Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 40 of 378
Found at i:9869104 original size:51 final size:51
Alignment explanation
Indices: 9869028--9869147 Score: 168
Period size: 51 Copynumber: 2.4 Consensus size: 51
9869018 AACTAAGTTA
* * * *
9869028 TCCGGATAAAACATGAAACTCTTGTTAAAGCTAGAGCAACAAAGTAATTAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
* *
9869079 TCCGGATGAAATATGAAGCTCTTGTTAAAGTTAGAGCAACAAGGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
* *
9869130 TCTGGATGAAGTATGAAG
1 TCCGGATGAAATATGAAG
9869148 TAAGTTTGAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
Found at i:9882638 original size:13 final size:13
Alignment explanation
Indices: 9882620--9882644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9882610 AGCCACTAGA
9882620 GCCTCTGCCTCTT
1 GCCTCTGCCTCTT
9882633 GCCTCTGCCTCT
1 GCCTCTGCCTCT
9882645 ACCTCTACCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.48, G:0.16, T:0.36
Consensus pattern (13 bp):
GCCTCTGCCTCTT
Found at i:9887627 original size:20 final size:21
Alignment explanation
Indices: 9887602--9887642 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
9887592 ACGAACTATT
*
9887602 ATAATAGTAG-AATATAATAA
1 ATAATAGTAGTAATAAAATAA
*
9887622 ATAATATTAGTAATAAAATAA
1 ATAATAGTAGTAATAAAATAA
9887643 TATTATTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (21 bp):
ATAATAGTAGTAATAAAATAA
Found at i:9887635 original size:16 final size:17
Alignment explanation
Indices: 9887616--9887647 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9887606 TAGTAGAATA
9887616 TAAT-AAATAATATTAG
1 TAATAAAATAATATTAG
9887632 TAATAAAATAATATTA
1 TAATAAAATAATATTA
9887648 TTCTTAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAAAATAATATTAG
Found at i:9887689 original size:15 final size:15
Alignment explanation
Indices: 9887664--9887706 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
9887654 ACAGTCAAGT
*
9887664 ATAAT-AAAATAGTA
1 ATAATAAAAATAATA
9887678 ATAATAAAAATAATA
1 ATAATAAAAATAATA
*
9887693 ATACTAAAAATAAT
1 ATAATAAAAATAAT
9887707 TAATTTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (15 bp):
ATAATAAAAATAATA
Found at i:9888671 original size:17 final size:15
Alignment explanation
Indices: 9888638--9888673 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
9888628 TAGGTTTAGG
9888638 TGGGTTTTGGGGTAT
1 TGGGTTTTGGGGTAT
9888653 TGGGTTATTGGGTGTAT
1 TGGGTT-TTGGG-GTAT
9888670 TGGG
1 TGGG
9888674 CTTAGAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.08, C:0.00, G:0.47, T:0.44
Consensus pattern (15 bp):
TGGGTTTTGGGGTAT
Found at i:9889164 original size:44 final size:44
Alignment explanation
Indices: 9889116--9889393 Score: 196
Period size: 44 Copynumber: 6.3 Consensus size: 44
9889106 TCTGCTCAAC
*
9889116 TATTGCTTAGGGAGATAAGATCTGTAATCTTCAGCTTGTTACCA
1 TATTGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTGTTACCA
* * * * * *
9889160 TATTGCCTAGGGAGTTAA-AGCCTGCAATCTTCAGCTTGTTACCC
1 TATTGCTTAGGGAGATAAGA-TCTGTAATTTTCAGCTTGTTACCA
* * * * * * *
9889204 CATTCCTTAGGGAGTTAA-AGCCTGCT-GTTTTC-G-AT-CTACCCCA
1 TATTGCTTAGGGAGATAAGA-TCTG-TAATTTTCAGCTTGTTA--CCA
* *
9889247 CTATTGCTTAGGGAGATAGGATCTGTAATTTTCAGCTTGTTACCC
1 -TATTGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTGTTACCA
* * * * **
9889292 TATTGCTTAGGGAGTTAA-AGCCTGTTATTTTC-GATCTG-CCCCA
1 TATTGCTTAGGGAGATAAGA-TCTGTAATTTTCAGCT-TGTTACCA
* *
9889335 CTATTGCTTAGGGAGATAAGATCTGTAATTTTTAGCTTGTTACCC
1 -TATTGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTGTTACCA
9889380 TATTGCTTAGGGAG
1 TATTGCTTAGGGAG
9889394 TTAAAGCCTG
Statistics
Matches: 179, Mismatches: 39, Indels: 32
0.72 0.16 0.13
Matches are distributed among these distances:
41 2 0.01
42 1 0.01
43 10 0.06
44 154 0.86
45 9 0.05
46 1 0.01
47 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (44 bp):
TATTGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTGTTACCA
Found at i:9889287 original size:88 final size:88
Alignment explanation
Indices: 9889189--9889406 Score: 373
Period size: 88 Copynumber: 2.5 Consensus size: 88
9889179 GCCTGCAATC
* *
9889189 TTCAGCTTGTTACCCCATTCCTTAGGGAGTTAAAGCCTGCTGTTTTCGATCTACCCCACTATTGC
1 TTCAGCTTGTTACCCTATTGCTTAGGGAGTTAAAGCCTGCTGTTTTCGATCTACCCCACTATTGC
*
9889254 TTAGGGAGATAGGATCTGTAATT
66 TTAGGGAGATAAGATCTGTAATT
* * *
9889277 TTCAGCTTGTTACCCTATTGCTTAGGGAGTTAAAGCCTGTTATTTTCGATCTGCCCCACTATTGC
1 TTCAGCTTGTTACCCTATTGCTTAGGGAGTTAAAGCCTGCTGTTTTCGATCTACCCCACTATTGC
9889342 TTAGGGAGATAAGATCTGTAATT
66 TTAGGGAGATAAGATCTGTAATT
*
9889365 TTTAGCTTGTTACCCTATTGCTTAGGGAGTTAAAGCCTGCTG
1 TTCAGCTTGTTACCCTATTGCTTAGGGAGTTAAAGCCTGCTG
9889407 AAATTTTAGT
Statistics
Matches: 121, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 121 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (88 bp):
TTCAGCTTGTTACCCTATTGCTTAGGGAGTTAAAGCCTGCTGTTTTCGATCTACCCCACTATTGC
TTAGGGAGATAAGATCTGTAATT
Found at i:9900816 original size:126 final size:126
Alignment explanation
Indices: 9900581--9900817 Score: 379
Period size: 126 Copynumber: 1.9 Consensus size: 126
9900571 GCTTTAAGAG
*
9900581 GATATTCGAATATCCAAAACAAACAAAGAAAGCAAAACCCAGTACGTTAGGGCATGATCCTTTGA
1 GATATTCGAATATCCAAAACAAACAAAGAAAGCAAAACCCAGTACGTTAGGGCACGATCCTTTGA
* **
9900646 ATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACCGGTAAAAA
66 ATTCTTTAAATACCGAACATTGCCATTATTTTGAAAAAAATTGAGAGTGAACCGGTAAAAA
* * *
9900707 GATATTCTG-ATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGTACGATCCTTTG
1 GATATTC-GAATATCCAAAACAAACAAAGAAAGCAAAACCCAGTACGTTAGGGCACGATCCTTTG
9900771 AATTCTTTAAATACCGAACATTGCCATTATTTT-AAAAACAATTGAGA
65 AATTCTTTAAATACCGAACATTGCCATTATTTTGAAAAA-AATTGAGA
9900818 ATAAATCTGT
Statistics
Matches: 102, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
125 5 0.05
126 96 0.94
127 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (126 bp):
GATATTCGAATATCCAAAACAAACAAAGAAAGCAAAACCCAGTACGTTAGGGCACGATCCTTTGA
ATTCTTTAAATACCGAACATTGCCATTATTTTGAAAAAAATTGAGAGTGAACCGGTAAAAA
Found at i:9901459 original size:20 final size:21
Alignment explanation
Indices: 9901434--9901474 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
9901424 ACGAACTATT
*
9901434 ATAATAGTAG-AATATAATAA
1 ATAATAGTAGTAATAAAATAA
*
9901454 ATAATATTAGTAATAAAATAA
1 ATAATAGTAGTAATAAAATAA
9901475 TATTATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (21 bp):
ATAATAGTAGTAATAAAATAA
Found at i:9901467 original size:16 final size:17
Alignment explanation
Indices: 9901448--9901479 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9901438 TAGTAGAATA
9901448 TAAT-AAATAATATTAG
1 TAATAAAATAATATTAG
9901464 TAATAAAATAATATTA
1 TAATAAAATAATATTA
9901480 TTATTAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAAAATAATATTAG
Found at i:9902504 original size:17 final size:15
Alignment explanation
Indices: 9902471--9902506 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
9902461 TAGGTTTAGG
9902471 TGGGTTTTGGGGTAT
1 TGGGTTTTGGGGTAT
9902486 TGGGTTATTGGGTGTAT
1 TGGGTT-TTGGG-GTAT
9902503 TGGG
1 TGGG
9902507 CTTAGAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.08, C:0.00, G:0.47, T:0.44
Consensus pattern (15 bp):
TGGGTTTTGGGGTAT
Found at i:9905667 original size:20 final size:20
Alignment explanation
Indices: 9905642--9905685 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
9905632 ACCCTAAACT
9905642 AGTTTG-GATTTTAAGTTCAG
1 AGTTTGAGA-TTTAAGTTCAG
*
9905662 AGTTTGAGATTTAAGTTTAG
1 AGTTTGAGATTTAAGTTCAG
9905682 AGTT
1 AGTT
9905686 GAGGTATGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.45
Consensus pattern (20 bp):
AGTTTGAGATTTAAGTTCAG
Found at i:9906308 original size:12 final size:12
Alignment explanation
Indices: 9906291--9906318 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
9906281 TACATACTAC
9906291 ATATATACATAT
1 ATATATACATAT
9906303 ATATATACATAT
1 ATATATACATAT
9906315 ATAT
1 ATAT
9906319 GACATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATATACATAT
Found at i:9907560 original size:10 final size:10
Alignment explanation
Indices: 9907545--9907570 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
9907535 ACAATTAATT
9907545 AACTTTTTAA
1 AACTTTTTAA
9907555 AACTTTTTAA
1 AACTTTTTAA
9907565 AACTTT
1 AACTTT
9907571 AAAAAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (10 bp):
AACTTTTTAA
Found at i:9907649 original size:18 final size:21
Alignment explanation
Indices: 9907606--9907654 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 21
9907596 TTTATTTTAA
9907606 AAATAAATATGTATTAAAAAG
1 AAATAAATATGTATTAAAAAG
*
9907627 -TATAAA-AT-TA-TAAAAAG
1 AAATAAATATGTATTAAAAAG
9907644 AAATAATATAT
1 AAATAA-ATAT
9907655 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
17 7 0.30
18 6 0.26
19 3 0.13
20 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
AAATAAATATGTATTAAAAAG
Found at i:9918222 original size:14 final size:14
Alignment explanation
Indices: 9918203--9918231 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9918193 TTTAATCCTG
9918203 ATATGACTTATTTT
1 ATATGACTTATTTT
9918217 ATATGACTTATTTT
1 ATATGACTTATTTT
9918231 A
1 A
9918232 AATTAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (14 bp):
ATATGACTTATTTT
Found at i:9931069 original size:25 final size:26
Alignment explanation
Indices: 9931019--9931070 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
9931009 TTTTATGGAC
* *
9931019 TAAATTATCAAAAAATGGTCATTTTT
1 TAAATTATCAAAAAATGATCAATTTT
9931045 TAAATTA-C-AAAAATAGATCAATTTT
1 TAAATTATCAAAAAAT-GATCAATTTT
9931070 T
1 T
9931071 TAAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 6 0.26
25 10 0.43
26 7 0.30
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (26 bp):
TAAATTATCAAAAAATGATCAATTTT
Found at i:9934942 original size:60 final size:60
Alignment explanation
Indices: 9934853--9934967 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
9934843 GCGACCTAGG
* *
9934853 GTGAAACACGTGTCCAGAAGGCTTCAAGCCTGCACGTAA-TGTCAGTATTAGGAACCCAAA
1 GTGAAACACGTGTCCAGAAGGCCTCAAGCCCGCACG-AAGTGTCAGTATTAGGAACCCAAA
* * * *
9934913 GTGAGACACGTGTCTAGTAGGCCTGAAGCCCGCACGAAGTGTCAGTATTAGGAAC
1 GTGAAACACGTGTCCAGAAGGCCTCAAGCCCGCACGAAGTGTCAGTATTAGGAAC
9934968 GGCTAGCATG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 2 0.04
60 46 0.96
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (60 bp):
GTGAAACACGTGTCCAGAAGGCCTCAAGCCCGCACGAAGTGTCAGTATTAGGAACCCAAA
Found at i:9938550 original size:121 final size:124
Alignment explanation
Indices: 9938373--9938664 Score: 301
Period size: 131 Copynumber: 2.3 Consensus size: 124
9938363 GAAAAATCGA
* * * *
9938373 AACCCAGTACAGTAGGGCACGATTCCTCGAATT-TCCTAAACATTGAACATTGCTTCGCCTT-G-
1 AACCCAGCACAATAGGGCACGATTCCTCGAATTGT-C-AAACATCGAACATTCCTTCGCCTTGGA
* * *
9938435 G-AAAA-CACGAGTGAAATTCTAAAGGAATATTTGATCGTTTTGAACAAACGGGAAA-CTGC
64 GTAAAAGCACGAGTGAAATCCTAAAGGAATATTTGATCGTTTTGAACAAACGAGAAATC-AC
* **
9938494 AACCTAGCACAATAGGGCACGATTCCTCGAATTGTCAAACATCGAACATTACCTTCGTTTTGGAG
1 AACCCAGCACAATAGGGCACGATTCCTCGAATTGTCAAACATCGAACATT-CCTTCGCCTTGGAG
* **
9938559 AATTTTTAAAAGCATGAGTGAAATCCTAAAGGAATATTTGATTTTTTTGAACAAACGAGAAATCA
65 ------TAAAAGCACGAGTGAAATCCTAAAGGAATATTTGATCGTTTTGAACAAACGAGAAATCA
9938624 C
124 C
* * *
9938625 AACCCAGCACGATAGGGCATGATTCC-CGAATTGCCAAACA
1 AACCCAGCACAATAGGGCACGATTCCTCGAATTGTCAAACA
9938665 CCGAGTATTG
Statistics
Matches: 141, Mismatches: 17, Indels: 17
0.81 0.10 0.10
Matches are distributed among these distances:
120 13 0.09
121 38 0.27
122 2 0.01
123 1 0.01
130 17 0.12
131 69 0.49
132 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (124 bp):
AACCCAGCACAATAGGGCACGATTCCTCGAATTGTCAAACATCGAACATTCCTTCGCCTTGGAGT
AAAAGCACGAGTGAAATCCTAAAGGAATATTTGATCGTTTTGAACAAACGAGAAATCAC
Found at i:9939482 original size:2 final size:2
Alignment explanation
Indices: 9939477--9939507 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9939467 TGAGATAATA
9939477 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9939508 AATTTTAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9943799 original size:16 final size:17
Alignment explanation
Indices: 9943773--9943814 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
9943763 ACTAAAACCC
*
9943773 AAAATAAAAAT-AA-AA
1 AAAAAAAAAATGAAGAA
9943788 AAATAAAAAAATGAAGAA
1 AAA-AAAAAAATGAAGAA
9943806 AAAAAAAAA
1 AAAAAAAAA
9943815 CCTAACCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 3 0.13
16 7 0.30
17 8 0.35
18 5 0.22
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.10
Consensus pattern (17 bp):
AAAAAAAAAATGAAGAA
Found at i:9945026 original size:19 final size:19
Alignment explanation
Indices: 9944999--9945036 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9944989 TTGAGATTAC
*
9944999 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
*
9945018 CAACTTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
9945037 TATTTATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:9945127 original size:8 final size:8
Alignment explanation
Indices: 9945114--9945141 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
9945104 CTCCCTTTTA
9945114 AAAAAAAT
1 AAAAAAAT
9945122 AAAAAAAT
1 AAAAAAAT
9945130 AAAAAAAT
1 AAAAAAAT
9945138 AAAA
1 AAAA
9945142 GTTCAAATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:9947915 original size:18 final size:18
Alignment explanation
Indices: 9947893--9947942 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
9947883 TGTTAAATAC
9947893 CAAAATTTTAAGGATATTA
1 CAAAATTTTAAGGA-ATTA
9947912 -AAAATTTTAAGGAATTA
1 CAAAATTTTAAGGAATTA
9947929 CTAAAATTTCTAAG
1 C-AAAATTT-TAAG
9947943 CGTAACTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.14
18 13 0.46
19 7 0.25
20 4 0.14
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (18 bp):
CAAAATTTTAAGGAATTA
Found at i:9954194 original size:3 final size:3
Alignment explanation
Indices: 9954188--9954229 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
9954178 CAGCAGCAGC
*
9954188 AGA AGA AGA TGA AGA AGA AGA AGA AGA A-A AGAA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA
9954230 TCTGATATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:9954498 original size:24 final size:24
Alignment explanation
Indices: 9954440--9954488 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
9954430 GGTTGGTGAA
*
9954440 AGGAAAGTTGGTTTGGTTTTATAT
1 AGGAAAGTGGGTTTGGTTTTATAT
9954464 AGGAAAGTGGGTTTGGTTTTATAT
1 AGGAAAGTGGGTTTGGTTTTATAT
9954488 A
1 A
9954489 TAAAGGTGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.43
Consensus pattern (24 bp):
AGGAAAGTGGGTTTGGTTTTATAT
Found at i:9955032 original size:32 final size:34
Alignment explanation
Indices: 9954976--9955051 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 34
9954966 AGGCTCGTCC
* *
9954976 ATATTATTTTTAAAATTT-TTTAAAAA-TTATATT
1 ATATTA-TTTTAAAATTTAATAAAAAATTTATATT
*
9955009 ATATTATTTTAATATTTAATAAAAAATTTATATT
1 ATATTATTTTAAAATTTAATAAAAAATTTATATT
* *
9955043 TTTTTATTT
1 ATATTATTT
9955052 ATTGAAAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 10 0.28
33 12 0.33
34 14 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (34 bp):
ATATTATTTTAAAATTTAATAAAAAATTTATATT
Found at i:9955606 original size:15 final size:16
Alignment explanation
Indices: 9955581--9955610 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9955571 ATGATTAAAT
9955581 TATAAATTATAAATAA
1 TATAAATTATAAATAA
9955597 TATAAA-TATAAATA
1 TATAAATTATAAATA
9955611 TTTTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TATAAATTATAAATAA
Found at i:9956714 original size:14 final size:14
Alignment explanation
Indices: 9956695--9956721 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9956685 AATTTTTAGT
9956695 TATTTTAAAATATA
1 TATTTTAAAATATA
9956709 TATTTTAAAATAT
1 TATTTTAAAATAT
9956722 CTAATATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTTTAAAATATA
Found at i:9972481 original size:17 final size:18
Alignment explanation
Indices: 9972446--9972483 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9972436 CTTTAGGATT
9972446 TATTTTTTTTCCTTCTTC
1 TATTTTTTTTCCTTCTTC
9972464 TATTTTTTATT-CTT-TTC
1 TATTTTTT-TTCCTTCTTC
9972481 TAT
1 TAT
9972484 CCTTCTCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 11 0.58
19 2 0.11
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTTTTTCCTTCTTC
Found at i:9973824 original size:20 final size:20
Alignment explanation
Indices: 9973794--9973838 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
9973784 CTGTTTTATT
*
9973794 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTATATTAAA
* *
9973813 ATGGGCCCAACTATGTTAAT
1 ATGGGCCCAACTATATTAAA
9973833 ATGGGC
1 ATGGGC
9973839 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTATATTAAA
Found at i:9984815 original size:47 final size:47
Alignment explanation
Indices: 9984737--9984869 Score: 230
Period size: 47 Copynumber: 2.8 Consensus size: 47
9984727 CCGGGATAAG
* * * *
9984737 CACATAGTGCTTCATCGGAACAAATCTGGAACTTTAACATTGTAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
9984784 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
9984831 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
9984870 GTAGTCGACA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 82 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (47 bp):
CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
Found at i:9986251 original size:15 final size:15
Alignment explanation
Indices: 9986231--9986260 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9986221 GAAAAAAAAG
9986231 TAAATAAAGAAATAA
1 TAAATAAAGAAATAA
*
9986246 TAAATAAATAAATAA
1 TAAATAAAGAAATAA
9986261 AATAGTTTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
TAAATAAAGAAATAA
Found at i:9990244 original size:26 final size:26
Alignment explanation
Indices: 9990207--9990264 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
9990197 TGATACAAAC
9990207 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
9990233 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
9990259 TGATAA
1 TGATAA
9990265 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:9991924 original size:27 final size:27
Alignment explanation
Indices: 9991883--9992022 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
9991873 GAGGAAGCGT
*
9991883 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
9991910 TATGGTGGCTTTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
9991937 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
9991964 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
9991992 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
9992018 TCTGG
1 TCTGG
9992023 CAGCCATGCT
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 5 0.05
27 79 0.80
28 15 0.15
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:9991970 original size:54 final size:55
Alignment explanation
Indices: 9991883--9992022 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
9991873 GAGGAAGCGT
* * * * *
9991883 TCTGGTGGCTATGCCACAAATATCTGATATGGTGGCTTTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
9991937 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
9991992 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
9992023 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 58 0.76
55 18 0.24
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:9992967 original size:13 final size:12
Alignment explanation
Indices: 9992951--9992992 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
9992941 TAGCAAACAA
9992951 AAAAGAAAGAAAG
1 AAAAGAAA-AAAG
9992964 AAAAGAGAAAAAG
1 AAAAGA-AAAAAG
*
9992977 AAAAGAAAAAGG
1 AAAAGAAAAAAG
9992989 AAAA
1 AAAA
9992993 ACTAGGGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 9 0.33
13 16 0.59
14 2 0.07
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:9993629 original size:3 final size:3
Alignment explanation
Indices: 9993621--9993645 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9993611 ATGAGGTAAA
9993621 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
9993646 GAGATGAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:10013991 original size:31 final size:31
Alignment explanation
Indices: 10013951--10014019 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
10013941 AAAATCCAAT
* * * *
10013951 AATCTCAGTTGAATTATTATATTGATACTAA
1 AATCCCAGTTGAATTATTAGAATAATACTAA
*
10013982 AATCCCAGTTGAATTATTAGAATAATGCTAA
1 AATCCCAGTTGAATTATTAGAATAATACTAA
10014013 AATCCCA
1 AATCCCA
10014020 CCAACACAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (31 bp):
AATCCCAGTTGAATTATTAGAATAATACTAA
Found at i:10015572 original size:3 final size:3
Alignment explanation
Indices: 10015564--10015604 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
10015554 TTATTAGTGT
10015564 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
10015605 GGGAGGATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:10016660 original size:30 final size:29
Alignment explanation
Indices: 10016608--10016675 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 29
10016598 ATCCAATTAG
10016608 CACCCCACTAAACCGACTACTAACTCCAT
1 CACCCCACTAAACCGACTACTAACTCCAT
10016637 CACCCCACTAAACC-ACCCTACTAACTCCAT
1 CACCCCACTAAACCGA--CTACTAACTCCAT
* *
10016667 TACTCCACT
1 CACCCCACT
10016676 TGCTTACAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 1 0.03
29 14 0.40
30 20 0.57
ACGTcount: A:0.32, C:0.47, G:0.01, T:0.19
Consensus pattern (29 bp):
CACCCCACTAAACCGACTACTAACTCCAT
Found at i:10018124 original size:125 final size:125
Alignment explanation
Indices: 10017899--10018201 Score: 419
Period size: 125 Copynumber: 2.4 Consensus size: 125
10017889 TAAGGAAATC
* * * *
10017899 TTTCGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTA
1 TTTCGTATTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTA
*
10017964 AAATACAAAATATCCTTTTGAAATTTCGTCTATGTTCTCTTAAATTAAAGCGAGGCAATA
66 AAATACAAAATATCCTTTTGAAATTTCGTCTATGTTCTCTTAAATTAAAACGAGGCAATA
* * * *
10018024 TTTCGTATTTGGAAGTTCGATAAATCGTGTCGAATCATGCTGGGTTTCGATTTTTTATTCGACTA
1 TTTCGTATTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTA
** * * * *
10018089 AAATACGGAATATCCTTTTGGAATTTCAT-TCATGTTTTCTTAAATTAAAATGAGGCAATA
66 AAATACAAAATATCCTTTTGAAATTTCGTCT-ATGTTCTCTTAAATTAAAACGAGGCAATA
* * * *
10018149 TTTCGTATTTGAAAGTTCGATAAATCATGCCCAATCGTGTTGGGTTTTGATTT
1 TTTCGTATTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTT
10018202 ACCGTTTGGC
Statistics
Matches: 155, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
124 1 0.01
125 154 0.99
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (125 bp):
TTTCGTATTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTA
AAATACAAAATATCCTTTTGAAATTTCGTCTATGTTCTCTTAAATTAAAACGAGGCAATA
Found at i:10018226 original size:125 final size:126
Alignment explanation
Indices: 10017899--10018242 Score: 370
Period size: 125 Copynumber: 2.7 Consensus size: 126
10017889 TAAGGAAATC
* * * * * * * **
10017899 TTTCGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTA
1 TTTCGTATTTGAAAGTTCGATAAATCATGCCCAATCATGCTGGGTTTCGATTTACCATTCGACTA
* *
10017964 AAATACAAAATATCCTTTTGAAATTTC-GTCTATGTTCTCTTAAATTAAAGCGAGGCAATA
66 AAATACCAAATATCCTTTTGAAATTTCAGTCTATGTTCTCTTAAATTAAAACGAGGCAATA
* * * * ***
10018024 TTTCGTATTTGGAAGTTCGATAAATCGTGTCGAATCATGCTGGGTTTCGATTTTTTATTCGACTA
1 TTTCGTATTTGAAAGTTCGATAAATCATGCCCAATCATGCTGGGTTTCGATTTACCATTCGACTA
** * * * *
10018089 AAATACGGAATATCCTTTTGGAATTTCATTC-ATGTTTTCTTAAATTAAAATGAGGCAATA
66 AAATACCAAATATCCTTTTGAAATTTCAGTCTATGTTCTCTTAAATTAAAACGAGGCAATA
* * * * * * *
10018149 TTTCGTATTTGAAAGTTCGATAAATCATGCCCAATCGTGTTGGGTTTTGATTTACCGTTTGGC-C
1 TTTCGTATTTGAAAGTTCGATAAATCATGCCCAATCATGCTGGGTTTCGATTTACCATTCGACTA
10018213 AAATAGCCAAATATCCTTTTTGAAATTTCA
66 AAATA-CCAAATATCC-TTTTGAAATTTCA
10018243 AATGCATGAG
Statistics
Matches: 184, Mismatches: 32, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
124 5 0.03
125 165 0.90
126 14 0.08
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (126 bp):
TTTCGTATTTGAAAGTTCGATAAATCATGCCCAATCATGCTGGGTTTCGATTTACCATTCGACTA
AAATACCAAATATCCTTTTGAAATTTCAGTCTATGTTCTCTTAAATTAAAACGAGGCAATA
Found at i:10024142 original size:29 final size:26
Alignment explanation
Indices: 10024083--10024144 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 26
10024073 TTAAGCCCCC
10024083 CCAA-AAAAACCTAACCCAAAAAAAA
1 CCAAGAAAAACCTAACCCAAAAAAAA
**
10024108 AAAAGAAAAACCTAACCCCCCAAAAAAAA
1 CCAAGAAAAACCTAA---CCCAAAAAAAA
10024137 CCAAGAAA
1 CCAAGAAA
10024145 CCCTAGCCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.07
26 10 0.34
29 17 0.59
ACGTcount: A:0.66, C:0.27, G:0.03, T:0.03
Consensus pattern (26 bp):
CCAAGAAAAACCTAACCCAAAAAAAA
Found at i:10024685 original size:2 final size:2
Alignment explanation
Indices: 10024680--10024716 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
10024670 TAAATACTAT
*
10024680 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10024717 TTTAAATACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10024941 original size:37 final size:37
Alignment explanation
Indices: 10024899--10025000 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
10024889 CTAATATTTT
10024899 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
10024936 CTTTTATTATATGCATATATATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATAT-TAT-TAT-TATTATTATGTACATA
*
10024979 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
10025001 CCAAATATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 8 0.15
40 3 0.05
41 3 0.05
42 11 0.20
43 11 0.20
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:10026698 original size:12 final size:12
Alignment explanation
Indices: 10026681--10026716 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
10026671 AACATTTTGA
10026681 CATTCATGCATT
1 CATTCATGCATT
10026693 CATTCATGCATT
1 CATTCATGCATT
*
10026705 CATTCATACATT
1 CATTCATGCATT
10026717 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:10035159 original size:63 final size:66
Alignment explanation
Indices: 10034991--10035159 Score: 200
Period size: 70 Copynumber: 2.5 Consensus size: 66
10034981 CTTTTCAAGG
* *
10034991 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAA----T
10035056 GTTTT
62 GTTTT
* ** *
10035061 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTT-A-GTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATGTTT
10035124 T
66 T
** *
10035125 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
10035160 TTTAATTTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
63 31 0.35
64 5 0.06
69 1 0.01
70 52 0.58
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (66 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATGTTT
T
Found at i:10035280 original size:72 final size:71
Alignment explanation
Indices: 10035159--10035353 Score: 248
Period size: 72 Copynumber: 2.7 Consensus size: 71
10035149 GAGTTAAGCC
* * * *
10035159 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
10035223 TGAGGTA
65 TGAGGTA
**
10035230 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
10035295 TGAGGTA
65 TGAGGTA
* * * * *
10035302 ATCTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAATTTTTGTTT-TTAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
10035354 ACATTTTAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
71 6 0.06
72 70 0.65
73 31 0.29
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
GAGGTA
Found at i:10035527 original size:88 final size:88
Alignment explanation
Indices: 10035378--10035710 Score: 440
Period size: 88 Copynumber: 3.8 Consensus size: 88
10035368 ACTTTTTCAA
*
10035378 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
10035443 CTTT-ATTATTATGTTTTTGAAAG
66 -TTTCATTATTATGTTTTTGAAAG
* *
10035466 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACGCCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
10035531 TTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* * * *
10035554 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTTA-GTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTTCT
* * ** *
10035618 GTTTTTCAAT-TTCTGTCTTTCAAAAAAA
64 G-TTTTCATTATTATGT-TTT--TGAAAG
* * *
10035646 AATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
10035710 T
66 T
10035711 GTCAAAAAAA
Statistics
Matches: 220, Mismatches: 17, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
87 5 0.02
88 116 0.53
89 31 0.14
90 32 0.15
91 13 0.06
92 23 0.10
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (88 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
TTTCATTATTATGTTTTTGAAAG
Found at i:10035625 original size:14 final size:14
Alignment explanation
Indices: 10035606--10035640 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10035596 CGCCGAGGTA
10035606 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
10035620 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
10035634 CTTTCAA
1 TTTTCAA
10035641 AAAAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:10035763 original size:76 final size:73
Alignment explanation
Indices: 10035621--10035782 Score: 216
Period size: 76 Copynumber: 2.1 Consensus size: 73
10035611 AATTTCCGTT
* * * *
10035621 TTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGT-TGTC--AAAAAAATCAACTCGTATTGCGAGGGCGAGTTGAGCCTCAGGACA
*
10035686 CGCTGAGGTAA
63 CGCCGAGGTAA
10035697 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAG-GGCGAGTTGAGCCTCAGG--ACA
*
10035762 CGCCGAGGTAT
63 CGCCGAGGTAA
10035773 TTTCAATTTC
1 TTTCAATTTC
10035783 CGTTTTTCAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
73 23 0.30
74 16 0.21
75 3 0.04
76 35 0.45
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (73 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGGGCGAGTTGAGCCTCAGGACACGC
CGAGGTAA
Found at i:10035837 original size:165 final size:165
Alignment explanation
Indices: 10035554--10036743 Score: 1342
Period size: 165 Copynumber: 7.2 Consensus size: 165
10035544 TTTTTGAAAG
* * *
10035554 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTTA-GTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
10035618 GTTTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAG
66 GTTTTTCAATTTCTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* *
10035682 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
129 GACACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAA
* * *
10035719 AATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
*
10035784 GTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
66 GTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* * *
10035849 CACGCTGAGGTAATTTCAATTTCTATTGTCAAAAA
131 CACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAA
* * * *
10035884 AGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT-C
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* * * *
10035948 ATTTTTCAATTTCTGCCTTTCAAAAAAAAATCTACTCATATTGCGAGAGGTGAGTTGAGCCT-TG
66 GTTTTTCAATTTCTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* *
10036012 GCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAA
129 G---ACACGCTGAGGTATTTTCAATTTCTGT-TTTCAAAAA
*
10036053 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
*
10036118 GTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
66 GTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--
* * * * *
10036183 CACACACTGAGGTTTTTTTTTACTTCAATTTATATTTTTC--AAA
129 GACACGCTGAGG-----TATT--TTCAATTTCT-GTTTTCAAAAA
*
10036226 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* * ** *
10036291 ATTTTTCAATTTCTGT-TTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
66 GTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
10036353 CACGTTGAGGTATTTTCAATTTCTGTTTTC-AAAA
131 CACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAA
* * * * *
10036387 AATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGG-CTCACG-C---G----TT-GA---GC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
*
10036438 -TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGA-AGGTGAGTTGAGCTTCAGA
66 GT-TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-
* * * *
10036501 TCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAA
129 -GACACGCTGAGGTA--TTTTCAATTTCT-GTTTTCAAAAA
* * * * * ** *
10036542 AATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* * *
10036607 GTTTTTCAAATTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGC
66 GTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-
* *
10036668 TCACGTGCTGAGCTATTTTCAATTTCTGTTTTTTTTTCAAAAA
130 ACAC--GCTGAGGTATTTTCAATTTCTG-----TTTTCAAAAA
10036711 AATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
10036744 TTTTTAATTT
Statistics
Matches: 889, Mismatches: 80, Indels: 107
0.83 0.07 0.10
Matches are distributed among these distances:
146 1 0.00
147 15 0.02
148 4 0.00
149 14 0.02
150 21 0.02
151 13 0.01
153 11 0.01
154 5 0.01
155 36 0.04
156 2 0.00
157 4 0.00
158 2 0.00
159 5 0.01
160 6 0.01
161 46 0.05
163 3 0.00
164 46 0.05
165 165 0.19
166 109 0.12
167 20 0.02
168 81 0.09
169 92 0.10
170 84 0.09
172 4 0.00
173 86 0.10
175 13 0.01
176 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (165 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
GTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
CACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAA
Found at i:10035911 original size:74 final size:75
Alignment explanation
Indices: 10035803--10035947 Score: 220
Period size: 74 Copynumber: 1.9 Consensus size: 75
10035793 TTTCTGCCTT
* *
10035803 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCA
1 TCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCA
10035867 ATTTCTATTG
66 ATTTCTATTG
* * * *
10035877 TCAAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTC
10035942 AATTTC
65 AATTTC
10035948 ATTTTTCAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 41 0.65
76 22 0.35
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (75 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCA
ATTTCTATTG
Found at i:10036078 original size:77 final size:77
Alignment explanation
Indices: 10035950--10036126 Score: 246
Period size: 77 Copynumber: 2.3 Consensus size: 77
10035940 TCAATTTCAT
* * ** *
10035950 TTTTCAATTTCTGCCTTTCAAAAAAAAATCTACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
* *
10036015 CACGCGCTGAGCTA
64 CACACGCCGAGCTA
10036029 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
10036094 CACGCCGAGGTA
66 CACGCCGAGCTA
* *
10036106 TTTTCAATTTCCGTTTTTCAA
1 TTTTCAATTTCTGTCTTTCAA
10036127 TTTCTGTCTT
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
77 70 0.80
79 18 0.20
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (77 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
CACGCCGAGCTA
Found at i:10036125 original size:14 final size:14
Alignment explanation
Indices: 10036106--10036140 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10036096 CGCCGAGGTA
10036106 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
10036120 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
10036134 CTTTCAA
1 TTTTCAA
10036141 AAAAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:10036128 original size:334 final size:331
Alignment explanation
Indices: 10035376--10036743 Score: 1424
Period size: 334 Copynumber: 4.1 Consensus size: 331
10035366 CTACTTTTTC
*
10035376 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
* * * * ** * * *
10035439 CTGTCTTT-ATTATTATGT-TTTTGAAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTA
66 CCGTTTTTCAAT-TTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * * * * *
10035502 GGTCACGC-C-GAGGTATTTTCAATTTCT-GTTTTCATTATTATGTTTTTGAAAGAATCAACTCG
130 -GACACACACTGAGGTAATTTCAATTTATATTTTTCA--A--A--------AAAG--TCAACTCA
* *
10035564 TATTGCGAGAGGCGAGTTGAGCCTTA-GTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAAT
180 TATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCATTTTTCAAT
*
10035628 TTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTCAGG---ACACGC
245 TTCTG-CTTTC----AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCACACGC
* * *
10035689 TGAGGTAATTTCAATTTCTGTTGTCAAA
304 TGAGCTATTTTCAATTTCTGTTTTCAAA
* * *
10035717 AAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
*
10035782 CCGTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
66 CCGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* * * * * *
10035847 -GACACGCTGAGGTAATTTCAATTTCTA-TTGTCAAAAAAGTCAACTCGTATTGCGAGCGGCGAG
131 ACACACACTGAGGTAATTTCAATTTATATTTTTCAAAAAAGTCAACTCATATTGCGAGAGGCGAG
10035910 TTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT-CATTTTTCAATTTCTGCCTTTCAAAAA
196 TTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTG-CTTTC----A
* * *
10035974 AAAATCTACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTT
256 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAATTT
10036039 CTGTCTTTCAAA
321 CTGT-TTTCAAA
*
10036051 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
*
10036116 CCGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
66 CCGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* *
10036181 ATCACACACTGAGGTTTTTTTTTACTTCAATTTATATTTTTC-AAAAA-TCAACTCATATTGCGA
131 A-CACACACTGAGG-------TAATTTCAATTTATATTTTTCAAAAAAGTCAACTCATATTGCGA
* * *
10036244 GAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGTTT
188 GAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCTT
* * ** * *
10036309 TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC-T--CAAGACACGTTGAGGTATTTTCA
253 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC-TCACACGCTGAGCTATTTTCA
10036371 ATTTCTGTTTTC-AA
317 ATTTCTGTTTTCAAA
* * * *
10036385 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGG-CTCACG-C---G----TT-GA---
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
* *
10036436 GC-TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGA-AGGTGAGTTGAGCTTCA
66 CCGT-TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * * *
10036499 GATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATG
130 GA-CACACACTGAGGTA--ATTTCAATTTATATTTTTCAAAAAAGTCAACTCATATTGCGAGAGG
* * * * ** ** * *
10036564 TGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAA
192 CGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCTTTCAA
**
10036629 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTC
257 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAATTTC
10036694 TGTTTTTTTTTCAAA
322 TG-----TTTTCAAA
10036709 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
10036744 TTTTTAATTT
Statistics
Matches: 903, Mismatches: 84, Indels: 96
0.83 0.08 0.09
Matches are distributed among these distances:
312 1 0.00
314 17 0.02
315 5 0.01
316 106 0.12
317 1 0.00
318 22 0.02
319 34 0.04
320 43 0.05
323 6 0.01
324 8 0.01
325 29 0.03
328 1 0.00
330 79 0.09
331 40 0.04
332 9 0.01
333 25 0.03
334 167 0.18
335 5 0.01
336 34 0.04
337 1 0.00
338 32 0.04
340 1 0.00
341 37 0.04
342 65 0.07
343 67 0.07
344 68 0.08
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (331 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
CCGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
ACACACACTGAGGTAATTTCAATTTATATTTTTCAAAAAAGTCAACTCATATTGCGAGAGGCGAG
TTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCTTTCAAAAAT
CAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAATTTCTGTT
TTCAAA
Found at i:10036184 original size:91 final size:89
Alignment explanation
Indices: 10036029--10036381 Score: 456
Period size: 91 Copynumber: 4.0 Consensus size: 89
10036019 CGCTGAGCTA
10036029 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
10036094 CACGCCGAGGTATTTTCAATTTCCGT
64 CACGCCGAGGTATTTTCAATTTCCGT
*
10036120 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGTCTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
* *
10036185 CACACTGAGGT-TTTT---TTT---T
64 CACGCCGAGGTATTTTCAATTTCCGT
** * * *
10036204 ACTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
1 TTTTCAATTTCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
*
10036269 CGCCGAGGTATTTTCAATTTCCAT
66 CGCCGAGGTATTTTCAATTTCCGT
* ** *
10036293 TTTTCAATTTCTGT-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACA
1 TTTTCAATTTCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
** *
10036355 CGTTGAGGTATTTTCAATTTCTGT
66 CGCCGAGGTATTTTCAATTTCCGT
10036379 TTT
1 TTT
10036382 CAAAAAATCA
Statistics
Matches: 232, Mismatches: 23, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
82 52 0.22
83 4 0.02
84 15 0.06
86 29 0.12
87 4 0.02
88 40 0.17
89 11 0.05
90 4 0.02
91 73 0.31
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.37
Consensus pattern (89 bp):
TTTTCAATTTCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
CGCCGAGGTATTTTCAATTTCCGT
Found at i:10036263 original size:82 final size:77
Alignment explanation
Indices: 10036119--10036576 Score: 385
Period size: 82 Copynumber: 5.8 Consensus size: 77
10036109 TCAATTTCCG
* *
10036119 TTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
1 TTTTTCAATTTCT-TTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
*
10036184 ACACACTGAGGTTTTTT
64 ACACGCTGAGG---TTT
*
10036201 TTTACTTCAATTTATATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
1 TTT--TTCAATTTCT-TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
*
10036265 CACACGCCGAGGTATT
63 CACACGCTGAGGT-TT
* * **
10036281 TTCAATTTCCATTTTTCAATTTCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAG
1 TT---TTT-C-------AATTTCTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
10036345 CCTCA-A-GACACGTTGAGG--T
55 CCTCAGATCACACGCTGAGGTTT
* * * ** *
10036364 ATTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC
1 TTTTTCAATTTCTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
* * *
10036429 GCGTTGA-G-CT
66 ACGCTGAGGTTT
* * *
10036439 ATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGA-AGGTGAGTTGAGCTTCAGATC
1 TTTTTCAATTTCT-TTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
* *
10036503 ACACACTGAGGTAT
64 ACACGCTGAGGTTT
* * *
10036517 TTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 TTTTTCAATTTCT-TTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
10036577 GGGTCACATG
Statistics
Matches: 311, Mismatches: 42, Indels: 49
0.77 0.10 0.12
Matches are distributed among these distances:
72 13 0.04
73 33 0.11
74 1 0.00
75 22 0.07
76 27 0.09
77 22 0.07
78 39 0.13
79 16 0.05
80 7 0.02
81 2 0.01
82 55 0.18
83 3 0.01
84 14 0.05
86 9 0.03
87 1 0.00
88 41 0.13
89 6 0.02
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (77 bp):
TTTTTCAATTTCTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
ACGCTGAGGTTT
Found at i:10036540 original size:78 final size:76
Alignment explanation
Indices: 10036293--10036745 Score: 346
Period size: 88 Copynumber: 5.8 Consensus size: 76
10036283 CAATTTCCAT
* * ** * *
10036293 TTTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GAC
1 TTTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
10036354 ACGTTGAGGTA
66 ACGTTGAGGTA
* * * *
10036365 TTTTCAATTTCTGTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCA
1 TTTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCA
* *
10036428 CGCGTTGAGCTA
65 CACGTTGAGGTA
*
10036440 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGA-AGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCT-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
**
10036504 CACACTGAGGTA
65 CACGTTGAGGTA
* * * * * *
10036516 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCT-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
* *
10036581 CACATGTCGAGGTA
63 CACACGTTGAGGTA
** *
10036595 TTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCT-TTTTTC-AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * ** * *
10036660 GCCTT-GGCTCACGTGCTGAGCTA
54 G-CTTCAGATCACACGTTGAGGTA
10036683 TTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTT
1 TTTTCAATTTC-----TTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCTT
10036746 TTTAATTTCT
Statistics
Matches: 307, Mismatches: 46, Indels: 47
0.77 0.12 0.12
Matches are distributed among these distances:
72 18 0.06
73 30 0.10
74 2 0.01
75 26 0.08
76 28 0.09
77 36 0.12
78 40 0.13
79 26 0.08
81 8 0.03
82 28 0.09
88 54 0.18
89 2 0.01
91 2 0.01
92 6 0.02
93 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (76 bp):
TTTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
ACGTTGAGGTA
Found at i:10036597 original size:155 final size:149
Alignment explanation
Indices: 10036293--10036616 Score: 375
Period size: 155 Copynumber: 2.1 Consensus size: 149
10036283 CAATTTCCAT
* *
10036293 TTTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACAC
** * * *
10036356 GTTGAGGTATTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT
66 ACTGAGGTATTTTCAATTTATGTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT
* * *
10036421 TGGCTCACGCGTTGAGCTA
131 CGGCTCACACGTCGAGCTA
** *
10036440 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGA-AGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-CA
* *
10036504 CACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGT
63 CACACTGAGGTA--TTTTCAATTTAT-GTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAGT
* * *
10036569 TGAGCCTCGGGTCACATGTCGAGGTA
124 TGAGCCTCGGCTCACACGTCGAGCTA
**
10036595 TTTTCAAAATCTGTTTTTCAAA
1 TTTTCAATTTCTG-TTTTCAAA
10036617 TTCTGTTTTC
Statistics
Matches: 147, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
147 14 0.10
148 4 0.03
149 14 0.10
150 21 0.14
151 11 0.07
153 11 0.07
154 5 0.03
155 66 0.45
156 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (149 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACAC
ACTGAGGTATTTTCAATTTATGTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT
CGGCTCACACGTCGAGCTA
Found at i:10036614 original size:14 final size:13
Alignment explanation
Indices: 10036595--10036630 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
10036585 TGTCGAGGTA
10036595 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
10036608 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
10036622 TTTTCAAAA
1 TTTTCAAAA
10036631 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:10036761 original size:30 final size:30
Alignment explanation
Indices: 10036725--10036786 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
10036715 CAACTCATAT
10036725 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
10036755 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
10036785 TG
1 TG
10036787 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:10036869 original size:254 final size:247
Alignment explanation
Indices: 10036365--10036954 Score: 766
Period size: 254 Copynumber: 2.4 Consensus size: 247
10036355 CGTTGAGGTA
* *
10036365 TTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
*
10036430 CGTTGAGCTATTTTCAATTTCTG----TCTTTCAAAAAAATCAACTCATATTGCGAAGGTGAGTT
66 CGCTGAGCTATTTTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAAGGTGAGTT
*
10036491 GAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATT
131 GAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATT
* * ** * *
10036556 GCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGT
195 GCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
*
10036609 TTTTCAAATTCTGTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* *
10036673 TGCTGAGCTATTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAG
66 CGCTGAGCTATTTTCAATTTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGA-AGGTGAG
* * * * * * *
10036738 TTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATC
129 TTGAGC--TTCAGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATC
*
10036800 AACTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
185 AACTCACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
* ** *
10036863 TTTTCAAGTTAAG-TTTCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* *
10036927 CGCTGAGCTATTTTCACTTTTTGTTTTT
66 CGCTGAGCTATTTTCAATTTCTGTTTTT
10036955 AATGTCTGTT
Statistics
Matches: 301, Mismatches: 29, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
243 65 0.22
244 17 0.06
247 12 0.04
248 16 0.05
249 13 0.04
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 144 0.48
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (247 bp):
TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
CGCTGAGCTATTTTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAAGGTGAGTT
GAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTG
CGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
Found at i:10037630 original size:20 final size:20
Alignment explanation
Indices: 10037607--10037658 Score: 97
Period size: 19 Copynumber: 2.6 Consensus size: 20
10037597 CCCATTAAGC
10037607 CCCCCAAAAAAAAAACCTAA
1 CCCCCAAAAAAAAAACCTAA
10037627 CCCCC-AAAAAAAAACCTAA
1 CCCCCAAAAAAAAAACCTAA
10037646 CCCCCAAAAAAAA
1 CCCCCAAAAAAAA
10037659 CCAAGAAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 19 0.61
20 12 0.39
ACGTcount: A:0.60, C:0.37, G:0.00, T:0.04
Consensus pattern (20 bp):
CCCCCAAAAAAAAAACCTAA
Found at i:10038400 original size:14 final size:14
Alignment explanation
Indices: 10038364--10038404 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
10038354 ATCATTATTT
10038364 TATATTATTT-TGTA
1 TATATT-TTTATGTA
*
10038378 AAT-TTTTTATGTA
1 TATATTTTTATGTA
10038391 TATATTTTTATGTA
1 TATATTTTTATGTA
10038405 CGTTTCCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 3 0.13
13 8 0.35
14 12 0.52
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
TATATTTTTATGTA
Found at i:10039927 original size:84 final size:85
Alignment explanation
Indices: 10039785--10040134 Score: 313
Period size: 87 Copynumber: 4.1 Consensus size: 85
10039775 AGCCACCGGC
* * * * * *
10039785 CAGATCTCCTTTAAACAGTAGTGGAGCAGATCTAAGATAG-CAAGCTTTAATCCTCTAAGCAGTA
1 CAGATCTCCCTTAAACAGTAGTGGAGCAGATCGAAGATAGTGAAGCCTTAAACCCCTAAGCAGTA
*
10039849 GGGTAACAGGCTGGAA-AATA
66 GGGTAACAGGC-AGAAGAATA
*
10039869 CAGATCTCCCTTAAATAGTAGTGGAGCAGATCGAAG-TCAGTGAA-CCTTAAACCCCTAAGCAGT
1 CAGATCTCCCTTAAACAGTAGTGGAGCAGATCGAAGAT-AGTGAAGCCTTAAACCCCTAAGCAGT
*
10039932 AGGGTAACAGGCAGAAGATTA
65 AGGGTAACAGGCAGAAGAATA
* * * * * *
10039953 CAAATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGT-AAGCCTT-AATCCCTAAGC
1 CAGATC---TC-CCTTAAACAGTAGTGGAGCAGATCGAAGATAGTGAAGCCTTAAACCCCTAAGC
*
10040016 AGTAGGGTAACAGGCAGAAGATTA
62 AGTAGGGTAACAGGCAGAAGAATA
* * * * * *
10040040 CAGATCTTGTCTCTCTAAGCAATAGTGGAGCAGATCAAAGACAGTG-AGCCTTAACCCCCTAAGC
1 CAGATC---TCCCT-TAAACAGTAGTGGAGCAGATCGAAGATAGTGAAGCCTTAAACCCCTAAGC
* *
10040104 AATAGGGAAACAGGCTA-AA-AATTA
62 AGTAGGGTAACAGGC-AGAAGAA-TA
10040128 CAGATCT
1 CAGATCT
10040135 TATCTCCCTA
Statistics
Matches: 222, Mismatches: 30, Indels: 27
0.80 0.11 0.10
Matches are distributed among these distances:
83 4 0.02
84 71 0.32
85 3 0.01
86 1 0.00
87 79 0.36
88 62 0.28
89 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (85 bp):
CAGATCTCCCTTAAACAGTAGTGGAGCAGATCGAAGATAGTGAAGCCTTAAACCCCTAAGCAGTA
GGGTAACAGGCAGAAGAATA
Found at i:10039969 original size:44 final size:44
Alignment explanation
Indices: 10039921--10040060 Score: 133
Period size: 44 Copynumber: 3.2 Consensus size: 44
10039911 AACCTTAAAC
10039921 CCCTAAGCAGTAGGGTAACAGGCAGAAGATTACAAATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGCAGAAGATTACAAATCTTATCT
** * *** ** *
10039965 CCCTAAGCAGTAGTGG-AGTAGATC-GAAGATGGTAAGCCTTA-AT
1 CCCTAAGCAGTAG-GGTAACAG-GCAGAAGATTACAAATCTTATCT
* *
10040008 CCCTAAGCAGTAGGGTAACAGGCAGAAGATTACAGATCTTGTCT
1 CCCTAAGCAGTAGGGTAACAGGCAGAAGATTACAAATCTTATCT
*
10040052 CTCTAAGCA
1 CCCTAAGCA
10040061 ATAGTGGAGC
Statistics
Matches: 70, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
42 3 0.04
43 27 0.39
44 37 0.53
45 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAACAGGCAGAAGATTACAAATCTTATCT
Found at i:10040005 original size:88 final size:89
Alignment explanation
Indices: 10039800--10040162 Score: 406
Period size: 88 Copynumber: 4.2 Consensus size: 89
10039790 CTCCTTTAAA
* * * * * *
10039800 CAGTAGTGGAGCAGATCTAAGATAGCAAGCTTTAATCCTCTAAGCAGTAGGGTAACAGGCTGGAA
1 CAGTAGTGGAGCAGATCGAAGATAGTAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAGAA
* * *
10039865 -AATACAGATC---TC-CCTTAAA
66 GATTACAGATCTTATCTCCCTAAG
*
10039884 TAGTAGTGGAGCAGATCGAAG-TCAGTGAA-CCTTAAACCCCTAAGCAGTAGGGTAACAGGC-AG
1 CAGTAGTGGAGCAGATCGAAGAT-AGT-AAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAG
*
10039946 AAGATTACAAATCTTATCTCCCTAAG
64 AAGATTACAGATCTTATCTCCCTAAG
* * *
10039972 CAGTAGTGGAGTAGATCGAAGATGGTAAGCCTT-AATCCCTAAGCAGTAGGGTAACAGGC-AGAA
1 CAGTAGTGGAGCAGATCGAAGATAGTAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAGAA
* *
10040035 GATTACAGATCTTGTCTCTCTAAG
66 GATTACAGATCTTATCTCCCTAAG
* * * * * * *
10040059 CAATAGTGGAGCAGATCAAAGACAGTGAGCCTTAACCCCCTAAGCAATAGGGAAACAGGCTA-AA
1 CAGTAGTGGAGCAGATCGAAGATAGTAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAGAA
*
10040123 AATTACAGATCTTATCTCCCTAAG
66 GATTACAGATCTTATCTCCCTAAG
*
10040147 CAGTAGTGGAGTAGAT
1 CAGTAGTGGAGCAGAT
10040163 TGAAATGAAA
Statistics
Matches: 235, Mismatches: 33, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
83 4 0.02
84 57 0.24
85 2 0.01
87 81 0.34
88 89 0.38
89 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.22
Consensus pattern (89 bp):
CAGTAGTGGAGCAGATCGAAGATAGTAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAGAA
GATTACAGATCTTATCTCCCTAAG
Found at i:10040118 original size:175 final size:172
Alignment explanation
Indices: 10039800--10040162 Score: 480
Period size: 175 Copynumber: 2.1 Consensus size: 172
10039790 CTCCTTTAAA
* * * *
10039800 CAGTAGTGGAGCAGATCTAAGATAGCAAGCTTTAATCCTCTAAGCAGTAGGGTAACAGGCTGGAA
1 CAGTAGTGGAGTAGATCGAAGATAGCAAGCCTTAATCCTCTAAGCAGTAGGGTAACAGGCTAGAA
* * * *
10039865 AATACAGATCTCCCTTAAATAGTAGTGGAGCAGATCGAAGTCAGTGAACCTTAAACCCCTAAGCA
66 AATACAGATCTCCCTTAAACAATAGTGGAGCAGATCAAAGACAGTGAACCTTAAACCCCTAAGCA
* * *
10039930 GTAGGGTAACAGGC-AGAAGATTACAAATCTTATCTCCCTAAG
131 ATAGGGAAACAGGCTA-AAAATTACAAATCTTATCTCCCTAAG
* *
10039972 CAGTAGTGGAGTAGATCGAAGATGGTAAGCCTTAATCC-CTAAGCAGTAGGGTAACAGGC-AGAA
1 CAGTAGTGGAGTAGATCGAAGATAGCAAGCCTTAATCCTCTAAGCAGTAGGGTAACAGGCTAGAA
* * * * *
10040035 GATTACAGATCTTGTCTCTCTAAGCAATAGTGGAGCAGATCAAAGACAGTGAGCCTTAACCCCCT
66 -AATACAGATC---TCCCT-TAAACAATAGTGGAGCAGATCAAAGACAGTGAACCTTAAACCCCT
*
10040100 AAGCAATAGGGAAACAGGCTAAAAATTACAGATCTTATCTCCCTAAG
126 AAGCAATAGGGAAACAGGCTAAAAATTACAAATCTTATCTCCCTAAG
10040147 CAGTAGTGGAGTAGAT
1 CAGTAGTGGAGTAGAT
10040163 TGAAATGAAA
Statistics
Matches: 166, Mismatches: 19, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
170 3 0.02
171 30 0.18
172 33 0.20
174 4 0.02
175 95 0.57
176 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.22
Consensus pattern (172 bp):
CAGTAGTGGAGTAGATCGAAGATAGCAAGCCTTAATCCTCTAAGCAGTAGGGTAACAGGCTAGAA
AATACAGATCTCCCTTAAACAATAGTGGAGCAGATCAAAGACAGTGAACCTTAAACCCCTAAGCA
ATAGGGAAACAGGCTAAAAATTACAAATCTTATCTCCCTAAG
Found at i:10040436 original size:24 final size:24
Alignment explanation
Indices: 10040404--10040449 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
10040394 ACTAAACAGA
10040404 CCACTAACTCCATCACCCCACTTG
1 CCACTAACTCCATCACCCCACTTG
*
10040428 CCACTAACTCTATCACCCCACT
1 CCACTAACTCCATCACCCCACT
10040450 AAACCACCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.50, G:0.02, T:0.22
Consensus pattern (24 bp):
CCACTAACTCCATCACCCCACTTG
Found at i:10041938 original size:125 final size:125
Alignment explanation
Indices: 10041707--10042009 Score: 444
Period size: 125 Copynumber: 2.4 Consensus size: 125
10041697 TAAAGAAATC
* * * * *
10041707 TTTCGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTTGACTA
1 TTTCGTATTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTA
* * * * *
10041772 AAATACAGAATATCCTTTTGAAATTTCGTCTATGTTCTCTTAAATTAAAGCGAGGCAATA
66 AAATACAGAATATCCTTTTGAAATTTCATCCATATTCTCTTAAATTAAAACGAGACAATA
* * *
10041832 TTTCGTATTTGGAAGTTCGATAAATCGTGCCCAATTGAGTTGGGTTTCGATTTTTCATTCGACTA
1 TTTCGTATTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTA
* * * * *
10041897 AAATACGGAATATCTTTTTGGAATTTCATCCATATTTTCTTAAATTAAAATGAGACAATA
66 AAATACAGAATATCCTTTTGAAATTTCATCCATATTCTCTTAAATTAAAACGAGACAATA
10041957 TTTCGTATTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTT
1 TTTCGTATTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTT
10042010 ACCGTTTGGC
Statistics
Matches: 157, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
125 157 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (125 bp):
TTTCGTATTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTA
AAATACAGAATATCCTTTTGAAATTTCATCCATATTCTCTTAAATTAAAACGAGACAATA
Found at i:10042527 original size:26 final size:26
Alignment explanation
Indices: 10042498--10042547 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
10042488 GACAGTTTAC
* *
10042498 ATTAGAGTAGTATTATATATTTAGTA
1 ATTAGAATAGCATTATATATTTAGTA
10042524 ATTAGAATAGCATTATATATTTAG
1 ATTAGAATAGCATTATATATTTAG
10042548 CATAAGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (26 bp):
ATTAGAATAGCATTATATATTTAGTA
Found at i:10044765 original size:24 final size:24
Alignment explanation
Indices: 10044733--10044783 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
10044723 ATAACACTTT
10044733 AGAACTTCTCTAAATATATTTCCA
1 AGAACTTCTCTAAATATATTTCCA
10044757 AGAACTTCTCTAAATATATTTCCA
1 AGAACTTCTCTAAATATATTTCCA
10044781 AGA
1 AGA
10044784 GATCCATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (24 bp):
AGAACTTCTCTAAATATATTTCCA
Found at i:10046207 original size:12 final size:13
Alignment explanation
Indices: 10046183--10046214 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
10046173 GAAAGGGCTG
10046183 ACCTA-AATAGGA
1 ACCTATAATAGGA
10046195 ACCTATAAT-GGA
1 ACCTATAATAGGA
10046207 ACCTATAA
1 ACCTATAA
10046215 ATTAATCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 16 0.84
13 3 0.16
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (13 bp):
ACCTATAATAGGA
Found at i:10050079 original size:56 final size:58
Alignment explanation
Indices: 10049990--10050103 Score: 160
Period size: 56 Copynumber: 2.0 Consensus size: 58
10049980 ACAAAAATGG
10049990 TGAAAATGAAGAAATGAGAAACAATTGGAAATGATTATGATTTTCTCCAAAATGAAAA
1 TGAAAATGAAGAAATGAGAAACAATTGGAAATGATTATGATTTTCTCCAAAATGAAAA
* * * * * *
10050048 TGAAAATGGAGAAATG-G-AATATTTGGAAATGATTGTGGTTTTCTTCAAAATGAAAA
1 TGAAAATGAAGAAATGAGAAACAATTGGAAATGATTATGATTTTCTCCAAAATGAAAA
10050104 ATAAAAATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
56 34 0.68
57 1 0.02
58 15 0.30
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.29
Consensus pattern (58 bp):
TGAAAATGAAGAAATGAGAAACAATTGGAAATGATTATGATTTTCTCCAAAATGAAAA
Found at i:10060376 original size:22 final size:23
Alignment explanation
Indices: 10060334--10060384 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 23
10060324 CAAATGAAAA
10060334 TTTTGATCATATTGTTATTTTTATT
1 TTTTGATCATA-T-TTATTTTTATT
10060359 TTTTGATCATA-TTATTTTTATT
1 TTTTGATCATATTTATTTTTATT
10060381 TTTT
1 TTTT
10060385 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.58
25 11 0.42
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.71
Consensus pattern (23 bp):
TTTTGATCATATTTATTTTTATT
Found at i:10061809 original size:5 final size:5
Alignment explanation
Indices: 10061799--10061835 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
10061789 TTGTGTGTTC
*
10061799 TTTAT TTTA- TTTAT TGTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
10061836 TCACAAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:10066341 original size:18 final size:17
Alignment explanation
Indices: 10066302--10066345 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
10066292 TCTATAAGTT
10066302 AAAATAAAATAGTAAAA
1 AAAATAAAATAGTAAAA
*
10066319 TAAATAAATATA-TACAAA
1 AAAATAAA-ATAGTA-AAA
10066337 AAAATAAAA
1 AAAATAAAA
10066346 CATATGGCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAATAAAATAGTAAAA
Found at i:10075326 original size:22 final size:22
Alignment explanation
Indices: 10075298--10075373 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
10075288 ACATGCATAT
10075298 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
10075320 ATGTGATGAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
10075344 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
10075367 ATGTGAT
1 ATGTGAT
10075374 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:10075326 original size:47 final size:47
Alignment explanation
Indices: 10075273--10075464 Score: 298
Period size: 47 Copynumber: 4.1 Consensus size: 47
10075263 TTAGGATTTT
10075273 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
10075320 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
10075367 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
10075414 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10075459 ATGTGA
1 ATGTGA
10075465 AATATATATA
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 25 0.19
47 110 0.81
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:10075422 original size:25 final size:25
Alignment explanation
Indices: 10075347--10075422 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
10075337 ATGCATATAT
10075347 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
10075372 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
10075394 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
10075419 GTGA
1 GTGA
10075423 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:10075496 original size:50 final size:50
Alignment explanation
Indices: 10075423--10075569 Score: 244
Period size: 50 Copynumber: 3.0 Consensus size: 50
10075413 AATGTGGTGA
*
10075423 ATATGA-ACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
10075472 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
* *
10075522 ATATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
10075570 GTAGGCGATG
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
49 7 0.08
50 86 0.92
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.30
Consensus pattern (50 bp):
ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
Found at i:10075769 original size:37 final size:37
Alignment explanation
Indices: 10075719--10075819 Score: 175
Period size: 37 Copynumber: 2.7 Consensus size: 37
10075709 GGAAATATAT
10075719 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
10075756 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
10075793 TCCGGGTAAGACCCGATAACTTCGTGT
1 TCCGGGTAAGACCCGATGACTACGTGT
10075820 AACTTCGTGT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:10077315 original size:20 final size:20
Alignment explanation
Indices: 10077290--10077338 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
10077280 AGTCACAGTA
10077290 GTCGACACATATAGTGTCTC
1 GTCGACACATATAGTGTCTC
10077310 GTCGACACATATAGTGTCTC
1 GTCGACACATATAGTGTCTC
*
10077330 ATCGACACA
1 GTCGACACA
10077339 CAGTCGGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (20 bp):
GTCGACACATATAGTGTCTC
Found at i:10078135 original size:20 final size:18
Alignment explanation
Indices: 10078097--10078140 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
10078087 AAACCATAAT
10078097 TTTCCC-TTTTCTTTTTC
1 TTTCCCTTTTTCTTTTTC
10078114 TTTCCCTTTTTCCTTCTTTC
1 TTTCCCTTTTT-CTT-TTTC
10078134 TTTCCCT
1 TTTCCCT
10078141 GCTAATCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 4 0.17
19 3 0.12
20 11 0.46
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTTTTTCTTTTTC
Found at i:10078228 original size:3 final size:3
Alignment explanation
Indices: 10078190--10078319 Score: 162
Period size: 3 Copynumber: 44.7 Consensus size: 3
10078180 TTTATATCTT
* * * *
10078190 TTA TTCA TTA TAA CTA TTA -TA TTA -TA TCA CTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10078234 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
10078282 TTA TTA TTA TTA TTA -TA TT- TTA -AA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10078320 TTTTAAATAT
Statistics
Matches: 109, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
2 9 0.08
3 97 0.89
4 3 0.03
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:10088392 original size:34 final size:34
Alignment explanation
Indices: 10088349--10088415 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
10088339 AAGCATGGGA
10088349 TAAAAATATGTATATATTATGGTTTATCAAACAG
1 TAAAAATATGTATATATTATGGTTTATCAAACAG
10088383 TAAAAATATGTATATATTATGGTTTATCAAACA
1 TAAAAATATGTATATATTATGGTTTATCAAACA
10088416 TCTTTTCTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (34 bp):
TAAAAATATGTATATATTATGGTTTATCAAACAG
Found at i:10093145 original size:21 final size:20
Alignment explanation
Indices: 10093121--10093172 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
10093111 TTATGCCACA
10093121 TCAGTATTCTTATCCTGAATT
1 TCAGTATT-TTATCCTGAATT
* *
10093142 TCAGGATTTTATCTTGAATT
1 TCAGTATTTTATCCTGAATT
10093162 TCAGTATTTTA
1 TCAGTATTTTA
10093173 ATTTGGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.50
Consensus pattern (20 bp):
TCAGTATTTTATCCTGAATT
Found at i:10096351 original size:30 final size:30
Alignment explanation
Indices: 10096317--10096380 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
10096307 ATTGGAGTAG
*
10096317 AATTTTTAAATTTTAT-AAGTATAAGAAACT
1 AATTTTCAAATTTTATAAAGTATAA-AAACT
*
10096347 AATTTTCAAATTTTATAGAAGTATAATAACT
1 AATTTTCAAATTTTATA-AAGTATAAAAACT
10096378 AAT
1 AAT
10096381 AGTAGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 15 0.50
31 7 0.23
32 8 0.27
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (30 bp):
AATTTTCAAATTTTATAAAGTATAAAAACT
Found at i:10097494 original size:2 final size:2
Alignment explanation
Indices: 10097487--10097526 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
10097477 TGATTTTGTT
10097487 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
10097527 AACTTGAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10097799 original size:3 final size:3
Alignment explanation
Indices: 10097791--10097833 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
10097781 GAGTACCAAT
* * * *
10097791 TCA TCA TCA ACA ACA TTA TCA TCA TCT TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
10097834 TAAGGACATC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:10103319 original size:24 final size:24
Alignment explanation
Indices: 10103292--10103338 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
10103282 TTTAGAATAG
*
10103292 GAAGAGATGTTGAAGTCGTAAGTT
1 GAAGAGATGTTGAAGTCGCAAGTT
10103316 GAAGAGATGTTGAAGTCGCAAGT
1 GAAGAGATGTTGAAGTCGCAAGT
10103339 CCTTTATCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.06, G:0.34, T:0.26
Consensus pattern (24 bp):
GAAGAGATGTTGAAGTCGCAAGTT
Found at i:10104140 original size:29 final size:29
Alignment explanation
Indices: 10104088--10104159 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 29
10104078 CCATCTCGTC
* * * *
10104088 AAAATTATTTCTTCAAAACGCATCCCCCA
1 AAAATTATTTTTTTAAAACCCATCCCACA
* * *
10104117 AAAATTATTTTTTTAGAACCCATCTCATA
1 AAAATTATTTTTTTAAAACCCATCCCACA
*
10104146 TAAATTATTTTTTT
1 AAAATTATTTTTTT
10104160 TTAAATGCCT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (29 bp):
AAAATTATTTTTTTAAAACCCATCCCACA
Found at i:10108930 original size:12 final size:12
Alignment explanation
Indices: 10108913--10108939 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10108903 TGTTGATATC
10108913 TGCTTAAAGTAA
1 TGCTTAAAGTAA
10108925 TGCTTAAAGTAA
1 TGCTTAAAGTAA
10108937 TGC
1 TGC
10108940 CCATGTGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (12 bp):
TGCTTAAAGTAA
Found at i:10109023 original size:50 final size:50
Alignment explanation
Indices: 10108948--10109047 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
10108938 GCCCATGTGA
10108948 ACATAGTAAAGAATATGATACAGTTGGCATGCCAGTAGGGTTAGTTGAGC
1 ACATAGTAAAGAATATGATACAGTTGGCATGCCAGTAGGGTTAGTTGAGC
*
10108998 ACATAGTAAAGAATATGATATAGTTGGCATGCCAGTAGGGTTAGTTGAGC
1 ACATAGTAAAGAATATGATACAGTTGGCATGCCAGTAGGGTTAGTTGAGC
10109048 GCTTTTATGG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (50 bp):
ACATAGTAAAGAATATGATACAGTTGGCATGCCAGTAGGGTTAGTTGAGC
Found at i:10111400 original size:17 final size:17
Alignment explanation
Indices: 10111378--10111415 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
10111368 GTCCTTATGA
10111378 GCCGCTCCTCCATGTGC
1 GCCGCTCCTCCATGTGC
10111395 GCCGCTCCTCCATGTGC
1 GCCGCTCCTCCATGTGC
10111412 GCCG
1 GCCG
10111416 TACTCCAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.05, C:0.47, G:0.26, T:0.21
Consensus pattern (17 bp):
GCCGCTCCTCCATGTGC
Found at i:10112755 original size:2 final size:2
Alignment explanation
Indices: 10112744--10112777 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
10112734 TGATTCTGTC
10112744 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10112778 TCATTTGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:10113409 original size:27 final size:28
Alignment explanation
Indices: 10113370--10113422 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
10113360 CATATTGTAT
* *
10113370 ATTTGAAATTTGTTTTATATATTATTTC
1 ATTTCAAATTTGTTTTACATATTATTTC
*
10113398 ATTTCAAA-TTGTTTTACATTTTATT
1 ATTTCAAATTTGTTTTACATATTATT
10113423 CATGTTAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (28 bp):
ATTTCAAATTTGTTTTACATATTATTTC
Found at i:10115278 original size:29 final size:28
Alignment explanation
Indices: 10115236--10115290 Score: 101
Period size: 29 Copynumber: 1.9 Consensus size: 28
10115226 GCTAGTTATA
10115236 CTGATTTGGCTTCGAGCCATGAATATCGG
1 CTGATTTGGCTTCGAGCCATG-ATATCGG
10115265 CTGATTTGGCTTCGAGCCATGATATC
1 CTGATTTGGCTTCGAGCCATGATATC
10115291 AGTATTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (28 bp):
CTGATTTGGCTTCGAGCCATGATATCGG
Found at i:10117546 original size:47 final size:46
Alignment explanation
Indices: 10117477--10117604 Score: 175
Period size: 47 Copynumber: 2.7 Consensus size: 46
10117467 TCTGCAGTTT
* *
10117477 ATCTGCTCGACCAGTGGTTTATCCACAACATATTTCAGTCAGTAGTC
1 ATCTGCTCGA-CAGTGGTTTATCCACAACATATTTCAGCCAGCAGTC
* *
10117524 ATCTGCTCAATCAGTGGTTTATCCACAACATATTTTAGCCAGCAGTC
1 ATCTGCTCGA-CAGTGGTTTATCCACAACATATTTCAGCCAGCAGTC
* *
10117571 ATCTGCTCGACTAGTGGTTCATCCACAACGTATT
1 ATCTGCTCGAC-AGTGGTTTATCCACAACATATT
10117605 AGTAGCTTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 1 0.01
47 71 0.99
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (46 bp):
ATCTGCTCGACAGTGGTTTATCCACAACATATTTCAGCCAGCAGTC
Found at i:10120390 original size:55 final size:55
Alignment explanation
Indices: 10120324--10120431 Score: 216
Period size: 55 Copynumber: 2.0 Consensus size: 55
10120314 ACACACACTC
10120324 AAATAAACCATTAGATTCCTAATGACATAATTTTGCCAATTTGAGTCCCAAAAGG
1 AAATAAACCATTAGATTCCTAATGACATAATTTTGCCAATTTGAGTCCCAAAAGG
10120379 AAATAAACCATTAGATTCCTAATGACATAATTTTGCCAATTTGAGTCCCAAAA
1 AAATAAACCATTAGATTCCTAATGACATAATTTTGCCAATTTGAGTCCCAAAA
10120432 AGATTAAATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (55 bp):
AAATAAACCATTAGATTCCTAATGACATAATTTTGCCAATTTGAGTCCCAAAAGG
Found at i:10121484 original size:18 final size:19
Alignment explanation
Indices: 10121463--10121506 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
10121453 GAAAAAGAAG
*
10121463 GAAAAGAAAGGAGATG-GA
1 GAAAAGAAAGGAAATGAGA
*
10121481 GAAATGAAAGGAAATGAGA
1 GAAAAGAAAGGAAATGAGA
*
10121500 GGAAAGA
1 GAAAAGA
10121507 GTGTTTTCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.57, C:0.00, G:0.36, T:0.07
Consensus pattern (19 bp):
GAAAAGAAAGGAAATGAGA
Found at i:10122740 original size:21 final size:21
Alignment explanation
Indices: 10122716--10122758 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
10122706 AGAGAATTTA
10122716 GGGGAACATGGAGACTAAGTT
1 GGGGAACATGGAGACTAAGTT
10122737 GGGGAACATGGAGACTAAGTT
1 GGGGAACATGGAGACTAAGTT
10122758 G
1 G
10122759 CGGCCTGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.40, T:0.19
Consensus pattern (21 bp):
GGGGAACATGGAGACTAAGTT
Found at i:10128245 original size:5 final size:5
Alignment explanation
Indices: 10128235--10128275 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
10128225 ATTTGTGAAA
*
10128235 GGGAT GGGAT GGGGAT -GCAT GGGAT GGGAT GGGAT GGGAT G
1 GGGAT GGGAT -GGGAT GGGAT GGGAT GGGAT GGGAT GGGAT G
10128276 ATAATTATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.09
5 24 0.75
6 5 0.16
ACGTcount: A:0.20, C:0.02, G:0.59, T:0.20
Consensus pattern (5 bp):
GGGAT
Found at i:10135498 original size:23 final size:22
Alignment explanation
Indices: 10135469--10135526 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
10135459 CTAAGTACAG
10135469 GGGACACATGCCCGTGTGGCCAA
1 GGGACACA-GCCCGTGTGGCCAA
*
10135492 GGGACAC-GCCCGTGTGGCCAT
1 GGGACACAGCCCGTGTGGCCAA
10135513 GGGACACA-CCCGTG
1 GGGACACAGCCCGTG
10135527 CCTCAAGCCG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 26 0.79
23 7 0.21
ACGTcount: A:0.19, C:0.33, G:0.36, T:0.12
Consensus pattern (22 bp):
GGGACACAGCCCGTGTGGCCAA
Found at i:10137536 original size:3 final size:3
Alignment explanation
Indices: 10137517--10137668 Score: 64
Period size: 3 Copynumber: 50.0 Consensus size: 3
10137507 AATAATGTAT
* * * *
10137517 TAA TAA GAA TTA TAA TAA TATA TAT TAA TAA TAA GGAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA
* ** * * *
10137563 -AA TAA AAA TGGGT TAA TAA -AGA TAA TAG TAA TAA TAGA -AG TAA AAA
1 TAA TAA TAA T--AA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA
* * *
10137609 CAA TAA TAA TAA TAA -ATA TAA TAA TAG TAA TAA TGA TAA TAA TACA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA-A
*
10137655 AAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA
10137669 CAAATAAATA
Statistics
Matches: 109, Mismatches: 27, Indels: 26
0.67 0.17 0.16
Matches are distributed among these distances:
2 8 0.07
3 90 0.83
4 10 0.09
5 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:10137629 original size:15 final size:15
Alignment explanation
Indices: 10137611--10137679 Score: 70
Period size: 15 Copynumber: 4.5 Consensus size: 15
10137601 AGTAAAAACA
10137611 ATAATAATAATAAAT
1 ATAATAATAATAAAT
*
10137626 ATAATAATAGTAATAAT
1 ATAATAATAAT-A-AAT
10137643 GATAATAATACA-AAAT
1 -ATAATAATA-ATAAAT
*
10137659 ATAATAATAACAAAT
1 ATAATAATAATAAAT
10137674 A-AATAA
1 ATAATAA
10137680 GTATAGAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
14 6 0.13
15 24 0.51
16 4 0.09
17 4 0.09
18 9 0.19
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (15 bp):
ATAATAATAATAAAT
Found at i:10137630 original size:33 final size:33
Alignment explanation
Indices: 10137593--10137667 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
10137583 GATAATAGTA
10137593 ATAATAGA-AGTAAAAACAATAATAATA-ATAAAT
1 ATAATA-ATAGTAAAAACAATAATAATACA-AAAT
* **
10137626 ATAATAATAGTAATAATGATAATAATACAAAAT
1 ATAATAATAGTAAAAACAATAATAATACAAAAT
10137659 ATAATAATA
1 ATAATAATA
10137668 ACAAATAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 1 0.03
33 35 0.95
34 1 0.03
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (33 bp):
ATAATAATAGTAAAAACAATAATAATACAAAAT
Found at i:10137737 original size:3 final size:3
Alignment explanation
Indices: 10137722--10137839 Score: 52
Period size: 3 Copynumber: 40.7 Consensus size: 3
10137712 TGATAAGGAA
* * * * * *
10137722 AAT AAT AAC AAT AAT -AC AAT AAT AAT AA- AGT AGT AAT AAA AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
10137768 AAT AAC AAT AAT AGT AAA AAT -AT AAT AAAT AAT AGT AA- AAG AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
*
10137811 AAT AAT AA- AATT AACT AAT -TT AAT AAT AA
1 AAT AAT AAT AA-T AA-T AAT AAT AAT AAT AA
10137840 AGTAGCTAAA
Statistics
Matches: 85, Mismatches: 21, Indels: 18
0.69 0.17 0.15
Matches are distributed among these distances:
2 11 0.13
3 66 0.78
4 8 0.09
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:10137747 original size:11 final size:10
Alignment explanation
Indices: 10137722--10137806 Score: 65
Period size: 9 Copynumber: 8.9 Consensus size: 10
10137712 TGATAAGGAA
*
10137722 AATAAT-AAC
1 AATAATAAAT
10137731 AATAATACAAT
1 AATAATA-AAT
10137742 AATAATAAAGT
1 AATAATAAA-T
*
10137753 AGTAATAAA-
1 AATAATAAAT
10137762 AATAA-AAAT
1 AATAATAAAT
*
10137771 AACAAT-AAT
1 AATAATAAAT
*
10137780 AGTAA-AAAT
1 AATAATAAAT
10137789 -ATAATAAAT
1 AATAATAAAT
*
10137798 AATAGTAAA
1 AATAATAAA
10137807 AGAAAATAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
8 6 0.10
9 27 0.45
10 9 0.15
11 18 0.30
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.25
Consensus pattern (10 bp):
AATAATAAAT
Found at i:10137765 original size:23 final size:22
Alignment explanation
Indices: 10137739--10137819 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 22
10137729 ACAATAATAC
* *
10137739 AATAATAATAAAGTAGTAATAAA
1 AATAATAATAAA-TAATAGTAAA
*
10137762 AATAAAAATAACAATAATAGTAAA
1 AATAATAAT-A-AATAATAGTAAA
10137786 AAT-ATAATAAATAATAGTAAA
1 AATAATAATAAATAATAGTAAA
*
10137807 AGAAAATAATAAA
1 A-ATAATAATAAA
10137820 ATTAACTAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
21 13 0.27
22 2 0.04
23 20 0.41
24 12 0.24
25 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.06, T:0.23
Consensus pattern (22 bp):
AATAATAATAAATAATAGTAAA
Found at i:10137818 original size:46 final size:44
Alignment explanation
Indices: 10137719--10137818 Score: 107
Period size: 45 Copynumber: 2.2 Consensus size: 44
10137709 TAATGATAAG
* * *
10137719 GAAAATAATAACAATAATACAATAATAATAAAGTAGTAATAAAA
1 GAAAATAATAACAATAATAAAAAAATAATAAAGTAATAATAAAA
*
10137763 -ATAAA-AATAACAATAATAGTAAAAATATAATAAA-TAATAGTAAAA
1 GA-AAATAATAACAATAATA--AAAAA-ATAATAAAGTAATAATAAAA
10137808 GAAAATAATAA
1 GAAAATAATAA
10137819 AATTAACTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
43 14 0.30
44 3 0.07
45 15 0.33
46 14 0.30
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (44 bp):
GAAAATAATAACAATAATAAAAAAATAATAAAGTAATAATAAAA
Found at i:10138452 original size:2 final size:2
Alignment explanation
Indices: 10138447--10138489 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
10138437 CTATATTTTG
*
10138447 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10138489 A
1 A
10138490 AGAAAAATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10139365 original size:78 final size:78
Alignment explanation
Indices: 10139232--10139446 Score: 342
Period size: 78 Copynumber: 2.8 Consensus size: 78
10139222 ACACACTAAT
* * * *
10139232 TTGGCACCCAGTGCCTCATCGAA-TAATTCGAAGTAATAAGTTGACACCTAGTGTCTCATTAGCT
1 TTGGTACCCAGTACCTCATCGAATTTATCCGAAGTAATAAGTTGACACCTAGTGTCTCATTAGCT
*
10139296 TAACCGGAGTAAA
66 TAACCAGAGTAAA
*
10139309 TTGGTACCCAGTACCTCATCGAATTTATCCGAAGTAATAAGTTGACACCTAGTGTCTCATTGGCT
1 TTGGTACCCAGTACCTCATCGAATTTATCCGAAGTAATAAGTTGACACCTAGTGTCTCATTAGCT
*
10139374 TAATCAGAGTAAA
66 TAACCAGAGTAAA
* *
10139387 TTGGTACCCAGTACCTCATCGAATTTATCTGAAGTAATAATTTGACACCTAGTGTCTCAT
1 TTGGTACCCAGTACCTCATCGAATTTATCCGAAGTAATAAGTTGACACCTAGTGTCTCAT
10139447 CGGCTCAAAG
Statistics
Matches: 128, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
77 21 0.16
78 107 0.84
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (78 bp):
TTGGTACCCAGTACCTCATCGAATTTATCCGAAGTAATAAGTTGACACCTAGTGTCTCATTAGCT
TAACCAGAGTAAA
Found at i:10139368 original size:41 final size:40
Alignment explanation
Indices: 10139236--10139448 Score: 125
Period size: 41 Copynumber: 5.4 Consensus size: 40
10139226 ACTAATTTGG
* *
10139236 CACCCAGTGCCTCATCGAA-TAATTCGAAGTAATAAGTTGA
1 CACCCAGTGCCTCATCGAATTTATCCGAAGTAATAA-TTGA
* * * ** * * *
10139276 CACCTAGTGTCTCAT-TAGCTTAACCGGAGT-A-AATTGG
1 CACCCAGTGCCTCATCGAATTTATCCGAAGTAATAATTGA
* *
10139313 TACCCAGTACCTCATCGAATTTATCCGAAGTAATAAGTTGA
1 CACCCAGTGCCTCATCGAATTTATCCGAAGTAATAA-TTGA
* * * ** * * *
10139354 CACCTAGTGTCTCATTGGCTTAATCAG-AGT-A-AATTGG
1 CACCCAGTGCCTCATCGAATTTATCCGAAGTAATAATTGA
* * *
10139391 TACCCAGTACCTCATCGAATTTATCTGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAATTTATCCGAAGTAATAA-TTGA
* *
10139432 CACCTAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
10139449 GCTCAAAGTC
Statistics
Matches: 121, Mismatches: 43, Indels: 17
0.67 0.24 0.09
Matches are distributed among these distances:
37 35 0.29
38 17 0.14
39 5 0.04
40 27 0.22
41 37 0.31
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATTTATCCGAAGTAATAATTGA
Found at i:10139405 original size:37 final size:37
Alignment explanation
Indices: 10139286--10139405 Score: 87
Period size: 37 Copynumber: 3.1 Consensus size: 37
10139276 CACCTAGTGT
* * *
10139286 CTCATTAGCTTAACCGGAGTAAATTGGTACCCAGTAC
1 CTCATTGGCTTAATCAGAGTAAATTGGTACCCAGTAC
* ** * * ** * **
10139323 CTCATCGAATTTATCCGAAGTAATAAGTTGACACCTAGTGT
1 CTCATTGGCTTAATCAG-AGT-A-AA-TTGGTACCCAGTAC
10139364 CTCATTGGCTTAATCAGAGTAAATTGGTACCCAGTAC
1 CTCATTGGCTTAATCAGAGTAAATTGGTACCCAGTAC
10139401 CTCAT
1 CTCAT
10139406 CGAATTTATC
Statistics
Matches: 57, Mismatches: 22, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
37 24 0.42
38 5 0.09
39 2 0.04
40 5 0.09
41 21 0.37
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (37 bp):
CTCATTGGCTTAATCAGAGTAAATTGGTACCCAGTAC
Found at i:10141331 original size:24 final size:25
Alignment explanation
Indices: 10141280--10141339 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
10141270 AATGAAAAAT
*
10141280 AAAGAAAGAAAAGTTAAAAGAACATA
1 AAAGAAA-AAAAATTAAAAGAACATA
* *
10141306 AAAGAAAAAAAATTAAATG-ACTTA
1 AAAGAAAAAAAATTAAAAGAACATA
10141330 AAACGAAAAA
1 AAA-GAAAAA
10141340 TATGGGTACC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.23
25 16 0.53
26 7 0.23
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.13
Consensus pattern (25 bp):
AAAGAAAAAAAATTAAAAGAACATA
Found at i:10141519 original size:29 final size:28
Alignment explanation
Indices: 10141444--10141520 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 28
10141434 TTAACGGCTC
10141444 AGTGACTAAAATGTTACAACATGTTAACATA
1 AGTGACTAAAATG-T--AACATGTTAACATA
* * *
10141475 AATGACTAAGACGTAACAT-TTCAAACATA
1 AGTGACTAAAATGTAACATGTT--AACATA
10141504 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
10141521 TTAACAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 2 0.05
28 5 0.13
29 20 0.53
30 1 0.03
31 10 0.26
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (28 bp):
AGTGACTAAAATGTAACATGTTAACATA
Done.