436633 CTGCATTGAC
68436643 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
** * *
68436708 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAATGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGAATTCTCTCCCTGAGCAACAGCGGAGAATGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
* * * * * *
68436773 GTGGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCATATTTAAGCC
131 GTAGTGGAGCAGATCGAAGACGGCGGATCTTATCCTCCCAAGACAGTGGGAAGCACATTGAAGCC
** * *
68436838 ACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGT-AGATATTATCTCCCTAA
196 ACCAAGCCTACTCTCCCTGAGCAACAGCGGAGAAGATTGAAGATT-TCAGATATTATCTCCCTAA
68436902 GCAGT
260 GCAGT
*
68436907 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG-C-C
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
68436970 CAATAATTCTACTTCCCTGGGCAACAG-TG-GAATAGATTGAAGATTTTAGATCTTATCTCCCTA
66 CAAGAATTCT-C-TCCCTGAGCAACAGCGGAGAAT-G-TTGAAGATTGTAGATCTTATCTCCCTA
* ** * ** *
68437033 AGCAGTAGTGGAGCAGATTGAAGATTGCGGATTTTA-CCTCCCTGTGGTTACAGT-GG-AGTACA
127 AGCAGTAGTGGAGCAGATCGAAGACGGCGGATCTTATCCTCCC--AAG--ACAGTGGGAAGCACA
* ** ** * * * *
68437095 TTGAAGCTAGTAATTCTACT-TCCCT-AGGCAATAGTGGA-ATAGATTGAAGATTTCAGGTCTTA
188 TTGAAGCCACCAAGCCTACTCTCCCTGA-GCAACAGCGGAGA-AGATTGAAGATTTCAGATATTA
68437157 TCTCCCTAAGCAGT
251 TCTCCCTAAGCAGT
*
68437171 AGTGGAGTAGATCGAA
1 AGTGGAGCAGATCGAA
68437187 TATGGTGGAT
Statistics
Matches: 233, Mismatches: 36, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
262 11 0.05
263 11 0.05
264 188 0.81
265 17 0.07
266 2 0.01
267 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (264 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGAATTCTCTCCCTGAGCAACAGCGGAGAATGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGACGGCGGATCTTATCCTCCCAAGACAGTGGGAAGCACATTGAAGCC
ACCAAGCCTACTCTCCCTGAGCAACAGCGGAGAAGATTGAAGATTTCAGATATTATCTCCCTAAG
CAGT
Found at i:68437548 original size:19 final size:19
Alignment explanation
Indices: 68437524--68437655 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
68437514 AATTTTTGAG
68437524 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
68437543 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
68437562 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
68437581 GATATACGCAATCTTAGATAT
1 GATAT--GCAATCTTAGATAT
*
68437602 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
**
68437621 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
68437640 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
68437656 ATATATGATT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
19 84 0.82
21 19 0.18
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:68437592 original size:59 final size:57
Alignment explanation
Indices: 68437524--68437662 Score: 210
Period size: 59 Copynumber: 2.4 Consensus size: 57
68437514 AATTTTTGAG
* *
68437524 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAAATATGATATACAATCTTAGATAT
* *
68437581 GATATACGCAATCTTAGATATGATATGCAATCTTAAATATGATATATAATCTTAGATAT
1 GATAT--GCAATCTTAGATATGATATGCAATCCTAAATATGATATACAATCTTAGATAT
68437640 GATATGCAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
68437663 ATTTTGTAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 16 0.21
59 53 0.70
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (57 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAAATATGATATACAATCTTAGATAT
Found at i:68439313 original size:98 final size:98
Alignment explanation
Indices: 68439185--68439379 Score: 363
Period size: 98 Copynumber: 2.0 Consensus size: 98
68439175 AAAAATCATG
*
68439185 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
68439250 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
*
68439283 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
68439348 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
68439380 TTTATTGTAT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:68452526 original size:13 final size:13
Alignment explanation
Indices: 68452508--68452533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68452498 TTTATTTTTA
68452508 ATTAAATATATAT
1 ATTAAATATATAT
68452521 ATTAAATATATAT
1 ATTAAATATATAT
68452534 TTTTTGTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTAAATATATAT
Found at i:68452908 original size:22 final size:22
Alignment explanation
Indices: 68452880--68452931 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
68452870 GCTCAAGATT
68452880 TTCCTTTAGGCGAAGACCTATC
1 TTCCTTTAGGCGAAGACCTATC
68452902 TTCCTTTAGGCGAAGACCTATC
1 TTCCTTTAGGCGAAGACCTATC
68452924 TTCCTTTA
1 TTCCTTTA
68452932 CAAAACATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (22 bp):
TTCCTTTAGGCGAAGACCTATC
Found at i:68462436 original size:53 final size:53
Alignment explanation
Indices: 68462356--68462465 Score: 220
Period size: 53 Copynumber: 2.1 Consensus size: 53
68462346 AAGTTCAGAC
68462356 AATCCCAATTCCATAGCCATTAATCCTAACTCTTGTAAGATCGCAGAAGCTTT
1 AATCCCAATTCCATAGCCATTAATCCTAACTCTTGTAAGATCGCAGAAGCTTT
68462409 AATCCCAATTCCATAGCCATTAATCCTAACTCTTGTAAGATCGCAGAAGCTTT
1 AATCCCAATTCCATAGCCATTAATCCTAACTCTTGTAAGATCGCAGAAGCTTT
68462462 AATC
1 AATC
68462466 TAAGCAAAAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (53 bp):
AATCCCAATTCCATAGCCATTAATCCTAACTCTTGTAAGATCGCAGAAGCTTT
Found at i:68463052 original size:16 final size:16
Alignment explanation
Indices: 68463031--68463061 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68463021 GTTTAGTTCG
68463031 CTGTAATAGAATAGAA
1 CTGTAATAGAATAGAA
*
68463047 CTGTAATGGAATAGA
1 CTGTAATAGAATAGA
68463062 GGCGTAATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (16 bp):
CTGTAATAGAATAGAA
Found at i:68463284 original size:26 final size:26
Alignment explanation
Indices: 68463237--68463290 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
68463227 TGTTATTAAA
* *
68463237 TTTTAATAAAATTATTATTAAATATAT
1 TTTTAATAAAATTAATAATAAATA-AT
*
68463264 TTTTATTAAAA-TAATAATAAATAAT
1 TTTTAATAAAATTAATAATAAATAAT
68463289 TT
1 TT
68463291 AATCATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.17
26 10 0.42
27 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTTAATAAAATTAATAATAAATAAT
Found at i:68463301 original size:61 final size:57
Alignment explanation
Indices: 68463236--68463373 Score: 168
Period size: 61 Copynumber: 2.3 Consensus size: 57
68463226 TTGTTATTAA
* * * * * *
68463236 ATTTTAATAAAATTATTATTAAATATATTTTTATTAAAATAATAATAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAATATA-ATTTAATAAAATAAT-AT--ACAATTTAATAAC
*
68463297 ATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATACAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAATAATATACAATTTAATAAC
68463354 ATTCTTAATATAATTATTAT
1 ATT-TTAATATAATTATTAT
68463374 ATGAATTAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 13 0.19
58 15 0.22
59 2 0.03
60 13 0.19
61 25 0.37
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (57 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAATAATATACAATTTAATAAC
Found at i:68479601 original size:19 final size:19
Alignment explanation
Indices: 68479564--68479620 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 19
68479554 CTTAAATTTT
**
68479564 AAAAAAT-TAAAATTCTAA
1 AAAAAATATAAAATAATAA
* * *
68479582 AGAATATATAAAATATTAA
1 AAAAAATATAAAATAATAA
*
68479601 AAAAAATCTAAAATAATAA
1 AAAAAATATAAAATAATAA
68479620 A
1 A
68479621 TCTAGGGACT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
18 5 0.17
19 25 0.83
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAAATATAAAATAATAA
Found at i:68479727 original size:16 final size:16
Alignment explanation
Indices: 68479706--68479738 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
68479696 TTTGAAAGAG
68479706 TTTCAAATATATATGC
1 TTTCAAATATATATGC
*
68479722 TTTCAAATTTATATGC
1 TTTCAAATATATATGC
68479738 T
1 T
68479739 CTAAAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGC
Found at i:68480553 original size:19 final size:21
Alignment explanation
Indices: 68480511--68480553 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
68480501 TTCAGACCTT
* *
68480511 ATATAAAAAATTAAAAGACTA
1 ATATAAAAAATTAAAACACGA
68480532 ATAT-AAAAATT-AAACACGA
1 ATATAAAAAATTAAAACACGA
68480551 ATA
1 ATA
68480554 ATAGAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 7 0.35
21 4 0.20
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (21 bp):
ATATAAAAAATTAAAACACGA
Found at i:68482960 original size:105 final size:104
Alignment explanation
Indices: 68482829--68483038 Score: 411
Period size: 105 Copynumber: 2.0 Consensus size: 104
68482819 ACATGCTTCC
68482829 AATATATGCATGGGATGCTATGATAATTTTATAATATTCACATTCTTTCACAAGAATGAATCAAT
1 AATATATGCATGGGATGCTATGATAATTTTATAATATTCACATTCTTTCACAAGAATGAATCAAT
68482894 CATAAAAAAACAATTTGGATTCTCCAGAGTTTTTCTTTTA
66 CA-AAAAAAACAATTTGGATTCTCCAGAGTTTTTCTTTTA
68482934 AATATATGCATGGGATGCTATGATAATTTTATAATATTCACATTCTTTCACAAGAATGAATCAAT
1 AATATATGCATGGGATGCTATGATAATTTTATAATATTCACATTCTTTCACAAGAATGAATCAAT
68482999 CAAAAAAAACAATTTGGATTCTCCAGAGTTTTTCTTTTA
66 CAAAAAAAACAATTTGGATTCTCCAGAGTTTTTCTTTTA
68483038 A
1 A
68483039 GAAAAAAACT
Statistics
Matches: 105, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
104 38 0.36
105 67 0.64
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (104 bp):
AATATATGCATGGGATGCTATGATAATTTTATAATATTCACATTCTTTCACAAGAATGAATCAAT
CAAAAAAAACAATTTGGATTCTCCAGAGTTTTTCTTTTA
Found at i:68485045 original size:2 final size:2
Alignment explanation
Indices: 68485038--68485063 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
68485028 ATTTTCTTTT
68485038 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
68485064 CTTTATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:68485195 original size:30 final size:30
Alignment explanation
Indices: 68485123--68485182 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
68485113 AGATGCACAC
* *
68485123 ATATTTTACAA-TTT-ATATATACATATAT
1 ATATTTCACAATTTTAAAATATACATATAT
68485151 ATATTTCACAATTTTAAAATATACATATAT
1 ATATTTCACAATTTTAAAATATACATATAT
68485181 AT
1 AT
68485183 CTCTTTACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 10 0.36
29 3 0.11
30 15 0.54
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (30 bp):
ATATTTCACAATTTTAAAATATACATATAT
Found at i:68492907 original size:22 final size:20
Alignment explanation
Indices: 68492867--68492906 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
68492857 CCTGCATACG
68492867 TTTTTATAATATACATATAT
1 TTTTTATAATATACATATAT
* *
68492887 TTTTTATAATTTATATATAT
1 TTTTTATAATATACATATAT
68492907 ACATACTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTATAATATACATATAT
Found at i:68495197 original size:18 final size:18
Alignment explanation
Indices: 68495174--68495212 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
68495164 TACTTAACTT
* *
68495174 GAAAAAAAGGAACGAAAA
1 GAAAAAAAGAAAAGAAAA
68495192 GAAAAAAAGAAAAGAAAA
1 GAAAAAAAGAAAAGAAAA
68495210 GAA
1 GAA
68495213 GAACGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.77, C:0.03, G:0.21, T:0.00
Consensus pattern (18 bp):
GAAAAAAAGAAAAGAAAA
Found at i:68495203 original size:13 final size:13
Alignment explanation
Indices: 68495187--68495229 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
68495177 AAAAAGGAAC
68495187 GAAAAGAAAAAAA
1 GAAAAGAAAAAAA
*
68495200 GAAAAGAAAAGAA
1 GAAAAGAAAAAAA
* *
68495213 G-AACGAAAAAAG
1 GAAAAGAAAAAAA
68495225 GAAAA
1 GAAAA
68495230 TGAGAGGCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (13 bp):
GAAAAGAAAAAAA
Found at i:68496322 original size:88 final size:89
Alignment explanation
Indices: 68496135--68496360 Score: 294
Period size: 88 Copynumber: 2.6 Consensus size: 89
68496125 CATCATATAA
* * * *
68496135 AGCCTGACCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGACAACAGATCTTGTCTTTCTATATCG
1 AGCCTGACCTCCCTGAGTTTGCAGCGAAGCAGACTGAAGATAGCAGATCTTGTCTTTCTATATAG
* *
68496200 ACAGCAAAGTAGATTGAAGACACC
66 ACAGCAAAGCAGATCGAAGACACC
* * * *
68496224 AGCCTGACCTCCCTGAGTTTGCAGTGAAGCAAACTGAAGATAGCATAT-TTGTCTTTCTGTATTA
1 AGCCTGACCTCCCTGAGTTTGCAGCGAAGCAGACTGAAGATAGCAGATCTTGTCTTTCTATA-TA
* *
68496288 G-CAGCAAAGCAGGTCGAAGACACT
65 GACAGCAAAGCAGATCGAAGACACC
* * *
68496312 AGCCTAACCTCCCTGAGTTTACAGCGAAACAGACTGAAGATAGCAGATC
1 AGCCTGACCTCCCTGAGTTTGCAGCGAAGCAGACTGAAGATAGCAGATC
68496361 GAAGACACCA
Statistics
Matches: 117, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
88 73 0.62
89 44 0.38
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (89 bp):
AGCCTGACCTCCCTGAGTTTGCAGCGAAGCAGACTGAAGATAGCAGATCTTGTCTTTCTATATAG
ACAGCAAAGCAGATCGAAGACACC
Found at i:68496395 original size:58 final size:58
Alignment explanation
Indices: 68496295--68496418 Score: 149
Period size: 58 Copynumber: 2.1 Consensus size: 58
68496285 TTAGCAGCAA
* *
68496295 AGCAGGTCGAAGACACTAGCCTAACCTCCCTGAGTTTACAGCGAAACAGACTGAAGAT
1 AGCAGATCGAAGACACCAGCCTAACCTCCCTGAGTTTACAGCGAAACAGACTGAAGAT
* * * * * * **
68496353 AGCAGATCGAAGACACCAGCTTGACCTCCTTGTGTTTGCAGCGGAGTAGACTGAAGAT
1 AGCAGATCGAAGACACCAGCCTAACCTCCCTGAGTTTACAGCGAAACAGACTGAAGAT
*
68496411 AGAAGATC
1 AGCAGATC
68496419 TTATCTTCTT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.19
Consensus pattern (58 bp):
AGCAGATCGAAGACACCAGCCTAACCTCCCTGAGTTTACAGCGAAACAGACTGAAGAT
Found at i:68496501 original size:147 final size:146
Alignment explanation
Indices: 68496210--68496507 Score: 332
Period size: 147 Copynumber: 2.0 Consensus size: 146
68496200 ACAGCAAAGT
* * * * *
68496210 AGATTGAAGACACCAGCCTGACCTCCCTGAGTTTGCAGTGAAGCAAACTGAAGATAGCATATTTG
1 AGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGCAGCGAAGCAAACTGAAGATAGAAGATTTA
*
68496275 TCTTTCTGTATTAGCAGCAAAGCAGGTCGAAGACACTAGCCTAACCTCCCTGAGTTTACAGCGAA
66 TCTTTCTGTATTAGCAGCAAAGCAGATCGAAGACACTAGCCTAACCTCCCTGAGTTTACAGCGAA
*
68496340 ACAGACTGAAGATAGC
131 ACAGACTAAAGATAGC
* * * * * *
68496356 AGATCGAAGACACCAGCTTGACCTCCTTGTGTTTGCAGCGGAGTAGACTGAAGATAGAAGATCTT
1 AGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGCAGCGAAGCAAACTGAAGATAGAAGAT-TT
* * * * ** *
68496421 ATC-TTCTTGTATTGGCAGCGAAA-TAGATCGAAGACA-TCAGCTTGACCTCTTTGAGTTTGCAG
65 ATCTTTC-TGTATTAGCAGC-AAAGCAGATCGAAGACACT-AGCCTAACCTCCCTGAGTTTACAG
* * *
68496483 TGAAGCATACTAAAGATAGC
127 CGAAACAGACTAAAGATAGC
68496503 AGATC
1 AGATC
68496508 TTGTCTTCCT
Statistics
Matches: 125, Mismatches: 23, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
146 56 0.45
147 66 0.53
148 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (146 bp):
AGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGCAGCGAAGCAAACTGAAGATAGAAGATTTA
TCTTTCTGTATTAGCAGCAAAGCAGATCGAAGACACTAGCCTAACCTCCCTGAGTTTACAGCGAA
ACAGACTAAAGATAGC
Found at i:68496507 original size:89 final size:90
Alignment explanation
Indices: 68496353--68496729 Score: 510
Period size: 89 Copynumber: 4.2 Consensus size: 90
68496343 GACTGAAGAT
* * * * * *
68496353 AGCAGATCGAAGACACCAGCTTGACCTCCTTGTGTTTGCAGCG-GAGTAGACTGAAGATAGAAGA
1 AGCAGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGCAGTGAGAGCAGACTGAAGATAGCAGA
* *
68496417 TCTTATCTTCTTGTATTGGCAGCGA
66 TCTTGTCTTCCTGTATTGGCAGCGA
** * * ** * *
68496442 AATAGATCGAAGACATCAGCTTGACCTCTTTGAGTTTGCAGTGA-AGCATACTAAAGATAGCAGA
1 AGCAGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGCAGTGAGAGCAGACTGAAGATAGCAGA
68496506 TCTTGTCTTCCTGTATTGGCAGCGA
66 TCTTGTCTTCCTGTATTGGCAGCGA
** *
68496531 AGCAGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGCA-ACAGAGCAGACTGAAGATAACAGA
1 AGCAGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGCAGTGAGAGCAGACTGAAGATAGCAGA
* *
68496595 TCTTGCCTTCCTGTATTGGTAGCGA
66 TCTTGTCTTCCTGTATTGGCAGCGA
68496620 AGCAGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGCAGT-AGAGCAGACTGAAGATAGCAGA
1 AGCAGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGCAGTGAGAGCAGACTGAAGATAGCAGA
** *
68496684 TCTTGTCTTCCTGTACCGGTAGCGA
66 TCTTGTCTTCCTGTATTGGCAGCGA
68496709 AGCAGATCGAAGACACCAGCC
1 AGCAGATCGAAGACACCAGCC
68496730 AGCTACAACG
Statistics
Matches: 255, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
88 1 0.00
89 254 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (90 bp):
AGCAGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGCAGTGAGAGCAGACTGAAGATAGCAGA
TCTTGTCTTCCTGTATTGGCAGCGA
Done.