Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 365 of 770
Found at i:111931637 original size:71 final size:70
Alignment explanation
Indices: 111931436--111931633 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
111931426 CGATTTGTCT
* * * *
111931436 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
111931501 CTTTCA
65 CTTTCA
* * * *
111931507 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
111931572 CTTTCA
65 CTTTCA
* *
111931578 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
111931634 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:111939115 original size:71 final size:71
Alignment explanation
Indices: 111938999--111939162 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
111938989 CGATTTGTCT
111938999 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
111939064 CTTTCA
66 CTTTCA
111939070 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
111939135 CTTTCA
66 CTTTCA
111939141 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
111939163 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:111939200 original size:71 final size:70
Alignment explanation
Indices: 111938999--111939196 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
111938989 CGATTTGTCT
* * * *
111938999 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
111939064 CTTTCA
65 CTTTCA
* * * *
111939070 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
111939135 CTTTCA
65 CTTTCA
* *
111939141 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
111939197 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:111944411 original size:17 final size:18
Alignment explanation
Indices: 111944369--111944417 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
111944359 AGTTGAAAAG
111944369 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
111944388 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
111944405 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
111944418 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:111945304 original size:40 final size:40
Alignment explanation
Indices: 111945238--111945404 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
111945228 AAATTGAATG
* * *
111945238 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
111945277 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
111945317 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
111945357 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
111945397 ATATCCGG
1 ATATCCGG
111945405 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:111951484 original size:39 final size:40
Alignment explanation
Indices: 111951384--111951565 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
111951374 TCAAACGATG
* * *
111951384 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
111951424 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
111951464 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
111951502 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
111951543 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
111951566 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:111951529 original size:78 final size:80
Alignment explanation
Indices: 111951384--111951565 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
111951374 TCAAACGATG
* * * *
111951384 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
111951449 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
111951464 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
111951526 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
111951543 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
111951566 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:111954440 original size:21 final size:21
Alignment explanation
Indices: 111954415--111954483 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
111954405 TATAATGATT
111954415 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
111954436 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
111954456 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
111954476 ATTATTAT
1 ATTATTAT
111954484 TATTATCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:111959800 original size:21 final size:21
Alignment explanation
Indices: 111959775--111959816 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
111959765 GGAAACGTAT
111959775 AGAAGAACACAAAGAAACAAA
1 AGAAGAACACAAAGAAACAAA
*
111959796 AGAAGAACATAAAGAAACAAA
1 AGAAGAACACAAAGAAACAAA
111959817 TGTGAAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.71, C:0.12, G:0.14, T:0.02
Consensus pattern (21 bp):
AGAAGAACACAAAGAAACAAA
Found at i:111962167 original size:43 final size:44
Alignment explanation
Indices: 111962106--111962193 Score: 142
Period size: 43 Copynumber: 2.0 Consensus size: 44
111962096 CTAGTAAAAC
* *
111962106 TAGAGTTTCCAGGGTAAATAGTATAAAT-CTTAAAAGATAAAGA
1 TAGAGTTTCCACGGTAAATAGTATAAATCCTAAAAAGATAAAGA
*
111962149 TAGAGTTTTCACGGTAAATAGTATAAATCCTAAAAAGATAAAGA
1 TAGAGTTTCCACGGTAAATAGTATAAATCCTAAAAAGATAAAGA
111962193 T
1 T
111962194 TGTATAGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 26 0.63
44 15 0.37
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.28
Consensus pattern (44 bp):
TAGAGTTTCCACGGTAAATAGTATAAATCCTAAAAAGATAAAGA
Found at i:111963421 original size:197 final size:197
Alignment explanation
Indices: 111963086--111963470 Score: 648
Period size: 197 Copynumber: 2.0 Consensus size: 197
111963076 CTGTTTTCCA
* * *
111963086 TACTTGATGCCTTTTAATGCTCAAAAATTGTTTTTCATACTTGAAGCCTTTTATGGCCTAAACTC
1 TACTTGAGGCCTTTAAATGCTCAAAAATTGTTTTCCATACTTGAAGCCTTTTATGGCCTAAACTC
* *
111963151 ACTGCTATTGATTGGCAACCATTTTTAGATTGCATCTGTATGGAAAAGTTGTTGGTACCCTACAA
66 ACTGCTATTGATTGGCAACCATTTTCAGATTGCATCTATATGGAAAAGTTGTTGGTACCCTACAA
111963216 TATGTTTGTCTTACCAGACTAGATATTTCTTACAGTGAACAAAATAAGTCAATACATGCTATTGA
131 TATGTTTGTCTTACCAGACTAGATATTTCTTACAGTGAACAAAATAAGTCAATACATGCTATTGA
111963281 CT
196 CT
*
111963283 TACTTGAGGCCTTTAAATGCTCAAAAATTGTTTTCCATACTTGAGGCCTTTTATGGCCTAAACTC
1 TACTTGAGGCCTTTAAATGCTCAAAAATTGTTTTCCATACTTGAAGCCTTTTATGGCCTAAACTC
* * *
111963348 TA-TGTTATTGA-TGGTCAACTATTTTCAGATTGCATCTATATGGAAAAGTTGTTGGTACCTTAC
66 -ACTGCTATTGATTGG-CAACCATTTTCAGATTGCATCTATATGGAAAAGTTGTTGGTACCCTAC
*
111963411 AATATGTTTGTCTTACCAGACTAGATATTTCTTACAGTGAACAAAGTAAGTCAATACATG
129 AATATGTTTGTCTTACCAGACTAGATATTTCTTACAGTGAACAAAATAAGTCAATACATG
111963471 AATATTCCTT
Statistics
Matches: 176, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
196 3 0.02
197 172 0.98
198 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (197 bp):
TACTTGAGGCCTTTAAATGCTCAAAAATTGTTTTCCATACTTGAAGCCTTTTATGGCCTAAACTC
ACTGCTATTGATTGGCAACCATTTTCAGATTGCATCTATATGGAAAAGTTGTTGGTACCCTACAA
TATGTTTGTCTTACCAGACTAGATATTTCTTACAGTGAACAAAATAAGTCAATACATGCTATTGA
CT
Found at i:111965626 original size:5 final size:5
Alignment explanation
Indices: 111965616--111965640 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
111965606 GTTTTTCATA
111965616 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
111965641 CCGCTTGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:111973253 original size:47 final size:44
Alignment explanation
Indices: 111973141--111973313 Score: 116
Period size: 46 Copynumber: 3.8 Consensus size: 44
111973131 TTACTTGTGT
* *
111973141 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAG-C-CATTAAGA
* * * *
111973187 GAGCCAGCGTAGGACCATGTTTGGGACATGGCATCAG-CATTAAGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATTAAGA
* * * **
111973232 CGAGTGCTAGTGTAAGACATGTCTAGGATATGCTTCAGCC-TCGAGA
1 -GA--GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATTAAGA
* * *
111973278 CGTAAGCCAATATAAGACATGTCTGGGACATGCATC
1 -G--AGCTAGTGTAAGACATGTCTGGGACATGCATC
111973314 GGCTACAAGA
Statistics
Matches: 98, Mismatches: 21, Indels: 16
0.73 0.16 0.12
Matches are distributed among these distances:
45 7 0.07
46 50 0.51
47 25 0.26
48 16 0.16
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATTAAGA
Found at i:111976924 original size:40 final size:40
Alignment explanation
Indices: 111976867--111977030 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
111976857 TGAATGATAC
* * * *
111976867 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
111976907 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
111976947 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
111976987 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
111977027 CCGG
1 CCGG
111977031 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:111984009 original size:80 final size:80
Alignment explanation
Indices: 111983925--111984073 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
111983915 TATGGTAACC
* * * *
111983925 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
111983989 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
111984005 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
111984070 CCGG
66 CCGG
111984074 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:111984087 original size:40 final size:40
Alignment explanation
Indices: 111983966--111984117 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
111983956 ATCACGATTT
* * * *
111983966 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACTA
* **
111984006 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACTA
* * **
111984046 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCTA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACTA
* * *
111984086 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
111984118 CATTCAATTT
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
39 2 0.02
40 88 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACTA
Found at i:111984100 original size:80 final size:80
Alignment explanation
Indices: 111983966--111984115 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
111983956 ATCACGATTT
* * *
111983966 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTAGCACGAATGCCTTCGGGGCTTAGCC
111984031 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * ** * *
111984046 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCTAGCA-TAATTGTCTTCGGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTAGCACGAA-TGCCTTCGGGGCTTAGC
111984110 CCGGAT
65 CCGGAT
111984116 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.03
80 57 0.97
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTAGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:112004853 original size:57 final size:58
Alignment explanation
Indices: 112004757--112004900 Score: 195
Period size: 57 Copynumber: 2.5 Consensus size: 58
112004747 TATCATATTA
112004757 CAGGATTACCAGTCCAGGCTAAATCCTTTATGTAACATATGCTC-AGAAGAGCTTA-AT
1 CAGGATTACCAGTCCAGGCTAAATCCTTTATGTAACATATGCTCGAGAAGAG-TTATAT
* * *
112004814 TAGGATTACCAGTCCAGGCTAAATCC-TTATTGTATCATATGCTCGAGAGGAGTTATAT
1 CAGGATTACCAGTCCAGGCTAAATCCTTTA-TGTAACATATGCTCGAGAAGAGTTATAT
* **
112004872 CAGGATTACCTGTCTGGGCTAAATCCTTT
1 CAGGATTACCAGTCCAGGCTAAATCCTTT
112004901 CTATAATGAG
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
56 3 0.04
57 41 0.54
58 30 0.39
59 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (58 bp):
CAGGATTACCAGTCCAGGCTAAATCCTTTATGTAACATATGCTCGAGAAGAGTTATAT
Found at i:112007908 original size:2 final size:2
Alignment explanation
Indices: 112007901--112007926 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
112007891 CATCAGCTAG
112007901 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
112007927 ATAGGCTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:112015272 original size:28 final size:28
Alignment explanation
Indices: 112015232--112015304 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
112015222 GTTCAAATTG
* *
112015232 TATAGCACTAAGTGTGCAAGTTTGATTA
1 TATAGCACTAAGTGTGCAAGTTCGACTA
**
112015260 TATAGCACTAAGTGTGTGAGTTCGACTA
1 TATAGCACTAAGTGTGCAAGTTCGACTA
112015288 T-TAAGCACTAAGTGTGC
1 TAT-AGCACTAAGTGTGC
112015305 GGGCTTATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCAAGTTCGACTA
Found at i:112022988 original size:28 final size:29
Alignment explanation
Indices: 112022890--112022988 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
112022880 TCACAAATTG
* *
112022890 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
112022919 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
112022947 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
112022975 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
112022989 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:112024613 original size:42 final size:41
Alignment explanation
Indices: 112024566--112024648 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 41
112024556 AGTAGTAAAC
112024566 ACACGG-GCAGAGACAT-GGCTGTGTGTCTCAGCCGTGTGAAGG
1 ACACGGCGCAG-GACATGGGC-GTGTGTC-CAGCCGTGTGAAGG
* *
112024608 ACACGGCCTCAGGACATGGGCGTGTGTCCAGCTGTGTGAAG
1 ACACGG-CGCAGGACATGGGCGTGTGTCCAGCCGTGTGAAG
112024649 TTTTGCACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
42 18 0.50
43 12 0.33
44 6 0.17
ACGTcount: A:0.20, C:0.23, G:0.37, T:0.19
Consensus pattern (41 bp):
ACACGGCGCAGGACATGGGCGTGTGTCCAGCCGTGTGAAGG
Found at i:112024868 original size:11 final size:10
Alignment explanation
Indices: 112024841--112024878 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
112024831 CTGTTTCATG
112024841 AAAGTATTTCT
1 AAAGT-TTTCT
112024852 -AAGTTTTCCT
1 AAAGTTTT-CT
112024862 AAAGTTTTCT
1 AAAGTTTTCT
112024872 AAAGTTT
1 AAAGTTT
112024879 CTCGATTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 3 0.12
10 15 0.60
11 7 0.28
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (10 bp):
AAAGTTTTCT
Found at i:112027800 original size:29 final size:29
Alignment explanation
Indices: 112027767--112027840 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
112027757 CCTTCGAGCT
112027767 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
112027796 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
112027825 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
112027841 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:112027801 original size:58 final size:58
Alignment explanation
Indices: 112027708--112027840 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
112027698 ATACTCGATT
* * * * *
112027708 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
112027766 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
112027824 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
112027841 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:112035660 original size:29 final size:29
Alignment explanation
Indices: 112035627--112035700 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
112035617 CCTTCGAGCT
112035627 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
112035656 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
112035685 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
112035701 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:112035661 original size:58 final size:58
Alignment explanation
Indices: 112035568--112035700 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
112035558 ATACTCGATT
* * * * *
112035568 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
112035626 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
112035684 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
112035701 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:112041200 original size:42 final size:42
Alignment explanation
Indices: 112041152--112041337 Score: 264
Period size: 42 Copynumber: 4.4 Consensus size: 42
112041142 TGCCTCTATT
* * * *
112041152 CCAGACAGGGTCTTACACGAAATTAGATACAATGCCGGTGTC
1 CCAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTC
112041194 CCAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTC
1 CCAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTC
* * * *
112041236 ACAGACATGGTCTTACACGAAATCAGATTCTATGCCAATGTC
1 CCAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTC
* * * *
112041278 CTAAACATGGTCTTACACGAAATCAGATACGATACTGATGTC
1 CCAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTC
112041320 CCAGACATGGTCTTACAC
1 CCAGACATGGTCTTACAC
112041338 TTAAATCTCA
Statistics
Matches: 126, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 126 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (42 bp):
CCAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTC
Found at i:112049533 original size:48 final size:46
Alignment explanation
Indices: 112049481--112049749 Score: 193
Period size: 48 Copynumber: 5.6 Consensus size: 46
112049471 TCGAGGCTGA
* *
112049481 TGCCATGCCCCAGACATGGTTTTACACTAGCTCTCATCCCAATGT-CGG
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT---AATGTGCGG
* ** *
112049529 TGCCATGTCCTAGACATGGTCTTACACCGGCTCTCATAATGTGGGTGG
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGT--GCGG
* *
112049577 TGCCATGTCCCAGACATGGTCTTACACTCGCTCTCATAATGTGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGT-G-CGG
* * * * * ** *
112049625 TACCATATCCCAGACATGATCTTACACTGGCTCTCACAACAT-CAATGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGC---GG
** * * * *
112049673 TGCCATGTTTCAAACATGGTCTTACACTGGATCTCAT-ATCGTGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GT-G-CGG
*
112049721 TGCCATGTCCCAGACATGTTCTTACACTA
1 TGCCATGTCCCAGACATGGTCTTACACTA
112049750 ACGAACATAT
Statistics
Matches: 177, Mismatches: 33, Indels: 22
0.76 0.14 0.09
Matches are distributed among these distances:
45 6 0.03
47 3 0.02
48 167 0.94
51 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGCGG
Found at i:112049640 original size:96 final size:96
Alignment explanation
Indices: 112049478--112049747 Score: 278
Period size: 96 Copynumber: 2.8 Consensus size: 96
112049468 ATGTCGAGGC
* * * *
112049478 TGATGCCATGCCCCAGACATGGTTTTACACTAGCTCTCATCCCAATGT---CGGTGCCATGTCCT
1 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT---AATGTGGCCGATGCCATGTCCC
* * ** ***
112049540 AGACATGGTCTTACACCGGCTCTCATAATGTGGG
63 AGACATGATCTTACACCGGCTCTCACAACATCAA
* * * *
112049574 TGGTGCCATGTCCCAGACATGGTCTTACACTCGCTCTCATAATGTGGCCGATACCATATCCCAGA
1 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCCATGTCCCAGA
*
112049639 CATGATCTTACACTGGCTCTCACAACATCAA
66 CATGATCTTACACCGGCTCTCACAACATCAA
** * * *
112049670 TGATGCCATGTTTCAAACATGGTCTTACACTGGATCTCAT-ATCGTGGCCGATGCCATGTCCCAG
1 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGGCCGATGCCATGTCCCAG
*
112049734 ACATGTTCTTACAC
65 ACATGATCTTACAC
112049748 TAACGAACAT
Statistics
Matches: 145, Mismatches: 25, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
93 5 0.03
95 2 0.01
96 138 0.95
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (96 bp):
TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCCATGTCCCAGA
CATGATCTTACACCGGCTCTCACAACATCAA
Found at i:112071913 original size:40 final size:39
Alignment explanation
Indices: 112071745--112071915 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
112071735 AGAAATTGAA
* *
112071745 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
112071785 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
112071825 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
112071865 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
112071905 TGATATCCGGG
1 TGATATCCGGG
112071916 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:112080018 original size:40 final size:39
Alignment explanation
Indices: 112079850--112080020 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
112079840 AGAAATTGAA
* *
112079850 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
112079890 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
112079930 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
112079970 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
112080010 TGATATCCGGG
1 TGATATCCGGG
112080021 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:112088703 original size:55 final size:55
Alignment explanation
Indices: 112088631--112088821 Score: 265
Period size: 55 Copynumber: 3.5 Consensus size: 55
112088621 GTCTATACCG
* * * * *
112088631 GTGTTATTTTGGCAGGTTCGCCCACTATTGCTAGGCACGGGCGTGTCGCACGCCC
1 GTGTTAATTTGACAGGTTCGCCCACGATTTCCAGGCACGGGCGTGTCGCACGCCC
*
112088686 GTGTTAATTTGACAGGTTCGGCCACGATTTCCAGGCACGGGCGTGTCGCACGCCC
1 GTGTTAATTTGACAGGTTCGCCCACGATTTCCAGGCACGGGCGTGTCGCACGCCC
* * * * *
112088741 TTGTTAATTTGATAGGTTCGGCCACGGTTTCCAGGCACGGGTGTGTCGCACGCCC
1 GTGTTAATTTGACAGGTTCGCCCACGATTTCCAGGCACGGGCGTGTCGCACGCCC
* *
112088796 GTGTTGATTTGACAGGTTCACCCACG
1 GTGTTAATTTGACAGGTTCGCCCACG
112088822 GCCATGTCGC
Statistics
Matches: 121, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 121 1.00
ACGTcount: A:0.15, C:0.27, G:0.30, T:0.27
Consensus pattern (55 bp):
GTGTTAATTTGACAGGTTCGCCCACGATTTCCAGGCACGGGCGTGTCGCACGCCC
Found at i:112096939 original size:18 final size:18
Alignment explanation
Indices: 112096916--112096951 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
112096906 CATAGCTGAG
112096916 ACACATGGTCGTGTCTCT
1 ACACATGGTCGTGTCTCT
112096934 ACACATGGTCGTGTCTCT
1 ACACATGGTCGTGTCTCT
112096952 GGCCGTGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.22, T:0.33
Consensus pattern (18 bp):
ACACATGGTCGTGTCTCT
Found at i:112097901 original size:48 final size:47
Alignment explanation
Indices: 112097846--112098128 Score: 266
Period size: 48 Copynumber: 5.9 Consensus size: 47
112097836 GTGAATTGCT
* * * *
112097846 GATGCCATGTTCCAAAAATGGTCTTACACTAGCTCACATGTCGAGGCC
1 GATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATC-ATGCC
** * ** *
112097894 GATGCCATGCCCCAGACATGGTCTTTCACTAGCTCTTATCTCAATGCC
1 GATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATC-ATGCC
* * *
112097942 GATGCCATGTCCCAGACATGGTTTTACACTAG-TGCATATATCAATGCC
1 GATGCCATGTTCCAGACATGGTCTTACACTAGCT-CACATATC-ATGCC
* * * * *
112097990 GATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCACAACATCCC
1 GATGCCATGTTCC-AGACATGGTCTTACACTAGCTCACATATCATGCC
* * * *
112098037 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGCT
1 -GATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAT-GCC
*
112098086 GATGCCATG-TCCTAGACATGGTCTTACACTAGCGCACATATCA
1 GATGCCATGTTCC-AGACATGGTCTTACACTAGCTCACATATCA
112098129 CCCAAATGTC
Statistics
Matches: 196, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
47 10 0.05
48 181 0.92
49 5 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
GATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCATGCC
Found at i:112098010 original size:96 final size:95
Alignment explanation
Indices: 112097844--112098118 Score: 299
Period size: 96 Copynumber: 2.9 Consensus size: 95
112097834 AGGTGAATTG
* * * * * *
112097844 CTGATGCCATGTTCCAAAAATGGTCTTACACTAGCT-CACATGTCGAGGCCGATGCCATGCCCCA
1 CTGATGCCATGTTCCAAACATGGTCTTACACTAG-TGCATATATC-ATGCCGATGCCATGTCCTA
* * * *
112097908 GACATGGTCTTTCACTAGCTCTTATC-TCAATGC
64 GACATGGTCTTACACTAGCTCTCA-CAAC-ATCC
* * *
112097941 C-GATGCCATGTCCCAGACATGGTTTTACACTAGTGCATATATCAATGCCGATGCCATGTCCTAG
1 CTGATGCCATGTTCCAAACATGGTCTTACACTAGTGCATATATC-ATGCCGATGCCATGTCCTAG
*
112098005 ACATGGTCTTACACTGGCTCTCACAACATCC
65 ACATGGTCTTACACTAGCTCTCACAACATCC
* *
112098036 CTGATGCCATGTTCCAAACATGGTCTTACACT-G-GCTCTCATATCATGGCTGATGCCATGTCCT
1 CTGATGCCATGTTCCAAACATGGTCTTACACTAGTGC-AT-ATATCAT-GCCGATGCCATGTCCT
112098099 AGACATGGTCTTACACTAGC
63 AGACATGGTCTTACACTAGC
112098119 GCACATATCA
Statistics
Matches: 151, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
94 2 0.01
95 10 0.07
96 138 0.91
97 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (95 bp):
CTGATGCCATGTTCCAAACATGGTCTTACACTAGTGCATATATCATGCCGATGCCATGTCCTAGA
CATGGTCTTACACTAGCTCTCACAACATCC
Found at i:112103680 original size:29 final size:29
Alignment explanation
Indices: 112103647--112103720 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
112103637 CCTTCGAGCT
112103647 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
112103676 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
112103705 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
112103721 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:112103681 original size:58 final size:58
Alignment explanation
Indices: 112103588--112103720 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
112103578 ATACTCGATT
* * * * *
112103588 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
112103646 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
112103704 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
112103721 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:112108510 original size:40 final size:39
Alignment explanation
Indices: 112108465--112108659 Score: 155
Period size: 40 Copynumber: 5.2 Consensus size: 39
112108455 CGGAATATAA
112108465 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
112108505 CCGGATAGAATAACTCGCACGAATGCC-TC--GTCTTAGC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGTCTTAGC
112108542 CCGG--AT-AT--C-GCAC--ATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
** * *
112108573 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * *
112108613 CCGGATATAATTTC-CAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAA--TCACTGCACAAATGCCTTCGGGTCTTAGC
112108652 CCGGATAT
1 CCGGATAT
112108660 CATTCAATTT
Statistics
Matches: 126, Mismatches: 14, Indels: 31
0.74 0.08 0.18
Matches are distributed among these distances:
28 5 0.04
29 2 0.02
30 4 0.03
31 12 0.10
32 1 0.01
33 2 0.02
34 2 0.02
35 1 0.01
36 1 0.01
37 12 0.10
38 4 0.03
39 16 0.13
40 62 0.49
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:112108600 original size:68 final size:70
Alignment explanation
Indices: 112108487--112108620 Score: 175
Period size: 68 Copynumber: 1.9 Consensus size: 70
112108477 ACGTGCACAA
* * *
112108487 ATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCC-TC-GTCTTAGCCCGGATAT
1 ATGCCTTCGGGTCTTAGCCCGGATAGAACAACTAGCACGAATGCCTTCGGTCTTAACCCGGATAT
112108550 CGCAC
66 CGCAC
* * *
112108555 ATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCAC-AATTGCCTTCGGGTCTTAACCCGGAT
1 ATGCCTTCGGGTCTTAGCCCGGATAGAACAACTAGCACGAA-TGCCTTC-GGTCTTAACCCGGAT
112108619 AT
64 AT
112108621 AATTTCCAGC
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
67 2 0.04
68 37 0.66
69 2 0.04
71 15 0.27
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.25
Consensus pattern (70 bp):
ATGCCTTCGGGTCTTAGCCCGGATAGAACAACTAGCACGAATGCCTTCGGTCTTAACCCGGATAT
CGCAC
Found at i:112110073 original size:18 final size:20
Alignment explanation
Indices: 112110036--112110074 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
112110026 GAAAGGGGAA
112110036 TTTGACATGCAATCCATTAT
1 TTTGACATGCAATCCATTAT
*
112110056 TTTG-CATGC-ATGCATTAT
1 TTTGACATGCAATCCATTAT
112110074 T
1 T
112110075 CCACTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 5 0.28
20 4 0.22
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTGACATGCAATCCATTAT
Found at i:112116463 original size:40 final size:39
Alignment explanation
Indices: 112116418--112116621 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
112116408 CGGAATATAA
112116418 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
112116458 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGTCTTAGC
* *
112116498 CCGGATATAA-CTC-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
** * *
112116535 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * *
112116575 CCGGATATAATTTC-CAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAA--TCACTGCACAAATGCCTTCGGGTCTTAGC
112116614 CCGGATAT
1 CCGGATAT
112116622 CATTCAATTT
Statistics
Matches: 141, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
37 33 0.23
38 2 0.01
39 15 0.11
40 89 0.63
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:112116534 original size:77 final size:77
Alignment explanation
Indices: 112116434--112116620 Score: 227
Period size: 77 Copynumber: 2.4 Consensus size: 77
112116424 ATAATCACGT
* * *
112116434 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACAACTAGCAC-AATTGCCTTCGGGTCTTAAC
112116498 CCGGATATAACTC
65 CCGGATATAACTC
* * * *
112116511 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAACC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACAACTAGCACAATTGCCTTCGGGTCTTAACC
*
112116576 CGGATATAATTTC
66 CGGATATAA-CTC
*
112116589 -CAGCATAATTGTCTTCGGG-CTTAGCCCGGATA
1 GCA-CA-AA-TGCCTTCGGGTCTTAGCCCGGATA
112116621 TCATTCAATT
Statistics
Matches: 95, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
76 2 0.02
77 66 0.69
78 3 0.03
79 15 0.16
80 9 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (77 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACAACTAGCACAATTGCCTTCGGGTCTTAACC
CGGATATAACTC
Found at i:112118505 original size:27 final size:28
Alignment explanation
Indices: 112118447--112118536 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
112118437 AGGAAGCGTC
*
112118447 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
112118475 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
112118502 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
112118531 CTGGTG
1 CTGGTG
112118537 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:112118547 original size:29 final size:28
Alignment explanation
Indices: 112118457--112118547 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
112118447 CTGGTGGCTA
* * *
112118457 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
112118485 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
112118512 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
112118541 TGTCACA
1 TGCCACA
112118548 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:112118555 original size:55 final size:56
Alignment explanation
Indices: 112118447--112118561 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
112118437 AGGAAGCGTC
* * *
112118447 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
112118502 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
112118558 CTGG
1 CTGG
112118562 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:112121780 original size:27 final size:27
Alignment explanation
Indices: 112121739--112121792 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
112121729 TGTCATGTGA
* *
112121739 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
112121766 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
112121793 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:112128691 original size:5 final size:5
Alignment explanation
Indices: 112128681--112128748 Score: 50
Period size: 6 Copynumber: 12.8 Consensus size: 5
112128671 TATGTCTTGC
* *
112128681 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT CAAAAGA AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
112128729 AAAAAT AAAAT AAAAT AAAA
1 -AAAAT AAAAT AAAAT AAAA
112128749 ATAAGTCTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
3 3 0.06
5 22 0.43
6 26 0.51
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:112128710 original size:6 final size:6
Alignment explanation
Indices: 112128701--112128752 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
112128691 AATAAAATTG
* * *
112128701 AAATGA AAATAA AAATCA AAAGAA AAATAA AAAT-A AAAT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
112128747 AAATAA
1 AAATAA
112128753 GTCTAAATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
5 10 0.25
6 30 0.75
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:112128713 original size:17 final size:17
Alignment explanation
Indices: 112128691--112128752 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 17
112128681 AAAATAAAAT
* *
112128691 AATAAAATTGAAATGAA
1 AATAAAAATAAAATGAA
112128708 AATAAAAATCAAAA-GAAA
1 AATAAAAAT-AAAATG-AA
112128726 AATAAAAATAAAAT-AA
1 AATAAAAATAAAATGAA
112128742 AATAAAAATAA
1 AATAAAAATAA
112128753 GTCTAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
16 13 0.32
17 13 0.32
18 14 0.35
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.18
Consensus pattern (17 bp):
AATAAAAATAAAATGAA
Found at i:112128732 original size:11 final size:11
Alignment explanation
Indices: 112128681--112128752 Score: 65
Period size: 11 Copynumber: 6.2 Consensus size: 11
112128671 TATGTCTTGC
112128681 AAAATAAAATAAT
1 AAAAT-AAA-AAT
**
112128694 AAAATTGAAAT
1 AAAATAAAAAT
112128705 GAAAATAAAAAT
1 -AAAATAAAAAT
*
112128717 CAAAAGAAAAAT
1 -AAAATAAAAAT
112128729 AAAA-ATAAAAT
1 AAAATA-AAAAT
112128740 AAAATAAAAAT
1 AAAATAAAAAT
112128751 AA
1 AA
112128753 GTCTAAATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
10 1 0.02
11 23 0.46
12 21 0.42
13 5 0.10
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:112130283 original size:23 final size:21
Alignment explanation
Indices: 112130257--112130307 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
112130247 AACCAAAGGC
*
112130257 TGTTGTATGGCAGCGCACGGGCG
1 TGTTG-ATGGC-GAGCACGGGCG
*
112130280 TGTTGGTGGCGAGCACGGGCG
1 TGTTGATGGCGAGCACGGGCG
112130301 TG-TGATG
1 TGTTGATG
112130308 CGGGGTATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.16
21 12 0.48
22 4 0.16
23 5 0.20
ACGTcount: A:0.12, C:0.18, G:0.47, T:0.24
Consensus pattern (21 bp):
TGTTGATGGCGAGCACGGGCG
Found at i:112135541 original size:49 final size:49
Alignment explanation
Indices: 112135484--112135674 Score: 350
Period size: 49 Copynumber: 3.9 Consensus size: 49
112135474 ATGTATGAGA
112135484 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
112135533 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
112135582 TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--G
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
112135629 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
112135675 TATATGTGTG
Statistics
Matches: 138, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 45 0.33
49 93 0.67
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:112135655 original size:96 final size:97
Alignment explanation
Indices: 112135486--112135674 Score: 353
Period size: 96 Copynumber: 1.9 Consensus size: 97
112135476 GTATGAGATG
*
112135486 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG-GTGTATATATGTGATAAGG
112135551 CCTAATGGCCGATGTGATGAATGTGAAAGTGTA
65 CCTAATGGCCGATGTGATGAATGTGAAAGTGTA
112135584 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA-GTGTATATATGTGATAAGGC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGGTGTATATATGTGATAAGGC
112135648 CTAATGGCCGATGTGATGAATGTGAAA
66 CTAATGGCCGATGTGATGAATGTGAAA
112135675 TATATGTGTG
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
96 47 0.52
98 43 0.48
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (97 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGGTGTATATATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:112135740 original size:48 final size:47
Alignment explanation
Indices: 112135666--112135865 Score: 285
Period size: 48 Copynumber: 4.2 Consensus size: 47
112135656 CGATGTGATG
* * * *
112135666 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAA-ATATATATGATATGTATATGTGGTAAAGCCGAATGGCT
*
112135714 AATGTGAAACATATATAAGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAA-ATATATATGATATGTATATGTGGTAAAGCCGAATGGCT
112135762 AATGTG-AAATATATGAGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAAATATAT-A-TGATATGTATATGTGGTAAAGCCGAATGGCT
* *
112135810 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAA-ATATATATGATATGTATATGTGGTAAAGCCGAATGGCT
112135858 AATGTGAA
1 AATGTGAA
112135866 TGTTGTAACA
Statistics
Matches: 139, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
46 6 0.04
47 3 0.02
48 123 0.88
49 2 0.01
50 5 0.04
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (47 bp):
AATGTGAAAATATATATGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:112135766 original size:96 final size:96
Alignment explanation
Indices: 112135666--112135865 Score: 337
Period size: 96 Copynumber: 2.1 Consensus size: 96
112135656 CGATGTGATG
* *
112135666 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCTAATGTGAAACATATATA
1 AATGTGAAATATATGAGTGATATGTATATGTGGTAAAGCCGAAGGGCTAATGTGAAACATATATA
112135731 AGATATGTATATGTGGTAAAGCCGAATGGCT
66 AGATATGTATATGTGGTAAAGCCGAATGGCT
* * * *
112135762 AATGTGAAATATATGAGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTG
1 AATGTGAAATATATGAGTGATATGTATATGTGGTAAAGCCGAAGGGCTAATGTGAAACATATATA
*
112135827 TGATATGTATATGTGGTAAAGCCGAATGGCT
66 AGATATGTATATGTGGTAAAGCCGAATGGCT
112135858 AATGTGAA
1 AATGTGAA
112135866 TGTTGTAACA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (96 bp):
AATGTGAAATATATGAGTGATATGTATATGTGGTAAAGCCGAAGGGCTAATGTGAAACATATATA
AGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:112135959 original size:37 final size:37
Alignment explanation
Indices: 112135905--112135995 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
112135895 AACTTGGAAA
*
112135905 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
112135943 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
112135980 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
112135996 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:112137885 original size:40 final size:40
Alignment explanation
Indices: 112137823--112138173 Score: 580
Period size: 40 Copynumber: 8.8 Consensus size: 40
112137813 GAGAATTGAG
* *
112137823 AGTGATATATCCGAACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
112137863 AGTAATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
112137903 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
112137943 AGTGACGTATCCGAACTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
112137983 AGTGATGTATCCAGACTAAGTTCCGAAGAGCATT-GTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
112138022 AGTGACGTATCCGGACTAAGTTCC-AAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAA-GAGCATTCGTGCT
112138062 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
112138102 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
112138142 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
112138174 ATCATGCTGG
Statistics
Matches: 291, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
38 2 0.01
39 34 0.12
40 253 0.87
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:112138147 original size:159 final size:159
Alignment explanation
Indices: 112137823--112138173 Score: 571
Period size: 159 Copynumber: 2.2 Consensus size: 159
112137813 GAGAATTGAG
* *
112137823 AGTGATATATCCGAACTAAGTTCCGAAGAGCATTCGTGCTAGTAATGTATCCGGACTAAGTTCCG
1 AGTGATGTATCCG-ACTAAGTTCCGAAGAGCATTCGTGCTAGTAACGTATCCGGACTAAGTTCCG
112137888 AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGTAT
65 AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGTAT
*
112137953 CCGAACTAAGTTCCGAGGAGCATTCGTGCT
130 CCGAACTAAGTTCCGAAGAGCATTCGTGCT
*
112137983 AGTGATGTATCCAGACTAAGTTCCGAAGAGCATT-GTGCTAGTGACGTATCCGGACTAAGTTCC-
1 AGTGATGTATCC-GACTAAGTTCCGAAGAGCATTCGTGCTAGTAACGTATCCGGACTAAGTTCCG
*
112138046 AAGGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
65 AA-GAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGTA
*
112138111 TCCGGACTAAGTTCCGAAGAGCATTCGTGCT
129 TCCGAACTAAGTTCCGAAGAGCATTCGTGCT
* * *
112138142 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCC-GACTAAGTTCCGAAGAGCA
112138174 ATCATGCTGG
Statistics
Matches: 179, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
158 2 0.01
159 145 0.81
160 31 0.17
161 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (159 bp):
AGTGATGTATCCGACTAAGTTCCGAAGAGCATTCGTGCTAGTAACGTATCCGGACTAAGTTCCGA
AGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGTATC
CGAACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:112141992 original size:49 final size:49
Alignment explanation
Indices: 112141935--112142127 Score: 336
Period size: 51 Copynumber: 3.9 Consensus size: 49
112141925 ATGTATGAGA
112141935 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
112141984 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
112142035 TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--G
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
112142082 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
112142128 TATATGTGTG
Statistics
Matches: 138, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
47 45 0.33
49 45 0.33
51 48 0.35
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:112141994 original size:51 final size:49
Alignment explanation
Indices: 112141937--112142127 Score: 341
Period size: 49 Copynumber: 3.9 Consensus size: 49
112141927 GTATGAGATG
112141937 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTA
112141988 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
112142037 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
112142084 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
112142128 TATATGTGTG
Statistics
Matches: 138, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
47 43 0.31
49 51 0.37
51 44 0.32
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:112142195 original size:48 final size:47
Alignment explanation
Indices: 112142119--112142318 Score: 276
Period size: 48 Copynumber: 4.2 Consensus size: 47
112142109 CGATGTGATG
* * * * *
112142119 AATGTGAAATATATGTGTGATGTCTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAA-ATATATATGATATGTATATGTGGTAAAGCCGAATGGCT
*
112142167 AATGTGAAACATATATAAGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAA-ATATATATGATATGTATATGTGGTAAAGCCGAATGGCT
112142215 AATGTG-AAATATATGAGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAAATATAT-A-TGATATGTATATGTGGTAAAGCCGAATGGCT
* *
112142263 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAA-ATATATATGATATGTATATGTGGTAAAGCCGAATGGCT
112142311 AATGTGAA
1 AATGTGAA
112142319 TGTTGTAACA
Statistics
Matches: 138, Mismatches: 10, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
46 6 0.04
47 3 0.02
48 122 0.88
49 2 0.01
50 5 0.04
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (47 bp):
AATGTGAAAATATATATGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:112142219 original size:96 final size:96
Alignment explanation
Indices: 112142119--112142318 Score: 328
Period size: 96 Copynumber: 2.1 Consensus size: 96
112142109 CGATGTGATG
* *
112142119 AATGTGAAATATATGTGTGATGTCTATATGTGGTAAAGCCGAAGGGCTAATGTGAAACATATATA
1 AATGTGAAATATATGAGTGATATCTATATGTGGTAAAGCCGAAGGGCTAATGTGAAACATATATA
112142184 AGATATGTATATGTGGTAAAGCCGAATGGCT
66 AGATATGTATATGTGGTAAAGCCGAATGGCT
* * * * *
112142215 AATGTGAAATATATGAGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTG
1 AATGTGAAATATATGAGTGATATCTATATGTGGTAAAGCCGAAGGGCTAATGTGAAACATATATA
*
112142280 TGATATGTATATGTGGTAAAGCCGAATGGCT
66 AGATATGTATATGTGGTAAAGCCGAATGGCT
112142311 AATGTGAA
1 AATGTGAA
112142319 TGTTGTAACA
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (96 bp):
AATGTGAAATATATGAGTGATATCTATATGTGGTAAAGCCGAAGGGCTAATGTGAAACATATATA
AGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:112142412 original size:37 final size:37
Alignment explanation
Indices: 112142358--112142448 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
112142348 AACTTGGAAA
*
112142358 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
112142396 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
112142433 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
112142449 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:112144845 original size:17 final size:16
Alignment explanation
Indices: 112144805--112144847 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
112144795 AAGGGTTTGT
*
112144805 TTTAATTAACTAATTA
1 TTTAATTAACTAATGA
*
112144821 TTTAAATTAATTAACTGA
1 TTT-AATTAACTAA-TGA
112144839 TTTAATTAA
1 TTTAATTAA
112144848 AGCAAAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 15 0.65
18 5 0.22
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (16 bp):
TTTAATTAACTAATGA
Found at i:112149514 original size:36 final size:36
Alignment explanation
Indices: 112149473--112149554 Score: 164
Period size: 36 Copynumber: 2.3 Consensus size: 36
112149463 CACATATTCA
112149473 AAGACCGAATCCATAATATTCATATCATTCGATCAT
1 AAGACCGAATCCATAATATTCATATCATTCGATCAT
112149509 AAGACCGAATCCATAATATTCATATCATTCGATCAT
1 AAGACCGAATCCATAATATTCATATCATTCGATCAT
112149545 AAGACCGAAT
1 AAGACCGAAT
112149555 ACACATACCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (36 bp):
AAGACCGAATCCATAATATTCATATCATTCGATCAT
Found at i:112158870 original size:15 final size:15
Alignment explanation
Indices: 112158850--112158878 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
112158840 CACCGACATA
112158850 AAGCCTGCTAGGCAT
1 AAGCCTGCTAGGCAT
112158865 AAGCCTGCTAGGCA
1 AAGCCTGCTAGGCA
112158879 GAAGTGTGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (15 bp):
AAGCCTGCTAGGCAT
Found at i:112160602 original size:40 final size:40
Alignment explanation
Indices: 112160544--112160711 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
112160534 CAATTGAATG
* *
112160544 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
112160585 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
112160624 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
112160664 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
112160704 ATATCCGG
1 ATATCCGG
112160712 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:112160682 original size:80 final size:79
Alignment explanation
Indices: 112160544--112160711 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
112160534 CAATTGAATG
* * *
112160544 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
112160609 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
112160624 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
112160688 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
112160704 ATATCCGG
1 ATATCCGG
112160712 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:112168237 original size:40 final size:40
Alignment explanation
Indices: 112168179--112168346 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
112168169 CAATTGAATG
* *
112168179 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
112168220 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
112168259 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
112168299 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
112168339 ATATCCGG
1 ATATCCGG
112168347 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:112168317 original size:80 final size:79
Alignment explanation
Indices: 112168179--112168346 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
112168169 CAATTGAATG
* * *
112168179 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
112168244 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
112168259 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
112168323 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
112168339 ATATCCGG
1 ATATCCGG
112168347 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:112175059 original size:43 final size:43
Alignment explanation
Indices: 112174965--112175085 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
112174955 AAGAAGTCCA
* * * * ** *
112174965 AACTCGTTGAGTGGTCTGGGTTCGTGATATATGTG-GCATCCG
1 AACTCGTTGAGTGGTCCGAGTTCATAATGGATGCGAGCATCCG
* * * *
112175007 AGCTTGTTGAGTGGTCCGAGTTCTTTATGGATGCGAGCATCCG
1 AACTCGTTGAGTGGTCCGAGTTCATAATGGATGCGAGCATCCG
112175050 AACTCGTTGAGTGGTCCGAGTTCATAATGGATGCGA
1 AACTCGTTGAGTGGTCCGAGTTCATAATGGATGCGA
112175086 TACATGTGAT
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 26 0.40
43 39 0.60
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.31
Consensus pattern (43 bp):
AACTCGTTGAGTGGTCCGAGTTCATAATGGATGCGAGCATCCG
Found at i:112178120 original size:40 final size:40
Alignment explanation
Indices: 112178061--112178267 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
112178051 CAATTGAATG
* * * *
112178061 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * *
112178101 ATATCCGGGTTAAGACCCGAAGGCA-TTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
112178140 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
112178180 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
112178220 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
112178260 ATATCCGG
1 ATATCCGG
112178268 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 34 0.24
40 108 0.76
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:112178240 original size:80 final size:77
Alignment explanation
Indices: 112178062--112178267 Score: 241
Period size: 79 Copynumber: 2.6 Consensus size: 77
112178052 AATTGAATGA
* * ** * * *
112178062 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
*
112178127 TGTGCTAGTGAC
66 TGTGCAAGTGAC
* * *
112178139 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
*
112178204 ATTTGTGCAAGTCGTTC
64 A-TTGTGCAAGT-G-AC
* *
112178221 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
112178268 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
77 1 0.01
79 53 0.49
80 52 0.48
81 1 0.01
82 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (77 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
TGTGCAAGTGAC
Found at i:112181473 original size:49 final size:49
Alignment explanation
Indices: 112181404--112181792 Score: 629
Period size: 49 Copynumber: 8.1 Consensus size: 49
112181394 GTACATAATA
112181404 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
112181453 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
112181502 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
112181551 ATATATGTGATAA-GCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG--TAT
* *
112181601 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
112181650 ATATATGTG---A----TAA-GGCC--TGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
112181689 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
112181738 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
112181787 ATATAT
1 ATATAT
112181793 ATATGTGGTA
Statistics
Matches: 319, Mismatches: 8, Indels: 26
0.90 0.02 0.07
Matches are distributed among these distances:
39 30 0.09
41 4 0.01
42 4 0.01
46 4 0.01
47 4 0.01
48 32 0.10
49 195 0.61
50 16 0.05
51 30 0.09
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:112181672 original size:39 final size:39
Alignment explanation
Indices: 112181629--112181706 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
112181619 AATGGCCGAC
112181629 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
112181668 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
112181707 AATGGCCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (39 bp):
GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
Found at i:112181728 original size:88 final size:88
Alignment explanation
Indices: 112181480--112181755 Score: 426
Period size: 88 Copynumber: 3.0 Consensus size: 88
112181470 TAATGGCCGA
112181480 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
112181545 ATGTATATATATGTGATAAGCCTAATGGCC
66 ATGTATATATATGTG---A---TAA-GGCC
* *
112181575 GATGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGT
1 --TGTGATGAATGTG-AAA-GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
112181640 GAAAGTGTATATATATGTGATAAGGCC
62 GAAAATGTATATATATGTGATAAGGCC
112181667 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
112181732 ATGTATATATATGTGATAAGGCC
66 ATGTATATATATGTGATAAGGCC
112181755 T
1 T
112181756 AATGGCCGAC
Statistics
Matches: 171, Mismatches: 6, Indels: 13
0.90 0.03 0.07
Matches are distributed among these distances:
88 70 0.41
89 3 0.02
90 13 0.08
92 4 0.02
93 3 0.02
96 1 0.01
97 13 0.08
98 3 0.02
99 61 0.36
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.32
Consensus pattern (88 bp):
TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
ATGTATATATATGTGATAAGGCC
Found at i:112181826 original size:187 final size:187
Alignment explanation
Indices: 112181404--112181814 Score: 606
Period size: 187 Copynumber: 2.1 Consensus size: 187
112181394 GTACATAATA
* * ** *
112181404 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
1 ATATATGTGATAAAGCCGAATGGCCGACATGATGAATGTGAAAGTGTATATATATGTG---A---
112181469 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
60 -TAA-GGCC--TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
*
112181534 TGAATGTGAAAATGTATATATATGTGATAAGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
121 TGAATGTGAAAATGTATATATATGTGATAAGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
112181599 AT
186 AT
* * *
112181601 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAAGCCGAATGGCCGACATGATGAATGTGAAAGTGTATATATATGTGATAAGGC
112181666 CTGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66 CTGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
112181731 AATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATAT
131 AATGTATATATATGTGATAA-GCCTAATGGCCGACGTGATGAATGTGAAAATG--TATAT
*
112181791 ATATATGTGGTAAAGCCGAATGGC
1 ATATATGTGATAAAGCCGAATGGC
112181815 TAATGTGAAT
Statistics
Matches: 204, Mismatches: 7, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
187 84 0.41
188 30 0.15
189 4 0.02
190 29 0.14
194 1 0.00
197 56 0.27
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (187 bp):
ATATATGTGATAAAGCCGAATGGCCGACATGATGAATGTGAAAGTGTATATATATGTGATAAGGC
CTGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AATGTATATATATGTGATAAGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAT
Found at i:112181922 original size:36 final size:36
Alignment explanation
Indices: 112181863--112181948 Score: 138
Period size: 36 Copynumber: 2.3 Consensus size: 36
112181853 AACTTGGAAA
112181863 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
112181901 TATGTCCGGGTACGA-CCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
112181937 TATGTCCGGGTA
1 TATGTCCGGGTA
112181949 AGACTTCGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
36 34 0.72
37 9 0.19
38 4 0.09
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.27
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:112182792 original size:18 final size:16
Alignment explanation
Indices: 112182769--112182803 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
112182759 AAATCACTAA
112182769 AAATAGTAGAATGAAATT
1 AAATAGT-GAAT-AAATT
112182787 AAATAGTGAATAAATT
1 AAATAGTGAATAAATT
112182803 A
1 A
112182804 TGTAAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 4 0.24
18 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (16 bp):
AAATAGTGAATAAATT
Found at i:112183871 original size:40 final size:40
Alignment explanation
Indices: 112183827--112184138 Score: 500
Period size: 40 Copynumber: 7.8 Consensus size: 40
112183817 GAGAATTGAG
112183827 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
112183867 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
112183907 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
112183947 AATGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
112183987 AATGATATATCCGGGCTAAATTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
112184027 AATGATATATCCGGGCTAAATTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
112184067 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
112184107 AGTGATGTATCCGGGCT-AGATCCCGAAGAGCA
1 AATGATGTATCCGGACTAAG-TTCCGAAGAGCA
112184139 ATCATGCTGG
Statistics
Matches: 262, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 2 0.01
40 260 0.99
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (40 bp):
AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:112184978 original size:40 final size:39
Alignment explanation
Indices: 112184883--112184983 Score: 98
Period size: 39 Copynumber: 2.6 Consensus size: 39
112184873 GAATGGTATT
* ** * *
112184883 CGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAAA
*
112184922 TGGGCTAAT-TCCCGAAGGCAATTGTGCGAA-TCACTATAA
1 CGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTCACTA-AA
*
112184961 CCGGGCTATGTCCCGAAGACAAT
1 -CGGGCTATGTCCCGAAGGCAAT
112184984 CGAGCGAGTC
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
38 5 0.10
39 27 0.54
40 18 0.36
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
CGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAAA
Found at i:112184999 original size:40 final size:40
Alignment explanation
Indices: 112184923--112185004 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 40
112184913 GTGACTAAAT
* * *
112184923 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC
1 GGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAACC
* * *
112184963 GGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATATCC
1 GGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAACC
112185003 GG
1 GG
112185005 TTAAATTCGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.06
40 33 0.94
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.21
Consensus pattern (40 bp):
GGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAACC
Found at i:112187886 original size:48 final size:49
Alignment explanation
Indices: 112187722--112188106 Score: 629
Period size: 48 Copynumber: 8.2 Consensus size: 49
112187712 GTACATAATA
*
112187722 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
112187771 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
112187820 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-TGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
112187868 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-TGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
112187916 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
112187965 ATATATGTG---A----TAA-GGCC--TGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
112188004 ATATATGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
112188052 ATATATGTGATAAGGCCTAATGGCCGA--TGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
112188099 ATATATGT
1 ATATATGT
112188107 ATGTGGTAAG
Statistics
Matches: 317, Mismatches: 7, Indels: 26
0.91 0.02 0.07
Matches are distributed among these distances:
39 30 0.09
41 4 0.01
42 4 0.01
46 5 0.02
47 29 0.09
48 139 0.44
49 106 0.33
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:112187998 original size:39 final size:40
Alignment explanation
Indices: 112187944--112188106 Score: 175
Period size: 39 Copynumber: 3.7 Consensus size: 40
112187934 AATGGCCGAC
112187944 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC-T
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCAT
112187983 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCGAT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGG-C------C-AT
*
112188031 GTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAAT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC--AT
112188073 GGCCGATGATGAATGTGAAAGTGTATATATATGT
1 ----G-TGATGAATGTGAAAGTGTATATATATGT
112188107 ATGTGGTAAG
Statistics
Matches: 106, Mismatches: 3, Indels: 22
0.81 0.02 0.17
Matches are distributed among these distances:
39 36 0.34
40 1 0.01
41 1 0.01
42 2 0.02
46 2 0.02
47 28 0.26
48 36 0.34
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.33
Consensus pattern (40 bp):
GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCAT
Found at i:112188043 original size:87 final size:89
Alignment explanation
Indices: 112187889--112188106 Score: 325
Period size: 87 Copynumber: 2.4 Consensus size: 89
112187879 AAGGCCTAAT
112187889 GGCCGATGTGATGAATGTGAAA-TGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAAT
1 GGCC-ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAAT
*
112187953 GTGAAAGTGTATATATATGTGATAA
65 GTGAAAATGTATATATATGTGATAA
*
112187978 GGCC-TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CGATGTGATGAATG
1 GGCCATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATG
112188041 TGAAAATGTATATATATGTGATAA
66 TGAAAATGTATATATATGTGATAA
112188065 GGCCTAATGGCCGATGATGAATGTGAAAGTGTATATATATGT
1 GGCC--AT----G-TGATGAATGTGAAAGTGTATATATATGT
112188107 ATGTGGTAAG
Statistics
Matches: 118, Mismatches: 2, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
87 56 0.47
88 28 0.24
89 4 0.03
90 1 0.01
94 1 0.01
95 28 0.24
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.31
Consensus pattern (89 bp):
GGCCATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATG
TGAAAATGTATATATATGTGATAA
Found at i:112188229 original size:37 final size:36
Alignment explanation
Indices: 112188174--112188260 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
112188164 AACTTGGAAA
112188174 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
112188212 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
112188249 TATGTCCGGGTA
1 TATGTCCGGGTA
112188261 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:112191337 original size:40 final size:40
Alignment explanation
Indices: 112191278--112191446 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
112191268 CGGGACTTTA
* * *
112191278 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
112191318 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
112191358 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
112191398 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
112191438 CCCGGATAT
1 CCCGGATAT
112191447 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:112199443 original size:40 final size:40
Alignment explanation
Indices: 112199384--112199552 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
112199374 CGGGACTTTA
* * *
112199384 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
112199424 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
112199464 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
112199504 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
112199544 CCCGGATAT
1 CCCGGATAT
112199553 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:112208072 original size:19 final size:20
Alignment explanation
Indices: 112208045--112208082 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
112208035 TGTTTGTCTC
112208045 CTGTATTTT-TAAAAATTTT
1 CTGTATTTTCTAAAAATTTT
*
112208064 CTGTGTTTTCTAAAAATTT
1 CTGTATTTTCTAAAAATTT
112208083 CCTAAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (20 bp):
CTGTATTTTCTAAAAATTTT
Found at i:112212146 original size:46 final size:48
Alignment explanation
Indices: 112212093--112212219 Score: 149
Period size: 47 Copynumber: 2.7 Consensus size: 48
112212083 TTGGGCATCT
*
112212093 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGGATCC
* *
112212139 GAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAAC-AGG-ATCC
*
112212186 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
112212220 GCGGGTTACA
Statistics
Matches: 67, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
42 1 0.01
43 7 0.10
44 1 0.01
45 2 0.03
46 25 0.37
47 27 0.40
49 1 0.01
50 2 0.03
51 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (48 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGGATCC
Found at i:112215836 original size:47 final size:47
Alignment explanation
Indices: 112215772--112215937 Score: 176
Period size: 47 Copynumber: 3.6 Consensus size: 47
112215762 CAAACGTCTA
*
112215772 AACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCG
1 AACTCATTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCG
* * * * * * * *
112215819 AATTCATTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACGTCCG
1 AACTCATTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCATCCG
* * *
112215865 AACTCGTTGAGTTGAGTCTGAGTTTGTGAAATGTAACTAGGCATCCG
1 AACTCATTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCG
*
112215912 AACTCATTGAGTTGAGTCTGAGTTCG
1 AACTCATTGAGTTGAGTCCGAGTTCG
112215938 CTTATGGATG
Statistics
Matches: 92, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
45 1 0.01
46 32 0.35
47 58 0.63
48 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (47 bp):
AACTCATTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCG
Found at i:112215836 original size:93 final size:93
Alignment explanation
Indices: 112215718--112215983 Score: 406
Period size: 93 Copynumber: 2.9 Consensus size: 93
112215708 AGAATATTTG
* * * * * **
112215718 GGCATACGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCTAAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
112215783 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
*
112215811 GGCATCCGAATTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
* *
112215876 TTGAGTCTGAGTTTGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* * * *
112215904 GGCATCCGAACTCATTGAGTTGAGTCTGAGTTCGCTTATGGATGCGAACGGCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
112215969 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
112215984 CTTATGGGTG
Statistics
Matches: 156, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 156 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:112215882 original size:46 final size:46
Alignment explanation
Indices: 112215728--112215990 Score: 192
Period size: 46 Copynumber: 5.7 Consensus size: 46
112215718 GGCATACGAG
* * **
112215728 CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCTAAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAA
* * * * * * *
112215774 CTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCATCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACGTCCGAA
* *
112215821 TTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAA
* ** * * * * * *
112215867 CTCGTTGAGTTGAGTCTGAGTT-TGTGAAATGTA-ACTAGGCATCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACGTCCGAA
* * * * *
112215914 CTCATTGAGTTGAGTCTGAGTTCGCTTATGGATGCGAACGGCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAA
*
112215960 CTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
112215991 GTGGGTTACA
Statistics
Matches: 164, Mismatches: 43, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
45 2 0.01
46 94 0.57
47 66 0.40
48 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAA
Found at i:112218777 original size:27 final size:27
Alignment explanation
Indices: 112218733--112218785 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
112218723 AACATACACA
*
112218733 AACAAAATATGCAATAAAAAAAATAAG
1 AACAAAATAAGCAATAAAAAAAATAAG
112218760 AACAAAATAAG-AACTAAAAAAAATAA
1 AACAAAATAAGCAA-TAAAAAAAATAA
112218786 AAATTAGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.74, C:0.08, G:0.06, T:0.13
Consensus pattern (27 bp):
AACAAAATAAGCAATAAAAAAAATAAG
Found at i:112224750 original size:40 final size:40
Alignment explanation
Indices: 112224640--112224793 Score: 211
Period size: 40 Copynumber: 3.9 Consensus size: 40
112224630 AAGCTAGTGA
* *
112224640 TTATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
112224679 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* *
112224720 TTATATCCGGGCTAAGACCCAAAGGCATTTGTGTGAGTTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* * * * *
112224760 CTACACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
112224794 TTGTGGTTGT
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
40 100 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
Found at i:112224807 original size:80 final size:80
Alignment explanation
Indices: 112224635--112224809 Score: 210
Period size: 80 Copynumber: 2.2 Consensus size: 80
112224625 GCCATAAGCT
* * * * *
112224635 AGTGATTATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCC
1 AGTGGTTATATCCGGGCTAAGACCCAAAGGCATTTATGCTAGTGACTACACCCGGGCTAAGACCC
*
112224700 GAAGGCATTTGTGCG
66 GAAGGCAATTGTGCG
* * *
112224715 AGTTGTTATATCCGGGCTAAGACCCAAAGGCATTTGTG-TGAGTTG-CTACACCCGGGTTAAGAC
1 AGTGGTTATATCCGGGCTAAGACCCAAAGGCATTTATGCT-AG-TGACTACACCCGGGCTAAGAC
*
112224778 CCGAAGGCAATTGTGCT
64 CCGAAGGCAATTGTGCG
* *
112224795 TGTGGTTGTATCCGG
1 AGTGGTTATATCCGG
112224810 TTAAATTCCG
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
79 1 0.01
80 77 0.96
81 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
AGTGGTTATATCCGGGCTAAGACCCAAAGGCATTTATGCTAGTGACTACACCCGGGCTAAGACCC
GAAGGCAATTGTGCG
Found at i:112232618 original size:40 final size:40
Alignment explanation
Indices: 112232563--112232703 Score: 203
Period size: 40 Copynumber: 3.5 Consensus size: 40
112232553 TGAATGATAC
* * *
112232563 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTATGCGAGTTG-TTATAT
112232603 CCGGGTTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
* * * *
112232643 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
112232683 CCGGGTTAAGACCCGAAGGCA
1 CCGGGTTAAGACCCGAAGGCA
112232704 ATTGTGCTTG
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 90 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
Found at i:112232724 original size:80 final size:80
Alignment explanation
Indices: 112232563--112232726 Score: 213
Period size: 80 Copynumber: 2.0 Consensus size: 80
112232553 TGAATGATAC
* * * * *
112232563 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGTTAAGACCCGAAGGCAATTA
*
112232628 TGCGAGTTGTTATAT
66 TGCGAGTGGTTATAT
*
112232643 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGTTAAGACCCGAAGGCAATT
* ** *
112232707 GTGCTTGTGGTTGTAT
65 ATGCGAGTGGTTATAT
112232723 CCGG
1 CCGG
112232727 TTAAATTCCG
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 70 0.97
81 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGTTAAGACCCGAAGGCAATTA
TGCGAGTGGTTATAT
Found at i:112237621 original size:27 final size:27
Alignment explanation
Indices: 112237583--112237830 Score: 232
Period size: 27 Copynumber: 9.2 Consensus size: 27
112237573 AGAGATCATT
* *
112237583 AAATGATCGTAATGCCCCTGTAGAGCA
1 AAATGACCGTAATGCCCCTGTAGAGTA
*
112237610 AAATAGA-CGTAATGCCCCTTTAGAGTA
1 AAAT-GACCGTAATGCCCCTGTAGAGTA
* ** *
112237637 AAATCACTATAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGAGTA
* *
112237664 AAATGACTGTAATGCCCATGTAGAGTA
1 AAATGACCGTAATGCCCCTGTAGAGTA
** * * *
112237691 AAATGATTGTAATGCACCAGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGAGTA
* *
112237718 AAATGACCATAATGCCCCTGGCAG-GTA
1 AAATGACCGTAATGCCCCT-GTAGAGTA
* *
112237745 AAATGACCGTAATGCCCTTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGAGTA
* *
112237772 AAATGACCGTAATGTCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGAGTA
* * * *
112237799 AAATGGCCGTGATACCCCTATATG-GTA
1 AAATGACCGTAATGCCCCTGTA-GAGTA
112237826 AAATG
1 AAATG
112237831 TCAATTATGC
Statistics
Matches: 184, Mismatches: 32, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
26 4 0.02
27 174 0.95
28 6 0.03
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
AAATGACCGTAATGCCCCTGTAGAGTA
Found at i:112238030 original size:27 final size:26
Alignment explanation
Indices: 112237966--112238037 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
112237956 ATATGGAGGA
*
112237966 AGTT-TTGTACTGGTGACTATGTCAC
1 AGTTATTGTACTGGTGGCTATGTCAC
* *
112237991 A-TTCACTGCTACTGTTGGCTATGTCAC
1 AGTT-ATTG-TACTGGTGGCTATGTCAC
112238018 AGTTATTGATACTGGTGGCT
1 AGTTATTG-TACTGGTGGCT
112238038 TTGCCACTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 2 0.05
25 1 0.03
26 2 0.05
27 30 0.81
28 2 0.05
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (26 bp):
AGTTATTGTACTGGTGGCTATGTCAC
Found at i:112238260 original size:28 final size:27
Alignment explanation
Indices: 112238220--112238279 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
112238210 ACTATATTGT
* *
112238220 TACTGCATTGGGCTTA-GGCCCACACTG
1 TACTGCATAGGGC-TAGGGCCCAAACTG
*
112238247 CTACTGTATAGGGCTAGGGCCCAAACTG
1 -TACTGCATAGGGCTAGGGCCCAAACTG
112238275 TACTG
1 TACTG
112238280 ATACTGAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.25
Consensus pattern (27 bp):
TACTGCATAGGGCTAGGGCCCAAACTG
Found at i:112238291 original size:33 final size:33
Alignment explanation
Indices: 112238243--112238374 Score: 176
Period size: 33 Copynumber: 4.0 Consensus size: 33
112238233 TTAGGCCCAC
* *
112238243 ACTGCTACTGTATAGGGC-TAGGGCCCAAACTGT
1 ACTGATACTGAATAGGGCTTA-GGCCCAAACTGT
*
112238276 ACTGATACTGAATAGGGCTTAGGTCCAAACTGT
1 ACTGATACTGAATAGGGCTTAGGCCCAAACTGT
* * *
112238309 ACTGATACTGAATAGAGCTTAGGCCCAGATTGT
1 ACTGATACTGAATAGGGCTTAGGCCCAAACTGT
* *
112238342 ACTAATACTGAATAGGGCTTAGGCCCAGACTGT
1 ACTGATACTGAATAGGGCTTAGGCCCAAACTGT
112238375 GTTATTCACT
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
33 86 0.98
34 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (33 bp):
ACTGATACTGAATAGGGCTTAGGCCCAAACTGT
Found at i:112241862 original size:27 final size:27
Alignment explanation
Indices: 112241826--112241992 Score: 219
Period size: 27 Copynumber: 6.2 Consensus size: 27
112241816 AGAGGTCGCT
* ** *
112241826 AAATGACCGTCATGCCTTTGTAGAGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
112241853 AAATGACCGTAATGCCCCTGTAGAGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
112241880 AAATGACTGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
112241907 AAATGACTGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
112241934 AAATGACCGTAATGCCCCTGTAGGGAA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * *
112241961 AAATGACCATGATACCCCTGT-GTGGTA
1 AAATGACCGTAATGCCCCTGTAG-GGTA
112241988 AAATG
1 AAATG
112241993 TCAATTATGC
Statistics
Matches: 128, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
26 1 0.01
27 127 0.99
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (27 bp):
AAATGACCGTAATGCCCCTGTAGGGTA
Found at i:112242222 original size:27 final size:28
Alignment explanation
Indices: 112242164--112242229 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
112242154 TTCACTATTA
*
112242164 CTGGTGGCTATGCCACAATTATTGATAT
1 CTGGTGGCTATGCCACAATTACTGATAT
* * *
112242192 -TGGTGGCTTTGCCACATTTACTG-TTT
1 CTGGTGGCTATGCCACAATTACTGATAT
*
112242218 CTGGTAGCTATG
1 CTGGTGGCTATG
112242230 ATGCATTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.39
Consensus pattern (28 bp):
CTGGTGGCTATGCCACAATTACTGATAT
Found at i:112242464 original size:33 final size:33
Alignment explanation
Indices: 112242427--112242502 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
112242417 AGGGCTAGGG
112242427 CCCAGACTGTACTGATACTGAATAGGGCTTAGC
1 CCCAGACTGTACTGATACTGAATAGGGCTTAGC
* * *
112242460 CCCAGACTATACTGATATTGAATAGGGCTTAGG
1 CCCAGACTGTACTGATACTGAATAGGGCTTAGC
112242493 CCCAGACTGT
1 CCCAGACTGT
112242503 GTTATTCACT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (33 bp):
CCCAGACTGTACTGATACTGAATAGGGCTTAGC
Found at i:112243878 original size:56 final size:56
Alignment explanation
Indices: 112243809--112243940 Score: 219
Period size: 56 Copynumber: 2.4 Consensus size: 56
112243799 AATGGCATCA
* *
112243809 ATATATGTGCGAGTAAGACCACGTTTAATACATTATCATCGATATGTGATTCTGAT
1 ATATGTGTGCGAGTAAGACCACGTTTAATACATTAGCATCGATATGTGATTCTGAT
*
112243865 ATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCTGAT
1 ATATGTGTGCGAGTAAGACCACGTTTAATACATTAGCATCGATATGTGATTCTGAT
* *
112243921 TTATGTGTGCAAGTAAGACC
1 ATATGTGTGCGAGTAAGACC
112243941 CTGTCTGGGA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (56 bp):
ATATGTGTGCGAGTAAGACCACGTTTAATACATTAGCATCGATATGTGATTCTGAT
Found at i:112243958 original size:56 final size:56
Alignment explanation
Indices: 112243809--112243971 Score: 175
Period size: 56 Copynumber: 2.9 Consensus size: 56
112243799 AATGGCATCA
* * * * * **
112243809 ATATATGTGCGAGTAAGACCACGTTTAATACATTATCATCGATATGTGATTCTGAT
1 ATATGTGTGCAAGTAAGACCACGTCTAAGACAGTGGCATCGATATGTGATTCTGAT
* * * *
112243865 ATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCTGAT
1 ATATGTGTGCAAGTAAGACCACGTCTAAGACAGTGGCATCGATATGTGATTCTGAT
* ** *
112243921 TTATGTGTGCAAGTAAGACC-CTGTCTGGGATAGTGGCATCGATATGTGATT
1 ATATGTGTGCAAGTAAGACCAC-GTCTAAGACAGTGGCATCGATATGTGATT
112243972 ACATGTAAGA
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
55 1 0.01
56 94 0.99
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.34
Consensus pattern (56 bp):
ATATGTGTGCAAGTAAGACCACGTCTAAGACAGTGGCATCGATATGTGATTCTGAT
Found at i:112246566 original size:27 final size:27
Alignment explanation
Indices: 112246512--112246622 Score: 163
Period size: 27 Copynumber: 4.1 Consensus size: 27
112246502 AGTATGGCTG
* *
112246512 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
112246538 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
112246565 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
112246592 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
112246619 CCAG
1 CCAG
112246623 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
26 15 0.19
27 61 0.78
28 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:112248636 original size:40 final size:40
Alignment explanation
Indices: 112248540--112248758 Score: 260
Period size: 40 Copynumber: 5.5 Consensus size: 40
112248530 CGAATGATGT
* * * *
112248540 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
112248581 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
112248621 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
112248661 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
112248701 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
112248741 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
112248759 ACAATCGAGC
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
40 131 0.84
41 25 0.16
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:112248754 original size:120 final size:121
Alignment explanation
Indices: 112248540--112248758 Score: 307
Period size: 120 Copynumber: 1.8 Consensus size: 121
112248530 CGAATGATGT
* * *
112248540 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* * *
112248605 GTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
112248661 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * *
112248724 TGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
65 TGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
112248759 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
119 1 0.01
120 59 0.69
121 25 0.29
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:112248779 original size:40 final size:40
Alignment explanation
Indices: 112248591--112248784 Score: 158
Period size: 40 Copynumber: 4.8 Consensus size: 40
112248581 CCGGGTCAAT
* * * * * * *
112248591 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
* * * * * * *
112248631 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
* *
112248671 TCCCGAAGGCATTCGTGCGAGTTACTA-AATCCGGGCTAAT-
1 TCCCGAAGGCAATCGTGCGAGTCACTATAA-CCGGGCT-ATG
* *
112248711 TCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
* * * *
112248751 TCCCGAAGACAATCGAGCGAGTCGCTATATCCGG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGG
112248785 TTAAATTCCG
Statistics
Matches: 136, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 4 0.03
40 129 0.95
41 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (40 bp):
TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
Found at i:112254944 original size:40 final size:40
Alignment explanation
Indices: 112254848--112255063 Score: 233
Period size: 40 Copynumber: 5.5 Consensus size: 40
112254838 CGAATGGTGT
* * * *
112254848 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
112254889 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
112254929 CCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
112254969 CC-GG-TAAGT-CCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
112255006 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
112255046 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
112255064 ACAATCGAGC
Statistics
Matches: 149, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
37 26 0.17
38 7 0.05
39 6 0.04
40 85 0.57
41 25 0.17
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:112255010 original size:77 final size:81
Alignment explanation
Indices: 112254847--112255033 Score: 238
Period size: 77 Copynumber: 2.4 Consensus size: 81
112254837 TCGAATGGTG
* * * *
112254847 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATT
*
112254912 TGTGCGAGTTACCAAA
66 CGTGCGAGTTACCAAA
* * * *
112254928 ACCGGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACCAAAACC-GGT-AAGT-CCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATT
*
112254989 CGTGCGAGTTACTAAA
66 CGTGCGAGTTACCAAA
* *
112255005 TCCGGGCTAATTCCCGAAGGCAATTGTGC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC
112255034 GAATCACTAT
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
77 49 0.54
78 3 0.03
79 3 0.03
80 11 0.12
81 25 0.27
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATT
CGTGCGAGTTACCAAA
Found at i:112255048 original size:77 final size:78
Alignment explanation
Indices: 112254847--112255077 Score: 223
Period size: 77 Copynumber: 2.9 Consensus size: 78
112254837 TCGAATGGTG
* * * *
112254847 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TCACTAAA-CC-GGTCAAGTCCCGAAGGCATT
*
112254912 TGTGCGAGTTACCAAA
63 CGTGCGAGTTACCAAA
* * * * * *
112254928 ACCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACCAAAACCGGT-AAGT-CCGAAGGCATTCG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCA-CTAAACCGGTCAAGTCCCGAAGGCATTCG
*
112254991 TGCGAGTTACTAAA
65 TGCGAGTTACCAAA
* * * * * *
112255005 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAGACAATC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCACTA-AACCGGTC-AAGTCCCGAAGGCATTC
*
112255070 GAGCGAGT
64 GTGCGAGT
112255078 CGCTATATCC
Statistics
Matches: 121, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
76 2 0.02
77 59 0.49
78 3 0.02
79 6 0.05
80 21 0.17
81 30 0.25
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCACTAAACCGGTCAAGTCCCGAAGGCATTCGT
GCGAGTTACCAAA
Found at i:112255084 original size:40 final size:40
Alignment explanation
Indices: 112255006--112255089 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
112254996 GTTACTAAAT
* * *
112255006 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
112255046 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
112255086 CCGG
1 CCGG
112255090 TTAAATTCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:112255090 original size:117 final size:119
Alignment explanation
Indices: 112254854--112255078 Score: 267
Period size: 117 Copynumber: 1.9 Consensus size: 119
112254844 GTGTCCGGGC
* * *
112254854 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGA
* * * * * * * * *
112254919 GTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACCAAAACCGG
66 ATCACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACCAAAACCGG
* *
112254973 TAAGT-CCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCG
1 TAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCG
* * *
112255035 AATCACTATAACCGGGCTATGTCCCGAAGACAATCGAGCGAGTC
65 AATCACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTC
112255079 GCTATATCCG
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
116 1 0.01
117 68 0.77
118 14 0.16
119 5 0.06
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (119 bp):
TAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGA
ATCACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACCAAAACCGG
Found at i:112264346 original size:40 final size:40
Alignment explanation
Indices: 112264301--112264430 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
112264291 CGGAATACAA
112264301 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
112264341 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
112264381 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
112264421 CCGGATATAA
1 CCGGATATAA
112264431 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:112264445 original size:40 final size:40
Alignment explanation
Indices: 112264301--112264463 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
112264291 CGGAATACAA
* **
112264301 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
112264341 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
112264381 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
112264421 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
112264460 CCGG
1 CCGG
112264464 GTATCATTCA
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
39 11 0.11
40 89 0.89
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:112273956 original size:29 final size:29
Alignment explanation
Indices: 112273895--112274054 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
112273885 CCTCCGAACT
** * *
112273895 CGCACACCCAGTGCCGTAT-TTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
112273923 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
112273952 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
112273981 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
112274010 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
112274039 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
112274055 ATCTCGTCAC
Statistics
Matches: 123, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 14 0.11
29 109 0.89
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Done.