Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 33 of 216
Found at i:9543852 original size:17 final size:16
Alignment explanation
Indices: 9543818--9543886 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
9543808 GATTAGCTAT
9543818 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
9543834 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
9543851 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
9543867 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
9543883 TACA
1 TACA
9543887 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:9544132 original size:31 final size:31
Alignment explanation
Indices: 9544066--9544132 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
9544056 TTTATGTATC
* * *
9544066 ATTATATTAAATTATTTAAATATGATTTATT
1 ATTATATTAAATAATTTAAATATAATTTATA
9544097 ATTATATTTAAA-AATTTAAA-ATAATTTACTA
1 ATTATA-TTAAATAATTTAAATATAATTTA-TA
9544128 ATTAT
1 ATTAT
9544133 TAAAAAGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 7 0.23
31 19 0.61
32 5 0.16
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (31 bp):
ATTATATTAAATAATTTAAATATAATTTATA
Found at i:9548885 original size:43 final size:41
Alignment explanation
Indices: 9548837--9548932 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 41
9548827 AGAAAACGCA
*
9548837 TCCAACTGGGCACATTTTCCCTAACATGTCAACAAAAAATGCT
1 TCCAACTGGG--CATTTTCCCCAACATGTCAACAAAAAATGCT
** * *
9548880 TCCAACCTGGTGTGTTTTCCCCGACATGTCAGCAAAAAATGCT
1 TCCAA-CTGG-GCATTTTCCCCAACATGTCAACAAAAAATGCT
9548923 TCCAACTGGG
1 TCCAACTGGG
9548933 TGTGCTTTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
41 1 0.02
42 4 0.09
43 36 0.78
44 4 0.09
45 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (41 bp):
TCCAACTGGGCATTTTCCCCAACATGTCAACAAAAAATGCT
Found at i:9548935 original size:43 final size:43
Alignment explanation
Indices: 9548851--9548941 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
9548841 ACTGGGCACA
*
9548851 TTTTCCCTAACATGTCAACAAAAAATGCTTCCAACCTGGTGTG
1 TTTTCCCCAACATGTCAACAAAAAATGCTTCCAACCTGGTGTG
* *
9548894 TTTTCCCCGACATGTCAGCAAAAAATGCTTCCAA-CTGGGTGTG
1 TTTTCCCCAACATGTCAACAAAAAATGCTTCCAACCT-GGTGTG
*
9548937 CTTTC
1 TTTTC
9548942 TTTCCTCCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 2 0.05
43 41 0.95
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (43 bp):
TTTTCCCCAACATGTCAACAAAAAATGCTTCCAACCTGGTGTG
Found at i:9560277 original size:24 final size:25
Alignment explanation
Indices: 9560249--9560301 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
9560239 GGCCGTACCT
*
9560249 GCAGCAAACAAAAACA-AACACACA
1 GCAGCAAACAAAAACAGAAAACACA
* *
9560273 GCAGCAAAGAATAACAGAAAACACA
1 GCAGCAAACAAAAACAGAAAACACA
9560298 GCAG
1 GCAG
9560302 AAAAGAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.58, C:0.25, G:0.15, T:0.02
Consensus pattern (25 bp):
GCAGCAAACAAAAACAGAAAACACA
Found at i:9561423 original size:22 final size:22
Alignment explanation
Indices: 9561385--9561433 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
9561375 GTACGTAATG
*
9561385 TATATATTATTTAATTTTAAAC
1 TATATATTATATAATTTTAAAC
*
9561407 TATATA-TATATATATTTTATAC
1 TATATATTATATA-ATTTTAAAC
9561429 -ATATA
1 TATATA
9561434 CAATTTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (22 bp):
TATATATTATATAATTTTAAAC
Found at i:9565655 original size:43 final size:44
Alignment explanation
Indices: 9565580--9565863 Score: 224
Period size: 43 Copynumber: 6.5 Consensus size: 44
9565570 GTACAGCAAG
* *
9565580 ATTTGCAGATAAAATCTACCACT-GGACAGTGGATACACAACAAA
1 ATTTGCAGATAAAATCTGCCACTAGG-CTGTGGATACACAACAAA
**
9565624 ATTTGCAGAT-AAATCTATCACTAGGCTGTGGATACACAAC-AA
1 ATTTGCAGATAAAATCTGCCACTAGGCTGTGGATACACAACAAA
* * * * * *
9565666 ATTCGCATATAAAATTTGCCATTA-ACATGTGGATACATAACAAA
1 ATTTGCAGATAAAATCTGCCACTAGGC-TGTGGATACACAACAAA
* * * * * **
9565710 ATTCGTAGATAAAATTTGCCACTAAGCTGTGGGTACACAGTAAA
1 ATTTGCAGATAAAATCTGCCACTAGGCTGTGGATACACAACAAA
* * * * *
9565754 ATTTGCAGAT-AAATCTGCCACT-GATCTGTGGGTATATAGCAAA
1 ATTTGCAGATAAAATCTGCCACTAG-GCTGTGGATACACAACAAA
* * * *
9565797 ATTCGCAGAT-AAGTCTGCCACTGGGCTATGGATACACAACAAA
1 ATTTGCAGATAAAATCTGCCACTAGGCTGTGGATACACAACAAA
*
9565840 ATTTTGTAGATGAAAA-CTGCCACT
1 A-TTTGCAGAT-AAAATCTGCCACT
9565864 TAGCTATGGG
Statistics
Matches: 193, Mismatches: 37, Indels: 19
0.78 0.15 0.08
Matches are distributed among these distances:
42 11 0.06
43 107 0.55
44 64 0.33
45 9 0.05
46 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (44 bp):
ATTTGCAGATAAAATCTGCCACTAGGCTGTGGATACACAACAAA
Found at i:9565816 original size:130 final size:130
Alignment explanation
Indices: 9565621--9565896 Score: 274
Period size: 130 Copynumber: 2.1 Consensus size: 130
9565611 GATACACAAC
* * *
9565621 AAAATTTGCAGATAAATCTATCACTAGGCTGTGGATACACAACAAATTCGCATATAAAATTTGCC
1 AAAATTTGCAGATAAATCTACCACTAGGCTGTGGATACACAACAAATTCGCAGATAAAATCTGCC
* * * * * *
9565686 A-TTAACATGTGGATACATAACAAAA-TTCGTAGAT-AAAATTTGCCACTAAGCTGTGGGTACAC
66 ACTGAAC-TATGGATACACAACAAAATTTCGTAGATGAAAA-CTGCCACTAAGCTATGGGTACAA
9565748 AG
129 AG
* * * * * * *
9565750 TAAAATTTGCAGATAAATCTGCCACT-GATCTGTGGGTATATAGCAAAATTCGCAGAT-AAGTCT
1 -AAAATTTGCAGATAAATCTACCACTAG-GCTGTGGATACACAAC-AAATTCGCAGATAAAATCT
** * * *
9565813 GCCACTGGGCTATGGATACACAACAAAATTTTGTAGATGAAAACTGCCACTTAGCTATGGGTGCA
63 GCCACTGAACTATGGATACACAACAAAATTTCGTAGATGAAAACTGCCACTAAGCTATGGGTACA
9565878 AAG
128 AAG
*
9565881 AAAATTTTCAGATAAA
1 AAAATTTGCAGATAAA
9565897 CTGTCAATTC
Statistics
Matches: 119, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
129 1 0.01
130 73 0.61
131 41 0.34
132 4 0.03
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (130 bp):
AAAATTTGCAGATAAATCTACCACTAGGCTGTGGATACACAACAAATTCGCAGATAAAATCTGCC
ACTGAACTATGGATACACAACAAAATTTCGTAGATGAAAACTGCCACTAAGCTATGGGTACAAAG
Found at i:9566098 original size:38 final size:38
Alignment explanation
Indices: 9565997--9566100 Score: 154
Period size: 38 Copynumber: 2.7 Consensus size: 38
9565987 GTATAGCATA
* * * *
9565997 TACTCAATTTAGCACTAACAATAGAAATGTTTAACATG
1 TACTCAATTCATCATTAACAATAGACATGTTTAACATG
*
9566035 TACTCAATTCATCATTAACAGTAGACATGTTTAACATG
1 TACTCAATTCATCATTAACAATAGACATGTTTAACATG
*
9566073 TACTCAGTTCATCATTAACAATAGACAT
1 TACTCAATTCATCATTAACAATAGACAT
9566101 ACTTATAATG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (38 bp):
TACTCAATTCATCATTAACAATAGACATGTTTAACATG
Found at i:9569012 original size:9 final size:9
Alignment explanation
Indices: 9569001--9569112 Score: 161
Period size: 9 Copynumber: 12.4 Consensus size: 9
9568991 TTTGGTTAAA
*
9569001 AATTAACCA
1 AATTAACCG
9569010 AATTAACCG
1 AATTAACCG
9569019 AATTAACCG
1 AATTAACCG
*
9569028 AATTACCCG
1 AATTAACCG
*
9569037 AATTACCCG
1 AATTAACCG
9569046 AATTAACCG
1 AATTAACCG
*
9569055 AATTACCCG
1 AATTAACCG
*
9569064 AATTACCCG
1 AATTAACCG
9569073 AATTAACCG
1 AATTAACCG
*
9569082 AATTACCCG
1 AATTAACCG
9569091 AATTAACCG
1 AATTAACCG
*
9569100 AATTAACCA
1 AATTAACCG
9569109 AATT
1 AATT
9569113 GAATCACTAC
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 95 1.00
ACGTcount: A:0.42, C:0.26, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:9569040 original size:27 final size:27
Alignment explanation
Indices: 9569001--9569112 Score: 179
Period size: 27 Copynumber: 4.1 Consensus size: 27
9568991 TTTGGTTAAA
* *
9569001 AATTAACCAAATTAACCGAATTAACCG
1 AATTACCCGAATTAACCGAATTAACCG
*
9569028 AATTACCCGAATTACCCGAATTAACCG
1 AATTACCCGAATTAACCGAATTAACCG
*
9569055 AATTACCCGAATTACCCGAATTAACCG
1 AATTACCCGAATTAACCGAATTAACCG
*
9569082 AATTACCCGAATTAACCGAATTAACCA
1 AATTACCCGAATTAACCGAATTAACCG
9569109 AATT
1 AATT
9569113 GAATCACTAC
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.42, C:0.26, G:0.09, T:0.23
Consensus pattern (27 bp):
AATTACCCGAATTAACCGAATTAACCG
Found at i:9572462 original size:9 final size:8
Alignment explanation
Indices: 9572448--9572490 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 8
9572438 AAATTTTTCA
9572448 TTTAAATT
1 TTTAAATT
9572456 CTTTAAAATT
1 -TTT-AAATT
9572466 TTTAAAGTT
1 TTTAAA-TT
*
9572475 TTTAAAAT
1 TTTAAATT
9572483 TTTAAATT
1 TTTAAATT
9572491 AGTAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 11 0.37
9 14 0.47
10 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (8 bp):
TTTAAATT
Found at i:9572471 original size:18 final size:16
Alignment explanation
Indices: 9572448--9572490 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 16
9572438 AAATTTTTCA
9572448 TTTAAATTCTTTAAAATT
1 TTTAAATT-TTTAAAA-T
9572466 TTTAAAGTTTTTAAAAT
1 TTTAAA-TTTTTAAAAT
9572483 TTTAAATT
1 TTTAAATT
9572491 AGTAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.08
17 7 0.29
18 13 0.54
19 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (16 bp):
TTTAAATTTTTAAAAT
Found at i:9574031 original size:126 final size:124
Alignment explanation
Indices: 9573777--9574152 Score: 538
Period size: 126 Copynumber: 3.0 Consensus size: 124
9573767 GAATTTTTTG
9573777 GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA-CTAG
1 GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC-AG
* * * *
9573841 GATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCACGTGGACACGATTTTACTACAGTA
65 GATGCTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGATTTTGCTACAGTA
* * *
9573901 GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCAAGCA
1 GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAG--TATAAAATCGCTTCTAGCA
*** * * * * *
9573966 GGATGAGATCTGAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGGTTTTGCTACAGTT
64 GGATGCTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGATTTTGCTACAGTA
* * *
9574027 GGTCCTGAAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTGGCAA
1 GGTCCTGAAA-AAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
*
9574092 GATGCTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
65 GATGCTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGATTTTGCTACAGTA
9574152 G
1 G
9574153 CATGTTTAGG
Statistics
Matches: 220, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
124 44 0.20
125 68 0.31
126 74 0.34
127 34 0.15
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (124 bp):
GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGG
ATGCTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGATTTTGCTACAGTA
Found at i:9575626 original size:13 final size:15
Alignment explanation
Indices: 9575596--9575627 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9575586 ATATTTCATG
9575596 CATTTCATCAATAAT
1 CATTTCATCAATAAT
9575611 CATTTCAT-AA-AAT
1 CATTTCATCAATAAT
9575624 CATT
1 CATT
9575628 ATTTCATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (15 bp):
CATTTCATCAATAAT
Found at i:9576210 original size:45 final size:45
Alignment explanation
Indices: 9576141--9576318 Score: 214
Period size: 45 Copynumber: 4.0 Consensus size: 45
9576131 TAATGGTAGT
* * ** * *
9576141 AGTAACAGTAATAGTATTCAACACACAAAGTGCTAAACCTGTAAC
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAAC
* * * *
9576186 AGTAACGGTAACAGTATTCGACACATAAAGTGCCGAGTCGGTAAC
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAAC
*
9576231 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGAAAC
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAAC
* * * *
9576276 AGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTAATCAGTAA
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAA
9576319 GACGGAAAAT
Statistics
Matches: 114, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 15 0.13
45 99 0.87
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (45 bp):
AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAAC
Found at i:9576289 original size:90 final size:89
Alignment explanation
Indices: 9576141--9576308 Score: 237
Period size: 90 Copynumber: 1.9 Consensus size: 89
9576131 TAATGGTAGT
* * * * * *
9576141 AGTAACAGTAATAGTATTCAACACACAAAGTGCTAAACCTGTAACAGTAACGGTAACAGTATTCG
1 AGTAACAGTAACAGTATTCAACACACAAAGTGCCAAACCAGAAACAGTAACAGTAACAGTAGTCG
9576206 ACACATAAAGTGCCGAGTCGGTAAC
66 ACACAT-AAGTGCCGAGTCGGTAAC
* * *
9576231 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGAAACAGTAACAGTAACAGTAGTCG
1 AGTAACAGTAACAGTATTCAACACACAAAGTGCCAAACCAGAAACAGTAACAGTAACAGTAGTCG
*
9576296 GCACATAAGTGCC
66 ACACATAAGTGCC
9576309 TAATCAGTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
89 7 0.10
90 61 0.90
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (89 bp):
AGTAACAGTAACAGTATTCAACACACAAAGTGCCAAACCAGAAACAGTAACAGTAACAGTAGTCG
ACACATAAGTGCCGAGTCGGTAAC
Found at i:9580477 original size:15 final size:15
Alignment explanation
Indices: 9580454--9580484 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9580444 TCAAATTATA
9580454 TTTAAGTTAAGGGTT
1 TTTAAGTTAAGGGTT
*
9580469 TTTAGGTTAAGGGTT
1 TTTAAGTTAAGGGTT
9580484 T
1 T
9580485 AGGGTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (15 bp):
TTTAAGTTAAGGGTT
Found at i:9580510 original size:21 final size:21
Alignment explanation
Indices: 9580464--9580996 Score: 458
Period size: 21 Copynumber: 25.3 Consensus size: 21
9580454 TTTAAGTTAA
9580464 GGGTTTTTAGGTTAAGGGTTT
1 GGGTTTTTAGGTTAAGGGTTT
*
9580485 AGGGTTTTTAGGTTGAGGGTTT
1 -GGGTTTTTAGGTTAAGGGTTT
9580507 GGGTTTTTAGGTTAAGGGTTT
1 GGGTTTTTAGGTTAAGGGTTT
* *
9580528 AAGGTTTTTAGGTTGAGGGTTAT
1 -GGGTTTTTAGGTTAAGGGTT-T
* *
9580551 -GGTTTTTAGGTTTAGGGTTA
1 GGGTTTTTAGGTTAAGGGTTT
** * * *
9580571 ATGTTTTTATGTTGAGGGTTA
1 GGGTTTTTAGGTTAAGGGTTT
* *
9580592 GGGTTTTTAGGTTTAGGGTTA
1 GGGTTTTTAGGTTAAGGGTTT
* * * *
9580613 AGGTTTTTATGTTGAGGGTTA
1 GGGTTTTTAGGTTAAGGGTTT
*
9580634 GGGTTTTTAAGTTAAGGGTTT
1 GGGTTTTTAGGTTAAGGGTTT
** * *
9580655 AGTATTTTTAGGTTTATGGTTT
1 -GGGTTTTTAGGTTAAGGGTTT
9580677 AGGG--TTTAGGGTT-A--G---
1 -GGGTTTTTA-GGTTAAGGGTTT
* *
9580692 -GGTTTCTAGGTTAAGGGTTA
1 GGGTTTTTAGGTTAAGGGTTT
* * *
9580712 AGGTTTTTAGGTTGAGGGTTA
1 GGGTTTTTAGGTTAAGGGTTT
* *
9580733 AGGTTTTTAGGTTGAGGGTTT
1 GGGTTTTTAGGTTAAGGGTTT
* *
9580754 AAGGTTTTTAGGTTGAGGGTTAT
1 -GGGTTTTTAGGTTAAGGGTT-T
9580777 -GGTTTTTAGGTTAAGGGTTT
1 GGGTTTTTAGGTTAAGGGTTT
* *
9580797 AGCGTTTTTAGGTTAAGGGTTA
1 -GGGTTTTTAGGTTAAGGGTTT
* * *
9580819 GGGTATTTAGGTTGAGGGTTA
1 GGGTTTTTAGGTTAAGGGTTT
9580840 GGGTTTTTAGGTTAAGGGTTT
1 GGGTTTTTAGGTTAAGGGTTT
**
9580861 CTAGTTTTTAGGTTAAGGGTTT
1 -GGGTTTTTAGGTTAAGGGTTT
* *
9580883 AGGGTTTTGAGGTTAAGGGTTA
1 -GGGTTTTTAGGTTAAGGGTTT
*
9580905 GGGTTTTTAGGTTAAGAGTTT
1 GGGTTTTTAGGTTAAGGGTTT
* *
9580926 AGGGTTTTTAGGTTAAAGGTTA
1 -GGGTTTTTAGGTTAAGGGTTT
*
9580948 GGGTTTTTAGGTTGAGGGTTT
1 GGGTTTTTAGGTTAAGGGTTT
* * *
9580969 AGGGTTTTTAGGTTGAGAGTTA
1 -GGGTTTTTAGGTTAAGGGTTT
9580991 GGGTTT
1 GGGTTT
9580997 AGGGTTTAGG
Statistics
Matches: 432, Mismatches: 58, Indels: 43
0.81 0.11 0.08
Matches are distributed among these distances:
13 2 0.00
14 4 0.01
15 4 0.01
17 1 0.00
18 1 0.00
20 6 0.01
21 245 0.57
22 167 0.39
23 2 0.00
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.46
Consensus pattern (21 bp):
GGGTTTTTAGGTTAAGGGTTT
Found at i:9580512 original size:43 final size:42
Alignment explanation
Indices: 9580464--9581126 Score: 600
Period size: 43 Copynumber: 16.0 Consensus size: 42
9580454 TTTAAGTTAA
9580464 GGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTGAGGGTTT
1 GGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTGAGGGTTT
*
9580507 GGGTTTTTAGGTTAAGGGTTTAAGGTTTTTAGGTTGAGGGTTAT
1 GGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTGAGGGTT-T
* ** * *
9580551 -GGTTTTTAGGTTTAGGGTTAATGTTTTTATGTTGAGGGTTA
1 GGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTGAGGGTTT
* * * *
9580592 GGGTTTTTAGGTTTAGGGTTAAGGTTTTTATGTTGAGGGTTA
1 GGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTGAGGGTTT
* ** *
9580634 GGGTTTTTAAGTTAAGGGTTTAGTATTTTTAGGTT-----TAT
1 GGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTGAGGGTTT
* * * *
9580672 -GG--TTTAGGGTTTAGGGTTAGGGTTTCTAGGTTAAGGGTTA
1 GGGTTTTTA-GGTTAAGGGTTAGGGTTTTTAGGTTGAGGGTTT
* * *
9580712 AGGTTTTTAGGTTGAGGGTTAAGGTTTTTAGGTTGAGGGTTT
1 GGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTGAGGGTTT
* * * *
9580754 AAGGTTTTTAGGTTGAGGGTTATGGTTTTTAGGTTAAGGGTTT
1 -GGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTGAGGGTTT
* * *
9580797 AGCGTTTTTAGGTTAAGGGTTAGGGTATTTAGGTTGAGGGTTA
1 -GGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTGAGGGTTT
*** *
9580840 GGGTTTTTAGGTTAAGGGTTTCTAGTTTTTAGGTTAAGGGTTT
1 GGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTGAGGGTTT
* * *
9580883 AGGGTTTTGAGGTTAAGGGTTAGGGTTTTTAGGTTAAGAGTTT
1 -GGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTGAGGGTTT
*
9580926 AGGGTTTTTAGGTTAAAGGTTAGGGTTTTTAGGTTGAGGGTTT
1 -GGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTGAGGGTTT
* *
9580969 AGGGTTTTTAGGTTGAGAGTTAGGG----T---TT-AGGGTTT
1 -GGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTGAGGGTTT
* * * * * *
9581004 AGGTTTTTAGGTTTAAGGTTTATGG---TT--GTTAAGTGTTA
1 GGGTTTTTAGG-TTAAGGGTTAGGGTTTTTAGGTTGAGGGTTT
** *
9581042 GGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTGAATGTTA
1 GGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTGAGGGTTT
9581084 GGGTTCTTT-GGTTAAGGGTTTAGGGTTTTTAGGTTTG-GGGTTT
1 GGGTT-TTTAGGTTAAGGG-TTAGGGTTTTTAGG-TTGAGGGTTT
9581127 AGAGTTAGGG
Statistics
Matches: 524, Mismatches: 69, Indels: 54
0.81 0.11 0.08
Matches are distributed among these distances:
34 10 0.02
35 33 0.06
36 10 0.02
37 15 0.03
38 16 0.03
39 1 0.00
40 3 0.01
41 2 0.00
42 145 0.28
43 268 0.51
44 21 0.04
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.46
Consensus pattern (42 bp):
GGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTGAGGGTTT
Found at i:9580677 original size:7 final size:7
Alignment explanation
Indices: 9580661--9581030 Score: 73
Period size: 7 Copynumber: 52.3 Consensus size: 7
9580651 GTTTAGTATT
9580661 TTTA-GG
1 TTTAGGG
*
9580667 TTTATGG
1 TTTAGGG
9580674 TTTAGGG
1 TTTAGGG
9580681 TTTAGGG
1 TTTAGGG
9580688 -TTAGGG
1 TTTAGGG
9580694 TTTCTA-GG
1 -TT-TAGGG
*
9580702 TTAAGGG
1 TTTAGGG
* *
9580709 TTAAGGTT
1 TTTAGG-G
9580717 TTTA-GG
1 TTTAGGG
*
9580723 TTGAGGG
1 TTTAGGG
* *
9580730 TTAAGGTT
1 TTTAGG-G
9580738 TTTA-GG
1 TTTAGGG
*
9580744 TTGAGGG
1 TTTAGGG
*
9580751 TTTAAGGTT
1 TTT-AGG-G
9580760 TTTA-GG
1 TTTAGGG
*
9580766 TTGAGGG
1 TTTAGGG
*
9580773 -TTATGGTT
1 TTTA-GG-G
9580781 TTTA-GG
1 TTTAGGG
*
9580787 TTAAGGG
1 TTTAGGG
*
9580794 TTTAGCGTT
1 TTTAG-G-G
9580803 TTTA-GG
1 TTTAGGG
*
9580809 TTAAGGG
1 TTTAGGG
9580816 -TTAGGG
1 TTTAGGG
9580822 TATTTA-GG
1 --TTTAGGG
*
9580830 TTGAGGG
1 TTTAGGG
9580837 -TTAGGG
1 TTTAGGG
9580843 TTTTTA-GG
1 --TTTAGGG
*
9580851 TTAAGGG
1 TTTAGGG
**
9580858 TTTCTAGTT
1 -TT-TAGGG
9580867 TTTA-GG
1 TTTAGGG
*
9580873 TTAAGGG
1 TTTAGGG
9580880 TTTAGGG
1 TTTAGGG
*
9580887 TTTTGAGG
1 TTTAG-GG
*
9580895 TTAAGGG
1 TTTAGGG
9580902 -TTAGGG
1 TTTAGGG
9580908 TTTTTA-GG
1 --TTTAGGG
* *
9580916 TTAAGAG
1 TTTAGGG
9580923 TTTAGGG
1 TTTAGGG
9580930 TTTTTA-GG
1 --TTTAGGG
* *
9580938 TTAAAGG
1 TTTAGGG
9580945 -TTAGGG
1 TTTAGGG
9580951 TTTTTA-GG
1 --TTTAGGG
*
9580959 TTGAGGG
1 TTTAGGG
9580966 TTTAGGG
1 TTTAGGG
9580973 TTTTTA-GG
1 --TTTAGGG
* *
9580981 TTGAGAG
1 TTTAGGG
9580988 -TTAGGG
1 TTTAGGG
9580994 TTTAGGG
1 TTTAGGG
*
9581001 TTTAGGTT
1 TTTAGG-G
9581009 TTTA-GG
1 TTTAGGG
*
9581015 TTTAAGG
1 TTTAGGG
*
9581022 TTTATGG
1 TTTAGGG
9581029 TT
1 TT
9581031 GTTAAGTGTT
Statistics
Matches: 262, Mismatches: 54, Indels: 95
0.64 0.13 0.23
Matches are distributed among these distances:
6 76 0.29
7 113 0.43
8 39 0.15
9 34 0.13
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:9580679 original size:13 final size:14
Alignment explanation
Indices: 9580661--9581030 Score: 73
Period size: 15 Copynumber: 26.1 Consensus size: 14
9580651 GTTTAGTATT
*
9580661 TTTA-GGTTTATGG
1 TTTAGGGTTTAGGG
9580674 TTTAGGGTTTAGGG
1 TTTAGGGTTTAGGG
9580688 -TTAGGGTTTCTA-GG
1 TTTAGGG-TT-TAGGG
* * *
9580702 TTAAGGGTTAAGGTT
1 TTTAGGGTTTAGG-G
*
9580717 TTTA-GGTTGAGGG
1 TTTAGGGTTTAGGG
* *
9580730 TTAAGGTTTTTA-GG
1 TTTAGG-GTTTAGGG
* *
9580744 TTGAGGGTTTAAGGTT
1 TTTAGGGTTT-AGG-G
*
9580760 TTTA-GGTTGAGGG
1 TTTAGGGTTTAGGG
*
9580773 -TTATGGTTTTTA-GG
1 TTTA-GG-GTTTAGGG
* *
9580787 TTAAGGGTTTAGCGTT
1 TTTAGGGTTTAG-G-G
*
9580803 TTTA-GGTTAAGGG
1 TTTAGGGTTTAGGG
9580816 -TTAGGGTATTTA-GG
1 TTTAGGG--TTTAGGG
*
9580830 TTGAGGG-TTAGGG
1 TTTAGGGTTTAGGG
*
9580843 TTTTTA-GGTTAAGGG
1 --TTTAGGGTTTAGGG
**
9580858 TTTCTAGTTTTTA-GG
1 -TT-TAGGGTTTAGGG
*
9580873 TTAAGGGTTTAGGG
1 TTTAGGGTTTAGGG
* *
9580887 TTTTGAGGTTAAGGG
1 TTTAG-GGTTTAGGG
9580902 -TTAGGGTTTTTA-GG
1 TTTAGGG--TTTAGGG
* *
9580916 TTAAGAGTTTAGGG
1 TTTAGGGTTTAGGG
* *
9580930 TTTTTA-GGTTAAAGG
1 --TTTAGGGTTTAGGG
9580945 -TTAGGGTTTTTA-GG
1 TTTAGGG--TTTAGGG
*
9580959 TTGAGGGTTTAGGG
1 TTTAGGGTTTAGGG
* *
9580973 TTTTTA-GGTTGAGAG
1 --TTTAGGGTTTAGGG
9580988 -TTAGGGTTTAGGG
1 TTTAGGGTTTAGGG
*
9581001 TTTAGGTTTTTA-GG
1 TTTAGG-GTTTAGGG
* *
9581015 TTTAAGGTTTATGG
1 TTTAGGGTTTAGGG
9581029 TT
1 TT
9581031 GTTAAGTGTT
Statistics
Matches: 255, Mismatches: 55, Indels: 93
0.63 0.14 0.23
Matches are distributed among these distances:
12 15 0.06
13 54 0.21
14 81 0.32
15 90 0.35
16 15 0.06
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTTAGGG
Found at i:9580684 original size:14 final size:14
Alignment explanation
Indices: 9580661--9580710 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
9580651 GTTTAGTATT
9580661 TTTA-GGTTTATGG
1 TTTAGGGTTTATGG
9580674 TTTAGGGTTTA-GG
1 TTTAGGGTTTATGG
* *
9580687 GTTAGGGTTTCTAGG
1 TTTAGGGTTTAT-GG
*
9580702 TTAAGGGTT
1 TTTAGGGTT
9580711 AAGGTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 15 0.50
14 6 0.20
15 9 0.30
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.46
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:9581056 original size:21 final size:21
Alignment explanation
Indices: 9581031--9581118 Score: 117
Period size: 21 Copynumber: 4.1 Consensus size: 21
9581021 GTTTATGGTT
*
9581031 GTTAAGTGTTAGGGTTTTTAG
1 GTTAAGGGTTAGGGTTTTTAG
9581052 GTTAAGGGTTAGGGTTTTTAG
1 GTTAAGGGTTAGGGTTTTTAG
*
9581073 GTTGAA-TGTTAGGGTTCTTT-G
1 GTT-AAGGGTTAGGGTT-TTTAG
9581094 GTTAAGGGTTTAGGGTTTTTAG
1 GTTAAGGG-TTAGGGTTTTTAG
9581116 GTT
1 GTT
9581119 TGGGGTTTAG
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.03
21 40 0.68
22 17 0.29
ACGTcount: A:0.17, C:0.01, G:0.35, T:0.47
Consensus pattern (21 bp):
GTTAAGGGTTAGGGTTTTTAG
Found at i:9581097 original size:42 final size:43
Alignment explanation
Indices: 9581037--9581118 Score: 141
Period size: 42 Copynumber: 1.9 Consensus size: 43
9581027 GGTTGTTAAG
9581037 TGTTAGGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTGAA
1 TGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTGAA
9581079 TGTTAGGGTTCTTT-GGTTAAGGGTTTAGGGTTTTTAGGTT
1 TGTTAGGGTT-TTTAGGTTAAGGGTTTAGGGTTTTTAGGTT
9581119 TGGGGTTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
42 19 0.50
43 19 0.50
ACGTcount: A:0.16, C:0.01, G:0.35, T:0.48
Consensus pattern (43 bp):
TGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTGAA
Found at i:9581118 original size:15 final size:15
Alignment explanation
Indices: 9581100--9581154 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
9581090 TTTGGTTAAG
9581100 GGTTTAGGGTTTTTA
1 GGTTTAGGGTTTTTA
*
9581115 GGTTT-GGG-GTTTA
1 GGTTTAGGGTTTTTA
9581128 GAG-TTAGGGTTTTTA
1 G-GTTTAGGGTTTTTA
*
9581143 GGTTTGGGGTTT
1 GGTTTAGGGTTT
9581155 AGGGTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
13 7 0.21
14 8 0.24
15 18 0.55
ACGTcount: A:0.11, C:0.00, G:0.40, T:0.49
Consensus pattern (15 bp):
GGTTTAGGGTTTTTA
Found at i:9581135 original size:28 final size:28
Alignment explanation
Indices: 9581103--9581156 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
9581093 GGTTAAGGGT
9581103 TTAGGGTTTTTAGGTTTGGGGTTTAGAG
1 TTAGGGTTTTTAGGTTTGGGGTTTAGAG
9581131 TTAGGGTTTTTAGGTTTGGGGTTTAG
1 TTAGGGTTTTTAGGTTTGGGGTTTAG
9581157 GGTTTTTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (28 bp):
TTAGGGTTTTTAGGTTTGGGGTTTAGAG
Found at i:9581135 original size:50 final size:50
Alignment explanation
Indices: 9581080--9581178 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
9581070 TAGGTTGAAT
* *
9581080 GTTAGGGTTCTTT-GGTTAAGGGTTTAGGGTTTTTAGGTTTGGGGTTTAGA
1 GTTAGGGTT-TTTAGGTTAAGGGTTTAGGGTTTTTAAGTTTAGGGTTTAGA
**
9581130 GTTAGGGTTTTTAGGTTTGGGGTTTAGGGTTTTTAAGTTTAGGGTTTAG
1 GTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTTAGGGTTTAG
9581179 CAATTTTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 3 0.07
50 41 0.93
ACGTcount: A:0.14, C:0.01, G:0.37, T:0.47
Consensus pattern (50 bp):
GTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTTAGGGTTTAGA
Found at i:9581155 original size:13 final size:13
Alignment explanation
Indices: 9581111--9581157 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
9581101 GTTTAGGGTT
9581111 TTTAGGTTTGGGG
1 TTTAGGTTTGGGG
* *
9581124 TTTAGAGTTAGGGTT
1 TTTAG-GTTTGGG-G
9581139 TTTAGGTTTGGGG
1 TTTAGGTTTGGGG
9581152 TTTAGG
1 TTTAGG
9581158 GTTTTTAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 11 0.39
14 12 0.43
15 5 0.18
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (13 bp):
TTTAGGTTTGGGG
Found at i:9581157 original size:22 final size:22
Alignment explanation
Indices: 9581123--9581178 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
9581113 TAGGTTTGGG
* *
9581123 GTTTAGAG-TTAGGGTTTTTAG
1 GTTTAGGGTTTAGGGTTTTTAA
*
9581144 GTTTGGGGTTTAGGGTTTTTAA
1 GTTTAGGGTTTAGGGTTTTTAA
9581166 GTTTAGGGTTTAG
1 GTTTAGGGTTTAG
9581179 CAATTTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (22 bp):
GTTTAGGGTTTAGGGTTTTTAA
Found at i:9581206 original size:21 final size:21
Alignment explanation
Indices: 9581182--9581221 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9581172 GGTTTAGCAA
*
9581182 TTTTAATTTAA-AAGTTAGGGT
1 TTTTAAGTTAAGAA-TTAGGGT
9581203 TTTTAAGTTAAGAATTAGG
1 TTTTAAGTTAAGAATTAGG
9581222 ATTAAGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (21 bp):
TTTTAAGTTAAGAATTAGGGT
Found at i:9581823 original size:18 final size:18
Alignment explanation
Indices: 9581800--9581839 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9581790 GACTCGGAAA
* *
9581800 AGGATACATATAAGGGTT
1 AGGATACATAAAAGGGCT
9581818 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
9581836 AGGA
1 AGGA
9581840 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:9583771 original size:23 final size:23
Alignment explanation
Indices: 9583745--9583800 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
9583735 ATTAAATATG
*
9583745 AATTTGAGAGAAATTTG-GAAGGA
1 AATTTGAGAGAAACTTGAG-AGGA
*
9583768 AA-TTGAGAGGAACTTGAGAGGA
1 AATTTGAGAGAAACTTGAGAGGA
*
9583790 AATTTGGGAGA
1 AATTTGAGAGA
9583801 GGATTTGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.41, C:0.02, G:0.34, T:0.23
Consensus pattern (23 bp):
AATTTGAGAGAAACTTGAGAGGA
Found at i:9585308 original size:58 final size:58
Alignment explanation
Indices: 9585234--9585360 Score: 200
Period size: 58 Copynumber: 2.2 Consensus size: 58
9585224 TAGGACCCCC
* *
9585234 CACACGGTCTTGTCTTCCCTGCAGGTTGATTTTGCAATTTTCACACGGTCAAAGTCTCT
1 CACACGG-CCTGTCTTCCCTGCAGGTTGATTTTGCAATTTTCACACGGCCAAAGTCTCT
* * *
9585293 TACACGGCCTGTCTTCCCTGTAGGTTGATTTTGCAATTTTCACACGGCCACAGTCTCT
1 CACACGGCCTGTCTTCCCTGCAGGTTGATTTTGCAATTTTCACACGGCCAAAGTCTCT
9585351 CACACGGCCT
1 CACACGGCCT
9585361 AGCCACACAA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 56 0.90
59 6 0.10
ACGTcount: A:0.18, C:0.30, G:0.19, T:0.33
Consensus pattern (58 bp):
CACACGGCCTGTCTTCCCTGCAGGTTGATTTTGCAATTTTCACACGGCCAAAGTCTCT
Found at i:9588026 original size:16 final size:16
Alignment explanation
Indices: 9587989--9588031 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
9587979 ATATACGAGA
9587989 AATTTT-AAATAAAAT
1 AATTTTAAAATAAAAT
* *
9588004 AA-ATTAAAATAAACT
1 AATTTTAAAATAAAAT
9588019 AATTTTAAAATAA
1 AATTTTAAAATAA
9588032 CATATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTTTAAAATAAAAT
Found at i:9589621 original size:45 final size:45
Alignment explanation
Indices: 9589557--9589680 Score: 144
Period size: 44 Copynumber: 2.8 Consensus size: 45
9589547 ACTTGATACG
* * * *
9589557 ATCTGCTCTACTGCAACTTCAGGGAGATAAGATCTTAT-TACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TTATCGAATTCA
* * *
9589602 ATCTGCTCCACTACAACTTCAGAGAGATAGGA-TTATCGAATTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATCGAATTCA
* *
9589646 ATCTGCTCCACTGCAACCTCAGGGAGAGAAGATTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
9589681 GCTTCTTCAG
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 4 0.06
44 31 0.48
45 30 0.46
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (45 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATCGAATTCA
Found at i:9589702 original size:44 final size:44
Alignment explanation
Indices: 9589653--9589766 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 44
9589643 TCAATCTGCT
* * *
9589653 CCACTGCAACCTCAGGGAGAGAAGATTTGCTTCT-TCAGTCTACC
1 CCACTGCAACTTCAGGGAGATAAGACTTG-TTCTCTCAGTCTACC
** * * * *
9589697 CCACTGTGACTTCAGGGTGATAAGACTTGTTTTCTCAGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGTTCTCTCAGTCTACC
*
9589741 CCGCTGCAACTTCAGGGAGATAAGAC
1 CCACTGCAACTTCAGGGAGATAAGAC
9589767 CCGATGCGAT
Statistics
Matches: 56, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
43 3 0.05
44 53 0.95
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGTTCTCTCAGTCTACC
Found at i:9590017 original size:86 final size:86
Alignment explanation
Indices: 9589883--9590164 Score: 451
Period size: 86 Copynumber: 3.3 Consensus size: 86
9589873 CTGTCGACGC
* *
9589883 AGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGGAGGTAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
9589948 CGATCTGTTCCGCTGTTAATGT
66 CGATCTGTT-CGCTGTTAATGT
*
9589970 AAGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
9590034 CGATCTGCTTCGCTGTTAATGC
66 CGATCTG-TTCGCTGTTAATGT
* *
9590056 AGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCGATAGAAGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* *
9590120 CGATCTACTTCGCTGTCAATGT
66 CGATCT-GTTCGCTGTTAATGT
9590142 AGGAAGGCAAGATCTGCTATCTT
1 AGGAAGGCAAGATCTGCTATCTT
9590165 CACTGATCTG
Statistics
Matches: 182, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
86 159 0.87
87 23 0.13
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (86 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGTTCGCTGTTAATGT
Found at i:9591823 original size:21 final size:19
Alignment explanation
Indices: 9591792--9591840 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
9591782 TCATGTTTTA
9591792 TTTTGACTTTGATTGATTTCTC
1 TTTTG-CTTTGATT--TTTCTC
9591814 TTTTGCTTTGATTTTTCTC
1 TTTTGCTTTGATTTTTCTC
9591833 TTTT-CTTT
1 TTTTGCTTT
9591841 CTTTGTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.15
19 10 0.37
21 8 0.30
22 5 0.19
ACGTcount: A:0.08, C:0.14, G:0.10, T:0.67
Consensus pattern (19 bp):
TTTTGCTTTGATTTTTCTC
Found at i:9591861 original size:6 final size:6
Alignment explanation
Indices: 9591842--9591902 Score: 108
Period size: 6 Copynumber: 10.5 Consensus size: 6
9591832 CTTTTCTTTC
9591842 TTTG-T TTT-AT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT
1 TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT
9591888 TTTGAT TTTGAT TTT
1 TTTGAT TTTGAT TTT
9591903 TTTTAATCTG
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
5 7 0.13
6 47 0.87
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (6 bp):
TTTGAT
Found at i:9596954 original size:16 final size:16
Alignment explanation
Indices: 9596917--9596959 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
9596907 ATACACGGGA
9596917 AATTTT-AAATAAAAT
1 AATTTTAAAATAAAAT
* *
9596932 AA-ATTAAAATAAACT
1 AATTTTAAAATAAAAT
9596947 AATTTTAAAATAA
1 AATTTTAAAATAA
9596960 CATATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTTTAAAATAAAAT
Found at i:9604232 original size:22 final size:24
Alignment explanation
Indices: 9604207--9604250 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
9604197 ATTATTTTTT
*
9604207 AGAA-TTTATTTTTA-AATTTTAA
1 AGAATTTTATTTTCATAATTTTAA
9604229 AGAATTTTATTTTCATAATTTT
1 AGAATTTTATTTTCATAATTTT
9604251 TTTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 9 0.47
24 6 0.32
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (24 bp):
AGAATTTTATTTTCATAATTTTAA
Found at i:9604254 original size:18 final size:17
Alignment explanation
Indices: 9604233--9604271 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
9604223 TTTTAAAGAA
9604233 TTTTATTTTCATAATTTT
1 TTTTATTTTCA-AATTTT
*
9604251 TTTTATTTTTAAATTTT
1 TTTTATTTTCAAATTTT
9604268 TTTT
1 TTTT
9604272 TACTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATTTTCAAATTTT
Found at i:9604272 original size:18 final size:18
Alignment explanation
Indices: 9604233--9604281 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
9604223 TTTTAAAGAA
*
9604233 TTTTATTTTCATAATTTT
1 TTTTATTTTTATAATTTT
9604251 TTTTATTTTTA-AATTTTT
1 TTTTATTTTTATAA-TTTT
9604269 TTTTACTTTTTAT
1 TTTTA-TTTTTAT
9604282 TCTTTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 2 0.07
18 19 0.70
19 6 0.22
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTATTTTTATAATTTT
Found at i:9604278 original size:19 final size:17
Alignment explanation
Indices: 9604247--9604298 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
9604237 ATTTTCATAA
9604247 TTTTTTTTA-TTTTTAAAT
1 TTTTTTTTACTTTTT--AT
9604265 TTTTTTTTACTTTTTAT
1 TTTTTTTTACTTTTTAT
9604282 TCTTTTTTATACTTTTT
1 T-TTTTTT-TACTTTTT
9604299 TGGGTTTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.10
18 15 0.48
19 13 0.42
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTTACTTTTTAT
Found at i:9604287 original size:17 final size:17
Alignment explanation
Indices: 9604233--9604291 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
9604223 TTTTAAAGAA
9604233 TTTTATTTTCATAATT-TT
1 TTTTATTTT--TAATTCTT
*
9604251 TTTTATTTTTAAATTTTT
1 TTTTATTTTT-AATTCTT
9604269 TTTTACTTTTT-ATTCTT
1 TTTTA-TTTTTAATTCTT
9604286 TTTTAT
1 TTTTAT
9604292 ACTTTTTTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
16 2 0.05
17 14 0.38
18 16 0.43
19 5 0.14
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTAATTCTT
Found at i:9604914 original size:10 final size:10
Alignment explanation
Indices: 9604899--9604998 Score: 59
Period size: 10 Copynumber: 10.5 Consensus size: 10
9604889 AAATATGATA
9604899 AAAAATTATT
1 AAAAATTATT
*
9604909 AAAAA-TAAT
1 AAAAATTATT
*
9604918 AAAAATGATT
1 AAAAATTATT
* *
9604928 AGAAATT-GT
1 AAAAATTATT
*
9604937 -AAAA-TATA
1 AAAAATTATT
* *
9604945 AAAAAATATAA
1 AAAAATTAT-T
9604956 AAAAATTATT
1 AAAAATTATT
* * *
9604966 ATAAATTGTA
1 AAAAATTATT
9604976 AAAAATTATT
1 AAAAATTATT
9604986 -AAAATT-TT
1 AAAAATTATT
9604994 AAAAA
1 AAAAA
9604999 ATGGTCAAAT
Statistics
Matches: 67, Mismatches: 17, Indels: 13
0.69 0.18 0.13
Matches are distributed among these distances:
7 1 0.01
8 5 0.07
9 23 0.34
10 29 0.43
11 9 0.13
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (10 bp):
AAAAATTATT
Found at i:9604921 original size:20 final size:20
Alignment explanation
Indices: 9604896--9605000 Score: 85
Period size: 19 Copynumber: 5.5 Consensus size: 20
9604886 TTCAAATATG
*
9604896 ATAAAAAATTATTAAAAATA
1 ATAAAAAATTATTAAAAATT
* *
9604916 AT-AAAAATGATTAGAAATT
1 ATAAAAAATTATTAAAAATT
* * *
9604935 GT--AAAA-TATAAAAAAAT
1 ATAAAAAATTATTAAAAATT
*
9604952 ATAAAAAAATTATTATAAATT
1 AT-AAAAAATTATTAAAAATT
*
9604973 GTAAAAAATTATT-AAAATT
1 ATAAAAAATTATTAAAAATT
*
9604992 TTAAAAAAT
1 ATAAAAAAT
9605001 GGTCAAATTT
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
17 8 0.12
18 4 0.06
19 28 0.42
20 17 0.26
21 9 0.14
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (20 bp):
ATAAAAAATTATTAAAAATT
Found at i:9604998 original size:38 final size:38
Alignment explanation
Indices: 9604897--9604998 Score: 107
Period size: 38 Copynumber: 2.7 Consensus size: 38
9604887 TCAAATATGA
*
9604897 TAAAAAATTATTAAAAATAATAAAAATGATTAGAAATTG
1 TAAAAAATTATT-AAAATTATAAAAATGATTAGAAATTG
* ** * * *
9604936 TAAAATA-TAAAAAAATATAAAAAAATTATTATAAATTG
1 TAAAAAATTATTAAAAT-TATAAAAATGATTAGAAATTG
*
9604974 TAAAAAATTATTAAAATTTTAAAAA
1 TAAAAAATTATTAAAATTATAAAAA
9604999 ATGGTCAAAT
Statistics
Matches: 49, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
37 5 0.10
38 31 0.63
39 13 0.27
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (38 bp):
TAAAAAATTATTAAAATTATAAAAATGATTAGAAATTG
Found at i:9605113 original size:11 final size:11
Alignment explanation
Indices: 9605099--9605211 Score: 67
Period size: 11 Copynumber: 10.4 Consensus size: 11
9605089 TATACCAAAA
9605099 AATATTTTAAT
1 AATATTTTAAT
*
9605110 AATAATTTAAT
1 AATATTTTAAT
9605121 ACAT-TTTTAAAT
1 A-ATATTTT-AAT
*
9605133 TATATTTTTAAT
1 AATA-TTTTAAT
*** *
9605145 AATA-CCAAAA
1 AATATTTTAAT
9605155 AATATTTTAAT
1 AATATTTTAAT
*
9605166 AATAATTTAAT
1 AATATTTTAAT
9605177 ACAT-TTTTAAAT
1 A-ATATTTT-AAT
*
9605189 TATATTTT--T
1 AATATTTTAAT
9605198 AATATTTTAA-
1 AATATTTTAAT
9605208 AATA
1 AATA
9605212 CATAAATTTT
Statistics
Matches: 76, Mismatches: 16, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
9 8 0.11
10 10 0.13
11 34 0.45
12 20 0.26
13 4 0.05
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.50
Consensus pattern (11 bp):
AATATTTTAAT
Found at i:9605155 original size:56 final size:56
Alignment explanation
Indices: 9605090--9605201 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
9605080 CAAAAAAAAT
9605090 ATACCAAAAAATATTTTAATAATAATTTAATACATTTTTAAATTATATTTTTAATA
1 ATACCAAAAAATATTTTAATAATAATTTAATACATTTTTAAATTATATTTTTAATA
9605146 ATACCAAAAAATATTTTAATAATAATTTAATACATTTTTAAATTATATTTTTAATA
1 ATACCAAAAAATATTTTAATAATAATTTAATACATTTTTAAATTATATTTTTAATA
9605202 TTTTAAAATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (56 bp):
ATACCAAAAAATATTTTAATAATAATTTAATACATTTTTAAATTATATTTTTAATA
Found at i:9606683 original size:21 final size:21
Alignment explanation
Indices: 9606659--9606699 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
9606649 CTTTCTATTC
*
9606659 AGCTCTTACGAGCTTTTGTTT
1 AGCTCTTACGAGCTTCTGTTT
9606680 AGCTCTTACGAGCTTCTGTT
1 AGCTCTTACGAGCTTCTGTT
9606700 GGCGTATTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.44
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTT
Found at i:9606897 original size:21 final size:21
Alignment explanation
Indices: 9606871--9606919 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
9606861 AATAGAAGTT
9606871 GTGAATGACAGGAAATTGACA
1 GTGAATGACAGGAAATTGACA
*
9606892 GTGAATGACAGGGAATTGACA
1 GTGAATGACAGGAAATTGACA
9606913 -TGAATGA
1 GTGAATGA
9606920 TTTTATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.41, C:0.08, G:0.31, T:0.20
Consensus pattern (21 bp):
GTGAATGACAGGAAATTGACA
Found at i:9608313 original size:21 final size:20
Alignment explanation
Indices: 9608280--9608332 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
9608270 TTTTCTATTT
* *
9608280 TTTTAATAATTTTTT-AAAA
1 TTTTAATATTTTTTTGTAAA
9608299 TTTTAAATATTTTTTTGTAAA
1 TTTT-AATATTTTTTTGTAAA
9608320 TTTTAATATTTTT
1 TTTTAATATTTTT
9608333 ATTTTTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 4 0.13
20 19 0.63
21 7 0.23
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTAATATTTTTTTGTAAA
Found at i:9608945 original size:11 final size:11
Alignment explanation
Indices: 9608929--9608955 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9608919 GATGTCTATC
9608929 TTTCTATTTCT
1 TTTCTATTTCT
9608940 TTTCTATTTCT
1 TTTCTATTTCT
9608951 TTTCT
1 TTTCT
9608956 TTACCTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTCTATTTCT
Found at i:9609209 original size:19 final size:20
Alignment explanation
Indices: 9609171--9609209 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9609161 AATTTCTTTG
9609171 GATCTTGCCAAATCCTTGAT
1 GATCTTGCCAAATCCTTGAT
9609191 GATCTTGCCAAAT-CTTGAT
1 GATCTTGCCAAATCCTTGAT
9609210 ACCAATCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (20 bp):
GATCTTGCCAAATCCTTGAT
Found at i:9610034 original size:21 final size:21
Alignment explanation
Indices: 9610010--9610056 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9610000 AATTTTTTTT
* *
9610010 ATGAGCAGTTTATCTTCAATG
1 ATGAGCAGTTTATCTCCAACG
**
9610031 ATGAGTGGTTTATCTCCAACG
1 ATGAGCAGTTTATCTCCAACG
9610052 ATGAG
1 ATGAG
9610057 TGGTTTTATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (21 bp):
ATGAGCAGTTTATCTCCAACG
Found at i:9610073 original size:22 final size:21
Alignment explanation
Indices: 9610017--9610062 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
9610007 TTTATGAGCA
* *
9610017 GTTTATCTTCAATGATGAGTG
1 GTTTATCTCCAACGATGAGTG
9610038 GTTTATCTCCAACGATGAGTG
1 GTTTATCTCCAACGATGAGTG
9610059 GTTT
1 GTTT
9610063 TATCCACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (21 bp):
GTTTATCTCCAACGATGAGTG
Found at i:9611574 original size:48 final size:48
Alignment explanation
Indices: 9611503--9611597 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
9611493 TTCTTTGCTC
* **
9611503 AAAAACGCCTAAGTCAGCCTAACTTGCAGTAATAAAGGATTCAACAGT
1 AAAAACGCCTAAGTCAGCCTAACTCGCAACAATAAAGGATTCAACAGT
* *
9611551 AAAAATGCCTAAGTCAGCTTAACTCGCAACAATAAAGGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCGCAACAATAAAGGATTCAACAG
9611598 AATTCCCTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAACAATAAAGGATTCAACAGT
Found at i:9611940 original size:36 final size:35
Alignment explanation
Indices: 9611894--9611965 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 35
9611884 TCTAGGATCA
*
9611894 CATATCTCAAAAGATTACCTTCCATATTTTCCAAG
1 CATATCTCAAAAGATTACCTTCCATATTTGCCAAG
* *
9611929 CATATCTTCAAAAGATTACTTTCCTTATTTGCCAAG
1 CATATC-TCAAAAGATTACCTTCCATATTTGCCAAG
9611965 C
1 C
9611966 TCCGGAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 6 0.18
36 27 0.82
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (35 bp):
CATATCTCAAAAGATTACCTTCCATATTTGCCAAG
Found at i:9616762 original size:48 final size:48
Alignment explanation
Indices: 9616691--9616785 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
9616681 TTCTTTGCTC
* * **
9616691 AAAAACGCCTAAGTCAGCCTAACTTGCAGTAATAAAGGATTCAACAGT
1 AAAAACGCCTAAGCCAGCCTAACTCGCAACAATAAAGGATTCAACAGT
*
9616739 AAAAACGCCTAAGCCAGCTTAACTCGCAACAATAAAGGATTCAACAG
1 AAAAACGCCTAAGCCAGCCTAACTCGCAACAATAAAGGATTCAACAG
9616786 AATTCCCTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (48 bp):
AAAAACGCCTAAGCCAGCCTAACTCGCAACAATAAAGGATTCAACAGT
Found at i:9617124 original size:35 final size:36
Alignment explanation
Indices: 9617084--9617155 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
9617074 TCTAGGATCA
* *
9617084 CATATC-TCAAAAGATCACCTTCGATATTTGCCAAG
1 CATATCTTAAAAAGATCACCTTCCATATTTGCCAAG
* * *
9617119 CATATCTTAAAAAGATTACTTTCCTTATTTGCCAAG
1 CATATCTTAAAAAGATCACCTTCCATATTTGCCAAG
9617155 C
1 C
9617156 TCCGGAGATG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
35 6 0.19
36 25 0.81
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (36 bp):
CATATCTTAAAAAGATCACCTTCCATATTTGCCAAG
Found at i:9617976 original size:24 final size:23
Alignment explanation
Indices: 9617945--9617989 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
9617935 TATTCACACA
9617945 TATTCTTA-CTTAATTTCAAATGT
1 TATTCTTACCTTAATTT-AAATGT
9617968 TATTACTTACCTTAATTTAAAT
1 TATT-CTTACCTTAATTTAAAT
9617990 ATCCCATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.20
24 8 0.40
25 8 0.40
ACGTcount: A:0.33, C:0.13, G:0.02, T:0.51
Consensus pattern (23 bp):
TATTCTTACCTTAATTTAAATGT
Found at i:9618282 original size:22 final size:24
Alignment explanation
Indices: 9618239--9618282 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
9618229 TAACTAAGCT
9618239 TACTTACTTTTCTAGCTTAATTCA
1 TACTTACTTTTCTAGCTTAATTCA
9618263 TACTT-CTTTTCTA-CTTAATT
1 TACTTACTTTTCTAGCTTAATT
9618283 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.23, C:0.20, G:0.02, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAGCTTAATTCA
Found at i:9618669 original size:18 final size:19
Alignment explanation
Indices: 9618648--9618683 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9618638 GTTTTCGTTT
9618648 TGTTC-TCTGTTTCTTTTC
1 TGTTCTTCTGTTTCTTTTC
*
9618666 TGTTCTTTTGTTTCTTTT
1 TGTTCTTCTGTTTCTTTT
9618684 TCTTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.00, C:0.17, G:0.11, T:0.72
Consensus pattern (19 bp):
TGTTCTTCTGTTTCTTTTC
Found at i:9619009 original size:3 final size:3
Alignment explanation
Indices: 9619001--9619038 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
9618991 TCATAATATT
*
9619001 ATA ATA ATA ATA ATA ATA ATA ATA ACA ATTA AT- ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA AT
9619039 TTATTATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9621407 original size:72 final size:71
Alignment explanation
Indices: 9621158--9621414 Score: 243
Period size: 72 Copynumber: 3.6 Consensus size: 71
9621148 GTAAATAATG
* * * * *
9621158 AAATGCGCCTTGCGCTAGCCACTAAAACCGACAAATGAGTGTGTCAGCACTGGTCGGTATAACCG
1 AAATGAGCCCTGCGCTAGCCAGTAAAACCAACAAATGAGTGTGCCAGCACTGGTCGGTATAACCG
9621223 AAAAAT
66 AAAAAT
* ** * * *
9621229 AAAT-ATGCCCTGTGCTAGTTAATAAAACTGAA-AAATGAGTGTGCCCAGAACTGGTCGGTATAA
1 AAATGA-GCCCTGCGCTAGCCAGTAAAAC-CAACAAATGAGTGTG-CCAGCACTGGTCGGTATAA
9621292 CC-AAAAAGT
63 CCGAAAAA-T
* * * * * * *
9621301 AAATGCGCCTTGCGTTGGTCGGTAAAA-CATACAAATGAGTGTGCCTAGCACTGGCCGGTATAAC
1 AAATGAGCCCTGCGCTAGCCAGTAAAACCA-ACAAATGAGTGTGCC-AGCACTGGTCGGTATAAC
9621365 CGAAAAAT
64 CGAAAAAT
* * *
9621373 AAATGAACCCTGCGCTGGCCAGTGAAACCAACAAATGAGTGT
1 AAATGAGCCCTGCGCTAGCCAGTAAAACCAACAAATGAGTGT
9621415 TCATTCATTT
Statistics
Matches: 148, Mismatches: 28, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
70 1 0.01
71 40 0.27
72 100 0.68
73 7 0.05
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (71 bp):
AAATGAGCCCTGCGCTAGCCAGTAAAACCAACAAATGAGTGTGCCAGCACTGGTCGGTATAACCG
AAAAAT
Found at i:9623197 original size:22 final size:23
Alignment explanation
Indices: 9623118--9623210 Score: 107
Period size: 23 Copynumber: 4.1 Consensus size: 23
9623108 AAATGTCTAC
* *
9623118 TTGGACAACACTTAAAACATGCT
1 TTGGACAACATTTAAAACATACT
** *
9623141 TTGGATGACATTTAAAACATATT
1 TTGGACAACATTTAAAACATACT
*
9623164 TTGGACAACATTTAAAACTTACT
1 TTGGACAACATTTAAAACATACT
* *
9623187 TT-GACAGCATTTGAAACATACT
1 TTGGACAACATTTAAAACATACT
9623209 TT
1 TT
9623211 TGCTGGCACT
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
22 19 0.33
23 39 0.67
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (23 bp):
TTGGACAACATTTAAAACATACT
Found at i:9628889 original size:3 final size:3
Alignment explanation
Indices: 9628881--9628928 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
9628871 TATTGCACCC
9628881 TTA TTA TTA TTTA 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
9628927 TT
1 TT
9628929 TTGTTTATAC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9629030 original size:6 final size:6
Alignment explanation
Indices: 9629014--9629046 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
9629004 TGTGTACATA
9629014 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
9629047 TTGTGTGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:9633317 original size:6 final size:6
Alignment explanation
Indices: 9633306--9633337 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
9633296 ATCAATACAC
*
9633306 CCTTCA CCTTCA CCTTCA CCTTCA CCATCA CC
1 CCTTCA CCTTCA CCTTCA CCTTCA CCTTCA CC
9633338 ATGACCATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.53, G:0.00, T:0.28
Consensus pattern (6 bp):
CCTTCA
Found at i:9633358 original size:6 final size:6
Alignment explanation
Indices: 9633329--9633360 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
9633319 CTTCACCTTC
*
9633329 ACCATC ACCATG ACCATG ACCATG ACCATG AC
1 ACCATG ACCATG ACCATG ACCATG ACCATG AC
9633361 TTCACATTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.34, C:0.38, G:0.12, T:0.16
Consensus pattern (6 bp):
ACCATG
Found at i:9634502 original size:9 final size:9
Alignment explanation
Indices: 9634485--9634530 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
9634475 TAAGTTTTCG
9634485 AATTCGAAT
1 AATTCGAAT
*
9634494 AACTCGAAT
1 AATTCGAAT
9634503 AATTCGAAT
1 AATTCGAAT
9634512 AATTCGAAT
1 AATTCGAAT
9634521 AATTCGAAT
1 AATTCGAAT
9634530 A
1 A
9634531 TCAAACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:9634930 original size:17 final size:16
Alignment explanation
Indices: 9634896--9634926 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9634886 CCTATTTACT
*
9634896 TTCCCTCAAACTTTTA
1 TTCCCTAAAACTTTTA
9634912 TTCCCTAAAACTTTT
1 TTCCCTAAAACTTTT
9634927 TATTTTCCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCCCTAAAACTTTTA
Found at i:9635462 original size:5 final size:5
Alignment explanation
Indices: 9635452--9635481 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
9635442 AACAAATATG
9635452 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA
9635482 ATTCCATCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
TTCGA
Found at i:9636615 original size:3 final size:3
Alignment explanation
Indices: 9636607--9636653 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
9636597 TACAAAACAC
* *
9636607 ATA ATA ATA ATA ATA TTA ATA ATA ATA ATA ATA ATA CTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
9636654 CCCACATCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:9637152 original size:24 final size:26
Alignment explanation
Indices: 9637116--9637173 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
9637106 TAAATCATTA
*
9637116 ATATAAATTGA-TTTAAAGTAAATAAT
1 ATATAAA-TGATTTTAAAATAAATAAT
* *
9637142 ATATAAA-GATTTTAAAATAATTATT
1 ATATAAATGATTTTAAAATAAATAAT
9637167 ATATAAA
1 ATATAAA
9637174 ACAACTTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.07
25 19 0.68
26 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (26 bp):
ATATAAATGATTTTAAAATAAATAAT
Found at i:9638064 original size:18 final size:20
Alignment explanation
Indices: 9638027--9638067 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
9638017 ATAGTATTCG
*
9638027 TCCTCTTTACACTGATTTTT
1 TCCTCTTTACACTGAATTTT
9638047 TCCT-TTTACACT-AATTTT
1 TCCTCTTTACACTGAATTTT
9638065 TCC
1 TCC
9638068 CCTCCTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 8 0.40
20 4 0.20
ACGTcount: A:0.17, C:0.27, G:0.02, T:0.54
Consensus pattern (20 bp):
TCCTCTTTACACTGAATTTT
Found at i:9638065 original size:20 final size:20
Alignment explanation
Indices: 9638027--9638065 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
9638017 ATAGTATTCG
*
9638027 TCCTCTTTACACTGATTTTT
1 TCCTCTTTACACTAATTTTT
9638047 TCCT-TTTACACTAATTTTT
1 TCCTCTTTACACTAATTTTT
9638066 CCCCTCCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.18, C:0.23, G:0.03, T:0.56
Consensus pattern (20 bp):
TCCTCTTTACACTAATTTTT
Found at i:9638764 original size:24 final size:24
Alignment explanation
Indices: 9638727--9638774 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
9638717 AGTCTCATCA
9638727 TATATGCCCGGAATGAGTTTTGTC
1 TATATGCCCGGAATGAGTTTTGTC
* *
9638751 TATATGCTCTGAATGAGTTTTGTC
1 TATATGCCCGGAATGAGTTTTGTC
9638775 CGAATCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.42
Consensus pattern (24 bp):
TATATGCCCGGAATGAGTTTTGTC
Found at i:9639080 original size:12 final size:11
Alignment explanation
Indices: 9639060--9639175 Score: 58
Period size: 12 Copynumber: 11.3 Consensus size: 11
9639050 AAATTAAAAC
9639060 AAAAA-ATTTA
1 AAAAATATTTA
*
9639070 AAAAAGTATTTT
1 AAAAA-TATTTA
9639082 AAAAATATTT-
1 AAAAATATTTA
*
9639092 -TAAA-A-TTA
1 AAAAATATTTA
9639100 AAAAA-ATTT-
1 AAAAATATTTA
*
9639109 AAAAGTATTTTA
1 AAAAATA-TTTA
9639121 AAAAA-ATTT-
1 AAAAATATTTA
*
9639130 -AAAA-ATTAA
1 AAAAATATTTA
9639139 AAAAAT-TTTA
1 AAAAATATTTA
*
9639149 AAAAAGTATTTT
1 AAAAA-TATTTA
*
9639161 AAAAGTATTTTA
1 AAAAATA-TTTA
9639173 AAA
1 AAA
9639176 TTAAAAAAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 26
0.69 0.08 0.22
Matches are distributed among these distances:
7 2 0.02
8 8 0.10
9 11 0.13
10 23 0.28
11 12 0.15
12 26 0.32
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATATTTA
Found at i:9639164 original size:11 final size:11
Alignment explanation
Indices: 9639150--9639175 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9639140 AAAATTTTAA
9639150 AAAAGTATTTT
1 AAAAGTATTTT
9639161 AAAAGTATTTT
1 AAAAGTATTTT
9639172 AAAA
1 AAAA
9639176 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:9639362 original size:18 final size:17
Alignment explanation
Indices: 9639335--9639370 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
9639325 TCCTATATTT
9639335 CGGGCGGGCCGTCAGGC
1 CGGGCGGGCCGTCAGGC
*
9639352 CGGGCCGGGCCGTCCGGC
1 CGGG-CGGGCCGTCAGGC
9639370 C
1 C
9639371 CATAAGCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.03, C:0.42, G:0.50, T:0.06
Consensus pattern (17 bp):
CGGGCGGGCCGTCAGGC
Found at i:9639719 original size:5 final size:5
Alignment explanation
Indices: 9639699--9639740 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
9639689 ACGCCTTCTC
* *
9639699 TTATT ATTATT TTAGT TTAGT TTATT TTATT TTATT TTATT T
1 TTATT -TTATT TTATT TTATT TTATT TTATT TTATT TTATT T
9639741 ATTAATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:9642499 original size:24 final size:25
Alignment explanation
Indices: 9642447--9642507 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
9642437 GCTAAAGCTT
*
9642447 TAGTTGCAATTTAAGAGGTATTTTA
1 TAGTTGCAATTCAAGAGGTATTTTA
9642472 TAGTTGCAATTCAAGAGGT-TTTTA
1 TAGTTGCAATTCAAGAGGTATTTTA
9642496 TAGTTGCAATTC
1 TAGTTGCAATTC
9642508 TGGTTTGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 17 0.49
25 18 0.51
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.43
Consensus pattern (25 bp):
TAGTTGCAATTCAAGAGGTATTTTA
Found at i:9642745 original size:22 final size:22
Alignment explanation
Indices: 9642715--9642756 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
9642705 ATGGCTTGCG
*
9642715 TTTGGATGTGTTCTTATTTAAA
1 TTTGAATGTGTTCTTATTTAAA
9642737 TTTGAATGTGTTCTTATTTA
1 TTTGAATGTGTTCTTATTTA
9642757 GTGCAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.17, T:0.57
Consensus pattern (22 bp):
TTTGAATGTGTTCTTATTTAAA
Found at i:9644149 original size:26 final size:26
Alignment explanation
Indices: 9644086--9644140 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
9644076 AATTTTCTAC
9644086 CTGCAGGTTTTTGTCATTAATATTAG
1 CTGCAGGTTTTTGTCATTAATATTAG
*
9644112 CTGCAGGTTTTTGTCATTGATATTAG
1 CTGCAGGTTTTTGTCATTAATATTAG
9644138 CTG
1 CTG
9644141 TAGTATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.20, C:0.13, G:0.22, T:0.45
Consensus pattern (26 bp):
CTGCAGGTTTTTGTCATTAATATTAG
Found at i:9644401 original size:25 final size:25
Alignment explanation
Indices: 9644373--9644434 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
9644363 GCTGAAGCTC
* *
9644373 TAGTTGCATTTCAAGAGGTGTTTTA
1 TAGTTGCAATTCAAGAGGTATTTTA
9644398 TAGTTGCAATTCAAGAGGTATTTTA
1 TAGTTGCAATTCAAGAGGTATTTTA
9644423 TAGTTGCAATTC
1 TAGTTGCAATTC
9644435 CAGTAAATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (25 bp):
TAGTTGCAATTCAAGAGGTATTTTA
Found at i:9644602 original size:18 final size:19
Alignment explanation
Indices: 9644579--9644619 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
9644569 TAATGGACTT
9644579 TATAGGATAA-TTTATTGG
1 TATAGGATAATTTTATTGG
9644597 TATAGGATAATTTTTATTGG
1 TATAGGATAA-TTTTATTGG
9644617 TAT
1 TAT
9644620 TTTTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (19 bp):
TATAGGATAATTTTATTGG
Found at i:9647190 original size:49 final size:49
Alignment explanation
Indices: 9647133--9647236 Score: 147
Period size: 49 Copynumber: 2.1 Consensus size: 49
9647123 TCATGTGTTA
* * * *
9647133 TAATTTTATACAGTGTTGA-GTTTGTGATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTT-TGATTCATGATATTAAACTCAATTT
*
9647182 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
9647231 TAATTT
1 TAATTT
9647237 GTTTTTTTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
49 46 0.94
50 3 0.06
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.49
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
Found at i:9648692 original size:109 final size:116
Alignment explanation
Indices: 9648564--9648828 Score: 323
Period size: 110 Copynumber: 2.3 Consensus size: 116
9648554 AATAAAGTAG
* *
9648564 ATTA-TAAATTACAATTTAATAATAATTA-GTTAAATTATATTTTATATTATTATATATTATGA-
1 ATTATTAAATTA-TATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
*
9648626 TT-TTAGTAAATTCATA-TAAGAATA-A-GA-ATTTTATTAAATTATATATT
65 TTATTAGTAAATTCATATTAAGAATATATAACATTTTATTAAATTATATATT
* * *
9648673 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATTTTTTATAGTGTTATATATTATGATT
1 ATTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGA-T
9648738 TTATTAGTAAATTCATATTTAAGAATATTTATTAATCATTTTATTAAATTATATATT
65 TTATTAGTAAATTCATA-TTAAGAATA--TA-TAA-CATTTTATTAAATTATATATT
* * *
9648795 -TTTTTAAATTATATTTTATAACAATTATGTTAAA
1 ATTATTAAATTATATTTAATAATAATTATGTTAAA
9648829 ATATGATTAA
Statistics
Matches: 132, Mismatches: 10, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
109 19 0.14
110 37 0.28
112 2 0.02
113 14 0.11
115 8 0.06
118 1 0.01
120 1 0.01
121 30 0.23
122 20 0.15
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (116 bp):
ATTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATT
TATTAGTAAATTCATATTAAGAATATATAACATTTTATTAAATTATATATT
Found at i:9648811 original size:15 final size:17
Alignment explanation
Indices: 9648775--9648808 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9648765 TTTATTAATC
9648775 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
9648792 ATTTTTTTAAATTATAT
1 ATTTTATTAAATTATAT
9648809 TTTATAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:9649001 original size:39 final size:41
Alignment explanation
Indices: 9648956--9649061 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
9648946 TTTCCTTATG
* * *
9648956 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAAACAAACAAAAGAATTAC
9648996 C-ATTACGCCTCTATTCCATTACATTCAAACAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-C----CATTCAAACAAACAAAAGAATTAC
9649041 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
9649062 ACAGCGAACC
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
39 13 0.23
40 2 0.04
41 4 0.07
44 18 0.32
45 5 0.09
46 14 0.25
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAAACAAACAAAAGAATTAC
Found at i:9649036 original size:44 final size:46
Alignment explanation
Indices: 9648973--9649064 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
9648963 ACCTCTATTC
* *
9648973 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAAACAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
9649017 CATTCAAACAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAAACAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
9649063 CA
1 CA
9649065 GCGAACCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 18 0.41
45 4 0.09
46 22 0.50
ACGTcount: A:0.40, C:0.29, G:0.04, T:0.26
Consensus pattern (46 bp):
CATTCAAACAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
Found at i:9649075 original size:46 final size:43
Alignment explanation
Indices: 9648956--9649075 Score: 140
Period size: 46 Copynumber: 2.8 Consensus size: 43
9648946 TTTCCTTATG
* *
9648956 CTATTACACCTCTATTCCATT---CAACCAAACACAAGAATAC
1 CTATTACGCCTCTATTCCATTACACAACCAAACAAAAGAATAC
*
9648996 C-ATTACGCCTCTATTCCATTACATTCAAACAAACAAAAGAATTAC
1 CTATTACGCCTCTATTCCATTACA--CAACCAAACAAAAGAA-TAC
9649041 CTATTACGCCTCTATTCCATTACAGCGAACCAAAC
1 CTATTACGCCTCTATTCCATTACA-C-AACCAAAC
9649076 GTGGTGTTAG
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
39 18 0.27
40 1 0.01
44 14 0.21
45 5 0.07
46 29 0.43
ACGTcount: A:0.38, C:0.31, G:0.05, T:0.26
Consensus pattern (43 bp):
CTATTACGCCTCTATTCCATTACACAACCAAACAAAAGAATAC
Found at i:9649740 original size:18 final size:18
Alignment explanation
Indices: 9649719--9649754 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9649709 CTATTTTTAT
9649719 TTATAAAAATACAAAAAC
1 TTATAAAAATACAAAAAC
* *
9649737 TTATAAAATTTCAAAAAC
1 TTATAAAAATACAAAAAC
9649755 AATACAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (18 bp):
TTATAAAAATACAAAAAC
Found at i:9660336 original size:18 final size:18
Alignment explanation
Indices: 9660294--9660337 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
9660284 TTAAAATCGG
9660294 CATAAACATTTATTTAAT
1 CATAAACATTTATTTAAT
*
9660312 CCT-AACATTTAATTTAA-
1 CATAAACATTT-ATTTAAT
9660329 CATAAACAT
1 CATAAACAT
9660338 AATAGAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (18 bp):
CATAAACATTTATTTAAT
Found at i:9660391 original size:23 final size:23
Alignment explanation
Indices: 9660354--9660448 Score: 111
Period size: 23 Copynumber: 4.1 Consensus size: 23
9660344 AATGTCTAGC
* *
9660354 TTGGACAACACTTAAAACATGTT
1 TTGGACAACATTTAAAACATATT
**
9660377 TTGGAGGACATTTAAAACATATT
1 TTGGACAACATTTAAAACATATT
*
9660400 TTGGACAACATTTAAAACTTATT
1 TTGGACAACATTTAAAACATATT
* *
9660423 TT-GACAGCATTTGAAACATACTT
1 TTGGACAACATTTAAAACATA-TT
9660446 TTG
1 TTG
9660449 CTAGCACTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
22 15 0.25
23 45 0.75
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (23 bp):
TTGGACAACATTTAAAACATATT
Found at i:9667215 original size:24 final size:24
Alignment explanation
Indices: 9667183--9667238 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
9667173 ATTTTAGGTG
*
9667183 CACACGACCTGGGACACAGGCTGT
1 CACACGACCTGGGACAAAGGCTGT
*
9667207 CACACGACCTGGGACAAATGCTGT
1 CACACGACCTGGGACAAAGGCTGT
9667231 CACACGAC
1 CACACGAC
9667239 TGTGTGCCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.29, C:0.34, G:0.25, T:0.12
Consensus pattern (24 bp):
CACACGACCTGGGACAAAGGCTGT
Found at i:9672910 original size:6 final size:6
Alignment explanation
Indices: 9672899--9672930 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
9672889 ATTAATACAC
9672899 CCTTCA CCTTCA CCTTCA CCTTCA CCTTCA CC
1 CCTTCA CCTTCA CCTTCA CCTTCA CCTTCA CC
9672931 ATGACTTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.53, G:0.00, T:0.31
Consensus pattern (6 bp):
CCTTCA
Found at i:9675335 original size:24 final size:25
Alignment explanation
Indices: 9675283--9675343 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
9675273 GCTGAAGCTT
*
9675283 TAGTTGCAATTTAAGAGGTATTTTA
1 TAGTTGCAATTCAAGAGGTATTTTA
9675308 TAGTTGCAATTCAAGAGGT-TTTTA
1 TAGTTGCAATTCAAGAGGTATTTTA
9675332 TAGTTGCAATTC
1 TAGTTGCAATTC
9675344 TGGTTTGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 17 0.49
25 18 0.51
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.43
Consensus pattern (25 bp):
TAGTTGCAATTCAAGAGGTATTTTA
Found at i:9675581 original size:22 final size:22
Alignment explanation
Indices: 9675551--9675592 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
9675541 ATGGCTTACG
*
9675551 TTTGGATGTGTTCTTATTTAAA
1 TTTGAATGTGTTCTTATTTAAA
9675573 TTTGAATGTGTTCTTATTTA
1 TTTGAATGTGTTCTTATTTA
9675593 GTGCAGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.17, T:0.57
Consensus pattern (22 bp):
TTTGAATGTGTTCTTATTTAAA
Found at i:9676985 original size:26 final size:26
Alignment explanation
Indices: 9676922--9676976 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
9676912 AATTTTCTAC
9676922 CTGCAGGTTTTTGTCATTAATATTAG
1 CTGCAGGTTTTTGTCATTAATATTAG
*
9676948 CTGCAGGTTTTTGTCATTGATATTAG
1 CTGCAGGTTTTTGTCATTAATATTAG
9676974 CTG
1 CTG
9676977 TAGTATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.20, C:0.13, G:0.22, T:0.45
Consensus pattern (26 bp):
CTGCAGGTTTTTGTCATTAATATTAG
Found at i:9677237 original size:25 final size:25
Alignment explanation
Indices: 9677209--9677270 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
9677199 GCTGAAGCTC
* *
9677209 TAGTTGCATTTCAAGAGGTGTTTTA
1 TAGTTGCAATTCAAGAGGTATTTTA
9677234 TAGTTGCAATTCAAGAGGTATTTTA
1 TAGTTGCAATTCAAGAGGTATTTTA
9677259 TAGTTGCAATTC
1 TAGTTGCAATTC
9677271 CAGTAAATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (25 bp):
TAGTTGCAATTCAAGAGGTATTTTA
Found at i:9677438 original size:18 final size:19
Alignment explanation
Indices: 9677415--9677455 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
9677405 TAATGGACTT
9677415 TATAGGATAA-TTTATTGG
1 TATAGGATAATTTTATTGG
9677433 TATAGGATAATTTTTATTGG
1 TATAGGATAA-TTTTATTGG
9677453 TAT
1 TAT
9677456 TTTTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (19 bp):
TATAGGATAATTTTATTGG
Found at i:9680025 original size:49 final size:49
Alignment explanation
Indices: 9679968--9680071 Score: 147
Period size: 49 Copynumber: 2.1 Consensus size: 49
9679958 TCATGTGTTA
* * * *
9679968 TAATTTTATACAGTGTTGA-GTTTGTGATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTT-TGATTCATGATATTAAACTCAATTT
*
9680017 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
9680066 TAATTT
1 TAATTT
9680072 GTTTTTTTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
49 46 0.94
50 3 0.06
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.49
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
Found at i:9681617 original size:110 final size:106
Alignment explanation
Indices: 9681398--9681606 Score: 269
Period size: 110 Copynumber: 1.9 Consensus size: 106
9681388 AATAAAGTAG
*
9681398 ATTATAAATTACAATTTAATAATAATTAGTTAAATTATATTTTATATTATTATATATTATGATTT
1 ATTATAAATTACAATTTAATAATAATTAGTTAAATTATATTTTATAGTATTATATATTATGATTT
9681463 TAGTAAATTCATATAAGAATAAGAATTTTATTAAATTATATATT
66 TAGTAAATTCATAT---AATAAGAATTTTATTAAATTATATATT
* * * *
9681507 ATTATTAAATTA-TATTTAATAATAATTATTTTAAATTATTTTTTATAGTGTTATATATTATGAT
1 ATTA-TAAATTACAATTTAATAATAATTA-GTTAAATTATATTTTATAGTATTATATATTATGA-
*
9681571 TTTATTAGTAAATTCATAT-TTAAGAATATTTATTAA
63 -TT-TTAGTAAATTCATATAATAAGAAT-TTTATTAA
9681607 TCATTTTATT
Statistics
Matches: 88, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
109 26 0.30
110 45 0.51
112 2 0.02
113 15 0.17
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (106 bp):
ATTATAAATTACAATTTAATAATAATTAGTTAAATTATATTTTATAGTATTATATATTATGATTT
TAGTAAATTCATATAATAAGAATTTTATTAAATTATATATT
Found at i:9681835 original size:39 final size:41
Alignment explanation
Indices: 9681790--9681895 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
9681780 TTTCCTTATG
* * *
9681790 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAAACAAACAAAAGAATTAC
9681830 C-ATTACGCCTCTATTCCATTACATTCAAACAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-C----CATTCAAACAAACAAAAGAATTAC
9681875 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
9681896 ACAGCGAACC
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
39 13 0.23
40 2 0.04
41 4 0.07
44 18 0.32
45 5 0.09
46 14 0.25
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAAACAAACAAAAGAATTAC
Found at i:9681870 original size:44 final size:46
Alignment explanation
Indices: 9681807--9681898 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
9681797 ACCTCTATTC
* *
9681807 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAAACAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
9681851 CATTCAAACAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAAACAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
9681897 CA
1 CA
9681899 GCGAACCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 18 0.41
45 4 0.09
46 22 0.50
ACGTcount: A:0.40, C:0.29, G:0.04, T:0.26
Consensus pattern (46 bp):
CATTCAAACAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
Found at i:9681909 original size:46 final size:43
Alignment explanation
Indices: 9681790--9681909 Score: 140
Period size: 46 Copynumber: 2.8 Consensus size: 43
9681780 TTTCCTTATG
* *
9681790 CTATTACACCTCTATTCCATT---CAACCAAACACAAGAATAC
1 CTATTACGCCTCTATTCCATTACACAACCAAACAAAAGAATAC
*
9681830 C-ATTACGCCTCTATTCCATTACATTCAAACAAACAAAAGAATTAC
1 CTATTACGCCTCTATTCCATTACA--CAACCAAACAAAAGAA-TAC
9681875 CTATTACGCCTCTATTCCATTACAGCGAACCAAAC
1 CTATTACGCCTCTATTCCATTACA-C-AACCAAAC
9681910 GTGGTGTTAG
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
39 18 0.27
40 1 0.01
44 14 0.21
45 5 0.07
46 29 0.43
ACGTcount: A:0.38, C:0.31, G:0.05, T:0.26
Consensus pattern (43 bp):
CTATTACGCCTCTATTCCATTACACAACCAAACAAAAGAATAC
Found at i:9682573 original size:18 final size:18
Alignment explanation
Indices: 9682552--9682587 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9682542 CTATTTTTAT
9682552 TTATAAAAATACAAAAAC
1 TTATAAAAATACAAAAAC
* *
9682570 TTATAAAATTTCAAAAAC
1 TTATAAAAATACAAAAAC
9682588 AATACAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (18 bp):
TTATAAAAATACAAAAAC
Found at i:9688947 original size:23 final size:23
Alignment explanation
Indices: 9688903--9689005 Score: 86
Period size: 23 Copynumber: 4.4 Consensus size: 23
9688893 AAACTCCTCC
*
9688903 TGAGCTGATAAACAGTAGGCTCTAT
1 TGAGCTG--AAACAGTAAGCTCTAT
*
9688928 TGAGCTGAAACGGTAAGCTCTGA-
1 TGAGCTGAAACAGTAAGCTCT-AT
*
9688951 CGAGCTG-AACAGTAAGCTC-AT
1 TGAGCTGAAACAGTAAGCTCTAT
* * * *
9688972 ACGAGCTAAAACGGTAAGCTCTAA
1 -TGAGCTGAAACAGTAAGCTCTAT
9688996 TGAGCTGAAA
1 TGAGCTGAAA
9689006 ATAGTAGGCT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
20 1 0.02
22 17 0.27
23 37 0.58
24 2 0.03
25 7 0.11
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.21
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAT
Found at i:9689306 original size:67 final size:67
Alignment explanation
Indices: 9689199--9689590 Score: 588
Period size: 67 Copynumber: 5.8 Consensus size: 67
9689189 AATAATTCAA
* *
9689199 TTTCTCAAATCACATATATATATAATCTATTCAATTAAATACATACATTTAAATACTCAATTCGC
1 TTTCTCAAATCAC--ATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGC
9689264 ATAC
64 ATAC
* * *
9689268 CTTCTCAAATCACATATC-TATAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGCA
1 TTTCTCAAATCACATA-CATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCA
9689332 TAC
65 TAC
* *
9689335 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACTCAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
9689400 AC
66 AC
* * *
9689402 TTTCTCAAATTACATACATATAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
9689467 AC
66 AC
* ** * * *
9689469 TTTCTCAAATCATATACATACCATCAATTTAATTAAGTACATACATTTAATTACTCAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
9689534 AC
66 AC
* *
9689536 TTTCTCAAATCACATTCATATAATCAATTCAATTAAATATATACATTTAAATACT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACT
9689591 ATTGCAATTG
Statistics
Matches: 292, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
66 1 0.00
67 279 0.96
69 12 0.04
ACGTcount: A:0.41, C:0.19, G:0.02, T:0.38
Consensus pattern (67 bp):
TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
AC
Found at i:9692776 original size:15 final size:15
Alignment explanation
Indices: 9692731--9692778 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 15
9692721 TATTAATCTT
9692731 TTAATAATAAATATTTA
1 TTAATAATAAATA--TA
*
9692748 TTACAATTATAAATATA
1 TT--AATAATAAATATA
9692765 TTAATAATAAATAT
1 TTAATAATAAATAT
9692779 CTTGTAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 11 0.41
17 6 0.22
19 10 0.37
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAATAATAAATATA
Found at i:9695521 original size:18 final size:18
Alignment explanation
Indices: 9695493--9695527 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9695483 CAGTAACAGG
9695493 AGAAGTGAAG-AAGAAAA
1 AGAAGTGAAGAAAGAAAA
9695510 AGAAGATGAAGAAAGAAA
1 AGAAG-TGAAGAAAGAAA
9695528 GGGAAAGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.06
Consensus pattern (18 bp):
AGAAGTGAAGAAAGAAAA
Found at i:9696767 original size:20 final size:20
Alignment explanation
Indices: 9696742--9696781 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9696732 CAATGTGGCA
9696742 AGTTAAC-AGCCCACATCAGC
1 AGTTAACTAG-CCACATCAGC
*
9696762 AGTTAACTTGCCACATCAGC
1 AGTTAACTAGCCACATCAGC
9696782 GGTCCCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.20
Consensus pattern (20 bp):
AGTTAACTAGCCACATCAGC
Found at i:9699426 original size:23 final size:23
Alignment explanation
Indices: 9699382--9699426 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
9699372 AATTTGAAAA
* * * *
9699382 TCGAATAATTCATTTGAGTTAAT
1 TCGAATAACTCAATTCAATTAAT
9699405 TCGAATAACTCAATTCAATTAA
1 TCGAATAACTCAATTCAATTAA
9699427 CTCAAATTCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
TCGAATAACTCAATTCAATTAAT
Found at i:9709846 original size:21 final size:20
Alignment explanation
Indices: 9709820--9709889 Score: 52
Period size: 22 Copynumber: 3.3 Consensus size: 20
9709810 TTTTAAGTAG
9709820 TTTTAATGTTATTTAATTATT
1 TTTTAAT-TTATTTAATTATT
*
9709841 TTTTAAATTCTA-TTAACTATGT
1 TTTT-AATT-TATTTAATTAT-T
** *
9709863 TTTTAAACATCTTTAATTATT
1 TTTT-AATTTATTTAATTATT
9709884 TTTTAA
1 TTTTAA
9709890 AAAATTAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
20 2 0.05
21 18 0.45
22 20 0.50
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (20 bp):
TTTTAATTTATTTAATTATT
Found at i:9709890 original size:21 final size:20
Alignment explanation
Indices: 9709831--9709891 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 20
9709821 TTTAATGTTA
*
9709831 TTTAATTATTTTTTAAATTC
1 TTTAATTATTTTTTAAAATC
*
9709851 TATTAACTATGTTTTTAAACATC
1 T-TTAATTAT-TTTTTAAA-ATC
9709874 TTTAATTATTTTTTAAAA
1 TTTAATTATTTTTTAAAA
9709892 AATTAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 2 0.06
21 15 0.43
22 15 0.43
23 3 0.09
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTAATTATTTTTTAAAATC
Found at i:9710862 original size:21 final size:20
Alignment explanation
Indices: 9710825--9710866 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
9710815 AGAGATGACT
*
9710825 TATAATTTAAAGTTATTTATA
1 TATAATATAAAGTTA-TTATA
9710846 TATAATATAAA-TATATTATA
1 TATAATATAAAGT-TATTATA
9710866 T
1 T
9710867 GTTTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TATAATATAAAGTTATTATA
Done.