Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 137 of 438
Found at i:40778653 original size:48 final size:48
Alignment explanation
Indices: 40778598--40778693 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
40778588 TAGGAAATGT
40778598 ATGATTATATATGTTTAAGTCCAGTAACACCTTATATTGTTGTTCCGG
1 ATGATTATATATGTTTAAGTCCAGTAACACCTTATATTGTTGTTCCGG
*
40778646 ATGATTATATATGTTTAAGTCCGGTAACACCTTATATTGTTGTTCCGG
1 ATGATTATATATGTTTAAGTCCAGTAACACCTTATATTGTTGTTCCGG
40778694 CGTCGAACTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (48 bp):
ATGATTATATATGTTTAAGTCCAGTAACACCTTATATTGTTGTTCCGG
Found at i:40782412 original size:42 final size:42
Alignment explanation
Indices: 40782301--40782465 Score: 188
Period size: 42 Copynumber: 3.9 Consensus size: 42
40782291 TACCGTACCA
** *
40782301 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATAG
1 ATGCCATATCCCAGATATGGTCTTACA-CAAAGTCTCATATAG
* * * *
40782343 ATGCCAATAGCCCAGCTGTGGTCTTACACAAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACAAAGTCTCATATAG
** *
40782386 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACAAAGTCTCATATAG
* * *
40782428 ATGTCATATCTCAGATATGGTCTTACACATAGTCTCAT
1 ATGCCATATCCCAGATATGGTCTTACACAAAGTCTCAT
40782466 TAACCCTAAT
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
42 73 0.70
43 32 0.30
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAGTCTCATATAG
Found at i:40790835 original size:46 final size:46
Alignment explanation
Indices: 40790784--40790923 Score: 253
Period size: 46 Copynumber: 3.0 Consensus size: 46
40790774 AGTTAAATAT
*
40790784 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
40790830 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
* *
40790876 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
40790922 AT
1 AT
40790924 GTATATATGT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 91 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
Found at i:40790835 original size:48 final size:48
Alignment explanation
Indices: 40790782--40790949 Score: 227
Period size: 46 Copynumber: 3.6 Consensus size: 48
40790772 CAAGTTAAAT
40790782 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
40790830 --ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTA--TG
1 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* * * *
40790874 AGATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATGAG
1 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* * * * *
40790922 ATGTATATATGTGATAAGGCCGAATGGC
1 ATATATATGTGTGGTAAAGCCAAATGGC
40790950 CGATGTGATG
Statistics
Matches: 107, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
44 2 0.02
46 82 0.77
48 23 0.21
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:40790977 original size:47 final size:47
Alignment explanation
Indices: 40790923--40791033 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
40790913 ATGTATGAGA
* * *
40790923 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
40790970 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
40791017 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
40791034 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:40793622 original size:40 final size:40
Alignment explanation
Indices: 40793564--40793827 Score: 438
Period size: 40 Copynumber: 6.6 Consensus size: 40
40793554 CTCGACGATG
*
40793564 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
40793604 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
40793644 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* **
40793684 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
40793724 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
40793764 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
40793804 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
40793828 ATCATGCTGG
Statistics
Matches: 214, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:40794555 original size:40 final size:40
Alignment explanation
Indices: 40794487--40794626 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
40794477 TTCGAATGGT
* ** *
40794487 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTAA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTAA
* *
40794527 ATCCGGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTA-A
* * * * *
40794568 A-CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTAT
1 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAGTCACTAA
* *
40794607 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGCTAATTCCCGAAGG
40794627 TACGTGATTC
Statistics
Matches: 80, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
39 14 0.17
40 64 0.80
41 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTAA
Found at i:40797343 original size:46 final size:46
Alignment explanation
Indices: 40797292--40797431 Score: 253
Period size: 46 Copynumber: 3.0 Consensus size: 46
40797282 AGTTAAATAT
*
40797292 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
40797338 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
* *
40797384 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
40797430 AT
1 AT
40797432 GTATATATGT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 91 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
Found at i:40797343 original size:48 final size:48
Alignment explanation
Indices: 40797290--40797457 Score: 227
Period size: 46 Copynumber: 3.6 Consensus size: 48
40797280 CAAGTTAAAT
40797290 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
40797338 --ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTA--TG
1 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* * * *
40797382 AGATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATGAG
1 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* * * * *
40797430 ATGTATATATGTGATAAGGCCGAATGGC
1 ATATATATGTGTGGTAAAGCCAAATGGC
40797458 CGATGTGATG
Statistics
Matches: 107, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
44 2 0.02
46 82 0.77
48 23 0.21
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:40797485 original size:47 final size:47
Alignment explanation
Indices: 40797431--40797541 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
40797421 ATGTATGAGA
* * *
40797431 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
40797478 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
40797525 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
40797542 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:40799986 original size:46 final size:46
Alignment explanation
Indices: 40799935--40800116 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
40799925 AGTTAAATAT
40799935 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
40799981 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
40800027 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
40800073 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
40800117 AGATGTATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:40800174 original size:47 final size:47
Alignment explanation
Indices: 40800120--40800230 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
40800110 ATGTATGAGA
* * *
40800120 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
40800167 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
40800214 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
40800231 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:40804661 original size:50 final size:50
Alignment explanation
Indices: 40804585--40804817 Score: 281
Period size: 50 Copynumber: 4.7 Consensus size: 50
40804575 CATTTGGTCA
40804585 AATATACAAGATCAAATATAACATCACATATGTGCTTACCTATATGGCCG
1 AATATACAAGATCAAATATAACATCACATATGTGCTTACCTATATGGCCG
* * *
40804635 AATATGCAAGATCAAATTTAATATCACATATGTGCTTACCTATATGGCCG
1 AATATACAAGATCAAATATAACATCACATATGTGCTTACCTATATGGCCG
* * * * *
40804685 AATATGCAAGATCAAATTTAACATCACATATGTACTTACTTATATGGCCA
1 AATATACAAGATCAAATATAACATCACATATGTGCTTACCTATATGGCCG
* * * * *
40804735 AATATACAA-ATTCAAATATAATATCACATTTGTGCATATCT-TCATGGTCG
1 AATATACAAGA-TCAAATATAACATCACATATGTGCTTACCTAT-ATGGCCG
* * * *
40804785 AATATTCAAGATCCAATACAACGTCACATATGT
1 AATATACAAGATCAAATATAACATCACATATGT
40804818 ACATATTTAT
Statistics
Matches: 157, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
49 2 0.01
50 154 0.98
51 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (50 bp):
AATATACAAGATCAAATATAACATCACATATGTGCTTACCTATATGGCCG
Found at i:40804758 original size:100 final size:99
Alignment explanation
Indices: 40804585--40804844 Score: 324
Period size: 100 Copynumber: 2.6 Consensus size: 99
40804575 CATTTGGTCA
* * * *
40804585 AATATACAAGATCAAATATAACATCACATATGTGCTTACCTATATGGCCGAATATGCAAGATCAA
1 AATATACAAGATCAAATATAACATCACATATGTACTTACTTATATGGCCAAATATACAA-ATCAA
* *
40804650 ATTTAATATCACATATGTGCTTACCTAT-ATGGCCG
65 ATATAATATCACATATGTGCATACCT-TCATGGCCG
* *
40804685 AATATGCAAGATCAAATTTAACATCACATATGTACTTACTTATATGGCCAAATATACAAATTCAA
1 AATATACAAGATCAAATATAACATCACATATGTACTTACTTATATGGCCAAATATACAAA-TCAA
* * *
40804750 ATATAATATCACATTTGTGCATATCTTCATGGTCG
65 ATATAATATCACATATGTGCATACCTTCATGGCCG
* * * * * * *
40804785 AATATTCAAGATCCAATACAACGTCACATATGTACATATTTATGTGGCCAAATATACAAA
1 AATATACAAGATCAAATATAACATCACATATGTACTTACTTATATGGCCAAATATACAAA
40804845 GGCATTTAGC
Statistics
Matches: 139, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
99 2 0.01
100 137 0.99
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (99 bp):
AATATACAAGATCAAATATAACATCACATATGTACTTACTTATATGGCCAAATATACAAATCAAA
TATAATATCACATATGTGCATACCTTCATGGCCG
Found at i:40804839 original size:50 final size:50
Alignment explanation
Indices: 40804583--40804843 Score: 274
Period size: 50 Copynumber: 5.2 Consensus size: 50
40804573 CTCATTTGGT
*
40804583 CAAATATACAAGATCAAATATAACATCACATATGTGCTTACCTATATGGC
1 CAAATATACAAGATCAAATATAACATCACATATGTGCTTACTTATATGGC
* * * * *
40804633 CGAATATGCAAGATCAAATTTAATATCACATATGTGCTTACCTATATGGC
1 CAAATATACAAGATCAAATATAACATCACATATGTGCTTACTTATATGGC
* * * *
40804683 CGAATATGCAAGATCAAATTTAACATCACATATGTACTTACTTATATGGC
1 CAAATATACAAGATCAAATATAACATCACATATGTGCTTACTTATATGGC
* * * * *
40804733 CAAATATACAA-ATTCAAATATAATATCACATTTGTGCATATCTT-CATGGT
1 CAAATATACAAGA-TCAAATATAACATCACATATGTGCTTA-CTTATATGGC
* * * * * * * * *
40804783 CGAATATTCAAGATCCAATACAACGTCACATATGTACATATTTATGTGGC
1 CAAATATACAAGATCAAATATAACATCACATATGTGCTTACTTATATGGC
40804833 CAAATATACAA
1 CAAATATACAA
40804844 AGGCATTTAG
Statistics
Matches: 177, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
49 3 0.02
50 170 0.96
51 4 0.02
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (50 bp):
CAAATATACAAGATCAAATATAACATCACATATGTGCTTACTTATATGGC
Found at i:40813518 original size:68 final size:64
Alignment explanation
Indices: 40813408--40813659 Score: 212
Period size: 68 Copynumber: 3.8 Consensus size: 64
40813398 ATACAGATGG
** * * * *
40813408 TATGTAGCTAGGTCGCATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTATGAGACA
1 TATGTAGCTAGGTCGCATGGGTGGTACT-AGTGTACACCATGTAG-ACAAGAGAGCTA-GAGAGA
40813472 TTA
63 -TA
*
40813475 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-G-GA
1 T-ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGTACACCATGTAGACAAGAGAGCTA-GAGAGA
40813538 TA
63 TA
* * * *
40813540 TATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGCACCATGTAGACAAGAGAGCTA-AGAGA
1 TATGTAGCTAGGTCGCATGGGTGGTACTA-GTGTA--CACCATGTAGACAAGAGAGCTAGAGAGA
40813604 TA
63 TA
* * *
40813606 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCGCATGGGTGGTACT-AGTGTACACCATGTAG-ACAAGAGAGC
40813660 AAAATTATGT
Statistics
Matches: 154, Mismatches: 21, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 28 0.18
65 25 0.16
66 29 0.19
67 5 0.03
68 47 0.31
69 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTAGTGTACACCATGTAGACAAGAGAGCTAGAGAGATA
Found at i:40813594 original size:66 final size:64
Alignment explanation
Indices: 40813477--40813659 Score: 174
Period size: 64 Copynumber: 2.8 Consensus size: 64
40813467 AGACATTATG
* * *
40813477 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACCAGGTGAACACCATGTAGACAAGAGAGCTACGGGATAT
* * * * *
40813541 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGCACCATGTAGACAAGAGAGCTAAGAGATA
1 ATGTAGCTAGGTCGCATGGGTGATACCAGGTGAA--CACCATGTAGACAAGAGAGCTACGGGATA
*
40813606 A
64 T
* * * * **
40813607 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACCAGGTGAACACCATGTAG-ACAAGAGAGC
40813660 AAAATTATGT
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 28 0.28
65 22 0.22
66 28 0.28
67 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACCAGGTGAACACCATGTAGACAAGAGAGCTACGGGATAT
Found at i:40820249 original size:50 final size:50
Alignment explanation
Indices: 40820174--40820433 Score: 299
Period size: 50 Copynumber: 5.2 Consensus size: 50
40820164 CATTTGACAA
*
40820174 AATATACAAAATCAAATATAATATCACATATGTGCTTACCTATATGGCCG
1 AATATACAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCG
* *
40820224 AATATGCAAGATCAAATTTAATATCACATATGTGCTTACCTATATGGCCG
1 AATATACAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCG
* * * * *
40820274 AATATGCAAGATCAAATTTAACATCACATATGTACTTACTTATATGGCCG
1 AATATACAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCG
* * * *
40820324 AATATACAA-ATTCAAATATAATATCACCTTTGTGCATACCT-TCATGGCTG
1 AATATACAAGA-TCAAATATAATATCACATATGTGCTTACCTAT-ATGGCCG
* * * * * * * *
40820374 AATATTCAAGATCCAATACAACAACACATATGTACATACCTATGTGGCCG
1 AATATACAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCG
*
40820424 AATATTCAAG
1 AATATACAAG
40820434 GTCATTTAGC
Statistics
Matches: 181, Mismatches: 25, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
49 2 0.01
50 177 0.98
51 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (50 bp):
AATATACAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCG
Found at i:40824544 original size:60 final size:59
Alignment explanation
Indices: 40824417--40824555 Score: 147
Period size: 60 Copynumber: 2.3 Consensus size: 59
40824407 ATTAGAGTTA
* * *
40824417 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCACAGCCCATTACAG-ATCAGAGTAT
* * *
40824478 ACTGGGCCTAGCCCATGTCAGTATCAATCTGGGCCGCAGCCCTATTACA-A-CTAGAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCACAGCCC-ATTACAGATC-AGAG-TAT
* *
40824538 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTAGCCCATAT
40824556 TAACACAGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
58 1 0.02
59 5 0.08
60 47 0.71
61 13 0.20
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCACAGCCCATTACAGATCAGAGTAT
Found at i:40824573 original size:20 final size:20
Alignment explanation
Indices: 40824548--40824586 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
40824538 ATTGGGCCTT
40824548 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTTGG
*
40824568 GCCCATTTCAATACAGTTG
1 GCCCATTTCAACACAGTTG
40824587 ACCCATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (20 bp):
GCCCATTTCAACACAGTTGG
Found at i:40824851 original size:2 final size:2
Alignment explanation
Indices: 40824844--40824886 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
40824834 TGTATGCAGA
40824844 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
40824886 A
1 A
40824887 ATTAACAAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:40828104 original size:22 final size:22
Alignment explanation
Indices: 40828076--40828119 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
40828066 TGGGAGGAAG
40828076 AAGATAGACAATTGTTTTGGCT
1 AAGATAGACAATTGTTTTGGCT
40828098 AAGATAGACAATTGTTTTGGCT
1 AAGATAGACAATTGTTTTGGCT
40828120 TTATTTTGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (22 bp):
AAGATAGACAATTGTTTTGGCT
Found at i:40831080 original size:39 final size:39
Alignment explanation
Indices: 40831026--40831101 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
40831016 CAGTTACATA
40831026 ATTCATTTTAGGAAAATTAACATACATATTCATGTTATG
1 ATTCATTTTAGGAAAATTAACATACATATTCATGTTATG
*
40831065 ATTCATTTTAGGAAAATTAGCATACATATTCATGTTA
1 ATTCATTTTAGGAAAATTAACATACATATTCATGTTA
40831102 CACGAACTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (39 bp):
ATTCATTTTAGGAAAATTAACATACATATTCATGTTATG
Found at i:40839220 original size:18 final size:18
Alignment explanation
Indices: 40839197--40839231 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
40839187 TCTTATGCTT
40839197 AGAATTTCTTCATGAAAC
1 AGAATTTCTTCATGAAAC
40839215 AGAATTTCTTCATGAAA
1 AGAATTTCTTCATGAAA
40839232 ATTTAACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (18 bp):
AGAATTTCTTCATGAAAC
Found at i:40842345 original size:43 final size:43
Alignment explanation
Indices: 40842298--40842385 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
40842288 CAAACGCAAG
40842298 GTAAGCTTTGTATCCTTTCCTTACATATCTCTGAGCAACCATT
1 GTAAGCTTTGTATCCTTTCCTTACATATCTCTGAGCAACCATT
*
40842341 GTAAGCTTTGTATCCTTTCCTTATATATCTCTGAGCAACCATT
1 GTAAGCTTTGTATCCTTTCCTTACATATCTCTGAGCAACCATT
40842384 GT
1 GT
40842386 CGTAATTACA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (43 bp):
GTAAGCTTTGTATCCTTTCCTTACATATCTCTGAGCAACCATT
Found at i:40851961 original size:9 final size:9
Alignment explanation
Indices: 40851949--40852005 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
40851939 TTTGATAAAC
40851949 ATGATATGT
1 ATGATATGT
*
40851958 ATGATATGCAC
1 ATGATATG--T
*
40851969 ATGACATGT
1 ATGATATGT
*
40851978 ATGATATGCAC
1 ATGATATG--T
40851989 ATGATATGT
1 ATGATATGT
40851998 ATGATATG
1 ATGATATG
40852006 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:40851972 original size:20 final size:20
Alignment explanation
Indices: 40851947--40852017 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
40851937 ATTTTGATAA
40851947 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
40851967 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
40851987 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
40852007 ACATGAGATGT
1 ACATGATATGT
40852018 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:40851994 original size:11 final size:11
Alignment explanation
Indices: 40851958--40852012 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
40851948 CATGATATGT
40851958 ATGATATGCAC
1 ATGATATGCAC
* *
40851969 ATGACATG--T
1 ATGATATGCAC
40851978 ATGATATGCAC
1 ATGATATGCAC
*
40851989 ATGATATG--T
1 ATGATATGCAC
40851998 ATGATATGCAC
1 ATGATATGCAC
40852009 ATGA
1 ATGA
40852013 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:40852094 original size:23 final size:23
Alignment explanation
Indices: 40852064--40852230 Score: 262
Period size: 23 Copynumber: 7.1 Consensus size: 23
40852054 AGGAAGTGCA
40852064 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
40852087 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
40852111 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
40852135 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
40852158 AAAGGGCTTATGCACCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
40852181 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
40852204 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
40852228 AAA
1 AAA
40852231 AGAGGCTAGG
Statistics
Matches: 135, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 68 0.50
24 67 0.50
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:40852119 original size:24 final size:23
Alignment explanation
Indices: 40852063--40852252 Score: 256
Period size: 24 Copynumber: 8.0 Consensus size: 23
40852053 GAGGAAGTGC
40852063 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
40852086 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
40852109 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
40852133 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
40852157 TAAAGGGCTTATGCACCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
40852180 TAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
40852204 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
40852228 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
40852252 A
1 A
40852253 TGATAAAGCA
Statistics
Matches: 152, Mismatches: 11, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
23 63 0.41
24 79 0.52
25 10 0.07
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:40852131 original size:47 final size:47
Alignment explanation
Indices: 40852062--40852230 Score: 268
Period size: 47 Copynumber: 3.6 Consensus size: 47
40852052 AGAGGAAGTG
40852062 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
40852109 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* * *
40852157 -TAAAGGGCTTATGCACCAGTTATTAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
40852203 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
40852231 AGAGGCTAGG
Statistics
Matches: 112, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
46 21 0.19
47 69 0.62
48 22 0.20
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:40857475 original size:78 final size:81
Alignment explanation
Indices: 40857341--40857523 Score: 252
Period size: 78 Copynumber: 2.3 Consensus size: 81
40857331 CGAATGATGT
*
40857341 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
40857405 GTGCGAGTTACTA-AA
66 GTGCGAGTTACTATAA
* * **
40857420 TCC-GGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
40857481 TTGTGCGAGTTACTATAA
64 TTGTGCGAGTTACTATAA
*
40857499 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
40857524 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
77 1 0.01
78 52 0.57
79 24 0.26
80 15 0.16
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATAA
Found at i:40857537 original size:40 final size:40
Alignment explanation
Indices: 40857340--40857523 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
40857330 TCGAATGATG
* * *
40857340 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
40857380 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
40857420 TCC-GGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
40857458 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
40857499 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40857524 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
38 31 0.24
39 13 0.10
40 77 0.59
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40865624 original size:40 final size:40
Alignment explanation
Indices: 40865433--40865617 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
40865423 TCGAATGATG
* * *
40865433 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
40865472 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
40865512 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
40865552 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
40865593 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40865618 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 11 0.08
40 110 0.85
41 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40865624 original size:80 final size:79
Alignment explanation
Indices: 40865485--40865650 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 79
40865475 GGACTAAGAT
**
40865485 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
*
40865549 AAATCCAGGTTAAGTC
65 AAATCC-GGTTAAATC
* * *
40865565 CCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGC
1 CCGAAGGCATTCGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
* *
40865628 TATATCCGGTTAAATT
64 TAAATCCGGTTAAATC
40865644 CCGAAGG
1 CCGAAGG
40865651 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
79 17 0.23
80 55 0.73
81 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:40868936 original size:40 final size:40
Alignment explanation
Indices: 40868887--40869027 Score: 169
Period size: 40 Copynumber: 3.5 Consensus size: 40
40868877 CAGATGTAAC
40868887 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
40868927 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * ** * *
40868967 AACTAGCAC-AATTGCCTTC-GAATCTTAGTCCGGATATAGT
1 AACCAGCACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAAT
* *
40869007 AACTAGCACAAATGCCTTCGG
1 AACCAGCACGAATGCCTTCGG
40869028 ATCTTAGTCC
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
39 4 0.04
40 82 0.92
41 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:40870821 original size:40 final size:40
Alignment explanation
Indices: 40870755--40870830 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
40870745 TAATGCCTCA
*
40870755 TATAGCCGAAGCTATTCCAATTCGCACACTAAGTGCTATT
1 TATAGCCGAAGCTATTCCAATACGCACACTAAGTGCTATT
**
40870795 TATAGCCGAAGCTATTTTGAA-ACGCACACTAAGTGC
1 TATAGCCGAAGCTA-TTCCAATACGCACACTAAGTGC
40870831 CAAACATAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (40 bp):
TATAGCCGAAGCTATTCCAATACGCACACTAAGTGCTATT
Found at i:40882635 original size:28 final size:27
Alignment explanation
Indices: 40882603--40882662 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
40882593 CAGAAATAGT
40882603 ATCAGGTAGGCGTT-AGCCCAATAACAGA
1 ATCAGGTAGGC-TTAAGCCCAAT-ACAGA
*
40882631 ATCAGGTGGGCTTAAGCCCAATACAGA
1 ATCAGGTAGGCTTAAGCCCAATACAGA
40882658 ATCAG
1 ATCAG
40882663 TATCAGATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 12 0.40
28 18 0.60
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
ATCAGGTAGGCTTAAGCCCAATACAGA
Found at i:40885408 original size:33 final size:33
Alignment explanation
Indices: 40885363--40885426 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
40885353 AGAAACAGAC
*
40885363 TAGGCCTGAGCCC-ATCACAGAAACAGTATCAGG
1 TAGGCCTAAGCCCAAT-ACAGAAACAGTATCAGG
*
40885396 TAGGCCTAAGCCCAATACAGAATCAGTATCA
1 TAGGCCTAAGCCCAATACAGAAACAGTATCA
40885427 TATACAGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.17
Consensus pattern (33 bp):
TAGGCCTAAGCCCAATACAGAAACAGTATCAGG
Found at i:40893447 original size:13 final size:13
Alignment explanation
Indices: 40893429--40893453 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40893419 TGAAGGGGGT
40893429 GGCAACCCTAGTA
1 GGCAACCCTAGTA
40893442 GGCAACCCTAGT
1 GGCAACCCTAGT
40893454 TAGAATACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (13 bp):
GGCAACCCTAGTA
Found at i:40905060 original size:8 final size:8
Alignment explanation
Indices: 40905043--40905075 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
40905033 TTGGTGTTGG
40905043 TTTTATTTT
1 TTTTA-TTT
40905052 TTTTATTT
1 TTTTATTT
40905060 TTTTATTT
1 TTTTATTT
40905068 TTTTATTT
1 TTTTATTT
40905076 GCTTCAGCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 19 0.79
9 5 0.21
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTATTT
Found at i:40907068 original size:23 final size:22
Alignment explanation
Indices: 40907027--40907081 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
40907017 ATATAAAAAC
*
40907027 CTAAA-TAAAAAAATTAAATTAAA
1 CTAAACTAAAAAAATCAAA-T-AA
40907050 CTAAACTAAAAAAA-CAAATAA
1 CTAAACTAAAAAAATCAAATAA
40907071 CTAAATCTAAA
1 CTAAA-CTAAA
40907082 CAACATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 7 0.24
22 6 0.21
23 8 0.28
24 8 0.28
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (22 bp):
CTAAACTAAAAAAATCAAATAA
Found at i:40907478 original size:26 final size:26
Alignment explanation
Indices: 40907442--40907493 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
40907432 TGTTGGAACC
40907442 TTGATTTCAAATGAGAAACTTTTCGG
1 TTGATTTCAAATGAGAAACTTTTCGG
*
40907468 TTGATTTCAAATGAGAAGCTTTTCGG
1 TTGATTTCAAATGAGAAACTTTTCGG
40907494 AGACGATGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (26 bp):
TTGATTTCAAATGAGAAACTTTTCGG
Found at i:40907637 original size:22 final size:23
Alignment explanation
Indices: 40907600--40907642 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
40907590 GGTTCAATTA
40907600 TTTATTTTTTAAATTTAATTTAG
1 TTTATTTTTTAAATTTAATTTAG
*
40907623 TTTATTTTTT-TATTTAATTT
1 TTTATTTTTTAAATTTAATTT
40907643 TTCACATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTATTTTTTAAATTTAATTTAG
Found at i:40910569 original size:35 final size:35
Alignment explanation
Indices: 40910530--40910601 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
40910520 GAAGACTTAT
40910530 AAATAAATATTAATATTTTTATTTAAACATAATTA
1 AAATAAATATTAATATTTTTATTTAAACATAATTA
**
40910565 AAATAAATATTTTTATTTTTATTTAAACATAATTA
1 AAATAAATATTAATATTTTTATTTAAACATAATTA
40910600 AA
1 AA
40910602 TATTAAGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (35 bp):
AAATAAATATTAATATTTTTATTTAAACATAATTA
Found at i:40913669 original size:39 final size:40
Alignment explanation
Indices: 40913451--40913667 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
40913441 TGGATGATAA
* *
40913451 CCGGGCTAAGTCTCGAAGGCATTTGCGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
40913491 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
40913531 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTA-TAT
* *
40913571 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * * *
40913611 CCGGGCTATGT-CCGAAGGTATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTA-CTATAT
* *
40913650 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
40913668 TACTTGGCTT
Statistics
Matches: 159, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 7 0.04
39 32 0.20
40 119 0.75
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
Found at i:40921625 original size:40 final size:40
Alignment explanation
Indices: 40921568--40921731 Score: 233
Period size: 40 Copynumber: 4.1 Consensus size: 40
40921558 TGGATGATAA
*
40921568 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
40921608 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
40921648 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
40921688 CCGGGCTATGTCCCGAAGGTATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
40921728 CCGG
1 CCGG
40921732 TTAAATCCTG
Statistics
Matches: 112, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.03
40 108 0.96
41 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:40929448 original size:46 final size:46
Alignment explanation
Indices: 40929398--40929573 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
40929388 TGGTTGAGCA
* * *
40929398 TCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
40929444 TCCGAACTCGTTGAGTTGAGTCCGAGTT--CGTA-AGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* * *
40929491 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* *
40929537 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40929574 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 3 0.03
46 58 0.55
47 27 0.25
48 1 0.01
49 2 0.02
50 6 0.06
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:40929554 original size:93 final size:93
Alignment explanation
Indices: 40929395--40929566 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
40929385 GGATGGTTGA
* *
40929395 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
40929460 TGAGTCCGAGTTCGTAAGATGTAACTAG
66 TGAGTCCGAGTTCGTAAGATGTAACTAG
* * ** *
40929488 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGTGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTCATGGATGCAAACGTCC-GAACTCGTTGAG
40929552 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
40929567 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTAAGATGTAACTAG
Found at i:40934959 original size:46 final size:46
Alignment explanation
Indices: 40934907--40935082 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
40934897 TGGTTGAGCA
* *
40934907 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * * *
40934953 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* *
40935000 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* *
40935046 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40935083 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 60 0.56
47 28 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:40935063 original size:93 final size:93
Alignment explanation
Indices: 40934904--40935075 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
40934894 GGATGGTTGA
* * *
40934904 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCTCGAACTCGTTGAGT
40934969 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
** *
40934997 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAACGC-CTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCTC-GAACTCGTTGAG
40935061 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
40935076 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40936790 original size:34 final size:34
Alignment explanation
Indices: 40936747--40936828 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
40936737 GTATGTTACC
40936747 ATTAACATGCTTATAATA-AGT-ATATACAGTAGCA
1 ATTAACATGCTTATAATAGA-TCATA-ACAGTAGCA
*
40936781 ATTATCATGCTTATAATAGATCATAACAGTAGCA
1 ATTAACATGCTTATAATAGATCATAACAGTAGCA
* *
40936815 ATAAACTTGCTTAT
1 ATTAACATGCTTAT
40936829 TATGTATTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 38 0.90
35 4 0.10
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (34 bp):
ATTAACATGCTTATAATAGATCATAACAGTAGCA
Found at i:40940756 original size:14 final size:15
Alignment explanation
Indices: 40940733--40940765 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
40940723 CACTTTGTGG
*
40940733 TAATTTTATTT-TTT
1 TAATTATATTTATTT
40940747 TAATTATATTTATTT
1 TAATTATATTTATTT
40940762 TAAT
1 TAAT
40940766 AAACGTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TAATTATATTTATTT
Found at i:40941801 original size:26 final size:26
Alignment explanation
Indices: 40941771--40941823 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
40941761 TAGTGATTTG
*
40941771 TTTTATATTCTAATGTTAATTTCTTA
1 TTTTATATTCCAATGTTAATTTCTTA
* *
40941797 TTTTATATTCCGATGTTAATTTTTTA
1 TTTTATATTCCAATGTTAATTTCTTA
40941823 T
1 T
40941824 GTCCCATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.62
Consensus pattern (26 bp):
TTTTATATTCCAATGTTAATTTCTTA
Found at i:40953329 original size:93 final size:91
Alignment explanation
Indices: 40953171--40953339 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 91
40953161 GGATGGTTGA
* * *
40953171 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTATGGATGCGAATGTCTGAACTCGTTGAGTTG
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTTG
40953236 AGTCCGAGTTCGTAAGATGTAACTAG
66 AGTCCGAGTTCGTAAGATGTAACTAG
*
40953262 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
40953327 TGAGTCCGAGTTC
64 TGAGTCCGAGTTC
40953340 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 24 0.33
92 9 0.12
93 39 0.54
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (91 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTTG
AGTCCGAGTTCGTAAGATGTAACTAG
Found at i:40953338 original size:46 final size:46
Alignment explanation
Indices: 40953175--40953344 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
40953165 GGTTGAGCAT
* *
40953175 CCGAACTCGTTGAGTTGAGT-CGAGTTCAC-TATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
40953219 CTGAACTCGTTGAGTTGAGTCCGAGTT--CGTA-AGATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
40953264 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
40953312 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40953345 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 21 0.20
45 7 0.07
46 32 0.30
47 26 0.25
48 2 0.02
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:40962784 original size:26 final size:26
Alignment explanation
Indices: 40962755--40962923 Score: 176
Period size: 27 Copynumber: 6.3 Consensus size: 26
40962745 ATCCCTATTT
** *
40962755 AAAATACTTTGGTTTACAAAATTACC
1 AAAATACCCTGGTTTATAAAATTACC
* * *
40962781 AAAATACCCTGCTTTGTAAAATTACT
1 AAAATACCCTGGTTTATAAAATTACC
*
40962807 AAAATACCATTGGTTTATAAAATTACC
1 AAAATACC-CTGGTTTATAAAATTACC
* *
40962834 AAAATACCCCTAGTTTGTAAAATTACC
1 AAAATA-CCCTGGTTTATAAAATTACC
* * *
40962861 AAAATACCCCTAGTTTGTAAAATTATC
1 AAAATA-CCCTGGTTTATAAAATTACC
* *
40962888 AAAATACCCCTAGTTTGTAAAATTACC
1 AAAATA-CCCTGGTTTATAAAATTACC
40962915 AAAATACCC
1 AAAATACCC
40962924 CTAATTTGTG
Statistics
Matches: 126, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 31 0.25
27 93 0.74
28 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (26 bp):
AAAATACCCTGGTTTATAAAATTACC
Found at i:40962831 original size:27 final size:27
Alignment explanation
Indices: 40962772--40962950 Score: 245
Period size: 27 Copynumber: 6.7 Consensus size: 27
40962762 TTTGGTTTAC
40962772 AAAATTACCAAAATA-CCCT-GCTTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* ** * *
40962798 AAAATTACTAAAATACCATTGGTTTAT
1 AAAATTACCAAAATACCCCTAGTTTGT
40962825 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
40962852 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
40962879 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
40962906 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
40962933 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
40962951 TCGACCTGTA
Statistics
Matches: 136, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
26 14 0.10
27 121 0.89
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:40962961 original size:81 final size:81
Alignment explanation
Indices: 40962772--40963004 Score: 233
Period size: 81 Copynumber: 2.9 Consensus size: 81
40962762 TTTGGTTTAC
* * ** * *
40962772 AAAATTACCAAAATA-CCC-TGCTTTGTAAAATTA-CTAAAATACCATTGGTTTATAAAATTACC
1 AAAATTACCAAAATACCCCGAGC-CTGTAAAATTATC-AAAATACCCCTAGTTTGTAAAATTACC
*
40962834 AAAATACCCCTAGTTTGT
64 AAAATACCCCTAATTTGT
* **
40962852 AAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCCGAGCCTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
40962917 AATACCCCTAATTTGT
66 AATACCCCTAATTTGT
* ** ** * *
40962933 GAAATTACTGAAATACCCTCGA-CCTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACC
1 AAAATTACCAAAATACCC-CGAGCCTGTAAAATTATCAAAATACCCCTAG-TTTGTAAAATTACC
*
40962996 AAAGTACCC
64 AAAATACCC
40963005 TCGATTTATA
Statistics
Matches: 130, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
80 20 0.15
81 106 0.82
82 4 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCGAGCCTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
AATACCCCTAATTTGT
Found at i:40962964 original size:27 final size:27
Alignment explanation
Indices: 40962934--40963008 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
40962924 CTAATTTGTG
40962934 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
40962961 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
40962988 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
40963009 TTTATAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:40963401 original size:27 final size:27
Alignment explanation
Indices: 40963000--40963399 Score: 514
Period size: 27 Copynumber: 14.8 Consensus size: 27
40962990 ATTACCAAAG
*
40963000 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
40963027 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
40963054 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
40963081 TACCCT-TAGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
* *
40963108 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
40963135 TACCCTTAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
40963162 TACCCCCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
40963189 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
40963216 CACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
40963243 TACCCCCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
40963270 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
40963297 CACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
40963324 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
40963351 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
40963378 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
40963400 TAAAATACCC
Statistics
Matches: 325, Mismatches: 46, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 323 0.99
28 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:40964669 original size:25 final size:25
Alignment explanation
Indices: 40964640--40964687 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
40964630 TTATAATATG
* * *
40964640 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
40964665 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
40964688 GTTTATGTAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:40964756 original size:20 final size:20
Alignment explanation
Indices: 40964731--40964789 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
40964721 TAAATATGGT
40964731 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
40964751 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
40964771 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
40964790 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:40964867 original size:24 final size:24
Alignment explanation
Indices: 40964840--40964916 Score: 127
Period size: 24 Copynumber: 3.2 Consensus size: 24
40964830 GAGGAAGTGA
*
40964840 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
40964864 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
40964888 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
40964912 AAAAG
1 AAAAG
40964917 AGGCCAGGCC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:40965162 original size:31 final size:31
Alignment explanation
Indices: 40965127--40965221 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
40965117 CGTTTACAGT
40965127 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
40965158 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* *
40965189 AAAGGCTTCTGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
40965220 AA
1 AA
40965222 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:40966371 original size:23 final size:23
Alignment explanation
Indices: 40966341--40966385 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
40966331 CGTAAAGTCT
40966341 GCAACATAGTCCTCAAATGCTTC
1 GCAACATAGTCCTCAAATGCTTC
40966364 GCAACATAGTCCTCAAATGCTT
1 GCAACATAGTCCTCAAATGCTT
40966386 TGCATGCTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (23 bp):
GCAACATAGTCCTCAAATGCTTC
Found at i:40989383 original size:21 final size:21
Alignment explanation
Indices: 40989357--40989399 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
40989347 GGTTCGAGAG
40989357 TAAACCAAGAACTTTAGAAAA
1 TAAACCAAGAACTTTAGAAAA
40989378 TAAACCAAGAACTTTAGAAAA
1 TAAACCAAGAACTTTAGAAAA
40989399 T
1 T
40989400 TTTCACAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.56, C:0.14, G:0.09, T:0.21
Consensus pattern (21 bp):
TAAACCAAGAACTTTAGAAAA
Found at i:40990703 original size:42 final size:42
Alignment explanation
Indices: 40990657--40990736 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
40990647 GTTTTACAAG
40990657 AAATCTCATA-TCGATGCCATATCCCAGATATGGTCTTAGACA
1 AAATCTCATATTC-ATGCCATATCCCAGATATGGTCTTAGACA
*
40990699 AAATCTCATATTCATTCCATATCCCAGATATGGTCTTA
1 AAATCTCATATTCATGCCATATCCCAGATATGGTCTTA
40990737 CACATAGTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.33
Consensus pattern (42 bp):
AAATCTCATATTCATGCCATATCCCAGATATGGTCTTAGACA
Found at i:40998294 original size:42 final size:42
Alignment explanation
Indices: 40998182--40998336 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
40998172 TACTACACCA
* ** *
40998182 ATGCCATATCCCAGTTATGGTCTTACATGGGATCT-AGTATCC
1 ATGCCATATCCCAGTTATGGTCTTACACGAAATCTCA-TATCG
* * *
40998224 ATGCCAATAGCCTAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGTTATGGTCTTACACGAAATCTCATATCG
* * *
40998267 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATTG
1 ATGCCATATCCCAGTTATGGTCTTACACGAAATCTCATATCG
*
40998309 ATGCCATATCCCAGTTATGGCCTTACAC
1 ATGCCATATCCCAGTTATGGTCTTACAC
40998337 ATAGTCTCGA
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
42 63 0.65
43 33 0.34
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGTTATGGTCTTACACGAAATCTCATATCG
Found at i:40999805 original size:20 final size:20
Alignment explanation
Indices: 40999776--40999820 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
40999766 AGCACATGTA
* *
40999776 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
40999796 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
40999816 TTCAT
1 TTCAT
40999821 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:41005938 original size:40 final size:40
Alignment explanation
Indices: 41005811--41005940 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
41005801 ATGCTGGAAA
* * *
41005811 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
41005851 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
41005891 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
41005931 TTATATCCGG
1 TTATATCCGG
41005941 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:41013556 original size:40 final size:40
Alignment explanation
Indices: 41013429--41013558 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
41013419 ATGCTGGAAA
* * *
41013429 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
41013469 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
41013509 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
41013549 TTATATCCGG
1 TTATATCCGG
41013559 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:41016878 original size:37 final size:37
Alignment explanation
Indices: 41016819--41016927 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
41016809 AGCTCAGATG
* *
41016819 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
41016856 AAATCTCCACACGTGGTCATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
41016893 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
41016928 ATATATTTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:41017126 original size:48 final size:48
Alignment explanation
Indices: 41017068--41017476 Score: 674
Period size: 48 Copynumber: 8.5 Consensus size: 48
41017058 ATATACACAC
* * * * *
41017068 ATCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACGTATACGT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41017116 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
41017164 ATCTCATATATATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
41017214 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
41017262 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41017310 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41017358 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
41017406 ATCCCATACATTTTTCACATTAGCCATTCGGTTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41017454 ATCCCATACATATTTCACATTAG
1 ATCTCATACATATTTCACATTAG
41017477 TCAATATTTC
Statistics
Matches: 346, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
48 301 0.87
50 45 0.13
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:41017493 original size:65 final size:65
Alignment explanation
Indices: 41017418--41017541 Score: 230
Period size: 65 Copynumber: 1.9 Consensus size: 65
41017408 CCCATACATT
*
41017418 TTTCACATTAGCCATTCGGTTTTACCACATATACATATCCCATACATATTTCACATTAGTCAATA
1 TTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGTCAATA
*
41017483 TTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAG
41017542 CCATTCGGCT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.37
Consensus pattern (65 bp):
TTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGTCAATA
Found at i:41017501 original size:161 final size:161
Alignment explanation
Indices: 41017319--41017616 Score: 560
Period size: 161 Copynumber: 1.9 Consensus size: 161
41017309 TATCCCATAC
41017319 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCA
* **
41017384 TTCGGCTTTACCACATATACATATCCCATACATTTTTCACATTAGCCATTCGGTTTTACCACATA
66 TTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCATTCGGCCTTACCACATA
41017449 TACATATCCCATACATATTTCACATTAGTCA
131 TACATATCCCATACATATTTCACATTAGTCA
*
41017480 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCA
41017545 TTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCATTCGGCCTTACCACATA
66 TTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCATTCGGCCTTACCACATA
41017610 TACATAT
131 TACATAT
41017617 ATTTATCTTG
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
161 133 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (161 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCATTCGGCCTTACCACATA
TACATATCCCATACATATTTCACATTAGTCA
Found at i:41017504 original size:113 final size:113
Alignment explanation
Indices: 41017367--41017589 Score: 419
Period size: 113 Copynumber: 2.0 Consensus size: 113
41017357 TATCCCATAC
*
41017367 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATTTTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCA
*
41017432 TTCGGTTTTACCACATATACATATCCCATACATATTTCACATTAGTCA
66 TTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGTCA
*
41017480 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCA
41017545 TTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAG
66 TTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAG
41017590 CCATTCGGCC
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 107 1.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (113 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGTCA
Found at i:41017513 original size:48 final size:47
Alignment explanation
Indices: 41017461--41017610 Score: 157
Period size: 48 Copynumber: 3.1 Consensus size: 47
41017451 CATATCCCAT
41017461 ACATATTTCACATTAGTCAATATTTCACATTAGCCATTCGGCTTTACC
1 ACATATTTCACATTA-TCAATATTTCACATTAGCCATTCGGCTTTACC
* *
41017509 ACATA-TACATATCTCAT-ACATATTTCACATTAGCCATTCGGCTTTACC
1 ACATATTTCACAT-T-ATCA-ATATTTCACATTAGCCATTCGGCTTTACC
* *
41017557 ACATATACATATCCCA-TA-C-ATATTTCACATTAGCCATTCGGCCTTACC
1 ACATAT---T-TCACATTATCAATATTTCACATTAGCCATTCGGCTTTACC
41017605 ACATAT
1 ACATAT
41017611 ACATATATTT
Statistics
Matches: 87, Mismatches: 6, Indels: 18
0.78 0.05 0.16
Matches are distributed among these distances:
47 6 0.07
48 75 0.86
49 1 0.01
50 1 0.01
51 1 0.01
52 1 0.01
53 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (47 bp):
ACATATTTCACATTATCAATATTTCACATTAGCCATTCGGCTTTACC
Found at i:41022359 original size:20 final size:20
Alignment explanation
Indices: 41022330--41022374 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
41022320 AGTACATGTA
*
41022330 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAATTT
*
41022350 TTCATCAAATTTTACAATTT
1 TTCATAAAATTTTACAATTT
41022370 TTCAT
1 TTCAT
41022375 TTTAGTCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTTACAATTT
Found at i:41036069 original size:8 final size:7
Alignment explanation
Indices: 41036045--41036075 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
41036035 TATGTTACTA
41036045 AAAATAT
1 AAAATAT
41036052 AAAATAT
1 AAAATAT
41036059 AAAATATT
1 AAAATA-T
41036067 AAAATAT
1 AAAATAT
41036074 AA
1 AA
41036076 TTTTCCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAATAT
Found at i:41036069 original size:15 final size:14
Alignment explanation
Indices: 41036045--41036075 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
41036035 TATGTTACTA
41036045 AAAATATAAAATAT
1 AAAATATAAAATAT
41036059 AAAATATTAAAATAT
1 AAAATA-TAAAATAT
41036074 AA
1 AA
41036076 TTTTCCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATATAAAATAT
Found at i:41036478 original size:14 final size:14
Alignment explanation
Indices: 41036456--41036485 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
41036446 TTTGCTTGGT
41036456 TTAGGGTTTTAGGG
1 TTAGGGTTTTAGGG
*
41036470 TTAGTGTTTTAGGG
1 TTAGGGTTTTAGGG
41036484 TT
1 TT
41036486 TTTAAGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (14 bp):
TTAGGGTTTTAGGG
Found at i:41036901 original size:125 final size:124
Alignment explanation
Indices: 41036679--41037267 Score: 874
Period size: 125 Copynumber: 4.7 Consensus size: 124
41036669 AACTTCTTAT
* * * *
41036679 TTTTTTCTATAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCAGAACAAATAGTGTCGAA
1 TTTTTTCTACAGTAGTATCT-GAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
* * *
41036744 AATGCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTAGACAC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACAC
* *
41036804 TTTTTTCTACAGTAGTATTTGAAAAATTAATTTTGAGAAGACGTTTTTGAACAAATAGTGTCCAA
1 TTTTTTCTACAGTAGTATCTGAAAAA-TAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
* *
41036869 AACGCTTCAAGCATGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGGA-AC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGT-GGACAC
* *
41036929 TTTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGCCCAA
1 TTTTTTCTACAGTAGTATCT-GAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
* * * *
41036994 AACGCTTCAAGCAGGATGCACTGTCACCAAAATTACTGAAAAAAGCTCCCATGTTGACGC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACAC
*
41037054 TCTTTTTCTACAATAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
1 T-TTTTTCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
* * * * * *
41037119 AATGCTTTAACCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGTTCCCACGTGGACGC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACAC
* * *
41037179 TCTTTTTCTACAGTAGTATCTGAAAAATACTTTTGAGAAGACCTTTCTGAATAAATAGTGTCCAA
1 T-TTTTTCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
41037244 AACGCTTCAAGCAGGATGCACTGT
65 AACGCTTCAAGCAGGATGCACTGT
41037268 TTGTAACACC
Statistics
Matches: 420, Mismatches: 39, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
124 7 0.02
125 388 0.92
126 25 0.06
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (124 bp):
TTTTTTCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACAC
Found at i:41038110 original size:42 final size:42
Alignment explanation
Indices: 41038063--41038154 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
41038053 TGGCCCTTAG
* ** *
41038063 GCCCATTTCAATATCACATGTAATGTCAACGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAACGAATGTATGCAA
*
41038105 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAACGAATGTATGCAA
41038147 GCCCATTT
1 GCCCATTT
41038155 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAACGAATGTATGCAA
Found at i:41038365 original size:26 final size:26
Alignment explanation
Indices: 41038303--41038444 Score: 209
Period size: 26 Copynumber: 5.6 Consensus size: 26
41038293 TTAATAACTA
*
41038303 GGCA-AAGCCCTTTTCGGTAAACT-G
1 GGCATAAGCCCTTTTCAGTAAACTGG
* *
41038327 GGCA-AAGCCCTTTTTAATAAACTGG
1 GGCATAAGCCCTTTTCAGTAAACTGG
41038352 GGCATAAGCCCTTTTCAGTAAACTGG
1 GGCATAAGCCCTTTTCAGTAAACTGG
*
41038378 GGCATAAGCCCTTTTCAATAAACTGG
1 GGCATAAGCCCTTTTCAGTAAACTGG
* *
41038404 GGCATAAGCCCTTTTCGGTAAAATGG
1 GGCATAAGCCCTTTTCAGTAAACTGG
41038430 GGCATAAGCCCTTTT
1 GGCATAAGCCCTTTT
41038445 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
24 20 0.19
25 5 0.05
26 82 0.77
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
GGCATAAGCCCTTTTCAGTAAACTGG
Found at i:41038404 original size:52 final size:52
Alignment explanation
Indices: 41038303--41038444 Score: 236
Period size: 52 Copynumber: 2.8 Consensus size: 52
41038293 TTAATAACTA
*
41038303 GGCA-AAGCCCTTTTCGGTAAACT-GGGCA-AAGCCCTTTTTAATAAACTGG
1 GGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTGG
*
41038352 GGCATAAGCCCTTTTCAGTAAACTGGGGCATAAGCCCTTTTCAATAAACTGG
1 GGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTGG
*
41038404 GGCATAAGCCCTTTTCGGTAAAATGGGGCATAAGCCCTTTT
1 GGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
41038445 GCACTTCCTC
Statistics
Matches: 86, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
49 4 0.05
50 18 0.21
51 5 0.06
52 59 0.69
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
GGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTGG
Found at i:41039336 original size:27 final size:27
Alignment explanation
Indices: 41039245--41039328 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
41039235 GGGCATATTC
* *
41039245 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
41039272 GTCACTTTACCCAACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
*
41039299 ATCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
41039326 GTC
1 GTC
41039329 TTTTTACCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:41039344 original size:27 final size:27
Alignment explanation
Indices: 41039245--41039345 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 27
41039235 GGGCATATTC
*
41039245 GTCATTTTACC-ATACAGGGG-TATTACG
1 GTCACTTTACCTA-ACAGGGGCT-TTACG
*
41039272 GTCACTTTACCCAACAGGGGCTTTACG
1 GTCACTTTACCTAACAGGGGCTTTACG
*
41039299 ATCACTTTACCCT-ACAGGGGCTTTACG
1 GTCACTTTA-CCTAACAGGGGCTTTACG
** *
41039326 GTCTTTTTACCTAAAAGGGG
1 GTCACTTTACCTAACAGGGG
41039346 TATTTTAGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
26 3 0.05
27 56 0.89
28 4 0.06
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCTAACAGGGGCTTTACG
Found at i:41039540 original size:54 final size:52
Alignment explanation
Indices: 41039480--41039793 Score: 306
Period size: 54 Copynumber: 5.8 Consensus size: 52
41039470 TGTAAATCAG
* * *
41039480 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTACAAACT-AGGGTATTTTGGTAATTTTACAAACCA
**
41039533 GTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGA
1 G-GGTATTTTGGTAATTTTACAAACTA-GGGTATTTTGGTAATTTTACAAA-CCA
* * * *
41039588 GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTTACAAGCTA
1 GGGTATTTTGGTAATTTTACAAACTA-GGGTATTTTGGTAA-TTTTACAAACCA
* * * **
41039642 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTCAGTAATTTTACAAACCA
1 GGGTATTTTGGTAATTTTAC-AAACTAGGGTATTTTGGTAATTTTACAAACCA
* ** * * *
41039695 GGGGTATTTTAGTAATTTTTAC-AGGTAGGGTATTTTGGTAATTTTACTGATCGA
1 -GGGTATTTTGGTAA-TTTTACAAACTAGGGTATTTTGGTAATTTTAC-AAACCA
** * *
41039749 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTTACAAA-CTAGGGTATTTTGGTAATTTT
41039794 GTAAATCGAG
Statistics
Matches: 218, Mismatches: 33, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
52 4 0.02
53 46 0.21
54 149 0.68
55 19 0.09
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (52 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAACCA
Found at i:41039571 original size:81 final size:81
Alignment explanation
Indices: 41039480--41039793 Score: 452
Period size: 81 Copynumber: 3.9 Consensus size: 81
41039470 TGTAAATCAG
* * * *
41039480 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAG
*
41039545 TAA-TTTTACAAACTA
66 TAATTTTTACAAGCTA
* *
41039560 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTA
1 -GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTA
41039625 GTAATTTTTACAAGCTA
65 GTAATTTTTACAAGCTA
** *
41039642 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAG
*
41039707 TAATTTTTAC-AGGTA
66 TAATTTTTACAAGCTA
** * ** *
41039722 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAG
41039787 TAATTTT
66 TAATTTT
41039794 GTAAATCGAG
Statistics
Matches: 216, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
80 71 0.33
81 134 0.62
82 11 0.05
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAG
TAATTTTTACAAGCTA
Found at i:41039794 original size:27 final size:27
Alignment explanation
Indices: 41039367--41039807 Score: 241
Period size: 27 Copynumber: 16.3 Consensus size: 27
41039357 TTTCATCCTA
* * * * *
41039367 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
*** * *
41039394 CAAGGGTATTTCAATAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *** *
41039421 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-T
* * *
41039450 CAATGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAT
* *
41039477 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
** * * *
41039504 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
41039530 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTATAAAT
* *
41039557 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTTGGTAATTTTATAAAT
** * *
41039585 TGAGGGTATTTCGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
41039611 CTAGGGGTATTTTAGTAATTTT-TACAAG
1 C-AAGGGTATTTTGGTAATTTTATA-AAT
* *
41039639 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAT
* ** * *
41039666 CGAGGGTATTTCAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * * *
41039693 CAGGGGTATTTTAGTAATTTT-TACAG
1 CAAGGGTATTTTGGTAATTTTATAAAT
** *
41039719 GTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAT
* * *
41039746 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
41039773 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
41039800 CGAGGGTA
1 CAAGGGTA
41039808 AAACAGTAAT
Statistics
Matches: 322, Mismatches: 76, Indels: 32
0.75 0.18 0.07
Matches are distributed among these distances:
26 24 0.07
27 267 0.83
28 16 0.05
29 15 0.05
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:41039815 original size:27 final size:27
Alignment explanation
Indices: 41039785--41039915 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 27
41039775 AGGGTATTTT
*
41039785 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
41039812 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
41039839 AATAATTCTATAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
41039866 GGTAATTTTGTAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
41039893 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
41039916 CTTTGGTAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:41039928 original size:54 final size:54
Alignment explanation
Indices: 41039758--41039915 Score: 181
Period size: 54 Copynumber: 2.9 Consensus size: 54
41039748 AGGGTATTTT
* **** * * *
41039758 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAAC
* * *
41039812 AGTAATTCTGTAAATCAAGGGTAAAACAATAATTCTATAAGTCGAGGGTAAAAC
1 GGTAATTTTGTAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAAC
** **
41039866 GGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 GGTAATTTTGTAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGTA
41039916 CTTTGGTAAT
Statistics
Matches: 86, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 86 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (54 bp):
GGTAATTTTGTAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAAC
Found at i:41039938 original size:54 final size:54
Alignment explanation
Indices: 41039795--41039940 Score: 148
Period size: 54 Copynumber: 2.7 Consensus size: 54
41039785 AGTAATTTTG
* * ** **
41039795 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAATAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTTTACAAATTGAGGGTAAAACAATAATTCTA
* ** **
41039849 TAAGTCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTTTACAAATTGAGGGTAAAACAATAATTCTA
**** *
41039903 TAAATCGAGGGTACTTTGGTAATTTTACAATTTGAGGG
1 TAAATCGAGGGTAAAACGGTAATTTTACAAATTGAGGG
41039941 CATTTCAGTA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (54 bp):
TAAATCGAGGGTAAAACGGTAATTTTACAAATTGAGGGTAAAACAATAATTCTA
Found at i:41046897 original size:29 final size:29
Alignment explanation
Indices: 41046819--41046922 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 29
41046809 AATGAGATCA
*
41046819 GGCCTAATAGGCCATATGAATGTGATTTG
1 GGCCTAATGGGCCATATGAATGTGATTTG
** *
41046848 GGCCTAGCGGGCCATACGAATGTGATTTG
1 GGCCTAATGGGCCATATGAATGTGATTTG
* * ** *
41046877 GGCCTAATGGGCAACATGAAT-AAAATTG
1 GGCCTAATGGGCCATATGAATGTGATTTG
*
41046905 GGCCTAGTGGGCCATATG
1 GGCCTAATGGGCCATATG
41046923 TATGCATGTA
Statistics
Matches: 60, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
28 19 0.32
29 41 0.68
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
GGCCTAATGGGCCATATGAATGTGATTTG
Found at i:41049490 original size:16 final size:16
Alignment explanation
Indices: 41049471--41049505 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
41049461 GAATAATTTT
41049471 TGTGATTATGATACTA
1 TGTGATTATGATACTA
41049487 TGTGATTATGATACTA
1 TGTGATTATGATACTA
41049503 TGT
1 TGT
41049506 CTTTGTATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.46
Consensus pattern (16 bp):
TGTGATTATGATACTA
Found at i:41052224 original size:7 final size:7
Alignment explanation
Indices: 41052148--41052226 Score: 50
Period size: 7 Copynumber: 11.1 Consensus size: 7
41052138 CTAGCAGTAG
41052148 GGGTTTA
1 GGGTTTA
* *
41052155 GGGGTAA
1 GGGTTTA
41052162 GGGTTTA
1 GGGTTTA
* *
41052169 TGTTTTA
1 GGGTTTA
*
41052176 GGATTTA
1 GGGTTTA
*
41052183 AGGTTTA
1 GGGTTTA
* *
41052190 CGATTTA
1 GGGTTTA
*
41052197 GGGATTA
1 GGGTTTA
*
41052204 GGGATTAA
1 GGG-TTTA
*
41052212 GAGTTTA
1 GGGTTTA
41052219 GGGTTTA
1 GGGTTTA
41052226 G
1 G
41052227 ATTAATTAAT
Statistics
Matches: 51, Mismatches: 20, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
7 47 0.92
8 4 0.08
ACGTcount: A:0.24, C:0.01, G:0.35, T:0.39
Consensus pattern (7 bp):
GGGTTTA
Found at i:41052390 original size:14 final size:14
Alignment explanation
Indices: 41052368--41052421 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
41052358 TTAATTATCA
*
41052368 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
* *
41052382 TTATGGTTTAAGAT
1 TTATGGTTTAGGGT
*
41052396 ATATGGTTTAGGGT
1 TTATGGTTTAGGGT
*
41052410 TTAAGGTTTAGG
1 TTATGGTTTAGG
41052422 AGTTAATTAG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:41052477 original size:14 final size:15
Alignment explanation
Indices: 41052452--41052480 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41052442 TTGATGATGA
41052452 ATTATGGGTTTAGGG
1 ATTATGGGTTTAGGG
41052467 ATTAT-GGTTTAGGG
1 ATTATGGGTTTAGGG
41052481 TTGGAGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (15 bp):
ATTATGGGTTTAGGG
Found at i:41052524 original size:7 final size:7
Alignment explanation
Indices: 41052457--41052570 Score: 72
Period size: 7 Copynumber: 16.1 Consensus size: 7
41052447 GATGAATTAT
41052457 GGGTTTA
1 GGGTTTA
*
41052464 GGGATTA
1 GGGTTTA
*
41052471 TGGTTTA
1 GGGTTTA
41052478 GGG-TT-
1 GGGTTTA
41052483 GGAGTTTA
1 GG-GTTTA
* *
41052491 AGGTGTA
1 GGGTTTA
*
41052498 GTGGTTTG
1 G-GGTTTA
*
41052506 GGGTTAA
1 GGGTTTA
*
41052513 TGGTTTA
1 GGGTTTA
41052520 GGGTTTA
1 GGGTTTA
*
41052527 GTGTTTA
1 GGGTTTA
*
41052534 GTGTTTA
1 GGGTTTA
*
41052541 TGGG-ATA
1 -GGGTTTA
*
41052548 GGGGTTA
1 GGGTTTA
41052555 GAGGTTTA
1 G-GGTTTA
41052563 GGGTTTA
1 GGGTTTA
41052570 G
1 G
41052571 ATTAATTAGT
Statistics
Matches: 81, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
5 2 0.02
6 6 0.07
7 59 0.73
8 14 0.17
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:41053372 original size:16 final size:15
Alignment explanation
Indices: 41053328--41053380 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
41053318 ATATATTTAT
41053328 AAATTTT-AAATTT-
1 AAATTTTAAAATTTC
*
41053341 AAATATTAAATAATTTC
1 AAAT-TTTAA-AATTTC
41053358 AAATTTTAAAGATTTC
1 AAATTTTAAA-ATTTC
41053374 AAATTTT
1 AAATTTT
41053381 CAATAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
13 4 0.12
14 2 0.06
15 2 0.06
16 21 0.64
17 4 0.12
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (15 bp):
AAATTTTAAAATTTC
Found at i:41053406 original size:16 final size:16
Alignment explanation
Indices: 41053353--41053406 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
41053343 ATATTAAATA
*
41053353 ATTTCAAATTTTAAAG
1 ATTTCAAATTTTCAAG
41053369 ATTTCAAATTTTC-A-
1 ATTTCAAATTTTCAAG
41053383 A--T--AATTTTCAAG
1 ATTTCAAATTTTCAAG
41053395 ATTTCAAATTTT
1 ATTTCAAATTTT
41053407 ATCTAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 1 0.03
12 2 0.06
14 2 0.06
15 1 0.03
16 18 0.58
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (16 bp):
ATTTCAAATTTTCAAG
Found at i:41059805 original size:40 final size:40
Alignment explanation
Indices: 41059761--41059946 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
41059751 GCTACTCATT
*
41059761 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
41059801 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
41059841 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
41059881 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
41059922 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41059947 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.89
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:41075106 original size:2 final size:2
Alignment explanation
Indices: 41075099--41075128 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
41075089 ACATTCGGAC
41075099 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41075129 GCATGTGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41075629 original size:29 final size:29
Alignment explanation
Indices: 41075594--41075667 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
41075584 GTTGTGAGAT
* *
41075594 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
41075623 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
41075652 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41075668 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:41083706 original size:93 final size:93
Alignment explanation
Indices: 41083594--41083764 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
41083584 GCCCATAAGT
*
41083594 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
41083658 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* *
41083687 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
41083752 CGAGTTCGGATGC
66 CGAGTTCGGATGC
41083765 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:41083780 original size:46 final size:46
Alignment explanation
Indices: 41083586--41083766 Score: 219
Period size: 46 Copynumber: 3.9 Consensus size: 46
41083576 TGTAACCCGC
*
41083586 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-GCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC--TCGCAT
* *
41083632 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCG---CAT
* * *
41083682 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
41083725 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
41083767 AACCATCCTA
Statistics
Matches: 115, Mismatches: 11, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.59
47 33 0.29
48 3 0.03
49 2 0.02
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
Found at i:41085642 original size:17 final size:17
Alignment explanation
Indices: 41085620--41085652 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41085610 GCAGTCTCTA
*
41085620 TCAGTTTTGCTACAGTC
1 TCAGTTTTACTACAGTC
41085637 TCAGTTTTACTACAGT
1 TCAGTTTTACTACAGT
41085653 TTTAGTATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.42
Consensus pattern (17 bp):
TCAGTTTTACTACAGTC
Found at i:41088257 original size:12 final size:12
Alignment explanation
Indices: 41088240--41088264 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41088230 TTTTGGATGA
41088240 ATTTGATTGAAT
1 ATTTGATTGAAT
41088252 ATTTGATTGAAT
1 ATTTGATTGAAT
41088264 A
1 A
41088265 AGTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (12 bp):
ATTTGATTGAAT
Found at i:41090267 original size:23 final size:22
Alignment explanation
Indices: 41090236--41090279 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
41090226 TGAAATAAAA
*
41090236 GTTTAATATTGTAATTTGTTTTT
1 GTTTAATA-TATAATTTGTTTTT
*
41090259 GTTTGATATATAATTTGTTTT
1 GTTTAATATATAATTTGTTTT
41090280 GATATATGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.64
Consensus pattern (22 bp):
GTTTAATATATAATTTGTTTTT
Found at i:41090603 original size:32 final size:32
Alignment explanation
Indices: 41090562--41090657 Score: 174
Period size: 32 Copynumber: 3.0 Consensus size: 32
41090552 ATATACTACG
*
41090562 ATAGTGTGATGACTTCTGACATTTAAAAATGT
1 ATAGTGTGATGACTTCTGACATTTGAAAATGT
41090594 ATAGTGTGATGACTTCTGACATTTGAAAATGT
1 ATAGTGTGATGACTTCTGACATTTGAAAATGT
*
41090626 ATAGTGTGATGACTTCTGCCATTTGAAAATGT
1 ATAGTGTGATGACTTCTGACATTTGAAAATGT
41090658 GTTTTCATAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (32 bp):
ATAGTGTGATGACTTCTGACATTTGAAAATGT
Found at i:41094008 original size:39 final size:40
Alignment explanation
Indices: 41093907--41094110 Score: 214
Period size: 40 Copynumber: 5.1 Consensus size: 40
41093897 CATTGGAATG
* * *
41093907 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
*
41093947 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTATT
* * **
41093987 ATATCC-GGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
* * * *
41094026 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
* ** * * * *
41094066 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
41094106 ATATC
1 ATATC
41094111 GGTTAAATTC
Statistics
Matches: 136, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 33 0.24
40 103 0.76
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
Found at i:41094045 original size:79 final size:80
Alignment explanation
Indices: 41093907--41094061 Score: 215
Period size: 79 Copynumber: 1.9 Consensus size: 80
41093897 CATTGGAATG
* * ** *
41093907 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
41093971 ATTCGTGCGAGTTGTT
66 ATT-GTGCGAGTTGTT
* * *
41093987 ATATCC-GGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
41094051 ATTGTGCGAGT
66 ATTGTGCGAGT
41094062 CACTATAACC
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
79 57 0.86
80 9 0.14
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTTGTT
Found at i:41102006 original size:40 final size:39
Alignment explanation
Indices: 41101905--41102111 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
41101895 CATTGGAATG
* * *
41101905 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTCATT
**
41101945 ATATCC-GGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCATT
* * **
41101984 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTCATT
* * *
41102024 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTCATT
* ** * *
41102064 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTCATT
41102104 ATATCCGG
1 ATATCCGG
41102112 TTAAATTCCG
Statistics
Matches: 140, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
38 3 0.02
39 32 0.23
40 102 0.73
41 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCATT
Found at i:41102110 original size:80 final size:79
Alignment explanation
Indices: 41101909--41102115 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 79
41101899 GGAATGATAT
* * *
41101909 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGCTAAGACCCGAAGGCATTCGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGTTAAGACCCGAAGGCATTCGT
*** *
41101974 GCGAGTTGTTATAT
66 GCGAGTCACTATAA
* * ** *
41101988 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCC-GGTTAAGACCCGAAGGC-ATTC
41102052 GTGCGAGTCACTATAA
64 GTGCGAGTCACTATAA
** * * *
41102068 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGTTAA
41102116 ATTCCGAAGG
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
79 41 0.39
80 61 0.58
81 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGTTAAGACCCGAAGGCATTCGT
GCGAGTCACTATAA
Found at i:41109989 original size:40 final size:39
Alignment explanation
Indices: 41109896--41110086 Score: 190
Period size: 39 Copynumber: 4.9 Consensus size: 39
41109886 CATTGGAATG
* * **
41109896 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTTT
*
41109934 ATATCC-GGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTT-TT
* **
41109973 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTAC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTTT
* * **
41110012 AAATCCGGGTTAAGACCCGAAGGCA-TTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-TTT
* ** * *
41110051 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT
41110087 CATTATATTC
Statistics
Matches: 126, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
37 16 0.13
38 23 0.18
39 50 0.40
40 37 0.29
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTTT
Found at i:41110101 original size:78 final size:79
Alignment explanation
Indices: 41109900--41110102 Score: 225
Period size: 78 Copynumber: 2.6 Consensus size: 79
41109890 GGAATGATAT
* *
41109900 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAG-AATTATATCCGGCTAAGACCCGAAGGCATTCGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGTTAAGACCCGAAGGCATTCGT
*** *
41109963 GCGAGTTGTTATAT
66 GCGAGTCACTATAA
* * * *
41109977 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTA-CAAATCCGGGTTAAGACCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCC-GGTTAAGACCCGAAGGCATTCG
41110040 TGCGAGTCACTATAA
65 TGCGAGTCACTATAA
** * * * *
41110055 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATTATATTCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGTTAA
41110103 ATTCCGAAGT
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
77 19 0.18
78 60 0.58
79 24 0.23
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGTTAAGACCCGAAGGCATTCGT
GCGAGTCACTATAA
Found at i:41117978 original size:40 final size:40
Alignment explanation
Indices: 41117919--41118069 Score: 196
Period size: 40 Copynumber: 3.8 Consensus size: 40
41117909 CATTGGAATG
* * *
41117919 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
41117959 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
41117999 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
41118039 AAATCCGGGTTAAGACCCGAAGGCAATTGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTG
41118070 TGAGTCACTA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
39 3 0.03
40 92 0.95
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:41118125 original size:80 final size:80
Alignment explanation
Indices: 41117923--41118130 Score: 222
Period size: 80 Copynumber: 2.6 Consensus size: 80
41117913 GGAATGATAT
* * *
41117923 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGCATTCG
*** *
41117988 TGCGAGTTGTTATAT
66 TGCGAGTCACTATAA
* * ** *
41118003 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGC-ATTC
*
41118067 GTGTGAGTCACTATAA
65 GTGCGAGTCACTATAA
* ** * * *
41118083 CTGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATTATATCC-GGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAA
41118131 ATTCCGAAGG
Statistics
Matches: 104, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
79 6 0.06
80 95 0.91
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGCATTCG
TGCGAGTCACTATAA
Found at i:41121599 original size:46 final size:46
Alignment explanation
Indices: 41121425--41121599 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
41121415 TGTAACCCGC
* * * *
41121425 CCATAAGCGAACTCCGACTTAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
41121471 CCATAAGTGAACTCGGAATCAACTCAAC-AGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* **
41121520 -C-TCA-CGAACTCAAACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
41121563 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
41121600 TGCCCAAATA
Statistics
Matches: 102, Mismatches: 17, Indels: 20
0.73 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 9 0.09
46 67 0.66
47 10 0.10
48 2 0.02
49 4 0.04
50 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Done.