Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 50 of 438
Found at i:12684525 original size:30 final size:30
Alignment explanation
Indices: 12684485--12684556 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
12684475 CTAGGTATTC
*
12684485 CCACATGGGCTGAGTACACACTCGTGTGAG
1 CCACAAGGGCTGAGTACACACTCGTGTGAG
* * *
12684515 CCATAAGGGCTAAGTACACGCTCGTGTGAG
1 CCACAAGGGCTGAGTACACACTCGTGTGAG
*
12684545 CCACACGGGCTG
1 CCACAAGGGCTG
12684557 GCCACACACC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.24, C:0.28, G:0.31, T:0.18
Consensus pattern (30 bp):
CCACAAGGGCTGAGTACACACTCGTGTGAG
Found at i:12686040 original size:46 final size:44
Alignment explanation
Indices: 12685990--12686101 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 44
12685980 GAGAGCTAGA
12685990 GTAAGACATGTCTAGGACATGCATCAGCCT-CGAGATGTAAGCCAGT
1 GTAAGACATGTCTAGGACATGCATC-GCCTACGAGATG--AGCCAGT
* * *
12686036 GTAAGACATGTCAAGGACATGCATCGGCTACGAGATGAGCTAGT
1 GTAAGACATGTCTAGGACATGCATCGCCTACGAGATGAGCCAGT
*
12686080 GTAAGACCATGTCTGGGACATG
1 GTAAGA-CATGTCTAGGACATG
12686102 ACATTAGCAT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 12 0.20
45 16 0.27
46 31 0.53
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (44 bp):
GTAAGACATGTCTAGGACATGCATCGCCTACGAGATGAGCCAGT
Found at i:12687982 original size:46 final size:46
Alignment explanation
Indices: 12687915--12688023 Score: 182
Period size: 46 Copynumber: 2.3 Consensus size: 46
12687905 AATAGAGGTT
12687915 TTAATTAGAAAGAGATTTCAATTAATCAACCTAGAGTCAGTTGTTC
1 TTAATTAGAAAGAGATTTCAATTAATCAACCTAGAGTCAGTTGTTC
*
12687961 TTAATTAGAAAGAGATTTCAATTAATCAACCTAGAGTTAGTTGTTC
1 TTAATTAGAAAGAGATTTCAATTAATCAACCTAGAGTCAGTTGTTC
* *
12688007 TTACTCTCGAAAGAGAT
1 TTAAT-TAGAAAGAGAT
12688024 ATTACCATAA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
46 49 0.83
47 10 0.17
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (46 bp):
TTAATTAGAAAGAGATTTCAATTAATCAACCTAGAGTCAGTTGTTC
Found at i:12692718 original size:5 final size:5
Alignment explanation
Indices: 12692708--12692742 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
12692698 ATTGAGTCTA
12692708 TTTAT TTTAT TTTATT TTTAT TTTATT TTTAT TTT
1 TTTAT TTTAT TTTA-T TTTAT TTTA-T TTTAT TTT
12692743 CCCCTTTTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:12692728 original size:11 final size:11
Alignment explanation
Indices: 12692708--12692742 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
12692698 ATTGAGTCTA
12692708 TTTA-TTTTAT
1 TTTATTTTTAT
12692718 TTTATTTTTAT
1 TTTATTTTTAT
12692729 TTTATTTTTAT
1 TTTATTTTTAT
12692740 TTT
1 TTT
12692743 CCCCTTTTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:12692729 original size:16 final size:17
Alignment explanation
Indices: 12692708--12692742 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
12692698 ATTGAGTCTA
12692708 TTTATTTTA-TTTTATT
1 TTTATTTTATTTTTATT
12692724 TTTATTTTATTTTTATT
1 TTTATTTTATTTTTATT
12692741 TT
1 TT
12692743 CCCCTTTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTATTTTATTTTTATT
Found at i:12699177 original size:72 final size:67
Alignment explanation
Indices: 12699102--12699234 Score: 257
Period size: 67 Copynumber: 2.0 Consensus size: 67
12699092 ATATATTGGT
12699102 AAAATAAAATAAAAGTAAAATCCATATAGAACTACACTTCGTTTATTTTATTTTAGAATAAGGTT
1 AAAATAAAATAAAAGTAAAATCCATATAGAACTACACTTCGTTTATTTTATTTTAGAATAAGGTT
12699167 TA
66 TA
*
12699169 AAAATAAAATAAAAGTAAAATCCATATAGAACTACACTTCTTTTATTTTATTTTAGAATAAGGTT
1 AAAATAAAATAAAAGTAAAATCCATATAGAACTACACTTCGTTTATTTTATTTTAGAATAAGGTT
12699234 T
66 T
12699235 TTTAAACTTT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.37
Consensus pattern (67 bp):
AAAATAAAATAAAAGTAAAATCCATATAGAACTACACTTCGTTTATTTTATTTTAGAATAAGGTT
TA
Found at i:12709859 original size:19 final size:18
Alignment explanation
Indices: 12709835--12709884 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
12709825 CAATCTATTT
12709835 TTTTTTATAATTGTTTTTA
1 TTTTTTATAATT-TTTTTA
* *
12709854 TTTTTTAAAATTTTTTTT
1 TTTTTTATAATTTTTTTA
*
12709872 TTGTTTTTTAATT
1 TT-TTTTATAATT
12709885 AAATATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTTTTATAATTTTTTTA
Found at i:12710164 original size:2 final size:2
Alignment explanation
Indices: 12710157--12710192 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
12710147 AATATTTTCA
12710157 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12710193 CTTGGTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12719307 original size:52 final size:52
Alignment explanation
Indices: 12719233--12719471 Score: 318
Period size: 52 Copynumber: 4.6 Consensus size: 52
12719223 CCATGGAAAC
* *
12719233 ATGTGATATGTGCTTCCGTATAAGATCATAGCAGGGCGATGGCATCGGTGTG
1 ATGTGATATGTGCTTCCGTATAAGACCATAACAGGGCGATGGCATCGGTGTG
** * * *
12719285 ATGTGATATGTGCTTCCGTATAAGACCATAGTAGGGCGTTAGAATCGGTGTG
1 ATGTGATATGTGCTTCCGTATAAGACCATAACAGGGCGATGGCATCGGTGTG
* *
12719337 ATGTGATATGTGCTCCCGTATAAGACCATAACAGGGCTATGGCATCGGTGTG
1 ATGTGATATGTGCTTCCGTATAAGACCATAACAGGGCGATGGCATCGGTGTG
* * ** *
12719389 ATGTGATATGTG-TTCCCGTAAAAGACCATAATAGGGTTATGGCATCGGTGAG
1 ATGTGATATGTGCTT-CCGTATAAGACCATAACAGGGCGATGGCATCGGTGTG
*
12719441 ATGTGACTATATGCTTCCGTATAAGACCATA
1 ATGTGA-TATGTGCTTCCGTATAAGACCATA
12719472 TCTAAGATAT
Statistics
Matches: 165, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
51 1 0.01
52 143 0.87
53 19 0.12
54 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATAACAGGGCGATGGCATCGGTGTG
Found at i:12733564 original size:45 final size:45
Alignment explanation
Indices: 12733500--12733623 Score: 153
Period size: 45 Copynumber: 2.8 Consensus size: 45
12733490 TACACCAAGT
* *
12733500 TGAGTAAGACTATAGCTGAAAGAAGCTATGGCATCATGATA-AAGA
1 TGAGTAAGACCATAGCTGAAAGAAGCTATGACATCATGATAGAA-A
** * *
12733545 TGAGTAAGACCATAGCTGAAAGATTCAATGACATCATGATAGAAC
1 TGAGTAAGACCATAGCTGAAAGAAGCTATGACATCATGATAGAAA
*
12733590 TGAGTAAGGCCATAGCTGAAA-AATGCTATGACAT
1 TGAGTAAGACCATAGCTGAAAGAA-GCTATGACAT
12733624 TATGTGAAAG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 1 0.01
45 64 0.96
46 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (45 bp):
TGAGTAAGACCATAGCTGAAAGAAGCTATGACATCATGATAGAAA
Found at i:12736184 original size:27 final size:27
Alignment explanation
Indices: 12736153--12736229 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
12736143 TTAGTTTACC
12736153 AATTACTGAAATACCCTCGATTTGTAA
1 AATTACTGAAATACCCTCGATTTGTAA
* *
12736180 AATTACTGAAATACCTTCGACTTGTAA
1 AATTACTGAAATACCCTCGATTTGTAA
* *
12736207 AATTAC-CAAAGTACCCCCGATTT
1 AATTACTGAAA-TACCCTCGATTT
12736230 ACAGAATTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACTGAAATACCCTCGATTTGTAA
Found at i:12736237 original size:27 final size:27
Alignment explanation
Indices: 12736218--12736428 Score: 271
Period size: 27 Copynumber: 7.8 Consensus size: 27
12736208 ATTACCAAAG
*
12736218 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
12736245 TACTCCCGATTTACATAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
*
12736272 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* **
12736299 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCCCGA-TTTACAGAATTACCGTTT
*
12736326 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
12736353 TACCCCCAATTTACATAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
12736380 TACCCCCGATTTATATAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
12736407 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
12736429 AGAAATACCC
Statistics
Matches: 162, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 160 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCGTTT
Found at i:12736294 original size:81 final size:81
Alignment explanation
Indices: 12736205--12736475 Score: 269
Period size: 81 Copynumber: 3.3 Consensus size: 81
12736195 TTCGACTTGT
* *
12736205 AAAATTACCAAAGTACCCCCGATTTACAGAATTATCGTTTTACTCC-CGATTTACATAATTACCG
1 AAAATTACCAAATTACCCCCGATTTACAGAATTATCGTTTTAC-CCTCGATTTACAAAATTACCG
*
12736269 TTTTACCCTCGATTTAC
65 TTTTACCCTCAATTTAC
* *** * * *
12736286 AGAATTACCGTTTTACCCTC-AGTTTACAGAATTA-CTATTTTACCCTCGATTTACAGAATTACC
1 AAAATTACCAAATTACCCCCGA-TTTACAGAATTATC-GTTTTACCCTCGATTTACAAAATTACC
*
12736349 GTTTTACCCCCAATTTAC
64 GTTTTACCCTCAATTTAC
* *** * * * *
12736367 ATAATTACCGTTTTACCCCCGATTTATATAATTATCGTTTTACCCTCGATTTACAAAATTACAGA
1 AAAATTACCAAATTACCCCCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACCGT
** **
12736432 AATACCCTCAATTTGT
66 TTTACCCTCAATTTAC
* *
12736448 AAAATTACCAAAATACCCCTGATTTACA
1 AAAATTACCAAATTACCCCCGATTTACA
12736476 AAGTTACAGA
Statistics
Matches: 155, Mismatches: 30, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
80 4 0.03
81 149 0.96
82 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (81 bp):
AAAATTACCAAATTACCCCCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACCGT
TTTACCCTCAATTTAC
Found at i:12736438 original size:54 final size:53
Alignment explanation
Indices: 12736205--12736493 Score: 215
Period size: 54 Copynumber: 5.4 Consensus size: 53
12736195 TTCGACTTGT
* * *
12736205 AAAATTACCA-AAGTACCCCCGATTTACAGAATTATCGTTTTACTCCCGATTTAC
1 AAAATTA-CAGAATTACCCTCGATTTACAGAATTACCGTTTTAC-CCCGATTTAC
* * **
12736259 ATAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTTTAC
1 AAAATTACAGAATTACCCTCGATTTACAGAATTACCGTTTTACCC-CGA-TTTAC
* ** *
12736313 AGAATTACTA-TTTTACCCTCGATTTACAGAATTACCGTTTTACCCCCAATTTAC
1 AAAATTAC-AGAATTACCCTCGATTTACAGAATTACCGTTTTA-CCCCGATTTAC
* * ** * * * *
12736367 ATAATTACCGTTTTACCCCCGATTTATATAATTATCGTTTTACCCTCGATTTAC
1 AAAATTACAGAATTACCCTCGATTTACAGAATTACCGTTTTACCC-CGATTTAC
* * ** * ****
12736421 AAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACAGAATTACCCTCGATTTACAGAATTACCGTTTTACCCC-GATTTAC
* *
12736475 AAAGTTACAGAAATACCCT
1 AAAATTACAGAATTACCCT
12736494 TGACTTTCTA
Statistics
Matches: 195, Mismatches: 31, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
53 8 0.04
54 183 0.94
55 4 0.02
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.35
Consensus pattern (53 bp):
AAAATTACAGAATTACCCTCGATTTACAGAATTACCGTTTTACCCCGATTTAC
Found at i:12736531 original size:56 final size:55
Alignment explanation
Indices: 12736414--12736551 Score: 163
Period size: 56 Copynumber: 2.5 Consensus size: 55
12736404 TTTTACCCTC
* * *
12736414 GATTTACAAAATTACAGAAATACCC-TCAATTTGTAAAATTACCAAAATACCCCT
1 GATTTACAAAATTACAGAAATACCCTTGAATTTCTAAAATTACCAAAATACCACT
* * * *
12736468 GATTTACAAAGTTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATT
1 GATTTACAAAATTACAGAAATACCCTTGAATTTCT-AAAATTACCA-AAATACCACT
* *
12736524 GGTTTACAAAATTACTGAAATACCCTTG
1 GATTTACAAAATTACAGAAATACCCTTG
12736552 GTTTGTAGAT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
54 24 0.34
55 7 0.10
56 40 0.56
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (55 bp):
GATTTACAAAATTACAGAAATACCCTTGAATTTCTAAAATTACCAAAATACCACT
Found at i:12736555 original size:27 final size:27
Alignment explanation
Indices: 12736407--12736551 Score: 141
Period size: 27 Copynumber: 5.3 Consensus size: 27
12736397 ATTATCGTTT
*
12736407 TACCCTCGATTTACAAAATTACAGAAA
1 TACCCTTGATTTACAAAATTACAGAAA
** **
12736434 TACCCTCAATTTGTAAAATTACCA-AAA
1 TACCCTTGATTTACAAAATTA-CAGAAA
* *
12736461 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGATTTACAAAATTACAGAAA
*
12736488 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTTGA-TTTAC--AAAATTACAGAAA
* * *
12736517 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACAGAAA
12736544 TACCCTTG
1 TACCCTTG
12736552 GTTTGTAGAT
Statistics
Matches: 95, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
26 2 0.02
27 66 0.69
28 8 0.08
29 19 0.20
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACAGAAA
Found at i:12736640 original size:27 final size:27
Alignment explanation
Indices: 12736610--12736700 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
12736600 CCCCTATTAG
*
12736610 GTAAAAAGACCGTAAAGCCCCTGTAGA
1 GTAAAATGACCGTAAAGCCCCTGTAGA
*
12736637 GTAAAGTGACCGTAAAGCCCCTGTA-A
1 GTAAAATGACCGTAAAGCCCCTGTAGA
*
12736663 GGTAAAGTGACCGTAATA-CCCCTGTATG-
1 -GTAAAATGACCGTAA-AGCCCCTGTA-GA
12736691 GTAAAATGAC
1 GTAAAATGAC
12736701 GAATATGCCC
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
26 1 0.02
27 55 0.96
28 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
GTAAAATGACCGTAAAGCCCCTGTAGA
Found at i:12737959 original size:9 final size:9
Alignment explanation
Indices: 12737947--12738003 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
12737937 TTTGATAAAC
12737947 ATGATATGT
1 ATGATATGT
*
12737956 ATGATATGCAC
1 ATGATATG--T
*
12737967 ATGACATGT
1 ATGATATGT
*
12737976 ATGATATGCAC
1 ATGATATG--T
12737987 ATGATATGT
1 ATGATATGT
12737996 ATGATATG
1 ATGATATG
12738004 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:12737970 original size:20 final size:20
Alignment explanation
Indices: 12737945--12738007 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
12737935 ATTTTGATAA
12737945 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
12737965 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
12737985 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
12738005 ACA
1 ACA
12738008 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:12738117 original size:24 final size:24
Alignment explanation
Indices: 12738061--12738225 Score: 212
Period size: 24 Copynumber: 7.0 Consensus size: 24
12738051 GAGGAAGTGA
12738061 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
12738084 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
12738108 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
12738132 AAAAGGGCTTACGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
** *
12738156 -AAAGGGCTTGCGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
12738179 AAAAGGGCTTTTG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
12738202 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
12738226 ATGATAAAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
23 59 0.46
24 60 0.47
25 8 0.06
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:12738177 original size:71 final size:70
Alignment explanation
Indices: 12738061--12738225 Score: 224
Period size: 71 Copynumber: 2.3 Consensus size: 70
12738051 GAGGAAGTGA
* * * *
12738061 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATCAAAGGGCTTACGCCCCAGTTATAAAAAGGGCTTATG-CCCA
12738126 GTTATC
65 GTTATC
* *
12738132 AAAAGGGCTTACGCCCCAGTTATCAAAGGGCTTGCGCCCCAGTTATAAAAAGGGCTTTTGCCCAG
1 AAAAGGGCTTACGCCCCAGTTATCAAAGGGCTTACGCCCCAGTTATAAAAAGGGCTTATGCCCAG
*
12738197 TTATT
66 TTATC
*
12738202 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
12738226 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
70 19 0.23
71 65 0.77
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (70 bp):
AAAAGGGCTTACGCCCCAGTTATCAAAGGGCTTACGCCCCAGTTATAAAAAGGGCTTATGCCCAG
TTATC
Found at i:12738454 original size:31 final size:31
Alignment explanation
Indices: 12738419--12738482 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
12738409 CGTTTACCGT
*
12738419 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
12738450 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
12738481 AA
1 AA
12738483 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:12741538 original size:22 final size:22
Alignment explanation
Indices: 12741513--12741557 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
12741503 GACACATTTC
*
12741513 ATGC-ATTTTCATGCCATTAATA
1 ATGCAATTATCATG-CATTAATA
*
12741535 ATGCAATTATCATGCATTCATA
1 ATGCAATTATCATGCATTAATA
12741557 A
1 A
12741558 ATCATACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (22 bp):
ATGCAATTATCATGCATTAATA
Found at i:12749540 original size:21 final size:21
Alignment explanation
Indices: 12749502--12749541 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12749492 TCAAACTCCT
*
12749502 AAAACTTTTTACCTTTCCCTA
1 AAAACTTTTTACCCTTCCCTA
12749523 AAAAC-TTTTACTCCTTCCC
1 AAAACTTTTTAC-CCTTCCC
12749542 ACTTCCTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAACTTTTTACCCTTCCCTA
Found at i:12749693 original size:19 final size:20
Alignment explanation
Indices: 12749663--12749703 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
12749653 CAAAAACCCT
* *
12749663 CAAAACTTTTTATTTTCTCC
1 CAAAACTTTTTACTCTCTCC
12749683 CAAAA-TTTTTACTCTCTCC
1 CAAAACTTTTTACTCTCTCC
12749702 CA
1 CA
12749704 CTTTTCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (20 bp):
CAAAACTTTTTACTCTCTCC
Found at i:12752246 original size:40 final size:40
Alignment explanation
Indices: 12752138--12752265 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 40
12752128 TCTTCGGAAT
* *
12752138 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * * * *
12752177 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * * *
12752217 TTAGCCCGGATATAATCACTAGCATAAATGCCTTTGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
12752257 TTAGCCCGG
1 TTAGCCCGG
12752266 GTATCATTCA
Statistics
Matches: 72, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
39 3 0.04
40 69 0.96
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:12752541 original size:40 final size:40
Alignment explanation
Indices: 12752495--12752663 Score: 250
Period size: 40 Copynumber: 4.2 Consensus size: 40
12752485 AGTAGGGTCA
*
12752495 CCCGGGTATAGCAACTAGCACAAATGCCTTCGGGTCTTAG
1 CCCGGGTATAACAACTAGCACAAATGCCTTCGGGTCTTAG
*
12752535 CCCGGGTATAACAACTCGCACAAATGCCTTCGGGTCTTAG
1 CCCGGGTATAACAACTAGCACAAATGCCTTCGGGTCTTAG
* *
12752575 CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAG
1 CCCGGGTATAACAACTAGCACAAATGCCTTCGGGTCTTAG
* * * *
12752615 CCCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAG
1 CCCGGGTATAA-CAACTAGCACAAATGCCTTCGGGTCTTAG
12752655 CCCGGGTAT
1 CCCGGGTAT
12752664 CATTCAAATG
Statistics
Matches: 120, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 119 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCCGGGTATAACAACTAGCACAAATGCCTTCGGGTCTTAG
Found at i:12754633 original size:10 final size:10
Alignment explanation
Indices: 12754618--12754667 Score: 75
Period size: 10 Copynumber: 5.0 Consensus size: 10
12754608 TAATTTTAGC
12754618 ATTTATCTTT
1 ATTTATCTTT
12754628 ATTTATCTTT
1 ATTTATCTTT
*
12754638 AATTATCTTT
1 ATTTATCTTT
12754648 ATTTAT-TTGT
1 ATTTATCTT-T
12754658 ATTTATCTTT
1 ATTTATCTTT
12754668 TAGAATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 32 0.89
11 2 0.06
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:12756461 original size:24 final size:24
Alignment explanation
Indices: 12756434--12756487 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
12756424 AAACATTAAA
12756434 TTTAAT-TTAATATTAA-AAAATCAC
1 TTTAATATTAA-ATTAATAAAAT-AC
12756458 TTTAATATTAAATTAATAAAATAC
1 TTTAATATTAAATTAATAAAATAC
12756482 TATTAA
1 T-TTAA
12756488 GATAAGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTAATATTAAATTAATAAAATAC
Found at i:12760852 original size:21 final size:21
Alignment explanation
Indices: 12760809--12760852 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
12760799 ACACACTTAG
*
12760809 CTTAATTGAGCTATTAATGAA
1 CTTAATTGAGCTATTAATAAA
12760830 CTTAATTGAGCTAATTAA-AAA
1 CTTAATTGAGCT-ATTAATAAA
12760851 CT
1 CT
12760853 ACAAGACCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (21 bp):
CTTAATTGAGCTATTAATAAA
Found at i:12763541 original size:18 final size:18
Alignment explanation
Indices: 12763498--12763543 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
12763488 CTTTCATTCT
* * *
12763498 CTTTTTCTTTTTTGCTTT
1 CTTTTTCTTTTTCGATTA
*
12763516 CTTGTTCTTTTTCGATTA
1 CTTTTTCTTTTTCGATTA
12763534 CTTTTTCTTT
1 CTTTTTCTTT
12763544 CATTTTTCTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.04, C:0.17, G:0.07, T:0.72
Consensus pattern (18 bp):
CTTTTTCTTTTTCGATTA
Found at i:12768530 original size:3 final size:3
Alignment explanation
Indices: 12768522--12768556 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
12768512 TCATTAAGTT
12768522 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12768557 CAACAAGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12770316 original size:18 final size:18
Alignment explanation
Indices: 12770293--12770328 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12770283 GATATGATAC
12770293 TAAAAT-TATTAAAAAAAT
1 TAAAATATA-TAAAAAAAT
12770311 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
12770329 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:12770612 original size:22 final size:21
Alignment explanation
Indices: 12770577--12770641 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 21
12770567 AAAAGGTATC
* *
12770577 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
12770598 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
12770621 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
12770640 TA
1 TA
12770642 TATCATATCT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 9 0.24
21 3 0.08
22 15 0.41
23 10 0.27
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:12770620 original size:23 final size:22
Alignment explanation
Indices: 12770577--12770634 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
12770567 AAAAGGTATC
* *
12770577 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
12770598 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
12770621 TGCATATCATATCT
1 TACAAATCATATCT
12770635 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:12770674 original size:17 final size:19
Alignment explanation
Indices: 12770613--12770666 Score: 94
Period size: 17 Copynumber: 2.9 Consensus size: 19
12770603 AATCATATCT
12770613 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
12770632 TCTAAGATT--ATATCATA
1 TCTAAGATTGCATATCATA
12770649 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
12770667 TGAAGATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 17 0.52
19 16 0.48
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12770823 original size:21 final size:20
Alignment explanation
Indices: 12770785--12770824 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
12770775 TTGGACTTCG
* *
12770785 TTTTTTTTTTTGGTTTATTA
1 TTTTTGTTTTTGGCTTATTA
12770805 TTTTTGTTTTTGGACTTATT
1 TTTTTGTTTTTGG-CTTATT
12770825 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.10, C:0.03, G:0.12, T:0.75
Consensus pattern (20 bp):
TTTTTGTTTTTGGCTTATTA
Found at i:12771080 original size:45 final size:45
Alignment explanation
Indices: 12771016--12771215 Score: 267
Period size: 45 Copynumber: 4.5 Consensus size: 45
12771006 GGAAGGCGAT
* * *
12771016 ATCTGCTATCTTTGATCTGCTCCCCATCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAA
*
12771061 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAA
* * *
12771106 ATCTGCT-TCTTCAATCTGCTCCCAATCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAA
* * * *
12771150 ATCTGTTATCTCCAATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAA
* * *
12771195 ATCTGTCATCTTGGATTTGCT
1 ATCTGTTATCTTCGATCTGCT
12771216 TCGATGTAAA
Statistics
Matches: 137, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 40 0.29
45 97 0.71
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAA
Found at i:12771181 original size:89 final size:90
Alignment explanation
Indices: 12771016--12771199 Score: 298
Period size: 89 Copynumber: 2.1 Consensus size: 90
12771006 GGAAGGCGAT
** * * *
12771016 ATCTGCTATCTTTGATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCAATCTAATACAGAGACGCCAAATCTGTTATCTCCAATCTGC
12771081 TCCCCGTCTAATACAGAGATGCCAA
66 TCCCCGTCTAATACAGAGATGCCAA
* *
12771106 ATCTGCT-TCTTCAATCTGCTCCCAATCTAATACAGAGATGCCAAATCTGTTATCTCCAATTTGC
1 ATCTGCTATCTTCAATCTGCTCCCAATCTAATACAGAGACGCCAAATCTGTTATCTCCAATCTGC
12771170 TCCCCGTCTAATACAGAGATGCCAA
66 TCCCCGTCTAATACAGAGATGCCAA
12771195 ATCTG
1 ATCTG
12771200 TCATCTTGGA
Statistics
Matches: 87, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 80 0.92
90 7 0.08
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCCCAATCTAATACAGAGACGCCAAATCTGTTATCTCCAATCTGC
TCCCCGTCTAATACAGAGATGCCAA
Found at i:12771476 original size:78 final size:78
Alignment explanation
Indices: 12771229--12771522 Score: 457
Period size: 78 Copynumber: 3.8 Consensus size: 78
12771219 ATGTAAACAC
* *
12771229 ATGAAGGTCAGATCTGCTATGTCTTTGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
12771294 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
12771307 ATGATGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
12771370 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
12771384 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
12771449 TGGATTTGCTTCA
66 TGGATCTGCTTCA
** * **
12771462 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTTCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
12771523 TGTTTCTTTG
Statistics
Matches: 197, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
76 2 0.01
77 70 0.36
78 123 0.62
79 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:12771514 original size:155 final size:156
Alignment explanation
Indices: 12771229--12771522 Score: 457
Period size: 155 Copynumber: 1.9 Consensus size: 156
12771219 ATGTAAACAC
* *
12771229 ATGAAGGTCAGATCTGCTATGTCTTTGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* * *
12771294 TGGATCTGCTTCAATGATGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGA
66 TGGATCTGCTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATACAGAGA
12771359 TG-CAAATCATCTTGGATCTGCTTCA
131 TGCCAAATCATCTTGGATCTGCTTCA
* *
12771384 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* ** **
12771449 TGGATTTGCTTCAATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCTTCGTCGAATATGGAG
66 TGGATCTGCTTCAATGAAGGTCCA-ATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATACAGAG
12771513 ATGCCAAATC
130 ATGCCAAATC
12771523 TGTTTCTTTG
Statistics
Matches: 125, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
154 2 0.02
155 117 0.94
156 6 0.05
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (156 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATACAGAGA
TGCCAAATCATCTTGGATCTGCTTCA
Found at i:12778010 original size:9 final size:10
Alignment explanation
Indices: 12777998--12778054 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
12777988 TATGTGGGAT
12777998 ATGATAT-AC
1 ATGATATGAC
*
12778007 ATGAT-TGAT
1 ATGATATGAC
12778016 ATGATATGCAC
1 ATGATATG-AC
*
12778027 ATGATATG-T
1 ATGATATGAC
12778036 ATGATATGCAC
1 ATGATATG-AC
12778047 ATGATATG
1 ATGATATG
12778055 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:12778030 original size:20 final size:20
Alignment explanation
Indices: 12777997--12778071 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
12777987 ATATGTGGGA
12777997 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
12778014 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
12778035 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12778055 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
12778072 GTAATCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:12778032 original size:11 final size:11
Alignment explanation
Indices: 12778016--12778071 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
12778006 CATGATTGAT
12778016 ATGATATGCAC
1 ATGATATGCAC
*
12778027 ATGATATG--T
1 ATGATATGCAC
12778036 ATGATATGCAC
1 ATGATATGCAC
*
12778047 ATGATATG--T
1 ATGATATGCAC
*
12778056 ATGAAATGCAC
1 ATGATATGCAC
12778067 ATGAT
1 ATGAT
12778072 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:12778219 original size:25 final size:26
Alignment explanation
Indices: 12778122--12778219 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
12778112 AGGAAGTGCA
*
12778122 AAAAGGGCTTATGCCCCAGTTTATTT
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
12778148 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
12778174 AAAGGGGCATATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
12778200 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
12778220 ATTAAAGAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
25 10 0.16
26 53 0.84
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:12786110 original size:20 final size:20
Alignment explanation
Indices: 12786077--12786151 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
12786067 ATATGTGGGA
12786077 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
*
12786094 ATCTGATATGCACATGATATG
1 -TATGATATGCACATGATATG
12786115 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12786135 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
12786152 GCAATCATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 7 0.14
20 42 0.82
21 2 0.04
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:12786113 original size:11 final size:11
Alignment explanation
Indices: 12786097--12786151 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
12786087 ATGATTGATC
12786097 TGATATGCACA
1 TGATATGCACA
*
12786108 TGATATG--TA
1 TGATATGCACA
12786117 TGATATGCACA
1 TGATATGCACA
*
12786128 TGATATG--TA
1 TGATATGCACA
*
12786137 TGAAATGCACA
1 TGATATGCACA
12786148 TGAT
1 TGAT
12786152 GCAATCATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (11 bp):
TGATATGCACA
Found at i:12786298 original size:25 final size:26
Alignment explanation
Indices: 12786201--12786298 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
12786191 GAGGAAGTGC
12786201 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
12786227 AAAAGGGTTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
12786253 AAAAGGGCCTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
12786279 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
12786299 ATTAAAGAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 10 0.15
26 56 0.85
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:12801712 original size:17 final size:17
Alignment explanation
Indices: 12801690--12801722 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12801680 GATATGATAC
12801690 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
12801707 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
12801723 AAACAAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:12801723 original size:18 final size:17
Alignment explanation
Indices: 12801690--12801723 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
12801680 GATATGATAC
*
12801690 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
12801707 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
12801724 AACAAGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:12802022 original size:23 final size:22
Alignment explanation
Indices: 12801979--12802036 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
12801969 AAAAGGTATC
* *
12801979 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
12802000 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
12802023 TGCATATCATATCT
1 TACAAATCATATCT
12802037 AAGATTGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:12802030 original size:17 final size:19
Alignment explanation
Indices: 12802015--12802086 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
12802005 AATCATATCT
12802015 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
12802034 TCTAAGATTGTA-ATCATA
1 TCTAAGATTGCATATCATA
12802052 TCTAAGATT--ATATCATA
1 TCTAAGATTGCATATCATA
12802069 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
12802087 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
16 1 0.02
17 15 0.31
18 15 0.31
19 18 0.37
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12802051 original size:18 final size:18
Alignment explanation
Indices: 12802015--12802078 Score: 94
Period size: 18 Copynumber: 3.6 Consensus size: 18
12802005 AATCATATCT
*
12802015 TCTAAGATTGCATATCATA
1 TCTAAGATTGTA-ATCATA
12802034 TCTAAGATTGTAATCATA
1 TCTAAGATTGTAATCATA
*
12802052 TCTAAGATTAT-ATCATA
1 TCTAAGATTGTAATCATA
12802069 TCTAAGATTG
1 TCTAAGATTG
12802079 CATATCATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
17 15 0.36
18 16 0.38
19 11 0.26
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGTAATCATA
Found at i:12806785 original size:2 final size:2
Alignment explanation
Indices: 12806778--12806807 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12806768 TGTTGAGTGC
12806778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12806808 CTTTCATTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12810727 original size:32 final size:32
Alignment explanation
Indices: 12810667--12810733 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
12810657 GTTTTTTTTT
* *
12810667 TTTGCAAAAATTCTATTCTCTTCCCCCCTCCA
1 TTTGCAAAAATTCCATTCTCTTCACCCCTCCA
* *
12810699 TTTGCCAAAATTCCA-TCTCTTCTACCCCTTCA
1 TTTGCAAAAATTCCATTCTCTTC-ACCCCTCCA
12810731 TTT
1 TTT
12810734 TTTTGTAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 7 0.23
32 23 0.77
ACGTcount: A:0.21, C:0.36, G:0.03, T:0.40
Consensus pattern (32 bp):
TTTGCAAAAATTCCATTCTCTTCACCCCTCCA
Found at i:12811847 original size:12 final size:14
Alignment explanation
Indices: 12811825--12811856 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
12811815 TGGGTAGGAT
12811825 TCTGATATTCTG-A
1 TCTGATATTCTGTA
12811838 TCTG-TATTCTGTA
1 TCTGATATTCTGTA
12811851 TCTGAT
1 TCTGAT
12811857 TGGGTTGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.41
13 9 0.53
14 1 0.06
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.50
Consensus pattern (14 bp):
TCTGATATTCTGTA
Found at i:12813201 original size:21 final size:21
Alignment explanation
Indices: 12813177--12813218 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
12813167 TGCTAATCAG
12813177 AGAGTACCGAAGTAATGAACA
1 AGAGTACCGAAGTAATGAACA
* *
12813198 AGAGTATCGAAGTACTGAACA
1 AGAGTACCGAAGTAATGAACA
12813219 GAGCACACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.17
Consensus pattern (21 bp):
AGAGTACCGAAGTAATGAACA
Found at i:12815425 original size:57 final size:57
Alignment explanation
Indices: 12815352--12815587 Score: 292
Period size: 57 Copynumber: 4.1 Consensus size: 57
12815342 ATGCCAATAG
* * * *
12815352 GGATGTGATCTGTTGCCTTTGGGCTTAGCACTTTGGTTCATTCTGGTGTGTTTGAAA
1 GGATGTGACCTGTTGCCTTTGGGCTTAACACTTTGGTGCATTCTAGTGTGTTTGAAA
* * *
12815409 GGATGTGACCTATTGCCTTTGGGCTTAACACTTTGGTGCGTTCTAGTGTGTTTGAAG
1 GGATGTGACCTGTTGCCTTTGGGCTTAACACTTTGGTGCATTCTAGTGTGTTTGAAA
* * * * *
12815466 GGATGTGACCTGTTTCTTTTGGTCTTAACACTTTGGTGCCTTCTAGTGTGTTTGAAG
1 GGATGTGACCTGTTGCCTTTGGGCTTAACACTTTGGTGCATTCTAGTGTGTTTGAAA
* * *** * *
12815523 GGATGTGACCTGTTGCCTTTGGTCTTAACACCTCAATGCTTTCTAGTGTGCTTGAAA
1 GGATGTGACCTGTTGCCTTTGGGCTTAACACTTTGGTGCATTCTAGTGTGTTTGAAA
*
12815580 GGGTGTGA
1 GGATGTGA
12815588 TTTATTGCCT
Statistics
Matches: 157, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 157 1.00
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.40
Consensus pattern (57 bp):
GGATGTGACCTGTTGCCTTTGGGCTTAACACTTTGGTGCATTCTAGTGTGTTTGAAA
Found at i:12815616 original size:57 final size:57
Alignment explanation
Indices: 12815392--12815617 Score: 177
Period size: 57 Copynumber: 4.0 Consensus size: 57
12815382 CTTTGGTTCA
* * * * * * *** *
12815392 TTCTGGTGTGTTTGAAAGGATGTGACCTATTGCCTTTGGGCTTAACACTTTGGTGCG
1 TTCTAGTGTGCTTGAAGGGATGTGACCTATTGCCTTTGGTCCTAACACCTCAATGCT
* * * * * * *** *
12815449 TTCTAGTGTGTTTGAAGGGATGTGACCTGTTTCTTTTGGTCTTAACACTTTGGTGCC
1 TTCTAGTGTGCTTGAAGGGATGTGACCTATTGCCTTTGGTCCTAACACCTCAATGCT
* * *
12815506 TTCTAGTGTGTTTGAAGGGATGTGACCTGTTGCCTTTGGTCTTAACACCTCAATGCT
1 TTCTAGTGTGCTTGAAGGGATGTGACCTATTGCCTTTGGTCCTAACACCTCAATGCT
** * *
12815563 TTCTAGTGTGCTTGAAAGGG-TGTGATTTATTGCCTTTAGG-CCTAGCACTTCAATG
1 TTCTAGTGTGCTTG-AAGGGATGTGACCTATTGCCTTT-GGTCCTAACACCTCAATG
12815618 TTCTCCAGTA
Statistics
Matches: 146, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
57 139 0.95
58 7 0.05
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.40
Consensus pattern (57 bp):
TTCTAGTGTGCTTGAAGGGATGTGACCTATTGCCTTTGGTCCTAACACCTCAATGCT
Found at i:12819502 original size:18 final size:18
Alignment explanation
Indices: 12819460--12819505 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
12819450 ACAGGCATAA
*
12819460 ATTCATATATGCATTATC
1 ATTCATATATCCATTATC
* * *
12819478 ATACATATATCCATTCTT
1 ATTCATATATCCATTATC
12819496 ATTCATATAT
1 ATTCATATAT
12819506 TTATACACTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.46
Consensus pattern (18 bp):
ATTCATATATCCATTATC
Found at i:12828475 original size:2 final size:2
Alignment explanation
Indices: 12828468--12828509 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
12828458 CTTGCGTTTG
12828468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 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
12828510 GACTTATCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12829231 original size:19 final size:19
Alignment explanation
Indices: 12829207--12829245 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
12829197 AATTGGTTTC
12829207 TAATATGAATGCTATATGA
1 TAATATGAATGCTATATGA
12829226 TAATATGAATGCTATATGA
1 TAATATGAATGCTATATGA
12829245 T
1 T
12829246 GTGAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.38
Consensus pattern (19 bp):
TAATATGAATGCTATATGA
Found at i:12832137 original size:17 final size:17
Alignment explanation
Indices: 12832115--12832148 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12832105 GAAGAATGTG
12832115 AGGTTTGAATGCTCTGA
1 AGGTTTGAATGCTCTGA
12832132 AGGTTTGAATGCTCTGA
1 AGGTTTGAATGCTCTGA
12832149 TAAATGCCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (17 bp):
AGGTTTGAATGCTCTGA
Found at i:12835400 original size:25 final size:25
Alignment explanation
Indices: 12835372--12835421 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
12835362 CAGCTCTTAT
* *
12835372 GAGCATCTCGATATTTGGCTCTCAC
1 GAGCATCCCGATACTTGGCTCTCAC
*
12835397 GAGCTTCCCGATACTTGGCTCTCAC
1 GAGCATCCCGATACTTGGCTCTCAC
12835422 AATCTTCCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.18, C:0.32, G:0.20, T:0.30
Consensus pattern (25 bp):
GAGCATCCCGATACTTGGCTCTCAC
Found at i:12835428 original size:25 final size:25
Alignment explanation
Indices: 12835380--12835429 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
12835370 ATGAGCATCT
* *
12835380 CGATATTTGGCTCTCACGAGCTTCC
1 CGATACTTGGCTCTCACAAGCTTCC
*
12835405 CGATACTTGGCTCTCACAATCTTCC
1 CGATACTTGGCTCTCACAAGCTTCC
12835430 TCTTATTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.18, C:0.34, G:0.16, T:0.32
Consensus pattern (25 bp):
CGATACTTGGCTCTCACAAGCTTCC
Found at i:12846942 original size:46 final size:45
Alignment explanation
Indices: 12846875--12847046 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 45
12846865 AACCCGCCCC
*
12846875 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCA
* *
12846921 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * ** *
12846969 TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCA
12847014 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
12847047 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 59 0.56
47 27 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCA
Found at i:12846987 original size:93 final size:93
Alignment explanation
Indices: 12846880--12847050 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
12846870 GCCCCTAAGT
** *
12846880 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
12846945 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
12846973 GAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
12847038 CGAGTTCGGATGC
66 CGAGTTCGGATGC
12847051 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:12850412 original size:119 final size:118
Alignment explanation
Indices: 12850206--12850537 Score: 531
Period size: 119 Copynumber: 2.8 Consensus size: 118
12850196 CAGATCTAGA
* * *
12850206 CTTCAGACTTTTATGCTGAAGCAGATCCAAGATGATTTGGTTTTCTTGTGTTTACAAGAAACAAA
1 CTTCAGA-TTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAA
* * *
12850271 TCGAGGATATAGCAGATTTGACTCTCAGACA-TTCTCAAATATAGCAAATCTAAC
65 TCGAGGACATAGCAGATATGACTCTCA-AAAGTTCTCAAATATAGCAAATCTAAC
*
12850325 CTTCAGATGTTTATACTGAAGCAAATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAA
1 CTTCAGAT-TTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAA
* *
12850390 TCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATGTAGCAGATCTAAC
65 TCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATATAGCAAATCTAAC
12850444 CTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAA
1 CTTCAGAT-TTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAA
*
12850509 TCGAGGACATTGCAGATATGACTCTCAAA
65 TCGAGGACATAGCAGATATGACTCTCAAA
12850538 TGTTATTAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
118 3 0.02
119 196 0.98
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (118 bp):
CTTCAGATTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAAT
CGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATATAGCAAATCTAAC
Found at i:12850676 original size:321 final size:321
Alignment explanation
Indices: 12850250--12850862 Score: 992
Period size: 321 Copynumber: 1.9 Consensus size: 321
12850240 ATTTGGTTTT
* *
12850250 CTTGTGTTTACAAGAAACAAATCGAGGATATAGCAGATTTGACTCTCAGACATTCTCAAATATAG
1 CTTGTGCTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAATATAG
* * *
12850315 CAAATCTAACCTTCAGATGTTTATACTGAAGCAAATCCAAGATGATTTGGTATTCTTGTGTTTAC
66 CAAATCTAACCTTCAGATGTTTATACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGCTTAC
*
12850380 AAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATGTAGCAGATCTAACC
131 AAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATGTAGCAAATCTAACC
* * **
12850445 TTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAAT
196 TTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAAT
**
12850510 CGAGGACATTGCAGATATGACTCTCAAATGTTATTAAACAAACTCAAGAGGGTTTGGCATC
261 CGAGGACATAACAGATATGACTCTCAAATGTTATTAAACAAACTCAAGAGGGTTTGGCATC
** * * *
12850571 CTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGATTCTCAGACGTTCTCAGATATAG
1 CTTGTGCTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAATATAG
* * *
12850636 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTAC
66 CAAATCTAACCTTCAGATGTTTATACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGCTTAC
* *
12850701 AAGGGACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATGTAGCAAATCTAACC
131 AAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATGTAGCAAATCTAACC
* *
12850766 TTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAAT
196 TTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAAT
* *
12850831 CGAGGACGTAACAGATATGACTCTCGAATGTT
261 CGAGGACATAACAGATATGACTCTCAAATGTT
12850863 CTCAAAACAG
Statistics
Matches: 266, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
321 266 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (321 bp):
CTTGTGCTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAATATAG
CAAATCTAACCTTCAGATGTTTATACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGCTTAC
AAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATGTAGCAAATCTAACC
TTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAAT
CGAGGACATAACAGATATGACTCTCAAATGTTATTAAACAAACTCAAGAGGGTTTGGCATC
Found at i:12850735 original size:202 final size:202
Alignment explanation
Indices: 12850360--12850739 Score: 598
Period size: 202 Copynumber: 1.9 Consensus size: 202
12850350 TCCAAGATGA
* * *
12850360 TTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCT
1 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCT
* * *
12850425 CAAATGTAGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCT
66 CAAATATAGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATCCT
* *
12850490 TGTGTTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTATTAAACAAACTC
131 TGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAATGTTATTAAACAAACTC
12850555 AAGAGGG
196 AAGAGGG
* * * * *
12850562 TTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGATTCTCAGACGTTCT
1 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCT
* * *
12850627 CAGATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCT
66 CAAATATAGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATCCT
* *
12850692 TGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCAAA
131 TGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAA
12850740 AGTTCTCAAA
Statistics
Matches: 160, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
202 160 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (202 bp):
TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCT
CAAATATAGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATCCT
TGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAATGTTATTAAACAAACTC
AAGAGGG
Found at i:12850765 original size:119 final size:119
Alignment explanation
Indices: 12850554--12850868 Score: 486
Period size: 119 Copynumber: 2.6 Consensus size: 119
12850544 TAAACAAACT
* *
12850554 CAAGAGGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGATTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
* * * *
12850619 GACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATC
66 AAAGTTCTCAAATATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGATC
12850673 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
* *
12850738 AAAGTTCTCAAATGTAGCAAATCTAACCTTCAGATGTTTATACTGAAGTAGATC
66 AAAGTTCTCAAATATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGATC
* * * * * * *
12850792 CAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAATCGAGGACGTAACAGATATGACTCTCG
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
*
12850857 AATGTTCTCAAA
66 AAAGTTCTCAAA
12850869 ACAGACTCAA
Statistics
Matches: 180, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
119 180 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (119 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
AAAGTTCTCAAATATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGATC
Found at i:12852438 original size:22 final size:21
Alignment explanation
Indices: 12852413--12852495 Score: 64
Period size: 22 Copynumber: 3.9 Consensus size: 21
12852403 TATTTTCTTT
12852413 ATATAATTTATTTATTATAAAA
1 ATAT-ATTTATTTATTATAAAA
*
12852435 ATATACTTATATTATTACT-AAA
1 ATATATTTAT-TTATTA-TAAAA
* *
12852457 ATACCATTTATATATTTATAAAA
1 ATA-TATTTATTTA-TTATAAAA
*
12852480 A-CT-TTTATTTATTATA
1 ATATATTTATTTATTATA
12852496 CATTGTTTAC
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
19 5 0.10
20 7 0.14
21 5 0.10
22 19 0.39
23 13 0.27
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATATTTATTTATTATAAAA
Found at i:12852632 original size:2 final size:2
Alignment explanation
Indices: 12852625--12852649 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12852615 TATATTATTT
12852625 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 T
12852650 TATTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12854894 original size:26 final size:26
Alignment explanation
Indices: 12854858--12854963 Score: 194
Period size: 26 Copynumber: 4.1 Consensus size: 26
12854848 GTACAAATTA
12854858 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
12854884 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
12854910 ATAATAGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
12854936 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
12854962 AT
1 AT
12854964 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:12857899 original size:15 final size:15
Alignment explanation
Indices: 12857871--12857904 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12857861 CTCCCTGTCA
* *
12857871 GGGAATAATGAAATG
1 GGGAAAAATAAAATG
12857886 GGGAAAAATAAAATG
1 GGGAAAAATAAAATG
12857901 GGGA
1 GGGA
12857905 CATCAGCAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (15 bp):
GGGAAAAATAAAATG
Found at i:12864158 original size:119 final size:118
Alignment explanation
Indices: 12863947--12864287 Score: 531
Period size: 119 Copynumber: 2.9 Consensus size: 118
12863937 AATTGAAGAC
* * *
12863947 AGCAGATCTAGA-CTTCAGACTTTTATGCTGAAGCAGATCCAAGATAATTTGGTTTTCTTGTGTT
1 AGCAGATCTA-ACCTTCAGA-TTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTT
* * * * *
12864011 TACAAGGAACAAATTGAGGATATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
64 TACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATAT
*
12864066 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAAATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGAT-TTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
12864131 ACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATAT
65 ACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATAT
* *
12864185 AGCAGATCTAACCTTCAGGTATTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGAT-TTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
*
12864250 ACAAGGAACAAATCGAGGACATTGCAGATATGACTCTC
65 ACAAGGAACAAATCGAGGACATAGCAGATATGACTCTC
12864288 GAATGTTATT
Statistics
Matches: 206, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
118 2 0.01
119 204 0.99
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (118 bp):
AGCAGATCTAACCTTCAGATTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTA
CAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATAT
Found at i:12864465 original size:202 final size:202
Alignment explanation
Indices: 12864111--12864489 Score: 526
Period size: 202 Copynumber: 1.9 Consensus size: 202
12864101 AATCCAAGAT
* * *
12864111 GATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTT
* ** *
12864176 CTCAAATATAGCAGATCTAACCTTCAGGTATTTATACTAAAGCAGATCCAAGATGATTTGGTATT
66 CTCAAATATAGCAGATCTAACATTCAAATATTTATACTAAAGCAGATCCAAGATGATTTGGCATT
* *
12864241 CTTGTGTTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCGAATGTTATTAAACAAAC
131 CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCGAATGTTATTAAACAAAC
12864306 TCAAGTG
196 TCAAGTG
* * * * * *
12864313 GATTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGATTCTTAGACGTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTT
* * * ** *
12864378 CTCAGATATAGTAGATCTAACATTCAAATGTTTATACTGCAGCAGATCCAAGATGGTTTGGCA-T
66 CTCAAATATAGCAGATCTAACATTCAAATATTTATACTAAAGCAGATCCAAGATGATTTGGCATT
* * *
12864442 CTTTGTGCTTAGAAGGGACAAATCGAGGACATAGCAGATTTGACTCTC
131 C-TTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTC
12864490 AAAAGTTCTC
Statistics
Matches: 152, Mismatches: 24, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
201 2 0.01
202 150 0.99
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (202 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTT
CTCAAATATAGCAGATCTAACATTCAAATATTTATACTAAAGCAGATCCAAGATGATTTGGCATT
CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCGAATGTTATTAAACAAAC
TCAAGTG
Found at i:12864528 original size:119 final size:119
Alignment explanation
Indices: 12864307--12864621 Score: 434
Period size: 119 Copynumber: 2.6 Consensus size: 119
12864297 TAAACAAACT
* *
12864307 CAAG-TGGATTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGATTCTT
1 CAAGATGG-TTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTC
* * * * *
12864371 AGACGTTCTCAGATATAGTAGATCTAACATTCAAATGTTTATACTGCAGCAGATC
65 AAAAGTTCTCAAATATAGCAGATCTAACATTCAAATGTTTATACTGAAGCAGATC
* *
12864426 CAAGATGGTTTGGCATCTTTGTGCTTAGAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
* * * *
12864491 AAAGTTCTCAAATGTAGCAGATCTAACCTTCAGATGTTTATACTGAAGTAGATC
66 AAAGTTCTCAAATATAGCAGATCTAACATTCAAATGTTTATACTGAAGCAGATC
* * * * * *
12864545 CAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAATCGAGGACGTAGCAGATATGACTCTCG
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
*
12864610 AATGTTCTCAAA
66 AAAGTTCTCAAA
12864622 ACAGACTCAA
Statistics
Matches: 173, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
119 170 0.98
120 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (119 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
AAAGTTCTCAAATATAGCAGATCTAACATTCAAATGTTTATACTGAAGCAGATC
Found at i:12864600 original size:321 final size:321
Alignment explanation
Indices: 12864003--12864615 Score: 949
Period size: 321 Copynumber: 1.9 Consensus size: 321
12863993 ATTTGGTTTT
* * *
12864003 CTTGTGTTTACAAGGAACAAATTGAGGATATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
1 CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
* * * *
12864068 CAGATCTAACCTTCAGATGTTTATACTGAAGCAAATCCAAGATGATTTGGTATTCTTGTGTTTAC
66 CAGATCTAACATTCAAATGTTTATACTGAAGCAAATCCAAGATGATTTGGCATTCTTGTGCTTAC
12864133 AAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATATAGCAGATCTAACC
131 AAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATATAGCAGATCTAACC
* * * **
12864198 TTCAGGTATTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAAT
196 TTCAGATATTTATACTAAAGCAGATCCAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAAT
*
12864263 CGAGGACATTGCAGATATGACTCTCGAATGTTATTAAACAAACTCAAGTGGATTTGGCATC
261 CGAGGACATAGCAGATATGACTCTCGAATGTTATTAAACAAACTCAAGTGGATTTGGCATC
* * * *
12864324 CTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGATTCTTAGACGTTCTCAGATATAG
1 CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
* * * *
12864389 TAGATCTAACATTCAAATGTTTATACTGCAGCAGATCCAAGATGGTTTGGCA-TCTTTGTGCTTA
66 CAGATCTAACATTCAAATGTTTATACTGAAGCAAATCCAAGATGATTTGGCATTC-TTGTGCTTA
* * * *
12864453 GAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATGTAGCAGATCTAAC
130 CAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATATAGCAGATCTAAC
* * *
12864518 CTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAA
195 CTTCAGATATTTATACTAAAGCAGATCCAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAA
*
12864583 TCGAGGACGTAGCAGATATGACTCTCGAATGTT
260 TCGAGGACATAGCAGATATGACTCTCGAATGTT
12864616 CTCAAAACAG
Statistics
Matches: 262, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
320 2 0.01
321 260 0.99
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (321 bp):
CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
CAGATCTAACATTCAAATGTTTATACTGAAGCAAATCCAAGATGATTTGGCATTCTTGTGCTTAC
AAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATATAGCAGATCTAACC
TTCAGATATTTATACTAAAGCAGATCCAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAAT
CGAGGACATAGCAGATATGACTCTCGAATGTTATTAAACAAACTCAAGTGGATTTGGCATC
Found at i:12866393 original size:2 final size:2
Alignment explanation
Indices: 12866386--12866410 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12866376 TATATTATTT
12866386 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 T
12866411 TATTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12866438 original size:51 final size:52
Alignment explanation
Indices: 12866328--12866439 Score: 117
Period size: 51 Copynumber: 2.2 Consensus size: 52
12866318 TATATTACTT
* *
12866328 ATTATTTTT-TATATATATTATATATCACATATTACCAATTATACAAATTAT
1 ATTATTTTTATATATATATTATATATCACATATTACCAATTATAAAAATTAA
* ***
12866379 ATTA-TTTTATATATATATATATATAT-ATATATTA-TTTTTA-AAAAATGTAA
1 ATTATTTTTATATATATAT-TATATATCACATATTACCAATTATAAAAAT-TAA
12866429 ATTATTTTTAT
1 ATTATTTTTAT
12866440 TAGATCATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
49 5 0.10
50 13 0.25
51 26 0.51
52 7 0.14
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (52 bp):
ATTATTTTTATATATATATTATATATCACATATTACCAATTATAAAAATTAA
Found at i:12868655 original size:26 final size:26
Alignment explanation
Indices: 12868619--12868698 Score: 151
Period size: 26 Copynumber: 3.1 Consensus size: 26
12868609 GTACAAATTA
12868619 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
12868645 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
12868671 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
12868697 AT
1 AT
12868699 GGGAATTTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:12875653 original size:26 final size:26
Alignment explanation
Indices: 12875617--12875722 Score: 167
Period size: 26 Copynumber: 4.1 Consensus size: 26
12875607 GTACAAATTA
*
12875617 ATAACGGGTTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATATTCCATG
*
12875643 ATAATGGGTTAGGTAAATATTTCATG
1 ATAATGGGTTAGGTAAATATTCCATG
* *
12875669 ATAATGGGTTAGGTAAATGTTCCATA
1 ATAATGGGTTAGGTAAATATTCCATG
*
12875695 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATATTCCATG
12875721 AT
1 AT
12875723 GGGAATTTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATATTCCATG
Found at i:12882799 original size:32 final size:35
Alignment explanation
Indices: 12882742--12882827 Score: 90
Period size: 38 Copynumber: 2.5 Consensus size: 35
12882732 CAACACATCA
* *
12882742 TTTTCATTTGTTAAC-CTTTTAGGATA-A-CAACC
1 TTTTCATTTGATATCTCTTTTAGGATATATCAACC
12882774 TTTTCATTTGATATCTCTTTT-GGATATATTTTTCAACC
1 TTTTCATTTGATATCTCTTTTAGGATATA----TCAACC
12882812 TTTTCATTTGATATCT
1 TTTTCATTTGATATCT
12882828 ATTTCAGATA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
32 18 0.40
33 6 0.13
38 21 0.47
ACGTcount: A:0.23, C:0.16, G:0.08, T:0.52
Consensus pattern (35 bp):
TTTTCATTTGATATCTCTTTTAGGATATATCAACC
Found at i:12882838 original size:38 final size:40
Alignment explanation
Indices: 12882769--12882858 Score: 121
Period size: 38 Copynumber: 2.3 Consensus size: 40
12882759 TTTAGGATAA
* ** *
12882769 CAACCTTTTCATTTGATATCTCTTTTGGATA-TA-TTTTT
1 CAACCTTTTCATTTGATATCTATTTCAGATATTACCTTTT
12882807 CAACCTTTTCATTTGATATCTATTTCAGATATTTACCTTTT
1 CAACCTTTTCATTTGATATCTATTTCAGATA-TTACCTTTT
12882848 CAACCTTTTCA
1 CAACCTTTTCA
12882859 AGAATTTGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
38 28 0.62
40 2 0.04
41 15 0.33
ACGTcount: A:0.23, C:0.20, G:0.06, T:0.51
Consensus pattern (40 bp):
CAACCTTTTCATTTGATATCTATTTCAGATATTACCTTTT
Found at i:12885614 original size:27 final size:27
Alignment explanation
Indices: 12885570--12885650 Score: 101
Period size: 27 Copynumber: 2.9 Consensus size: 27
12885560 GTCACCAGAT
12885570 ACAGATATTTTGTGGCAGTGCCACCAAA
1 ACAGATA-TTTGTGGCAGTGCCACCAAA
* * *
12885598 ACAGATATATGTGGCAGGGCCACCAGA
1 ACAGATATTTGTGGCAGTGCCACCAAA
12885625 ACAGATAATTTGTGGCA-TAGCCACCA
1 ACAGAT-ATTTGTGGCAGT-GCCACCA
12885651 GGACGCTTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.50
28 23 0.50
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGTGCCACCAAA
Found at i:12885804 original size:28 final size:28
Alignment explanation
Indices: 12885757--12885852 Score: 174
Period size: 28 Copynumber: 3.4 Consensus size: 28
12885747 AAATTAACCC
* *
12885757 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
12885785 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
12885813 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
12885841 TAGGGGTATAAT
1 TAGGGGTATAAT
12885853 AGTACATCTA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:12894233 original size:43 final size:43
Alignment explanation
Indices: 12894127--12894246 Score: 127
Period size: 43 Copynumber: 2.7 Consensus size: 43
12894117 GATATCTTTG
* * *
12894127 ATTTGCTCCCTGACAATACA-AGGATGTCAAATCTGCTATCTTCG
1 ATTTG-TCCCTAACAATACAGA-GATGCCAAATCTGCTATCTTCA
* * * *
12894171 ATCTGCCCTCTAATAATACAGAGATGCCAAATTTGCT-TCTTCA
1 ATTTGTCC-CTAACAATACAGAGATGCCAAATCTGCTATCTTCA
12894214 ATTTGTTCCCTAACAATACAGAGATGCCAAATC
1 ATTTG-TCCCTAACAATACAGAGATGCCAAATC
12894247 ATCTTAGATT
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
43 33 0.53
44 28 0.45
45 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (43 bp):
ATTTGTCCCTAACAATACAGAGATGCCAAATCTGCTATCTTCA
Found at i:12894379 original size:87 final size:84
Alignment explanation
Indices: 12894288--12894557 Score: 212
Period size: 87 Copynumber: 3.1 Consensus size: 84
12894278 AAGCCAAATT
* *
12894288 TGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTGGGATCTACTTCAGT
1 TGCTATG-CTTCGATTTGTTCCTTGTAAACACAAGGA-GCCAAATCATCTTGGATCTGCTTCAGT
12894353 ATAAACATCTGAAGGTTAGATC
64 A-AAACATCTGAAGGTTAGATC
* ** * * *
12894375 TGCTATG--T-G-TCTGCTCTCC--GTCGA-ATATGGAGACGTCAGATCTGTTATCTTGGATCTG
1 TGCTATGCTTCGATTTG-T-TCCTTGTAAACACAAGGAG-C--CAAATC----ATCTTGGATCTG
* *
12894433 CTTTGATGTGAAAACATCTGAAGGTCAGATC
57 C-TTCA-GT-AAAACATCTGAAGGTTAGATC
* *
12894464 TGCTATGCTTTCGATTTGCTCCTTGTAAACACAAGAACGCCAAATCATCTTGGATCTGCTTCAGT
1 TGCTATGC-TTCGATTTGTTCCTTGTAAACACAAGGA-GCCAAATCATCTTGGATCTGCTTCAGT
12894529 AAAAACATCTGAAGGTTAGATC
64 -AAAACATCTGAAGGTTAGATC
*
12894551 TACTATG
1 TGCTATG
12894558 TATCTGCTCT
Statistics
Matches: 140, Mismatches: 22, Indels: 42
0.69 0.11 0.21
Matches are distributed among these distances:
80 1 0.01
81 6 0.04
82 6 0.04
83 7 0.05
84 4 0.03
87 46 0.33
88 6 0.04
89 41 0.29
90 1 0.01
92 4 0.03
93 6 0.04
94 6 0.04
95 5 0.04
96 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (84 bp):
TGCTATGCTTCGATTTGTTCCTTGTAAACACAAGGAGCCAAATCATCTTGGATCTGCTTCAGTAA
AACATCTGAAGGTTAGATC
Found at i:12894457 original size:89 final size:88
Alignment explanation
Indices: 12894355--12894648 Score: 255
Period size: 89 Copynumber: 3.3 Consensus size: 88
12894345 ACTTCAGTAT
* * * *
12894355 AAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGTCAGATCTGT
1 AAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCC-TTGAATATGGAGACGCCAGATCTGT
12894420 TATCTTGGATCTGCTTTGATGTGA
65 TATCTTGGATCTGCTTTGATGTGA
* * *** *
12894444 AAACATCTGAAGGTCAGATCTGCTATGCTTTC-GATTTGCTCCTTGTAA-ACACAAGAACGCCAA
1 AAACATCTGAAGGTCAGATCTGCTATG-TATCTG--CT-CTCCTTG-AATA-TGGAG-ACGCCAG
* *
12894507 ATC----ATCTTGGATCTGC-TTCA-GTAA
59 ATCTGTTATCTTGGATCTGCTTTGATGTGA
* * * * *
12894531 AAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCTATTTGAATATGGAGATGCCAGATTTG
1 AAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTC--CTTGAATATGGAGACGCCAGATCTG
12894596 TTATCTTGGATCTGCTTTGATGTGA
64 TTATCTTGGATCTGCTTTGATGTGA
* *
12894621 GAACAT-TCGAAAGTCAGATCTGCTATGT
1 AAACATCT-GAAGGTCAGATCTGCTATGT
12894649 CTTCGATTTG
Statistics
Matches: 159, Mismatches: 28, Indels: 35
0.72 0.13 0.16
Matches are distributed among these distances:
84 10 0.06
85 5 0.03
86 7 0.04
87 29 0.18
88 16 0.10
89 44 0.28
90 28 0.18
91 4 0.03
92 8 0.05
93 8 0.05
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (88 bp):
AAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCTTGAATATGGAGACGCCAGATCTGTT
ATCTTGGATCTGCTTTGATGTGA
Found at i:12898934 original size:18 final size:17
Alignment explanation
Indices: 12898908--12898942 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12898898 AAAGATCCGA
*
12898908 AGACACATCACAATCCT
1 AGACACATCAAAATCCT
12898925 AGACATCATCAAAATCCT
1 AGACA-CATCAAAATCCT
12898943 GATATTCCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.43, C:0.31, G:0.06, T:0.20
Consensus pattern (17 bp):
AGACACATCAAAATCCT
Found at i:12902634 original size:16 final size:14
Alignment explanation
Indices: 12902593--12902645 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
12902583 TTTATAACTT
12902593 TGAATGCAAATG-A
1 TGAATGCAAATGCA
12902606 TGCAATG-AAATGCTA
1 TG-AATGCAAATGC-A
12902621 TGAGATGCAAATGCA
1 TGA-ATGCAAATGCA
12902636 TGAATGCAAA
1 TGAATGCAAA
12902646 AAGGACATCG
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 7 0.20
14 12 0.34
15 10 0.29
16 6 0.17
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (14 bp):
TGAATGCAAATGCA
Found at i:12906488 original size:18 final size:19
Alignment explanation
Indices: 12906451--12906488 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
12906441 GAGTAATTAT
*
12906451 TTAAAATATACATATATAA
1 TTAAAATACACATATATAA
*
12906470 TTAAAATACA-ATATTTAA
1 TTAAAATACACATATATAA
12906488 T
1 T
12906489 AATGCATGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAAATACACATATATAA
Found at i:12906650 original size:22 final size:20
Alignment explanation
Indices: 12906607--12906669 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
12906597 AATATTTTAC
12906607 ATATA-AAAATATAAT-AAA
1 ATATATAAAATATAATAAAA
12906625 ATA-AGT--AATATAATAAAA
1 ATATA-TAAAATATAATAAAA
*
12906643 ATATATAACATATAATAAAA
1 ATATATAAAATATAATAAAA
*
12906663 TTATATA
1 ATATATA
12906670 TATAGTGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 9 0.24
18 10 0.27
19 1 0.03
20 17 0.46
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
ATATATAAAATATAATAAAA
Found at i:12906671 original size:22 final size:20
Alignment explanation
Indices: 12906632--12906669 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
12906622 AAAATAAGTA
12906632 ATATAATAAAAATATATAAC
1 ATATAATAAAAATATATAAC
*
12906652 ATATAATAAAATTATATA
1 ATATAATAAAAATATATA
12906670 TATAGTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
ATATAATAAAAATATATAAC
Found at i:12906672 original size:17 final size:16
Alignment explanation
Indices: 12906614--12906673 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 16
12906604 TACATATAAA
*
12906614 AATATAATAAAATAAGT
1 AATATAATAAAATTA-T
12906631 AATATAATAAAAATATAT
1 AATATAAT-AAAAT-TAT
12906649 AACATATAATAAAATTAT
1 -A-ATATAATAAAATTAT
12906667 ATATATA
1 A-ATATA
12906674 GTGTTACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 14 0.38
18 9 0.24
19 7 0.19
20 7 0.19
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
AATATAATAAAATTAT
Found at i:12912216 original size:26 final size:27
Alignment explanation
Indices: 12912165--12912221 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
12912155 ACAGAGAAGC
* *
12912165 AAAACGAAAACAGGGGAGAAAGGAAAG
1 AAAAAGAAAACAGGGAAGAAAGGAAAG
12912192 AAAAAGAAAA-AGGGAAGGAAA-GAAAG
1 AAAAAGAAAACAGGGAA-GAAAGGAAAG
12912218 AAAA
1 AAAA
12912222 TTTGGGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.67, C:0.04, G:0.30, T:0.00
Consensus pattern (27 bp):
AAAAAGAAAACAGGGAAGAAAGGAAAG
Found at i:12912931 original size:2 final size:2
Alignment explanation
Indices: 12912924--12912964 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
12912914 TTAAATTGGA
12912924 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT GA- AT 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
12912965 GTGTAAATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 2 0.06
2 33 0.92
3 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12913175 original size:22 final size:22
Alignment explanation
Indices: 12913146--12913205 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
12913136 CTAGAACATT
* *
12913146 AGTGCTCTCTATTTAGCATATTC
1 AGTGCTCTCTGTTTAACA-ATTC
*
12913169 -GTGCTCTCTGTTTAACACTTC
1 AGTGCTCTCTGTTTAACAATTC
12913190 AGTGCTCTCTGTTTAA
1 AGTGCTCTCTGTTTAA
12913206 TAGTTCATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 30 0.91
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.43
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAACAATTC
Found at i:12913212 original size:22 final size:21
Alignment explanation
Indices: 12913146--12913212 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 21
12913136 CTAGAACATT
*
12913146 AGTGCTCTCTATTTAGCATATTC
1 AGTGCTCTCTGTTTA--ATATTC
*
12913169 -GTGCTCTCTGTTTAACACTTC
1 AGTGCTCTCTGTTTAATA-TTC
12913190 AGTGCTCTCTGTTTAATAGTTC
1 AGTGCTCTCTGTTTAATA-TTC
12913212 A
1 A
12913213 TAATAATGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
20 2 0.05
21 3 0.08
22 33 0.87
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.43
Consensus pattern (21 bp):
AGTGCTCTCTGTTTAATATTC
Found at i:12913937 original size:33 final size:34
Alignment explanation
Indices: 12913894--12913965 Score: 119
Period size: 33 Copynumber: 2.1 Consensus size: 34
12913884 GGGACACTTG
* *
12913894 GTTAATGAGAAAACGAAACGACAGTTTAACATAT
1 GTTAATGAGAAAACAAAACGAAAGTTTAACATAT
12913928 -TTAATGAGAAAACAAAACGAAAGTTTAACATAT
1 GTTAATGAGAAAACAAAACGAAAGTTTAACATAT
12913961 GTTAA
1 GTTAA
12913966 CTTAAGCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 31 0.89
34 4 0.11
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (34 bp):
GTTAATGAGAAAACAAAACGAAAGTTTAACATAT
Found at i:12918569 original size:21 final size:21
Alignment explanation
Indices: 12918543--12918583 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12918533 ATCTGCTCAA
* *
12918543 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
12918564 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
12918584 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:12921418 original size:13 final size:13
Alignment explanation
Indices: 12921400--12921424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12921390 GGCTTCGCCC
12921400 GGACCAAAATTGG
1 GGACCAAAATTGG
12921413 GGACCAAAATTG
1 GGACCAAAATTG
12921425 CAATTATCCC
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:0.40, C:0.16, G:0.28, T:0.16
Consensus pattern (13 bp):
GGACCAAAATTGG
Found at i:12921481 original size:104 final size:104
Alignment explanation
Indices: 12921301--12921489 Score: 360
Period size: 104 Copynumber: 1.8 Consensus size: 104
12921291 AATGGCCTAA
12921301 AAAATTAGGGACCAAAATTGCAATTATCCCATTCAACTTTTCAACATTCGGTGCAACTTACTTCA
1 AAAATTAGGGACCAAAATTGCAATTATCCCATTCAACTTTTCAACATTCGGTGCAACTTACTTCA
12921366 CCTTTTTAACAAGTTGCTTCTGGTGGCTTCGCCCGGACC
66 CCTTTTTAACAAGTTGCTTCTGGTGGCTTCGCCCGGACC
* *
12921405 AAAATTGGGGACCAAAATTGCAATTATCCCATTCAACTTTTCAACATTCGGTGCAACTTGCTTCA
1 AAAATTAGGGACCAAAATTGCAATTATCCCATTCAACTTTTCAACATTCGGTGCAACTTACTTCA
12921470 CCTTTTTAACAAGTTGCTTC
66 CCTTTTTAACAAGTTGCTTC
12921490 CTACCTTTGT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 83 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (104 bp):
AAAATTAGGGACCAAAATTGCAATTATCCCATTCAACTTTTCAACATTCGGTGCAACTTACTTCA
CCTTTTTAACAAGTTGCTTCTGGTGGCTTCGCCCGGACC
Found at i:12922391 original size:31 final size:31
Alignment explanation
Indices: 12922353--12922415 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
12922343 ACTGGCCATA
12922353 CTAGTCCCAATTCATCCATCTATCTTTGTAT
1 CTAGTCCCAATTCATCCATCTATCTTTGTAT
12922384 CTAGTCCCAATTCATCCATCTATCTTTGTAT
1 CTAGTCCCAATTCATCCATCTATCTTTGTAT
12922415 C
1 C
12922416 ACACAACTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.30, G:0.06, T:0.41
Consensus pattern (31 bp):
CTAGTCCCAATTCATCCATCTATCTTTGTAT
Found at i:12922904 original size:33 final size:34
Alignment explanation
Indices: 12922845--12922912 Score: 120
Period size: 33 Copynumber: 2.0 Consensus size: 34
12922835 AATTTCAGCA
*
12922845 CTCAAATTACTTGTGTGTAAGCAAGCAATGCGCT
1 CTCAAATTACTTGTGTGTAAGCAAGCAATACGCT
12922879 CTCAAATTACTTGTGT-TAAGCAAGCAATACGCT
1 CTCAAATTACTTGTGTGTAAGCAAGCAATACGCT
12922912 C
1 C
12922913 CCCATATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (34 bp):
CTCAAATTACTTGTGTGTAAGCAAGCAATACGCT
Found at i:12931464 original size:13 final size:13
Alignment explanation
Indices: 12931446--12931470 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12931436 CTTACTCCAC
12931446 ATGTAAAAAAATT
1 ATGTAAAAAAATT
12931459 ATGTAAAAAAAT
1 ATGTAAAAAAAT
12931471 GGGGTAAAAG
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:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (13 bp):
ATGTAAAAAAATT
Found at i:12944767 original size:44 final size:44
Alignment explanation
Indices: 12944717--12944807 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
12944707 TAATTGTAAT
* * * *
12944717 TTAAATTCTAATTCTTTTTAAATGTGTAATTAGT-ACAACTTTTA
1 TTAAATTATAATTATTTTTAAATGTATAATTA-TAACAACTTCTA
*
12944761 TTAAATTATAGTTATTTTTAAATGTATAATTATAACAACTTCTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATAACAACTTCTA
12944805 TTA
1 TTA
12944808 TATTTCAACT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.49
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGTATAATTATAACAACTTCTA
Found at i:12948015 original size:16 final size:17
Alignment explanation
Indices: 12947984--12948016 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12947974 TTCATAAGTA
12947984 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
12948001 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
12948017 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:12948362 original size:46 final size:46
Alignment explanation
Indices: 12948302--12948796 Score: 695
Period size: 46 Copynumber: 10.8 Consensus size: 46
12948292 TTTGACATAA
* * * * * * *
12948302 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGT
*** * * **
12948348 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTTATGTTACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGT
** ****
12948394 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGT
* *
12948439 TGCCATGGTATCTTTCGACCATGGTCTTACACATTTTATATCCTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGT
*
12948485 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGT
* *
12948531 TACCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCCTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGT
*
12948577 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGT
* * *
12948623 TGTCATGGAATCTTTCAACCATGGTCTTACACATTTTATATCCTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGT
* *
12948669 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCTTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGT
12948715 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGT
*
12948761 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
12948797 CATTTCAGAA
Statistics
Matches: 404, Mismatches: 44, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
45 36 0.09
46 368 0.91
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGT
Found at i:12951647 original size:14 final size:14
Alignment explanation
Indices: 12951628--12951704 Score: 68
Period size: 14 Copynumber: 5.4 Consensus size: 14
12951618 TGTAAGGAAG
12951628 TATAGTATAATATATA
1 TATA-TATAATATA-A
*
12951644 TAGTGTATAATATAA
1 TA-TATATAATATAA
* *
12951659 TTTACA-AATA-AA
1 TATATATAATATAA
*
12951671 AATATATAATATAA
1 TATATATAATATAA
*
12951685 TGTATATAATATAA
1 TATATATAATATAA
12951699 TATATA
1 TATATA
12951705 AAAAAGTATT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
12 5 0.10
13 8 0.17
14 21 0.44
15 2 0.04
16 11 0.23
17 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.40
Consensus pattern (14 bp):
TATATATAATATAA
Found at i:12951700 original size:26 final size:26
Alignment explanation
Indices: 12951649--12951705 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
12951639 ATATATAGTG
*
12951649 TATAATATAATTTACAAATAAAAATA
1 TATAATATAATGTACAAATAAAAATA
* *
12951675 TATAATATAATGTATATAAT-ATAATA
1 TATAATATAATGTACA-AATAAAAATA
12951701 TATAA
1 TATAA
12951706 AAAAGTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 24 0.89
27 3 0.11
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (26 bp):
TATAATATAATGTACAAATAAAAATA
Found at i:12951869 original size:20 final size:20
Alignment explanation
Indices: 12951829--12951890 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
12951819 ACATATAAAA
*
12951829 ATATAATGAAATA-A-ATA-
1 ATATAATAAAATATATATAC
12951846 ATATAATAAAA-ATATATAAC
1 ATATAATAAAATATATAT-AC
*
12951866 ATATAATAAAATTTATATAC
1 ATATAATAAAATATATATAC
12951886 ATATA
1 ATATA
12951891 TAATGTTACA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.03
17 11 0.29
18 2 0.05
19 1 0.03
20 18 0.47
21 5 0.13
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATAATAAAATATATATAC
Found at i:12953934 original size:173 final size:173
Alignment explanation
Indices: 12953626--12954023 Score: 620
Period size: 173 Copynumber: 2.3 Consensus size: 173
12953616 ATGCCAAATC
* * * * * * *
12953626 ATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCTACTGTG-TCTTCGATTTGCTCCT
1 ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATGCT-TTCGATTTGCTCCT
* * *
12953690 TGTGAACACAAGGATGCCAAATCATCTTGGATTTACTTCAGTGAAATCATCTGAAGGTTAGATCT
65 TGTAAACACAAGGATGCCAAATAATCTTGGATCTACTTCAGTGAAATCATCTGAAGGTTAGATCT
*
12953755 GCTATGTATCTGCTCTCCGTCGAAATGGAGATGTCAGATCTGTT
130 GCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGTT
* *
12953799 ATCTTGGATCTGCTTTAGTGTAAACACGTGAAGGCCAGATCTGCTATGCTTTTGATTTG-TCCCT
1 ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATGCTTTCGATTTGCT-CCT
* *
12953863 TGTAAACACAATGATGCCAAATAATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATCT
65 TGTAAACACAAGGATGCCAAATAATCTTGGATCTACTTCAGTGAAATCATCTGAAGGTTAGATCT
*
12953928 GCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATTTGTT
130 GCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGTT
12953972 ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATGCTTT
1 ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATGCTTT
12954024 GGTCTGTTAC
Statistics
Matches: 206, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
172 1 0.00
173 204 0.99
174 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (173 bp):
ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATGCTTTCGATTTGCTCCTT
GTAAACACAAGGATGCCAAATAATCTTGGATCTACTTCAGTGAAATCATCTGAAGGTTAGATCTG
CTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGTT
Found at i:12953989 original size:86 final size:85
Alignment explanation
Indices: 12953713--12954019 Score: 288
Period size: 86 Copynumber: 3.6 Consensus size: 85
12953703 ATGCCAAATC
* * **
12953713 ATCTTGGATTTACTTCAGTG-AAATCATC-TGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTC
1 ATCTTGGATCTGCTTCAGTGTAAA-CA-CGTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTC
*
12953776 GAAATGGAGATGTCAGATCTGTT
64 GAAATGGAGATGCCAGAT-TGTT
* * * * *
12953799 ATCTTGGATCTGCTTTAGTGTAAACACGTGAAGGCCAGATCTGCTATGCT-TTTGATTTGTCCCT
1 ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATG-TATCTG--CTCTCCGT
* *** * *
12953863 TGTAAACACAATGATGCCA-A--ATA
63 CG-AAA-TGGA-GATGCCAGATTGTT
**
12953886 ATCTTGGATCTGCTTCAGTG-AAATCATC-TGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTC
1 ATCTTGGATCTGCTTCAGTGTAAA-CA-CGTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTC
12953949 GAAATGGAGATGCCAGATTTGTT
64 GAAATGGAGATGCCAGA-TTGTT
12953972 ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATG
1 ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATG
12954020 CTTTGGTCTG
Statistics
Matches: 173, Mismatches: 31, Indels: 34
0.73 0.13 0.14
Matches are distributed among these distances:
82 7 0.04
83 2 0.01
84 3 0.02
85 8 0.05
86 85 0.49
87 50 0.29
88 7 0.04
89 3 0.02
90 2 0.01
91 6 0.03
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (85 bp):
ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGA
AATGGAGATGCCAGATTGTT
Found at i:12962067 original size:14 final size:16
Alignment explanation
Indices: 12962032--12962068 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
12962022 CAAACGATGC
12962032 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
12962047 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
12962062 -ATGCAAA
1 GATGCAAA
12962069 AAGGACATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:12965881 original size:23 final size:23
Alignment explanation
Indices: 12965851--12965896 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12965841 GTTGAATAAT
12965851 AAAATAATGATAAAAGAGAACCC
1 AAAATAATGATAAAAGAGAACCC
12965874 AAAATAATGATAAAAGAGAACCC
1 AAAATAATGATAAAAGAGAACCC
12965897 CTTCCCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (23 bp):
AAAATAATGATAAAAGAGAACCC
Found at i:12966105 original size:5 final size:5
Alignment explanation
Indices: 12966097--12966187 Score: 68
Period size: 5 Copynumber: 18.8 Consensus size: 5
12966087 ATATATAGTG
* * *
12966097 TATAA TATAA TTTACA AATAA -A-AA TAT-A TAGTAA TATAA -ATTA TATAA
1 TATAA TATAA TATA-A TATAA TATAA TATAA TA-TAA TATAA TATAA TATAA
* *
12966145 TATAA TATAA -AAATA TATAA TATAA TGT-A TATAA TATAA TATA
1 TATAA TATAA TATA-A TATAA TATAA TATAA TATAA TATAA TATA
12966188 TAAAAAAAGT
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
3 2 0.03
4 13 0.19
5 45 0.66
6 8 0.12
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:12966194 original size:37 final size:36
Alignment explanation
Indices: 12966114--12966193 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 36
12966104 TAATTTACAA
12966114 ATAAAAATATATAGTAATATAAATTATATAATATAAT
1 ATAAAAA-ATATAGTAATATAAATTATATAATATAAT
12966151 AT-AAAAATATA-TAATAT-AATGTATATAATATAAT
1 ATAAAAAATATAGTAATATAAAT-TATATAATATAAT
12966185 ATATAAAAA
1 ATA-AAAAA
12966194 AAGTATTATG
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
33 3 0.08
34 21 0.52
35 5 0.12
36 9 0.22
37 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (36 bp):
ATAAAAAATATAGTAATATAAATTATATAATATAAT
Done.