Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 67 of 163
Found at i:22153082 original size:45 final size:45
Alignment explanation
Indices: 22153016--22153118 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
22153006 GTAACGGTAG
* ** *
22153016 CAGTAACAATAATAGTAACAGTATTCAACACACAAAGTG-CTGAAT
1 CAGTAACAGTAACGGTAACAGTATCCAACACACAAAGTGTC-GAAT
* *
22153061 CTGTAACAGTAACGGTAACAGTATCCGACACACAAAGTGTCGAAT
1 CAGTAACAGTAACGGTAACAGTATCCAACACACAAAGTGTCGAAT
22153106 CAGTAACAGTAAC
1 CAGTAACAGTAAC
22153119 AGTAGTCGGC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 49 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (45 bp):
CAGTAACAGTAACGGTAACAGTATCCAACACACAAAGTGTCGAAT
Found at i:22153368 original size:40 final size:40
Alignment explanation
Indices: 22153322--22153408 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
22153312 AATTCATTAC
* *
22153322 TTCAGTAA-TTGCACAGTTCAATGCAGTACACATAACAAGA
1 TTCAGTAACTT-CACAATTCAATGCAGTACACAAAACAAGA
* * * *
22153362 TTCAGTAACTTCACAATTCAATTCAGTACTCAAAATAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAAGA
22153402 TTCAGTA
1 TTCAGTA
22153409 TTCCATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 38 0.95
41 2 0.05
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAAGA
Found at i:22154375 original size:30 final size:29
Alignment explanation
Indices: 22154341--22154397 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
22154331 TTATCAAATA
22154341 AATAAA-ATCTTTTAATATAATAATTTAATC
1 AATAAATATCTTTTAAT-TAA-AATTTAATC
* *
22154371 AATAAATTTCTTTTACTTAAAATTTAA
1 AATAAATATCTTTTAATTAAAATTTAA
22154398 GAAAATATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.29
30 9 0.38
31 8 0.33
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (29 bp):
AATAAATATCTTTTAATTAAAATTTAATC
Found at i:22154518 original size:17 final size:16
Alignment explanation
Indices: 22154489--22154532 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
22154479 GGATTTATTA
22154489 ATAATATAATATCATT
1 ATAATATAATATCATT
*
22154505 ATAATTTAATTATCATT
1 ATAATATAA-TATCATT
*
22154522 AATTATATAAT
1 -ATAATATAAT
22154533 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.35
17 8 0.35
18 7 0.30
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATATAATATCATT
Found at i:22170264 original size:25 final size:23
Alignment explanation
Indices: 22170220--22170280 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
22170210 ATTTTGATTT
*
22170220 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
22170244 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
22170268 ATATAAATTATAT
1 AT-TTAATTATAT
22170281 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:22170283 original size:35 final size:35
Alignment explanation
Indices: 22170228--22170307 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
22170218 TTATTTAATA
* *
22170228 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
*
22170262 CATATAATATAAATTAT-ATTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
22170297 ATATAAT-TAAA
1 ATATAATATAAA
22170308 ACAAATAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 25 0.61
36 5 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:22173680 original size:24 final size:24
Alignment explanation
Indices: 22173648--22173695 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
22173638 AAGGTTATTG
22173648 TTTTTTTTTTTT-TGCTTACTTTT
1 TTTTTTTTTTTTCTGCTTACTTTT
22173671 TTTTTTTTTTTTCTGCTTACTTTT
1 TTTTTTTTTTTTCTGCTTACTTTT
22173695 T
1 T
22173696 CTTGTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.81
Consensus pattern (24 bp):
TTTTTTTTTTTTCTGCTTACTTTT
Found at i:22173703 original size:24 final size:24
Alignment explanation
Indices: 22173652--22173703 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
22173642 TTATTGTTTT
* * *
22173652 TTTTTTTTTGCTTACTTTTTTTTT
1 TTTTTTTCTGCTTACTTTTTCTTG
22173676 TTTTTTTCTGCTTACTTTTTCTTG
1 TTTTTTTCTGCTTACTTTTTCTTG
22173700 TTTT
1 TTTT
22173704 ATTTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.04, C:0.12, G:0.06, T:0.79
Consensus pattern (24 bp):
TTTTTTTCTGCTTACTTTTTCTTG
Found at i:22175262 original size:13 final size:13
Alignment explanation
Indices: 22175244--22175268 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22175234 GATTATTTCA
22175244 TAAAAATTAAATT
1 TAAAAATTAAATT
22175257 TAAAAATTAAAT
1 TAAAAATTAAAT
22175269 AAAGAGGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAAATTAAATT
Found at i:22178143 original size:18 final size:17
Alignment explanation
Indices: 22178120--22178158 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
22178110 ATATTTCATG
*
22178120 TTATTTTTTATAATTCTT
1 TTATTTTCTATAATT-TT
*
22178138 TTATTTTCTATCATTTT
1 TTATTTTCTATAATTTT
22178155 TTAT
1 TTAT
22178159 CATGAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTTCTATAATTTT
Found at i:22183834 original size:1 final size:1
Alignment explanation
Indices: 22183828--22183900 Score: 65
Period size: 1 Copynumber: 73.0 Consensus size: 1
22183818 CCGTGGAGGC
* * * * * * * *
22183828 AAAAAAAATAAAAAAACAAAAAAAAGAAAACAAGAAAATAAAAAAATAAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
22183893 TAAAAAAA
1 AAAAAAAA
22183901 CCTCTACCGG
Statistics
Matches: 54, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.88, C:0.04, G:0.03, T:0.05
Consensus pattern (1 bp):
A
Found at i:22183878 original size:27 final size:27
Alignment explanation
Indices: 22183829--22183900 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
22183819 CGTGGAGGCA
22183829 AAAAAAATAAAAAAACAAAAAAAAGAAAAC
1 AAAAAAAT-AAAAAA-AAAAAAAA-AAAAC
* *
22183859 AAGAAAATAAAAAAATAAAAAAAAAAC
1 AAAAAAATAAAAAAAAAAAAAAAAAAC
22183886 AAAAAAATAAAAAAA
1 AAAAAAATAAAAAAA
22183901 CCTCTACCGG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 19 0.49
28 7 0.18
29 6 0.15
30 7 0.18
ACGTcount: A:0.88, C:0.04, G:0.03, T:0.06
Consensus pattern (27 bp):
AAAAAAATAAAAAAAAAAAAAAAAAAC
Found at i:22184353 original size:16 final size:17
Alignment explanation
Indices: 22184331--22184380 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
22184321 ATACTTCACT
*
22184331 TGAAAAAGAAACGAAAA
1 TGAAAAAGAAAAGAAAA
*
22184348 -GAAAAA-AAAATAAAA
1 TGAAAAAGAAAAGAAAA
22184363 TGAAAAAGAAAAAGAAAA
1 TGAAAAAG-AAAAGAAAA
22184381 AGGAGAGGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 7 0.26
16 12 0.44
18 8 0.30
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (17 bp):
TGAAAAAGAAAAGAAAA
Found at i:22185404 original size:90 final size:91
Alignment explanation
Indices: 22185292--22185562 Score: 440
Period size: 90 Copynumber: 3.0 Consensus size: 91
22185282 TGAAGTCATC
*
22185292 ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAAG-TAGCAGATCTTGTCTTCC
1 ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAAGATAACAGATCTTGTCTTCC
22185356 TGTATTGACAGCGAAGTAGATCGAAG
66 TGTATTGACAGCGAAGTAGATCGAAG
* *
22185382 ATAGCAAGTCTTGTCTTCCTGTATTGGTAGTGAAGTAGACT-AAAGATAACAGATCTTGTCTTCC
1 ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAAGATAACAGATCTTGTCTTCC
* *
22185446 TATATTGGCAGCGAAGTAGATCGAAG
66 TGTATTGACAGCGAAGTAGATCGAAG
*
22185472 ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTG-AAGATAACAGATCTTGCCTTCC
1 ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAAGATAACAGATCTTGTCTTCC
** *
22185536 TGTATTGATGGCGAAGCAGATCGAAG
66 TGTATTGACAGCGAAGTAGATCGAAG
22185562 A
1 A
22185563 CACCATAGTT
Statistics
Matches: 166, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
89 4 0.02
90 162 0.98
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (91 bp):
ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAAGATAACAGATCTTGTCTTCC
TGTATTGACAGCGAAGTAGATCGAAG
Found at i:22185542 original size:135 final size:135
Alignment explanation
Indices: 22185300--22185542 Score: 370
Period size: 135 Copynumber: 1.8 Consensus size: 135
22185290 TCATAGCAAG
*
22185300 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAAGTAGCAGATCTTGTCTTCCTGTATTGAC
1 TCTTGTCTTCCTATATTGGCAGCGAAGTAGACTGAAAGTAGCAGATCTTGTCTTCCTGTATTGAC
* *
22185365 AGCGAAGTAGATCGAAGATAGCAAGTCTTGTCTTCCTGTATTGGTAGTGAAGTAGACTAAAGATA
66 AGCGAAGTAGATCGAAGATAACAAGTCTTGCCTTCCTGTATTGGTAGTGAAGTAGACTAAAGATA
22185430 ACAGA
131 ACAGA
22185435 TCTTGTCTTCCTATATTGGCAGCGAAGTAGA-TCG-AAGATAGCA-AGTCTTGTCTTCCTGTATT
1 TCTTGTCTTCCTATATTGGCAGCGAAGTAGACT-GAAAG-TAGCAGA-TCTTGTCTTCCTGTATT
*
22185497 GGCAGCGAAGTAGA-CTGAAGATAAC-AGATCTTGCCTTCCTGTATTG
63 GACAGCGAAGTAGATC-GAAGATAACAAG-TCTTGCCTTCCTGTATTG
22185543 ATGGCGAAGC
Statistics
Matches: 99, Mismatches: 4, Indels: 10
0.88 0.04 0.09
Matches are distributed among these distances:
134 8 0.08
135 91 0.92
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (135 bp):
TCTTGTCTTCCTATATTGGCAGCGAAGTAGACTGAAAGTAGCAGATCTTGTCTTCCTGTATTGAC
AGCGAAGTAGATCGAAGATAACAAGTCTTGCCTTCCTGTATTGGTAGTGAAGTAGACTAAAGATA
ACAGA
Found at i:22185551 original size:45 final size:45
Alignment explanation
Indices: 22185292--22185542 Score: 334
Period size: 45 Copynumber: 5.6 Consensus size: 45
22185282 TGAAGTCATC
22185292 ATAGCA-AGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAA-
1 ATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAG
*
22185336 AGTAGCAGATCTTGTCTTCCTGTATTGACAGCGAAGTAGA-TCGAAG
1 A-TAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAG
* * *
22185382 ATAGCA-AGTCTTGTCTTCCTGTATTGGTAGTGAAGTAGACTAAAG
1 ATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAG
* *
22185427 ATAACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGA-TCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAG
22185472 ATAGCA-AGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAG
1 ATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAG
* *
22185517 ATAACAGATCTTGCCTTCCTGTATTG
1 ATAGCAGATCTTGTCTTCCTGTATTG
22185543 ATGGCGAAGC
Statistics
Matches: 182, Mismatches: 14, Indels: 21
0.84 0.06 0.10
Matches are distributed among these distances:
44 5 0.03
45 171 0.94
46 6 0.03
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (45 bp):
ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAG
Found at i:22185743 original size:99 final size:99
Alignment explanation
Indices: 22185583--22186175 Score: 663
Period size: 99 Copynumber: 6.0 Consensus size: 99
22185573 TGCAGCAAAG
* * * * *
22185583 AAGATTGAAGCCGCAACGGTGAATCTTACCTCCCTGGC-AGTGCAGTGGAACATATTGAAGCTAC
1 AAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGA-TGCAGTGGATCAGATTGAAGCTAC
* *
22185647 AACAGTGAATCTTATTCCTCGACATTGCAATTTAA
65 AACGGTGAATCTTATTCCCCGACATTGCAATTTAA
* * *
22185682 AAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTAGCGATACAATGGATCAGATTGAAGCTACA
1 AAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACA
* *
22185747 ACGGTGAATCTCATTCCCCGACATTCCAATTTAA
66 ACGGTGAATCTTATTCCCCGACATTGCAATTTAA
* * ** * * * * *
22185781 AAGACTGAAGCCGCAACGGTGAATCTTACTTTTTTGGTGGTGCAGTGGACCAGATTAAAGCTACG
1 AAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACA
*
22185846 ACGGTGAATCTTACTTCCCCGACATTGCAATTAAA
66 ACGGTGAATCTTA-TTCCCCGACATTGCAATTTAA
* *
22185881 AAGATTGAAGCCGCAAGGGCGAATCTTACTTTCCTGGCGATGCAGTGGATTAGATTGAAGCTACA
1 AAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACA
*
22185946 ACGGCGAATCTTATTCCCCGACATTGCAA-TTAA
66 ACGGTGAATCTTATTCCCCGACATTGCAATTTAA
* * * * * * * *
22185979 AAGGATTGAAGCCACAACGGTGAATCTCACTTCCCTGGC-AGTACAATGGAGCAGATTAAAGCTA
1 AA-GATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGA-TGCAGTGGATCAGATTGAAGCTA
* * * *
22186043 CGACGGTGAATCTTGCTTCCCTGAAATTGCAATTTAA
64 CAACGGTGAATCTT-ATTCCCCGACATTGCAATTTAA
* * * * * *
22186080 AATATTGAAGCCGCAACAGCGAATCTTACTTCCCTGG-TAGTGCAGTGGAACAGATTCAAGCTAC
1 AAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGA-TGCAGTGGATCAGATTGAAGCTAC
* * * * * *
22186144 GACTGCGAATCGTGTTCCCTGACATTGCAATT
65 AACGGTGAATCTTATTCCCCGACATTGCAATT
22186176 GAGGTCGCAA
Statistics
Matches: 418, Mismatches: 69, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
98 6 0.01
99 244 0.58
100 162 0.39
101 6 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (99 bp):
AAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACA
ACGGTGAATCTTATTCCCCGACATTGCAATTTAA
Found at i:22185886 original size:50 final size:50
Alignment explanation
Indices: 22185832--22186115 Score: 221
Period size: 50 Copynumber: 5.7 Consensus size: 50
22185822 GCAGTGGACC
* * * * *
22185832 AGATTAAAGCTACGACGGTGAATCTTACTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAA
* * * * * ** **
22185882 AGATTGAAGCCGCAAGGGCGAATCTTACTTTCCTGGCGA-TGCAGTGGATT
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAC-ATTGCAATTAAAA
* *
22185932 AGATTGAAGCTACAACGGCGAATCTTA-TTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAA
* * * * * * ** **
22185981 GGATTGAAGCCACAACGGTGAATCTCACTTCCCTGGCAGTACAATGGAGC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAA
* * * * * * *
22186031 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGAAATTGCAATTTAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAA
* * *
22186081 ATATTGAAGCCGCAACAGCGAATCTTACTTCCCTG
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTG
22186116 GTAGTGCAGT
Statistics
Matches: 172, Mismatches: 59, Indels: 6
0.73 0.25 0.03
Matches are distributed among these distances:
48 1 0.01
49 35 0.20
50 135 0.78
51 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAA
Found at i:22185938 original size:199 final size:198
Alignment explanation
Indices: 22185583--22186154 Score: 761
Period size: 199 Copynumber: 2.9 Consensus size: 198
22185573 TGCAGCAAAG
* * * *
22185583 AAGATTGAAGCCGCAACGGTGAATCTTACCTCCCTGGCAGTGCAGTGGAACATATTGAAGCTACA
1 AAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCTACG
* *
22185648 ACAGTGAATCTTA-TTCCTCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACT
66 ACGGTGAATCTTACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACT
* * * *
22185712 TTCCTAGCGATACAATGGATCAGATTGAAGCTACAACGGTGAATCTCATTCCCCGACATTCCAAT
131 TTCCTGGCGATGCAGTGGATCAGATTGAAGCTACAACGGCGAATCTCATTCCCCGACATTCCAA-
22185777 TTAA
195 TTAA
* *** ** *
22185781 AAGACTGAAGCCGCAACGGTGAATCTTACTTTTTTGGTGGTGCAGTGGACCAGATTAAAGCTACG
1 AAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCTACG
* *
22185846 ACGGTGAATCTTACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAAGGGCGAATCTTACT
66 ACGGTGAATCTTACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACT
* * *
22185911 TTCCTGGCGATGCAGTGGATTAGATTGAAGCTACAACGGCGAATCTTATTCCCCGACATTGCAAT
131 TTCCTGGCGATGCAGTGGATCAGATTGAAGCTACAACGGCGAATCTCATTCCCCGACATTCCAAT
22185976 TAA
196 TAA
* * * * *
22185979 AAGGATTGAAGCCACAACGGTGAATCTCACTTCCCTGGCAGTACAATGGAGCAGATTAAAGCTAC
1 AA-GATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCTAC
* * * * *
22186044 GACGGTGAATCTTGCTTCCCTGAAATTGCAATTTAAAATATTGAAGCCGCAACAGCGAATCTTAC
65 GACGGTGAATCTTACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTAC
* * * * * *
22186109 TTCCCTGG-TAGTGCAGTGGAACAGATTCAAGCTACGACTGCGAATC
130 TTTCCTGGCGA-TGCAGTGGATCAGATTGAAGCTACAACGGCGAATC
22186155 GTGTTCCCTG
Statistics
Matches: 324, Mismatches: 47, Indels: 5
0.86 0.12 0.01
Matches are distributed among these distances:
198 73 0.23
199 251 0.77
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (198 bp):
AAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCTACG
ACGGTGAATCTTACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACT
TTCCTGGCGATGCAGTGGATCAGATTGAAGCTACAACGGCGAATCTCATTCCCCGACATTCCAAT
TAA
Found at i:22186259 original size:44 final size:44
Alignment explanation
Indices: 22186191--22186497 Score: 211
Period size: 44 Copynumber: 7.1 Consensus size: 44
22186181 CGCAATGGCG
*
22186191 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTACA
* * * * * * *
22186235 AATCTTATCTCTCTAAAGTTGCAGTAGAGTAGG--TCACA-T-CC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG-CGGATTAAAACTACA
* * * * * *
22186276 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGCTACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTACA
* * * *
22186320 AATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAGACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTACA
* ** * * *** *
22186364 GATCTTATCTATCTGAAGTTGTAGTAGAGC--A-TATCGC-ATCC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTA-CA
* * * *
22186405 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACATAAGAA--ACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGA-TTAA-AACTACA
* *
22186449 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTACA
22186493 AATCT
1 AATCT
22186498 CGTCCCCATA
Statistics
Matches: 196, Mismatches: 54, Indels: 26
0.71 0.20 0.09
Matches are distributed among these distances:
40 2 0.01
41 54 0.28
42 6 0.03
43 8 0.04
44 121 0.62
45 5 0.03
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTACA
Found at i:22186348 original size:129 final size:129
Alignment explanation
Indices: 22186191--22186497 Score: 472
Period size: 129 Copynumber: 2.4 Consensus size: 129
22186181 CGCAATGGCG
* *
22186191 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTACAAATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTATCTAAAGTTG
* * ** *
22186256 CAGTAGAGTAGGTCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-TGAAGCTACT
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAT-AAGAAACC
* * * *
22186320 AATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAGACCACAGATCTTATCTATCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTATCTAAAGTTG
* * *
22186385 TAGTAGAGCATATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACATAAGAAACC
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACATAAGAAACC
22186449 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCT
22186498 CGTCCCCATA
Statistics
Matches: 160, Mismatches: 17, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
129 159 0.99
130 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTATCTAAAGTTG
CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACATAAGAAACC
Found at i:22190482 original size:56 final size:56
Alignment explanation
Indices: 22190414--22190566 Score: 227
Period size: 56 Copynumber: 2.7 Consensus size: 56
22190404 AGTAATTACA
*
22190414 TAGGAATTAAATTGCTAAAAGATAATATCTCATAATAATATCCTATAATATCCCAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCTATAATATCCCAT
* * * *
22190470 TAGGAATCAAATTGCTAAGAGATAATATCCCATAATAATACCCTATAATATCCTAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCTATAATATCCCAT
* *
22190526 TAGGGATCAAATTGCAAAAAGATAATATCAT-ATAATAATAT
1 TAGGAATCAAATTGCTAAAAGATAATATC-TCATAATAATAT
22190567 TCTAACTTAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
56 86 1.00
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (56 bp):
TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCTATAATATCCCAT
Found at i:22194402 original size:42 final size:42
Alignment explanation
Indices: 22194289--22194435 Score: 152
Period size: 42 Copynumber: 3.4 Consensus size: 42
22194279 ATCCGATATG
* * *
22194289 TGATATCGTGTAAGACCATGTTTGGGACGTTGGCATCG-ATT
1 TGATTTCGTGTAAGACCATGTTTGGGACATTGACATCGTATT
* ** *
22194330 TGAGATTTATGTGTAAGACCATGTCCGGGACATTGACATCGTATA
1 T--GATTT-CGTGTAAGACCATGTTTGGGACATTGACATCGTATT
* *
22194375 TGATTTCGTGTAAGACCCTGTTTGGGACAGTGACATCGTTATT
1 TGATTTCGTGTAAGACCATGTTTGGGACATTGACATCG-TATT
* *
22194418 TGATTACATGTAAGACCA
1 TGATTTCGTGTAAGACCA
22194436 CGTCTAGGAC
Statistics
Matches: 85, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 27 0.32
43 27 0.32
44 27 0.32
45 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTTTGGGACATTGACATCGTATT
Found at i:22196531 original size:34 final size:34
Alignment explanation
Indices: 22196488--22196559 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
22196478 ATACTTGCCA
22196488 TCATCGACCCAAAACTCGAATGAAATTTATATTT
1 TCATCGACCCAAAACTCGAATGAAATTTATATTT
*
22196522 TCATCGACCCAAAGCTCGAATGAAATTTATATTT
1 TCATCGACCCAAAACTCGAATGAAATTTATATTT
22196556 TCAT
1 TCAT
22196560 GCTAATGATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (34 bp):
TCATCGACCCAAAACTCGAATGAAATTTATATTT
Found at i:22199711 original size:50 final size:50
Alignment explanation
Indices: 22199657--22199783 Score: 139
Period size: 50 Copynumber: 2.5 Consensus size: 50
22199647 CCAAGAAGAT
* * * * *
22199657 TTTACAGAGAGTTCGCCACAAAGGCTTCATAGA-ATATTCGCTACAAAGGG
1 TTTACAGAGAATTTGCCACAAAGGCTTCATAGAGA-ATTCACCACAAAGGC
* * * *
22199707 TTTACAAAGAATTTGCCACAAAGACTTTATAGAGAATTCACCACAAAGTC
1 TTTACAGAGAATTTGCCACAAAGGCTTCATAGAGAATTCACCACAAAGGC
* *
22199757 TTTATAGAGAATTTACCACAAAGGCTT
1 TTTACAGAGAATTTGCCACAAAGGCTT
22199784 TCCAGAGAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
50 62 0.98
51 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (50 bp):
TTTACAGAGAATTTGCCACAAAGGCTTCATAGAGAATTCACCACAAAGGC
Found at i:22199727 original size:25 final size:25
Alignment explanation
Indices: 22199699--22199793 Score: 109
Period size: 25 Copynumber: 3.8 Consensus size: 25
22199689 AATATTCGCT
* * * *
22199699 ACAAAGGGTTTACAAAGAATTTGCC
1 ACAAAGGCTTTATAGAGAATTTACC
* *
22199724 ACAAAGACTTTATAGAGAATTCACC
1 ACAAAGGCTTTATAGAGAATTTACC
*
22199749 ACAAAGTCTTTATAGAGAATTTACC
1 ACAAAGGCTTTATAGAGAATTTACC
**
22199774 ACAAAGGCTTTCCAGAGAAT
1 ACAAAGGCTTTATAGAGAAT
22199794 CCGTGTTTAC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (25 bp):
ACAAAGGCTTTATAGAGAATTTACC
Found at i:22201876 original size:18 final size:19
Alignment explanation
Indices: 22201844--22201886 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
22201834 ATTGTTTGGA
* *
22201844 TATTGTATAACACTTGTTT
1 TATTGTATAAAACTTATTT
22201863 TATT-TATAAAACTTATTT
1 TATTGTATAAAACTTATTT
22201881 TATTGT
1 TATTGT
22201887 TAATTTTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (19 bp):
TATTGTATAAAACTTATTT
Found at i:22201917 original size:30 final size:30
Alignment explanation
Indices: 22201883--22201945 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
22201873 ACTTATTTTA
22201883 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
22201913 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
22201943 TTG
1 TTG
22201946 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:22204118 original size:16 final size:16
Alignment explanation
Indices: 22204092--22204130 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
22204082 CAGAATCGAG
*
22204092 TTAAGAAAATTATTTAA
1 TTAA-AAAATTAATTAA
22204109 TTAAAAAATTAATTAA
1 TTAAAAAATTAATTAA
22204125 TTAAAA
1 TTAAAA
22204131 TTAAATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
TTAAAAAATTAATTAA
Found at i:22208933 original size:20 final size:20
Alignment explanation
Indices: 22208904--22208941 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22208894 TAATTTTCTA
*
22208904 TTTTAATTTAACTTTAATAC
1 TTTTAATTTAAATTTAATAC
*
22208924 TTTTATTTTAAATTTAAT
1 TTTTAATTTAAATTTAAT
22208942 TGTCACTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAATTTAAATTTAATAC
Found at i:22210238 original size:103 final size:103
Alignment explanation
Indices: 22210020--22210450 Score: 666
Period size: 103 Copynumber: 4.2 Consensus size: 103
22210010 ACACTCCGTT
* *
22210020 TTGTGGATGAACCACCAGTAATGTGCAGATAAACTGCCAGTAAAAAAAATTGTGGATGAACCACT
1 TTGTGGATGAACCACCAGTAATTTGCAGATAAACTGCCAGT---AAAAATTGTGGATGAACCACC
* *
22210085 AGTG-TTCAGATAAAAAGTTTGCAGACAAGCTGCCAATAAG
63 AGTGTTTTAGATAAAAAGTTTGCAGACAAGCTGCCAGTAAG
*
22210125 TTTTGGATGAACCACCAGTAATTTGCAGATAAACTGCCAGTAAAAATTGTGGATGAACCACCAGT
1 TTGTGGATGAACCACCAGTAATTTGCAGATAAACTGCCAGTAAAAATTGTGGATGAACCACCAGT
* * *
22210190 GTTTTAGATAAAAAATTTGCAGACAAGCTTCTAGTAAG
66 GTTTTAGATAAAAAGTTTGCAGACAAGCTGCCAGTAAG
* *** *
22210228 TTGTGGATGAACCACCAGTAATTTGCAAATAAACTGTTTGTAAAAATTGTGGATGAACCACCAAT
1 TTGTGGATGAACCACCAGTAATTTGCAGATAAACTGCCAGTAAAAATTGTGGATGAACCACCAGT
* * *
22210293 GTTTTAGATAAAAAGTTTGTAGATAAGCTGTCAGTAAG
66 GTTTTAGATAAAAAGTTTGCAGACAAGCTGCCAGTAAG
* *
22210331 TTGTGGATGAACCACCAGTAATTTGCAGATAAACTGCCAGTAAAAATTATGGATGGACCACCAGT
1 TTGTGGATGAACCACCAGTAATTTGCAGATAAACTGCCAGTAAAAATTGTGGATGAACCACCAGT
22210396 GTTTTAGATAAAAAGTTTGCAGACAAGCTGCCAGTAAG
66 GTTTTAGATAAAAAGTTTGCAGACAAGCTGCCAGTAAG
22210434 TTGTGGATGAACCACCA
1 TTGTGGATGAACCACCA
22210451 ATGTTTGTAG
Statistics
Matches: 295, Mismatches: 30, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
102 24 0.08
103 232 0.79
105 39 0.13
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (103 bp):
TTGTGGATGAACCACCAGTAATTTGCAGATAAACTGCCAGTAAAAATTGTGGATGAACCACCAGT
GTTTTAGATAAAAAGTTTGCAGACAAGCTGCCAGTAAG
Found at i:22210456 original size:57 final size:59
Alignment explanation
Indices: 22210352--22210462 Score: 145
Period size: 57 Copynumber: 1.9 Consensus size: 59
22210342 CCACCAGTAA
* * *
22210352 TTTGCAGATAAACTGCCAGTAAAAATTATGGATGGACCACCAGTGTTT-TAGATAAAAAG
1 TTTGCAGACAAACTGCCAGT-AAAATTATGGATGAACCACCAATGTTTGTAGATAAAAAG
* * *
22210411 TTTGCAGACAAGCTGCCAGT-AAGTTGTGGATGAACCACCAATGTTTGTAGAT
1 TTTGCAGACAAACTGCCAGTAAAATTATGGATGAACCACCAATGTTTGTAGAT
22210463 TGTTAACTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
57 22 0.49
58 5 0.11
59 18 0.40
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (59 bp):
TTTGCAGACAAACTGCCAGTAAAATTATGGATGAACCACCAATGTTTGTAGATAAAAAG
Found at i:22211582 original size:23 final size:25
Alignment explanation
Indices: 22211545--22211590 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
22211535 AATAGGGTGC
*
22211545 AAGAATAAGAGAAAAGAG-GAGAAA
1 AAGAATAAGAAAAAAGAGAGAGAAA
22211569 AAGAA-AAGAAAAAAGAGAGAGA
1 AAGAATAAGAAAAAAGAGAGAGA
22211591 GAGCAAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (25 bp):
AAGAATAAGAAAAAAGAGAGAGAAA
Found at i:22212951 original size:31 final size:31
Alignment explanation
Indices: 22212916--22212974 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
22212906 ATAGCCGAGA
22212916 GACTTAAATAAAAACTTTTGAATAGTTCGAT
1 GACTTAAATAAAAACTTTTGAATAGTTCGAT
*
22212947 GACTTAAATGAAAACTTTTGAATAGTTC
1 GACTTAAATAAAAACTTTTGAATAGTTC
22212975 AACGATCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.36
Consensus pattern (31 bp):
GACTTAAATAAAAACTTTTGAATAGTTCGAT
Found at i:22213132 original size:18 final size:19
Alignment explanation
Indices: 22213096--22213133 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
22213086 AATATATTTT
* *
22213096 TTTATTAAAATTTATAAAA
1 TTTATTAAAATATAAAAAA
22213115 TTTA-TAAAATATAAAAAA
1 TTTATTAAAATATAAAAAA
22213133 T
1 T
22213134 ATAGAAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTATTAAAATATAAAAAA
Found at i:22215477 original size:2 final size:2
Alignment explanation
Indices: 22215470--22215519 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
22215460 CAAAAAGTAA
22215470 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
22215511 AG AG AG AG A
1 AG AG AG AG A
22215520 AAGAACAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22223399 original size:2 final size:2
Alignment explanation
Indices: 22223392--22223417 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22223382 TATAATTTTG
22223392 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
22223418 GAGATGATCC
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):
AT
Found at i:22229253 original size:23 final size:23
Alignment explanation
Indices: 22229190--22229273 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
22229180 AACAACAGGT
*
22229190 AAAAAGGAAA-AAATAA-AGAAG
1 AAAAAGGAAAGAAAAAACAGAAG
* * *
22229211 AAGAAAAGACAATAACAAACAGAAG
1 AA-AAAGGA-AAGAAAAAACAGAAG
*
22229236 AAAAAGGAAAGAAAAAACAGGAAA
1 AAAAAGGAAAGAAAAAACA-GAAG
*
22229260 AAAAAGAAAAGAAA
1 AAAAAGGAAAGAAA
22229274 GAAAGAAAGA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
21 2 0.04
22 5 0.10
23 11 0.22
24 25 0.50
25 7 0.14
ACGTcount: A:0.75, C:0.05, G:0.18, T:0.02
Consensus pattern (23 bp):
AAAAAGGAAAGAAAAAACAGAAG
Found at i:22229270 original size:24 final size:23
Alignment explanation
Indices: 22229227--22229289 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 23
22229217 AGACAATAAC
* *
22229227 AAACAGAAGAAAAAGGAAAGAAA
1 AAACAGAAAAAAAAGAAAAGAAA
22229250 AAACAGGAAAAAAAAGAAAAGAAA
1 AAACA-GAAAAAAAAGAAAAGAAA
* *
22229274 GAA-AG-AAAGAAAGAAA
1 AAACAGAAAAAAAAGAAA
22229290 TAACATGTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 10 0.29
22 1 0.03
23 6 0.17
24 18 0.51
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (23 bp):
AAACAGAAAAAAAAGAAAAGAAA
Found at i:22254480 original size:22 final size:22
Alignment explanation
Indices: 22254455--22254499 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22254445 GCCTTAAAAA
22254455 TTTTGCGACATTACCTTTACGG
1 TTTTGCGACATTACCTTTACGG
22254477 TTTTGCGACATTACCTTTACGG
1 TTTTGCGACATTACCTTTACGG
22254499 T
1 T
22254500 GAAAAATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (22 bp):
TTTTGCGACATTACCTTTACGG
Found at i:22254683 original size:39 final size:41
Alignment explanation
Indices: 22254638--22254774 Score: 137
Period size: 40 Copynumber: 3.5 Consensus size: 41
22254628 GGCGTTTGAA
22254638 TAAAAAACGCCGCTAAAAATCAATCATTAGCGGCGC-TATC
1 TAAAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTTATC
* * * *
22254678 TAAAAAACACCGCTAAAGATCGAGT-ATTAGCGGCGCTTTTC
1 TAAAAAACGCCGCTAAAAATC-AATCATTAGCGGCGCTTATC
* *
22254719 T-AAAAACGCCGCTAAAAAT-GAGCATTAGCGGCG-TT-T-
1 TAAAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTTATC
22254755 TACAAAAAGCGCCGC-AAAAA
1 TA-AAAAA-CGCCGCTAAAAA
22254775 CCTAAATCTA
Statistics
Matches: 82, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 12 0.15
39 16 0.20
40 46 0.56
41 6 0.07
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (41 bp):
TAAAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTTATC
Found at i:22254877 original size:41 final size:41
Alignment explanation
Indices: 22254814--22254926 Score: 190
Period size: 41 Copynumber: 2.8 Consensus size: 41
22254804 TTTTTAGGGA
*
22254814 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCACTAATGCTCTAGTC
* * *
22254855 TTTAGCGGCGTTTTTGATGAAGCGCCACTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCACTAATGCTCTAGTC
22254896 TTTAGCGGCGTTTTTTAAGAAGCGCCACTAA
1 TTTAGCGGCGTTTTTTAAGAAGCGCCACTAA
22254927 AAGCCTTTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTTAAGAAGCGCCACTAATGCTCTAGTC
Found at i:22261385 original size:22 final size:22
Alignment explanation
Indices: 22261357--22261399 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
22261347 TAGTGGCGCT
*
22261357 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
22261379 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
22261400 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:22264340 original size:32 final size:32
Alignment explanation
Indices: 22264295--22264513 Score: 258
Period size: 32 Copynumber: 6.7 Consensus size: 32
22264285 ATGTTTTATT
*
22264295 TATTTCCGAATTGAATTGTATATATATACTTA
1 TATTGCCGAATTGAATTGTATATATATACTTA
*
22264327 TATTGCTGAATTGAATTGTATATATATAAACTTA
1 TATTGCCGAATTGAATTGTATATATAT--ACTTA
22264361 TATTGCCGAATTGAATTGTATATATATATACTTA
1 TATTGCCGAATTGAATTG--TATATATATACTTA
* ** ***
22264395 TATTGTCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATATATACTTA
* *
22264427 TATTGCTGAATTGAATTGTATACATATACTTA
1 TATTGCCGAATTGAATTGTATATATATACTTA
** ***
22264459 TATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATATATACTTA
*
22264491 TATTGCCGAATTGATTTGTATAT
1 TATTGCCGAATTGAATTGTATAT
22264514 GTATTTATAT
Statistics
Matches: 159, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
32 106 0.67
34 44 0.28
36 9 0.06
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.42
Consensus pattern (32 bp):
TATTGCCGAATTGAATTGTATATATATACTTA
Found at i:22264528 original size:64 final size:64
Alignment explanation
Indices: 22264295--22264513 Score: 312
Period size: 64 Copynumber: 3.4 Consensus size: 64
22264285 ATGTTTTATT
* * ** *
22264295 TATTTCCGAATTGAATTGTATATATATACTTATATTGCTGAATTGAATTGTATATATATAAACTT
1 TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACAC--
*
22264360 A
64 C
*
22264361 TATTGCCGAATTGAATTGTATATATATATACTTATATTGTCGAATTGAATTGTATAGGTATACAC
1 TATTGCCGAATTGAATTG--TATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACAC
22264426 C
64 C
* *
22264427 TATTGCTGAATTGAATTGTATACATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
*
22264491 TATTGCCGAATTGATTTGTATAT
1 TATTGCCGAATTGAATTGTATAT
22264514 GTATTTATAT
Statistics
Matches: 138, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
64 64 0.46
66 34 0.25
68 40 0.29
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.42
Consensus pattern (64 bp):
TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
Found at i:22266581 original size:41 final size:41
Alignment explanation
Indices: 22266530--22266716 Score: 268
Period size: 41 Copynumber: 4.6 Consensus size: 41
22266520 CATTGAATGT
22266530 AAGGGGTTGCTAAGTGTAGATTCCCCGAATCATTGATCGAA
1 AAGGGGTTGCTAAGTGTAGATTCCCCGAATCATTGATCGAA
** * *
22266571 AATTGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCGAG
1 AAGGGGTTGCTAAGTGTAGATTCCCCGAATCATTGATCGAA
* *
22266612 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATAGAA
1 AAGGGGTTGCTAAGTGTAGATTCCCCGAATCATTGATCGAA
* * * *
22266653 AAGGGGTTGCTAAATGCT-GATTCCCTGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTG-TAGATTCCCCGAATCATTGATCGAA
22266694 AAGGGGTTGCTAAGTGTAGATTC
1 AAGGGGTTGCTAAGTGTAGATTC
22266717 TCTGAGGGGT
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 1 0.01
41 128 0.99
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGTAGATTCCCCGAATCATTGATCGAA
Found at i:22266813 original size:43 final size:41
Alignment explanation
Indices: 22266721--22266836 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 41
22266711 AGATTCTCTG
* *** *
22266721 AGGGGTTGCTAAGTGTTGATTCCCTAAATTATTGATTCTAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTCTAA
* *
22266762 AGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTCT-AA
*
22266806 AGGGGTTGCTATGTGCTGATTCCCCGTATCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCA
22266837 CTGAATATAA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 3 0.05
42 26 0.41
43 29 0.46
44 5 0.08
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (41 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTCTAA
Found at i:22289135 original size:93 final size:93
Alignment explanation
Indices: 22288975--22289165 Score: 330
Period size: 93 Copynumber: 2.1 Consensus size: 93
22288965 CCAACAAACT
* * *
22288975 AAACTAATTGGACTAGACTAAAACTCACATATGATGTAATTTGGAGACCCAAGTATAGAATTTCA
1 AAACTAATTGGACTAGACTAAAACTCACACATGATGTAACTTGGAGACCCAAGTATAGAATTGCA
*
22289040 CATGATAAATCTCAAATCTAAGTGCTTA
66 CATGATAAATCTCAAATCTAAGTACTTA
22289068 AAACTCAA-TGGACTAGACTAAAACTCACACATGATGTAACTTGGAGACCCAAGTATAGAATTGC
1 AAACT-AATTGGACTAGACTAAAACTCACACATGATGTAACTTGGAGACCCAAGTATAGAATTGC
22289132 ACATGATAAATCTCAAATCTAAGTACTTA
65 ACATGATAAATCTCAAATCTAAGTACTTA
22289161 AAACT
1 AAACT
22289166 GAATACCTTC
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
93 91 0.98
94 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.27
Consensus pattern (93 bp):
AAACTAATTGGACTAGACTAAAACTCACACATGATGTAACTTGGAGACCCAAGTATAGAATTGCA
CATGATAAATCTCAAATCTAAGTACTTA
Found at i:22292344 original size:21 final size:21
Alignment explanation
Indices: 22292302--22292355 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
22292292 AAATAAATAA
* * *
22292302 ATTGTAAAGGTGGGCAACTCG
1 ATTGTAAAGGTAGACAAATCG
*
22292323 ATTGTAAAGGTAGATAAATCG
1 ATTGTAAAGGTAGACAAATCG
*
22292344 ATTATAAAGGTA
1 ATTGTAAAGGTA
22292356 TATATATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.28
Consensus pattern (21 bp):
ATTGTAAAGGTAGACAAATCG
Found at i:22301994 original size:27 final size:27
Alignment explanation
Indices: 22301956--22302017 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
22301946 TGAGGCGATC
* * *
22301956 CTTTCATAATTCGTCACAAACG-TTTTT
1 CTTTCATGATTCGCCACAAA-GACTTTT
22301983 CTTTCATGATTCGCCACAAAGACTTTT
1 CTTTCATGATTCGCCACAAAGACTTTT
22302010 CTTTCATG
1 CTTTCATG
22302018 GCGTGTTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 1 0.03
27 30 0.97
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (27 bp):
CTTTCATGATTCGCCACAAAGACTTTT
Found at i:22305866 original size:189 final size:190
Alignment explanation
Indices: 22305532--22305914 Score: 759
Period size: 189 Copynumber: 2.0 Consensus size: 190
22305522 ATTTAATTTA
22305532 ATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTGATGTGATTAAATCTAATTCTAGT
1 ATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTGATGTGATTAAATCTAATTCTAGT
22305597 TGAACTCTCTCTAAACTCACCCTATATAAAGAGAGCATGAGTCATTATTCTCATATACTTGAATT
66 TGAACTCTCTCTAAACTCACCCTATATAAAGAGAGCATGAGTCATTATTCTCATATACTTGAATT
22305662 CAAGAAAAGTTGTAGAGAGAAAATTCTCTATAGAAATTATTTTAAAAAATTTCTAGAGAT
131 CAAGAAAAGTTGTAGAGAGAAAATTCTCTATAGAAATTATTTTAAAAAATTTCTAGAGAT
22305722 ATTTAATATTTAT-TAGATAATATTTTATTAATTTAATATTGATGTGATTAAATCTAATTCTAGT
1 ATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTGATGTGATTAAATCTAATTCTAGT
22305786 TGAACTCTCTCTAAACTCACCCTATATAAAGAGAGCATGAGTCATTATTCTCATATACTTGAATT
66 TGAACTCTCTCTAAACTCACCCTATATAAAGAGAGCATGAGTCATTATTCTCATATACTTGAATT
22305851 CAAGAAAAGTTGTAGAGAGAAAATTCTCTATAGAAATTATTTTAAAAAATTTCTAGAGAT
131 CAAGAAAAGTTGTAGAGAGAAAATTCTCTATAGAAATTATTTTAAAAAATTTCTAGAGAT
22305911 ATTT
1 ATTT
22305915 TTGTTATTTA
Statistics
Matches: 193, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
189 180 0.93
190 13 0.07
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (190 bp):
ATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTGATGTGATTAAATCTAATTCTAGT
TGAACTCTCTCTAAACTCACCCTATATAAAGAGAGCATGAGTCATTATTCTCATATACTTGAATT
CAAGAAAAGTTGTAGAGAGAAAATTCTCTATAGAAATTATTTTAAAAAATTTCTAGAGAT
Found at i:22306699 original size:21 final size:19
Alignment explanation
Indices: 22306665--22306707 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
22306655 AAAAATATTC
*
22306665 AAACTTATTAATTTAAATA
1 AAACTTATTAATTTAAAAA
22306684 AAACTATATTGAATTTAAAAA
1 AAACT-TATT-AATTTAAAAA
22306705 AAA
1 AAA
22306708 AAACCCTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 4 0.19
21 12 0.57
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (19 bp):
AAACTTATTAATTTAAAAA
Found at i:22306706 original size:20 final size:19
Alignment explanation
Indices: 22306665--22306706 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
22306655 AAAAATATTC
22306665 AAACTTATTAATTTAAATA
1 AAACTTATTAATTTAAATA
22306684 AAACTATATTGAATTTAAA-A
1 AAACT-TATT-AATTTAAATA
22306704 AAA
1 AAA
22306707 AAAACCCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 8 0.38
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (19 bp):
AAACTTATTAATTTAAATA
Found at i:22314473 original size:43 final size:43
Alignment explanation
Indices: 22314415--22314615 Score: 278
Period size: 43 Copynumber: 4.7 Consensus size: 43
22314405 AATATTGGCG
* *
22314415 CACATAGTGCATCATCGGATAAACTGAAGTATCTATACTAGCA
1 CACACAGTGCATCATCGGATAAACCGAAGTATCTATACTAGCA
* *
22314458 CATACAGTGCATCATC-GACTAAACCGAAGTATCTATACTGGCA
1 CACACAGTGCATCATCGGA-TAAACCGAAGTATCTATACTAGCA
* *
22314501 CGCATAGTGCATCATCGGATAAACCGAAGTATCTATACTAGCA
1 CACACAGTGCATCATCGGATAAACCGAAGTATCTATACTAGCA
* * * * *
22314544 GACACAGTGCATTATCGGATAAACCAAAATATATATACTAGCA
1 CACACAGTGCATCATCGGATAAACCGAAGTATCTATACTAGCA
*
22314587 CATACAGTGCATCATCGGATAAACCGAAG
1 CACACAGTGCATCATCGGATAAACCGAAG
22314616 CCTAATCGTA
Statistics
Matches: 136, Mismatches: 20, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
42 2 0.01
43 132 0.97
44 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (43 bp):
CACACAGTGCATCATCGGATAAACCGAAGTATCTATACTAGCA
Found at i:22322060 original size:25 final size:25
Alignment explanation
Indices: 22322019--22322068 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
22322009 AGTTGAAGAG
22322019 AGAAAATTCTCTAAAGAGATTATTTC
1 AGAAAATTCTCTAAAGAGATT-TTTC
*
22322045 AGAAAATT-TCTAAAGATATTTTTC
1 AGAAAATTCTCTAAAGAGATTTTTC
22322069 TTATCTACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 11 0.48
26 8 0.35
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (25 bp):
AGAAAATTCTCTAAAGAGATTTTTC
Found at i:22323473 original size:15 final size:15
Alignment explanation
Indices: 22323453--22323488 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
22323443 TGTTTTTTTT
22323453 TCTTTTCCTTCTTTC
1 TCTTTTCCTTCTTTC
* *
22323468 TCTTTTCTTTCTTTT
1 TCTTTTCCTTCTTTC
22323483 TCTTTT
1 TCTTTT
22323489 TCCCTTTCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (15 bp):
TCTTTTCCTTCTTTC
Found at i:22323473 original size:24 final size:23
Alignment explanation
Indices: 22323446--22323495 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
22323436 AACGTTCTGT
* *
22323446 TTTTTTTTCTTTTCCTTCTTTCTC
1 TTTTCTTTCTTTTCCTT-TTTCCC
*
22323470 TTTTCTTTCTTTTTCTTTTTCCC
1 TTTTCTTTCTTTTCCTTTTTCCC
22323493 TTT
1 TTT
22323496 CGTTTTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTCTTTCTTTTCCTTTTTCCC
Found at i:22323502 original size:24 final size:23
Alignment explanation
Indices: 22323447--22323495 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
22323437 ACGTTCTGTT
* *
22323447 TTTTTTTCTTTTCCTTCTTTCTC
1 TTTTTTTCTTTTTCTTCTTTCCC
22323470 TTTTCTTTCTTTTTCTT-TTTCCC
1 TTTT-TTTCTTTTTCTTCTTTCCC
22323493 TTT
1 TTT
22323496 CGTTTTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTTTCTTTTTCTTCTTTCCC
Found at i:22325657 original size:28 final size:28
Alignment explanation
Indices: 22325604--22325658 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
22325594 TTAGAATAAA
* *
22325604 TTTGTCAATATGGTATTTGTATTTTTAG
1 TTTGTCAATATGGTATCTATATTTTTAG
*
22325632 TTTGTCTAATATGTTATCTATATTTTT
1 TTTGTC-AATATGGTATCTATATTTTT
22325659 GTTCTGCCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.22, C:0.05, G:0.13, T:0.60
Consensus pattern (28 bp):
TTTGTCAATATGGTATCTATATTTTTAG
Found at i:22326556 original size:19 final size:19
Alignment explanation
Indices: 22326523--22326561 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
22326513 AAATAATTGA
* *
22326523 AAATATTTTTTAAAAATCC
1 AAATATTTATAAAAAATCC
*
22326542 AAATATTTATAAAAATTCC
1 AAATATTTATAAAAAATCC
22326561 A
1 A
22326562 CAATTTATGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATATTTATAAAAAATCC
Found at i:22343369 original size:20 final size:20
Alignment explanation
Indices: 22343344--22343384 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
22343334 ACTAGGATAT
*
22343344 TCACTTTCTTCTTTACTTAC
1 TCACTTACTTCTTTACTTAC
*
22343364 TCACTTACTTGTTTACTTAC
1 TCACTTACTTCTTTACTTAC
22343384 T
1 T
22343385 TGCTTGCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.27, G:0.02, T:0.54
Consensus pattern (20 bp):
TCACTTACTTCTTTACTTAC
Found at i:22343715 original size:50 final size:50
Alignment explanation
Indices: 22343647--22343838 Score: 231
Period size: 50 Copynumber: 3.8 Consensus size: 50
22343637 TTTCCTGTAC
* * * ** *
22343647 TGCCAATGCCATATCCCAGATATGGTCTTACATTGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
22343697 TGCCCATGCCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * * * *
22343747 AGTCAATGCCATGTACCAGACATGGTCTTACATGGGACCTATTATCTTGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
22343797 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22343839 TTATCCAAAT
Statistics
Matches: 118, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 118 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:22344209 original size:30 final size:30
Alignment explanation
Indices: 22344175--22344233 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
22344165 TACTTGACTC
22344175 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
22344205 AAACTTTTGCATAATTACACTTTTTCCCC
1 AAACTTTTGAAAAATTACAATTTTGCCCC
22344234 AAAGCTCGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:22348366 original size:22 final size:22
Alignment explanation
Indices: 22348338--22348403 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
22348328 ATACACCAGT
22348338 ATATGAGAGCCCTTTATGGGAC
1 ATATGAGAGCCCTTTATGGGAC
* * * *
22348360 ATTTGAGTGCCCCTTGTGGGAC
1 ATATGAGAGCCCTTTATGGGAC
*
22348382 ATATGAGATCCCTTTTATGGGA
1 ATATGAGAGCCC-TTTATGGGA
22348404 TGTATGAATG
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (22 bp):
ATATGAGAGCCCTTTATGGGAC
Found at i:22348482 original size:28 final size:28
Alignment explanation
Indices: 22348451--22348534 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
22348441 CATAAATGTC
* *
22348451 GAAGTCCGTCAAGATTATCGTATGTGTA
1 GAAGTCCGTCAAGACTATCTTATGTGTA
* * * *
22348479 GAAGTCTGCCAAGACTATCTTATATGTG
1 GAAGTCCGTCAAGACTATCTTATGTGTA
* *
22348507 GAAGTTCGTCAGGACTATCTTATGTGTA
1 GAAGTCCGTCAAGACTATCTTATGTGTA
22348535 TGATATTACA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (28 bp):
GAAGTCCGTCAAGACTATCTTATGTGTA
Found at i:22351435 original size:13 final size:12
Alignment explanation
Indices: 22351404--22351434 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
22351394 CAAAAAGCAC
22351404 AAAAAAACCGCA
1 AAAAAAACCGCA
22351416 AAAAAAACCGCA
1 AAAAAAACCGCA
22351428 AAAAAAA
1 AAAAAAA
22351435 AGTTGTCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.74, C:0.19, G:0.06, T:0.00
Consensus pattern (12 bp):
AAAAAAACCGCA
Found at i:22357817 original size:31 final size:32
Alignment explanation
Indices: 22357781--22357845 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
22357771 CTTAGATAAT
22357781 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
22357812 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
22357844 TT
1 TT
22357846 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:22358788 original size:19 final size:19
Alignment explanation
Indices: 22358753--22358793 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22358743 ACTTTAAAAT
* *
22358753 CAAGTTAAAATTATTTTCA
1 CAAGTTAAAAATATTTTAA
*
22358772 CAAGTTAAAAATCTTTTAA
1 CAAGTTAAAAATATTTTAA
22358791 CAA
1 CAA
22358794 ATCAAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (19 bp):
CAAGTTAAAAATATTTTAA
Found at i:22366023 original size:17 final size:18
Alignment explanation
Indices: 22365992--22366026 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
22365982 TAAAGAAACA
22365992 TTTTTAAAATCTTTTGTAT
1 TTTTTAAAA-CTTTTGTAT
22366011 TTTTTAAAA-TTTTGTA
1 TTTTTAAAACTTTTGTA
22366027 GATATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (18 bp):
TTTTTAAAACTTTTGTAT
Found at i:22366840 original size:17 final size:18
Alignment explanation
Indices: 22366807--22366842 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
22366797 TAATAAAATG
22366807 TGTATAATAAAATTAAAA
1 TGTATAATAAAATTAAAA
*
22366825 TGTATAAT-ATATTAAAA
1 TGTATAATAAAATTAAAA
22366842 T
1 T
22366843 AAAATTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (18 bp):
TGTATAATAAAATTAAAA
Found at i:22367540 original size:14 final size:14
Alignment explanation
Indices: 22367521--22367566 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
22367511 ACATTAACGA
22367521 ATAAATATATAAAT
1 ATAAATATATAAAT
*
22367535 ATAAATAAATAAAT
1 ATAAATATATAAAT
**
22367549 ATTTATATATAAA-
1 ATAAATATATAAAT
22367562 ATAAA
1 ATAAA
22367567 ATAAATTGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 3 0.12
14 23 0.88
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAAATATATAAAT
Found at i:22367585 original size:28 final size:30
Alignment explanation
Indices: 22367525--22367585 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
22367515 TAACGAATAA
*
22367525 ATATATAAATATAAATAAATAAATATTTAT
1 ATATATAAATATAAATAAATAAATAATTAT
*
22367555 ATATA-AAATA-AAATAAATTGAATAATT-T
1 ATATATAAATATAAATAAA-TAAATAATTAT
22367583 ATA
1 ATA
22367586 CTTAAAACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 11 0.39
29 12 0.43
30 5 0.18
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
ATATATAAATATAAATAAATAAATAATTAT
Found at i:22368087 original size:296 final size:296
Alignment explanation
Indices: 22367553--22368145 Score: 1159
Period size: 296 Copynumber: 2.0 Consensus size: 296
22367543 ATAAATATTT
* *
22367553 ATATATAAAATAAAATAAATTGAATAATTTATACTTAAAACATCAGATACCAAAAACCAATAAAT
1 ATATATAAAATAAAATAAATTGAATAATTTATACTTAAAACATAAAATACCAAAAACCAATAAAT
22367618 AAGATAACAAAAACTAGAAATCGAAAAGAAGAATCGAGTTTTACTAGATGTTGAGGCCTGATTTA
66 AAGATAACAAAAACTAGAAATCGAAAAGAAGAATCGAGTTTTACTAGATGTTGAGGCCTGATTTA
22367683 CACAGTTTTCTTAAGATAGATTCGGATGCTCCTACGGTAATTGGAGAAACGTTAGTCGACTGTCT
131 CACAGTTTTCTTAAGATAGATTCGGATGCTCCTACGGTAATTGGAGAAACGTTAGTCGACTGTCT
22367748 CCCGAGATACAAAAACACGATGATCAAAGCAGTAGTACCTCTGCAGTGATCAACAAACAAACCTT
196 CCCGAGATACAAAAACACGATGATCAAAGCAGTAGTACCTCTGCAGTGATCAACAAACAAACCTT
22367813 GCCTTCTTCTATCACCAAAATGTTGGAAAATATGAA
261 GCCTTCTTCTATCACCAAAATGTTGGAAAATATGAA
*
22367849 ATATATAAAATAAAATATATTGAATAATTTATACTTAAAACATAAAATACCAAAAACCAATAAAT
1 ATATATAAAATAAAATAAATTGAATAATTTATACTTAAAACATAAAATACCAAAAACCAATAAAT
22367914 AAGATAACAAAAACTAGAAATCGAAAAGAAGAATCGAGTTTTACTAGATGTTGAGGCCTGATTTA
66 AAGATAACAAAAACTAGAAATCGAAAAGAAGAATCGAGTTTTACTAGATGTTGAGGCCTGATTTA
22367979 CACAGTTTTCTTAAGATAGATTCGGATGCTCCTACGGTAATTGGAGAAACGTTAGTCGACTGTCT
131 CACAGTTTTCTTAAGATAGATTCGGATGCTCCTACGGTAATTGGAGAAACGTTAGTCGACTGTCT
22368044 CCCGAGATACAAAAACACGATGATCAAAGCAGTAGTACCTCTGCAGTGATCAACAAACAAACCTT
196 CCCGAGATACAAAAACACGATGATCAAAGCAGTAGTACCTCTGCAGTGATCAACAAACAAACCTT
22368109 GCCTTCTTCTATCACCAAAATGTTGGAAAATATGAA
261 GCCTTCTTCTATCACCAAAATGTTGGAAAATATGAA
22368145 A
1 A
22368146 AGGGAAAAAG
Statistics
Matches: 294, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
296 294 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (296 bp):
ATATATAAAATAAAATAAATTGAATAATTTATACTTAAAACATAAAATACCAAAAACCAATAAAT
AAGATAACAAAAACTAGAAATCGAAAAGAAGAATCGAGTTTTACTAGATGTTGAGGCCTGATTTA
CACAGTTTTCTTAAGATAGATTCGGATGCTCCTACGGTAATTGGAGAAACGTTAGTCGACTGTCT
CCCGAGATACAAAAACACGATGATCAAAGCAGTAGTACCTCTGCAGTGATCAACAAACAAACCTT
GCCTTCTTCTATCACCAAAATGTTGGAAAATATGAA
Found at i:22368935 original size:11 final size:11
Alignment explanation
Indices: 22368919--22368974 Score: 52
Period size: 9 Copynumber: 5.5 Consensus size: 11
22368909 AATTGAACCA
22368919 TTTTTCCTTCT
1 TTTTTCCTTCT
22368930 TTTTTCC-T-T
1 TTTTTCCTTCT
22368939 TTTTT--TTCT
1 TTTTTCCTTCT
*
22368948 TTTTTTC-T-T
1 TTTTTCCTTCT
22368957 TTTTTCCTCTCT
1 TTTTTCCT-TCT
22368969 TTTTTC
1 TTTTTC
22368975 TTTTTCTCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
8 1 0.03
9 19 0.51
10 2 0.05
11 8 0.22
12 7 0.19
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCCTTCT
Found at i:22368947 original size:18 final size:18
Alignment explanation
Indices: 22368919--22368979 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 18
22368909 AATTGAACCA
*
22368919 TTTTTCCTTCTTTTTTCCT
1 TTTTTTCTTCTTTTTT-CT
22368938 TTTTTT-TTCTTTTTTTCT
1 TTTTTTCTTC-TTTTTTCT
22368956 TTTTTTCCTCTCTTTTTTCT
1 TTTTTT-CT-TCTTTTTTCT
22368976 TTTT
1 TTTT
22368980 CTCCTGGGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 11 0.30
19 11 0.30
20 13 0.35
21 2 0.05
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTCTTCTTTTTTCT
Found at i:22368980 original size:18 final size:17
Alignment explanation
Indices: 22368919--22368980 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
22368909 AATTGAACCA
22368919 TTTTTCCTTCTTTTTTCC
1 TTTTTCCTTCTTTTTT-C
**
22368937 TTTTTTTTTCTTTTTTTC
1 TTTTTCCTTC-TTTTTTC
22368955 TTTTTTTCCTCTCTTTTTTC
1 --TTTTTCCT-TCTTTTTTC
22368975 TTTTTC
1 TTTTTC
22368981 TCCTGGGCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 15 0.42
19 6 0.17
20 13 0.36
21 2 0.06
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCCTTCTTTTTTC
Found at i:22368984 original size:20 final size:19
Alignment explanation
Indices: 22368919--22368984 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 19
22368909 AATTGAACCA
22368919 TTTTTCCT-TCTTTTTTCCT
1 TTTTTCCTCTCTTTTTT-CT
**
22368938 TTTTTTTTCT-TTTTTTCTT
1 TTTTTCCTCTCTTTTTTC-T
22368957 TTTTTCCTCTCTTTTTTCT
1 TTTTTCCTCTCTTTTTTCT
22368976 TTTTCTCCT
1 TTTT-TCCT
22368985 GGGCTAGCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.03
19 26 0.67
20 12 0.31
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTCCTCTCTTTTTTCT
Found at i:22369244 original size:9 final size:9
Alignment explanation
Indices: 22369206--22369252 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
22369196 TAATTTATTT
*
22369206 TTCTATTTC
1 TTCTTTTTC
22369215 TT-TTTTTC
1 TTCTTTTTC
22369223 TT-TTTTTC
1 TTCTTTTTC
22369231 TTTCTTTTTC
1 -TTCTTTTTC
*
22369241 TTCTTCTTC
1 TTCTTTTTC
22369250 TTC
1 TTC
22369253 CTCCTTCTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 13 0.38
9 15 0.44
10 6 0.18
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:22369250 original size:19 final size:19
Alignment explanation
Indices: 22369217--22369269 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
22369207 TCTATTTCTT
* *
22369217 TTTTTCTT-TTTTTCTTTC
1 TTTTTCTTCTTCTTCTTCC
22369235 TTTTTCTTCTTCTTCTTCC
1 TTTTTCTTCTTCTTCTTCC
**
22369254 TCCTTCTTCTTCTTCT
1 TTTTTCTTCTTCTTCT
22369270 AGCCGCGCCG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 8 0.27
19 22 0.73
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTCTTCTTCTTCTTCC
Found at i:22369759 original size:59 final size:59
Alignment explanation
Indices: 22369631--22369760 Score: 167
Period size: 59 Copynumber: 2.2 Consensus size: 59
22369621 TTCTGGGCCG
* *
22369631 AAATGTAATTTTGAAAAATTTTAGGGTCAAAATATAATTTCAAGAAATTTTAGGAGTCA
1 AAATGTAATTTTGAAAAATTTTAGGGTCAAAATATAATTTCAAGAAAGTTGAGGAGTCA
* * *
22369690 AAATGCAATTTT-AAAAATTTTAGGGGTCAAAATGA-AATTTTAA-AAAGTTGAGGGGTCA
1 AAATGTAATTTTGAAAAATTTTA-GGGTCAAAAT-ATAATTTCAAGAAAGTTGAGGAGTCA
22369748 AAATGTAAATTTT
1 AAATGT-AATTTT
22369761 TTATAAAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
58 27 0.44
59 34 0.55
60 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.35
Consensus pattern (59 bp):
AAATGTAATTTTGAAAAATTTTAGGGTCAAAATATAATTTCAAGAAAGTTGAGGAGTCA
Found at i:22369760 original size:30 final size:29
Alignment explanation
Indices: 22369631--22369760 Score: 163
Period size: 29 Copynumber: 4.4 Consensus size: 29
22369621 TTCTGGGCCG
22369631 AAATGTAATTTTGAAAAATTTTA-GGGTCA
1 AAATGTAATTTT-AAAAATTTTAGGGGTCA
* * *
22369660 AAATATAATTTCAAGAAATTTTAGGAGTCA
1 AAATGTAATTTTAA-AAATTTTAGGGGTCA
*
22369690 AAATGCAATTTTAAAAATTTTAGGGGTCA
1 AAATGTAATTTTAAAAATTTTAGGGGTCA
* * *
22369719 AAATGAAATTTTAAAAAGTTGAGGGGTCA
1 AAATGTAATTTTAAAAATTTTAGGGGTCA
22369748 AAATGTAAATTTT
1 AAATGT-AATTTT
22369761 TTATAAAAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
28 2 0.02
29 63 0.72
30 22 0.25
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.35
Consensus pattern (29 bp):
AAATGTAATTTTAAAAATTTTAGGGGTCA
Found at i:22370025 original size:77 final size:77
Alignment explanation
Indices: 22369900--22371107 Score: 1236
Period size: 78 Copynumber: 15.6 Consensus size: 77
22369890 TTTCTTTTTC
* * * * * *
22369900 TTTGAAAAACAGAAA-TTGAAA-ATACCTCGACGTGTGGCCCGAGGCTCAACTCACCTCTAGCAT
1 TTTGAAAAACAGAAATTTAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
22369963 TATGAGTTGATT
66 TATGAGTTGATT
* *
22369975 TTTGAAAAACAGAAATTTAAAAGATACCTCGGTATGTGACCTGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAATTTAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
22370040 TATGAGTTGATT
66 TATGAGTTGATT
* * *
22370052 TTAGAAAAAACTGAAATTTAAAAGAAATACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCG
1 TTTG-AAAAACAGAAATTTAAAAG--ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCG
22370116 CAATATGAGTTGATTTTTCTT
63 CAATATGAGTTGA------TT
* * * *
22370137 TATATGAAAAATAGAAATTTAAAAAAAAAATACCTCAGC--GTGACCCGAGGCTTAACTCACCTC
1 T-T-TGAAAAACAGAAATTT----AAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTC
*
22370200 TCGCAATATGAGTTCATTTT
60 TCGCAATATGAGTTGA--TT
*
22370220 TTTGAAAAACAGAAA-TTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAATTTAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
22370284 TATGAGTTGATT
66 TATGAGTTGATT
* * *
22370296 TTTGAAAAACAGAAATTTAAAAGAAATACATCGGCATGTG-TCCAAGGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAATTTAAAAG--ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGC
*
22370360 AATATAAGTTGATT
64 AATATGAGTTGATT
** * * *
22370374 TTAAAAAAAACAGAAA-TTAAAA-ATACCTCAGC--GTGGCCCGAGGCTCAACTCACTTCTCGCA
1 TT-TGAAAAACAGAAATTTAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCA
*
22370435 TTATGAGTTGATTTTTT
65 ATATGAGTTGA----TT
* * *
22370452 TTTGAAAAATAGAAATTAAAAAAGATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATT-TAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCA
22370517 ATATGAGTTGA-T
65 ATATGAGTTGATT
* * * ** * *
22370529 TTTAAAAAATAG-AATTTGAAA-ATACCTTAG--TGTGACCTGAGGCTCAACTCACCTCTCGCAT
1 TTTGAAAAACAGAAATTTAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
22370590 TATGAGTTGATTTTT
66 TATGAGTTGA---TT
* * * *
22370605 TTTGAAAAACAAAAATTTAAAAGAAATATCTCGGCATGTG-TCCGAGGCTCAACTCACATCTCGC
1 TTTGAAAAACAGAAATTTAAAAG--ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGC
*
22370669 AATATGAGTTCA-T
64 AATATGAGTTGATT
** * * * *
22370682 TTAAAAAAATAGAAATTT-AAA-ATACCTC--AACGTGACCCGAGGCTCAACTCACCTCTCGCAT
1 TTTGAAAAACAGAAATTTAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
22370743 TATGAGTTGATTTT
66 TATGAGTTGA--TT
* * * * *
22370757 TTTGAAAAACAGAAATTAAAAAAATGCCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTAGCAA
1 TTTGAAAAACAGAAATTTAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
*
22370822 TATGATTTGATT
66 TATGAGTTGATT
* *
22370834 TTTGAAAAACGGAAATTTAAAAGAAATACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAATTTAAAAG--ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGC
*
22370898 AATATGAGATGATT
64 AATATGAGTTGATT
** * * *
22370912 TTAAAAAAACAGAAA-TTGAAA-ATACCTC--AACGTGACCCGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAATTTAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
*
22370973 TATTAGTTGA-T
66 TATGAGTTGATT
** * * * **
22370984 TTAAAAAAACAGAAA-TTGAAA-ATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCATAA
1 TTTGAAAAACAGAAATTTAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
22371047 TATGAGTTGATT
66 TATGAGTTGATT
*
22371059 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTG-TCCGAGGCT
1 TTTGAAAAACAGAAATTTAAAAG--ATACCTCGGCATGTGACCCGAGGCT
22371108 GATACGGCCG
Statistics
Matches: 952, Mismatches: 119, Indels: 121
0.80 0.10 0.10
Matches are distributed among these distances:
71 4 0.00
72 104 0.11
73 42 0.04
74 82 0.09
75 55 0.06
76 61 0.06
77 134 0.14
78 158 0.17
79 126 0.13
80 31 0.03
81 43 0.05
82 42 0.04
83 4 0.00
85 3 0.00
86 16 0.02
87 34 0.04
88 9 0.01
90 4 0.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (77 bp):
TTTGAAAAACAGAAATTTAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATT
Found at i:22370615 original size:230 final size:222
Alignment explanation
Indices: 22369900--22371090 Score: 1171
Period size: 230 Copynumber: 5.1 Consensus size: 222
22369890 TTTCTTTTTC
* * * *
22369900 TTTGAAAAACAGAAA-TT-GAAAATACCTCGACGTGTGGCCCGAGGCTCAACTCACCTCTAGCAT
1 TTTGAAAAACAGAAATTTAAAAAATACCTC-A-GCGTGGCCCGAGGCTCAACTCACCTCTCGCAA
* *
22369963 TATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGATACCTCGGTATGTGACCTGAGGCTCAACT
64 TATGAGTTGATTTTTGAAAAACAGAAA-TTAAAA-ATACCTCGG-CTGTGACCCGAGGCTCAACT
* *
22370028 CACCTCTCGCAATATGAGTTGATTTTAGAAAAAACTGAAATTTAAAAGAAATACCTCGGCATGTG
126 CACCTCTCGCAATATGAGTTGATTTT--AAAAAACAGAAATTT--AA-AAATACCTCAG--TGTG
*
22370093 TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCTT
184 ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----T-TT
* * *
22370137 TATATGAAAAATAGAAATTTAAAAAAAAAATACCTCAGCGTGACCCGAGGCTTAACTCACCTCTC
1 T-T-TGAAAAACAGAAATTT----AAAAAATACCTCAGCGTGGCCCGAGGCTCAACTCACCTCTC
*
22370202 GCAATATGAGTTCATTTTTTTGAAAAACAGAAATTAAAAAATACCTCGGCATGTGACCCGAGGCT
60 GCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAATACCTCGGC-TGTGACCCGAGGCT
* * *
22370267 CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACATCGGCA
121 CAACTCACCTCTCGCAATATGAGTTGA-TTTTAAAAAACAGAAATTT--AA-AAATACCTCAG--
* * *
22370332 TGTGTCCAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTT
180 TGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*** * *
22370375 TAAAAAAAACAGAAA-TT-AAAAATACCTCAGCGTGGCCCGAGGCTCAACTCACTTCTCGCATTA
1 TTTGAAAAACAGAAATTTAAAAAATACCTCAGCGTGGCCCGAGGCTCAACTCACCTCTCGCAATA
*
22370438 TGAGTTGATTTTTTTTTGAAAAATAGAAATTAAAAAAGATACCTCGGCGTGTGACCCGAGGCTCA
66 TGAGTTGA----TTTTTGAAAAACAGAAATT--AAAA-ATACCTCGGC-TGTGACCCGAGGCTCA
* * *
22370503 ACTCACCTCTCGCAATATGAGTTGATTTTAAAAAATAG-AATTTGAAAATACCTTAGTGTGACCT
123 ACTCACCTCTCGCAATATGAGTTGATTTTAAAAAACAGAAATTTAAAAATACCTCAGTGTGACC-
*
22370567 GAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
187 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
* * * * * *
22370605 TTTGAAAAACAAAAATTTAAAAGAAATATCTCGGCATGTGTCCGAGGCTCAACTCACATCTCGCA
1 TTTGAAAAACAGAAATTT-AAA-AAATACCTCAGCGTG-GCCCGAGGCTCAACTCACCTCTCGCA
* ** * * **
22370670 ATATGAGTTCA-TTTAAAAAAATAGAAATTTAAAATACCTCAAC-GTGACCCGAGGCTCAACTCA
63 ATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCGGCTGTGACCCGAGGCTCAACTCA
* * * * *
22370733 CCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAAATGCCTCGGCGTGTGACC
128 CCTCTCGCAATATGAGTTGA---TTTTAAAAAACAGAAATT-TAAAAATACCTC--AGTGTGA-C
* *
22370798 CGAGGCTCAACTCACCTCTAGCAATATGATTTGA-TT
186 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * * *
22370834 TTTGAAAAACGGAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTT-AAA-AAATACCTCAGCGTG-GCCCGAGGCTCAACTCACCTCTCGCA
* ** * **
22370899 ATATGAGATGATTTTAAAAAAACAGAAATTGAAAATACCTCAAC-GTGACCCGAGGCTCAACTCA
63 ATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCGGCTGTGACCCGAGGCTCAACTCA
* * *
22370963 CCTCTCGCAATATTAGTTGATTTAAAAAAACAGAAA-TTGAAAATACCTCAGCGTGTGACCCGAG
128 CCTCTCGCAATATGAGTTGATTTTAAAAAACAGAAATTTAAAAATACCTCA--GTGTGA-CCGAG
**
22371027 GCTCAACTCACCTCTCATAATATGAGTTGA-TT
190 GCTCAACTCACCTCTCGCAATATGAGTTGATTT
22371059 TTTGAAAAACAGAAATTTAAAAGAAATACCTC
1 TTTGAAAAACAGAAATTT-AAA-AAATACCTC
22371091 GGCATGTGTC
Statistics
Matches: 834, Mismatches: 84, Indels: 84
0.83 0.08 0.08
Matches are distributed among these distances:
225 119 0.14
226 1 0.00
227 28 0.03
228 44 0.05
229 84 0.10
230 156 0.19
231 2 0.00
232 61 0.07
233 20 0.02
234 63 0.08
235 35 0.04
236 10 0.01
237 1 0.00
238 4 0.00
239 13 0.02
240 2 0.00
243 104 0.12
244 52 0.06
245 35 0.04
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (222 bp):
TTTGAAAAACAGAAATTTAAAAAATACCTCAGCGTGGCCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCGGCTGTGACCCGAGGCTCAACTCACCT
CTCGCAATATGAGTTGATTTTAAAAAACAGAAATTTAAAAATACCTCAGTGTGACCGAGGCTCAA
CTCACCTCTCGCAATATGAGTTGATTT
Found at i:22372782 original size:78 final size:78
Alignment explanation
Indices: 22372531--22376357 Score: 3690
Period size: 78 Copynumber: 49.6 Consensus size: 78
22372521 GGGCGTATCA
* ** * * *
22372531 GAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTAAAAAAACATAAA-TT--GAAACTACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCT
*
22372592 CAGC--GTGACCC
66 CGGCATGTGACCC
* *
22372603 GAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACA-AAAATTAAAAAAATA-
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAAAATAC
*
22372666 CTCCGGCGTGTGACCC
64 CT-CGGCATGTGACCC
* *
22372682 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGTAAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACC
* *
22372747 TCGGCATGTG-TCT
65 TCGGCATGTGACCC
* * *** *
22372760 AAGGCTCAACTCACCTCTCGCAATATGCGTTGATTTAAAAAAAAACAGAAA-TT--GAAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTGAAAAACAGAAATTTAAAAAAATACC
*
22372822 TCAGC--GTGACCC
65 TCGGCATGTGACCC
* * * * * *
22372834 GACGCTCAACTCACTTCTCGCATTATAAGTTGATTTTTTTTTTGAAAAATAGAAA-TTAAGAAAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTGAAAAACAGAAATTTAA-AAAA
* *
22372898 ATACCTCAGCGTGTGACCC
60 ATACCTCGGCATGTGACCC
* *
22372917 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAAAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACC
*
22372982 TCGGCATGTG-TCC
65 TCGGCATGTGACCC
* *** * * *
22372995 GAGGCTCAAGTCACCTCTCGCAATATGAGTTGATTTAAAAAAAATAGAAA-TT--GAAACTACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCT
*
22373057 CAGC--GTGACCC
66 CGGCATGTGACCC
*
22373068 GAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA-TT-AAAAAATAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAAAATAC
* *
22373131 CCCGGCGTGTGACCC
64 CTCGGCATGTGACCC
* * * * *
22373146 GAAGCTCAACTCACATTTCGTAATATGAGTTGAATTTTGAAAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACC
* *
22373211 TCCGCATGTG-TCC
65 TCGGCATGTGACCC
* * * **** **
22373224 AAGGCTTAACTCACCTCTCGCAATATGAGTTAAATTAAAAAAAAAAACA-AAACATAAATTGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTT-GATT--TTTGAAAAACAGAAATTTAAA---AAA
* *
22373288 ATACCTCAGC--GTGACTC
60 ATACCTCGGCATGTGACCC
* * *
22373305 GAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTTTTGAAAAATAGAAA-TTAAAAAAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTGAAAAACAGAAATTTAAAAAA-
** *
22373369 ATACCTTAGCGTGTGACCC
60 ATACCTCGGCATGTGACCC
* *
22373388 GAGGCTCAACTCACCTCTCGCAATCTGAGTTCATTTTTGAAAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACC
*
22373453 TCGGCATGTG-TCC
65 TCGGCATGTGACCC
* * * *
22373466 GAGGCTCAACTCACCTCTCGAAATATGAGTTGATTTTTAAAAAAAAAGAAA-TT--GAAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-GAAAAACAGAAATTTAAAAAAATACC
*
22373528 TCAGC--GTGACCC
65 TCGGCATGTGACCC
*
22373540 GAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTGAAAAACAGAAATTTAAAAGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAACAGAAATTTAAAA-AAA
* *
22373605 TACTTCGGCATGTG-TCC
61 TACCTCGGCATGTGACCC
* ** *
22373622 GAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTAAAAAAATAGAAATTT---AAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCT
**
22373684 TAGC--GTGACCC
66 CGGCATGTGACCC
* *
22373695 GAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTTTGAAAAACAGAAA-TTAAAAAAATAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAAAATAC
* * * *
22373759 TTCAGCGTGTGACTC
64 CTCGGCATGTGACCC
* * *
22373774 GAGGCTCAACGCACCTTTCGCAATAAGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACC
*
22373839 TCGGCATGTG-TCC
65 TCGGCATGTGACCC
*** *
22373852 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAAAAACAGAAA-TT--CAAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTGAAAAACAGAAATTTAAAAAAATACC
*
22373914 TCAGC--GTGACCC
65 TCGGCATGTGACCC
22373926 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-AAAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCT
*
22373989 CGGCGTGTGACCC
66 CGGCATGTGACCC
22374002 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACC
*
22374067 TCGGCATGTG-TCC
65 TCGGCATGTGACCC
* ** *
22374080 AAGGCTCAACTCACCTCTCGCAATATGAGTT-ATTTTAAAAAAAAAACAGAAA-TT--GAAAATA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT---TGAAAAACAGAAATTTAAAAAAATA
*
22374141 CCTCAGCA--TGACCC
63 CCTCGGCATGTGACCC
* * * *
22374155 GAGGCTCAACGCACTTCTCGCATTATGAGTTGATTTTTTTTTTTGAAAAATAGAAA-TTAAAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA------TTTTTGAAAAACAGAAATTTAAAAAA
*
22374219 GATACCTCGGCGTGTGACCC
60 -ATACCTCGGCATGTGACCC
* *
22374239 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACC
* *
22374304 TTGGCATGTG-TCC
65 TCGGCATGTGACCC
* ** *
22374317 GAGGCTCAACTCACCTCTCGCAATATTAGTTGA-TTTAAAAAAACAGAAA-TT--GAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCT
*
22374378 CAGC--GTGACCC
66 CGGCATGTGACCC
* * * * *
22374389 AAGGCTCAACTCACCTCTCGCATTTTGAGTTGATATTTTTTGAAGAACAGGAATTTAAAAGAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTG--A-TTTTTGAAAAACAGAAATTTAAAA-AAAT
* *
22374454 ACCTCGACATGTG-TCC
62 ACCTCGGCATGTGACCC
* * * * * **
22374470 GAGGCTCCACTCTCCTCTTGCAATATGAGTTCATTCTAAAAAAACAGAAATTT---AAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCT
*
22374532 CGGCGTGTGACCC
66 CGGCATGTGACCC
22374545 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACC
*
22374610 TCGGCATGTG-TCC
65 TCGGCATGTGACCC
* * **
22374623 AAGGCTCAACTCACCGCTCGCAATATGAGTT-ATTTTT-AAAAA-A-AAATAGAAATTGAAAATA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAA---AAAATA
*
22374684 CCTCAGCA--TGACCC
63 CCTCGGCATGTGACCC
* * *
22374698 GAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTTTGAAAAATAGAAA-TTAAAAAAGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAACAGAAATTTAAAAAA-A
*
22374762 TACCTCGGCGTGTGACCC
61 TACCTCGGCATGTGACCC
*
22374780 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACC
*
22374845 TCGGCATGTG-TCC
65 TCGGCATGTGACCC
* ***
22374858 GAGGCTCAACTCACCTCTCGCAATATTAGTTGATTTAAAAAAAACAGAAA-TT--AAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCT
*
22374920 CAGC--GTGACCC
66 CGGCATGTGACCC
* * * *
22374931 AAGGCTCAACTCACCTCTCGCATTTTGAGTTGATATTTTTTTTTGAAGAACAGAAATTTAAAAGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTG--A----TTTTTGAAAAACAGAAATTTAAAA-A
*
22374996 AATACCTCGGCATGTG-TCC
59 AATACCTCGGCATGTGACCC
* * * * * **
22375015 GAGGCTCCACTCTCCTCTTGCAATATGAGTTCATTCTAAAAAAACAGAAATTT---AAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCT
*
22375077 CAGCA--TGACCC
66 CGGCATGTGACCC
* * * * *
22375088 GAGGCTCTACTCACCTCTCACATTATGAGTTGATTTTTTTTGAAAAACAAAAATTAAAAAAAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAACAGAAATT-TAAAAAAAT
* *
22375153 ATCTCGGCGTGTG-CCC
62 ACCTCGGCATGTGACCC
* *
22375169 GTGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACC
* *
22375234 TCGGCATGTG-TCT
65 TCGGCATGTGACCC
* ** *
22375247 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTAAAAAAACAGAAA-TT--GAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCT
*
22375309 CAGC--GTGACCC
66 CGGCATGTGACCC
* * *
22375320 GGGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA-TTAGAAAAATAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAAAATAC
* * *
22375384 TTCAGCGTGTGACCC
64 CTCGGCATGTGACCC
* * *
22375399 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTTAAAAGAAATACT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACC
*
22375464 TCGGCATGTG-TCC
65 TCGGCATGTGACCC
*** * *
22375477 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAAAAACAGAAA-TT--GAAACTACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTGAAAAACAGAAATTTAAAAAAATACC
*
22375539 TCAGC--GTGACCC
65 TCGGCATGTGACCC
22375551 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA-TT-AAAAAATAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAAAATAC
* *
22375614 CCCAGCATGTGACCC
64 CTCGGCATGTGACCC
*
22375629 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACC
*
22375694 TCGGCATGTG-TCC
65 TCGGCATGTGACCC
* * *** *
22375707 AAGGCTCAACTCACCTCTCGCAATATGAGTTAAATTTAAAAAAAACAGAAA-TT--GAAAATA-C
1 GAGGCTCAACTCACCTCTCGCAATATGAGTT-GATTTTTGAAAAACAGAAATTTAAAAAAATACC
*
22375768 TCAGC--GTGACCC
65 TCGGCATGTGACCC
* * * *
22375780 GAGGCTCAACTCACTTCTCGTATTATGAGTTGATTTTTTTTTGAAAAATAGAAA-TTAAAAAAGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAACAGAAATTTAAAAAA-A
* *
22375844 TACATCGGCGTGTGACCC
61 TACCTCGGCATGTGACCC
**
22375862 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAAAAAAACAGAAATTT---AAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCT
*
22375923 CAGC--GTGACCC
66 CGGCATGTGACCC
* * * * *
22375934 GAGGCTCAACTCACTTCTCGTATTATGAGTTGATTTTTTTGAAAAACA-AAAATT-AAAAAATAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAAAATAC
*
22375997 CTCGGCGTGTGACCC
64 CTCGGCATGTGACCC
** *
22376012 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAAAAAAATAGAAATTT---AAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCT
*
22376073 CAGCA--TGACCC
66 CGGCATGTGACCC
* * * *
22376084 GAGGCTTAACTCACCTCTCGTATTATGAGTTGATTTTTTTGAAAAACAGAAA-TTAAAAAAAAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAAAATAC
* *
22376148 CTCGACGTGTGACCC
64 CTCGGCATGTGACCC
*
22376163 GAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACC
*
22376228 TCGGCATGTG-TCC
65 TCGGCATGTGACCC
* *** * *
22376241 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTAAAAAAAACAGAAA-TT--GAAACTACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCT
*
22376303 CAGC--GTGACCC
66 CGGCATGTGACCC
*
22376314 GAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
22376358 AACGGAAATT
Statistics
Matches: 3103, Mismatches: 443, Indels: 417
0.78 0.11 0.11
Matches are distributed among these distances:
71 3 0.00
72 155 0.05
73 259 0.08
74 272 0.09
75 269 0.09
76 212 0.07
77 172 0.06
78 811 0.26
79 431 0.14
80 75 0.02
81 132 0.04
82 142 0.05
83 100 0.03
84 65 0.02
85 5 0.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (78 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCT
CGGCATGTGACCC
Found at i:22372843 original size:152 final size:154
Alignment explanation
Indices: 22372531--22376375 Score: 3572
Period size: 157 Copynumber: 24.9 Consensus size: 154
22372521 GGGCGTATCA
* ** *
22372531 GAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTAAAAAAACATAAA-TT----GAAACTAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAA-TAC
* * *
22372590 CTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAAA
65 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGA
22372653 AATTAAAAAAATA-CTCCGGCGTGTGACCC
128 AATT-AAAAAATACCT-CGGC-TGTGACCC
* *
22372682 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGTAAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
* ** * ***
22372747 TCGGCATGTG-TCTAAGGCTCAACTCACCTCTCGCAATATGCGTTGATTTAAAAAAAAACAGAAA
66 TCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTGAAAAACAGAAA
* *
22372811 TT-GAAAATACCTCAGC-GTGACCC
130 TTAAAAAATACCTCGGCTGTGACCC
* * * * *
22372834 GACGCTCAACTCACTTCTCGCATTATAAGTTGATTTTTTTTTTGAAAAATAGAAA-TTAAGAA-A
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTGAAAAACAGAAATTTAA-AAGA
* * * *
22372897 GATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAAC
60 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
* *
22372962 AAAAATTTAAAAGAAATACCTCGGCATGTG-TCC
125 AGAAA-TT-AAA-AAATACCTCGGC-TGTGACCC
* *** *
22372995 GAGGCTCAAGTCACCTCTCGCAATATGAGTTGATTTAAAAAAAATAGAAA-TT----GAAACTAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAA-TAC
* *
22373055 CTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGA
65 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGA
*
22373118 AATTAAAAAATACCCCGGCGTGTGACCC
128 AATTAAAAAATACCTCGGC-TGTGACCC
* * * * *
22373146 GAAGCTCAACTCACATTTCGTAATATGAGTTGAATTTTGAAAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
* * * * * **** *
22373211 TCCGCATGTG-TCCAAGGCTTAACTCACCTCTCGCAATATGAGTTAAATTAAAAAAAAAAACAAA
66 TCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-GATT--TTTGAAAAACAGA
* * *
22373275 ACATAAATTGAAAATACCTCAGC-GTGACTC
128 A-ATTAA---AAAATACCTCGGCTGTGACCC
* * *
22373305 GAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTTTTGAAAAATAGAAA-TTAAAA-AA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTGAAAAACAGAAATTTAAAAGAA
** * * *
22373368 GATACCTTAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATCTGAGTTCATTTTTGAAAAAC
61 -ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
*
22373433 AGAAATTTAAAAGAAATACCTCGGCATGTG-TCC
125 AGAAA-TT-AAA-AAATACCTCGGC-TGTGACCC
* * * *
22373466 GAGGCTCAACTCACCTCTCGAAATATGAGTTGATTTTTAAAAAAAAAGAAA-TT--GA-AAATAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-GAAAAACAGAAATTTAAAAGAAATAC
* *
22373527 CTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTGAAAAACA
65 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAACA
* *
22373590 GAAATTTAAAAGAAATACTTCGGCATGTG-TCC
126 GAAA-TT-AAA-AAATACCTCGGC-TGTGACCC
* ** *
22373622 GAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTAAAAAAATAGAAATTT---A-AAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
** * *
22373683 TTAGC--GTGACCCGAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTTTGAAAAACAGAA
66 TCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAA
* * *
22373746 ATTAAAAAAATACTTCAGCGTGTGACTC
129 ATT-AAAAAATACCTCGGC-TGTGACCC
* * *
22373774 GAGGCTCAACGCACCTTTCGCAATAAGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
* ***
22373839 TCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAAAAACAGAAA
66 TCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTGAAAAACAGAAA
* *
22373903 TT-CAAAATACCTCAGC-GTGACCC
130 TTAAAAAATACCTCGGCTGTGACCC
22373926 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-AAA-AAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
*
22373988 TCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAT
66 TCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-
*
22374053 TTAAAAGAAATACCTCGGCATGTG-TCC
130 TT-AAA-AAATACCTCGGC-TGTGACCC
* ** *
22374080 AAGGCTCAACTCACCTCTCGCAATATGAGTT-ATTTTAAAAAAAAAACAGAAA-TT--GA-AAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT---TGAAAAACAGAAATTTAAAAGAAAT
* * * *
22374140 ACCTCAGCA--TGACCCGAGGCTCAACGCACTTCTCGCATTATGAGTTGATTTTTTTTTTTGAAA
63 ACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA------TTTTTGAAA
*
22374203 AATAGAAATTAAAAAAGATACCTCGGCGTGTGACCC
122 AACAGAAATT-AAAAA-ATACCTCGGC-TGTGACCC
* *
22374239 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
* * * **
22374304 TTGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATTAGTTGA-TTTAAAAAAACAGAAAT
66 TCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAT
* *
22374367 T-GAAAATACCTCAGC-GTGACCC
131 TAAAAAATACCTCGGCTGTGACCC
* * * * *
22374389 AAGGCTCAACTCACCTCTCGCATTTTGAGTTGATATTTTTTGAAGAACAGGAATTTAAAAGAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTG--A-TTTTTGAAAAACAGAAATTTAAAAGAAAT
* * * * * * * **
22374454 ACCTCGACATGTG-TCCGAGGCTCCACTCTCCTCTTGCAATATGAGTTCATTCTAAAAAAACAGA
63 ACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGA
*
22374518 AATT-TAAAATACCTCGGCGTGTGACCC
128 AATTAAAAAATACCTCGGC-TGTGACCC
22374545 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
* * * * *
22374610 TCGGCATGTG-TCCAAGGCTCAACTCACCGCTCGCAATATGAGTT-ATTTTTAAAAAAAAATAGA
66 TCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT---GAAAAACAGA
* * *
22374673 AATT-GAAAATACCTCAGC-ATGACCC
128 AATTAAAAAATACCTCGGCTGTGACCC
* * *
22374698 GAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTTTGAAAAATAGAAA-TTAAAA-AAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAACAGAAATTTAAAAGAA-
* *
22374761 ATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACA
61 ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
*
22374826 GAAATTTAAAAGAAATACCTCGGCATGTG-TCC
126 GAAA-TT-AAA-AAATACCTCGGC-TGTGACCC
* ***
22374858 GAGGCTCAACTCACCTCTCGCAATATTAGTTGATTTAAAAAAAACAGAAA-TT--AA-AAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
* * * * *
22374919 TCAGC--GTGACCCAAGGCTCAACTCACCTCTCGCATTTTGAGTTGATATTTTTTTTTGAAGAAC
66 TCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG--A----TTTTTGAAAAAC
*
22374982 AGAAATTTAAAAGAAATACCTCGGCATGTG-TCC
125 AGAAA-TT-AAA-AAATACCTCGGC-TGTGACCC
* * * * * **
22375015 GAGGCTCCACTCTCCTCTTGCAATATGAGTTCATTCTAAAAAAACAGAAATTT---A-AAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
* * * * *
22375076 TCAGCA--TGACCCGAGGCTCTACTCACCTCTCACATTATGAGTTGATTTTTTTTGAAAAACAAA
66 TCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAACAGA
*
22375139 AATTAAAAAAAAATATCTCGGCGTGTG-CCC
128 AATT---AAAAAATACCTCGGC-TGTGACCC
* *
22375169 GTGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
* * * **
22375234 TCGGCATGTG-TCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTAAAAAAACAGAAAT
66 TCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAT
* *
22375298 T-GAAAATACCTCAGC-GTGACCC
131 TAAAAAATACCTCGGCTGTGACCC
* * *
22375320 GGGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA-TTAGAA-AAATA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAGAAATA
* * * * *
22375383 CTTCAGCGTGTGACCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAA
64 CCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAA
* *
22375448 ATTTAAAAGAAATACTTCGGCATGTG-TCC
129 A-TT-AAA-AAATACCTCGGC-TGTGACCC
***
22375477 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAAAAACAGAAA-TT----GAAACTA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTGAAAAACAGAAATTTAAAAGAAA-TA
*
22375537 CCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAG
64 CCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAG
* *
22375600 AAATTAAAAAATACCCCAGCATGTGACCC
127 AAATTAAAAAATACCTCGGC-TGTGACCC
*
22375629 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
* * * ***
22375694 TCGGCATGTG-TCCAAGGCTCAACTCACCTCTCGCAATATGAGTTAAATTTAAAAAAAACAGAAA
66 TCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-GATTTTTGAAAAACAGAAA
* *
22375758 TT-GAAAATA-CTCAGC-GTGACCC
130 TTAAAAAATACCTCGGCTGTGACCC
* * * *
22375780 GAGGCTCAACTCACTTCTCGTATTATGAGTTGATTTTTTTTTGAAAAATAGAAA-TTAAAA-AAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAACAGAAATTTAAAAGAA-
* * **
22375843 ATACATCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAAAAAAACA
61 ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
* *
22375907 GAAATT-TAAAATACCTCAGC-GTGACCC
126 GAAATTAAAAAATACCTCGGCTGTGACCC
* * * *
22375934 GAGGCTCAACTCACTTCTCGTATTATGAGTTGATTTTTTTGAAAAACA-AAAATT-AAA-AAATA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAGAAATA
* * ** *
22375996 TCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAAAAAAATAGAA
64 CCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAA
* * *
22376060 ATT-TAAAATACCTCAGC-ATGACCC
129 ATTAAAAAATACCTCGGCTGTGACCC
* * * *
22376084 GAGGCTTAACTCACCTCTCGTATTATGAGTTGATTTTTTTGAAAAACAGAAA-TTAAAA-AAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAGAAATA
* * *
22376147 CCTCGACGTGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAGAA
64 CCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAA
*
22376212 ATTTAAAAGAAATACCTCGGCATGTG-TCC
129 A-TT-AAA-AAATACCTCGGC-TGTGACCC
* ***
22376241 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTAAAAAAAACAGAAA-TT----GAAACTAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAA-TAC
* * *
22376301 CTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACGGA
65 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAAAACAGA
*
22376364 AATTGAAAAATA
128 AATTAAAAAATA
22376376 TTTCTTGAAA
Statistics
Matches: 3152, Mismatches: 366, Indels: 353
0.81 0.09 0.09
Matches are distributed among these distances:
149 27 0.01
150 236 0.07
151 386 0.12
152 390 0.12
153 358 0.11
154 273 0.09
155 248 0.08
156 379 0.12
157 407 0.13
158 58 0.02
159 124 0.04
160 63 0.02
161 94 0.03
162 41 0.01
163 23 0.01
164 45 0.01
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (154 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
TCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAT
TAAAAAATACCTCGGCTGTGACCC
Found at i:22373849 original size:230 final size:227
Alignment explanation
Indices: 22372531--22376357 Score: 3876
Period size: 230 Copynumber: 16.5 Consensus size: 227
22372521 GGGCGTATCA
* * * *
22372531 GAGGCTCAACTCACCTCTCACAATATGAGTTGA---TTTAAAAAAACATAAATTGAAACTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAACAGAAATTAAAAATACCTC
*
22372593 AGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACA-AAAATT
66 AGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA--TTTTTGAAAAACAGAAATTT
*
22372657 AAAAAAATA-CTCCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT-
129 AAAAAAATACCT-CGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTA
** * * *
22372720 GTAAAACAGAAATTTAAAAGAAATACCTCGGCATGTG-TCT
192 AAAAAACAGAAATTT---A-AAATACCTCAGC-TGTGACCC
* * ** *
22372760 AAGGCTCAACTCACCTCTCGCAATATGCGTTGA-TTTAAAAAAAAACAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAACAGAAATTAAAAATACCTC
* * * *
22372824 AGCGTGACCCGACGCTCAACTCACTTCTCGCATTATAAGTTGATTTTTTTTTTGAAAAATAGAAA
66 AGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-----TTTTTGAAAAACAGAAA
* * * *
22372889 -TTAAGAAAGATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTT
126 TTTAA-AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
** * * *
22372953 TTGAAAAACAAAAATTTAAAAGAAATACCTCGGCATGTG-TCC
190 TAAAAAAACAGAAATTT---A-AAATACCTCAGC-TGTGACCC
* * * * *
22372995 GAGGCTCAAGTCACCTCTCGCAATATGAGTTGA--TTTAAAAAAAATAGAAATTGAAACTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAACAGAAATTAAAAATACCTC
22373058 AGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA-TT
66 AGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA--TTTTTGAAAAACAGAAATTT
* * * * * * *
22373122 -AAAAAATACCCCGGCGTGTGACCCGAAGCTCAACTCACATTTCGTAATATGAGTTGAATTTT-G
129 AAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTAA
* *
22373185 AAAAACAGAAATTTAAAAGAAATACCTCCGCATGTG-TCC
193 AAAAACAGAAATTT---A-AAATACCTCAGC-TGTGACCC
* * * **** * *
22373224 AAGGCTTAACTCACCTCTCGCAATATGAGTTAAATTAAAAAAAAAAACAAAACATAAATTGAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTT-GATT----TTTTAAA-AAAACAGAAATTAAAAA
* *
22373289 TACCTCAGCGTGACTCGAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTTTTGAAAAA
60 TACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-----TTTTTGAAAAA
* ** * *
22373354 TAGAAA-TTAAAAAAGATACCTTAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATCTGAGT
120 CAGAAATTTAAAAAA-ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
* ** * *
22373418 TCATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTG-TCC
184 TGATTTTAAAAAAACAGAAATTT---A-AAATACCTCAGC-TGTGACCC
* * *
22373466 GAGGCTCAACTCACCTCTCGAAATATGAGTTGA-TTTTTAAAAAAAAAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAACAGAAATTAAAAATACCTC
22373530 AGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTGAAAAACAGAAAT
66 AGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA----TTTTTGAAAAACAGAAAT
* * *
22373595 TTAAAAGAAATACTTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTT
127 TTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
22373659 AAAAAAATAGAAATTTAAAATACCTTAGC-GTGACCC
191 AAAAAAACAGAAATTTAAAATACCTCAGCTGTGACCC
* * ** *
22373695 GAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAAATACT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAACAGAAATT--AAAAATACC
* * * * *
22373760 TCAGCGTGTGACTCGAGGCTCAACGCACCTTTCGCAATAAGAGTTGATTTTTGAAAAACAGAAAT
64 TCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAAT
*
22373825 TTAAAAGAAATACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTA
127 TTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-
* *
22373889 AAAAAAAACAGAAATTCAAAATACCTCAGC-GTGACCC
190 TAAAAAAACAGAAATTTAAAATACCTCAGCTGTGACCC
*
22373926 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-GAAAAACAGAAATTAAAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAACAGAAATT-AAAAATACCT
* *
22373989 CGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
65 CAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATT
* *
22374054 TAAAAGAAATACCTCGGCATGTG-TCCAAGGCTCAACTCACCTCTCGCAATATGAGTT-ATTTTA
128 TAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-
* *
22374117 AAAAAAAAACAGAAATTGAAAATACCTCAGC-ATGACCC
191 --AAAAAAACAGAAATTTAAAATACCTCAGCTGTGACCC
* * * ** *
22374155 GAGGCTCAACGCACTTCTCGCATTATGAGTTGATTTTTTTTTTTGAAAAATAGAAATTAAAAAAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTAAAAAAACAGAAATT--AAAA-
* * *
22374220 ATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACA
59 ATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACA
* * * *
22374285 GAAATTTAAAAGAAATACATTGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATTAGTTG
122 GAAATTTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
22374349 A-TTTAAAAAAACAGAAATTGAAAATACCTCAGC-GTGACCC
186 ATTTTAAAAAAACAGAAATTTAAAATACCTCAGCTGTGACCC
* * * ** * *
22374389 AAGGCTCAACTCACCTCTCGCATTTTGAGTTGATATTTTTTGAAGAACAGGAATTTAAAAGAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTTAAAAAAACA-GAAATT--AA-AAAT
* * * * * * * **
22374454 ACCTC-GACATGTG-TCCGAGGCTCCACTCTCCTCTTGCAATATGAGTTCATTCTAAAAAAACAG
61 ACCTCAG-C--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAG
*
22374517 AAATTT---AAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
123 AAATTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
** * *
22374579 TTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTG-TCC
188 TTTAAAAAAACAGAAATTT---A-AAATACCTCAGC-TGTGACCC
* * * * *
22374623 AAGGCTCAACTCACCGCTCGCAATATGAGTT-ATTTTTAAAAAAAAATAGAAATTGAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TAAAAAAACAGAAATTAAAAATACCT
* * *
22374687 CAGCATGACCCGAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTTTGAAAAATAGAAA
65 CAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA----TTTTTGAAAAACAGAAA
* *
22374752 -TTAAAAAAGATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTT
126 TTTAAAAAA-ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
** * *
22374816 TTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTG-TCC
190 TAAAAAAACAGAAATTT---A-AAATACCTCAGC-TGTGACCC
* *
22374858 GAGGCTCAACTCACCTCTCGCAATATTAGTTGA--TTTAAAAAAAACAGAAATTAAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAACAGAAATTAAAAATACCTC
* * *
22374921 AGCGTGACCCAAGGCTCAACTCACCTCTCGCATTTTGAGTTGATATTTTTTTTTGAAGAACAGAA
66 AGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTG--A----TTTTTGAAAAACAGAA
* * * * *
22374986 ATTTAAAAGAAATACCTCGGCATGTG-TCCGAGGCTCCACTCTCCTCTTGCAATATGAGTTCATT
125 ATTTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* *
22375050 CTAAAAAAACAGAAATTTAAAATACCTCAGC-ATGACCC
189 TTAAAAAAACAGAAATTTAAAATACCTCAGCTGTGACCC
* * * ** *
22375088 GAGGCTCTACTCACCTCTCACATTATGAGTTGATTTTTTTTGAAAAACAAAAATTAAAAAAAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTAAAAAAACAGAAATT----AAAAAT
* * * * * *
22375153 ATCTCGGCGTGTGCCCGTGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAGAA
61 ACCTCAGCGTG-ACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAA
* * *
22375218 ATTTAAAAGAAATACCTCGGCATGTG-TCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATT
125 ATTTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
22375282 TTAAAAAAACAGAAATTGAAAATACCTCAGC-GTGACCC
189 TTAAAAAAACAGAAATTTAAAATACCTCAGCTGTGACCC
* * ** *
22375320 GGGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAGAAAAATACT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAACAGAAATT--AAAAATACC
* * *
22375385 TCAGCGTGTGACCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAT
64 TCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAAT
* *
22375450 TTAAAAGAAATACTTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTA
127 TTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-
* * *
22375514 AAAAAAAACAGAAATTGAAACTACCTCAGC-GTGACCC
190 TAAAAAAACAGAAATTTAAAATACCTCAGCTGTGACCC
** *
22375551 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAATACCC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAACAGAAATT-AAAAATACCT
*
22375616 CAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
65 CAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATT
* * * * *
22375681 TAAAAGAAATACATCGGCATGTG-TCCAAGGCTCAACTCACCTCTCGCAATATGAGTTAAATTTA
128 TAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-GATTTT
*
22375745 AAAAAAACAGAAATTGAAAATA-CTCAGC-GTGACCC
191 AAAAAAACAGAAATTTAAAATACCTCAGCTGTGACCC
* * * ** *
22375780 GAGGCTCAACTCACTTCTCGTATTATGAGTTGATTTTTTTTTGAAAAATAGAAATTAAAAAAGAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTAAAAAAACAGAAATT--AAAA-AT
* * * **
22375845 ACATCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAAAAAAACAGA
61 ACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGA
* * * *
22375909 AATTT---AAAATACCTCAGC--GTGACCCGAGGCTCAACTCACTTCTCGTATTATGAGTTGATT
124 AATTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
** * * * *
22375969 TTTTTGAAAAACAAAAATTAAAAAATATCTCGGCGTGTGACCC
187 TTTTAAAAAAACAGAAATT-TAAAATACCTCAGC-TGTGACCC
* *
22376012 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTAAAAAAATAGAAATTTAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAACAGAAATTAAAAATACCTC
* * *
22376074 AGCATGACCCGAGGCTTAACTCACCTCTCGTATTATGAGTTGATTTTTTTGAAAAACAGAAA-TT
66 AGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA--TTTTTGAAAAACAGAAATTT
* * * * **
22376138 AAAAAAAAACCTCGACGTGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGA
129 AAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAA
* *
22376203 AAAACAGAAATTTAAAAGAAATACCTCGGCATGTG-TCC
194 AAAACAGAAATTT---A-AAATACCTCAGC-TGTGACCC
* * * *
22376241 GAGGCTCAACTCACCTCTCGCAATATAAGTTGA--TTTAAAAAAAACAGAAATTGAAACTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAACAGAAATTAAAAATACCTC
22376304 AGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAA
66 AGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAA
22376358 AACGGAAATT
Statistics
Matches: 3174, Mismatches: 314, Indels: 221
0.86 0.08 0.06
Matches are distributed among these distances:
222 36 0.01
224 10 0.00
225 17 0.01
226 4 0.00
227 93 0.03
228 229 0.07
229 414 0.13
230 494 0.16
231 357 0.11
232 256 0.08
233 146 0.05
234 299 0.09
235 405 0.13
236 38 0.01
237 204 0.06
238 31 0.01
240 21 0.01
241 11 0.00
242 109 0.03
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (227 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAACAGAAATTAAAAATACCTC
AGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTTAA
AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAA
AACAGAAATTTAAAATACCTCAGCTGTGACCC
Found at i:22376965 original size:21 final size:20
Alignment explanation
Indices: 22376928--22376985 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
22376918 TTTCATCTTA
*
22376928 ATTTTTTTCTT-TTTTTTTT
1 ATTTTTTTTTTGTTTTTTTT
22376947 ATTTTTGTTTTTG-TTTTTTT
1 ATTTTT-TTTTTGTTTTTTTT
* *
22376967 GTTTTTTTTTTGTGTTTTT
1 ATTTTTTTTTTGTTTTTTT
22376986 AGGCATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 12 0.36
20 21 0.64
ACGTcount: A:0.03, C:0.02, G:0.09, T:0.86
Consensus pattern (20 bp):
ATTTTTTTTTTGTTTTTTTT
Found at i:22376976 original size:19 final size:19
Alignment explanation
Indices: 22376928--22376986 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
22376918 TTTCATCTTA
22376928 ATTTTTTTCTTT-TTTTTTT
1 ATTTTTTT-TTTGTTTTTTT
22376947 ATTTTTGTTTTTGTTTTTTT
1 ATTTTT-TTTTTGTTTTTTT
* *
22376967 GTTTTTTTTTTGTGTTTTT
1 ATTTTTTTTTTGTTTTTTT
22376986 A
1 A
22376987 GGCATAATAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 21 0.60
20 14 0.40
ACGTcount: A:0.05, C:0.02, G:0.08, T:0.85
Consensus pattern (19 bp):
ATTTTTTTTTTGTTTTTTT
Found at i:22376978 original size:11 final size:11
Alignment explanation
Indices: 22376929--22376985 Score: 62
Period size: 11 Copynumber: 5.2 Consensus size: 11
22376919 TTCATCTTAA
*
22376929 TTTTTTTCTTT
1 TTTTTTTGTTT
*
22376940 TTTTTTTATTT
1 TTTTTTTGTTT
22376951 TTGTTTTTGTTT
1 TT-TTTTTGTTT
*
22376963 TTTTGTT-TTT
1 TTTTTTTGTTT
*
22376973 TTTTTGTGTTT
1 TTTTTTTGTTT
22376984 TT
1 TT
22376986 AGGCATAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
10 8 0.21
11 21 0.54
12 10 0.26
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.88
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:22376985 original size:1 final size:1
Alignment explanation
Indices: 22376929--22376977 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
22376919 TTCATCTTAA
* * * * *
22376929 TTTTTTTCTTTTTTTTTTATTTTTGTTTTTGTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22376978 GTGTTTTTAG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.02, C:0.02, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Found at i:22383000 original size:40 final size:40
Alignment explanation
Indices: 22382945--22383045 Score: 166
Period size: 40 Copynumber: 2.5 Consensus size: 40
22382935 AATTTCAGAA
22382945 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
* * *
22382985 CACCGGTATTAAGCCTACTAGACATTAAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
*
22383025 CACCAGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
22383046 GTACAAAACC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
Found at i:22388016 original size:21 final size:20
Alignment explanation
Indices: 22387991--22388052 Score: 83
Period size: 21 Copynumber: 3.1 Consensus size: 20
22387981 AATTAAACCA
22387991 TTTTTCCTTCTTTTTTCCTTT
1 TTTTTCCTTCTTTTTT-CTTT
22388012 TTTTT-CTT-TTTTTTCTTT
1 TTTTTCCTTCTTTTTTCTTT
*
22388030 TTTTCCCTCTCTTTTTTCTTT
1 TTTTTCCT-TCTTTTTTCTTT
22388051 TT
1 TT
22388053 CTACTAGGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 8 0.22
19 8 0.22
20 4 0.11
21 17 0.46
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTCCTTCTTTTTTCTTT
Found at i:22388021 original size:8 final size:9
Alignment explanation
Indices: 22387991--22388052 Score: 61
Period size: 9 Copynumber: 6.3 Consensus size: 9
22387981 AATTAAACCA
*
22387991 TTTTTCCTT
1 TTTTTTCTT
22388000 CTTTTTTCCTT
1 -TTTTTT-CTT
22388011 TTTTTTCTT
1 TTTTTTCTT
22388020 TTTTTTCTT
1 TTTTTTCTT
*
22388029 TTTTTCCCTCTC
1 TTTTT---TCTT
22388041 TTTTTTCTT
1 TTTTTTCTT
22388050 TTT
1 TTT
22388053 CTACTAGGCT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
9 23 0.51
10 11 0.24
11 3 0.07
12 8 0.18
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:22388232 original size:16 final size:15
Alignment explanation
Indices: 22388197--22388231 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
22388187 GTTTTTTTTC
22388197 TTTTTCTGCTTTGTT
1 TTTTTCTGCTTTGTT
22388212 TTTTTCTGCTTTGTT
1 TTTTTCTGCTTTGTT
22388227 TTTTT
1 TTTTT
22388232 TTGGGCCGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.77
Consensus pattern (15 bp):
TTTTTCTGCTTTGTT
Found at i:22388346 original size:8 final size:8
Alignment explanation
Indices: 22388328--22388365 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
22388318 ATATAATTTA
22388328 TTTTTTCT
1 TTTTTTCT
*
22388336 TTTTCT-T
1 TTTTTTCT
22388343 TTTTTTCT
1 TTTTTTCT
22388351 TTTTTTCT
1 TTTTTTCT
22388359 TTCTTTT
1 TT-TTTT
22388366 TCTTCTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 16 0.62
9 4 0.15
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTCT
Found at i:22388349 original size:9 final size:9
Alignment explanation
Indices: 22388335--22388369 Score: 54
Period size: 8 Copynumber: 3.9 Consensus size: 9
22388325 TTATTTTTTC
22388335 TTTTTCTTT
1 TTTTTCTTT
22388344 TTTTTC-TT
1 TTTTTCTTT
22388352 TTTTTCTTT
1 TTTTTCTTT
22388361 CTTTTTCTT
1 -TTTTTCTT
22388370 CTTCTTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 8 0.33
10 8 0.33
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:22388371 original size:3 final size:3
Alignment explanation
Indices: 22388332--22388396 Score: 60
Period size: 3 Copynumber: 21.3 Consensus size: 3
22388322 AATTTATTTT
* * * * *
22388332 TTC TTT TTC TTT TTT TTC TT- TTT TTC TTTC TTT TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC
22388377 TTC TTCC TTC TTC TTC TTC T
1 TTC TT-C TTC TTC TTC TTC T
22388397 AGCGGCGCTG
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
2 2 0.04
3 44 0.85
4 6 0.12
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (3 bp):
TTC
Found at i:22388371 original size:9 final size:9
Alignment explanation
Indices: 22388328--22388396 Score: 70
Period size: 9 Copynumber: 7.7 Consensus size: 9
22388318 ATATAATTTA
22388328 TTTT-TTCT
1 TTTTCTTCT
*
22388336 TTTTCTTTT
1 TTTTCTTCT
22388345 TTTTCTT-T
1 TTTTCTTCT
22388353 TTTTCTTTCT
1 TTTTC-TTCT
22388363 TTTTCTTCT
1 TTTTCTTCT
*
22388372 TCTTCTTCT
1 TTTTCTTCT
*
22388381 TCCTTCTTCT
1 T-TTTCTTCT
*
22388391 TCTTCT
1 TTTTCT
22388397 AGCGGCGCTG
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
8 10 0.18
9 30 0.55
10 15 0.27
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTCTTCT
Found at i:22388482 original size:17 final size:19
Alignment explanation
Indices: 22388460--22388508 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
22388450 CCACCGGTAC
22388460 TCTTTCT-TTTT-TCCTCA
1 TCTTTCTCTTTTCTCCTCA
*
22388477 TCTTTCTCTTTTCTCCTCT
1 TCTTTCTCTTTTCTCCTCA
*
22388496 TTTCTTCTCTTTT
1 TCT-TTCTCTTTT
22388509 TTTGGGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 4 0.15
19 7 0.26
20 9 0.33
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (19 bp):
TCTTTCTCTTTTCTCCTCA
Found at i:22388834 original size:59 final size:58
Alignment explanation
Indices: 22388759--22388924 Score: 188
Period size: 59 Copynumber: 2.8 Consensus size: 58
22388749 TTCTGGGCTG
* * *
22388759 AAATGTAAATTTAAAAAAATTTTAGGGTCAAAATATAATTTTAAAAAGTTTAGGGGTTA
1 AAATGT-AATTTAAAAAAATTTAAGGGTCAAAATATAATTTTAAAAAGTTTAGAGGTCA
* * *
22388818 AAATGTAATTTCAAAAAAGTTTAAGGGTCACAATGTAATTTTAAAAAGTTTAGAGGTCA
1 AAATGTAATTT-AAAAAAATTTAAGGGTCAAAATATAATTTTAAAAAGTTTAGAGGTCA
* * * * * *
22388877 AAATGAAATTTTAAAAAGTTGAGGGGTCAAAATGTAAATTTTTAAAAA
1 AAATGTAATTTAAAAAAATTTAAGGGTCAAAATAT-AA-TTTTAAAAA
22388925 AAACATGAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
58 25 0.27
59 59 0.63
60 9 0.10
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.33
Consensus pattern (58 bp):
AAATGTAATTTAAAAAAATTTAAGGGTCAAAATATAATTTTAAAAAGTTTAGAGGTCA
Found at i:22388910 original size:29 final size:29
Alignment explanation
Indices: 22388759--22388924 Score: 174
Period size: 29 Copynumber: 5.6 Consensus size: 29
22388749 TTCTGGGCTG
* *
22388759 AAATGTAAATTTAAAAAAATTTTA-GGGTCA
1 AAATG-AAATTT-TAAAAAGTTTAGGGGTCA
*
22388789 AAAT-ATAATTTTAAAAAGTTTAGGGGTTA
1 AAATGA-AATTTTAAAAAGTTTAGGGGTCA
* * *
22388818 AAATGTAATTTCAAAAAAGTTTAAGGGTCA
1 AAATGAAATTT-TAAAAAGTTTAGGGGTCA
* * *
22388848 CAATGTAATTTTAAAAAGTTTAGAGGTCA
1 AAATGAAATTTTAAAAAGTTTAGGGGTCA
*
22388877 AAATGAAATTTTAAAAAGTTGAGGGGTCA
1 AAATGAAATTTTAAAAAGTTTAGGGGTCA
22388906 AAATGTAAATTTTTAAAAA
1 AAATG-AAA-TTTTAAAAA
22388925 AAACATGAAA
Statistics
Matches: 115, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
28 10 0.09
29 64 0.56
30 32 0.28
31 9 0.08
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.33
Consensus pattern (29 bp):
AAATGAAATTTTAAAAAGTTTAGGGGTCA
Found at i:22391978 original size:83 final size:83
Alignment explanation
Indices: 22391802--22392418 Score: 503
Period size: 83 Copynumber: 7.5 Consensus size: 83
22391792 CCCTTGGATT
* * * * *
22391802 TGTTAAACGGCAGGATTAAATCCTGAAACAAAATTATTTAATTAAATCTT-GTTTGGAAACAAAA
1 TGTTAAACGGCGGGAATAAATCCCGAAACAAATTTATTTAATTTAATCTTCGTTTGGAAACAAAA
22391866 TC--AA---AATAAAATC
66 TCAAAATCGAATAAAATC
* * *
22391879 TGTTAAACGGTGGGAATAAATCCCGAAACAAAATTATTTGA-TTAAGTCTTCGTTTGGAAACAAA
1 TGTTAAACGGCGGGAATAAATCCCGAAACAAATTTATTTAATTTAA-TCTTCGTTTGGAAACAAA
*
22391943 ATCAAGATCGAATAAAGA-C
65 ATCAAAATCGAATAAA-ATC
* * * *
22391962 TGTTAAACGGCGGGAATATATCTCGAAACAGATTTATTTGA-TTAAGTCTTCGTTTGGAAACAAA
1 TGTTAAACGGCGGGAATAAATCCCGAAACAAATTTATTTAATTTAA-TCTTCGTTTGGAAACAAA
* *
22392026 ATCAAGATCGAATACAGAT-
65 ATCAAAATCGAATA-AAATC
* ** * * **
22392045 TGTTAAATGGTAGGAATAAATCCTGAAA-AAGA-TTATTCAATTTAAT-TCTAATTTGGAAACAA
1 TGTTAAACGGCGGGAATAAATCCCGAAACAA-ATTTATTTAATTTAATCT-TCGTTTGGAAACAA
*
22392107 AATTAAAATCGAATAAAATC
64 AATCAAAATCGAATAAAATC
* * * ** * *
22392127 TGTTAAACAGCCGGAATAAATCCCAAAACAGGTTTTATTTAATTTTAATTTCTCGTTTGGCAACA
1 TGTTAAACGGCGGGAATAAATCCCGAAACA-AATTTATTTAA-TTTAATCT-TCGTTTGGAAACA
*
22392192 AAATCAAAAATAGAATAAAATC
63 AAATC-AAAATCGAATAAAATC
* * * * *
22392214 TGTTGAATGGTGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATGC-TCATTTGGAAACA
1 TGTTAAACGGCGGGAATAAATCCCGAAACA-AATTTATTTAA-TTTAAT-CTTCGTTTGGAAACA
22392278 AAAT---AA---AAT---A--
63 AAATCAAAATCGAATAAAATC
*
22392288 TGTTGAACGGCGGGAATAAATCCCGAAACAAATTTTATTTAATTTTAATAC-TCGTTTGGAAACA
1 TGTTAAACGGCGGGAATAAATCCCGAAACAAA-TTTATTTAA-TTTAAT-CTTCGTTTGGAAACA
* *
22392352 AAATAAAAAATGGAATAAAATC
63 AAAT-CAAAATCGAATAAAATC
* * * *
22392374 TATTGAACGGCGGGAATAAATCCCAAAACAAATTTTATTCAATTT
1 TGTTAAACGGCGGGAATAAATCCCGAAACAAA-TTTATTTAATTT
22392419 TTATTTTTAT
Statistics
Matches: 447, Mismatches: 59, Indels: 60
0.79 0.10 0.11
Matches are distributed among these distances:
73 1 0.00
74 61 0.14
76 4 0.01
77 40 0.09
78 18 0.04
79 3 0.01
80 1 0.00
81 7 0.02
82 57 0.13
83 109 0.24
84 10 0.02
85 9 0.02
86 70 0.16
87 57 0.13
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (83 bp):
TGTTAAACGGCGGGAATAAATCCCGAAACAAATTTATTTAATTTAATCTTCGTTTGGAAACAAAA
TCAAAATCGAATAAAATC
Found at i:22392292 original size:74 final size:74
Alignment explanation
Indices: 22392205--22392359 Score: 256
Period size: 74 Copynumber: 2.1 Consensus size: 74
22392195 TCAAAAATAG
* * * * *
22392205 AATAAAATCTGTTGAATGGTGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATGCTCATT
1 AATAAAATATGTTGAACGGCGGGAATAAATCCCGAAACAAATTTTATTTAATTTTAATACTCATT
22392270 TGGAAACAA
66 TGGAAACAA
*
22392279 AATAAAATATGTTGAACGGCGGGAATAAATCCCGAAACAAATTTTATTTAATTTTAATACTCGTT
1 AATAAAATATGTTGAACGGCGGGAATAAATCCCGAAACAAATTTTATTTAATTTTAATACTCATT
22392344 TGGAAACAA
66 TGGAAACAA
22392353 AATAAAA
1 AATAAAA
22392360 AATGGAATAA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (74 bp):
AATAAAATATGTTGAACGGCGGGAATAAATCCCGAAACAAATTTTATTTAATTTTAATACTCATT
TGGAAACAA
Found at i:22392393 original size:160 final size:161
Alignment explanation
Indices: 22392118--22392419 Score: 444
Period size: 160 Copynumber: 1.9 Consensus size: 161
22392108 ATTAAAATCG
* ** *
22392118 AATAAAATCTGTTAAACAGCCGGAATAAATCCCAAAACAGGTTTTATTTAATTTTAATTTCTCGT
1 AATAAAATATGTTAAACAGCCGGAATAAATCCCAAAACAAATTTTATTTAATTTTAATTACTCGT
* * * * * * *
22392183 TTGGCAACAAAATCAAAAATAGAATAAAATCTGTTGAATGGTGGGAATAAATCCCGAAACAGATT
66 TTGGAAACAAAATAAAAAATAGAATAAAATCTATTGAACGGCGGGAATAAATCCCAAAACAAATT
*
22392248 TTATTTAATTTTAATGCTCATTTGGAAACAA
131 TTATTCAATTTTAATGCTCATTTGGAAACAA
* * * *
22392279 AATAAAATATGTTGAACGGCGGGAATAAATCCCGAAACAAATTTTATTTAATTTTAA-TACTCGT
1 AATAAAATATGTTAAACAGCCGGAATAAATCCCAAAACAAATTTTATTTAATTTTAATTACTCGT
*
22392343 TTGGAAACAAAATAAAAAATGGAATAAAATCTATTGAACGGCGGGAATAAATCCCAAAACAAATT
66 TTGGAAACAAAATAAAAAATAGAATAAAATCTATTGAACGGCGGGAATAAATCCCAAAACAAATT
22392408 TTATTCAATTTT
131 TTATTCAATTTT
22392420 TATTTTTATT
Statistics
Matches: 124, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
160 74 0.60
161 50 0.40
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.31
Consensus pattern (161 bp):
AATAAAATATGTTAAACAGCCGGAATAAATCCCAAAACAAATTTTATTTAATTTTAATTACTCGT
TTGGAAACAAAATAAAAAATAGAATAAAATCTATTGAACGGCGGGAATAAATCCCAAAACAAATT
TTATTCAATTTTAATGCTCATTTGGAAACAA
Found at i:22392571 original size:22 final size:23
Alignment explanation
Indices: 22392545--22392588 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
22392535 GTTAGCGATA
22392545 AAATATATAAATAT-AAATAAAC
1 AAATATATAAATATAAAATAAAC
* *
22392567 AAATATTTATATATAAAATAAA
1 AAATATATAAATATAAAATAAA
22392589 ATAAATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATATAAATATAAAATAAAC
Found at i:22392590 original size:28 final size:31
Alignment explanation
Indices: 22392547--22392617 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
22392537 TAGCGATAAA
22392547 ATATAT-AAATATAAATAAA-CAAAT-ATTT
1 ATATATAAAATATAAATAAATCAAATAATTT
**
22392575 ATATATAAAATA-AAATAAATTGAATAATTT
1 ATATATAAAATATAAATAAATCAAATAATTT
*
22392605 ATATTTAAAATAT
1 ATATATAAAATAT
22392618 CATATACGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 13 0.36
29 8 0.22
30 15 0.42
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (31 bp):
ATATATAAAATATAAATAAATCAAATAATTT
Found at i:22393041 original size:20 final size:20
Alignment explanation
Indices: 22393018--22393058 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22393008 TTAAATCAAT
*
22393018 TTGATTAAAATCAAATTAAA
1 TTGATTAAAATCAAATAAAA
**
22393038 TTGATTGGAATCAAATAAAA
1 TTGATTAAAATCAAATAAAA
22393058 T
1 T
22393059 CAGGATATAT
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:0.51, C:0.05, G:0.10, T:0.34
Consensus pattern (20 bp):
TTGATTAAAATCAAATAAAA
Found at i:22394649 original size:16 final size:17
Alignment explanation
Indices: 22394628--22394664 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
22394618 AGACTTTTTT
22394628 TTATAAAAGTTATA-TA
1 TTATAAAAGTTATATTA
*
22394644 TTATAAAATTTATATTA
1 TTATAAAAGTTATATTA
22394661 TTAT
1 TTAT
22394665 TTATTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
TTATAAAAGTTATATTA
Found at i:22396313 original size:23 final size:26
Alignment explanation
Indices: 22396258--22396318 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 26
22396248 GAGCTATGAT
22396258 CGGTAAGCTCATTCCGAGCTGAAGAA
1 CGGTAAGCTCATTCCGAGCTGAAGAA
*
22396284 CGATAAGCTC-TAT-CGAGCTG-A-AA
1 CGGTAAGCTCAT-TCCGAGCTGAAGAA
22396307 CGGTAAGCTCAT
1 CGGTAAGCTCAT
22396319 ACGAGATGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 11 0.35
24 2 0.06
25 8 0.26
26 10 0.32
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (26 bp):
CGGTAAGCTCATTCCGAGCTGAAGAA
Found at i:22401210 original size:21 final size:21
Alignment explanation
Indices: 22401186--22401248 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
22401176 ATTTGGTTTT
22401186 AATTTTTGTTACTTAATGAGA
1 AATTTTTGTTACTTAATGAGA
* *
22401207 AA-TTAT-TT--TT-ATGGGTA
1 AATTTTTGTTACTTAATGAG-A
22401224 AATTTTTGTTACTTAATGAGA
1 AATTTTTGTTACTTAATGAGA
22401245 AATT
1 AATT
22401249 ATTTTTATGG
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
16 4 0.12
17 5 0.16
18 3 0.09
19 4 0.12
20 3 0.09
21 9 0.28
22 4 0.12
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.49
Consensus pattern (21 bp):
AATTTTTGTTACTTAATGAGA
Found at i:22401230 original size:38 final size:38
Alignment explanation
Indices: 22401186--22401263 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
22401176 ATTTGGTTTT
22401186 AATTTTTGTTACTTAATGAGAAATTATTTTTATGGGTA
1 AATTTTTGTTACTTAATGAGAAATTATTTTTATGGGTA
22401224 AATTTTTGTTACTTAATGAGAAATTATTTTTATGGGTA
1 AATTTTTGTTACTTAATGAGAAATTATTTTTATGGGTA
22401262 AA
1 AA
22401264 CTATCAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (38 bp):
AATTTTTGTTACTTAATGAGAAATTATTTTTATGGGTA
Found at i:22401308 original size:31 final size:29
Alignment explanation
Indices: 22401273--22401342 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 29
22401263 ACTATCAAAA
* *
22401273 TAGTCACTTTTGTTTGACTCAGGTTACATTT
1 TAGTCACTTATGTTTGA--AAGGTTACATTT
*
22401304 TAGTCACTTATGTTTGAAATGTTACATTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
22401333 TAGTCACTTA
1 TAGTCACTTA
22401343 CGTTATCGCG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 20 0.56
31 16 0.44
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:22403574 original size:22 final size:22
Alignment explanation
Indices: 22403538--22403596 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
22403528 GGTCTGGCTC
22403538 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATACCAAAA
***
22403560 ATTTATTTTAAAAATTTTAAAA
1 ATTTATTTTAAAAATACCAAAA
*
22403582 A-GTATTTTAAAAATA
1 ATTTATTTTAAAAATA
22403597 TTTTAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 12 0.39
22 13 0.42
23 6 0.19
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTTATTTTAAAAATACCAAAA
Found at i:22403598 original size:11 final size:11
Alignment explanation
Indices: 22403563--22403626 Score: 105
Period size: 11 Copynumber: 5.9 Consensus size: 11
22403553 ACCAAAAATT
22403563 TATTTT-AAAA
1 TATTTTAAAAA
22403573 -ATTTTAAAAA
1 TATTTTAAAAA
22403583 GTATTTTAAAAA
1 -TATTTTAAAAA
22403595 TATTTTAAAAA
1 TATTTTAAAAA
22403606 TATTTTAAAAA
1 TATTTTAAAAA
22403617 TATTTTAAAA
1 TATTTTAAAA
22403627 TTTAAAAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
9 5 0.10
10 4 0.08
11 32 0.63
12 10 0.20
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:22406733 original size:8 final size:7
Alignment explanation
Indices: 22406699--22406732 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
22406689 TAATTGAGTT
22406699 TATTTTA
1 TATTTTA
22406706 TA-TTTA
1 TATTTTA
22406712 TAATTTTA
1 T-ATTTTA
22406720 TATTTTA
1 TATTTTA
22406727 TATTTT
1 TATTTT
22406733 TTTTTGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 5 0.20
7 15 0.60
8 5 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TATTTTA
Found at i:22408926 original size:256 final size:256
Alignment explanation
Indices: 22408597--22409108 Score: 1008
Period size: 256 Copynumber: 2.0 Consensus size: 256
22408587 TTTTTTTTTG
22408597 TTTCTACTGTCAAATTCTCTCTATCTCACATTTTCTTTTTTTGCAGGTTCTGGTGAGTTTGATTT
1 TTTCTACTGTCAAATTCTCTCTATCTCACATTTTCTTTTTTTGCAGGTTCTGGTGAGTTTGATTT
22408662 GCTCATATTGTTGTTGTTTTTCTGTTTTGGAGTGAACTGGGTTAAGCTTTTACTTGTCCAAAGTT
66 GCTCATATTGTTGTTGTTTTTCTGTTTTGGAGTGAACTGGGTTAAGCTTTTACTTGTCCAAAGTT
22408727 TTCATCTTTTTGAGTTTTTGTGTCATCATTGTTTGTAAGAAAGAAAAGAAGAAATTATGGGTGAT
131 TTCATCTTTTTGAGTTTTTGTGTCATCATTGTTTGTAAGAAAGAAAAGAAGAAATTATGGGTGAT
22408792 GGTGAAGAAGGTAACACTGATGTGATGCAAAGGATTCAATCTTCATTTGGAACATCATCAT
196 GGTGAAGAAGGTAACACTGATGTGATGCAAAGGATTCAATCTTCATTTGGAACATCATCAT
22408853 TTTCTACCTG-CAAATTCTCTCTATCTCACATTTTCTTTTTTTGCAGGTTCTGGTGAGTTTGATT
1 TTTCTA-CTGTCAAATTCTCTCTATCTCACATTTTCTTTTTTTGCAGGTTCTGGTGAGTTTGATT
22408917 TGCTCATATTGTTGTTGTTTTTCTGTTTTGGAGTGAACTGGGTTAAGCTTTTACTTGTCCAAAGT
65 TGCTCATATTGTTGTTGTTTTTCTGTTTTGGAGTGAACTGGGTTAAGCTTTTACTTGTCCAAAGT
22408982 TTTCATCTTTTTGAGTTTTTGTGTCATCATTGTTTGTAAGAAAGAAAAGAAGAAATTATGGGTGA
130 TTTCATCTTTTTGAGTTTTTGTGTCATCATTGTTTGTAAGAAAGAAAAGAAGAAATTATGGGTGA
22409047 TGGTGAAGAAGGTAACACTGATGTGATGCAAAGGATTCAATCTTCATTTGGAACATCATCAT
195 TGGTGAAGAAGGTAACACTGATGTGATGCAAAGGATTCAATCTTCATTTGGAACATCATCAT
22409109 CTTCAATCCC
Statistics
Matches: 255, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
256 252 0.99
257 3 0.01
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (256 bp):
TTTCTACTGTCAAATTCTCTCTATCTCACATTTTCTTTTTTTGCAGGTTCTGGTGAGTTTGATTT
GCTCATATTGTTGTTGTTTTTCTGTTTTGGAGTGAACTGGGTTAAGCTTTTACTTGTCCAAAGTT
TTCATCTTTTTGAGTTTTTGTGTCATCATTGTTTGTAAGAAAGAAAAGAAGAAATTATGGGTGAT
GGTGAAGAAGGTAACACTGATGTGATGCAAAGGATTCAATCTTCATTTGGAACATCATCAT
Found at i:22417095 original size:32 final size:32
Alignment explanation
Indices: 22417059--22417121 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
22417049 AAAATTCTAA
*
22417059 TAGTCTTCCGCATTCTCCACTCCCTGTAATTG
1 TAGTCTTCCACATTCTCCACTCCCTGTAATTG
* * *
22417091 TAGTCTTCCACATTTTTCACTCCTTGTAATT
1 TAGTCTTCCACATTCTCCACTCCCTGTAATT
22417122 AGTATCAGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.17, C:0.30, G:0.10, T:0.43
Consensus pattern (32 bp):
TAGTCTTCCACATTCTCCACTCCCTGTAATTG
Found at i:22419560 original size:43 final size:42
Alignment explanation
Indices: 22419525--22419638 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 42
22419515 CGACACTACT
22419525 GTCCCAGACAAGGTCTTACACGAAAACATAAATCGATGCCAAC
1 GTCCCAGACAAGGTCTTACACGAAAACATAAATCGA-GCCAAC
* ** * *
22419568 GTCCTAGACGTGGTCTTACACGAAAACATAAATCGATGGCAAT
1 GTCCCAGACAAGGTCTTACACGAAAACATAAATCGA-GCCAAC
* * *
22419611 GTCCCATACGTA-GTCTTACATGAAAACA
1 GTCCCAGAC-AAGGTCTTACACGAAAACA
22419639 CATATCGGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (42 bp):
GTCCCAGACAAGGTCTTACACGAAAACATAAATCGAGCCAAC
Found at i:22427065 original size:108 final size:108
Alignment explanation
Indices: 22426876--22427073 Score: 308
Period size: 108 Copynumber: 1.8 Consensus size: 108
22426866 GACAGGTGCA
* * *
22426876 ACTGTTTTGGAGAAGGATAATGAAAAAAATTCTGCTGAAACTGAACCGGCAGATAATGTACTTGC
1 ACTGTTTTGGAGAAGGATAATGAAAAAAAATCTGCTGAAACTGAACCAGCAGATAATGTACATGC
*
22426941 AGAACCTGATAGGAGCCCCAAGATATCTAATTTGAAAGATGCG
66 AGAACCTGATAAGAGCCCCAAGATATCTAATTTGAAAGATGCG
* * *
22426984 ACTGTTCTT-GAGAAGTATAATGAAAAAAAATCTGCTGAAACTGAACCAGCTGATGATGTACATG
1 ACTGTT-TTGGAGAAGGATAATGAAAAAAAATCTGCTGAAACTGAACCAGCAGATAATGTACATG
*
22427048 CAGAACCTGATAAGAGCCTCAAGATA
65 CAGAACCTGATAAGAGCCCCAAGATA
22427074 CACCCTCGTG
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 79 0.98
109 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (108 bp):
ACTGTTTTGGAGAAGGATAATGAAAAAAAATCTGCTGAAACTGAACCAGCAGATAATGTACATGC
AGAACCTGATAAGAGCCCCAAGATATCTAATTTGAAAGATGCG
Found at i:22436668 original size:30 final size:31
Alignment explanation
Indices: 22436599--22436673 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
22436589 GATTATCAGC
* **
22436599 TAATGAAAAGGGATAGCCTCGGTTATCAAAA
1 TAATGAAAAGGGATAACCTCGACTATCAAAA
22436630 TAATGAAAAGGGATAACCTCGACTATC-AAA
1 TAATGAAAAGGGATAACCTCGACTATCAAAA
*
22436660 TTATGAAAAGGGAT
1 TAATGAAAAGGGAT
22436674 GGTGATGATC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 16 0.40
31 24 0.60
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (31 bp):
TAATGAAAAGGGATAACCTCGACTATCAAAA
Done.