Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 234 of 290
Found at i:76229234 original size:24 final size:24
Alignment explanation
Indices: 76229156--76229272 Score: 109
Period size: 24 Copynumber: 4.9 Consensus size: 24
76229146 GAGCTTACTG
* *
76229156 TTTCAGCTCATTGGAGCTTACCGA-
1 TTTCAGCTCAATAGAGCTTACC-AT
76229180 -TTCAGCTCGAA-AGAGCTTA-C-T
1 TTTCAGCTC-AATAGAGCTTACCAT
*
76229201 GTTCAGCTCAATAGAGCTTACCAT
1 TTTCAGCTCAATAGAGCTTACCAT
**
76229225 TTTCAGCTCAATAGAGCTTACTGT
1 TTTCAGCTCAATAGAGCTTACCAT
*
76229249 TTATCAGCTCAGTAAGAGCTTACC
1 TT-TCAGCTCAAT-AGAGCTTACC
76229273 GACATGTCTT
Statistics
Matches: 78, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
21 2 0.03
22 17 0.22
23 16 0.21
24 25 0.32
25 9 0.12
26 9 0.12
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (24 bp):
TTTCAGCTCAATAGAGCTTACCAT
Found at i:76232385 original size:25 final size:25
Alignment explanation
Indices: 76232357--76232407 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
76232347 GAATTTGATA
76232357 TGATTCTGGGTATGGATTGGCTGAC
1 TGATTCTGGGTATGGATTGGCTGAC
76232382 TGATTCTGGGTATGGATTGGCTGAC
1 TGATTCTGGGTATGGATTGGCTGAC
76232407 T
1 T
76232408 ATGCACGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.12, G:0.35, T:0.37
Consensus pattern (25 bp):
TGATTCTGGGTATGGATTGGCTGAC
Found at i:76236734 original size:23 final size:22
Alignment explanation
Indices: 76236704--76236839 Score: 105
Period size: 23 Copynumber: 5.8 Consensus size: 22
76236694 AAACTCTCCA
76236704 TAGCTCATAAGAGCTTACTGTTT
1 TAGCTCA-AAGAGCTTACTGTTT
** * *
76236727 TAGCTCATTGGAGCTTACCGATT
1 TAGCTCA-AAGAGCTTACTGTTT
76236750 TAGCTCGAAAGAGCTTACTG-TT
1 TAGCTC-AAAGAGCTTACTGTTT
*
76236772 CAGCTCAATAGAGCTTATCAT-TTT
1 TAGCTCAA-AGAGCTTA-C-TGTTT
*
76236796 CAGCTCAATAGAGCTTACTGTTT
1 TAGCTCAA-AGAGCTTACTGTTT
76236819 ATCAGCTCAGTAAGAGCTTAC
1 -T-AGCTCA--AAGAGCTTAC
76236840 CGACCATGTC
Statistics
Matches: 94, Mismatches: 9, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.02
22 16 0.17
23 39 0.41
24 21 0.22
25 6 0.06
26 9 0.10
27 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (22 bp):
TAGCTCAAAGAGCTTACTGTTT
Found at i:76236771 original size:46 final size:46
Alignment explanation
Indices: 76236704--76236842 Score: 149
Period size: 46 Copynumber: 2.9 Consensus size: 46
76236694 AAACTCTCCA
*
76236704 TAGCTCATAAGAGCTTACTGTTTTAGCTCATTGGAGCTTACCGA-TT
1 TAGCTCA-AAGAGCTTACTGTTTTAGCTCATTAGAGCTTACCGATTT
* * *
76236750 TAGCTCGAAAGAGCTTACTG-TTCAGCTCAATAGAGCTTATC-ATTT
1 TAGCTC-AAAGAGCTTACTGTTTTAGCTCATTAGAGCTTACCGATTT
*
76236795 TCAGCTCAATAGAGCTTACTGTTTATCAGCTCAGTAAGAGCTTACCGA
1 T-AGCTCAA-AGAGCTTACTGTTT-T-AGCTCA-TTAGAGCTTACCGA
76236843 CCATGTCTCG
Statistics
Matches: 76, Mismatches: 8, Indels: 13
0.78 0.08 0.13
Matches are distributed among these distances:
44 1 0.01
45 22 0.29
46 34 0.45
47 3 0.04
49 6 0.08
50 9 0.12
51 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (46 bp):
TAGCTCAAAGAGCTTACTGTTTTAGCTCATTAGAGCTTACCGATTT
Found at i:76253301 original size:40 final size:41
Alignment explanation
Indices: 76253241--76253322 Score: 157
Period size: 40 Copynumber: 2.0 Consensus size: 41
76253231 TTTACCAAAA
76253241 ATAGTAGAAATTGAATCAGAGATTGAATGAGATATCAAATT
1 ATAGTAGAAATTGAATCAGAGATTGAATGAGATATCAAATT
76253282 ATAG-AGAAATTGAATCAGAGATTGAATGAGATATCAAATT
1 ATAGTAGAAATTGAATCAGAGATTGAATGAGATATCAAATT
76253322 A
1 A
76253323 GAGCTTAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 37 0.90
41 4 0.10
ACGTcount: A:0.48, C:0.05, G:0.20, T:0.28
Consensus pattern (41 bp):
ATAGTAGAAATTGAATCAGAGATTGAATGAGATATCAAATT
Found at i:76255683 original size:51 final size:49
Alignment explanation
Indices: 76255580--76255745 Score: 179
Period size: 49 Copynumber: 3.3 Consensus size: 49
76255570 AAACAATCTG
** * * * *
76255580 GTACTACACACGTGACGTAACCATCTGATACACGTAGTAGCCTGCATTTA
1 GTACTACACACGTGAC-TAATAATCCGGTACACATAGTAGCCTGCACTTA
* * * * *
76255630 GTACTACACACGTGATTGAAGTTATCGGGTACGCATAGTAGCCTACACTTA
1 GTACTACACACGTGACT-AA-TAATCCGGTACACATAGTAGCCTGCACTTA
* * *
76255681 GTACTACACATGCGACTAATAATCCGGTACACGTAGTAGCCTGCACTTA
1 GTACTACACACGTGACTAATAATCCGGTACACATAGTAGCCTGCACTTA
76255730 GTACTACACACGTGAC
1 GTACTACACACGTGAC
76255746 CTCACAATAG
Statistics
Matches: 95, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
49 40 0.42
50 19 0.20
51 36 0.38
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (49 bp):
GTACTACACACGTGACTAATAATCCGGTACACATAGTAGCCTGCACTTA
Found at i:76274393 original size:9 final size:9
Alignment explanation
Indices: 76274381--76274412 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
76274371 AGAGTTTGGC
76274381 TTCTTTGTT
1 TTCTTTGTT
76274390 TTCTTTGTT
1 TTCTTTGTT
76274399 TTCTTT-TT
1 TTCTTTGTT
76274407 TT-TTTG
1 TTCTTTG
76274413 ACTTTTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 3 0.14
8 4 0.18
9 15 0.68
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.81
Consensus pattern (9 bp):
TTCTTTGTT
Found at i:76276526 original size:43 final size:43
Alignment explanation
Indices: 76276478--76276614 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
76276468 CGTGATTACA
**
76276478 TGTAAGACCATGTCTGAGACATTGGCATT-ATATTATGAATAA-G
1 TGTAAGACCATGTCTGAGACAGAGGCATTGATA-TATG-ATAACG
* * *
76276521 TGTAAGACCCTGTCTGGGACAGAGGCATTGATATGTGATAACG
1 TGTAAGACCATGTCTGAGACAGAGGCATTGATATATGATAACG
* * * * * *
76276564 TGTAAGACCTTGTCTAAGACAAAGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGAGACAGAGGCATTGATATATGATAACG
*
76276607 CGTAAGAC
1 TGTAAGAC
76276615 TATATATGGG
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
42 4 0.05
43 73 0.91
44 3 0.04
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGAGACAGAGGCATTGATATATGATAACG
Found at i:76280387 original size:30 final size:31
Alignment explanation
Indices: 76280351--76280409 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
76280341 TGGCTTAGGA
* *
76280351 CATGGCCGTGTGGCCAGCCCGTG-GGAATCC
1 CATGGCCATGTGGCCAGCCCATGTGGAATCC
*
76280381 CATGGCCATGTGGCTAGCCCATGTGGAAT
1 CATGGCCATGTGGCCAGCCCATGTGGAAT
76280410 TTTGACTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.20
Consensus pattern (31 bp):
CATGGCCATGTGGCCAGCCCATGTGGAATCC
Found at i:76281540 original size:32 final size:33
Alignment explanation
Indices: 76281503--76281567 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
76281493 CATTTGGTAG
*
76281503 ACACAAAGTATACCTAACCTTTCCAAG-TGTAC
1 ACACAAAGTATACATAACCTTTCCAAGTTGTAC
* *
76281535 ACACAAAGTGTACATAACCTTTTCAAGTTGTAC
1 ACACAAAGTATACATAACCTTTCCAAGTTGTAC
76281568 CACTTAGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 24 0.83
33 5 0.17
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.28
Consensus pattern (33 bp):
ACACAAAGTATACATAACCTTTCCAAGTTGTAC
Found at i:76283521 original size:43 final size:43
Alignment explanation
Indices: 76283473--76283588 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
76283463 TGTGATTACA
*
76283473 TGTAAGACCATGTCTAGGACATTGGCATTG-TATT-ATGAATACG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTTATTCA--AATACG
* * *
76283516 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTCAATTTCG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTTATTCAAATACG
**
76283559 TGTAAGACCATGTCTAGGACAGAGGCATCG
1 TGTAAGACCATGTCTAGGACATTGGCATCG
76283589 ATATGTGATA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
43 59 0.92
44 4 0.06
45 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGTTATTCAAATACG
Found at i:76302531 original size:34 final size:34
Alignment explanation
Indices: 76302488--76302555 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
76302478 CATAGACACA
*
76302488 TGGAAAACATTATGAATTCTGTCAAGCTCTGGTG
1 TGGAAAACATTATGAATTCCGTCAAGCTCTGGTG
76302522 TGGAAAACATTATGAATTCCGTCAAGCTCTGGTG
1 TGGAAAACATTATGAATTCCGTCAAGCTCTGGTG
76302556 GTAATGTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (34 bp):
TGGAAAACATTATGAATTCCGTCAAGCTCTGGTG
Found at i:76302951 original size:43 final size:43
Alignment explanation
Indices: 76302888--76303128 Score: 430
Period size: 43 Copynumber: 5.6 Consensus size: 43
76302878 ATTGAAAAAA
*
76302888 CGCCGCTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAG
*
76302931 CACCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAG
76302974 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAG
76303017 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAG
76303060 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGA-AGAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGA-AG
* *
76303103 CGCCGCTAAAGGTTAAAGCTTTTAGC
1 CGCCGCTAAAGGTCAAGGCTTTTAGC
76303129 AGCGCTTTTT
Statistics
Matches: 192, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
42 1 0.01
43 191 0.99
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAG
Found at i:76303150 original size:129 final size:129
Alignment explanation
Indices: 76302885--76303154 Score: 418
Period size: 129 Copynumber: 2.1 Consensus size: 129
76302875 TTTATTGAAA
76302885 AAACGCCGCTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGGTCAAGGC
1 AAACGCCGCTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGGTCAAGGC
* * * *
76302950 TTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAG
66 TTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAAGCTTTTAGCAGCGTTTGTGCGAC
* * *
76303014 AAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGGC
1 AAACGCCGCTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGGTCAAGGC
* * *
76303079 TTTTAGCGGCGTTTGTGGGA-AGAGCGCCGCTAAAGGTTAAAGCTTTTAGCAGCGCTTT-TTCTA
66 TTTTAGCGGCGTTTGTGGGAGA-AGCGCCGCTAAAGGTCAAAGCTTTTAGCAGCG-TTTGTGCGA
76303142 C
129 C
76303143 AAACGCCGCTAA
1 AAACGCCGCTAA
76303155 TTTTGGCAGA
Statistics
Matches: 128, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
128 1 0.01
129 124 0.97
130 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.24
Consensus pattern (129 bp):
AAACGCCGCTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGGTCAAGGC
TTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAAGCTTTTAGCAGCGTTTGTGCGAC
Found at i:76309074 original size:9 final size:9
Alignment explanation
Indices: 76309060--76309100 Score: 66
Period size: 9 Copynumber: 4.6 Consensus size: 9
76309050 TTTTTATGTT
76309060 TTATGTAAG
1 TTATGTAAG
76309069 TTATGTAAG
1 TTATGTAAG
76309078 TTATGT-AG
1 TTATGTAAG
76309086 ATTATGTAAG
1 -TTATGTAAG
76309096 TTATG
1 TTATG
76309101 AAATTTGAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.07
9 26 0.87
10 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:76309177 original size:9 final size:9
Alignment explanation
Indices: 76309163--76309290 Score: 112
Period size: 9 Copynumber: 13.6 Consensus size: 9
76309153 ATGTATTAGT
76309163 TAAGTTATG
1 TAAGTTATG
76309172 TAAGTTGTTATG
1 TAA---GTTATG
*
76309184 TACGTTATG
1 TAAGTTATG
*
76309193 TGAGTTATG
1 TAAGTTATG
*
76309202 TAAATTATG
1 TAAGTTATG
*
76309211 TAAATTATG
1 TAAGTTATG
*
76309220 TGAGTTATG
1 TAAGTTATG
76309229 TAAGTTGTTATG
1 TAA---GTTATG
*
76309241 TAAATTATG
1 TAAGTTATG
*
76309250 TAAGTTATA
1 TAAGTTATG
*
76309259 TGAGTTATG
1 TAAGTTATG
76309268 TAAGTTATG
1 TAAGTTATG
* *
76309277 TAATTTATT
1 TAAGTTATG
76309286 TAAGT
1 TAAGT
76309291 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:76309290 original size:57 final size:57
Alignment explanation
Indices: 76309163--76309290 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
76309153 ATGTATTAGT
** * *
76309163 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAATTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAATTATG
* * * *
76309220 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAATTATG
* *
76309277 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
76309291 AATGATCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAATTATG
Found at i:76310068 original size:240 final size:241
Alignment explanation
Indices: 76309410--76310327 Score: 1687
Period size: 241 Copynumber: 3.8 Consensus size: 241
76309400 TGAATATAGT
*
76309410 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGAAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
*
76309475 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTGAAAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
76309540 AGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
76309605 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
* *
76309651 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTTGGGAGGATCCATTATATCTTACAAC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
* *
76309716 TCGATATAAGGCAACCCGTTAGGTTTCCATCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
*
76309781 AGGTTGGAGAGAAAGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
76309846 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
*
76309892 AATTTCTTAAGATTCATCATACGTGGCGTTGTTACACCT-GGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
76309956 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
*
76310021 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
76310086 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
*
76310132 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGA
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
*
76310197 TCGATATAAGGCAACCCGTTAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
*
76310262 AGGTTGGAGA-AAAGGTCAGCTATATTGTTGTAATTTTAATAGACAAGCAAGCTACATGGTAATA
131 AGGTTGGAGAGAAA-GTCAGC--TATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATA
76310326 AA
193 AA
76310328 ATTAATTCAT
Statistics
Matches: 655, Mismatches: 18, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
240 236 0.36
241 376 0.57
243 43 0.07
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (241 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
AGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
Found at i:76313523 original size:11 final size:11
Alignment explanation
Indices: 76313509--76313558 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
76313499 AATATTTTAA
76313509 AAATTCTTGAC
1 AAATTCTTGAC
* *
76313520 AAATTATTTTGTC
1 AAA-T-TCTTGAC
76313533 AAATTCTTGAC
1 AAATTCTTGAC
76313544 AAATTCTTGAC
1 AAATTCTTGAC
76313555 AAAT
1 AAAT
76313559 ATACAAGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 23 0.70
12 2 0.06
13 8 0.24
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATTCTTGAC
Found at i:76313958 original size:18 final size:19
Alignment explanation
Indices: 76313937--76313972 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
76313927 TTTGAAATTC
76313937 TTCATCTCT-CAATTCTAT
1 TTCATCTCTGCAATTCTAT
*
76313955 TTCATCTTTGCAATTCTA
1 TTCATCTCTGCAATTCTA
76313973 CAGAAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.25, G:0.03, T:0.50
Consensus pattern (19 bp):
TTCATCTCTGCAATTCTAT
Found at i:76314617 original size:40 final size:41
Alignment explanation
Indices: 76314564--76314640 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 41
76314554 GCGTTTTGCA
* *
76314564 AAAGCGTCGCTAATTCTCAGTTTTT-GCGGCGTTTTTTACG
1 AAAGCGCCACTAATTCTCAGTTTTTAGCGGCGTTTTTTACG
*
76314604 AAAGCGCCACTAATTCTCTGTTTTTAGCGGCGTTTTT
1 AAAGCGCCACTAATTCTCAGTTTTTAGCGGCGTTTTT
76314641 GCTAATGCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 22 0.67
41 11 0.33
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (41 bp):
AAAGCGCCACTAATTCTCAGTTTTTAGCGGCGTTTTTTACG
Found at i:76316018 original size:28 final size:29
Alignment explanation
Indices: 76315986--76316047 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
76315976 ATGGATTAGT
*
76315986 GTTTATGGTTT-ATGTTTTAAAATTTAA-G
1 GTTTAGGGTTTAATG-TTTAAAATTTAAGG
*
76316014 GTTTAGGGTTTAATGTTTAAGATTTAAGG
1 GTTTAGGGTTTAATGTTTAAAATTTAAGG
76316043 GTTTA
1 GTTTA
76316048 CAAAAAGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 21 0.70
29 9 0.30
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (29 bp):
GTTTAGGGTTTAATGTTTAAAATTTAAGG
Found at i:76316025 original size:21 final size:21
Alignment explanation
Indices: 76315987--76316047 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
76315977 TGGATTAGTG
* * *
76315987 TTTATGGTTTATGTTTTAAAA
1 TTTAAGGTTTAGGGTTTAAAA
**
76316008 TTTAAGGTTTAGGGTTTAATG
1 TTTAAGGTTTAGGGTTTAAAA
*
76316029 TTTAAGATTTAAGGGTTTA
1 TTTAAGGTTT-AGGGTTTA
76316048 CAAAAAGCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 25 0.76
22 8 0.24
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (21 bp):
TTTAAGGTTTAGGGTTTAAAA
Found at i:76316405 original size:41 final size:41
Alignment explanation
Indices: 76316348--76316627 Score: 332
Period size: 41 Copynumber: 6.9 Consensus size: 41
76316338 CGTTTGGACC
* * *
76316348 AAAAATGCCGCTATTGATCAGTTTTTAGTGGTGTTTTGGAT
1 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTTGGAT
*
76316389 AAAAACGCCACAATTGATCAGTTTTTAGTGGCGTTTTGGAT
1 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTTGGAT
* * *
76316430 AAAGACGCCACAATTGATCAGTTTTTAGTGGCGTTTGGGAT
1 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTTGGAT
*
76316471 -AAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTGGGAT
1 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTTGGAT
* * * **
76316511 TAAAACGCCGCTATTGATCAGCTTTTAGTGGCG-TTTGGCG
1 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTTGGAT
* * * * * **
76316551 AAAAAGGCCGCTA-TGACCAATTTTTAGTGGCTTTTTGGCC
1 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTTGGAT
* * *
76316591 AAAAACGCTGCTATTGACCAGTTTTTAGTGGCGTTTT
1 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTT
76316628 TGCCAAAAGC
Statistics
Matches: 212, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
39 15 0.07
40 70 0.33
41 127 0.60
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (41 bp):
AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTTGGAT
Found at i:76316490 original size:81 final size:80
Alignment explanation
Indices: 76316349--76316626 Score: 346
Period size: 81 Copynumber: 3.4 Consensus size: 80
76316339 GTTTGGACCA
* * * *
76316349 AAAATGCCGCTATTGATCAGTTTTTAGTGGTGTTTTGGATAAAAACGCCACAATTGATCAGTTTT
1 AAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGAT-AAAACGCCGCAATTGATCAGTTTT
76316414 TAGTGGCGTTTTGGAT
65 TAGTGGCGTTTTGGAT
* *
76316430 AAAGACGCCACAATTGATCAGTTTTTAGTGGCGTTTGGGATAAAACGCCGCAATTGATCAGTTTT
1 AAA-ACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGATAAAACGCCGCAATTGATCAGTTTT
*
76316495 TAGTGGCGTTTGGGATT
65 TAGTGGCGTTTTGGA-T
* * * * *
76316512 AAAACGCCGCTATTGATCAGCTTTTAGTGGCGTTTGGCGA-AAAAGGCCGCTA-TGACCAATTTT
1 AAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGG-GATAAAACGCCGCAATTGATCAGTTTT
*
76316575 TAGTGGCTTTTTGGCCA-
65 TAGTGGCGTTTTGG--AT
* *
76316592 AAAACGCTGCTATTGACCAGTTTTTAGTGGCGTTT
1 AAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTT
76316627 TTGCCAAAAG
Statistics
Matches: 173, Mismatches: 19, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
80 53 0.31
81 81 0.47
82 39 0.23
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (80 bp):
AAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGATAAAACGCCGCAATTGATCAGTTTTT
AGTGGCGTTTTGGAT
Found at i:76316633 original size:41 final size:41
Alignment explanation
Indices: 76316336--76316683 Score: 323
Period size: 41 Copynumber: 8.6 Consensus size: 41
76316326 AACTTTTTGC
*
76316336 GGCG-TTTGGACCAAAAATGCCGCTATTGATCAGTTTTTAGT
1 GGCGTTTTGG-CCAAAAACGCCGCTATTGATCAGTTTTTAGT
* ** * *
76316377 GGTGTTTTGGATAAAAACGCCACAATTGATCAGTTTTTAGT
1 GGCGTTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
** * * *
76316418 GGCGTTTTGGATAAAGACGCCACAATTGATCAGTTTTTAGT
1 GGCGTTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
* *
76316459 GGCG-TTTGG-GATAAAACGCCGCAATTGATCAGTTTTTAGT
1 GGCGTTTTGGCCA-AAAACGCCGCTATTGATCAGTTTTTAGT
* *** *
76316499 GGCGTTTGGGATTAAAACGCCGCTATTGATCAGCTTTTAGT
1 GGCGTTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * *
76316540 GGCG-TTTGGCGAAAAAGGCCGCTA-TGACCAATTTTTAGT
1 GGCGTTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
76316579 GGCTTTTTGGCCAAAAACGCTGCTATTGACCAGTTTTTAGT
1 GGCGTTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * * *
76316620 GGCGTTTTTGCCAAAAGCACCGCTATAGTTTAGTTTTTAGT
1 GGCGTTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
76316661 GGGGTTTCGG--ACAAACGCCGCTA
1 GGCGTTTTGGCCAAAAACGCCGCTA
76316684 ATGTTTATTA
Statistics
Matches: 257, Mismatches: 44, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
39 26 0.10
40 67 0.26
41 159 0.62
42 5 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
GGCGTTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
Found at i:76324089 original size:73 final size:73
Alignment explanation
Indices: 76323971--76324136 Score: 298
Period size: 73 Copynumber: 2.3 Consensus size: 73
76323961 GACTTGGGTT
* *
76323971 ACACGGCC-AGCCACACGCCCATGTGCTTGGCCGTATGGACCATTTAATTTTTGAAAATTCGGTG
1 ACACGGCCAAGACACACGCCCATGTACTTGGCCGTATGGACCATTTAATTTTTGAAAATTCGGTG
76324035 CAGGATTC
66 CAGGATTC
76324043 ACACGGCCAAGACACACGCCCATGTACTTGGCCGTATGGACCATTTAATTTTTGAAAATTCGGTG
1 ACACGGCCAAGACACACGCCCATGTACTTGGCCGTATGGACCATTTAATTTTTGAAAATTCGGTG
76324108 CAGGATTC
66 CAGGATTC
*
76324116 ACATGGCCAAGACACACGCCC
1 ACACGGCCAAGACACACGCCC
76324137 GTGTCTCTAC
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
72 8 0.09
73 82 0.91
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (73 bp):
ACACGGCCAAGACACACGCCCATGTACTTGGCCGTATGGACCATTTAATTTTTGAAAATTCGGTG
CAGGATTC
Found at i:76326810 original size:9 final size:9
Alignment explanation
Indices: 76326776--76326834 Score: 66
Period size: 9 Copynumber: 6.7 Consensus size: 9
76326766 TTTGGTTAAA
*
76326776 AATTAACAG
1 AATTAACCG
**
76326785 AATTAAAAG
1 AATTAACCG
76326794 AATTAACCG
1 AATTAACCG
76326803 AATTAACCG
1 AATTAACCG
* *
76326812 -ATCACCCG
1 AATTAACCG
76326820 AATTAACCG
1 AATTAACCG
76326829 AATTAA
1 AATTAA
76326835 ATCACTACAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
8 6 0.14
9 36 0.86
ACGTcount: A:0.49, C:0.19, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTAACCG
Found at i:76326862 original size:17 final size:17
Alignment explanation
Indices: 76326840--76326974 Score: 63
Period size: 17 Copynumber: 7.4 Consensus size: 17
76326830 ATTAAATCAC
76326840 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
76326857 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
76326877 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
* * *
76326894 TACATAAGTCTATGAATCAC
1 TACATAA-T-TA-AAAACAT
*
76326914 TACATAAATAAAAACAT
1 TACATAATTAAAAACAT
** * *
76326931 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
76326951 TACATAATTAAAAGCAT
1 TACATAATTAAAAACAT
76326968 TACATAA
1 TACATAA
76326975 GTCTTGAAAT
Statistics
Matches: 83, Mismatches: 26, Indels: 18
0.65 0.20 0.14
Matches are distributed among these distances:
17 43 0.52
18 3 0.04
19 2 0.02
20 35 0.42
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:76326882 original size:20 final size:20
Alignment explanation
Indices: 76326857--76326957 Score: 70
Period size: 20 Copynumber: 5.3 Consensus size: 20
76326847 TTAAAAACAT
76326857 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
*** *
76326877 TACATAA-T-TAAAAAT-AT
1 TACATAAGTCTTTGAATCAC
*
76326894 TACATAAGTCTATGAATCAC
1 TACATAAGTCTTTGAATCAC
* ** * *
76326914 TACATAA---ATAAAAACAT
1 TACATAAGTCTTTGAATCAC
76326931 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
76326951 TACATAA
1 TACATAA
76326958 TTAAAAGCAT
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
17 19 0.33
18 5 0.09
19 6 0.11
20 27 0.47
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.32
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAC
Found at i:76326996 original size:37 final size:37
Alignment explanation
Indices: 76326834--76326979 Score: 256
Period size: 37 Copynumber: 3.9 Consensus size: 37
76326824 AACCGAATTA
76326834 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
* *
76326871 AATCACTACATAATTAAAAATATTACATAAGTCTATG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
*
76326908 AATCACTACATAAATAAAAACATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
*
76326945 AATCACTACATAATTAAAAGCATTACATAAGTCTT
1 AATCACTACATAATTAAAAACATTACATAAGTCTT
76326980 GAAATTAACA
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (37 bp):
AATCACTACATAATTAAAAACATTACATAAGTCTTTG
Found at i:76333844 original size:14 final size:14
Alignment explanation
Indices: 76333825--76333854 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
76333815 ATGAAGTTTG
*
76333825 AAATTATTATATTA
1 AAATTATTATAATA
76333839 AAATTATTATAATA
1 AAATTATTATAATA
76333853 AA
1 AA
76333855 TAGAAATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATTATTATAATA
Found at i:76338846 original size:14 final size:15
Alignment explanation
Indices: 76338818--76338855 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
76338808 AAGAAAAGGG
*
76338818 GGTTTGGTTGCAGAT
1 GGTTGGGTTGCAGAT
76338833 GGTTGGGTTG-AGAT
1 GGTTGGGTTGCAGAT
76338847 GGATTGGGT
1 GG-TTGGGT
76338856 GGTGGTGAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.13, C:0.03, G:0.47, T:0.37
Consensus pattern (15 bp):
GGTTGGGTTGCAGAT
Found at i:76340300 original size:35 final size:34
Alignment explanation
Indices: 76340213--76340300 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 34
76340203 ATATACTCAA
* * *
76340213 TCAGATACAGATATAGATTCGGGTATAAGCCCAT
1 TCAGATACAGATACAGATTCGAGCATAAGCCCAT
* * *
76340247 TACCGATACAGATGCAGATTCGAGCCTAAGCCCAT
1 T-CAGATACAGATACAGATTCGAGCATAAGCCCAT
*
76340282 CTCAGATATAGATACAGAT
1 -TCAGATACAGATACAGAT
76340301 GTAAAAATCA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
34 1 0.02
35 41 0.95
36 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (34 bp):
TCAGATACAGATACAGATTCGAGCATAAGCCCAT
Found at i:76352921 original size:21 final size:22
Alignment explanation
Indices: 76352869--76352921 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
76352859 CCCAGATGCA
76352869 TATAAA-ATATATTATAAATAT
1 TATAAATATATATTATAAATAT
*
76352890 TATACAT-TATATTATAAAT-T
1 TATAAATATATATTATAAATAT
*
76352910 TTTAAATATATA
1 TATAAATATATA
76352922 AAATCCAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TATAAATATATATTATAAATAT
Found at i:76353131 original size:22 final size:22
Alignment explanation
Indices: 76353103--76353147 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
76353093 TTGGGGAATC
76353103 CCCGACTTCCTCCCAGTGAAGT
1 CCCGACTTCCTCCCAGTGAAGT
76353125 CCCGACTTCCTCCCAGTGAAGT
1 CCCGACTTCCTCCCAGTGAAGT
76353147 C
1 C
76353148 TATTGGAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.42, G:0.18, T:0.22
Consensus pattern (22 bp):
CCCGACTTCCTCCCAGTGAAGT
Found at i:76355519 original size:20 final size:18
Alignment explanation
Indices: 76355481--76355515 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
76355471 CAACTGAATC
76355481 ATATTTTATAAAATTTTA
1 ATATTTTATAAAATTTTA
*
76355499 ATATTTTATATAATTTT
1 ATATTTTATAAAATTTT
76355516 TTAAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTTATAAAATTTTA
Found at i:76356609 original size:22 final size:22
Alignment explanation
Indices: 76356581--76356625 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
76356571 TCAACTGACA
*
76356581 TAGAGATGCAGTCAGTGCTGCT
1 TAGAGATGCAGTCAGTACTGCT
76356603 TAGAGATGCAGTCAGTACTGCT
1 TAGAGATGCAGTCAGTACTGCT
76356625 T
1 T
76356626 CCTTACTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (22 bp):
TAGAGATGCAGTCAGTACTGCT
Found at i:76365560 original size:20 final size:20
Alignment explanation
Indices: 76365515--76365583 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
76365505 AAAGAAAATC
*
76365515 AAAGAAAAAGAAGAGAATGAGAA
1 AAAGAAAAAG-A-AGAA-GAGGA
76365538 AAAGAAAAAGAAGAAGAGGA
1 AAAGAAAAAGAAGAAGAGGA
* **
76365558 AAAGGAGGAGAAGAAGA-GA
1 AAAGAAAAAGAAGAAGAGGA
76365577 AAA-AAAA
1 AAAGAAAA
76365584 TTCTAGAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
18 1 0.03
19 5 0.13
20 18 0.46
21 4 0.10
22 1 0.03
23 10 0.26
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAGAAGAAGAGGA
Found at i:76366152 original size:29 final size:31
Alignment explanation
Indices: 76366092--76366153 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 31
76366082 GGAGAAGAAG
*
76366092 AAGTATAAACATATTGGGTCATTTATGCAAA
1 AAGTATAAACATATTGGGTCATTTATGAAAA
*
76366123 AAGTA-AAA-ATATTGGGTCATTTATTAAAA
1 AAGTATAAACATATTGGGTCATTTATGAAAA
76366152 AA
1 AA
76366154 TGGAAAAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 21 0.72
30 3 0.10
31 5 0.17
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (31 bp):
AAGTATAAACATATTGGGTCATTTATGAAAA
Found at i:76372832 original size:21 final size:21
Alignment explanation
Indices: 76372791--76372833 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
76372781 TAAAGTGGTT
*
76372791 GAGATTGAGGGGTAAGTGGGA
1 GAGATTGAGGGATAAGTGGGA
*
76372812 GAGATTTGAGGGATTAG-GGGA
1 GAGA-TTGAGGGATAAGTGGGA
76372833 G
1 G
76372834 TTAATATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.28, C:0.00, G:0.51, T:0.21
Consensus pattern (21 bp):
GAGATTGAGGGATAAGTGGGA
Found at i:76373548 original size:13 final size:13
Alignment explanation
Indices: 76373530--76373555 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76373520 CGTGTGGGCC
76373530 CACACAGACGTGT
1 CACACAGACGTGT
76373543 CACACAGACGTGT
1 CACACAGACGTGT
76373556 GGATCTTGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (13 bp):
CACACAGACGTGT
Found at i:76375962 original size:30 final size:31
Alignment explanation
Indices: 76375937--76375995 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
76375927 ATAAATACTC
* *
76375937 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACTAATAGTGTAAATATGA
76375967 AAAATTTGAAGGACTAATAGTGTAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
76375996 TTTAAGGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATGA
Found at i:76377549 original size:51 final size:51
Alignment explanation
Indices: 76377462--76377573 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 51
76377452 TATCCGGATC
* **
76377462 AAATATGAAGCTCTTATTGAAGTTAGAGTAACAAAGTAATAATTCCAGATG
1 AAATATGAAGCTCTTATTGAAGCTAGAACAACAAAGTAATAATTCCAGATG
** *
76377513 AAATATGAAGCTCTTATTGAAGCTAGAACATTAAAGTAATAATTCTAGATG
1 AAATATGAAGCTCTTATTGAAGCTAGAACAACAAAGTAATAATTCCAGATG
*
76377564 AAGTATGAAG
1 AAATATGAAG
76377574 TAAGTTTGAG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (51 bp):
AAATATGAAGCTCTTATTGAAGCTAGAACAACAAAGTAATAATTCCAGATG
Found at i:76382535 original size:21 final size:22
Alignment explanation
Indices: 76382505--76382545 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
76382495 TAGTAAAAGT
76382505 CATTTCTCTAACCA-TAAACATG
1 CATTTCTCT-ACCATTAAACATG
76382527 CATTT-TCTACCATTAAACA
1 CATTTCTCTACCATTAAACA
76382546 CAAAAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (22 bp):
CATTTCTCTACCATTAAACATG
Found at i:76389598 original size:35 final size:35
Alignment explanation
Indices: 76389558--76389714 Score: 242
Period size: 35 Copynumber: 4.5 Consensus size: 35
76389548 ATGGCAAAGG
76389558 GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
1 GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
* * *
76389593 CTGAAACATAGGTATGGTATCATCCATACCGAGTT
1 GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
* *
76389628 GTGAAACGTAGGTATGGTATAAACCATACTGAGTT
1 GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
*
76389663 GTGAAACGTAGGTATGGTATTATCCATACTGAGTT
1 GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
**
76389698 AAGAAACGTAGGTATGG
1 GTGAAACGTAGGTATGG
76389715 CGTTTCCCAT
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 110 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (35 bp):
GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
Found at i:76389730 original size:35 final size:35
Alignment explanation
Indices: 76389560--76389732 Score: 168
Period size: 35 Copynumber: 4.9 Consensus size: 35
76389550 GGCAAAGGGT
* * **
76389560 GAAACGTAGGTATGGTATCATCCATACTGAGTTCT
1 GAAACGTAGGTATGGCATTATCCATACTGAGTTAA
* * * * **
76389595 GAAACATAGGTATGGTATCATCCATACCGAGTTGT
1 GAAACGTAGGTATGGCATTATCCATACTGAGTTAA
* * * **
76389630 GAAACGTAGGTATGGTATAAACCATACTGAGTTGT
1 GAAACGTAGGTATGGCATTATCCATACTGAGTTAA
*
76389665 GAAACGTAGGTATGGTATTATCCATACTGAGTTAA
1 GAAACGTAGGTATGGCATTATCCATACTGAGTTAA
* *
76389700 GAAACGTAGGTATGGCGTT-TCCCATGCTGAGTT
1 GAAACGTAGGTATGGCATTAT-CCATACTGAGTT
76389733 GTCAAATTAG
Statistics
Matches: 123, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
34 1 0.01
35 122 0.99
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (35 bp):
GAAACGTAGGTATGGCATTATCCATACTGAGTTAA
Found at i:76389730 original size:70 final size:69
Alignment explanation
Indices: 76389560--76389752 Score: 221
Period size: 70 Copynumber: 2.8 Consensus size: 69
76389550 GGCAAAGGGT
* *
76389560 GAAACGTAGGTAT-GGTATCATCCATACTGAGTTCTGAAACATAGGTATGGTATCATCCATACCG
1 GAAACGTAGGTATGGGTATC--CCATACTGAGTTGTGAAACATAGGTATGGTATTATCCATACCG
**
76389624 AGTTGT
64 AGTTAA
* * *
76389630 GAAACGTAGGTAT-GGTATAAACCATACTGAGTTGTGAAACGTAGGTATGGTATTATCCATACTG
1 GAAACGTAGGTATGGGTAT--CCCATACTGAGTTGTGAAACATAGGTATGGTATTATCCATACCG
76389694 AGTTAA
64 AGTTAA
* * * *
76389700 GAAACGTAGGTATGGCGTTTCCCATGCTGAGTTGTCAAA-TTAGGTATGGTATT
1 GAAACGTAGGTATGG-GTATCCCATACTGAGTTGTGAAACATAGGTATGGTATT
76389753 TCAATGAGGA
Statistics
Matches: 107, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
69 13 0.12
70 90 0.84
71 1 0.01
72 3 0.03
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (69 bp):
GAAACGTAGGTATGGGTATCCCATACTGAGTTGTGAAACATAGGTATGGTATTATCCATACCGAG
TTAA
Found at i:76393146 original size:48 final size:48
Alignment explanation
Indices: 76393075--76393654 Score: 1025
Period size: 48 Copynumber: 12.0 Consensus size: 48
76393065 AGATAAATAT
76393075 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
76393123 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGGAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
76393171 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGGAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
76393219 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
76393267 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
76393315 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
76393363 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
76393411 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
76393459 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
76393507 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
*
76393557 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
76393605 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
76393653 AT
1 AT
76393655 GTGTGTATAT
Statistics
Matches: 522, Mismatches: 8, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
48 472 0.90
49 4 0.01
50 46 0.09
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:76393845 original size:37 final size:37
Alignment explanation
Indices: 76393795--76393897 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
76393785 GGAAATATAT
76393795 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
76393832 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
76393869 CCCGGGTAAGACCTGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
76393898 GGACTATTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:76395447 original size:40 final size:40
Alignment explanation
Indices: 76395167--76395432 Score: 487
Period size: 40 Copynumber: 6.7 Consensus size: 40
76395157 AGAATTGAGA
76395167 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
76395207 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
76395247 GTTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
76395287 GTTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* *
76395327 GTTATATCCGGGCTAAGTCTCGAAGAGCATTCATGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
76395367 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
76395407 GTTATATCCGGGCTAGGTCCCGAAGA
1 GTTATATCCGGGCTAAGTCCCGAAGA
76395433 CCAATCATGT
Statistics
Matches: 221, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:76395661 original size:25 final size:25
Alignment explanation
Indices: 76395611--76395661 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
76395601 TGTGTAACAA
* *
76395611 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
76395636 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
76395661 C
1 C
76395662 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:76399331 original size:5 final size:5
Alignment explanation
Indices: 76399321--76399360 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
76399311 CCAATTAGTG
*
76399321 AAAAT AAAAT AAAAT AAAGTAA AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAA--AT AAAAT AAAAT AAAAT AAA
76399361 GAACACACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 27 0.87
7 4 0.13
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:76399348 original size:17 final size:17
Alignment explanation
Indices: 76399326--76399360 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
76399316 TAGTGAAAAT
*
76399326 AAAATAAAATAAAGTAA
1 AAAATAAAATAAAATAA
76399343 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
76399360 A
1 A
76399361 GAACACACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAATAAAATAAAATAA
Found at i:76404200 original size:32 final size:32
Alignment explanation
Indices: 76404159--76404224 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
76404149 ACACTCTAAC
76404159 ATCGCGTATATTTTTAGGTTACCCTTGAAATT
1 ATCGCGTATATTTTTAGGTTACCCTTGAAATT
76404191 ATCGCGTATATTTTTAGGTTACCCTTGAAATT
1 ATCGCGTATATTTTTAGGTTACCCTTGAAATT
76404223 AT
1 AT
76404225 GTCTATTTTA
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:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (32 bp):
ATCGCGTATATTTTTAGGTTACCCTTGAAATT
Found at i:76404883 original size:27 final size:26
Alignment explanation
Indices: 76404848--76404959 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
76404838 AGCATGGCTG
* * *
76404848 CCAGAACAGATAATGAGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
76404874 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
76404902 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
76404929 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
76404956 CCAG
1 CCAG
76404960 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.14
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:76406921 original size:17 final size:17
Alignment explanation
Indices: 76406891--76406923 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
76406881 CTCTAATTCC
76406891 TTATCACCAGATGATAG
1 TTATCACCAGATGATAG
76406908 TTATCTACCA-ATGATA
1 TTATC-ACCAGATGATA
76406924 AGAATCTGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (17 bp):
TTATCACCAGATGATAG
Found at i:76419627 original size:53 final size:53
Alignment explanation
Indices: 76419542--76419645 Score: 154
Period size: 53 Copynumber: 2.0 Consensus size: 53
76419532 TTATAAGACT
** * *
76419542 TAGACAAAATTGCACCATTCGTAGAAGTATCTACTATCAAACTTGTATGTGCA
1 TAGACAAAATTGCACCATTCACAGAAGCATCTACCATCAAACTTGTATGTGCA
* *
76419595 TAGACAAAATTGCACCATTCACAGAAGCATCTACCATCTATCTTGTATGTG
1 TAGACAAAATTGCACCATTCACAGAAGCATCTACCATCAAACTTGTATGTG
76419646 TATTGAGACC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (53 bp):
TAGACAAAATTGCACCATTCACAGAAGCATCTACCATCAAACTTGTATGTGCA
Found at i:76422513 original size:19 final size:19
Alignment explanation
Indices: 76422489--76422526 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
76422479 TTTATTGGTG
*
76422489 GTCGAAATGATTGGTTTGT
1 GTCGAAATGATTAGTTTGT
*
76422508 GTCGAAATGGTTAGTTTGT
1 GTCGAAATGATTAGTTTGT
76422527 CAACAAGTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.05, G:0.32, T:0.42
Consensus pattern (19 bp):
GTCGAAATGATTAGTTTGT
Found at i:76423692 original size:6 final size:6
Alignment explanation
Indices: 76423681--76423837 Score: 155
Period size: 6 Copynumber: 25.8 Consensus size: 6
76423671 AACCAAAATG
*
76423681 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC A-ATATT AGTAA-C
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGA-ATC AG-AATC
* *
76423729 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
76423778 AGTAA-C AGAATC AGAATC AGAATC AGAATC AGAATT ACGTGAT- AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
76423827 AGAATC AGAAT
1 AGAATC AGAAT
76423838 GTGAATGCAA
Statistics
Matches: 128, Mismatches: 9, Indels: 28
0.78 0.05 0.17
Matches are distributed among these distances:
5 10 0.08
6 105 0.82
7 9 0.07
8 4 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:76423793 original size:61 final size:61
Alignment explanation
Indices: 76423704--76423837 Score: 207
Period size: 61 Copynumber: 2.2 Consensus size: 61
76423694 GAATCAGTAA
** *
76423704 CAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGAAT
1 CAGAATCAGAATCAATAACAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAGAAT
* *
76423765 CAGAATCAGAATCAGTAACAG-AATCAGAATCAGAATCAGAATCAGAATTACGTGATAGAAT
1 CAGAATCAGAATCAATAACAGTAA-CAGAATCAGAATCAGAATCAGAATTACGTGACAGAAT
76423826 CAGAATCAGAAT
1 CAGAATCAGAAT
76423838 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
60 2 0.03
61 65 0.97
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (61 bp):
CAGAATCAGAATCAATAACAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAGAAT
Found at i:76423992 original size:27 final size:26
Alignment explanation
Indices: 76423955--76424020 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
76423945 AGCATGGCTG
*
76423955 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
76423981 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
76424008 CCAGAATCAGATA
1 CCAGAA-CAGATA
76424021 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:76424025 original size:27 final size:27
Alignment explanation
Indices: 76423955--76424028 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
76423945 AGCATGGCTG
* *
76423955 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
76423981 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
76424008 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
76424029 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:76424035 original size:27 final size:27
Alignment explanation
Indices: 76423979--76424036 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
76423969 GTGACAGAGT
* * *
76423979 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
76424006 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
76424033 CACC
1 CACC
76424037 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:76424404 original size:27 final size:26
Alignment explanation
Indices: 76424339--76424422 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 26
76424329 TCGATCGGTC
* *
76424339 AACAGATATTGTGACAGAG-TCACCAA
1 AACAGATATTGTGGCAGAGCT-ACCAG
76424365 ATACAGATATTGTGGCAGAGCTACCAG
1 A-ACAGATATTGTGGCAGAGCTACCAG
* *
76424392 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCTACCAG
76424419 AACA
1 AACA
76424423 CTTCCTCCGT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
26 8 0.16
27 42 0.82
28 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCTACCAG
Found at i:76424650 original size:27 final size:27
Alignment explanation
Indices: 76424620--76424807 Score: 198
Period size: 27 Copynumber: 7.0 Consensus size: 27
76424610 GGGGCAAAAT
* * *
76424620 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
76424647 GGTAATTCTACCCTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
* *
76424674 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
76424701 GATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
76424728 GGTAATTCTATCTTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
76424755 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
76424782 AGAAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
76424808 TAGTAATTTC
Statistics
Matches: 137, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
26 3 0.02
27 131 0.96
28 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:76424692 original size:54 final size:54
Alignment explanation
Indices: 76424620--76424807 Score: 232
Period size: 54 Copynumber: 3.5 Consensus size: 54
76424610 GGGGCAAAAT
* ** * * *
76424620 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGAGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
* * *
76424674 GGTATTTCTACCTTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
* * *
76424728 GGTAATTCTATCTTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
* * * *
76424782 AGAAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCTTACAAGGGTATTT
76424808 TAGTAATTTC
Statistics
Matches: 113, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 113 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
GGTAATTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
Found at i:76424764 original size:81 final size:81
Alignment explanation
Indices: 76424667--76424815 Score: 219
Period size: 81 Copynumber: 1.8 Consensus size: 81
76424657 CCCTACAGGA
* * * * *
76424667 GTATTTCGGTATTTCTACCTTACAAGGGTATTTC-GATAATTCTACCCTATAGGGGTATTTTGGT
1 GTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGA-AATTCTACCCTACAGGGGTATTTTAGT
76424731 AATTCTATCTTATAAGG
65 AATTCTATCTTATAAGG
* *
76424748 GTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGAAATTCTACCCTACAGGGGTATTTTAGTA
1 GTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGAAATTCTACCCTACAGGGGTATTTTAGTA
76424813 ATT
66 ATT
76424816 TCACAATCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 58 0.97
82 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.40
Consensus pattern (81 bp):
GTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGAAATTCTACCCTACAGGGGTATTTTAGTA
ATTCTATCTTATAAGG
Found at i:76424850 original size:27 final size:27
Alignment explanation
Indices: 76424820--76425364 Score: 650
Period size: 27 Copynumber: 20.2 Consensus size: 27
76424810 GTAATTTCAC
* *
76424820 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * *
76424847 AATCAAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
76424874 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
76424901 AATCAAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
76424928 AATCGAAGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
76424955 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
76424982 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
76425009 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
76425036 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
76425063 AATCGAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
76425090 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
76425117 AATCGAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
76425144 AATTGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
76425171 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
76425198 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
76425225 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
76425252 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
76425279 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
76425306 AATTGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
76425333 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
76425360 AATCG
1 AATCG
76425365 GGAGTACTTT
Statistics
Matches: 449, Mismatches: 59, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 439 0.98
28 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:76427174 original size:8 final size:8
Alignment explanation
Indices: 76427161--76427188 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
76427151 TTATAAAGGT
76427161 TAATTAAG
1 TAATTAAG
76427169 TAATTAAG
1 TAATTAAG
76427177 TAATTAAG
1 TAATTAAG
76427185 TAAT
1 TAAT
76427189 GAAAAGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (8 bp):
TAATTAAG
Found at i:76431256 original size:18 final size:18
Alignment explanation
Indices: 76431233--76431269 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
76431223 GCATTTCCTT
76431233 AGTCATAATTTCACATTC
1 AGTCATAATTTCACATTC
76431251 AGTCATAATTTCACATTC
1 AGTCATAATTTCACATTC
76431269 A
1 A
76431270 ATTGCCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (18 bp):
AGTCATAATTTCACATTC
Found at i:76432177 original size:41 final size:41
Alignment explanation
Indices: 76432126--76432205 Score: 160
Period size: 41 Copynumber: 2.0 Consensus size: 41
76432116 GTCCCAGATG
76432126 TGGTCTTACACGAGAACACATATTAGAAATCCTATGTCACA
1 TGGTCTTACACGAGAACACATATTAGAAATCCTATGTCACA
76432167 TGGTCTTACACGAGAACACATATTAGAAATCCTATGTCA
1 TGGTCTTACACGAGAACACATATTAGAAATCCTATGTCA
76432206 TGACATATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (41 bp):
TGGTCTTACACGAGAACACATATTAGAAATCCTATGTCACA
Found at i:76438419 original size:40 final size:40
Alignment explanation
Indices: 76438364--76438443 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
76438354 TACGAAGTTA
*
76438364 GTTGTGTAGTTAATTAGATTTTGGTTAAGTGAAATTGCAT
1 GTTGTGTAGTTAATTAGATTTCGGTTAAGTGAAATTGCAT
76438404 GTTGTGTAGTTAATTAGATTTCGGTTAAGTGAAATTGCAT
1 GTTGTGTAGTTAATTAGATTTCGGTTAAGTGAAATTGCAT
76438444 AAATTAAGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.28, C:0.04, G:0.25, T:0.44
Consensus pattern (40 bp):
GTTGTGTAGTTAATTAGATTTCGGTTAAGTGAAATTGCAT
Found at i:76443142 original size:18 final size:18
Alignment explanation
Indices: 76443119--76443160 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
76443109 TTTTTTATTA
* *
76443119 TCAAAAACCGATTATTTT
1 TCAAAAACAGAATATTTT
*
76443137 TCAAAAATAGAATATTTT
1 TCAAAAACAGAATATTTT
76443155 TCAAAA
1 TCAAAA
76443161 TTTAGATCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (18 bp):
TCAAAAACAGAATATTTT
Found at i:76444199 original size:28 final size:28
Alignment explanation
Indices: 76444137--76444209 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
76444127 TCAACATGTA
* * **
76444137 ATGCATGTTATATTTGATTTAGTGCTTT
1 ATGCATGTTATATTTGACTCAGCACTTT
*
76444165 GTGCATGTTATATTTGACTCAGCACTTT
1 ATGCATGTTATATTTGACTCAGCACTTT
* * *
76444193 ATTCATGGTATACTTGA
1 ATGCATGTTATATTTGA
76444210 TTAAGCTTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (28 bp):
ATGCATGTTATATTTGACTCAGCACTTT
Found at i:76445618 original size:13 final size:13
Alignment explanation
Indices: 76445602--76445644 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
76445592 AAAGAAAGAA
76445602 CTTGAAGAGATAT
1 CTTGAAGAGATAT
76445615 CTTG-A-AGA-A-
1 CTTGAAGAGATAT
76445624 CTTGAAGAGATAT
1 CTTGAAGAGATAT
76445637 CTTGAAGA
1 CTTGAAGA
76445645 TAGAAACCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
9 4 0.15
10 2 0.08
11 6 0.23
12 2 0.08
13 12 0.46
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (13 bp):
CTTGAAGAGATAT
Found at i:76445625 original size:22 final size:22
Alignment explanation
Indices: 76445597--76445644 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
76445587 TACATAAAGA
76445597 AAGAACTTGAAGAGATATCTTG
1 AAGAACTTGAAGAGATATCTTG
76445619 AAGAACTTGAAGAGATATCTTG
1 AAGAACTTGAAGAGATATCTTG
76445641 AAGA
1 AAGA
76445645 TAGAAACCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.25
Consensus pattern (22 bp):
AAGAACTTGAAGAGATATCTTG
Found at i:76448600 original size:27 final size:27
Alignment explanation
Indices: 76448562--76448615 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
76448552 ACACGCACAC
*
76448562 ACAATACAACACTAAATTAAAACCATA
1 ACAATACAACACTAAATTAAAAACATA
*
76448589 ACAATACAACACTACATTAAAAACATA
1 ACAATACAACACTAAATTAAAAACATA
76448616 GTTAATGTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.19
Consensus pattern (27 bp):
ACAATACAACACTAAATTAAAAACATA
Found at i:76453984 original size:23 final size:23
Alignment explanation
Indices: 76453940--76453987 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
76453930 AATTTTTTAT
* * *
76453940 ATTTTTCAAGTTTAGATATCAAA
1 ATTTGTCAAGTTCAAATATCAAA
*
76453963 ATTTGTCAAGTTCAAATGTCAAA
1 ATTTGTCAAGTTCAAATATCAAA
76453986 AT
1 AT
76453988 GAACAATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (23 bp):
ATTTGTCAAGTTCAAATATCAAA
Found at i:76455354 original size:28 final size:28
Alignment explanation
Indices: 76455314--76455371 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
76455304 AGATAGTTTG
76455314 TATTAGTAGATGAACCTAAACATGTCCT
1 TATTAGTAGATGAACCTAAACATGTCCT
76455342 TATTAGTAGATGAACCTAAACATGTCCT
1 TATTAGTAGATGAACCTAAACATGTCCT
76455370 TA
1 TA
76455372 GTCTAATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (28 bp):
TATTAGTAGATGAACCTAAACATGTCCT
Found at i:76456525 original size:26 final size:26
Alignment explanation
Indices: 76456489--76456549 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
76456479 ATATATTTTC
76456489 TCAAAATTTTACCAGGGGTAAAATCG
1 TCAAAATTTTACCAGGGGTAAAATCG
* * *
76456515 TCAAACTTTTACTAGGGGTAAAATTG
1 TCAAAATTTTACCAGGGGTAAAATCG
76456541 TCAAAATTT
1 TCAAAATTT
76456550 GTTAGGGGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACCAGGGGTAAAATCG
Found at i:76456561 original size:25 final size:25
Alignment explanation
Indices: 76456489--76456563 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 25
76456479 ATATATTTTC
*
76456489 TCAAAATTTTACCAGGGGTAAAATCG
1 TCAAAATTTTA-TAGGGGTAAAATCG
* *
76456515 TCAAACTTTTACTAGGGGTAAAATTG
1 TCAAAATTTTA-TAGGGGTAAAATCG
76456541 TCAAAATTTGT-TAGGGGTAAAAT
1 TCAAAATTT-TATAGGGGTAAAAT
76456564 AAGGATGAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 12 0.27
26 31 0.70
27 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTATAGGGGTAAAATCG
Found at i:76463105 original size:16 final size:16
Alignment explanation
Indices: 76463084--76463141 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
76463074 GTAATAGATG
76463084 TAATTTTATCATATAT
1 TAATTTTATCATATAT
*
76463100 TAATTTTTGAGATCA-AAAT
1 TAA-TTTT---ATCATATAT
76463119 GTAATTTTATCATATAT
1 -TAATTTTATCATATAT
76463136 TAATTT
1 TAATTT
76463142 ATAATTCCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 13 0.38
17 7 0.21
19 7 0.21
20 7 0.21
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (16 bp):
TAATTTTATCATATAT
Found at i:76463649 original size:22 final size:24
Alignment explanation
Indices: 76463624--76463686 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 24
76463614 AATAATTTTA
76463624 TATTAAAATTATTA-TAA-AATAT
1 TATTAAAATTATTATTAACAATAT
*
76463646 TATTAATAATTA-TATTAACAATGT
1 TATTAA-AATTATTATTAACAATAT
76463670 TATT-AAATTATATATTA
1 TATTAAAATTAT-TATTA
76463687 TTTTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
22 13 0.37
23 9 0.26
24 13 0.37
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
TATTAAAATTATTATTAACAATAT
Found at i:76463800 original size:25 final size:26
Alignment explanation
Indices: 76463750--76463800 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
76463740 ATTTTTATTT
*
76463750 TTATTAAAATATATTTAACAACAATC
1 TTATTAAAATATATATAACAACAATC
* *
76463776 TTATTAAAATTTA-ATAACAATAATC
1 TTATTAAAATATATATAACAACAATC
76463801 ATTTACCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (26 bp):
TTATTAAAATATATATAACAACAATC
Found at i:76463921 original size:44 final size:46
Alignment explanation
Indices: 76463870--76463961 Score: 134
Period size: 44 Copynumber: 2.0 Consensus size: 46
76463860 TATTACAACA
76463870 TCTATTCCATTCAACCAAACACAAGAATT-CT-ATTACAGCTCTAT
1 TCTATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTAT
* ***
76463914 TCTATTCCATTCAACTAAACAGTTGAATTACTGATTACAGCTCTAT
1 TCTATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTAT
76463960 TC
1 TC
76463962 CATTATAGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 25 0.60
45 2 0.05
46 15 0.36
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.35
Consensus pattern (46 bp):
TCTATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTAT
Found at i:76464097 original size:20 final size:20
Alignment explanation
Indices: 76464054--76464104 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
76464044 GGGAGATTTG
* *
76464054 GGGAAAGTAAAATTTGTTAG
1 GGGAAAGTAAAATTTGTGAA
76464074 GGGAAAGTAAAAGTTT-TGAA
1 GGGAAAGTAAAA-TTTGTGAA
*
76464094 GGGAAAATAAA
1 GGGAAAGTAAA
76464105 GGGAAAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 24 0.89
21 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (20 bp):
GGGAAAGTAAAATTTGTGAA
Found at i:76465869 original size:99 final size:99
Alignment explanation
Indices: 76465730--76465937 Score: 371
Period size: 99 Copynumber: 2.1 Consensus size: 99
76465720 GCCTCCCAGG
* *
76465730 AACCCTAAACCCTCGACCGAACAGGAGTCGATAGCCCAAGAACAATCCGAACCCATAACAGCCAA
1 AACCCTAACCCCTCGACCGAACACGAGTCGATAGCCCAAGAACAATCCGAACCCATAACAGCCAA
76465795 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
66 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
* **
76465829 AACCCTAACCCCTCGACCGAACCCGAGTCGATAGCCCAAGAGGAATCCGAACCCATAACAGCCAA
1 AACCCTAACCCCTCGACCGAACACGAGTCGATAGCCCAAGAACAATCCGAACCCATAACAGCCAA
76465894 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
66 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
76465928 AACCCTAACC
1 AACCCTAACC
76465938 TGCAAAATCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 104 1.00
ACGTcount: A:0.32, C:0.40, G:0.15, T:0.13
Consensus pattern (99 bp):
AACCCTAACCCCTCGACCGAACACGAGTCGATAGCCCAAGAACAATCCGAACCCATAACAGCCAA
AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
Found at i:76465980 original size:99 final size:98
Alignment explanation
Indices: 76465773--76465980 Score: 226
Period size: 99 Copynumber: 2.1 Consensus size: 98
76465763 GCCCAAGAAC
*
76465773 AATCCGAACCCATAACAGCCAAAACCACGATGGGTCCTCCGCCACCTCTTCCCATAAACCCTAAC
1 AATCAGAACCCATAACAGCCAAAACCACGATGGGTCCTCCGCCACCTCTTCCCATAAACCCTAA-
** * *** * **
76465838 CCCTCGACCGAACCCGAGTCGATAGCCCAAGAGG
65 CCCTCGACAAAACCCGAGACGATAGAAAAACACA
*
76465872 AATCCGAACCCATAACAGCCAAAACCACGATGGGTCCTCCGCCACCTCTTCCCATAAACCCTAA-
1 AATCAGAACCCATAACAGCCAAAACCACGATGGGTCCTCCGCCACCTCTTCCCATAAACCCTAAC
*
76465936 CCT-G-CAAAATCCCCTAGACGA-AGAAAAACCATCA
66 CCTCGACAAAA--CCCGAGACGATAGAAAAA-CA-CA
76465970 AAGTCAGAACC
1 AA-TCAGAACC
76465981 AAATTCAACT
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
95 3 0.03
96 5 0.05
97 12 0.13
98 2 0.02
99 71 0.76
ACGTcount: A:0.34, C:0.38, G:0.14, T:0.13
Consensus pattern (98 bp):
AATCAGAACCCATAACAGCCAAAACCACGATGGGTCCTCCGCCACCTCTTCCCATAAACCCTAAC
CCTCGACAAAACCCGAGACGATAGAAAAACACA
Found at i:76475785 original size:37 final size:37
Alignment explanation
Indices: 76475728--76475879 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
76475718 TATGATCACT
*
76475728 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
76475763 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
76475800 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
76475845 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
76475880 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:76475915 original size:52 final size:52
Alignment explanation
Indices: 76475839--76476306 Score: 630
Period size: 52 Copynumber: 9.3 Consensus size: 52
76475829 TAGCTAAAGC
* * *
76475839 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
*
76475892 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
76475944 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
76475996 TATCAC---T---TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
76476042 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
76476094 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
76476146 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGGAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
76476192 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* ** *
76476238 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
76476290 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
76476307 ATCAGAAGTA
Statistics
Matches: 373, Mismatches: 26, Indels: 32
0.87 0.06 0.07
Matches are distributed among these distances:
46 124 0.33
47 2 0.01
48 2 0.01
49 1 0.00
52 226 0.61
53 18 0.05
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:76476006 original size:150 final size:150
Alignment explanation
Indices: 76475807--76476312 Score: 871
Period size: 150 Copynumber: 3.4 Consensus size: 150
76475797 ACTTATCACT
* *
76475807 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
*
76475872 GTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGC
66 GTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
76475937 TATCACTTATCACTTTCCAC
131 TATCACTTATCACTTTCCAC
* *
76475957 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
76476022 GTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
66 GTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
76476087 TATCACTTATCACTTTCCAC
131 TATCACTTATCACTTTCCAC
*
76476107 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
* *
76476172 GTATAGCCGGAGCTATCACTTATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGC
66 GTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
76476231 TATTACTTATCACTTTCCAC
131 TATCACTTATCACTTTCCAC
* *
76476251 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
76476313 AGTACTCAAA
Statistics
Matches: 346, Mismatches: 10, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
144 106 0.31
148 1 0.00
149 3 0.01
150 236 0.68
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (150 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
GTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
TATCACTTATCACTTTCCAC
Found at i:76476007 original size:98 final size:97
Alignment explanation
Indices: 76475796--76476312 Score: 667
Period size: 98 Copynumber: 5.3 Consensus size: 97
76475786 TAAGTGTAGC
* *
76475796 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--T---TTG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCACTTG
* *
76475856 TCTCTTGATCAGATAAGTATAGCCGAAGCTAT
66 TCACTTGATCAGATAAGTGTAGCCGAAGCTAT
76475888 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT
*
76475953 CCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
60 -CACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * *
76475992 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC-TTTCACTT
76476057 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
65 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
76476090 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC--T
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT
* *
76476153 ---TTGTCACTTGATCAGATAAGTATAGCCGGAGCTAT
60 CACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * * *
76476188 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT-CACTT
** *
76476253 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
65 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
76476286 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
76476313 AGTACTCAAA
Statistics
Matches: 377, Mismatches: 23, Indels: 44
0.85 0.05 0.10
Matches are distributed among these distances:
92 51 0.14
94 1 0.00
95 1 0.00
96 1 0.00
98 232 0.62
99 3 0.01
100 2 0.01
101 2 0.01
104 84 0.22
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (97 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCACTTG
TCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:76476190 original size:39 final size:41
Alignment explanation
Indices: 76476110--76476245 Score: 116
Period size: 46 Copynumber: 3.1 Consensus size: 41
76476100 TTTCCACTTG
* * *
76476110 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTG
1 TCACTTGATCAGATAAGTATAGCCGAAG-----ACTTATCACTTTA
*
76476156 TCACTTGATCAGATAAGTATAGCCGGAGCTATCACTTATCACTTTA
1 TCACTTGATCAGATAAGTATAGCC-GA---A-GACTTATCACTTTA
*
76476202 TCACTTGATCAGATAAGTATAGCCGAAG-C-TATTAC-TTA
1 TCACTTGATCAGATAAGTATAGCCGAAGACTTATCACTTTA
76476240 TCACTT
1 TCACTT
76476246 TCCACTTGTC
Statistics
Matches: 79, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
38 9 0.11
39 5 0.06
40 1 0.01
42 1 0.01
45 2 0.03
46 58 0.73
47 2 0.03
50 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (41 bp):
TCACTTGATCAGATAAGTATAGCCGAAGACTTATCACTTTA
Found at i:76483095 original size:2 final size:2
Alignment explanation
Indices: 76483088--76483113 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
76483078 AACTTTACAA
76483088 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
76483114 TAGCCATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76489918 original size:16 final size:16
Alignment explanation
Indices: 76489897--76489948 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
76489887 TTTGGTTCGC
76489897 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
76489913 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
76489929 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
76489945 TGTA
1 TGTA
76489949 ATGAAAAAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:76489962 original size:16 final size:16
Alignment explanation
Indices: 76489928--76489966 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
76489918 TGGATTAGAG
* *
76489928 GTGTAATGGAATAGAT
1 GTGTAATGAAAAAGAT
*
76489944 GTGTAATGAAAAAGCT
1 GTGTAATGAAAAAGAT
76489960 GTGTAAT
1 GTGTAAT
76489967 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (16 bp):
GTGTAATGAAAAAGAT
Found at i:76490220 original size:18 final size:17
Alignment explanation
Indices: 76490199--76490233 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
76490189 TTATTATTAA
*
76490199 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
76490217 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
76490234 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:76494868 original size:35 final size:37
Alignment explanation
Indices: 76494802--76494873 Score: 103
Period size: 35 Copynumber: 2.0 Consensus size: 37
76494792 CATGTGGAGC
* * *
76494802 TAGGTGTTGGTCTTTTTTGATGACTTGTGTTTGTTTT
1 TAGGTGTTGGTCTTTTCTGATAACTTGTGTTTATTTT
76494839 TAGGTGTTGG-CTTTTCT-ATAACTTGTGTTTATTTT
1 TAGGTGTTGGTCTTTTCTGATAACTTGTGTTTATTTT
76494874 ATTTTATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 16 0.50
36 6 0.19
37 10 0.31
ACGTcount: A:0.11, C:0.07, G:0.24, T:0.58
Consensus pattern (37 bp):
TAGGTGTTGGTCTTTTCTGATAACTTGTGTTTATTTT
Found at i:76497863 original size:73 final size:73
Alignment explanation
Indices: 76497711--76497864 Score: 211
Period size: 73 Copynumber: 2.1 Consensus size: 73
76497701 CTACCAGGAT
* * * * *
76497711 GGTAAACAAGGGGTTATATGGTGTAAGACCATAGCTGAGATATGTTATGACATCATAGTTAATCC
1 GGTAAACAAGGGGTTATATAGTGTAAGACCATAGCTAAAAGATATTATGACATCATAGTTAATCC
*
76497776 ATTGTGAC
66 ATTGGGAC
* *
76497784 GGTAAACATGGGGTTATATAGTGTAAGACCATAGCTAAAAGATATTATGACATCATAGTTATTCC
1 GGTAAACAAGGGGTTATATAGTGTAAGACCATAGCTAAAAGATATTATGACATCATAGTTAATCC
76497849 GA-TGGGAC
66 -ATTGGGAC
*
76497857 GTTAAACA
1 GGTAAACA
76497865 CGAGGTAGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
73 70 0.99
74 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.29
Consensus pattern (73 bp):
GGTAAACAAGGGGTTATATAGTGTAAGACCATAGCTAAAAGATATTATGACATCATAGTTAATCC
ATTGGGAC
Found at i:76497890 original size:27 final size:27
Alignment explanation
Indices: 76497852--76497918 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
76497842 TTATTCCGAT
* * *
76497852 GGGACGTTAAACACGAGGTAG-CTCAAG
1 GGGACATTAAACACGAGATAGTCT-AAC
*
76497879 GGGACATTAAACATGAGATAGTCTAAC
1 GGGACATTAAACACGAGATAGTCTAAC
*
76497906 GGGACACTAAACA
1 GGGACATTAAACA
76497919 TGGGGTAGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 32 0.94
28 2 0.06
ACGTcount: A:0.39, C:0.18, G:0.27, T:0.16
Consensus pattern (27 bp):
GGGACATTAAACACGAGATAGTCTAAC
Found at i:76500384 original size:39 final size:39
Alignment explanation
Indices: 76500341--76500428 Score: 158
Period size: 39 Copynumber: 2.3 Consensus size: 39
76500331 ACCGGCAATT
76500341 AGCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGA
1 AGCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGA
*
76500380 AGCCTGCTAGGTATAAACCTGAATTTATCACCGGCACGA
1 AGCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGA
*
76500419 GGCCTGCTAG
1 AGCCTGCTAG
76500429 ACATTAAGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (39 bp):
AGCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGA
Found at i:76504245 original size:26 final size:27
Alignment explanation
Indices: 76504215--76504266 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
76504205 ATATTTTTTT
*
76504215 TATTTCCCA-AAATAAACTTCTCAATG
1 TATTTCCAATAAATAAACTTCTCAATG
*
76504241 TATTTCCAATTAAATAATCTTCTCAA
1 TATTTCCAA-TAAATAAACTTCTCAA
76504267 CTTAATTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
28 14 0.64
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.38
Consensus pattern (27 bp):
TATTTCCAATAAATAAACTTCTCAATG
Found at i:76504279 original size:28 final size:28
Alignment explanation
Indices: 76504224--76504279 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
76504214 TTATTTCCCA
*
76504224 AAATAAACTTCTCAATGTATTTCCAATT
1 AAATAAACTTCTCAATGTAATTCCAATT
* *
76504252 AAATAATCTTCTCAACT-TAATTCTAATT
1 AAATAAACTTCTCAA-TGTAATTCCAATT
76504280 TTGTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (28 bp):
AAATAAACTTCTCAATGTAATTCCAATT
Found at i:76504526 original size:57 final size:57
Alignment explanation
Indices: 76504426--76504602 Score: 239
Period size: 57 Copynumber: 3.1 Consensus size: 57
76504416 TTTTTTAGGT
* * *
76504426 CATTTTCATTTTCGTTTTGGAGAAAACCAC-ATCCATTTTCAAATGTTTCTATTTCTC
1 CATTATCATTTTCATTTTGGAGAAAACCACAAT-CATTTCCAAATGTTTCTATTTCTC
* * *
76504483 TATTATCATTTTCATTTTGGAGAAAACCACAATCGTTTCCAAATGATTCTATTTCTC
1 CATTATCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGTTTCTATTTCTC
* * *
76504540 CATTTTCATTTTCATTTTGGACAAAACCACAATTATTTCCAAATGATTTCTCATTTCTC
1 CATTATCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATG-TTTCT-ATTTCTC
76504599 CATT
1 CATT
76504603 TTTACCATAT
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
57 88 0.84
58 6 0.06
59 11 0.10
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (57 bp):
CATTATCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGTTTCTATTTCTC
Found at i:76506007 original size:18 final size:18
Alignment explanation
Indices: 76505986--76506023 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
76505976 CAAAATTTAC
76505986 ATTTGCATT-TGTATCTGA
1 ATTTG-ATTATGTATCTGA
*
76506004 ATTTGATTATGTGTCTGA
1 ATTTGATTATGTATCTGA
76506022 AT
1 AT
76506024 CTAAATATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (18 bp):
ATTTGATTATGTATCTGA
Found at i:76508001 original size:18 final size:19
Alignment explanation
Indices: 76507980--76508023 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
76507970 CTAATTTAAT
*
76507980 TAAAAAA-TTATATTTTTA
1 TAAAAAAGTTATATTATTA
76507998 TAAAATAAGTTATATTATTA
1 TAAAA-AAGTTATATTATTA
76508018 TAAAAA
1 TAAAAA
76508024 TAATTTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 5 0.22
19 3 0.13
20 15 0.65
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TAAAAAAGTTATATTATTA
Found at i:76522940 original size:20 final size:20
Alignment explanation
Indices: 76522917--76522961 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
76522907 TTTTTATTTT
76522917 ATATAACCATTTCCCATTAC
1 ATATAACCATTTCCCATTAC
* * * *
76522937 ATATATCCTTTTTCCATTTC
1 ATATAACCATTTCCCATTAC
76522957 ATATA
1 ATATA
76522962 TTCGTTTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATAACCATTTCCCATTAC
Found at i:76522962 original size:20 final size:20
Alignment explanation
Indices: 76522930--76522972 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
76522920 TAACCATTTC
*
76522930 CCATTACATATATCCTTTTT
1 CCATTACATATATCCGTTTT
* *
76522950 CCATTTCATATATTCGTTTT
1 CCATTACATATATCCGTTTT
76522970 CCA
1 CCA
76522973 CCAAATGAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.02, T:0.49
Consensus pattern (20 bp):
CCATTACATATATCCGTTTT
Found at i:76537934 original size:25 final size:27
Alignment explanation
Indices: 76537897--76537949 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
76537887 TCAAACATGC
76537897 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
76537923 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
76537949 A
1 A
76537950 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:76539463 original size:32 final size:32
Alignment explanation
Indices: 76539426--76539486 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
76539416 AATGCTTATC
76539426 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
76539458 ATGCCCATCATCCATTAACTATTAAAATG
1 ATGCCCATCATCCATTAACTATTAAAATG
76539487 TTAAAATGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:76545973 original size:25 final size:27
Alignment explanation
Indices: 76545936--76545988 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
76545926 TTAAACATGC
76545936 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
76545962 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
76545988 A
1 A
76545989 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:76547505 original size:32 final size:32
Alignment explanation
Indices: 76547468--76547532 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
76547458 AATGCTTATC
76547468 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
76547500 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
76547532 A
1 A
76547533 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:76571549 original size:28 final size:26
Alignment explanation
Indices: 76571486--76571558 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 26
76571476 ACTTTATTAG
76571486 TAATAA-ATTTTTAATTAAATATTTAA
1 TAATAATA-TTTTAATTAAATATTTAA
*
76571512 TAATAATATTTTAATTGATAATTTTTAA
1 TAATAATATTTTAATT-A-AATATTTAA
*
76571540 -AATTATTATTTTAATTAAA
1 TAA-TAATATTTTAATTAAA
76571559 AATAAAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 16 0.39
27 5 0.12
28 20 0.49
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (26 bp):
TAATAATATTTTAATTAAATATTTAA
Found at i:76575421 original size:46 final size:44
Alignment explanation
Indices: 76575362--76575476 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
76575352 ACAGGACAGA
* *
76575362 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
76575408 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
76575452 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
76575477 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:76575457 original size:44 final size:45
Alignment explanation
Indices: 76575362--76575495 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
76575352 ACAGGACAGA
* *
76575362 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
76575408 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
76575452 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
76575496 TAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:76580599 original size:23 final size:23
Alignment explanation
Indices: 76580571--76580617 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
76580561 TATTTATATC
76580571 ATATATTGATTAAATGAAATAAAAA
1 ATATA-TGATTAAAT-AAATAAAAA
*
76580596 ATATATTATTAAATAAATAAAA
1 ATATATGATTAAATAAATAAAA
76580618 TAATTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 8 0.38
25 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATATGATTAAATAAATAAAAA
Found at i:76590925 original size:47 final size:46
Alignment explanation
Indices: 76590722--76591080 Score: 213
Period size: 47 Copynumber: 7.7 Consensus size: 46
76590712 TTTGTGCGCC
* * * * *
76590722 AGTGTAAGACATGTCTGGGACATGCTTC-GC-CATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCACAGA-GATGAGTGCT
* * * * * *
76590767 AGAGTAAGACTATGTATGGGACATGGCATCAGCATC-CAGACGAGGGCT
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCA-CAGAGATGAGTGCT
* * * * * *
76590815 AATGTAAGACATGTTTGGGATATGCATCAGC-CATACTATGA-TAG-T
1 AGTGTAAGACATGTCTGGGACATGCATCGGCACAGA-GATGAGT-GCT
76590860 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCT
1 -AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGATGAGTGCT
*
76590909 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGAT-A--GCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG---C-ACAGAGATGAGTGCT
* * * * *
76590956 AGTGTAAAACGTGTCTGGGACACGTATCGGCTA-AGAG-T-TGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGATGAGTGCT
* * * *
76591000 AGTGTAAGACATGTCTGGGACATGCATCAGCAC-GCGTATAGGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCACAGAG-AT--GAGTGCT
*
76591048 AGTGTAAGACCATGTCTGGGACATGCATTGGCA
1 AGTGTAAGA-CATGTCTGGGACATGCATCGGCA
76591081 GTATATCACA
Statistics
Matches: 246, Mismatches: 41, Indels: 50
0.73 0.12 0.15
Matches are distributed among these distances:
42 1 0.00
43 7 0.03
44 31 0.13
45 12 0.05
46 39 0.16
47 69 0.28
48 49 0.20
49 29 0.12
50 9 0.04
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATGAGTGCT
Found at i:76590971 original size:94 final size:94
Alignment explanation
Indices: 76590722--76591080 Score: 319
Period size: 94 Copynumber: 3.9 Consensus size: 94
76590712 TTTGTGCGCC
* * * * * * *
76590722 AGTGTAAGACATGTCTGGGACATGCTTC-GCCAT--ATTATGAGAGCCAGAGTAAGACTATGTAT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC-TCGA-CAGGATAGCCAGTGTAAGACCATGTCT
* * * *
76590784 GGGACATGGCATCAGCATC-CAGACGAGGGCT
64 GGGACATGGCATCGGCA-CAGAGATGAGTGCT
* * * * *
76590815 AATGTAAGACATGTTTGGGATATGCATCAGCCAT--ACTATGATAGTCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC-TCGAC-AGGATAGCCAGTGTAAGACCATGTCT
76590878 GGGACATGGCATCGGCACAGAGATGAGTGCT
64 GGGACATGGCATCGGCACAGAGATGAGTGCT
* * *
76590909 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATAGCCAGTGTAA-AACGTGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGACAG-GATAGCCAGTGTAAGACCATGTCTG
* * *
76590973 GGACA-CGTATCGGCTA-AGAG-T-TGTGCT
65 GGACATGGCATCGGC-ACAGAGATGAGTGCT
* * *
76591000 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCGTATAGGAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-CTCG-ACAGGATAGCCAGTGTAAGACCATGTCT
*
76591065 GGGACAT-GCATTGGCA
64 GGGACATGGCATCGGCA
76591081 GTATATCACA
Statistics
Matches: 222, Mismatches: 33, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
91 35 0.16
92 18 0.08
93 59 0.27
94 95 0.43
95 15 0.07
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGACAGGATAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCACAGAGATGAGTGCT
Found at i:76594163 original size:14 final size:15
Alignment explanation
Indices: 76594146--76594176 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
76594136 TAACTGTTGA
76594146 AAAAT-TAAGTATTG
1 AAAATGTAAGTATTG
76594160 AAAATGTAAGTATTG
1 AAAATGTAAGTATTG
76594175 AA
1 AA
76594177 TTTAAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (15 bp):
AAAATGTAAGTATTG
Done.