Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 195 of 352
Found at i:64348543 original size:24 final size:26
Alignment explanation
Indices: 64348496--64348543 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
64348486 TGTTCTCCCT
* *
64348496 TTATTTTATATTTATTTTATTATTTA
1 TTATTCTATATTTATTTTAGTATTTA
64348522 TTATTCTA-ATTT-TTTTAGTATT
1 TTATTCTATATTTATTTTAGTATT
64348544 ATTTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 4 0.20
26 7 0.35
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (26 bp):
TTATTCTATATTTATTTTAGTATTTA
Found at i:64354794 original size:48 final size:48
Alignment explanation
Indices: 64354713--64354940 Score: 238
Period size: 48 Copynumber: 4.9 Consensus size: 48
64354703 GTCGATGCCA
* *
64354713 ATGCCAATGTCATGTCCTAGACATGGTCTTACATGGGATCGTAGATTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGATTG
* **
64354761 ATGCGAATGCCATGTCCCAGACATGGTCTTACATAGGTTTC-TAGATTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAT-GGGATCGTAGATTG
* *
64354809 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATTGTAGATTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGATTG
* ** *** *
64354857 ATGCCAAT---A-G-CCTAG-CTATGGTCTTACATGAAATTACATATTG
1 ATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCGTAGATTG
*
64354900 ATGCCAAAGCCATGTCCC-GAACATGGTCTTACATGGGATCG
1 ATGCCAATGCCATGTCCCAG-ACATGGTCTTACATGGGATCG
64354941 CACATAACCT
Statistics
Matches: 147, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
42 1 0.01
43 31 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 5 0.03
48 102 0.69
49 5 0.03
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGATTG
Found at i:64354923 original size:91 final size:94
Alignment explanation
Indices: 64354713--64354940 Score: 268
Period size: 91 Copynumber: 2.4 Consensus size: 94
64354703 GTCGATGCCA
* * * * *
64354713 ATGCCAATGTCATGTCCTAGACATGGTCTTACATGGGATCGTAGATTGATGCGAATGCCATGTCC
1 ATGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATCGTAGATTGATGCCAAT--CATGTCC
** *
64354778 CAGACATGGTCTTACATAGGTTTCTAGATTG
64 CAGACATGGTCTTACATAAATTACTAGATTG
* * *
64354809 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATTGTAGATTGATGCCAAT-A-G-CCTA
1 ATGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATCGTAGATTGATGCCAATCATGTCCCA
*
64354871 G-CTATGGTCTTACATGAAATTAC-ATATTG
66 GAC-ATGGTCTTACAT-AAATTACTAGATTG
*
64354900 ATGCCAAAGCCATGTCCCGAACATGGTCTTACATGGGATCG
1 ATGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATCG
64354941 CACATAACCT
Statistics
Matches: 117, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
90 1 0.01
91 59 0.50
92 5 0.04
93 1 0.01
96 51 0.44
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (94 bp):
ATGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATCGTAGATTGATGCCAATCATGTCCCA
GACATGGTCTTACATAAATTACTAGATTG
Found at i:64356632 original size:46 final size:46
Alignment explanation
Indices: 64356579--64356669 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
64356569 TATATATACA
** * *
64356579 CATCTCATACATGTCTCGCATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCGCATTAACCATTCGGCTTTACCACATATC
* *
64356625 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCGCATTAACCATTCGGCTTTACCACATAT
64356670 ATATACACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCGCATTAACCATTCGGCTTTACCACATATC
Found at i:64356714 original size:22 final size:22
Alignment explanation
Indices: 64356686--64356810 Score: 64
Period size: 22 Copynumber: 5.4 Consensus size: 22
64356676 ACATCCACGT
64356686 TTATCACATTGGCCATTCTGCC
1 TTATCACATTGGCCATTCTGCC
*
64356708 TTATCACATGTATG-CATGT-T-CAC
1 TTATCACAT-T-GGCCAT-TCTGC-C
*
64356731 ATTTATCACATTGGCCATTCGGCC
1 --TTATCACATTGGCCATTCTGCC
*
64356755 TTATCACATATATG-CATGT-T-CAC
1 TTATCACAT-T-GGCCAT-TCTGC-C
*
64356778 ATTCATCACATTGGCCATTCGGCC
1 -TT-ATCACATTGGCCATTCTGCC
64356802 TTATCACAT
1 TTATCACAT
64356811 ATATACATGT
Statistics
Matches: 78, Mismatches: 7, Indels: 36
0.64 0.06 0.30
Matches are distributed among these distances:
22 27 0.35
23 17 0.22
24 16 0.21
25 18 0.23
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (22 bp):
TTATCACATTGGCCATTCTGCC
Found at i:64356833 original size:141 final size:141
Alignment explanation
Indices: 64356668--64357117 Score: 666
Period size: 141 Copynumber: 3.2 Consensus size: 141
64356658 TTTCCCACAT
* * * * * *
64356668 ATATATACACATCCACGTTTATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACAT
1 ATATATACACGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
* *
64356733 TTATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTC
66 TCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTC
64356798 GGCCTTATCAC
131 GGCCTTATCAC
* * *
64356809 ATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAGGTTCATAT
1 ATATATACACGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
*
64356874 TCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCATATTCATCACATTGGCCATTC
66 TCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTC
64356939 GGCCTTATCAC
131 GGCCTTATCAC
* * * *
64356950 ATATATGCAGGTTCATATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACAT
1 ATATATACACGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
* * * * *
64357015 TCATCACATTTGCCGTTCGGCCTTAGCACACAAATGCATGTTCACATTCATCACATTTGCCATTC
66 TCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTC
* *
64357080 GGCCTTAGCTC
131 GGCCTTATCAC
* * *
64357091 ATGTATACACATTCACATCCATCACAT
1 ATATATACACGTTCACATTCATCACAT
64357118 AAAATCCTAA
Statistics
Matches: 277, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
141 277 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (141 bp):
ATATATACACGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
TCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTC
GGCCTTATCAC
Found at i:64356857 original size:22 final size:22
Alignment explanation
Indices: 64356733--64356857 Score: 76
Period size: 22 Copynumber: 5.4 Consensus size: 22
64356723 ATGTTCACAT
64356733 TTATCACATTGGCCATTCGGCC
1 TTATCACATTGGCCATTCGGCC
* * *
64356755 TTATCACATATATG-CATGTTC-ACA
1 TTATCACAT-T-GGCCA--TTCGGCC
64356779 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCGGCC
*** * *
64356802 TTATCACATATATACATGTTC-ACA
1 TTATCACAT-TGGCCA--TTCGGCC
64356826 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCGGCC
64356849 TTATCACAT
1 TTATCACAT
64356858 ATATGCAGGT
Statistics
Matches: 75, Mismatches: 16, Indels: 24
0.65 0.14 0.21
Matches are distributed among these distances:
22 29 0.39
23 13 0.17
24 13 0.17
25 20 0.27
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (22 bp):
TTATCACATTGGCCATTCGGCC
Found at i:64357021 original size:25 final size:25
Alignment explanation
Indices: 64356992--64357069 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 25
64356982 ATTCGGCCTT
64356992 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* * * *
64357017 AT--CACATTTGC-CGTTCGGCCTT-
1 ATCACACATATGCATGTTC-ACATTC
* *
64357039 AGCACACAAATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
64357064 ATCACA
1 ATCACA
64357070 TTTGCCATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 5 0.14
23 11 0.30
24 10 0.27
25 11 0.30
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:64357088 original size:47 final size:47
Alignment explanation
Indices: 64356688--64357086 Score: 645
Period size: 47 Copynumber: 8.5 Consensus size: 47
64356678 ATCCACGTTT
* * *
64356688 ATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACATTT
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
64356735 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
*
64356782 ATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* *
64356829 ATCACATTGGCCATTCGGCCTTATCACATATATGCAGGTTCATATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* *
64356876 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCATATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* *
64356923 ATCACATTGGCCATTCGGCCTTATCACATATATGCAGGTTCATATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
*
64356970 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* * * * *
64357017 ATCACATTTGCCGTTCGGCCTTAGCACACAAATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
*
64357064 ATCACATTTGCCATTCGGCCTTA
1 ATCACATTGGCCATTCGGCCTTA
64357087 GCTCATGTAT
Statistics
Matches: 333, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 333 1.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
Found at i:64364291 original size:24 final size:25
Alignment explanation
Indices: 64364258--64364322 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 25
64364248 TCTATTTTCA
* *
64364258 TTTTATTTGTTTTATTTA-TGTTAT
1 TTTTAGTTGTTTTATTTATTGTTAG
* ** *
64364282 TTTTGGTTGTACT-TTTATTTTTAG
1 TTTTAGTTGTTTTATTTATTGTTAG
64364306 TTTTAGTTGTTTTATTT
1 TTTTAGTTGTTTTATTT
64364323 TGATTTGTGA
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
23 4 0.13
24 23 0.77
25 3 0.10
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.72
Consensus pattern (25 bp):
TTTTAGTTGTTTTATTTATTGTTAG
Found at i:64370169 original size:16 final size:16
Alignment explanation
Indices: 64370148--64370181 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
64370138 CAACATATGT
64370148 TAAAACAAACTATATA
1 TAAAACAAACTATATA
64370164 TAAAACAAACTATATA
1 TAAAACAAACTATATA
64370180 TA
1 TA
64370182 TACAGAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAACAAACTATATA
Found at i:64373467 original size:39 final size:40
Alignment explanation
Indices: 64373318--64373468 Score: 225
Period size: 40 Copynumber: 3.8 Consensus size: 40
64373308 CGGATGATAA
*
64373318 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
64373358 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
64373398 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
* * *
64373438 CCGGGCTATG-CCCGAAGGCATTCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
64373469 AGCTATATCC
Statistics
Matches: 103, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 19 0.18
40 82 0.80
41 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.30, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:64381379 original size:40 final size:40
Alignment explanation
Indices: 64381324--64381466 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
64381314 CGGATGATAA
* *
64381324 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGCTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
64381364 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
64381404 CCGGGCTAAGTCCCAAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
* *
64381444 CCGGGCTATGCCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
64381467 CGAGCAAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 91 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:64399386 original size:20 final size:20
Alignment explanation
Indices: 64399361--64399401 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
64399351 TTACTTCTCG
64399361 TAACCAAAACTCGCACTTAC
1 TAACCAAAACTCGCACTTAC
64399381 TAACCAAAACTCGCACTTAC
1 TAACCAAAACTCGCACTTAC
64399401 T
1 T
64399402 GAACTTGGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.34, G:0.05, T:0.22
Consensus pattern (20 bp):
TAACCAAAACTCGCACTTAC
Found at i:64406184 original size:39 final size:39
Alignment explanation
Indices: 64406126--64406322 Score: 218
Period size: 40 Copynumber: 5.0 Consensus size: 39
64406116 GTAAAAGTGA
* *
64406126 ATTTAGGAGTATCATAGTACAAATAGGGGCACGTATGTGC
1 ATTTAGG-GTATCAAAGTACAAATAGGGGCACTTATGTGC
* *
64406166 ATTTAGGGTATCAAAGTACAAATAGGAGCACTTAGGTGC
1 ATTTAGGGTATCAAAGTACAAATAGGGGCACTTATGTGC
* * * *
64406205 ATTCAGGGTA-CTGAAGTACAAACAAGGGCACTTATGTGC
1 ATTTAGGGTATC-AAAGTACAAATAGGGGCACTTATGTGC
* * *
64406244 ATTCAGGGGTATCGAAGTACAAACAGGGGCACTTATGTGC
1 ATTTA-GGGTATCAAAGTACAAATAGGGGCACTTATGTGC
* *
64406284 ATTTAGGGGTA-CAAAATTACAAATAAGGGCACTTATGTG
1 ATTTA-GGGTATC-AAAGTACAAATAGGGGCACTTATGTG
64406323 TATTCATATA
Statistics
Matches: 137, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 65 0.47
40 70 0.51
41 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.25
Consensus pattern (39 bp):
ATTTAGGGTATCAAAGTACAAATAGGGGCACTTATGTGC
Found at i:64406284 original size:79 final size:79
Alignment explanation
Indices: 64406141--64406328 Score: 243
Period size: 79 Copynumber: 2.4 Consensus size: 79
64406131 GGAGTATCAT
* * * *
64406141 AGTACAAATAGGGGCACGTATGTGCATTTAGGGTATCAAAGTACAAATAGGAGCACTTAGGTGCA
1 AGTACAAATAAGGGCACTTATGTGCATTCAGGGTATCAAAGTACAAACAGGAGCACTTAGGTGCA
**
64406206 TTCA-GGGTACTGA
66 TTCAGGGGTACAAA
* * * *
64406219 AGTACAAACAAGGGCACTTATGTGCATTCAGGGGTATCGAAGTACAAACAGGGGCACTTATGTGC
1 AGTACAAATAAGGGCACTTATGTGCATTCA-GGGTATCAAAGTACAAACAGGAGCACTTAGGTGC
*
64406284 ATTTAGGGGTACAAA
65 ATTCAGGGGTACAAA
* *
64406299 ATTACAAATAAGGGCACTTATGTGTATTCA
1 AGTACAAATAAGGGCACTTATGTGCATTCA
64406329 TATATATACG
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 26 0.28
79 34 0.36
80 34 0.36
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (79 bp):
AGTACAAATAAGGGCACTTATGTGCATTCAGGGTATCAAAGTACAAACAGGAGCACTTAGGTGCA
TTCAGGGGTACAAA
Found at i:64411430 original size:34 final size:34
Alignment explanation
Indices: 64411384--64411481 Score: 135
Period size: 34 Copynumber: 2.9 Consensus size: 34
64411374 ATTTTTCCAG
* *
64411384 AATGAAAAAAAAATGATAA-AGCTTAAAACTAAAA
1 AATGAAACAAAAATAATAAGA-CTTAAAACTAAAA
* *
64411418 AATTAAACAAAAATAATAAGACTTAAAACTACAA
1 AATGAAACAAAAATAATAAGACTTAAAACTAAAA
*
64411452 AATGAAACAAAAATTATAAGACTTAAAACT
1 AATGAAACAAAAATAATAAGACTTAAAACT
64411482 CTAACACCAA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
34 56 0.98
35 1 0.02
ACGTcount: A:0.64, C:0.09, G:0.06, T:0.20
Consensus pattern (34 bp):
AATGAAACAAAAATAATAAGACTTAAAACTAAAA
Found at i:64413791 original size:48 final size:47
Alignment explanation
Indices: 64413718--64414079 Score: 252
Period size: 48 Copynumber: 7.6 Consensus size: 47
64413708 CATGTGCGCT
* ** *
64413718 AGTGTAAGACCATGTCTGGGGCATGGCATCAGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATC-GCCATGATATGAGAGCC
* * ** * *
64413766 ATTGTAAGACCATGTTTGGAACATGGCCTCGGTGATGTTGTGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATC-GCCATGATATGAGAGCC
* * * *
64413814 AGTGTAAGACCATGTTTGGAACATGGCATCGACGATGTTGTGAGAACC
1 AGTGTAAGACCATGTTTGGAACATGGCATCG-CCATGATATGAGAGCC
* * * * *
64413862 AATGTAAGACCATGTCTCGG-ACATGGCATTAG-CATTGATATGTGCA-CT
1 AGTGTAAGACCATGT-TTGGAACATGGCA-TCGCCA-TGATATGAG-AGCC
* * * *
64413910 AGTGTAAGACCATGTCTGGGACATGGCATCGACCA-CATTATGAGAGTC
1 AGTGTAAGACCATGTTTGGAACATGGCATCG-CCATGA-TATGAGAGCC
* * * * * *
64413958 AATGTAAGACCATGTCTAGG-ACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGT-TTGGAACATGGCATCGCCA-TGATATGAGAGCC
* * *
64414006 AGTGTAAGACCATGTTTGGGACATGGCATCAGTCTCA--ACATGTGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATC-G-C-CATGATATGAGAGCC
*
64414054 AGTGTAAAACCATGTTTGGAACATGG
1 AGTGTAAGACCATGTTTGGAACATGG
64414080 TAACGACAAT
Statistics
Matches: 248, Mismatches: 49, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
47 13 0.05
48 221 0.89
49 12 0.05
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGCCATGATATGAGAGCC
Found at i:64413876 original size:25 final size:25
Alignment explanation
Indices: 64413800--64413876 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
64413790 GGCCTCGGTG
* *
64413800 ATGTTGTGAGAGCCAGTGTAAGACC
1 ATGTTGTGAGAACCAATGTAAGACC
* * *
64413825 ATGTT-TG-GAA-C-ATGGCATCGACG
1 ATGTTGTGAGAACCAAT-GTA-AGACC
64413848 ATGTTGTGAGAACCAATGTAAGACC
1 ATGTTGTGAGAACCAATGTAAGACC
64413873 ATGT
1 ATGT
64413877 CTCGGACATG
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
21 1 0.03
22 3 0.08
23 10 0.26
24 4 0.11
25 15 0.39
26 3 0.08
27 2 0.05
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (25 bp):
ATGTTGTGAGAACCAATGTAAGACC
Found at i:64414078 original size:96 final size:94
Alignment explanation
Indices: 64413715--64414079 Score: 328
Period size: 96 Copynumber: 3.8 Consensus size: 94
64413705 TGACATGTGC
* *
64413715 GCTAGTGTAAGACCATGTCTGGGGCATGGCATC-AGCCACGATATGAGAGCCATTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCA--ATATGAGAGCCAATGTAAGACCAT
* * *
64413779 GT-TTGGAACATGGCCTCGGTGA-TGTTG-TGAGA
63 GTCTTGG-ACATGGCATCGG-CATTG-AGATGAGA
* * * * * * *
64413811 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACGATGTTGTGAGAACCAATGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCA--ATATGAGAGCCAATGTAAGACCATG
* ** * *
64413876 TCTCGGACATGGCATTAGCATTGATATGTGCA
64 TCTTGGACATGGCATCGGCATTGAGATGAG-A
*
64413908 -CTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGTCAATGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-A-TATGAGAGCCAATGTAAGACCATG
* *
64413972 TCTAGGACATGGCATCGGCATTGAGACGAGA
64 TCTTGGACATGGCATCGGCATTGAGATGAGA
* * * * * *
64414003 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGTCTCAACATGTGAGCCAGTGTAAAACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GAC-CAATATGAGAGCCAATGTAAGACCATG
64414068 T-TTGGAACATGG
64 TCTTGG-ACATGG
64414080 TAACGACAAT
Statistics
Matches: 218, Mismatches: 41, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
95 5 0.02
96 203 0.93
97 8 0.04
98 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (94 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCAATATGAGAGCCAATGTAAGACCATGTC
TTGGACATGGCATCGGCATTGAGATGAGA
Found at i:64417277 original size:40 final size:40
Alignment explanation
Indices: 64417223--64417340 Score: 191
Period size: 40 Copynumber: 3.0 Consensus size: 40
64417213 CGGATGTAAC
* *
64417223 AACCAGCACAAATGCCTTCGGGACTTAACCCGATTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
64417263 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
64417303 AAACTGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATA
64417341 TTTTTTTCCA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:64419506 original size:43 final size:43
Alignment explanation
Indices: 64419387--64419507 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 43
64419377 ACACGTATCG
* * *
64419387 ATGCCACTGTCCCACACAGGGTCTT--ATGCGAAGTTGATTAACA
1 ATGCCACTGTCCCACACAGGGTCTTACATG-TAA-TCGAATAACA
* *
64419430 ATGCCGA-TGTCCCACACATGGTCTTACAAGTAATCGTAAT-ACA
1 ATGCC-ACTGTCCCACACAGGGTCTTACATGTAATCG-AATAACA
64419473 ATGCCACTGTCCCACACAGGGTCTTACATGTAATC
1 ATGCCACTGTCCCACACAGGGTCTTACATGTAATC
64419508 ACATCTCAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 1 0.02
43 58 0.88
44 5 0.08
45 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCACACAGGGTCTTACATGTAATCGAATAACA
Found at i:64421578 original size:20 final size:21
Alignment explanation
Indices: 64421540--64421579 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
64421530 GTTAAGATAA
64421540 CACACGGGCTTGTTGCCCTTC
1 CACACGGGCTTGTTGCCCTTC
64421561 CACACGGGCTTG-TGCCCTT
1 CACACGGGCTTGTTGCCCTT
64421580 GTCAACTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.10, C:0.38, G:0.25, T:0.28
Consensus pattern (21 bp):
CACACGGGCTTGTTGCCCTTC
Found at i:64427820 original size:48 final size:47
Alignment explanation
Indices: 64427761--64428031 Score: 233
Period size: 48 Copynumber: 5.7 Consensus size: 47
64427751 TATGTGTGCT
64427761 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATATGAGAGCC
* * * * * * *
64427809 AGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATATGAGAGCC
**
64427857 AGTGTAAGACCATGTCTGGGACATGGCATCAACCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCACGA-TATGAGAGCC
* * ** * * * ** *
64427905 AATGTAATACCATGTCTAAGACATGACATCGGCATTGAGACAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATATGAGAGCC
* * *
64427953 AGTGTAAGACCATGTCTGGGACATAGCATCGGC-CTTAACATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--GATATG-AGAGCC
* *
64428001 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
64428032 ACAATTCACC
Statistics
Matches: 172, Mismatches: 43, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
47 4 0.02
48 164 0.95
49 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGAGAGCC
Found at i:64427917 original size:96 final size:95
Alignment explanation
Indices: 64427748--64428031 Score: 340
Period size: 96 Copynumber: 3.0 Consensus size: 95
64427738 GACATTTGGG
* *
64427748 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGATATGAGAGCCAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATATGAGAGCCAGTG
*
64427813 TAAGACCATGTTTGGAACATGGCATTGGCAT
65 TAAGACCATGTTTGGAACATGGCATCGGCAT
* ** *
64427844 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACCACATTATGAGAGCCAATG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACA-TATGAGAGCCAGTG
* * * *
64427909 TAATACCATGTCT-AAGACATGACATCGGCAT
65 TAAGACCATGTTTGGA-ACATGGCATCGGCAT
* *** * *
64427940 TGAGACAAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTTA-ACATGTA-AGCCAG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC--ACATATG-AGAGCCAG
64428003 TGTAAGACCATGTTTGGAACATGGCATCG
63 TGTAAGACCATGTTTGGAACATGGCATCG
64428032 ACAATTCACC
Statistics
Matches: 158, Mismatches: 24, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
95 2 0.01
96 152 0.96
97 3 0.02
98 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (95 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATATGAGAGCCAGTGT
AAGACCATGTTTGGAACATGGCATCGGCAT
Found at i:64429026 original size:22 final size:22
Alignment explanation
Indices: 64428994--64429040 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
64428984 GCCTTGGCCG
*
64428994 TGTGCCTTTAAGGGGTTGCTAA
1 TGTGCCCTTAAGGGGTTGCTAA
64429016 TGTGCCCTTAAGGGGTTGCTAA
1 TGTGCCCTTAAGGGGTTGCTAA
64429038 TGT
1 TGT
64429041 TAGAAATAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.15, G:0.32, T:0.36
Consensus pattern (22 bp):
TGTGCCCTTAAGGGGTTGCTAA
Found at i:64433573 original size:21 final size:21
Alignment explanation
Indices: 64433549--64433589 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
64433539 ATAAAAAATC
*
64433549 AATTTACATTAA-ATAATTTTA
1 AATTTAAATTAATAT-ATTTTA
64433570 AATTTAAATTAATATATTTT
1 AATTTAAATTAATATATTTT
64433590 CATTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTTAAATTAATATATTTTA
Found at i:64437006 original size:43 final size:43
Alignment explanation
Indices: 64436959--64437081 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
64436949 TCACATATCA
* * *
64436959 ATGCCAATGCCCCGGACATGGCCTTACACGAAATCAT-ATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAAT-ACG
* * * * *
64437002 ATGCCAATGTCCCAGATATAGTCTTACACGTAATCGTAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAATACG
*
64437045 ATACCAATGTCCCAGACATGGTCTTACAC-ATAATCAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGA-AATCAT
64437082 GTGTCATTAA
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
43 63 0.97
44 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAATACG
Found at i:64437649 original size:20 final size:21
Alignment explanation
Indices: 64437624--64437666 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
64437614 TCACTTAACA
64437624 AAACTTTAATATCT-ATCATC
1 AAACTTTAATATCTCATCATC
* *
64437644 AAACTTTCATATTTCATCATC
1 AAACTTTAATATCTCATCATC
64437665 AA
1 AA
64437667 TCATTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (21 bp):
AAACTTTAATATCTCATCATC
Found at i:64444724 original size:43 final size:42
Alignment explanation
Indices: 64444621--64444739 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 42
64444611 ATGTTATCAC
**
64444621 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTT
1 ATAT-GATGCCAATGTCCCAGACATGGTCTTACACGAAATCCA
* * *
64444664 ATAATGGTGCCAGTGTCCCAGATATGGTCTTACAC-ACAATCGCA
1 AT-ATGATGCCAATGTCCCAGACATGGTCTTACACGA-AATC-CA
*
64444708 ATATGATGCGAATGTCCCCA-ACATGGTCTTAC
1 ATATGATGCCAATGT-CCCAGACATGGTCTTAC
64444740 TCATAATCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
42 1 0.02
43 54 0.86
44 8 0.13
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
ATATGATGCCAATGTCCCAGACATGGTCTTACACGAAATCCA
Found at i:64447603 original size:40 final size:40
Alignment explanation
Indices: 64447556--64447759 Score: 293
Period size: 40 Copynumber: 5.1 Consensus size: 40
64447546 CGGGCTTTAA
** * *
64447556 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
64447596 CCGGATATAGTAGTTCGTACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
64447636 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
64447676 CCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
64447716 CCGGA-ATTAGTCACTAGCACAAATACCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
64447756 CCGG
1 CCGG
64447760 TTATCATCCA
Statistics
Matches: 148, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 1 0.01
40 147 0.99
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:64455731 original size:40 final size:40
Alignment explanation
Indices: 64455569--64455731 Score: 235
Period size: 40 Copynumber: 4.1 Consensus size: 40
64455559 TCGGATTTAA
* *
64455569 CCGG-ATATAGCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGAATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
*
64455608 CC-GAATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGAATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
64455648 CCGG-ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGAATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
*
64455688 CCGGAAT-TAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGAATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
64455728 CCGG
1 CCGG
64455732 TTATCATCCG
Statistics
Matches: 113, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
38 1 0.01
39 9 0.08
40 99 0.88
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGAATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:64463132 original size:40 final size:40
Alignment explanation
Indices: 64462941--64463125 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
64462931 TTGAATGATG
* * * *
64462941 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
64462981 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64463021 TCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64463060 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
64463101 -CCGGGCTATA-TCTCGAAGGCATTTG
1 TCCGGGCTA-AGTCCCGAAGGCATTTG
64463126 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64463147 original size:79 final size:79
Alignment explanation
Indices: 64462997--64463158 Score: 186
Period size: 79 Copynumber: 2.1 Consensus size: 79
64462987 CTAAGATCCA
* **
64462997 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCAAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAAATC
*
64463062 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
* * * * *
64463076 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATATCTCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTTGTGCGAGATACTAAT-ACCGGGCTA-AGCCCAAAGGCATTTGAACGAGTTA-CTAA
*
64463139 ATCC-GGTTAAATTCCG
63 ATCCGGGTTAAATCCCG
64463155 AAGG
1 AAGG
64463159 TACGTGATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 44 0.63
80 24 0.34
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAATCCCG
Found at i:64466089 original size:23 final size:23
Alignment explanation
Indices: 64466063--64466107 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
64466053 ATTTCGTAAA
*
64466063 CTTATGTTAATGATGGTGATGAG
1 CTTATGTTAATGACGGTGATGAG
64466086 CTTATGTTAATGACGGTGATGA
1 CTTATGTTAATGACGGTGATGA
64466108 TTGATCTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.38
Consensus pattern (23 bp):
CTTATGTTAATGACGGTGATGAG
Found at i:64483906 original size:14 final size:14
Alignment explanation
Indices: 64483889--64483922 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
64483879 ATATGTTATA
64483889 ATAATAAAATGTAT
1 ATAATAAAATGTAT
* *
64483903 ATAATTATATGTAT
1 ATAATAAAATGTAT
64483917 ATAATA
1 ATAATA
64483923 TAAGTTATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (14 bp):
ATAATAAAATGTAT
Found at i:64490724 original size:122 final size:122
Alignment explanation
Indices: 64490507--64490789 Score: 344
Period size: 122 Copynumber: 2.3 Consensus size: 122
64490497 AGGATCTTTG
* * *
64490507 TGAGCTTCCTAATTAATGGCTCTCTGAAGCTTCCCAATATGGGTCGCTTAAACTTCCTAATATAT
1 TGAGCTTCTTAATTAATGGCTCTCAGAAGCTTCCCAATATGGCTCGCTTAAACTTCCTAATATAT
* * * *
64490572 GGCTATCTAGAGCTTCCTGATTAATGGCTCTTCGGAGCTATCC-GTTATTGGTTCGCA
66 GGCTATCCAGAGCTTCCTAATTAATGGCTCTTCGGAGCTA-CCAGTTAATGGATCGCA
* * *
64490629 TGAGCTTCTTGATTAATGGCTCTCCAG-AG-TTGCCCTATATGGCTCGCTTGAACTTCCTAATAT
1 TGAGCTTCTTAATTAATGGCTCT-CAGAAGCTT-CCCAATATGGCTCGCTTAAACTTCCTAATAT
* *
64490692 ATGGCTATCCGGAGCTT-CTCAATTAATGGCTCTTTGGAGCTACCAGTTAATGGATCGCA
64 ATGGCTATCCAGAGCTTCCT-AATTAATGGCTCTTCGGAGCTACCAGTTAATGGATCGCA
* * *
64490751 TGAGCTTCTTAAAT-ATGGCTCTTATG-AGCTTCCCGATAT
1 TGAGCTTCTTAATTAATGGCTCTCA-GAAGCTTCCCAATAT
64490790 ACAGCCCGGA
Statistics
Matches: 139, Mismatches: 16, Indels: 13
0.83 0.10 0.08
Matches are distributed among these distances:
120 1 0.01
121 24 0.17
122 112 0.81
123 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (122 bp):
TGAGCTTCTTAATTAATGGCTCTCAGAAGCTTCCCAATATGGCTCGCTTAAACTTCCTAATATAT
GGCTATCCAGAGCTTCCTAATTAATGGCTCTTCGGAGCTACCAGTTAATGGATCGCA
Found at i:64494121 original size:37 final size:37
Alignment explanation
Indices: 64494071--64494149 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
64494061 TTATTACGAA
* *
64494071 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
64494108 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
64494145 GTCTT
1 GTCTT
64494150 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:64494346 original size:47 final size:47
Alignment explanation
Indices: 64494268--64494674 Score: 571
Period size: 47 Copynumber: 8.4 Consensus size: 47
64494258 CCCTTCGGGA
* * * * * * *
64494268 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
64494315 CCTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64494362 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64494409 CTTATCACATATATACACTTTCACATTCATCACATCGGCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGG--------C--C-ATTAGGC
* *
64494467 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64494514 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64494561 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64494608 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64494655 CTTATCACACATATACACTT
1 CTTATCACATATATACACTT
64494675 CTTGGCTGAA
Statistics
Matches: 330, Mismatches: 19, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
47 284 0.86
50 1 0.00
55 1 0.00
58 44 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:64494347 original size:25 final size:25
Alignment explanation
Indices: 64494319--64494396 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
64494309 CTCGGCCCTG
64494319 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
*** *** *
64494344 TCACAT-TGGCCA-TTAGGCCTT-A
1 TCACATATATACACTTTCACATTCA
64494366 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
64494391 TCACAT
1 TCACAT
64494397 CGGCTATTAG
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 13 0.36
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (25 bp):
TCACATATATACACTTTCACATTCA
Found at i:64494608 original size:199 final size:199
Alignment explanation
Indices: 64494268--64494646 Score: 632
Period size: 199 Copynumber: 1.9 Consensus size: 199
64494258 CCCTTCGGGA
** * * * * * *
64494268 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
*
64494333 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
64494398 GGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCATCACATCGGCTATT
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCATCACATCGGCTATT
64494463 AGGC
196 AGGC
* * * *
64494467 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
64494532 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
64494597 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
64494647 TATTAGGCCT
Statistics
Matches: 166, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
199 166 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (199 bp):
CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCATCACATCGGCTATT
AGGC
Found at i:64497394 original size:24 final size:24
Alignment explanation
Indices: 64497355--64497408 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
64497345 CCGTAGCCAA
*
64497355 ACTTTT-AGCTTTTTGGCATTTTG
1 ACTTTTCAGCATTTTGGCATTTTG
*
64497378 ACTTTTCAGCATTTTGGCTTTTTG
1 ACTTTTCAGCATTTTGGCATTTTG
*
64497402 GCTTTTC
1 ACTTTTC
64497409 GGCTTTTACC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.11, C:0.17, G:0.17, T:0.56
Consensus pattern (24 bp):
ACTTTTCAGCATTTTGGCATTTTG
Found at i:64497412 original size:16 final size:16
Alignment explanation
Indices: 64497357--64497415 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
64497347 GTAGCCAAAC
*
64497357 TTTTAGCTTTTTGGCA
1 TTTTGGCTTTTTGGCA
* **
64497373 TTTTGACTTTTCAGCA
1 TTTTGGCTTTTTGGCA
64497389 TTTTGGCTTTTTGGC-
1 TTTTGGCTTTTTGGCA
64497404 TTTTCGGCTTTT
1 TTTT-GGCTTTT
64497416 ACCGTTCTAC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
15 4 0.11
16 31 0.89
ACGTcount: A:0.08, C:0.15, G:0.19, T:0.58
Consensus pattern (16 bp):
TTTTGGCTTTTTGGCA
Found at i:64499457 original size:41 final size:41
Alignment explanation
Indices: 64499394--64499511 Score: 148
Period size: 41 Copynumber: 2.9 Consensus size: 41
64499384 GCCACTGGTG
* * * *
64499394 GATCCACGGTCGCCAAGTAACCATGTAATCCTTAATCGATC
1 GATCCACGGTCGTCAAGCAACCATGCAATCCTCAATCGATC
* * *
64499435 GATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCGGTG
1 GATCCACGGTCGTCAAGCAACCATGCAATCCTCAATCGATC
*
64499476 GATCCACGGTTGTCAAGCAACCATG-AGATCCTCAAT
1 GATCCACGGTCGTCAAGCAACCATGCA-ATCCTCAAT
64499512 TTCTTCCTCC
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (41 bp):
GATCCACGGTCGTCAAGCAACCATGCAATCCTCAATCGATC
Found at i:64499784 original size:27 final size:27
Alignment explanation
Indices: 64499744--64499807 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
64499734 GGCAAAACAA
* * *
64499744 TCATTTTACCCTACAGGGGTATGTCGG
1 TCATTTTACACTACAAGGGTATGTCAG
*
64499771 TCATTTTACACTACAAGGGTATTTCAG
1 TCATTTTACACTACAAGGGTATGTCAG
*
64499798 TAATTTTACA
1 TCATTTTACA
64499808 AATCGAGAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
TCATTTTACACTACAAGGGTATGTCAG
Found at i:64499819 original size:27 final size:27
Alignment explanation
Indices: 64499786--64500311 Score: 557
Period size: 27 Copynumber: 19.7 Consensus size: 27
64499776 TTACACTACA
64499786 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
64499813 AGAGTATTTTTTGTAATTTTACAAATCG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
* * * *
64499841 AGGGTGTTTCGGTAATTTTACGAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
64499868 AGGGTATTTCAGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
64499895 AGAGTATTTTTGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
64499922 AGGGTATTTTAGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
64499948 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
64499975 AGGATATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
64500002 AGGATATTTTAGAAATTTTAC-ATTCG
1 AGGGTATTTCAGTAATTTTACAAATCG
** *
64500028 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
64500055 AGGGTATTTC-GATAATTTCAC-AATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* **
64500081 AGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
64500108 AGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
64500134 AGGGTATTTTAGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
64500161 AGAGTATTTCGGTAATTTTAAAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
64500188 ATGATATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
64500214 AGGGTATTTC-GATAATTTTACAGATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
*
64500241 AGGGTATTTTAGTAATTTCT-C-AATCG
1 AGGGTATTTCAGTAATTT-TACAAATCG
*
64500267 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
64500294 GGGGTATTTTGGTAATTT
1 AGGGTATTTCAGTAATTT
64500312 CTCTTTATTA
Statistics
Matches: 414, Mismatches: 72, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
25 2 0.00
26 131 0.32
27 256 0.62
28 25 0.06
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:64499990 original size:80 final size:80
Alignment explanation
Indices: 64499786--64500311 Score: 628
Period size: 80 Copynumber: 6.6 Consensus size: 80
64499776 TTACACTACA
* * * *
64499786 AGGGTATTTCAGTAATTTTACAAATCGAGAGTATTTTTTGTAATTTTACAAATCGAGGGTGTTTC
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTA-TTTTGGTAATTTTACAAATCGAGGGTATTTT
* *
64499851 GGTAATTTTACGAATCA
65 AGTAATTTTAC-AATCG
* * *
64499868 AGGGTATTTCAGTAATTTTACAAATTGAGAGTATTTTTGTAATTTTACAAATCGAGGGTATTTTA
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTA
*
64499933 GTAATTTCACAATCG
66 GTAATTTTACAATCG
* * *
64499948 AGGGTATTTCAATAATTTTACAAATCGAGGATATTTTGGTAATTTTACAAATCGAGGATATTTTA
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTA
* *
64500013 GAAATTTTACATTCG
66 GTAATTTTACAATCG
** * * * * * *
64500028 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCAC-AATCGAGGGTGTTTTG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTA
64500092 GTAATTTTACAAATCG
66 GTAATTTTAC-AATCG
* * * * **
64500108 AGGGTATTTCAGTAATTTCAC-AATCGAGGGTATTTTAGTAATTTTACAAATCAAGAGTATTTCG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTA
* *
64500172 GTAATTTTAAAAATTG
66 GTAATTTT-ACAATCG
* * * * * *
64500188 ATGATATTTCAGTAATTTCAC-AATCGAGGGTATTTCGATAATTTTACAGATCGAGGGTATTTTA
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTA
64500252 GTAATTTCT-CAATCG
66 GTAATTT-TACAATCG
* *
64500267 AGGGTATTTCGGTAATTTTACAAATCGGGGGTATTTTGGTAATTT
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGGTAATTT
64500312 CTCTTTATTA
Statistics
Matches: 378, Mismatches: 61, Indels: 12
0.84 0.14 0.03
Matches are distributed among these distances:
79 64 0.17
80 242 0.64
81 40 0.11
82 32 0.08
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (80 bp):
AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTA
GTAATTTTACAATCG
Found at i:64500314 original size:53 final size:54
Alignment explanation
Indices: 64499786--64500311 Score: 616
Period size: 53 Copynumber: 9.8 Consensus size: 54
64499776 TTACACTACA
* * *
64499786 AGGGTATTTCAGTAATTTTACAAATCGAGAGTATTTTTTGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTA-TTTTAGTAATTTTACAAATCG
* * * * *
64499841 AGGGTGTTTCGGTAATTTTACGAATCAAGGGTATTTCAGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCG
* ** *
64499895 AGAGTATTTTTGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCG
** * *
64499948 AGGGTATTTCAATAATTTTACAAATCGAGGATATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCG
* ** * * * *
64500002 AGGATATTTTAGAAATTTTAC-ATTCGAGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCG
* * * *
64500055 AGGGTATTTCGATAATTTCAC-AATCGAGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCG
* * *
64500108 AGGGTATTTCAGTAATTTCAC-AATCGAGGGTATTTTAGTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCG
* * * * * * *
64500161 AGAGTATTTCGGTAATTTTAAAAATTGATGATATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCG
* *
64500214 AGGGTATTTCGATAATTTTACAGATCGAGGGTATTTTAGTAATTTCT-C-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTT-TACAAATCG
* *
64500267 AGGGTATTTCGGTAATTTTACAAATCGGGGGTATTTTGGTAATTT
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTT
64500312 CTCTTTATTA
Statistics
Matches: 400, Mismatches: 68, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
53 271 0.68
54 101 0.25
55 28 0.07
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCG
Found at i:64500655 original size:28 final size:28
Alignment explanation
Indices: 64500619--64500682 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
64500609 TGGCCGCTGT
* *
64500619 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
64500647 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
64500675 AGGCCCAA
1 AGGCCCAA
64500683 CTACTTCCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.27, C:0.38, G:0.17, T:0.19
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:64505237 original size:27 final size:27
Alignment explanation
Indices: 64505207--64505273 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
64505197 AAGGGCAAAA
*
64505207 TAGTCATTTTACACTACAAGGGTATTT
1 TAGTAATTTTACACTACAAGGGTATTT
*
64505234 TAGTAATTTTACACTATAAGGGTATTT
1 TAGTAATTTTACACTACAAGGGTATTT
64505261 T-GATAATTTTACA
1 TAG-TAATTTTACA
64505274 AATCGATGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 1 0.03
27 36 0.97
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (27 bp):
TAGTAATTTTACACTACAAGGGTATTT
Found at i:64505325 original size:53 final size:54
Alignment explanation
Indices: 64505225--64505694 Score: 485
Period size: 53 Copynumber: 8.8 Consensus size: 54
64505215 TTACACTACA
** * * *
64505225 AGGGTATTTTAGTAATTTTACACTAT-AAGGGTATTT-TGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACA-AATCGAGGGTATTTCAG-TAATTTTACAAATCG
* * ** ** *
64505279 ATGGTATTTCGGTAA-TTTAAAAATTAAGGGTATTTTGGTAATTTTACAAGTCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCG
* * * *
64505332 AGGGTGTTTCGGTAATTTTACAAATCGATGGTATTTCAGTAATTTCAC-AATGG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCG
* * **
64505385 AGGGTATTTCAGTAATTTTGCAAATCGAGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCG
** * * *
64505439 AGGGTATTTCAATAATTTCAC-AATTGAGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCG
* * * *
64505492 AGGGTATTTCGATAA-TGT-CATAATCGAGGGTATTTCAATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACA-AATCGAGGGTATTTCAGTAATTTTACAAATCG
* * * * *
64505545 GGGGTATTTCGGTAATTTTACAAATCAATGGTATTTCAGTAATTTCAC-AATCA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCG
* *
64505598 AGGGTATTTCGATAATTTTATAAATCGAGGGTATTTCAGTAATTTCT-C-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTT-TACAAATCG
**
64505651 AGGGTATTTCGGTAATTTTACAAATCG-GGGTATTTTGGTAATTT
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
64505695 CTCTTTATTA
Statistics
Matches: 349, Mismatches: 58, Indels: 20
0.82 0.14 0.05
Matches are distributed among these distances:
51 1 0.00
52 18 0.05
53 244 0.70
54 84 0.24
55 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCG
Found at i:64505336 original size:80 final size:80
Alignment explanation
Indices: 64505225--64505685 Score: 488
Period size: 80 Copynumber: 5.8 Consensus size: 80
64505215 TTACACTACA
* * * * *
64505225 AGGGTATTTTAGTAATTTTACACTAT-AAGGGTATTTTGATAATTTTACAAATCGATGGTATTTC
1 AGGGTATTTCAGTAATTTTACA-AATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTC
** *
64505289 GGTAATTTAAAAATTA
65 AATAATTTAAAAATTG
** * * * *
64505305 AGGGTATTTTGGTAATTTTACAAGTCGAGGGTGTTTCGGTAATTTTACAAATCGATGGTATTTCA
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
* * * *
64505370 GTAATTTCACAATGG
66 ATAATTTAAAAATTG
* * *
64505385 AGGGTATTTCAGTAATTTTGCAAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCA
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
* *
64505450 ATAATTTCACAATTG
66 ATAATTTAAAAATTG
* *
64505465 AGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGATAA-TGT-CATAATCGAGGGTATTTC
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACA-AATCGAGGGTATTTC
*
64505528 AATAATTTTACAAATTG
65 AATAA-TTTAAAAATTG
* * * * * *
64505545 GGGGTATTTCGGTAATTTTACAAATCAATGGTATTTC-AGTAATTTCAC-AATCAAGGGTATTTC
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTC
* * *
64505608 GATAATTTTATAAATCG
65 AATAA-TTTAAAAATTG
*
64505625 AGGGTATTTCAGTAATTTCT-C-AATCGAGGGTATTTCGGTAATTTTACAAATCG-GGGTATTT
1 AGGGTATTTCAGTAATTT-TACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTT
64505686 TGGTAATTTC
Statistics
Matches: 325, Mismatches: 47, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
78 2 0.01
79 53 0.16
80 267 0.82
81 2 0.01
82 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (80 bp):
AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
ATAATTTAAAAATTG
Found at i:64505409 original size:133 final size:133
Alignment explanation
Indices: 64505225--64505694 Score: 581
Period size: 133 Copynumber: 3.5 Consensus size: 133
64505215 TTACACTACA
* * * * *
64505225 AGGGTATTTTAGTAATTTTACACTAT-AAGGGTATTT-TGATAATTTTACAAATCGATGGTATTT
1 AGGGTATTTCAGTAA-TTT-CACAATCGAGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTT
* * ** * * *
64505288 CGGTAA-TTTAAAAATTAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTGTTTCGGTAATTTTA
63 CGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTCACAA-TCGAGGGTATTTCGATAATTTTA
64505352 CAAATCG
127 CAAATCG
* * * *
64505359 ATGGTATTTCAGTAATTTCACAATGGAGGGTATTTCAGTAATTTTGCAAATCGAGGGTATTTTGG
1 AGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGG
* * * *
64505424 TAATTTTACAAATCGAGGGTATTTCAATAATTTCACAATTGAGGGTATTTCAATAATTTTACAAA
66 TAATTTTACAAATCAAGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCGATAATTTTACAAA
64505489 TCG
131 TCG
* * * * *
64505492 AGGGTATTTC-GATAATGTCATAATCGAGGGTATTTCAATAATTTTACAAATTGGGGGTATTTCG
1 AGGGTATTTCAG-TAATTTCACAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCG
* * *
64505556 GTAATTTTACAAATCAATGGTATTTCAGTAATTTCACAATCAAGGGTATTTCGATAATTTTATAA
65 GTAATTTTACAAATCAAGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCGATAATTTTACAA
64505621 ATCG
130 ATCG
* * *
64505625 AGGGTATTTCAGTAATTTCTCAATCGAGGGTATTTCGGTAATTTTACAAATCG-GGGTATTTTGG
1 AGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGG
64505689 TAATTT
66 TAATTT
64505695 CTCTTTATTA
Statistics
Matches: 289, Mismatches: 42, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
132 22 0.08
133 225 0.78
134 42 0.15
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (133 bp):
AGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGG
TAATTTTACAAATCAAGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCGATAATTTTACAAA
TCG
Found at i:64508379 original size:18 final size:19
Alignment explanation
Indices: 64508339--64508379 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
64508329 TCTAGTTATT
*
64508339 ATTATTATTTTTAAGTTGC
1 ATTATTATTCTTAAGTTGC
*
64508358 -TTATTATTCTTAA-TTTC
1 ATTATTATTCTTAAGTTGC
64508375 ATTAT
1 ATTAT
64508380 GTCTATTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (19 bp):
ATTATTATTCTTAAGTTGC
Found at i:64508455 original size:15 final size:15
Alignment explanation
Indices: 64508437--64508478 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
64508427 CGTTTTTTTT
64508437 TCTTATTATTTTTAA
1 TCTTATTATTTTTAA
** *
64508452 TCTTATTATCATTAG
1 TCTTATTATTTTTAA
64508467 TC-TATTATTTTT
1 TCTTATTATTTTT
64508479 TATTACCTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.64
Consensus pattern (15 bp):
TCTTATTATTTTTAA
Found at i:64510449 original size:40 final size:40
Alignment explanation
Indices: 64510359--64510619 Score: 280
Period size: 40 Copynumber: 6.5 Consensus size: 40
64510349 CTCAAGAAAT
* * * *
64510359 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
64510397 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
64510437 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
64510477 CTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
64510517 CTTCGGGTCTTAGCCCAGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
64510557 CTTC-GGATCTTAGTCTGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
64510598 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
64510620 CATTCGAATA
Statistics
Matches: 186, Mismatches: 29, Indels: 13
0.82 0.13 0.06
Matches are distributed among these distances:
38 11 0.06
39 18 0.10
40 128 0.69
41 26 0.14
42 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:64510490 original size:80 final size:80
Alignment explanation
Indices: 64510359--64510619 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
64510349 CTCAAGAAAT
* * * * * *
64510359 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
64510422 CACTAGCACAGATGC
66 CACTAGCACAAATGC
* *
64510437 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
64510501 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * * * *
64510517 CTTCGGGTCTTAGCCCAGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCTGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
64510582 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
64510598 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
64510620 CATTCGAATA
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 95 0.61
81 32 0.21
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:64518626 original size:40 final size:40
Alignment explanation
Indices: 64518533--64518756 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
64518523 CTTGCACAAG
*
64518533 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCAC-AAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
64518572 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
64518612 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
64518652 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
64518692 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
64518733 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
64518757 CATTCGAATA
Statistics
Matches: 162, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.21
40 99 0.61
41 29 0.18
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:64518626 original size:79 final size:80
Alignment explanation
Indices: 64518497--64518756 Score: 330
Period size: 80 Copynumber: 3.3 Consensus size: 80
64518487 CTCAAGAAAT
* * * * * *
64518497 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
64518560 CACTAGCAC-AATGC
66 CACTAGCACAAATGC
* *
64518574 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
64518638 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
64518654 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
64518719 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
64518735 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
64518757 CATTCGAATA
Statistics
Matches: 158, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
77 12 0.08
78 15 0.09
79 37 0.23
80 61 0.39
81 33 0.21
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:64519403 original size:38 final size:38
Alignment explanation
Indices: 64519352--64519438 Score: 174
Period size: 38 Copynumber: 2.3 Consensus size: 38
64519342 TGCTTACCTA
64519352 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
64519390 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
64519428 TGGCCGAACAT
1 TGGCCGAACAT
64519439 GCATGTCTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTTATGTACTCATTCATG
Found at i:64530883 original size:93 final size:93
Alignment explanation
Indices: 64530770--64530940 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
64530760 GCCCATAAGT
* *
64530770 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64530835 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
64530863 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64530928 CGAGTTCGGATGC
66 CGAGTTCGGATGC
64530941 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:64530937 original size:46 final size:46
Alignment explanation
Indices: 64530762--64530937 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
64530752 TGTAACCCGC
* * * *
64530762 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
64530808 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
64530858 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
64530901 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
64530938 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.58
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:64531397 original size:30 final size:29
Alignment explanation
Indices: 64531363--64531419 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
64531353 TTAATACGAA
64531363 CTTTGGAAAAATTACACTTTTGCCCCTAAT
1 CTTT-GAAAAATTACACTTTTGCCCCTAAT
* * *
64531393 CTTTGCATAATTATACTTTTGCCCCTA
1 CTTTGAAAAATTACACTTTTGCCCCTA
64531420 GGCTCGGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.40
Consensus pattern (29 bp):
CTTTGAAAAATTACACTTTTGCCCCTAAT
Found at i:64536861 original size:43 final size:42
Alignment explanation
Indices: 64536745--64536862 Score: 112
Period size: 43 Copynumber: 2.8 Consensus size: 42
64536735 GACTTCTGTT
* * ** *
64536745 TTACATGTAAGACCATGTCTGGGACATCAGCATCGTATCTAA
1 TTACATGTAAGACCATGTTTGGGACGTTGGCATCATATCTAA
** * * *
64536787 TTTTATGTAAGACCTTGTTTGGGATAG-TGGCATCAATATTTAA
1 TTACATGTAAGACCATGTTTGGGA-CGTTGGCATC-ATATCTAA
*
64536830 TTACATGTAAAACCATGTTTGGGACGTTGGCAT
1 TTACATGTAAGACCATGTTTGGGACGTTGGCAT
64536863 TGTATATGTC
Statistics
Matches: 58, Mismatches: 15, Indels: 5
0.74 0.19 0.06
Matches are distributed among these distances:
42 26 0.45
43 32 0.55
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (42 bp):
TTACATGTAAGACCATGTTTGGGACGTTGGCATCATATCTAA
Found at i:64539528 original size:21 final size:20
Alignment explanation
Indices: 64539499--64539538 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
64539489 CTTTCACGGT
*
64539499 AAGTTGGGCCTCAAGGGGCTG
1 AAGTAGGGCC-CAAGGGGCTG
*
64539520 AAGTAGGGCCCAATGGGCT
1 AAGTAGGGCCCAAGGGGCT
64539539 TTCGGGCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.20, G:0.40, T:0.17
Consensus pattern (20 bp):
AAGTAGGGCCCAAGGGGCTG
Found at i:64541719 original size:20 final size:20
Alignment explanation
Indices: 64541694--64541740 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
64541684 ATTTTGATAT
*
64541694 ACATGATTTATATGATATGC
1 ACATGATCTATATGATATGC
*
64541714 ACATGATCTGTATGATATGC
1 ACATGATCTATATGATATGC
64541734 ACATGAT
1 ACATGAT
64541741 GTATTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (20 bp):
ACATGATCTATATGATATGC
Found at i:64541855 original size:23 final size:24
Alignment explanation
Indices: 64541790--64541884 Score: 149
Period size: 24 Copynumber: 4.0 Consensus size: 24
64541780 GAGAAAGTAC
64541790 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
64541814 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
64541838 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
64541861 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
64541885 ATGATAAAGC
Statistics
Matches: 67, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
23 19 0.28
24 40 0.60
25 8 0.12
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:64541881 original size:48 final size:48
Alignment explanation
Indices: 64541790--64541884 Score: 149
Period size: 47 Copynumber: 2.0 Consensus size: 48
64541780 GAGAAAGTAC
*
64541790 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTAGGCCCCAGTTATT
64541838 AAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTAGGCC-CCAGTTAT
64541885 ATGATAAAGC
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 23 0.52
48 21 0.48
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTAGGCCCCAGTTATT
Found at i:64547780 original size:254 final size:254
Alignment explanation
Indices: 64547331--64547838 Score: 1000
Period size: 254 Copynumber: 2.0 Consensus size: 254
64547321 CCACGGTTTA
64547331 TTGGGCCTTTCCGAGTTATTAAGCGGATAGGGCCGGTGGCTTATCAGCTAGAGTTACCTCCAGAG
1 TTGGGCCTTTCCGAGTTATTAAGCGGATAGGGCCGGTGGCTTATCAGCTAGAGTTACCTCCAGAG
64547396 CTAGATCGTATTCACGACGTTTTTCATGTGTCCATGCTAAGGCGATATCATTCTGACCCAACTCA
66 CTAGATCGTATTCACGACGTTTTTCATGTGTCCATGCTAAGGCGATATCATTCTGACCCAACTCA
64547461 TATCGTGCCAGTTGTAGAAATCGAAATACGGTCGGATTTGACTTTGAAGAGGAACCTATGCAAAT
131 TATCGTGCCAGTTGTAGAAATCGAAATACGGTCGGATTTGACTTTGAAGAGGAACCTATGCAAAT
64547526 ACTTGATCGCGATGTCAAGGTGTTGAGAAGGAGGTCAGTCCCATTAGTGAAGGTACTTT
196 ACTTGATCGCGATGTCAAGGTGTTGAGAAGGAGGTCAGTCCCATTAGTGAAGGTACTTT
64547585 TTGGGCCTTTCCGAGTTATTAAGCGGATAGGGCCGGTGGCTTATCAGCTAGAGTTACCTCCAGAG
1 TTGGGCCTTTCCGAGTTATTAAGCGGATAGGGCCGGTGGCTTATCAGCTAGAGTTACCTCCAGAG
64547650 CT-GATCGTATTCACGACGTTTTTCATGTGTCCATGCTAAGGCGATATCATTCTGACCCAACTCA
66 CTAGATCGTATTCACGACGTTTTTCATGTGTCCATGCTAAGGCGATATCATTCTGACCCAACTCA
64547714 TATCGTGCCAGTTGTAGAAATCGAAATACGGTCGGATTTGACTTTTGAAGAGGAACCTATGCAAA
131 TATCGTGCCAGTTGTAGAAATCGAAATACGGTCGGATTTGAC-TTTGAAGAGGAACCTATGCAAA
64547779 TACTTGATCGCGATGTCAAGGTGTTGAGAAGGAGGTCAGTCCCATTAGTGAAGGTACTTT
195 TACTTGATCGCGATGTCAAGGTGTTGAGAAGGAGGTCAGTCCCATTAGTGAAGGTACTTT
64547839 GGAGGAACCA
Statistics
Matches: 253, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
253 104 0.41
254 149 0.59
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (254 bp):
TTGGGCCTTTCCGAGTTATTAAGCGGATAGGGCCGGTGGCTTATCAGCTAGAGTTACCTCCAGAG
CTAGATCGTATTCACGACGTTTTTCATGTGTCCATGCTAAGGCGATATCATTCTGACCCAACTCA
TATCGTGCCAGTTGTAGAAATCGAAATACGGTCGGATTTGACTTTGAAGAGGAACCTATGCAAAT
ACTTGATCGCGATGTCAAGGTGTTGAGAAGGAGGTCAGTCCCATTAGTGAAGGTACTTT
Found at i:64555667 original size:46 final size:46
Alignment explanation
Indices: 64555617--64555789 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
64555607 TGGTTGAGCA
64555617 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
64555663 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
64555708 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
64555756 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
64555790 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:64555773 original size:93 final size:93
Alignment explanation
Indices: 64555614--64555784 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
64555604 GGATGGTTGA
* *
64555614 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
64555679 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
64555707 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
64555772 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
64555785 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:64569961 original size:34 final size:34
Alignment explanation
Indices: 64569888--64569974 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
64569878 TATACTGAAT
* *
64569888 TGGGCTAAGGCCCACACTGATACTGTTATCGTAA
1 TGGGCTAAGGCCCACACTGATAATGCTATCGTAA
64569922 TGGGCTAAGGCCCACACTGATAATGCTA-CTGTTAA
1 TGGGCTAAGGCCCACACTGATAATGCTATC-G-TAA
* *
64569957 -GGGCTTAGGCCCAGACTG
1 TGGGCTAAGGCCCACACTG
64569975 TTTGCACTGC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
33 1 0.02
34 43 0.91
35 3 0.06
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTGATAATGCTATCGTAA
Found at i:64573130 original size:43 final size:42
Alignment explanation
Indices: 64573082--64573232 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 42
64573072 TATCCTAGAT
* * *
64573082 ATGGTCTTACATGTTATCACATATCGATGCCGATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCA-AC
* * * *
64573125 ATGGTCCTACACGAAATCATATAAT-GATGCCAATGCCCCTAAC
1 ATGGTCTTACACGTAATCACAT-ATCGATGCCAATGTCCC-AAC
* * *
64573168 ATGGTATTACACATAATCACA-ATACAATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAATCACATAT-CGATGCCAATGTCCC-AAC
* *
64573211 ATGGTCTTATATGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
64573233 CTCGGTAATC
Statistics
Matches: 84, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
41 2 0.02
43 79 0.94
44 3 0.04
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAC
Found at i:64584749 original size:47 final size:46
Alignment explanation
Indices: 64584549--64584913 Score: 208
Period size: 47 Copynumber: 7.8 Consensus size: 46
64584539 TGGGATATAT
** * *
64584549 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGTGCTCATATACGCG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTA--TG
** * * * *
64584599 TGATGATACATGTCCTAGACATGTCTTACACTAGCAC-AACTCT-T-
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCA-TCTATG
* * ** ** *
64584643 AGCTGATGTGTGTCCCAGACACATCTTACACTGGCTA-TC-TCTGTCG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCTAT-G
* *
64584689 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG
1 -TGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTATG
* * * *
64584736 TGCCGGTGCCATGTCCCAGACATGGTCATACACTAGCTA-TCATAGTAT-
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCAT-CTATG
* * * *
64584784 TGCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTA-G
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTATG
* * * * *
64584829 ATGCCGATGCCATGCCCCAGACATGGTCGTACATTGGCTCTCAT-AATG
1 -TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTATG
* * *
64584877 TGGCCGAAGCATGTTCCAGACACGTCTTACACTGGCA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGCA
64584914 TAGAAATCAC
Statistics
Matches: 241, Mismatches: 54, Indels: 44
0.71 0.16 0.13
Matches are distributed among these distances:
43 3 0.01
44 27 0.11
45 3 0.01
46 40 0.17
47 87 0.36
48 60 0.25
49 16 0.07
50 5 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTATG
Found at i:64584795 original size:94 final size:94
Alignment explanation
Indices: 64584690--64584913 Score: 279
Period size: 94 Copynumber: 2.4 Consensus size: 94
64584680 TCTCTGTCGA
* * *
64584690 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG-TGCCGGTGCCATGTCCCA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCT-AGATGCCGATGCCATGCCCCA
*
64584754 GACATGGTCATACACTAGCTATCATAGTAT
65 GACATGGTCATACACTAGCTATCATAATAT
* * * * *
64584784 TGCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTAGATGCCGATGCCATGCCCCAG
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTAGATGCCGATGCCATGCCCCAG
* * * * *
64584849 ACATGGTCGTACATTGGCTCTCATAATGT
66 ACATGGTCATACACTAGCTATCATAATAT
* * *
64584878 GGCCGAAGCATGTTCCAGACACGTCTTACACTGGCA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCA
64584914 TAGAAATCAC
Statistics
Matches: 108, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
93 1 0.01
94 107 0.99
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (94 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTAGATGCCGATGCCATGCCCCAG
ACATGGTCATACACTAGCTATCATAATAT
Found at i:64590733 original size:24 final size:24
Alignment explanation
Indices: 64590701--64590750 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
64590691 TCACTCTCTA
64590701 GCGCAGTCCCTTCTACGGAAACTG
1 GCGCAGTCCCTTCTACGGAAACTG
**
64590725 GCGCAGTCCCTTCTGTGGAAACTG
1 GCGCAGTCCCTTCTACGGAAACTG
64590749 GC
1 GC
64590751 ACATTACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.32, G:0.28, T:0.22
Consensus pattern (24 bp):
GCGCAGTCCCTTCTACGGAAACTG
Found at i:64593983 original size:49 final size:49
Alignment explanation
Indices: 64593927--64594484 Score: 902
Period size: 49 Copynumber: 11.6 Consensus size: 49
64593917 TATTTGAATA
*
64593927 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
64593976 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
64594025 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
64594072 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
64594121 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
64594170 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
64594219 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
64594268 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
64594317 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
64594364 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
64594411 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
64594458 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
64594485 TCCCGAAGGG
Statistics
Matches: 489, Mismatches: 16, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
47 186 0.38
48 1 0.00
49 302 0.62
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:64596826 original size:94 final size:94
Alignment explanation
Indices: 64596578--64596944 Score: 322
Period size: 94 Copynumber: 3.9 Consensus size: 94
64596568 ATGGGATATA
* * *
64596578 TTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-TACGGGTGCTGATGCATGT
1 TTGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAGTA--TG-GCCGATGCATGT
* *
64596642 CCTAGACATATCTTACACTAGCAC-AA-CTCT
63 CCCAGACATGTCTTACACTAGCACTAATCTCT
* * * * * *
64596672 TAGCCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTC-T-GTCGA-GGCCGATACATG
1 TTGCTGATGCCATGTCCCAGACATGGTCTTACACTAGC--TCTCATAGT--ATGGCCGATGCATG
*
64596732 TCCCAGACATGTCTTACACTGGCACTAATCTCT
62 TCCCAGACATGTCTTACACTAGCACTAATCTCT
* * * *
64596765 TTGCTGGTGCCATGTCCCAGACATGGTCTTACACTGGCTAC-CATAGTATGACTGATGCATGTCC
1 TTGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CTCATAGTATGGCCGATGCATGTCC
* ** **
64596829 CAGACATGTCTTACACTAGCCCTCGTCTGG
65 CAGACATGTCTTACACTAGCACTAATCTCT
* * * * * *
64596859 ATG-TCGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGAAGCATGTTC
1 TTGCT-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAGTATGGCCGATGCATGTCC
* *
64596923 CAGACACGTCTTACACTGGCAC
65 CAGACATGTCTTACACTAGCAC
64596945 AGAAATCACC
Statistics
Matches: 222, Mismatches: 36, Indels: 30
0.77 0.12 0.10
Matches are distributed among these distances:
91 31 0.14
92 15 0.07
93 29 0.13
94 131 0.59
95 16 0.07
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (94 bp):
TTGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAGTATGGCCGATGCATGTCCC
AGACATGTCTTACACTAGCACTAATCTCT
Found at i:64596926 original size:47 final size:47
Alignment explanation
Indices: 64596580--64596939 Score: 181
Period size: 47 Copynumber: 7.7 Consensus size: 47
64596570 GGGATATATT
* *
64596580 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATACGGG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATA-ATGTG
* * * * * * *
64596629 TGCTGATGCATGTCCTAGACAT-ATCTTACACTAG--CACA-ACTCTTA
1 -GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTG
* * * * *
64596674 GCCGATGCGTGTCCCAGACA-CGTCTTACACTGGCTATCTC-T-GTCGAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGC--TCTCATAAT-GTG
* * * * * * *
64596721 GCCGATACATGTCCCAGACAT-GTCTTACACTGGCACTAAT-CTCTTT
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTG
* * * * *
64596767 GCTGGTGCCATGTCCCAGACATGGTCTTACACTGGCTAC-CATAGTATG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCT-CTCATAATGTG
* * * * *
64596815 ACTGATGCATGTCCCAGACAT-GTCTTACACTAGCCCTCGT-CTG-G
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTG
* *
64596859 ATGTCGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATAATGTG
1 --GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTG
* * *
64596909 GCCGAAGCATGTTCCAGACA-CGTCTTACACT
1 GCCGATGCATGTCCCAGACATGGTCTTACACT
64596940 GGCACAGAAA
Statistics
Matches: 236, Mismatches: 54, Indels: 44
0.71 0.16 0.13
Matches are distributed among these distances:
44 28 0.12
45 5 0.02
46 38 0.16
47 85 0.36
48 56 0.24
49 17 0.07
50 7 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTG
Found at i:64604881 original size:23 final size:23
Alignment explanation
Indices: 64604838--64604881 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
64604828 TGATGTATAA
*
64604838 TTGAATTGATATTGCATGAATTT
1 TTGAATTGATATTGCAAGAATTT
*
64604861 TTGAATTG-TGATTGTAAGAAT
1 TTGAATTGAT-ATTGCAAGAAT
64604882 GCATATCGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (23 bp):
TTGAATTGATATTGCAAGAATTT
Found at i:64606516 original size:20 final size:21
Alignment explanation
Indices: 64606477--64606516 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
64606467 GTCATAATAG
64606477 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
64606498 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
64606517 GCTTCAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.10, C:0.40, G:0.30, T:0.20
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:64609782 original size:45 final size:43
Alignment explanation
Indices: 64609731--64609900 Score: 143
Period size: 45 Copynumber: 3.9 Consensus size: 43
64609721 ATAGGTTCCA
*
64609731 ATATGTGTTCTTGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
1 ATATGTGAT-TTGTGTAAGACCATGTCTGGGACGTTGGCATC-AT
* * * * * *
64609776 ATATGTGGTTAAGTGTAAAACCATGTCTGGGACATCGGCGTCAT
1 ATATGTGATT-TGTGTAAGACCATGTCTGGGACGTTGGCATCAT
* *
64609820 AT-T-TGATTTGTGTAAGACCCTGTCTGGGGCAG-TGGCATCA-
1 ATATGTGATTTGTGTAAGACCATGTCTGGGAC-GTTGGCATCAT
* * *
64609860 ATATGAGA-TAGCATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTGATTTG--TGTAAGACCATGTCTGGGACGTTGGCAT
64609901 TGTTCGATAT
Statistics
Matches: 99, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
40 2 0.02
41 27 0.27
42 7 0.07
43 24 0.24
44 5 0.05
45 34 0.34
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (43 bp):
ATATGTGATTTGTGTAAGACCATGTCTGGGACGTTGGCATCAT
Found at i:64612996 original size:20 final size:22
Alignment explanation
Indices: 64612956--64613005 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
64612946 TGAATTATGG
*
64612956 GTTTTTATTTATGATTTTTTAA
1 GTTTTTATTTATGAATTTTTAA
64612978 GTTTTT-TTT-TGAATTTTTATA
1 GTTTTTATTTATGAATTTTTA-A
*
64612999 ATTTTTA
1 GTTTTTA
64613006 GATTTATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 9 0.38
21 9 0.38
22 6 0.25
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (22 bp):
GTTTTTATTTATGAATTTTTAA
Found at i:64613981 original size:24 final size:24
Alignment explanation
Indices: 64613931--64613981 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
64613921 ACAAATATAT
* *
64613931 TTTAAAATAATAATAATTAATTGC
1 TTTAAAATAATAACAATTAATGGC
*
64613955 TTTAAAATCAT-ACAATTAATGGTC
1 TTTAAAATAATAACAATTAATGG-C
64613979 TTT
1 TTT
64613982 TTTTCATCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (24 bp):
TTTAAAATAATAACAATTAATGGC
Found at i:64614633 original size:9 final size:9
Alignment explanation
Indices: 64614604--64614701 Score: 72
Period size: 9 Copynumber: 10.3 Consensus size: 9
64614594 AAAATACAAT
64614604 AAATTATTA
1 AAATTATTA
*
64614613 AAGTTATTA
1 AAATTATTA
64614622 AAATTATTA
1 AAATTATTA
*
64614631 AAATTTTTA
1 AAATTATTA
*
64614640 TTAAATTAGTA
1 --AAATTATTA
64614651 AAACTTATTTA
1 AAA-TTA-TTA
64614662 AAA-TATTTA
1 AAATTA-TTA
**
64614671 AAATTAAAA
1 AAATTATTA
64614680 AAATTTATTA
1 AAA-TTATTA
* *
64614690 GAATTCTTA
1 AAATTATTA
64614699 AAA
1 AAA
64614702 AGAATAAAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 12
0.74 0.14 0.13
Matches are distributed among these distances:
9 47 0.67
10 11 0.16
11 12 0.17
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (9 bp):
AAATTATTA
Found at i:64614641 original size:30 final size:31
Alignment explanation
Indices: 64614607--64614670 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
64614597 ATACAATAAA
* *
64614607 TTATTAAAGTTATTAAAA-TTA-TTAAAATTT
1 TTATTAAA-TTAGTAAAACTTATTTAAAATAT
64614637 TTATTAAATTAGTAAAACTTATTTAAAATAT
1 TTATTAAATTAGTAAAACTTATTTAAAATAT
64614668 TTA
1 TTA
64614671 AAATTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 8 0.27
30 11 0.37
31 11 0.37
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (31 bp):
TTATTAAATTAGTAAAACTTATTTAAAATAT
Found at i:64614734 original size:9 final size:9
Alignment explanation
Indices: 64614720--64614771 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
64614710 AATTGCAAAG
64614720 AAAATATAA
1 AAAATATAA
*
64614729 AAAATATTA
1 AAAATATAA
* *
64614738 AAATTCATAT
1 AAAAT-ATAA
*
64614748 AAAATTTAA
1 AAAATATAA
*
64614757 AAATTATAA
1 AAAATATAA
64614766 AAAATA
1 AAAATA
64614772 ATTAAAACTG
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
9 26 0.81
10 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAATATAA
Found at i:64615295 original size:28 final size:29
Alignment explanation
Indices: 64615264--64615322 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
64615254 TTGAAAATAT
* *
64615264 AATAAAAAGTAATTAT-ACTAAAATTAAA
1 AATAAAAAGTAAATATGACTAAAAATAAA
* *
64615292 AATAAAATGTAAATATGATTAAAAATAAA
1 AATAAAAAGTAAATATGACTAAAAATAAA
64615321 AA
1 AA
64615323 AAATATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (29 bp):
AATAAAAAGTAAATATGACTAAAAATAAA
Found at i:64615334 original size:21 final size:22
Alignment explanation
Indices: 64615286--64615328 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
64615276 TTATACTAAA
*
64615286 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAA-GAAAATATG
64615309 ATTAAAAATAAAA-AAAATAT
1 ATTAAAAATAAAAGAAAATAT
64615329 ATTTAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
23 13 0.68
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (22 bp):
ATTAAAAATAAAAGAAAATATG
Found at i:64615614 original size:15 final size:16
Alignment explanation
Indices: 64615580--64615619 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
64615570 CAGTTCAATT
* *
64615580 AAATAAAACTTTTAAA
1 AAATAAAAATATTAAA
64615596 AAATAAAAATATT-AA
1 AAATAAAAATATTAAA
64615611 AAATAAAAA
1 AAATAAAAA
64615620 AATTTGATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATAAAAATATTAAA
Found at i:64615748 original size:10 final size:9
Alignment explanation
Indices: 64615735--64616021 Score: 74
Period size: 10 Copynumber: 30.7 Consensus size: 9
64615725 CCAATTCAAG
64615735 TTTTTATGAT
1 TTTTTAT-AT
64615745 TTTTT-TAT
1 TTTTTATAT
64615753 ATTTTTATAAT
1 -TTTTTAT-AT
* *
64615764 TTTATATCAA
1 TTTTTAT-AT
*
64615774 TTTTAATAT
1 TTTTTATAT
64615783 TTTTATATAT
1 TTTT-TATAT
64615793 TTTTTATAAT
1 TTTTTAT-AT
64615803 TTTTTGAT-T
1 TTTTT-ATAT
* *
64615812 TTTTATAGAA
1 TTTT-TATAT
*
64615822 TTTTAATAT
1 TTTTTATAT
*
64615831 GTTTTTATAAAAA
1 -TTTTTAT---AT
**
64615844 TTTAAATAT
1 TTTTTATAT
**
64615853 TTTAAATAT
1 TTTTTATAT
64615862 GTTTTGT-TA-
1 -TTTT-TATAT
*
64615871 ATTTTATAT
1 TTTTTATAT
64615880 ATTTTTATAAT
1 -TTTTTAT-AT
* * *
64615891 TTATTAGAA
1 TTTTTATAT
*
64615900 TTTTAATAT
1 TTTTTATAT
64615909 TTTTT-TAAT
1 TTTTTAT-AT
64615918 TTTTTA-AT
1 TTTTTATAT
*
64615926 TTTTT-TAA
1 TTTTTATAT
* *
64615934 ATTTTA-AG
1 TTTTTATAT
* *
64615942 TTTATATCAA
1 TTTTTAT-AT
64615952 TTTTTATAT
1 TTTTTATAT
*
64615961 TTTCTCATA-
1 TTT-TTATAT
*
64615970 -TTTAATAT
1 TTTTTATAT
64615978 TTTTTATAT
1 TTTTTATAT
64615987 TTTTCTA-AT
1 TTTT-TATAT
*
64615996 TTTTGATAAT
1 TTTTTAT-AT
*
64616006 TTATTATGAT
1 TTTTTAT-AT
64616016 TTTTTA
1 TTTTTA
64616022 AACATTTTAA
Statistics
Matches: 202, Mismatches: 45, Indels: 60
0.66 0.15 0.20
Matches are distributed among these distances:
7 5 0.02
8 28 0.14
9 70 0.35
10 87 0.43
11 6 0.03
12 5 0.02
13 1 0.00
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTTATAT
Found at i:64615766 original size:18 final size:18
Alignment explanation
Indices: 64615735--64616021 Score: 93
Period size: 19 Copynumber: 15.9 Consensus size: 18
64615725 CCAATTCAAG
*
64615735 TTTTTATGATTTTTTTATA
1 TTTTTAT-AATTTTTTATA
*
64615754 TTTTTATAATTTTATATCA
1 TTTTTATAATTTTTTAT-A
*
64615773 ATTTTA-ATATTTTTATATA
1 TTTTTATA-ATTTTT-TATA
64615792 TTTTTTATAATTTTTTGAT-
1 -TTTTTATAATTTTTT-ATA
* *
64615811 TTTTTATAGAATTTTAATATG
1 TTTTTAT--AATTTT-TTATA
*** *
64615832 TTTTTATAAAAATTTAAA
1 TTTTTATAATTTTTTATA
*
64615850 TATTTTA-AA-----TATG
1 T-TTTTATAATTTTTTATA
*
64615863 TTTTGT-TAATTTTATATA
1 TTTT-TATAATTTTTTATA
* *
64615881 TTTTTATAATTTATTAGAA
1 TTTTTATAATTTTTTA-TA
* *
64615900 TTTTAATATTTTTTTA-A
1 TTTTTATAATTTTTTATA
64615917 TTTTT-TAATTTTTT-TA
1 TTTTTATAATTTTTTATA
** * *
64615933 AATTT-TAAGTTTATATCAA
1 TTTTTATAATTTTTTAT--A
*
64615952 TTTTTAT-ATTTTCTCATA
1 TTTTTATAATTTT-TTATA
*
64615970 -TTTAAT-ATTTTTTATA
1 TTTTTATAATTTTTTATA
* *
64615986 TTTTTCTAATTTTTGATAA
1 TTTTTATAATTTTTTAT-A
*
64616005 TTTATTATGATTTTTTA
1 TTT-TTATAATTTTTTA
64616022 AACATTTTAA
Statistics
Matches: 198, Mismatches: 40, Indels: 59
0.67 0.13 0.20
Matches are distributed among these distances:
12 3 0.02
13 6 0.03
16 23 0.12
17 21 0.11
18 45 0.23
19 54 0.27
20 37 0.19
21 9 0.05
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTTTATAATTTTTTATA
Found at i:64615776 original size:20 final size:19
Alignment explanation
Indices: 64615735--64616007 Score: 75
Period size: 17 Copynumber: 14.6 Consensus size: 19
64615725 CCAATTCAAG
* *
64615735 TTTTTATGATTTT-TTTATA
1 TTTTTATAATTTTATATA-A
64615754 TTTTTATAATTTTATATCAA
1 TTTTTATAATTTTATAT-AA
* * *
64615774 TTTTAATATTTTTATATAT
1 TTTTTATAATTTTATATAA
*
64615793 TTTTTATAATTTT-T-TGAT
1 TTTTTATAATTTTATAT-AA
*
64615811 TTTTTATAGAATTTTA-ATATG
1 TTTTTAT--AATTTTATATA-A
* *
64615832 TTTTTATAAAAATTTAAAT-A
1 TTTTTAT--AATTTTATATAA
* * *
64615852 TTTTAAATATGTTTTGT-TAA
1 TTTT-TATA-ATTTTATATAA
64615872 -TTTTATATATTTT-TATAA
1 TTTTTATA-ATTTTATATAA
*
64615890 TTTATTAGAATTTTA-AT-A
1 TTT-TTATAATTTTATATAA
*
64615908 TTTTTTTAATTTT-T-TAA
1 TTTTTATAATTTTATATAA
* * *
64615925 TTTTTTTAAATTT-TA-AG
1 TTTTTATAATTTTATATAA
*
64615942 TTTATATCAATTTT-TAT-A
1 TTTTTAT-AATTTTATATAA
*
64615960 TTTTCTCAT-A-TTTA-ATAT
1 TTTT-T-ATAATTTTATATAA
*
64615978 TTTTTAT-ATTTT-TCTAA
1 TTTTTATAATTTTATATAA
64615995 TTTTTGATAATTT
1 TTTTT-ATAATTT
64616008 ATTATGATTT
Statistics
Matches: 194, Mismatches: 31, Indels: 58
0.69 0.11 0.20
Matches are distributed among these distances:
16 4 0.02
17 46 0.24
18 42 0.22
19 43 0.22
20 39 0.20
21 18 0.09
22 2 0.01
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTTATAATTTTATATAA
Found at i:64615782 original size:28 final size:28
Alignment explanation
Indices: 64615746--64615805 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
64615736 TTTTATGATT
*
64615746 TTTTTATATTTTTATA-ATTTTATATCAA
1 TTTTAATATTTTTATATATTTTATAT-AA
*
64615774 TTTTAATATTTTTATATATTTTTTATAA
1 TTTTAATATTTTTATATATTTTATATAA
64615802 TTTT
1 TTTT
64615806 TTGATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTTAATATTTTTATATATTTTATATAA
Found at i:64615845 original size:22 final size:21
Alignment explanation
Indices: 64615811--64615852 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
64615801 ATTTTTTGAT
* *
64615811 TTTTTATAGAATTTTAATATG
1 TTTTTATAAAATTTAAATATG
64615832 TTTTTATAAAAATTTAAATAT
1 TTTTTAT-AAAATTTAAATAT
64615853 TTTAAATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
TTTTTATAAAATTTAAATATG
Found at i:64617915 original size:70 final size:70
Alignment explanation
Indices: 64617787--64617971 Score: 183
Period size: 70 Copynumber: 2.6 Consensus size: 70
64617777 AATTAACGCG
* * * * ** * ** *
64617787 AGCTCAAGCTCTCAGCTGTACTCTTAAGGCTTGTTGATTCAATATTGCGGCTTATAAAATTGTTA
1 AGCTCAAGCTCCCAACTATACTCTTAAGGCTTGTTAATTCAATATCCCAGCCCATAAAATAGTTA
*
64617852 GC-ACG
66 GCGA-A
* * * *
64617857 AGCTTAAGTTCCCAACTATACTCTTAAGGCTCGTTAATTCAATATCCCAGCCCCTAAAATAGTTA
1 AGCTCAAGCTCCCAACTATACTCTTAAGGCTTGTTAATTCAATATCCCAGCCCATAAAATAGTTA
64617922 GCGAA
66 GCGAA
* * * *
64617927 AGCTCAAGCTGCCAACTATACACTTCAGGCTTGCTAATTCAATAT
1 AGCTCAAGCTCCCAACTATACTCTTAAGGCTTGTTAATTCAATAT
64617972 TACGGCCTCC
Statistics
Matches: 92, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
70 91 0.99
71 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (70 bp):
AGCTCAAGCTCCCAACTATACTCTTAAGGCTTGTTAATTCAATATCCCAGCCCATAAAATAGTTA
GCGAA
Found at i:64628268 original size:40 final size:40
Alignment explanation
Indices: 64628213--64628501 Score: 335
Period size: 40 Copynumber: 7.1 Consensus size: 40
64628203 TATTCGGATG
* *
64628213 ATATCCGGGCTAAGTCCAGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
64628253 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
64628293 ATATCCGGGCGAAGTCCCGAAGGTATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * * *
64628336 ATACCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
64628376 ATATCCGGGCAAAGTCCCAAAGGCATTTGTGTGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TT-TGTGCG-AGTTACT
* * *
64628419 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
64628459 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
64628499 ATA
1 ATA
64628502 CCCAGCTAAA
Statistics
Matches: 206, Mismatches: 37, Indels: 12
0.81 0.15 0.05
Matches are distributed among these distances:
40 134 0.65
41 6 0.03
42 6 0.03
43 60 0.29
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:64628368 original size:83 final size:82
Alignment explanation
Indices: 64628213--64628504 Score: 448
Period size: 83 Copynumber: 3.6 Consensus size: 82
64628203 TATTCGGATG
* * *
64628213 ATATCCGGGCTAAGTCCAGAAGGCATTTGTGC--GAGTTCCTATATCCGGGCTAAGTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTTGCTATACCCGGGCTAAGTCCCGAAGG
64628276 CATTTGTGCTAGTGACT
66 CATTTGTGCTAGTGACT
* * *
64628293 ATATCCGGGCGAAGTCCCGAAGGTATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCTCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-AGTTGCTATACCCGGGCTAAGTCCCGAAG
64628358 GCATTTGTGCTAGTGACT
65 GCATTTGTGCTAGTGACT
* * *
64628376 ATATCCGGGCAAAGTCCCAAAGGCATTTGTGTGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-AGTTGCTATACCCGGGCTAAGTCCCGAAG
64628441 GCATTTGTGCTAGTGACT
65 GCATTTGTGCTAGTGACT
*
64628459 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-A-TTGCTATACCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTTGCTATACCC
64628505 AGCTAAATCC
Statistics
Matches: 194, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
80 40 0.21
81 1 0.01
82 1 0.01
83 152 0.78
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (82 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTTGCTATACCCGGGCTAAGTCCCGAAGG
CATTTGTGCTAGTGACT
Found at i:64628501 original size:123 final size:121
Alignment explanation
Indices: 64628213--64628501 Score: 352
Period size: 123 Copynumber: 2.4 Consensus size: 121
64628203 TATTCGGATG
* * * * *
64628213 ATATCCGGGCTAAGTCCAGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTGCTATATCCGGGCAAAGTCCCAAAGGCA
* *
64628278 TTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGTATTTGTGCGAGTAGTTGCT
66 TTTGTGCTAGTGACTATACCCGGGCGAAGTCCCGAAGGCATTTGTGC--GTAGTTGCT
* * * *
64628336 ATACCCGGGCTAAGTCTCGAAGGCATTTGTGC-TAGTGACTATATCCGGGCAAAGTCCCAAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTG-CTATATCCGGGCAAAGTCCCAAAGGC
* *
64628400 ATTTGTG-TGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAG-TGACT
65 ATTTGTGCT-AGT-G--ACTATACCCGGGCGAAGTCCCGAAGGCATTTGTGCGTAGTTG-CT
*
64628459 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTGCTATA
64628502 CCCAGCTAAA
Statistics
Matches: 141, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
122 4 0.03
123 102 0.72
124 4 0.03
126 31 0.22
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (121 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTGCTATATCCGGGCAAAGTCCCAAAGGCA
TTTGTGCTAGTGACTATACCCGGGCGAAGTCCCGAAGGCATTTGTGCGTAGTTGCT
Found at i:64637404 original size:27 final size:28
Alignment explanation
Indices: 64637366--64637432 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
64637356 TAGATGTGCT
*
64637366 ATTATACCCCTATG-ATGCAAAATTACC
1 ATTATACCCCTATGTATGCAAAATGACC
*
64637393 ATTATACCCCTATGTTTGCAAAATGACC
1 ATTATACCCCTATGTATGCAAAATGACC
*
64637421 TTTATACCCCTA
1 ATTATACCCCTA
64637433 GGGTTAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 14 0.39
28 22 0.61
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (28 bp):
ATTATACCCCTATGTATGCAAAATGACC
Found at i:64637638 original size:29 final size:28
Alignment explanation
Indices: 64637537--64637627 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
64637527 AGGAAGCGTC
*
64637537 CTGGTGGCTA-TGACACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
64637565 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
64637593 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
64637622 CTGGTG
1 CTGGTG
64637628 ACTCTGTCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
28 50 0.88
29 7 0.12
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:64637652 original size:56 final size:55
Alignment explanation
Indices: 64637537--64637652 Score: 128
Period size: 56 Copynumber: 2.1 Consensus size: 55
64637527 AGGAAGCGTC
* *
64637537 CTGGTGGCTATGACACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCTATGACACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTT
* * * *
64637593 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGACACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT-T
64637649 CTGG
1 CTGG
64637653 CAGCCGTGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
55 9 0.18
56 28 0.55
57 14 0.27
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (55 bp):
CTGGTGGCTATGACACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTT
Found at i:64638113 original size:20 final size:20
Alignment explanation
Indices: 64638088--64638128 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
64638078 CTTTTAATTA
* *
64638088 TTTTTATGGTTTTGTTTTAC
1 TTTTTATGATTTTATTTTAC
*
64638108 TTTTTATTATTTTATTTTAC
1 TTTTTATGATTTTATTTTAC
64638128 T
1 T
64638129 ATGATGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (20 bp):
TTTTTATGATTTTATTTTAC
Found at i:64639416 original size:40 final size:40
Alignment explanation
Indices: 64639335--64639605 Score: 315
Period size: 40 Copynumber: 6.7 Consensus size: 40
64639325 TATTCGGATG
* **
64639335 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
64639374 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
64639414 ATATCCGGG-TGAAGT-CCGAAGGCATTTGTG-TGAGTAGTTGCT
1 ATATCCGGGCT-AAGTCCCGAAGGCATTTGTGCT-AGT-G--ACT
*
64639456 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
64639496 ATATCCGGGCGAAGT-CCGAAGGCATTTGTG-TGAGTAGTTTCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGT-G--ACT
64639538 ATA-CTC-GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATC-CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
64639577 ATATCCGGGCTAAGACCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
64639606 CGAATTGCTA
Statistics
Matches: 200, Mismatches: 14, Indels: 35
0.80 0.06 0.14
Matches are distributed among these distances:
38 2 0.01
39 57 0.28
40 72 0.36
41 9 0.05
42 39 0.19
43 20 0.10
44 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:64639482 original size:82 final size:82
Alignment explanation
Indices: 64639335--64639605 Score: 417
Period size: 82 Copynumber: 3.3 Consensus size: 82
64639325 TATTCGGATG
* *
64639335 ATATCCGGGCTAAGTCCGAAGGCA-TT-TGTGCG-AGTTCCTATATCCGGGCTAAGTCCCGAAGG
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGTGAGTAGTTCCTATACCCGGGCTAAGTCCCGAAGG
*
64639397 CATTCGTGCTAGTGACT
66 CATTTGTGCTAGTGACT
*
64639414 ATATCCGGG-TGAAGTCCGAAGGCATTTGTGTGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCT-AAGTCCGAAGGCATTTGTGTGAGTAGTTCCTATACCCGGGCTAAGTCCCGAAG
64639478 GCATTTGTGCTAGTGACT
65 GCATTTGTGCTAGTGACT
* * *
64639496 ATATCCGGGCGAAGTCCGAAGGCATTTGTGTGAGTAGTTTCTATACTC-GGCTAAGTCCCGAAGG
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGTGAGTAGTTCCTATACCCGGGCTAAGTCCCGAAGG
64639560 CATTTGTGCTAGTGACT
66 CATTTGTGCTAGTGACT
*
64639577 ATATCCGGGCTAAGACCCGAAGGCATTTG
1 ATATCCGGGCTAAG-TCCGAAGGCATTTG
64639606 CGAATTGCTA
Statistics
Matches: 177, Mismatches: 9, Indels: 9
0.91 0.05 0.05
Matches are distributed among these distances:
78 1 0.01
79 22 0.12
80 2 0.01
81 51 0.29
82 101 0.57
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (82 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGTGAGTAGTTCCTATACCCGGGCTAAGTCCCGAAGG
CATTTGTGCTAGTGACT
Found at i:64639585 original size:121 final size:121
Alignment explanation
Indices: 64639335--64639605 Score: 324
Period size: 121 Copynumber: 2.2 Consensus size: 121
64639325 TATTCGGATG
** *
64639335 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCGAAGTCCCGAAGGCA
* *
64639399 TTCGTGCTAGTGACTATATCCGGGTGAAGTCCGAAGGCATTTGTGTGAGTAGTTGCT
66 TTCGTGCTAGTGACTATATCCGGCTGAAGTCCGAAGGCATTTGTGTGAGTAG-TACT
* *
64639456 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGT-CCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCGAAGTCCCGAAGGCA
* *
64639520 TTTGTG-TGAGTAGTTTCTATA-CTCGGCT-AAGTCCCGAAGGCATTTGTGCT-AGT-G-ACT
66 TTCGTGCT-AGT-G--ACTATATC-CGGCTGAAGT-CCGAAGGCATTTGTG-TGAGTAGTACT
*
64639577 ATATCCGGGCTAAGACCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
64639606 CGAATTGCTA
Statistics
Matches: 131, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
120 1 0.01
121 60 0.46
122 36 0.27
123 6 0.05
124 27 0.21
125 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (121 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCGAAGTCCCGAAGGCA
TTCGTGCTAGTGACTATATCCGGCTGAAGTCCGAAGGCATTTGTGTGAGTAGTACT
Found at i:64649150 original size:26 final size:28
Alignment explanation
Indices: 64649114--64649179 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
64649104 TAGATGTGCT
*
64649114 ATTATACCCCTATG-ATGC-AAATTACC
1 ATTATACCCCTATGTATGCAAAATGACC
*
64649140 ATTATACCCCTATGTTTGCAAAATGACC
1 ATTATACCCCTATGTATGCAAAATGACC
*
64649168 TTTATACCCCTA
1 ATTATACCCCTA
64649180 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
26 14 0.40
27 3 0.09
28 18 0.51
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (28 bp):
ATTATACCCCTATGTATGCAAAATGACC
Found at i:64649386 original size:29 final size:28
Alignment explanation
Indices: 64649285--64649375 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
64649275 AGGAAGCGTC
*
64649285 CTGGTGGCTA-TGACACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
64649313 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
64649341 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
64649370 CTGGTG
1 CTGGTG
64649376 ACTCTGTCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
28 50 0.88
29 7 0.12
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:64649400 original size:56 final size:55
Alignment explanation
Indices: 64649285--64649400 Score: 128
Period size: 56 Copynumber: 2.1 Consensus size: 55
64649275 AGGAAGCGTC
* *
64649285 CTGGTGGCTATGACACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCTATGACACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTT
* * * *
64649341 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGACACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT-T
64649397 CTGG
1 CTGG
64649401 CAGCCGTGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
55 9 0.18
56 28 0.55
57 14 0.27
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (55 bp):
CTGGTGGCTATGACACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTT
Found at i:64649863 original size:20 final size:20
Alignment explanation
Indices: 64649838--64649878 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
64649828 CTTTTAATTA
* *
64649838 TTTTTATGGTTTTGTTTTAC
1 TTTTTATGATTTTATTTTAC
*
64649858 TTTTTATTATTTTATTTTAC
1 TTTTTATGATTTTATTTTAC
64649878 T
1 T
64649879 ATGATGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (20 bp):
TTTTTATGATTTTATTTTAC
Found at i:64651142 original size:40 final size:40
Alignment explanation
Indices: 64651087--64651394 Score: 361
Period size: 40 Copynumber: 7.6 Consensus size: 40
64651077 TATTCGGATG
*
64651087 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
64651127 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
64651167 ATATCCGGG-TGAAGTCCCGAAGGCATTTGTGTGAGTAGTTGCT
1 ATATCCGGGCT-AAGTCCCGAAGGCA-TT-TGTGCG-AGTTACT
* * *
64651210 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
64651250 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAGTTTCT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TT-TGTGCG-AGTTACT
* *
64651293 ATA-CTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATC-CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
64651333 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
64651373 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
64651395 TACTTGGGTT
Statistics
Matches: 226, Mismatches: 32, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
39 15 0.07
40 131 0.58
41 13 0.06
42 12 0.05
43 54 0.24
44 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:64651335 original size:123 final size:121
Alignment explanation
Indices: 64651091--64651394 Score: 361
Period size: 123 Copynumber: 2.5 Consensus size: 121
64651081 CGGATGATAT
* *
64651091 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGCTATATCCGGGCTAAGTCCCGAAGGCATTCG
*
64651156 TGCTAGTGACTATATCCGGGTGAAGTCCCGAAGGCATTTGTGTGAGTAGTTGCTATAC
65 TGCTAGTGACTATATCCGGGTGAAGTCCCGAAGGCATTTGTGTGAGTAG-TACTATAC
* * *
64651214 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTG-CTATATCCGGGCTAAGTCCCGAAGGCATTCG
* *
64651279 TG-TGAGTAGTTTCTATA-CTCGGGCT-AAGTCCCGAAGGCATTTGTGCT-AGT-G-ACTATAT
65 TGCT-AGT-G--ACTATATC-CGGG-TGAAGTCCCGAAGGCATTTGTG-TGAGTAGTACTATAC
* * *
64651337 CCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATATCC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTGCTATATCCGGGCTAAGTCCCGAAGG
64651395 TACTTGGGTT
Statistics
Matches: 160, Mismatches: 12, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
122 16 0.10
123 104 0.65
124 4 0.03
125 2 0.01
126 32 0.20
127 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGCTATATCCGGGCTAAGTCCCGAAGGCATTCGT
GCTAGTGACTATATCCGGGTGAAGTCCCGAAGGCATTTGTGTGAGTAGTACTATAC
Found at i:64651413 original size:83 final size:82
Alignment explanation
Indices: 64651087--64651394 Score: 450
Period size: 83 Copynumber: 3.8 Consensus size: 82
64651077 TATTCGGATG
*
64651087 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--GAGTTCCTATATCCGGGCTAAGTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
*
64651150 CATTCGTGCTAGTGACT
66 CATTTGTGCTAGTGACT
* *
64651167 ATATCCGGG-TGAAGTCCCGAAGGCATTTGTGTGAGTAGTTGCTATACCCGGGCTAAGTCCCGAA
1 ATATCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAG-AGTTGCTATATCCGGGCTAAGTCCCGAA
64651231 GGCATTTGTGCTAGTGACT
64 GGCATTTGTGCTAGTGACT
* * *
64651250 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAGTTTCTATA-CTCGGGCTAAGTCCCGAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-AGTTGCTATATC-CGGGCTAAGTCCCGAA
64651314 GGCATTTGTGCTAGTGACT
64 GGCATTTGTGCTAGTGACT
* *
64651333 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-A-TTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
64651395 TACTTGGGTT
Statistics
Matches: 210, Mismatches: 11, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
79 16 0.08
80 37 0.18
81 2 0.01
82 2 0.01
83 153 0.73
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (82 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
CATTTGTGCTAGTGACT
Found at i:64655398 original size:23 final size:23
Alignment explanation
Indices: 64655372--64655416 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
64655362 TAATAAAGAA
64655372 GAAGGTTCACTCATTTTAATGAG
1 GAAGGTTCACTCATTTTAATGAG
64655395 GAAGGTTCACTCATTTTAATGA
1 GAAGGTTCACTCATTTTAATGA
64655417 CGATAAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (23 bp):
GAAGGTTCACTCATTTTAATGAG
Found at i:64665524 original size:49 final size:48
Alignment explanation
Indices: 64665451--64665599 Score: 172
Period size: 49 Copynumber: 3.0 Consensus size: 48
64665441 AGCCGAAGCT
* *
64665451 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAC
* * * *
64665499 AGTCTGGTACACGTAGTAGCATGCACTTCGTACTACACACGTGACCTCACC
1 A-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAAC
** * *
64665550 ATCTAATACACGTAGTAGCCTACATTTAGTACTACACATGTGACCTAAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AAC
64665599 A
1 A
64665600 ATAGATCATT
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
48 2 0.02
49 41 0.49
50 36 0.43
51 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (48 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAC
Found at i:64665582 original size:50 final size:51
Alignment explanation
Indices: 64665463--64665599 Score: 174
Period size: 50 Copynumber: 2.8 Consensus size: 51
64665453 CTGGTACGCA
**
64665463 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTCAACAGTCTAATACACG
* * * *
64665512 TAGTAGCATGCACTTCGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTCAACAGTCTAATACACG
* *
64665562 TAGTAGCCTACATTTAGTACTACACATGTGACCT-AACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTCAACA
64665600 ATAGATCATT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
49 31 0.42
50 39 0.53
51 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTCAACAGTCTAATACACG
Found at i:64667778 original size:15 final size:15
Alignment explanation
Indices: 64667722--64667786 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
64667712 TAAAGATAAC
64667722 AAGAAAACC-GAATA
1 AAGAAAACCAGAATA
64667736 AAGAAAACCA-AGATA
1 AAGAAAACCAGA-ATA
*
64667751 GAA-AAACCCAGAATA
1 -AAGAAAACCAGAATA
*
64667766 AAGAAATCCAGAATA
1 AAGAAAACCAGAATA
64667781 AAGAAA
1 AAGAAA
64667787 CCCAAGATAC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.27
15 29 0.66
16 3 0.07
ACGTcount: A:0.65, C:0.14, G:0.14, T:0.08
Consensus pattern (15 bp):
AAGAAAACCAGAATA
Found at i:64667788 original size:30 final size:31
Alignment explanation
Indices: 64667722--64667790 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
64667712 TAAAGATAAC
*
64667722 AAGAAAACC-GAATAAAGAAAACCAAGATAG
1 AAGAAACCCAGAATAAAGAAAACCAAGATAG
*
64667752 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAAACCAAG-ATAG
64667781 AAGAAACCCA
1 AAGAAACCCA
64667791 AGATACGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.62, C:0.17, G:0.13, T:0.07
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAAACCAAGATAG
Found at i:64670904 original size:50 final size:49
Alignment explanation
Indices: 64670795--64670970 Score: 185
Period size: 50 Copynumber: 3.5 Consensus size: 49
64670785 CTGGTACGCA
* * * **
64670795 TAGTAGCCAGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
64670844 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
* *** * *
64670894 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCTAATACACG
64670945 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
64670971 TGCGACCTCA
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 28 0.26
50 41 0.38
51 36 0.33
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:64670968 original size:101 final size:99
Alignment explanation
Indices: 64670795--64670981 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 99
64670785 CTGGTACGCA
* * *
64670795 TAGTAGCCAGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCAGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
64670860 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * * *
64670894 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCAGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
64670958 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
64670982 AATAGATCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
98 4 0.05
99 29 0.38
101 43 0.57
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (99 bp):
TAGTAGCCAGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Done.