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 186 of 320
Found at i:61675190 original size:21 final size:21
Alignment explanation
Indices: 61675165--61675205 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
61675155 TATTGATTTA
61675165 GTAAATTAGTTGATGAAATTC
1 GTAAATTAGTTGATGAAATTC
*
61675186 GTAAATTAGTTTATGAAATT
1 GTAAATTAGTTGATGAAATT
61675206 AGAATATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.41
Consensus pattern (21 bp):
GTAAATTAGTTGATGAAATTC
Found at i:61675914 original size:39 final size:39
Alignment explanation
Indices: 61675852--61675928 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
61675842 CATGATATTT
**
61675852 GGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCC
1 GGAAACATATCCAAACTTGAGGTCCGCAGGCTACGTGCC
*
61675891 GGAAACATATCCAAACTTTAGGTCCGCAGGCTACGTGC
1 GGAAACATATCCAAACTTGAGGTCCGCAGGCTACGTGC
61675929 TAGAATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.26, C:0.27, G:0.27, T:0.19
Consensus pattern (39 bp):
GGAAACATATCCAAACTTGAGGTCCGCAGGCTACGTGCC
Found at i:61683309 original size:44 final size:44
Alignment explanation
Indices: 61683201--61683384 Score: 257
Period size: 44 Copynumber: 4.2 Consensus size: 44
61683191 TGTGTTATCA
* * *
61683201 TGTAATACCACGTCTGGGACATTGGCATTGACTTATGATTTATCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTTA-CG
*
61683246 TGTAATACCACGTCTGGGACATTGGCATCGACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTTACG
* *
61683290 TGTAAGACCACATCTGGGACGTTGGCATCGACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTTACG
* *
61683334 TGTAAGACCACGTCTGGGACGTTGGCATCGTGC-T-TGATTT-CG
1 TGTAAGACCACGTCTGGGACATTGGCATCG-ACTTATGATTTACG
61683376 TGTAAGACC
1 TGTAAGACC
61683385 CTGTTTGGGG
Statistics
Matches: 131, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
42 11 0.08
43 6 0.05
44 72 0.55
45 42 0.32
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTTACG
Found at i:61686294 original size:12 final size:12
Alignment explanation
Indices: 61686277--61686303 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
61686267 AAAAGTAAAG
61686277 AATGAATAAAAC
1 AATGAATAAAAC
61686289 AATGAATAAAAC
1 AATGAATAAAAC
61686301 AAT
1 AAT
61686304 TTCTTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (12 bp):
AATGAATAAAAC
Found at i:61691952 original size:37 final size:37
Alignment explanation
Indices: 61691901--61691998 Score: 96
Period size: 37 Copynumber: 2.6 Consensus size: 37
61691891 TCAGTTAGAC
61691901 TAGCTCTT-CGGAGCAATTGGCGTGTTATCGGGTGGAT
1 TAGCTCTTAC-GAGCAATTGGCGTGTTATCGGGTGGAT
* * *
61691938 TAGCTCTTATGAGCATCAATT---ATGTTATTGGGTGGAT
1 TAGCTCTTACGAG---CAATTGGCGTGTTATCGGGTGGAT
*
61691975 TAGCTCTTACGAGCGATTGGCGTG
1 TAGCTCTTACGAGCAATTGGCGTG
61691999 CTTCAGTTGG
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
34 4 0.08
37 39 0.81
40 5 0.10
ACGTcount: A:0.19, C:0.15, G:0.31, T:0.35
Consensus pattern (37 bp):
TAGCTCTTACGAGCAATTGGCGTGTTATCGGGTGGAT
Found at i:61694595 original size:13 final size:13
Alignment explanation
Indices: 61694577--61694603 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61694567 AAGTAAGTGA
61694577 TCTTGATGATTTT
1 TCTTGATGATTTT
61694590 TCTTGATGATTTT
1 TCTTGATGATTTT
61694603 T
1 T
61694604 GTACTTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.63
Consensus pattern (13 bp):
TCTTGATGATTTT
Found at i:61695417 original size:46 final size:46
Alignment explanation
Indices: 61695305--61695428 Score: 151
Period size: 46 Copynumber: 2.7 Consensus size: 46
61695295 TATTTATGTA
* *
61695305 CCAGTGTAAGGCCATGTCTGGGACATGGCATTGGCATTAAGAAGAGAG
1 CCAGTGTAA-GACATGTCTGGGACAT-GCATCGGCATTAAGAAGAGAG
* * * * *
61695353 CTAGTGTAAGACACGTCTGGGACATGCATCGGCCTTGAGATGTA-AG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGAAG-AGAG
61695399 CCAGTGTAAGACATGTCTGGGACATGCATC
1 CCAGTGTAAGACATGTCTGGGACATGCATC
61695429 AGCTACGAGA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 43 0.65
47 15 0.23
48 8 0.12
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGAAGAGAG
Found at i:61704212 original size:55 final size:55
Alignment explanation
Indices: 61704125--61704261 Score: 143
Period size: 55 Copynumber: 2.5 Consensus size: 55
61704115 TGCGACATAG
* * * * * *
61704125 CCGTGGGC-GAACCTGCCAAAATAGCACGGGCGTGCGACACGTCCGTGCCTTGAAC
1 CCGT-GGCTGAACCTGTCAAATTAACACAGGCGTGCGACACGCCCGTGCCTAGAAC
* * *
61704180 CCGTGGCTGAACCTGTCAAATTAACACAGGCGTGCGACACGCCCTTGTCTAGCAC
1 CCGTGGCTGAACCTGTCAAATTAACACAGGCGTGCGACACGCCCGTGCCTAGAAC
* *
61704235 CTGTGG-TCGAACCTGTTAAATTAACAC
1 CCGTGGCT-GAACCTGTCAAATTAACAC
61704262 CGGTGTGGGC
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
54 4 0.06
55 65 0.94
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.20
Consensus pattern (55 bp):
CCGTGGCTGAACCTGTCAAATTAACACAGGCGTGCGACACGCCCGTGCCTAGAAC
Found at i:61711155 original size:17 final size:17
Alignment explanation
Indices: 61711127--61711168 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
61711117 TAATAGATTA
*
61711127 TATAAT-TAAAATATGT
1 TATAATATAAAATAAGT
61711143 TATAATATAAAATAAGT
1 TATAATATAAAATAAGT
61711160 TATAATATA
1 TATAATATA
61711169 TTAAGTGGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
TATAATATAAAATAAGT
Found at i:61712406 original size:24 final size:24
Alignment explanation
Indices: 61712343--61712455 Score: 113
Period size: 24 Copynumber: 4.7 Consensus size: 24
61712333 GAAATGATTT
**
61712343 TGGCACTATGTGTGCAAATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
61712367 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGGATTTGAA
*
61712391 TGGCACTATGTGTGCGGATTGGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * * *
61712415 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGGATT--TGAA
61712440 -GGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGG
61712456 GTTAACATGG
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
24 69 0.97
25 2 0.03
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.34
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:61712416 original size:48 final size:48
Alignment explanation
Indices: 61712343--61712455 Score: 127
Period size: 48 Copynumber: 2.4 Consensus size: 48
61712333 GAAATGATTT
** * * * * **
61712343 TGGCACTATGTGTGCAAATTTGAATGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGGATTGGAATGGCAATATGTATGCGAATTACTA
* *
61712391 TGGCACTATGTGTGCGGATTGGAATGTCAATATGTATGTGAATTACTA
1 TGGCACTATGTGTGCGGATTGGAATGGCAATATGTATGCGAATTACTA
*
61712439 AGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGG
61712456 GTTAACATGG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.34
Consensus pattern (48 bp):
TGGCACTATGTGTGCGGATTGGAATGGCAATATGTATGCGAATTACTA
Found at i:61712983 original size:69 final size:70
Alignment explanation
Indices: 61712852--61712983 Score: 221
Period size: 69 Copynumber: 1.9 Consensus size: 70
61712842 AGTTTATTAC
* * * *
61712852 TAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTAC
1 TAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTAC
61712917 TTAGT
66 TTAGT
61712922 TAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 TAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
61712984 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 36 0.62
70 22 0.38
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (70 bp):
TAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTAC
TTAGT
Found at i:61713242 original size:39 final size:39
Alignment explanation
Indices: 61713130--61713281 Score: 196
Period size: 39 Copynumber: 3.9 Consensus size: 39
61713120 ATTTGATGTA
* *
61713130 TATCCGGACTTAAGGTCCGCAGGCTTCCTGCTGGAATTG
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* *
61713169 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTT-AAGATCCGCAGGCTTCGTGCTGGAATTG
* * * *
61713209 TATCCAGACTTAAGATCTGCAGGCTTCGTGCTGGTATTA
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* * *
61713248 TATCCGGACTTAAGGTCCGTAGGCTTCGTACTGG
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGG
61713282 TACTATATCT
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 63 0.65
40 34 0.35
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
Found at i:61713282 original size:39 final size:39
Alignment explanation
Indices: 61713128--61713313 Score: 192
Period size: 39 Copynumber: 4.7 Consensus size: 39
61713118 ATATTTGATG
*
61713128 TATATCCGGACTTAAGGTCCGCAGGCTTCCTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
* * **
61713167 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
1 TATATCCGGACTT-AAGGTCCGCAGGCTTCGTGCTGGAAT
* * * * *
61713207 TGTATCCAGACTTAAGATCTGCAGGCTTCGTGCTGGTAT
1 TATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
* * * *
61713246 TATATCCGGACTTAAGGTCCGTAGGCTTCGTACTGGTAC
1 TATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
* * * *
61713285 TATATCTGGGCTTAAAGTCCCGTAGGCTT
1 TATATCCGGACTTAAGGT-CCGCAGGCTT
61713314 TGTGTTGGTG
Statistics
Matches: 125, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 81 0.65
40 44 0.35
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.30
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
Found at i:61725565 original size:47 final size:47
Alignment explanation
Indices: 61725510--61725661 Score: 286
Period size: 47 Copynumber: 3.2 Consensus size: 47
61725500 TAGTATTAAT
61725510 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
61725557 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
*
61725604 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
*
61725651 AATGTGATAAG
1 TATGTGATAAG
61725662 TCCCGAAGGG
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 103 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
Found at i:61727710 original size:40 final size:40
Alignment explanation
Indices: 61727658--61727893 Score: 373
Period size: 40 Copynumber: 5.9 Consensus size: 40
61727648 CTCGACGATG
* * *
61727658 ATCCGGGAAAAATCCCGAAGGGCATTCATGCCGATGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* *
61727698 ATCCGGTCAAAATCCCAAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
*
61727738 ATCCGGGCAAAATCCTGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
*
61727778 ATCCGGGCAAAATCCCGAAGGGCATTTGTGCCGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* *
61727818 ATCCGGGCAAAATCCCGAAGGGCATTCGTGTCGATGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* *
61727858 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTG
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTG
61727894 ATGTGTATTC
Statistics
Matches: 179, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
Found at i:61732055 original size:47 final size:47
Alignment explanation
Indices: 61732000--61732149 Score: 264
Period size: 47 Copynumber: 3.2 Consensus size: 47
61731990 TAGTATTAAT
61732000 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
*
61732047 TATGTGATAAGACCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
* *
61732094 TATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
*
61732141 AATGTGATA
1 TATGTGATA
61732150 TGTCCCGAAG
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 98 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
Found at i:61738475 original size:16 final size:16
Alignment explanation
Indices: 61738454--61738485 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61738444 GCAAATCCAG
61738454 AAATGCGGAAAAGCCA
1 AAATGCGGAAAAGCCA
*
61738470 AAATGCTGAAAAGCCA
1 AAATGCGGAAAAGCCA
61738486 GAAGTTTGGT
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:0.50, C:0.19, G:0.22, T:0.09
Consensus pattern (16 bp):
AAATGCGGAAAAGCCA
Found at i:61738797 original size:29 final size:27
Alignment explanation
Indices: 61738703--61738820 Score: 119
Period size: 28 Copynumber: 4.1 Consensus size: 27
61738693 GCATGACTAC
* *
61738703 GAATGTGATTGGGGCTGATGGGCCATAT
1 GAATGTGATT-GGGCTAATGGGTCATAT
*
61738731 GAATGTGATTAGGGCCAATGGGTCATAT
1 GAATGTGATT-GGGCTAATGGGTCATAT
*
61738759 GAAAGTGATTTGGGACTAATGGGTCATAT
1 GAATGTGA-TTGGG-CTAATGGGTCATAT
* * *
61738788 GAATGAGATTGGGCCTAAAGGGTCCAAAT
1 GAATGTGATTGGG-CTAATGGGT-CATAT
61738817 GAAT
1 GAAT
61738821 AAGTATGGAT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
28 47 0.62
29 29 0.38
ACGTcount: A:0.30, C:0.10, G:0.33, T:0.27
Consensus pattern (27 bp):
GAATGTGATTGGGCTAATGGGTCATAT
Found at i:61742008 original size:20 final size:20
Alignment explanation
Indices: 61741942--61742008 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
61741932 ATTCTGATAA
* *
61741942 ACATGGTATGTATGATAAGC
1 ACATGATATGTATGATATGC
*
61741962 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
61741982 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
61742002 ACATGAT
1 ACATGAT
61742009 GTACTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61742109 original size:23 final size:24
Alignment explanation
Indices: 61742058--61742152 Score: 113
Period size: 24 Copynumber: 4.0 Consensus size: 24
61742048 GAGGAAGTGC
*
61742058 AAAATGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCTAGTTATT
* *
61742082 GAAAGGGCTTATGCCCCA-TTATT
1 AAAAGGGCTTATGCCCTAGTTATT
*
61742105 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCTAGTTATT
*
61742129 AAAAGAGGC-TAGGCCTCTAGTTAT
1 AAAAG-GGCTTATGCC-CTAGTTAT
61742153 ATGATAAAGC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
23 20 0.33
24 29 0.48
25 11 0.18
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCTAGTTATT
Found at i:61743154 original size:40 final size:40
Alignment explanation
Indices: 61743109--61743191 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
61743099 TTCTTTAAAA
*
61743109 TACACCTCGCTTTGAAAGCAATAAATACAAGCTGGGATTT
1 TACACCTCGCTTTGAAAGCAACAAATACAAGCTGGGATTT
61743149 TACACCTCGCTTTGAAAGCAACAAATACAAGCTGGGATTT
1 TACACCTCGCTTTGAAAGCAACAAATACAAGCTGGGATTT
61743189 TAC
1 TAC
61743192 TCAAGGTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (40 bp):
TACACCTCGCTTTGAAAGCAACAAATACAAGCTGGGATTT
Found at i:61747151 original size:16 final size:16
Alignment explanation
Indices: 61747132--61747190 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
61747122 TGAAACGCCT
*
61747132 AAAAGTCGAAATGTCG
1 AAAAGTCAAAATGTCG
61747148 AAAAGTCAAAATG-CAG
1 AAAAGTCAAAATGTC-G
*
61747164 AAAAGCCAAAATGTCG
1 AAAAGTCAAAATGTCG
*
61747180 AAAAGCCAAAA
1 AAAAGTCAAAA
61747191 GTTTAGCTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
15 1 0.03
16 37 0.95
17 1 0.03
ACGTcount: A:0.54, C:0.15, G:0.19, T:0.12
Consensus pattern (16 bp):
AAAAGTCAAAATGTCG
Found at i:61747484 original size:28 final size:29
Alignment explanation
Indices: 61747405--61747489 Score: 127
Period size: 29 Copynumber: 3.0 Consensus size: 29
61747395 GCATGAATAT
*
61747405 GAATGTGATTTGGGCCTAATGGGCCATCC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
61747434 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* * *
61747463 GAATGAGA-TTGGCCCTAGTGGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
61747490 TGCATGTATG
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 17 0.33
29 35 0.67
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.26
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:61749205 original size:16 final size:16
Alignment explanation
Indices: 61749184--61749216 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
61749174 TCAGCAAATC
*
61749184 CCAAAATGTCGAAAAG
1 CCAAAATGCCGAAAAG
61749200 CCAAAATGCCGAAAAG
1 CCAAAATGCCGAAAAG
61749216 C
1 C
61749217 TAGAAGTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.18, T:0.09
Consensus pattern (16 bp):
CCAAAATGCCGAAAAG
Found at i:61749465 original size:28 final size:28
Alignment explanation
Indices: 61749433--61749533 Score: 130
Period size: 28 Copynumber: 3.6 Consensus size: 28
61749423 GATTGCATAC
61749433 TATGAATGTGATTGGGGCTGATGGGCCA
1 TATGAATGTGATTGGGGCTGATGGGCCA
* *
61749461 TATGAATGTGATTGGGGCCGATGGGTCA
1 TATGAATGTGATTGGGGCTGATGGGCCA
* * * *
61749489 TATGAAAGTGATTTGAGCCTAATGGGCCA
1 TATGAATGTGA-TTGGGGCTGATGGGCCA
*
61749518 TATGAATGAGATTGGG
1 TATGAATGTGATTGGG
61749534 CCTATAGGGG
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 40 0.66
29 21 0.34
ACGTcount: A:0.26, C:0.10, G:0.36, T:0.29
Consensus pattern (28 bp):
TATGAATGTGATTGGGGCTGATGGGCCA
Found at i:61749544 original size:29 final size:27
Alignment explanation
Indices: 61749433--61749553 Score: 125
Period size: 28 Copynumber: 4.3 Consensus size: 27
61749423 GATTGCATAC
*
61749433 TATGAATGTGATTGGGGCTGATGGGCCA
1 TATGAATGTGATTGGGCCT-ATGGGCCA
* *
61749461 TATGAATGTGATTGGGGCCGATGGGTCA
1 TATGAATGTGATT-GGGCCTATGGGCCA
* *
61749489 TATGAAAGTGATTTGAGCCTAATGGGCCA
1 TATGAATGTGA-TTGGGCCT-ATGGGCCA
*
61749518 TATGAATGAGATTGGGCCTATAGGGGCCA
1 TATGAATGTGATTGGGCCTAT--GGGCCA
*
61749547 AATGAAT
1 TATGAAT
61749554 AAGTATGGAC
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
27 2 0.03
28 41 0.53
29 34 0.44
ACGTcount: A:0.27, C:0.12, G:0.34, T:0.27
Consensus pattern (27 bp):
TATGAATGTGATTGGGCCTATGGGCCA
Found at i:61750786 original size:40 final size:40
Alignment explanation
Indices: 61750726--61750806 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
61750716 ATTTAAAATG
61750726 CACCTCGCTTTGAAAGCAACAAATACAAGCTAGGATTTTA
1 CACCTCGCTTTGAAAGCAACAAATACAAGCTAGGATTTTA
*
61750766 CACCTCGCTTTGAAATCAACAAATACAAGCTAGGATTTTA
1 CACCTCGCTTTGAAAGCAACAAATACAAGCTAGGATTTTA
61750806 C
1 C
61750807 TCAAGGATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (40 bp):
CACCTCGCTTTGAAAGCAACAAATACAAGCTAGGATTTTA
Found at i:61765430 original size:30 final size:31
Alignment explanation
Indices: 61765360--61765442 Score: 125
Period size: 30 Copynumber: 2.7 Consensus size: 31
61765350 TCAATCTCAA
61765360 CATAT-ACTGGGCCGAAGCCTTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
* * *
61765390 CTTGTCACTGGGCCGAAGCCTTTTCATTA-T
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
61765420 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
61765443 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 25 0.53
31 22 0.47
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATTATT
Found at i:61765691 original size:25 final size:25
Alignment explanation
Indices: 61765663--61765730 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
61765653 CTCTTTTAAT
61765663 AACTGGGGCAAAGCCCGTCTT-GATA
1 AACTGGGGCAAAGCCC-TCTTCGATA
* *
61765688 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTCTTCGATA
*
61765713 AACTAGGGCAAAAGCCCT
1 AACTGGGGC-AAAGCCCT
61765731 TTTGCACTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 3 0.08
25 27 0.71
26 8 0.21
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.19
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTCTTCGATA
Found at i:61769589 original size:21 final size:20
Alignment explanation
Indices: 61769550--61769589 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
61769540 GGTGCCTCAG
*
61769550 TCAAAACCTTTTTCAGCTTC
1 TCAAAACCTTTTGCAGCTTC
*
61769570 TCAAAAGCCTTTTGCTGCTT
1 TCAAAA-CCTTTTGCAGCTT
61769590 ATTTGTCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.40
Consensus pattern (20 bp):
TCAAAACCTTTTGCAGCTTC
Found at i:61773314 original size:30 final size:31
Alignment explanation
Indices: 61773244--61773326 Score: 125
Period size: 30 Copynumber: 2.7 Consensus size: 31
61773234 TCAATCTCAA
*
61773244 CATAT-ACTGGCCCGAAGCCTTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
* *
61773274 CATGTCACTGGGCCGAAGCCTTTTCATTA-T
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
61773304 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
61773327 ACTGTAAACG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 27 0.56
31 21 0.44
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATTATT
Found at i:61781070 original size:31 final size:29
Alignment explanation
Indices: 61781027--61781106 Score: 108
Period size: 31 Copynumber: 2.7 Consensus size: 29
61781017 TCAATCTCAA
61781027 CATAT-ACTGGCCGAAGCCTTTGCATTATT
1 CATATCACTGGCCGAAGCCTTTGCATTA-T
* *
61781056 CATGTCACTGGGCCGAAGCCTTTTCATTAT
1 CATATCACT-GGCCGAAGCCTTTGCATTAT
*
61781086 CATATCACTGGCTGAAGCCTT
1 CATATCACTGGCCGAAGCCTT
61781107 GCTATAAACG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 15 0.33
30 12 0.27
31 18 0.40
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (29 bp):
CATATCACTGGCCGAAGCCTTTGCATTAT
Found at i:61781350 original size:22 final size:23
Alignment explanation
Indices: 61781322--61781385 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
61781312 CTCTTTTAAT
61781322 AACTGGGGCAAAGCCCTT-GATA
1 AACTGGGGCAAAGCCCTTCGATA
* *
61781344 AACTGGGG-AAATCCCTTTCGGTA
1 AACTGGGGCAAAGCCC-TTCGATA
*
61781367 AACTAGGGCAAAAGCCCTT
1 AACTGGGGC-AAAGCCCTT
61781386 TTGCACTTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 6 0.18
22 10 0.29
23 10 0.29
24 2 0.06
25 6 0.18
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.20
Consensus pattern (23 bp):
AACTGGGGCAAAGCCCTTCGATA
Found at i:61792738 original size:14 final size:14
Alignment explanation
Indices: 61792719--61792763 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
61792709 AACTCATCTT
*
61792719 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
61792733 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
61792746 AATTTAATTTAATG
1 AGTTTAATTTAATG
61792760 AGTT
1 AGTT
61792764 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:61793378 original size:10 final size:10
Alignment explanation
Indices: 61793362--61793419 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
61793352 CAACTCCGAC
61793362 CAGCTCAATT
1 CAGCTCAATT
* *
61793372 GAGCTCATTT
1 CAGCTCAATT
61793382 CAGCTCAA-T
1 CAGCTCAATT
61793391 CGAGCTCAATT
1 C-AGCTCAATT
*
61793402 TAGCTACAATT
1 CAGCT-CAATT
61793413 CAGCTCA
1 CAGCTCA
61793420 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:61793385 original size:20 final size:20
Alignment explanation
Indices: 61793362--61793422 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
61793352 CAACTCCGAC
61793362 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
61793382 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
61793403 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
61793423 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:61795277 original size:29 final size:29
Alignment explanation
Indices: 61795244--61795300 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
61795234 ATAACCAAAC
*
61795244 CTACAAAAACTTTATATCCATAAACCCAA
1 CTACAAAAACTTCATATCCATAAACCCAA
*
61795273 CTACATAAACTTCATATCCATAAACCCA
1 CTACAAAAACTTCATATCCATAAACCCA
61795301 TCTTTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAA
Found at i:61797407 original size:26 final size:26
Alignment explanation
Indices: 61797378--61797429 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
61797368 TGATACAAAT
61797378 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61797404 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61797430 CGATTGGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:61798942 original size:26 final size:26
Alignment explanation
Indices: 61798876--61798951 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
61798866 AAAAGTAGCT
* * *
61798876 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATTATACCCCTA-G-GTGCA
*
61798904 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTATTATACCCCTAGGTGCA
*
61798930 AAATTACCATTATACCCCTAGG
1 AAATTACTATTATACCCCTAGG
61798952 GTTACTTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (26 bp):
AAATTACTATTATACCCCTAGGTGCA
Found at i:61799095 original size:27 final size:27
Alignment explanation
Indices: 61799056--61799213 Score: 132
Period size: 27 Copynumber: 5.9 Consensus size: 27
61799046 GGAAGCGTCC
*
61799056 TGGTGGCTATGCCACAATTATCTGATT
1 TGGTGGCTTTGCCACAATTATCTGATT
61799083 TGGTGGCTTTGCCAC-ATATATCTG-TT
1 TGGTGGCTTTGCCACAAT-TATCTGATT
* * *
61799109 CTGGTGGCTATGCCACGATTATCTGATC
1 -TGGTGGCTTTGCCACAATTATCTGATT
*
61799137 TGGTGGCTCTGCCAC-ATATATCTG-TT
1 TGGTGGCTTTGCCACAAT-TATCTGATT
*
61799163 CTGGTGG-TTCTGCCACAA-TATCTGTATC
1 -TGGTGGCTT-TGCCACAATTATCTG-ATT
* * *
61799191 TGGTGACTTCGTCACAA-TATCTG
1 TGGTGGCTTTGCCACAATTATCTG
61799214 GCAGCCTCGC
Statistics
Matches: 110, Mismatches: 10, Indels: 22
0.77 0.07 0.15
Matches are distributed among these distances:
26 14 0.13
27 89 0.81
28 7 0.06
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (27 bp):
TGGTGGCTTTGCCACAATTATCTGATT
Found at i:61799141 original size:54 final size:53
Alignment explanation
Indices: 61799055--61799213 Score: 212
Period size: 54 Copynumber: 3.0 Consensus size: 53
61799045 AGGAAGCGTC
*
61799055 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
*
61799109 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
* * * * * *
61799163 CTGGTGGTTCTGCCACAATATCTGTATCTGGTGACTTCGTCACA-ATATCTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTGGCTTTGCCACATATATCTG
61799214 GCAGCCTCGC
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
53 14 0.15
54 80 0.85
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
Found at i:61799191 original size:32 final size:27
Alignment explanation
Indices: 61799055--61799195 Score: 171
Period size: 27 Copynumber: 5.2 Consensus size: 27
61799045 AGGAAGCGTC
*
61799055 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
* * *
61799082 TTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
61799109 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
61799136 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
61799163 CTGGTGGTTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
61799190 CTGGTG
1 CTGGTG
61799196 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 9 0.09
27 88 0.88
28 3 0.03
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:61805266 original size:30 final size:30
Alignment explanation
Indices: 61805232--61805328 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
61805222 AGCTCACTCC
61805232 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
61805262 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
61805292 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
61805322 TAGCTCA
1 TAGCTCA
61805329 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:61807085 original size:11 final size:11
Alignment explanation
Indices: 61807071--61807098 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
61807061 AGAAATTCAG
61807071 AAAAAAATCAA
1 AAAAAAATCAA
61807082 AAAAAAATCAA
1 AAAAAAATCAA
61807093 AAAAAA
1 AAAAAA
61807099 GGAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAAATCAA
Found at i:61807086 original size:10 final size:10
Alignment explanation
Indices: 61807071--61807123 Score: 52
Period size: 10 Copynumber: 4.9 Consensus size: 10
61807061 AGAAATTCAG
61807071 AAAAAAATCAA
1 AAAAAAATC-A
61807082 AAAAAAATCA
1 AAAAAAATCA
**
61807092 AAAAAAAGGA
1 AAAAAAATCA
61807102 AAAAAAAGTGACA
1 AAAAAAA-T--CA
61807115 AAAAAAATC
1 AAAAAAATC
61807124 GAGTTAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 17 0.49
11 9 0.26
12 1 0.03
13 8 0.23
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:61808090 original size:37 final size:37
Alignment explanation
Indices: 61808039--61808109 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
61808029 CATTCTTGTA
61808039 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
61808076 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
61808110 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:61808109 original size:6 final size:6
Alignment explanation
Indices: 61808049--61808098 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
61808039 AAGAGAAAAC
*
61808049 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
61808098 A
1 A
61808099 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:61808191 original size:11 final size:12
Alignment explanation
Indices: 61808159--61808189 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
61808149 TTGAGAGAAC
61808159 TTGAAAAAGCCT
1 TTGAAAAAGCCT
61808171 TTGAAAAAGCCT
1 TTGAAAAAGCCT
61808183 TTGAAAA
1 TTGAAAA
61808190 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:61810402 original size:30 final size:30
Alignment explanation
Indices: 61810368--61810464 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
61810358 AGCTCACTCC
61810368 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
61810398 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
61810428 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
61810458 TAGCTCA
1 TAGCTCA
61810465 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:61812468 original size:29 final size:29
Alignment explanation
Indices: 61812402--61812458 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
61812392 GATTCAAAGA
*
61812402 TGGGTTTATGGATATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGTAGT
*
61812431 TGGGTTTATGGATATAAAGTTTTTGTAG
1 TGGGTTTATGGATATAAAGTTTATGTAG
61812459 GTTTGGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGTAGT
Found at i:61816175 original size:5 final size:6
Alignment explanation
Indices: 61816158--61816183 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
61816148 TTGATCAAAC
61816158 TCTTTT TCTTTT TCTTTT TCTTTT TC
1 TCTTTT TCTTTT TCTTTT TCTTTT TC
61816184 AATGTCATTT
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:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TCTTTT
Found at i:61816336 original size:16 final size:14
Alignment explanation
Indices: 61816308--61816344 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
61816298 TTTGATCCCT
61816308 TTTTTCTTTTCATC
1 TTTTTCTTTTCATC
61816322 TTTTTCTTTTC-TC
1 TTTTTCTTTTCATC
*
61816335 ATTTTCTTTT
1 TTTTTCTTTT
61816345 TACAAGAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTCTTTTCATC
Found at i:61839333 original size:54 final size:52
Alignment explanation
Indices: 61839250--61839383 Score: 160
Period size: 54 Copynumber: 2.5 Consensus size: 52
61839240 AAATACTTAG
* * *
61839250 TTTAATTAATTAAGTTGCTGGAGTAAATTACTCATCTTAGTTAACTGAGTTCAT
1 TTTAGTTAATT-AGTTGCTGGAATAAATTACTCATCTTAGTTAACTAAGTTC-T
* * *
61839304 TTTAGTTAATTAGGTTGCTGGAATAAATTATTCATGTTAGTTAATTAAGTTCT
1 TTTAGTTAATTA-GTTGCTGGAATAAATTACTCATCTTAGTTAACTAAGTTCT
*
61839357 TCTTAGTTAATTTAGTTGCTAGAATAA
1 T-TTAGTTAA-TTAGTTGCTGGAATAA
61839384 TTTAATGATG
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 64 0.91
55 3 0.04
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (52 bp):
TTTAGTTAATTAGTTGCTGGAATAAATTACTCATCTTAGTTAACTAAGTTCT
Found at i:61841500 original size:27 final size:26
Alignment explanation
Indices: 61841470--61841557 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 26
61841460 TGAAAACTGG
*
61841470 GGGTATTTCAGTAATTTCACAAATCGA
1 GGGTATTTTAGTAATTT-ACAAATCGA
*
61841497 GGGTGTTTTAGTAATTTACAAATC-A
1 GGGTATTTTAGTAATTTACAAATCGA
*
61841522 GGGGTATTTTAGTAATTTTACAAATTGA
1 -GGGTATTTTAGTAA-TTTACAAATCGA
61841550 GGGTATTT
1 GGGTATTT
61841558 ACGACCCAAC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
25 1 0.02
26 20 0.37
27 32 0.59
28 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (26 bp):
GGGTATTTTAGTAATTTACAAATCGA
Found at i:61841558 original size:26 final size:26
Alignment explanation
Indices: 61841443--61841558 Score: 94
Period size: 27 Copynumber: 4.3 Consensus size: 26
61841433 TACCCTACAG
* * *
61841443 GGGTATCTTGGTAATTTTGA-AAACTGG
1 GGGTAT-TTAGTAATTTT-ACAAATTGA
* *
61841470 GGGTATTTCAGTAATTTCACAAATCGA
1 GGGTATTT-AGTAATTTTACAAATTGA
* *
61841497 GGGTGTTTTAGTAA-TTTACAAA-TCA
1 GGGT-ATTTAGTAATTTTACAAATTGA
61841522 GGGGTATTTTAGTAATTTTACAAATTGA
1 -GGGTA-TTTAGTAATTTTACAAATTGA
61841550 GGGTATTTA
1 GGGTATTTA
61841559 CGACCCAACC
Statistics
Matches: 71, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
25 1 0.01
26 26 0.37
27 39 0.55
28 5 0.07
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (26 bp):
GGGTATTTAGTAATTTTACAAATTGA
Found at i:61845235 original size:29 final size:29
Alignment explanation
Indices: 61845202--61845258 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
61845192 ATAACCAAAC
*
61845202 CTACAAAAACTTTATATCCATAAACCCAA
1 CTACAAAAACTTCATATCCATAAACCCAA
*
61845231 CTACATAAACTTCATATCCATAAACCCA
1 CTACAAAAACTTCATATCCATAAACCCA
61845259 TCTTTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAA
Found at i:61850904 original size:27 final size:27
Alignment explanation
Indices: 61850871--61851003 Score: 185
Period size: 27 Copynumber: 4.9 Consensus size: 27
61850861 CTAAATTGAC
* *
61850871 AAAATGACTATTTTACCCCTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
*
61850898 AAAATGACTATTTTGCCCTTATATGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
61850925 AAAATGACTATTTTGCCCTTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
* *
61850952 AAAATGACTGTTTTGCACTTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
* * * *
61850979 AAGATGATTGTTTTGCCCCTATGTG
1 AAAATGACTATTTTGCCCTTATGTG
61851004 AAGTATTTAT
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (27 bp):
AAAATGACTATTTTGCCCTTATGTGGT
Found at i:61864148 original size:28 final size:27
Alignment explanation
Indices: 61864091--61864241 Score: 221
Period size: 27 Copynumber: 5.5 Consensus size: 27
61864081 TAAATTGTGC
* * *
61864091 AGCACTAAGTGTGTGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
61864118 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
61864146 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
61864173 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
61864201 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
61864228 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
61864242 AGACTTAATA
Statistics
Matches: 116, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 64 0.55
28 52 0.45
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:61864155 original size:55 final size:55
Alignment explanation
Indices: 61864091--61864241 Score: 230
Period size: 55 Copynumber: 2.7 Consensus size: 55
61864081 TAAATTGTGC
* * *
61864091 AGCACTAAGTGTGTGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
61864146 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
61864201 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGC
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGC
61864242 AGACTTAATA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 88 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:61881495 original size:40 final size:40
Alignment explanation
Indices: 61881337--61881500 Score: 233
Period size: 40 Copynumber: 4.1 Consensus size: 40
61881327 CAGATGATAA
* *
61881337 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
*
61881377 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
61881417 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTATAT
* * *
61881457 CCGGGCTAAGTCCCGAAGGCATTTGAGTGAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
61881497 CCGG
1 CCGG
61881501 TTAAAGCCTG
Statistics
Matches: 113, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
39 2 0.02
40 108 0.96
41 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:61889786 original size:40 final size:40
Alignment explanation
Indices: 61889623--61889772 Score: 273
Period size: 40 Copynumber: 3.8 Consensus size: 40
61889613 CGGATGATAA
**
61889623 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
61889663 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
61889703 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
*
61889743 CCGGGCTAAGTCCCGAAGGCATTTGAGCGA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA
61889773 GTGGCTATAT
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
Found at i:61892553 original size:50 final size:50
Alignment explanation
Indices: 61892468--61892733 Score: 295
Period size: 50 Copynumber: 5.3 Consensus size: 50
61892458 GCTAAATGAC
* * * * * *
61892468 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
* * *
61892518 CTTGAATATTCGGCCATGA-AGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGGCCAT-ATAGGTAAGCACATATGTGATATTATATTTG-AT
* * * * * *
61892569 -TTGTATATTCGGCCTTATAAGTAAGTACATATGGGATGTTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
* **
61892618 CTTGCATATTCAACCATATAGGTAAGCACATATGTGATATT-TATTTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATA-TTTGAT
* *
61892668 CTTGCATATTCGGCCATATAGGTAAGCACATATATGATATTATATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
*
61892718 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
61892734 AATCAATGAT
Statistics
Matches: 180, Mismatches: 30, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
49 4 0.02
50 171 0.95
51 5 0.03
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
Found at i:61896309 original size:27 final size:26
Alignment explanation
Indices: 61896263--61896322 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
61896253 GCGAGGCTGC
61896263 CAGATATTGTGACGAAGCCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * * *
61896290 CAGATATTGTGGCTAGGCCACTAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
61896316 CAGATAT
1 CAGATAT
61896323 ATATATATAT
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:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:61900986 original size:46 final size:45
Alignment explanation
Indices: 61900933--61901108 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
61900923 TATTTGGGCA
61900933 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
61900979 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
61901026 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
61901072 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61901109 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:61901088 original size:93 final size:93
Alignment explanation
Indices: 61900929--61901100 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
61900919 AGGATATTTG
* *
61900929 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
61900994 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
61901022 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
61901087 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
61901101 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:61904088 original size:15 final size:15
Alignment explanation
Indices: 61904049--61904128 Score: 76
Period size: 15 Copynumber: 5.4 Consensus size: 15
61904039 GTATCTTGGG
*
61904049 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
61904064 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
61904079 TTTCTTTATTC-CGA
1 TTTCTTTATTCTGGA
*
61904093 GTTTCTCTA-TCTTGGA
1 -TTTCTTTATTC-TGGA
*
61904109 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
61904123 TTTCTT
1 TTTCTT
61904129 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
14 12 0.23
15 37 0.70
16 4 0.08
ACGTcount: A:0.11, C:0.19, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:61909970 original size:42 final size:43
Alignment explanation
Indices: 61909919--61910030 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
61909909 AAAATTCTTA
*
61909919 AGTGGTCCAAATTCATGATAT-ATG-TAGCATCCGAGCTCATTG
1 AGTGGTCCAAATTCATGAT-TGATGCGAGCATCCGAGCTCATTG
* * *
61909961 AGTGGTCCAAGTTCATTATTGATGCGAGCATCCGAGCTCGTTG
1 AGTGGTCCAAATTCATGATTGATGCGAGCATCCGAGCTCATTG
* * *
61910004 AGTGGTCCGAATTCATAATGGATGCGA
1 AGTGGTCCAAATTCATGATTGATGCGA
61910031 TATGTGTAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 20 0.33
43 39 0.65
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
AGTGGTCCAAATTCATGATTGATGCGAGCATCCGAGCTCATTG
Found at i:61914085 original size:58 final size:58
Alignment explanation
Indices: 61914016--61914126 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
61914006 TCGAGTCAAA
*
61914016 GAATCATGTATGTAATTGAA-TATGTATAAGGCTAGATGAAAAAAATAGGAAAAATAAAT
1 GAATCATGTATGTAATT-AAGTATGTATAAGGCCAGATGAAAAAAA-AGGAAAAATAAAT
* *
61914075 GAAT-ATGTATGTAATTAAGTATGTATAAGGCCAGATTAAAAAAAAGGGAAAA
1 GAATCATGTATGTAATTAAGTATGTATAAGGCCAGATGAAAAAAAAGGAAAAA
61914127 CAGAGTTAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
57 9 0.19
58 35 0.73
59 4 0.08
ACGTcount: A:0.50, C:0.04, G:0.20, T:0.26
Consensus pattern (58 bp):
GAATCATGTATGTAATTAAGTATGTATAAGGCCAGATGAAAAAAAAGGAAAAATAAAT
Found at i:61920329 original size:46 final size:47
Alignment explanation
Indices: 61920201--61920365 Score: 155
Period size: 46 Copynumber: 3.5 Consensus size: 47
61920191 AGGCCGACGC
* * *
61920201 CATGTCCTAGACATGGTGTTACACTAGCTCTGACATATTTGT-GCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCT-T-ACAT-CTTGTAGCCGATG
* *
61920250 CCATATCCCAGACATGGTCTTACACT-GAC--ACATCTTGTAACCGATG
1 -CATGTCCCAGACATGGTCTTACACTAG-CTTACATCTTGTAGCCGATG
* * *
61920296 CATGTCCTAGACAT-GTCTTACACTAGCTTACATCTCG-AGGCCAATG
1 CATGTCCCAGACATGGTCTTACACTAGCTTACATCTTGTA-GCCGATG
61920342 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
61920366 GGCAACACAA
Statistics
Matches: 98, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
44 11 0.11
45 18 0.18
46 45 0.46
49 1 0.01
50 23 0.23
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCTTACATCTTGTAGCCGATG
Found at i:61923765 original size:39 final size:40
Alignment explanation
Indices: 61923720--61923891 Score: 197
Period size: 40 Copynumber: 4.3 Consensus size: 40
61923710 GCTCCTCGTT
* * *
61923720 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
61923760 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
61923799 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
61923839 CAAAGGCCTTCGAGG-CTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCG-GGACATAACCCGG-ATTTAGTAACTCGCA
*
61923879 CAAAAGCCTTCGG
1 CAAATGCCTTCGG
61923892 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 35 0.30
40 76 0.65
41 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:61923953 original size:41 final size:41
Alignment explanation
Indices: 61923876--61923953 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61923866 TTTGTATCTC
* * *
61923876 GCACAAAAGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61923917 GCAC-AAAGCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAAGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61923954 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61933344 original size:44 final size:45
Alignment explanation
Indices: 61933296--61933395 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 45
61933286 CTAGACATGG
* **
61933296 TCTTACACTGAC-ACGTCTC-ATAGCTGATGCATGTCCCAGACATA
1 TCTTACACTGACTACATCTCGA-AGCCAATGCATGTCCCAGACATA
* * *
61933340 TCTTACACTGGCTTACATCTCGAGGCCAATGCATGTCCCAGACATG
1 TCTTACACTGAC-TACATCTCGAAGCCAATGCATGTCCCAGACATA
61933386 TCTTACACTG
1 TCTTACACTG
61933396 GCAACACAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 11 0.23
46 35 0.74
47 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (45 bp):
TCTTACACTGACTACATCTCGAAGCCAATGCATGTCCCAGACATA
Found at i:61935266 original size:17 final size:17
Alignment explanation
Indices: 61935244--61935290 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
61935234 AACCGCAACC
61935244 AATATTCTTTGGTTTTT
1 AATATTCTTTGGTTTTT
*
61935261 AATATTCCGTTT-ATTTTT
1 AATATT-C-TTTGGTTTTT
61935279 -ATATTCTTTGGT
1 AATATTCTTTGGT
61935291 ATGTAACCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 3 0.12
16 2 0.08
17 11 0.44
18 6 0.24
19 3 0.12
ACGTcount: A:0.19, C:0.09, G:0.11, T:0.62
Consensus pattern (17 bp):
AATATTCTTTGGTTTTT
Found at i:61939481 original size:26 final size:27
Alignment explanation
Indices: 61939444--61939495 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
61939434 AATTCAAATC
61939444 TTTATGAGTCATAATATATTTTAAGCT
1 TTTATGAGTCATAATATATTTTAAGCT
61939471 TTTATGA-TCATAATATATTTTAAGC
1 TTTATGAGTCATAATATATTTTAAGC
61939496 CAAATTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.48
Consensus pattern (27 bp):
TTTATGAGTCATAATATATTTTAAGCT
Found at i:61943522 original size:42 final size:40
Alignment explanation
Indices: 61943457--61943598 Score: 133
Period size: 42 Copynumber: 3.4 Consensus size: 40
61943447 ACTAAGATTA
*
61943457 CGTGTAAGACCATATCTAGGATATAGCATCGATATGAGACTT
1 CGTGTAAGACCATATCTA-GATAT-GCATCGATACGAGACTT
** *
61943499 CGTGTAAGACCATATCTGAGATATGACATCTTTAGGAGACTT
1 CGTGTAAGACCATATCT-AGATATG-CATCGATACGAGACTT
* *
61943541 TGTGTAAGACCATAGCTAGACTATTGGCATCGATACGAGA-TT
1 CGTGTAAGACCATATCTAGA-TA-T-GCATCGATACGAGACTT
* *
61943583 ACATGCAAGACCATAT
1 -CGTGTAAGACCATAT
61943599 TTGATATATG
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
41 4 0.05
42 54 0.66
43 23 0.28
44 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (40 bp):
CGTGTAAGACCATATCTAGATATGCATCGATACGAGACTT
Found at i:61943593 original size:85 final size:84
Alignment explanation
Indices: 61943458--61943612 Score: 206
Period size: 85 Copynumber: 1.8 Consensus size: 84
61943448 CTAAGATTAC
* * * *
61943458 GTGTAAGACCATATCTAGGATATAGCATCGATATGAGACTTCGTGTAAGACCATATCTGAGATAT
1 GTGTAAGACCATAGCTAGGATATAGCATCGATACGAGACTTCATGCAAGACCATATCTGAGATAT
61943523 GACATCTTTAGGAGACTTT
66 GACATCTTTAGGAGACTTT
* * *
61943542 GTGTAAGACCATAGCTA-GACTATTGGCATCGATACGAGA-TTACATGCAAGACCATATTTGATA
1 GTGTAAGACCATAGCTAGGA-TA-TAGCATCGATACGAGACTT-CATGCAAGACCATATCTGAGA
61943605 TATGACAT
63 TATGACAT
61943613 TGGTACGATA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
83 2 0.03
84 20 0.33
85 39 0.64
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (84 bp):
GTGTAAGACCATAGCTAGGATATAGCATCGATACGAGACTTCATGCAAGACCATATCTGAGATAT
GACATCTTTAGGAGACTTT
Found at i:61948102 original size:32 final size:32
Alignment explanation
Indices: 61948033--61948138 Score: 133
Period size: 32 Copynumber: 3.3 Consensus size: 32
61948023 CAGTTCTGTG
* * *
61948033 AAATGGTAACAAATATCAACTTTTCATTTTGTG
1 AAATGATAACAAATATCAAC-TTTAATTTTGTA
61948066 AAATGATAACAAAT-TACAACTTTAATTTTGTA
1 AAATGATAACAAATAT-CAACTTTAATTTTGTA
* * *
61948098 AAATGATAACAAATATTAGCTTTAATTTTTTA
1 AAATGATAACAAATATCAACTTTAATTTTGTA
61948130 AAATGATAA
1 AAATGATAA
61948139 TAATATTCCT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
32 47 0.72
33 18 0.28
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (32 bp):
AAATGATAACAAATATCAACTTTAATTTTGTA
Found at i:61950313 original size:12 final size:13
Alignment explanation
Indices: 61950272--61950318 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
61950262 GAATTAATTT
61950272 TTAAT-AAAAATA
1 TTAATAAAAAATA
** *
61950284 TTTTTAGAAAATA
1 TTAATAAAAAATA
61950297 TTAATAAAAAATA
1 TTAATAAAAAATA
61950310 -TAATAAAAA
1 TTAATAAAAA
61950319 TCTAATATAG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
12 12 0.43
13 16 0.57
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
TTAATAAAAAATA
Found at i:61951938 original size:19 final size:18
Alignment explanation
Indices: 61951914--61951949 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
61951904 TATTAATATC
61951914 TTTTTCTTAGTTTTGGCCT
1 TTTTTC-TAGTTTTGGCCT
61951933 TTTTTCTAGTTTTGGCC
1 TTTTTCTAGTTTTGGCC
61951950 AATTGCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.06, C:0.17, G:0.17, T:0.61
Consensus pattern (18 bp):
TTTTTCTAGTTTTGGCCT
Found at i:61953170 original size:16 final size:18
Alignment explanation
Indices: 61953144--61953177 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
61953134 TTTAATTAGA
61953144 TAAATTAAATTTC-CAAT
1 TAAATTAAATTTCTCAAT
61953161 TAAA-TAAATTTCTCAAT
1 TAAATTAAATTTCTCAAT
61953178 CCAATTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATTAAATTTCTCAAT
Found at i:61955844 original size:34 final size:35
Alignment explanation
Indices: 61955796--61955872 Score: 129
Period size: 34 Copynumber: 2.2 Consensus size: 35
61955786 ATCAAGATAT
* *
61955796 ATCATTTTAGAAGGCAATATATACACCAAACTAA-
1 ATCATTTTACAAGGCAATATACACACCAAACTAAC
61955830 ATCATTTTACAAGGCAATATACACACCAAACTAAC
1 ATCATTTTACAAGGCAATATACACACCAAACTAAC
61955865 ATCATTTT
1 ATCATTTT
61955873 CGAGCCATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 32 0.80
35 8 0.20
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (35 bp):
ATCATTTTACAAGGCAATATACACACCAAACTAAC
Found at i:61958557 original size:29 final size:29
Alignment explanation
Indices: 61958515--61958573 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
61958505 GCTATGTAAG
61958515 TATGTTTATAAGTTAGTAAATTACCGGGT
1 TATGTTTATAAGTTAGTAAATTACCGGGT
61958544 TATGTTTATAAGTTAGTAAATTACCGGGT
1 TATGTTTATAAGTTAGTAAATTACCGGGT
61958573 T
1 T
61958574 GCCGTGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (29 bp):
TATGTTTATAAGTTAGTAAATTACCGGGT
Found at i:61965465 original size:40 final size:40
Alignment explanation
Indices: 61965403--61965568 Score: 269
Period size: 40 Copynumber: 4.2 Consensus size: 40
61965393 TTATTTAATG
* *
61965403 TGGAATGGTATCCGGGCTTAAAGACCCGCAGGATTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
61965443 TAGAATCGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGT
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
61965483 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTTCATGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
61965523 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
61965563 TGGAAT
1 TGGAAT
61965569 GACATCCGGG
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:61972151 original size:40 final size:39
Alignment explanation
Indices: 61972106--61972298 Score: 271
Period size: 40 Copynumber: 4.8 Consensus size: 39
61972096 TTATTTGATG
61972106 TGGAATGGTATCCGTGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATGGTATCCG-GCTTAAAGACCCGCAGGCTTCGTGC
*
61972146 TGGAATCGTATCCGAGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATGGTATCCG-GCTTAAAGACCCGCAGGCTTCGTGC
61972186 TGGAAAT-GTATCCAGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGG-AATGGTATCC-GGCTTAAAGACCCGCAGGCTTCGTGC
*
61972226 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATGGTATCC-GGCTTAAAGACCCGCAGGCTTCGTGC
** * * *
61972266 TGGAATGACATCCGGGTTAAAAACCTGCAGGCT
1 TGGAATGGTATCCGGCTTAAAGACCCGCAGGCT
61972299 GTGCTAGATA
Statistics
Matches: 141, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 20 0.14
40 117 0.83
41 4 0.03
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TGGAATGGTATCCGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:61976514 original size:47 final size:46
Alignment explanation
Indices: 61976230--61976536 Score: 200
Period size: 47 Copynumber: 6.6 Consensus size: 46
61976220 TTGCCGATGC
* *
61976230 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGCTGACG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATA-ATGCG-GCCGAAG
* * * * * *
61976279 CATGTCCTAGACATGTCTTACACTAG--CACA-ACT-CTTAGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGC--GGCCGAAG
* * * * *
61976323 CGTGTCTCAGACACGTCTTACACTGGCTATCTC-T-GTCGAGGCC-AATG
1 CATGTCCCAGACATGTCTTACACTGGC--TCTCATAAT-GCGGCCGAA-G
* * * * * *
61976370 CATGTCCCAGGCATGTCTTACTCTGGCACTCATAATACAGCTGAAG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGCGGCCGAAG
* * * * *
61976416 CATGTCCCAGACATGTCTTACACTAGCCCTCGT-CTG-GAAGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGCG--GCCGAAG
*
61976462 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGCGGCCGAAG
*
61976510 CATGTCCCAAACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
61976537 GCACAAATGA
Statistics
Matches: 195, Mismatches: 44, Indels: 41
0.70 0.16 0.15
Matches are distributed among these distances:
43 1 0.01
44 27 0.14
45 5 0.03
46 54 0.28
47 57 0.29
48 35 0.18
49 15 0.08
50 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGCGGCCGAAG
Found at i:61978808 original size:28 final size:28
Alignment explanation
Indices: 61978745--61978870 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
61978735 ATATTAAGTC
*
61978745 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
61978772 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
61978800 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
61978828 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
61978857 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61978871 CAATCTCATG
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.24
28 49 0.54
29 19 0.21
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:61987005 original size:28 final size:28
Alignment explanation
Indices: 61986942--61987064 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
61986932 ATATTAAGTC
*
61986942 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
61986969 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
61986997 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
61987025 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
61987054 CGCACACTTAG
1 CGCACACTTAG
61987065 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:61992265 original size:39 final size:39
Alignment explanation
Indices: 61992186--61992411 Score: 293
Period size: 39 Copynumber: 5.8 Consensus size: 39
61992176 GGATATAGCT
* * *
61992186 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTC-GGACTTAGCCCGGATT-TAGTA
*
61992226 ACTCGCACAATTGCCTTCGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGACTTAGCCCGGATTTAGTA
61992265 ACTCGCACAAATGCCTTCGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGACTTAGCCCGGATTTAGTA
* *
61992304 ACTCGCACAAATGCCTTCGG-GTT-GCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGACTTAGCCCGGATTTAGTA
* *
61992341 ACTCGCACAAATGCCTTCGGATCTTAG-CCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGA-CTTAGCCCGGATTTAGTA
*
61992380 ACTTAGCACAAA-G-CTTCGGACTTAGCCCGGAT
1 AC-TCGCACAAATGCCTTCGGACTTAGCCCGGAT
61992412 ATCATCGAAT
Statistics
Matches: 170, Mismatches: 10, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
37 38 0.22
38 15 0.09
39 90 0.53
40 27 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGACTTAGCCCGGATTTAGTA
Found at i:61992358 original size:76 final size:78
Alignment explanation
Indices: 61992174--61992413 Score: 305
Period size: 76 Copynumber: 3.1 Consensus size: 78
61992164 TGGAATTTAA
* * * *
61992174 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCACAAT
1 CCGGATATAG-TAACTCGCACAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCACAAA
61992237 TGCCTTCGGACTTAGC
63 TGCCTTCGGACTTAGC
*
61992253 CCGGATTTAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
*
61992318 CTTCGG-GTT-GC
66 CTTCGGACTTAGC
* * *
61992329 CCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAG-CCGGATATAGTCACTTAGCACAAA-
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAAT
61992392 G-CTTCGGACTTAGC
64 GCCTTCGGACTTAGC
61992406 CCGGATAT
1 CCGGATAT
61992414 CATCGAATAA
Statistics
Matches: 144, Mismatches: 11, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
75 6 0.04
76 49 0.34
77 25 0.17
78 36 0.25
79 28 0.19
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
CTTCGGACTTAGC
Found at i:62000260 original size:40 final size:40
Alignment explanation
Indices: 62000216--62000447 Score: 303
Period size: 40 Copynumber: 5.8 Consensus size: 40
62000206 CGATATAGCT
* * *
62000216 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
62000256 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
62000296 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
62000336 ACTCGCACAAATGCCTTCGGG-TTTGGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
62000375 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
*
62000415 ACTTAGCACAAA-GCCTTC-GGACTTAGCCCGGAT
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGAT
62000448 ATCATTCGAA
Statistics
Matches: 174, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 44 0.25
40 118 0.68
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:62000351 original size:80 final size:80
Alignment explanation
Indices: 62000207--62000449 Score: 309
Period size: 79 Copynumber: 3.1 Consensus size: 80
62000197 GAATTTAACC
* * * *
62000207 GATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCACAATTGC
1 GATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGC
62000270 CTTCGGGACTTAGCCCG
64 CTTCGGGACTTAGCCCG
*
62000287 GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCT
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCT
* *
62000352 TCGGG-TTTGGCCCG
66 TCGGGACTTAGCCCG
* * * *
62000366 GATATAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GC
1 GATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATGC
62000429 CTTC-GGACTTAGCCCG
64 CTTCGGGACTTAGCCCG
62000445 GATAT
1 GATAT
62000450 CATTCGAATA
Statistics
Matches: 144, Mismatches: 14, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
78 5 0.03
79 69 0.48
80 68 0.47
81 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCT
TCGGGACTTAGCCCG
Found at i:62006957 original size:46 final size:46
Alignment explanation
Indices: 62006902--62007073 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
62006892 GTTGAGGCCA
* *
62006902 AAGCATGTCCCAGGCATGTCTTACTCTGGCACTCATAATATGGCTG
1 AAGCATGTCCCAGACATGTCTTACACTGGCACTCATAATATGGCTG
* * * * *
62006948 AAGCATGTCCCAGACATGTCTTACACTGGCCCTCGT-CTGGA-AGCCG
1 AAGCATGTCCCAGACATGTCTTACACTGGCACTCATAAT--ATGGCTG
* * * *
62006994 ATGCCATGTCCCAGCCATGGTCTTACACTGGCTCTCATAATGTGGCTG
1 AAG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATATGGCTG
*
62007042 AAGCATGTCCTAGACATGTCTTACACTGGCAC
1 AAGCATGTCCCAGACATGTCTTACACTGGCAC
62007074 ACAAATCACC
Statistics
Matches: 101, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 51 0.50
47 26 0.26
48 22 0.22
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (46 bp):
AAGCATGTCCCAGACATGTCTTACACTGGCACTCATAATATGGCTG
Found at i:62013830 original size:13 final size:13
Alignment explanation
Indices: 62013809--62013838 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
62013799 GGGCACATAC
*
62013809 CCGTGTGGGTAGG
1 CCGTATGGGTAGG
62013822 CCGTATGGGTAGG
1 CCGTATGGGTAGG
62013835 CCGT
1 CCGT
62013839 GTGCTTACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.20, G:0.47, T:0.23
Consensus pattern (13 bp):
CCGTATGGGTAGG
Found at i:62021375 original size:10 final size:10
Alignment explanation
Indices: 62021360--62021387 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
62021350 GTTTTATACT
62021360 TAGGAGAGCA
1 TAGGAGAGCA
62021370 TAGGAGAGCA
1 TAGGAGAGCA
62021380 TAGGAGAG
1 TAGGAGAG
62021388 TGAAAGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.43, T:0.11
Consensus pattern (10 bp):
TAGGAGAGCA
Found at i:62024871 original size:18 final size:20
Alignment explanation
Indices: 62024835--62024881 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
62024825 AATTGTAAGT
62024835 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
62024855 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
62024874 ATGATATA
1 AT-ATATA
62024882 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:62025352 original size:50 final size:51
Alignment explanation
Indices: 62025233--62025364 Score: 160
Period size: 50 Copynumber: 2.6 Consensus size: 51
62025223 ATTGTGAGAA
* * *
62025233 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG-TTAACACAGTTTTAGGT
* * *
62025285 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTG-TACCATA-TTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTTAACACAGTT-TTAGGT
* *
62025335 CGCATGTGTAGTACTAAGTGTAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
62025365 TGCGTGTAAC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
49 2 0.03
50 37 0.53
52 31 0.44
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTTAACACAGTTTTAGGT
Found at i:62026669 original size:49 final size:49
Alignment explanation
Indices: 62026592--62026686 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
62026582 TCTATTGTGA
* *
62026592 GGTCACATGTGTAGTACTAAGTATAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATT
* * *
62026641 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATA
62026687 GCTTTGGCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATT
Found at i:62033203 original size:43 final size:42
Alignment explanation
Indices: 62033154--62033258 Score: 120
Period size: 43 Copynumber: 2.5 Consensus size: 42
62033144 CTAGATATGA
* * *
62033154 TCTTACATGTTATCACATACCGATGCCATTGTCCCACACAGGG
1 TCTTACATGTAATCACATA-CAATGCCAATGTCCCACACAGGG
* * * * *
62033197 TCTTACACGAAATCACAATACAATGCCAATGTCCTAGACATGG
1 TCTTACATGTAATCAC-ATACAATGCCAATGTCCCACACAGGG
62033240 TCTTACATGTAATCACATA
1 TCTTACATGTAATCACATA
62033259 TCGAGTCGAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
42 3 0.06
43 45 0.88
44 3 0.06
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (42 bp):
TCTTACATGTAATCACATACAATGCCAATGTCCCACACAGGG
Found at i:62039202 original size:37 final size:37
Alignment explanation
Indices: 62039152--62039230 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
62039142 TTATTACGAA
* * *
62039152 GTCTTACCAGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCAGGACAAAATCCCCACACGAAGTCATCGG
* *
62039189 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCAGGACAAAATCCCCACACGAAGTCATCGG
62039226 GTCTT
1 GTCTT
62039231 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCAGGACAAAATCCCCACACGAAGTCATCGG
Found at i:62039617 original size:49 final size:47
Alignment explanation
Indices: 62039349--62039953 Score: 1007
Period size: 47 Copynumber: 12.7 Consensus size: 47
62039339 CCCTTTGGGA
* * * * * *
62039349 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62039396 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62039443 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62039490 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62039537 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62039584 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62039633 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62039682 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62039731 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62039778 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62039827 CTTATCACATATATACACTTTCACATTCATCACATC-GCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62039872 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62039921 CTTATCACATATATACACTTTCACATTCATCAC
1 CTTATCACATATATACACTTTCACATTCATCAC
62039954 GTAGAATCCT
Statistics
Matches: 536, Mismatches: 14, Indels: 16
0.95 0.02 0.03
Matches are distributed among these distances:
45 10 0.02
46 7 0.01
47 311 0.58
48 7 0.01
49 201 0.38
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62041664 original size:13 final size:13
Alignment explanation
Indices: 62041646--62041670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62041636 TACTAAATTT
62041646 TCATGGATTCAAA
1 TCATGGATTCAAA
62041659 TCATGGATTCAA
1 TCATGGATTCAA
62041671 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:62043926 original size:40 final size:40
Alignment explanation
Indices: 62043876--62044134 Score: 448
Period size: 40 Copynumber: 6.5 Consensus size: 40
62043866 TCTTCGGGGT
* *
62043876 TTAGCACGGATATATCACTAGCACGAATGCTCTTC-AGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAG-AC
*
62043916 TTAGTCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
*
62043956 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
*
62043996 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
62044036 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
*
62044076 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
62044116 TTAGCCCGGATACATCACT
1 TTAGCCCGGATACATCACT
62044135 CTCAATTCTC
Statistics
Matches: 211, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
40 209 0.99
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
Found at i:62045410 original size:37 final size:37
Alignment explanation
Indices: 62045353--62045425 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
62045343 TACGAAGTCT
* * *
62045353 TACCCGGACATAATCTCCACACGAAGTTATCGGGTCA
1 TACCCGGACAAAATCCCCACACGAAGTCATCGGGTCA
* *
62045390 TACCCTGACAAAATCCCCACACGTAGTCATCGGGTC
1 TACCCGGACAAAATCCCCACACGAAGTCATCGGGTC
62045426 TTTAGAGCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.21
Consensus pattern (37 bp):
TACCCGGACAAAATCCCCACACGAAGTCATCGGGTCA
Found at i:62045814 original size:49 final size:47
Alignment explanation
Indices: 62045546--62046297 Score: 1288
Period size: 47 Copynumber: 15.7 Consensus size: 47
62045536 CCCTTTGGGA
* * * * * *
62045546 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62045593 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62045640 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62045687 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62045734 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62045781 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62045830 CTTATCACATATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62045879 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62045928 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62045977 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62046026 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62046075 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62046122 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62046169 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62046216 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62046265 CTTATCACATATATACACTTTCACATTCATCAC
1 CTTATCACATATATACACTTTCACATTCATCAC
62046298 GTAGAATCCT
Statistics
Matches: 687, Mismatches: 14, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
47 351 0.51
49 336 0.49
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62045873 original size:98 final size:96
Alignment explanation
Indices: 62045546--62046297 Score: 1313
Period size: 98 Copynumber: 7.9 Consensus size: 96
62045536 CCCTTTGGGA
* * * * * * *
62045546 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
62045609 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
62045640 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
62045703 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
62045734 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
62045797 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
62045830 CTTATCACATATATATACACTTTCAAATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
62045895 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
62045928 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
62045993 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
62046026 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
62046091 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
62046122 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
62046185 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
62046216 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
62046281 ACTTTCACATTCATCAC
66 ACTTTCACATTCATCAC
62046298 GTAGAATCCT
Statistics
Matches: 639, Mismatches: 11, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
93 1 0.00
94 232 0.36
96 166 0.26
98 240 0.38
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62052685 original size:34 final size:35
Alignment explanation
Indices: 62052611--62052693 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 35
62052601 TTGTATACTG
* * *
62052611 TTACTATGATGGGCTAAAGCCCTACTGATTACTGA
1 TTACTGTGATGGGCTAAAGCCCAACTGATTACTCA
*
62052646 -GACTGTGATGGGCTAAAGCCCAAACTGA-TAC-CA
1 TTACTGTGATGGGCTAAAGCCC-AACTGATTACTCA
*
62052679 TTACTGTGAAGGGCT
1 TTACTGTGATGGGCT
62052694 TAGGCCCGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
33 1 0.03
34 34 0.85
35 5 0.12
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (35 bp):
TTACTGTGATGGGCTAAAGCCCAACTGATTACTCA
Found at i:62074996 original size:46 final size:46
Alignment explanation
Indices: 62074824--62074996 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
62074814 TAACCGCCCC
* * * *
62074824 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
62074870 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * * *
62074918 TCA-CGAGCTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
62074963 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62074997 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:62077414 original size:14 final size:15
Alignment explanation
Indices: 62077395--62077474 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
62077385 CAAAGATAAC
62077395 AAGAAAACC-GAATA
1 AAGAAAACCAGAATA
*
62077409 AAGAAATCCA-AGATA
1 AAGAAAACCAGA-ATA
*
62077424 GAG-AAACCAAGAATA
1 AAGAAAACC-AGAATA
*
62077439 AAGAAATCCAGAATA
1 AAGAAAACCAGAATA
* * *
62077454 AAGAGATCCAGGATA
1 AAGAAAACCAGAATA
62077469 AAGAAA
1 AAGAAA
62077475 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
14 13 0.25
15 35 0.66
16 5 0.09
ACGTcount: A:0.60, C:0.12, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAAACCAGAATA
Found at i:62077439 original size:30 final size:30
Alignment explanation
Indices: 62077395--62077483 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
62077385 CAAAGATAAC
*
62077395 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAGAACCAGAATAAAGAAATCCAAGATA
*
62077424 GAGA-AACCAAGAATAAAGAAATCC-AGAATA
1 AAGAGAACC-AGAATAAAGAAATCCAAG-ATA
* * *
62077454 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAGAACCAGAATAAAGAAATCCAAGATA
62077484 CGATACTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
28 4 0.08
29 5 0.10
30 36 0.72
31 5 0.10
ACGTcount: A:0.58, C:0.15, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAGAACCAGAATAAAGAAATCCAAGATA
Found at i:62077443 original size:15 final size:16
Alignment explanation
Indices: 62077404--62077481 Score: 92
Period size: 15 Copynumber: 5.1 Consensus size: 16
62077394 CAAGAAAACC
62077404 GAATAAAGAAATCCAA
1 GAATAAAGAAATCCAA
*
62077420 G-ATAGAGAAA-CCAA
1 GAATAAAGAAATCCAA
62077434 GAATAAAGAAATCC-A
1 GAATAAAGAAATCCAA
*
62077449 GAATAAAGAGATCC-A
1 GAATAAAGAAATCCAA
* *
62077464 GGATAAAGAAACCCAA
1 GAATAAAGAAATCCAA
62077480 GA
1 GA
62077482 TACGATACTA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
14 5 0.10
15 42 0.81
16 5 0.10
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (16 bp):
GAATAAAGAAATCCAA
Found at i:62077463 original size:45 final size:45
Alignment explanation
Indices: 62077395--62077481 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 45
62077385 CAAAGATAAC
*
62077395 AAGAAAACCGAATAAAGAAATCCAAGATAGAGAAA-CCAAGAATA
1 AAGAAAACCGAATAAAGAAATCCAAGATAAAGAAACCCAAGAATA
* * *
62077439 AAGAAATCCAGAATAAAGAGATCCAGGATAAAGAAACCCAAGA
1 AAGAAAACC-GAATAAAGAAATCCAAGATAAAGAAACCCAAGA
62077482 TACGATACTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 8 0.22
45 23 0.62
46 6 0.16
ACGTcount: A:0.59, C:0.15, G:0.17, T:0.09
Consensus pattern (45 bp):
AAGAAAACCGAATAAAGAAATCCAAGATAAAGAAACCCAAGAATA
Found at i:62079532 original size:27 final size:27
Alignment explanation
Indices: 62079501--62079678 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
62079491 TAAATTGTAC
62079501 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
62079528 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62079554 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
62079582 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
62079610 AGCACTAAGTGTGTGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
62079637 AGCACCAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
62079664 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62079679 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 103 0.82
28 22 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:62079647 original size:82 final size:81
Alignment explanation
Indices: 62079502--62079657 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
62079492 AAATTGTACA
* * *
62079502 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACCAAGTGT
62079567 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
62079583 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGTGATTTGATTACG-TAGCACCAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACCAAGT
*
62079647 GTGCGAGTTGA
64 GTGCGAATTGA
62079658 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 49 0.75
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACCAAGTGT
GCGAATTGACCATGCG
Found at i:62079669 original size:82 final size:81
Alignment explanation
Indices: 62079498--62079678 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
62079488 GATTAAATTG
* * *
62079498 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACCAA
62079563 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
62079579 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGTGATTTGATTACG-TAGCACC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACC
* **
62079643 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
62079661 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
62079679 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACCAA
GTGTGCGAATTGACCA
Found at i:62083885 original size:93 final size:93
Alignment explanation
Indices: 62083726--62083896 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
62083716 GCCCCTAAGT
62083726 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
62083791 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * **
62083819 GAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATATGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
62083883 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
62083897 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62083893 original size:46 final size:45
Alignment explanation
Indices: 62083723--62083893 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 45
62083713 ACTGCCCCTA
* *
62083723 AGTGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCAT
* * *
62083768 AAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCAT
*
62083816 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
62083861 ATGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
62083894 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 3 0.03
46 56 0.53
47 29 0.27
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
Found at i:62092053 original size:27 final size:27
Alignment explanation
Indices: 62092019--62092072 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
62092009 TTTAATAGAA
62092019 TTGATTGGTTTAATTTCAATTTTAATT
1 TTGATTGGTTTAATTTCAATTTTAATT
*
62092046 TTGATTGGTTTAATTTTAATTTTAATT
1 TTGATTGGTTTAATTTCAATTTTAATT
62092073 AAGATATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (27 bp):
TTGATTGGTTTAATTTCAATTTTAATT
Found at i:62094184 original size:55 final size:54
Alignment explanation
Indices: 62094089--62094238 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
62094079 CTACTTTGTT
* ** * *
62094089 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
62094143 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
62094198 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
62094239 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:62094201 original size:27 final size:27
Alignment explanation
Indices: 62094061--62094238 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
62094051 TAAATTGTAC
62094061 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
62094088 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
62094114 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
62094142 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
62094170 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
62094197 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
62094224 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62094239 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Done.