Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 232 of 310
Found at i:76352145 original size:21 final size:20
Alignment explanation
Indices: 76352117--76352155 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
76352107 ATATGTAATT
76352117 TGAAGTTTCTTAATAGATTA
1 TGAAGTTTCTTAATAGATTA
* *
76352137 TGAATGTTTGTTGATAGAT
1 TGAA-GTTTCTTAATAGAT
76352156 ATACAAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (20 bp):
TGAAGTTTCTTAATAGATTA
Found at i:76352454 original size:21 final size:21
Alignment explanation
Indices: 76352428--76352469 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
76352418 TAGAAGAATA
76352428 AATAAGCTGATTTTGATTACT
1 AATAAGCTGATTTTGATTACT
76352449 AATAAGCTGATTTTGATTACT
1 AATAAGCTGATTTTGATTACT
76352470 TATAGATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (21 bp):
AATAAGCTGATTTTGATTACT
Found at i:76353326 original size:18 final size:19
Alignment explanation
Indices: 76353303--76353338 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
76353293 TTGTAAAGTG
76353303 AATTTTGG-TAAAATTGTT
1 AATTTTGGATAAAATTGTT
*
76353321 AATTTTGGATTAAATTGT
1 AATTTTGGATAAAATTGT
76353339 GAAATATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (19 bp):
AATTTTGGATAAAATTGTT
Found at i:76354935 original size:24 final size:24
Alignment explanation
Indices: 76354904--76354949 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
76354894 ATGGTATAGG
76354904 GATGATGAATTGGTACATTTTGAT
1 GATGATGAATTGGTACATTTTGAT
*
76354928 GATGATGAATTGGTATATTTTG
1 GATGATGAATTGGTACATTTTG
76354950 TGGCATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.43
Consensus pattern (24 bp):
GATGATGAATTGGTACATTTTGAT
Found at i:76356659 original size:74 final size:74
Alignment explanation
Indices: 76356538--76356684 Score: 285
Period size: 74 Copynumber: 2.0 Consensus size: 74
76356528 AAATCCCAAA
76356538 AATTTTCCTTAAATACAGGGCCCCACGCCCGTGTGGACTAGGGACACGCCCGTGTAGTCAGGTCC
1 AATTTTCCTTAAATACAGGGCCCCACGCCCGTGTGGACTAGGGACACGCCCGTGTAGTCAGGTCC
76356603 TGTGGACTC
66 TGTGGACTC
*
76356612 AATTTTCCTTAAATACAGGGCCCCACGCCCGTGTGGACTAGGGACACGCCCGTGTAGTCAGGTCG
1 AATTTTCCTTAAATACAGGGCCCCACGCCCGTGTGGACTAGGGACACGCCCGTGTAGTCAGGTCC
76356677 TGTGGACT
66 TGTGGACT
76356685 TTATATGAGC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.20, C:0.29, G:0.28, T:0.23
Consensus pattern (74 bp):
AATTTTCCTTAAATACAGGGCCCCACGCCCGTGTGGACTAGGGACACGCCCGTGTAGTCAGGTCC
TGTGGACTC
Found at i:76357487 original size:42 final size:41
Alignment explanation
Indices: 76357418--76357577 Score: 117
Period size: 42 Copynumber: 3.8 Consensus size: 41
76357408 AATTGAAACA
* *
76357418 CATAAGTGCTAAACGGAAACTCGTAAGGGTTAAATGAAAGCT
1 CATAAGAGCTAAAC-GAAACCCGTAAGGGTTAAATGAAAGCT
* * * *
76357460 CATAAGAGCTGAACGAAAACCCATAAGGGTTGAACT-AAAACT
1 CATAAGAGCTAAACG-AAACCCGTAAGGGTT-AAATGAAAGCT
* * * *
76357502 TAGAAGAGATAAACTGAAACCCGTTAGGGTTAAACTG-AAGCT
1 CATAAGAGCTAAAC-GAAACCCGTAAGGGTTAAA-TGAAAGCT
* * * **
76357544 CAAAAGAGCTGAAATGAAGCCCAAAAGGGTTAAA
1 CATAAGAGCT-AAACGAAACCCGTAAGGGTTAAA
76357578 ACTCGTATGA
Statistics
Matches: 90, Mismatches: 22, Indels: 12
0.73 0.18 0.10
Matches are distributed among these distances:
41 3 0.03
42 80 0.89
43 7 0.08
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.18
Consensus pattern (41 bp):
CATAAGAGCTAAACGAAACCCGTAAGGGTTAAATGAAAGCT
Found at i:76357493 original size:21 final size:21
Alignment explanation
Indices: 76357441--76357500 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
76357431 CGGAAACTCG
* * * *
76357441 TAAGGGTTAAATGAAAGCTCA
1 TAAGGGTTGAACGAAAACCCA
* *
76357462 TAAGAGCTGAACGAAAACCCA
1 TAAGGGTTGAACGAAAACCCA
*
76357483 TAAGGGTTGAACTAAAAC
1 TAAGGGTTGAACGAAAAC
76357501 TTAGAAGAGA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (21 bp):
TAAGGGTTGAACGAAAACCCA
Found at i:76368157 original size:7 final size:7
Alignment explanation
Indices: 76368145--76368175 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
76368135 TTTTTGCACA
76368145 CACGACT
1 CACGACT
76368152 CACGACT
1 CACGACT
76368159 CACGACT
1 CACGACT
*
76368166 CACAACT
1 CACGACT
76368173 CAC
1 CAC
76368176 CTATTCCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.32, C:0.45, G:0.10, T:0.13
Consensus pattern (7 bp):
CACGACT
Found at i:76374701 original size:16 final size:16
Alignment explanation
Indices: 76374676--76374715 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
76374666 CCTAGGGGAA
*
76374676 AAAGTGTATTTTTGAC
1 AAAGTTTATTTTTGAC
76374692 AAAGTTTATTTTTGAC
1 AAAGTTTATTTTTGAC
76374708 AAAGTTTA
1 AAAGTTTA
76374716 GGGGCAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (16 bp):
AAAGTTTATTTTTGAC
Found at i:76375478 original size:50 final size:50
Alignment explanation
Indices: 76375359--76375654 Score: 254
Period size: 50 Copynumber: 5.9 Consensus size: 50
76375349 GTTGTGAGAA
* * * *** * *
76375359 CACATGTGTAGTACTATGTGCAGGCTACTATGTATTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
* *
76375411 CACATATGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * ** * * * *
76375461 CGCATGTGTAGTACTAAGTTCAGACTACTATC-CGTACTTGACAACTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA-CGTGTACCAGA-TAGTTAGGT
* * *
76375512 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * *
76375562 CACGTGTGTAGTACTAAGTGCAGACTACTATGTGTACCGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * *
76375611 CACATGTGTAGTACTAAGTGCAGGATACTATGCGTGCCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
76375655 CTTTGGTTAC
Statistics
Matches: 194, Mismatches: 47, Indels: 9
0.78 0.19 0.04
Matches are distributed among these distances:
49 40 0.21
50 83 0.43
51 37 0.19
52 34 0.18
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:76375873 original size:16 final size:15
Alignment explanation
Indices: 76375852--76375881 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
76375842 GAATGGAGTA
76375852 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
76375868 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
76375882 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:76385858 original size:40 final size:39
Alignment explanation
Indices: 76385821--76385912 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
76385811 GCTACTCGTT
*
76385821 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
76385861 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
76385900 CAAATGCCTTCGG
1 CAAATGCCTTCGG
76385913 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:76385892 original size:39 final size:40
Alignment explanation
Indices: 76385802--76385965 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
76385792 CGGAATTTAA
** *
76385802 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
76385842 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
76385881 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
76385921 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
76385961 CCGGA
1 CCGGA
76385966 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:76391356 original size:28 final size:28
Alignment explanation
Indices: 76391318--76391424 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
76391308 TAATCATTCG
* *
76391318 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
76391346 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
76391374 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
76391402 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
76391425 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:76394337 original size:25 final size:25
Alignment explanation
Indices: 76394309--76394368 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
76394299 GAGATGTAAA
76394309 CGGTAAGCTCATACGAGCTAAATAT
1 CGGTAAGCTCATACGAGCTAAATAT
* *
76394334 CGGTAAGCTCATGCGAGCTGAATAT
1 CGGTAAGCTCATACGAGCTAAATAT
*
76394359 CAGTAAGCTC
1 CGGTAAGCTC
76394369 TCTTGAGCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (25 bp):
CGGTAAGCTCATACGAGCTAAATAT
Found at i:76397520 original size:42 final size:42
Alignment explanation
Indices: 76397473--76397566 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
76397463 CAATGTAAAA
*
76397473 AGGCCGTGTGCTTCACACGGTCACCAGACATGCCCATGTCAT
1 AGGCCGTGTGCCTCACACGGTCACCAGACATGCCCATGTCAT
* * *
76397515 AGGCCGTGTGCCTCATACGGTCACCAGACATGTCTATGTCAT
1 AGGCCGTGTGCCTCACACGGTCACCAGACATGCCCATGTCAT
76397557 AGGCCGTGTG
1 AGGCCGTGTG
76397567 AAAATAGGGC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.20, C:0.30, G:0.27, T:0.23
Consensus pattern (42 bp):
AGGCCGTGTGCCTCACACGGTCACCAGACATGCCCATGTCAT
Found at i:76398605 original size:110 final size:111
Alignment explanation
Indices: 76398412--76398644 Score: 450
Period size: 110 Copynumber: 2.1 Consensus size: 111
76398402 CATATATACA
76398412 AAGCTTCAAAAGTACCAACGAGATGATCGATAGTGTGATGACATTTCCCGACGATCCCTGAGTTC
1 AAGCTTCAAAAGTACCAACGAGATGATCGATAGTGTGATGACATTTCCCGACGATCCCTGAGTTC
76398477 GAGCTAGCTTCGATAATCTAAAAAAAATGAAAAGAACACACAAAG-
66 GAGCTAGCTTCGATAATCTAAAAAAAATGAAAAGAACACACAAAGT
76398522 AAGCTTCAAAAGTACCAACGAGATGATCGATAGTGTGATGACATTTCCCGACGATCCCTGAGTTC
1 AAGCTTCAAAAGTACCAACGAGATGATCGATAGTGTGATGACATTTCCCGACGATCCCTGAGTTC
76398587 GAGCTAGCTTCGATAATCTAAAAAAAATGAAAAGAACACACAAAGT
66 GAGCTAGCTTCGATAATCTAAAAAAAATGAAAAGAACACACAAAGT
*
76398633 AAGCTTTAAAAG
1 AAGCTTCAAAAG
76398645 CTTAGTAGGC
Statistics
Matches: 121, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
110 110 0.91
111 11 0.09
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (111 bp):
AAGCTTCAAAAGTACCAACGAGATGATCGATAGTGTGATGACATTTCCCGACGATCCCTGAGTTC
GAGCTAGCTTCGATAATCTAAAAAAAATGAAAAGAACACACAAAGT
Found at i:76403105 original size:49 final size:49
Alignment explanation
Indices: 76403044--76403464 Score: 389
Period size: 49 Copynumber: 8.6 Consensus size: 49
76403034 CTGGTACGCA
* * *
76403044 TAGTAGCCTGCACTTAGAACTACACATGCGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGATACACG
* * **** *
76403093 TAGTAGCTTGCACTTAGTACTACACACGTGACCTGGCCATCTAATACAC-
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTGATACACG
* * *
76403142 TAGTAGCCTGCACTTAGAACTACACATGCGACCAATTATCTGATACGCG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGATACACG
* * **** *
76403191 TAGTAGCTTGCACTTAGTACTACACACGTGACCTGGCCATCTAATACAC-
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTGATACACG
* * *
76403240 TAGTAGCCTGCACTTAGAACTACACATGCGACCAATTATCTGATACGCG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGATACACG
* * **** *
76403289 TAGTAGCTTGCACTTAGTACTACACACGTGACCTGGCCATCTAATACAC-
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTGATACACG
* * * * ***
76403338 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCTGATACACG
* * * *
76403389 TAGTAGTCTGCACTTAGTACTACACATGCGGCCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGATACACG
* *
76403438 TAGTAGCCTGCATTTAGTACTATACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
76403465 ATGACCTCAC
Statistics
Matches: 290, Mismatches: 74, Indels: 16
0.76 0.19 0.04
Matches are distributed among these distances:
48 18 0.06
49 208 0.72
50 37 0.13
51 27 0.09
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGATACACG
Found at i:76403164 original size:98 final size:98
Alignment explanation
Indices: 76403044--76403414 Score: 618
Period size: 98 Copynumber: 3.8 Consensus size: 98
76403034 CTGGTACGCA
* *
76403044 TAGTAGCCTGCACTTAGAACTACACATGCGACCAATTATCCGATACACGTAGTAGCTTGCACTTA
1 TAGTAGCCTGCACTTAGAACTACACATGCGACCAATTATCTGATACGCGTAGTAGCTTGCACTTA
76403109 GTACTACACACGTGACCTGGCCATCTAATACAC
66 GTACTACACACGTGACCTGGCCATCTAATACAC
76403142 TAGTAGCCTGCACTTAGAACTACACATGCGACCAATTATCTGATACGCGTAGTAGCTTGCACTTA
1 TAGTAGCCTGCACTTAGAACTACACATGCGACCAATTATCTGATACGCGTAGTAGCTTGCACTTA
76403207 GTACTACACACGTGACCTGGCCATCTAATACAC
66 GTACTACACACGTGACCTGGCCATCTAATACAC
76403240 TAGTAGCCTGCACTTAGAACTACACATGCGACCAATTATCTGATACGCGTAGTAGCTTGCACTTA
1 TAGTAGCCTGCACTTAGAACTACACATGCGACCAATTATCTGATACGCGTAGTAGCTTGCACTTA
76403305 GTACTACACACGTGACCTGGCCATCTAATACAC
66 GTACTACACACGTGACCTGGCCATCTAATACAC
* * * * * * **
76403338 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGTATAGTAG-TCTGCAC
1 TAGTAGCCTGCACTTAGAACTACACATGCGA-CCAA-TTATCTGATACGCGTAGTAGCT-TGCAC
76403402 TTAGTACTACACA
63 TTAGTACTACACA
76403415 TGCGGCCAAT
Statistics
Matches: 260, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
98 222 0.85
99 4 0.02
100 34 0.13
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGAACTACACATGCGACCAATTATCTGATACGCGTAGTAGCTTGCACTTA
GTACTACACACGTGACCTGGCCATCTAATACAC
Found at i:76405414 original size:21 final size:20
Alignment explanation
Indices: 76405386--76405424 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
76405376 GCATGTGTTT
*
76405386 TGAAGTTTCTTGATAGATTA
1 TGAAGTTTCTTAATAGATTA
*
76405406 TGAATGTTTGTTAATAGAT
1 TGAA-GTTTCTTAATAGAT
76405425 ATACAAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (20 bp):
TGAAGTTTCTTAATAGATTA
Found at i:76407501 original size:30 final size:30
Alignment explanation
Indices: 76407467--76407526 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
76407457 CTTTAATACG
*
76407467 AACTTTGGAAAAATTACATTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
76407497 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
76407527 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:76414337 original size:39 final size:39
Alignment explanation
Indices: 76414293--76414533 Score: 385
Period size: 39 Copynumber: 6.2 Consensus size: 39
76414283 CGAAGTTTAG
* *
76414293 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTGA
* * *
76414332 TTGAAGCACATAAGTGCTAAACGGAAGCCCAAAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTGA
*
76414371 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTGA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTGA
76414410 CTGAAGCAC-TGAAGTGCTAAACGGAAGCCCGAAGGCTGA
1 CTGAAGCACAT-AAGTGCTAAACGGAAGCCCGAAGGCTGA
* *
76414449 CTGAAGCACAGAAGTGCTAAACGGAAGCCCAAAGGCTGA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTGA
*
76414488 CTGAAGCACAGAAGTGCTAAACGGAAGCCCGAAGGCTGA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTGA
76414527 CTGAAGC
1 CTGAAGC
76414534 TCACCAGAGC
Statistics
Matches: 189, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 189 1.00
ACGTcount: A:0.37, C:0.23, G:0.28, T:0.12
Consensus pattern (39 bp):
CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTGA
Found at i:76418360 original size:20 final size:19
Alignment explanation
Indices: 76418327--76418364 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
76418317 AAAGCATAAT
76418327 ATATCATAATAATAATCATC
1 ATATCATAATAAT-ATCATC
76418347 ATATCAT-ATAAATATCAT
1 ATATCATAAT-AATATCAT
76418365 TAAGTTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (19 bp):
ATATCATAATAATATCATC
Found at i:76418595 original size:30 final size:30
Alignment explanation
Indices: 76418561--76418620 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
76418551 CTTTAATACG
*
76418561 AACTTTGGAAAAATTACATTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
76418591 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
76418621 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:76419826 original size:40 final size:39
Alignment explanation
Indices: 76419782--76419886 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 39
76419772 ACAATTCGAT
* * *
76419782 TATGTATGGCACTTAGTGTGCGATTCGAGATAGCTTTGGC
1 TATGTATGGCACTTAGTGTGCGATT-AAAATAGCTTCGGC
* *
76419822 TATGTACGACACTTAGTGTGCGAGATTAAAATAGCTTCGGC
1 TATGTATGGCACTTAGTGTGC--GATTAAAATAGCTTCGGC
*
76419863 TATGTATTGGCACTTAATGTGCGA
1 TATGTA-TGGCACTTAGTGTGCGA
76419887 GAATTCGAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
40 21 0.39
41 17 0.31
42 16 0.30
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (39 bp):
TATGTATGGCACTTAGTGTGCGATTAAAATAGCTTCGGC
Found at i:76430214 original size:76 final size:76
Alignment explanation
Indices: 76430088--76430241 Score: 308
Period size: 76 Copynumber: 2.0 Consensus size: 76
76430078 TTAGAATACA
76430088 AGTGACATGTCACTAGGATATTTGAGTTCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGATGTAA
1 AGTGACATGTCACTAGGATATTTGAGTTCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGATGTAA
76430153 CTAGGCTTCTG
66 CTAGGCTTCTG
76430164 AGTGACATGTCACTAGGATATTTGAGTTCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGATGTAA
1 AGTGACATGTCACTAGGATATTTGAGTTCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGATGTAA
76430229 CTAGGCTTCTG
66 CTAGGCTTCTG
76430240 AG
1 AG
76430242 CTCGTTGAGT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (76 bp):
AGTGACATGTCACTAGGATATTTGAGTTCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGATGTAA
CTAGGCTTCTG
Found at i:76431784 original size:12 final size:12
Alignment explanation
Indices: 76431769--76431793 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
76431759 CTATTTGTAA
76431769 AGCCATTTTGCC
1 AGCCATTTTGCC
76431781 AGCCATTTTGCC
1 AGCCATTTTGCC
76431793 A
1 A
76431794 CCCTATATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (12 bp):
AGCCATTTTGCC
Found at i:76433561 original size:39 final size:39
Alignment explanation
Indices: 76433507--76433586 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
76433497 TGTGAATATA
76433507 TATATGCGAGAATTATATCCGGACTTCAGGTCCACAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCACAGGC
* *
76433546 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCACAGGC
76433585 TA
1 TA
76433587 CGTGCTGGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCACAGGC
Found at i:76438947 original size:15 final size:16
Alignment explanation
Indices: 76438919--76438951 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
76438909 TCATATTAGA
*
76438919 TTTCTTTTTTTTTTCT
1 TTTCTTTTTATTTTCT
76438935 TTTC-TTTTATTTTCT
1 TTTCTTTTTATTTTCT
76438950 TT
1 TT
76438952 AGAATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTCTTTTTATTTTCT
Found at i:76441417 original size:27 final size:26
Alignment explanation
Indices: 76441358--76441470 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
76441348 AGGAAGCGTC
* *
76441358 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
*
76441386 CTGGTGGCTCTGCCACATAGATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
* *
76441413 CTGGTAGCTTTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
76441441 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
76441467 CTGG
1 CTGG
76441471 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.10
27 35 0.49
28 30 0.42
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:76441443 original size:55 final size:54
Alignment explanation
Indices: 76441358--76441479 Score: 147
Period size: 55 Copynumber: 2.2 Consensus size: 54
76441348 AGGAAGCGTC
* *
76441358 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATAGATCTGTT
1 CTGGTAGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-GATCTGTT
* * * *
76441413 CTGGTAGCTTTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTAGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATGATCTGTT
* *
76441467 CTGGCAGCCATGC
1 CTGGTAGCTATGC
76441480 TGCATATTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
54 25 0.44
55 32 0.56
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (54 bp):
CTGGTAGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATGATCTGTT
Found at i:76460780 original size:27 final size:26
Alignment explanation
Indices: 76460719--76460834 Score: 108
Period size: 27 Copynumber: 4.3 Consensus size: 26
76460709 TGGAGGAAGC
* *
76460719 GTCCTGGTGGCTATGCCATAAATTATCT
1 GTCCTGGTGGCTCTGCC--ACATTATCT
76460747 GAT-CTGGTGGCTCTGCCACATATATCT
1 G-TCCTGGTGGCTCTGCCACAT-TATCT
76460774 GTCCTGGTGGCTCTGCCACGATTATCT
1 GTCCTGGTGGCTCTGCCAC-ATTATCT
* * **
76460801 GTATCTGGTGACTCTATCACATTATCT
1 GT-CCTGGTGGCTCTGCCACATTATCT
*
76460828 GTTCTGG
1 GTCCTGG
76460835 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
26 9 0.12
27 38 0.49
28 29 0.38
29 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
GTCCTGGTGGCTCTGCCACATTATCT
Found at i:76460807 original size:55 final size:54
Alignment explanation
Indices: 76460719--76460834 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 54
76460709 TGGAGGAAGC
* *
76460719 GTCCTGGTGGCTATGCCATAAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCATAAATTATCTGATCTGGTGACTCTACCACAT-TATCT
* ** *
76460774 GTCCTGGTGGCTCTGCCA-CGATTATCTGTATCTGGTGACTCTATCACATTATCT
1 GTCCTGGTGGCTATGCCATAAATTATCTG-ATCTGGTGACTCTACCACATTATCT
*
76460828 GTTCTGG
1 GTCCTGG
76460835 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
54 19 0.36
55 34 0.64
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.36
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCATAAATTATCTGATCTGGTGACTCTACCACATTATCT
Found at i:76473518 original size:27 final size:27
Alignment explanation
Indices: 76473466--76473521 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
76473456 TACTATTCTT
* *
76473466 GTGGCTTTGCCACGTATTCTAATATTA
1 GTGGCTATGCCACGTATTATAATATTA
*
76473493 GTGGCTATGCCACGT-TTATAGCTATTA
1 GTGGCTATGCCACGTATTATA-ATATTA
76473520 GT
1 GT
76473522 AGCTTTGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (27 bp):
GTGGCTATGCCACGTATTATAATATTA
Found at i:76482593 original size:40 final size:39
Alignment explanation
Indices: 76482495--76482757 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
76482485 TCCTCGTTCA
* * * *
76482495 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
76482534 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
76482573 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
76482613 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
76482653 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
76482693 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
76482734 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
76482758 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:76482717 original size:120 final size:119
Alignment explanation
Indices: 76482495--76482757 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
76482485 TCCTCGTTCA
* * *
76482495 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
76482560 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
76482613 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
76482678 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
76482734 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
76482758 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:76482766 original size:41 final size:41
Alignment explanation
Indices: 76482689--76482766 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
76482679 TTTGTATCTC
* * *
76482689 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
76482730 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
76482767 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:76490580 original size:40 final size:40
Alignment explanation
Indices: 76490480--76490744 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
76490470 GCTCCTCGTT
* * * *
76490480 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
76490520 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
76490559 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
76490599 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
76490639 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
76490679 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
76490720 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
76490745 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:76490704 original size:80 final size:80
Alignment explanation
Indices: 76490447--76490744 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
76490437 AAATCACGTA
* ** * * *
76490447 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
76490509 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
76490525 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
76490588 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
76490605 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
76490669 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
76490685 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
76490745 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:76490753 original size:41 final size:41
Alignment explanation
Indices: 76490676--76490753 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
76490666 TTTGTATCTC
* * *
76490676 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
76490717 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
76490754 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:76497241 original size:51 final size:51
Alignment explanation
Indices: 76497182--76497287 Score: 212
Period size: 51 Copynumber: 2.1 Consensus size: 51
76497172 ATGATTTGTT
76497182 GAATAAAATAATTAAATTTGAATGTGTATAGATCAAGAACCAAAGAAAACA
1 GAATAAAATAATTAAATTTGAATGTGTATAGATCAAGAACCAAAGAAAACA
76497233 GAATAAAATAATTAAATTTGAATGTGTATAGATCAAGAACCAAAGAAAACA
1 GAATAAAATAATTAAATTTGAATGTGTATAGATCAAGAACCAAAGAAAACA
76497284 GAAT
1 GAAT
76497288 TAGATCAGGG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.55, C:0.08, G:0.14, T:0.24
Consensus pattern (51 bp):
GAATAAAATAATTAAATTTGAATGTGTATAGATCAAGAACCAAAGAAAACA
Found at i:76498458 original size:23 final size:22
Alignment explanation
Indices: 76498427--76498469 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
76498417 TTGTGAATCA
* *
76498427 TATGTTTTGGTATGACTTTGGCT
1 TATGATTTGGCATGA-TTTGGCT
76498450 TATGATTTGGCATGATTTGG
1 TATGATTTGGCATGATTTGG
76498470 TATGGATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.16, C:0.07, G:0.28, T:0.49
Consensus pattern (22 bp):
TATGATTTGGCATGATTTGGCT
Found at i:76505347 original size:42 final size:43
Alignment explanation
Indices: 76505286--76505390 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
76505276 GATTTGAGGT
* *
76505286 TTACGTGTAAGACCATGTCTGGGAC-G-TCAGTATC-ATATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTTC--CATCAATATTTGA
* *
76505328 TTTCATGTAAGACCCTGTCTGGGACAGTTCCATCAATATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTTCCATCAATATTTGA
*
76505371 TTACATGTAAGACCACGTCT
1 TTACATGTAAGACCATGTCT
76505391 AGGATGTTGC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
42 25 0.47
43 26 0.49
44 2 0.04
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGTTCCATCAATATTTGA
Found at i:76506152 original size:23 final size:22
Alignment explanation
Indices: 76506121--76506163 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
76506111 TTGTGAATCA
* *
76506121 TATGTTTTGGTATGACTTTGGCT
1 TATGATTTGGCATGA-TTTGGCT
76506144 TATGATTTGGCATGATTTGG
1 TATGATTTGGCATGATTTGG
76506164 TATGGATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.16, C:0.07, G:0.28, T:0.49
Consensus pattern (22 bp):
TATGATTTGGCATGATTTGGCT
Found at i:76509435 original size:5 final size:5
Alignment explanation
Indices: 76509425--76509456 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
76509415 ATAGAGACTA
*
76509425 AATAG AATAG AATAG AATAA AATAG AATAG AA
1 AATAG AATAG AATAG AATAG AATAG AATAG AA
76509457 AGTTGCATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.19
Consensus pattern (5 bp):
AATAG
Found at i:76512845 original size:48 final size:47
Alignment explanation
Indices: 76512742--76512869 Score: 143
Period size: 48 Copynumber: 2.6 Consensus size: 47
76512732 AAATAAAGTA
* *
76512742 CCAATGCCATGTCCCAGACATGGTCTTTC-ATGAATCCACATATCTTCG
1 CCAATGCCATGTCCCAGACATGGTCTTACAATG-A-CCACATATATTCG
* *
76512790 CCAATGCCATGTCCCAGACATGGTCTTACAATG-GCACATATATAATTG
1 CCAATGCCATGTCCCAGACATGGTCTTACAATGACCACATATAT--TCG
*
76512838 CCGATGCCATGTCCCGCAGACATGGTCTTACA
1 CCAATGCCATGT-CC-CAGACATGGTCTTACA
76512870 CTGTAATAGC
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
46 8 0.11
48 41 0.59
49 5 0.07
50 16 0.23
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (47 bp):
CCAATGCCATGTCCCAGACATGGTCTTACAATGACCACATATATTCG
Found at i:76514521 original size:68 final size:67
Alignment explanation
Indices: 76514449--76514634 Score: 177
Period size: 67 Copynumber: 2.8 Consensus size: 67
76514439 CATCATGTGT
* * *
76514449 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACC
76514511 ATGTAG
62 ATGTAG
** * * *
76514517 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
76514582 AG
66 AG
* * *
76514584 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGG-TACTAAGTG
1 ACAAGAGAGCTACGACATATA-TGTAGCTAGGTCGCATGGGTGGATAC-AAGTG
76514635 TTCACCATGT
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
64 20 0.20
65 9 0.09
66 25 0.25
67 31 0.31
68 15 0.15
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:76514554 original size:64 final size:64
Alignment explanation
Indices: 76514473--76514656 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
76514463 AGACATTATG
* *
76514473 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
76514537 ATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
76514602 AA
63 AA
* * * *
76514604 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
76514657 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:76516511 original size:48 final size:48
Alignment explanation
Indices: 76516437--76516741 Score: 423
Period size: 48 Copynumber: 6.4 Consensus size: 48
76516427 GAGTGTTACA
* * * *
76516437 TACACAGGCACATATATCGTCGCCGATGCAATGTCCCAGACATGCTCT
1 TACACAGGCACATATATCATCACCGATGCCATGTCCCAGACATGGTCT
* * * *
76516485 TACATAGGCACATATATTATCACCGATGCCATGTCCCAGGCATAGTCT
1 TACACAGGCACATATATCATCACCGATGCCATGTCCCAGACATGGTCT
* * *
76516533 TACACAGGCACATATATCATCGCTGATGCCATGTCCCAGACTTGGTCT
1 TACACAGGCACATATATCATCACCGATGCCATGTCCCAGACATGGTCT
* *
76516581 CACACAGGTACATATATCATCACCGATGCCATGTCCCAGACATGGTCT
1 TACACAGGCACATATATCATCACCGATGCCATGTCCCAGACATGGTCT
* * *
76516629 CACACAAGCACATATATCATCACCAATGCCATGTCCCAGACATGGTCT
1 TACACAGGCACATATATCATCACCGATGCCATGTCCCAGACATGGTCT
* * *
76516677 TACACAGGCACATCTATCATCACCGATGCCATGCCCCA-ATCATGGTCA
1 TACACAGGCACATATATCATCACCGATGCCATGTCCCAGA-CATGGTCT
76516725 TACACAGGCACATATAT
1 TACACAGGCACATATAT
76516742 TGTAACAACC
Statistics
Matches: 226, Mismatches: 30, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
47 1 0.00
48 225 1.00
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.24
Consensus pattern (48 bp):
TACACAGGCACATATATCATCACCGATGCCATGTCCCAGACATGGTCT
Found at i:76528049 original size:38 final size:38
Alignment explanation
Indices: 76527998--76528070 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
76527988 ACGGAGAAGT
*
76527998 AATTTCAGAAAGTCTCGGTTGAACCTTAGGAATGTTTA
1 AATTTCAGAAAGTCCCGGTTGAACCTTAGGAATGTTTA
76528036 AATTTCAGAAAGTCCCGGTTGAACCTTAGGAATGT
1 AATTTCAGAAAGTCCCGGTTGAACCTTAGGAATGT
76528071 GTAGGATACA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (38 bp):
AATTTCAGAAAGTCCCGGTTGAACCTTAGGAATGTTTA
Found at i:76528189 original size:55 final size:54
Alignment explanation
Indices: 76528102--76528356 Score: 251
Period size: 55 Copynumber: 4.8 Consensus size: 54
76528092 ATTAGGGTTT
* *
76528102 AAGGATACCATCTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
76528157 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
76528212 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
76528265 AAGGATACCATGTAAGACAATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * *
76528314 AAGGATACCACGTAAGACCATGACAAGTCATGG-AAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
76528357 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 24, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
48 2 0.01
49 36 0.21
52 7 0.04
53 40 0.24
54 12 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:76528308 original size:108 final size:110
Alignment explanation
Indices: 76528109--76528309 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
76528099 TTTAAGGATA
*
76528109 CCATCTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATCTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
76528174 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CAATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
76528219 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATCTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
76528281 ACAATGTCAAGACATGGCAATGGTAAGTT
65 ACAATGTCAAGACATGGCAATGATAAGTT
76528310 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATCTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CAATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:76528422 original size:5 final size:5
Alignment explanation
Indices: 76528414--76528442 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
76528404 AATAGAATAT
76528414 TAAGG TAAGG TAAGG TAAGG TAAGG TAAG
1 TAAGG TAAGG TAAGG TAAGG TAAGG TAAG
76528443 ACGAGTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (5 bp):
TAAGG
Found at i:76535450 original size:55 final size:54
Alignment explanation
Indices: 76535363--76535617 Score: 251
Period size: 55 Copynumber: 4.8 Consensus size: 54
76535353 ATTAGGGTTT
* * *
76535363 AAGGATACCATCTAAGACCATGCCAAGGCATGGCAATTGGGAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
76535418 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
** * *
76535473 AAAGG-GCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
76535526 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
76535575 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
76535618 GTACCTTCGT
Statistics
Matches: 169, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
49 40 0.24
52 7 0.04
53 40 0.24
54 11 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:76535569 original size:108 final size:110
Alignment explanation
Indices: 76535370--76535570 Score: 311
Period size: 108 Copynumber: 1.8 Consensus size: 110
76535360 TTTAAGGATA
*
76535370 CCATCTAAGACCATGCCAAGGCATGGCAATTGGGAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATCTAAGACCATGCCAAGGCATGGCAATTGGGAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
76535435 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGGC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGGC
* *
76535480 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTG-A-G-TTCATAAGGCAAGGATACCATGTAA
1 CCATCTAAGACCATGCCAAGGCATGGCAATTGG-GAAGGTTTC-TAAGGCAAGGAAACCATGTAA
*
76535541 GACCATGTCAAGACATGGCAATGGTAAGTT
64 GACCATGTCAAGACATGGCAATGATAAGTT
76535571 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 6 0.07
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.21
Consensus pattern (110 bp):
CCATCTAAGACCATGCCAAGGCATGGCAATTGGGAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGGC
Found at i:76545995 original size:23 final size:24
Alignment explanation
Indices: 76545964--76546017 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
76545954 CGACCCATGC
76545964 AAACACAAAACAAACCAA-AAAAAT-
1 AAAC-CAAAACAAA-CAATAAAAATA
*
76545988 AAACC-AAACAAACAATAAACATA
1 AAACCAAAACAAACAATAAAAATA
76546011 AAACCAA
1 AAACCAA
76546018 TAAATTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 3 0.12
22 12 0.46
23 6 0.23
24 5 0.19
ACGTcount: A:0.72, C:0.22, G:0.00, T:0.06
Consensus pattern (24 bp):
AAACCAAAACAAACAATAAAAATA
Found at i:76545996 original size:22 final size:23
Alignment explanation
Indices: 76545971--76546017 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
76545961 TGCAAACACA
76545971 AAACAAACCAA-AAAAAT-AAACC
1 AAACAAA-CAATAAAAATAAAACC
*
76545993 AAACAAACAATAAACATAAAACC
1 AAACAAACAATAAAAATAAAACC
76546016 AA
1 AA
76546018 TAAATTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 12 0.55
23 7 0.32
ACGTcount: A:0.72, C:0.21, G:0.00, T:0.06
Consensus pattern (23 bp):
AAACAAACAATAAAAATAAAACC
Found at i:76555793 original size:40 final size:40
Alignment explanation
Indices: 76555756--76555980 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
76555746 GCTACTCGTT
* *
76555756 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
76555796 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
76555836 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
76555876 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
76555915 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
76555956 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
76555981 CATCATTCAA
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 118 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:76555940 original size:119 final size:120
Alignment explanation
Indices: 76555756--76555980 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
76555746 GCTACTCGTT
*
76555756 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
76555821 ATTTAGTAAC-TCGCACAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
76555876 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
76555938 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
76555981 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 4 0.04
119 65 0.71
120 22 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:76559509 original size:126 final size:127
Alignment explanation
Indices: 76559266--76559510 Score: 323
Period size: 126 Copynumber: 1.9 Consensus size: 127
76559256 TTCACAACTA
* * * * * *
76559266 TTAAGAATCCTTTAAAACGAAGGCAATATTCGATATTTGGTAATTCGTGGAATCGTGCCCTAACG
1 TTAAAAATCCCTTAAAACGAAGGCAATATGCGATATTTGGCAATTCGCGCAATCGTGCCCTAACG
** * * **
76559331 TGTTGGGTTGCAATTTCTCGTTTGCCCAAAGTAATCGAAGGTCCCTTTAAAATTCTATTCTT
66 TGTTGGGTTGCAATTTCTCAATTGCCCAAAGTAATCAAAGATCCCTCCAAAATTCTATTCTT
* *
76559393 TTAAAAATCCCTT-AAACGAAGGCGATGTGCGATATTTGGCAATTCGCGCAATCGTGCCCTAACG
1 TTAAAAATCCCTTAAAACGAAGGCAATATGCGATATTTGGCAATTCGCGCAATCGTGCCCTAACG
* *
76559457 TGTTGGGTTGCAATTTCTCAATTGCTTCAAA-TAATCAAATATCCCTCCAAAATT
66 TGTTGGGTTGCAATTTCTCAATTGC-CCAAAGTAATCAAAGATCCCTCCAAAATT
76559511 TCACTCATGT
Statistics
Matches: 101, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
126 86 0.85
127 15 0.15
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (127 bp):
TTAAAAATCCCTTAAAACGAAGGCAATATGCGATATTTGGCAATTCGCGCAATCGTGCCCTAACG
TGTTGGGTTGCAATTTCTCAATTGCCCAAAGTAATCAAAGATCCCTCCAAAATTCTATTCTT
Found at i:76559899 original size:132 final size:128
Alignment explanation
Indices: 76559406--76559919 Score: 351
Period size: 131 Copynumber: 3.9 Consensus size: 128
76559396 AAAATCCCTT
* * * * * * * * **
76559406 AAACGAAGGCGATGTGCGATATTTGGCAATTCGCGCAATCGTGCCCTAACGTGTTGGGTTGCAAT
1 AAACAAAGGCAATGTTCGATGTTTGGCAATTTG-GGAATAGTGCCCTATCGTACTGGGTTGCAA-
** * * * * * ** * *
76559471 TTCTCAATTGCTTCAAATAATCAAATATCCCTCCAAAATTTCACTCATGTATTCAAAAAAATCCT
64 TTCTCGTTTG-TTAAAACAATCGAATATCTCTTCGGAATTTCACTCATGTTTTC-TAAAAAT-CT
76559536 TTA
126 TTA
* * ** * **
76559539 AAACGAAGGCAGTGTTCGATGTTTTACAATTCGGGAATCA-TGCCCTATCGTACTGGGTTGTGAT
1 AAACAAAGGCAATGTTCGATGTTTGGCAATTTGGGAAT-AGTGCCCTATCGTACTGGGTTGCAAT
* * * * *
76559603 T-TCCATTTGTTCAAAACAATCGAATATTTCTTTCGG-TTTTCATTCATGTTTAT-TAAAAACCT
65 TCT-CGTTTGTT-AAAACAATCGAATATCTC-TTCGGAATTTCACTCATGTTT-TCTAAAAATCT
*
76559665 CTCA
126 -TTA
* * * * * * * * * *
76559669 AAACAAAAGCGATCTTTGATGTCTGGCGATTTGAGAATCGTGCCCTATCGTGCTGGGTTGCGCAT
1 AAACAAAGGCAATGTTCGATGTTTGGCAATTTGGGAATAGTGCCCTATCGTACTGGGTTGC-AAT
* *
76559734 TTTCGTTTGCTTAAAACAATCGAAGGT-TC-CTTCGGAATTTCACTCACGTTTTCTAAAACATCT
65 TCTCGTTTG-TTAAAACAATCGAA--TATCTCTTCGGAATTTCACTCATGTTTTCTAAAA-ATCT
76559797 TTA
126 TTA
* *
76559800 AAACAAAGGAAATGTTCGATGTTTGGCAATTTGGGGAATAGTGCCCTATCATACTGGGTTGCAAT
1 AAACAAAGGCAATGTTCGATGTTTGGCAATTT-GGGAATAGTGCCCTATCGTACTGGGTTGCAAT
* *
76559865 CTCTCGTTTGTTAAAAATAATCGAATATCTCTTCGGGATTTCACTCA--TTTTCTAA
65 -TCTCGTTTGTT-AAAACAATCGAATATCTCTTCGGAATTTCACTCATGTTTTCTAA
76559920 GGTGAGGCAA
Statistics
Matches: 295, Mismatches: 66, Indels: 43
0.73 0.16 0.11
Matches are distributed among these distances:
129 2 0.01
130 70 0.24
131 103 0.35
132 92 0.31
133 28 0.09
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (128 bp):
AAACAAAGGCAATGTTCGATGTTTGGCAATTTGGGAATAGTGCCCTATCGTACTGGGTTGCAATT
CTCGTTTGTTAAAACAATCGAATATCTCTTCGGAATTTCACTCATGTTTTCTAAAAATCTTTA
Found at i:76569151 original size:10 final size:10
Alignment explanation
Indices: 76569136--76569165 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
76569126 TTGAGGACAT
76569136 TACCTTCCAC
1 TACCTTCCAC
76569146 TACCTTCCAC
1 TACCTTCCAC
76569156 TACCTTCCAC
1 TACCTTCCAC
76569166 GAGACGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.50, G:0.00, T:0.30
Consensus pattern (10 bp):
TACCTTCCAC
Found at i:76572180 original size:11 final size:11
Alignment explanation
Indices: 76572164--76572190 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
76572154 TATATGTCTA
76572164 TTTTTCTTCTT
1 TTTTTCTTCTT
76572175 TTTTTCTTCTT
1 TTTTTCTTCTT
76572186 TTTTT
1 TTTTT
76572191 TGTGAAAAAG
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTCTTCTT
Found at i:76572630 original size:22 final size:22
Alignment explanation
Indices: 76572605--76572653 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
76572595 TCAAACACAT
*
76572605 TTGCATTAACCACAAATAAACC
1 TTGCATGAACCACAAATAAACC
*
76572627 TTGCATGCACCACAAATAAACC
1 TTGCATGAACCACAAATAAACC
76572649 TTGCA
1 TTGCA
76572654 GGCTTCATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.41, C:0.29, G:0.08, T:0.22
Consensus pattern (22 bp):
TTGCATGAACCACAAATAAACC
Found at i:76572778 original size:17 final size:17
Alignment explanation
Indices: 76572756--76572788 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
76572746 CACTAACATT
*
76572756 AAAATGCAATGACAATA
1 AAAATGCAACGACAATA
76572773 AAAATGCAACGACAAT
1 AAAATGCAACGACAAT
76572789 GTTCACTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAACGACAATA
Found at i:76576116 original size:27 final size:27
Alignment explanation
Indices: 76576086--76576318 Score: 234
Period size: 27 Copynumber: 8.6 Consensus size: 27
76576076 ATATTGAGCC
* *
76576086 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
76576113 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
76576140 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
76576167 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
76576195 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** ** *
76576223 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
76576250 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
76576277 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
76576304 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
76576319 GTACAATTTA
Statistics
Matches: 173, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
27 124 0.72
28 49 0.28
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:76576170 original size:54 final size:54
Alignment explanation
Indices: 76576086--76576318 Score: 261
Period size: 54 Copynumber: 4.3 Consensus size: 54
76576076 ATATTGAGCC
* * * *
76576086 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAATCAAAT
* * *
76576140 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAATCA-AAT
* * ** *
76576195 CGCACACTTAGTGCTACATAGTCAGACTCGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCA-ACTCGCACACTTAGTGCCACATAATCAAAT
* ** * * *
76576250 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATAATCAAAT
*
76576304 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
76576319 GTACAATTTA
Statistics
Matches: 151, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
54 81 0.54
55 49 0.32
56 21 0.14
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAATCAAAT
Found at i:76576343 original size:110 final size:110
Alignment explanation
Indices: 76576086--76576318 Score: 274
Period size: 110 Copynumber: 2.1 Consensus size: 110
76576076 ATATTGAGCC
* * * * * * **
76576086 CGCACACTCAGTGCTATATAATCA-ACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAGACCCGCACACTTAGTGCCGCATGGTCAAATCGCACACTTA
* * *
76576150 GTGCTACATAGTCAATTCGCACACTTAGTGCTACATAATCATACT
66 GTGCTACATAGTCAATTCGCACACTGAGTGCAACATAATCATAAT
* * *
76576195 CGCACACTTAGTGCTACATAGTCAGACTCGCACTCTTAGTGCCGCATGGTCAATTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAGACCCGCACACTTAGTGCCGCATGGTCAAATCGCACACTTA
* * *
76576260 GTGC-ATCATATTCATTTCGCACACTGAGTGCAACATAGTCA-AAT
66 GTGCTA-CATAGTCAATTCGCACACTGAGTGCAACATAATCATAAT
*
76576304 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
76576319 GTACAATTTA
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
109 38 0.36
110 68 0.64
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (110 bp):
CGCACACTTAGTGCTACATAGTCAGACCCGCACACTTAGTGCCGCATGGTCAAATCGCACACTTA
GTGCTACATAGTCAATTCGCACACTGAGTGCAACATAATCATAAT
Found at i:76578183 original size:27 final size:27
Alignment explanation
Indices: 76577980--76578166 Score: 261
Period size: 27 Copynumber: 6.9 Consensus size: 27
76577970 GGCTGTCACA
* * **
76577980 GGTAAAATGGTAATTTTACAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
*
76578007 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* *
76578034 GTTAAAACAGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
76578061 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
**
76578088 GGTAAAATAGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
76578115 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
76578142 GGTAAAACGGTAATTCTGTAAATCG
1 GGTAAAACGGTAATTCTGTAAATCG
76578167 GGAGTACTTT
Statistics
Matches: 144, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.01
27 140 0.97
28 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (27 bp):
GGTAAAACGGTAATTCTGTAAATCGAG
Found at i:76578197 original size:81 final size:80
Alignment explanation
Indices: 76577980--76578197 Score: 235
Period size: 81 Copynumber: 2.7 Consensus size: 80
76577970 GGCTGTCACA
* * ** * * *
76577980 GGTAAAATGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGTTAAAACAGT
1 GGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTA-AAATCGAGGGTAAAACAGT
76578045 AATTCTGTAAACTGAG
65 AATTCTGTAAACTGAG
* * *
76578061 GGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACT-GAGGGTAAAACGG
1 GGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT-T-TAAAATCGAGGGTAAAACAG
76578125 TAATTCTGTAAA-TCGAG
64 TAATTCTGTAAACT-GAG
*** *
76578142 GGTAAAACGGTAATTCTGTAAATCG-GGAGTACTTTGGTAATTTTACAAGTCGAGGG
1 GGTAAAACGGTAATTCTGTAAATCGAGG-GTAAAATGGTAATTTTA-AAATCGAGGG
76578198 CATTTCAATA
Statistics
Matches: 116, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
79 2 0.02
80 7 0.06
81 102 0.88
82 3 0.03
83 2 0.02
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.28
Consensus pattern (80 bp):
GGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAAAATCGAGGGTAAAACAGTA
ATTCTGTAAACTGAG
Found at i:76586512 original size:47 final size:48
Alignment explanation
Indices: 76586461--76586576 Score: 182
Period size: 49 Copynumber: 2.4 Consensus size: 48
76586451 TTAGGATTCT
*
76586461 ATGTGATGGATGTGAACA-TG-CATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGACATATATGTGATAAGGCCTAATGGCCG
*
76586508 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG-ACATATATGTGATAAGGCCTAATGGCCG
76586557 ATGTGATGAATGTGAAAGTG
1 ATGTGATGAATGTGAAAGTG
76586577 TATAAATGTG
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
46 1 0.02
47 17 0.27
49 46 0.72
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (48 bp):
ATGTGATGAATGTGAAAGTGACATATATGTGATAAGGCCTAATGGCCG
Found at i:76586551 original size:49 final size:49
Alignment explanation
Indices: 76586482--76586580 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
76586472 GTGAACATGC
76586482 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
76586531 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
76586580 A
1 A
76586581 AATGTGTCAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:76586743 original size:37 final size:37
Alignment explanation
Indices: 76586687--76586765 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
76586677 CCGAGCTCTA
* *
76586687 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
76586724 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
76586761 AAGAC
1 AAGAC
76586766 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:76606459 original size:16 final size:17
Alignment explanation
Indices: 76606438--76606471 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
76606428 AATAATAGGG
*
76606438 GCAAAAGTGT-AATTTT
1 GCAAAAGTATGAATTTT
76606454 GCAAAAGTATGAATTTT
1 GCAAAAGTATGAATTTT
76606471 G
1 G
76606472 GACTGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (17 bp):
GCAAAAGTATGAATTTT
Found at i:76611727 original size:24 final size:26
Alignment explanation
Indices: 76611700--76611753 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
76611690 ATAATTGAGG
76611700 ATTTTAATCTA-ACATTTAA-AA-TTT
1 ATTTTAATCTATA-ATTTAACAATTTT
*
76611724 ATTTTAATTTATAATTTAACAATTTT
1 ATTTTAATCTATAATTTAACAATTTT
76611750 ATTT
1 ATTT
76611754 ATAAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 16 0.62
25 3 0.12
26 7 0.27
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTTTAATCTATAATTTAACAATTTT
Found at i:76616938 original size:8 final size:8
Alignment explanation
Indices: 76616925--76617105 Score: 69
Period size: 8 Copynumber: 23.1 Consensus size: 8
76616915 TAAAATTTAA
76616925 AATAATAT
1 AATAATAT
76616933 AATAATAT
1 AATAATAT
*
76616941 AAAAATAT
1 AATAATAT
76616949 -ATAA-AT
1 AATAATAT
* *
76616955 -ATTATGT
1 AATAATAT
* *
76616962 GATAA-AA
1 AATAATAT
76616969 ACATAATAT
1 A-ATAATAT
76616978 AATAA-AT
1 AATAATAT
*
76616985 AATAA-GT
1 AATAATAT
*
76616992 AATGATAT
1 AATAATAT
* ** *
76617000 -GTGTTAA
1 AATAATAT
76617007 AAT-ATAT
1 AATAATAT
*
76617014 ATTAATAT
1 AATAATAT
* *
76617022 GATAATAG
1 AATAATAT
*
76617030 AAAAATAT
1 AATAATAT
76617038 GAAGTAATAT
1 -AA-TAATAT
76617048 AAT-ATAAT
1 AATAAT-AT
76617056 AA-AATAT
1 AATAATAT
76617063 AAGTAA-AT
1 AA-TAATAT
76617071 AATAATAT
1 AATAATAT
*
76617079 AAAATATAT
1 AATA-ATAT
*
76617088 AATACATAA
1 AATA-ATAT
76617097 AATAATAT
1 AATAATAT
76617105 A
1 A
76617106 TATATACAAT
Statistics
Matches: 127, Mismatches: 31, Indels: 30
0.68 0.16 0.16
Matches are distributed among these distances:
6 5 0.04
7 33 0.26
8 62 0.49
9 22 0.17
10 5 0.04
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (8 bp):
AATAATAT
Found at i:76617052 original size:5 final size:5
Alignment explanation
Indices: 76617042--76617111 Score: 54
Period size: 5 Copynumber: 13.4 Consensus size: 5
76617032 AAATATGAAG
* *
76617042 TAATA TAATA TAATA AAATA TAAGTA -AATAA TAATA TAAAA T-ATA TAATACA
1 TAATA TAATA TAATA TAATA TAA-TA TAAT-A TAATA TAATA TAATA TAAT--A
*
76617094 TAAAA TAATA TATATA TA
1 TAATA TAATA TA-ATA TA
76617112 CAATTTAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
4 4 0.08
5 34 0.65
6 10 0.19
7 4 0.08
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (5 bp):
TAATA
Found at i:76617073 original size:28 final size:25
Alignment explanation
Indices: 76617046--76617105 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
76617036 ATGAAGTAAT
76617046 ATAATATAATAAAATATAAGTAAAT-A
1 ATAATATAA-AAAATATAA-TAAATAA
* *
76617072 ATAATATAAAATATATAATACATAAA
1 ATAATATAAAAAATATAATAAAT-AA
76617098 ATAATATA
1 ATAATATA
76617106 TATATACAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 4 0.13
25 8 0.27
26 18 0.60
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (25 bp):
ATAATATAAAAAATATAATAAATAA
Found at i:76617096 original size:21 final size:21
Alignment explanation
Indices: 76617053--76617113 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
76617043 AATATAATAT
76617053 AATAAAATATAAGTAAATA-ATAA
1 AATAAAATAT-A-T-AATACATAA
*
76617076 TATAAAATATATAATACATAA
1 AATAAAATATATAATACATAA
*
76617097 AATAATATATAT-ATACA
1 AATAAAATATATAATACA
76617114 ATTTAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 9 0.26
21 15 0.44
22 1 0.03
23 9 0.26
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (21 bp):
AATAAAATATATAATACATAA
Found at i:76617100 original size:23 final size:26
Alignment explanation
Indices: 76617031--76617089 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
76617021 TGATAATAGA
76617031 AAAATATGAAGT-AAT-ATAATATAAT
1 AAAATAT-AAGTAAATAATAATATAAT
76617056 AAAATATAAGTAAATAATAATATAA-
1 AAAATATAAGTAAATAATAATATAAT
*
76617081 AATATATAA
1 AAAATATAA
76617090 TACATAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 4 0.13
25 18 0.58
26 9 0.29
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (26 bp):
AAAATATAAGTAAATAATAATATAAT
Found at i:76617134 original size:27 final size:26
Alignment explanation
Indices: 76617096--76617147 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
76617086 ATAATACATA
*
76617096 AAATAATATATATATACAATTTAAAAT
1 AAATAATATATAAATA-AATTTAAAAT
*
76617123 AAATAAGT-TATAAATAATTTTAAAA
1 AAATAA-TATATAAATAAATTTAAAA
76617148 GGGATAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 8 0.36
27 13 0.59
28 1 0.05
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
AAATAATATATAAATAAATTTAAAAT
Found at i:76619204 original size:206 final size:206
Alignment explanation
Indices: 76618801--76619340 Score: 841
Period size: 206 Copynumber: 2.6 Consensus size: 206
76618791 AAATTTTCTT
*
76618801 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGGAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * *
76618866 GCGAAAACCAAATCAGCTAT-TCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * ** *
76618930 GGATCTGCTTCAGGCTAAGCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCGAATATG
131 GGATCTGCTTCAGGATAAACATCTAAAGGCCAGATCTGCTATGTATCTGCCCTCCATCGAATATG
76618995 GAGACGCCAAA
196 GAGACGCCAAA
*
76619006 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
76619071 GTGAAAGCTAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
* * *
76619135 TGGATCTGCTTCAGTATAAACATCTAAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAATAT
130 TGGATCTGCTTCAGGATAAACATCTAAAGGCCAGATCTGCTATGTATCTGCCCTCCATCGAATAT
76619200 GGAGACGCCAAA
195 GGAGACGCCAAA
* * * * *
76619212 CTTTGATTTGTTTTCTGACAATACAAATATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
*
76619277 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAATGATGCCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
76619341 CAGATCTTAC
Statistics
Matches: 304, Mismatches: 28, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
205 81 0.27
206 222 0.73
207 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGGATAAACATCTAAAGGCCAGATCTGCTATGTATCTGCCCTCCATCGAATATG
GAGACGCCAAA
Found at i:76621917 original size:47 final size:47
Alignment explanation
Indices: 76621856--76622344 Score: 789
Period size: 47 Copynumber: 10.4 Consensus size: 47
76621846 CAGCCAAGAC
76621856 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
76621903 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
76621950 AGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
76621997 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
76622044 AGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
76622091 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
76622138 AGTGTATATATGTGATAAGGCCTAATTGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
76622185 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTAAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
76622232 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
76622279 AGTGTGTATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
76622326 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
76622345 TCCCGAAGGG
Statistics
Matches: 408, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 408 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:76622519 original size:37 final size:37
Alignment explanation
Indices: 76622463--76622541 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
76622453 CCGAGCTCTA
* *
76622463 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
76622500 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
76622537 AAGAC
1 AAGAC
76622542 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:76624575 original size:7 final size:7
Alignment explanation
Indices: 76624542--76624653 Score: 50
Period size: 7 Copynumber: 14.9 Consensus size: 7
76624532 GGCCTCTCCA
76624542 TTTTTCTC
1 TTTTT-TC
76624550 TTTTTTCC
1 TTTTTT-C
*
76624558 TCTTCTCTC
1 T-TT-TTTC
76624567 TTTTTTC
1 TTTTTTC
76624574 TTTTTTCC
1 TTTTTT-C
76624582 TTTTTT-
1 TTTTTTC
76624588 TTATTTT-
1 TT-TTTTC
*
76624595 TTGTTTTG
1 TT-TTTTC
*
76624603 TTTTTGTT
1 TTTTT-TC
*
76624611 TTTTGTTA
1 TTTT-TTC
76624619 TTTTTT-
1 TTTTTTC
*
76624625 TATTTTC
1 TTTTTTC
*
76624632 TGTTTGTTT
1 T-TTT-TTC
76624641 TTTTTTC
1 TTTTTTC
76624648 TTTTTT
1 TTTTTT
76624654 GATTTTCAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
6 7 0.08
7 34 0.40
8 33 0.39
9 8 0.10
10 2 0.02
ACGTcount: A:0.03, C:0.12, G:0.05, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:76624594 original size:24 final size:24
Alignment explanation
Indices: 76624541--76624653 Score: 70
Period size: 24 Copynumber: 4.6 Consensus size: 24
76624531 TGGCCTCTCC
* * *
76624541 ATTTTTCTCTTTTTTCCTCTTCTCT
1 ATTTTT-TCTTTTTTCCTTTTTTTT
*
76624566 CTTTTTTCTTTTTTCCTTTTTTTT
1 ATTTTTTCTTTTTTCCTTTTTTTT
* *
76624590 ATTTTTTGTTTTGTT-TTTGTTTTTT
1 ATTTTTTCTTTT-TTCCTT-TTTTTT
* * *
76624615 GTTATTTT-TTTATTTTCTGTTTGTTT
1 ATT-TTTTCTTT-TTTCCT-TTTTTTT
76624641 -TTTTTTCTTTTTT
1 ATTTTTTCTTTTTT
76624654 GATTTTCAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
24 34 0.48
25 25 0.35
26 11 0.15
27 1 0.01
ACGTcount: A:0.04, C:0.12, G:0.05, T:0.80
Consensus pattern (24 bp):
ATTTTTTCTTTTTTCCTTTTTTTT
Found at i:76624606 original size:18 final size:18
Alignment explanation
Indices: 76624585--76624659 Score: 77
Period size: 18 Copynumber: 4.3 Consensus size: 18
76624575 TTTTTCCTTT
76624585 TTTTTATTTTTTGTTTTG
1 TTTTTATTTTTTGTTTTG
*
76624603 TTTTTGTTTTTTGTTATT-
1 TTTTTATTTTTTGTT-TTG
*
76624621 TTTTTATTTTCTG-TTTG
1 TTTTTATTTTTTGTTTTG
76624638 TTTTT-TTTTCTT-TTTTG
1 TTTTTATTTT-TTGTTTTG
*
76624655 ATTTT
1 TTTTT
76624660 CAAAACCTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 6 0.12
17 15 0.31
18 25 0.52
19 2 0.04
ACGTcount: A:0.05, C:0.03, G:0.09, T:0.83
Consensus pattern (18 bp):
TTTTTATTTTTTGTTTTG
Found at i:76624607 original size:35 final size:34
Alignment explanation
Indices: 76624568--76624646 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 34
76624558 TCTTCTCTCT
*
76624568 TTTTTCTTTTTTCCT-TTTTTTTATTTTTTGTTTTG
1 TTTTT-TTTTTTCCTATTTTTTTATTTTCTG-TTTG
**
76624603 TTTTTGTTTTTTGTTATTTTTTTATTTTCTGTTTG
1 TTTTT-TTTTTTCCTATTTTTTTATTTTCTGTTTG
76624638 TTTTTTTTT
1 TTTTTTTTT
76624647 CTTTTTTGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
34 4 0.10
35 21 0.54
36 14 0.36
ACGTcount: A:0.04, C:0.05, G:0.08, T:0.84
Consensus pattern (34 bp):
TTTTTTTTTTTCCTATTTTTTTATTTTCTGTTTG
Found at i:76624614 original size:29 final size:28
Alignment explanation
Indices: 76624582--76624660 Score: 95
Period size: 29 Copynumber: 2.8 Consensus size: 28
76624572 TCTTTTTTCC
* *
76624582 TTTTTTTTATTTTTTGTTTTGTTTTTGT
1 TTTTTTTTATTTTTTGTTTTCTGTTTGT
* *
76624610 TTTTTGTTATTTTTTTATTTTCTGTTTGT
1 TTTTTTTTA-TTTTTTGTTTTCTGTTTGT
*
76624639 TTTTTTTTCTTTTTTGATTTTC
1 TTTTTTTTATTTTTTG-TTTTC
76624661 AAAACCTCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 14 0.33
29 28 0.67
ACGTcount: A:0.05, C:0.04, G:0.09, T:0.82
Consensus pattern (28 bp):
TTTTTTTTATTTTTTGTTTTCTGTTTGT
Found at i:76637855 original size:42 final size:42
Alignment explanation
Indices: 76637767--76637867 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
76637757 TCAGCTATGG
* * * * *
76637767 TCTTACACGAAATCTCATATCGATGTCACATCCAAGATATGG
1 TCTTACACGAAGTCTCATATCAATGCCACATCCAAGACATGA
* *
76637809 TCTTACACGAAGTCTCATA-CTAATGCCATATCCCAGACATGA
1 TCTTACACGAAGTCTCATATC-AATGCCACATCCAAGACATGA
76637851 TCTTACAC-ATAGTCTCA
1 TCTTACACGA-AGTCTCA
76637868 GAACCCTAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.04
42 48 0.96
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (42 bp):
TCTTACACGAAGTCTCATATCAATGCCACATCCAAGACATGA
Found at i:76641565 original size:33 final size:33
Alignment explanation
Indices: 76641523--76641588 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
76641513 AGTCAACAAG
76641523 GCATTCCTGATGATGCCTTGAAGATGAAATTAT
1 GCATTCCTGATGATGCCTTGAAGATGAAATTAT
*
76641556 GCATTCCTGATGATGCCTTGAAGATGCAATTAT
1 GCATTCCTGATGATGCCTTGAAGATGAAATTAT
76641589 TTCCTTATCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (33 bp):
GCATTCCTGATGATGCCTTGAAGATGAAATTAT
Found at i:76645702 original size:40 final size:39
Alignment explanation
Indices: 76645647--76645725 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 39
76645637 CTAGTCTAAT
*
76645647 AGGGAAAGGACATTGTAAGGCTATCACTCTTAAGAGTGG
1 AGGGAAAGAACATTGTAAGGCTATCACTCTTAAGAGTGG
*
76645686 NAGGGAAAGAACATTGTAAGGCTATCACTCTTAGGAGTGG
1 -AGGGAAAGAACATTGTAAGGCTATCACTCTTAAGAGTGG
76645726 TAAACAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.23
Consensus pattern (39 bp):
AGGGAAAGAACATTGTAAGGCTATCACTCTTAAGAGTGG
Found at i:76654392 original size:41 final size:40
Alignment explanation
Indices: 76654347--76654448 Score: 132
Period size: 41 Copynumber: 2.5 Consensus size: 40
76654337 TGATTCAGTA
76654347 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* * * *
76654388 CACCGGCATTAAGCCTGCTAGACATTTTGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
*
76654429 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
76654449 AGCTCTAAGC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
40 2 0.04
41 50 0.93
42 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:76655080 original size:107 final size:107
Alignment explanation
Indices: 76654961--76655175 Score: 421
Period size: 107 Copynumber: 2.0 Consensus size: 107
76654951 ATTTGAATAT
76654961 ATAAATATACCTTATACCATTCATACTTTAACTTAATTCAAAAATATTTATATAAGCATATATAT
1 ATAAATATACCTTATACCATTCATACTTTAACTTAATTCAAAAATATTTATATAAGCATATATAT
*
76655026 ATTCGAACATTGTATATATATATTTATACCATTTATAATTTG
66 ATTCGAACATTGTATATACATATTTATACCATTTATAATTTG
76655068 ATAAATATACCTTATACCATTCATACTTTAACTTAATTCAAAAATATTTATATAAGCATATATAT
1 ATAAATATACCTTATACCATTCATACTTTAACTTAATTCAAAAATATTTATATAAGCATATATAT
76655133 ATTCGAACATTGTATATACATATTTATACCATTTATAATTTG
66 ATTCGAACATTGTATATACATATTTATACCATTTATAATTTG
76655175 A
1 A
76655176 ATTTATTCAA
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 107 1.00
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.42
Consensus pattern (107 bp):
ATAAATATACCTTATACCATTCATACTTTAACTTAATTCAAAAATATTTATATAAGCATATATAT
ATTCGAACATTGTATATACATATTTATACCATTTATAATTTG
Found at i:76662108 original size:41 final size:40
Alignment explanation
Indices: 76662063--76662291 Score: 160
Period size: 41 Copynumber: 5.5 Consensus size: 40
76662053 TGATTCAGTA
76662063 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* * *
76662104 CACCGGCATTAAGCCTGCTAGACATTTTGTCT-AAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAA-TATTT
* * *
76662145 CACCGGCAATAAGCCTGCTA-AGC-TCTAAGCCTGAAAATCTCAATTT
1 CACCGGC-ATTAGCCTGCTAGA-CATAT-AGTCTG-AAA--T--ATTT
** ** *
76662191 TTCC-ATATACAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCAT-TAGCCTGCTAGACATATAGTCTGAAATATTT
* * * *
76662231 CACCGGCATTAAGCCTGCTAGACATTTTGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
*
76662272 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
76662292 AGCTCTAAGC
Statistics
Matches: 146, Mismatches: 26, Indels: 32
0.72 0.13 0.16
Matches are distributed among these distances:
40 14 0.10
41 95 0.65
42 5 0.03
43 3 0.02
44 6 0.04
45 15 0.10
46 8 0.05
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:76662242 original size:127 final size:127
Alignment explanation
Indices: 76662074--76662328 Score: 501
Period size: 127 Copynumber: 2.0 Consensus size: 127
76662064 ACCGGCACTT
76662074 AGCCTGCTAGACATATAGTCTGAAATATTTCACCGGCATTAAGCCTGCTAGACATTTTGTCTAAA
1 AGCCTGCTAGACATATAGTCTGAAATATTTCACCGGCATTAAGCCTGCTAGACATTTTGTCTAAA
76662139 GTGTTTCACCGGCAATAAGCCTGCTAAGCTCTAAGCCTGAAAATCTCAATTTTTCCATATAC
66 GTGTTTCACCGGCAATAAGCCTGCTAAGCTCTAAGCCTGAAAATCTCAATTTTTCCATATAC
*
76662201 AGCCTGCTAGACATATAGTCTGAAATATTTCACCGGCATTAAGCCTGCTAGACATTTTGTCTGAA
1 AGCCTGCTAGACATATAGTCTGAAATATTTCACCGGCATTAAGCCTGCTAGACATTTTGTCTAAA
76662266 GTGTTTCACCGGCAATAAGCCTGCTAAGCTCTAAGCCTGAAAATCTCAATTTTTCCATATAC
66 GTGTTTCACCGGCAATAAGCCTGCTAAGCTCTAAGCCTGAAAATCTCAATTTTTCCATATAC
76662328 A
1 A
76662329 AAATAATTTC
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 127 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (127 bp):
AGCCTGCTAGACATATAGTCTGAAATATTTCACCGGCATTAAGCCTGCTAGACATTTTGTCTAAA
GTGTTTCACCGGCAATAAGCCTGCTAAGCTCTAAGCCTGAAAATCTCAATTTTTCCATATAC
Found at i:76673619 original size:30 final size:29
Alignment explanation
Indices: 76673576--76673639 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
76673566 CAAGTAACCG
*
76673576 AAGCTAGTTAAATCGCGCACTTAGTGCCA
1 AAGCTAGTTAAATCGCCCACTTAGTGCCA
76673605 AAGCTAGTTTAAATCGCCCACTTAGTGCCA
1 AAGCTAG-TTAAATCGCCCACTTAGTGCCA
76673635 AAGCT
1 AAGCT
76673640 TCCGATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCCCACTTAGTGCCA
Found at i:76675173 original size:27 final size:27
Alignment explanation
Indices: 76675143--76675201 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
76675133 ACCCTATAGG
* *
76675143 GGTATGTCGGCCATTTTACACTACAAA
1 GGTATGTCAGCAATTTTACACTACAAA
* * * *
76675170 GGTATTTCAGTAATTTTACACTATAAG
1 GGTATGTCAGCAATTTTACACTACAAA
76675197 GGTAT
1 GGTAT
76675202 TTCGATAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTATGTCAGCAATTTTACACTACAAA
Found at i:76675202 original size:27 final size:27
Alignment explanation
Indices: 76675170--76675615 Score: 476
Period size: 27 Copynumber: 16.6 Consensus size: 27
76675160 ACACTACAAA
* *
76675170 GGTATTTCAGTAATTTTACACTAT-AAG
1 GGTATTTCAGTAATTTTACA-AATCGAG
*
76675197 GGTATTTC-GATAA-TTTACAAATCGGG
1 GGTATTTCAG-TAATTTTACAAATCGAG
* *
76675223 GGTGTTTC-GATAATTTTACAAATCGAT
1 GGTATTTCAG-TAATTTTACAAATCGAG
*
76675250 GGTATTTCAGTAATTTGACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
*
76675277 GGTATTTCAGTATTTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* * *
76675304 GGTGTTTCAATAATTTTACAAATCAAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* * * *
76675331 GGTGTTTCGGTAATTTAAAAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* * *
76675358 GGTGTTTTAGTAATTTCACAAATC-AGG
1 GGTATTTCAGTAATTTTACAAATCGA-G
76675385 GGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* *
76675412 GGTATTTCAGTAATTTCAC-AATTGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* *
76675438 GGTATTT-TGATAATTTTACAAATTGAG
1 GGTATTTCAG-TAATTTTACAAATCGAG
** *
76675465 GGTATTTTGGTAATTTTACAAATCAAG
1 GGTATTTCAGTAATTTTACAAATCGAG
*
76675492 GGTATTTTAGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
** **
76675519 GGGGTTTTGGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* *
76675546 GGTGTTTCGGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* * *
76675573 GGTGTTTCGGTAATTTCACAAATC-AGG
1 GGTATTTCAGTAATTTTACAAATCGA-G
76675600 GGTATTTCAGTAATTT
1 GGTATTTCAGTAATTT
76675616 CTCTTTATTA
Statistics
Matches: 365, Mismatches: 44, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
25 3 0.01
26 43 0.12
27 316 0.87
28 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAG
Found at i:76675215 original size:26 final size:27
Alignment explanation
Indices: 76675155--76675212 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
76675145 TATGTCGGCC
76675155 ATTTTACACTACAAAGGTATTTCAGTA
1 ATTTTACACTACAAAGGTATTTCAGTA
* *
76675182 ATTTTACACTATAAGGGTATTTC-GATA
1 ATTTTACACTACAAAGGTATTTCAG-TA
76675209 ATTT
1 ATTT
76675213 ACAAATCGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (27 bp):
ATTTTACACTACAAAGGTATTTCAGTA
Found at i:76675968 original size:28 final size:28
Alignment explanation
Indices: 76675931--76676022 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
76675921 TGGCCCCTTT
* * *
76675931 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
76675959 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
76675987 AGGCCTAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
76676015 AGGACCAA
1 AGGCCCAA
76676023 CTACTTCCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.28, C:0.35, G:0.16, T:0.21
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:76676769 original size:21 final size:21
Alignment explanation
Indices: 76676745--76676788 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
76676735 ATGACCTAAT
*
76676745 TAAATAGAAAGGATA-ATTAAA
1 TAAATA-AAAGGATACAATAAA
*
76676766 TAAATAAAATGATACAATAAA
1 TAAATAAAAGGATACAATAAA
76676787 TA
1 TA
76676789 CTAAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (21 bp):
TAAATAAAAGGATACAATAAA
Found at i:76687967 original size:46 final size:46
Alignment explanation
Indices: 76687900--76688067 Score: 228
Period size: 46 Copynumber: 3.7 Consensus size: 46
76687890 GCTTTCTGAA
** * *
76687900 ATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
76687946 ATGAAATGTGTAAGACCATGGTTGAAAGATACGATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
76687992 ATGAAATGAACAAGACCATGGTTGAAAGATATCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
76688038 GGGAAATGAATAAGACCATGGTTGAAAGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGAT
76688068 GTAATAGCCC
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 109 1.00
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:76698807 original size:46 final size:46
Alignment explanation
Indices: 76698733--76698844 Score: 125
Period size: 46 Copynumber: 2.4 Consensus size: 46
76698723 GGATGTTACA
* * * * *
76698733 AAAGATACCATGGCAACGTGGCATGAAATGAACAGGACCATGGTTG
1 AAAGATACCATGGCAACATGACAGGAAATGAACAAGACCATAGTTG
***
76698779 AAAGATACCATGGCAACATGACAGGAAATGGGTAAGACCATAGTTG
1 AAAGATACCATGGCAACATGACAGGAAATGAACAAGACCATAGTTG
* * *
76698825 AAAGACACTATGGCATCATG
1 AAAGATACCATGGCAACATG
76698845 TCAAAGATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.18
Consensus pattern (46 bp):
AAAGATACCATGGCAACATGACAGGAAATGAACAAGACCATAGTTG
Found at i:76704731 original size:47 final size:47
Alignment explanation
Indices: 76704660--76704756 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
76704650 TAAGCATTAC
*
76704660 TAATTCTTAGTAATTCCCTATGAAATTTACATAGCTTGCCTTGACAT
1 TAATGCTTAGTAATTCCCTATGAAATTTACATAGCTTGCCTTGACAT
*
76704707 TAATGCTTAGTAATTCCCTGTGAAATTTACATAGCTTGCCTTGACAT
1 TAATGCTTAGTAATTCCCTATGAAATTTACATAGCTTGCCTTGACAT
76704754 TAA
1 TAA
76704757 ATTAACTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (47 bp):
TAATGCTTAGTAATTCCCTATGAAATTTACATAGCTTGCCTTGACAT
Found at i:76706779 original size:16 final size:15
Alignment explanation
Indices: 76706744--76706783 Score: 71
Period size: 15 Copynumber: 2.6 Consensus size: 15
76706734 TCATGACAAA
76706744 TGGGAAATCGATTTT
1 TGGGAAATCGATTTT
76706759 TGGGAAATCGATTTT
1 TGGGAAATCGATTTT
76706774 TGGGGAAATC
1 T-GGGAAATC
76706784 ATAAGAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (15 bp):
TGGGAAATCGATTTT
Found at i:76707261 original size:40 final size:40
Alignment explanation
Indices: 76707217--76707296 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
76707207 AAAGAAAAAT
76707217 CATTAAAGTGAAAAAAGAGTACAACAATTATCTAATCCTA
1 CATTAAAGTGAAAAAAGAGTACAACAATTATCTAATCCTA
76707257 CATTAAAGTGAAAAAAGAGTACAACAATTATCTAATCCTA
1 CATTAAAGTGAAAAAAGAGTACAACAATTATCTAATCCTA
76707297 TCATGACAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (40 bp):
CATTAAAGTGAAAAAAGAGTACAACAATTATCTAATCCTA
Found at i:76709654 original size:363 final size:363
Alignment explanation
Indices: 76708989--76709717 Score: 1458
Period size: 363 Copynumber: 2.0 Consensus size: 363
76708979 ACCGCACATT
76708989 CAAAAATTCAAAAATAGGAATTATTCGGCTCTAACAGTAATAGAATTGTAATCAAGAGTATTTAT
1 CAAAAATTCAAAAATAGGAATTATTCGGCTCTAACAGTAATAGAATTGTAATCAAGAGTATTTAT
76709054 CATAACTTATTAGCTTGACACGAAAAATGTTGGAATATCGACATGCCCTATGGAAAAAAGTTGGT
66 CATAACTTATTAGCTTGACACGAAAAATGTTGGAATATCGACATGCCCTATGGAAAAAAGTTGGT
76709119 GATCATAACCCATAGACCCATTATTAAAAAGATCCAGTTCAAAAAAAATTTTCTTACACAGGGAA
131 GATCATAACCCATAGACCCATTATTAAAAAGATCCAGTTCAAAAAAAATTTTCTTACACAGGGAA
76709184 AAAATAAAATTTTAAAAACTGAGCCGGTTTGTAATATTTATAGCAATAAAGTTTTCTTGAAAATT
196 AAAATAAAATTTTAAAAACTGAGCCGGTTTGTAATATTTATAGCAATAAAGTTTTCTTGAAAATT
76709249 ATATGTGCTTTGAGCAAGACATATCCTTAATGTTCTCGGCTTTCAACCAAATGATCTTCTATGAT
261 ATATGTGCTTTGAGCAAGACATATCCTTAATGTTCTCGGCTTTCAACCAAATGATCTTCTATGAT
76709314 ATTTTCATACCACGAATTACTTCGAGTGTGAGCTTGAA
326 ATTTTCATACCACGAATTACTTCGAGTGTGAGCTTGAA
76709352 CAAAAATTCAAAAATAGGAATTATTCGGCTCTAACAGTAATAGAATTGTAATCAAGAGTATTTAT
1 CAAAAATTCAAAAATAGGAATTATTCGGCTCTAACAGTAATAGAATTGTAATCAAGAGTATTTAT
76709417 CATAACTTATTAGCTTGACACGAAAAATGTTGGAATATCGACATGCCCTATGGAAAAAAGTTGGT
66 CATAACTTATTAGCTTGACACGAAAAATGTTGGAATATCGACATGCCCTATGGAAAAAAGTTGGT
76709482 GATCATAACCCATAGACCCATTATTAAAAAGATCCAGTTCAAAAAAAATTTTCTTACACAGGGAA
131 GATCATAACCCATAGACCCATTATTAAAAAGATCCAGTTCAAAAAAAATTTTCTTACACAGGGAA
76709547 AAAATAAAATTTTAAAAACTGAGCCGGTTTGTAATATTTATAGCAATAAAGTTTTCTTGAAAATT
196 AAAATAAAATTTTAAAAACTGAGCCGGTTTGTAATATTTATAGCAATAAAGTTTTCTTGAAAATT
76709612 ATATGTGCTTTGAGCAAGACATATCCTTAATGTTCTCGGCTTTCAACCAAATGATCTTCTATGAT
261 ATATGTGCTTTGAGCAAGACATATCCTTAATGTTCTCGGCTTTCAACCAAATGATCTTCTATGAT
76709677 ATTTTCATACCACGAATTACTTCGAGTGTGAGCTTGAA
326 ATTTTCATACCACGAATTACTTCGAGTGTGAGCTTGAA
76709715 CAA
1 CAA
76709718 TTACAAATCA
Statistics
Matches: 366, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
363 366 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (363 bp):
CAAAAATTCAAAAATAGGAATTATTCGGCTCTAACAGTAATAGAATTGTAATCAAGAGTATTTAT
CATAACTTATTAGCTTGACACGAAAAATGTTGGAATATCGACATGCCCTATGGAAAAAAGTTGGT
GATCATAACCCATAGACCCATTATTAAAAAGATCCAGTTCAAAAAAAATTTTCTTACACAGGGAA
AAAATAAAATTTTAAAAACTGAGCCGGTTTGTAATATTTATAGCAATAAAGTTTTCTTGAAAATT
ATATGTGCTTTGAGCAAGACATATCCTTAATGTTCTCGGCTTTCAACCAAATGATCTTCTATGAT
ATTTTCATACCACGAATTACTTCGAGTGTGAGCTTGAA
Found at i:76710522 original size:27 final size:27
Alignment explanation
Indices: 76710484--76710545 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
76710474 CAAATGTAAC
*
76710484 CCATATTTCTAACTATATCATTCCCAT
1 CCATTTTTCTAACTATATCATTCCCAT
76710511 CCATTTTTCTAACTATATCATTCCCAT
1 CCATTTTTCTAACTATATCATTCCCAT
76710538 CCATTTTT
1 CCATTTTT
76710546 GTCCATTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (27 bp):
CCATTTTTCTAACTATATCATTCCCAT
Found at i:76718397 original size:27 final size:26
Alignment explanation
Indices: 76718345--76718404 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
76718335 ATATATATAT
*
76718345 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
76718371 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
76718398 ATATCTG
1 ATATCTG
76718405 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:76722791 original size:11 final size:11
Alignment explanation
Indices: 76722771--76722801 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
76722761 CTTCTGATTA
*
76722771 CTATTATTTTG
1 CTATTGTTTTG
76722782 CTATTGTTTTG
1 CTATTGTTTTG
76722793 CTATTGTTT
1 CTATTGTTT
76722802 GTTGTCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.65
Consensus pattern (11 bp):
CTATTGTTTTG
Found at i:76722812 original size:21 final size:22
Alignment explanation
Indices: 76722788--76722837 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
76722778 TTTGCTATTG
76722788 TTTTGCTATTG-TTTGTTGTCA
1 TTTTGCTATTGTTTTGTTGTCA
* *
76722809 TTTTGATGTTGTTTTGTTGTCA
1 TTTTGCTATTGTTTTGTTGTCA
76722831 TTTTGCT
1 TTTTGCT
76722838 TTTACATTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.08, C:0.08, G:0.20, T:0.64
Consensus pattern (22 bp):
TTTTGCTATTGTTTTGTTGTCA
Found at i:76724434 original size:31 final size:31
Alignment explanation
Indices: 76724399--76724461 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
76724389 CTCTCTCTTT
76724399 AATCTGATTAATTTAAACTATTTATTTTTGA
1 AATCTGATTAATTTAAACTATTTATTTTTGA
* * *
76724430 AATCTTATTAATTTAAATTATTTTTTTTTGA
1 AATCTGATTAATTTAAACTATTTATTTTTGA
76724461 A
1 A
76724462 CATAGGATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (31 bp):
AATCTGATTAATTTAAACTATTTATTTTTGA
Found at i:76732631 original size:2 final size:2
Alignment explanation
Indices: 76732624--76732655 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
76732614 GGACGAATCC
76732624 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
76732656 TCGTTCTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:76734632 original size:21 final size:21
Alignment explanation
Indices: 76734608--76734652 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
76734598 ATAAAAAATC
76734608 AATTAAACAGGCAAAAGGGTG
1 AATTAAACAGGCAAAAGGGTG
76734629 AATTAAACAGGCAAAAGGGTG
1 AATTAAACAGGCAAAAGGGTG
76734650 AAT
1 AAT
76734653 CGCTTCTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.49, C:0.09, G:0.27, T:0.16
Consensus pattern (21 bp):
AATTAAACAGGCAAAAGGGTG
Found at i:76739050 original size:20 final size:20
Alignment explanation
Indices: 76739000--76739052 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
76738990 ACAAGATAAG
*
76739000 TATTAAATTAA-AATTTTAA
1 TATTAAATTAATAACTTTAA
*
76739019 TATTAAGA-TAATCACTTTAA
1 TATTAA-ATTAATAACTTTAA
76739039 TATTAAATTAATAA
1 TATTAAATTAATAA
76739053 AATAATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (20 bp):
TATTAAATTAATAACTTTAA
Found at i:76749783 original size:35 final size:35
Alignment explanation
Indices: 76749744--76749812 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
76749734 CGCATTACGA
*
76749744 CTTGGATATCTCCCTGTACAGGGCTTCAATACTGC
1 CTTGGATATCTCCCTGTACAAGGCTTCAATACTGC
76749779 CTTGGATATCTCCCTGTACAAGGCTTCAATACTG
1 CTTGGATATCTCCCTGTACAAGGCTTCAATACTG
76749813 ATGCCGTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.32
Consensus pattern (35 bp):
CTTGGATATCTCCCTGTACAAGGCTTCAATACTGC
Found at i:76750944 original size:39 final size:39
Alignment explanation
Indices: 76750823--76751786 Score: 1688
Period size: 39 Copynumber: 24.6 Consensus size: 39
76750813 GCTCCTCGTT
* * *
76750823 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCACA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
76750863 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
76750903 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76750942 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76750981 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751020 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751059 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751098 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751137 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751176 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751215 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751254 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751293 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751332 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751371 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751410 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751449 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751488 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751527 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751566 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751605 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
76751644 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
76751683 CAAATGCCTTCGGGCTTAGCTCGAAATTAGTATCTCACA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
76751722 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
76751763 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
76751787 CATCATTCAA
Statistics
Matches: 899, Mismatches: 18, Indels: 15
0.96 0.02 0.02
Matches are distributed among these distances:
39 830 0.92
40 59 0.07
41 10 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:76756295 original size:75 final size:75
Alignment explanation
Indices: 76755284--76756281 Score: 1768
Period size: 75 Copynumber: 13.3 Consensus size: 75
76755274 TTTATTCAGC
* * * *
76755284 TAGTGCTCGGCACACCATTATATTTTTTGGTTTATCTGACTAGTGTTGGGCGCAAATTTTGTCAG
1 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
76755349 TTTATCTGAG
66 TTTATCTGAG
76755359 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
1 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
76755424 TTTATCTGAG
66 TTTATCTGAG
76755434 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
1 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
76755499 TTTATCTGAG
66 TTTATCTGAG
76755509 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
1 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
76755574 TTTATCTGAG
66 TTTATCTGAG
76755584 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
1 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
76755649 TTTATCTGAG
66 TTTATCTGAG
76755659 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
1 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
76755724 TTTATCTGAG
66 TTTATCTGAG
76755734 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
1 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
76755799 TTTATCTGAG
66 TTTATCTGAG
76755809 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
1 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
76755874 TTTATCTGAG
66 TTTATCTGAG
76755884 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
1 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
76755949 TTTATCTGAG
66 TTTATCTGAG
76755959 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
1 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
76756024 TTTATCTGAG
66 TTTATCTGAG
*
76756034 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAAATTTTGTCAG
1 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
76756099 TTTATCTGAG
66 TTTATCTGAG
76756109 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTCT-TCA
1 TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTT-TGTCA
* * *
76756173 ATTTATTTGAC
65 GTTTATCTGAG
* * * * * * * * *
76756184 TAGTGATGAGCACACTATTG-TAATTTTT-AGTTTATCCGACTAGCGCTGGGTGCAACTTTCGTC
1 TAGTGCTGGGCACACCA-TGAT-ATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTC
*
76756247 AGTTTATCTGAC
64 AGTTTATCTGAG
* *
76756259 TAGTGCTGGGCACATCATTATAT
1 TAGTGCTGGGCACACCATGATAT
76756282 CTGTCAGTTT
Statistics
Matches: 893, Mismatches: 25, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
74 3 0.00
75 881 0.99
76 9 0.01
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.39
Consensus pattern (75 bp):
TAGTGCTGGGCACACCATGATATTTTTCGGTTTATCTGACTAGTGTTGGGCGCAACTTTTGTCAG
TTTATCTGAG
Found at i:76786139 original size:40 final size:40
Alignment explanation
Indices: 76786063--76786166 Score: 158
Period size: 40 Copynumber: 2.6 Consensus size: 40
76786053 CAAACCCAAG
*
76786063 TACCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAA
1 TACCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAA
76786102 TACCTTCGGGATTTAGCCCGGATATAGTC-ACTAGCACAAA
1 TACCTTCGGGATTTAGCCCGGATATAG-CAACTAGCACAAA
* *
76786142 TGCCTTCGGGACTTAGCCCGGATAT
1 TACCTTCGGGATTTAGCCCGGATAT
76786167 CATTCAAATA
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
39 16 0.27
40 43 0.72
41 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
TACCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAA
Done.