Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 62 of 427
Found at i:15220061 original size:18 final size:18
Alignment explanation
Indices: 15220038--15220074 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
15220028 AAGCTAATAT
15220038 ATGCAATGGGCTAAAACA
1 ATGCAATGGGCTAAAACA
15220056 ATGCAATGGGCTAAAACA
1 ATGCAATGGGCTAAAACA
15220074 A
1 A
15220075 AATCATTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (18 bp):
ATGCAATGGGCTAAAACA
Found at i:15222711 original size:30 final size:30
Alignment explanation
Indices: 15222675--15222740 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
15222665 CCATGTTATA
15222675 ACCCATCTGACCACCCA-TTGGACCCATCTG
1 ACCCATCTGACCACCCATTTGG-CCCATCTG
15222705 ACCCATCTGACCACCCATTTGGCCCATCTG
1 ACCCATCTGACCACCCATTTGGCCCATCTG
*
15222735 CCCCAT
1 ACCCAT
15222741 ATTCTTACCG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 30 0.88
31 4 0.12
ACGTcount: A:0.21, C:0.45, G:0.12, T:0.21
Consensus pattern (30 bp):
ACCCATCTGACCACCCATTTGGCCCATCTG
Found at i:15223373 original size:12 final size:12
Alignment explanation
Indices: 15223356--15223437 Score: 103
Period size: 12 Copynumber: 6.8 Consensus size: 12
15223346 GACCAAATTC
15223356 CTCATCATCAAA
1 CTCATCATCAAA
**
15223368 CTCATCATC-TT
1 CTCATCATCAAA
15223379 CATCATCATCAAA
1 C-TCATCATCAAA
15223392 CTCATCATCAAA
1 CTCATCATCAAA
* *
15223404 TTCATCATCGAA
1 CTCATCATCAAA
15223416 CTCATCATCAAA
1 CTCATCATCAAA
*
15223428 ATCATCATCA
1 CTCATCATCA
15223438 CTTCCATCTA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
11 1 0.02
12 57 0.97
13 1 0.02
ACGTcount: A:0.38, C:0.32, G:0.01, T:0.29
Consensus pattern (12 bp):
CTCATCATCAAA
Found at i:15230580 original size:38 final size:39
Alignment explanation
Indices: 15230482--15230580 Score: 103
Period size: 38 Copynumber: 2.5 Consensus size: 39
15230472 TATGGTATTT
* * * *
15230482 AATATATATATATATATATATGTATATAATAGTATTTAAG
1 AATATATACATA-ATATATATATATATAATAGCATTTAAA
* * *
15230522 AATATATACATAAGAAATATATA-ACTAATGGCA-TTAAA
1 AATATATACATAATATATATATATA-TAATAGCATTTAAA
15230560 AATATATACATAATATATATA
1 AATATATACATAATATATATA
15230581 AAATACCTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
38 24 0.49
39 14 0.29
40 11 0.22
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (39 bp):
AATATATACATAATATATATATATATAATAGCATTTAAA
Found at i:15232095 original size:14 final size:14
Alignment explanation
Indices: 15232072--15232106 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
15232062 TGAGTTGATT
15232072 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
15232085 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
15232099 TTTGAAAA
1 TTTGAAAA
15232107 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:15232214 original size:79 final size:75
Alignment explanation
Indices: 15232128--15232463 Score: 355
Period size: 79 Copynumber: 4.5 Consensus size: 75
15232118 GTAACCCGAG
* * * *
15232128 GCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTG--AAAATACCTCA
*
15232193 GTGTGTGATCTGAA
63 GCGTGT-ATCTGAA
* *
15232207 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
* *
15232272 GCATG-AGC-CAA
65 G--TGTATCTGAA
* * *
15232283 GGTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
* *
15232347 TGTCT-TGAG
66 TGTATCTGAA
* * * * *
15232356 GCTCAACTCA-TTATCACAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
* * *
15232418 TGT-CCCGAG
66 TGTATCTGAA
15232427 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
15232464 TTTTTTTTGA
Statistics
Matches: 218, Mismatches: 30, Indels: 23
0.80 0.11 0.08
Matches are distributed among these distances:
71 46 0.21
72 33 0.15
73 10 0.05
74 25 0.11
75 10 0.05
76 30 0.14
77 14 0.06
78 3 0.01
79 47 0.22
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
TGTATCTGAA
Found at i:15232399 original size:71 final size:72
Alignment explanation
Indices: 15232085--15232461 Score: 290
Period size: 79 Copynumber: 5.0 Consensus size: 72
15232075 GAAAACAGAA
** * * * * * *
15232085 TTTGAAAAACAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATG
1 TTTG-AAAACAGAAATTGAAAATACCTCAACGTGT--CCCGAGGCTCAACTCACCTATCACAATA
15232150 TGAGTTGATTTT
63 TGAGTTGA--TT
* * ** * * * * *
15232162 TTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAA
1 TTTG-AAAACAGAAATTG--AAAATACCTCAACGTGT--CCCGAGGCTCAACTCACCTATCACAA
15232227 TATGAGTTGATTTT
61 TATGAGTTGA--TT
* * * ** * * *
15232241 TTTGAAAGATAGAAATTGAAAATAGCTCAGCGCATGAGCCAAGG-TCAACTCACCTCTCGCAATA
1 TTTGAAA-ACAGAAATTGAAAATACCTCAACG--TGTCCCGAGGCTCAACTCACCTATCACAATA
*
15232305 TAAGTTGATTT
63 TGAGTTGA-TT
** *
15232316 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-TTATCACAATATGA
1 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTATCACAATATGA
*
15232380 GTTGAAT
66 GTTGATT
* * * *
15232387 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTATCACAATATGA
15232452 GTTGATT
66 GTTGATT
15232459 TTT
1 TTT
15232462 TTTTTTTTTT
Statistics
Matches: 249, Mismatches: 44, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
71 47 0.19
72 40 0.16
73 8 0.03
74 21 0.08
75 10 0.04
76 27 0.11
77 29 0.12
78 3 0.01
79 64 0.26
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (72 bp):
TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTATCACAATATGA
GTTGATT
Found at i:15232610 original size:173 final size:168
Alignment explanation
Indices: 15232320--15232797 Score: 677
Period size: 165 Copynumber: 2.9 Consensus size: 168
15232310 TGATTTTTTG
* * * * * * *
15232320 AAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCA-TTATCACAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* * *
15232382 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
* *
15232446 ATATGAGTTGATTTTTTTTTTTTTTTGAAATGCAGAAATTGA
131 ATATGAGTTGA----TTTTTTTTTTTGAAAGGCAAAAATTGA
*
15232488 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
*
15232553 TGACTTTTTTGACAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
15232618 AATATGAGTTGA----TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
* * * *
15232653 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAG-
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
15232717 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
15232782 AATATGAGTTGATTTT
130 AATATGAGTTGATTTT
15232798 GAAAAAGTAG
Statistics
Matches: 280, Mismatches: 21, Indels: 18
0.88 0.07 0.06
Matches are distributed among these distances:
164 75 0.27
165 80 0.29
168 27 0.10
169 1 0.00
170 14 0.05
171 15 0.05
173 68 0.24
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (168 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
Found at i:15232617 original size:74 final size:75
Alignment explanation
Indices: 15232494--15232638 Score: 222
Period size: 74 Copynumber: 1.9 Consensus size: 75
15232484 TTGAAAAATG
*
15232494 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
15232559 TTTTGACAATA
65 TTTTGACAATA
* * *
15232570 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
15232633 TTTTGA
65 TTTTGA
15232639 AAGGCAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
75 1 0.02
76 21 0.33
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAATA
Found at i:15232739 original size:89 final size:88
Alignment explanation
Indices: 15232570--15232743 Score: 244
Period size: 89 Copynumber: 2.0 Consensus size: 88
15232560 TTTGACAATA
* * *
15232570 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTT
15232635 TTGAAAGGCAAAAATTGAAAAACG
66 TTGAAA-GCAAAAATTGAAAAACG
* *
15232659 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAG-TGATTT
1 GAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
*
15232723 TTTTGACAA-CAGAAATTGAAA
64 TTTTGA-AAGCAAAAATTGAAA
15232744 TTACCTCAGC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
89 33 0.43
90 12 0.16
91 31 0.41
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (88 bp):
GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTT
TTGAAAGCAAAAATTGAAAAACG
Found at i:15232783 original size:73 final size:75
Alignment explanation
Indices: 15232659--15232797 Score: 210
Period size: 73 Copynumber: 1.9 Consensus size: 75
15232649 TTGAAAAACG
* *
15232659 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAG-TGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
15232723 TTTTGACAACA
65 TTTTGACAACA
* * *
15232734 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
15232798 GAAAAAGTAG
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
73 29 0.50
74 7 0.12
75 22 0.38
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:15232996 original size:72 final size:71
Alignment explanation
Indices: 15232862--15233027 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
15232852 TGAACAACGT
* * * *
15232862 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
15232927 GAGTTG
66 GAGTTG
*
15232933 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
15232998 TGAGTTG
65 TGAGTTG
**
15233005 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
15233028 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:15233170 original size:71 final size:71
Alignment explanation
Indices: 15233027--15233290 Score: 356
Period size: 70 Copynumber: 3.7 Consensus size: 71
15233017 AAAAATTAAA
* * * * *
15233027 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
15233090 GCCCCG
66 GCCCCG
* *
15233096 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
15233161 GTCTTG
66 GCCCCG
* * *
15233167 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
15233230 TGCCCCG
65 TGCCCCG
*
15233237 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
15233291 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
69 31 0.19
70 61 0.37
71 58 0.35
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:15233248 original size:70 final size:69
Alignment explanation
Indices: 15233027--15233290 Score: 339
Period size: 71 Copynumber: 3.7 Consensus size: 69
15233017 AAAAATTAAA
* ** * * *
15233027 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
15233092 CCCG
66 CCCG
* * *
15233096 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTAAAAACAAAAATTAAAAATACCTCAGCGT
* **
15233161 GTCTTG
64 GCCCCG
* *
15233167 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAA-ACAAAAATTAAAAATACCTCAGCGTG
15233232 CCCCG
65 CCCCG
*
15233237 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-AAAAACAAAAATTAAAA
15233291 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
69 33 0.20
70 56 0.34
71 60 0.36
72 14 0.08
73 4 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (69 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
CCCG
Found at i:15233273 original size:263 final size:257
Alignment explanation
Indices: 15232865--15233457 Score: 1042
Period size: 257 Copynumber: 2.3 Consensus size: 257
15232855 ACAACGTAAA
* * * * * *
15232865 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
15232930 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
66 TTG--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
15232995 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
129 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
15233060 TTAAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
194 TT-----A-AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
15233125 TGATT
253 TGATT
15233130 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
15233195 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
15233260 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
131 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
15233325 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
*
15233387 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
15233452 TTGATT
66 TTGATT
15233458 TTCCTTGAAA
Statistics
Matches: 320, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
257 130 0.41
258 1 0.00
263 127 0.40
265 62 0.19
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (257 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:15235990 original size:70 final size:70
Alignment explanation
Indices: 15235845--15236106 Score: 334
Period size: 70 Copynumber: 3.7 Consensus size: 70
15235835 CAAAATTAAA
* * * * *
15235845 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATT-AAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAACAAAAATTAAAAATACCTCAGCGTG
15235908 CCCCG
66 CCCCG
* *
15235913 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
15235977 GTCTTG
65 GCCCCG
* * *
15235983 AGGCTCAACTCATCTCTCGCAATATGAGTTGA-TTAAAACACAAAAATTGAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAA-ACAAAAATTAAAAATACCTCAGCGT
15236047 GCCCCG
65 GCCCCG
*
15236053 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTG-AAAACAAAAATTAAAA
15236107 GGCTTAACTC
Statistics
Matches: 164, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
68 31 0.19
69 3 0.02
70 109 0.66
71 4 0.02
72 14 0.09
73 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (70 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAACAAAAATTAAAAATACCTCAGCGTG
CCCCG
Found at i:15236185 original size:256 final size:254
Alignment explanation
Indices: 15235724--15236273 Score: 928
Period size: 256 Copynumber: 2.1 Consensus size: 254
15235714 CCAGTTGCCC
*
15235724 TGAGGCCTCAACTCACCTCTCGCAATATGAGTTGATTAAACAAAATTGAAAATACCTCAGCGTGA
1 TGAGG-CTCAACTCATCTCTCGCAATATGAGTTGATTAAACAAAATTGAAAATACCTCAGCGTGA
*
15235789 CCTGAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTGAAAAAACAAAATTAAAAGGCTTAAC
65 CCCGAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTGAAAAAACAAAATTAAAAGGCTTAAC
15235854 TCACCTCTCGCAATATGAGTCAATTAAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTC
130 TCACCTCTCGCAATATGAGTCAATT---ACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTC
15235919 AACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGTGTCT
192 AACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGTGTCT
15235981 TGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCG
1 TGAGGCTCAACTCATCTCTCGCAATATGAGTTGATT--AA-AC-AAAATTGAAAATACCTCAGCG
*
15236046 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAAACAAAAATTAAAAGGC
62 TGACCCGAGGCTCAACTCACCTCT-GCAATATGAGTTGATTTTGAAAAAAC-AAAATTAAAAGGC
* *
15236110 TTAACTCACCTCTCGCAATATGAGTCAATT-TA-AAACTAAAAATACCTCAGCGTGTCCCGAGGC
125 TTAACTCACCTCTCGCAATATGAGTCAATTACATAAACTAAAAATACCTCAGCGTGCCCCGAGGC
*
15236173 TCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAACAATTAAAAATACCTCAACGTGTCT
190 TCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGTGTCT
15236238 TGAGGCTCAACTCATCTCTCGCAATATGAGTTGATT
1 TGAGGCTCAACTCATCTCTCGCAATATGAGTTGATT
15236274 TTCCTTGAAA
Statistics
Matches: 280, Mismatches: 6, Indels: 14
0.93 0.02 0.05
Matches are distributed among these distances:
256 97 0.35
257 68 0.24
258 2 0.01
259 2 0.01
260 49 0.17
261 62 0.22
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (254 bp):
TGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAACAAAATTGAAAATACCTCAGCGTGAC
CCGAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTGAAAAAACAAAATTAAAAGGCTTAACT
CACCTCTCGCAATATGAGTCAATTACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACT
CACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGTGTCT
Found at i:15243840 original size:15 final size:14
Alignment explanation
Indices: 15243822--15243855 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
15243812 TCTTCTTTTT
*
15243822 TTTTTTTGGGTTAGG
1 TTTTTTTGGGGTA-G
15243837 TTTTTTTGGGGTAG
1 TTTTTTTGGGGTAG
15243851 TTTTT
1 TTTTT
15243856 CTTTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.06, C:0.00, G:0.29, T:0.65
Consensus pattern (14 bp):
TTTTTTTGGGGTAG
Found at i:15243872 original size:16 final size:16
Alignment explanation
Indices: 15243851--15243886 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
15243841 TTTGGGGTAG
15243851 TTTTTCTTT-TTCTTTT
1 TTTTTCTTTGTT-TTTT
15243867 TTTTTCTTTGTTTTTT
1 TTTTTCTTTGTTTTTT
15243883 TTTT
1 TTTT
15243887 GGGTTAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTGTTTTTT
Found at i:15247950 original size:13 final size:13
Alignment explanation
Indices: 15247932--15247960 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
15247922 CCATAAGTAA
15247932 AATATCTATAATT
1 AATATCTATAATT
15247945 AATATCTATAATT
1 AATATCTATAATT
15247958 AAT
1 AAT
15247961 CTTGTGAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (13 bp):
AATATCTATAATT
Found at i:15248785 original size:26 final size:26
Alignment explanation
Indices: 15248756--15248834 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
15248746 CCTTTTCAAT
15248756 CTTCTTCTATTCATATCTAAACTTTA
1 CTTCTTCTATTCATATCTAAACTTTA
* * *
15248782 CTTCTT-TATATCCT-TTTCAA---T-
1 CTTCTTCTAT-TCATATCTAAACTTTA
15248803 CTTCTTCTATTCATATCTAAACTTTA
1 CTTCTTCTATTCATATCTAAACTTTA
15248829 CTTCTT
1 CTTCTT
15248835 TATATCCTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
21 9 0.22
22 8 0.20
25 8 0.20
26 15 0.38
ACGTcount: A:0.23, C:0.24, G:0.00, T:0.53
Consensus pattern (26 bp):
CTTCTTCTATTCATATCTAAACTTTA
Found at i:15248793 original size:21 final size:23
Alignment explanation
Indices: 15248759--15248840 Score: 68
Period size: 23 Copynumber: 3.6 Consensus size: 23
15248749 TTTCAATCTT
15248759 CTTCTATTCATATCTAAACTTTA
1 CTTCTATTCATATCTAAACTTTA
*
15248782 CTTCT-TT-ATATCCTTTTCAA-TCTT-
1 CTTCTATTCATAT-C---TAAACT-TTA
15248806 CTTCTATTCATATCTAAACTTTA
1 CTTCTATTCATATCTAAACTTTA
15248829 CTTCT-TT-ATATC
1 CTTCTATTCATATC
15248841 CTTTTATCCT
Statistics
Matches: 48, Mismatches: 2, Indels: 20
0.69 0.03 0.29
Matches are distributed among these distances:
21 9 0.19
22 10 0.21
23 11 0.23
24 6 0.12
25 8 0.17
26 4 0.08
ACGTcount: A:0.24, C:0.23, G:0.00, T:0.52
Consensus pattern (23 bp):
CTTCTATTCATATCTAAACTTTA
Found at i:15248815 original size:47 final size:47
Alignment explanation
Indices: 15248746--15248845 Score: 200
Period size: 47 Copynumber: 2.1 Consensus size: 47
15248736 TTCAGCTCAC
15248746 CCTTTTCAATCTTCTTCTATTCATATCTAAACTTTACTTCTTTATAT
1 CCTTTTCAATCTTCTTCTATTCATATCTAAACTTTACTTCTTTATAT
15248793 CCTTTTCAATCTTCTTCTATTCATATCTAAACTTTACTTCTTTATAT
1 CCTTTTCAATCTTCTTCTATTCATATCTAAACTTTACTTCTTTATAT
15248840 CCTTTT
1 CCTTTT
15248846 ATCCTTTTTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (47 bp):
CCTTTTCAATCTTCTTCTATTCATATCTAAACTTTACTTCTTTATAT
Found at i:15250791 original size:21 final size:21
Alignment explanation
Indices: 15250767--15250806 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15250757 CTGAACTTAA
15250767 CTCTTGAACCTAAAACTCTGC
1 CTCTTGAACCTAAAACTCTGC
* *
15250788 CTCTTGAACTTGAAACTCT
1 CTCTTGAACCTAAAACTCT
15250807 AAATCTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (21 bp):
CTCTTGAACCTAAAACTCTGC
Found at i:15250990 original size:11 final size:11
Alignment explanation
Indices: 15250969--15250999 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
15250959 ATTAATAACA
15250969 TAAAA-ATTAC
1 TAAAATATTAC
15250979 TAAAATATTAC
1 TAAAATATTAC
15250990 TAAAATATTA
1 TAAAATATTA
15251000 AAAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAATATTAC
Found at i:15251220 original size:16 final size:16
Alignment explanation
Indices: 15251194--15251246 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
15251184 CATATTTTTG
*
15251194 AATAT-TTTTAATGTA
1 AATATATTTTAATATA
15251209 AACTA-ATTTTAATATA
1 AA-TATATTTTAATATA
*
15251225 AATATATTTTAAAATA
1 AATATATTTTAATATA
15251241 AATATA
1 AATATA
15251247 ACCAAAGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 4 0.12
16 29 0.88
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (16 bp):
AATATATTTTAATATA
Found at i:15255459 original size:21 final size:20
Alignment explanation
Indices: 15255415--15255456 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
15255405 GTCATTTTAT
*
15255415 AATTTTCTTAAACTTTCAAA
1 AATTTTCTTAAACTTTAAAA
15255435 AATTTT-TTATAACTTTAAAA
1 AATTTTCTTA-AACTTTAAAA
15255455 AA
1 AA
15255457 ATTATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTTCTTAAACTTTAAAA
Found at i:15259057 original size:13 final size:14
Alignment explanation
Indices: 15259032--15259062 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15259022 ACATCTAATT
15259032 AATTAATTTTTAAA
1 AATTAATTTTTAAA
*
15259046 AATTAATTTTAAAA
1 AATTAATTTTTAAA
15259060 AAT
1 AAT
15259063 AAAAATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTAATTTTTAAA
Found at i:15261644 original size:20 final size:20
Alignment explanation
Indices: 15261589--15261644 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
15261579 AACCATGAAA
*
15261589 TATAAAAATA-TAA-AATAT
1 TATAAAAATATTAATAATAC
15261607 TATAAAAA-ATTAATTAATAC
1 TATAAAAATATTAA-TAATAC
15261627 TATAAAAATATTAATAAT
1 TATAAAAATATTAATAAT
15261645 TAAATGATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 1 0.03
18 11 0.33
20 16 0.48
21 5 0.15
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TATAAAAATATTAATAATAC
Found at i:15266232 original size:8 final size:8
Alignment explanation
Indices: 15266219--15266265 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
15266209 TTTATCAACA
15266219 TTTATTAT
1 TTTATTAT
15266227 TTTATTAT
1 TTTATTAT
15266235 TTTATTAT
1 TTTATTAT
* *
15266243 TCTA-AAT
1 TTTATTAT
*
15266250 TTTGTTAT
1 TTTATTAT
15266258 TATTATTA
1 T-TTATTA
15266266 AGTATTTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
7 4 0.13
8 22 0.71
9 5 0.16
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (8 bp):
TTTATTAT
Found at i:15266358 original size:17 final size:18
Alignment explanation
Indices: 15266336--15266369 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15266326 TTGTTTTGGT
15266336 TAATT-AGAGTTCTAGTA
1 TAATTAAGAGTTCTAGTA
*
15266353 TAATTAAGAGTTTTAGT
1 TAATTAAGAGTTCTAGT
15266370 TAGATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (18 bp):
TAATTAAGAGTTCTAGTA
Found at i:15269439 original size:13 final size:13
Alignment explanation
Indices: 15269421--15269445 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15269411 TAGTTTGACA
15269421 TTTAATTATTATT
1 TTTAATTATTATT
15269434 TTTAATTATTAT
1 TTTAATTATTAT
15269446 GGTAAATTTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTAATTATTATT
Found at i:15272419 original size:12 final size:12
Alignment explanation
Indices: 15272404--15272478 Score: 57
Period size: 12 Copynumber: 6.2 Consensus size: 12
15272394 AAAGGTAAAT
15272404 TTATTTTTGTAG
1 TTATTTTTGTAG
* *
15272416 TTATTTAT-TAA
1 TTATTTTTGTAG
*
15272427 TTATTTTTGTAA
1 TTATTTTTGTAG
15272439 TTAATTTTTTAGTAG
1 TT-A-TTTTT-GTAG
*
15272454 TTATTATTTGT-T
1 TTATT-TTTGTAG
15272466 TTA-TTTTGTAG
1 TTATTTTTGTAG
15272477 TT
1 TT
15272479 TTGGAAGTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
10 5 0.10
11 12 0.24
12 15 0.29
13 5 0.10
14 9 0.18
15 5 0.10
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.67
Consensus pattern (12 bp):
TTATTTTTGTAG
Found at i:15272441 original size:16 final size:16
Alignment explanation
Indices: 15272422--15272462 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
15272412 GTAGTTATTT
*
15272422 ATTAATTATTTTTGTA
1 ATTAATTATTTTAGTA
15272438 ATTAATT-TTTTAGTA
1 ATTAATTATTTTAGTA
*
15272453 GTT-ATTATTT
1 ATTAATTATTT
15272463 GTTTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 3 0.14
15 12 0.55
16 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (16 bp):
ATTAATTATTTTAGTA
Found at i:15285624 original size:28 final size:32
Alignment explanation
Indices: 15285564--15285625 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 32
15285554 ATGATTTCTA
* *
15285564 TTAATTATTTTTTTGAACATTTTGAATTTTAT
1 TTAATTATTTTTATGAACATTTTGAATATTAT
15285596 TTAA-TATTTTTAT-AA-ATTTT-AATATTAT
1 TTAATTATTTTTATGAACATTTTGAATATTAT
15285624 TT
1 TT
15285626 TAAAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 9 0.32
29 5 0.18
30 2 0.07
31 8 0.29
32 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (32 bp):
TTAATTATTTTTATGAACATTTTGAATATTAT
Found at i:15285632 original size:20 final size:18
Alignment explanation
Indices: 15285595--15285634 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
15285585 TTGAATTTTA
*
15285595 TTTAATATTTTTATAAAT
1 TTTAATATTTTTAAAAAT
15285613 TTTAATATTATTTTAAAAAT
1 TTTAATA-T-TTTTAAAAAT
15285633 TT
1 TT
15285635 ATAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 1 0.05
20 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAATATTTTTAAAAAT
Found at i:15290981 original size:17 final size:17
Alignment explanation
Indices: 15290959--15291003 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
15290949 TTCAAAAAAA
15290959 TGGCCCATACACCCGTG
1 TGGCCCATACACCCGTG
* *
15290976 TGGCCCACACACTCGTG
1 TGGCCCATACACCCGTG
*
15290993 TTGCCCATACA
1 TGGCCCATACA
15291004 GCCCAACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (17 bp):
TGGCCCATACACCCGTG
Found at i:15292260 original size:23 final size:23
Alignment explanation
Indices: 15292229--15292283 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
15292219 AACAAACCAC
*
15292229 ATATTTATAACAACTAAATATA-
1 ATATATATAACAACTAAATATAT
*
15292251 ATCATATATAACTACTAAATATAT
1 AT-ATATATAACAACTAAATATAT
15292275 ATATATATA
1 ATATATATA
15292284 TATATAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 25 0.86
24 2 0.07
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (23 bp):
ATATATATAACAACTAAATATAT
Found at i:15293822 original size:29 final size:29
Alignment explanation
Indices: 15293789--15293852 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
15293779 TGGTAGATTG
*
15293789 AAAGATTGAAGATTTGAAGTTGGGTGGAT
1 AAAGATTGAAGATTTGAAGTTGGCTGGAT
*
15293818 AAAGATTGAAGATTTGAATTTGGCTGGAT
1 AAAGATTGAAGATTTGAAGTTGGCTGGAT
15293847 AAAGAT
1 AAAGAT
15293853 CAAATTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.38, C:0.02, G:0.30, T:0.31
Consensus pattern (29 bp):
AAAGATTGAAGATTTGAAGTTGGCTGGAT
Found at i:15295901 original size:36 final size:37
Alignment explanation
Indices: 15295885--15295972 Score: 137
Period size: 36 Copynumber: 2.5 Consensus size: 37
15295875 ATATTGTTGG
15295885 TGGTATATTGTTGCTTA-TGTTGGTATACATGGCTGC
1 TGGTATATTGTTGCTTATTGTTGGTATACATGGCTGC
*
15295921 TGGTATATTGTTGCTTA-TGTTGGTATACATGGCTAC
1 TGGTATATTGTTGCTTATTGTTGGTATACATGGCTGC
*
15295957 TTGTATATTGTT-CTTA
1 TGGTATATTGTTGCTTA
15295973 ACATATGTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 4 0.08
36 46 0.92
ACGTcount: A:0.18, C:0.10, G:0.24, T:0.48
Consensus pattern (37 bp):
TGGTATATTGTTGCTTATTGTTGGTATACATGGCTGC
Found at i:15295910 original size:20 final size:20
Alignment explanation
Indices: 15295885--15295947 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
15295875 ATATTGTTGG
15295885 TGGTATATTGTTGCTTATGT
1 TGGTATATTGTTGCTTATGT
* *
15295905 TGGTATACATG--GC---TGC
1 TGGTATA-TTGTTGCTTATGT
15295921 TGGTATATTGTTGCTTATGT
1 TGGTATATTGTTGCTTATGT
15295941 TGGTATA
1 TGGTATA
15295948 CATGGCTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
15 2 0.06
16 9 0.27
17 2 0.06
19 2 0.06
20 16 0.48
21 2 0.06
ACGTcount: A:0.17, C:0.08, G:0.27, T:0.48
Consensus pattern (20 bp):
TGGTATATTGTTGCTTATGT
Found at i:15297129 original size:32 final size:32
Alignment explanation
Indices: 15297046--15297144 Score: 101
Period size: 32 Copynumber: 2.9 Consensus size: 32
15297036 TAAAATGAAC
*
15297046 ATATACAATATATATTAGAAATACTAAAATATATAT
1 ATATAC-ATATATATTA-AAATACT-ACATA-ATAT
*
15297082 ATATATATATATATTAATAATACTACATAA-AT
1 ATATACATATATATTAA-AATACTACATAATAT
* *
15297114 ATGTACATATATATTAAAATAAATACATAAT
1 ATATACATATATATTAAAAT-ACTACATAAT
15297145 GATAGTAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
31 3 0.05
32 25 0.45
33 1 0.02
34 5 0.09
35 16 0.29
36 5 0.09
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (32 bp):
ATATACATATATATTAAAATACTACATAATAT
Found at i:15297133 original size:20 final size:20
Alignment explanation
Indices: 15297110--15297169 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
15297100 AATACTACAT
15297110 AAATATGTACATATATATTA
1 AAATATGTACATATATATTA
** *
15297130 AAATAAATACATAATGATAGTA
1 AAATATGTACAT-AT-ATATTA
15297152 AAAGTATGTACATA-ATAT
1 AAA-TATGTACATATATAT
15297170 AGTGTTGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
20 13 0.42
21 2 0.06
22 9 0.29
23 7 0.23
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.33
Consensus pattern (20 bp):
AAATATGTACATATATATTA
Found at i:15297164 original size:23 final size:21
Alignment explanation
Indices: 15297110--15297172 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
15297100 AATACTACAT
*
15297110 AAATATGTACAT-ATATATTA
1 AAATATGTACATAATATAGTA
**
15297130 AAATAAATACATAATGATAGTA
1 AAATATGTACATAAT-ATAGTA
15297152 AAAGTATGTACATAATATAGT
1 AAA-TATGTACATAATATAGT
15297173 GTTGAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.29
21 2 0.06
22 13 0.37
23 10 0.29
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (21 bp):
AAATATGTACATAATATAGTA
Found at i:15297314 original size:24 final size:25
Alignment explanation
Indices: 15297287--15297345 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
15297277 ATAAAAATAC
15297287 AATATTAAAAA-G-ATATATATACAT
1 AATATTAAAAATGCATATATA-ACAT
* *
15297311 AATATAAAAAATGCATATATAATAT
1 AATATTAAAAATGCATATATAACAT
15297336 AATATTAAAA
1 AATATTAAAA
15297346 TATTTACATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.33
25 13 0.43
26 7 0.23
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (25 bp):
AATATTAAAAATGCATATATAACAT
Found at i:15297439 original size:23 final size:23
Alignment explanation
Indices: 15297413--15297478 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
15297403 CAATATTACA
*
15297413 TAAACATATACCTATATATAT-AT
1 TAAACATATA-CTACATATATAAT
*
15297436 TAAAGATATA-TACATATATAAT
1 TAAACATATACTACATATATAAT
*
15297458 AAAACATATACTA-ATAT-TAAT
1 TAAACATATACTACATATATAAT
15297479 AATAATAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
21 12 0.32
22 14 0.38
23 11 0.30
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (23 bp):
TAAACATATACTACATATATAAT
Found at i:15297454 original size:21 final size:20
Alignment explanation
Indices: 15297428--15297477 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
15297418 ATATACCTAT
*
15297428 ATATATATTAAAGATATATAC
1 ATATATATTAAA-ACATATAC
*
15297449 ATATATAATAAAACATATAC
1 ATATATATTAAAACATATAC
15297469 -TA-ATATTAA
1 ATATATATTAA
15297478 TAATAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 6 0.23
19 2 0.08
20 7 0.27
21 11 0.42
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (20 bp):
ATATATATTAAAACATATAC
Found at i:15297478 original size:21 final size:23
Alignment explanation
Indices: 15297404--15297592 Score: 62
Period size: 23 Copynumber: 8.3 Consensus size: 23
15297394 ACCTATTAAC
15297404 AATAT-TACAT-AAACATATACCT
1 AATATATACATAAAACATATA-CT
* * *
15297426 -ATATATATATTAAAGATATA-T
1 AATATATACATAAAACATATACT
15297447 ACATATATA-ATAAAACATATACT
1 A-ATATATACATAAAACATATACT
*
15297470 AATAT-TA-ATAATA-ATA-A-T
1 AATATATACATAAAACATATACT
* *
15297488 AATGATA-ATATAAAAAATATA-T
1 AAT-ATATACATAAAACATATACT
* * *
15297510 ATATGAAATAGTATAAAAAATATAACT
1 A-AT-ATATA-CATAAAACATAT-ACT
** *
15297537 AATA-ATATTTAAAAAATATACAT
1 AATATATACATAAAACATATAC-T
* * *
15297560 GATATATATATATAAACATATACG
1 AATATATACATA-AAACATATACT
15297584 ATATATATA
1 A-ATATATA
15297593 TATTAGAAAT
Statistics
Matches: 135, Mismatches: 13, Indels: 35
0.74 0.07 0.19
Matches are distributed among these distances:
18 4 0.03
19 4 0.03
20 8 0.06
21 15 0.11
22 23 0.17
23 37 0.27
24 10 0.07
25 29 0.21
26 3 0.02
27 2 0.01
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (23 bp):
AATATATACATAAAACATATACT
Found at i:15297913 original size:3 final size:3
Alignment explanation
Indices: 15297821--15297897 Score: 57
Period size: 3 Copynumber: 24.7 Consensus size: 3
15297811 TAACGTAAAA
* * * *
15297821 AAT AAT AAT AAT AAT AAT AAT AAT CAT -GT AAAT AAC AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* *
15297866 AAC AAT GAT AAT GAAT AAAT AAAT AAT AAT AA
1 AAT AAT AAT AAT -AAT -AAT -AAT AAT AAT AA
15297898 CTGTGACAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
2 1 0.02
3 47 0.80
4 11 0.19
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:15299876 original size:90 final size:89
Alignment explanation
Indices: 15299711--15299881 Score: 247
Period size: 90 Copynumber: 1.9 Consensus size: 89
15299701 AAGCAGATTT
*
15299711 TGAAAATACCTCGACATGTGACCCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
1 TGAAAATACCTCGACATGTGACCCGAGACTCAACTCACCTCTCGCAATATGACTTGATTTTTGAA
*
15299776 AAGTATAAATTGAAAAAACAAAAAC
66 AAGTAGAAATT-AAAAAACAAAAAC
* *
15299801 TGAAAATACCTC-AGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGACTTGATTTTTGA
1 TGAAAATACCTCGA-CATGTGACCCGAGACTCAACTCACCTCTCGCAATATGACTTGATTTTTGA
**
15299865 CGA-TCAGAAATTAAAAA
65 AAAGT-AGAAATTAAAAA
15299882 TACCTTGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
89 7 0.10
90 66 0.90
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (89 bp):
TGAAAATACCTCGACATGTGACCCGAGACTCAACTCACCTCTCGCAATATGACTTGATTTTTGAA
AAGTAGAAATTAAAAAACAAAAAC
Found at i:15299972 original size:165 final size:161
Alignment explanation
Indices: 15299572--15300274 Score: 616
Period size: 165 Copynumber: 4.2 Consensus size: 161
15299562 ATCTTGAGCC
** * * *
15299572 CAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAACAGACATT-AAAAACAGAAATTGAAA
1 CAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATA-A-ATTGAAAAACA-AAATTGAAA
* * * * * * * * *
15299635 ATAGCTCAACACGTGAG-CCAAAGTTTAACTCACCTCTGGCAATATGAGTTGGTTTTTGAAACTT
62 ATACCTC-AGATGTGAGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA---
* * * * * * * * *
15299699 AAAAGCAGATTTTGAAAATACCTCGACATGTGACCCGAGACT
123 AATAG-A-A-ATTAAAAATACCTTGGCGTGTGAGCCAAGGCT
*
15299741 CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTATAAATTGAAAAAACAAAAACTGAAA
1 CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA--ATAAATTG-AAAAAC-AAAATTGAAA
* **
15299806 ATACCTCAGCATGTGAG-CCGAGGCTCAACTCACCTCTCGCAATATGACTTGATTTTTG-ACGAT
62 ATACCTCAG-ATGTGAGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT
15299869 CAGAAATTAAAAATACCTTGGCGTGTGAGCCAAGGCT
126 -AGAAATTAAAAATACCTTGGCGTGTGAGCCAAGGCT
* * * **
15299906 TAACTCACCTCTCGCAATATGGGTTGATTTTTTGACAAACATAAAGTGAAAAGTAGAAATTGAAA
1 CAACTCACCTCTCGCAATATGAGTTGA-TTTTTGA-AAA-ATAAATTGAAAAACA-AAATTGAAA
*
15299971 ATACCTTAG-TGTGAGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
62 ATACCTCAGATGTGAGACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAA
* * *
15300035 ATAGGAATTGAGAATACCTTGGCGTGTGAGCCAAGGCT
124 ATAGAAATTAAAAATACCTTGGCGTGTGAGCCAAGGCT
*
15300073 CAACTCACCTCTCGCAGTATGAGTTGATTTTTGAAAAATAGAATTTGAAAAACAAAATTTGAAAA
1 CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATA-AA-TTGAAAAACAAAA-TTGAAAA
* *
15300138 TACCTC-GACGTGAGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAG
63 TACCTCAGATGTGAGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAA
* * *** * ** *
15300202 CAGAAATTGAAAATACCTCAACGTCT---CTTGAGGTT
125 TAGAAATTAAAAATACCTTGGCGTGTGAGC-CAAGGCT
15300237 CAACTCACCTCTCGCAATATGAGTTGAATTTTTGAAAA
1 CAACTCACCTCTCGCAATATGAGTTG-ATTTTTGAAAA
15300275 CAGAAATAAA
Statistics
Matches: 450, Mismatches: 61, Indels: 50
0.80 0.11 0.09
Matches are distributed among these distances:
163 7 0.02
164 35 0.08
165 121 0.27
166 111 0.25
167 70 0.16
168 9 0.02
169 31 0.07
170 3 0.01
171 62 0.14
172 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (161 bp):
CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTGAAAAACAAAATTGAAAATAC
CTCAGATGTGAGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
TTAAAAATACCTTGGCGTGTGAGCCAAGGCT
Found at i:15300079 original size:77 final size:75
Alignment explanation
Indices: 15299952--15300123 Score: 224
Period size: 77 Copynumber: 2.3 Consensus size: 75
15299942 AAACATAAAG
* * *
15299952 TGAAAAGTAGAAATTGAAAATACCTTAGTGTGAGACCTGAGGCTCAACTCACCTCTCGCAATATG
1 TGAAAAATAGGAATTGAAAATACCTTAGTGTGAGACCTAAGGCTCAACTCACCTCTCGCAATATG
15300017 AGTTGATTTTTT
66 AGTTGA--TTTT
* * *
15300029 TGAAAAATAGGAATTGAGAATACCTTGGCGTGTGAG-CC-AAGGCTCAACTCACCTCTCGCAGTA
1 TGAAAAATAGGAATTGAAAATACCTT--AGTGTGAGACCTAAGGCTCAACTCACCTCTCGCAATA
15300092 TGAGTTGATTTT
64 TGAGTTGATTTT
15300104 TGAAAAATA-GAATTTGAAAA
1 TGAAAAATAGGAA-TTGAAAA
15300124 ACAAAATTTG
Statistics
Matches: 85, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
74 3 0.04
75 19 0.22
77 54 0.64
78 2 0.02
79 7 0.08
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (75 bp):
TGAAAAATAGGAATTGAAAATACCTTAGTGTGAGACCTAAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTT
Found at i:15300121 original size:14 final size:14
Alignment explanation
Indices: 15300102--15300137 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
15300092 TGAGTTGATT
* *
15300102 TTTGAAAAATAGAA
1 TTTGAAAAACAAAA
15300116 TTTGAAAAACAAAA
1 TTTGAAAAACAAAA
15300130 TTTGAAAA
1 TTTGAAAA
15300138 TACCTCGACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.28
Consensus pattern (14 bp):
TTTGAAAAACAAAA
Found at i:15300186 original size:166 final size:163
Alignment explanation
Indices: 15299710--15300274 Score: 635
Period size: 165 Copynumber: 3.4 Consensus size: 163
15299700 AAAGCAGATT
* * * * * *
15299710 TTGAAAATACCTCGACATGTGACCCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
1 TTGAAAATACCTTGGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
*
15299775 AAAGTATAAATTGAAAAAACAAAAACTGAAAATACCTCAGCATGTGAG--CCGAGGCTCAACTCA
66 AAA--ATAAATTG-AAAAAC-AAAATTGAAAATACCTC-G-ATGTGAGACCCGAGGCTCAACTCA
* **
15299838 CCTCTCGCAATATGACTTGA--TTTTTG-ACGATCAGAAA
125 CCTCTCGCAATATGAGTTGATTTTTTTGAAAAAT-AGAAA
* * *
15299875 TTAAAAATACCTTGGCGTGTGAGCCAAGGCTTAACTCACCTCTCGCAATATGGGTTGATTTTTTG
1 TTGAAAATACCTTGGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG
* ** * *
15299940 ACAAACATAAAGTGAAAAGTAGAAATTGAAAATACCT-TAGTGTGAGACCTGAGGCTCAACTCAC
65 A-AAA-ATAAATTGAAAAACA-AAATTGAAAATACCTCGA-TGTGAGACCCGAGGCTCAACTCAC
*
15300004 CTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGGAA
126 CTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAA
* *
15300042 TTGAGAATACCTTGGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTGA
1 TTGAAAATACCTTGGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
*
15300107 AAAATAGAATTTGAAAAACAAAATTTGAAAATACCTCGACGTGAGACCCGAGGCTCAACTCACCT
66 AAAATA-AA-TTGAAAAACAAAA-TTGAAAATACCTCGATGTGAGACCCGAGGCTCAACTCACCT
**
15300172 CTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAA
128 CTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAA
*** * ** *
15300208 TTGAAAATACCTCAACGTCT---CTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 TTGAAAATACCTTGGCGTGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
15300270 GAAAA
64 GAAAA
15300275 CAGAAATAAA
Statistics
Matches: 342, Mismatches: 43, Indels: 30
0.82 0.10 0.07
Matches are distributed among these distances:
162 1 0.00
163 7 0.02
164 33 0.10
165 119 0.35
166 112 0.33
167 67 0.20
168 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (163 bp):
TTGAAAATACCTTGGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
AAAATAAATTGAAAAACAAAATTGAAAATACCTCGATGTGAGACCCGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTTTGAAAAATAGAAA
Found at i:15312502 original size:20 final size:20
Alignment explanation
Indices: 15312479--15312538 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
15312469 AATACTACAT
15312479 AAATATGTACATATATATTA
1 AAATATGTACATATATATTA
** *
15312499 AAATAAATACATAATGATAGTA
1 AAATATGTACAT-AT-ATATTA
15312521 AAAGTATGTACATA-ATAT
1 AAA-TATGTACATATATAT
15312539 AGTGTTGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
20 13 0.42
21 2 0.06
22 9 0.29
23 7 0.23
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.33
Consensus pattern (20 bp):
AAATATGTACATATATATTA
Found at i:15312533 original size:23 final size:21
Alignment explanation
Indices: 15312479--15312541 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
15312469 AATACTACAT
*
15312479 AAATATGTACAT-ATATATTA
1 AAATATGTACATAATATAGTA
**
15312499 AAATAAATACATAATGATAGTA
1 AAATATGTACATAAT-ATAGTA
15312521 AAAGTATGTACATAATATAGT
1 AAA-TATGTACATAATATAGT
15312542 GTTGAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.29
21 2 0.06
22 13 0.37
23 10 0.29
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (21 bp):
AAATATGTACATAATATAGTA
Found at i:15312574 original size:25 final size:24
Alignment explanation
Indices: 15312489--15312574 Score: 79
Period size: 25 Copynumber: 3.6 Consensus size: 24
15312479 AAATATGTAC
15312489 ATATA-TATTAAAATAAATACATA
1 ATATAGTATTAAAATAAATACATA
* **
15312512 ATGATAGTA--AAAGTATGTACATA
1 AT-ATAGTATTAAAATAAATACATA
* *
15312535 ATATAGTGTTGAAAATACATACATA
1 ATATAGTATT-AAAATAAATACATA
15312560 ATATAGCTATTAAAA
1 ATATAG-TATTAAAA
15312575 ATATATATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
22 5 0.10
23 15 0.31
24 3 0.06
25 23 0.47
26 3 0.06
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (24 bp):
ATATAGTATTAAAATAAATACATA
Found at i:15312672 original size:37 final size:39
Alignment explanation
Indices: 15312621--15312699 Score: 92
Period size: 37 Copynumber: 2.1 Consensus size: 39
15312611 TGTAATATAG
* *
15312621 TATTAGAAATATATACATGACAT-ATAT-AAAAATACA-A
1 TATTAAAAAGATATACAT-ACATAATATAAAAAATACATA
* *
15312658 TATTAAAAAGATATATATACGTAATATAAAAAATACATA
1 TATTAAAAAGATATACATACATAATATAAAAAATACATA
15312697 TAT
1 TAT
15312700 AATATAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 3 0.09
37 19 0.54
38 9 0.26
39 4 0.11
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.32
Consensus pattern (39 bp):
TATTAAAAAGATATACATACATAATATAAAAAATACATA
Found at i:15312683 original size:24 final size:25
Alignment explanation
Indices: 15312656--15312714 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
15312646 ATAAAAATAC
* *
15312656 AATATTAAAAAGATATATAT-ACGT
1 AATATTAAAAAGACATATATAACAT
* * *
15312680 AATATAAAAAATACATATATAATAT
1 AATATTAAAAAGACATATATAACAT
15312705 AATATTAAAA
1 AATATTAAAA
15312715 TATTTACATA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 17 0.61
25 11 0.39
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (25 bp):
AATATTAAAAAGACATATATAACAT
Found at i:15312688 original size:22 final size:20
Alignment explanation
Indices: 15312642--15312706 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 20
15312632 TATACATGAC
15312642 ATATATAAAAATACA-ATAT-
1 ATATA-AAAAATACATATATA
* *
15312661 -TA-AAAAGATATATATACGTA
1 ATATAAAAAATACATATA--TA
15312681 ATATAAAAAATACATATATA
1 ATATAAAAAATACATATATA
15312701 ATATAA
1 ATATAA
15312707 TATTAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
16 7 0.19
17 4 0.11
18 2 0.06
19 1 0.03
20 8 0.22
21 2 0.06
22 12 0.33
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (20 bp):
ATATAAAAAATACATATATA
Found at i:15312715 original size:24 final size:24
Alignment explanation
Indices: 15312651--15312716 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 24
15312641 CATATATAAA
* *
15312651 AATACAATATTAAAA-AGATATAT
1 AATATAATATTAAAATACATATAT
*
15312674 -ATACGTAATATAAAAAATACATATAT
1 AATA--TAATAT-TAAAATACATATAT
15312700 AATATAATATTAAAATA
1 AATATAATATTAAAATA
15312717 TTTACATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
22 3 0.09
24 11 0.32
25 10 0.29
26 7 0.21
27 3 0.09
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (24 bp):
AATATAATATTAAAATACATATAT
Found at i:15312808 original size:23 final size:23
Alignment explanation
Indices: 15312782--15312847 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
15312772 CAATATTACA
*
15312782 TAAACATATACCTATATATAT-AT
1 TAAACATATA-CTACATATATAAT
*
15312805 TAAAGATATA-TACATATATAAT
1 TAAACATATACTACATATATAAT
*
15312827 AAAACATATACTA-ATAT-TAAT
1 TAAACATATACTACATATATAAT
15312848 AATAATAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
21 12 0.32
22 14 0.38
23 11 0.30
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (23 bp):
TAAACATATACTACATATATAAT
Found at i:15312823 original size:21 final size:20
Alignment explanation
Indices: 15312797--15312846 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
15312787 ATATACCTAT
*
15312797 ATATATATTAAAGATATATAC
1 ATATATATTAAA-ACATATAC
*
15312818 ATATATAATAAAACATATAC
1 ATATATATTAAAACATATAC
15312838 -TA-ATATTAA
1 ATATATATTAA
15312847 TAATAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 6 0.23
19 2 0.08
20 7 0.27
21 11 0.42
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (20 bp):
ATATATATTAAAACATATAC
Found at i:15312849 original size:21 final size:23
Alignment explanation
Indices: 15312773--15312843 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 23
15312763 ACCTATTAAC
15312773 AATAT-TACAT-AAACATATACCT
1 AATATATACATAAAACATATA-CT
* * *
15312795 -ATATATATATTAAAGATATA-T
1 AATATATACATAAAACATATACT
15312816 ACATATATA-ATAAAACATATACT
1 A-ATATATACATAAAACATATACT
15312839 AATAT
1 AATAT
15312844 TAATAATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
21 5 0.12
22 18 0.45
23 17 0.43
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (23 bp):
AATATATACATAAAACATATACT
Found at i:15312910 original size:23 final size:23
Alignment explanation
Indices: 15312861--15312926 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
15312851 AATAATAAGG
**
15312861 ATAATATAAAAATATATATATGAA
1 ATAATATAAAAA-ATATATAACAA
* *
15312885 ATAGTATAAAAAATATATAACTA
1 ATAATATAAAAAATATATAACAA
15312908 ATAATATTTAAAAAATATA
1 ATAATA--TAAAAAATATA
15312927 CATGATATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 13 0.37
24 11 0.31
25 11 0.31
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (23 bp):
ATAATATAAAAAATATATAACAA
Found at i:15313298 original size:3 final size:3
Alignment explanation
Indices: 15313098--15313282 Score: 94
Period size: 3 Copynumber: 60.3 Consensus size: 3
15313088 ATATATGTAT
* * * *
15313098 ATA ATA ATA ATA ATA ATAA ATA GTA ATA ATG TTA ATG ATA A-A AGTA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * * * *
15313144 A-A GATA AGA ATA A-A GATA GTA ATA ACA GTA ATG GTA ACGTA A-A A-A
1 ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA
* *
15313189 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATC AT- GTAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * * *
15313237 ATA ACA ATG ATA ATA ACA ATG ATA ATGA ATAA ATAA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A AT-A ATA ATA ATA A
15313283 ATGTGACAAT
Statistics
Matches: 137, Mismatches: 32, Indels: 26
0.70 0.16 0.13
Matches are distributed among these distances:
2 9 0.07
3 107 0.78
4 18 0.13
5 3 0.02
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:15316049 original size:1 final size:1
Alignment explanation
Indices: 15316043--15316084 Score: 66
Period size: 1 Copynumber: 42.0 Consensus size: 1
15316033 TTAGTACTTA
* *
15316043 TTTTTTTCTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15316085 AAATTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:15316370 original size:118 final size:118
Alignment explanation
Indices: 15316210--15316440 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
15316200 TATTTCCGGT
15316210 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
15316275 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
15316328 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
15316393 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
15316441 ATGGAAAACA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:15317309 original size:39 final size:39
Alignment explanation
Indices: 15317227--15317327 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 39
15317217 GGGATTCTAA
*
15317227 GGCT-GAATAGGACTGTTTGGCTGCAGAGATATGACATTCTG
1 GGCTGGAATAGAACTGTTT-G--GCAGAGATATGACATTCTG
* * *
15317268 GGCTGGAATAGAACTGTTTGGCAGGGATATGGCATTTTG
1 GGCTGGAATAGAACTGTTTGGCAGAGATATGACATTCTG
15317307 GGCTGGAATAGAACTGTTTGG
1 GGCTGGAATAGAACTGTTTGG
15317328 TACCATGGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
39 37 0.67
41 5 0.09
42 13 0.24
ACGTcount: A:0.24, C:0.12, G:0.35, T:0.30
Consensus pattern (39 bp):
GGCTGGAATAGAACTGTTTGGCAGAGATATGACATTCTG
Found at i:15317443 original size:5 final size:5
Alignment explanation
Indices: 15317433--15317531 Score: 76
Period size: 5 Copynumber: 18.8 Consensus size: 5
15317423 AATATTTAAC
* *
15317433 TAAAA TAAAA TAAAA TAAAA TAATAA AAAAA TAAAA T-AAA TAATAA -ATAA
1 TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA TAA-AA TAAAA
* * *
15317483 TAAAA GAAAA TAAAG GAAAA TAATAAA TAAAAA TAAAAA TAAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA T-A-AAA T-AAAA T-AAAA T-AAAA TAAA
15317532 GATTGGGTTG
Statistics
Matches: 78, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
4 6 0.08
5 43 0.55
6 23 0.29
7 6 0.08
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:15317485 original size:30 final size:30
Alignment explanation
Indices: 15317434--15317531 Score: 102
Period size: 30 Copynumber: 3.4 Consensus size: 30
15317424 ATATTTAACT
15317434 AAAATAAAAT-AA-AAT-AA-AATAATAAA
1 AAAATAAAATAAATAATAAATAATAATAAA
*
15317460 AAAATAAAATAAATAATAAATAATAA-AAG
1 AAAATAAAATAAATAATAAATAATAATAAA
*
15317489 AAAATAAAGGA-AAATAATAAATAAAAATAAA
1 AAAATAAA--ATAAATAATAAATAATAATAAA
*
15317520 AATA-AAAATAAA
1 AAAATAAAATAAA
15317532 GATTGGGTTG
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
26 10 0.17
27 2 0.03
28 4 0.07
29 15 0.25
30 23 0.38
31 6 0.10
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (30 bp):
AAAATAAAATAAATAATAAATAATAATAAA
Found at i:15317515 original size:13 final size:13
Alignment explanation
Indices: 15317445--15317530 Score: 76
Period size: 12 Copynumber: 6.9 Consensus size: 13
15317435 AAATAAAATA
15317445 AAAT-AAAATAAT
1 AAATAAAAATAAT
*
15317457 AAA-AAAATAAAAT
1 AAATAAAA-ATAAT
15317470 AAATAATAAATAAT
1 AAATAA-AAATAAT
*
15317484 -AA-AAGAA-AAT
1 AAATAAAAATAAT
**
15317494 AAAGGAAAATAAT
1 AAATAAAAATAAT
15317507 AAATAAAAATAA-
1 AAATAAAAATAAT
15317519 AAATAAAAATAA
1 AAATAAAAATAA
15317531 AGATTGGGTT
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
10 3 0.05
11 4 0.07
12 23 0.38
13 22 0.37
14 6 0.10
15 2 0.03
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (13 bp):
AAATAAAAATAAT
Found at i:15321949 original size:15 final size:16
Alignment explanation
Indices: 15321929--15321961 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
15321919 ATATATATTT
15321929 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
15321944 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
15321961 T
1 T
15321962 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:15322047 original size:22 final size:22
Alignment explanation
Indices: 15322008--15322066 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
15321998 GTTTTAAGAA
*
15322008 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
15322029 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
15322051 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
15322067 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:15322083 original size:26 final size:24
Alignment explanation
Indices: 15322037--15322085 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
15322027 ATTTGTTTTA
*
15322037 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
15322061 ATATTTGATTTATTATATTTTTAAA
1 ATATTT-ATTT-TTATATTTTTAAA
15322086 CTTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:15322097 original size:26 final size:26
Alignment explanation
Indices: 15322040--15322098 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
15322030 TGTTTTAATA
*
15322040 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* *
15322065 TTGATTTATTATATTTTTAAACT-TTT
1 TTTATTTATTATATTTTTAAA-TATAT
15322091 TTTATTTA
1 TTTATTTA
15322099 ATGAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 6 0.21
26 21 0.75
27 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:15323351 original size:28 final size:25
Alignment explanation
Indices: 15323312--15323368 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 25
15323302 ACACACCCCT
*
15323312 AAAAAAATCACTACATGCATATTATA
1 AAAAAAATCACTACATACATATTA-A
*
15323338 AAAAAATACTCACTGCATACATATTAA
1 AAAAAA-A-TCACTACATACATATTAA
15323365 AAAA
1 AAAA
15323369 TAGGCAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 6 0.22
27 6 0.22
28 15 0.56
ACGTcount: A:0.56, C:0.16, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAAAAATCACTACATACATATTAA
Found at i:15323354 original size:24 final size:25
Alignment explanation
Indices: 15323311--15323370 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
15323301 CACACACCCC
*
15323311 TAAAAAAATCACTACATGCATA-TTA
1 TAAAAAAAT-ACTACATGCATACATA
15323336 TAAAAAAATACT-CACTGCATACATA
1 TAAAAAAATACTACA-TGCATACATA
*
15323361 TTAAAAAATA
1 TAAAAAAATA
15323371 GGCAATACAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 2 0.06
24 9 0.29
25 20 0.65
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (25 bp):
TAAAAAAATACTACATGCATACATA
Found at i:15323402 original size:40 final size:40
Alignment explanation
Indices: 15323347--15323448 Score: 141
Period size: 40 Copynumber: 2.5 Consensus size: 40
15323337 AAAAAAATAC
* * *
15323347 TCACTGCATACATATTAAAAAATAGGCAATACACCATCAA
1 TCACTGCATGCATATTAAAAAATAGGCAACACACCAACAA
* * *
15323387 TCACTGTATGCATATTAAAAAATAGTCAACACACTAACAA
1 TCACTGCATGCATATTAAAAAATAGGCAACACACCAACAA
*
15323427 TCAGTGCATGCATATTAAAAAA
1 TCACTGCATGCATATTAAAAAA
15323449 CATTCACTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.47, C:0.20, G:0.09, T:0.25
Consensus pattern (40 bp):
TCACTGCATGCATATTAAAAAATAGGCAACACACCAACAA
Found at i:15325100 original size:20 final size:20
Alignment explanation
Indices: 15325075--15325113 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
15325065 TTCTATACCA
15325075 TCCATGTTTAAACCATCTAC
1 TCCATGTTTAAACCATCTAC
15325095 TCCATGTTTAAACCATCTA
1 TCCATGTTTAAACCATCTA
15325114 AATTAACTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (20 bp):
TCCATGTTTAAACCATCTAC
Found at i:15325165 original size:15 final size:15
Alignment explanation
Indices: 15325133--15325182 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
15325123 CTATCCTATT
**
15325133 AGACACATCACTTTC
1 AGACACATCACTACC
**
15325148 AGATGCATCACTACC
1 AGACACATCACTACC
*
15325163 AGACACATCACTACT
1 AGACACATCACTACC
15325178 AGACA
1 AGACA
15325183 TGTCTTCTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.38, C:0.32, G:0.10, T:0.20
Consensus pattern (15 bp):
AGACACATCACTACC
Found at i:15325632 original size:16 final size:16
Alignment explanation
Indices: 15325613--15325654 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
15325603 TATGTCATAC
*
15325613 AAATCGAAATAACTCT
1 AAATCGAAATAACCCT
*
15325629 AAATCGAAATTACCCT
1 AAATCGAAATAACCCT
15325645 AAATCGAAAT
1 AAATCGAAAT
15325655 CCAAATCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.24
Consensus pattern (16 bp):
AAATCGAAATAACCCT
Found at i:15325690 original size:24 final size:23
Alignment explanation
Indices: 15325644--15325703 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
15325634 GAAATTACCC
* *
15325644 TAAATCGAAATCCAAATCTAAAT
1 TAAATCAAAATCCAAATCAAAAT
* * *
15325667 ATAAATCTAAATCGAGATCAAAAT
1 -TAAATCAAAATCCAAATCAAAAT
15325691 TGAAATCAAAATC
1 T-AAATCAAAATC
15325704 AGAATCAGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.53, C:0.15, G:0.07, T:0.25
Consensus pattern (23 bp):
TAAATCAAAATCCAAATCAAAAT
Found at i:15326358 original size:30 final size:31
Alignment explanation
Indices: 15326301--15326361 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
15326291 TCAGTGATTA
* *
15326301 TTTTGTCACTTTTTTATAACGTTAGTGACTG
1 TTTTGTAACTTTTTGATAACGTTAGTGACTG
15326332 TTTTGTAACTTTTTGA-AA-GTTGAGTGACTG
1 TTTTGTAACTTTTTGATAACGTT-AGTGACTG
15326362 AAATAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 3 0.11
30 10 0.37
31 14 0.52
ACGTcount: A:0.21, C:0.10, G:0.20, T:0.49
Consensus pattern (31 bp):
TTTTGTAACTTTTTGATAACGTTAGTGACTG
Found at i:15326421 original size:20 final size:20
Alignment explanation
Indices: 15326352--15326410 Score: 100
Period size: 20 Copynumber: 2.9 Consensus size: 20
15326342 TTTTGAAAGT
15326352 TGAGTGACTGAAATAAAATC
1 TGAGTGACTGAAATAAAATC
*
15326372 TGAGTGACTAAAATAAAATC
1 TGAGTGACTGAAATAAAATC
15326392 TGAGTGACTGAAATGAAAA
1 TGAGTGACTGAAAT-AAAA
15326411 CTATGTGACT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 32 0.89
21 4 0.11
ACGTcount: A:0.47, C:0.08, G:0.20, T:0.24
Consensus pattern (20 bp):
TGAGTGACTGAAATAAAATC
Found at i:15328089 original size:17 final size:17
Alignment explanation
Indices: 15328069--15328101 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15328059 TTTAACATAA
15328069 TTTAATCGTTAT-AATTT
1 TTTAAT-GTTATCAATTT
15328086 TTTAATGTTATCAATT
1 TTTAATGTTATCAATT
15328102 AGTTCAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTAATGTTATCAATTT
Found at i:15330362 original size:24 final size:25
Alignment explanation
Indices: 15330335--15330401 Score: 82
Period size: 24 Copynumber: 2.6 Consensus size: 25
15330325 TATCAAATAA
15330335 TTAAATAAAATTAATG-TAAAAATT
1 TTAAATAAAATTAATGATAAAAATT
*
15330359 TTAAATAAAATTAATGAATAATAATT
1 TTAAATAAAATTAATG-ATAAAAATT
*
15330385 ATAAATTTAAAATTAAT
1 TTAAA--TAAAATTAAT
15330402 ATTAAATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 16 0.43
26 11 0.30
28 10 0.27
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (25 bp):
TTAAATAAAATTAATGATAAAAATT
Found at i:15331817 original size:3 final size:3
Alignment explanation
Indices: 15331809--15331836 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15331799 GGTTAGTTTT
15331809 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
15331837 GATGATGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:15333857 original size:42 final size:42
Alignment explanation
Indices: 15333798--15333881 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
15333788 ATTAGCTAAT
15333798 TGATTTTCTATGTTCAAACTAATGATAAGTGGCATTGTAAGA
1 TGATTTTCTATGTTCAAACTAATGATAAGTGGCATTGTAAGA
15333840 TGATTTTCTATGTTCAAACTAATGATAAGTGGCATTGTAAGA
1 TGATTTTCTATGTTCAAACTAATGATAAGTGGCATTGTAAGA
15333882 ACGTTTACAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (42 bp):
TGATTTTCTATGTTCAAACTAATGATAAGTGGCATTGTAAGA
Found at i:15334982 original size:20 final size:21
Alignment explanation
Indices: 15334957--15335002 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
15334947 CTAAATGTGC
15334957 ATATTTACATTTT-ATTCTTT
1 ATATTTACATTTTCATTCTTT
*
15334977 ATATTT-CGTTTTCATTCTTT
1 ATATTTACATTTTCATTCTTT
15334997 AT-TTTA
1 ATATTTA
15335003 TTTTTCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.65
Consensus pattern (21 bp):
ATATTTACATTTTCATTCTTT
Found at i:15335007 original size:19 final size:20
Alignment explanation
Indices: 15334966--15335009 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
15334956 CATATTTACA
*
15334966 TTTT-ATTCTTTATATTTCG
1 TTTTCATTCTTTATATTTAG
*
15334985 TTTTCATTCTTTAT-TTTAT
1 TTTTCATTCTTTATATTTAG
15335004 TTTTCA
1 TTTTCA
15335010 AATAGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTCATTCTTTATATTTAG
Found at i:15337220 original size:21 final size:19
Alignment explanation
Indices: 15337185--15337240 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 19
15337175 ATTGAATTAT
*
15337185 ATTATTTTAATAATTTAAAG
1 ATTAATTTAA-AATTTAAAG
*
15337205 ATTCAATTATAAAATTTAAGG
1 ATT-AATT-TAAAATTTAAAG
*
15337226 ATTAATTTAGAATTT
1 ATTAATTTAAAATTT
15337241 GGAGACACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 7 0.23
20 7 0.23
21 14 0.45
22 3 0.10
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (19 bp):
ATTAATTTAAAATTTAAAG
Found at i:15340493 original size:2 final size:2
Alignment explanation
Indices: 15340486--15340521 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15340476 CAACAAGAAG
15340486 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15340522 GTTTAAGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15351119 original size:27 final size:27
Alignment explanation
Indices: 15351089--15351145 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
15351079 TATGGGGGTA
* **
15351089 GGTGGCGCCTATCTGGTAGGCGCGACT
1 GGTGGAGCCTATCTGACAGGCGCGACT
15351116 GGTGGAGCCTATCTGACAGGCGCGACT
1 GGTGGAGCCTATCTGACAGGCGCGACT
15351143 GGT
1 GGT
15351146 TGAACAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.14, C:0.25, G:0.40, T:0.21
Consensus pattern (27 bp):
GGTGGAGCCTATCTGACAGGCGCGACT
Found at i:15351294 original size:72 final size:72
Alignment explanation
Indices: 15351177--15351345 Score: 266
Period size: 72 Copynumber: 2.3 Consensus size: 72
15351167 TTTTTTAAAA
* * *
15351177 TTTACATTACTAAAAACTAACAAAACACAACAATTTATAATAAATTACTAGCAAAATATTTAACA
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACCAACAAAATATTTAACA
15351242 AAATAAT
66 AAATAAT
** * *
15351249 TTTACATTACTAAAAACTCACAAAGTAGAACAATTTATAATAAATTACCAACAAAATATTTAATA
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACCAACAAAATATTTAACA
15351314 AAATAAT
66 AAATAAT
15351321 TTTACATTACTAAAAACTCATCAAA
1 TTTACATTACTAAAAACTCA-CAAA
15351346 TACTAAACTA
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
72 85 0.96
73 4 0.04
ACGTcount: A:0.54, C:0.14, G:0.02, T:0.30
Consensus pattern (72 bp):
TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACCAACAAAATATTTAACA
AAATAAT
Found at i:15351420 original size:60 final size:60
Alignment explanation
Indices: 15351355--15351473 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
15351345 ATACTAAACT
* *
15351355 AAACACAACAATTTATAACATAATCCTAAATTATTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
* *
15351415 AAACACAACAATTTATAATATAATCTTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
15351474 TTAAAAAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:15352696 original size:15 final size:14
Alignment explanation
Indices: 15352666--15352692 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15352656 TATGTCTCTT
15352666 TTTTTAAATATTTA
1 TTTTTAAATATTTA
15352680 TTTTTAAATATTT
1 TTTTTAAATATTT
15352693 TATTATATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTAAATATTTA
Found at i:15352943 original size:18 final size:18
Alignment explanation
Indices: 15352902--15352948 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
15352892 TTAGAAGAGT
*
15352902 ATATACTTAATT-TTTAA
1 ATATATTTAATTATTTAA
15352919 A-AT-TTTAATTATTTAA
1 ATATATTTAATTATTTAA
15352935 ATATATTTAATTAT
1 ATATATTTAATTAT
15352949 AAAAGTAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 6 0.23
16 8 0.31
17 3 0.12
18 9 0.35
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATATTTAATTATTTAA
Found at i:15361385 original size:7 final size:7
Alignment explanation
Indices: 15361373--15361405 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
15361363 AATACAAACA
15361373 ATTTAAT
1 ATTTAAT
15361380 ATTTAAT
1 ATTTAAT
15361387 ATTTAAT
1 ATTTAAT
15361394 ATTTAAT
1 ATTTAAT
15361401 -TTTAA
1 ATTTAA
15361406 ACTACTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTAAT
Found at i:15361689 original size:18 final size:17
Alignment explanation
Indices: 15361657--15361690 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15361647 CGATACTGTG
*
15361657 TGAAAAAATATCGATAT
1 TGAAAAAAAATCGATAT
15361674 TGAAATAAAAATCGATA
1 TGAAA-AAAAATCGATA
15361691 CTAATTTGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (17 bp):
TGAAAAAAAATCGATAT
Found at i:15373746 original size:43 final size:44
Alignment explanation
Indices: 15373625--15373782 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 44
15373615 TAATACCATA
* * * * * * *
15373625 TCCCAGATATTGTCTTACATGTTATCAC-ATATCGATGCCATTG
1 TCCCAGACATGGTCTTACACGTAATCACAATAACAATGCCAATG
* * * * **
15373668 TCCCAGACAGGGTCTTACACGAAATC-GATTAACAATTTCAATG
1 TCCCAGACATGGTCTTACACGTAATCACAATAACAATGCCAATG
15373711 TCCCAGACATGGTCTTACACGTAATCACAAT-ACAATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACAATAACAATGCCAATG
* *
15373754 T-CCATGACATGGTTTTACATGTAATCACA
1 TCCCA-GACATGGTCTTACACGTAATCACA
15373783 TGTTGGAAAC
Statistics
Matches: 91, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
42 3 0.03
43 86 0.95
44 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.30
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGTAATCACAATAACAATGCCAATG
Found at i:15376658 original size:5 final size:5
Alignment explanation
Indices: 15376650--15376679 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
15376640 TGGAAGACTC
15376650 TATTT TATTT TATTT TATTT TATTT ATATT
1 TATTT TATTT TATTT TATTT TATTT -TATT
15376680 AGGATAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:15376726 original size:16 final size:16
Alignment explanation
Indices: 15376705--15376736 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15376695 AAGATAAATA
15376705 TTAGGATTATTTAATT
1 TTAGGATTATTTAATT
*
15376721 TTAGGATTTTTTAATT
1 TTAGGATTATTTAATT
15376737 ATCTTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (16 bp):
TTAGGATTATTTAATT
Found at i:15386033 original size:42 final size:41
Alignment explanation
Indices: 15385915--15386103 Score: 137
Period size: 42 Copynumber: 4.5 Consensus size: 41
15385905 TTATTTGCTA
* * * * *
15385915 CCTGGACACACACACATGTCCTTGCCCGTGTGGCTCACACGG
1 CCTGGGCACACGCCCATGTCCTTG-CTGTGTGGCTCAAACGG
* * * * * ** *
15385957 CCTCGGCATACGTCTATATCCTTGCCCATATGGCTCAAACGG
1 CCTGGGCACACGCCCATGTCCTTG-CTGTGTGGCTCAAACGG
* * *
15385999 CCTGGGCACACGCCTATGTCCTTACATGTGTGGCTCACACGG
1 CCTGGGCACACGCCCATGTCCTTGC-TGTGTGGCTCAAACGG
* * * * *
15386041 CCTAGACACATGCCCATGTCTTTGCTCGTGTGGCTCATAA-AG
1 CCTGGGCACACGCCCATGTCCTTGCT-GTGTGGCTCA-AACGG
15386083 CCTGGGCACACGCCCATGTCC
1 CCTGGGCACACGCCCATGTCC
15386104 CTGGCCGTGT
Statistics
Matches: 112, Mismatches: 32, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
41 2 0.02
42 109 0.97
43 1 0.01
ACGTcount: A:0.19, C:0.35, G:0.23, T:0.23
Consensus pattern (41 bp):
CCTGGGCACACGCCCATGTCCTTGCTGTGTGGCTCAAACGG
Found at i:15389059 original size:20 final size:20
Alignment explanation
Indices: 15389036--15389088 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
15389026 AATACTGAGA
* *
15389036 AGAGCAAAATAGAACGGAGC
1 AGAGCAAAATAGAACAGAAC
* *
15389056 AGAGCAAAACAGAATAGAAC
1 AGAGCAAAATAGAACAGAAC
*
15389076 AGGGCAAAATAGA
1 AGAGCAAAATAGA
15389089 GCATGTATGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.55, C:0.13, G:0.26, T:0.06
Consensus pattern (20 bp):
AGAGCAAAATAGAACAGAAC
Found at i:15392301 original size:2 final size:2
Alignment explanation
Indices: 15392291--15392327 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
15392281 ACGACACACA
15392291 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15392328 TACAAGACAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15398138 original size:21 final size:21
Alignment explanation
Indices: 15398114--15398156 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15398104 TTTTTTTGAA
*
15398114 TCGAGTCAAATGAAATGAAAT
1 TCGAGTCAAATCAAATGAAAT
*
15398135 TCGAGTCGAATCAAATGAAAT
1 TCGAGTCAAATCAAATGAAAT
15398156 T
1 T
15398157 GTTAGAGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.26
Consensus pattern (21 bp):
TCGAGTCAAATCAAATGAAAT
Found at i:15399502 original size:3 final size:3
Alignment explanation
Indices: 15399488--15399531 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
15399478 TTCAAATCAA
*
15399488 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15399532 GATATTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:15401283 original size:2 final size:2
Alignment explanation
Indices: 15401278--15401303 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15401268 TCCTTTGCTT
15401278 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
15401304 ATATTTTTGT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:15403078 original size:66 final size:67
Alignment explanation
Indices: 15402971--15403104 Score: 243
Period size: 66 Copynumber: 2.0 Consensus size: 67
15402961 AATGAAAAAG
*
15402971 TTTAAAAGTATTTTTTTTATTTGATTCTTTGTGAGATTAAGAGTATAATCCTTTCCTAATTTATA
1 TTTAAAAGTATTTTTTTTATTTGATTATTTGTGAGATTAAGAGTATAATCCTTTCCTAATTTATA
15403036 AT
66 AT
*
15403038 TTTAAAAGTA-TTTTTTTATTTGATTATTTGTGAGATTAAGAGTATAATTCTTTCCTAATTTATA
1 TTTAAAAGTATTTTTTTTATTTGATTATTTGTGAGATTAAGAGTATAATCCTTTCCTAATTTATA
15403102 AT
66 AT
15403104 T
1 T
15403105 AATAAGATAA
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
66 55 0.85
67 10 0.15
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (67 bp):
TTTAAAAGTATTTTTTTTATTTGATTATTTGTGAGATTAAGAGTATAATCCTTTCCTAATTTATA
AT
Found at i:15405148 original size:2 final size:2
Alignment explanation
Indices: 15405141--15405166 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15405131 ATTTGAATTA
15405141 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
15405167 CTAAGTGTGA
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:15405495 original size:22 final size:20
Alignment explanation
Indices: 15405461--15405501 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
15405451 TATATTTTTA
15405461 TAAAATTTAAAATATTAAAT
1 TAAAATTTAAAATATTAAAT
15405481 TAAAATTTTATAAATATTAAA
1 TAAAA-TTTA-AAATATTAAA
15405502 GGATCAGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 4 0.21
22 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAATTTAAAATATTAAAT
Found at i:15406597 original size:23 final size:22
Alignment explanation
Indices: 15406558--15406601 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
15406548 GCATCCTAAC
* *
15406558 TTTAGAAGCAAATCATTATGAT
1 TTTAGAAACAAAGCATTATGAT
15406580 TTTAGTAAACAAAGCATTATGA
1 TTTAG-AAACAAAGCATTATGA
15406602 AGTAGAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (22 bp):
TTTAGAAACAAAGCATTATGAT
Found at i:15414543 original size:95 final size:93
Alignment explanation
Indices: 15414434--15414673 Score: 245
Period size: 94 Copynumber: 2.5 Consensus size: 93
15414424 AGTTTGATGC
15414434 AAAAAGCCCTAAAACTTTTTTTTAAAAAAAAGCAATTAAGCCCCTGCTTTTTTTTTTAT-ACTCA
1 AAAAAGCCCTAAAACTTTTTTTTAAAAAAAA-CAATTAAGCCCCTGCTTTTTTTTTTATCACTCA
* *
15414498 TTTGGGTACTTGAACTTTCAAAATGCATA
65 ATTGGGTACTTGAACTTTCAAAATACATA
* * * * * *
15414527 AAAAATGCCCTCAAAAC---TTTTTAATAAAAACAATAAAGCCCTTAACTTTTTTTTTTTTGCAT
1 AAAAA-GCCCT-AAAACTTTTTTTTAAAAAAAACAATTAAGCCCCT-GCTTTTTTTTTTAT-CAC
*
15414589 TCAATTGGGTTCTTGAACTTTCAAAATACATCA
62 TCAATTGGGTACTTGAACTTTCAAAATACAT-A
* * *** *
15414622 AAAAGGCCCTTAAACTTTTTCAAAAAAAAAACACAATTAGGCCCCTGCTTTT
1 AAAAAGCCCTAAAACTTTTT-TTTAAAAAAA-ACAATTAAGCCCCTGCTTTT
15414674 ATTAAAAATT
Statistics
Matches: 117, Mismatches: 19, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
91 11 0.09
92 24 0.21
93 9 0.08
94 39 0.33
95 10 0.09
96 2 0.02
97 11 0.09
98 11 0.09
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (93 bp):
AAAAAGCCCTAAAACTTTTTTTTAAAAAAAACAATTAAGCCCCTGCTTTTTTTTTTATCACTCAA
TTGGGTACTTGAACTTTCAAAATACATA
Found at i:15414692 original size:10 final size:9
Alignment explanation
Indices: 15414677--15414713 Score: 51
Period size: 8 Copynumber: 4.2 Consensus size: 9
15414667 TGCTTTTATT
15414677 AAAAATTAGA
1 AAAAATTA-A
15414687 AAAAATT-A
1 AAAAATTAA
15414695 AAAAATT-A
1 AAAAATTAA
15414703 AAAAATTAA
1 AAAAATTAA
15414712 AA
1 AA
15414714 TCAATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 16 0.62
9 3 0.12
10 7 0.27
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (9 bp):
AAAAATTAA
Found at i:15414697 original size:8 final size:8
Alignment explanation
Indices: 15414686--15414713 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
15414676 TAAAAATTAG
15414686 AAAAAATT
1 AAAAAATT
15414694 AAAAAATT
1 AAAAAATT
15414702 AAAAAATT
1 AAAAAATT
15414710 AAAA
1 AAAA
15414714 TCAATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAAATT
Found at i:15414806 original size:19 final size:20
Alignment explanation
Indices: 15414784--15414844 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 20
15414774 TTAAAAATAT
15414784 AAAATA-TATAAAATTCATAAA
1 AAAATAGTATAAAATTCAT--A
* *
15414805 AAAATTGT-TAAATTTCATA
1 AAAATAGTATAAAATTCATA
15414824 AAAATAGTA-AAAATT-ATA
1 AAAATAGTATAAAATTCATA
15414842 AAA
1 AAA
15414845 TATATAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 6 0.18
19 13 0.38
21 14 0.41
22 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAATAGTATAAAATTCATA
Found at i:15414862 original size:18 final size:17
Alignment explanation
Indices: 15414821--15414862 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
15414811 GTTAAATTTC
15414821 ATAAAAATAGTAAAAATT
1 ATAAAAATAGTAAAAA-T
*
15414839 ATAAAATATA-TAGAAAT
1 ATAAAA-ATAGTAAAAAT
15414856 ATAAAAA
1 ATAAAAA
15414863 AAATTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.05
17 7 0.32
18 11 0.50
19 3 0.14
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAAAAATAGTAAAAAT
Found at i:15414870 original size:27 final size:27
Alignment explanation
Indices: 15414776--15414872 Score: 81
Period size: 28 Copynumber: 3.5 Consensus size: 27
15414766 AAAATTTATT
15414776 AAAAATATAAAATATATAAAATTCATAAA
1 AAAAATATAAAATATATAAAA-T-ATAAA
* * * * *
15414805 AAAATTGTTAAATTTCATAAAA-ATAGTA
1 AAAAATATAAAATAT-ATAAAATATA-AA
*
15414833 AAAATTATAAAATATATAGAAATATAAA
1 AAAAATATAAAATATATA-AAATATAAA
15414861 AAAAAT-TAAAAT
1 AAAAATATAAAAT
15414873 TTTATAAAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
27 12 0.22
28 22 0.41
29 14 0.26
30 6 0.11
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (27 bp):
AAAAATATAAAATATATAAAATATAAA
Found at i:15414874 original size:55 final size:56
Alignment explanation
Indices: 15414775--15414880 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
15414765 AAAAATTTAT
* *
15414775 TAAAAATATAAAATATATAAAATTCATAAAAAAATTGTTAAATTTCATAAAAATAG
1 TAAAAATATAAAATATATAAAATTCATAAAAAAAATGTAAAATTTCATAAAAATAG
*
15414831 TAAAAATTATAAAATATATAGAAA-T-ATAAAAAAAAT-TAAAATTTTATAAA
1 TAAAAA-TATAAAATATATA-AAATTCATAAAAAAAATGTAAAATTTCATAAA
15414881 GTTGTAAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
55 12 0.27
56 16 0.36
57 14 0.31
58 3 0.07
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (56 bp):
TAAAAATATAAAATATATAAAATTCATAAAAAAAATGTAAAATTTCATAAAAATAG
Done.