Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 358 of 444
Found at i:103898769 original size:44 final size:42
Alignment explanation
Indices: 103898619--103898772 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 42
103898609 TCGTACAATA
* *
103898619 CCAATGTCCCAAACGTGGTCTTACATGT-AATCAAATATCGATG
1 CCAACGTCCCAGACGTGGTCTTACATGTAAATC-AA-ATCGATG
* *
103898662 CC-ACTATCCCAGACAG-GGTCTTACACG-AAATCAAATACGATG
1 CCAAC-GTCCCAGAC-GTGGTCTTACATGTAAATCAAAT-CGATG
* * *
103898704 CCAACGTCCCAGACATAGTCTTACATGTAAATCATAAGTCAATG
1 CCAACGTCCCAGACGTGGTCTTACATGTAAATCA-AA-TCGATG
*
103898748 CCAACGTCCTAGACGTGGTCTTACA
1 CCAACGTCCCAGACGTGGTCTTACA
103898773 CGAAAACACA
Statistics
Matches: 90, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
41 2 0.02
42 27 0.30
43 31 0.34
44 29 0.32
45 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (42 bp):
CCAACGTCCCAGACGTGGTCTTACATGTAAATCAAATCGATG
Found at i:103902745 original size:22 final size:22
Alignment explanation
Indices: 103902718--103902888 Score: 75
Period size: 22 Copynumber: 7.4 Consensus size: 22
103902708 CATGCATTTG
103902718 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * **
103902740 TGTGATGAATG-TGAACATGTACATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
103902765 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
103902787 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
103902810 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
***
103902834 TGTGATGAA-TATGAACAT-GCACATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
103902859 TGTGATAAGGTCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
103902881 TGTGATAA
1 TGTGATAA
103902889 ATGTGAACAT
Statistics
Matches: 110, Mismatches: 18, Indels: 42
0.65 0.11 0.25
Matches are distributed among these distances:
22 33 0.30
23 26 0.24
24 26 0.24
25 25 0.23
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:103902933 original size:22 final size:22
Alignment explanation
Indices: 103902905--103902980 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 22
103902895 ACATGCATAT
103902905 ATGTGATAAGGCAGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
103902927 ATGTGATAAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
103902951 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
103902974 ATGTGAT
1 ATGTGAT
103902981 GAACGTGGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 18
0.68 0.03 0.29
Matches are distributed among these distances:
22 15 0.35
23 10 0.23
24 10 0.23
25 8 0.19
ACGTcount: A:0.37, C:0.11, G:0.28, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:103903017 original size:47 final size:47
Alignment explanation
Indices: 103902645--103902983 Score: 507
Period size: 47 Copynumber: 7.2 Consensus size: 47
103902635 TTAGGATTTT
* ** * * * *
103902645 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
103902692 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
103902739 ATGTGATGAATGTGAACATGTACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
103902786 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
103902833 ATGTGATGAATATGAACATGCACATATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
103902880 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
103902927 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
103902974 ATGTGATGAA
1 ATGTGATGAA
103902984 CGTGGAAGTG
Statistics
Matches: 266, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 266 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:103903050 original size:46 final size:46
Alignment explanation
Indices: 103902997--103903087 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
103902987 GGAAGTGTAT
* * *
103902997 ATATGTGGGAAAGCCGAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
103903043 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
103903088 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:103911582 original size:25 final size:25
Alignment explanation
Indices: 103911554--103911601 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
103911544 TTAAAGTTTC
*
103911554 TGGTTTAGTCTCGAATTATCTCCGA
1 TGGTTTAGTCTCGAATCATCTCCGA
103911579 TGGTTTAGTCTCGAATCATCTCC
1 TGGTTTAGTCTCGAATCATCTCC
103911602 AATGCGTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.40
Consensus pattern (25 bp):
TGGTTTAGTCTCGAATCATCTCCGA
Found at i:103912231 original size:42 final size:42
Alignment explanation
Indices: 103912122--103912288 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 42
103912112 CGATATGTGT
* *
103912122 TTTCATGTAAGACCATGTCTGGGACATTGGCATTG-ACTTATGA
1 TTTCATGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGA
* *
103912165 TTTACGTGTAAGACCACGTTTGGGACATTGGCATCGTATTTGA
1 TTT-CATGTAAGACCACGTCTGGGACATTGGCATCGTATTTGA
* *
103912208 TTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGA
1 TTTCATGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGA
* * * *
103912251 TTACATGTAAAACCACGTCTGGGACGTTGGCATTGTAT
1 TTTCATGTAAGACCACGTCTGGGACATTGGCATCGTAT
103912289 GAGATTTTTG
Statistics
Matches: 107, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
41 1 0.01
42 31 0.29
43 43 0.40
44 31 0.29
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (42 bp):
TTTCATGTAAGACCACGTCTGGGACATTGGCATCGTATTTGA
Found at i:103914766 original size:125 final size:125
Alignment explanation
Indices: 103914539--103914790 Score: 450
Period size: 125 Copynumber: 2.0 Consensus size: 125
103914529 TTGAACAACC
103914539 AGATTAGTTCTAATGTACTGACTGAACCAATCATTCATCATTTGATAGAAGGCTTGTCTAGCCTC
1 AGATTAGTTCTAATGTACTGACTGAACCAATCATTCATCATTTGATAGAAGGCTTGTCTAGCCTC
* * *
103914604 TCCATCATGATTACTCGTAGTCGGTCTAGAATCAGATGGCACTGTCCCTCGCGCGGGAGT
66 TCCATCATGATTACTCGTAGCCGGTCTAGAATAAGATGGCACTATCCCTCGCGCGGGAGT
*
103914664 AGATTAGTTCTAATGTACTGACTGAACCAATCATTCATCATTTGATTGAAGGCTTGTCTAGCCTC
1 AGATTAGTTCTAATGTACTGACTGAACCAATCATTCATCATTTGATAGAAGGCTTGTCTAGCCTC
* *
103914729 TCCATCATGATTACTCGTAGCCGGTCTAGAATAAGATGGCGCTATCCCTCGCGTGGGAGT
66 TCCATCATGATTACTCGTAGCCGGTCTAGAATAAGATGGCACTATCCCTCGCGCGGGAGT
103914789 AG
1 AG
103914791 GTGCATTACT
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 121 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (125 bp):
AGATTAGTTCTAATGTACTGACTGAACCAATCATTCATCATTTGATAGAAGGCTTGTCTAGCCTC
TCCATCATGATTACTCGTAGCCGGTCTAGAATAAGATGGCACTATCCCTCGCGCGGGAGT
Found at i:103916177 original size:46 final size:46
Alignment explanation
Indices: 103916076--103916169 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 46
103916066 CGTAACCCGC
* *
103916076 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGCAA
* * *
103916122 TCATAAGTGAACTCGGACTCAACTCAACGGGTTC-GA-ATGCTCAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGCAA
103916166 CCAT
1 CCAT
103916170 CCTAGTGACA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 8 0.19
45 2 0.05
46 32 0.76
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGCAA
Found at i:103918575 original size:30 final size:30
Alignment explanation
Indices: 103918540--103918619 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
103918530 CAAGAAAACT
*
103918540 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
* *
103918570 GAATAAAGAAATCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
* *
103918600 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
103918620 CGATACTATG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 2 0.05
30 39 0.91
31 2 0.05
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Found at i:103918579 original size:15 final size:15
Alignment explanation
Indices: 103918540--103918610 Score: 90
Period size: 15 Copynumber: 4.7 Consensus size: 15
103918530 CAAGAAAACT
103918540 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
103918555 -AGATAGAGAAACCCA
1 GA-ATAAAGAAATCCA
103918570 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
103918585 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
103918600 GGATAAAGAAA
1 GAATAAAGAAA
103918611 CCCAAGATAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
14 1 0.02
15 45 0.96
16 1 0.02
ACGTcount: A:0.58, C:0.13, G:0.18, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:103918619 original size:15 final size:15
Alignment explanation
Indices: 103918542--103918619 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
103918532 AGAAAACTGA
103918542 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
103918557 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
103918571 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
103918586 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
103918602 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
103918617 ATA
1 ATA
103918620 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:103921637 original size:93 final size:93
Alignment explanation
Indices: 103921525--103921695 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
103921515 GCCCATAAGT
* *
103921525 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
103921590 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
103921618 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
103921683 CGAGTTCGGATGC
66 CGAGCTCGGATGC
103921696 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:103921692 original size:46 final size:46
Alignment explanation
Indices: 103921517--103921692 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
103921507 TGTAACCCGC
* *
103921517 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
103921563 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
103921613 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
103921656 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
103921693 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 65 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:103929291 original size:23 final size:24
Alignment explanation
Indices: 103929239--103929291 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
103929229 AGCTTTATAA
* *
103929239 GGGAAGCTCACATAGAGCCATTTC
1 GGGAAGCTCACAAAGAGCCATATC
*
103929263 GGGAAGCTCATAAAGAGCC-TATC
1 GGGAAGCTCACAAAGAGCCATATC
103929286 GGGAAG
1 GGGAAG
103929292 TTTATCCGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.32, C:0.21, G:0.30, T:0.17
Consensus pattern (24 bp):
GGGAAGCTCACAAAGAGCCATATC
Found at i:103929475 original size:25 final size:27
Alignment explanation
Indices: 103929403--103929468 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
103929393 TGCGAGCATT
*
103929403 ATCGGGAAGCTCAGAAAGAGCCAATTTA
1 ATCGGGAAGCTCACAAAGAGCC-ATTTA
103929431 AT-GGGAAGCTCACAAAGAGCC-TTTA
1 ATCGGGAAGCTCACAAAGAGCCATTTA
*
103929456 ATCGGGATGCTCA
1 ATCGGGAAGCTCA
103929469 TAAGAGCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 6 0.17
26 9 0.26
27 18 0.51
28 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
ATCGGGAAGCTCACAAAGAGCCATTTA
Found at i:103933242 original size:32 final size:32
Alignment explanation
Indices: 103933203--103933281 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 32
103933193 ATAGTATCAA
* * *
103933203 TTGGGCCTAGCCCATCTCAGAATCAATACCAG
1 TTGGGCCTAGCCCATATCAGAACCAAGACCAG
* **
103933235 TTTGGCCTAGCCCATATCAGAACCAAGATTAG
1 TTGGGCCTAGCCCATATCAGAACCAAGACCAG
103933267 TTGGGCCTAGCCCAT
1 TTGGGCCTAGCCCAT
103933282 TTCAATTTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (32 bp):
TTGGGCCTAGCCCATATCAGAACCAAGACCAG
Found at i:103946930 original size:93 final size:93
Alignment explanation
Indices: 103946771--103946941 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
103946761 GCCCCTAAGT
* * *
103946771 GAACTTGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACACAA
*
103946836 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
103946864 GAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACACA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAATGAACTCGGACTCAACACA
103946928 ACGAGCTCGGATGC
65 ACGAGCTCGGATGC
103946942 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACACAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:103946938 original size:46 final size:46
Alignment explanation
Indices: 103946766--103946938 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
103946756 AACCCGCCCC
* * *
103946766 TAAGTGAACTTGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTTGCATCCA
* * * *
103946812 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATCCA
* * *
103946860 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
*
103946905 TAAGTGAACTCGGACTCAACACAACGAGCTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
103946939 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 55 0.53
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
Found at i:103955218 original size:27 final size:27
Alignment explanation
Indices: 103955186--103955328 Score: 128
Period size: 27 Copynumber: 5.3 Consensus size: 27
103955176 CAAAACAATC
* * * *
103955186 ATTTTACCCTACAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATTTCGGTA
103955213 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
* *
103955240 ATTTTATACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGGTA
* *** *
103955267 ATTTTACA-AATTGGGGGTGTTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * *
103955294 ATTTTACA-AATCAAAGGTTTTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
103955321 ATTTTACA
1 ATTTTACA
103955329 AATTGAGGGT
Statistics
Matches: 97, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 96 0.99
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:103955321 original size:81 final size:81
Alignment explanation
Indices: 103955253--103955743 Score: 345
Period size: 81 Copynumber: 6.2 Consensus size: 81
103955243 TTATACTACA
* * *
103955253 AGGGTATTTCGATAATTTTACAAATTGGGGGTGTTTCGGTAATTTTACAAATCAAAGGT-TTTTC
1 AGGGTATTTCGGTAATTTTACAAATTGAGGGTGTTTCGATAATTTTACAAATCAAAGGTATTTT-
*
103955317 GGTAATTTTACAAATTG
65 GGTAATTTTACAAATCG
* * * * *
103955334 AGGGTGCTTT-GGTAATTTTACAAATTGAGGGTGTTTTGATAATTTTACAAATCGAGGGTGTTTT
1 AGGGT-ATTTCGGTAATTTTACAAATTGAGGGTGTTTCGATAATTTTACAAATCAAAGGTATTTT
*
103955398 GATAATTTTACAAATCG
65 GGTAATTTTACAAATCG
* * * * * * *
103955415 AGTGTGTTTAGGTAATTTCAAAAATT-AGGGGTATTTCGATAATTTTACAAATCGATA-GTATTT
1 AGGGTATTTCGGTAATTTTACAAATTGA-GGGTGTTTCGATAATTTTACAAATC-AAAGGTATTT
* *
103955478 TAGTAATTTCAC-AATCG
64 TGGTAATTTTACAAATCG
* * * * *
103955495 AGGGTATTTCGGTAATTTTATAAATTGAGGGTGTTTC----ATTGT-GAAATC-GAGAGTATTTC
1 AGGGTATTTCGGTAATTTTACAAATTGAGGGTGTTTCGATAATTTTACAAATCAAAG-GTATTTT
*
103955554 GATAATTTTACAAATCG
65 GGTAATTTTACAAATCG
* * * * * * * * * * *
103955571 AGGGTGTTTC----AGTGT-GAAATCGATGGTATTTCTATAATTTTATAAATCGAGGGTATTTTG
1 AGGGTATTTCGGTAATTTTACAAATTGAGGGTGTTTCGATAATTTTACAAATCAAAGGTATTTTG
103955631 GTAATTTTACAAATCG
66 GTAATTTTACAAATCG
* * * * * * *** *
103955647 AGGGTATTTCAGTAATTTCAC-AATCGAGAGTATTTTGATAAATTTT-CAAATCGGGGGTATTTC
1 AGGGTATTTCGGTAATTTTACAAATTGAGGGTGTTTCGAT-AATTTTACAAATCAAAGGTATTTT
* *
103955710 GATAATTTCACAAATCG
65 GGTAATTTTACAAATCG
**
103955727 -GGGTATTTTAGTAATTT
1 AGGGTATTTCGGTAATTT
103955744 CTCTTTATTA
Statistics
Matches: 326, Mismatches: 63, Indels: 44
0.75 0.15 0.10
Matches are distributed among these distances:
71 13 0.04
72 3 0.01
73 1 0.00
75 23 0.07
76 54 0.17
77 1 0.00
79 16 0.05
80 83 0.25
81 125 0.38
82 7 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGTATTTCGGTAATTTTACAAATTGAGGGTGTTTCGATAATTTTACAAATCAAAGGTATTTTG
GTAATTTTACAAATCG
Found at i:103955329 original size:27 final size:27
Alignment explanation
Indices: 103955226--103955743 Score: 281
Period size: 27 Copynumber: 19.7 Consensus size: 27
103955216 TTACACTACA
* * * *
103955226 AGGGTATTTCGGTAATTTTA-TACTACA
1 AGGGTTTTTCGGTAATTTTACAAAT-CG
* * *
103955253 AGGGTATTTCGATAATTTTACAAATTG
1 AGGGTTTTTCGGTAATTTTACAAATCG
* * *
103955280 GGGGTGTTTCGGTAATTTTACAAATCA
1 AGGGTTTTTCGGTAATTTTACAAATCG
* *
103955307 AAGGTTTTTCGGTAATTTTACAAATTG
1 AGGGTTTTTCGGTAATTTTACAAATCG
* *
103955334 AGGGTGCTTT-GGTAATTTTACAAATTG
1 AGGGT-TTTTCGGTAATTTTACAAATCG
*
103955361 AGGGTGTTTT-GATAATTTTACAAATCG
1 AGGGT-TTTTCGGTAATTTTACAAATCG
*
103955388 AGGGTGTTTT-GATAATTTTACAAATCG
1 AGGGT-TTTTCGGTAATTTTACAAATCG
* * * * * *
103955415 AGTGTGTTTAGGTAATTTCAAAAAT-T
1 AGGGTTTTTCGGTAATTTTACAAATCG
* *
103955441 AGGGGTATTTCGATAATTTTACAAATCG
1 A-GGGTTTTTCGGTAATTTTACAAATCG
** * *
103955469 ATAGTATTTT-AGTAATTTCAC-AATCG
1 AGGGT-TTTTCGGTAATTTTACAAATCG
* * *
103955495 AGGGTATTTCGGTAATTTTATAAATTG
1 AGGGTTTTTCGGTAATTTTACAAATCG
* * *
103955522 AGGGTGTTTC----ATTGT-GAAATCG
1 AGGGTTTTTCGGTAATTTTACAAATCG
* * *
103955544 AGAGTATTTCGATAATTTTACAAATCG
1 AGGGTTTTTCGGTAATTTTACAAATCG
* * * *
103955571 AGGGTGTTTC----AGTGT-GAAATCG
1 AGGGTTTTTCGGTAATTTTACAAATCG
* * ** *
103955593 ATGGTATTTCTATAATTTTATAAATCG
1 AGGGTTTTTCGGTAATTTTACAAATCG
103955620 AGGGTATTTT-GGTAATTTTACAAATCG
1 AGGGT-TTTTCGGTAATTTTACAAATCG
* * *
103955647 AGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTTTTTCGGTAATTTTACAAATCG
* *
103955673 AGAGTATTTT-GATAAATTTT-CAAATCG
1 AGGGT-TTTTCGGT-AATTTTACAAATCG
* * * *
103955700 GGGGTATTTCGATAATTTCACAAATCG
1 AGGGTTTTTCGGTAATTTTACAAATCG
*
103955727 -GGGTATTTT-AGTAATTT
1 AGGGT-TTTTCGGTAATTT
103955744 CTCTTTATTA
Statistics
Matches: 381, Mismatches: 84, Indels: 53
0.74 0.16 0.10
Matches are distributed among these distances:
22 27 0.07
23 7 0.02
25 3 0.01
26 59 0.15
27 273 0.72
28 12 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTTTTTCGGTAATTTTACAAATCG
Found at i:103955560 original size:49 final size:48
Alignment explanation
Indices: 103955490--103955624 Score: 198
Period size: 49 Copynumber: 2.8 Consensus size: 48
103955480 GTAATTTCAC
* * *
103955490 AATCGAGGGTATTTCGGTAATTTTATAAATTGAGGGTGTTTCATTGTGA
1 AATCGA-GGTATTTCGATAATTTTATAAATCGAGGGTGTTTCAGTGTGA
*
103955539 AATCGAGAGTATTTCGATAATTTTACAAATCGAGGGTGTTTCAGTGTGA
1 AATCGAG-GTATTTCGATAATTTTATAAATCGAGGGTGTTTCAGTGTGA
*
103955588 AATCGATGGTATTTCTATAATTTTATAAATCGAGGGT
1 AATCGA-GGTATTTCGATAATTTTATAAATCGAGGGT
103955625 ATTTTGGTAA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
48 1 0.01
49 76 0.97
50 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.39
Consensus pattern (48 bp):
AATCGAGGTATTTCGATAATTTTATAAATCGAGGGTGTTTCAGTGTGA
Found at i:103958839 original size:16 final size:16
Alignment explanation
Indices: 103958814--103958872 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
103958804 GTAGATCGGC
*
103958814 AAAAGTCGAAATGCCA
1 AAAAGTCGAAATACCA
*
103958830 AAAAGCCGAAATACCA
1 AAAAGTCGAAATACCA
*
103958846 AAAAGTCGAAATACCG
1 AAAAGTCGAAATACCA
*
103958862 AAATGTCGAAA
1 AAAAGTCGAAA
103958873 GTTTGACTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.53, C:0.19, G:0.17, T:0.12
Consensus pattern (16 bp):
AAAAGTCGAAATACCA
Found at i:103967333 original size:17 final size:19
Alignment explanation
Indices: 103967311--103967356 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
103967301 ACATACATAC
103967311 AATAAT-ATTTT-TCTAAT
1 AATAATAATTTTATCTAAT
*
103967328 AATAATAATTTTATCTCAT
1 AATAATAATTTTATCTAAT
*
103967347 AATACTAATT
1 AATAATAATT
103967357 AAAATTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 14 0.56
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAATAATTTTATCTAAT
Found at i:103973541 original size:50 final size:50
Alignment explanation
Indices: 103973477--103973576 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
103973467 ATAAAGAAAA
*
103973477 AACTACATTCACCTACCCTTATGGAACATTTGCTTTTAGAAGAATGCCAT
1 AACTACATTCACCTACCCTTATGGAACATTTGCTTTCAGAAGAATGCCAT
*
103973527 AACTACATTCACCTATCCTTATGGAACATTTGCTTTCAGAAGAATGCCAT
1 AACTACATTCACCTACCCTTATGGAACATTTGCTTTCAGAAGAATGCCAT
103973577 TTGGGTTATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (50 bp):
AACTACATTCACCTACCCTTATGGAACATTTGCTTTCAGAAGAATGCCAT
Found at i:103975575 original size:30 final size:30
Alignment explanation
Indices: 103975539--103975736 Score: 154
Period size: 30 Copynumber: 6.5 Consensus size: 30
103975529 TTCGGCTATC
103975539 AATTATGAAAAGGGATGGTGATGACCATCA
1 AATTATGAAAAGGGATGGTGATGACCATCA
* *
103975569 AATTATGAAAAGGGATGGTGACGACCATTA
1 AATTATGAAAAGGGATGGTGATGACCATCA
* * *
103975599 AATTATGAAAAGGGGATGGCT--TCAGCTATCG
1 AATTATGAAAA-GGGATGG-TGATGA-CCATCA
* * ** *
103975630 TACTATGAAAAGGGATGGCTTCTG-CTATCA
1 AATTATGAAAAGGGATGG-TGATGACCATCA
* ** *
103975660 AATTTTGAAAAGGGATGGTGACAACCATCG
1 AATTATGAAAAGGGATGGTGATGACCATCA
**
103975690 AACAATGAAAAGGGATGGTG--GCATCCATCA
1 AATTATGAAAAGGGATGGTGATG-A-CCATCA
103975720 AATTATGAAAAAGGGAT
1 AATTATG-AAAAGGGAT
103975737 AGCTTCGGCT
Statistics
Matches: 132, Mismatches: 27, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
29 2 0.02
30 100 0.76
31 28 0.21
32 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (30 bp):
AATTATGAAAAGGGATGGTGATGACCATCA
Found at i:103975681 original size:91 final size:90
Alignment explanation
Indices: 103975542--103975766 Score: 238
Period size: 91 Copynumber: 2.5 Consensus size: 90
103975532 GGCTATCAAT
** * * * **
103975542 TATGAAAAGGGATGG-TGATGACCATCAAATTATGAAAAGGGATGGTGACGACCATTAAATTATG
1 TATGAAAAGGGATGGCTTCTG-CTATCAAATTATGAAAAGGGATGGTGACAACCATCAAACAATG
* * **
103975606 AAAAGGGGATGGCT-TCAGCTATCGTAC
65 AAAA-GGGATGG-TGGCAGCCATCAAAC
* *
103975633 TATGAAAAGGGATGGCTTCTGCTATCAAATTTTGAAAAGGGATGGTGACAACCATCGAACAATGA
1 TATGAAAAGGGATGGCTTCTGCTATCAAATTATGAAAAGGGATGGTGACAACCATCAAACAATGA
* *
103975698 AAAGGGATGGTGGCATCCATCAAAT
66 AAAGGGATGGTGGCAGCCATCAAAC
* * *
103975723 TATGAAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGAT
1 TATG-AAAAGGGATGGCTTCTGCTATCAAATTATGAAAAGGGAT
103975767 AACTTCGGTT
Statistics
Matches: 112, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
89 1 0.01
90 18 0.16
91 90 0.80
92 3 0.03
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (90 bp):
TATGAAAAGGGATGGCTTCTGCTATCAAATTATGAAAAGGGATGGTGACAACCATCAAACAATGA
AAAGGGATGGTGGCAGCCATCAAAC
Found at i:103975727 original size:121 final size:120
Alignment explanation
Indices: 103975514--103975809 Score: 355
Period size: 121 Copynumber: 2.5 Consensus size: 120
103975504 TCATTGACGA
* ** **
103975514 ATGAAAAGTGATAGCTTCGGCTATCAATTATGAAAAGGGATGGTGATGACCATCAAATTATGAAA
1 ATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGTGACAACCATCAAACAATGAAA
* * * *
103975579 AGGGATGGTGACGACCATTAAATTATGAAAAGGGGATGGCTTCAGCTATCGTACT
66 AGGGATGGTGACGACCATCAAATTATGAAAAAGGGATAGCTTCAGCTATCGAACT
* * * *
103975634 ATGAAAAGGGATGGCTTCTGCTATCAAATTTTGAAAAGGGATGGTGACAACCATCGAACAATGAA
1 ATGAAAAGGGATAGCTTCGGCTATC-AATTATGAAAAGGGATGGTGACAACCATCAAACAATGAA
* * *
103975699 AAGGGATGGTGGC-ATCCATCAAATTATGAAAAAGGGATAGCTTCGGCTATCGAATT
65 AAGGGATGGTGACGA-CCATCAAATTATGAAAAAGGGATAGCTTCAGCTATCGAACT
* * * *
103975755 ATGAAAAGGGATAACTTCGGTTATCGAATTA-CAAAGAGGGAT-GTGTCAACCATCA
1 ATGAAAAGGGATAGCTTCGGCTATC-AATTATGAAA-AGGGATGGTGACAACCATCA
103975810 TATTATTATC
Statistics
Matches: 148, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
120 37 0.25
121 111 0.75
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (120 bp):
ATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGTGACAACCATCAAACAATGAAA
AGGGATGGTGACGACCATCAAATTATGAAAAAGGGATAGCTTCAGCTATCGAACT
Found at i:103975764 original size:30 final size:29
Alignment explanation
Indices: 103975514--103975785 Score: 138
Period size: 30 Copynumber: 9.0 Consensus size: 29
103975504 TCATTGACGA
*
103975514 ATGAAAAGTGATAGCTTCGGCTATC-AATT
1 ATGAAAAGGGAT-GCTTCGGCTATCAAATT
* * *
103975543 ATGAAAAGGGATGGTGAT-GACCATCAAATT
1 ATGAAAAGGGATGCT--TCGGCTATCAAATT
* * * * *
103975573 ATGAAAAGGGATGGTGACGACCATTAAATT
1 ATGAAAAGGGATGCT-TCGGCTATCAAATT
* ** *
103975603 ATGAAAAGGGGATGGCTTCAGCTATCGTACT
1 ATGAAAA-GGGAT-GCTTCGGCTATCAAATT
*
103975634 ATGAAAAGGGATGGCTTCTGCTATCAAATT
1 ATGAAAAGGGAT-GCTTCGGCTATCAAATT
* * * ** * * **
103975664 TTGAAAAGGGATGGTGACAACCATCGAACA
1 ATGAAAAGGGATGCT-TCGGCTATCAAATT
*
103975694 ATGAAAAGGGATG-GT-GGCATCCATCAAATT
1 ATGAAAAGGGATGCTTCGGC-T--ATCAAATT
*
103975724 ATGAAAAAGGGATAGCTTCGGCTATCGAATT
1 ATG-AAAAGGGAT-GCTTCGGCTATCAAATT
* * *
103975755 ATGAAAAGGGATAACTTCGGTTATCGAATT
1 ATGAAAAGGGAT-GCTTCGGCTATCAAATT
103975785 A
1 A
103975786 CAAAGAGGGA
Statistics
Matches: 187, Mismatches: 42, Indels: 27
0.73 0.16 0.11
Matches are distributed among these distances:
27 1 0.01
28 2 0.01
29 18 0.10
30 121 0.65
31 37 0.20
32 3 0.02
33 2 0.01
34 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATGCTTCGGCTATCAAATT
Found at i:103975795 original size:30 final size:30
Alignment explanation
Indices: 103975728--103975796 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
103975718 CAAATTATGA
* *
103975728 AAAAGGGATAGCTTCGGCTATCGAATTATG
1 AAAAGGGATAACTTCGGCTATCGAATTATC
*
103975758 AAAAGGGATAACTTCGGTTATCGAATTA-C
1 AAAAGGGATAACTTCGGCTATCGAATTATC
103975787 AAAGAGGGAT
1 AAA-AGGGAT
103975797 GTGTCAACCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 3 0.09
30 32 0.91
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.25
Consensus pattern (30 bp):
AAAAGGGATAACTTCGGCTATCGAATTATC
Found at i:103980641 original size:40 final size:39
Alignment explanation
Indices: 103980476--103980629 Score: 227
Period size: 39 Copynumber: 3.9 Consensus size: 39
103980466 TGTGTATGAA
* * *
103980476 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTGTGATATCCGGGTTAAGCCCGAAGGCAAT
*
103980515 TGTGCGAATTGTGATATCCGGGTTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGTTAAGCCCGAAGGCAAT
* * *
103980554 TGTGTGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGTTAAGCCCGAAGGCAAT
*
103980593 TGTGCGAGTTGTGATACCCGGGTTAAGTCCCGAAGGC
1 TGTGCGAGTTGTGATATCCGGGTTAAG-CCCGAAGGC
103980630 GTTTGAACGA
Statistics
Matches: 104, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.91
40 9 0.09
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGTTAAGCCCGAAGGCAAT
Found at i:103982236 original size:39 final size:39
Alignment explanation
Indices: 103982182--103982377 Score: 268
Period size: 39 Copynumber: 5.0 Consensus size: 39
103982172 GATGTGTATG
*
103982182 AATGTGCGAATTGTGATATCCGAGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
*
103982221 AATGTGCGAATTGTGATATCCAGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* *
103982260 AAGGTGCGAATTGTGATATCTGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * * *
103982299 ATTGTGAGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
103982338 ATTGTGCGAGTTGTGATA-CTCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATC-CGGGCTAAG-CCCGAAGGCA
103982378 TTTGTGCGGG
Statistics
Matches: 141, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 1 0.01
39 130 0.92
40 10 0.07
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:103988612 original size:23 final size:23
Alignment explanation
Indices: 103988555--103988612 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
103988545 AGCTATGCCT
*
103988555 CACACGCCTGTGTAGAGGCAAAG
1 CACACGCCCGTGTAGAGGCAAAG
*
103988578 CACACGCTCGTGTAGAGGCAAAG
1 CACACGCCCGTGTAGAGGCAAAG
*
103988601 CACACACCCGTG
1 CACACGCCCGTG
103988613 AGTCCCACCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.29, C:0.31, G:0.28, T:0.12
Consensus pattern (23 bp):
CACACGCCCGTGTAGAGGCAAAG
Found at i:103988745 original size:28 final size:28
Alignment explanation
Indices: 103988705--103988767 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
103988695 GTCCCCAGCA
103988705 CGTGTCCCTCACACGGCATAGACACGCC
1 CGTGTCCCTCACACGGCATAGACACGCC
* *
103988733 CGTGTCCCTCACATGGCCTAGACACGCC
1 CGTGTCCCTCACACGGCATAGACACGCC
103988761 CGTGTCC
1 CGTGTCC
103988768 AAAAACTCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.17, C:0.43, G:0.22, T:0.17
Consensus pattern (28 bp):
CGTGTCCCTCACACGGCATAGACACGCC
Found at i:103991853 original size:29 final size:29
Alignment explanation
Indices: 103991821--103991951 Score: 154
Period size: 29 Copynumber: 4.5 Consensus size: 29
103991811 AATTTAAGCC
* *** *
103991821 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
** * *
103991850 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
* *
103991879 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
*
103991908 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
103991937 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
103991952 GATCTCGTCA
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 88 1.00
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCT
Found at i:104008863 original size:21 final size:21
Alignment explanation
Indices: 104008839--104008878 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
104008829 ACTTATTGCC
104008839 TATT-TTTTTATTATATATTCT
1 TATTATTTTT-TTATATATTCT
*
104008860 TATTATTTTTTTATTTATT
1 TATTATTTTTTTATATATT
104008879 AACCCGTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (21 bp):
TATTATTTTTTTATATATTCT
Found at i:104010694 original size:20 final size:20
Alignment explanation
Indices: 104010671--104010716 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
104010661 TAAGCATGGG
* *
104010671 TTTGTACTAAATTGCATGAA
1 TTTGCACTAAATTGAATGAA
104010691 TTTGCACTAAATTGAATGAA
1 TTTGCACTAAATTGAATGAA
104010711 TTTGCA
1 TTTGCA
104010717 ATTTTATGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (20 bp):
TTTGCACTAAATTGAATGAA
Found at i:104011097 original size:40 final size:39
Alignment explanation
Indices: 104011046--104011224 Score: 164
Period size: 40 Copynumber: 4.4 Consensus size: 39
104011036 CGAATATATT
104011046 TATGGCACTTAGTGTGCA-ATTCAAGAAAGCTTCGGCTATA
1 TATGGCACTTAGTGTGCAGATT-AA-AAAGCTTCGGCTATA
* * *
104011086 TTTGGCACTTAGTGTGC-GATTCAAAATGGCTTCGACTATA
1 TATGGCACTTAGTGTGCAGATT-AAAA-AGCTTCGGCTATA
* * *
104011126 TATGGCACTTAGTGTGCGAGACTAAGATAGCTTCGGCTATG
1 TATGGCACTTAGTGTGC-AGATTAA-AAAGCTTCGGCTATA
* * * * *
104011167 TAAGGCAATTAGTGTGTGAGATTATAATAGCTTCGGCTATG
1 TATGGCACTTAGTGTG-CAGATTA-AAAAGCTTCGGCTATA
104011208 TATTGGCACTTAGTGTG
1 TA-TGGCACTTAGTGTG
104011225 TGATATATCG
Statistics
Matches: 116, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
39 2 0.02
40 49 0.42
41 48 0.41
42 17 0.15
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (39 bp):
TATGGCACTTAGTGTGCAGATTAAAAAGCTTCGGCTATA
Found at i:104011165 original size:81 final size:80
Alignment explanation
Indices: 104011046--104011224 Score: 200
Period size: 81 Copynumber: 2.2 Consensus size: 80
104011036 CGAATATATT
* ** * *
104011046 TATGGCACTTAGTGTGCAATTCAAGAAAGCTTCGGCTATATTTGGCACTTA-GTGTGCGATTCAA
1 TATGGCACTTAGTGTGCAACTCAAGAAAGCTTCGGCTATATAAGGCAATTAGGTGTGAGATT-AA
*
104011110 AATGGCTTCGACTATA
65 AATAGCTTCGACTATA
* *
104011126 TATGGCACTTAGTGTGCGAGACT-AAGATAGCTTCGGCTATGTAAGGCAATTAGTGTGTGAGATT
1 TATGGCACTTAGTGTGC-A-ACTCAAGAAAGCTTCGGCTATATAAGGCAATTAG-GTGTGAGATT
* * *
104011190 ATAATAGCTTCGGCTATG
63 AAAATAGCTTCGACTATA
104011208 TATTGGCACTTAGTGTG
1 TA-TGGCACTTAGTGTG
104011225 TGATATATCG
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
80 17 0.20
81 25 0.30
82 18 0.22
83 23 0.28
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (80 bp):
TATGGCACTTAGTGTGCAACTCAAGAAAGCTTCGGCTATATAAGGCAATTAGGTGTGAGATTAAA
ATAGCTTCGACTATA
Found at i:104011179 original size:41 final size:41
Alignment explanation
Indices: 104011046--104011224 Score: 177
Period size: 41 Copynumber: 4.4 Consensus size: 41
104011036 CGAATATATT
* *
104011046 TATGGCACTTAGTGTGC-A-ATTCAAGAAAGCTTCGGCTATA
1 TATGGCACTTAGTGTGCGAGACT-AAGATAGCTTCGGCTATA
* ** * * *
104011086 TTTGGCACTTAGTGTGCGATTC-AAAATGGCTTCGACTATA
1 TATGGCACTTAGTGTGCGAGACTAAGATAGCTTCGGCTATA
*
104011126 TATGGCACTTAGTGTGCGAGACTAAGATAGCTTCGGCTATG
1 TATGGCACTTAGTGTGCGAGACTAAGATAGCTTCGGCTATA
* * * * *
104011167 TAAGGCAATTAGTGTGTGAGATTATA-ATAGCTTCGGCTATG
1 TATGGCACTTAGTGTGCGAGACTA-AGATAGCTTCGGCTATA
104011208 TATTGGCACTTAGTGTG
1 TA-TGGCACTTAGTGTG
104011225 TGATATATCG
Statistics
Matches: 114, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
40 49 0.43
41 52 0.46
42 13 0.11
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (41 bp):
TATGGCACTTAGTGTGCGAGACTAAGATAGCTTCGGCTATA
Found at i:104013662 original size:63 final size:64
Alignment explanation
Indices: 104013582--104013751 Score: 152
Period size: 67 Copynumber: 2.6 Consensus size: 64
104013572 ATATAGTTCG
* * * *
104013582 GCTCTCTTGTAC-ACATGGTGA-ACACTCAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGACACA-TCAGTACCACCCATGCGAACTAGCCACATATATCCCGT
104013644 A
64 A
* * * * *
104013645 GCTCTCTTGTCTACATGGTGTC-CTTCACCTGGAGCCACGCATGCGAACTAGCTACATATATCCC
1 GCTCTCTTGTCTACATGGTGACACATCA---GTA-CCACCCATGCGAACTAGCCACATATATCCC
104013709 GTA
62 GTA
*
104013712 GCTCTCTTGTCTACATGGTGTACACAT-AGTATCACCCATG
1 GCTCTCTTGTCTACATGGTG-ACACATCAGTACCACCCATG
104013752 GTGTAGCTCT
Statistics
Matches: 84, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
62 4 0.05
63 19 0.23
64 7 0.08
65 4 0.05
66 16 0.19
67 30 0.36
68 2 0.02
69 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGACACATCAGTACCACCCATGCGAACTAGCCACATATATCCCGTA
Found at i:104014503 original size:30 final size:30
Alignment explanation
Indices: 104014467--104014527 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
104014457 TCCTTAACTC
104014467 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
104014497 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
104014527 A
1 A
104014528 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:104017034 original size:40 final size:39
Alignment explanation
Indices: 104016898--104017031 Score: 207
Period size: 39 Copynumber: 3.4 Consensus size: 39
104016888 AAACCAAGTA
* * *
104016898 CCTTCGGGATTTAGCCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATG
104016937 CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
*
104016976 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
104017016 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
104017032 CGGTTATCAT
Statistics
Matches: 89, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.01
39 50 0.56
40 38 0.43
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:104019240 original size:17 final size:17
Alignment explanation
Indices: 104019218--104019277 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
104019208 GAATGGTGAT
104019218 TGTATGAATTGATTTAA
1 TGTATGAATTGATTTAA
* * *
104019235 TGTATGGA-TGAATGGTGAT
1 TGTATGAATTG-AT--TTAA
*
104019254 TGTATGAATTGATCTAA
1 TGTATGAATTGATTTAA
104019271 TGTATGA
1 TGTATGA
104019278 GAAAAATATA
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
16 2 0.06
17 17 0.53
19 11 0.34
20 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.25, T:0.42
Consensus pattern (17 bp):
TGTATGAATTGATTTAA
Found at i:104019253 original size:36 final size:36
Alignment explanation
Indices: 104019206--104019276 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
104019196 TTGTTTGAGA
*
104019206 ATGAATGGTGATTGTATGAATTGATTTAATGTATGG
1 ATGAATGGTGATTGTATGAATTGATCTAATGTATGG
104019242 ATGAATGGTGATTGTATGAATTGATCTAATGTATG
1 ATGAATGGTGATTGTATGAATTGATCTAATGTATG
104019277 AGAAAAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.01, G:0.27, T:0.41
Consensus pattern (36 bp):
ATGAATGGTGATTGTATGAATTGATCTAATGTATGG
Found at i:104028824 original size:25 final size:25
Alignment explanation
Indices: 104028779--104028836 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
104028769 ATAAAACCTA
*
104028779 AAAATGAAATAGTATTAAAGGAAGAT
1 AAAAT-AAAAAGTATTAAAGGAAGAT
104028805 AAAATAAAAAGTACTT-AAGGAAGAT
1 AAAATAAAAAGTA-TTAAAGGAAGAT
104028830 -AAATAAA
1 AAAATAAA
104028837 GATAAAAGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 7 0.23
25 16 0.53
26 7 0.23
ACGTcount: A:0.62, C:0.02, G:0.16, T:0.21
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAAGGAAGAT
Found at i:104030846 original size:28 final size:28
Alignment explanation
Indices: 104030781--104030881 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
104030771 ATAGTGAATC
*
104030781 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
104030810 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
104030838 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
104030868 CGCACACTTAGTGC
1 CGCACACTTAGTGC
104030882 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:104038799 original size:28 final size:28
Alignment explanation
Indices: 104038734--104038834 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
104038724 ATAGTGAATC
*
104038734 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
104038763 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
104038791 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
104038821 CGCACACTTAGTGC
1 CGCACACTTAGTGC
104038835 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:104042065 original size:39 final size:39
Alignment explanation
Indices: 104041987--104042140 Score: 263
Period size: 39 Copynumber: 3.9 Consensus size: 39
104041977 GTCATAGTAG
** *
104041987 CTCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAA
1 CTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
*
104042027 CTCGCACAATTGCCTTTGGGCTTAGCCCGGATATCACAA
1 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
104042066 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
1 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
104042105 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
104042141 TCCGAACATT
Statistics
Matches: 109, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 92 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
Found at i:104051113 original size:46 final size:46
Alignment explanation
Indices: 104051063--104051232 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
104051053 TTGAGCATCC
104051063 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * *
104051109 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-GAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
* *
104051156 GAACTCGTTGAGCTGAGTCCGAGTTCAGTTATGGATGCGAATG-CT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
*
104051201 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
104051233 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 4 0.04
46 54 0.52
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:104051216 original size:93 final size:93
Alignment explanation
Indices: 104051057--104051227 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
104051047 GGATGGTTGA
*
104051057 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
104051122 TGAGTCCGAGTTCGTGAAATGGAACTAG
66 TGAGTCCGAGTTCGTGAAATGGAACTAG
* *
104051150 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCAGTTATGGATGCGAATG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAATGTCT-GAACTCGTTGAG
104051214 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
104051228 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGGAACTAG
Found at i:104056006 original size:19 final size:19
Alignment explanation
Indices: 104055982--104056021 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
104055972 TTAGTAAGTT
104055982 ATAAGAAAATAACAAATCA
1 ATAAGAAAATAACAAATCA
104056001 ATAAGAAAATAACAAATCA
1 ATAAGAAAATAACAAATCA
104056020 AT
1 AT
104056022 GACATTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.68, C:0.10, G:0.05, T:0.17
Consensus pattern (19 bp):
ATAAGAAAATAACAAATCA
Found at i:104056160 original size:44 final size:44
Alignment explanation
Indices: 104056111--104056199 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
104056101 CAAACATATA
104056111 ATTATGCCACAAATTCAAATTAGCCGAATGCACATATAGATAAT
1 ATTATGCCACAAATTCAAATTAGCCGAATGCACATATAGATAAT
*
104056155 ATTATGCCACAAATTCAAATTGGCCGAATGCACATATAGATAAT
1 ATTATGCCACAAATTCAAATTAGCCGAATGCACATATAGATAAT
104056199 A
1 A
104056200 ACATAATTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (44 bp):
ATTATGCCACAAATTCAAATTAGCCGAATGCACATATAGATAAT
Found at i:104056519 original size:56 final size:56
Alignment explanation
Indices: 104056452--104056560 Score: 166
Period size: 56 Copynumber: 1.9 Consensus size: 56
104056442 TCTTACATGT
* * *
104056452 AATCACATATCGATGCCAATGTACT-AGATGTGGTCTTACTCGCACACATATATCAG
1 AATCACATATCGATACCAACGTACTAAAAT-TGGTCTTACTCGCACACATATATCAG
*
104056508 AATCACATATCGATACCAACGTATTAAAATTGGTCTTACTCGCACACATATAT
1 AATCACATATCGATACCAACGTACTAAAATTGGTCTTACTCGCACACATATAT
104056561 ATATGCCATT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 45 0.94
57 3 0.06
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (56 bp):
AATCACATATCGATACCAACGTACTAAAATTGGTCTTACTCGCACACATATATCAG
Found at i:104057862 original size:30 final size:30
Alignment explanation
Indices: 104057826--104057989 Score: 145
Period size: 30 Copynumber: 5.5 Consensus size: 30
104057816 CAGCTATCAG
* * *
104057826 TTATGAAAAGGGATGGTGACGGCCATAAAA
1 TTATGAAAAGGGATGGTGTCGACCATCAAA
* * * **
104057856 TTATGAAAATGGATTGCT-TC-AGCTATCGTA
1 TTATGAAAAGGGA-TGGTGTCGA-CCATCAAA
* *
104057886 CTATGAAAAGGGATGGCT-TCGACTATCAAA
1 TTATGAAAAGGGATGG-TGTCGACCATCAAA
* * *
104057916 TTATGAAAAGGGATGGTGACAACCATGAAA
1 TTATGAAAAGGGATGGTGTCGACCATCAAA
**
104057946 CAATGAAAAGGGATGGTGTCGACCATCAAA
1 TTATGAAAAGGGATGGTGTCGACCATCAAA
104057976 TTATGAAAAGGGAT
1 TTATGAAAAGGGAT
104057990 AGCTTCGGCT
Statistics
Matches: 104, Mismatches: 25, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
29 3 0.03
30 97 0.93
31 4 0.04
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (30 bp):
TTATGAAAAGGGATGGTGTCGACCATCAAA
Found at i:104057917 original size:60 final size:60
Alignment explanation
Indices: 104057799--104058019 Score: 225
Period size: 60 Copynumber: 3.7 Consensus size: 60
104057789 TCATCAACGA
* ** * * *
104057799 ATGAAAAGGGATAACTTCAGCTATC-AGTTATGAAAAGGGATGGTGACGGCCATAAAATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAACTATGAAAAGGGATGGTGTCGACCATCAAATT
* * * *
104057858 ATGAAAATGGATTGCTTCAGCTATCGTACTATGAAAAGGGATGGCT-TCGACTATCAAATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAACTATGAAAAGGGATGG-TGTCGACCATCAAATT
* * * * *
104057918 ATGAAAAGGGAT-GGTGACAACCAT-GAAACAATGAAAAGGGATGGTGTCGACCATCAAATT
1 ATGAAAAGGGATAGCT-TCAGCTATCG-AACTATGAAAAGGGATGGTGTCGACCATCAAATT
* * *
104057978 ATGAAAAGGGATAGCTTCGGCTGTCGAATTATGAAAAGGGAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAACTATGAAAAGGGAT
104058020 AACTTCGATT
Statistics
Matches: 129, Mismatches: 26, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
59 26 0.20
60 99 0.77
61 4 0.03
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.24
Consensus pattern (60 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAACTATGAAAAGGGATGGTGTCGACCATCAAATT
Found at i:104057933 original size:90 final size:89
Alignment explanation
Indices: 104057799--104058019 Score: 232
Period size: 90 Copynumber: 2.5 Consensus size: 89
104057789 TCATCAACGA
* * ** **
104057799 ATGAAAAGGGATAACTTC-AGCTATCAGTTATGAAAAGGGATGGTGACGGCCATAAAATTATGAA
1 ATGAAAAGGGATAGCTTCGA-CTATCAATTATGAAAAGGGATGGTGACAACCATAAAACAATGAA
* * **
104057863 AATGGATTGCT-TC-AGCTATCGTACT
65 AAGGGA-TGCTGTCGA-CCATCAAACT
* *
104057888 ATGAAAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGATGGTGACAACCATGAAACAATGAA
1 ATGAAAAGGGATAGCTTCGACTATC-AATTATGAAAAGGGATGGTGACAACCATAAAACAATGAA
* *
104057953 AAGGGATGGTGTCGACCATCAAATT
65 AAGGGATGCTGTCGACCATCAAACT
* *
104057978 ATGAAAAGGGATAGCTTCGGCTGTCGAATTATGAAAAGGGAT
1 ATGAAAAGGGATAGCTTCGACTATC-AATTATGAAAAGGGAT
104058020 AACTTCGATT
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
89 24 0.22
90 85 0.77
91 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.24
Consensus pattern (89 bp):
ATGAAAAGGGATAGCTTCGACTATCAATTATGAAAAGGGATGGTGACAACCATAAAACAATGAAA
AGGGATGCTGTCGACCATCAAACT
Found at i:104058008 original size:30 final size:30
Alignment explanation
Indices: 104057964--104058049 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 30
104057954 AGGGATGGTG
* * *
104057964 TCGACCATCAAATTATGAAAAGGGATAGCT
1 TCGACTATCGAATTATGAAAAGGGATAACT
* *
104057994 TCGGCTGTCGAATTATGAAAAGGGATAACT
1 TCGACTATCGAATTATGAAAAGGGATAACT
* **
104058024 TCGATTATCGAATTACAAAAAGGGAT
1 TCGACTATCGAATTATGAAAAGGGAT
104058050 GTGTCAACCA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (30 bp):
TCGACTATCGAATTATGAAAAGGGATAACT
Found at i:104060553 original size:13 final size:13
Alignment explanation
Indices: 104060537--104060567 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
104060527 TTTAATTAAA
104060537 TTAGTTAATTAGT
1 TTAGTTAATTAGT
*
104060550 TTAGATAATTAGT
1 TTAGTTAATTAGT
104060563 TTAGT
1 TTAGT
104060568 AAACAAACCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:104065955 original size:15 final size:15
Alignment explanation
Indices: 104065924--104065964 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
104065914 TCCTCTTATG
104065924 TTTTTATTTATTCTTA
1 TTTTTATTT-TTCTTA
104065940 TTTTTA-TTTTCTT-
1 TTTTTATTTTTCTTA
104065953 TATTTTATTTTT
1 T-TTTTATTTTT
104065965 ATTTTCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.04
14 10 0.43
15 6 0.26
16 6 0.26
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTATTTTTCTTA
Found at i:104065962 original size:20 final size:20
Alignment explanation
Indices: 104065925--104065994 Score: 77
Period size: 20 Copynumber: 3.2 Consensus size: 20
104065915 CCTCTTATGT
*
104065925 TTTTATTTATTCTTATTTTTA
1 TTTTCTTTATT-TTATTTTTA
104065946 TTTTCTTTATTTTATTTTTA
1 TTTTCTTTATTTTATTTTTA
104065966 TTTTCATTTCAATTTTATTATTTTA
1 TTTTC-TTT--ATTTTA-T-TTTTA
104065991 TTTT
1 TTTT
104065995 GAAAGACATA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
20 14 0.33
21 13 0.30
23 6 0.14
24 1 0.02
25 9 0.21
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTCTTTATTTTATTTTTA
Found at i:104065966 original size:26 final size:25
Alignment explanation
Indices: 104065926--104065974 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
104065916 CTCTTATGTT
*
104065926 TTTATTTATTCTTATTTTTATTTTC
1 TTTATTTATTCTTATTTTCATTTTC
*
104065951 TTTATTTTATTTTTATTTTCATTT
1 TTTA-TTTATTCTTATTTTCATTT
104065975 CAATTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTATTTATTCTTATTTTCATTTTC
Found at i:104068832 original size:13 final size:13
Alignment explanation
Indices: 104068816--104068848 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
104068806 TTTAATTAAA
*
104068816 TTAGTTAATTAGT
1 TTAGATAATTAGT
104068829 TTAGATAATTAGT
1 TTAGATAATTAGT
104068842 TTA-ATAA
1 TTAGATAA
104068849 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:104087182 original size:39 final size:39
Alignment explanation
Indices: 104087128--104087323 Score: 286
Period size: 39 Copynumber: 5.0 Consensus size: 39
104087118 GATGTGTATG
104087128 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
*
104087167 AATGTGCGAATTGTGATATCCAGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
*
104087206 AAGGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * * *
104087245 ATTGTGAGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
104087284 ATTGTGCGAGTTGTGATA-CTCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATC-CGGGCTAAG-CCCGAAGGCA
104087324 TTTGTGCGGG
Statistics
Matches: 144, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 133 0.92
40 10 0.07
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:104092744 original size:20 final size:20
Alignment explanation
Indices: 104092730--104092785 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
104092720 CATGATTGAG
104092730 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
104092750 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
*
104092770 ATGAAATGCACATGAT
1 ATGATATGCACATGAT
104092786 GAATTCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:104092746 original size:11 final size:11
Alignment explanation
Indices: 104092730--104092785 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
104092720 CATGATTGAG
104092730 ATGATATGCAC
1 ATGATATGCAC
*
104092741 ATGATATG--T
1 ATGATATGCAC
104092750 ATGATATGCAC
1 ATGATATGCAC
*
104092761 ATGATATG--T
1 ATGATATGCAC
*
104092770 ATGAAATGCAC
1 ATGATATGCAC
104092781 ATGAT
1 ATGAT
104092786 GAATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:104092886 original size:25 final size:25
Alignment explanation
Indices: 104092835--104092943 Score: 134
Period size: 25 Copynumber: 4.4 Consensus size: 25
104092825 GAGGAAGTGC
104092835 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTT-TGCCCTAGTTTATTG
104092861 AAAAGGGCTTATGCCC-AGTTTATTG
1 AAAAGGGCTT-TGCCCTAGTTTATTG
* ***
104092886 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCTAGTTTATTG
104092911 AAAAGGGCTTTGCCCTAG-TTATT-
1 AAAAGGGCTTTGCCCTAGTTTATTG
104092934 AAAAGAGGCT
1 AAAAG-GGCT
104092944 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.07
24 12 0.16
25 42 0.56
26 16 0.21
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTATTG
Found at i:104108497 original size:14 final size:14
Alignment explanation
Indices: 104108478--104108510 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
104108468 TTATGAAACG
104108478 ACGTAAATCCAACA
1 ACGTAAATCCAACA
*
104108492 ACGTAAATCCAATA
1 ACGTAAATCCAACA
104108506 ACGTA
1 ACGTA
104108511 CGACGATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.24, G:0.09, T:0.18
Consensus pattern (14 bp):
ACGTAAATCCAACA
Found at i:104110770 original size:53 final size:50
Alignment explanation
Indices: 104110713--104110864 Score: 126
Period size: 51 Copynumber: 2.9 Consensus size: 50
104110703 TGTGATGGTG
* *
104110713 TGGGCATGGCCGTGTGAACCACACAGGCTAGGCCAAGTTAGGTGTGTGGGTTT
1 TGGGCA-GGCCGT-T-AACCACACAGGCAAGGCCAAGTTAGGCGTGTGGGTTT
* ** * *
104110766 TGGGCCAGGTCGTTTTCCATACGGGCAAGGCCAAGTTAGGCGTGTGGGTTT
1 TGGG-CAGGCCGTTAACCACACAGGCAAGGCCAAGTTAGGCGTGTGGGTTT
* * ** * *
104110817 TGGGCCAGGTCATTGTCCACACGGGCAAGGCCAA-TCTGGGCGTGTGGG
1 TGGG-CAGGCCGTTAACCACACAGGCAAGGCCAAGT-TAGGCGTGTGGG
104110865 CCACACAGGC
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
50 1 0.01
51 73 0.85
52 1 0.01
53 9 0.10
54 2 0.02
ACGTcount: A:0.17, C:0.21, G:0.38, T:0.24
Consensus pattern (50 bp):
TGGGCAGGCCGTTAACCACACAGGCAAGGCCAAGTTAGGCGTGTGGGTTT
Found at i:104110799 original size:51 final size:51
Alignment explanation
Indices: 104110731--104110864 Score: 189
Period size: 51 Copynumber: 2.6 Consensus size: 51
104110721 GCCGTGTGAA
* * * * *
104110731 CCACACAGGCTAGGCCAAGTTAGGTGTGTGGGTTTTGGGCCAGGTCGTTTT
1 CCACACGGGCAAGGCCAAGTTAGGCGTGTGGGTTTTGGGCCAGGTCATTGT
*
104110782 CCATACGGGCAAGGCCAAGTTAGGCGTGTGGGTTTTGGGCCAGGTCATTGT
1 CCACACGGGCAAGGCCAAGTTAGGCGTGTGGGTTTTGGGCCAGGTCATTGT
*
104110833 CCACACGGGCAAGGCCAA-TCTGGGCGTGTGGG
1 CCACACGGGCAAGGCCAAGT-TAGGCGTGTGGG
104110865 CCACACAGGC
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
50 1 0.01
51 73 0.99
ACGTcount: A:0.17, C:0.22, G:0.37, T:0.24
Consensus pattern (51 bp):
CCACACGGGCAAGGCCAAGTTAGGCGTGTGGGTTTTGGGCCAGGTCATTGT
Found at i:104118339 original size:40 final size:40
Alignment explanation
Indices: 104118212--104118341 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
104118202 ATGCTGGAAA
* *
104118212 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
104118252 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
* *
104118292 TTCTATCCAGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
104118332 TTATATCCGG
1 TTATATCCGG
104118342 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:104131245 original size:40 final size:40
Alignment explanation
Indices: 104131118--104131247 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
104131108 ATGCTGGAAA
* * *
104131118 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTCG
* * * *
104131158 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTCG
*
104131198 TTCTATCCGGGCTAAGA-CCGAAGGCATTTGTGCCTACGT-G
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTG-CTA-GTCG
104131238 TTATATCCGG
1 TTATATCCGG
104131248 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 14 0.19
40 59 0.79
41 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTCG
Found at i:104143978 original size:28 final size:28
Alignment explanation
Indices: 104143913--104144011 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
104143903 ATAGTGAATC
*** *
104143913 CGCACACTTAGTGCTATATTTTC-AGCT
1 CGCACACTTAGTGCTATACAATCAAACT
*
104143940 CGCACACTTAGTGCTATAGAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
* * *
104143968 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATACAA--TCAAACT
104143998 CGCACACTTAGTGC
1 CGCACACTTAGTGC
104144012 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 20 0.33
28 22 0.36
30 19 0.31
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:104144144 original size:16 final size:17
Alignment explanation
Indices: 104144112--104144144 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
104144102 CATCATTCCA
*
104144112 TACACATACATTTCATT
1 TACACATACAATTCATT
104144129 TACACAT-CAATTCATT
1 TACACATACAATTCATT
104144145 AAACACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.39
Consensus pattern (17 bp):
TACACATACAATTCATT
Found at i:104147225 original size:40 final size:40
Alignment explanation
Indices: 104147180--104147309 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
104147170 CGGAATACTA
104147180 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
104147220 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
104147260 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
104147300 CCGGATATAA
1 CCGGATATAA
104147310 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:104157661 original size:40 final size:40
Alignment explanation
Indices: 104157617--104157747 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
104157607 GCTACTCATT
* * *
104157617 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* *
104157657 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* ** *
104157697 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
104157737 CAAATGCCTTC
1 CAAATGCCTTC
104157748 AGATCTTAGT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.94
41 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:104157753 original size:40 final size:40
Alignment explanation
Indices: 104157645--104157802 Score: 180
Period size: 40 Copynumber: 4.0 Consensus size: 40
104157635 AGCCCGGTTA
* *
104157645 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-ACCTGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC-GGATT
104157685 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* * *
104157725 TAGTAACTCGTACAAATGCCTTCAGATCTTAGTCCGGATA
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* * *
104157765 TAGTCACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGA
104157803 CATCATTCGA
Statistics
Matches: 104, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 90 0.87
41 11 0.11
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:104163179 original size:47 final size:45
Alignment explanation
Indices: 104163034--104163198 Score: 165
Period size: 46 Copynumber: 3.6 Consensus size: 45
104163024 CGTAGCCGAC
* * * * *
104163034 GCATGTCCTAGGCATGTCTTACACTGGCTCTCATAATGTGACTGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTATCATAATGTGTC-GAT
* * *
104163080 GCATATCCCAGACATGTCTTGCACTAGCCCTCGTC-TCAA--TGTCGAT
1 GCATGTCCCAGACATGTCTTACACTAG--CT-ATCAT-AATGTGTCGAT
104163126 GCCATGTCCCAGACATGGTCTTACACTAGCTATCATAATGTGGTCGAT
1 G-CATGTCCCAGACAT-GTCTTACACTAGCTATCATAATGT-GTCGAT
104163174 GCATGTCCCAGACATGTCTTACACT
1 GCATGTCCCAGACATGTCTTACACT
104163199 GGCACACAAA
Statistics
Matches: 99, Mismatches: 10, Indels: 20
0.77 0.08 0.16
Matches are distributed among these distances:
45 4 0.04
46 39 0.39
47 31 0.31
48 21 0.21
49 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACTAGCTATCATAATGTGTCGAT
Found at i:104175595 original size:24 final size:24
Alignment explanation
Indices: 104175568--104175640 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
104175558 ATTCAAGCCG
*
104175568 GCACACATAGTGCCATTCGACTTC
1 GCACACATAGTGCCATTCGACTCC
* *
104175592 GCACACATAGTGCCATTCAAATCC
1 GCACACATAGTGCCATTCGACTCC
*
104175616 GCACACTTAGTGCCAATATCGACTC
1 GCACACATAGTGCC-AT-TCGACTC
104175641 ATATGATAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 34 0.83
25 2 0.05
26 5 0.12
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (24 bp):
GCACACATAGTGCCATTCGACTCC
Found at i:104183268 original size:24 final size:24
Alignment explanation
Indices: 104183241--104183314 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
104183231 TAATCAAAGG
*
104183241 CGCACACATAGTGCCATTCGACTT
1 CGCACACATAGTGCCATTCGACTC
* *
104183265 CGCACACATAGTGCCATTCAAATC
1 CGCACACATAGTGCCATTCGACTC
*
104183289 CGCACACTTAGTGCCAATATCGACTC
1 CGCACACATAGTGCC-AT-TCGACTC
104183315 ATATGATAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 35 0.83
25 2 0.05
26 5 0.12
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCGACTC
Found at i:104187130 original size:16 final size:18
Alignment explanation
Indices: 104187109--104187143 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
104187099 TTCAGTTCCA
104187109 TAATTTAC-TC-ACTATT
1 TAATTTACTTCTACTATT
104187125 TAATTTACTTCTACTATT
1 TAATTTACTTCTACTATT
104187143 T
1 T
104187144 TTAGTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATTTACTTCTACTATT
Found at i:104188020 original size:29 final size:29
Alignment explanation
Indices: 104187988--104188065 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
104187978 ATACCCTCCG
** *
104187988 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
104188017 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
104188046 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
104188066 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:104195850 original size:29 final size:29
Alignment explanation
Indices: 104195818--104195895 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
104195808 ATACCCTCCG
** *
104195818 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
104195847 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
104195876 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
104195896 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:104207934 original size:28 final size:28
Alignment explanation
Indices: 104207902--104207970 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
104207892 GCGTAGATCA
104207902 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
104207930 CGAAATTACCCCTAAAGAGCATAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
104207958 CGATA-TACCCCTA
1 CGAAATTACCCCTA
104207971 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.42, C:0.28, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:104210362 original size:17 final size:19
Alignment explanation
Indices: 104210320--104210363 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
104210310 ATGAAATTTT
*
104210320 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
104210339 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
104210357 AA-TATTA
1 AATTATTA
104210364 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:104212184 original size:28 final size:28
Alignment explanation
Indices: 104212152--104212220 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
104212142 GCGTAGATCA
104212152 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
104212180 CGAAATTACCCCTAAAGAGCATAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
104212208 CGATA-TACCCCTA
1 CGAAATTACCCCTA
104212221 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.42, C:0.28, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:104236043 original size:40 final size:40
Alignment explanation
Indices: 104235988--104236069 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
104235978 AAAACATGGT
* *
104235988 TATAAATAGCACTAAGTGTGGGAATGGAAATAGCTTTGGC
1 TATAAATAGCACTAAGTGTGCGAATGGAAATAGCTTCGGC
104236028 TATAAATAGCACTAAGTGTGCGAATGGAAATAGCTTCGGC
1 TATAAATAGCACTAAGTGTGCGAATGGAAATAGCTTCGGC
104236068 TA
1 TA
104236070 GATGAGGCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.27
Consensus pattern (40 bp):
TATAAATAGCACTAAGTGTGCGAATGGAAATAGCTTCGGC
Found at i:104236080 original size:40 final size:39
Alignment explanation
Indices: 104235989--104236084 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 39
104235979 AAACATGGTT
* *
104235989 ATAAATAGCACTAAGTGTGGGAATGGAAATAGCTTTGGC
1 ATAAATAGCACTAAGTGTGCGAATGGAAATAGCTTCGGC
104236028 TATAAATAGCACTAAGTGTGCGAATGGAAATAGCTTCGGC
1 -ATAAATAGCACTAAGTGTGCGAATGGAAATAGCTTCGGC
*
104236068 -TAGATGAGGCACTAAGT
1 ATAAAT-A-GCACTAAGT
104236085 TTATGATACC
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
38 4 0.08
39 1 0.02
40 46 0.90
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.25
Consensus pattern (39 bp):
ATAAATAGCACTAAGTGTGCGAATGGAAATAGCTTCGGC
Found at i:104247357 original size:45 final size:44
Alignment explanation
Indices: 104247279--104247402 Score: 151
Period size: 45 Copynumber: 2.8 Consensus size: 44
104247269 CATTTCATCG
* * *
104247279 GCATTATAGCCTACTAGGCTCGAAAGCCCGAATAGTATCTCACC-
1 GCATTATAGCCTGCTAGGC-CCAAAGGCCGAATAGTATCTCACCA
*
104247323 GACATTATAGCCTGCTAGGCCCAAAGGCCAGAATAGTGTCTCACCA
1 G-CATTATAGCCTGCTAGGCCCAAAGGCC-GAATAGTATCTCACCA
* *
104247369 GCATAATAGCCTGCTAGGCTCAAAGGACCGAATA
1 GCATTATAGCCTGCTAGGCCCAAAGG-CCGAATA
104247403 TAATACCAGC
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
44 8 0.11
45 59 0.84
46 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (44 bp):
GCATTATAGCCTGCTAGGCCCAAAGGCCGAATAGTATCTCACCA
Found at i:104247444 original size:38 final size:38
Alignment explanation
Indices: 104247400--104247480 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 38
104247390 AAAGGACCGA
* * * *
104247400 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGAATTAACCCAG
104247438 ATATAATACCAGCACGAAGCCTGCGGGAATTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGAATTAACCCAG
104247476 ATATA
1 ATATA
104247481 TTGTAACACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.20
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGAATTAACCCAG
Found at i:104248936 original size:28 final size:29
Alignment explanation
Indices: 104248869--104248969 Score: 98
Period size: 28 Copynumber: 3.5 Consensus size: 29
104248859 ATAGTGAATC
*** *
104248869 CGCACACTTAGTGCTATATTTTTTC-AGCT
1 CGCACACTTAGTGCTATA-CAATTCAAACT
*
104248898 CGCACACTTAGTGCTATAGAA-TCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
* * *
104248926 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATACAA-TTCAAACT
104248956 CGCACACTTAGTGC
1 CGCACACTTAGTGC
104248970 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.03
28 22 0.36
29 18 0.30
30 19 0.31
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:104250629 original size:38 final size:38
Alignment explanation
Indices: 104250532--104250621 Score: 128
Period size: 38 Copynumber: 2.4 Consensus size: 38
104250522 GGGATGTCAC
* * *
104250532 ATATATTATCAGCACGAAGCCTGCGAGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTACGAGATTTAACCCAG
*
104250570 ATATATTACCAGCACGAAGCCTACGGGATTTAACCCAG
1 ATATATTACCAGCACGAAGCCTACGAGATTTAACCCAG
104250608 ATATAATT-CCAGCA
1 ATAT-ATTACCAGCA
104250622 TATAGCCTGC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
38 44 0.94
39 3 0.06
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (38 bp):
ATATATTACCAGCACGAAGCCTACGAGATTTAACCCAG
Found at i:104252744 original size:31 final size:31
Alignment explanation
Indices: 104252706--104252769 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
104252696 CCTTTTCATA
104252706 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
* *
104252737 TTTCATATTTCATATTACTGGGTCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
104252768 TT
1 TT
104252770 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:104253012 original size:24 final size:24
Alignment explanation
Indices: 104252961--104253127 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
104252951 GCTTTATCAT
* *
104252961 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
104252986 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
104253010 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
104253033 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
104253057 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
104253081 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
104253105 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
104253128 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 100 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:104253061 original size:71 final size:71
Alignment explanation
Indices: 104252960--104253127 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
104252950 TGCTTTATCA
*
104252960 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
104253024 AGCCCTTT
64 AGCCCTTT
* * **
104253032 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
104253097 CCCTTT
66 CCCTTT
104253103 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
104253128 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 53 0.60
72 36 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:104253203 original size:20 final size:20
Alignment explanation
Indices: 104253178--104253237 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
104253168 TATGATTACC
104253178 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
104253198 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
104253218 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
104253238 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:104253312 original size:25 final size:25
Alignment explanation
Indices: 104253280--104253327 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
104253270 ATACATAAAC
* * *
104253280 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
104253305 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
104253328 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:104254619 original size:27 final size:27
Alignment explanation
Indices: 104254564--104254854 Score: 345
Period size: 27 Copynumber: 10.8 Consensus size: 27
104254554 GGGTATTTTA
* *
104254564 GTAATTTTGTAAATCGA-GGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
104254590 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * **
104254617 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
104254644 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
104254671 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
104254698 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
104254725 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
* *
104254752 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
*
104254779 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * **
104254806 ATAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
104254833 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
104254855 CTTTGGTAAT
Statistics
Matches: 237, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
26 16 0.07
27 219 0.92
28 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:104254876 original size:27 final size:27
Alignment explanation
Indices: 104254807--104255082 Score: 238
Period size: 27 Copynumber: 10.3 Consensus size: 27
104254797 GGTAAAACGA
****
104254807 TAATTTTACAAATCGAGGGTAAAACGG
1 TAATTTTACAAATCGAGGGTATTTTGG
* * *
104254834 TAATTCTATAAATCGAGGGTACTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
* ***
104254861 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTTGG
** **
104254888 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTTGG
* *
104254915 TAATTTCACAAAT-TAGGGGTATTTTGG
1 TAATTTTACAAATCGA-GGGTATTTTGG
* *
104254942 TAATTTTACAAA-CTAGGGGTATTTTGA
1 TAATTTTACAAATCGA-GGGTATTTTGG
*
104254969 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATCGA-GGGTATTTTGG
*
104254996 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATCGA-GGGTATTTTGG
* * * * *
104255023 TAATTTTATAAACCAATGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTTGG
*
104255050 TAATTTTACAAAGC-AGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
104255076 TAATTTT
1 TAATTTT
104255083 GTAAACCAAA
Statistics
Matches: 214, Mismatches: 32, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
26 18 0.08
27 194 0.91
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTTGG
Found at i:104254877 original size:81 final size:79
Alignment explanation
Indices: 104254565--104254908 Score: 309
Period size: 81 Copynumber: 4.3 Consensus size: 79
104254555 GGTATTTTAG
** ** * * *
104254565 TAATTTTGTAAATCGA-GGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGTAA
1 TAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAA-TTT-TAA
* *
104254629 ATCAAGGGTAAAA-TA
64 ATCGAGGGTAAAACGA
* *
104254644 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 -TAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATT-T-TA
104254709 AATCGAGGGTAAAACGA
63 AATCGAGGGTAAAACGA
* ** * *
104254726 TAATTATGTAAATCTG-GGGTAAAATGGTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTAT
1 TAATTTTACAAATC-GAGGGTAAAATGGTAATTCTGTAAATCGA-GGGTAAAACGGTAATT-T-T
104254789 AAATCGAGGGTAAAACGA
62 AAATCGAGGGTAAAACGA
* * ****
104254807 TAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAA
1 TAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTA-AA
*** *
104254872 GTCGAGGGTATTTCAA
65 -TCGAGGGTAAAACGA
**
104254888 TAATTTTACAGGTCGAGGGTA
1 TAATTTTACAAATCGAGGGTA
104254909 TTTCAGTAAT
Statistics
Matches: 224, Mismatches: 31, Indels: 17
0.82 0.11 0.06
Matches are distributed among these distances:
79 2 0.01
80 21 0.09
81 198 0.88
82 3 0.01
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (79 bp):
TAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTAAAT
CGAGGGTAAAACGA
Found at i:104255096 original size:26 final size:26
Alignment explanation
Indices: 104254932--104255099 Score: 174
Period size: 27 Copynumber: 6.3 Consensus size: 26
104254922 ACAAATTAGG
* *
104254932 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
104254959 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
104254986 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
104255013 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
104255039 TGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
104255066 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
104255092 AGTATTTT
1 GGTATTTT
104255100 AAACATGGAT
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
26 28 0.22
27 97 0.78
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:104257896 original size:7 final size:7
Alignment explanation
Indices: 104257884--104257908 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
104257874 GCCGTAGCCC
104257884 CATATTT
1 CATATTT
104257891 CATATTT
1 CATATTT
104257898 CATATTT
1 CATATTT
104257905 CATA
1 CATA
104257909 ATACTGGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (7 bp):
CATATTT
Found at i:104257933 original size:31 final size:31
Alignment explanation
Indices: 104257895--104257989 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
104257885 ATATTTCATA
*
104257895 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
104257926 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
104257957 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
104257988 TT
1 TT
104257990 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:104258232 original size:24 final size:24
Alignment explanation
Indices: 104258181--104258323 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
104258171 GCTTTATCAT
*
104258181 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
104258206 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
104258230 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
104258253 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
104258277 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
104258301 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
104258324 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:104258260 original size:47 final size:48
Alignment explanation
Indices: 104258181--104258322 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
104258171 GCTTTATCAT
* *
104258181 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
104258230 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
104258277 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
104258323 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:104258281 original size:71 final size:72
Alignment explanation
Indices: 104258180--104258323 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
104258170 TGCTTTATCA
*
104258180 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
104258245 GCCCTTT
66 GCCCTTT
* * **
104258252 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
104258315 AGCCCTTT
65 AGCCCTTT
104258323 T
1 T
104258324 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:104258399 original size:20 final size:20
Alignment explanation
Indices: 104258374--104258433 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
104258364 TATGATTACC
104258374 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
104258394 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
104258414 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
104258434 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:104258508 original size:25 final size:25
Alignment explanation
Indices: 104258476--104258523 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
104258466 ATACATAAAC
* * *
104258476 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
104258501 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
104258524 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:104260063 original size:27 final size:27
Alignment explanation
Indices: 104259761--104260052 Score: 336
Period size: 27 Copynumber: 10.8 Consensus size: 27
104259751 GGGTATTTTA
* * *
104259761 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
104259788 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * **
104259815 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
104259842 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
104259869 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
104259896 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
104259923 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* * *
104259950 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
104259977 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
104260004 ATAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
104260031 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
104260053 CTTTGGTAAT
Statistics
Matches: 236, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
27 234 0.99
28 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:104260074 original size:27 final size:27
Alignment explanation
Indices: 104260005--104260278 Score: 236
Period size: 27 Copynumber: 10.3 Consensus size: 27
104259995 GGTAAAACGA
****
104260005 TAATTTTACAAATCGAGGGTAAAACGG
1 TAATTTTACAAATCGAGGGTATTTTGG
* * *
104260032 TAATTCTATAAATCGAGGGTACTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
* ***
104260059 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTTGG
** **
104260086 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTTGG
* *
104260113 TAATTTCACAAAT-TAGGGGTATTTTGG
1 TAATTTTACAAATCGA-GGGTATTTTGG
* *
104260140 TAATTTTACAAA-CTAGGGGTATTTTGA
1 TAATTTTACAAATCGA-GGGTATTTTGG
*
104260167 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATCGA-GGGTATTTTGG
*
104260194 TAATTTTACAAA-CTAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
* * * * *
104260220 TAATTTTATAAACCAATGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTTGG
*
104260247 T-ATTTTACAAAGC-AGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
104260272 TAATTTT
1 TAATTTT
104260279 GTAAACCAAA
Statistics
Matches: 211, Mismatches: 32, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
25 11 0.05
26 38 0.18
27 162 0.77
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTTGG
Found at i:104260079 original size:81 final size:81
Alignment explanation
Indices: 104259762--104260052 Score: 372
Period size: 81 Copynumber: 3.6 Consensus size: 81
104259752 GGTATTTTAG
* * * * * * *
104259762 TAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGTAA
1 TAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAA
* *
104259827 ATCAAGGGTAAAA-TA
66 ATCGAGGGTAAAACGA
* *
104259842 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
1 -TAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
104259907 AATCGAGGGTAAAACGA
65 AATCGAGGGTAAAACGA
* * * * *
104259924 TAATTATGTAAATCTG-GGGTAAAATGGTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTAT
1 TAATTTTATAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTAT
104259987 AAATCGAGGGTAAAACGA
64 AAATCGAGGGTAAAACGA
* *
104260005 TAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 TAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
104260053 CTTTGGTAAT
Statistics
Matches: 183, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
80 2 0.01
81 178 0.97
82 3 0.02
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (81 bp):
TAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAA
ATCGAGGGTAAAACGA
Found at i:104260271 original size:52 final size:52
Alignment explanation
Indices: 104260130--104260296 Score: 212
Period size: 52 Copynumber: 3.2 Consensus size: 52
104260120 ACAAATTAGG
* * * * *
104260130 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTAGTAATTTTACAAACTA-GGGTATTTTGGTAATTTTATAAACCA-A
*
104260184 GGTATTTTGGTAATTTTACAAACTAGGGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTAGTAATTTTACAAACTAGGGTATTTTGGTAATTTTATAAACCAA
*
104260236 TGGTATTTTAGT-ATTTTACAAAGC-AGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGTATTTTAGTAATTTTACAAA-CTAGGGTATTTTGGTAATTTTATAAACCAA
*
104260288 AGTATTTTA
1 GGTATTTTA
104260297 AACATGGATA
Statistics
Matches: 104, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
51 8 0.08
52 37 0.36
53 34 0.33
54 25 0.24
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.43
Consensus pattern (52 bp):
GGTATTTTAGTAATTTTACAAACTAGGGTATTTTGGTAATTTTATAAACCAA
Found at i:104260292 original size:26 final size:26
Alignment explanation
Indices: 104260130--104260295 Score: 172
Period size: 27 Copynumber: 6.3 Consensus size: 26
104260120 ACAAATTAGG
* *
104260130 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
104260157 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
104260184 GGTATTTTGGTAATTTTACAAACTAG
1 GGTATTTTGGTAATTTTACAAACCAA
*
104260210 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
104260236 TGGTATTTTAGT-ATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
104260262 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
104260288 AGTATTTT
1 GGTATTTT
104260296 AAACATGGAT
Statistics
Matches: 122, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
25 10 0.08
26 52 0.43
27 60 0.49
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:104261689 original size:2 final size:2
Alignment explanation
Indices: 104261677--104261725 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
104261667 CACTTTCAAA
*
104261677 AT AT A- AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104261718 AT AT AT AT
1 AT AT AT AT
104261726 TCGAATTTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:104264036 original size:24 final size:24
Alignment explanation
Indices: 104263986--104264039 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
104263976 AATCGAATTT
*
104263986 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
104264010 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
104264034 GCACAC
1 GCACAC
104264040 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:104270946 original size:40 final size:39
Alignment explanation
Indices: 104270877--104271064 Score: 223
Period size: 40 Copynumber: 4.7 Consensus size: 39
104270867 TCCAAACACA
* * * *
104270877 AATGCCTTCGGACTTAGCCTGGATGTAACAACCAGCACG
1 AATGCCTTCGGGCTTAACCCGGATATAACAACCAGCACG
* * * *
104270916 AATGCCTTCAGGGCTTAGCCCAGATATAACAACCAGGATG
1 AATGCCTTC-GGGCTTAACCCGGATATAACAACCAGCACG
** *
104270956 AATGCCTTCAGGATTTAACCCGGATATAAAAACCAGCACG
1 AATGCCTTC-GGGCTTAACCCGGATATAACAACCAGCACG
*
104270996 AATGCCTTCGGGACTTAACCCAGATATAACAACCAGCACG
1 AATGCCTTCGGG-CTTAACCCGGATATAACAACCAGCACG
*
104271036 AAAGCCTTCGGGACTTAACCCGGATATAA
1 AATGCCTTCGGG-CTTAACCCGGATATAA
104271065 TCCTCAATTA
Statistics
Matches: 128, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 11 0.09
40 117 0.91
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (39 bp):
AATGCCTTCGGGCTTAACCCGGATATAACAACCAGCACG
Found at i:104271018 original size:80 final size:79
Alignment explanation
Indices: 104270877--104271064 Score: 261
Period size: 80 Copynumber: 2.4 Consensus size: 79
104270867 TCCAAACACA
* * * * *
104270877 AATGCCTTCGGACTTAGCCTGGATGTAACAACCAGCACGAATGCCTTCAGGGCTTAGCCCAGATA
1 AATGCCTTCGGACTTAACCCGGATATAAAAACCAGCACGAATGCCTTCAGGGCTTAACCCAGATA
* *
104270942 TAACAACCAGGATG
66 TAACAACCAGCACG
*
104270956 AATGCCTTCAGGATTTAACCCGGATATAAAAACCAGCACGAATGCCTTC-GGGACTTAACCCAGA
1 AATGCCTTC-GGACTTAACCCGGATATAAAAACCAGCACGAATGCCTTCAGGG-CTTAACCCAGA
104271020 TATAACAACCAGCACG
64 TATAACAACCAGCACG
*
104271036 AAAGCCTTCGGGACTTAACCCGGATATAA
1 AATGCCTTC-GGACTTAACCCGGATATAA
104271065 TCCTCAATTA
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
79 12 0.12
80 84 0.88
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (79 bp):
AATGCCTTCGGACTTAACCCGGATATAAAAACCAGCACGAATGCCTTCAGGGCTTAACCCAGATA
TAACAACCAGCACG
Found at i:104276663 original size:40 final size:39
Alignment explanation
Indices: 104276619--104276720 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 39
104276609 TACCTCGATC
104276619 TCGCACACTATGTGCCATATATAGCCAAAGCTATGCCGAA
1 TCGCACACTA-GTGCCATATATAGCCAAAGCTATGCCGAA
** *
104276659 TCGCACACTGAGTGCCATATATAGCTGAAGCTATGTCGAA
1 TCGCACACT-AGTGCCATATATAGCCAAAGCTATGCCGAA
*
104276699 TCACACACTAGGTGCCACTATA
1 TCGCACACTA-GTGCCA-TATA
104276721 GTTGATTTGT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
39 1 0.02
40 49 0.89
41 5 0.09
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (39 bp):
TCGCACACTAGTGCCATATATAGCCAAAGCTATGCCGAA
Found at i:104281720 original size:11 final size:12
Alignment explanation
Indices: 104281693--104281725 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
104281683 TGGGCTTACA
104281693 ATACATTTAATC
1 ATACATTTAATC
*
104281705 ATACATTTCA-C
1 ATACATTTAATC
104281716 ATACATTTAA
1 ATACATTTAA
104281726 ACCAATTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (12 bp):
ATACATTTAATC
Done.