Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 39 of 82
Found at i:14502097 original size:16 final size:16
Alignment explanation
Indices: 14502076--14502106 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14502066 CAACTTTTAA
14502076 TAAAATATTAATATTT
1 TAAAATATTAATATTT
14502092 TAAAATATTAATATT
1 TAAAATATTAATATT
14502107 AAATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATATTAATATTT
Found at i:14502106 original size:22 final size:22
Alignment explanation
Indices: 14502074--14502151 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 22
14502064 TCCAACTTTT
14502074 AATA-AAATATTAATATTTTAA
1 AATATAAATATTAATATTTTAA
* *
14502095 AATATTAATATTAA-ATTAT-A
1 AATATAAATATTAATATTTTAA
*
14502115 AATA-AAATAATAATA-TTTAA
1 AATATAAATATTAATATTTTAA
* *
14502135 ATTATCAATTATTAATA
1 AATAT-AAATATTAATA
14502152 AAATAAATTA
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
19 9 0.20
20 10 0.23
21 8 0.18
22 17 0.39
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (22 bp):
AATATAAATATTAATATTTTAA
Found at i:14502128 original size:25 final size:25
Alignment explanation
Indices: 14502092--14502166 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
14502082 ATTAATATTT
*
14502092 TAAAATATTAATATTAAATTATAAA
1 TAAAATAATAATATTAAATTATAAA
*
14502117 TAAAATAATAATATTTAAATTATCAA
1 TAAAATAATAATA-TTAAATTATAAA
* * *
14502143 T-TATTAATAA-AATAAATTATAAA
1 TAAAATAATAATATTAAATTATAAA
14502166 T
1 T
14502167 TATTCCTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
23 11 0.26
24 1 0.02
25 19 0.44
26 12 0.28
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
TAAAATAATAATATTAAATTATAAA
Found at i:14502166 original size:30 final size:33
Alignment explanation
Indices: 14502108--14502169 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
14502098 ATTAATATTA
*
14502108 AATTATAAATAAAATAATAATATTTAAATTATC
1 AATTATAAATAAAATAATAATATATAAATTATC
*
14502141 AATTATTAATAAAAT-A-AAT-TATAAATTAT
1 AATTATAAATAAAATAATAATATATAAATTAT
14502170 TCCTATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 9 0.33
31 3 0.11
32 1 0.04
33 14 0.52
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (33 bp):
AATTATAAATAAAATAATAATATATAAATTATC
Found at i:14502439 original size:26 final size:26
Alignment explanation
Indices: 14502406--14502458 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
14502396 NNATTGAAAT
14502406 TTATCAATT-ATTAATATTTTAATAAA
1 TTATCAATTAATTAATATTTTAA-AAA
14502432 TTATCAATTAATTAATATTTTAAAAA
1 TTATCAATTAATTAATATTTTAAAAA
14502458 T
1 T
14502459 AAATAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (26 bp):
TTATCAATTAATTAATATTTTAAAAA
Found at i:14502578 original size:24 final size:26
Alignment explanation
Indices: 14502529--14502578 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
14502519 TAAATGATTT
*
14502529 ATTATTAATATTTTAATTAAATTCTAG
1 ATTATTAATATTTTAA-TAAAATCTAG
14502556 ATTATTAAT-TTTTAA-AAAATCTA
1 ATTATTAATATTTTAATAAAATCTA
14502579 ATAAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
26 6 0.27
27 9 0.41
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (26 bp):
ATTATTAATATTTTAATAAAATCTAG
Found at i:14514175 original size:12 final size:12
Alignment explanation
Indices: 14514158--14514183 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14514148 TAAGGAAGAA
14514158 AGAGAGAGAGAC
1 AGAGAGAGAGAC
14514170 AGAGAGAGAGAC
1 AGAGAGAGAGAC
14514182 AG
1 AG
14514184 GGAGGAGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (12 bp):
AGAGAGAGAGAC
Found at i:14517444 original size:102 final size:102
Alignment explanation
Indices: 14517268--14517468 Score: 348
Period size: 102 Copynumber: 2.0 Consensus size: 102
14517258 TGAATCCCTT
* * **
14517268 AAGCATGTAAGGTAGCAATGTCATACTTAATCAAATACACTATGTCCAATGTCTTTTCAAAATCT
1 AAGCATGTAAGGCAACAACATCATACTTAATCAAATACACTATGTCCAATGTCTTTTCAAAATCT
14517333 ACACTTTACAAGATTCTCAATTCTCCAAATATAACAC
66 ACACTTTACAAGATTCTCAATTCTCCAAATATAACAC
*
14517370 AAGCATGTAAGGCAACAACATCATACTTAATCAAATGCACTATGTCCAATGTCTTTTCAAAATCT
1 AAGCATGTAAGGCAACAACATCATACTTAATCAAATACACTATGTCCAATGTCTTTTCAAAATCT
*
14517435 ACACTTTACAAGATTCTCAATTCTTCAAATATAA
66 ACACTTTACAAGATTCTCAATTCTCCAAATATAA
14517469 TATTAAAATA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (102 bp):
AAGCATGTAAGGCAACAACATCATACTTAATCAAATACACTATGTCCAATGTCTTTTCAAAATCT
ACACTTTACAAGATTCTCAATTCTCCAAATATAACAC
Found at i:14525828 original size:18 final size:17
Alignment explanation
Indices: 14525798--14525832 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
14525788 AATTCACCCA
*
14525798 AAAATACTAAAAATAAT
1 AAAATAATAAAAATAAT
14525815 AAAATAATATAAAATAAT
1 AAAATAATA-AAAATAAT
14525833 TGCAACCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATAATAAAAATAAT
Found at i:14538395 original size:51 final size:50
Alignment explanation
Indices: 14538335--14538435 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 50
14538325 GGAAAGATCG
14538335 ATTGTTATTGCTGATTCAAAATGCATTGCAATGTAAAAGAAAATTTTAAA
1 ATTGTTATTGCTGATTCAAAATGCATTGCAATGTAAAAGAAAATTTTAAA
14538385 NATTGTTATTGCTGATTCAAAATGCATTGCAATGTAAAAGAAAATTTTAAA
1 -ATTGTTATTGCTGATTCAAAATGCATTGCAATGTAAAAGAAAATTTTAAA
14538436 GGTATAAATC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (50 bp):
ATTGTTATTGCTGATTCAAAATGCATTGCAATGTAAAAGAAAATTTTAAA
Found at i:14540709 original size:49 final size:49
Alignment explanation
Indices: 14540607--14541040 Score: 417
Period size: 49 Copynumber: 8.6 Consensus size: 49
14540597 TTATTTAATT
* * * * *
14540607 GTAATTTAATTGATATTATGTATACATATTT-TTTGTGTTAATTTTGTT
1 GTAATATAATTGTTATTGTGTATATATATTTGTTTGTGTTAATTTTGTG
* * ** * *
14540655 CTAATATAATTGATGCTGTGTATATATATTTGGTTGTGTTAATTTTGTA
1 GTAATATAATTGTTATTGTGTATATATATTTGTTTGTGTTAATTTTGTG
* *
14540704 GTAATATAATTTTTATTGTGTATA-A-ATTTGCGGTTGTGTTAATTTTGTG
1 GTAATATAATTGTTATTGTGTATATATATTT--GTTTGTGTTAATTTTGTG
14540753 GTAATATAATTGTTATTGTGTATATATATTTGTTTGTGTTAATTTTGTG
1 GTAATATAATTGTTATTGTGTATATATATTTGTTTGTGTTAATTTTGTG
* *
14540802 GTATTATAATTGTTATTGTGTATATATATTTGTTTATGTTAATTTTGTG
1 GTAATATAATTGTTATTGTGTATATATATTTGTTTGTGTTAATTTTGTG
* * *
14540851 GTAATTTAATTGTTATTGTGTATATTTTTTTGTTTGTGTTAATTTTGTG
1 GTAATATAATTGTTATTGTGTATATATATTTGTTTGTGTTAATTTTGTG
* * * * * * **
14540900 GTAATTTAGTTGTTATTGTGTGTGTGTGTGTGTGTGTGTGTGTATTTTGTGTGTTTTGTG
1 GTAATATAATTGTTATTGTGTATATATAT-T-TGT-T-TGTG-----T-T-AATTTTGTG
* * *
14540960 GTAATTTAATTGTTATTATGTATATATGTGTTTGTTTGTGTTAATTTTGTG
1 GTAATATAATTGTTATTGTGTATATA--TATTTGTTTGTGTTAATTTTGTG
14541011 GTACA-ATAATTTTGTTATTGTGTATATATA
1 GTA-ATATAA--TTGTTATTGTGTATATATA
14541041 AATTAGTAAA
Statistics
Matches: 325, Mismatches: 40, Indels: 39
0.80 0.10 0.10
Matches are distributed among these distances:
47 4 0.01
48 26 0.08
49 206 0.63
50 2 0.01
51 21 0.06
52 3 0.01
53 21 0.06
58 5 0.02
59 2 0.01
60 31 0.10
61 1 0.00
62 3 0.01
ACGTcount: A:0.22, C:0.01, G:0.20, T:0.57
Consensus pattern (49 bp):
GTAATATAATTGTTATTGTGTATATATATTTGTTTGTGTTAATTTTGTG
Found at i:14540779 original size:20 final size:19
Alignment explanation
Indices: 14540746--14540836 Score: 58
Period size: 20 Copynumber: 5.2 Consensus size: 19
14540736 GTTGTGTTAA
14540746 TTTTGTGGTA-ATATAATTG
1 TTTTGT-GTATATATAATTG
*
14540765 TTATTGTGTATATATATTTG
1 TT-TTGTGTATATATAATTG
14540785 -TTTGTG----T-TAATT-
1 TTTTGTGTATATATAATTG
*
14540797 TTGTG-GTAT-TATAATTG
1 TTTTGTGTATATATAATTG
*
14540814 TTATTGTGTATATATATTTG
1 TT-TTGTGTATATATAATTG
14540834 TTT
1 TTT
14540837 ATGTTAATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 22
0.67 0.06 0.27
Matches are distributed among these distances:
12 1 0.02
13 7 0.12
14 1 0.02
15 1 0.02
16 5 0.09
17 2 0.04
18 7 0.12
19 11 0.20
20 21 0.38
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.59
Consensus pattern (19 bp):
TTTTGTGTATATATAATTG
Found at i:14540953 original size:2 final size:2
Alignment explanation
Indices: 14540916--14540942 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14540906 TAGTTGTTAT
14540916 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
14540943 ATTTTGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:14540990 original size:60 final size:60
Alignment explanation
Indices: 14540893--14541010 Score: 157
Period size: 60 Copynumber: 2.0 Consensus size: 60
14540883 TTTGTGTTAA
* * * * *
14540893 TTTTGTGGTAATTTAGTTGTTATTGTGTGTGTGTGTGTGTGTGTGTGTGT-ATTTTGTGTG
1 TTTTGTGGTAATTTAATTGTTATTATGTATATATGTGTGTGTGTGTGT-TAATTTTGTGTG
* *
14540953 TTTTGTGGTAATTTAATTGTTATTATGTATATATGTGTTTGTTTGTGTTAATTTTGTG
1 TTTTGTGGTAATTTAATTGTTATTATGTATATATGTGTGTGTGTGTGTTAATTTTGTG
14541011 GTACAATAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 1 0.02
60 49 0.98
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.58
Consensus pattern (60 bp):
TTTTGTGGTAATTTAATTGTTATTATGTATATATGTGTGTGTGTGTGTTAATTTTGTGTG
Found at i:14541469 original size:23 final size:23
Alignment explanation
Indices: 14541438--14541491 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
14541428 AAATTATATT
*
14541438 ATTATATAATTATTATTGTTAATA
1 ATTA-ATAATTAATATTGTTAATA
* *
14541462 ATTAATAATTAATATTTTTAGTA
1 ATTAATAATTAATATTGTTAATA
14541485 ATTAATA
1 ATTAATA
14541492 TCATTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
ATTAATAATTAATATTGTTAATA
Found at i:14549200 original size:30 final size:33
Alignment explanation
Indices: 14549140--14549207 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
14549130 ACCGACAAGA
14549140 AAAGAAAGAAAAAAGGAGAAAATGAGGGAAAGGG
1 AAAGAAAGAAAAAAGGAGAAAA-GAGGGAAAGGG
* * *
14549174 AAAG-AAGAAAGAAGGAGAAAA-AGGAAAAAGG
1 AAAGAAAGAAAAAAGGAGAAAAGAGGGAAAGGG
14549205 AAA
1 AAA
14549208 AAGGAAGGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 11 0.35
33 16 0.52
34 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.01
Consensus pattern (33 bp):
AAAGAAAGAAAAAAGGAGAAAAGAGGGAAAGGG
Found at i:14549211 original size:23 final size:24
Alignment explanation
Indices: 14549144--14549212 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
14549134 ACAAGAAAAG
* * *
14549144 AAAGAAAAAAGGAGAAAATGAGGGA
1 AAAGGAAAAAGGA-AAAAGGAGGAA
*
14549169 AAGGGAAAGAA-GAAAGAAGGA-GAA
1 AAAGGAAA-AAGGAAA-AAGGAGGAA
14549193 AAAGGAAAAAGGAAAAAGGA
1 AAAGGAAAAAGGAAAAAGGA
14549213 AGGCCGGCTG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
23 7 0.19
24 15 0.42
25 12 0.33
26 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.01
Consensus pattern (24 bp):
AAAGGAAAAAGGAAAAAGGAGGAA
Found at i:14549303 original size:62 final size:61
Alignment explanation
Indices: 14549225--14549371 Score: 172
Period size: 62 Copynumber: 2.4 Consensus size: 61
14549215 GCCGGCTGGA
*
14549225 AGAGAAGAAAAAGAAGAAGAAAGAGAGAGAGGGAGCAAC-GTGCTGGAGGAGAAAAAGAAAAG
1 AGAGAAGAAAAGGAAGAAGAAAGAGAGAGAGGGAGCAACGGTGCTGGAGGAG--AAAGAAAAG
** * **
14549287 AGAGAAGAAAAGGAAGAA-AGAAGAGAGAGAGGGAGCGGCGGTGTTGGAGGAGAAAGAGGAG
1 AGAGAAGAAAAGGAAGAAGA-AAGAGAGAGAGGGAGCAACGGTGCTGGAGGAGAAAGAAAAG
*
14549348 AGAGAAGAAAGAAGAAAGAAGAAA
1 AGAGAAG-AA-AAGGAAGAAGAAA
14549372 AAGAAGTAGA
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
61 15 0.21
62 36 0.49
63 21 0.29
64 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.40, T:0.03
Consensus pattern (61 bp):
AGAGAAGAAAAGGAAGAAGAAAGAGAGAGAGGGAGCAACGGTGCTGGAGGAGAAAGAAAAG
Found at i:14549498 original size:15 final size:14
Alignment explanation
Indices: 14549474--14549508 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
14549464 AGAGGAGTAG
14549474 GAAAGAGAAAGAAA
1 GAAAGAGAAAGAAA
*
14549488 GAAACGAGAAAGGAA
1 GAAA-GAGAAAGAAA
14549503 GAAAGA
1 GAAAGA
14549509 ATAGCTAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.66, C:0.03, G:0.31, T:0.00
Consensus pattern (14 bp):
GAAAGAGAAAGAAA
Found at i:14550209 original size:60 final size:60
Alignment explanation
Indices: 14550103--14550282 Score: 202
Period size: 60 Copynumber: 3.0 Consensus size: 60
14550093 ATTTGATTGT
* * * * ** **
14550103 AAAGAGGGACCTGAAACCCCGATTCATAT-TGAGTGGCGTGAACAGTTCCCATAAGTAGGTA
1 AAAG-GGGACCTGAAGCCCCAATTTATATAT-AGTGACGTGGGCAGTTCCCACGAGTAGGTA
* *
14550164 AAAGGGGACCTGAAGTCCTAATTTATAT-TAGGTGACGTGGGCAGTTCCCACGAGTAGGTA
1 AAAGGGGACCTGAAGCCCCAATTTATATATA-GTGACGTGGGCAGTTCCCACGAGTAGGTA
* * *
14550224 AACGGGGACCTGAAGCCCCGATTTATATATAGTGGCGTGGGCAGTTCCCACGAGTAGGT
1 AAAGGGGACCTGAAGCCCCAATTTATATATAGTGACGTGGGCAGTTCCCACGAGTAGGT
14550283 GATGATGTCT
Statistics
Matches: 102, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
59 1 0.01
60 95 0.93
61 6 0.06
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (60 bp):
AAAGGGGACCTGAAGCCCCAATTTATATATAGTGACGTGGGCAGTTCCCACGAGTAGGTA
Found at i:14551970 original size:2 final size:2
Alignment explanation
Indices: 14551963--14552023 Score: 76
Period size: 2 Copynumber: 32.5 Consensus size: 2
14551953 AATGTTATGA
*
14551963 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT A- AT -T GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
14552002 AA AT AT AT AT AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
14552024 ATTTAATTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
1 4 0.08
2 48 0.92
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14552002 original size:29 final size:29
Alignment explanation
Indices: 14551970--14552026 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
14551960 TGAATATATA
*
14551970 TATATATATATATAATATATATATAATTG
1 TATAAATATATATAATATATATATAATTG
*
14551999 TATAAATATATATATTATATATATAATT
1 TATAAATATATATAATATATATATAATT
14552027 TAATTATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
TATAAATATATATAATATATATATAATTG
Found at i:14552268 original size:214 final size:208
Alignment explanation
Indices: 14552000--14552410 Score: 545
Period size: 214 Copynumber: 1.9 Consensus size: 208
14551990 ATATAATTGT
** *
14552000 ATAAATATATATATTATATATATAATTTAATTATACATAAGGATTACGATAACTTATAATAAACT
1 ATAAATATATATATTATATATATAATTTAATTATACATAAACATTACGATAACTTATAATAAAAT
* * * * *
14552065 GTATTTATATTATTACACTTAATAACTTTATTAGTTATCACCTTAGTTTTTATAACAAATTATTT
66 GTATTTATATGATTACACTTAATAAATTTATTAATTATCAACTTAGATTTTATAACAAATTATTT
* * *
14552130 ATAATTAGTTATTATTTATACAAAATTTTGATATAAAATATTACAACATATAAATTGTGTCATTT
131 AGAATTAGTTATTATTTATAC-AAACTTTGATATAAAATATTACAACATATAAATTATGTCA-TT
14552195 AATTTCACATATCTA
194 AATTTCACATATCTA
* *
14552210 ATAAAGTA-ATATATTATATCTATATGTATTTAACTTATACATAAACATTACTATAACTTATAAT
1 ATAAA-TATATATATTATA--TATAT-AATTTAA-TTATACATAAACATTACGATAACTTATAAT
* * * *
14552274 AAAATTTATTTATATGATTACACTTAATAAATTTATTAATTATTAACTTAGATTTTATAATATAT
61 AAAATGTATTTATATGATTACACTTAATAAATTTATTAATTATCAACTTAGATTTTATAACAAAT
* * * * * *
14552339 TTTTTAGAATTTGTTGTTTTTTATACAAACTTTGATATAAAATATTATAACATATAAGTTATGTC
126 TATTTAGAATTAGTTATTATTTATACAAACTTTGATATAAAATATTACAACATATAAATTATGTC
14552404 ATTAATT
191 ATTAATT
14552411 ATATATATNA
Statistics
Matches: 173, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
210 15 0.09
211 2 0.01
212 11 0.06
213 42 0.24
214 103 0.60
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.46
Consensus pattern (208 bp):
ATAAATATATATATTATATATATAATTTAATTATACATAAACATTACGATAACTTATAATAAAAT
GTATTTATATGATTACACTTAATAAATTTATTAATTATCAACTTAGATTTTATAACAAATTATTT
AGAATTAGTTATTATTTATACAAACTTTGATATAAAATATTACAACATATAAATTATGTCATTAA
TTTCACATATCTA
Found at i:14553960 original size:2 final size:2
Alignment explanation
Indices: 14553953--14553977 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14553943 AAGCTCGTTT
14553953 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14553978 TATGGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14559097 original size:20 final size:20
Alignment explanation
Indices: 14559063--14559115 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
14559053 ATTGCTTTGG
*
14559063 AGTGCT-TTCTTTGGATTAT
1 AGTGCTGTTATTTGGATTAT
14559082 AGTGCTGTTATTTGGATTAT
1 AGTGCTGTTATTTGGATTAT
* *
14559102 AGTGATGGTATTTG
1 AGTGCTGTTATTTG
14559116 CTGTTACAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.19, C:0.06, G:0.26, T:0.49
Consensus pattern (20 bp):
AGTGCTGTTATTTGGATTAT
Found at i:14559243 original size:35 final size:34
Alignment explanation
Indices: 14559166--14559249 Score: 125
Period size: 34 Copynumber: 2.4 Consensus size: 34
14559156 ATTGTATAAT
*
14559166 TTAAATATTAATATTTTAATTTAATTTTTTAAAG
1 TTAAATATTAATATTTTAATTTAATATTTTAAAG
*
14559200 TTAAATATTAATATTTTATTTTTTAATATTTT-AAG
1 TTAAATATTAATATTTTA--ATTTAATATTTTAAAG
14559235 TTAAATATTAATATT
1 TTAAATATTAATATT
14559250 AATCAAACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
34 18 0.39
35 18 0.39
36 10 0.22
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (34 bp):
TTAAATATTAATATTTTAATTTAATATTTTAAAG
Found at i:14560143 original size:22 final size:23
Alignment explanation
Indices: 14560117--14560178 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
14560107 TTATAATNTA
*
14560117 ATTAATAATATTTTATTTATAAT
1 ATTAATAATATTTTATTTAAAAT
* *
14560140 -TTAATATTATTTGGA-TTAAAAT
1 ATTAATAATATTT-TATTTAAAAT
14560162 ATTAATAAT-TTTTATTT
1 ATTAATAATATTTTATTT
14560179 TTTATTTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
21 1 0.03
22 22 0.71
23 8 0.26
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (23 bp):
ATTAATAATATTTTATTTAAAAT
Found at i:14560216 original size:16 final size:15
Alignment explanation
Indices: 14560192--14560264 Score: 69
Period size: 16 Copynumber: 4.7 Consensus size: 15
14560182 ATTTATACTC
14560192 ATTAAAATTTAATAT
1 ATTAAAATTTAATAT
14560207 ATTAATAATTTAATA-
1 ATTAA-AATTTAATAT
* *
14560222 AATAAAACATTAATAGT
1 ATTAAAA-TTTAATA-T
14560239 -TTAAAATATTAATAT
1 ATTAAAAT-TTAATAT
*
14560254 TTTAAAATTTA
1 ATTAAAATTTA
14560265 CAAATAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
14 2 0.04
15 19 0.40
16 27 0.56
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (15 bp):
ATTAAAATTTAATAT
Found at i:14560219 original size:23 final size:23
Alignment explanation
Indices: 14560193--14560269 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
14560183 TTTATACTCA
14560193 TTAAAATTTAATATATTAATAAT
1 TTAAAATTTAATATATTAATAAT
* * * *
14560216 TTAATAA-ATAAAACATTAATAGT
1 TTAA-AATTTAATATATTAATAAT
*
14560239 TTAAAATATTAATATTTTAA-AAT
1 TTAAAAT-TTAATATATTAATAAT
14560262 TTACAAAT
1 TTA-AAAT
14560270 AATTTATTCT
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
22 2 0.05
23 25 0.61
24 14 0.34
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (23 bp):
TTAAAATTTAATATATTAATAAT
Found at i:14570798 original size:15 final size:15
Alignment explanation
Indices: 14570763--14570811 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
14570753 TATAATAATT
*
14570763 ATTATATATACTTTT
1 ATTATATATACTTTA
*
14570778 AGTATATATACTTTA
1 ATTATATATACTTTA
14570793 ATTATAAATATA-TTTA
1 ATTAT--ATATACTTTA
14570809 ATT
1 ATT
14570812 TCTATTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 17 0.59
16 7 0.24
17 5 0.17
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTATATATACTTTA
Found at i:14577955 original size:18 final size:19
Alignment explanation
Indices: 14577932--14577972 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
14577922 TTTATTGTCA
*
14577932 TTTTTA-TTTTATTTCTAT
1 TTTTTATTTTTATTTCAAT
14577950 TTTTTATTTTTATTTCAAT
1 TTTTTATTTTTATTTCAAT
14577969 TTTT
1 TTTT
14577973 ATATACTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTATTTTTATTTCAAT
Found at i:14577973 original size:18 final size:18
Alignment explanation
Indices: 14577921--14577974 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
14577911 CAAAATTAAC
14577921 TTTTATTGTC-ATTTTTA-
1 TTTTATT-TCAATTTTTAT
*
14577938 TTTTATTTCTATTTTTTAT
1 TTTTATTTC-AATTTTTAT
14577957 TTTTATTTCAATTTTTAT
1 TTTTATTTCAATTTTTAT
14577975 ATACTATTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 2 0.06
17 7 0.22
18 14 0.44
19 9 0.28
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTATTTCAATTTTTAT
Found at i:14580400 original size:2 final size:2
Alignment explanation
Indices: 14580395--14580420 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14580385 TACGTATATA
14580395 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
14580421 CCTAGAGGTA
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:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:14584254 original size:4 final size:4
Alignment explanation
Indices: 14584239--14584288 Score: 55
Period size: 4 Copynumber: 12.0 Consensus size: 4
14584229 TATTTTAAGC
* * *
14584239 TAAT TAAAT TAAT TAAT TAAC TAAT TAAT TAAAT TAAC TAAT TAAC TAAT
1 TAAT T-AAT TAAT TAAT TAAT TAAT TAAT T-AAT TAAT TAAT TAAT TAAT
14584289 ATTTTTATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
4 30 0.79
5 8 0.21
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (4 bp):
TAAT
Found at i:14584258 original size:8 final size:8
Alignment explanation
Indices: 14584245--14584288 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
14584235 AAGCTAATTA
*
14584245 AATTAATT
1 AATTAACT
14584253 AATTAACT
1 AATTAACT
*
14584261 AATTAATT
1 AATTAACT
14584269 AAATTAACT
1 -AATTAACT
14584278 AATTAACT
1 AATTAACT
14584286 AAT
1 AAT
14584289 ATTTTTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
8 25 0.78
9 7 0.22
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (8 bp):
AATTAACT
Found at i:14584264 original size:82 final size:82
Alignment explanation
Indices: 14584178--14584442 Score: 203
Period size: 82 Copynumber: 3.1 Consensus size: 82
14584168 GTATATGAAT
14584178 TAATTAGAAATGACAATTGATTATATAAATGTGTCATTAATATTGATGAATTATTTTAAGCTAAT
1 TAATTAGAAATGACAATTGATTATATAAATGTGTCATTAATATTGATGAATTATTTTAAGCTAAT
14584243 TAAATTAATTAATTAAC
66 TAAATTAATTAATTAAC
* * * * ** *** * *
14584260 TAATTAATTAAATTAACTAATTAACTAATATTTTTATAAAATAATTAAAATNNNNTTGAT-AATC
1 TAATT-A-GAAA-TGAC-AATTGA-T--TATATAAAT-GTGTCATT--AAT---ATTGATGAAT-
* ** * * * *
14584324 ATATTTTAA-TTTTTTAAA-AAAGTATATGAAT
52 -TATTTTAAGCTAATTAAATTAATTA-ATTAAC
14584355 TAATTAGAAATGACAATTGATTATATAAATGTGTCATTAATATTGATGAATTATTTTAAGCTAAT
1 TAATTAGAAATGACAATTGATTATATAAATGTGTCATTAATATTGATGAATTATTTTAAGCTAAT
14584420 TAAATTAATTAATTAAC
66 TAAATTAATTAATTAAC
14584437 TAATTA
1 TAATTA
14584443 ATAAGTTATT
Statistics
Matches: 128, Mismatches: 36, Indels: 38
0.63 0.18 0.19
Matches are distributed among these distances:
81 8 0.06
82 26 0.20
83 8 0.06
84 3 0.02
85 6 0.05
86 5 0.04
87 5 0.04
88 6 0.05
89 6 0.05
90 5 0.04
91 5 0.04
92 6 0.05
93 3 0.02
94 8 0.06
95 20 0.16
96 8 0.06
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.42
Consensus pattern (82 bp):
TAATTAGAAATGACAATTGATTATATAAATGTGTCATTAATATTGATGAATTATTTTAAGCTAAT
TAAATTAATTAATTAAC
Found at i:14584268 original size:25 final size:25
Alignment explanation
Indices: 14584239--14584288 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
14584229 TATTTTAAGC
*
14584239 TAATTAAATTAATTAATTAACTAAT
1 TAATTAAATTAACTAATTAACTAAT
14584264 TAATTAAATTAACTAATTAACTAAT
1 TAATTAAATTAACTAATTAACTAAT
14584289 ATTTTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (25 bp):
TAATTAAATTAACTAATTAACTAAT
Found at i:14584275 original size:17 final size:16
Alignment explanation
Indices: 14584245--14584288 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 16
14584235 AAGCTAATTA
14584245 AATTAATTAATTAACT
1 AATTAATTAATTAACT
14584261 AATTAATTAAATTAACT
1 AATTAATT-AATTAACT
*
14584278 AATTAACTAAT
1 AATTAATTAAT
14584289 ATTTTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAATTAATTAACT
Found at i:14584435 original size:8 final size:8
Alignment explanation
Indices: 14584422--14584474 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
14584412 AAGCTAATTA
*
14584422 AATTAATT
1 AATTAACT
14584430 AATTAACT
1 AATTAACT
14584438 AATTAA-T
1 AATTAACT
**
14584445 AAGTTATTT
1 AA-TTAACT
14584454 AAATTAACT
1 -AATTAACT
14584463 AATTAACT
1 AATTAACT
14584471 AATT
1 AATT
14584475 TATTTAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
7 3 0.08
8 28 0.74
9 5 0.13
10 2 0.05
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (8 bp):
AATTAACT
Found at i:14584458 original size:25 final size:26
Alignment explanation
Indices: 14584430--14584482 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
14584420 TAAATTAATT
14584430 AATTAACTAATTAA-TAAGTTATTTA
1 AATTAACTAATTAACTAAGTTATTTA
*
14584455 AATTAACTAATTAACTAATTTATTTA
1 AATTAACTAATTAACTAAGTTATTTA
14584481 AA
1 AA
14584483 AAAGAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (26 bp):
AATTAACTAATTAACTAAGTTATTTA
Found at i:14584511 original size:177 final size:173
Alignment explanation
Indices: 14584137--14584519 Score: 544
Period size: 177 Copynumber: 2.2 Consensus size: 173
14584127 AAATGTGTAC
14584137 TTGATAAATCATATTTAAATTTTTTAAAAAAGTATATGAATTAATTAGAAATGACAATTGATTAT
1 TTGAT-AATCATATTT-AATTTTTTAAAAAAGTATATGAATTAATTAGAAATGACAATTGATTAT
14584202 ATAAATGTGTCATTAATATTGATGAATTATTTTAAGCTAATTAAATTAATTAATTAACTAATTAA
64 ATAAATGTGTCATTAATATTGATGAATTATTTTAAGCTAATTAAATTAATTAATTAACTAATTAA
* * *
14584267 TTAAATTAACTAATTAACTAATATTTTTATAAAATAATTAAAATNNNN
129 TTAAATTAACTAATTAACTAATATTTTTAAAAAAGAATTAAAAT---G
14584315 TTGATAATCATATTTTAATTTTTTAAAAAAGTATATGAATTAATTAGAAATGACAATTGATTATA
1 TTGATAATCATA-TTTAATTTTTTAAAAAAGTATATGAATTAATTAGAAATGACAATTGATTATA
14584380 TAAATGTGTCATTAATATTGATGAATTATTTTAAGCTAATTAAATTAATTAATTAACTAATTAAT
65 TAAATGTGTCATTAATATTGATGAATTATTTTAAGCTAATTAAATTAATTAATTAACTAA-T--T
14584445 AAGTTATTTAAATTAACTAATTAACTAAT-TTATTTAAAAAAGAATTTAAAA-G
127 -A---A-TTAAATTAACTAATTAACTAATATT-TTTAAAAAAGAA-TTAAAATG
*
14584497 TT-A-AAT-A-ATTTAATTCTTTAAAA
1 TTGATAATCATATTTAATTTTTTAAAA
14584520 CTTAACTAAT
Statistics
Matches: 190, Mismatches: 4, Indels: 23
0.88 0.02 0.11
Matches are distributed among these distances:
177 130 0.68
178 10 0.05
179 1 0.01
180 4 0.02
181 2 0.01
182 2 0.01
184 3 0.02
185 32 0.17
186 6 0.03
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.42
Consensus pattern (173 bp):
TTGATAATCATATTTAATTTTTTAAAAAAGTATATGAATTAATTAGAAATGACAATTGATTATAT
AAATGTGTCATTAATATTGATGAATTATTTTAAGCTAATTAAATTAATTAATTAACTAATTAATT
AAATTAACTAATTAACTAATATTTTTAAAAAAGAATTAAAATG
Found at i:14586467 original size:13 final size:13
Alignment explanation
Indices: 14586449--14586473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14586439 TTCCAGAAAA
14586449 TTTATAAAATCAT
1 TTTATAAAATCAT
14586462 TTTATAAAATCA
1 TTTATAAAATCA
14586474 CAATTTCTTT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:14588011 original size:19 final size:19
Alignment explanation
Indices: 14587987--14588024 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14587977 CTACCAAACC
*
14587987 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
14588006 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
14588025 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:14593120 original size:23 final size:23
Alignment explanation
Indices: 14593075--14593121 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
14593065 TTCTTTTTTC
*
14593075 TCTTTAATTATTCTTTCAGGTTA
1 TCTTTAATTATTCTTTCAAGTTA
* * *
14593098 TCTTTATTTGTTCTTTTAAGTTA
1 TCTTTAATTATTCTTTCAAGTTA
14593121 T
1 T
14593122 TTTTTCATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.62
Consensus pattern (23 bp):
TCTTTAATTATTCTTTCAAGTTA
Found at i:14595957 original size:11 final size:11
Alignment explanation
Indices: 14595943--14595972 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14595933 AATAATATTT
14595943 TATTAATAAAA
1 TATTAATAAAA
*
14595954 TATTATTAAAA
1 TATTAATAAAA
14595965 TATTAATA
1 TATTAATA
14595973 TTTTATTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATTAATAAAA
Found at i:14597701 original size:42 final size:42
Alignment explanation
Indices: 14597635--14597927 Score: 338
Period size: 42 Copynumber: 6.9 Consensus size: 42
14597625 GTGATAATTA
*
14597635 TGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGC
1 TGACCCGGCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGC
* *
14597677 TAACCCGGCCATGTGCGATGTAGGAGTGCACATGAGCTGTGC
1 TGACCCGGCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGC
* ** * * *
14597719 TTACTTGGCCATGTGTGGTGTATGAGTACACATGAGCTGTGC
1 TGACCCGGCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGC
* * * *
14597761 TGACTCGGCCATGTGCGTGGTGTATGAGTGCACATGTGTTGTGC
1 TGACCCGGCCATGTGC--GGTGTAGGAGTGCACATGAGCTGTGC
* *
14597805 TGACTCGGCCATGTGCAGTGTAGTG-GTGCACATGAGCTGTGC
1 TGACCCGGCCATGTGCGGTGTAG-GAGTGCACATGAGCTGTGC
* * *
14597847 TGACCCAGCCATGTGCGGTGTAAGAGTGCATATGAGCTGTGC
1 TGACCCGGCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGC
* * * *
14597889 TGACCCAGCTATGTGCGGTGT-GGTAATGCACATAAGCTG
1 TGACCCGGCCATGTGCGGTGTAGG-AGTGCACATGAGCTG
14597928 AGACAGAGTT
Statistics
Matches: 216, Mismatches: 30, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
41 2 0.01
42 174 0.81
43 1 0.00
44 39 0.18
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.26
Consensus pattern (42 bp):
TGACCCGGCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGC
Found at i:14597882 original size:128 final size:126
Alignment explanation
Indices: 14597642--14597927 Score: 344
Period size: 128 Copynumber: 2.3 Consensus size: 126
14597632 TTATGACCCA
14597642 GCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGCTAACCCGGCCATGTGCGATGTAGGAGTGCA
1 GCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGCTAACCCGGCCATGTGCGATGTAGGAGTGCA
* *** * *
14597707 CATGAGCTGTGCTTACTTGGCCATGTGTGGTGTATGAGTACACATGAGCTGTGCTGACTCG
66 CATGAGCTGTGCTGACCCAGCCATGTGCGGTGTAAGAGTACACATGAGCTGTGCTGACTCG
* * * * *
14597768 GCCATGTGCGTGGTGTATGAGTGCACATGTGTTGTGCTGACTCGGCCATGTGC-AGTGTAGTG-G
1 GCCATGTGC--GGTGTAGGAGTGCACATGAGCTGTGCTAACCCGGCCATGTGCGA-TGTAG-GAG
* * * *
14597831 TGCACATGAGCTGTGCTGACCCAGCCATGTGCGGTGTAAGAGTGCATATGAGCTGTGCTGACCCA
62 TGCACATGAGCTGTGCTGACCCAGCCATGTGCGGTGTAAGAGTACACATGAGCTGTGCTGACTCG
* * *
14597896 GCTATGTGCGGTGT-GGTAATGCACATAAGCTG
1 GCCATGTGCGGTGTAGG-AGTGCACATGAGCTG
14597928 AGACAGAGTT
Statistics
Matches: 134, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
125 1 0.01
126 25 0.19
127 1 0.01
128 106 0.79
129 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.34, T:0.27
Consensus pattern (126 bp):
GCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGCTAACCCGGCCATGTGCGATGTAGGAGTGCA
CATGAGCTGTGCTGACCCAGCCATGTGCGGTGTAAGAGTACACATGAGCTGTGCTGACTCG
Found at i:14597981 original size:9 final size:9
Alignment explanation
Indices: 14597962--14597992 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
14597952 TGGTCATATG
14597962 TATGTTTATA
1 TATG-TTATA
14597972 TATGTTATA
1 TATGTTATA
14597981 TATGTTATA
1 TATGTTATA
14597990 TAT
1 TAT
14597993 ATAAAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 17 0.81
10 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (9 bp):
TATGTTATA
Found at i:14598826 original size:20 final size:20
Alignment explanation
Indices: 14598803--14598849 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
14598793 CTCAATATGT
14598803 ATTTCATAACATAAATATTC
1 ATTTCATAACATAAATATTC
14598823 ATTTCATAACATAAATATTC
1 ATTTCATAACATAAATATTC
14598843 ATTTCAT
1 ATTTCAT
14598850 TTAAATAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTTCATAACATAAATATTC
Found at i:14620597 original size:21 final size:20
Alignment explanation
Indices: 14620564--14620602 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14620554 GACCATTTTG
14620564 TTGAAAATCTATCGATACAT
1 TTGAAAATCTATCGATACAT
* *
14620584 TTGAGAAATGTATCTATAC
1 TTGA-AAATCTATCGATAC
14620603 TTTTAGGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (20 bp):
TTGAAAATCTATCGATACAT
Found at i:14620772 original size:61 final size:61
Alignment explanation
Indices: 14620695--14620826 Score: 246
Period size: 61 Copynumber: 2.2 Consensus size: 61
14620685 TGATTTTTGC
*
14620695 TGAAGAACATGTATCGATAGATGTTGGAATCTATCAATACTTATCCAAATGTATCGATACA
1 TGAAGAACATGCATCGATAGATGTTGGAATCTATCAATACTTATCCAAATGTATCGATACA
*
14620756 TGAAGAACATGCATCGATAGATGTTGGAATCTATCGATACTTATCCAAATGTATCGATACA
1 TGAAGAACATGCATCGATAGATGTTGGAATCTATCAATACTTATCCAAATGTATCGATACA
14620817 TGAAGAACAT
1 TGAAGAACAT
14620827 TTATCAATAT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 69 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (61 bp):
TGAAGAACATGCATCGATAGATGTTGGAATCTATCAATACTTATCCAAATGTATCGATACA
Found at i:14624368 original size:13 final size:13
Alignment explanation
Indices: 14624350--14624374 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14624340 GGAAAAATTG
14624350 TGATTTTATAAAA
1 TGATTTTATAAAA
14624363 TGATTTTATAAA
1 TGATTTTATAAA
14624375 TTTTTTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:14626395 original size:19 final size:20
Alignment explanation
Indices: 14626368--14626413 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
14626358 AAGAGACAAG
*
14626368 ATAAAATTTTTA-AAATAAA
1 ATAATATTTTTATAAATAAA
*
14626387 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATAAATAAA
14626406 ATAATATT
1 ATAATATT
14626414 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATAAATAAA
Found at i:14641075 original size:22 final size:21
Alignment explanation
Indices: 14641050--14641091 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
14641040 CCCATTGGTC
*
14641050 TGTTTTTAAATTTTCATCCATT
1 TGTTTCTAAATTTTCA-CCATT
14641072 TGTTTCTAAATTTTCACCAT
1 TGTTTCTAAATTTTCACCAT
14641092 ACACTTGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.24, C:0.17, G:0.05, T:0.55
Consensus pattern (21 bp):
TGTTTCTAAATTTTCACCATT
Found at i:14643879 original size:26 final size:26
Alignment explanation
Indices: 14643823--14643881 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
14643813 GGCCGGCCAT
* *
14643823 AAGGAAAGAACAAGAGAGAAAATAGA
1 AAGGAAAGAACAAAAGAGAAAATACA
* *
14643849 GAGGAAAGGAAGAAAAGAGAAAA-ACA
1 AAGGAAA-GAACAAAAGAGAAAATACA
14643875 AAGGAAA
1 AAGGAAA
14643882 ACTAGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.66, C:0.03, G:0.29, T:0.02
Consensus pattern (26 bp):
AAGGAAAGAACAAAAGAGAAAATACA
Found at i:14646757 original size:3 final size:3
Alignment explanation
Indices: 14646749--14646780 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14646739 ATGCTCATGA
14646749 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14646781 GGAAATGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14649567 original size:102 final size:102
Alignment explanation
Indices: 14649377--14649569 Score: 253
Period size: 102 Copynumber: 1.9 Consensus size: 102
14649367 AATATGTATG
* * *
14649377 CACTCAACGTGTCACGCCAAGTATCTAGTTTCACTCAACATGTCACCACAAGATGGGACGTGTCG
1 CACTCAACGTGTCACGCAAAGTATCTAGTTCCACTCAACATGTCACCACAAGATGGGACGTGCCG
* *
14649442 TGTCAACCCACAATACAGTAAGAAGTTAGTGTGTCAC
66 TGTCAACCCAAAATACAGCAAGAAGTTAGTGTGTCAC
* * * * *
14649479 CACTCAGCGTGTCACGCAAAGTATCTGGTTCCACTCAGCTTGTCACCACAAGAT-GGAGCTTGCC
1 CACTCAACGTGTCACGCAAAGTATCTAGTTCCACTCAACATGTCACCACAAGATGGGA-CGTGCC
* **
14649543 GTGTCACCCCAAAATATTGCAAGAAGT
65 GTGTCAACCCAAAATACAGCAAGAAGT
14649570 CAACGTGTCA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
101 3 0.04
102 74 0.96
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (102 bp):
CACTCAACGTGTCACGCAAAGTATCTAGTTCCACTCAACATGTCACCACAAGATGGGACGTGCCG
TGTCAACCCAAAATACAGCAAGAAGTTAGTGTGTCAC
Found at i:14649712 original size:117 final size:117
Alignment explanation
Indices: 14649501--14649714 Score: 315
Period size: 117 Copynumber: 1.8 Consensus size: 117
14649491 CACGCAAAGT
* * * *
14649501 ATCTGGTTCCACTCAGCTTGTCACCACAAGATGGAGCTTGCCGTGTCACCCCAAAATATTGCAAG
1 ATCTGGTTCCACTCAGCGTATCACCACAAGATGGAGCGTGCCGTGTCACCCCAAAATACTGCAAG
*
14649566 AAGTCAACGTGTCACCATAGAAATCTGCATGCTCTTAGCGCGTACACCAACA
66 AAGTCAACGTGTCACCACAGAAATCTGCATGCTCTTAGCGCGTACACCAACA
* **
14649618 ATCTGGTTCTACTCAGCGTATCACCACAAGATAGG-GCGTGCTTTGTCA-CCCAACAATACTGCA
1 ATCTGGTTCCACTCAGCGTATCACCACAAGAT-GGAGCGTGCCGTGTCACCCCAA-AATACTGCA
*
14649681 AGAAGTCAACGTGTCACCACAGAAATTTGCATGC
64 AGAAGTCAACGTGTCACCACAGAAATCTGCATGC
14649715 ACTCAGCTAG
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
116 5 0.06
117 79 0.92
118 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (117 bp):
ATCTGGTTCCACTCAGCGTATCACCACAAGATGGAGCGTGCCGTGTCACCCCAAAATACTGCAAG
AAGTCAACGTGTCACCACAGAAATCTGCATGCTCTTAGCGCGTACACCAACA
Found at i:14653344 original size:31 final size:31
Alignment explanation
Indices: 14653301--14653502 Score: 305
Period size: 31 Copynumber: 6.5 Consensus size: 31
14653291 TTTTTCATTC
* *
14653301 ATGTTGTAACACGCCATGCATATAACGTATA
1 ATGTGGTAACACGCCATGCATATAACGTAAA
*
14653332 ATGTGGTAACACGCCATGCATATAACGTAGA
1 ATGTGGTAACACGCCATGCATATAACGTAAA
* *
14653363 ATGTGGTAACATGCCATGCATATAACATAAA
1 ATGTGGTAACACGCCATGCATATAACGTAAA
*
14653394 ATGTGGTAACACGCCATGCATATAACGTGAA
1 ATGTGGTAACACGCCATGCATATAACGTAAA
* *
14653425 ATGTGGTAACACGCCATGCATAAAATGTAAA
1 ATGTGGTAACACGCCATGCATATAACGTAAA
* *
14653456 ATGTGGTAGCACGCCATGCATATAATGTAAA
1 ATGTGGTAACACGCCATGCATATAACGTAAA
*
14653487 ATGTTGTAACACGCCA
1 ATGTGGTAACACGCCA
14653503 ACGTTGACAC
Statistics
Matches: 156, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 156 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (31 bp):
ATGTGGTAACACGCCATGCATATAACGTAAA
Found at i:14653967 original size:63 final size:63
Alignment explanation
Indices: 14653854--14653977 Score: 167
Period size: 63 Copynumber: 2.0 Consensus size: 63
14653844 ACCACAGCCC
* * * * *
14653854 GATGACGATGGTGCTTAACAGAGAGTTGATAGAGCTCATACAGTTTAGAGAGCTGAGAGAGCT
1 GATGACGATGGTGCTCAACAGAGAGTTGATAGAGCTCAGACAATTCAGAGAGCTAAGAGAGCT
* * * *
14653917 GATGACGATGGTGCTCAACAGAGAGTTGGTAGAGTTGAGACAATTCAGAGAGTTAAGAGAG
1 GATGACGATGGTGCTCAACAGAGAGTTGATAGAGCTCAGACAATTCAGAGAGCTAAGAGAG
14653978 AAAGATGACC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.23
Consensus pattern (63 bp):
GATGACGATGGTGCTCAACAGAGAGTTGATAGAGCTCAGACAATTCAGAGAGCTAAGAGAGCT
Found at i:14660820 original size:31 final size:31
Alignment explanation
Indices: 14660782--14660869 Score: 158
Period size: 31 Copynumber: 2.8 Consensus size: 31
14660772 TTTGTTTATC
*
14660782 TGCCATGTGGCATTGCCACATCATTACTCGG
1 TGCCATGTGGCATTGCCACATCATCACTCGG
14660813 TGCCATGTGGCATTGCCACATCATCACTCGG
1 TGCCATGTGGCATTGCCACATCATCACTCGG
*
14660844 TGCCACGTGGCATTGCCACATCATCA
1 TGCCATGTGGCATTGCCACATCATCA
14660870 AAATGTGACA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.20, C:0.32, G:0.22, T:0.26
Consensus pattern (31 bp):
TGCCATGTGGCATTGCCACATCATCACTCGG
Found at i:14660882 original size:31 final size:31
Alignment explanation
Indices: 14660788--14660882 Score: 91
Period size: 31 Copynumber: 3.1 Consensus size: 31
14660778 TATCTGCCAT
* *** * *
14660788 GTGGCATTGCCACATCATTACTCGGTGCCAT
1 GTGGCATTGCCACATCATCAAAAGGTGACAC
*** *
14660819 GTGGCATTGCCACATCATCACTCGGTGCCAC
1 GTGGCATTGCCACATCATCAAAAGGTGACAC
*
14660850 GTGGCATTGCCACATCATCAAAATGTGACAC
1 GTGGCATTGCCACATCATCAAAAGGTGACAC
14660881 GT
1 GT
14660883 TAGCACTGAC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (31 bp):
GTGGCATTGCCACATCATCAAAAGGTGACAC
Found at i:14666424 original size:19 final size:19
Alignment explanation
Indices: 14666400--14666437 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
14666390 GATTGGTGTT
14666400 TTCACAATG-CTCTGATGTC
1 TTCACAATGCCTC-GATGTC
14666419 TTCACAATGCCTCGATGTC
1 TTCACAATGCCTCGATGTC
14666438 ACTAAGAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (19 bp):
TTCACAATGCCTCGATGTC
Found at i:14682791 original size:19 final size:19
Alignment explanation
Indices: 14682746--14682791 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
14682736 TATTTTAAGA
* *
14682746 TATGTCTTGCATGTTTATT
1 TATGTTTTGCATGTTTAGT
14682765 TATGTTTTGCATGTTTCAGT
1 TATGTTTTGCATGTTT-AGT
14682785 TAT-TTTT
1 TATGTTTT
14682792 CAAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.61
Consensus pattern (19 bp):
TATGTTTTGCATGTTTAGT
Found at i:14695829 original size:72 final size:72
Alignment explanation
Indices: 14695712--14695854 Score: 250
Period size: 72 Copynumber: 2.0 Consensus size: 72
14695702 ATTAAAAGAA
* *
14695712 ATTAGCCTTCTAAGGTAGCCAATTTGAGAAGGGATCGGTCCATTCAAGTTGTTTTTAGAGAGGTC
1 ATTAGCCTTCTAAGGTAGCCAATTTGAAAAGGGATCGGTCCATTCAAGTTGTTTTTAGAGACGTC
14695777 CAATGAG
66 CAATGAG
* *
14695784 ATTAGCTTTCTAAGGTAGCCAATTTGAAAAGGGATCGGTCCATTCAATTTGTTTTTAGAGACGTC
1 ATTAGCCTTCTAAGGTAGCCAATTTGAAAAGGGATCGGTCCATTCAAGTTGTTTTTAGAGACGTC
14695849 CAATGA
66 CAATGA
14695855 ATAAAGTGCT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (72 bp):
ATTAGCCTTCTAAGGTAGCCAATTTGAAAAGGGATCGGTCCATTCAAGTTGTTTTTAGAGACGTC
CAATGAG
Found at i:14700793 original size:45 final size:45
Alignment explanation
Indices: 14700727--14700871 Score: 211
Period size: 45 Copynumber: 3.2 Consensus size: 45
14700717 CACGCCACGA
* *
14700727 TGTTACACGCTATATATAAAAACATGAT-ACACGTCATGGTTAGGT
1 TGTTACACGCCATATACAAAAACATG-TGACACGTCATGGTTAGGT
* *
14700772 TGTTACACGCCATATACAAAAACATGTGACACGTCATGTTTAGAT
1 TGTTACACGCCATATACAAAAACATGTGACACGTCATGGTTAGGT
* *
14700817 TGTTACACGCCATGTACAAAAACATGTGACACGACATGGTTAGGT
1 TGTTACACGCCATATACAAAAACATGTGACACGTCATGGTTAGGT
*
14700862 TATTACACGC
1 TGTTACACGC
14700872 TATGGTTAGG
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 1 0.01
45 89 0.99
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (45 bp):
TGTTACACGCCATATACAAAAACATGTGACACGTCATGGTTAGGT
Found at i:14700849 original size:24 final size:24
Alignment explanation
Indices: 14700776--14700854 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 24
14700766 TTAGGTTGTT
*
14700776 ACACGCCATATACAAAAACATGTG
1 ACACGCCATGTACAAAAACATGTG
* ** * * *
14700800 ACACGTCATGT--TTAGA-TTGTT
1 ACACGCCATGTACAAAAACATGTG
14700821 ACACGCCATGTACAAAAACATGTG
1 ACACGCCATGTACAAAAACATGTG
*
14700845 ACACGACATG
1 ACACGCCATG
14700855 GTTAGGTTAT
Statistics
Matches: 38, Mismatches: 14, Indels: 6
0.66 0.24 0.10
Matches are distributed among these distances:
21 13 0.34
22 2 0.05
23 2 0.05
24 21 0.55
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (24 bp):
ACACGCCATGTACAAAAACATGTG
Found at i:14700876 original size:21 final size:21
Alignment explanation
Indices: 14700852--14700892 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14700842 GTGACACGAC
14700852 ATGGTTAGGTTATTACACGCT
1 ATGGTTAGGTTATTACACGCT
* *
14700873 ATGGTTAGGTTGTTATACGC
1 ATGGTTAGGTTATTACACGC
14700893 CATGTACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.27, T:0.39
Consensus pattern (21 bp):
ATGGTTAGGTTATTACACGCT
Found at i:14703084 original size:45 final size:45
Alignment explanation
Indices: 14703015--14703202 Score: 191
Period size: 45 Copynumber: 4.2 Consensus size: 45
14703005 CACGCCATGA
** * * *
14703015 TGTTACACGTCATGTACAGAAACATGTTG-CAGGACATGGTTAGGT
1 TGTTACACACCATATACAAAAACATG-TGACAGGCCATGGTTAGGT
* * * * * * *
14703060 TATTACACATCATATGCGAAAACATATGACATGCCATGATTAGGT
1 TGTTACACACCATATACAAAAACATGTGACAGGCCATGGTTAGGT
*
14703105 TGTTACACACCATGTACAAAAACATGTGACATGG-CATGGTTAGGT
1 TGTTACACACCATATACAAAAACATGTGACA-GGCCATGGTTAGGT
* * * *
14703150 TGTTATACACCATGTACAAAAACATGTGACACGCCATAGTTAGGT
1 TGTTACACACCATATACAAAAACATGTGACAGGCCATGGTTAGGT
14703195 TGTTACAC
1 TGTTACAC
14703203 GTCATATTGA
Statistics
Matches: 118, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
44 3 0.03
45 114 0.97
46 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (45 bp):
TGTTACACACCATATACAAAAACATGTGACAGGCCATGGTTAGGT
Found at i:14703216 original size:90 final size:90
Alignment explanation
Indices: 14703015--14703207 Score: 239
Period size: 90 Copynumber: 2.1 Consensus size: 90
14703005 CACGCCATGA
* * * *
14703015 TGTTACACGTCATGTACAGAAACATGTTGCAGGACATGGTTAGGTTATTACACATCATATGCGAA
1 TGTTACACGTCATGTACAAAAACATGTTGCAGGACATGGTTAGGTTATTACACACCATATACAAA
*
14703080 AACATATGACATGCCATGATTAGGT
66 AACATATGACACGCCATGATTAGGT
** * * *
14703105 TGTTACACACCATGTACAAAAACATG-TGACATGG-CATGGTTAGGTTGTTATACACCATGTACA
1 TGTTACACGTCATGTACAAAAACATGTTG-CA-GGACATGGTTAGGTTATTACACACCATATACA
*
14703168 AAAACATGTGACACGCCAT-AGTTAGGT
64 AAAACATATGACACGCCATGA-TTAGGT
14703195 TGTTACACGTCAT
1 TGTTACACGTCAT
14703208 ATTGAAAAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
89 3 0.03
90 82 0.94
91 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (90 bp):
TGTTACACGTCATGTACAAAAACATGTTGCAGGACATGGTTAGGTTATTACACACCATATACAAA
AACATATGACACGCCATGATTAGGT
Found at i:14703278 original size:29 final size:29
Alignment explanation
Indices: 14703193--14703292 Score: 80
Period size: 29 Copynumber: 3.3 Consensus size: 29
14703183 CCATAGTTAG
*
14703193 GTTGTTACACGTCATATTGAAAAAAAAAAAATTT
1 GTTGTTACACGTCATATT----AAAAAAATA-TT
* *
14703227 GTTGTTACATGTCATGTTAAAAAAATATT
1 GTTGTTACACGTCATATTAAAAAAATATT
* *
14703256 GTTGTTACACG-CTATATT-TAAAAACATT
1 GTTGTTACACGTC-ATATTAAAAAAATATT
14703284 -TTGTTACAC
1 GTTGTTACAC
14703293 TTTAATACTT
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
27 9 0.16
28 9 0.16
29 16 0.28
30 8 0.14
34 16 0.28
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (29 bp):
GTTGTTACACGTCATATTAAAAAAATATT
Found at i:14703304 original size:28 final size:28
Alignment explanation
Indices: 14703247--14703306 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
14703237 GTCATGTTAA
* *
14703247 AAAAATATTGTTGTTACACGCTATATTT
1 AAAAACATTGTTGTTACACGCTATACTT
**
14703275 AAAAACATT-TTGTTACACTTTAATACTT
1 AAAAACATTGTTGTTACACGCT-ATACTT
14703303 AAAA
1 AAAA
14703307 TGTTATTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 10 0.37
28 17 0.63
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.40
Consensus pattern (28 bp):
AAAAACATTGTTGTTACACGCTATACTT
Found at i:14707745 original size:22 final size:22
Alignment explanation
Indices: 14707720--14707763 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
14707710 TTTAAAATAA
14707720 CTTT-AAACCTAAAAACTCTAAT
1 CTTTAAAACC-AAAAACTCTAAT
*
14707742 CTTTAAAACCAAAAGCTCTAAT
1 CTTTAAAACCAAAAACTCTAAT
14707764 ACCAACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTAAT
Found at i:14711418 original size:6 final size:6
Alignment explanation
Indices: 14711407--14711462 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
14711397 ACACCCATTC
*
14711407 AATAAA AATAAA AATAAAA AATAAA AA-AATCT AATAAA AAT--A AATAAA
1 AATAAA AATAAA AAT-AAA AATAAA AATAA--A AATAAA AATAAA AATAAA
14711455 AATAAA AA
1 AATAAA AA
14711463 GAGTCTAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
4 4 0.10
5 2 0.05
6 26 0.62
7 8 0.19
8 2 0.05
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:14711428 original size:13 final size:13
Alignment explanation
Indices: 14711410--14711462 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
14711400 CCCATTCAAT
14711410 AAAAATAAAAATA
1 AAAAATAAAAATA
14711423 AAAAATAAAAA-A
1 AAAAATAAAAATA
**
14711435 ATCTAATAAAAAT-
1 A-AAAATAAAAATA
14711448 --AAATAAAAATA
1 AAAAATAAAAATA
14711459 AAAA
1 AAAA
14711463 GAGTCTAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
10 9 0.28
12 2 0.06
13 21 0.66
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:14711942 original size:2 final size:2
Alignment explanation
Indices: 14711935--14711968 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
14711925 GATCTACGAT
*
14711935 AG AG AG AG AA AG AG AG AG AG AG AG AG -G AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
14711969 AAGAAAGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14712647 original size:2 final size:2
Alignment explanation
Indices: 14712640--14712673 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
14712630 TTAGAAGAAC
14712640 AT AT AT AT AT AT AT AGT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A
14712674 ATCATAATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14725219 original size:60 final size:59
Alignment explanation
Indices: 14725067--14725779 Score: 883
Period size: 60 Copynumber: 12.0 Consensus size: 59
14725057 CATCGGTGAA
* *
14725067 TTAAATCGAACCTGTAT-TGAGATAGGTCGAACCTAAATTAAGTCTAGGAATTTTAATTT
1 TTAAATCGAACCTGT-TGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTT
* * * * *
14725126 TTAAATCGAACCTATTGTAAAATAAGTCGAGCCTAGATTAAGTCTAGGAATCTTCAATTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAAT-TTTAATTT
* *
14725186 TTAAATCGAACCTGTTGTGAGATAGGTCCAGCCTAGATTAAGTCTAGAAATTTTCAATTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTT-AATTT
* *
14725246 TTAAATCGAATCTATTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTTAATTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAA-TTTTAATTT
** * *
14725306 TTAAATCGAATTTGTTGTGAGATAGGTCGAGCCTATATTAAGTCTAGAAATTTTTAATGTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAA-TTTTAAT-TT
* * * * *
14725367 TAAAATCGAATCTGTTGTGAGATAGGTCGAACCTAGATTAAGTTTAGAAATTTTCAATTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTT-AATTT
* * * *
14725427 TTAAATCAAATCTGTTGTGAGATAGATCGAGCCTAGATTAAGTCTAGGAATTTTAACTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTT
* * * * *
14725486 TTAAATCGAACTTGTTGTAAGATAGGTCGAGCCTAAATTAAGTTTAAGAA-TTTAGATTTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTA-A-TTT
* * * * *
14725546 TTAAATCGAACCTGTTGTGATATAGGTCGAGTCTAAATTAAGTTTAGGAATTTGAATTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTT
* * * * * * *
14725605 TTAAATTGAACCTGTTTTGAGATAGGT-TAACCTTAGATTAAGTTTAAGAATTTGAATTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCC-TAGATTAAGTCTAGGAATTTTAATTT
* * * * * * *
14725664 TTAAATCGAACCTGTTGTGAAATAGGTCAAACCTAAATTAAGTTTAGAAATTTGAATTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTT
14725723 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAAT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAAT
14725780 CGAACTTGTT
Statistics
Matches: 572, Mismatches: 71, Indels: 22
0.86 0.11 0.03
Matches are distributed among these distances:
58 7 0.01
59 240 0.42
60 268 0.47
61 57 0.10
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (59 bp):
TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTT
Found at i:14725561 original size:119 final size:119
Alignment explanation
Indices: 14725067--14725775 Score: 861
Period size: 119 Copynumber: 5.9 Consensus size: 119
14725057 CATCGGTGAA
* *
14725067 TTAAATCGAACCTGTAT-TGAGATAGGTCGAACCTAAATTAAGTCTAGGAATTTTAATTTTTAAA
1 TTAAATCGAACCTGT-TGTGAGATAGGTCGAGCCTAAATTAAGTCTAGAAATTTTAATTTTTAAA
* * * * * *
14725131 TCGAACCTATTGTAAAATAAGTCGAGCCTAGATTAAGTCTAGGAATCTT-CAATTT
65 TCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAAT-TTAGAATTT
* *
14725186 TTAAATCGAACCTGTTGTGAGATAGGTCCAGCCTAGATTAAGTCTAGAAATTTTCAATTTTTAAA
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGAAATTTT-AATTTTTAAA
* * * **
14725251 TCGAATCTATTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTTAATTT
65 TCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTAGAATTT
** * *
14725306 TTAAATCGAATTTGTTGTGAGATAGGTCGAGCCTATATTAAGTCTAGAAATTTTTAATGTTTAAA
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGAAA-TTTTAAT-TTTTAA
* * * **
14725371 ATCGAATCTGTTGTGAGATAGGTCGAACCTAGATTAAGT-TTAGAAATTTTCAATTT
64 ATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAG-AATTTAGAATTT
* * * * * *
14725427 TTAAATCAAATCTGTTGTGAGATAGATCGAGCCTAGATTAAGTCTAGGAATTTTAACTTTTAAAT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGAAATTTTAATTTTTAAAT
* * * * *
14725492 CGAACTTGTTGTAAGATAGGTCGAGCCTAAATTAAGTTTAAGAATTTAGATTTT
66 CGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTAGAATTT
* * * * *
14725546 TTAAATCGAACCTGTTGTGATATAGGTCGAGTCTAAATTAAGTTTAGGAATTTGAATTTTTAAAT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGAAATTTTAATTTTTAAAT
* * * * *
14725611 TGAACCTGTTTTGAGATAGGT-TAACCTTAGATTAAGTTTAAGAATTT-GAATTT
66 CGAACCTGTTGTGAGATAGGTCGAGCC-TAGATTAAGTCTAAGAATTTAGAATTT
* * * * *
14725664 TTAAATCGAACCTGTTGTGAAATAGGTCAAACCTAAATTAAGTTTAGAAATTTGAATTTTTAAAT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGAAATTTTAATTTTTAAAT
*
14725729 CGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTT
66 CGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTT
14725776 TAATCGAACT
Statistics
Matches: 518, Mismatches: 63, Indels: 19
0.86 0.10 0.03
Matches are distributed among these distances:
118 106 0.20
119 193 0.37
120 117 0.23
121 102 0.20
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (119 bp):
TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGAAATTTTAATTTTTAAAT
CGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTAGAATTT
Found at i:14725997 original size:6 final size:6
Alignment explanation
Indices: 14725986--14726074 Score: 78
Period size: 6 Copynumber: 14.3 Consensus size: 6
14725976 ACACTCATTC
*
14725986 AATAAA AATAAA AATAATA AATAATA AATAATCT AATAAA AATAAA TAA-AATA
1 AATAAA AATAAA AATAA-A AATAA-A AATAA--A AATAAA AATAAA -AATAA-A
14726039 AATAAA AGA-AAA AAT--A AATAAA AATAAA AATAAA AA
1 AATAAA A-ATAAA AATAAA AATAAA AATAAA AATAAA AA
14726075 AAGAAGAGTT
Statistics
Matches: 71, Mismatches: 3, Indels: 18
0.77 0.03 0.20
Matches are distributed among these distances:
4 4 0.06
5 1 0.01
6 42 0.59
7 19 0.27
8 5 0.07
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:14726029 original size:34 final size:34
Alignment explanation
Indices: 14725986--14726071 Score: 104
Period size: 34 Copynumber: 2.5 Consensus size: 34
14725976 ACACTCATTC
* * *
14725986 AATAAAAATAAAAATAATAAAT-AATAAATAATCT
1 AATAAAAATAAAAATAATAAATAAAGAAAAAAT-A
14726020 AATAAAAATAAATAA-AATAAATAAAAGAAAAAATA
1 AATAAAAATAAA-AATAATAAAT-AAAGAAAAAATA
14726055 AATAAAAATAAAAATAA
1 AATAAAAATAAAAATAA
14726072 AAAAAGAAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
34 21 0.47
35 16 0.36
36 8 0.18
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (34 bp):
AATAAAAATAAAAATAATAAATAAAGAAAAAATA
Found at i:14727237 original size:2 final size:2
Alignment explanation
Indices: 14727230--14727270 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
14727220 GAAGAACATA
*
14727230 AT AT AT AT AT AT A- AT TT AT AT AT AT A- AT AT AT AT AGT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
14727271 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 2 0.06
2 30 0.88
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14727249 original size:13 final size:13
Alignment explanation
Indices: 14727227--14727269 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
14727217 TTAGAAGAAC
14727227 ATAATATATATAT
1 ATAATATATATAT
*
14727240 ATAATTTATATAT
1 ATAATATATATAT
14727253 ATAATATATATAGT
1 ATAATATATATA-T
14727267 ATA
1 ATA
14727270 TNNNNNNNNN
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 23 0.85
14 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (13 bp):
ATAATATATATAT
Found at i:14727615 original size:3 final size:3
Alignment explanation
Indices: 14727609--14727656 Score: 71
Period size: 3 Copynumber: 15.7 Consensus size: 3
14727599 TGTTGTTTAA
14727609 AAT AAT -AT ACAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14727655 AA
1 AA
14727657 ATATATAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.05
3 35 0.83
4 4 0.10
5 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14727666 original size:8 final size:7
Alignment explanation
Indices: 14727609--14727668 Score: 54
Period size: 6 Copynumber: 8.3 Consensus size: 7
14727599 TGTTGTTTAA
14727609 AATAATAT
1 AATAA-AT
14727617 ACATAAAT
1 A-ATAAAT
14727625 AAT-AAT
1 AATAAAT
14727631 AAT-AAT
1 AATAAAT
14727637 AAT-AAT
1 AATAAAT
14727643 AATAATAAT
1 AAT-A-AAT
14727652 AATAAAT
1 AATAAAT
14727659 ATATAAAT
1 A-ATAAAT
14727667 AA
1 AA
14727669 GGTAATAAAC
Statistics
Matches: 47, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
6 18 0.38
7 7 0.15
8 12 0.26
9 10 0.21
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (7 bp):
AATAAAT
Found at i:14740048 original size:22 final size:22
Alignment explanation
Indices: 14740003--14740064 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
14739993 TTACACTTAT
* *
14740003 AACAGTAACTACT-GATAAATA
1 AACAGTAACTACTCAATTAATA
14740024 AACAGTAACTACTCAATTAATA
1 AACAGTAACTACTCAATTAATA
* *
14740046 AACAGTAGCTACTCCATTA
1 AACAGTAACTACTCAATTA
14740065 GCAAACAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 13 0.36
22 23 0.64
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.26
Consensus pattern (22 bp):
AACAGTAACTACTCAATTAATA
Found at i:14740070 original size:22 final size:22
Alignment explanation
Indices: 14740003--14740071 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
14739993 TTACACTTAT
* * *
14740003 AACAGTAACTACT-GATAAATA
1 AACAGTAACTACTCAATTAACA
*
14740024 AACAGTAACTACTCAATTAATA
1 AACAGTAACTACTCAATTAACA
* * *
14740046 AACAGTAGCTACTCCATTAGCA
1 AACAGTAACTACTCAATTAACA
14740068 AACA
1 AACA
14740072 ACAGTCATAG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
21 13 0.32
22 28 0.68
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.23
Consensus pattern (22 bp):
AACAGTAACTACTCAATTAACA
Found at i:14743956 original size:38 final size:38
Alignment explanation
Indices: 14743889--14743961 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
14743879 ACTGTCGTTA
* * *
14743889 AAGCCAATCTTGTTTCTAAGATTTCTGAGACAAAAGGG
1 AAGCCAAACTAGTTTCTAAGATTTCTGAGAAAAAAGGG
14743927 AAGCCAAACTAGTTTCTAAGATTGT-TGAGAAAAAA
1 AAGCCAAACTAGTTTCTAAGATT-TCTGAGAAAAAA
14743962 AGGGGAGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
38 30 0.97
39 1 0.03
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (38 bp):
AAGCCAAACTAGTTTCTAAGATTTCTGAGAAAAAAGGG
Found at i:14748331 original size:55 final size:55
Alignment explanation
Indices: 14748138--14748332 Score: 224
Period size: 55 Copynumber: 3.6 Consensus size: 55
14748128 TAACTGCGCG
* *
14748138 TGTGCGGTGTGGGAGTGCACATGCCGGTGATGA-C---GG--GGTGATTCCAGCTA
1 TGTGCGGTGTGGGAGTGCACATG-AGTTGATGACCGGAGGATGGTGATTCCAGCTA
* * * * * * *
14748188 TGTGCGATGTGGGAGTGCACATGAGCTGATGATCGGTGGGTGATTATTCCAGCTA
1 TGTGCGGTGTGGGAGTGCACATGAGTTGATGACCGGAGGATGGTGATTCCAGCTA
14748243 TGTGCGGTGTGGGAGTGCACATGAGTTGATGACCGGAGGATGGTGATTCCAAG-TA
1 TGTGCGGTGTGGGAGTGCACATGAGTTGATGACCGGAGGATGGTGATTCC-AGCTA
* *
14748298 TATGCGGTGTGGGAGTGCACATAAGTTGATGACCG
1 TGTGCGGTGTGGGAGTGCACATGAGTTGATGACCG
14748333 ATGGTTGTGT
Statistics
Matches: 124, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
49 7 0.06
50 23 0.19
53 2 0.02
55 90 0.73
56 2 0.02
ACGTcount: A:0.20, C:0.15, G:0.39, T:0.26
Consensus pattern (55 bp):
TGTGCGGTGTGGGAGTGCACATGAGTTGATGACCGGAGGATGGTGATTCCAGCTA
Found at i:14750117 original size:31 final size:31
Alignment explanation
Indices: 14750079--14750140 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
14750069 CTCACTAAGG
14750079 TGTGTAGCGTGATAATCCAGAACAAGCTTCC
1 TGTGTAGCGTGATAATCCAGAACAAGCTTCC
*
14750110 TGTGTAGCGTGATAATCCAGAATAAGCTTCC
1 TGTGTAGCGTGATAATCCAGAACAAGCTTCC
14750141 ACCAAAGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (31 bp):
TGTGTAGCGTGATAATCCAGAACAAGCTTCC
Found at i:14757312 original size:15 final size:16
Alignment explanation
Indices: 14757276--14757317 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
14757266 CAGTAACAGG
*
14757276 TAAAAAAAATTGAAAA
1 TAAAAAAAATGGAAAA
14757292 TAAAAAAAATGGAAAA
1 TAAAAAAAATGGAAAA
*
14757308 GAAAAGAAAA
1 TAAAA-AAAA
14757318 GAAAAAAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
TAAAAAAAATGGAAAA
Found at i:14771236 original size:54 final size:54
Alignment explanation
Indices: 14771154--14771261 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
14771144 TTTACATGTG
*
14771154 TAAGTTTAGTAGTCAATGACTAACGAAATCCAGTCAATAAAATTATCACTAAAA
1 TAAGTTTAGTAGTCAATGACAAACGAAATCCAGTCAATAAAATTATCACTAAAA
14771208 TAAGTTTAGTAGTCAATGACAAACGAAATCCAGTCAATAAAATTATCACTAAAA
1 TAAGTTTAGTAGTCAATGACAAACGAAATCCAGTCAATAAAATTATCACTAAAA
14771262 CAAGGAAGAC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (54 bp):
TAAGTTTAGTAGTCAATGACAAACGAAATCCAGTCAATAAAATTATCACTAAAA
Found at i:14771760 original size:18 final size:18
Alignment explanation
Indices: 14771717--14771775 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
14771707 TTATATATAG
*
14771717 AGACATCCATACATGCACAC
1 AGACATCCATAC-T-CACAT
*
14771737 ATACATCCATACTCACAT
1 AGACATCCATACTCACAT
**
14771755 AGACATATATACTCACAT
1 AGACATCCATACTCACAT
14771773 AGA
1 AGA
14771776 TAATGATACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 22 0.65
19 1 0.03
20 11 0.32
ACGTcount: A:0.42, C:0.29, G:0.07, T:0.22
Consensus pattern (18 bp):
AGACATCCATACTCACAT
Found at i:14775539 original size:38 final size:35
Alignment explanation
Indices: 14775518--14775746 Score: 154
Period size: 36 Copynumber: 6.4 Consensus size: 35
14775508 CATATAGAAG
14775518 CCCAATTAACTTAATTGTTTAATTTAATCAATTAGA
1 CCCAA-TAACTTAATTGTTTAATTTAATCAATTAGA
**** *
14775554 CCCAATAACTTAATTAAACAATTTAATTAATTA-A
1 CCCAATAACTTAATTGTTTAATTTAATCAATTAGA
* * **** *
14775588 GCCCAACAATTTAATTAAACAATTTTAATCAATTAGG
1 -CCCAATAACTTAATTGTTTAA-TTTAATCAATTAGA
* **** *
14775625 CCCAATGACTTAATTAAACAATTTTAATCAATTAGG
1 CCCAATAACTTAATTGTTTAA-TTTAATCAATTAGA
* **** *
14775661 CCCAATGACTTAATTAAACAAATTTAATCAATTAGG
1 CCCAATAACTTAATT-GTTTAATTTAATCAATTAGA
* * *
14775697 CCTAATAACTTAATTGTTTAATTTAATTAATTAGG
1 CCCAATAACTTAATTGTTTAATTTAATCAATTAGA
*
14775732 CCCAATGACTTAATT
1 CCCAATAACTTAATT
14775747 AAACCATTTA
Statistics
Matches: 166, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
34 1 0.01
35 70 0.42
36 91 0.55
37 4 0.02
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (35 bp):
CCCAATAACTTAATTGTTTAATTTAATCAATTAGA
Found at i:14775622 original size:36 final size:35
Alignment explanation
Indices: 14775538--14775829 Score: 311
Period size: 35 Copynumber: 8.3 Consensus size: 35
14775528 TTAATTGTTT
*
14775538 AATTTAATCAATTAGACCCAATAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * * *
14775573 AATTTAATTAATTAAGCCCAACAATTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
*
14775608 AATTTTAATCAATTAGGCCCAATGACTTAATTAAAC
1 AA-TTTAATCAATTAGGCCCAATAACTTAATTAAAC
*
14775644 AATTTTAATCAATTAGGCCCAATGACTTAATTAAAC
1 AA-TTTAATCAATTAGGCCCAATAACTTAATTAAAC
* ****
14775680 AAATTTAATCAATTAGGCCTAATAACTTAATTGTTT
1 -AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* *
14775716 AATTTAATTAATTAGGCCCAATGACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * ** * * *
14775751 CATTTAATTAATTAGGCTTAATGATTTAATTGAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * *
14775786 AATTTAGTTAATTAGG--C-ACAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
14775818 AATTTTAATCAA
1 AA-TTTAATCAA
14775830 GTGCTTGAAA
Statistics
Matches: 217, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
32 13 0.06
33 7 0.03
35 104 0.48
36 91 0.42
37 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
Found at i:14775658 original size:107 final size:106
Alignment explanation
Indices: 14775538--14775829 Score: 358
Period size: 107 Copynumber: 2.8 Consensus size: 106
14775528 TTAATTGTTT
* * *
14775538 AATTTAATCAATTAGACCCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAATTTAAT
1 AATTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAAGCCCAACAACTTAAT
14775603 TAAACAATTTTAATCAATTAGGCCCAATGACTTAATTAAAC
66 TAAACAATTTTAATCAATTAGGCCCAATGACTTAATTAAAC
* * * *
14775644 AATTTTAATCAATTAGGCCCAATGACTTAATTAAACAAATTTAATCAATTAGGCCTAATAACTTA
1 AA-TTTAATCAATTAGGCCCAATGACTTAATTAAAC-AATTTAATTAATTAAGCCCAACAACTTA
**** *
14775709 ATTGTTTAA-TTTAATTAATTAGGCCCAATGACTTAATTAAAC
64 ATTAAACAATTTTAATCAATTAGGCCCAATGACTTAATTAAAC
* * ** * * * *
14775751 CATTTAATTAATTAGGCTTAATGATTTAATTGAACAATTTAGTTAATT-AG-GC-ACAACTTAAT
1 AATTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAAGCCCAACAACTTAAT
14775813 TAAACAATTTTAATCAA
66 TAAACAATTTTAATCAA
14775830 GTGCTTGAAA
Statistics
Matches: 154, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
102 12 0.08
103 8 0.05
104 1 0.01
105 11 0.07
106 30 0.19
107 64 0.42
108 28 0.18
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (106 bp):
AATTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAAGCCCAACAACTTAAT
TAAACAATTTTAATCAATTAGGCCCAATGACTTAATTAAAC
Found at i:14784433 original size:119 final size:118
Alignment explanation
Indices: 14784222--14784458 Score: 465
Period size: 119 Copynumber: 2.0 Consensus size: 118
14784212 TCCAAATAGG
14784222 AAAAAGGAATTGGGTTTGGTTAGTGGGCTGCCTAATGTTGACAGCCCAATGAAGGGTGGTGGGTA
1 AAAAAGGAATTGGGTTTGGTTAGTGGGCTGCCTAATGTTGACAGCCCAATGAAGGGTGGTGGGTA
14784287 GTGGGCTGCCAATTTCAGGGGGGGTAAAAAGGGGTTATAGGGGGCCCGTTTAT
66 GTGGGCTGCCAATTTCAGGGGGGGTAAAAAGGGGTTATAGGGGGCCCGTTTAT
14784340 NAAAAAGGAATTGGGTTTGGTTAGTGGGCTGCCTAATGTTGACAGCCCAATGAAGGGTGGTGGGT
1 -AAAAAGGAATTGGGTTTGGTTAGTGGGCTGCCTAATGTTGACAGCCCAATGAAGGGTGGTGGGT
14784405 AGTGGGCTGCCAATTTCAGGGGGGGTAAAAAGGGGTTATAGGGGGCCCGTTTAT
65 AGTGGGCTGCCAATTTCAGGGGGGGTAAAAAGGGGTTATAGGGGGCCCGTTTAT
14784459 GGCTTTTTTT
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 118 1.00
ACGTcount: A:0.24, C:0.12, G:0.39, T:0.25
Consensus pattern (118 bp):
AAAAAGGAATTGGGTTTGGTTAGTGGGCTGCCTAATGTTGACAGCCCAATGAAGGGTGGTGGGTA
GTGGGCTGCCAATTTCAGGGGGGGTAAAAAGGGGTTATAGGGGGCCCGTTTAT
Found at i:14784664 original size:16 final size:16
Alignment explanation
Indices: 14784645--14784687 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
14784635 GACATGAAAT
*
14784645 TTTTTTGAAATATGTA
1 TTTTTTGAAATATATA
14784661 TTTTTTGAAATATATA
1 TTTTTTGAAATATATA
14784677 TTTTTTGAAAT
1 TTTTTTGAAAT
14784688 TTTTTTGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (16 bp):
TTTTTTGAAATATATA
Found at i:14786157 original size:21 final size:21
Alignment explanation
Indices: 14786133--14786211 Score: 113
Period size: 21 Copynumber: 3.7 Consensus size: 21
14786123 GCATCAATCC
*
14786133 TTATCATTAATGCATTAGTCT
1 TTATCATGAATGCATTAGTCT
14786154 TTATCATGAATGCATTAGTCT
1 TTATCATGAATGCATTAGTCT
* *
14786175 TTGTCATGAATGCATCAGTCT
1 TTATCATGAATGCATTAGTCT
*
14786196 TTGTCATGAATTGCAT
1 TTATCATGAA-TGCAT
14786212 GAACATATCC
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 49 0.91
22 5 0.09
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (21 bp):
TTATCATGAATGCATTAGTCT
Found at i:14796402 original size:22 final size:22
Alignment explanation
Indices: 14796377--14796420 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14796367 TTCAAAATAA
* *
14796377 CTTTAAAACTAAAAACTTTGAT
1 CTTTAAAACCAAAAACTCTGAT
14796399 CTTTAAAACCAAAAACTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
14796421 ACCAATCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTGAT
Found at i:14800885 original size:14 final size:14
Alignment explanation
Indices: 14800866--14800892 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14800856 CAAAAATTAT
14800866 AACTTATAAAAAAG
1 AACTTATAAAAAAG
14800880 AACTTATAAAAAA
1 AACTTATAAAAAA
14800893 AAATTTACCA
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:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (14 bp):
AACTTATAAAAAAG
Found at i:14809323 original size:19 final size:20
Alignment explanation
Indices: 14809296--14809341 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
14809286 AGGAGACAAG
*
14809296 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
14809315 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
14809334 ATAATATT
1 ATAATATT
14809342 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:14816129 original size:61 final size:58
Alignment explanation
Indices: 14816034--14816159 Score: 171
Period size: 61 Copynumber: 2.1 Consensus size: 58
14816024 GTGAGAAAGT
* * * *
14816034 GTTTATTGGACGTCATGGAAAGAGCATATTTAGGAAGAACATGTTCATTATGGGAAGAATG
1 GTTTATTGAACGTCATGGAAAGAGCACATTTAGGAAG-A-A-GTTCATTATGGAAAAAATG
* *
14816095 GTTTATTGAACGTTATGGAAAGAGCACGTTTAGGAAGAAGTTCATTATGGAAAAAATG
1 GTTTATTGAACGTCATGGAAAGAGCACATTTAGGAAGAAGTTCATTATGGAAAAAATG
14816153 GTTTATT
1 GTTTATT
14816160 AAGGAAGAAC
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 24 0.41
59 1 0.02
60 1 0.02
61 33 0.56
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.32
Consensus pattern (58 bp):
GTTTATTGAACGTCATGGAAAGAGCACATTTAGGAAGAAGTTCATTATGGAAAAAATG
Found at i:14817496 original size:37 final size:37
Alignment explanation
Indices: 14817418--14817497 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 37
14817408 CACAATGCCA
* * *
14817418 AAGCAACTAATGGAGAATCAAATCACACACGGTATTC
1 AAGCAACCAATAGAGAATCAAATCACACACGATATTC
* * * *
14817455 AAGCAACCAATAGAGAGTCAAATCACACATGATGTTG
1 AAGCAACCAATAGAGAATCAAATCACACACGATATTC
14817492 AAGCAA
1 AAGCAA
14817498 TTGACGAAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.17
Consensus pattern (37 bp):
AAGCAACCAATAGAGAATCAAATCACACACGATATTC
Found at i:14825903 original size:25 final size:25
Alignment explanation
Indices: 14825870--14825929 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
14825860 AAATGAAATG
*
14825870 TAATACAAATGTAAACATCTAATAA
1 TAATACAAATGTAAACATCCAATAA
* *
14825895 TAATCCAAATGTAAAGATCCAAT-A
1 TAATACAAATGTAAACATCCAATAA
14825919 TAAATACAAAT
1 T-AATACAAAT
14825930 CTCACTAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 2 0.07
25 28 0.93
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.27
Consensus pattern (25 bp):
TAATACAAATGTAAACATCCAATAA
Found at i:14826413 original size:2 final size:2
Alignment explanation
Indices: 14826406--14826444 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
14826396 GATAAGTAAC
14826406 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14826445 AGCACAAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14838519 original size:40 final size:39
Alignment explanation
Indices: 14838473--14838550 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
14838463 ATTTGTTAAA
14838473 TTACTAATTTAATTAATTGATTAATTGATTAATAACTANT
1 TTACTAATTTAATTAATTGATTAATTGATTAATAACTA-T
* * *
14838513 TTACTAATTTAATTAATTTATTATTTGATTAATTACTA
1 TTACTAATTTAATTAATTGATTAATTGATTAATAACTA
14838551 ATGCATGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.51
Consensus pattern (39 bp):
TTACTAATTTAATTAATTGATTAATTGATTAATAACTAT
Found at i:14840305 original size:13 final size:13
Alignment explanation
Indices: 14840284--14840328 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
14840274 ACCACAATCC
14840284 ACAAAAAAAAGGA-A
1 ACAAAAAAAA--ACA
14840298 ACAAAAAAAAACA
1 ACAAAAAAAAACA
14840311 ACAAAAAAAAAC-
1 ACAAAAAAAAACA
14840323 ACAAAA
1 ACAAAA
14840329 TGCAACAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.23
13 13 0.43
14 10 0.33
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.00
Consensus pattern (13 bp):
ACAAAAAAAAACA
Found at i:14842781 original size:19 final size:19
Alignment explanation
Indices: 14842739--14842789 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
14842729 TAAAAAATAT
*
14842739 ATAATAAAATAAGTGTAGA
1 ATAATAAAATAAGTGTACA
14842758 ATAATAAAATAA-TGATACA
1 ATAATAAAATAAGTG-TACA
*
14842777 GTAATAATAATAA
1 ATAATAA-AATAA
14842790 AAACTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 2 0.07
19 21 0.75
20 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (19 bp):
ATAATAAAATAAGTGTACA
Found at i:14843098 original size:3 final size:3
Alignment explanation
Indices: 14843080--14843115 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
14843070 TAAAAAAGGA
*
14843080 AAT AA- AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14843116 TTTATGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14843895 original size:33 final size:33
Alignment explanation
Indices: 14843840--14843920 Score: 81
Period size: 33 Copynumber: 2.5 Consensus size: 33
14843830 GGAAATTAGC
* * * *
14843840 TTTTTATGGAATCAAGCAAAACCCTCACAATGT
1 TTTTTACGGGATCAAACAAAACCCTCACAAAGT
* * *
14843873 TTTTTACGGGATCAAACGAAACCTTTACAAAGT
1 TTTTTACGGGATCAAACAAAACCCTCACAAAGT
* *
14843906 TTCTTACGAGATCAA
1 TTTTTACGGGATCAA
14843921 GGGAGACCTT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.31
Consensus pattern (33 bp):
TTTTTACGGGATCAAACAAAACCCTCACAAAGT
Found at i:14854442 original size:34 final size:34
Alignment explanation
Indices: 14854404--14854472 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
14854394 TCACGAAGCT
* *
14854404 TTTACAATGGCTTTTCACAAGCTCAGCTAAAACC
1 TTTACAATAGCTTTTCACAAGCTCAACTAAAACC
* * **
14854438 TTTACACTAGTTTTTCACGGGCTCAACTAAAACC
1 TTTACAATAGCTTTTCACAAGCTCAACTAAAACC
14854472 T
1 T
14854473 AAAGTGGTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (34 bp):
TTTACAATAGCTTTTCACAAGCTCAACTAAAACC
Found at i:14861360 original size:18 final size:19
Alignment explanation
Indices: 14861339--14861382 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
14861329 AATTATTTAT
* *
14861339 TTAATTTTAATTTATG-CA
1 TTAATTTAAATTTATGAAA
*
14861357 TTAATTCAAATTTATGAAA
1 TTAATTTAAATTTATGAAA
14861376 TTAATTT
1 TTAATTT
14861383 CAAAAATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (19 bp):
TTAATTTAAATTTATGAAA
Found at i:14861380 original size:19 final size:19
Alignment explanation
Indices: 14861347--14861386 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
14861337 ATTTAATTTT
*
14861347 AATTTATGCATTAA-TTCA
1 AATTTATGAATTAATTTCA
14861365 AATTTATGAAATTAATTTCA
1 AATTTATG-AATTAATTTCA
14861385 AA
1 AA
14861387 AATAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 5 0.26
20 6 0.32
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (19 bp):
AATTTATGAATTAATTTCA
Found at i:14861879 original size:17 final size:17
Alignment explanation
Indices: 14861837--14861879 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
14861827 TACAGAGACC
*
14861837 AAATGTTAAGGTCATTG
1 AAATGTTAGGGTCATTG
14861854 AAATGTTAGGGTCATTG
1 AAATGTTAGGGTCATTG
14861871 AAATGTTAG
1 AAATGTTAG
14861880 TCACTTATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.35
Consensus pattern (17 bp):
AAATGTTAGGGTCATTG
Found at i:14862796 original size:47 final size:46
Alignment explanation
Indices: 14862743--14863153 Score: 416
Period size: 47 Copynumber: 8.8 Consensus size: 46
14862733 AACAAAGTTT
* **
14862743 AGAGTTTGTGACATGCCATGGAGGGAATCTGTGACACGACAATGTTC
1 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACG-CAGCGTTC
* * * *
14862790 AGAGTTTGTGACATGGCATGGAGGGAATCTATGACACGTCAGCGGTC
1 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACG-CAGCGTTC
* * * * *
14862837 AGAGTTTATGACACACCATGGAGGGAATCTGCGACATGCTAGCATTC
1 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGC-AGCGTTC
* * * *
14862884 AGAGTTTGTGACACGGCATGGAGGGAATCTGTGACATGCCAGCATTT
1 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACG-CAGCGTTC
* * *
14862931 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACTGTAGGGTTT
1 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACAC-GCAGCGTTC
* * * * *
14862978 AGAGTTTGTGACCCGTCATGAAGGGAATATGTGACACTGCAGCATTC
1 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACAC-GCAGCGTTC
* * *
14863025 AGAGTTTGTGACACACCATGGAGGGAATCTATGATACAC-CAGCGTTT
1 AGAGTTTGTGACACGCCATGGAGGGAATCTGTG--ACACGCAGCGTTC
* * *
14863072 AGAGTTTGTTACACGCCATGGAGGGAATCTGTGACACGGTAGGGTTC
1 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACAC-GCAGCGTTC
* * *
14863119 AGAGTTTGTCAGACTCCATGGA--G-ATCTGTGACACG
1 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACG
14863154 GCTGGGTTTA
Statistics
Matches: 307, Mismatches: 50, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
43 1 0.00
44 11 0.04
45 5 0.02
46 1 0.00
47 283 0.92
48 2 0.01
49 4 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGCAGCGTTC
Found at i:14862916 original size:23 final size:23
Alignment explanation
Indices: 14862890--14862967 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
14862880 ATTCAGAGTT
14862890 TGTGACACGGCATGGAGGGAATC
1 TGTGACACGGCATGGAGGGAATC
* ** * *
14862913 TGTGACATGCCAGCATTTA--GAGTT
1 TGTGACA---CGGCATGGAGGGAATC
*
14862937 TGTGACACGCCATGGAGGGAATC
1 TGTGACACGGCATGGAGGGAATC
14862960 TGTGACAC
1 TGTGACAC
14862968 TGTAGGGTTT
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
21 5 0.13
23 18 0.46
24 10 0.26
26 6 0.15
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (23 bp):
TGTGACACGGCATGGAGGGAATC
Found at i:14863003 original size:141 final size:140
Alignment explanation
Indices: 14862743--14863127 Score: 490
Period size: 141 Copynumber: 2.7 Consensus size: 140
14862733 AACAAAGTTT
* * * *
14862743 AGAGTTTGTGACATGCCATGGAGGGAATCTGTGACACGACA--ATGTTCAGAGTTTGTGACATGG
1 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGCCAGCAT-TT-AGAGTTTGTGACACGC
* * * *
14862806 CATGGAGGGAATCTATGACACGTCAGCGG-TCAGAGTTTATGACACACCATGGAGGGAATCTGCG
64 CATGGAGGGAATCTGTGACACGT-AG-GGTTCAGAGTTTGTGACACACCATGAAGGGAATATGCG
14862870 ACA-TGCTAGCATTC
127 ACACTGC-AGCATTC
* *
14862884 AGAGTTTGTGACACGGCATGGAGGGAATCTGTGACATGCCAGCATTTAGAGTTTGTGACACGCCA
1 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGCCAGCATTTAGAGTTTGTGACACGCCA
* * ** *
14862949 TGGAGGGAATCTGTGACACTGTAGGGTTTAGAGTTTGTGACCCGTCATGAAGGGAATATGTGACA
66 TGGAGGGAATCTGTGACAC-GTAGGGTTCAGAGTTTGTGACACACCATGAAGGGAATATGCGACA
14863014 CTGCAGCATTC
130 CTGCAGCATTC
* * * * * *
14863025 AGAGTTTGTGACACACCATGGAGGGAATCTATGATACACCAGCGTTTAGAGTTTGTTACACGCCA
1 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGCCAGCATTTAGAGTTTGTGACACGCCA
14863090 TGGAGGGAATCTGTGACACGGTAGGGTTCAGAGTTTGT
66 TGGAGGGAATCTGTGACAC-GTAGGGTTCAGAGTTTGT
14863128 CAGACTCCAT
Statistics
Matches: 214, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
140 2 0.01
141 203 0.95
142 7 0.03
143 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (140 bp):
AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGCCAGCATTTAGAGTTTGTGACACGCCA
TGGAGGGAATCTGTGACACGTAGGGTTCAGAGTTTGTGACACACCATGAAGGGAATATGCGACAC
TGCAGCATTC
Found at i:14863856 original size:31 final size:31
Alignment explanation
Indices: 14863818--14863989 Score: 238
Period size: 31 Copynumber: 5.5 Consensus size: 31
14863808 ATCTTAGCGT
* * *
14863818 TGGCATGTAACAACATTTGAC-TTGATACGCA
1 TGGCATGTTACAACATTTTACGTT-ATATGCA
*
14863849 TGGCATGTTACAATATTTTACGTTATATGCA
1 TGGCATGTTACAACATTTTACGTTATATGCA
*
14863880 TGGCGTGTTACAACATTTTACGTTATATGCA
1 TGGCATGTTACAACATTTTACGTTATATGCA
** *
14863911 TGGTGTGTTACAACATTTTACATTATATGCA
1 TGGCATGTTACAACATTTTACGTTATATGCA
14863942 TGGCATGTTACAACATTTTACGTTATATGCA
1 TGGCATGTTACAACATTTTACGTTATATGCA
* *
14863973 TAGCGTGTTACAACATT
1 TGGCATGTTACAACATT
14863990 ATGGGTTAAC
Statistics
Matches: 127, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
31 125 0.98
32 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (31 bp):
TGGCATGTTACAACATTTTACGTTATATGCA
Found at i:14865181 original size:5 final size:5
Alignment explanation
Indices: 14865171--14865200 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
14865161 AATCAAGTAG
*
14865171 GATTT GATTT GATTC GATTT GATTT GATTT
1 GATTT GATTT GATTT GATTT GATTT GATTT
14865201 TCCATGCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.20, C:0.03, G:0.20, T:0.57
Consensus pattern (5 bp):
GATTT
Done.