Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 305 of 320
Found at i:97283916 original size:23 final size:23
Alignment explanation
Indices: 97283890--97283934 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
97283880 ATCTACGGTT
97283890 TTTGTTT-TTATGTTTTGTTGTGA
1 TTTGTTTCTTAT-TTTTGTTGTGA
*
97283913 TTTGTTTCTTCTTTTTGTTGTG
1 TTTGTTTCTTATTTTTGTTGTG
97283935 TGTGTGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.04, C:0.04, G:0.20, T:0.71
Consensus pattern (23 bp):
TTTGTTTCTTATTTTTGTTGTGA
Found at i:97295132 original size:69 final size:68
Alignment explanation
Indices: 97295021--97295162 Score: 275
Period size: 69 Copynumber: 2.1 Consensus size: 68
97295011 TACCACGTAA
97295021 GATTGAATACAAATATTTTTGTTTTTGAAGCAGAGCTTTTTGGTATTTTTGTTCTTTTACAAAAA
1 GATTGAATACAAATATTTTTGTTTTTGAAGCAGAGCTTTTTGGTATTTTTGTTCTTTTAC-AAAA
97295086 AGAG
65 AGAG
97295090 GATTGAATACAAATATTTTTGTTTTTGAAGCAGAGCTTTTTGGTATTTTTGTTCTTTTACAAAAA
1 GATTGAATACAAATATTTTTGTTTTTGAAGCAGAGCTTTTTGGTATTTTTGTTCTTTTACAAAAA
97295155 GAG
66 GAG
97295158 GATTG
1 GATTG
97295163 GCAGTCCCAT
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 13 0.18
69 60 0.82
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.45
Consensus pattern (68 bp):
GATTGAATACAAATATTTTTGTTTTTGAAGCAGAGCTTTTTGGTATTTTTGTTCTTTTACAAAAA
GAG
Found at i:97303477 original size:15 final size:15
Alignment explanation
Indices: 97303428--97303478 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
97303418 AATAGTCAGA
*
97303428 TTATATTTTAGTAAT
1 TTATATTTTAGTTAT
* * **
97303443 TTATGTTTGAAATA-
1 TTATATTTTAGTTAT
97303457 TTATATTTTAGTTAT
1 TTATATTTTAGTTAT
97303472 TTATATT
1 TTATATT
97303479 ATTATTTTGT
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (15 bp):
TTATATTTTAGTTAT
Found at i:97305137 original size:49 final size:49
Alignment explanation
Indices: 97305084--97305182 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
97305074 TTTTATAGGG
*
97305084 GTTGGTGTGGCGAATGCTGGGGTTGTCATCCAAGATTGGTGCGGCGAGT
1 GTTGGTGTGGCGAATGCTGGGGTTGTCATCCAAGATAGGTGCGGCGAGT
*
97305133 GTTGGTGTGGCGATTGCTGGGGTTGTCATCCAAGATAGGTGCGGCGAGT
1 GTTGGTGTGGCGAATGCTGGGGTTGTCATCCAAGATAGGTGCGGCGAGT
97305182 G
1 G
97305183 ATGGGGTAGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.14, C:0.14, G:0.43, T:0.28
Consensus pattern (49 bp):
GTTGGTGTGGCGAATGCTGGGGTTGTCATCCAAGATAGGTGCGGCGAGT
Found at i:97313210 original size:11 final size:11
Alignment explanation
Indices: 97313194--97313218 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
97313184 ATTTAAAAAT
97313194 ATAAAGTATTA
1 ATAAAGTATTA
97313205 ATAAAGTATTA
1 ATAAAGTATTA
97313216 ATA
1 ATA
97313219 TATTTATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (11 bp):
ATAAAGTATTA
Found at i:97314009 original size:20 final size:18
Alignment explanation
Indices: 97313971--97314009 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
97313961 TTTCAAGAAA
97313971 TATAAATTTTAGAATTTT
1 TATAAATTTTAGAATTTT
*
97313989 TATAAATATTTTGAATATTT
1 TATAAAT-TTTAGAAT-TTT
97314009 T
1 T
97314010 TTATTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 7 0.39
20 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TATAAATTTTAGAATTTT
Found at i:97320252 original size:21 final size:21
Alignment explanation
Indices: 97320226--97320266 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
97320216 AGACGAGCAA
* *
97320226 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
97320247 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
97320267 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:97324956 original size:18 final size:17
Alignment explanation
Indices: 97324915--97324958 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
97324905 TATAAAAATT
* *
97324915 ATTAAAAAAGAATAAAA
1 ATTAAAATAGAAGAAAA
*
97324932 ATAAAAATAGAAGACAAA
1 ATTAAAATAGAAGA-AAA
97324950 ATTAAAATA
1 ATTAAAATA
97324959 TAATTATCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (17 bp):
ATTAAAATAGAAGAAAA
Found at i:97329351 original size:2 final size:2
Alignment explanation
Indices: 97329344--97329384 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
97329334 AAGGTTACCG
* * *
97329344 TC TC TC TC TT TC TC TC TC TC TG TC TC TC TC TC TC TT TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
97329385 TTGTAATTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.41, G:0.02, T:0.56
Consensus pattern (2 bp):
TC
Found at i:97329361 original size:12 final size:12
Alignment explanation
Indices: 97329344--97329384 Score: 64
Period size: 12 Copynumber: 3.2 Consensus size: 12
97329334 AAGGTTACCG
97329344 TCTCTCTCTTTC
1 TCTCTCTCTTTC
97329356 TCTCTCTCTGTCTC
1 TCTCTCTCT-T-TC
97329370 TCTCTCTCTTTC
1 TCTCTCTCTTTC
97329382 TCT
1 TCT
97329385 TTGTAATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 14 0.52
13 2 0.07
14 11 0.41
ACGTcount: A:0.00, C:0.41, G:0.02, T:0.56
Consensus pattern (12 bp):
TCTCTCTCTTTC
Found at i:97338384 original size:12 final size:13
Alignment explanation
Indices: 97338367--97338403 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
97338357 GAACCGGACA
97338367 CGAACCGAA-CTC
1 CGAACCGAAGCTC
97338379 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
97338391 CGAACCGTAGCTC
1 CGAACCGAAGCTC
97338404 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:97342756 original size:18 final size:18
Alignment explanation
Indices: 97342733--97342776 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
97342723 AATTGATCGG
*
97342733 TTATTCAGTAACAGTGAA
1 TTATTCAGTAACAGTCAA
* *
97342751 TTATTCGGTAACAGTCAT
1 TTATTCAGTAACAGTCAA
97342769 TTATTCAG
1 TTATTCAG
97342777 AAATAATCAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:97343017 original size:53 final size:53
Alignment explanation
Indices: 97342902--97343022 Score: 181
Period size: 53 Copynumber: 2.3 Consensus size: 53
97342892 CCGGAACAGT
*
97342902 AACAGTAACAGTAGCAGTACGGTACACAGAGCACCTCATCGGAACAAATCTGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGCACCTCATCGGAACAAATCTGA
* * *
97342955 AATAGTAACAGTAACATTACGGTACACAGAGTACCTCATCGGAACAAATCCT-A
1 AACAGTAACAGTAACAGTACGGTACACAGAGCACCTCATCGGAACAAAT-CTGA
*
97343008 AACAATAACAGTAAC
1 AACAGTAACAGTAAC
97343023 GGTAATAGTA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 59 0.97
54 2 0.03
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTACGGTACACAGAGCACCTCATCGGAACAAATCTGA
Found at i:97343078 original size:12 final size:12
Alignment explanation
Indices: 97343061--97343085 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
97343051 AGTGTCGAAT
97343061 CGGTAACAGTAA
1 CGGTAACAGTAA
97343073 CGGTAACAGTAA
1 CGGTAACAGTAA
97343085 C
1 C
97343086 CAGTAACAAT
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:97343224 original size:48 final size:48
Alignment explanation
Indices: 97343153--97343249 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
97343143 TTCCATATCC
97343153 TATGGCATGTCAACTATATCCGACTAGCCCGACTAGTTAATAGGGTAT
1 TATGGCATGTCAACTATATCCGACTAGCCCGACTAGTTAATAGGGTAT
97343201 TATGGCATGTCAACTATATCCGACTAGCCCGACTAGTTAATAGGGTAT
1 TATGGCATGTCAACTATATCCGACTAGCCCGACTAGTTAATAGGGTAT
97343249 T
1 T
97343250 TAATTCACTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (48 bp):
TATGGCATGTCAACTATATCCGACTAGCCCGACTAGTTAATAGGGTAT
Found at i:97350933 original size:21 final size:21
Alignment explanation
Indices: 97350894--97350946 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
97350884 ATCAAAAAAT
97350894 TAAATAA-ATTTAAATTATAATA
1 TAAATAATATTT-AATTAT-ATA
97350916 TAAATAATATTT-ATTATATA
1 TAAATAATATTTAATTATATA
*
97350936 -AAAAAATATTT
1 TAAATAATATTT
97350947 TAAAAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 10 0.34
20 3 0.10
21 5 0.17
22 7 0.24
23 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATAATATTTAATTATATA
Found at i:97353411 original size:29 final size:30
Alignment explanation
Indices: 97353377--97353463 Score: 140
Period size: 29 Copynumber: 2.9 Consensus size: 30
97353367 ATCTTAGCCT
*
97353377 TTTCCACCATCAACTCCACTAGCCACAC-C
1 TTTCCACCACCAACTCCACTAGCCACACAC
*
97353406 TTTCCACCACCAACTCCACTAGCCACACAT
1 TTTCCACCACCAACTCCACTAGCCACACAC
*
97353436 TTTCCACCACCAAATCCACTAGCCACAC
1 TTTCCACCACCAACTCCACTAGCCACAC
97353464 TTGCTCCGTT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 27 0.50
30 27 0.50
ACGTcount: A:0.30, C:0.47, G:0.03, T:0.20
Consensus pattern (30 bp):
TTTCCACCACCAACTCCACTAGCCACACAC
Found at i:97353442 original size:30 final size:29
Alignment explanation
Indices: 97353375--97353507 Score: 149
Period size: 30 Copynumber: 4.5 Consensus size: 29
97353365 AAATCTTAGC
*
97353375 CTTTTCCACCATCAACTCCACTAGCCACA
1 CTTTTCCACCACCAACTCCACTAGCCACA
*
97353404 CCTTTCCACCACCAACTCCACTAGCCACA
1 CTTTTCCACCACCAACTCCACTAGCCACA
*
97353433 CATTTTCCACCACCAAATCCACTAGCCACA
1 C-TTTTCCACCACCAACTCCACTAGCCACA
* *** * *
97353463 CTTGCTCCGTTACCTACTCCACTAACCACA
1 CTT-TTCCACCACCAACTCCACTAGCCACA
*
97353493 CTTGCTCCACCACCA
1 CTT-TTCCACCACCA
97353508 CTTGTACCTA
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
29 30 0.34
30 57 0.66
ACGTcount: A:0.27, C:0.47, G:0.05, T:0.22
Consensus pattern (29 bp):
CTTTTCCACCACCAACTCCACTAGCCACA
Found at i:97354039 original size:23 final size:23
Alignment explanation
Indices: 97354002--97354131 Score: 72
Period size: 25 Copynumber: 5.5 Consensus size: 23
97353992 CCTTTTTTGT
97354002 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
97354025 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
97354047 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
97354070 TATTACGTATATATAT-TTTATACTA
1 TATTA--TATATAT-TCTTAATATTA
* *
97354095 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
97354120 TATTATTTATAT
1 TATTATATATAT
97354132 ATATATTATT
Statistics
Matches: 81, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 26 0.32
24 4 0.05
25 28 0.35
26 4 0.05
27 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:97354107 original size:27 final size:27
Alignment explanation
Indices: 97354077--97354211 Score: 86
Period size: 25 Copynumber: 5.2 Consensus size: 27
97354067 CTATATTACG
*
97354077 TATATATATTTTATACTATTTTATG--
1 TATATATATTTTATACTATATTATGTA
* * * *
97354102 TATATATCTTTAATATTATATTATTTA
1 TATATATATTTTATACTATATTATGTA
* *
97354129 TATATATATTATT-TAC-ATGTTATCTTA
1 TATATATATT-TTATACTATATTAT-GTA
* *
97354156 TGTATATATCTTA-ACTATATTATGTA
1 TATATATATTTTATACTATATTATGTA
* * *
97354182 TGTAT-T-TTTAACACTATATTATGTA
1 TATATATATTTTATACTATATTATGTA
*
97354207 CATAT
1 TATAT
97354212 TTTTAATATT
Statistics
Matches: 86, Mismatches: 17, Indels: 14
0.74 0.15 0.12
Matches are distributed among these distances:
24 3 0.03
25 37 0.43
26 17 0.20
27 28 0.33
28 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (27 bp):
TATATATATTTTATACTATATTATGTA
Found at i:97354136 original size:15 final size:15
Alignment explanation
Indices: 97354096--97354143 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
97354086 TTTATACTAT
* *
97354096 TTTATGTATATA-TC
1 TTTATATATATATTA
97354110 TTTA-ATATTATATTA
1 TTTATATA-TATATTA
97354125 TTTATATATATATTA
1 TTTATATATATATTA
97354140 TTTA
1 TTTA
97354144 CATGTTATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 2 0.07
14 8 0.28
15 16 0.55
16 3 0.10
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (15 bp):
TTTATATATATATTA
Found at i:97354136 original size:29 final size:31
Alignment explanation
Indices: 97354087--97354164 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
97354077 TATATATATT
* * *
97354087 TTATACTATTT-TATGTATATATCTTTA-ATA
1 TTATATTATTTATATATATAT-TATTTACATA
*
97354117 TTATATTATTTATATATATATTATTTACATG
1 TTATATTATTTATATATATATTATTTACATA
* *
97354148 TTATCTTATGTATATAT
1 TTATATTATTTATATAT
97354165 CTTAACTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 15 0.38
31 25 0.62
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (31 bp):
TTATATTATTTATATATATATTATTTACATA
Found at i:97354201 original size:25 final size:25
Alignment explanation
Indices: 97354169--97354217 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
97354159 ATATATCTTA
**
97354169 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
97354194 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
97354218 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:97354396 original size:16 final size:15
Alignment explanation
Indices: 97354372--97354419 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
97354362 TAATTATTAT
*
97354372 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
97354388 TATTTTAATATTTTA
1 TATTTTAATATTTTA
97354403 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
97354419 T
1 T
97354420 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:97354407 original size:7 final size:8
Alignment explanation
Indices: 97354372--97354423 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
97354362 TAATTATTAT
*
97354372 TATTCTAA
1 TATTTTAA
*
97354380 TATTTTGA
1 TATTTTAA
97354388 TATTTTAA
1 TATTTTAA
97354396 TATTTT-A
1 TATTTTAA
97354403 TATTTTATA
1 TATTTTA-A
*
97354412 TATTTTAT
1 TATTTTAA
97354420 TATT
1 TATT
97354424 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:97359551 original size:84 final size:83
Alignment explanation
Indices: 97359329--97359551 Score: 229
Period size: 84 Copynumber: 2.7 Consensus size: 83
97359319 CAATCCACGT
* *
97359329 ATTTAAGGGTTTGAAAGCTATATGAATAAT-AAAAATGGTATAATAAATAATAAA-AGATCAAAT
1 ATTTAAGGGTTTGAAAGATATATGAATAATAAAAAATGGTATAAAAAATAATAAAGAGATCAAAT
* * * *
97359392 ATAAATATTAATCTTTCG
66 AGAAACACTAACCTTTCG
* * * * *
97359410 ACTTAAAGGTTTGAAAGACATATGAATAATAACAAAAATTGTATAAATAATAATAAAGA-ATCAA
1 ATTTAAGGGTTTGAAAGATATATGAATAAT-A-AAAAATGGTATAAAAAATAATAAAGAGATCAA
*
97359474 ATAGAAACACTAGCCTTTCTG
64 ATAGAAACACTAACCTTTC-G
* * * *
97359495 -TTTAAGGGTTTAAAAGGTACATGAATAATAGAAACAATGGTGTAAAAAATAATAAAG
1 ATTTAAGGGTTTGAAAGATATATGAATAATA-AAA-AATGGTATAAAAAATAATAAAG
97359552 GACTAAATAG
Statistics
Matches: 114, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
81 26 0.23
83 4 0.04
84 82 0.72
85 2 0.02
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (83 bp):
ATTTAAGGGTTTGAAAGATATATGAATAATAAAAAATGGTATAAAAAATAATAAAGAGATCAAAT
AGAAACACTAACCTTTCG
Found at i:97363610 original size:3 final size:3
Alignment explanation
Indices: 97363602--97363630 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
97363592 TTTGACGCCT
97363602 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
97363631 CCAGGAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:97366925 original size:12 final size:12
Alignment explanation
Indices: 97366910--97366973 Score: 62
Period size: 12 Copynumber: 5.3 Consensus size: 12
97366900 CTATATCTTT
97366910 TATTATAATATA
1 TATTATAATATA
97366922 TATTATAATGATA
1 TATTATAAT-ATA
* *
97366935 -GTTAT-ATATG
1 TATTATAATATA
97366945 TATTAATAATTATA
1 TATT-ATAA-TATA
97366959 TATTATAATAT-
1 TATTATAATATA
97366970 TATT
1 TATT
97366974 TTATGTATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 2 0.05
11 8 0.19
12 18 0.42
13 8 0.19
14 7 0.16
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (12 bp):
TATTATAATATA
Found at i:97366959 original size:18 final size:18
Alignment explanation
Indices: 97366936--97366988 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
97366926 ATAATGATAG
97366936 TTATATATGTATTAATAA
1 TTATATATGTATTAATAA
97366954 TTATATAT-TA-TAAT-A
1 TTATATATGTATTAATAA
*
97366969 TTATTTTATGTATTAATAA
1 TTA-TATATGTATTAATAA
97366988 T
1 T
97366989 ATACTAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.13
16 8 0.27
17 4 0.13
18 12 0.40
19 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (18 bp):
TTATATATGTATTAATAA
Found at i:97366984 original size:34 final size:37
Alignment explanation
Indices: 97366910--97366988 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
97366900 CTATATCTTT
97366910 TATT-ATAA-TATATATTATAATGATAGTTATATATG
1 TATTAATAATTATATATTATAATGATAGTTATATATG
97366945 TATTAATAATTATATATTATAAT-ATTA-TT-T-TATG
1 TATTAATAATTATATATTATAATGA-TAGTTATATATG
97366979 TATTAATAAT
1 TATTAATAAT
97366989 ATACTAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
34 14 0.34
35 5 0.12
36 7 0.17
37 15 0.37
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (37 bp):
TATTAATAATTATATATTATAATGATAGTTATATATG
Found at i:97371295 original size:18 final size:17
Alignment explanation
Indices: 97371250--97371296 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
97371240 CAACTTGTAT
97371250 TTTTA-AGTATGTAATA
1 TTTTATAGTATGTAATA
* * *
97371266 TTTTATATTATGTTATT
1 TTTTATAGTATGTAATA
97371283 TTTGTATAGTATGT
1 TTT-TATAGTATGT
97371297 CATCTATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 5 0.20
17 11 0.44
18 9 0.36
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.60
Consensus pattern (17 bp):
TTTTATAGTATGTAATA
Found at i:97371911 original size:11 final size:11
Alignment explanation
Indices: 97371895--97371937 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
97371885 TAGAATATAT
97371895 CCCATACCTTG
1 CCCATACCTTG
*
97371906 CCCATACCTTT
1 CCCATACCTTG
* *
97371917 CTCATACC-TA
1 CCCATACCTTG
97371927 CCCATACCTTG
1 CCCATACCTTG
97371938 GAAAGGTCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.21, C:0.44, G:0.05, T:0.30
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:97372498 original size:18 final size:18
Alignment explanation
Indices: 97372475--97372543 Score: 111
Period size: 18 Copynumber: 3.8 Consensus size: 18
97372465 CGTTTATGGT
97372475 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
*
97372493 ACTATTCACGTATACGAC
1 ACTATTCACGTATACGGC
*
97372511 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
*
97372529 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
97372544 AGTAGTTGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:97376406 original size:11 final size:11
Alignment explanation
Indices: 97376390--97376432 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
97376380 TAGAATATAT
97376390 CCCATACCTTG
1 CCCATACCTTG
*
97376401 CCCATACCTTT
1 CCCATACCTTG
* *
97376412 CTCATACC-TA
1 CCCATACCTTG
97376422 CCCATACCTTG
1 CCCATACCTTG
97376433 GAAAGGTCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.21, C:0.44, G:0.05, T:0.30
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:97379572 original size:22 final size:22
Alignment explanation
Indices: 97379546--97379600 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
97379536 AAAGTGAATA
* *
97379546 AAACAAACAGAGTAAAGAAAAG
1 AAACAAAAAGAATAAAGAAAAG
*
97379568 AAACAAAAAGAATAGAGAAAAG
1 AAACAAAAAGAATAAAGAAAAG
*
97379590 AGAACAGAAAG
1 A-AACAAAAAG
97379601 CATTCGAGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.69, C:0.07, G:0.20, T:0.04
Consensus pattern (22 bp):
AAACAAAAAGAATAAAGAAAAG
Found at i:97381178 original size:21 final size:23
Alignment explanation
Indices: 97381123--97381184 Score: 83
Period size: 21 Copynumber: 2.8 Consensus size: 23
97381113 TACTGATCAA
97381123 GCACTTTATGTGTCGTATTTCAG
1 GCACTTTATGTGTCGTATTTCAG
* **
97381146 GCACCTCGTGTGTCGT-TTT-AG
1 GCACTTTATGTGTCGTATTTCAG
97381167 GCACTTTATGTGTCGTAT
1 GCACTTTATGTGTCGTAT
97381185 ACTGATCAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 15 0.47
22 4 0.12
23 13 0.41
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.42
Consensus pattern (23 bp):
GCACTTTATGTGTCGTATTTCAG
Found at i:97386991 original size:20 final size:20
Alignment explanation
Indices: 97386968--97387006 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
97386958 TAAACATGGT
97386968 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
97386988 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
97387007 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:97387084 original size:24 final size:24
Alignment explanation
Indices: 97387057--97387153 Score: 142
Period size: 25 Copynumber: 4.0 Consensus size: 24
97387047 GAGGAAGTGC
97387057 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
97387081 AAAAAGGGCTTATGCCCCAGTTATC
1 -AAAAGGGCTTATGCCCCAGTTATT
97387106 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
97387130 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
97387154 ATGATAAAGC
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
24 33 0.49
25 34 0.51
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:97387150 original size:49 final size:49
Alignment explanation
Indices: 97387056--97387153 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 49
97387046 GGAGGAAGTG
*
97387056 CAAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTAGGCCCCAGTTAT
97387105 CAAAAGGGCTTATGCCCCAGTTATT-AAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAAAG-GGCTTAGGCC-CCAGTTAT
97387154 ATGATAAAGC
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
48 10 0.22
49 36 0.78
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (49 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTAGGCCCCAGTTAT
Found at i:97388464 original size:182 final size:182
Alignment explanation
Indices: 97388157--97388520 Score: 683
Period size: 182 Copynumber: 2.0 Consensus size: 182
97388147 GCATCCCAAG
97388157 ATCTTTTCCAGCATCAAGTGCCTTTCTCAAAACCTAGAATCAAAAGGAAGGTTTCATTATTGAAC
1 ATCTTTTCCAGCATCAAGTGCCTTTCTCAAAACCTAGAATCAAAAGGAAGGTTTCATTATTGAAC
*
97388222 ACATGATATATACTACCCTGAAAAGTAAAACATGGCTATAAATCCAGTAACTCAACAAAGTTCTA
66 ACATGATATATACTACCCTGAAAAGTAAAACATGGCCATAAATCCAGTAACTCAACAAAGTTCTA
97388287 ACCGTGTGGTTGCGAGTGTACCAATCACCAATCAAAATTGTAATGTCTCCAT
131 ACCGTGTGGTTGCGAGTGTACCAATCACCAATCAAAATTGTAATGTCTCCAT
*
97388339 ATCTTTTCCAGCATCAAGTGCCTTTCTCAAAGCCTAGAATCAAAAGGAAGGTTTCATTATTGAAC
1 ATCTTTTCCAGCATCAAGTGCCTTTCTCAAAACCTAGAATCAAAAGGAAGGTTTCATTATTGAAC
* *
97388404 ACATTATATATACTACCCTGAAAAGTAAAACATGGCCATAAATCCTGTAACTCAACAAAGTTCTA
66 ACATGATATATACTACCCTGAAAAGTAAAACATGGCCATAAATCCAGTAACTCAACAAAGTTCTA
*
97388469 ACTGTGTGGTTGCGAGTGTACCAATCACCAATCAAAATTGTAATGTCTCCAT
131 ACCGTGTGGTTGCGAGTGTACCAATCACCAATCAAAATTGTAATGTCTCCAT
97388521 TAGGGAAGCC
Statistics
Matches: 177, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
182 177 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (182 bp):
ATCTTTTCCAGCATCAAGTGCCTTTCTCAAAACCTAGAATCAAAAGGAAGGTTTCATTATTGAAC
ACATGATATATACTACCCTGAAAAGTAAAACATGGCCATAAATCCAGTAACTCAACAAAGTTCTA
ACCGTGTGGTTGCGAGTGTACCAATCACCAATCAAAATTGTAATGTCTCCAT
Found at i:97388719 original size:22 final size:22
Alignment explanation
Indices: 97388691--97388734 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
97388681 AGGACAATTA
97388691 GTGCCTGGTAACCCATCTTGCC
1 GTGCCTGGTAACCCATCTTGCC
97388713 GTGCCTGGTAACCCATCTTGCC
1 GTGCCTGGTAACCCATCTTGCC
97388735 ATGAACTACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.36, G:0.23, T:0.27
Consensus pattern (22 bp):
GTGCCTGGTAACCCATCTTGCC
Found at i:97394988 original size:83 final size:83
Alignment explanation
Indices: 97394885--97395046 Score: 288
Period size: 83 Copynumber: 2.0 Consensus size: 83
97394875 CTGCAAATCA
* *
97394885 AGAACCTGAAGCAAGTCGAGGAAAAGAAAAAGTAGCTGATTAGTCCCTGAACTTTCACAAATTTT
1 AGAACCCGAAGCAAGTCGAGGAAAAGAAAAAGTAGCTAATTAGTCCCTGAACTTTCACAAATTTT
*
97394950 GCAAATTGACCCAGATCG
66 GCAAATCGACCCAGATCG
*
97394968 AGAACCCGAAGCAAGTCGAGGAAAAGAAAAAGTAGCTAATTAGTCCCTGGACTTTCACAAATTTT
1 AGAACCCGAAGCAAGTCGAGGAAAAGAAAAAGTAGCTAATTAGTCCCTGAACTTTCACAAATTTT
97395033 GCAAATCGACCCAG
66 GCAAATCGACCCAG
97395047 GTAAGTTCAT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 75 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (83 bp):
AGAACCCGAAGCAAGTCGAGGAAAAGAAAAAGTAGCTAATTAGTCCCTGAACTTTCACAAATTTT
GCAAATCGACCCAGATCG
Found at i:97395352 original size:51 final size:51
Alignment explanation
Indices: 97395276--97395389 Score: 192
Period size: 51 Copynumber: 2.2 Consensus size: 51
97395266 AGTGACAAGC
* *
97395276 GACAAGCGACAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAGT
* *
97395327 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAGT
97395378 GACAAGTGATAA
1 GACAAGTGATAA
97395390 ATGTGATCAG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAGT
Found at i:97396414 original size:13 final size:13
Alignment explanation
Indices: 97396396--97396445 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
97396386 ATATAAAGTA
*
97396396 AAATAAATAAAAG
1 AAATAAAGAAAAG
**
97396409 AAATAATTAAAAG
1 AAATAAAGAAAAG
97396422 -AATAAAGAAACA-
1 AAATAAAGAAA-AG
97396434 AAATAAAGAAAA
1 AAATAAAGAAAA
97396446 AAAAGTAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 9 0.28
13 23 0.72
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (13 bp):
AAATAAAGAAAAG
Found at i:97396495 original size:4 final size:4
Alignment explanation
Indices: 97396486--97396521 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
97396476 AAAATTGAAG
97396486 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
97396522 AAGAAAAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:97404080 original size:6 final size:6
Alignment explanation
Indices: 97404071--97404115 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
97404061 AAAAAGTCTA
* *
97404071 AAAAAT AAAAAT AGAAAT AAAACT AAAAAT AAAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
97404116 TGAATGGACT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:97405659 original size:16 final size:16
Alignment explanation
Indices: 97405638--97405668 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
97405628 GATATTTTAA
97405638 TATATTATATTAATAT
1 TATATTATATTAATAT
*
97405654 TATATTATGTTAATA
1 TATATTATATTAATA
97405669 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:97405765 original size:12 final size:12
Alignment explanation
Indices: 97405748--97405789 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
97405738 GAAGCAGGGG
97405748 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
97405760 AGAAAAAGGGAA
1 AGAAAAAGAGAA
*
97405772 AGAAAAATA-AA
1 AGAAAAAGAGAA
97405783 AGAAAAA
1 AGAAAAA
97405790 ACTAAGGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:97406775 original size:15 final size:15
Alignment explanation
Indices: 97406755--97406811 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
97406745 CGATGAATTT
97406755 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
97406770 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
97406785 ATTGAATTTATATTG
1 ATTGAATTTATATTG
97406800 ATTGAA-TTATAT
1 ATTGAATTTATAT
97406812 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:97407213 original size:23 final size:23
Alignment explanation
Indices: 97407183--97407269 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
97407173 GCTTTATCGA
* *
97407183 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
97407206 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
97407227 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
97407249 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
97407270 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:97410891 original size:21 final size:21
Alignment explanation
Indices: 97410878--97410927 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
97410868 ATGATGAATC
97410878 CGGCTTCTGAGATGGATCAAT
1 CGGCTTCTGAGATGGATCAAT
97410899 CGGCTTCTGAGATGGATCAAT
1 CGGCTTCTGAGATGGATCAAT
97410920 CGGCTTCT
1 CGGCTTCT
97410928 TTGGGGTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (21 bp):
CGGCTTCTGAGATGGATCAAT
Found at i:97411523 original size:3 final size:3
Alignment explanation
Indices: 97411509--97411581 Score: 114
Period size: 3 Copynumber: 24.7 Consensus size: 3
97411499 AAGTAAAAGA
*
97411509 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
97411557 TAT TAT TAT TA- TAT T-T TAT CTAT TA
1 TAT TAT TAT TAT TAT TAT TAT -TAT TA
97411582 AATGAGATAA
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 4 0.06
3 58 0.89
4 3 0.05
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:97412788 original size:37 final size:38
Alignment explanation
Indices: 97412747--97412843 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 38
97412737 CGGATAGATT
97412747 CGATGAGGCGTTGGTCGCCAC-TTTGCTTCG-ACTTAGC
1 CGATGAGGCGTTGGTCGCCACTTTTGCTTCGAAC-TAGC
* * *
97412784 CGATGAGACGTTGGTCGTCACTTATTTGCTTCGAACTATC
1 CGATGAGGCGTTGGTCGCCAC-T-TTTGCTTCGAACTAGC
*
97412824 CAATGAGGCGTTGGTCGCCA
1 CGATGAGGCGTTGGTCGCCA
97412844 TTCTGGTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
37 19 0.38
40 29 0.58
41 2 0.04
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.30
Consensus pattern (38 bp):
CGATGAGGCGTTGGTCGCCACTTTTGCTTCGAACTAGC
Found at i:97413198 original size:13 final size:13
Alignment explanation
Indices: 97413176--97413208 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
97413166 TGATAGTTTG
97413176 GTATGAATTTATAT
1 GTATG-ATTTATAT
97413190 GTATGATTTATAT
1 GTATGATTTATAT
97413203 GTATGA
1 GTATGA
97413209 GTTGCTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (13 bp):
GTATGATTTATAT
Found at i:97413764 original size:20 final size:20
Alignment explanation
Indices: 97413739--97413796 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
97413729 TGCCCACGGG
*
97413739 CAGGCCACACGGGCATGTTC
1 CAGGCCACACGGGCATGTCC
* *
97413759 CAGGCCATACGGGCGTGTCC
1 CAGGCCACACGGGCATGTCC
97413779 CAGGCCACACGGGCATGT
1 CAGGCCACACGGGCATGT
97413797 GCCCCTATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.19, C:0.34, G:0.33, T:0.14
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCC
Found at i:97416026 original size:23 final size:22
Alignment explanation
Indices: 97416000--97416043 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
97415990 AATATTTGGT
97416000 ATTT-GAACCTTACATTTTTTTTA
1 ATTTAGAACC-TA-ATTTTTTTTA
*
97416023 ATTTAGTACCTAATTTTTTTT
1 ATTTAGAACCTAATTTTTTTT
97416044 GGTTCAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 6 0.32
24 4 0.21
ACGTcount: A:0.25, C:0.11, G:0.05, T:0.59
Consensus pattern (22 bp):
ATTTAGAACCTAATTTTTTTTA
Found at i:97416545 original size:31 final size:31
Alignment explanation
Indices: 97416480--97416605 Score: 120
Period size: 31 Copynumber: 4.2 Consensus size: 31
97416470 GACCCCCAAA
* * * *
97416480 AAGTTTAAGTACCAACTTGAGAAAAAAATATC
1 AAGTTTAGGTACCAAATTAAG-AAAAAATGTC
*
97416512 AAGTTTAGGTACCAAATTAAGAAAAATTGTC
1 AAGTTTAGGTACCAAATTAAGAAAAAATGTC
* *
97416543 AAGTTTGGGTACCAAATT-GGACCAAAAA----
1 AAGTTTAGGTACCAAATTAAGA--AAAAATGTC
97416571 AA-TTTAGGTACCAAATTAAGAAAAAATGTC
1 AAGTTTAGGTACCAAATTAAGAAAAAATGTC
97416601 AAGTT
1 AAGTT
97416606 CAAGTACCGA
Statistics
Matches: 76, Mismatches: 10, Indels: 17
0.74 0.10 0.17
Matches are distributed among these distances:
26 5 0.07
27 14 0.18
28 4 0.05
30 4 0.05
31 27 0.36
32 22 0.29
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (31 bp):
AAGTTTAGGTACCAAATTAAGAAAAAATGTC
Found at i:97416596 original size:27 final size:27
Alignment explanation
Indices: 97416515--97416596 Score: 67
Period size: 27 Copynumber: 2.9 Consensus size: 27
97416505 AAATATCAAG
* *
97416515 TTTAGGTACCAAATTAAGAAAAATTGTCAAG
1 TTTAGGTACCAAATTAAGAAAAA----AAAA
* * *
97416546 TTTGGGTACCAAATT-GGACCAAAAAAA
1 TTTAGGTACCAAATTAAGA-AAAAAAAA
97416573 TTTAGGTACCAAATTAAGAAAAAA
1 TTTAGGTACCAAATTAAGAAAAAA
97416597 TGTCAAGTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
27 20 0.49
28 2 0.05
30 2 0.05
31 17 0.41
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.26
Consensus pattern (27 bp):
TTTAGGTACCAAATTAAGAAAAAAAAA
Found at i:97442801 original size:16 final size:16
Alignment explanation
Indices: 97442780--97442825 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
97442770 TTATTAAATT
97442780 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
97442796 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
97442811 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
97442826 CTTTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:97442899 original size:120 final size:120
Alignment explanation
Indices: 97442686--97442943 Score: 498
Period size: 120 Copynumber: 2.1 Consensus size: 120
97442676 GGCAGTTGTC
*
97442686 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
1 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATAATTTGAGTAAATTCATATAAGA
97442751 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
66 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
97442806 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATAATTTGAGTAAATTCATATAAGA
1 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATAATTTGAGTAAATTCATATAAGA
97442871 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
66 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
97442926 TAATAATTATGTTTAAAT
1 TAATAATTATG-TTAAAT
97442944 ATGATTAAAT
Statistics
Matches: 136, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
120 130 0.96
121 6 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATAATTTGAGTAAATTCATATAAGA
ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
Found at i:97442921 original size:16 final size:16
Alignment explanation
Indices: 97442900--97442941 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
97442890 TTATTAAATT
*
97442900 ATATATTTTAATTATA
1 ATATATTTTAATAATA
97442916 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
97442931 AT-TATGTTTAA
1 ATATAT-TTTAA
97442942 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:97442926 original size:15 final size:15
Alignment explanation
Indices: 97442891--97442932 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
97442881 TTAAGAATTT
*
97442891 TATTAAATTAT-ATA
1 TATTTAATTATAATA
97442905 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
97442919 TATTTAATAATAAT
1 TATTTAATTATAAT
97442933 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:97443112 original size:39 final size:40
Alignment explanation
Indices: 97443069--97443173 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
97443059 TTCCATTATG
97443069 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
97443108 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
97443153 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
97443174 ACACCTTTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:97443167 original size:45 final size:44
Alignment explanation
Indices: 97443067--97443176 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
97443057 TTTTCCATTA
97443067 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
97443106 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
97443151 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
97443177 CCTTTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:97443176 original size:16 final size:16
Alignment explanation
Indices: 97443155--97443192 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
97443145 TTGATTTGCT
97443155 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
97443171 ATTACACCTTTATTCC
1 ATTACACCTCTATTCC
97443187 ATTACA
1 ATTACA
97443193 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:97444009 original size:21 final size:21
Alignment explanation
Indices: 97443960--97444009 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
97443950 ATATGAAAAG
97443960 ATAAAATAAAAAAAACCATCA
1 ATAAAATAAAAAAAACCATCA
* * *
97443981 A-AATAATAATAATAACCATTA
1 ATAA-AATAAAAAAAACCATCA
97444002 ATAAAATA
1 ATAAAATA
97444010 GTAAATTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (21 bp):
ATAAAATAAAAAAAACCATCA
Found at i:97445327 original size:20 final size:18
Alignment explanation
Indices: 97445298--97445357 Score: 61
Period size: 17 Copynumber: 3.3 Consensus size: 18
97445288 AAAAAGGATT
*
97445298 AAATATAAATCTTAAATAA
1 AAATAAAAAT-TTAAATAA
*
97445317 ATAATAGAAA-TTAAATAA
1 A-AATAAAAATTTAAATAA
*
97445335 AAATAAAAA-TGAAATAA
1 AAATAAAAATTTAAATAA
97445352 AAATAA
1 AAATAA
97445358 GTAGAACAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 20 0.54
18 9 0.24
19 1 0.03
20 7 0.19
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (18 bp):
AAATAAAAATTTAAATAA
Found at i:97445344 original size:17 final size:17
Alignment explanation
Indices: 97445309--97445357 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
97445299 AATATAAATC
*
97445309 TTAAATAAATAATAGAAA
1 TTAAATAAA-AATAAAAA
97445327 TTAAATAAAAATAAAAA
1 TTAAATAAAAATAAAAA
*
97445344 TGAAATAAAAATAA
1 TTAAATAAAAATAA
97445358 GTAGAACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 20 0.69
18 9 0.31
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (17 bp):
TTAAATAAAAATAAAAA
Found at i:97453876 original size:23 final size:23
Alignment explanation
Indices: 97453850--97453924 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
97453840 ATAAGTGCCA
97453850 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
97453873 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
97453895 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
97453918 CACTGAT
1 CACTGAT
97453925 CAATAACACT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 20 0.43
23 26 0.57
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:97459396 original size:29 final size:30
Alignment explanation
Indices: 97459354--97459411 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
97459344 CTATTTCCAC
*
97459354 ACATCATTAAAATTTTA-ATAGTTTTGCAT
1 ACATCATTAAAATTTTAGATACTTTTGCAT
* *
97459383 ACATTATTACAATTTTAGATACTTTTGCA
1 ACATCATTAAAATTTTAGATACTTTTGCA
97459412 GGGAATCTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (30 bp):
ACATCATTAAAATTTTAGATACTTTTGCAT
Found at i:97467822 original size:14 final size:15
Alignment explanation
Indices: 97467803--97467831 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
97467793 TTAAATCAAA
97467803 ATAATATA-AAATTT
1 ATAATATATAAATTT
97467817 ATAATATATAAATTT
1 ATAATATATAAATTT
97467832 TATCAAAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATATATAAATTT
Found at i:97471296 original size:26 final size:27
Alignment explanation
Indices: 97471232--97471297 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
97471222 ATTGCAACAC
* *
97471232 TAATTATAATTTATAATTAATATATTAA
1 TAATTATAATTT-TAAATAAAATATTAA
97471260 TAA--ATACATTTTAAATAAAATA-TAA
1 TAATTATA-ATTTTAAATAAAATATTAA
97471285 TAATTATAATTTT
1 TAATTATAATTTT
97471298 GATTTATGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
25 6 0.18
26 17 0.52
27 7 0.21
28 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TAATTATAATTTTAAATAAAATATTAA
Found at i:97471603 original size:13 final size:13
Alignment explanation
Indices: 97471585--97471619 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
97471575 AGTTTGGCAA
97471585 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
97471598 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
97471611 TACTTTTGA
1 TGCTTTTGA
97471620 AAATTTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.43
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:97472225 original size:3 final size:3
Alignment explanation
Indices: 97472219--97472244 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
97472209 ATCATCACCA
97472219 TCG TCG TCG TCG TCG TCG TCG TCG TC
1 TCG TCG TCG TCG TCG TCG TCG TCG TC
97472245 ATCATCACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.31, T:0.35
Consensus pattern (3 bp):
TCG
Found at i:97473767 original size:72 final size:71
Alignment explanation
Indices: 97473643--97473813 Score: 236
Period size: 72 Copynumber: 2.4 Consensus size: 71
97473633 AAAATCATAT
** *
97473643 ATAAACAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATAACCAAAGA
1 ATAAACAACTATTGATAAAACTAATTTAACATAAATAAGTAGAACATAAATTCAATAACCAAAAA
97473708 CCAAAC
66 CCAAAC
* * * *
97473714 ATAAACAACTATTAATAAAAGTAGA-TTACACATAGATAAGTAGAACATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTA-ATTTA-ACATAAATAAGTAGAACATAAATTCAATAACCAAA
97473778 AACCAAAC
64 AACCAAAC
* *
97473786 ATAAATAACTATTGATAAAACTAGTTTA
1 ATAAACAACTATTGATAAAACTAATTTA
97473814 GGATTTTTGT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
71 24 0.28
72 62 0.72
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.25
Consensus pattern (71 bp):
ATAAACAACTATTGATAAAACTAATTTAACATAAATAAGTAGAACATAAATTCAATAACCAAAAA
CCAAAC
Found at i:97474263 original size:18 final size:18
Alignment explanation
Indices: 97474240--97474285 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
97474230 CATCAATTTG
*
97474240 AACATCATTTGAAATGTA
1 AACATCATTTAAAATGTA
*
97474258 AACATCATTTAAAATGTG
1 AACATCATTTAAAATGTA
97474276 AACATCATTT
1 AACATCATTT
97474286 CTCACATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (18 bp):
AACATCATTTAAAATGTA
Found at i:97476615 original size:27 final size:27
Alignment explanation
Indices: 97476578--97476633 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
97476568 AAACCAGAGA
97476578 AGAAAATATTGTTGAAAATTAAAATGG
1 AGAAAATATTGTTGAAAATTAAAATGG
97476605 AGAAAATATTGTTGAAAATTAAAATGG
1 AGAAAATATTGTTGAAAATTAAAATGG
97476632 AG
1 AG
97476634 GAACAAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.29
Consensus pattern (27 bp):
AGAAAATATTGTTGAAAATTAAAATGG
Found at i:97481078 original size:42 final size:41
Alignment explanation
Indices: 97481030--97481111 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
97481020 AATTTTCTAT
97481030 AAAGTTATGGAAAAAATTATATTATTTATAAAAAATGTTATG
1 AAAGTTATGGAAAAAATTATATT-TTTATAAAAAATGTTATG
* * * * * *
97481072 AAAGTTATTGAATAATTTATATTTTTTTTATAAATGTTAT
1 AAAGTTATGGAAAAAATTATATTTTTATAAAAAATGTTAT
97481112 AGATTATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 14 0.41
42 20 0.59
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (41 bp):
AAAGTTATGGAAAAAATTATATTTTTATAAAAAATGTTATG
Found at i:97481464 original size:19 final size:21
Alignment explanation
Indices: 97481427--97481473 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
97481417 TGTTTAAAAC
*
97481427 TTATTTTTATCATACTAATAA
1 TTATTTTTATCATAATAATAA
*
97481448 -TATTTTT-TTATAATAATAA
1 TTATTTTTATCATAATAATAA
97481467 TTATTTT
1 TTATTTT
97481474 AAAATTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTTTTATCATAATAATAA
Found at i:97481483 original size:17 final size:18
Alignment explanation
Indices: 97481442--97481488 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
97481432 TTTATCATAC
* *
97481442 TAATAATATTTTTTTATAA
1 TAATAA-ATTATTTTAAAA
97481461 TAAT-AATTATTTTAAAA
1 TAATAAATTATTTTAAAA
*
97481478 TTATAAATTAT
1 TAATAAATTAT
97481489 GCAATTGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 13 0.54
18 7 0.29
19 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATAAATTATTTTAAAA
Found at i:97486536 original size:34 final size:34
Alignment explanation
Indices: 97486495--97486564 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
97486485 TTTTCCCTGA
97486495 ATGGCAACCTTATTGATTACTAGTGGTAGTCATT
1 ATGGCAACCTTATTGATTACTAGTGGTAGTCATT
97486529 ATGGCAACCTTATTGATTACTAGTGGTAGTCATT
1 ATGGCAACCTTATTGATTACTAGTGGTAGTCATT
97486563 AT
1 AT
97486565 CTTATCACCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (34 bp):
ATGGCAACCTTATTGATTACTAGTGGTAGTCATT
Found at i:97493563 original size:22 final size:22
Alignment explanation
Indices: 97493535--97493579 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
97493525 AAATAATATT
97493535 ATTTTTTAT-TTGTAACAATTTA
1 ATTTTTTATATTGTAA-AATTTA
*
97493557 ATTTTTTATATTTTAAAATTTA
1 ATTTTTTATATTGTAAAATTTA
97493579 A
1 A
97493580 GTTAGAAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTTTTATATTGTAAAATTTA
Found at i:97496434 original size:19 final size:18
Alignment explanation
Indices: 97496410--97496452 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
97496400 TCCGCTTCAA
*
97496410 TTTTAAT-TTTGTTACTTAT
1 TTTTAATATTT-TTAATT-T
97496429 TTTTAATATTTTTAATTT
1 TTTTAATATTTTTAATTT
97496447 TTTTAA
1 TTTTAA
97496453 AGTCAAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 12 0.55
20 3 0.14
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTAATATTTTTAATTT
Found at i:97496509 original size:15 final size:15
Alignment explanation
Indices: 97496460--97496512 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
97496450 TAAAGTCAAG
97496460 TAAATATATTTAAACA
1 TAAA-ATATTTAAACA
*
97496476 T--AATTTTTCAAA-A
1 TAAAATATTT-AAACA
97496489 -AAAATATTTAAACA
1 TAAAATATTTAAACA
97496503 TAAAATATTT
1 TAAAATATTT
97496513 TTATTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 11
0.70 0.05 0.26
Matches are distributed among these distances:
13 9 0.30
14 11 0.37
15 9 0.30
16 1 0.03
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAATATTTAAACA
Found at i:97497116 original size:11 final size:11
Alignment explanation
Indices: 97497076--97497110 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
97497066 TATTTTTATG
97497076 ATTTAAAAATT
1 ATTTAAAAATT
97497087 ATTTAAAAATT
1 ATTTAAAAATT
97497098 ATTTAAAAATT
1 ATTTAAAAATT
97497109 AT
1 AT
97497111 AAAAAACTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTAAAAATT
Found at i:97506667 original size:24 final size:25
Alignment explanation
Indices: 97506634--97506707 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 25
97506624 AATAACTTTT
* * *
97506634 AAAATCTAAAGATATTTAATAAATA
1 AAAATCTAAAAATATATAAAAAATA
97506659 AAAAT-TAAAAATATATAAAAAATGA
1 AAAATCTAAAAATATATAAAAAAT-A
* * *
97506684 ATAAAACAAAAAATA-ATGAAAAAT
1 A-AAATCTAAAAATATATAAAAAAT
97506708 TGATAGTGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 15 0.38
25 7 0.17
26 11 0.28
27 7 0.17
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (25 bp):
AAAATCTAAAAATATATAAAAAATA
Found at i:97507000 original size:21 final size:21
Alignment explanation
Indices: 97506974--97507014 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
97506964 ATTTCTTTTA
97506974 TTTTTTAACAAAATTTTAAGG
1 TTTTTTAACAAAATTTTAAGG
* *
97506995 TTTTTTAAGAAATTTTTAAG
1 TTTTTTAACAAAATTTTAAG
97507015 AATGATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (21 bp):
TTTTTTAACAAAATTTTAAGG
Found at i:97512083 original size:6 final size:6
Alignment explanation
Indices: 97512067--97512102 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
97512057 TAATTAAATA
*
97512067 CAAAAG AAAAAG CAAAAG CAAAAG CAAAAG CAAAAG
1 CAAAAG CAAAAG CAAAAG CAAAAG CAAAAG CAAAAG
97512103 GGTTAGGTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.69, C:0.14, G:0.17, T:0.00
Consensus pattern (6 bp):
CAAAAG
Found at i:97516799 original size:29 final size:31
Alignment explanation
Indices: 97516751--97516814 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
97516741 TTTATAATTA
*
97516751 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
97516782 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
97516811 TTTA
1 TTTA
97516815 TTTAGTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:97516803 original size:8 final size:8
Alignment explanation
Indices: 97516792--97516816 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
97516782 TTTAATAAGA
97516792 TATTTTAT
1 TATTTTAT
97516800 TATTTTAT
1 TATTTTAT
97516808 TATTTTAT
1 TATTTTAT
97516816 T
1 T
97516817 TAGTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:97517253 original size:17 final size:17
Alignment explanation
Indices: 97517231--97517264 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
97517221 CTTGATATGT
97517231 TAGTGAAGAAAAAAATA
1 TAGTGAAGAAAAAAATA
97517248 TAGTGAAGAAAAAAATA
1 TAGTGAAGAAAAAAATA
97517265 AGAGAAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (17 bp):
TAGTGAAGAAAAAAATA
Found at i:97519564 original size:25 final size:25
Alignment explanation
Indices: 97519536--97519587 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
97519526 TCATATTTTA
97519536 ACTAAGTAATAAATTGAGTAAGGTG
1 ACTAAGTAATAAATTGAGTAAGGTG
97519561 ACTAAGTAATAAATTGAGTAAGGTG
1 ACTAAGTAATAAATTGAGTAAGGTG
97519586 AC
1 AC
97519588 ATTGGTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (25 bp):
ACTAAGTAATAAATTGAGTAAGGTG
Found at i:97520520 original size:32 final size:32
Alignment explanation
Indices: 97520483--97520548 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
97520473 ATTGATAGAT
97520483 TATAAGCTTGATGTTAAAATAGAACTATTTTG
1 TATAAGCTTGATGTTAAAATAGAACTATTTTG
97520515 TATAAGCTTGATGTTAAAATAGAACTATTTTG
1 TATAAGCTTGATGTTAAAATAGAACTATTTTG
97520547 TA
1 TA
97520549 AAGTAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (32 bp):
TATAAGCTTGATGTTAAAATAGAACTATTTTG
Found at i:97525039 original size:27 final size:27
Alignment explanation
Indices: 97524965--97525044 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
97524955 TTTACAATAC
* *
97524965 GCCACAAATGTTATTCTTTTAGAA-TTT
1 GCCACAAAGGTTATTCTTTCA-AAGTTT
* *
97524992 GCCACAAAGGCTACTT-ATTCAAAGTTT
1 GCCACAAAGGTTA-TTCTTTCAAAGTTT
*
97525019 GCCACAAAGGTTATTCTTTCAGAGTT
1 GCCACAAAGGTTATTCTTTCAAAGTT
97525045 GGTCACGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
26 4 0.09
27 37 0.86
28 2 0.05
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (27 bp):
GCCACAAAGGTTATTCTTTCAAAGTTT
Found at i:97534623 original size:41 final size:42
Alignment explanation
Indices: 97534556--97534636 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 42
97534546 GATGCAGGGG
* *
97534556 TCACACGGTCTATCAACATACCCGTGTG-CAAGTCGTGTGTC
1 TCACACGGTCTATCAACACACCCGTGTGACAAGCCGTGTGTC
* *
97534597 TCACACGGTCTGATC-ACACGCTCGTGTGACAAGCCGTGTG
1 TCACACGGTCT-ATCAACACACCCGTGTGACAAGCCGTGTG
97534637 GACTCAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 21 0.62
42 13 0.38
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.25
Consensus pattern (42 bp):
TCACACGGTCTATCAACACACCCGTGTGACAAGCCGTGTGTC
Found at i:97535449 original size:6 final size:6
Alignment explanation
Indices: 97535438--97535463 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
97535428 ACAAGTCTGA
97535438 AACAGT AACAGT AACAGT AACAGT AA
1 AACAGT AACAGT AACAGT AACAGT AA
97535464 GGCGACACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (6 bp):
AACAGT
Found at i:97538955 original size:54 final size:52
Alignment explanation
Indices: 97538862--97538970 Score: 182
Period size: 54 Copynumber: 2.1 Consensus size: 52
97538852 TAACAGTTTG
* *
97538862 TTTTAAATTTTGAATTTTTTTAATTTTTTTTCATTTACGTAATTTTAATTAA
1 TTTTAAATTTTAAATTTATTTAATTTTTTTTCATTTACGTAATTTTAATTAA
97538914 TTTTAAATTTTAAATATTATTTAATATTTTTTTCATTTACGTAATTTTAATTAA
1 TTTTAAATTTTAAAT-TTATTTAAT-TTTTTTTCATTTACGTAATTTTAATTAA
97538968 TTT
1 TTT
97538971 GTATTTTATA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
52 14 0.26
53 8 0.15
54 31 0.58
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (52 bp):
TTTTAAATTTTAAATTTATTTAATTTTTTTTCATTTACGTAATTTTAATTAA
Found at i:97543158 original size:70 final size:70
Alignment explanation
Indices: 97543071--97543210 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
97543061 TGTTTCAGCG
97543071 ACGGATACGGGTTAGGGGTGTTACAGTGTATGCTTGTGTTAACTGTTTGAAGGGTATGTTGTAGA
1 ACGGATACGGGTTAGGGGTGTTACAGTGTATGCTTGTGTTAACTGTTTGAAGGGTATGTTGTAGA
97543136 GGTAA
66 GGTAA
97543141 ACGGATACGGGTTAGGGGTGTTACAGTGTATGCTTGTGTTAACTGTTTGAAGGGTATGTTGTAGA
1 ACGGATACGGGTTAGGGGTGTTACAGTGTATGCTTGTGTTAACTGTTTGAAGGGTATGTTGTAGA
97543206 GGTAA
66 GGTAA
97543211 TCTGCGCCTA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.23, C:0.07, G:0.36, T:0.34
Consensus pattern (70 bp):
ACGGATACGGGTTAGGGGTGTTACAGTGTATGCTTGTGTTAACTGTTTGAAGGGTATGTTGTAGA
GGTAA
Found at i:97558788 original size:22 final size:21
Alignment explanation
Indices: 97558763--97558807 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
97558753 CAAACATATA
97558763 ATTTTATAAATTTTAAAGCGTC
1 ATTTT-TAAATTTTAAAGCGTC
** *
97558785 ATTTTTGCATTTTAAAGGGTC
1 ATTTTTAAATTTTAAAGCGTC
97558806 AT
1 AT
97558808 AGCTCTTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (21 bp):
ATTTTTAAATTTTAAAGCGTC
Found at i:97559392 original size:29 final size:30
Alignment explanation
Indices: 97559343--97559403 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
97559333 TTTATTTTAC
97559343 TGTTAATTTTCTTATTATTTTA-AAGGCATT
1 TGTTAATTTTCTTATTATTTTAGAA-GCATT
97559373 TGTTAATTTT-TTATTATTTTAGAAGCATT
1 TGTTAATTTTCTTATTATTTTAGAAGCATT
97559402 TG
1 TG
97559404 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.57
Consensus pattern (30 bp):
TGTTAATTTTCTTATTATTTTAGAAGCATT
Found at i:97565431 original size:32 final size:32
Alignment explanation
Indices: 97565388--97565464 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
97565378 CAAAATAAAT
** *
97565388 TATGAAAAGTTACGAATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
97565420 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
97565452 GATGAAAAGTTAC
1 TATGAAAAGTTAC
97565465 ACACATGCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:97569940 original size:32 final size:32
Alignment explanation
Indices: 97569897--97569973 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
97569887 CAAAATAAAT
** *
97569897 TATGAAAAGTTACGAATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
97569929 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
97569961 GATGAAAAGTTAC
1 TATGAAAAGTTAC
97569974 ACACATGCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:97570296 original size:15 final size:15
Alignment explanation
Indices: 97570276--97570322 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
97570266 GCTACCCCCA
*
97570276 CCACCACCTCCACCT
1 CCACCACCTCCACCG
*
97570291 CCACCACCGCCACCG
1 CCACCACCTCCACCG
*
97570306 CCACCTCCTCCACCG
1 CCACCACCTCCACCG
97570321 CC
1 CC
97570323 GCCTCCCCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.17, C:0.68, G:0.06, T:0.09
Consensus pattern (15 bp):
CCACCACCTCCACCG
Found at i:97570303 original size:21 final size:21
Alignment explanation
Indices: 97570273--97570336 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
97570263 AGTGCTACCC
*
97570273 CCACCACCACCTCCACCTCCA
1 CCACCGCCACCTCCACCTCCA
* *
97570294 CCACCGCCACCGCCACCTCCT
1 CCACCGCCACCTCCACCTCCA
* *
97570315 CCACCGCCGCCTCCCCCTCCA
1 CCACCGCCACCTCCACCTCCA
97570336 C
1 C
97570337 TAGAAGGTGG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.16, C:0.69, G:0.06, T:0.09
Consensus pattern (21 bp):
CCACCGCCACCTCCACCTCCA
Found at i:97570327 original size:15 final size:15
Alignment explanation
Indices: 97570276--97570328 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
97570266 GCTACCCCCA
* *
97570276 CCACCACCTCCACCT
1 CCACCTCCTCCACCG
* *
97570291 CCACCACCGCCACCG
1 CCACCTCCTCCACCG
97570306 CCACCTCCTCCACCG
1 CCACCTCCTCCACCG
*
97570321 CCGCCTCC
1 CCACCTCC
97570329 CCCTCCACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.15, C:0.68, G:0.08, T:0.09
Consensus pattern (15 bp):
CCACCTCCTCCACCG
Found at i:97570405 original size:16 final size:16
Alignment explanation
Indices: 97570366--97570405 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
97570356 AGAAGGTGGT
97570366 GGGTTT-GTAACAGGA
1 GGGTTTGGTAACAGGA
*
97570381 GGG-TTGGTAACGGGA
1 GGGTTTGGTAACAGGA
97570396 GGGTTTGGTA
1 GGGTTTGGTA
97570406 TTGGTGGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 14 0.64
16 6 0.27
ACGTcount: A:0.20, C:0.05, G:0.47, T:0.28
Consensus pattern (16 bp):
GGGTTTGGTAACAGGA
Found at i:97577275 original size:4 final size:4
Alignment explanation
Indices: 97577258--97577305 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
97577248 TGAATCTTTA
97577258 TATT TATAT TATT TATT TATT TATT T-TCT TATT T-TT TA-T TATT T-TT
1 TATT TAT-T TATT TATT TATT TATT TAT-T TATT TATT TATT TATT TATT
97577304 TA
1 TA
97577306 AATTTTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
3 10 0.26
4 23 0.61
5 5 0.13
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:97580643 original size:54 final size:54
Alignment explanation
Indices: 97580561--97580670 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
97580551 CTTTCCATAG
*
97580561 TGATCACTTTTCTTCCCCATTTTGGATGATATTTGGTTGATACCTATGCACCAA
1 TGATCACTTTTCTTCCCCATTTCGGATGATATTTGGTTGATACCTATGCACCAA
*
97580615 TGATCACTTTTCTTCCCCATTTCGGATGATATTTGGTTGATTCCTATGCACCAA
1 TGATCACTTTTCTTCCCCATTTCGGATGATATTTGGTTGATACCTATGCACCAA
97580669 TG
1 TG
97580671 CTTTGAAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (54 bp):
TGATCACTTTTCTTCCCCATTTCGGATGATATTTGGTTGATACCTATGCACCAA
Found at i:97591580 original size:58 final size:57
Alignment explanation
Indices: 97591490--97591654 Score: 216
Period size: 51 Copynumber: 3.0 Consensus size: 57
97591480 ACTTCTGATC
* * *
97591490 AGTGACAAGTGATAAGTAGTAGCCTCAGCTACACTTATGTGATCAGTGATAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTAT-TGATCAGTGATAAGTGACA
*
97591548 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACAC---TT-ATC--TGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTGATCAGTGATAAGTGACA
* *
97591599 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTAT-TGATCAGTGATAAGTGA
97591655 TAAATGTGAT
Statistics
Matches: 93, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
51 44 0.47
53 3 0.03
54 2 0.02
55 2 0.02
56 3 0.03
58 39 0.42
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (57 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTGATCAGTGATAAGTGACA
Found at i:97591655 original size:51 final size:51
Alignment explanation
Indices: 97591536--97591657 Score: 226
Period size: 51 Copynumber: 2.4 Consensus size: 51
97591526 ATGTGATCAG
* *
97591536 TGATAAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
97591587 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
97591638 TGATCAGTGACAAGTGATAA
1 TGATCAGTGACAAGTGATAA
97591658 ATGTGATCAG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.30
Consensus pattern (51 bp):
TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
Found at i:97598262 original size:58 final size:58
Alignment explanation
Indices: 97598172--97598285 Score: 183
Period size: 58 Copynumber: 2.0 Consensus size: 58
97598162 ACTTCTGATC
* *
97598172 AGTGACAAGTGATAAGTAGTAGCCTCAGCTACACTTATGTGATCAGTGATAAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACA
* * *
97598230 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGA
1 AGTGACAAGTGATAAGTAGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGA
97598286 TATATGTGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (58 bp):
AGTGACAAGTGATAAGTAGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACA
Found at i:97602633 original size:24 final size:25
Alignment explanation
Indices: 97602606--97602684 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
97602596 TTCAAGATAT
*
97602606 TGGCTCGTATGATCTTCCCATTA-A
1 TGGCTCGTATGATCTTCCCGTTACA
* **
97602630 TGGCTCTTCGGAGT-TTCCCGTTACA
1 TGGCTCGTATGA-TCTTCCCGTTACA
* *
97602655 TGGCTCGTATGAGCTTCCCGTTATA
1 TGGCTCGTATGATCTTCCCGTTACA
97602680 TGGCT
1 TGGCT
97602685 AAGAAGAGCT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
24 17 0.40
25 26 0.60
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.37
Consensus pattern (25 bp):
TGGCTCGTATGATCTTCCCGTTACA
Found at i:97602659 original size:25 final size:24
Alignment explanation
Indices: 97602606--97602701 Score: 77
Period size: 25 Copynumber: 3.9 Consensus size: 24
97602596 TTCAAGATAT
* * *
97602606 TGGCTCGTATGATCTTCCCATTAA
1 TGGCTCGTAGGAGCTTCCCGTTAA
* * *
97602630 TGGCTCTTCGGAGTTTCCCGTTACA
1 TGGCTCGTAGGAGCTTCCCGTTA-A
*
97602655 TGGCTCGTATGAGCTTCCCGTTATA
1 TGGCTCGTAGGAGCTTCCCGTTA-A
* *
97602680 TGGCTAAG-AAGAGCTTCCCGTT
1 TGGCT-CGTAGGAGCTTCCCGTT
97602702 TACATGTTTG
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
24 17 0.30
25 39 0.68
26 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (24 bp):
TGGCTCGTAGGAGCTTCCCGTTAA
Found at i:97613294 original size:46 final size:45
Alignment explanation
Indices: 97613190--97613407 Score: 199
Period size: 46 Copynumber: 4.8 Consensus size: 45
97613180 AGATTTGTGT
* * * *
97613190 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATTGAGAAGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA--CAGATGAGA
* *
97613238 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACAGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATGAGA
* * **
97613284 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGAGA
* * * * *
97613330 GCCAGTGTCAGACATGTCTGGGACATGCGTCGGCTAC-GA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGA-GA
* *
97613374 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC
97613408 ACGGTTACAT
Statistics
Matches: 144, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
43 1 0.01
44 33 0.23
45 2 0.01
46 79 0.55
47 18 0.12
48 11 0.08
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGAGA
Found at i:97613343 original size:92 final size:90
Alignment explanation
Indices: 97613190--97613401 Score: 237
Period size: 92 Copynumber: 2.3 Consensus size: 90
97613180 AGATTTGTGT
* * *
97613190 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAAGAGGGCTAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATCGAGAAGAGAGCCAGTGTAAGACATGT
97613255 CTAGGACATGCATCAGCCAC-AGTATGAGA
64 CTAGGACATGCATCAGCCACGAG-AT--GA
* * * ** *
97613284 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGCCAGTGTCAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGAAGAGAGCCAGTGTAAGACATGTCT
* * * * *
97613349 GGGACATGCGTCGGCTACGAGATGT
66 AGGACATGCATCAGCCACGAGATGA
*
97613374 GCTAGTGTAAGACATGTCTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
97613402 GTCAGCACGG
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
90 28 0.27
92 46 0.45
93 16 0.16
94 12 0.12
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (90 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGAAGAGAGCCAGTGTAAGACATGTCT
AGGACATGCATCAGCCACGAGATGA
Found at i:97623344 original size:16 final size:16
Alignment explanation
Indices: 97623325--97623356 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
97623315 AATTATTTTA
97623325 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
97623341 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
97623357 ACTCCATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:97623641 original size:50 final size:50
Alignment explanation
Indices: 97623566--97623833 Score: 295
Period size: 50 Copynumber: 5.3 Consensus size: 50
97623556 CTGGTAAGCA
**
97623566 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * *
97623616 TAGTAGCCCGCACTTAGTACTACACATATGACCTATCAATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * * * *
97623666 TAGTAGCTTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * ** * * ** *
97623716 TAGTAGCTTGCACTTAGTACCACACACGTGATCGAAGTTAA-CGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCTGGTACACG
**
97623767 TAGTAGCCTGCACTTAGTACTACACATGAAACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
*
97623817 TAGTAGCCTACACTTAG
1 TAGTAGCCTGCACTTAG
97623834 GGTCTGTTTG
Statistics
Matches: 179, Mismatches: 36, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 3 0.02
50 142 0.79
51 33 0.18
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
Found at i:97627321 original size:34 final size:35
Alignment explanation
Indices: 97627265--97627331 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
97627255 CAAACACCAG
* *
97627265 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
97627300 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
97627332 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:97627323 original size:14 final size:14
Alignment explanation
Indices: 97627300--97627339 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
97627290 ACAGAAAAGT
*
97627300 AAAACATTTTTCAG
1 AAAACATTTTACAG
* *
97627314 AAATCATTTTACGG
1 AAAACATTTTACAG
97627328 AAAACATTTTAC
1 AAAACATTTTAC
97627340 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:97627593 original size:101 final size:101
Alignment explanation
Indices: 97627496--97627677 Score: 274
Period size: 101 Copynumber: 1.8 Consensus size: 101
97627486 CTGGTACATG
** * * * *
97627496 TAGTAGCCTGCACTTAGTACTACACATGTGACTTAACCATTTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAATCTGATACACGTAGTAGCCTACACTT
* *
97627561 AGTATTACACACGTGATCGAAGTTAACGGGTACGCA
66 AGTACTACACACGTGATCGAAGTTAACGGGTACACA
* *
97627597 TAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAATCTGATACACGTAGTAGCCTACACTT
97627662 AGTACTACACACGTGA
66 AGTACTACACACGTGA
97627678 CTTAACCATT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAATCTGATACACGTAGTAGCCTACACTT
AGTACTACACACGTGATCGAAGTTAACGGGTACACA
Done.