Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 337 of 438
Found at i:105393933 original size:71 final size:71
Alignment explanation
Indices: 105393845--105394008 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
105393835 CGATTTGTCT
105393845 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
105393910 CTTTCA
66 CTTTCA
105393916 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
105393981 CTTTCA
66 CTTTCA
105393987 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
105394009 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:105394046 original size:71 final size:70
Alignment explanation
Indices: 105393845--105394042 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
105393835 CGATTTGTCT
* * *
105393845 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
105393910 CTTTCA
65 CTTTCA
* * *
105393916 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
105393981 CTTTCA
65 CTTTCA
* *
105393987 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
105394043 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:105398253 original size:66 final size:68
Alignment explanation
Indices: 105398177--105398363 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
105398167 TAGTACCACT
*
105398177 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
105398239 CACG
65 CACG
105398243 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
105398308 ATCACG
63 ATCACG
105398314 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
105398364 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:105398288 original size:71 final size:71
Alignment explanation
Indices: 105398200--105398363 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
105398190 CGATTTGTCT
105398200 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
105398265 CTTTCA
66 CTTTCA
105398271 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
105398336 CTTTCA
66 CTTTCA
105398342 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
105398364 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:105398401 original size:71 final size:70
Alignment explanation
Indices: 105398200--105398397 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
105398190 CGATTTGTCT
* * *
105398200 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
105398265 CTTTCA
65 CTTTCA
* * *
105398271 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
105398336 CTTTCA
65 CTTTCA
* *
105398342 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
105398398 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:105400765 original size:47 final size:47
Alignment explanation
Indices: 105400696--105400990 Score: 464
Period size: 47 Copynumber: 6.3 Consensus size: 47
105400686 CCCTTCGGGA
* * * *
105400696 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
105400743 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
105400790 CTTATCACATATATACACTTCCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
105400837 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
105400884 CTTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
105400931 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
105400978 CTTATCACATATA
1 CTTATCACATATA
105400991 CATATCTTGT
Statistics
Matches: 230, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 230 1.00
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.36
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:105404534 original size:40 final size:40
Alignment explanation
Indices: 105404502--105404889 Score: 535
Period size: 40 Copynumber: 9.7 Consensus size: 40
105404492 CCAGCATGAT
* * * * *
105404502 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
105404542 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
105404582 TGCTCTTCGGAATTTATCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* **
105404622 TGCTCTTCGGAACTTATTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
105404662 TGCTCTTCGGGGCTTGGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
105404702 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * **
105404742 TGCTCTTCAGAACTTATTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
105404782 TGCTCTTCGGAACTTATCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
105404822 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
105404862 TGCTCTTCGGGGCTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
105404890 GTCGAGACCT
Statistics
Matches: 318, Mismatches: 30, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 4 0.01
40 314 0.99
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:105405012 original size:38 final size:38
Alignment explanation
Indices: 105404943--105405017 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
105404933 GAATTTTAAT
*
105404943 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
*
105404981 CCGGACATAATCTCT-T-CATATTGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGTACATA--GCCAGCGGGTCTTTA
105405018 AACTCGGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 4 0.12
37 1 0.03
38 28 0.85
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:105407343 original size:47 final size:47
Alignment explanation
Indices: 105407274--105407568 Score: 464
Period size: 47 Copynumber: 6.3 Consensus size: 47
105407264 CCCTTCGGGA
* * * *
105407274 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
105407321 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
105407368 CTTATCACATATATACACTTCCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
105407415 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
105407462 CTTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
105407509 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
105407556 CTTATCACATATA
1 CTTATCACATATA
105407569 CATATCTTGT
Statistics
Matches: 230, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 230 1.00
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.36
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:105420199 original size:30 final size:30
Alignment explanation
Indices: 105420163--105420224 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
105420153 TAATAGTTGA
105420163 GAATAAATTCTCTCTAGTTTTCGGTAGAGT
1 GAATAAATTCTCTCTAGTTTTCGGTAGAGT
105420193 GAATAAATTCTCTCTAGTTTTCGGTAGAGT
1 GAATAAATTCTCTCTAGTTTTCGGTAGAGT
105420223 GA
1 GA
105420225 CAATCTCTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (30 bp):
GAATAAATTCTCTCTAGTTTTCGGTAGAGT
Found at i:105420606 original size:26 final size:27
Alignment explanation
Indices: 105420565--105420620 Score: 96
Period size: 26 Copynumber: 2.1 Consensus size: 27
105420555 TTCTTCTCTA
*
105420565 TTTTACCCCTACTAAAATTTTAACAAT
1 TTTTACCCCGACTAAAATTTTAACAAT
105420592 TTTTACCCCGA-TAAAATTTTAACAAT
1 TTTTACCCCGACTAAAATTTTAACAAT
105420618 TTT
1 TTT
105420621 ACCTCTGGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.43
Consensus pattern (27 bp):
TTTTACCCCGACTAAAATTTTAACAAT
Found at i:105422186 original size:34 final size:34
Alignment explanation
Indices: 105422143--105422211 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
105422133 ATTGAGATCT
105422143 TTGACTACATCCACTATTCCGTCAAACACTACTA
1 TTGACTACATCCACTATTCCGTCAAACACTACTA
*
105422177 TTGACTACATCCACTATTCCGTCAAACACTGCTA
1 TTGACTACATCCACTATTCCGTCAAACACTACTA
105422211 T
1 T
105422212 CTCTCTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.32, G:0.07, T:0.30
Consensus pattern (34 bp):
TTGACTACATCCACTATTCCGTCAAACACTACTA
Found at i:105426180 original size:28 final size:28
Alignment explanation
Indices: 105426119--105426216 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
105426109 TCACAAATTG
** * *
105426119 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
105426148 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
105426176 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
105426204 GCACTAAGTGTGC
1 GCACTAAGTGTGC
105426217 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:105433857 original size:28 final size:28
Alignment explanation
Indices: 105433796--105433893 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
105433786 TCACAAATTG
** * *
105433796 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
105433825 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
105433853 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
105433881 GCACTAAGTGTGC
1 GCACTAAGTGTGC
105433894 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:105442431 original size:39 final size:39
Alignment explanation
Indices: 105442379--105442501 Score: 176
Period size: 39 Copynumber: 3.2 Consensus size: 39
105442369 TATGGTAACC
** *
105442379 CGCACAAACGCCTTCGGGACTTA-ACCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
105442418 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
105442457 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
105442496 CGCACA
1 CGCACA
105442502 TTCATTCACA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
38 4 0.05
39 71 0.95
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:105444303 original size:46 final size:46
Alignment explanation
Indices: 105444229--105444354 Score: 148
Period size: 46 Copynumber: 2.7 Consensus size: 46
105444219 TGGCATTGAT
* *
105444229 ACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAG
1 ACGATAGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAG
* *
105444275 ACG-TAAGCTAGTGTAAGACATGTTTGGGACATACATCAGCTACGAG
1 ACGAT-AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAG
* * *
105444321 ATGATAGTTAGTGTAAGACCATATCTGGGACATG
1 ACGATAGCTAGTGTAAGA-CATGTCTGGGACATG
105444355 GCATTGACTT
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
45 2 0.03
46 52 0.78
47 13 0.19
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (46 bp):
ACGATAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAG
Found at i:105449122 original size:3 final size:3
Alignment explanation
Indices: 105449114--105449168 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
105449104 TGTTTATGAA
105449114 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
105449162 ATT ATT A
1 ATT ATT A
105449169 GTAATTAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:105451549 original size:25 final size:25
Alignment explanation
Indices: 105451521--105451612 Score: 139
Period size: 25 Copynumber: 3.7 Consensus size: 25
105451511 GAAGTGCAAC
* *
105451521 AGGGCTATGCCCCAGTTTACCGAAA
1 AGGGCTTTGCCCCAGTTTATCGAAA
*
105451546 AGGGCTTTGCCCTAGTTTATCGAAA
1 AGGGCTTTGCCCCAGTTTATCGAAA
*
105451571 AGGGCTTTGCCCCAGTTTATCAAAA
1 AGGGCTTTGCCCCAGTTTATCGAAA
*
105451596 AGGGCTTTGCCCTAGTT
1 AGGGCTTTGCCCCAGTT
105451613 ATTAAAAGAG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (25 bp):
AGGGCTTTGCCCCAGTTTATCGAAA
Found at i:105451625 original size:24 final size:24
Alignment explanation
Indices: 105451521--105451625 Score: 122
Period size: 25 Copynumber: 4.2 Consensus size: 24
105451511 GAAGTGCAAC
* * *
105451521 AGGGCTATGCCCCAGTTTACCGAAA
1 AGGGCTTTGCCCTAGTTTATC-AAA
105451546 AGGGCTTTGCCCTAGTTTATCGAAA
1 AGGGCTTTGCCCTAGTTTATC-AAA
*
105451571 AGGGCTTTGCCCCAGTTTATCAAAA
1 AGGGCTTTGCCCTAGTTTATC-AAA
*
105451596 AGGGCTTTGCCCTAG-TTATTAAA
1 AGGGCTTTGCCCTAGTTTATCAAA
105451619 AGAGGCT
1 AG-GGCT
105451626 AGGCCTCCAG
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
23 5 0.07
24 8 0.11
25 59 0.82
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (24 bp):
AGGGCTTTGCCCTAGTTTATCAAA
Found at i:105451636 original size:50 final size:50
Alignment explanation
Indices: 105451521--105451637 Score: 157
Period size: 50 Copynumber: 2.3 Consensus size: 50
105451511 GAAGTGCAAC
*
105451521 AGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCTAGTTTATCGAAA
1 AGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCTAGTTTATCGAAA
* * *
105451571 AGGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCTAG-TTAT-TAAA
1 AGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCTAGTTTATCGAAA
*
105451619 AGAGGCTAGGCCTCCAGTT
1 AG-GGCTATGCC-CCAGTT
105451638 ATATGATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
48 5 0.08
49 11 0.19
50 43 0.73
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (50 bp):
AGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCTAGTTTATCGAAA
Found at i:105453018 original size:90 final size:91
Alignment explanation
Indices: 105452916--105453089 Score: 260
Period size: 92 Copynumber: 1.9 Consensus size: 91
105452906 ACCTTATCAA
* **
105452916 TAAGAAGTTC-AAAAAAATAAGTCTAGAGAAATGTCGAGAAAAATAGCAATTGAATAGCAACAAT
1 TAAGAAGTTCAAAAAAAATAAGTCTAGAGAAATGTCGAGAAAAACAAAAATTGAATAGCAACAAT
**
105452980 CAACAATTGCTGAGAAATCTTACCGG
66 CAACAATTGAAGAGAAATCTTACCGG
* *
105453006 TAAGAAGTTCAAAAAAAAATAGGTTTAGAGAAATGTCGAGAAAAACAAAAATTGAATAGCAACAA
1 TAAGAAGTTC-AAAAAAAATAAGTCTAGAGAAATGTCGAGAAAAACAAAAATTGAATAGCAACAA
*
105453071 TCAGCAATTGAAGAGAAAT
65 TCAACAATTGAAGAGAAAT
105453090 TTTTAATTAG
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 10 0.14
92 64 0.86
ACGTcount: A:0.51, C:0.11, G:0.18, T:0.20
Consensus pattern (91 bp):
TAAGAAGTTCAAAAAAAATAAGTCTAGAGAAATGTCGAGAAAAACAAAAATTGAATAGCAACAAT
CAACAATTGAAGAGAAATCTTACCGG
Found at i:105463853 original size:49 final size:50
Alignment explanation
Indices: 105463727--105463859 Score: 171
Period size: 51 Copynumber: 2.7 Consensus size: 50
105463717 TCTATTGTGA
* *
105463727 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCC-AAAACTGT
* * * * *
105463778 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AGACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAACTG-T
105463827 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
105463860 TGCATACCAG
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
48 5 0.07
49 31 0.44
50 2 0.03
51 33 0.46
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (50 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAACTGT
Found at i:105463868 original size:49 final size:48
Alignment explanation
Indices: 105463727--105463870 Score: 180
Period size: 49 Copynumber: 2.9 Consensus size: 48
105463717 TCTATTGTGA
* *
105463727 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTGT
* * * * *
105463778 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTG-T
*
105463827 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
105463871 TAGCTTCGGC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
48 5 0.06
49 39 0.49
50 2 0.03
51 33 0.42
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (48 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGT
Found at i:105467035 original size:199 final size:199
Alignment explanation
Indices: 105466695--105467095 Score: 768
Period size: 199 Copynumber: 2.0 Consensus size: 199
105466685 TTACCTCTAT
105466695 GGTTACAGGTTCAGACTTTTCATAATGGTTTGAACCCCTCAACTAGGCAAATGATCGATTCAGTT
1 GGTTACAGGTTCAGACTTTTCATAATGGTTTGAACCCCTCAACTAGGCAAATGATCGATTCAGTT
*
105466760 GCCGGTGGAACCATAGATAATAAAACACCTGGGGAGGCTTATGAGTTCATAGAGAAGATGTCACT
66 GCCGGTGGAACCATAGATAATAAAACACCTAGGGAGGCTTATGAGTTCATAGAGAAGATGTCACT
105466825 GAATAACTATCAGTGGCAAGTCATGAGGACAAAGCCTAATAAAGCAG-TCGGTGTTTTCAACCTT
131 GAATAACTATCAGTGGCAAGTCATGAGGACAAAGCCTAATAAAGCAGCT-GGTGTTTTCAACCTT
105466889 AACGC
195 AACGC
*
105466894 GGTTACAGGTTCAGACTTTTCATAATGGTTTGAACCCCTCAACTAGGCAGATGATCGATTCAGTT
1 GGTTACAGGTTCAGACTTTTCATAATGGTTTGAACCCCTCAACTAGGCAAATGATCGATTCAGTT
105466959 GCCGGTGGAACCATAGATAATAAAACACCTAGGGAGGCTTATGAGTTCATAGAGAAGATGTCACT
66 GCCGGTGGAACCATAGATAATAAAACACCTAGGGAGGCTTATGAGTTCATAGAGAAGATGTCACT
105467024 GAATAACTATCAGTGGCAAGTCATGAGGACAAAGCCTAATAAAGCAGCTGGTGTTTTCAACCTTA
131 GAATAACTATCAGTGGCAAGTCATGAGGACAAAGCCTAATAAAGCAGCTGGTGTTTTCAACCTTA
105467089 ACGC
196 ACGC
105467093 GGT
1 GGT
105467096 CACCATGTTA
Statistics
Matches: 199, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
199 198 0.99
200 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (199 bp):
GGTTACAGGTTCAGACTTTTCATAATGGTTTGAACCCCTCAACTAGGCAAATGATCGATTCAGTT
GCCGGTGGAACCATAGATAATAAAACACCTAGGGAGGCTTATGAGTTCATAGAGAAGATGTCACT
GAATAACTATCAGTGGCAAGTCATGAGGACAAAGCCTAATAAAGCAGCTGGTGTTTTCAACCTTA
ACGC
Found at i:105469432 original size:22 final size:21
Alignment explanation
Indices: 105469395--105469565 Score: 73
Period size: 22 Copynumber: 8.2 Consensus size: 21
105469385 ATCACCCCAA
*
105469395 TTTT-ATTTTATTTTATTTAT
1 TTTTAATTTTATATTATTTAT
105469415 TTTTAATTGTTATATTATTTAT
1 TTTTAATT-TTATATTATTTAT
*
105469437 TTTT-ATTTTACTAATTAATTAATT
1 TTTTAATTTTA-T-ATT-ATTTA-T
105469461 TATTTAGTATTTT-TA-TACTTATAT
1 T-TTTA--ATTTTATATTA-TT-TAT
105469485 TTTTAATTTT-T-TTA--TAT
1 TTTTAATTTTATATTATTTAT
* *
105469502 TTTT-ATTTTTTATATACTT-T
1 TTTTAATTTTATAT-TATTTAT
*
105469522 TATT-ATTTT-TATT-TTTAT
1 TTTTAATTTTATATTATTTAT
*
105469540 TTTGTAATTTCTAT-TTTTTTAT
1 TTT-TAATTT-TATATTATTTAT
105469562 TTTT
1 TTTT
105469566 TCTTTCGTAT
Statistics
Matches: 121, Mismatches: 6, Indels: 47
0.70 0.03 0.27
Matches are distributed among these distances:
16 5 0.04
17 10 0.08
18 5 0.04
19 6 0.05
20 20 0.17
21 20 0.17
22 28 0.23
23 9 0.07
24 7 0.06
25 5 0.04
26 1 0.01
28 5 0.04
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTAATTTTATATTATTTAT
Found at i:105469442 original size:15 final size:14
Alignment explanation
Indices: 105469395--105469565 Score: 73
Period size: 15 Copynumber: 11.3 Consensus size: 14
105469385 ATCACCCCAA
*
105469395 TTTTA-TTTTATTT
1 TTTTATTTTTATAT
105469408 TATTTATTTTTA-AT
1 T-TTTATTTTTATAT
*
105469422 TGTTATATTATT-TAT
1 T-TT-TATTTTTATAT
105469437 TTTTA-TTTTACTAAT
1 TTTTATTTTTA-T-AT
*
105469452 TAATTAATTTATTTAGTAT
1 T--TTTATTT--TTA-TAT
**
105469471 TTTTATACTTATAT
1 TTTTATTTTTATAT
105469485 TTTTAATTTTTTTATAT
1 TTTT-A--TTTTTATAT
105469502 TTTTATTTTTTATAT
1 TTTTA-TTTTTATAT
*
105469517 ACTTTTATTATTTTTAT
1 --TTTTATT-TTTATAT
105469534 TTTTATTTTGTA-AT
1 TTTTATTTT-TATAT
* *
105469548 TTCTATTTTTTTAT
1 TTTTATTTTTATAT
105469562 TTTT
1 TTTT
105469566 TCTTTCGTAT
Statistics
Matches: 122, Mismatches: 16, Indels: 39
0.69 0.09 0.22
Matches are distributed among these distances:
12 3 0.02
13 4 0.03
14 35 0.29
15 39 0.32
16 3 0.02
17 29 0.24
18 2 0.02
19 3 0.02
20 4 0.03
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTTATTTTTATAT
Found at i:105469501 original size:17 final size:16
Alignment explanation
Indices: 105469479--105469566 Score: 94
Period size: 17 Copynumber: 5.6 Consensus size: 16
105469469 ATTTTTATAC
105469479 TTATATTTTTAATTTTT
1 TTATATTTTT-ATTTTT
105469496 TTATATTTTTATTTTT
1 TTATATTTTTATTTTT
* *
105469512 TATATACTTTTATTATT
1 T-TATATTTTTATTTTT
105469529 TT-TATTTTTA-TTTT
1 TTATATTTTTATTTTT
* *
105469543 GTA-ATTTCTATTTTT
1 TTATATTTTTATTTTT
105469558 TTAT-TTTTT
1 TTATATTTTT
105469567 CTTTCGTATT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
14 10 0.17
15 17 0.29
16 8 0.14
17 24 0.41
ACGTcount: A:0.20, C:0.02, G:0.01, T:0.76
Consensus pattern (16 bp):
TTATATTTTTATTTTT
Found at i:105469504 original size:8 final size:8
Alignment explanation
Indices: 105469479--105469565 Score: 62
Period size: 7 Copynumber: 11.2 Consensus size: 8
105469469 ATTTTTATAC
105469479 TTATATTT
1 TTATATTT
*
105469487 TTAATTTTT
1 TT-ATATTT
105469496 TTATATTT
1 TTATATTT
105469504 TTAT-TTT
1 TTATATTT
105469511 TTATATACTT
1 TTATAT--TT
105469521 TTAT-TATT
1 TTATAT-TT
105469529 TT-TATTT
1 TTATATTT
105469536 TTAT-TTT
1 TTATATTT
*
105469543 GTA-ATTT
1 TTATATTT
*
105469550 CTAT-TTT
1 TTATATTT
105469557 TT-TATTT
1 TTATATTT
105469564 TT
1 TT
105469566 TCTTTCGTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
6 1 0.02
7 31 0.48
8 18 0.28
9 8 0.12
10 6 0.09
ACGTcount: A:0.21, C:0.02, G:0.01, T:0.76
Consensus pattern (8 bp):
TTATATTT
Found at i:105469515 original size:32 final size:32
Alignment explanation
Indices: 105469400--105469566 Score: 107
Period size: 32 Copynumber: 5.1 Consensus size: 32
105469390 CCCAATTTTA
105469400 TTTTATTTTATT-TATTTTTAATTGTTATATTATTTAT
1 TTTTATTTT-TTATATTTTTAATT-TT-T-TTA--TAT
* * *
105469437 TTTTATTTTACTA-ATTAATTAATTTATTTAGTAT
1 TTTTATTTT-TTATATT-TTTAATTTTTTTA-TAT
**
105469471 TTTTA-TACTTATATTTTTAATTTTTTTATAT
1 TTTTATTTTTTATATTTTTAATTTTTTTATAT
*
105469502 TTTTATTTTTTATATACTTTT-ATTATTTT-TAT
1 TTTTATTTTTTATAT--TTTTAATTTTTTTATAT
* *
105469534 TTTTATTTTGTA-ATTTCT-ATTTTTTTAT-T
1 TTTTATTTTTTATATTTTTAATTTTTTTATAT
105469563 TTTT
1 TTTT
105469567 CTTTCGTATT
Statistics
Matches: 108, Mismatches: 15, Indels: 22
0.74 0.10 0.15
Matches are distributed among these distances:
29 15 0.14
30 1 0.01
31 10 0.09
32 34 0.31
33 11 0.10
34 12 0.11
35 3 0.03
36 1 0.01
37 15 0.14
38 6 0.06
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (32 bp):
TTTTATTTTTTATATTTTTAATTTTTTTATAT
Found at i:105469566 original size:8 final size:8
Alignment explanation
Indices: 105469479--105469566 Score: 61
Period size: 8 Copynumber: 10.1 Consensus size: 8
105469469 ATTTTTATAC
105469479 TTATATTTT
1 TTAT-TTTT
*
105469488 TAATTTTT
1 TTATTTTT
*
105469496 TTATATTT
1 TTATTTTT
105469504 TTATTTTT
1 TTATTTTT
**
105469512 TATATACTT
1 T-TATTTTT
105469521 TTATTATTT
1 TTATT-TTT
105469530 TTATTTTT
1 TTATTTTT
105469538 ATT-TTGTAATT
1 -TTATT-T--TT
105469549 TCTATTTTT
1 T-TATTTTT
105469558 TTATTTTT
1 TTATTTTT
105469566 T
1 T
105469567 CTTTCGTATT
Statistics
Matches: 63, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
8 34 0.54
9 22 0.35
10 1 0.02
11 4 0.06
12 2 0.03
ACGTcount: A:0.20, C:0.02, G:0.01, T:0.76
Consensus pattern (8 bp):
TTATTTTT
Found at i:105469576 original size:22 final size:22
Alignment explanation
Indices: 105469533--105469582 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
105469523 ATTATTTTTA
105469533 TTTTTATTTTGTAATTTCTATT
1 TTTTTATTTTGTAATTTCTATT
**
105469555 TTTTTATTTT-TTCTTTCGTATT
1 TTTTTATTTTGTAATTTC-TATT
105469577 TTTTTA
1 TTTTTA
105469583 CTATTATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTTTATTTTGTAATTTCTATT
Found at i:105469650 original size:17 final size:17
Alignment explanation
Indices: 105469628--105469665 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
105469618 TATTATTGAG
* *
105469628 TTTATTGTTATTTTATT
1 TTTATTATTATTATATT
105469645 TTTATTATTATTATATT
1 TTTATTATTATTATATT
105469662 TTTA
1 TTTA
105469666 ATCTTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTATTATTATTATATT
Found at i:105469770 original size:21 final size:21
Alignment explanation
Indices: 105469746--105469791 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
105469736 TTTGAAAGAT
105469746 TTATGGTTGTTTCTAATCGAG
1 TTATGGTTGTTTCTAATCGAG
105469767 TTATGGTTGTTTCTAATCGAG
1 TTATGGTTGTTTCTAATCGAG
105469788 TTAT
1 TTAT
105469792 AACCCCTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.09, G:0.22, T:0.50
Consensus pattern (21 bp):
TTATGGTTGTTTCTAATCGAG
Found at i:105479664 original size:55 final size:55
Alignment explanation
Indices: 105479537--105479664 Score: 159
Period size: 55 Copynumber: 2.3 Consensus size: 55
105479527 TTAAAATTCT
* * *
105479537 AGGTCAGTGTTGAACACGAGCAAGCCACACTGGTGTGTGCCTTGGCCGTGTTTAA
1 AGGTCAGTGTTGAACACGAGCAAGCCACACTGGCGTGTGCCATGGCCGTGTTGAA
* * * * *
105479592 AAGACAGTATTGAACACGAGTAGGCCACAC-GGACGTGTGCCATGGCCGTGTTGAA
1 AGGTCAGTGTTGAACACGAGCAAGCCACACTGG-CGTGTGCCATGGCCGTGTTGAA
*
105479647 AGGTCAGTGTTGCACACG
1 AGGTCAGTGTTGAACACG
105479665 GGCTAAGAGC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 2 0.03
55 58 0.97
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (55 bp):
AGGTCAGTGTTGAACACGAGCAAGCCACACTGGCGTGTGCCATGGCCGTGTTGAA
Found at i:105482903 original size:32 final size:29
Alignment explanation
Indices: 105482860--105482919 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 29
105482850 TTTTTTATCG
*
105482860 TTATTTATTTATATTAAAGTTATTATAAAAA
1 TTATTTATTTATA-AAAAGTT-TTATAAAAA
105482891 TTATATTATTTATAAAAAGTTTTATAAAA
1 TTAT-TTATTTATAAAAAGTTTTATAAAA
105482920 TGTTATGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.30
31 10 0.37
32 9 0.33
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (29 bp):
TTATTTATTTATAAAAAGTTTTATAAAAA
Found at i:105485492 original size:19 final size:19
Alignment explanation
Indices: 105485465--105485508 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
105485455 TAAAATTATG
* *
105485465 TAATAAATATAATTATAAAA
1 TAAT-AATATAAATAAAAAA
105485485 TAATAATATAAATAAAAAA
1 TAATAATATAAATAAAAAA
105485504 TAATA
1 TAATA
105485509 TTTTGATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATAATATAAATAAAAAA
Found at i:105485507 original size:30 final size:30
Alignment explanation
Indices: 105485448--105485507 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
105485438 GTAATTTAGA
* *
105485448 TATAAAATAAAATTATGTAATAAATATAAT
1 TATAAAATAAAATTATGAAATAAAAATAAT
105485478 TATAAAATAATAA-TAT-AAATAAAAAATAAT
1 TATAAAATAA-AATTATGAAAT-AAAAATAAT
105485508 ATTTTGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 3 0.12
30 21 0.81
31 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
TATAAAATAAAATTATGAAATAAAAATAAT
Found at i:105494621 original size:47 final size:48
Alignment explanation
Indices: 105494531--105494621 Score: 107
Period size: 47 Copynumber: 1.9 Consensus size: 48
105494521 ATAATAAGGA
* *
105494531 TAATATATATAAGAAAATATACATGATATAGTATAAAAAATATATAAC
1 TAATATATATAAGAAAATATACACGATATAGTACAAAAAATATATAAC
* *
105494579 TAATA-ATATTAA-AAAATATATACGATATA-TACATAAACATATA
1 TAATATATA-TAAGAAAATATACACGATATAGTACA-AAAAATATA
105494622 CGATATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
46 3 0.08
47 26 0.70
48 8 0.22
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.32
Consensus pattern (48 bp):
TAATATATATAAGAAAATATACACGATATAGTACAAAAAATATATAAC
Found at i:105495094 original size:19 final size:18
Alignment explanation
Indices: 105495070--105495105 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
105495060 AATATGTTCA
105495070 CAACAATAATAATAATAAG
1 CAACAATAAT-ATAATAAG
105495089 CAACAATAATATAATAA
1 CAACAATAATATAATAA
105495106 TAATATAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.64, C:0.11, G:0.03, T:0.22
Consensus pattern (18 bp):
CAACAATAATATAATAAG
Found at i:105495106 original size:24 final size:25
Alignment explanation
Indices: 105495075--105495125 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
105495065 GTTCACAACA
105495075 ATAATAATAATA-AGCAACAA-TAAT
1 ATAATAATAATATAGCAA-AACTAAT
105495099 ATAATAATAATATAGCAAAACTAAT
1 ATAATAATAATATAGCAAAACTAAT
105495124 AT
1 AT
105495126 TACAAATACT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (25 bp):
ATAATAATAATATAGCAAAACTAAT
Found at i:105497004 original size:5 final size:5
Alignment explanation
Indices: 105496994--105497025 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
105496984 ATGTCTGTGA
105496994 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
105497026 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:105497019 original size:9 final size:9
Alignment explanation
Indices: 105496995--105497025 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
105496985 TGTCTGTGAA
105496995 AAATAAAAT
1 AAATAAAAT
105497004 AAAATAAAAT
1 -AAATAAAAT
105497014 AAATAAAAT
1 AAATAAAAT
105497023 AAA
1 AAA
105497026 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:105499547 original size:17 final size:17
Alignment explanation
Indices: 105499525--105499558 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
105499515 CAAAATGCTT
105499525 CGGTAAGTTGGCATTTG
1 CGGTAAGTTGGCATTTG
105499542 CGGTAAGTTGGCATTTG
1 CGGTAAGTTGGCATTTG
105499559 ACAACATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.35, T:0.35
Consensus pattern (17 bp):
CGGTAAGTTGGCATTTG
Found at i:105501437 original size:5 final size:5
Alignment explanation
Indices: 105501427--105501458 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
105501417 CAATTTGTGA
105501427 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
105501459 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:105501452 original size:9 final size:9
Alignment explanation
Indices: 105501428--105501458 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
105501418 AATTTGTGAA
105501428 AAATAAAAT
1 AAATAAAAT
105501437 AAAATAAAAT
1 -AAATAAAAT
105501447 AAATAAAAT
1 AAATAAAAT
105501456 AAA
1 AAA
105501459 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:105509775 original size:31 final size:31
Alignment explanation
Indices: 105509737--105509797 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
105509727 TTTTTAGGAG
105509737 AATGAAAGGTCAAGAGTCATTGGTTTATGGC
1 AATGAAAGGTCAAGAGTCATTGGTTTATGGC
105509768 AATGAAAGGTCAAGAGTCATTGGTTTATGG
1 AATGAAAGGTCAAGAGTCATTGGTTTATGG
105509798 TTTTTATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (31 bp):
AATGAAAGGTCAAGAGTCATTGGTTTATGGC
Found at i:105527915 original size:45 final size:45
Alignment explanation
Indices: 105527851--105527944 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
105527841 TTAAAACACA
* *
105527851 ACCCATACCATTTAACGATGCATCACTATAGATTACGAATTTTTT
1 ACCCAGACCATTTAACGATGCATCACTATAGATTACAAATTTTTT
105527896 ACCCAGACCATTTAACGATGCATCACTATAGATTACAAATTTTTT
1 ACCCAGACCATTTAACGATGCATCACTATAGATTACAAATTTTTT
105527941 ACCC
1 ACCC
105527945 GATTCTCGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (45 bp):
ACCCAGACCATTTAACGATGCATCACTATAGATTACAAATTTTTT
Found at i:105533195 original size:28 final size:28
Alignment explanation
Indices: 105533158--105533228 Score: 133
Period size: 28 Copynumber: 2.5 Consensus size: 28
105533148 AAAATTTTAC
*
105533158 AGCATTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
105533186 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
105533214 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
105533229 GACTCACTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:105538088 original size:40 final size:39
Alignment explanation
Indices: 105537923--105538106 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
105537913 AAATTGAATG
* * *
105537923 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
105537963 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
105538003 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
105538043 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
105538082 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
105538107 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:105538131 original size:80 final size:81
Alignment explanation
Indices: 105537963--105538151 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
105537953 GCTGGAAATT
* * * *
105537963 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
105538028 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
105538044 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
105538107 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
105538123 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
105538152 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:105545899 original size:29 final size:30
Alignment explanation
Indices: 105545833--105545901 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
105545823 TAAGTCTTCA
*
105545833 AAAATAAAGAAGAGAAAATAAAATTTAAAT
1 AAAATAAAGAAGAGAAAATAAAATTCAAAT
* *
105545863 AAACATAAA-AATAG-AAATAAAATTCATAGT
1 AAA-ATAAAGAAGAGAAAATAAAATTCA-AAT
105545893 AAAATAAAG
1 AAAATAAAG
105545902 GAACTCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 16 0.48
30 12 0.36
31 5 0.15
ACGTcount: A:0.68, C:0.03, G:0.09, T:0.20
Consensus pattern (30 bp):
AAAATAAAGAAGAGAAAATAAAATTCAAAT
Found at i:105549242 original size:19 final size:19
Alignment explanation
Indices: 105549214--105549250 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
105549204 ACCTATCAGA
105549214 AGTAAATAAAATAAAATTT
1 AGTAAATAAAATAAAATTT
*
105549233 AGTAATTAAAATAAAATT
1 AGTAAATAAAATAAAATT
105549251 AAATTGCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AGTAAATAAAATAAAATTT
Found at i:105555642 original size:44 final size:42
Alignment explanation
Indices: 105555553--105555674 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 42
105555543 GAGAGTTGGA
*
105555553 ATAGCTTCAATT-ATATGTGGCACTAAGTGTGCGATACTGAG
1 ATAGCTTCAGTTAATATGTGGCACTAAGTGTGCGATACTGAG
**
105555594 ATAGCTTCAGTTTAATATGATGGCACTAAGTGTGCGATA-TCGTT
1 ATAGCTTCAG-TTAATATG-TGGCACTAAGTGTGCGATACT-GAG
* * *
105555638 ATAGCTTCAGCTAATCATTTTTGCACTAAGTGTGCGA
1 ATAGCTTCAGTTAAT-A-TGTGGCACTAAGTGTGCGA
105555675 GTTCTTAGAG
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
41 9 0.13
42 2 0.03
43 10 0.14
44 47 0.68
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (42 bp):
ATAGCTTCAGTTAATATGTGGCACTAAGTGTGCGATACTGAG
Found at i:105557082 original size:27 final size:27
Alignment explanation
Indices: 105557052--105557166 Score: 128
Period size: 27 Copynumber: 4.2 Consensus size: 27
105557042 ATGACTAAGT
105557052 CACCAGATACAGAT-ATTGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGC
* *
105557079 CACCAGATTAGATAATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
105557106 CACCAAGA-CAGAT-ATATGTGGCAGAGC
1 CACC-AGATCAGATAAT-TGTGGCAGAGC
* * *
105557133 CACCAGATTAGATAAATTGTGGCATAAC
1 CACCAGATCAGAT-AATTGTGGCAGAGC
105557161 CACCAG
1 CACCAG
105557167 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
26 9 0.12
27 46 0.61
28 18 0.24
29 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGATCAGATAATTGTGGCAGAGC
Found at i:105557129 original size:54 final size:54
Alignment explanation
Indices: 105557060--105557165 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
105557050 GTCACCAGAT
*
105557060 ACAGATATTGTGGCAGAGCCACCAGATTAGAT-AATTGTGGCATAGCCACCAAG
1 ACAGATATTGTGGCAGAGCCACCAGATTAGATAAATTGTGGCATAACCACCAAG
105557113 ACAGATATATGTGGCAGAGCCACCAGATTAGATAAATTGTGGCATAACCACCA
1 ACAGATAT-TGTGGCAGAGCCACCAGATTAGATAAATTGTGGCATAACCACCA
105557166 GGACGCTTCC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
53 8 0.16
54 24 0.48
55 18 0.36
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (54 bp):
ACAGATATTGTGGCAGAGCCACCAGATTAGATAAATTGTGGCATAACCACCAAG
Found at i:105557572 original size:8 final size:8
Alignment explanation
Indices: 105557556--105557585 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
105557546 CTCAAAATAC
105557556 CGGCTTTT
1 CGGCTTTT
*
105557564 CGGCATTT
1 CGGCTTTT
105557572 CGGCTTTT
1 CGGCTTTT
105557580 CGGCTT
1 CGGCTT
105557586 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:105565034 original size:27 final size:27
Alignment explanation
Indices: 105565004--105565145 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 27
105564994 GTGACGAAGT
105565004 CACCAGATACAGATAATGTGGCATAGC
1 CACCAGATACAGATAATGTGGCATAGC
*
105565031 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATA-ATGTGGCATAGC
105565058 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGATAA-TGTGGCATAGC
* *
105565085 CACCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGATA-ATGTGGCATAGC
* *
105565112 CACCAAAT-TAGATAAATTGTGGCATAGC
1 CACCAGATACAGAT-AA-TGTGGCATAGC
105565140 CACCAG
1 CACCAG
105565146 GACGCTTCCT
Statistics
Matches: 98, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
26 8 0.08
27 73 0.74
28 17 0.17
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCATAGC
Found at i:105565080 original size:54 final size:54
Alignment explanation
Indices: 105565004--105565145 Score: 232
Period size: 54 Copynumber: 2.6 Consensus size: 54
105564994 GTGACGAAGT
105565004 CACCAGATACAGATAA-TGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
105565058 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
105565112 CACCAAATTAGATAAATTGTGGCATAGCCACCAG
1 CACCAGATCAGAT-AATTGTGGCATAGCCACCAG
105565146 GACGCTTCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
53 7 0.08
54 56 0.67
55 20 0.24
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:105567753 original size:66 final size:66
Alignment explanation
Indices: 105567679--105567820 Score: 230
Period size: 66 Copynumber: 2.2 Consensus size: 66
105567669 TCGTGTGACC
* *
105567679 CAAGTCAGTAACCTCCCTAGTTTTCCCATGGCCATGGCACACGGGTGTGTCTCCGGCCGTGTGGT
1 CAAGTCAGTAACCTCCCTAGTTTTCCCACGGCCATGGCACACGGGCGTGTCTCCGGCCGTGTGGT
105567744 A
66 A
** * *
105567745 CAAGTCAGTAACCTCTTTAGTTTTTCCACGGCTATGGCACACGGGCGTGTCTCCGGCCGTGTGGT
1 CAAGTCAGTAACCTCCCTAGTTTTCCCACGGCCATGGCACACGGGCGTGTCTCCGGCCGTGTGGT
105567810 A
66 A
105567811 CAAGTCAGTA
1 CAAGTCAGTA
105567821 TCTATGCCTT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (66 bp):
CAAGTCAGTAACCTCCCTAGTTTTCCCACGGCCATGGCACACGGGCGTGTCTCCGGCCGTGTGGT
A
Found at i:105567835 original size:66 final size:66
Alignment explanation
Indices: 105567679--105567844 Score: 201
Period size: 66 Copynumber: 2.5 Consensus size: 66
105567669 TCGTGTGACC
* * * * * * *
105567679 CAAGTCAGTAACCTCCCTAGTTTTCCCATGGCCATGGCACACGGGTGTGTCTCCGGCCGTGTGGT
1 CAAGTCAGTAACATCCTTATTTTTCACACGGCTATGGCACACGGGCGTGTCTCCGGCCGTGTGGT
105567744 A
66 A
* *
105567745 CAAGTCAGTAACCTCTTTAGTTTTTC-CACGGCTATGGCACACGGGCGTGTCTCCGGCCGTGTGG
1 CAAGTCAGTAACATCCTTA-TTTTTCACACGGCTATGGCACACGGGCGTGTCTCCGGCCGTGTGG
105567809 TA
65 TA
*
105567811 CAAGTCAGTATCTATGCCTT-TTTTTCACACGGCT
1 CAAGTCAGTAAC-AT-CCTTATTTTTCACACGGCT
105567845 TTTGATACAG
Statistics
Matches: 87, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
66 71 0.82
67 13 0.15
68 3 0.03
ACGTcount: A:0.17, C:0.28, G:0.25, T:0.30
Consensus pattern (66 bp):
CAAGTCAGTAACATCCTTATTTTTCACACGGCTATGGCACACGGGCGTGTCTCCGGCCGTGTGGT
A
Found at i:105573282 original size:9 final size:9
Alignment explanation
Indices: 105573270--105573300 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
105573260 ATAAAACTCC
*
105573270 TAAACAACT
1 TAAACTACT
105573279 TAAACTACT
1 TAAACTACT
105573288 TAAACTACT
1 TAAACTACT
105573297 TAAA
1 TAAA
105573301 AATTATCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (9 bp):
TAAACTACT
Found at i:105579092 original size:4 final size:4
Alignment explanation
Indices: 105579083--105579121 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
105579073 TATTGTTTAG
105579083 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
105579122 CATATATTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
ATTA
Found at i:105581476 original size:35 final size:35
Alignment explanation
Indices: 105581431--105581572 Score: 239
Period size: 35 Copynumber: 4.0 Consensus size: 35
105581421 ATAATCTTCA
* *
105581431 ATGATATGCAATCTTAGATATGATACAATCTGAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
105581467 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
105581502 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
105581537 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
105581573 AGATATGATT
Statistics
Matches: 102, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
35 84 0.82
36 5 0.05
37 13 0.13
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:105581931 original size:7 final size:7
Alignment explanation
Indices: 105581914--105582020 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
105581904 AAATTTGTAA
105581914 ATTAT-T
1 ATTATAT
105581920 ATTATAT
1 ATTATAT
105581927 ATTATAT
1 ATTATAT
105581934 -TT-TA-
1 ATTATAT
105581938 ACTTATAT
1 A-TTATAT
105581946 ATCTTATAT
1 A--TTATAT
*
105581955 ATTTATTT
1 A-TTATAT
105581963 ATT-TAT
1 ATTATAT
*
105581969 ATTATAC
1 ATTATAT
105581976 ATTAT-T
1 ATTATAT
* *
105581982 -TTAAAA
1 ATTATAT
*
105581988 ACTTACAT
1 A-TTATAT
*
105581996 -TTTTAT
1 ATTATAT
105582002 ATTATAT
1 ATTATAT
*
105582009 ATTATAA
1 ATTATAT
105582016 ATTAT
1 ATTAT
105582021 TTCATTTATT
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 35 0.45
8 11 0.14
9 8 0.10
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:105581964 original size:21 final size:21
Alignment explanation
Indices: 105581922--105582056 Score: 65
Period size: 21 Copynumber: 6.7 Consensus size: 21
105581912 AAATTATTAT
*
105581922 TATATATTATAT-TTTAACTTA
1 TATATATTATATATTT-ATTTA
*
105581943 TATATCTTATATATTTATTTA
1 TATATATTATATATTTATTTA
* *
105581964 TTTATATTATACA-TTATTT-
1 TATATATTATATATTTATTTA
* * * * *
105581983 TAAAAACTTACATTTTTATAT-
1 TATATA-TTATATATTTATTTA
*
105582004 TATATATTATA-AATTATTTCA
1 TATATATTATATATTTATTT-A
105582025 T-T-TATTAT-TA-TT-TTTA
1 TATATATTATATATTTATTTA
*
105582041 TATACTATCATATATT
1 TATA-TATTATATATT
105582057 ATCTATTTTA
Statistics
Matches: 84, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
16 2 0.02
17 4 0.05
18 2 0.02
19 20 0.24
20 17 0.20
21 36 0.43
22 3 0.04
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATATTATATATTTATTTA
Found at i:105587846 original size:14 final size:13
Alignment explanation
Indices: 105587817--105587866 Score: 66
Period size: 14 Copynumber: 3.8 Consensus size: 13
105587807 CTTCTATTTC
105587817 AAAAAAAAAA-AG
1 AAAAAAAAAAGAG
*
105587829 AAAAGAAAAAGAG
1 AAAAAAAAAAGAG
105587842 AAAAAAATAAAGAG
1 AAAAAAA-AAAGAG
105587856 AAAAAAGAAAA
1 AAAAAA-AAAA
105587867 ATGGAGAGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 9 0.27
13 8 0.24
14 15 0.45
15 1 0.03
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:105587847 original size:21 final size:21
Alignment explanation
Indices: 105587817--105587867 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
105587807 CTTCTATTTC
105587817 AAAA-AAAAAAAGAAA-AGAA
1 AAAAGAAAAAAAGAAAGAGAA
*
105587836 AAAGAGAAAAAAATAAAGAGAA
1 AAA-AGAAAAAAAGAAAGAGAA
105587858 AAAAGAAAAA
1 AAAAGAAAAA
105587868 TGGAGAGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 3 0.11
20 1 0.04
21 17 0.61
22 7 0.25
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAAGAAAAAAAGAAAGAGAA
Found at i:105587848 original size:22 final size:21
Alignment explanation
Indices: 105587819--105587867 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
105587809 TCTATTTCAA
*
105587819 AAAAAAAAAGAAAAGAAAAAGAG
1 AAAAAAATA-AAAAGAAAAA-AG
*
105587842 AAAAAAATAAAGAGAAAAAAG
1 AAAAAAATAAAAAGAAAAAAG
105587863 AAAAA
1 AAAAA
105587868 TGGAGAGGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.29
22 9 0.38
23 8 0.33
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAAAAATAAAAAGAAAAAAG
Found at i:105588882 original size:44 final size:43
Alignment explanation
Indices: 105588740--105588916 Score: 148
Period size: 44 Copynumber: 4.1 Consensus size: 43
105588730 CAAAGAAACA
* *
105588740 AGATTTGGCATTCCTATGTTTATAGGGAACAGATCG-A-ATAG
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAG
* * * * * * * * **
105588781 TAGATCTGACATTCCTGCGCTTACAGCGAAGCAGATTGAAGATTTC
1 -AGATTTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGA-TAG
*
105588827 AGCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAG
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAG
105588869 TAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAG
1 -AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAG
105588913 AGAT
1 AGAT
105588917 CTAACCTTCA
Statistics
Matches: 106, Mismatches: 19, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
42 25 0.24
43 21 0.20
44 54 0.51
45 4 0.04
46 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (43 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAG
Found at i:105589285 original size:119 final size:119
Alignment explanation
Indices: 105588909--105589496 Score: 990
Period size: 119 Copynumber: 5.0 Consensus size: 119
105588899 CAGATCGAAG
105588909 ATAG-AGATCTAACCTTCAGATGTTTATACTG-AGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * *
105588972 TTACAAGGAAC-AATCGAGGACATAGCAGATTTGACT-TCATACATTCTCAAAG
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
105589024 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
105589089 TTACAA-GAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
*
105589142 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
105589207 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* *
105589261 ATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
*
105589326 TTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * * * *
105589380 ATAGTAGATCTAACCTTCAAATGTTTATACT-AAGCAGATCCAAGATGGTTTGGCATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * *
105589444 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
105589497 CAGACTCAAG
Statistics
Matches: 450, Mismatches: 18, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
115 4 0.01
116 31 0.07
117 63 0.14
118 160 0.36
119 192 0.43
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (119 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
Found at i:105589325 original size:237 final size:237
Alignment explanation
Indices: 105588909--105589496 Score: 997
Period size: 237 Copynumber: 2.5 Consensus size: 237
105588899 CAGATCGAAG
105588909 ATAGAGATCTAACCTTCAGATGTTTATACTG-AGCAGATCCAAGATGATTTGGCATTCTTGTGTT
1 ATAGAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTT
* * *
105588973 TACAAGGAAC-AATCGAGGACATAGCAGATTTGACT-TCATACATTCTCAAAGATAGCAGATCTA
66 TACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAAGATAACAGATCTA
105589036 ACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG-AACA
131 ACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGAAACA
105589100 AATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
196 AATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
*
105589142 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAG-AGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
105589207 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAACAGATCT
65 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAAGATAACAGATCT
*
105589272 AACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAAC
130 AACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGAAAC
105589337 AAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
195 AAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * * *
105589380 ATAGTAGATCTAACCTTCAAATGTTTATACT-AAGCAGATCCAAGATGGTTTGGCATCCTTGTGC
1 ATAG-AGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * *
105589444 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
65 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAA
105589497 CAGACTCAAG
Statistics
Matches: 334, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
233 4 0.01
234 27 0.08
235 42 0.13
236 25 0.07
237 161 0.48
238 75 0.22
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (237 bp):
ATAGAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTT
TACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAAGATAACAGATCTA
ACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGAAACA
AATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
Found at i:105589638 original size:84 final size:83
Alignment explanation
Indices: 105589420--105589689 Score: 461
Period size: 83 Copynumber: 3.2 Consensus size: 83
105589410 TAAGCAGATC
*
105589420 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
105589485 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
105589503 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAG-TCATGACTCTC
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGAT-ATGACTCTC
105589567 AAATGTTCTCAAACAGACT
65 AAATGTTCTCAAACAGACT
* *
105589586 CAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTC
105589651 AAATGTTCTCAAACAGACT
65 AAATGTTCTCAAACAGACT
* * *
105589670 CAGGATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
105589690 ACAAATCGAA
Statistics
Matches: 178, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
82 1 0.01
83 99 0.56
84 77 0.43
85 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:105590092 original size:18 final size:18
Alignment explanation
Indices: 105590069--105590173 Score: 104
Period size: 18 Copynumber: 5.5 Consensus size: 18
105590059 ATGGAAATAT
*
105590069 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTGC
*
105590087 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTGC
*
105590104 AATCTTAGATCTTAGATATGATAC
1 AATCTTAGAT-AT-GAT-TG---C
105590128 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTGC
*
105590146 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TGC
105590165 AATCTTAGA
1 AATCTTAGA
105590174 AGATATGATT
Statistics
Matches: 73, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
17 12 0.16
18 30 0.41
19 13 0.18
21 3 0.04
22 3 0.04
23 1 0.01
24 11 0.15
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTGC
Found at i:105590117 original size:42 final size:42
Alignment explanation
Indices: 105590070--105590155 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 42
105590060 TGGAAATATA
*
105590070 ATCTTAAATATGATTGCAATCTTAGATATGA-TACAATCTTAG
1 ATCTTAAATATGA-TACAATCTTAGATATGATTACAATCTTAG
* *
105590112 ATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAG
1 ATCTTAAATATGATACAATCTTAGATATGATTACAATCTTAG
105590154 AT
1 AT
105590156 ATGATATACA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 16 0.40
42 24 0.60
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (42 bp):
ATCTTAAATATGATACAATCTTAGATATGATTACAATCTTAG
Found at i:105590120 original size:24 final size:24
Alignment explanation
Indices: 105590088--105590137 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
105590078 TATGATTGCA
105590088 ATCTTAGATATGATACAATCTTAG
1 ATCTTAGATATGATACAATCTTAG
105590112 ATCTTAGATATGATACAATCTTAG
1 ATCTTAGATATGATACAATCTTAG
105590136 AT
1 AT
105590138 ATGATTGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (24 bp):
ATCTTAGATATGATACAATCTTAG
Found at i:105590532 original size:7 final size:7
Alignment explanation
Indices: 105590515--105590621 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
105590505 AAATTAGTAA
105590515 ATTAT-T
1 ATTATAT
105590521 ATTATAT
1 ATTATAT
105590528 ATTATAT
1 ATTATAT
105590535 -TT-TA-
1 ATTATAT
105590539 ACTTATAT
1 A-TTATAT
105590547 ATCTTATAT
1 A--TTATAT
*
105590556 ATTTATTT
1 A-TTATAT
105590564 ATT-TAT
1 ATTATAT
*
105590570 ATTATAC
1 ATTATAT
105590577 ATTAT-T
1 ATTATAT
* *
105590583 -TTAAAA
1 ATTATAT
*
105590589 ACTTACAT
1 A-TTATAT
*
105590597 -TTTTAT
1 ATTATAT
105590603 ATTATAT
1 ATTATAT
*
105590610 ATTATAA
1 ATTATAT
105590617 ATTAT
1 ATTAT
105590622 TTCATTTATT
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 35 0.45
8 11 0.14
9 8 0.10
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:105590547 original size:21 final size:21
Alignment explanation
Indices: 105590523--105590575 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
105590513 AAATTATTAT
105590523 TATATATTATAT-TTTAACTTA
1 TATATATTATATATTT-ACTTA
* *
105590544 TATATCTTATATATTTATTTA
1 TATATATTATATATTTACTTA
*
105590565 TTTATATTATA
1 TATATATTATA
105590576 CATTATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TATATATTATATATTTACTTA
Found at i:105590964 original size:3 final size:3
Alignment explanation
Indices: 105590956--105590989 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
105590946 TATGTTACTA
105590956 TAT TAT TAT TAT TAT TAT TAT T-T TAT ATAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
105590990 GTATTTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:105590973 original size:12 final size:11
Alignment explanation
Indices: 105590956--105590994 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
105590946 TATGTTACTA
105590956 TATTATTATTAT
1 TATTATTATT-T
105590968 TATTATTATTT
1 TATTATTATTT
*
105590979 TATATATTATTG
1 TAT-TATTATTT
105590991 TATT
1 TATT
105590995 TGTTTGTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (11 bp):
TATTATTATTT
Found at i:105605672 original size:13 final size:13
Alignment explanation
Indices: 105605654--105605678 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105605644 AGACCGTGTG
105605654 AAGGACACGGGCC
1 AAGGACACGGGCC
105605667 AAGGACACGGGC
1 AAGGACACGGGC
105605679 ATGTGCTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.28, G:0.40, T:0.00
Consensus pattern (13 bp):
AAGGACACGGGCC
Found at i:105621724 original size:43 final size:43
Alignment explanation
Indices: 105621645--105621871 Score: 342
Period size: 42 Copynumber: 5.4 Consensus size: 43
105621635 GATAAATCCC
* * *
105621645 GCAGGCCTAGTGCTGGT-AT-TATATT-GGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
105621685 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
105621728 GCAGGCTTAGTGCC-GTGATGTGTATTC-GGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
105621769 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
105621812 GCAGG-TTCGTGCCGGTGATGTGTATTC-GGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
105621853 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
105621872 AATGATATGT
Statistics
Matches: 174, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
40 15 0.09
41 48 0.28
42 63 0.36
43 48 0.28
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:105622255 original size:45 final size:42
Alignment explanation
Indices: 105622188--105622295 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 42
105622178 TTGACTTGAT
* *
105622188 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
**
105622233 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
105622275 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
105622296 ACAGGCAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 34 0.60
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:105627350 original size:42 final size:43
Alignment explanation
Indices: 105627221--105627449 Score: 360
Period size: 42 Copynumber: 5.4 Consensus size: 43
105627211 GATAAATCCC
* * *
105627221 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
105627262 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
105627305 GCAGGCTTAGTGCCGGTGATGTGTATTC-GGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
105627347 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
105627390 GCAGG-TTCGTGCCGGTGATGTGTATTC-GGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
105627431 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
105627450 AATGATATGT
Statistics
Matches: 177, Mismatches: 7, Indels: 7
0.93 0.04 0.04
Matches are distributed among these distances:
41 34 0.19
42 75 0.42
43 68 0.38
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:105627833 original size:45 final size:42
Alignment explanation
Indices: 105627766--105627873 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 42
105627756 TTGACTTGAT
* *
105627766 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
**
105627811 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
105627853 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
105627874 ACAGGCGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 34 0.60
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:105652240 original size:35 final size:35
Alignment explanation
Indices: 105652140--105652310 Score: 173
Period size: 35 Copynumber: 4.9 Consensus size: 35
105652130 AGGTAAGTAT
* *
105652140 ATGTGAGGTTATATTGAACTTGTGTATTCGATTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGTTAC
*
105652175 ATGTGAGCTTATATTGAACTTGTATATTCGGTTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGTTAC
* ** *
105652210 ATGTGAGGTTATATTGAATTTGTATATTCGGCCAT
1 ATGTGAGGTTATATTGAACTTGTATATTCGGTTAC
* * * ** *
105652245 ATGAGATGTT-TATTTGAACTTGAACCTTAGGTTAC
1 ATGTGAGGTTATA-TTGAACTTGTATATTCGGTTAC
* * * *
105652280 ATGTAATGATATATTGAACTTATATATTCGG
1 ATGTGAGGTTATATTGAACTTGTATATTCGG
105652311 CCATATGAAA
Statistics
Matches: 108, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
34 2 0.02
35 104 0.96
36 2 0.02
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.42
Consensus pattern (35 bp):
ATGTGAGGTTATATTGAACTTGTATATTCGGTTAC
Found at i:105652262 original size:70 final size:70
Alignment explanation
Indices: 105652140--105652318 Score: 198
Period size: 70 Copynumber: 2.6 Consensus size: 70
105652130 AGGTAAGTAT
* *** * * * * *
105652140 ATGTGAGGTTATATTGAACTTGTGTATTCGATTACATGTGAGCTTATATTGAACTTGTATATTCG
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCCATATGAGAGCTTATATTGAACTTGAACATTAG
105652205 GTTAC
66 GTTAC
* * *
105652210 ATGTGAGGTTATATTGAATTTGTATATTCGGCCATATGAGATGTTTAT-TTGAACTTGAACCTTA
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCCATATGAGA-GCTTATATTGAACTTGAACATTA
105652274 GGTTAC
65 GGTTAC
* * * *
105652280 ATGTAATGATATATTGAACTTATATATTCGGCCATATGA
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCCATATGA
105652319 AATAATATAA
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
70 86 0.95
71 5 0.05
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.41
Consensus pattern (70 bp):
ATGTGAGGTTATATTGAACTTGTATATTCGGCCATATGAGAGCTTATATTGAACTTGAACATTAG
GTTAC
Found at i:105677920 original size:40 final size:40
Alignment explanation
Indices: 105677875--105678041 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
105677865 CGGAATATAA
105677875 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
105677915 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
105677955 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
105677995 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
105678034 CCGGATAT
1 CCGGATAT
105678042 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:105685943 original size:38 final size:38
Alignment explanation
Indices: 105685846--105685953 Score: 146
Period size: 39 Copynumber: 2.8 Consensus size: 38
105685836 ATAATCACGT
*
105685846 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAAAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAAACTA
**
105685885 GCACGAATGCCTTCGGGTCTTAGCCCGGATAG-CCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAAACTA
*
105685923 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
105685954 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
37 2 0.03
38 30 0.48
39 31 0.49
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAAAACTA
Found at i:105692479 original size:40 final size:39
Alignment explanation
Indices: 105692314--105692497 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
105692304 AAATTGAATG
* * *
105692314 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
105692354 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
105692394 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
105692434 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
105692473 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
105692498 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:105692522 original size:80 final size:81
Alignment explanation
Indices: 105692354--105692542 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
105692344 GCTGGAAATT
* * * *
105692354 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
105692419 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
105692435 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
105692498 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
105692514 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
105692543 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:105694375 original size:30 final size:30
Alignment explanation
Indices: 105694341--105694400 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
105694331 ATTTAATACG
105694341 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
105694371 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
105694401 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:105697210 original size:13 final size:13
Alignment explanation
Indices: 105697192--105697233 Score: 84
Period size: 13 Copynumber: 3.2 Consensus size: 13
105697182 GGTTGTTTAT
105697192 TAAACTAATTAAC
1 TAAACTAATTAAC
105697205 TAAACTAATTAAC
1 TAAACTAATTAAC
105697218 TAAACTAATTAAC
1 TAAACTAATTAAC
105697231 TAA
1 TAA
105697234 TTAAGCTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:105698216 original size:11 final size:11
Alignment explanation
Indices: 105698184--105698227 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
105698174 ATCTTCTTGA
105698184 TTTGG-TCCTT
1 TTTGGCTCCTT
*
105698194 TTTGTC-CCTT
1 TTTGGCTCCTT
*
105698204 TTTGGCTCGTT
1 TTTGGCTCCTT
105698215 TTTGGCTCCTT
1 TTTGGCTCCTT
105698226 TT
1 TT
105698228 GACTCTTGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
10 13 0.46
11 15 0.54
ACGTcount: A:0.00, C:0.23, G:0.18, T:0.59
Consensus pattern (11 bp):
TTTGGCTCCTT
Found at i:105701975 original size:28 final size:28
Alignment explanation
Indices: 105701942--105702010 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
105701932 GCGTAGATCA
105701942 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
105701970 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
105701998 CGATA-TACCCCTA
1 CGAAATTACCCCTA
105702011 TAGTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:105710949 original size:26 final size:26
Alignment explanation
Indices: 105710913--105710977 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
105710903 GTAGCTCCGG
105710913 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * *
105710939 AGAGCCTTTAATCAGGAAGGTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
105710965 AGAGCCATATAAT
1 AGAGCCAT-TAAT
105710978 GGGATGCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 30 0.88
27 4 0.12
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:105711547 original size:12 final size:12
Alignment explanation
Indices: 105711530--105711554 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
105711520 AAATTAATGC
105711530 AATTTAATCCTT
1 AATTTAATCCTT
105711542 AATTTAATCCTT
1 AATTTAATCCTT
105711554 A
1 A
105711555 TTCCAAGCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTTAATCCTT
Found at i:105717413 original size:43 final size:43
Alignment explanation
Indices: 105717351--105717501 Score: 205
Period size: 43 Copynumber: 3.5 Consensus size: 43
105717341 ACGGTACTAT
105717351 TCGGGCCTTCGAGCCTAGCAGGCTATAATGTCGGTGAGTTAATA
1 TCGGG-CTTCGAGCCTAGCAGGCTATAATGTCGGTGAGTTAATA
* *
105717395 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGATGAGTTAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGTCGGTGAGTTAATA
* * * *
105717438 TTGAGCTTCGAACCTAGCAGGCTATAATGAT-GGTGATTTAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATG-TCGGTGAGTTAATA
**
105717481 TTAGGCTTCGAGCCTAGCAGG
1 TCGGGCTTCGAGCCTAGCAGG
105717502 AGTAATACCA
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
43 90 0.95
44 5 0.05
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATGTCGGTGAGTTAATA
Found at i:105724575 original size:43 final size:43
Alignment explanation
Indices: 105724513--105724677 Score: 251
Period size: 43 Copynumber: 3.8 Consensus size: 43
105724503 ATGGTACTAT
* *
105724513 TCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGTTAATA
1 TCGGG-CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
*
105724557 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTAAGTTAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
* *
105724600 TCGAGCTTCGAACCTAGCAGGCTATAATGCCGGTGAGTTAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
* *
105724643 TCAGGCTTCGAGCCTAGCAGGC-GTAATGCCGGTGA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
105724678 ATGAGTTTAG
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 12 0.11
43 94 0.85
44 5 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
Found at i:105724754 original size:40 final size:40
Alignment explanation
Indices: 105724610--105724759 Score: 115
Period size: 40 Copynumber: 3.6 Consensus size: 40
105724600 TCGAGCTTCG
* * * **
105724610 AACCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCTTCG
1 AACCTAGCAGGC-GTAATGCCGGTGA-TGAAT-TCAGGATTTA
* * * *
105724653 AGCCTAGCAGGCGTAATGCCGGTGAATGAGTTTA-GACTTA
1 AACCTAGCAGGCGTAATGCCGGTG-ATGAATTCAGGATTTA
* * * *
105724693 AAGTCTAGCAGGCTTCATGCCGGTGATGAATTCAGGTTTTA
1 AA-CCTAGCAGGCGTAATGCCGGTGATGAATTCAGGATTTA
105724734 AACCTAGCAGGC-TAATTGCCGGTGAT
1 AACCTAGCAGGCGTAA-TGCCGGTGAT
105724760 TTGATATAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 11
0.74 0.17 0.10
Matches are distributed among these distances:
39 2 0.02
40 29 0.35
41 27 0.32
42 14 0.17
43 12 0.14
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (40 bp):
AACCTAGCAGGCGTAATGCCGGTGATGAATTCAGGATTTA
Found at i:105725273 original size:16 final size:18
Alignment explanation
Indices: 105725242--105725274 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
105725232 AACTCGTCAC
105725242 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
105725260 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
105725275 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:105726859 original size:24 final size:24
Alignment explanation
Indices: 105726827--105726897 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
105726817 AAGAATTTAG
* *
105726827 TCAAGATCATTCATATATTTTCAA
1 TCAAGATCATTCATGTATATTCAA
105726851 TCAAGATCATTCATGTATATTCAA
1 TCAAGATCATTCATGTATATTCAA
*
105726875 TCAAAATCATTCATGTATATTCA
1 TCAAGATCATTCATGTATATTCA
105726898 CATAATTCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (24 bp):
TCAAGATCATTCATGTATATTCAA
Found at i:105727046 original size:20 final size:21
Alignment explanation
Indices: 105727021--105727076 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
105727011 TGCTATACGA
105727021 AGGCACCG-TAGTGCAAGT-AG
1 AGGCACCGATAGTGCAA-TCAG
*
105727041 AGGCA-CGATTGTGCAATCAG
1 AGGCACCGATAGTGCAATCAG
*
105727061 AGGCACC-AAAGTGCAA
1 AGGCACCGATAGTGCAA
105727077 ACGATTGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 3 0.10
20 26 0.87
21 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.30, T:0.14
Consensus pattern (21 bp):
AGGCACCGATAGTGCAATCAG
Found at i:105727095 original size:30 final size:31
Alignment explanation
Indices: 105727045--105727108 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
105727035 AAGTAGAGGC
*
105727045 ACGATTGTGCAATCAGAGGCACCAAAGTGCAA
1 ACGATTGT-CAATCAAAGGCACCAAAGTGCAA
*
105727077 ACGATTGT-AATCAAAGGCACTAAAGTGCAA
1 ACGATTGTCAATCAAAGGCACCAAAGTGCAA
105727107 AC
1 AC
105727109 CCGTACAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 22 0.73
32 8 0.27
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (31 bp):
ACGATTGTCAATCAAAGGCACCAAAGTGCAA
Found at i:105728592 original size:25 final size:25
Alignment explanation
Indices: 105728561--105728610 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
105728551 GTATCCAAGC
105728561 ATAAAAAATAAGAGAAAATTTTCAA
1 ATAAAAAATAAGAGAAAATTTTCAA
105728586 ATAAAAAATAAGAGAAAATTTTCAA
1 ATAAAAAATAAGAGAAAATTTTCAA
105728611 TTTCTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.24
Consensus pattern (25 bp):
ATAAAAAATAAGAGAAAATTTTCAA
Found at i:105737007 original size:22 final size:22
Alignment explanation
Indices: 105736979--105737023 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
105736969 TTATGTAAGT
*
105736979 TTTATTTGTTTATTTATTTTTC
1 TTTATTTCTTTATTTATTTTTC
*
105737001 TTTATTTCTTTATTTGTTTTTC
1 TTTATTTCTTTATTTATTTTTC
105737023 T
1 T
105737024 AGAACGGTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.07, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTATTTCTTTATTTATTTTTC
Found at i:105739938 original size:123 final size:125
Alignment explanation
Indices: 105739791--105740103 Score: 436
Period size: 123 Copynumber: 2.5 Consensus size: 125
105739781 AGTCCAACGA
* * * *
105739791 AAAACCGAAACCTAGCACGGTAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGC
1 AAAATCGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTAC
*
105739856 TTTAGAATTT-ATAAAACACGAGTGAAATTCTAAAGGAATATTCAATTA-TTT-CAAACCG
66 TTTAGAATTTGA-AAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTTACAAACAG
* * * *
105739914 GAAATCGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACGTTGAACATTGCCTCAT
1 AAAATCGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTAC
*
105739979 TTTAGAATTTGAAAAACACGAGTGAAATTCTAAAGGAATATTCTATTATTTTGAACAAACAG
66 TTTAGAATTTGAAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTT--ACAAACAG
* * **
105740041 AAAATCGAAACCCAGCACGATAAGGCACGATTCC-CTGAATTTTCAAACATCAAACATTGCCTT
1 AAAATCGAAACCCAGCACGATAGGGCACGATTCCTC-GAATTTCCAAACATTGAACATTGCCTT
105740104 CGTTTTAAGG
Statistics
Matches: 167, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
123 102 0.61
124 4 0.02
126 1 0.01
127 60 0.36
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (125 bp):
AAAATCGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTAC
TTTAGAATTTGAAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTTACAAACAG
Found at i:105743937 original size:29 final size:30
Alignment explanation
Indices: 105743880--105743947 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
105743870 CACCCTTAAA
* * * *
105743880 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTC
*
105743910 ATATTTACACT-TTAATCCCTCAAATTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTC
105743939 AGTATTTAC
1 A-TATTTAC
105743948 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCCTCAAATTTTC
Found at i:105745355 original size:46 final size:45
Alignment explanation
Indices: 105745281--105745489 Score: 192
Period size: 46 Copynumber: 4.6 Consensus size: 45
105745271 CAACTCCTCC
* * * *
105745281 ACTGCAACTTCAGGGAGATACGATTTGTGTATTTTTATCCTGTTCT
1 ACTGCAACTTCAGAGAGATAAGA-TTGTGTAATTTTATCCTGCTCT
** ** * *
105745327 ACTGCAACTTCAGAGAGATAAGGATTGTG-GCTTCGAT-CTACTCC
1 ACTGCAACTTCAGAGAGATAA-GATTGTGTAATTTTATCCTGCTCT
* * * *
105745371 ACTGCAACTTCAG-GAGATAAGATCTG-CTAACTTCAGCCTGCTCT
1 ACTGCAACTTCAGAGAGATAAGAT-TGTGTAATTTTATCCTGCTCT
* *
105745415 ACTGCAACTTCAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCT
1 ACTGCAACTTCAGAGAGATAAGA-TTGTGTAATTTTATCCTGCTCT
*
105745461 ACTGCAACTTCAGAGAAATAAGGATTGTG
1 ACTGCAACTTCAGAGAGATAA-GATTGTG
105745490 GCTTCGATTT
Statistics
Matches: 130, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
42 3 0.02
43 11 0.08
44 35 0.27
45 15 0.12
46 62 0.48
47 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (45 bp):
ACTGCAACTTCAGAGAGATAAGATTGTGTAATTTTATCCTGCTCT
Found at i:105745419 original size:44 final size:44
Alignment explanation
Indices: 105745319--105745482 Score: 147
Period size: 44 Copynumber: 3.7 Consensus size: 44
105745309 GTATTTTTAT
* **
105745319 CCTGTTCTACTGCAACTTCAGAGAGATAAGGAT-TGTGGCTTC-G
1 CCTGCTCTACTGCAACTTCAGAGAGATAA-GATCTGTAACTTCAG
* * *
105745362 ATCTACTCCACTGCAACTTCAG-GAGATAAGATCTGCTAACTTCAG
1 -CCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG-TAACTTCAG
* * * *
105745407 CCTGCTCTACTGCAACTTCAGGGAGATAAGA-CTTGGGTAATTTTAT
1 CCTGCTCTACTGCAACTTCAGAGAGATAAGATC-T--GTAACTTCAG
*
105745453 CCTGCTCTACTGCAACTTCAGAGAAATAAG
1 CCTGCTCTACTGCAACTTCAGAGAGATAAG
105745483 GATTGTGGCT
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
42 3 0.03
43 9 0.09
44 41 0.41
45 11 0.11
46 34 0.34
47 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAACTTCAG
Found at i:105745505 original size:134 final size:135
Alignment explanation
Indices: 105745277--105745576 Score: 431
Period size: 134 Copynumber: 2.2 Consensus size: 135
105745267 ACTACAACTC
* * * * *
105745277 CTCCACTGCAACTTCAGGGAGATACGATTTGTGTATTTTTATCCTGTTCTACTGCAACTTCAGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCTACTGCAACTTCAGAG
* *
105745342 AGATAAGGATTGTGGCTTCGATCTACTCCACTGCAACTTCA-GGAGATAAGATCTGCTAACTTCA
66 AAATAAGGATTGTGGCTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATCTGCTAACTTCA
105745406 GCCTG
131 GCCTG
*
105745411 CTCTACTGCAACTTCAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCTACTGCAACTTCAGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCTACTGCAACTTCAGAG
* * * *
105745476 AAATAAGGATTGTGGCTTCGATTTGCTCCATTGCAACTTCAGGGAGACAAGATCTGCTATCTTCA
66 AAATAAGGATTGTGGCTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATCTGCTAACTTCA
* *
105745541 GTCTT
131 GCCTG
* * * *
105745546 TTCCACTACAACTTCAGGAAGATGAGACTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG
105745577 CTACTTCAAC
Statistics
Matches: 146, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
134 96 0.66
135 50 0.34
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (135 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCTACTGCAACTTCAGAG
AAATAAGGATTGTGGCTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATCTGCTAACTTCA
GCCTG
Found at i:105748371 original size:39 final size:39
Alignment explanation
Indices: 105748324--105748506 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
105748314 AATGTTCGAG
105748324 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
105748363 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGTGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
105748402 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
105748441 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
105748481 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
105748507 GTTTGAACGA
Statistics
Matches: 124, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 86 0.69
40 38 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:105755796 original size:39 final size:39
Alignment explanation
Indices: 105755749--105755931 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
105755739 AATGTTCGAG
105755749 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
105755788 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
105755827 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
105755866 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
105755906 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
105755932 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:105760820 original size:20 final size:19
Alignment explanation
Indices: 105760795--105760840 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
105760785 ATTGGGCCTT
105760795 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTT-G
* **
105760815 GCCCATTTTAATGCAGTTG
1 GCCCATATTAACACAGTTG
105760834 GCCCATA
1 GCCCATA
105760841 ACAAAACAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (19 bp):
GCCCATATTAACACAGTTG
Found at i:105771390 original size:127 final size:124
Alignment explanation
Indices: 105771079--105771406 Score: 432
Period size: 123 Copynumber: 2.6 Consensus size: 124
105771069 GTCCAACAAA
* * * *
105771079 AAATCGAAACCCAGCATGGTAGGGCACAATTCCTCGAATTTCCAAACATTGAACATTGCCTTGCT
1 AAATCGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGTT
105771144 TTAGAATTT-ATAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTCAAACCGG
66 TTAGAATTTGATAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTCAAACCGG
105771202 AAATCGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAA-AGTTGAACATTGCCTTGT
1 AAATCGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACA-TTGAACATTGCCTTGT
*
105771266 TTTAGAATTTGA-AAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTTGAACAAA-TGAG
65 TTTAGAATTTGATAAAACACGAGTGAAATTCTAAAGGAATATTCAATTA-TTT---CAAACCG-G
* * * * **
105771329 ATATCGAAACTCAGCACGATAGGGTACGATTCC-CCATATTTCCAAACATCAAACATTGCCTTCG
1 AAATCGAAACCCAGCACGATAGGGCACGATTCCTCGA-ATTTCCAAACATTGAACATTGCCTT-G
105771393 TTTTAAGGAATTTG
64 TTTT-A-GAATTTG
105771407 CAGACGAATA
Statistics
Matches: 182, Mismatches: 11, Indels: 17
0.87 0.05 0.08
Matches are distributed among these distances:
122 1 0.01
123 104 0.57
124 4 0.02
126 3 0.02
127 56 0.31
128 6 0.03
129 1 0.01
130 7 0.04
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (124 bp):
AAATCGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGTT
TTAGAATTTGATAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTCAAACCGG
Found at i:105775098 original size:9 final size:9
Alignment explanation
Indices: 105775084--105775318 Score: 78
Period size: 10 Copynumber: 23.9 Consensus size: 9
105775074 ATTTTATTAC
105775084 ATTTTTATA
1 ATTTTTATA
105775093 ATTTTTATA
1 ATTTTTATA
105775102 ACTTTTTAATA
1 A-TTTTT-ATA
* *
105775113 CTTTTAATA
1 ATTTTTATA
105775122 AGTTTTTATA
1 A-TTTTTATA
*
105775132 ACTTTCTAAAATAA
1 A-TTT-T--TAT-A
*
105775146 ATTTATATA
1 ATTTTTATA
*
105775155 TATTTATATA
1 -ATTTTTATA
105775165 ATTTCTTAT-
1 ATTT-TTATA
* *
105775174 AGTTTTATT
1 ATTTTTATA
*
105775183 TTATTTTATA
1 AT-TTTTATA
* *
105775193 AGTTCTATA
1 ATTTTTATA
*
105775202 ATTTTATATT
1 ATTTT-TATA
*
105775212 ATTTATATA
1 ATTTTTATA
*
105775221 ATAGTTTGATA
1 AT--TTTTATA
*
105775232 TCTTTTTCATAA
1 -ATTTTT-AT-A
* *
105775244 CATATTAATA
1 -ATTTTTATA
105775254 ATATTTTATA
1 AT-TTTTATA
105775264 ATTTTTATA
1 ATTTTTATA
105775273 ATTTTT-TA
1 ATTTTTATA
*
105775281 ATATTTAATA
1 AT-TTTTATA
**
105775291 ACATTTATA
1 ATTTTTATA
*
105775300 GTTTTTCTATA
1 -ATTTT-TATA
105775311 ATTTTTAT
1 ATTTTTAT
105775319 TTTTTCCAAG
Statistics
Matches: 165, Mismatches: 39, Indels: 44
0.67 0.16 0.18
Matches are distributed among these distances:
8 8 0.05
9 61 0.37
10 67 0.41
11 17 0.10
12 5 0.03
13 5 0.03
14 2 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (9 bp):
ATTTTTATA
Found at i:105775098 original size:10 final size:10
Alignment explanation
Indices: 105775075--105775136 Score: 65
Period size: 10 Copynumber: 6.2 Consensus size: 10
105775065 TTTTCTACAA
*
105775075 TTTTATTACAT
1 TTTTATAAC-T
105775086 TTTTATAA-T
1 TTTTATAACT
105775095 TTTTATAACT
1 TTTTATAACT
105775105 TTTTA-ATACT
1 TTTTATA-ACT
* *
105775115 TTTAATAAGT
1 TTTTATAACT
105775125 TTTTATAACT
1 TTTTATAACT
105775135 TT
1 TT
105775137 CTAAAATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 10 0.23
10 25 0.58
11 8 0.19
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (10 bp):
TTTTATAACT
Found at i:105775220 original size:28 final size:29
Alignment explanation
Indices: 105775142--105775221 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 29
105775132 ACTTTCTAAA
* *
105775142 ATAAATTTATATATATTTATATAATTTCTT
1 ATAATTTTATAT-TATTTATATAAGTTCTT
* *
105775172 ATAGTTTTATTTTATTT-TATAAGTTC-T
1 ATAATTTTATATTATTTATATAAGTTCTT
105775199 ATAATTTTATATTATTTATATAA
1 ATAATTTTATATTATTTATATAA
105775222 TAGTTTGATA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
27 16 0.37
28 13 0.30
29 5 0.12
30 9 0.21
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (29 bp):
ATAATTTTATATTATTTATATAAGTTCTT
Found at i:105775291 original size:27 final size:27
Alignment explanation
Indices: 105775252--105775305 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
105775242 AACATATTAA
* **
105775252 TAATATTTTATAATTTTTATAATTTTT
1 TAATATTTAATAACATTTATAATTTTT
*
105775279 TAATATTTAATAACATTTATAGTTTTT
1 TAATATTTAATAACATTTATAATTTTT
105775306 CTATAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (27 bp):
TAATATTTAATAACATTTATAATTTTT
Found at i:105777875 original size:16 final size:16
Alignment explanation
Indices: 105777850--105777905 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
105777840 TTATTTATAT
*
105777850 TTATTCATATAATAAA
1 TTATTAATATAATAAA
105777866 TTATTAATATAATAAA
1 TTATTAATATAATAAA
105777882 TTATT--T-TAATAAA
1 TTATTAATATAATAAA
105777895 TTATTTAATAT
1 TTA-TTAATAT
105777906 TTAAATTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
13 10 0.29
14 3 0.09
16 21 0.60
17 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATTAATATAATAAA
Found at i:105777910 original size:16 final size:16
Alignment explanation
Indices: 105777856--105777912 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
105777846 ATATTTATTC
105777856 ATATAATAAATTA-TTA
1 ATAT-ATAAATTATTTA
105777872 ATATAATAAATTATTT-
1 ATAT-ATAAATTATTTA
105777888 -TA-ATAAATTATTTA
1 ATATATAAATTATTTA
*
105777902 ATATTTAAATT
1 ATATATAAATT
105777913 TTATTTTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 11 0.31
15 4 0.11
16 19 0.53
17 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATATAAATTATTTA
Done.