Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 78 of 253
Found at i:23471562 original size:28 final size:28
Alignment explanation
Indices: 23471496--23471623 Score: 184
Period size: 28 Copynumber: 4.5 Consensus size: 28
23471486 CATGAGATTG
* **
23471496 GCACTAAGTGTGCGAGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
23471525 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
23471553 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
23471582 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
23471610 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
23471624 GACTTACTAT
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
28 45 0.50
29 45 0.50
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:23471585 original size:57 final size:57
Alignment explanation
Indices: 23471496--23471623 Score: 195
Period size: 57 Copynumber: 2.2 Consensus size: 57
23471486 CATGAGATTG
23471496 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
23471553 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
23471610 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
23471624 GACTTACTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
57 62 0.95
58 3 0.05
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:23480567 original size:21 final size:21
Alignment explanation
Indices: 23480526--23480583 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
23480516 ATATTGTTAT
* *
23480526 ACATGATATGAC-ATAATATGC
1 ACATGATATG-CTATGAGATGC
* *
23480547 ATATGATATGTTATGAGATGC
1 ACATGATATGCTATGAGATGC
23480568 ACATGATATGCTATGA
1 ACATGATATGCTATGA
23480584 TATACTCATT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
ACATGATATGCTATGAGATGC
Found at i:23483707 original size:27 final size:27
Alignment explanation
Indices: 23483677--23483854 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23483667 ATATTGAGTC
* * * *
23483677 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
23483704 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23483731 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
23483759 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
23483786 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
23483813 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23483840 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23483855 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:23483816 original size:82 final size:81
Alignment explanation
Indices: 23483698--23483853 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23483688 TGCTATATAA
* *
23483698 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
23483763 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
23483780 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
23483844 CACTTAGTGC
65 CACTTAGTGC
23483854 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:23491902 original size:27 final size:27
Alignment explanation
Indices: 23491872--23492049 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23491862 ATATTGAGTC
* * * *
23491872 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
23491899 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23491926 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
23491954 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
23491981 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
23492008 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23492035 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23492050 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:23492011 original size:82 final size:81
Alignment explanation
Indices: 23491893--23492048 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23491883 TGCTATATAA
* *
23491893 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
23491958 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
23491975 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
23492039 CACTTAGTGC
65 CACTTAGTGC
23492049 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:23494511 original size:39 final size:38
Alignment explanation
Indices: 23494468--23494551 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 38
23494458 TGAAAACAAG
23494468 TATTAATGATGTTCAAACTATGACATAATCAAAGACCCA
1 TATTAATGATGTTCAAACTATGACATAATCAAA-ACCCA
* * * * *
23494507 TATTAATGATGTTTAGATTATGACATAATTAAAACTCA
1 TATTAATGATGTTCAAACTATGACATAATCAAAACCCA
23494545 TATTAAT
1 TATTAAT
23494552 TGTAACACCC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 11 0.28
39 29 0.73
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (38 bp):
TATTAATGATGTTCAAACTATGACATAATCAAAACCCA
Found at i:23496308 original size:37 final size:37
Alignment explanation
Indices: 23496249--23496349 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
23496239 AGCTCAGACG
* *
23496249 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
23496286 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
23496323 TAATCTCCACACGTAGTCATC-GGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
23496350 TAGAGCTCGG
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
36 6 0.10
37 55 0.90
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:23496546 original size:47 final size:47
Alignment explanation
Indices: 23496468--23497158 Score: 1139
Period size: 47 Copynumber: 14.6 Consensus size: 47
23496458 CCCTTCGGGA
* * * * * *
23496468 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23496515 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23496562 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23496609 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23496656 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23496703 CTTATCAAATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23496750 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23496797 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23496844 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23496891 CTTATCACATATATATAGACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23496940 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23496987 CTTATCACATATATATACACTTTCACATTCATTACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23497036 CTTATGACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23497083 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23497132 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
23497159 TATTCAAATA
Statistics
Matches: 606, Mismatches: 32, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
47 472 0.78
49 134 0.22
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23500408 original size:49 final size:49
Alignment explanation
Indices: 23500336--23500466 Score: 167
Period size: 49 Copynumber: 2.7 Consensus size: 49
23500326 ACATCAAAGT
* * *
23500336 CGATGCCATGTCTCAGGCAGGTCTTACACTGACTTTCATATATCGAG-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGC
* * * *
23500385 CGATGTCGTGTCCCAGACAGGTCTTACACT-AGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCGGTGC
23500434 CGATGCCATGTCCCAGACAGGTCTTACACTGAC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGAC
23500467 ACACAACAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 2 0.03
49 67 0.96
50 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:23511380 original size:37 final size:37
Alignment explanation
Indices: 23511339--23511425 Score: 138
Period size: 37 Copynumber: 2.4 Consensus size: 37
23511329 AAAGTTATCA
*
23511339 GGTCTTACCCGGACAAAATCTCCACACGTAGCCATTG
1 GGTCTTACCCGGACAAAATCTCCACACGTAGCCATCG
** *
23511376 GGTCTTACCCGGACCTAATCTCCACACGTAGTCATCG
1 GGTCTTACCCGGACAAAATCTCCACACGTAGCCATCG
23511413 GGTCTTACCCGGA
1 GGTCTTACCCGGA
23511426 ATATATTTCC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (37 bp):
GGTCTTACCCGGACAAAATCTCCACACGTAGCCATCG
Found at i:23511710 original size:50 final size:50
Alignment explanation
Indices: 23511575--23511721 Score: 226
Period size: 50 Copynumber: 3.0 Consensus size: 50
23511565 CATCGCCTAC
* *
23511575 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATGCATATCTCATATAT
23511625 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
* * *
23511675 ATATTTCACATTGACCATTCGACTTTACCATATATGCATGT-TCATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAT
23511722 TCACCACATT
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
49 6 0.07
50 84 0.92
51 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (50 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
Found at i:23511738 original size:45 final size:47
Alignment explanation
Indices: 23511680--23511824 Score: 188
Period size: 47 Copynumber: 3.1 Consensus size: 47
23511670 TATATATATT
* * * *
23511680 TCACATTGACCATTCGACTTTA-C-CATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCA
* *
23511725 CCACATTGGCCATTCGGCCTTACCACACATATGCATGCTT-ACATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATG-TTCACATTCA
* *
23511772 TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCA
23511819 TCACAT
1 TCACAT
23511825 AAAATCCTAA
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
45 18 0.21
46 3 0.03
47 63 0.73
48 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCA
Found at i:23516057 original size:39 final size:40
Alignment explanation
Indices: 23515947--23516252 Score: 525
Period size: 39 Copynumber: 7.8 Consensus size: 40
23515937 CCAGCATGAT
* * *
23515947 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
23515987 TGCTC-TCGGGACTTAG-CCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
23516025 TGCTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
23516064 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
23516104 TGCTCTTC-GGACTTAGCCCGGATATA-CACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
23516142 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
23516182 TGCTCTTCGGGACTTAGCCC-GATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
23516221 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
23516253 CTCAATTCTC
Statistics
Matches: 253, Mismatches: 7, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
38 52 0.21
39 115 0.45
40 86 0.34
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:23516108 original size:79 final size:80
Alignment explanation
Indices: 23515947--23516252 Score: 525
Period size: 79 Copynumber: 3.9 Consensus size: 80
23515937 CCAGCATGAT
* * *
23515947 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTC-TCGGGACTTAG-CCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
23516010 CATCACTAGCACGAA
66 CATCACTAGCACGAA
23516025 TGCTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
23516089 CATCACTAGCACGAA
66 CATCACTAGCACGAA
23516104 TGCTCTTC-GGACTTAGCCCGGATATA-CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
23516167 TATCACTAGCACGAA
66 CATCACTAGCACGAA
23516182 TGCTCTTCGGGACTTAGCCC-GATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
23516246 TATCACT
66 CATCACT
23516253 CTCAATTCTC
Statistics
Matches: 220, Mismatches: 4, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
77 33 0.15
78 84 0.38
79 103 0.47
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (80 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
CATCACTAGCACGAA
Found at i:23517579 original size:37 final size:37
Alignment explanation
Indices: 23517520--23517591 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
23517510 AGCTCAGACG
*
23517520 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
23517557 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
23517592 ATATATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:23517795 original size:48 final size:49
Alignment explanation
Indices: 23517741--23517873 Score: 216
Period size: 48 Copynumber: 2.7 Consensus size: 49
23517731 CATCGCCTAC
*
23517741 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTC-ATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATACATATCTCAATAT
*
23517789 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCA-ATAT
23517839 ATATTTCACATTGACCATTCGGCTTTACCACATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATAT
23517874 GCATGTTCAT
Statistics
Matches: 80, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
48 40 0.50
49 1 0.01
50 39 0.49
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.37
Consensus pattern (49 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCAATAT
Found at i:23517857 original size:98 final size:97
Alignment explanation
Indices: 23517741--23517924 Score: 241
Period size: 98 Copynumber: 1.9 Consensus size: 97
23517731 CATCGCCTAC
*
23517741 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT-ATTTCACATTGACC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT-TCATAT-TCA--CCACATTGACC
*
23517805 ATTCGGCTTTA-C-CACATATGCATATCTCATATAT
62 ATTCGGCCTTATCACACATATGCATATCTCATATAT
* * * *
23517839 ATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATGTTCATATTCACCACATTGGCCATT
1 ATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATTCATATTCACCACATTGACCATT
23517903 CGGCCTTATCACACATATGCAT
65 CGGCCTTATCACACATATGCAT
23517925 GCTCACATTC
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
95 19 0.25
96 2 0.03
97 20 0.26
98 35 0.46
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (97 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATTCATATTCACCACATTGACCATTC
GGCCTTATCACACATATGCATATCTCATATAT
Found at i:23517860 original size:50 final size:50
Alignment explanation
Indices: 23517741--23517885 Score: 226
Period size: 50 Copynumber: 3.0 Consensus size: 50
23517731 CATCGCCTAC
* *
23517741 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTC--ATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATGCATATCTCATATAT
23517789 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
*
23517839 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATGT-TCATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAT
23517886 TCACCACATT
Statistics
Matches: 91, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
48 40 0.44
49 7 0.08
50 44 0.48
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
Found at i:23517935 original size:47 final size:47
Alignment explanation
Indices: 23517844--23517988 Score: 222
Period size: 47 Copynumber: 3.1 Consensus size: 47
23517834 TATATATATT
* * *
23517844 TCACATTGACCATTCGGCTTTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* *
23517889 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
23517936 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
23517983 TCACAT
1 TCACAT
23517989 AAAATCCTAA
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 19 0.21
46 1 0.01
47 70 0.78
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:23518653 original size:47 final size:47
Alignment explanation
Indices: 23518584--23518678 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
23518574 TCTATTTGAT
23518584 TTCATTTGCAACTAGACTCATTAAGGAGTCTAAGCATATAAATCTTA
1 TTCATTTGCAACTAGACTCATTAAGGAGTCTAAGCATATAAATCTTA
23518631 TTCATTTGCAACTAGACTCATTAAGGAGTCTAAGCATATAAATCTTA
1 TTCATTTGCAACTAGACTCATTAAGGAGTCTAAGCATATAAATCTTA
23518678 T
1 T
23518679 CTTATAACCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.35
Consensus pattern (47 bp):
TTCATTTGCAACTAGACTCATTAAGGAGTCTAAGCATATAAATCTTA
Found at i:23521456 original size:49 final size:49
Alignment explanation
Indices: 23521398--23521530 Score: 158
Period size: 49 Copynumber: 2.7 Consensus size: 49
23521388 GCACATCAAA
* * *
23521398 GTCGATGCCATGTCCCAGACTGGTCTTACACTGACTTTCATATATCGAG
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGAG
* * * * *
23521447 GTCGATGCCATGTCCTAGACAGGTCTTACATTGGCTCTCATCTATCTAT
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGAG
* * * *
23521496 GACAATGCTAGGTCCTAGACAGGTCTTACACTGAC
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTGAC
23521531 ACACAACAAG
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (49 bp):
GTCGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGAG
Found at i:23521621 original size:48 final size:47
Alignment explanation
Indices: 23521549--23521716 Score: 162
Period size: 48 Copynumber: 3.6 Consensus size: 47
23521539 AGCTGACACT
* *
23521549 ATGTCCCAA-ACAGGTCTTACACTAGCTTGTATATCTCGAGGTCGGTGC
1 ATGT-CCAAGACATGTCTTACACTAGCTTGTATATCTCGAGG-CGATGC
* * * *
23521597 ATGTCCAAGACATGTCGTACACTAGC-TCTA-ATCTCAATGCCGATGC
1 ATGTCCAAGACATGTCTTACACTAGCTTGTATATCTCGA-GGCGATGC
* * * * *
23521643 ATATCCCAGACATGTCTTACACTGGCTTGCATCTCTCGAGGCTGATGC
1 ATGTCCAAGACATGTCTTACACTAGCTTGTATATCTCGAGGC-GATGC
* *
23521691 ATGTCCCAGACATGTCTTATACTAGC
1 ATGTCCAAGACATGTCTTACACTAGC
23521717 ACACATATCA
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
46 33 0.34
47 12 0.12
48 52 0.54
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (47 bp):
ATGTCCAAGACATGTCTTACACTAGCTTGTATATCTCGAGGCGATGC
Found at i:23522104 original size:30 final size:30
Alignment explanation
Indices: 23522048--23522105 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
23522038 AAATTCACAT
* *
23522048 TTTTGGCAAAATGTCCATTTTTCCCTAGAC
1 TTTTGGCAAAATGACCATTTTCCCCTAGAC
23522078 TTTT-GCAAAATGACCATTTTACCCCTAG
1 TTTTGGCAAAATGACCATTTT-CCCCTAG
23522106 GCTCGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (30 bp):
TTTTGGCAAAATGACCATTTTCCCCTAGAC
Found at i:23527023 original size:25 final size:25
Alignment explanation
Indices: 23526994--23527041 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
23526984 TATTAGCTCA
23526994 ATTTTTATTATTTCATTTAACAATT
1 ATTTTTATTATTTCATTTAACAATT
23527019 ATTTTTATTATTTCATTTAACAA
1 ATTTTTATTATTTCATTTAACAA
23527042 AATCTTGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTTATTATTTCATTTAACAATT
Found at i:23528605 original size:34 final size:35
Alignment explanation
Indices: 23528540--23528605 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
23528530 TTTAATTGTT
*
23528540 ATTAATTTATTATTTTAAATTTTAAATTTAAATTC
1 ATTAATTTATTATTTTAAATTTTAAAGTTAAATTC
*
23528575 ATTAATTT-TTATATTT-AGTTTTAAAGTTAAA
1 ATTAATTTATTAT-TTTAAATTTTAAAGTTAAA
23528606 ACTTTCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 17 0.61
35 11 0.39
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (35 bp):
ATTAATTTATTATTTTAAATTTTAAAGTTAAATTC
Found at i:23529008 original size:9 final size:9
Alignment explanation
Indices: 23528991--23529065 Score: 66
Period size: 9 Copynumber: 8.6 Consensus size: 9
23528981 AACTTTGGAT
*
23528991 CATAGCTTA
1 CATAACTTA
23529000 CATAACTTA
1 CATAACTTA
23529009 CATAACTTA
1 CATAACTTA
*
23529018 TATAA--TA
1 CATAACTTA
*
23529025 CATAA-ATA
1 CATAACTTA
* * *
23529033 TATATCATA
1 CATAACTTA
23529042 TCATAACTTA
1 -CATAACTTA
23529052 CATAACTTA
1 CATAACTTA
23529061 CATAA
1 CATAA
23529066 ATATATATCA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
7 6 0.11
8 5 0.09
9 38 0.69
10 6 0.11
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:23529054 original size:43 final size:36
Alignment explanation
Indices: 23529009--23529092 Score: 136
Period size: 36 Copynumber: 2.4 Consensus size: 36
23528999 ACATAACTTA
*
23529009 CATAACTTATATAA--TACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAAATATATATCATAT
23529043 CATAACTTACATAACTTACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAAATATATATCATAT
*
23529079 CATCACTTACATAA
1 CATAACTTACATAA
23529093 AACTTTGGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 13 0.28
36 33 0.72
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (36 bp):
CATAACTTACATAACTTACATAAATATATATCATAT
Found at i:23536062 original size:21 final size:20
Alignment explanation
Indices: 23536034--23536073 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
23536024 CAAAACTTGT
23536034 ATAACTATCATCAATCATTC
1 ATAACTATCATCAATCATTC
23536054 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAATCATT
23536074 AAAATACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAACTATCATCAATCATTC
Found at i:23539959 original size:21 final size:20
Alignment explanation
Indices: 23539935--23539974 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
23539925 CATGTATTTT
23539935 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
23539956 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
23539975 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:23539982 original size:20 final size:21
Alignment explanation
Indices: 23539940--23539982 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23539930 ATTTTAATGA
*
23539940 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
23539961 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
23539981 TT
1 TT
23539983 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:23545757 original size:41 final size:41
Alignment explanation
Indices: 23545687--23545991 Score: 171
Period size: 43 Copynumber: 7.2 Consensus size: 41
23545677 TCTACTAAAG
* * *
23545687 TTAGTGGCGTTTGTGGGGAAAGTGTCGCTAGGTCATGTTCT
1 TTAGTGGCGTTTGTGGGGAAAGCGCCGCTAGGCCATGTTCT
* * *
23545728 CTAGTGGCGTTTGTGGGGAAAGCACCGCTAAAGACCATGTTCT
1 TTAGTGGCGTTTGTGGGGAAAGCGCCGCT--AGGCCATGTTCT
** * ** * * *
23545771 TTAGCAGCGTTTGTGGGAAAAATGCTGCTAGGTCATGCTCT
1 TTAGTGGCGTTTGTGGGGAAAGCGCCGCTAGGCCATGTTCT
** * * * *
23545812 TTAGCAGCATTTGTGAGGAAAACGCTGCTAAGGGCCATGTTCT
1 TTAGTGGCGTTTGTGGGGAAAGCGCCGCT-A-GGCCATGTTCT
** * *
23545855 TTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGACCATGCTCT
1 TTAGTGGCGTTTGTGGGGAAAGCGCCGCT--AGGCCATGTTCT
** * * *
23545898 TTAGCAGCATTTGTGGGGAAAGTGCTAC-CAAAGGCCATGTTCT
1 TTAGTGGCGTTTGTGGGGAAAGCGC--CGC-TAGGCCATGTTCT
* * * * * * *
23545941 TTAGCGACGGTTGTGGGAAAAACACCGCTAAAGGTCATGTTCT
1 TTAGTGGCGTTTGTGGGGAAAGCGCCGCT--AGGCCATGTTCT
*
23545984 ATAGTGGC
1 TTAGTGGC
23545992 ATTTTCCTAC
Statistics
Matches: 198, Mismatches: 55, Indels: 20
0.73 0.20 0.07
Matches are distributed among these distances:
41 60 0.30
42 2 0.01
43 132 0.67
44 3 0.02
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (41 bp):
TTAGTGGCGTTTGTGGGGAAAGCGCCGCTAGGCCATGTTCT
Found at i:23545781 original size:43 final size:43
Alignment explanation
Indices: 23545720--23545983 Score: 214
Period size: 43 Copynumber: 6.2 Consensus size: 43
23545710 GTCGCTAGGT
* ** * * * *
23545720 CATGTTCTCTAGTGGCGTTTGTGGGGAAAGCACCGCTAAAGAC
1 CATGTTCTTTAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGC
* * *
23545763 CATGTTCTTTAGCAGCGTTTGTGGGAAAAATGCTGCT--AGGT
1 CATGTTCTTTAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGC
* * * *
23545804 CATGCTCTTTAGCAGCATTTGTGAGG-AAAACGCTGCTAAGGGC
1 CATGTTCTTTAGCAGCGTTTGTG-GGAAAAACGCCGCTAAAGGC
** *
23545847 CATGTTCTTTAGTGGCGTTTGT-GGAAAAAGCGCCGCTAAAGAC
1 CATGTTCTTTAGCAGCGTTTGTGGGAAAAA-CGCCGCTAAAGGC
* * * ** ** *
23545890 CATGCTCTTTAGCAGCATTTGTGGGGAAAGTGCTACCAAAGGC
1 CATGTTCTTTAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGC
* * *
23545933 CATGTTCTTTAGC-GACGGTTGTGGGAAAAACACCGCTAAAGGT
1 CATGTTCTTTAGCAG-CGTTTGTGGGAAAAACGCCGCTAAAGGC
23545976 CATGTTCT
1 CATGTTCT
23545984 ATAGTGGCAT
Statistics
Matches: 170, Mismatches: 44, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
41 35 0.21
42 7 0.04
43 123 0.72
44 5 0.03
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
CATGTTCTTTAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGC
Found at i:23545842 original size:84 final size:83
Alignment explanation
Indices: 23545693--23545962 Score: 265
Period size: 84 Copynumber: 3.2 Consensus size: 83
23545683 AAAGTTAGTG
* * * * ** * * *
23545693 GCGTTTGTGGGGAAAGTG-TCGCTAGGTCATGTTCTCTAGTGGCGTTTGTGGGGAAAGCACCGCT
1 GCGTTTGTGGGAAAAATGCT-GCTAGGTCATGCTCTTTAGCAGCATTTGTGGGGAAAGCGCTGCT
*
23545757 AAAGACCATGTTCTTTAGC
65 AAAGGCCATGTTCTTTAGC
* *
23545776 AGCGTTTGTGGGAAAAATGCTGCTAGGTCATGCTCTTTAGCAGCATTTGTGAGGAAAACGCTGCT
1 -GCGTTTGTGGGAAAAATGCTGCTAGGTCATGCTCTTTAGCAGCATTTGTGGGGAAAGCGCTGCT
* *
23545841 AAGGGCCATGTTCTTTAGTG
65 AAAGGCCATGTTCTTTAG-C
* * ** * *
23545861 GCGTTTGT-GGAAAAAGCGCCGCTAAAGACCATGCTCTTTAGCAGCATTTGTGGGGAAAGTGCTA
1 GCGTTTGTGGGAAAAA-TGCTGCT--AGGTCATGCTCTTTAGCAGCATTTGTGGGGAAAGCGCTG
*
23545925 CCAAAGGCCATGTTCTTTAGC
63 CTAAAGGCCATGTTCTTTAGC
*
23545946 GACGGTTGTGGGAAAAA
1 G-CGTTTGTGGGAAAAA
23545963 CACCGCTAAA
Statistics
Matches: 153, Mismatches: 26, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
83 7 0.05
84 80 0.52
85 2 0.01
86 57 0.37
87 7 0.05
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (83 bp):
GCGTTTGTGGGAAAAATGCTGCTAGGTCATGCTCTTTAGCAGCATTTGTGGGGAAAGCGCTGCTA
AAGGCCATGTTCTTTAGC
Found at i:23545995 original size:86 final size:86
Alignment explanation
Indices: 23545737--23545979 Score: 287
Period size: 86 Copynumber: 2.8 Consensus size: 86
23545727 TCTAGTGGCG
* * * * *
23545737 TTTGTGGGGAAAGCACCGCTAAAGACCATGTTCTTTAGC-AGCGTTTGTGGGAAAAATGCTGCT-
1 TTTGTGGGGAAAGCGCTGCTAAAGGCCATGTTCTTTAGCGA-CGTTTGTGGGAAAAACGCCGCTA
23545800 -AGGTCATGCTCTTTAGCAGCA
65 AAGGTCATGCTCTTTAGCAGCA
* * * * *
23545821 TTTGTGAGGAAAACGCTGCTAAGGGCCATGTTCTTTAGTGGCGTTTGT-GGAAAAAGCGCCGCTA
1 TTTGTGGGGAAAGCGCTGCTAAAGGCCATGTTCTTTAGCGACGTTTGTGGGAAAAA-CGCCGCTA
**
23545885 AAGACCATGCTCTTTAGCAGCA
65 AAGGTCATGCTCTTTAGCAGCA
* * * * *
23545907 TTTGTGGGGAAAGTGCTACCAAAGGCCATGTTCTTTAGCGACGGTTGTGGGAAAAACACCGCTAA
1 TTTGTGGGGAAAGCGCTGCTAAAGGCCATGTTCTTTAGCGACGTTTGTGGGAAAAACGCCGCTAA
23545972 AGGTCATG
66 AGGTCATG
23545980 TTCTATAGTG
Statistics
Matches: 130, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
83 7 0.05
84 44 0.34
86 72 0.55
87 7 0.05
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (86 bp):
TTTGTGGGGAAAGCGCTGCTAAAGGCCATGTTCTTTAGCGACGTTTGTGGGAAAAACGCCGCTAA
AGGTCATGCTCTTTAGCAGCA
Found at i:23550891 original size:22 final size:22
Alignment explanation
Indices: 23550866--23550910 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
23550856 AGATCAACAC
23550866 AAATGT-AATCCCATACATATCA
1 AAATGTCAATCCCA-ACATATCA
*
23550888 AAATGTCAATCTCAACATATCA
1 AAATGTCAATCCCAACATATCA
23550910 A
1 A
23550911 TCATCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (22 bp):
AAATGTCAATCCCAACATATCA
Found at i:23551184 original size:49 final size:49
Alignment explanation
Indices: 23551051--23551202 Score: 187
Period size: 49 Copynumber: 3.0 Consensus size: 49
23551041 ACTCATCCAT
* * * *
23551051 CTGAAACACCATTTGTGGACAAGCCACCACTGATTTGCAGGTAAATTGCCA
1 CTGAAACA-C-TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCA
* * *
23551102 CTGATGACGCTTTATGGACAAGCCACCACTGATATGCAGATATACTGCCA
1 CTGA-AACACTTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCA
* * *
23551152 CTGAAACACTTTGTGGATAAGCCACCATTGATATGCAGATATACTACCA
1 CTGAAACACTTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCA
23551201 CT
1 CT
23551203 TACTTTCTAC
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
49 41 0.47
50 39 0.45
51 5 0.06
52 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (49 bp):
CTGAAACACTTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCA
Found at i:23552839 original size:30 final size:30
Alignment explanation
Indices: 23552803--23552862 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
23552793 TTCCCAAGCC
*
23552803 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
23552833 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
23552863 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:23559035 original size:15 final size:16
Alignment explanation
Indices: 23559009--23559038 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23558999 TTTGCCCGCG
23559009 CTAAAAAGCCCAACAT
1 CTAAAAAGCCCAACAT
23559025 CTAAAAA-CCCAACA
1 CTAAAAAGCCCAACA
23559039 ACCTCCAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.33, G:0.03, T:0.10
Consensus pattern (16 bp):
CTAAAAAGCCCAACAT
Found at i:23559139 original size:13 final size:13
Alignment explanation
Indices: 23559121--23559213 Score: 94
Period size: 13 Copynumber: 7.8 Consensus size: 13
23559111 TCTTCACTCC
23559121 AACCACCCCACTA
1 AACCACCCCACTA
*
23559134 AACCACTCCACTA
1 AACCACCCCACTA
*
23559147 AACCA-CTC-C--
1 AACCACCCCACTA
23559156 AACCACCCCACTA
1 AACCACCCCACTA
23559169 AACCA-CCC-C--
1 AACCACCCCACTA
23559178 AACCACCCCACTA
1 AACCACCCCACTA
*
23559191 AACCACTCCACTA
1 AACCACCCCACTA
*
23559204 AACCATCCCA
1 AACCACCCCA
23559214 ACCACTCCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
9 10 0.15
10 5 0.08
11 4 0.06
12 4 0.06
13 42 0.65
ACGTcount: A:0.38, C:0.53, G:0.00, T:0.10
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:23559159 original size:22 final size:22
Alignment explanation
Indices: 23559134--23559200 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
23559124 CACCCCACTA
*
23559134 AACCACTCCACTAAACCACTCC
1 AACCACCCCACTAAACCACTCC
*
23559156 AACCACCCCACTAAACCACCCC
1 AACCACCCCACTAAACCACTCC
23559178 AACCACCCCACTAAACCACTCC
1 AACCACCCCACTAAACCACTCC
23559200 A
1 A
23559201 CTAAACCATC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.37, C:0.54, G:0.00, T:0.09
Consensus pattern (22 bp):
AACCACCCCACTAAACCACTCC
Found at i:23559195 original size:35 final size:36
Alignment explanation
Indices: 23559115--23559224 Score: 125
Period size: 35 Copynumber: 3.1 Consensus size: 36
23559105 CAAATATCTT
* * * *
23559115 CACTCCAACCACCCCACTAAACCACTCC-ACTAAAC
1 CACTCAAACCACCCCACTAAACCACCCCAACCACAC
* *
23559150 CACTCCAACCACCCCACTAAACCACCCCAACCACCC
1 CACTCAAACCACCCCACTAAACCACCCCAACCACAC
* * *
23559186 CACT-AAACCACTCCACTAAACCATCCCAACCACTC
1 CACTCAAACCACCCCACTAAACCACCCCAACCACAC
23559221 CACT
1 CACT
23559225 TGCCTACAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
35 58 0.88
36 8 0.12
ACGTcount: A:0.35, C:0.54, G:0.00, T:0.11
Consensus pattern (36 bp):
CACTCAAACCACCCCACTAAACCACCCCAACCACAC
Found at i:23559610 original size:19 final size:18
Alignment explanation
Indices: 23559573--23559614 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
23559563 GGAGAGAGTG
*
23559573 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
23559591 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
23559610 TTATT
1 TTATT
23559615 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:23559673 original size:33 final size:39
Alignment explanation
Indices: 23559599--23559680 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 39
23559589 TATTATTTTC
*
23559599 TATTATTATTATTATTACTAATACCACTATTATCATCAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
*
23559638 TATTACTATTA-TATTA-TAATA-CA-T-TT-TCATTAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
23559671 TATTACTATT
1 TATTACTATT
23559681 GTGTTTTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 1 0.02
36 2 0.05
37 5 0.12
38 5 0.12
39 10 0.24
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.52
Consensus pattern (39 bp):
TATTACTATTATTATTACTAATACCACTATTATCATCAT
Found at i:23562494 original size:19 final size:19
Alignment explanation
Indices: 23562472--23562514 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
23562462 CTTTCTTTTC
23562472 CATT-CATTCCATACATTTG
1 CATTACATTCCA-ACATTTG
*
23562491 CATTACATTGCAACATTTG
1 CATTACATTCCAACATTTG
23562510 CATTA
1 CATTA
23562515 AACTTTCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (19 bp):
CATTACATTCCAACATTTG
Found at i:23567003 original size:65 final size:60
Alignment explanation
Indices: 23566893--23567017 Score: 178
Period size: 61 Copynumber: 2.0 Consensus size: 60
23566883 TCTACAATAA
*
23566893 CACATCTAGTTAGGAGCATTTGATTCATTTCATAACATCCTAATTATTTGACATAAAGCAT
1 CACATCTAGTTAAGAGCATTTGATTCATTTCATAACATCCTAATTATTTGACAT-AAGCAT
* *
23566954 CACATTTAGTTAAGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAAGAGCATTTGATTCATTTC-AT-A-A-CATCCTAATTATTTGACATAAGCAT
23567018 GGATACATGA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
61 29 0.51
62 2 0.04
63 1 0.02
64 7 0.12
65 18 0.32
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.37
Consensus pattern (60 bp):
CACATCTAGTTAAGAGCATTTGATTCATTTCATAACATCCTAATTATTTGACATAAGCAT
Found at i:23567500 original size:205 final size:205
Alignment explanation
Indices: 23567162--23567650 Score: 816
Period size: 205 Copynumber: 2.4 Consensus size: 205
23567152 ATCAGGCGGA
*
23567162 GAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* *
23567227 TTGGCATCTCTGTATTCTCAGAGAACAAATCAAAGTCTAGCATCTACATTTCGACGGAAGGCAGA
66 TTGGCATCTCTGTATTCTCAAAGAACAAATCAAAGTCTAGCATCTACACTTCGACGGAAGGCAGA
*
23567292 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
23567357 TGCTTACAAG
196 TGCTTACAAG
* * *
23567367 GAGCAAATCGAAGACATAGCTAATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* ** * * * * * *
23567432 TTGGCATCTCTGTATTGTCAAAGAACAAATTGAAGTCTGGTATCTCCACTTCGATGGAGGGTAGA
66 TTGGCATCTCTGTATTCTCAAAGAACAAATCAAAGTCTAGCATCTACACTTCGACGGAAGGCAGA
23567497 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
23567562 TGCTTACAAG
196 TGCTTACAAG
* *
23567572 GAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATAAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
23567637 TTGGCATCTCTGTA
66 TTGGCATCTCTGTA
23567651 GCGGCGGAGA
Statistics
Matches: 263, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
205 263 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTCTCAAAGAACAAATCAAAGTCTAGCATCTACACTTCGACGGAAGGCAGA
CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
TGCTTACAAG
Found at i:23568133 original size:132 final size:130
Alignment explanation
Indices: 23567946--23569477 Score: 2120
Period size: 132 Copynumber: 11.6 Consensus size: 130
23567936 ACAACAGATT
* * * * * * * *
23567946 TGGCATCCCCGAGCTTATAGGGAAC-AGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAG
* ** * * * * * * **
23568010 TGAAGCAGATCGAAGATTTCAG-CATGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAATAGC
65 GGAA-CAGATCGAAGATAGCAGAC-TGACATTCCTGTGCTTACAGTGAACAGA-TCGAAGATTTC
23568073 AG-A
127 AGCA
* * * *
23568076 TTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAAATTTGGCATCCCTGTACTTGTA
1 --TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATA
*
23568141 GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTC
64 GGGAACAGATCGAAGATAGCAGA-CTGACATTCCTGTGCTTACAGTGAA-CAGATCGAAGATTTC
23568206 AGCA
127 AGCA
* * *
23568210 TGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCCGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * * * *
23568275 AAACAGATCGAAGATAGCAGATCTGACACTCCTATGCTTACGGTGAAGTAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGA-CTGACATTCCTGTGCTTACAGTGAA-CAGATCGAAGATTTCAG
23568340 CA
129 CA
* *
23568342 TGGCATCCCTGTACTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * *
23568407 GAACAGATCGAAGATAGCAGATCTGACTTTCCTGTGCTTACAGTGAAATAGATCAAAGATTTCAG
66 GAACAGATCGAAGATAGCAGA-CTGACATTCCTGTGCTTACAGTG-AACAGATCGAAGATTTCAG
23568472 CA
129 CA
*
23568474 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * * *
23568539 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGGTCAAAGATTTCTG
66 GAACAGATCGAAGATAGCAGA-CTGACATTCCTGTGCTTACAGTGAA-CAGATCGAAGATTTCAG
23568604 CA
129 CA
* * * *
23568606 TGGCATCCCTGTGCTTTTAGGGAACAAGTTGAAGATCGCAGATTTGGCATCCCTGTGTTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * *
23568671 GAATAGATCAAAGATAGCAGATCTGACATTCTTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGA-CTGACATTCCTGTGCTTACAGTGAA-CAGATCGAAGATTTCAG
23568736 CA
129 CA
* * * * *
23568738 TGGCATCCCTATGCTTTTAGGGAACAAGTTGAAGATCGCAGATTTGGCATCCCTGTGTTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * *
23568803 GAACAGATCGAAGATAACATATATGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGA-CTGACATTCCTGTGCTTACAGTGAA-CAGATCGAAGATTTCAG
23568868 CA
129 CA
*
23568870 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGTAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
* *
23568935 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGGTCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGA-CTGACATTCCTGTGCTTACAGTGAA-CAGATCGAAGATTTCAG
23569000 CA
129 CA
* *
23569002 TGGCATCCCTATGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
* *
23569067 GAACCGATCG-AGATAGCAGATCTGACATTCCTGTGCTTACAATGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGA-CTGACATTCCTGTGCTTACAGTGAA-CAGATCGAAGATTTCAG
23569131 CA
129 CA
*
23569133 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTATGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * *
23569198 GAACAGATCGAAGATAACAGATCTGACATTCATGTGCTTACAGTGAAGCAGATCGAAGATTTTAG
66 GAACAGATCGAAGATAGCAGA-CTGACATTCCTGTGCTTACAGTGAA-CAGATCGAAGATTTCAG
*
23569263 TA
129 CA
* *
23569265 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCATATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
*
23569330 GAATAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGA-CTGACATTCCTGTGCTTACAGTGAA-CAGATCGAAGATTTCAG
23569395 CA
129 CA
* *
23569397 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGTAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
*
23569462 GAACAGCTCGAAGATA
66 GAACAGATCGAAGATA
23569478 ATGGATTTGG
Statistics
Matches: 1283, Mismatches: 108, Indels: 18
0.91 0.08 0.01
Matches are distributed among these distances:
131 141 0.11
132 1125 0.88
133 15 0.01
134 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (130 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
GAACAGATCGAAGATAGCAGACTGACATTCCTGTGCTTACAGTGAACAGATCGAAGATTTCAGCA
Found at i:23569487 original size:44 final size:44
Alignment explanation
Indices: 23567662--23569477 Score: 1293
Period size: 44 Copynumber: 41.3 Consensus size: 44
23567652 CGGCGGAGAG
* * * *
23567662 CAGATCGAAGGTTGTAGATTTGGCATCCCTGTGTTTATAGGGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
23567706 CAGATCGAAGATAGTAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
*** * * *
23567750 TCAGATCGAAGATTTTAGCA--TGGCATCCCTATACTTATAGAGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * ** *
23567794 CA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTGCAGGGCA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * ** * * * * * *
23567838 TAGATCAAAGATAATAGATCTGACATTCTTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
** * * *
23567882 GCAGATCGAAGATTTCAG-TATGGCATCCTTGTACTTATAGGGAA
1 -CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
23567926 CA-AGTTGAAAACAACAGATTTGGCATCCCCGAGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * *
23567970 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
**
23568014 GCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* *
23568058 CA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
23568102 CA-AGTTGAAAACAGCAAATTTGGCATCCCTGTACTTGTAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * *
23568146 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* ** *
23568190 GTAGATCGAAGATTTCAGCA--TGACATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * * * *
23568234 CA-AGTTGAAAACAGCAGATTTGGCATCCCCGTGCTTATAGGAAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * *
23568278 CAGATCGAAGATAGCAGATCTGACA-CTCCTATGCTTA-CGGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATC-CCTGTGCTTATAGG-GAA
* ** *
23568322 GTAGATCGAAGATTTCAGCA--TGGCATCCCTGTACTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
*
23568366 CA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
23568410 CAGATCGAAGATAGCAGATCTGACTTTCCTGTGCTTACAGTGAAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAG-GGAA
* * **
23568455 TAGATCAAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAA
1 CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * *
23568498 CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * *
23568542 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * ** * *
23568586 GTAGGTCAAAGATTTCTGCA--TGGCATCCCTGTGCTTTTAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * *
23568630 CA-AGTTGAAGATCGCAGATTTGGCATCCCTGTGTTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * * * *
23568674 TAGATCAAAGATAGCAGATCTGACATTCTTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
** * *
23568718 GCAGATCGAAGATTTCAGCA--TGGCATCCCTATGCTTTTAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * *
23568762 CA-AGTTGAAGATCGCAGATTTGGCATCCCTGTGTTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * * *
23568806 CAGATCGAAGATAACATATATGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
**
23568850 GCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * *
23568894 CA-AGTTGAAAATAGTAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * *
23568938 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * ** *
23568982 GTAGGTCGAAGATTTCAGCA--TGGCATCCCTATGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * *
23569026 CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * **
23569070 CCGATCG-AGATAGCAGATCTGACATTCCTGTGCTTACAATGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
**
23569113 GCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * *
23569157 CA-AGTTGAAAATAGCAGATTTGGCATCCCTATGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * * *
23569201 CAGATCGAAGATAACAGATCTGACATTCATGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
*** * *
23569245 GCAGATCGAAGATTTTAG-TATGGCATCCCTGTGTTTATAGGGAA
1 -CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * *
23569289 CA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCATATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
23569333 TAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
** *
23569377 GCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * *
23569421 CA-AGTTGAAAATAGTAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
*
23569465 CAGCTCGAAGATA
1 CAGATCGAAGATA
23569478 ATGGATTTGG
Statistics
Matches: 1357, Mismatches: 336, Indels: 158
0.73 0.18 0.09
Matches are distributed among these distances:
42 22 0.02
43 164 0.12
44 973 0.72
45 187 0.14
46 11 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
Found at i:23569520 original size:44 final size:45
Alignment explanation
Indices: 23569484--23569571 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
23569474 GATAATGGAT
* *
23569484 TTGGTGTCTCTGTATTA-ACAGAGAGCAGATCAAAGATGACAGAC
1 TTGGCGTCTCTGTATTAGACAGAGAGCAGATCAAAGATAACAGAC
* *
23569528 TTGGCGTCTCTGTATTAGACGGAGAGCAGATCAAAGATAGCAGA
1 TTGGCGTCTCTGTATTAGACAGAGAGCAGATCAAAGATAACAGA
23569572 TATCGCCTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 16 0.41
45 23 0.59
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (45 bp):
TTGGCGTCTCTGTATTAGACAGAGAGCAGATCAAAGATAACAGAC
Found at i:23569785 original size:15 final size:15
Alignment explanation
Indices: 23569758--23569803 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
23569748 TTTTGCCCGG
23569758 GCTAAAAAGCCCAACA
1 GCTAAAAA-CCCAACA
*
23569774 TCTAAAAACCCAACA
1 GCTAAAAACCCAACA
**
23569789 GCCCAAAACCCAACA
1 GCTAAAAACCCAACA
23569804 ACCTCCGAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.50, C:0.37, G:0.07, T:0.07
Consensus pattern (15 bp):
GCTAAAAACCCAACA
Found at i:23569896 original size:13 final size:13
Alignment explanation
Indices: 23569878--23569913 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
23569868 TCTTCACTCC
23569878 AACCACCCCACTA
1 AACCACCCCACTA
*
23569891 AACCACTCCACTA
1 AACCACCCCACTA
*
23569904 AACCATCCCA
1 AACCACCCCA
23569914 ACCACTCCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.50, G:0.00, T:0.11
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:23577447 original size:29 final size:29
Alignment explanation
Indices: 23577404--23577559 Score: 172
Period size: 29 Copynumber: 5.3 Consensus size: 29
23577394 CAACAACGTA
*
23577404 TCGACCCATCGAATATAAAAAGGGATGATT
1 TCGA-CCATCGAATATAAAAAGGGATGGTT
* * *
23577434 TCGACCATCAAATATGAAAAGGGATGGTG
1 TCGACCATCGAATATAAAAAGGGATGGTT
* * *
23577463 ACAACTATCGAATATGAAAAA-GGATGGTT
1 TCGACCATCGAATAT-AAAAAGGGATGGTT
* * *
23577492 TTGACCATCGAATATGAAAAGGGATGGTG
1 TCGACCATCGAATATAAAAAGGGATGGTT
*
23577521 ACGACCATCGAATATGAAAAA-GGATGGTT
1 TCGACCATCGAATAT-AAAAAGGGATGGTT
23577550 TCGACCATCG
1 TCGACCATCG
23577560 TTTAACACAC
Statistics
Matches: 102, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
28 4 0.04
29 86 0.84
30 12 0.12
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (29 bp):
TCGACCATCGAATATAAAAAGGGATGGTT
Found at i:23577506 original size:58 final size:58
Alignment explanation
Indices: 23577409--23577559 Score: 241
Period size: 58 Copynumber: 2.6 Consensus size: 58
23577399 ACGTATCGAC
* *
23577409 CCATCGAATAT-AAAAAGGGATGATTTCGACCATCAAATATGAAAAGGGATGGTGACAA
1 CCATCGAATATGAAAAA-GGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACAA
* * *
23577467 CTATCGAATATGAAAAAGGATGGTTTTGACCATCGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAAGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACAA
23577525 CCATCGAATATGAAAAAGGATGGTTTCGACCATCG
1 CCATCGAATATGAAAAAGGATGGTTTCGACCATCG
23577560 TTTAACACAC
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
58 80 0.94
59 5 0.06
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (58 bp):
CCATCGAATATGAAAAAGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACAA
Found at i:23582883 original size:18 final size:18
Alignment explanation
Indices: 23582860--23582894 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23582850 GTTTCAGTCG
*
23582860 AAAACCCTAAACCCTAAA
1 AAAACCCCAAACCCTAAA
*
23582878 AAAACCCCAAATCCTAA
1 AAAACCCCAAACCCTAA
23582895 TCCTAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.34, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAACCCCAAACCCTAAA
Found at i:23588929 original size:140 final size:140
Alignment explanation
Indices: 23588677--23588952 Score: 480
Period size: 140 Copynumber: 2.0 Consensus size: 140
23588667 AGTGTGTTGC
* *
23588677 AGTAGGAAATGTGAAAGATCCAAAGGAGTTGTCTCAACTCGATGCTAAGATGTAAGTCGAGTTAG
1 AGTAGGAAATGTGAAAGATCCAAAGGAGTTGTCTCAACTCGATGCCAAGATGGAAGTCGAGTTAG
* *
23588742 AGGCTCAGTTATAGGGTTTCGAGAGGATTTCAAAGGAAACCTTTTTGAGAAATATTTTGGTAATC
66 AGGCTCAATTATAGGGTTTCGAGAGGATTTCAAAAGAAACCTTTTTGAGAAATATTTTGGTAATC
23588807 CTACCTCCTT
131 CTACCTCCTT
* * *
23588817 AGTAGGAAATGTTAAAGATCCAAGGGAGTTGTCTCAACTTGATGCCAAGATGGAAGTCGAGTTAG
1 AGTAGGAAATGTGAAAGATCCAAAGGAGTTGTCTCAACTCGATGCCAAGATGGAAGTCGAGTTAG
*
23588882 AGGCTCAATTATAGGGTTTCGAGAGGATTTCAAAAGAAACTTTTTTGAGAAATATTTTGGTAATC
66 AGGCTCAATTATAGGGTTTCGAGAGGATTTCAAAAGAAACCTTTTTGAGAAATATTTTGGTAATC
23588947 CTACCT
131 CTACCT
23588953 TCTCGAGTAC
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
140 128 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.30
Consensus pattern (140 bp):
AGTAGGAAATGTGAAAGATCCAAAGGAGTTGTCTCAACTCGATGCCAAGATGGAAGTCGAGTTAG
AGGCTCAATTATAGGGTTTCGAGAGGATTTCAAAAGAAACCTTTTTGAGAAATATTTTGGTAATC
CTACCTCCTT
Found at i:23591056 original size:29 final size:28
Alignment explanation
Indices: 23591021--23591093 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 28
23591011 TCATGAGATT
* *
23591021 GGCACTAAGTGTGTGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGTTTAAA--GTACA
23591051 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
23591078 TGGCACTAAGTGTGCG
1 -GGCACTAAGTGTGCG
23591094 CGGTTGATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 5 0.13
29 34 0.87
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:23591316 original size:174 final size:174
Alignment explanation
Indices: 23591051--23591378 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
23591041 AAATTGTACA
23591051 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
23591116 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
23591181 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
23591225 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
23591290 TGTGTGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
23591355 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
23591379 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:23595352 original size:34 final size:34
Alignment explanation
Indices: 23595308--23595380 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
23595298 CATACTATGT
* * *
23595308 TGAAAAGGGCTAAGGCCCAGATTGCCACTGTTAC
1 TGAAATGGGCTAAGGCCCAGACTACCACTGTTAC
* *
23595342 TGAAATGGGCTCAGGCCCAGACTACTACTGTTAC
1 TGAAATGGGCTAAGGCCCAGACTACCACTGTTAC
23595376 T-AAAT
1 TGAAAT
23595381 TAGGCTAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 4 0.12
34 30 0.88
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (34 bp):
TGAAATGGGCTAAGGCCCAGACTACCACTGTTAC
Found at i:23597694 original size:40 final size:40
Alignment explanation
Indices: 23597617--23597822 Score: 245
Period size: 40 Copynumber: 5.2 Consensus size: 40
23597607 AAACCAAGTA
* * * *
23597617 CCTTCGGGATTTAG-CCGGATGTAACT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATAT-AGTAACTCGCACAAATG
* *
23597656 CCTTCGGGACTTAACCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
23597696 CCTTCGGGACTTAGCCCTGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * ** * *
23597736 CCTTCGGGACTTAGCCCAGATATAATTGCTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
23597776 CCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23597816 CCTTCGG
1 CCTTCGG
23597823 ATCTTAGTCC
Statistics
Matches: 140, Mismatches: 25, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.10
40 126 0.90
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:23605701 original size:40 final size:40
Alignment explanation
Indices: 23605624--23605829 Score: 265
Period size: 40 Copynumber: 5.2 Consensus size: 40
23605614 AAACCAAGTA
* *
23605624 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
23605663 CCTTCGGGACTTAGCCC-GATTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCACAAATG
23605703 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * ** * * *
23605743 CCTTCGGGACTTAGCCCGGATACAATCGCTAGCATAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
23605783 CCTTCGGGACATAGCCCAGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23605823 CCTTCGG
1 CCTTCGG
23605830 ATCTTAGTCC
Statistics
Matches: 144, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 16 0.11
40 126 0.88
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:23612151 original size:27 final size:27
Alignment explanation
Indices: 23612061--23612266 Score: 216
Period size: 27 Copynumber: 7.6 Consensus size: 27
23612051 ATATTAAGTC
* * *
23612061 CGCACACTCAGTGCTATAATAATCAACT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
23612089 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
23612117 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
23612144 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
** **
23612171 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* * *
23612198 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
23612225 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
23612252 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23612267 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
27 115 0.74
28 40 0.26
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:23612201 original size:54 final size:54
Alignment explanation
Indices: 23612061--23612265 Score: 250
Period size: 54 Copynumber: 3.8 Consensus size: 54
23612051 ATATTAAGTC
* * * **
23612061 CGCACACTCAGTGCTATAATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
23612117 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
** ** *
23612171 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
23612225 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
23612266 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 32 0.25
56 15 0.12
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:23620248 original size:27 final size:27
Alignment explanation
Indices: 23620218--23620422 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
23620208 ATATTAAGTC
* *
23620218 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
23620245 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
23620273 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
23620300 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
23620327 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
23620354 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
23620381 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
23620408 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23620423 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.83
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:23620357 original size:54 final size:54
Alignment explanation
Indices: 23620218--23620421 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
23620208 ATATTAAGTC
* * * **
23620218 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
23620273 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
** ** *
23620327 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
23620381 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
23620422 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:23620387 original size:81 final size:81
Alignment explanation
Indices: 23620272--23620421 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
23620262 ATAATCAAAC
* * * * * *
23620272 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
23620337 GTGCATCATTTTCATT
66 GTGCATCATTTTCATT
* *
23620353 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
23620418 GTGC
66 GTGC
23620422 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:23625930 original size:34 final size:33
Alignment explanation
Indices: 23625881--23625959 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 33
23625871 ATGCTAAAAA
23625881 GGGCTAAGGCCCAGACTACCACTGTTACTGAAAT
1 GGGCTAAGGCCCAGACTACCACTGTTACT-AAAT
* * *
23625915 GGGCTCAGGCGCAGACTACTACTGTTACTAAATT
1 GGGCTAAGGCCCAGACTACCACTGTTACTAAA-T
*
23625949 AGGCTAAGGCC
1 GGGCTAAGGCC
23625960 TAACTGATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 3 0.08
34 35 0.92
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (33 bp):
GGGCTAAGGCCCAGACTACCACTGTTACTAAAT
Found at i:23627429 original size:28 final size:29
Alignment explanation
Indices: 23627398--23627457 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
23627388 GATTTTCAGT
*
23627398 AAAAATGCATATT-AGGGATTAAATTGAG
1 AAAAATGCAAATTGAGGGATTAAATTGAG
* * * *
23627426 AAAAGTGTAAATTGAGGGGTTAAATTGTG
1 AAAAATGCAAATTGAGGGATTAAATTGAG
23627455 AAA
1 AAA
23627458 TAAATGAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.45, C:0.02, G:0.25, T:0.28
Consensus pattern (29 bp):
AAAAATGCAAATTGAGGGATTAAATTGAG
Found at i:23630489 original size:57 final size:58
Alignment explanation
Indices: 23630401--23630531 Score: 133
Period size: 57 Copynumber: 2.3 Consensus size: 58
23630391 AGGATTACTT
* * * * *
23630401 GTCCAAGCTAAATCCTGTTTCA-AACATATGCTCATA-AGAGCTTA-ATCAGGATTACCC
1 GTCCAGGCTAAATCCTATCT-ATAACAAATGCTCA-AGAGAGCTTATATCAGAATTACCC
** * * *
23630458 GTCTGGGCTAAATCCTATCTATAACAAATGCTCAAGAGGGCTTATATTAGAATTACCG
1 GTCCAGGCTAAATCCTATCTATAACAAATGCTCAAGAGAGCTTATATCAGAATTACCC
23630516 GTCCAGGCTAAATCCT
1 GTCCAGGCTAAATCCT
23630532 TTATGTAATG
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
56 2 0.03
57 33 0.56
58 24 0.41
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (58 bp):
GTCCAGGCTAAATCCTATCTATAACAAATGCTCAAGAGAGCTTATATCAGAATTACCC
Found at i:23632166 original size:43 final size:42
Alignment explanation
Indices: 23632061--23632166 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
23632051 TAATTCTGTT
* * * *
23632061 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGA
1 TTACATGTAAGACCACGTCTGGGACAATGGCATCATATCTGA
* * *
23632103 TTTCATGTAAGACC-CTGTCTGGGACAATGGCATCAATGTTTGA
1 TTACATGTAAGACCAC-GTCTGGGACAATGGCATC-ATATCTGA
23632146 TTACATGTAAGACCACGTCTG
1 TTACATGTAAGACCACGTCTG
23632167 TGACGTTGGC
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 29 0.55
43 23 0.43
44 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACAATGGCATCATATCTGA
Found at i:23632177 original size:43 final size:42
Alignment explanation
Indices: 23632022--23632178 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
23632012 TGTGATTTCG
* * * * *
23632022 TGTAAGACCACATCTGGGACGTTGGCATTTAATTCTGTTTTACG
1 TGTAAGACCACGTCTGGGACATTGGCA-TCAATTCTG-ATTACA
* * *
23632066 TGTAAGACCATGTCTGGGACATTGGCATC-GTATCTGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCAAT-TCTGATTACA
* *
23632108 TGTAAGACC-CTGTCTGGGACAATGGCATCAATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCAAT-TCTGATTACA
* *
23632151 TGTAAGACCACGTCTGTGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
23632179 TGTATATGTT
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 30 0.33
43 37 0.40
44 25 0.27
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCAATTCTGATTACA
Found at i:23633289 original size:58 final size:58
Alignment explanation
Indices: 23633219--23633334 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
23633209 AGACACGCGG
23633219 GCGTGTCTAATGTCGTGTAAGGCACACGACCTGTTTACAAGGGCGTGTGACCTGTACT
1 GCGTGTCTAATGTCGTGTAAGGCACACGACCTGTTTACAAGGGCGTGTGACCTGTACT
23633277 GCGTGTCTAATGTCGTGTAAGGCACACGACCTGTTTACAAGGGCGTGTGACCTGTACT
1 GCGTGTCTAATGTCGTGTAAGGCACACGACCTGTTTACAAGGGCGTGTGACCTGTACT
23633335 TCTTTGAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (58 bp):
GCGTGTCTAATGTCGTGTAAGGCACACGACCTGTTTACAAGGGCGTGTGACCTGTACT
Found at i:23638200 original size:13 final size:13
Alignment explanation
Indices: 23638184--23638208 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23638174 AAATAATTTC
23638184 TTGAAAATTTTGT
1 TTGAAAATTTTGT
23638197 TTGAAAATTTTG
1 TTGAAAATTTTG
23638209 ACGTTCGGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
TTGAAAATTTTGT
Found at i:23642813 original size:45 final size:45
Alignment explanation
Indices: 23642763--23642850 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
23642753 AAACATGTGC
* *
23642763 CACATACATCATGAACTCAGACCACTACTCAATGAGTTTAGATGT
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGT
* * *
23642808 CACATATATCATGAACTCAGACCACAATTTAATGAGTTCAGAT
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
23642851 CACATAGTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGT
Found at i:23644966 original size:40 final size:40
Alignment explanation
Indices: 23644907--23645019 Score: 149
Period size: 40 Copynumber: 2.8 Consensus size: 40
23644897 GATTAGGGGC
*
23644907 ACAGATGTGCCTTCAGGGGTACCGAAGTACAAATAGAGGCA
1 ACAGATGTGCATTCAGGGGTACCGAAGTACAAATA-AGGCA
** *
23644948 TA-A-ATGTGCATTCAGGGGTATTGAAGTACAAATAAGGGA
1 -ACAGATGTGCATTCAGGGGTACCGAAGTACAAATAAGGCA
*
23644987 ACAGATGTGCATTCAGGGGTACCTAAGTACAAA
1 ACAGATGTGCATTCAGGGGTACCGAAGTACAAA
23645020 CTGGGGCACT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.02
39 5 0.08
40 54 0.87
41 1 0.02
42 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.21
Consensus pattern (40 bp):
ACAGATGTGCATTCAGGGGTACCGAAGTACAAATAAGGCA
Found at i:23652945 original size:19 final size:19
Alignment explanation
Indices: 23652912--23652955 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
23652902 AGGGCCTACA
* *
23652912 GGCCCATTGGACCCA-CAT
1 GGCCCATTCGACCCAGAAT
23652930 GGCCCAGTTCGACCCAGAAT
1 GGCCCA-TTCGACCCAGAAT
23652950 GGCCCA
1 GGCCCA
23652956 ATATTGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 8 0.36
20 8 0.36
ACGTcount: A:0.23, C:0.39, G:0.25, T:0.14
Consensus pattern (19 bp):
GGCCCATTCGACCCAGAAT
Found at i:23668070 original size:47 final size:47
Alignment explanation
Indices: 23667925--23668444 Score: 817
Period size: 47 Copynumber: 11.1 Consensus size: 47
23667915 CCCTTCGGGA
* * * * * * *
23667925 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23667972 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23668018 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23668065 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23668112 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23668159 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23668206 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
23668253 CTTATCACACATATACACTTTCACATTAATCACATCGACCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23668300 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23668347 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23668394 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23668441 CTTA
1 CTTA
23668445 CTATCATTTC
Statistics
Matches: 447, Mismatches: 25, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
46 40 0.09
47 407 0.91
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23672874 original size:26 final size:26
Alignment explanation
Indices: 23672841--23672913 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
23672831 CTCTTTTAAT
*
23672841 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
23672867 AATTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
23672893 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
23672914 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:23681012 original size:20 final size:20
Alignment explanation
Indices: 23680987--23681041 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
23680977 TTATGAATAC
23680987 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
23681007 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
23681027 ATCATGTGCATATCA
1 ATCATGTGCATATCA
23681042 AGTCAATCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:23681018 original size:11 final size:11
Alignment explanation
Indices: 23680987--23681053 Score: 65
Period size: 9 Copynumber: 6.6 Consensus size: 11
23680977 TTATGAATAC
23680987 ATCATGTGCAT
1 ATCATGTGCAT
*
23680998 ATCA--TACAT
1 ATCATGTGCAT
23681007 ATCATGTGCAT
1 ATCATGTGCAT
*
23681018 ATC--GTACAT
1 ATCATGTGCAT
23681027 ATCATGTGCAT
1 ATCATGTGCAT
*
23681038 ATCAAGT-CA-
1 ATCATGTGCAT
23681047 ATCATGT
1 ATCATGT
23681054 ATATCAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
9 22 0.48
10 2 0.04
11 22 0.48
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.34
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:23681050 original size:20 final size:21
Alignment explanation
Indices: 23680987--23681053 Score: 97
Period size: 20 Copynumber: 3.3 Consensus size: 21
23680977 TTATGAATAC
23680987 ATCATGTGCATATCA-TACAT
1 ATCATGTGCATATCAGTACAT
23681007 ATCATGTGCATATC-GTACAT
1 ATCATGTGCATATCAGTACAT
23681027 ATCATGTGCATATCAAGT-CA-
1 ATCATGTGCATATC-AGTACAT
23681047 ATCATGT
1 ATCATGT
23681054 ATATCAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
20 40 0.91
21 2 0.05
22 2 0.05
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.34
Consensus pattern (21 bp):
ATCATGTGCATATCAGTACAT
Found at i:23686337 original size:10 final size:10
Alignment explanation
Indices: 23686309--23686366 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
23686299 TTAAGATAAA
23686309 TGTTT-AATG
1 TGTTTAAATG
*
23686318 TGTTT-TATG
1 TGTTTAAATG
23686327 TGTTTAAATG
1 TGTTTAAATG
23686337 TGTTTAATATG
1 TGTTTAA-ATG
*
23686348 TCTGTTTTAATG
1 --TGTTTAAATG
23686360 TGTTTAA
1 TGTTTAA
23686367 TTTCAGGTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
9 13 0.32
10 16 0.39
11 3 0.07
12 3 0.07
13 6 0.15
ACGTcount: A:0.22, C:0.02, G:0.19, T:0.57
Consensus pattern (10 bp):
TGTTTAAATG
Found at i:23686359 original size:23 final size:21
Alignment explanation
Indices: 23686311--23686367 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 21
23686301 AAGATAAATG
23686311 TTTAATGTGTTT--TATGTGT
1 TTTAATGTGTTTAATATGTGT
*
23686330 TTAAATGTGTTTAATATGTCTGT
1 TTTAATGTGTTTAATATG--TGT
23686353 TTTAATGTGTTTAAT
1 TTTAATGTGTTTAAT
23686368 TTCAGGTGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 11 0.34
21 4 0.12
23 17 0.53
ACGTcount: A:0.23, C:0.02, G:0.18, T:0.58
Consensus pattern (21 bp):
TTTAATGTGTTTAATATGTGT
Found at i:23686367 original size:9 final size:9
Alignment explanation
Indices: 23686309--23686367 Score: 55
Period size: 9 Copynumber: 5.9 Consensus size: 9
23686299 TTAAGATAAA
23686309 TGTTTAATG
1 TGTTTAATG
*
23686318 TGTTTTATG
1 TGTTTAATG
23686327 TGTTTAAATG
1 TGTTT-AATG
23686337 TGTTTAATATG
1 TGTTT-A-ATG
23686348 TCTGTTTTAATG
1 --TG-TTTAATG
23686360 TGTTTAAT
1 TGTTTAAT
23686368 TTCAGGTGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
9 19 0.44
10 12 0.28
11 3 0.07
12 3 0.07
13 3 0.07
14 3 0.07
ACGTcount: A:0.22, C:0.02, G:0.19, T:0.58
Consensus pattern (9 bp):
TGTTTAATG
Found at i:23687215 original size:15 final size:15
Alignment explanation
Indices: 23687189--23687220 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
23687179 ATTTGAAACC
23687189 ATTCCATTTGAGCCT
1 ATTCCATTTGAGCCT
23687204 ATTCCATTTGAGCCT
1 ATTCCATTTGAGCCT
23687219 AT
1 AT
23687221 CTTTCATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (15 bp):
ATTCCATTTGAGCCT
Found at i:23696943 original size:22 final size:22
Alignment explanation
Indices: 23696917--23696960 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
23696907 GTCGAGCACG
23696917 AGACGTTACCAGACTTATCTTA
1 AGACGTTACCAGACTTATCTTA
23696939 AGACGTTACCAGACTTATCTTA
1 AGACGTTACCAGACTTATCTTA
23696961 CTTTTCGGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (22 bp):
AGACGTTACCAGACTTATCTTA
Found at i:23697007 original size:24 final size:24
Alignment explanation
Indices: 23696958--23697012 Score: 85
Period size: 25 Copynumber: 2.3 Consensus size: 24
23696948 CAGACTTATC
23696958 TTACTTTTCGGGGCATAAAAAAATT
1 TTACTTTTCGGGGCATAAAAAAA-T
*
23696983 TTACTTTTTGGGGCAT-AAAAAAT
1 TTACTTTTCGGGGCATAAAAAAAT
23697006 TTACTTT
1 TTACTTT
23697013 AAAAAAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 8 0.28
24 6 0.21
25 15 0.52
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (24 bp):
TTACTTTTCGGGGCATAAAAAAAT
Found at i:23698277 original size:53 final size:53
Alignment explanation
Indices: 23698206--23698415 Score: 222
Period size: 53 Copynumber: 3.9 Consensus size: 53
23698196 CTTTCCTTTT
23698206 TAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
1 TAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * * * * *
23698259 TGAACTCACCATTTCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCATTA
1 TAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * * * *
23698312 TAATAGTTTATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTG
1 TAA-A-CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * *
23698367 TAAAACTTACCAATGCCATGGCTTGGCATGGTCTTACTTGGTATCCTTG
1 T-AAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTG
23698416 AACCCTAATG
Statistics
Matches: 123, Mismatches: 31, Indels: 5
0.77 0.19 0.03
Matches are distributed among these distances:
53 47 0.38
54 37 0.30
55 37 0.30
56 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (53 bp):
TAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:23708599 original size:27 final size:26
Alignment explanation
Indices: 23708551--23708610 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
23708541 GCGAGGCTGC
*
23708551 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
23708578 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
23708604 CAGATAT
1 CAGATAT
23708611 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:23708695 original size:27 final size:26
Alignment explanation
Indices: 23708649--23708700 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
23708639 GCGAGGCTGC
23708649 CAGATATTGTGACGAAGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
* *
23708675 CAGATATATGTGGCGAGGCCACCAAA
1 CAGATAT-TGTGACGAAGCCACCAAA
23708701 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:23715785 original size:29 final size:29
Alignment explanation
Indices: 23715685--23715786 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
23715675 TACCTTAATC
* * *
23715685 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* *
23715713 TGGCCCATTAGGCTCAAACCAC-TTGTATA
1 TGGCCCATTAGGCCCAAATCACATT-TATA
* *
23715742 TGGCCTATTACGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* *
23715771 TGGCCCGTTTGGCCCA
1 TGGCCCATTAGGCCCA
23715787 GCCACATTCA
Statistics
Matches: 58, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
28 15 0.26
29 41 0.71
30 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:23716035 original size:16 final size:16
Alignment explanation
Indices: 23716010--23716040 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23716000 ATAGCCAAAC
23716010 TTTCGACATTTTGGCA
1 TTTCGACATTTTGGCA
*
23716026 TTTCGGCATTTTGGC
1 TTTCGACATTTTGGC
23716041 TTTTGCCGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.45
Consensus pattern (16 bp):
TTTCGACATTTTGGCA
Found at i:23719244 original size:29 final size:28
Alignment explanation
Indices: 23719209--23719283 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
23719199 AATCATATTC
* *
23719209 ATATGGCCGATTAGGCTCAAACCACCTGT
1 ATATGGCC-ATTAGGCCCAAACCACATGT
* *
23719238 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGG-CCATTAGGCCCAAACCACATGT
23719267 ATATGGCTCATTAGGCC
1 ATATGGC-CATTAGGCC
23719284 TAGTCACATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 37 0.93
30 2 0.05
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (28 bp):
ATATGGCCATTAGGCCCAAACCACATGT
Found at i:23719541 original size:16 final size:16
Alignment explanation
Indices: 23719516--23719546 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23719506 ACTTTCAGCT
23719516 TTTCGACATTTTGGCA
1 TTTCGACATTTTGGCA
*
23719532 TTTCGGCATTTTGGC
1 TTTCGACATTTTGGC
23719547 TTTTGCCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.45
Consensus pattern (16 bp):
TTTCGACATTTTGGCA
Found at i:23722186 original size:29 final size:27
Alignment explanation
Indices: 23722168--23722237 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
23722158 ATATTAAGTC
23722168 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
23722195 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
23722223 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
23722238 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:23722231 original size:28 final size:28
Alignment explanation
Indices: 23722168--23722265 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
23722158 ATATTAAGTC
*
23722168 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
23722195 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
23722223 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
23722252 CGCACACTTAGTGC
1 CGCACACTTAGTGC
23722266 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:23730241 original size:29 final size:27
Alignment explanation
Indices: 23730223--23730292 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
23730213 ATATTAAGTC
23730223 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
23730250 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
23730278 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
23730293 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:23730286 original size:28 final size:28
Alignment explanation
Indices: 23730223--23730320 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
23730213 ATATTAAGTC
*
23730223 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
23730250 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
23730278 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
23730307 CGCACACTTAGTGC
1 CGCACACTTAGTGC
23730321 CATTCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:23732301 original size:53 final size:53
Alignment explanation
Indices: 23732226--23732330 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 53
23732216 TTTCTTTTTA
* * ** *
23732226 AACTTACCATTGCAATGTCTTGACATAGTCTTACGTGGTATCTTTGCCTTATG
1 AACTCACCATTGCAATGCCTTGACATAGTCTTACAAGGGATCTTTGCCTTATG
* *
23732279 AACTCACCATTGCCATGCCTTGACATGGTCTTACAAGGGATCTTTGCCTTAT
1 AACTCACCATTGCAATGCCTTGACATAGTCTTACAAGGGATCTTTGCCTTAT
23732331 AGTAGTTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
AACTCACCATTGCAATGCCTTGACATAGTCTTACAAGGGATCTTTGCCTTATG
Found at i:23735277 original size:37 final size:37
Alignment explanation
Indices: 23735227--23735305 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
23735217 TTATTACGAA
* * *
23735227 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
23735264 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
23735301 GTCTT
1 GTCTT
23735306 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:23735539 original size:46 final size:47
Alignment explanation
Indices: 23735472--23735642 Score: 301
Period size: 47 Copynumber: 3.7 Consensus size: 47
23735462 CTCGGCCCTG
23735472 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
23735519 TCACA-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
23735565 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
23735612 TCACATATATGCA-TGTTCACATCCATCACAT
1 TCACATATATACACT-TTCACATTCATCACAT
23735643 AGAATCCTAA
Statistics
Matches: 120, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
46 47 0.39
47 73 0.61
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:23735581 original size:93 final size:94
Alignment explanation
Indices: 23735472--23735642 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 94
23735462 CTCGGCCCTG
23735472 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATACACT-TT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA-TGTT
*
23735535 CACATTCATCACATCGGCCATTAGGCCTTA
65 CACATCCATCACATCGGCCATTAGGCCTTA
*
23735565 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGCATGTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATGTTC
23735630 ACATCCATCACAT
66 ACATCCATCACAT
23735643 AGAATCCTAA
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
93 53 0.72
94 21 0.28
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATGTTC
ACATCCATCACATCGGCCATTAGGCCTTA
Found at i:23738907 original size:40 final size:40
Alignment explanation
Indices: 23738850--23739032 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 40
23738840 CCAGCATGAT
* * *
23738850 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
23738890 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * * *
23738930 TGCTCTTCGGAACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGAACTTAGCCCGGATATA-TCACTAGCACGAA
* * *
23738971 TGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATAT-ATCAC-TAGCACGAA
* *
23739011 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGA
23739033 CATCATTCGA
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
40 102 0.86
41 17 0.14
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:23739380 original size:29 final size:29
Alignment explanation
Indices: 23739338--23739416 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
23739328 CTTAATAATC
*
23739338 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
* *
23739368 AACTCGCAGACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
23739397 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
23739417 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:23739459 original size:43 final size:43
Alignment explanation
Indices: 23739398--23739500 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
23739388 TGCATTTCAA
23739398 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
23739441 GCCCGCACGCTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
23739484 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
23739501 TGAAAACCAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.25, C:0.36, G:0.17, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:23741345 original size:37 final size:37
Alignment explanation
Indices: 23741295--23741373 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
23741285 TTATTACGAA
* * * *
23741295 GTCTTACCTGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
23741332 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
23741369 GTCTT
1 GTCTT
23741374 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:23741578 original size:47 final size:47
Alignment explanation
Indices: 23741542--23741760 Score: 404
Period size: 47 Copynumber: 4.7 Consensus size: 47
23741532 CTCGGCCCTG
23741542 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
23741589 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
23741636 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
23741683 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
23741730 TCACATATATGCA-TGTTCACATCCATCACAT
1 TCACATATATACACT-TTCACATTCATCACAT
23741761 AGAATCCTAA
Statistics
Matches: 169, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
46 1 0.01
47 168 0.99
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:23745047 original size:4 final size:4
Alignment explanation
Indices: 23745038--23745074 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
23745028 TTAAACTAAG
*
23745038 TAAA TAAA TAAA TAAA TAAA TAAA TAATA AAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA-A TAAA TAAA
23745075 ACTTTACAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 27 0.90
5 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:23754198 original size:10 final size:10
Alignment explanation
Indices: 23754183--23754207 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23754173 TTGTGATGTA
23754183 TGAAATGTGG
1 TGAAATGTGG
23754193 TGAAATGTGG
1 TGAAATGTGG
23754203 TGAAA
1 TGAAA
23754208 ATGAATTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.28
Consensus pattern (10 bp):
TGAAATGTGG
Found at i:23756033 original size:40 final size:39
Alignment explanation
Indices: 23755942--23756164 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
23755932 TCCTCGTTCA
* * * *
23755942 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
23755981 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
23756020 GAATGCCTTCGGGACTTTACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
23756060 AAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
23756100 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
23756141 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
23756165 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
39 38 0.25
40 104 0.68
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:23756173 original size:41 final size:41
Alignment explanation
Indices: 23756096--23756173 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
23756086 CTTGTATCTC
* * *
23756096 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
23756137 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
23756174 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:23762916 original size:40 final size:40
Alignment explanation
Indices: 23762823--23763046 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
23762813 GCTCCTCGTT
* * * *
23762823 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
23762863 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
23762902 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
23762942 CAAAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * * *
23762981 CAAATGCCTTC-GGATCTTAGTCTGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
23763022 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
23763047 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.01
39 66 0.43
40 76 0.49
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:23762926 original size:79 final size:79
Alignment explanation
Indices: 23762823--23762993 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
23762813 GCTCCTCGTT
* * *
23762823 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAAGGCCTTCGGG-CTTAACCCGG
*
23762887 -ATTTAATAACTCGCA
65 AACTT-ATAACTCGCA
* * * *
23762902 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGCTTAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAAGGCCTTCGGGCTTAACCCGGA
* *
23762967 ACTTGTATCTCGCA
66 ACTTATAACTCGCA
23762981 CAAATGCCTTCGG
1 CAAATGCCTTCGG
23762994 ATCTTAGTCT
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
79 65 0.82
80 14 0.18
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAAGGCCTTCGGGCTTAACCCGGA
ACTTATAACTCGCA
Found at i:23772531 original size:14 final size:14
Alignment explanation
Indices: 23772512--23772541 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
23772502 CCATAGCACC
23772512 CTACAGAATGGCTT
1 CTACAGAATGGCTT
23772526 CTACAGAATGGCTT
1 CTACAGAATGGCTT
23772540 CT
1 CT
23772542 CACCTTGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (14 bp):
CTACAGAATGGCTT
Found at i:23778519 original size:40 final size:40
Alignment explanation
Indices: 23778445--23778742 Score: 368
Period size: 40 Copynumber: 7.2 Consensus size: 40
23778435 AACCCAAGTA
* * *
23778445 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
23778484 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
23778524 CCTTCGGGACTTAGCCCGGATATAGTAACTAGTATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCC-G-----G-----A-TATAGTAACTAGCACAAATG
* *
23778576 CCTTC-GGATCTTAGTCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCACAAATG
* *
23778616 CCTTC-GGATCTTAGTCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCACAAATG
*
23778656 CCTTCGGGACTTAGCTCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
23778696 CCTTCGAGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
23778736 CCTTCGG
1 CCTTCGG
23778743 ATCTTAGTCC
Statistics
Matches: 233, Mismatches: 11, Indels: 29
0.85 0.04 0.11
Matches are distributed among these distances:
39 13 0.06
40 177 0.76
41 4 0.02
46 2 0.01
51 5 0.02
52 32 0.14
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:23778579 original size:52 final size:52
Alignment explanation
Indices: 23778504--23778607 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
23778494 TTAGCCCGGA
23778504 TATAGTAACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTAG
1 TATAGTAACTAGCACAAATGCCTTC-GGATCTTAGCCCGGATATAGTAACTAG
* *
23778556 TATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTATAGTAACTAG
1 TATAGTAACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGTAACTAG
23778608 CACAAATGCC
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 3 0.06
52 46 0.94
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (52 bp):
TATAGTAACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGTAACTAG
Found at i:23780174 original size:13 final size:13
Alignment explanation
Indices: 23780158--23780185 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23780148 TTTATTATTT
23780158 TTAACACAAAATA
1 TTAACACAAAATA
23780171 TTAACACAAAATA
1 TTAACACAAAATA
23780184 TT
1 TT
23780186 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:23783340 original size:42 final size:43
Alignment explanation
Indices: 23783281--23783387 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 43
23783271 ATGTTATGAA
* *
23783281 ATATCGATGCCACTGTCCCAGACAGGGTCTTACA-TAAA-ATC
1 ATATCGATGCCAATGTCCCAGACAGGGTCGTACACTAAATATC
* *
23783322 ATATACGATGCCAATGTCCCAGACATGGTCGTACACGTAAATCTC
1 ATAT-CGATGCCAATGTCCCAGACAGGGTCGTACAC-TAAATATC
* *
23783367 AAATCGATGCCAAGGTCCCAG
1 ATATCGATGCCAATGTCCCAG
23783388 TCTTGGTCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 4 0.07
42 27 0.48
44 20 0.36
45 5 0.09
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (43 bp):
ATATCGATGCCAATGTCCCAGACAGGGTCGTACACTAAATATC
Found at i:23784509 original size:13 final size:13
Alignment explanation
Indices: 23784491--23784516 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23784481 CACAAACGTT
23784491 AAAAATTTTCACA
1 AAAAATTTTCACA
23784504 AAAAATTTTCACA
1 AAAAATTTTCACA
23784517 CACATCACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATTTTCACA
Done.