Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 110 of 325
Found at i:32639736 original size:40 final size:40
Alignment explanation
Indices: 32639648--32639795 Score: 223
Period size: 39 Copynumber: 3.8 Consensus size: 40
32639638 GAGAATTGAG
*
32639648 AGTGATGTATCCGGACTAA--TCCGAAGAGTATTC-TGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
32639685 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
32639725 AGTGATGTATCCGGACTAAGTT-CGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * *
32639764 AGTGATGTATCTGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
32639796 ATCATGCTGG
Statistics
Matches: 102, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
37 19 0.19
39 48 0.47
40 35 0.34
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:32639790 original size:79 final size:77
Alignment explanation
Indices: 32639648--32639795 Score: 224
Period size: 79 Copynumber: 1.9 Consensus size: 77
32639638 GAGAATTGAG
* *
32639648 AGTGATGTATCCGGACTAATCCGAAGAGTATTCTGCTAGTGATGTATCCGGACTAAGTTCCGAAG
1 AGTGATGTATCCGGACTAATCCGAAGAGCATTCTGCTAGTGATGTATCCGGACTAAGTCCCGAAG
32639713 AGCATTCGTGCT
66 AGCATTCGTGCT
* * * *
32639725 AGTGATGTATCCGGACTAAGTTCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAGGTCCCGA
1 AGTGATGTATCCGGACTAA-TCCGAAGAGCATTC-TGCTAGTGATGTATCCGGACTAAGTCCCGA
32639790 AGAGCA
64 AGAGCA
32639796 ATCATGCTGG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
77 19 0.30
78 12 0.19
79 32 0.51
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (77 bp):
AGTGATGTATCCGGACTAATCCGAAGAGCATTCTGCTAGTGATGTATCCGGACTAAGTCCCGAAG
AGCATTCGTGCT
Found at i:32640624 original size:40 final size:40
Alignment explanation
Indices: 32640530--32640670 Score: 153
Period size: 40 Copynumber: 3.5 Consensus size: 40
32640520 TTCGAATGGT
* * * *
32640530 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAATTCCCGAAGGCATTTGTGC-GAGTCACTAA
*
32640571 ATCCGGG-TAAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCT-AATTCCCGAAGGCATTTGTGCGAGTCACTAA
* * *
32640611 ATCCGGGCTAATTCCCAAAGGCAATTGTGCGAATCACTATA
1 ATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTCACTA-A
32640652 A-CCGGGCT-ATGTCCCGAAG
1 ATCCGGGCTAAT-TCCCGAAG
32640671 ACAATCAAGC
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
39 2 0.02
40 56 0.64
41 29 0.33
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTCACTAA
Found at i:32643511 original size:47 final size:47
Alignment explanation
Indices: 32643396--32644219 Score: 1166
Period size: 47 Copynumber: 17.3 Consensus size: 47
32643386 ATGAGATATA
*
32643396 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA--GTG
* *
32643445 TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * *
32643492 TATATATGTGATAAAGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* *
32643539 CATATGTGTGATAA-GCCGAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
*
32643585 TATATATGTGATAAGGCCG-ATGGCCGATGTGAGGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA--GTG
*
32643633 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAG--TG
* *
32643682 TATATATGTGATAAGGCCGAGTGGCCGATGTGATGGATGTGAAAGTATG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAG--TG
*
32643731 TATATATGTGATAAGGCCGAGTGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA--GTG
* * * *
32643780 TATATATGTGATAAGACCGAGTGGCCAATGTGATGAATGTGACAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * *
32643827 TATATATGTGATAAAGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * *
32643874 CATATGTGTGATAAGGCCGAGTGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
*
32643921 TATATATGTGATAAGGCCGAGTGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA--GTG
* *
32643970 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * *
32644017 TATATATGTGATAAAGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* *
32644064 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * *
32644111 TATATATGTGATAAAGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * * * *
32644158 CATATGTGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
*
32644205 TATAAATGTGATAAG
1 TATATATGTGATAAG
32644220 TCCCGAAGGG
Statistics
Matches: 708, Mismatches: 57, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
46 65 0.09
47 375 0.53
48 21 0.03
49 246 0.35
51 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:32643958 original size:190 final size:188
Alignment explanation
Indices: 32643396--32644218 Score: 1245
Period size: 190 Copynumber: 4.3 Consensus size: 188
32643386 ATGAGATATA
* * * *
32643396 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA--GTGTATATATGTGATAAAG
** * * * *
32643461 CCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAAAGCCTAATGGCCCATGTGAT
64 CCTAATGGCCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCGATGTGAT
* *
32643526 GAATGTGAAAGTGCATATGTGTGATAA-GCCGAATGGCCGATGTGATGAATGTGAAAGTG
129 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * *
32643585 TATATATGTGATAAGGCCGA-TGGCCGATGTGAGGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA--GTGTATATATGTGATAAAG
*
32643649 CCTAATGGCCGATGTGATGAATGTGAAAGTATGTATATATGTGATAAGGCCGAGTGGCCGATGTG
64 CCTAATGGCCCATGTGATGAATGTGAAAG--TGTATATATGTGATAAGGCCGAGTGGCCGATGTG
* *
32643714 ATGGATGTGAAAGTATGTATATATGTGATAAGGCCGAGTGGCCGATGTGATGAATGTGAAAGTGT
127 ATGAATGTGAAAG--TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA--GT
32643779 G
188 G
* *
32643780 TATATATGTGATAAGACCGAGTGGCCAATGTGATGAATGTGACAGTGTATATATGTGATAAAGCC
1 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAAGCC
* *
32643845 TAATGGCCCATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCCGAGTGGCCGATGTGATGA
66 TAATGGCCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCGATGTGATGA
*
32643910 ATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCGATGTGATGAATGTGAAAGTGTG
131 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA--GTG
32643970 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAAGCC
1 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAAGCC
*
32644035 TAATGGCCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGA
66 TAATGGCCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCGATGTGATGA
* * *
32644100 ATGTGAAAGTGTATATATGTGATAAAGCCTAATGGCCCATGTGATGAATGTGAAAGTG
131 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
32644158 CATATGTGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAA
1 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
32644219 GTCCCGAAGG
Statistics
Matches: 593, Mismatches: 33, Indels: 17
0.92 0.05 0.03
Matches are distributed among these distances:
188 131 0.22
189 19 0.03
190 269 0.45
192 58 0.10
193 28 0.05
194 46 0.08
195 22 0.04
196 20 0.03
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (188 bp):
TATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAAGCC
TAATGGCCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCGATGTGATGA
ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:32647358 original size:47 final size:45
Alignment explanation
Indices: 32647289--32647452 Score: 172
Period size: 46 Copynumber: 3.6 Consensus size: 45
32647279 AAGGTGCCGC
* * **
32647289 CATGTCCCAGACATGGA-ATTACACTTACTCACATCTCAAGTTGATG
1 CATGTCCCAGACAT-GATCTTACACTGACT-ACATCTCAAGCCGATG
*
32647335 CCATGTCCCAGACATGATCTTACACTGACTATCATCTCGTAGCCGATG
1 -CATGTCCCAGACATGATCTTACACTGACTA-CATCTC-AAGCCGATG
* *
32647383 CATGTCCCAGACAT-ATCTTACACTGGCTTACGTCTCAAGGCCGATG
1 CATGTCCCAGACATGATCTTACACTGAC-TACATCTCAA-GCCGATG
*
32647429 CATGTCCCAGACAAG-TCTTACACT
1 CATGTCCCAGACATGATCTTACACT
32647453 AGCTCTCATA
Statistics
Matches: 102, Mismatches: 9, Indels: 13
0.82 0.07 0.10
Matches are distributed among these distances:
45 1 0.01
46 49 0.48
47 46 0.45
48 6 0.06
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGATCTTACACTGACTACATCTCAAGCCGATG
Found at i:32647471 original size:46 final size:46
Alignment explanation
Indices: 32647331--32647501 Score: 140
Period size: 46 Copynumber: 3.7 Consensus size: 46
32647321 ATCTCAAGTT
* * * *
32647331 GATGCCATGTCCCAGACATGATCTTACACT-GACTATCAT-CTCGTAGCC
1 GATG-CATGTCCCAGACAAG-TCTTACACTAG-CTCTCATAAT-GTGGCC
*
32647379 GATGCATGTCCCAGACATA-TCTTACACTGGCTTACGTC-TCAA---GGCC
1 GATGCATGTCCCAGACA-AGTCTTACACTAGC-T-C-TCAT-AATGTGGCC
32647425 GATGCATGTCCCAGACAAGTCTTACACTAGCTCTCATAATGTGGCC
1 GATGCATGTCCCAGACAAGTCTTACACTAGCTCTCATAATGTGGCC
* * *
32647471 GATGCATGTCACGGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACAAGTCTTACACTAGC
32647502 CAACAATAAC
Statistics
Matches: 103, Mismatches: 8, Indels: 26
0.75 0.06 0.19
Matches are distributed among these distances:
43 4 0.04
44 2 0.02
45 2 0.02
46 73 0.71
47 15 0.15
48 5 0.05
49 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (46 bp):
GATGCATGTCCCAGACAAGTCTTACACTAGCTCTCATAATGTGGCC
Found at i:32653006 original size:28 final size:28
Alignment explanation
Indices: 32652958--32653028 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
32652948 TTGACGTCTT
* *
32652958 GCACACTAAGTTCCGTACTCAACA-TCTC
1 GCACACTAAGTGCCATACTCAACATTC-C
* **
32652986 GCACACTAAGTGCCATTCTCAATGTTCC
1 GCACACTAAGTGCCATACTCAACATTCC
32653014 GCACACTAAGTGCCA
1 GCACACTAAGTGCCA
32653029 CATTTAGTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 35 0.95
29 2 0.05
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (28 bp):
GCACACTAAGTGCCATACTCAACATTCC
Found at i:32653297 original size:18 final size:18
Alignment explanation
Indices: 32653265--32653304 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
32653255 ATTCATTCAA
*
32653265 TTTAACACAATTTACACAT
1 TTTAACACAAATTACAC-T
32653284 TTTAACA-AAATTACACT
1 TTTAACACAAATTACACT
32653301 TTTA
1 TTTA
32653305 CCCTTAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 8 0.40
19 7 0.35
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTAACACAAATTACACT
Found at i:32656511 original size:48 final size:47
Alignment explanation
Indices: 32656410--32656584 Score: 158
Period size: 48 Copynumber: 3.7 Consensus size: 47
32656400 GGTAAAATGT
* * *
32656410 CGATGCCATGTCTCGGACATGGTCTTACACTAGCTCACATGTTGAA--GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--GTT-AATTGC
* * *
32656458 TGATGCCATGTCCCAGATATGGTCTTACACTAGCTCTCGTCTCATTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGT-TAATTGC
* * * * *
32656506 CGATGCCATGTGCCAGACACGATCTTACACTGGCTCTC-ATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTTAAT-T-GC
* *
32656554 CGATGCCATGTCCCAAACAAGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
32656585 GGCACACATA
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
46 6 0.06
47 2 0.02
48 96 0.92
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTTAATTGC
Found at i:32656585 original size:48 final size:45
Alignment explanation
Indices: 32656410--32656631 Score: 147
Period size: 48 Copynumber: 4.7 Consensus size: 45
32656400 GGTAAAATGT
* ** * * *
32656410 CGATGCCATGTCTCGGACATGGTCTTACACTAGCTCACATGTTGAAGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATT---GC
* * * * *
32656458 TGATGCCATGTCCCAGATATGGTCTTACACTAGCTCTCGTCTCATTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTC--AT-ATTGC
* * * *
32656506 CGATGCCATGTGCCAGACACGATCTTACACTGGCTCTCATAATGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-AT-T-GC
* * * *
32656554 CGATGCCATGTCCCAAACAAGGTCTTACACTGGCACACATATCAACGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAT---TGC
* *
32656602 CCACGCCATGTCCCAAACATGGTCTTACAC
1 CGATGCCATGTCCCAAACATGGTCTTACAC
32656632 GTGTCACAAT
Statistics
Matches: 141, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
46 3 0.02
47 3 0.02
48 132 0.94
50 1 0.01
51 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (45 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATTGC
Found at i:32656665 original size:36 final size:37
Alignment explanation
Indices: 32656620--32656705 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 37
32656610 TGTCCCAAAC
*
32656620 ATGGTCTTACACGT-GTCACAATGCCATAGCCCAGCT
1 ATGGTCTTACACGTCATCACAATGCCATAGCCCAGCT
* * *
32656656 ATGGCCTTACATGTCATCACGATGCCATAGCCCAGCT
1 ATGGTCTTACACGTCATCACAATGCCATAGCCCAGCT
*
32656693 ATGGTCTAACACG
1 ATGGTCTTACACG
32656706 CACTAACATG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 12 0.29
37 30 0.71
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (37 bp):
ATGGTCTTACACGTCATCACAATGCCATAGCCCAGCT
Found at i:32659342 original size:28 final size:28
Alignment explanation
Indices: 32659311--32659456 Score: 85
Period size: 28 Copynumber: 4.8 Consensus size: 28
32659301 ATATTCGACG
* *
32659311 TCTCACATACTAAGTTCCATACTCAACA
1 TCTCACACACTAAGTGCCATACTCAACA
* * *
32659339 TCTCGCACACTAAGTGCCATTCTCAATA
1 TCTCACACACTAAGTGCCATACTCAACA
* * *
32659367 TTTCGCACACTAAGTGCCGTACATAGCCGAAGCTA
1 TCTCACACACTAAGTGCCATAC-T---C-AA-C-A
* *
32659402 TCTCAAATTGGACACTAAGTGCCATACTCAATA
1 TCTC--A---CACACTAAGTGCCATACTCAACA
*
32659435 TATCACACACTAAGTGCCATAC
1 TCTCACACACTAAGTGCCATAC
32659457 ATAGCCGAAG
Statistics
Matches: 90, Mismatches: 16, Indels: 24
0.69 0.12 0.18
Matches are distributed among these distances:
28 58 0.64
29 1 0.01
31 1 0.01
32 1 0.01
33 6 0.07
35 6 0.07
36 1 0.01
39 1 0.01
40 15 0.17
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
TCTCACACACTAAGTGCCATACTCAACA
Found at i:32659418 original size:40 final size:40
Alignment explanation
Indices: 32659369--32659533 Score: 156
Period size: 40 Copynumber: 4.4 Consensus size: 40
32659359 TCTCAATATT
*
32659369 TCGCACACTAAGTGCCGTACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
* *
32659409 TTGGACACTAAGTGCCATAC-T---C-AA--TA--T---A
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
*
32659437 TCACACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
*** * * *
32659477 TCGCACACTAAGTGTTGTACATAGTCGAAACTATCTCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
32659517 TCGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
32659534 CATTTAGTCG
Statistics
Matches: 97, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
28 18 0.19
29 1 0.01
31 1 0.01
32 1 0.01
33 4 0.04
35 4 0.04
36 1 0.01
37 1 0.01
39 1 0.01
40 65 0.67
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
Found at i:32659425 original size:68 final size:68
Alignment explanation
Indices: 32659341--32659490 Score: 246
Period size: 68 Copynumber: 2.2 Consensus size: 68
32659331 ACTCAACATC
* * * *
32659341 TCGCACACTAAGTGCCATTCTCAATATTTCGCACACTAAGTGCCGTACATAGCCGAAGCTATCTC
1 TCGCACACTAAGTGCCATACTCAATATATCACACACTAAGTGCCATACATAGCCGAAGCTATCTC
32659406 AAA
66 AAA
* *
32659409 TTGGACACTAAGTGCCATACTCAATATATCACACACTAAGTGCCATACATAGCCGAAGCTATCTC
1 TCGCACACTAAGTGCCATACTCAATATATCACACACTAAGTGCCATACATAGCCGAAGCTATCTC
32659474 AAA
66 AAA
32659477 TCGCACACTAAGTG
1 TCGCACACTAAGTG
32659491 TTGTACATAG
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (68 bp):
TCGCACACTAAGTGCCATACTCAATATATCACACACTAAGTGCCATACATAGCCGAAGCTATCTC
AAA
Found at i:32677480 original size:49 final size:49
Alignment explanation
Indices: 32677423--32677604 Score: 220
Period size: 49 Copynumber: 3.7 Consensus size: 49
32677413 CACGTATGTG
* * *
32677423 GTACTAAGTGTAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTA
* * * * * ***
32677472 GTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGTGATCATGTGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCATGTGTA
*
32677523 GTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTA
* *
32677572 GTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATA
32677605 GCTTCGGCTA
Statistics
Matches: 109, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 68 0.62
50 2 0.02
51 39 0.36
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTA
Found at i:32683718 original size:24 final size:24
Alignment explanation
Indices: 32683691--32683740 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
32683681 GTGTAAACAT
32683691 ATTAGATTCTTATTCATTATTTAC
1 ATTAGATTCTTATTCATTATTTAC
32683715 ATTAGATTCTTATTCATTATTTAC
1 ATTAGATTCTTATTCATTATTTAC
32683739 AT
1 AT
32683741 ACTTGCTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.12, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTAGATTCTTATTCATTATTTAC
Found at i:32708902 original size:39 final size:39
Alignment explanation
Indices: 32708816--32709027 Score: 336
Period size: 39 Copynumber: 5.4 Consensus size: 39
32708806 AATGGTAACC
* * *
32708816 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATT
* *
32708856 CACACAATTGCCTTCGGGCTTAGCCCGGATATCATAGA-T
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACA-ATT
*
32708895 CGTACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
*
32708934 CGCACAATTACCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
32708973 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
32709012 CGCACAATTGCCTTCG
1 CGCACAATTGCCTTCG
32709028 CATCTTTGTT
Statistics
Matches: 160, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 142 0.89
40 17 0.11
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
Found at i:32717893 original size:35 final size:35
Alignment explanation
Indices: 32717826--32717993 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
32717816 TCCTCATTGA
*** *
32717826 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
32717862 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
32717902 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
32717937 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
32717972 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
32717994 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:32717952 original size:75 final size:73
Alignment explanation
Indices: 32717821--32717993 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
32717811 GGTTTTCCTC
*** * * **
32717821 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
32717886 TCAGTATGG
65 TCAGTATGG
*
32717895 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
32717959 ACTCAGTATGG
63 ACTCAGTATGG
32717970 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
32717994 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:32724217 original size:26 final size:26
Alignment explanation
Indices: 32724188--32724309 Score: 122
Period size: 26 Copynumber: 4.7 Consensus size: 26
32724178 TTAATTTACC
* *
32724188 AAATTACTGAAATACCCCCAGTTGTA
1 AAATTACCGAAATACCCCCATTTGTA
*
32724214 AAATTACC-AAAGTACCCCCGATTTATA
1 AAATTACCGAAA-TACCCCC-ATTTGTA
* * * *
32724241 AAATTACCAAAATTCCTCGATTTGTA
1 AAATTACCGAAATACCCCCATTTGTA
*
32724267 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCC-CCATTTGTA
*
32724294 AAATTACTG-AATACCC
1 AAATTACCGAAATACCC
32724310 TCGACATGTA
Statistics
Matches: 80, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
25 3 0.04
26 41 0.51
27 33 0.41
28 3 0.04
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (26 bp):
AAATTACCGAAATACCCCCATTTGTA
Found at i:32724242 original size:27 final size:26
Alignment explanation
Indices: 32724209--32724340 Score: 140
Period size: 27 Copynumber: 5.0 Consensus size: 26
32724199 ATACCCCCAG
*
32724209 TTGTAAAATTACCAAAGTACCCCCGAT
1 TTGTAAAATTACCAAA-TACCCTCGAT
* *
32724236 TTATAAAATTACCAAA-ATTCCTCGAT
1 TTGTAAAATTACCAAATA-CCCTCGAT
*
32724262 TTGTAAAATTACCGAAATACCCTCAAT
1 TTGTAAAATTACC-AAATACCCTCGAT
** *
32724289 TTGTAAAATTACTGAATACCCTCGAC
1 TTGTAAAATTACCAAATACCCTCGAT
* *
32724315 ATGTAAAATTATCAAAGTACCCTCGA
1 TTGTAAAATTACCAAA-TACCCTCGA
32724341 ATTACAAAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
25 1 0.01
26 40 0.46
27 45 0.52
28 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGAT
Found at i:32724319 original size:26 final size:27
Alignment explanation
Indices: 32724263--32724338 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 27
32724253 TTCCTCGATT
**
32724263 TGTAAAATTACCGAAATACCCTCAATT
1 TGTAAAATTACCGAAATACCCTCAACA
* *
32724290 TGTAAAATTACTG-AATACCCTCGACA
1 TGTAAAATTACCGAAATACCCTCAACA
*
32724316 TGTAAAATTATC-AAAGTACCCTC
1 TGTAAAATTACCGAAA-TACCCTC
32724339 GAATTACAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 22 0.54
27 19 0.46
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTCAACA
Found at i:32724337 original size:53 final size:53
Alignment explanation
Indices: 32724188--32724343 Score: 156
Period size: 53 Copynumber: 2.9 Consensus size: 53
32724178 TTAATTTACC
* * * *
32724188 AAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCCGATTTATA
1 AAATTACTG-AATACCCTCGACTTGTAAAATTACCAAAGTACCCTCAATTTATA
* * * * *
32724241 AAATTAC-CAAAATTCCTCGATTTGTAAAATTACCGAAA-TACCCTCAATTTGTA
1 AAATTACTGAATA-CCCTCGACTTGTAAAATTACC-AAAGTACCCTCAATTTATA
* *
32724294 AAATTACTGAATACCCTCGACATGTAAAATTATCAAAGTACCCTCGAATT
1 AAATTACTGAATACCCTCGACTTGTAAAATTACCAAAGTACCCTC-AATT
32724344 ACAAAAATTA
Statistics
Matches: 83, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
51 3 0.04
52 5 0.06
53 65 0.78
54 10 0.12
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (53 bp):
AAATTACTGAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCAATTTATA
Found at i:32724349 original size:27 final size:27
Alignment explanation
Indices: 32724332--32724580 Score: 297
Period size: 27 Copynumber: 9.2 Consensus size: 27
32724322 ATTATCAAAG
* *
32724332 TACCCTCGAATTACAAAAATTATTATTT
1 TACCCTCGATTTAC-AAAATTATCATTT
*
32724360 TACCCTCGATTTACAGAATTA-CTATTT
1 TACCCTCGATTTACAAAATTATC-ATTT
* *
32724387 TACCCTCGATTTATAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCATTT
*
32724414 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCATTT
* * *
32724441 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTATCATTT
*
32724468 TACCCTCGATTTACAAAATTA-CTGTTT
1 TACCCTCGATTTACAAAATTATC-ATTT
* *
32724495 TAGCCTCGATTTACAAAATTA-CTGTTT
1 TACCCTCGATTTACAAAATTATC-ATTT
* *
32724522 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTATCATTT
* *
32724549 TACCATCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTATCATTT
32724576 TACCC
1 TACCC
32724581 CTAGGGTGTT
Statistics
Matches: 195, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
27 180 0.92
28 15 0.08
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTATCATTT
Found at i:32724380 original size:81 final size:80
Alignment explanation
Indices: 32724295--32724543 Score: 207
Period size: 81 Copynumber: 3.1 Consensus size: 80
32724285 CAATTTGTAA
* *
32724295 AATTACTGA-ATACCCTCGACATGTAAAATTATCAAAGTACCCTCGAATTACAAAAATTATTATT
1 AATTACT-ATATACCCTCGACATATAAAATTATCAAAGTACCCTCGAATTAC-AAAATTATCATT
32724359 TTACCCTCGATTTACAG
64 TTACCCTCGATTTACAG
* ** **** * *
32724376 AATTACTATTTTACCCTCGATTTATAAAATTATCGTTTTACCCTCGATTTACAAAATTATCGTTT
1 AATTACTA-TATACCCTCGACATATAAAATTATCAAAGTACCCTCGAATTACAAAATTATCATTT
*
32724441 TACCCTCGATTTATAG
65 TACCCTCGATTTACAG
* * ** * **** * * *
32724457 AATTATTATTTTACCCTCGATTTACAAAATTA-CTGTTTTAGCCTCGATTTACAAAATTA-CTGT
1 AATTACTA-TATACCCTCGACATATAAAATTATC-AAAGTACCCTCGAATTACAAAATTATC-AT
32724520 TTTACCCTCGATTTACAG
63 TTTACCCTCGATTTACAG
32724538 AATTAC
1 AATTAC
32724544 CATTTTACCA
Statistics
Matches: 147, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
80 3 0.02
81 111 0.76
82 33 0.22
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (80 bp):
AATTACTATATACCCTCGACATATAAAATTATCAAAGTACCCTCGAATTACAAAATTATCATTTT
ACCCTCGATTTACAG
Found at i:32724549 original size:81 final size:81
Alignment explanation
Indices: 32724332--32724580 Score: 360
Period size: 81 Copynumber: 3.1 Consensus size: 81
32724322 ATTATCAAAG
* *
32724332 TACCCTCGAATTACAAAAATTATTATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGAT
1 TACCCTCGATTTAC-AAAATTA-TGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGAT
*
32724397 TTATAAAATTA-TCGTTT
64 TTACAAAATTACTCGTTT
* *
32724414 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTATTATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTAT-GTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
32724479 TACAAAATTACT-GTTT
65 TACAAAATTACTCGTTT
* * *
32724495 TAGCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCATCGATT
1 TACCCTCGATTTACAAAATTA-TGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
*
32724560 TACAAAATTAC-CATTT
65 TACAAAATTACTCGTTT
32724576 TACCC
1 TACCC
32724581 CTAGGGTGTT
Statistics
Matches: 151, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
80 1 0.01
81 135 0.89
82 15 0.10
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTATGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTT
ACAAAATTACTCGTTT
Found at i:32725124 original size:31 final size:31
Alignment explanation
Indices: 32725085--32725164 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
32725075 TTGCATTCAC
* *
32725085 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTCACCTGATACTA
* *
32725116 TTTCTGATTCTT-ATTCTGTCACCTGATTCTA
1 ATTCTGATT-TTGATTCTGTCACCTGATACTA
*
32725147 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
32725165 ATTCTAATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 1 0.02
31 38 0.93
32 2 0.05
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTGATACTA
Found at i:32725131 original size:6 final size:6
Alignment explanation
Indices: 32725085--32725184 Score: 71
Period size: 6 Copynumber: 16.3 Consensus size: 6
32725075 TTGCATTCAC
* * * *
32725085 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG TTTCTG ATTCTT ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
32725134 -TCACCTG ATTCTA ATTCTG ATTCTG ATTCTG ATTCTA ATTCT- AGTTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
32725183 AT
1 AT
32725185 AATGTTTCTT
Statistics
Matches: 73, Mismatches: 13, Indels: 16
0.72 0.13 0.16
Matches are distributed among these distances:
5 4 0.05
6 60 0.82
7 7 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:32725193 original size:24 final size:24
Alignment explanation
Indices: 32725139--32725200 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
32725129 TTCTGTCACC
**
32725139 TGATTCTAATTCTGATTCTGATTC
1 TGATTCTAATTCTGATTCTGATAA
32725163 TGATTCTAATTCT-AGTTCTGATAA
1 TGATTCTAATTCTGA-TTCTGATAA
* *
32725187 TGTTTCTTATTCTG
1 TGATTCTAATTCTG
32725201 TAATGGGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.03
24 31 0.97
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.52
Consensus pattern (24 bp):
TGATTCTAATTCTGATTCTGATAA
Found at i:32727259 original size:53 final size:52
Alignment explanation
Indices: 32727144--32727311 Score: 137
Period size: 53 Copynumber: 3.2 Consensus size: 52
32727134 AATACTTTAG
* * * * * *
32727144 TTTACCAAATTACTGAAATACCC-CCAGTTGTAAAATTACTAAAGTACCCCCGA
1 TTTACAAAATTAC-CAAATACCCTCGACTTGTAAAATTAC-AAAGTACCCTCAA
* * *
32727197 TTTATAAAATTACCCAAAT-TCCTCGATTTGTAAAATTACCGAAA-TACCCTCAA
1 TTTACAAAATTA-CCAAATACCCTCGACTTGTAAAATTA-C-AAAGTACCCTCAA
* * *
32727250 TTTGCAAAATTACTAAATACCCTCGACATGTAAAATTATCAAAGTACCCTCGAA
1 TTTACAAAATTACCAAATACCCTCGACTTGTAAAATTA-CAAAGTACCCTC-AA
32727304 -TTACAAAA
1 TTTACAAAA
32727312 ATTATTATTT
Statistics
Matches: 92, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
52 10 0.11
53 75 0.82
54 7 0.08
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (52 bp):
TTTACAAAATTACCAAATACCCTCGACTTGTAAAATTACAAAGTACCCTCAA
Found at i:32727284 original size:26 final size:26
Alignment explanation
Indices: 32727150--32727302 Score: 132
Period size: 26 Copynumber: 5.8 Consensus size: 26
32727140 TTAGTTTACC
* *
32727150 AAATTACTGAAATACCC-CCAGTTGTA
1 AAATTACT-AAATACCCTCGATTTGTA
* *
32727176 AAATTACTAAAGTACCCCCGATTTATA
1 AAATTACTAAA-TACCCTCGATTTGTA
* *
32727203 AAATTACCCAAAT-TCCTCGATTTGTA
1 AAATTA-CTAAATACCCTCGATTTGTA
* * *
32727229 AAATTACCGAAATACCCTCAATTTGCA
1 AAATTA-CTAAATACCCTCGATTTGTA
**
32727256 AAATTACTAAATACCCTCGACATGTA
1 AAATTACTAAATACCCTCGATTTGTA
32727282 AAATTA-TCAAAGTACCCTCGA
1 AAATTACT-AAA-TACCCTCGA
32727303 ATTACAAAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
25 4 0.04
26 59 0.56
27 38 0.36
28 4 0.04
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (26 bp):
AAATTACTAAATACCCTCGATTTGTA
Found at i:32727311 original size:27 final size:26
Alignment explanation
Indices: 32727228--32727316 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 26
32727218 CTCGATTTGT
*
32727228 AAAATTACCGAAATACCCTC-AATTTGC
1 AAAATTATCGAAATACCCTCGAA-TT-C
*
32727255 AAAATTA-CTAAATACCCTCGACATGT-
1 AAAATTATCGAAATACCCTCGA-AT-TC
32727281 AAAATTATC-AAAGTACCCTCGAATTAC
1 AAAATTATCGAAA-TACCCTCGAATT-C
32727308 AAAAATTAT
1 -AAAATTAT
32727317 TATTTTACCC
Statistics
Matches: 53, Mismatches: 1, Indels: 15
0.77 0.01 0.22
Matches are distributed among these distances:
25 1 0.02
26 23 0.43
27 19 0.36
28 10 0.19
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.27
Consensus pattern (26 bp):
AAAATTATCGAAATACCCTCGAATTC
Found at i:32727385 original size:54 final size:54
Alignment explanation
Indices: 32727294--32727433 Score: 190
Period size: 54 Copynumber: 2.6 Consensus size: 54
32727284 ATTATCAAAG
* * * **
32727294 TACCCTCGAATTACAAAAATTATTATTTTACCCTCGATTTACAGTATTACTGTTT
1 TACCCTCGATTTAC-AAAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
* *
32727349 TACCCTCTATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
* *
32727403 TACCATCGATTTACAAAATTACCATTTTACC
1 TACCCTCGATTTACAAAATTACTATTTTACC
32727434 ACTAGGGTGT
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
54 62 0.84
55 12 0.16
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
Found at i:32727434 original size:27 final size:27
Alignment explanation
Indices: 32727294--32727433 Score: 172
Period size: 27 Copynumber: 5.1 Consensus size: 27
32727284 ATTATCAAAG
* *
32727294 TACCCTCGAATTACAAAAATTATTATTT
1 TACCCTCGATTTAC-AAAATTACTATTT
** *
32727322 TACCCTCGATTTACAGTATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
32727349 TACCCTCTATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
32727376 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
32727403 TACCATCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
32727430 TACC
1 TACC
32727434 ACTAGGGTGT
Statistics
Matches: 98, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
27 85 0.87
28 13 0.13
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:32727980 original size:31 final size:31
Alignment explanation
Indices: 32727941--32728020 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
32727931 TTGTATTCAC
*
32727941 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTCACCTGATACTG
* *
32727972 TTTCTGATTCTT-ATTCTGTCACCTGATTCTG
1 ATTCTGATT-TTGATTCTGTCACCTGATACTG
*
32728003 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
32728021 ATTCTGATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 1 0.02
31 39 0.93
32 2 0.05
ACGTcount: A:0.16, C:0.19, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTGATACTG
Found at i:32727987 original size:6 final size:6
Alignment explanation
Indices: 32727941--32728040 Score: 89
Period size: 6 Copynumber: 16.3 Consensus size: 6
32727931 TTGTATTCAC
* * * *
32727941 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG TTTCTG ATTCTT ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
32727990 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
32728039 AT
1 AT
32728041 AATGTTTCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
5 4 0.05
6 63 0.83
7 7 0.09
8 2 0.03
ACGTcount: A:0.17, C:0.18, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:32730045 original size:26 final size:27
Alignment explanation
Indices: 32730016--32730138 Score: 119
Period size: 27 Copynumber: 4.6 Consensus size: 27
32730006 TTAGTTTACC
*
32730016 AAATTACTGAAATACCCCCAG-TTGTA
1 AAATTACCGAAATACCCCCAGTTTGTA
* *
32730042 AAATTACC-AAAGTACCCCCGGTTTATA
1 AAATTACCGAAA-TACCCCCAGTTTGTA
* * *
32730069 AAATTACCCAAATATCCTC-GATTTGTA
1 AAATTACCGAAATACCCCCAG-TTTGTA
* *
32730096 AAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACCGAAATACCCCCAGTTTGTA
*
32730123 AAATTACTG-AATACCC
1 AAATTACCGAAATACCC
32730139 TCGACATGTA
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
25 3 0.04
26 23 0.28
27 52 0.63
28 4 0.05
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATTACCGAAATACCCCCAGTTTGTA
Found at i:32730060 original size:27 final size:25
Alignment explanation
Indices: 32730016--32730165 Score: 93
Period size: 27 Copynumber: 5.6 Consensus size: 25
32730006 TTAGTTTACC
*
32730016 AAATTACTGAAATACCCCCAGTTGTA
1 AAATTAC-CAAATACCCCCAGTTGTA
* *
32730042 AAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCAAA-TACCCCCAG-TTGTA
* * *
32730069 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATA-CCCCCAGTTGTA
* *
32730096 AAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACC-AAATACCCCCAG-TTGTA
** * **
32730123 AAATTACTGAATACCCTCGACATGTA
1 AAATTACCAAATACCC-CCAGTTGTA
*
32730149 AAATTATCAAAGTACCC
1 AAATTACCAAA-TACCC
32730166 TCGAATTACA
Statistics
Matches: 93, Mismatches: 23, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
25 3 0.03
26 38 0.41
27 44 0.47
28 8 0.09
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (25 bp):
AAATTACCAAATACCCCCAGTTGTA
Found at i:32730165 original size:53 final size:53
Alignment explanation
Indices: 32730008--32730167 Score: 162
Period size: 53 Copynumber: 3.0 Consensus size: 53
32729998 AGAATACTTT
* * * *
32730008 AGTTTACCAAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCC
1 AGTTTACAAAATTACTG-AATACCCTCGACTTGTAAAATTACCAAAGTACCCTC
* * ** * *
32730061 GGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAA-TACCCTC
1 AGTTTACAAAATTA-CTGAATACCCTCGACTTGTAAAATTACC-AAAGTACCCTC
* * *
32730115 AGTTTGCAAAATTACTGAATACCCTCGACATGTAAAATTATCAAAGTACCCTC
1 AGTTTACAAAATTACTGAATACCCTCGACTTGTAAAATTACCAAAGTACCCTC
32730168 GAATTACAAA
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
52 3 0.04
53 46 0.54
54 33 0.39
55 3 0.04
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (53 bp):
AGTTTACAAAATTACTGAATACCCTCGACTTGTAAAATTACCAAAGTACCCTC
Found at i:32730209 original size:81 final size:79
Alignment explanation
Indices: 32730124--32730409 Score: 270
Period size: 81 Copynumber: 3.5 Consensus size: 79
32730114 CAGTTTGCAA
* ** * *** *
32730124 AATTACTGAATACCCTCGACATGTAAAATTATCAAAGTACCCTCGAATTACAAAAATTATTATTT
1 AATTACTGATTACCCTCGATTTATAAAATTA-CATTTTACCCTCGATTTAC-AAAATTATTATTT
32730189 TACCCTCGATTTATAG
64 TACCCTCGATTTATAG
* * * **
32730205 AATTACT-ATTTTACTCTTGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTATCGTT
1 AATTACTGA--TTACCCTCGATTTATAAAATTA-CATTTTACCCTCGATTTACAAAATTATTATT
32730269 TTACCCTCGATTTATAG
63 TTACCCTCGATTTATAG
* * * * *
32730286 AATTATTGTTTTATCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTAGTATTT
1 AATTACTG-ATTACCCTCGATTTATAAAATTAC-ATTTTACCCTCGATTTACAAAATTATTATTT
*
32730351 TACCCTCGATTTACAG
64 TACCCTCGATTTATAG
* * *
32730367 AATTACCAT-TTTACCATCGATTTACAAAATTACCATTTTACCC
1 AATTA-C-TGATTACCCTCGATTTATAAAATTA-CATTTTACCC
32730410 CTAGGGTGTT
Statistics
Matches: 167, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
80 2 0.01
81 133 0.80
82 31 0.19
83 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (79 bp):
AATTACTGATTACCCTCGATTTATAAAATTACATTTTACCCTCGATTTACAAAATTATTATTTTA
CCCTCGATTTATAG
Found at i:32730214 original size:27 final size:27
Alignment explanation
Indices: 32730161--32730409 Score: 275
Period size: 27 Copynumber: 9.2 Consensus size: 27
32730151 ATTATCAAAG
* *
32730161 TACCCTCGAATTACAAAAATTATTATTT
1 TACCCTCGATTTAC-AAAATTACTATTT
* *
32730189 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * **
32730216 TACTCTTGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
*
32730243 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-ATTT
* * * *
32730270 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
32730297 TATCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
32730324 TACCCTCGATTTACAAAATTAGTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
32730351 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
32730378 TACCATCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
32730405 TACCC
1 TACCC
32730410 CTAGGGTGTT
Statistics
Matches: 191, Mismatches: 28, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
27 178 0.93
28 13 0.07
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:32730765 original size:26 final size:27
Alignment explanation
Indices: 32730736--32730795 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
32730726 CCACATATAT
*
32730736 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
32730762 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
32730789 ATATCTG
1 ATATCTG
32730796 GCAGCCTCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:32730981 original size:31 final size:31
Alignment explanation
Indices: 32730914--32730986 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
32730904 TTGCATTCAC
* * * *
32730914 ATTCTGATTTTGATTTTGTTACTTGATATTG
1 ATTCTGATTCTGATTCTGTCACCTGATATTG
*
32730945 TTTCTGATTCTGATTCTGTCACCTGAT-TCTG
1 ATTCTGATTCTGATTCTGTCACCTGATAT-TG
32730976 ATTCTGATTCT
1 ATTCTGATTCT
32730987 AGTTCTAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 1 0.03
31 34 0.97
ACGTcount: A:0.16, C:0.15, G:0.15, T:0.53
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATATTG
Found at i:32733002 original size:26 final size:27
Alignment explanation
Indices: 32732973--32733095 Score: 128
Period size: 27 Copynumber: 4.6 Consensus size: 27
32732963 TTAGTTTACC
*
32732973 AAATTACTGAAATACCCCCAG-TTGTA
1 AAATTACCGAAATACCCCCAGTTTGTA
*
32732999 AAATTACC-AAAGTACCCCCAGTTTATA
1 AAATTACCGAAA-TACCCCCAGTTTGTA
* * *
32733026 AAATTACCCAAATATCCTC-GATTTGTA
1 AAATTACCGAAATACCCCCAG-TTTGTA
* *
32733053 AAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACCGAAATACCCCCAGTTTGTA
*
32733080 AAATTACTG-AATACCC
1 AAATTACCGAAATACCC
32733096 TCGACATGTA
Statistics
Matches: 83, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
25 3 0.04
26 24 0.29
27 52 0.63
28 4 0.05
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (27 bp):
AAATTACCGAAATACCCCCAGTTTGTA
Found at i:32733017 original size:27 final size:25
Alignment explanation
Indices: 32732973--32733122 Score: 102
Period size: 27 Copynumber: 5.6 Consensus size: 25
32732963 TTAGTTTACC
*
32732973 AAATTACTGAAATACCCCCAGTTGTA
1 AAATTAC-CAAATACCCCCAGTTGTA
*
32732999 AAATTACCAAAGTACCCCCAGTTTATA
1 AAATTACCAAA-TACCCCCAG-TTGTA
* * *
32733026 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATA-CCCCCAGTTGTA
* *
32733053 AAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACC-AAATACCCCCAG-TTGTA
** * **
32733080 AAATTACTGAATACCCTCGACATGTA
1 AAATTACCAAATACCC-CCAGTTGTA
*
32733106 AAATTATCAAAGTACCC
1 AAATTACCAAA-TACCC
32733123 TCGAATTACA
Statistics
Matches: 95, Mismatches: 21, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
25 3 0.03
26 39 0.41
27 44 0.46
28 9 0.09
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.27
Consensus pattern (25 bp):
AAATTACCAAATACCCCCAGTTGTA
Found at i:32733135 original size:53 final size:53
Alignment explanation
Indices: 32732965--32733124 Score: 171
Period size: 53 Copynumber: 3.0 Consensus size: 53
32732955 AGAATACTTT
* * * *
32732965 AGTTTACCAAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCC
1 AGTTTACAAAATTACTG-AATACCCTCGACTTGTAAAATTACCAAAGTACCCTC
* ** * *
32733018 AGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAA-TACCCTC
1 AGTTTACAAAATTA-CTGAATACCCTCGACTTGTAAAATTACC-AAAGTACCCTC
* * *
32733072 AGTTTGCAAAATTACTGAATACCCTCGACATGTAAAATTATCAAAGTACCCTC
1 AGTTTACAAAATTACTGAATACCCTCGACTTGTAAAATTACCAAAGTACCCTC
32733125 GAATTACAAA
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
52 3 0.03
53 47 0.54
54 34 0.39
55 3 0.03
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.28
Consensus pattern (53 bp):
AGTTTACAAAATTACTGAATACCCTCGACTTGTAAAATTACCAAAGTACCCTC
Found at i:32733173 original size:27 final size:27
Alignment explanation
Indices: 32733118--32733248 Score: 145
Period size: 27 Copynumber: 4.8 Consensus size: 27
32733108 ATTATCAAAG
* *
32733118 TACCCTCGAATTACAAAAATTATTATTT
1 TACCCTCGATTTAC-AAAATTACTATTT
* * **
32733146 TTCGCTCGATTTACAGCATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
32733173 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* ** *
32733200 TACCCTCGATTTATAAAATTACCGTTG
1 TACCCTCGATTTACAAAATTACTATTT
*
32733227 TACCCTCGAGTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
32733249 CGGATAGGGT
Statistics
Matches: 87, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 76 0.87
28 11 0.13
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:32733834 original size:19 final size:20
Alignment explanation
Indices: 32733810--32733848 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
32733800 TAGGTAAGGG
32733810 CATTACCAGA-CAA-ACAGAA
1 CATTA-CAGATCAATACAGAA
32733829 CATTACAGATCAATACAGAA
1 CATTACAGATCAATACAGAA
32733849 TCACAGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 8 0.44
20 6 0.33
ACGTcount: A:0.51, C:0.23, G:0.10, T:0.15
Consensus pattern (20 bp):
CATTACAGATCAATACAGAA
Found at i:32736768 original size:30 final size:30
Alignment explanation
Indices: 32736732--32736832 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
32736722 GACAAGATTG
* * *
32736732 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
32736762 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
32736790 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
32736819 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
32736833 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:32736844 original size:29 final size:28
Alignment explanation
Indices: 32736761--32736836 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
32736751 AAAATTGTAC
* *
32736761 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
32736789 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
32736818 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
32736837 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:32740484 original size:14 final size:14
Alignment explanation
Indices: 32740465--32740492 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32740455 AAAGGTCGTT
32740465 TTGCATATGTTTGA
1 TTGCATATGTTTGA
32740479 TTGCATATGTTTGA
1 TTGCATATGTTTGA
32740493 ATGACTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (14 bp):
TTGCATATGTTTGA
Found at i:32740670 original size:42 final size:42
Alignment explanation
Indices: 32740611--32740749 Score: 206
Period size: 42 Copynumber: 3.3 Consensus size: 42
32740601 TGTTACACTA
* *
32740611 TAAATGTAATGACAAGTAAATGGACCTCCACACCTAGGCCTC
1 TAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTC
* * *
32740653 TAAATGCGATGAAAAGTAAATGGACCTCCACCCCTGGGCCTC
1 TAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTC
* * *
32740695 TAACTGCAATCAAAAGTAAATGGACCTCCACACCTAGGCCTT
1 TAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTC
32740737 TAAATGCAATGAA
1 TAAATGCAATGAA
32740750 TGCTTTCCTT
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (42 bp):
TAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTC
Found at i:32742288 original size:53 final size:53
Alignment explanation
Indices: 32742224--32742330 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
32742214 CTTTCCTTTT
* * * * *
32742224 TAAACTTACCATTTCCATGTCTTAACATGGCCTTACATGGTATCCTTGCCTTA
1 TAAACTCACCATTGCCATGCCTTAACATGGCCTTACAAGGGATCCTTGCCTTA
* * *
32742277 TAAACTCACCATTGCCATGCCTTAGCATGGTCTTACAAGGGATCTTTGCCTTA
1 TAAACTCACCATTGCCATGCCTTAACATGGCCTTACAAGGGATCCTTGCCTTA
32742330 T
1 T
32742331 CGTAGTTTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (53 bp):
TAAACTCACCATTGCCATGCCTTAACATGGCCTTACAAGGGATCCTTGCCTTA
Found at i:32748453 original size:27 final size:29
Alignment explanation
Indices: 32748413--32748482 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 29
32748403 CCCTCGAGCT
32748413 CGCACAC--AGTGCCAT-T-TTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
32748438 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
32748467 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
32748483 ATCTCGTCAC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 6 0.15
27 8 0.21
28 1 0.03
29 24 0.62
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:32756270 original size:25 final size:28
Alignment explanation
Indices: 32756236--32756309 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 28
32756226 CATACCCTCG
32756236 AGCTCGCACAC-AGTGCCAT-T-TTTCC
1 AGCTCGCACACTAGTGCCATATATTTCC
*
32756261 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACAC-TAGTGCCATATATTTCC
*
32756290 AGCACGCACACTTAGTGCCA
1 AGCTCGCACAC-TAGTGCCA
32756310 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
25 10 0.24
27 8 0.19
28 1 0.02
29 23 0.55
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.27
Consensus pattern (28 bp):
AGCTCGCACACTAGTGCCATATATTTCC
Found at i:32764732 original size:28 final size:27
Alignment explanation
Indices: 32764716--32764788 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
32764706 CATACCCTCG
*
32764716 AGCTCGCACACTTAGTGCCGTATTTTCC
1 AGCTCGCACACTTAGTGCCATA-TTTCC
32764744 AGCT-GCACACTTAGTGCCATATTTCC
1 AGCTCGCACACTTAGTGCCATATTTCC
*
32764770 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
32764789 GACTCGTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
26 8 0.19
27 30 0.71
28 4 0.10
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (27 bp):
AGCTCGCACACTTAGTGCCATATTTCC
Found at i:32777233 original size:38 final size:38
Alignment explanation
Indices: 32777149--32777240 Score: 157
Period size: 38 Copynumber: 2.4 Consensus size: 38
32777139 AAATCCAGTC
* * *
32777149 ACCAGCACAAAACCTACGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
32777187 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
32777225 ACCAGCACGAAGCCTG
1 ACCAGCACGAAGCCTG
32777241 TGGACCTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.16
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:32782878 original size:29 final size:29
Alignment explanation
Indices: 32782836--32782907 Score: 144
Period size: 29 Copynumber: 2.5 Consensus size: 29
32782826 GTGACAAGAT
32782836 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
32782865 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
32782894 TGGCACTAAGTGTG
1 TGGCACTAAGTGTG
32782908 AATTTAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:32791250 original size:13 final size:13
Alignment explanation
Indices: 32791232--32791258 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32791222 GAAGTAATCG
32791232 CACACGGGCATGT
1 CACACGGGCATGT
32791245 CACACGGGCATGT
1 CACACGGGCATGT
32791258 C
1 C
32791259 CCTACCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACGGGCATGT
Found at i:32804767 original size:30 final size:30
Alignment explanation
Indices: 32804709--32804774 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
32804699 TACATAACAT
*
32804709 ATATAAAAATAATAAGTAATATAGAATAAA
1 ATATAAAAATAATAAATAATATAGAATAAA
** *
32804739 A-ATAAAATATAATAAATGTTATATAATAAA
1 ATATAAAA-ATAATAAATAATATAGAATAAA
32804769 ATATAA
1 ATATAA
32804775 GTTGAATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 6 0.20
30 20 0.67
31 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (30 bp):
ATATAAAAATAATAAATAATATAGAATAAA
Found at i:32804902 original size:13 final size:13
Alignment explanation
Indices: 32804844--32804910 Score: 52
Period size: 13 Copynumber: 5.3 Consensus size: 13
32804834 ATGTAAGGAC
*
32804844 AATATATATAAAT
1 AATATATAAAAAT
*
32804857 AAT-TA-ATAAAT
1 AATATATAAAAAT
32804868 -ATATA-AAACAAGT
1 AATATATAAA-AA-T
* *
32804881 AAAATATAATAAT
1 AATATATAAAAAT
32804894 AATATATAAAAAT
1 AATATATAAAAAT
32804907 AATA
1 AATA
32804911 ATGGAACATA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
10 2 0.05
11 10 0.23
12 4 0.09
13 20 0.45
14 6 0.14
15 2 0.05
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (13 bp):
AATATATAAAAAT
Found at i:32807087 original size:206 final size:206
Alignment explanation
Indices: 32806715--32807398 Score: 989
Period size: 206 Copynumber: 3.3 Consensus size: 206
32806705 TCACAAAGAC
* * * *
32806715 GCCAAATCATCTTGGATCTTGCTTCAGTC-TAATCATC-TGAAGGCCAGATC-TGCTATGTCTTC
1 GCCAAATCATCTTAGAT-TTGCTTCA-TCGTAAACA-CGTGAAAGCCAAATCAT-CTATGTCTTC
* *
32806777 GATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTCTAATAATCTG
62 GATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTCTAATCATCTG
32806842 AAGGCCAAATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGAGATGCCAGACTTCGATTTGCTCTC
127 AAGGCCAAATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGAGATGCCAGACTTCGATTTGCTCTC
* *
32806907 CGCAAATACAGATAT
192 AGCAAATACAGAGAT
32806922 GCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCATCTATGTCTTCGATT
1 GCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCATCTATGTCTTCGATT
*
32806987 TGTTCCTTATAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTTAGTCTAATCATCTGAAGG
66 TGTTCCTTATAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTCTAATCATCTGAAGG
* * *
32807052 CCAAATCTGCTATGTGTCTACCCTCCGTCGAAGTGGAGATGCCAGACTTCAATTTGCTCTCAGCC
131 CCAAATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGAGATGCCAGACTTCGATTTGCTCTCAGCA
*
32807117 AATACAAAGAT
196 AATACAGAGAT
* * *
32807128 GCCAAATCATCTTAGATTTGCTTCATCGTAAACATGTGAAAGCCAAATCAACTATGTCTTCAATT
1 GCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCATCTATGTCTTCGATT
*
32807193 TGTTCCTTATAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTCTAATCACCTGAAGG
66 TGTTCCTTATAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTCTAATCATCTGAAGG
* * * * * * * * * *
32807258 TCAGATCTGCTATGTATCTGCTCTCCATTGAATTGGAGATGCCAAACTTCGATTTGTTCTCTG-A
131 CCAAATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGAGATGCCAGACTTCGATTTGCTCTCAGCA
*
32807322 CAATACAGAGAC
196 -AATACAGAGAT
** * * *
32807334 AACAAATCATCTTAAATTTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGAT
1 GCCAAATCATCTTAGA-TTTGCTTCATCGTAAACACGTGAAAGCCAAATCATCTATGTCTTCGAT
32807399 CTGCTCCCCG
Statistics
Matches: 432, Mismatches: 40, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
205 3 0.01
206 368 0.85
207 61 0.14
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (206 bp):
GCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCATCTATGTCTTCGATT
TGTTCCTTATAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTCTAATCATCTGAAGG
CCAAATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGAGATGCCAGACTTCGATTTGCTCTCAGCA
AATACAGAGAT
Found at i:32815483 original size:15 final size:15
Alignment explanation
Indices: 32815441--32815483 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
32815431 ATAACTTTAA
*
32815441 ATGCAAATG-ATGTG
1 ATGCAAATGCATGAG
32815455 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
32815470 ATGCAAATGCATGA
1 ATGCAAATGCATGA
32815484 ATGAAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.20
14 3 0.12
15 11 0.44
16 6 0.24
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:32815700 original size:24 final size:24
Alignment explanation
Indices: 32815672--32815721 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
32815662 CTCAATACAT
32815672 CAGCTCAAATTGCCAACTCTTGCA
1 CAGCTCAAATTGCCAACTCTTGCA
*
32815696 CAGCTCAAATTGCCAAGTCTTGCA
1 CAGCTCAAATTGCCAACTCTTGCA
32815720 CA
1 CA
32815722 TACTCAGCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (24 bp):
CAGCTCAAATTGCCAACTCTTGCA
Found at i:32819276 original size:35 final size:35
Alignment explanation
Indices: 32819237--32819350 Score: 90
Period size: 37 Copynumber: 3.1 Consensus size: 35
32819227 TAATAAATAT
32819237 ATAATACAAGTAAAAT-ATAATAATAATATAGAAAA
1 ATAATACAAG-AAAATAATAATAATAATATAGAAAA
** * *
32819272 ATAATGA-TGGAAAATAATAATAATAATTTGTGAAAAA
1 ATAAT-ACAAGAAAATAATAATAATAATAT-AG-AAAA
* *
32819309 ATAATATACGATAAATAATAATAAT-ATATATGATAAA
1 ATAATACAAGA-AAATAATAATAATAATATA-GA-AAA
32819346 ATAAT
1 ATAAT
32819351 CTTATAGTGT
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
34 5 0.08
35 18 0.29
36 4 0.06
37 23 0.37
38 13 0.21
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.30
Consensus pattern (35 bp):
ATAATACAAGAAAATAATAATAATAATATAGAAAA
Found at i:32819298 original size:22 final size:21
Alignment explanation
Indices: 32819271--32819314 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
32819261 AATATAGAAA
32819271 AATAATGATG-GAAAATAATAAT
1 AATAAT-ATGTGAAAA-AATAAT
*
32819293 AATAATTTGTGAAAAAATAAT
1 AATAATATGTGAAAAAATAAT
32819314 A
1 A
32819315 TACGATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (21 bp):
AATAATATGTGAAAAAATAAT
Found at i:32823373 original size:40 final size:40
Alignment explanation
Indices: 32823245--32823375 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
32823235 TATGCTGGAA
* * * *
32823245 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
32823285 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
32823325 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
32823365 ATTATATCCGG
1 ATTATATCCGG
32823376 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:32825029 original size:79 final size:79
Alignment explanation
Indices: 32824851--32825037 Score: 281
Period size: 79 Copynumber: 2.4 Consensus size: 79
32824841 TATTCGGATG
* * *
32824851 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
32824916 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
*
32824930 AT-ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGG
1 ATAAT-CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGG
32824993 CATTTGTGCGAGTTACT
63 CATTTGTGCGAGTTACT
*
32825010 ATAATCGGGCT-AGTTCCGAAGGCATTTG
1 ATAATCGGGCTAAGTCCCGAAGGCATTTG
32825038 AGTAAGTAGC
Statistics
Matches: 99, Mismatches: 5, Indels: 8
0.88 0.04 0.07
Matches are distributed among these distances:
78 3 0.03
79 61 0.62
80 33 0.33
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:32825051 original size:79 final size:80
Alignment explanation
Indices: 32824855--32825070 Score: 264
Period size: 79 Copynumber: 2.7 Consensus size: 80
32824845 CGGATGATAA
* * * *
32824855 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATTT
32824918 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
* *
32824934 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
32824999 TGCGAGTTACTATAAT
66 TGCGAGTTACTAT-AT
* * * * *
32825015 -CGGGCT-AGTTCCGAAGGCATTTGAGTAAG-TAGCTATATCC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTA-CTATAACCGGGCTAAGTCCCGAAGG
32825071 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
78 16 0.13
79 71 0.58
80 34 0.28
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:32825070 original size:39 final size:40
Alignment explanation
Indices: 32824855--32825037 Score: 284
Period size: 40 Copynumber: 4.6 Consensus size: 40
32824845 CGGATGATAA
* *
32824855 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
32824895 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
32824934 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32824974 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
*
32825015 -CGGGCT-AGTTCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
32825038 AGTAAGTAGC
Statistics
Matches: 135, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
39 51 0.38
40 83 0.61
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:32830758 original size:29 final size:29
Alignment explanation
Indices: 32830730--32830831 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
32830720 CCTCCGAGCT
** * * *
32830730 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
32830759 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
32830788 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
32830817 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
32830832 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:32838607 original size:29 final size:29
Alignment explanation
Indices: 32838579--32838680 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
32838569 CCTCCGAGCT
** * * *
32838579 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
32838608 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
32838637 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
32838666 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
32838681 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:32844036 original size:40 final size:40
Alignment explanation
Indices: 32843935--32844136 Score: 270
Period size: 40 Copynumber: 5.1 Consensus size: 40
32843925 TGATAACCGA
* * *
32843935 GCTAAGTTCCGAAGGCATTTGTGCTAGTGACTCAT-TCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGG
32843975 GCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
32844014 GCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
32844054 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACTGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
32844094 GCT-AGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
32844132 GCTAA
1 GCTAA
32844137 ATTTCGAAGG
Statistics
Matches: 147, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 8 0.05
39 61 0.41
40 78 0.53
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:32844101 original size:79 final size:79
Alignment explanation
Indices: 32843927--32844113 Score: 270
Period size: 79 Copynumber: 2.4 Consensus size: 79
32843917 TATTCGGATG
* * * *
32843927 ATAACCGAGCTAAGTTCCGAAGGCATTTGTGCTAGTGACTCATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTCATACCGGGCTAAGCCCGAAGGCAT
32843992 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
* * *
32844006 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTCAT-ACCGGGCTAAG-CCCGAAGGC
32844070 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
*
32844086 ATAACTGGGCT-AGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
32844114 AGCAAGTAGC
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 2 0.02
79 60 0.62
80 34 0.35
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTCATACCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:32844127 original size:39 final size:40
Alignment explanation
Indices: 32843927--32844113 Score: 272
Period size: 40 Copynumber: 4.7 Consensus size: 40
32843917 TATTCGGATG
* * * *
32843927 ATAACCGAGCTAAGTTCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
32843967 CAT-TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 -ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
32844006 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
32844046 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
32844086 ATAACTGGGCT-AGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
32844114 AGCAAGTAGC
Statistics
Matches: 135, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
38 2 0.01
39 50 0.37
40 81 0.60
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:32844127 original size:79 final size:79
Alignment explanation
Indices: 32843927--32844136 Score: 257
Period size: 79 Copynumber: 2.7 Consensus size: 79
32843917 TATTCGGATG
* * * * * *
32843927 ATAACCGAGCTAAGTTCCGAAGGCATTTGTGCTAGTGACTCAT-TCCGGGCTAAGCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACT-ATAACCGGGCTAAGCCCGAAGGCA
32843991 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* * * *
32844006 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAACCGGGCTAAG-CCCGAAGGCA
32844071 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* *
32844086 ATAACTGGGCT-AGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTA-CTATAACCGGGCTAA
32844137 ATTTCGAAGG
Statistics
Matches: 115, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
78 10 0.09
79 71 0.62
80 34 0.30
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAACCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:32856664 original size:79 final size:81
Alignment explanation
Indices: 32856563--32856747 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
32856553 ACGACTCGCT
** * *
32856563 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
32856626 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
32856643 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
32856707 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
32856723 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32856748 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:32856747 original size:40 final size:39
Alignment explanation
Indices: 32856556--32856747 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
32856546 GGATATAACG
* ** * *
32856556 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
32856596 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
32856636 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
32856675 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
32856715 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
32856748 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:32864708 original size:79 final size:81
Alignment explanation
Indices: 32864607--32864791 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
32864597 ACGACTCGCT
** * *
32864607 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
32864670 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
32864687 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
32864751 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
32864767 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32864792 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:32864791 original size:40 final size:39
Alignment explanation
Indices: 32864600--32864791 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
32864590 GGATATAACG
* ** * *
32864600 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
32864640 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
32864680 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
32864719 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
32864759 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
32864792 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:32875657 original size:68 final size:70
Alignment explanation
Indices: 32875585--32875782 Score: 285
Period size: 71 Copynumber: 2.8 Consensus size: 70
32875575 ACACCCTGTA
* * * *
32875585 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
32875647 ATAAAT
65 ATAAAT
*
32875653 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
*
32875718 GTAAAT
65 ATAAAT
*
32875724 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
32875783 AGACAAATCG
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.03
70 1 0.01
71 92 0.77
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:32875708 original size:71 final size:71
Alignment explanation
Indices: 32875619--32875782 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
32875609 GAGATGTATC
32875619 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
32875684 AGGACA
66 AGGACA
*
32875690 CCATGTAGACAAGAGAGCTACGTGAAAGGTAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
32875755 AGGACA
66 AGGACA
32875761 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
32875783 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:32883223 original size:41 final size:41
Alignment explanation
Indices: 32883178--32883295 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
32883168 TGAAAGATAA
32883178 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
32883219 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
32883249 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
32883290 ATGTAG
1 ATGTAG
32883296 AAAGAGAGCT
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:32883233 original size:71 final size:71
Alignment explanation
Indices: 32883146--32883308 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
32883136 GAGATGTATC
32883146 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
32883211 AGGACA
66 AGGACA
32883217 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
32883282 AGGACA
66 AGGACA
32883288 CCATGTAGA-AAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
32883309 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 12 0.13
71 80 0.87
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:32883345 original size:65 final size:68
Alignment explanation
Indices: 32883146--32883331 Score: 254
Period size: 71 Copynumber: 2.7 Consensus size: 68
32883136 GAGATGTATC
*
32883146 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACG-G-AAGACAAATG-AGCTAGGTCGCATGCGTGATTCCAAGTGA
32883211 AGGACA
63 AGGACA
*
32883217 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACG-G-AAGACAAATG-AGCTAGGTCGCATGCGTGATTCCAAGTGA
32883282 AGGACA
63 AGGACA
*
32883288 CCATGTAGA-AAGAGAGCTAC-G-AGACAAATCG-GTTAGGTCGCATG
1 CCATGTAGACAAGAGAGCTACGGAAGACAAAT-GAGCTAGGTCGCATG
32883332 AGTGGTACTA
Statistics
Matches: 112, Mismatches: 2, Indels: 8
0.92 0.02 0.07
Matches are distributed among these distances:
65 12 0.11
66 7 0.06
67 1 0.01
68 1 0.01
70 11 0.10
71 80 0.71
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.19
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTACGGAAGACAAATGAGCTAGGTCGCATGCGTGATTCCAAGTGAAGG
ACA
Found at i:32885952 original size:40 final size:40
Alignment explanation
Indices: 32885907--32886073 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
32885897 CGGAATATAA
32885907 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
32885947 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
32885987 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
32886027 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
32886066 CCGGATAT
1 CCGGATAT
32886074 TATTCGATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:32893773 original size:20 final size:20
Alignment explanation
Indices: 32893748--32893788 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
32893738 CGAATATTTC
32893748 GGCCATATTTGGACAAGTTT
1 GGCCATATTTGGACAAGTTT
32893768 GGCCATATTTGGACAAGTTT
1 GGCCATATTTGGACAAGTTT
32893788 G
1 G
32893789 TTGTTGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (20 bp):
GGCCATATTTGGACAAGTTT
Found at i:32897472 original size:20 final size:20
Alignment explanation
Indices: 32897444--32897481 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32897434 TTAGGAACTA
32897444 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
32897464 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
32897482 TATATGTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:32901990 original size:28 final size:28
Alignment explanation
Indices: 32901925--32902025 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
32901915 ATAGTGAATC
*
32901925 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
32901954 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
32901982 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
32902012 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32902026 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:32916039 original size:25 final size:25
Alignment explanation
Indices: 32916010--32916063 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
32916000 CAAGTTAAAC
32916010 TAAGATGCATTGAGCAGATTAAAAG
1 TAAGATGCATTGAGCAGATTAAAAG
32916035 TAAGATGCATTGAGCAGATTAAAAG
1 TAAGATGCATTGAGCAGATTAAAAG
32916060 TAAG
1 TAAG
32916064 TAGTTAGAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.24
Consensus pattern (25 bp):
TAAGATGCATTGAGCAGATTAAAAG
Found at i:32918580 original size:40 final size:40
Alignment explanation
Indices: 32918452--32918603 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
32918442 ATCACGATTT
* * * * *
32918452 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
32918492 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
32918532 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
32918572 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
32918604 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:32921311 original size:44 final size:43
Alignment explanation
Indices: 32921179--32921586 Score: 339
Period size: 43 Copynumber: 9.5 Consensus size: 43
32921169 TCGCGGCGTT
* * *
32921179 TTTTATAAAAGA-GCCGCTAAAGACCAAGACCTTTAGTGGCGC
1 TTTTATAAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGC
* ** * * *
32921221 -TAT-TAAAAAGTGCCGCCAAAGACCAGGACCTTTAGCGGCG-
1 TTTTATAAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGC
* * *
32921261 TTTTTTATAAAAGCGCCGCTAAAGACCAAGAACTTTAACGGCGC
1 TTTTATA-AAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGC
* * * * *
32921305 TTTTTTAAAAAACGCCGCTATAGACC-AGTACTTTTAACGGCAC
1 TTTTATAAAAAACGCCGCTAAAGACCAAGAAC-TTTAGCGGCGC
* * * * *
32921348 ATTTATAAAAAAACGCCGCTATAGACC-TGCACTTTTAGCGGCAC
1 TTTTAT-AAAAAACGCCGCTAAAGACCAAGAAC-TTTAGCGGCGC
* * * *
32921392 ATTTATAAAAAACGCCGCTATAGACC-TGCACTTTTAGCGGCGC
1 TTTTATAAAAAACGCCGCTAAAGACCAAGAAC-TTTAGCGGCGC
* * *
32921435 TTTTGTAAAAAAATGCCGCTATAA-ACAAAGAACTTTAGCGGCGC
1 TTTTAT-AAAAAACGCCGCTA-AAGACCAAGAACTTTAGCGGCGC
* * * * * *
32921479 TTTTATAAAAATCGCCGTTATAGACC-TGTACTTTTAACGGCGC
1 TTTTATAAAAAACGCCGCTAAAGACCAAGAAC-TTTAGCGGCGC
* *
32921522 TTTTGTAAAAAAACGCCGCTATAGACCAAGAACTTTAGCGGCGC
1 TTTTAT-AAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGC
32921566 TTTTATAAAAAACGCCGCTAA
1 TTTTATAAAAAACGCCGCTAA
32921587 TTTGCCCAGT
Statistics
Matches: 306, Mismatches: 46, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
40 5 0.02
41 30 0.10
42 10 0.03
43 143 0.47
44 111 0.36
45 7 0.02
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (43 bp):
TTTTATAAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGC
Found at i:32921401 original size:87 final size:86
Alignment explanation
Indices: 32921251--32921585 Score: 429
Period size: 87 Copynumber: 3.9 Consensus size: 86
32921241 GACCAGGACC
* * * * * * *
32921251 TTTAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAGACCAAGAACTTTAACGGCGCTTTTTTAAAA
1 TTTAACGGCGCTTTTGTAAAAAAACGCCGCTATAGACC-AGAACTTTAGCGGCGCTTTTATAAAA
*
32921315 AACGCCGCTATAGACCAGTACT
65 AACGCCGCTATAGACCTGTACT
* * * * * * *
32921337 TTTAACGGCACATTTATAAAAAAACGCCGCTATAGACCTGCACTTTTAGCGGCACATTTATAAAA
1 TTTAACGGCGCTTTTGTAAAAAAACGCCGCTATAGACCAGAAC-TTTAGCGGCGCTTTTATAAAA
*
32921402 AACGCCGCTATAGACCTGCACT
65 AACGCCGCTATAGACCTGTACT
* * * *
32921424 TTTAGCGGCGCTTTTGTAAAAAAATGCCGCTATAAACAAAGAACTTTAGCGGCGCTTTTATAAAA
1 TTTAACGGCGCTTTTGTAAAAAAACGCCGCTATAGAC-CAGAACTTTAGCGGCGCTTTTATAAAA
* *
32921489 ATCGCCGTTATAGACCTGTACT
65 AACGCCGCTATAGACCTGTACT
32921511 TTTAACGGCGCTTTTGTAAAAAAACGCCGCTATAGACCAAGAACTTTAGCGGCGCTTTTATAAAA
1 TTTAACGGCGCTTTTGTAAAAAAACGCCGCTATAGACC-AGAACTTTAGCGGCGCTTTTATAAAA
32921576 AACGCCGCTA
65 AACGCCGCTA
32921586 ATTTGCCCAG
Statistics
Matches: 210, Mismatches: 35, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
86 11 0.05
87 196 0.93
88 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (86 bp):
TTTAACGGCGCTTTTGTAAAAAAACGCCGCTATAGACCAGAACTTTAGCGGCGCTTTTATAAAAA
ACGCCGCTATAGACCTGTACT
Found at i:32921905 original size:21 final size:21
Alignment explanation
Indices: 32921881--32921926 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
32921871 TCCTGTTCTG
32921881 CTCCGCCTCCCTCGCTACTGC
1 CTCCGCCTCCCTCGCTACTGC
*
32921902 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTACTGC
32921923 CTCC
1 CTCC
32921927 ACTCTAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.02, C:0.59, G:0.15, T:0.24
Consensus pattern (21 bp):
CTCCGCCTCCCTCGCTACTGC
Found at i:32922512 original size:18 final size:18
Alignment explanation
Indices: 32922480--32922517 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
32922470 TACAATATAG
32922480 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
32922499 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
32922516 TA
1 TA
32922518 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:32930385 original size:133 final size:133
Alignment explanation
Indices: 32930147--32930398 Score: 495
Period size: 133 Copynumber: 1.9 Consensus size: 133
32930137 GAATTCAACA
32930147 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
32930212 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
32930277 ATT
131 ATT
*
32930280 ATATAAAACGTGAGCAACAAGACAGCATTAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
32930345 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAAT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAAT
32930399 GGAATCACCA
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 118 1.00
ACGTcount: A:0.51, C:0.19, G:0.10, T:0.20
Consensus pattern (133 bp):
ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
ATT
Found at i:32933037 original size:15 final size:15
Alignment explanation
Indices: 32933019--32933050 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32933009 TAATAATATT
*
32933019 TTATATATATTTATC
1 TTATATACATTTATC
32933034 TTATATACATTTATC
1 TTATATACATTTATC
32933049 TT
1 TT
32933051 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:32933934 original size:14 final size:14
Alignment explanation
Indices: 32933915--32933954 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
32933905 ATTAAACCTG
* *
32933915 CTTAAACCATATAT
1 CTTAAACCATAAAC
32933929 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
32933943 CTTAAACTATAA
1 CTTAAACCATAA
32933955 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:32934173 original size:41 final size:41
Alignment explanation
Indices: 32934116--32934204 Score: 151
Period size: 41 Copynumber: 2.2 Consensus size: 41
32934106 GGTTATGGGA
* *
32934116 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCATTTTACCAAAAGCGCAGCTAATGCTCTGG
*
32934157 TTTTTAGCGGCATTTTACCGAAAGCGCAGCTAATGCTCTGG
1 TTTTTAGCGGCATTTTACCAAAAGCGCAGCTAATGCTCTGG
32934198 TTTTTAG
1 TTTTTAG
32934205 TGGTGTGTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (41 bp):
TTTTTAGCGGCATTTTACCAAAAGCGCAGCTAATGCTCTGG
Found at i:32934692 original size:19 final size:19
Alignment explanation
Indices: 32934656--32934694 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
32934646 TTTTCATCAT
* *
32934656 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
32934675 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
32934694 A
1 A
32934695 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:32935215 original size:27 final size:28
Alignment explanation
Indices: 32935158--32935227 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
32935148 GTGATAGAGT
** *
32935158 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTACGTGGCAGGGC
32935187 CACCAGAACAGATA-TACGTGGCAGGGC
1 CACCAGAACAGATATTACGTGGCAGGGC
32935214 CACCAGAACAGATA
1 CACCAGAACAGATA
32935228 ATTTGTGGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 24 0.63
28 7 0.18
29 7 0.18
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (28 bp):
CACCAGAACAGATATTACGTGGCAGGGC
Found at i:32935244 original size:28 final size:27
Alignment explanation
Indices: 32935158--32935244 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
32935148 GTGATAGAGT
*
32935158 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
32935187 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
32935214 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
32935242 CAC
1 CAC
32935245 TAGGACGCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
27 23 0.47
28 19 0.39
29 7 0.14
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:32935399 original size:28 final size:28
Alignment explanation
Indices: 32935352--32935415 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
32935342 AAATTAACCC
*
32935352 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
32935380 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
32935408 TAGGGGTA
1 TAGGGGTA
32935416 CTCTAGTACA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:32941681 original size:48 final size:48
Alignment explanation
Indices: 32941610--32942335 Score: 1137
Period size: 48 Copynumber: 15.0 Consensus size: 48
32941600 CAAGATAAAT
* * * *
32941610 ATATATATGTGTGGTAAAGCCGAATGACTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
32941658 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
32941706 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATTTGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
32941754 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
32941802 ATATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
32941852 ATATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAG
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
32941902 ATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
32941950 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTAAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
32941998 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
32942046 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
32942094 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
32942142 ATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
32942190 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
32942238 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* ** *
32942286 ATATGTATATTTGGTAAAGTTGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
32942334 AT
1 AT
32942336 GTGTGTTAAT
Statistics
Matches: 626, Mismatches: 50, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
48 534 0.85
50 92 0.15
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:32942506 original size:37 final size:37
Alignment explanation
Indices: 32942454--32942604 Score: 250
Period size: 37 Copynumber: 4.1 Consensus size: 37
32942444 ACATGAAACT
32942454 TGGAGATATAT-TCCGGGTAAGACCCGATGACTACGTG
1 TGGAGAT-TATGTCCGGGTAAGACCCGATGACTACGTG
32942491 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
32942528 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
* * * *
32942565 TGGAGATTTTGTCCGGGTAAGACCCAATAACTACATG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
32942602 TGG
1 TGG
32942605 GGACTATTCG
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
36 3 0.03
37 106 0.97
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
Found at i:32947008 original size:19 final size:19
Alignment explanation
Indices: 32946972--32947010 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
32946962 TTTTCATCAT
* *
32946972 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
32946991 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
32947010 A
1 A
32947011 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:32947522 original size:27 final size:28
Alignment explanation
Indices: 32947465--32947534 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
32947455 GTGACAGAGT
** * *
32947465 CACCAGATACAGATATTTTGTGGCCGTGC
1 CACCAGA-ACAGATATTACGTGGCAGGGC
32947494 CACCAGAACAGATA-TACGTGGCAGGGC
1 CACCAGAACAGATATTACGTGGCAGGGC
32947521 CACCAGAACAGATA
1 CACCAGAACAGATA
32947535 ATTTGTGGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 23 0.62
28 7 0.19
29 7 0.19
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (28 bp):
CACCAGAACAGATATTACGTGGCAGGGC
Found at i:32947551 original size:28 final size:27
Alignment explanation
Indices: 32947465--32947551 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
32947455 GTGACAGAGT
* *
32947465 CACCAGATACAGATATTTTGTGGCCGTGC
1 CACCAGA-ACAGATAATTTGTGG-CATGC
** *
32947494 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
32947521 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
32947549 CAC
1 CAC
32947552 TAGGACGCTT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 20 0.43
28 19 0.40
29 7 0.15
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:32947711 original size:28 final size:27
Alignment explanation
Indices: 32947660--32947722 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 27
32947650 AAATTAACCC
* *
32947660 TAGGGGTATGAGGTCATTTTGCATACA
1 TAGGGGTATAAGGTAATTTTGCATACA
32947687 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAA-GGTAATTTTGCATACA
32947715 TAGGGGTA
1 TAGGGGTA
32947723 CTCTAGTACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 10 0.30
28 23 0.70
ACGTcount: A:0.29, C:0.08, G:0.30, T:0.33
Consensus pattern (27 bp):
TAGGGGTATAAGGTAATTTTGCATACA
Found at i:32949512 original size:41 final size:41
Alignment explanation
Indices: 32949423--32949675 Score: 314
Period size: 41 Copynumber: 6.2 Consensus size: 41
32949413 GGGCATCACA
* * * *
32949423 CGGCGTTTTACCAAAAGTGCCACTAATGCCCT-GTTTTTAG
1 CGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAG
** *
32949463 CGGCGTTTTATAGAAAGCGCCACTAATGCTCTGGTTTTTAG
1 CGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAG
* *
32949504 TGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGGTTTTTAG
1 CGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAG
*
32949545 CGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGGTTTTTAG
1 CGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAG
* *
32949586 CGGCGTTTTACCGAAAGCGCCGCTAATGCT-TTGATTTTAG
1 CGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAG
* * ** * *
32949626 CGGCGTTTTAGCGAAAAACGCCGCTGTTGTTCT-GTTTTTAC
1 CGGCGTTTTACCG-AAAGCGCCGCTAATGCTCTGGTTTTTAG
32949667 CGGCGTTTT
1 CGGCGTTTT
32949676 TTTAAAACGC
Statistics
Matches: 187, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
40 47 0.25
41 139 0.74
42 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.35
Consensus pattern (41 bp):
CGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAG
Found at i:32949704 original size:81 final size:81
Alignment explanation
Indices: 32949423--32949705 Score: 304
Period size: 82 Copynumber: 3.5 Consensus size: 81
32949413 GGGCATCACA
* * * * * * *
32949423 CGGCGTTTTACCAAAAGTGCCACTAATGCCCTGTTTTTAGCGGCGTTTTA-TAGAAAGCGCCACT
1 CGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGATTTTAGCGGCGTTTTACT-GAAAACGCCGCT
*
32949487 AATGCTCTGGTTTTTAG
65 AATGCTCTGGTTTTTAC
* * *
32949504 TGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACTGAAAGCGCCGCT
1 CGGCGTTTTACCTAAAGCGCCGCTAATGCTCT-GATTTTAGCGGCGTTTTACTGAAAACGCCGCT
*
32949569 AATGCTCTGGTTTTTAG
65 AATGCTCTGGTTTTTAC
* *
32949586 CGGCGTTTTACCGAAAGCGCCGCTAATGCTTTGATTTTAGCGGCGTTTTAGC-GAAAAACGCCGC
1 CGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGATTTTAGCGGCGTTTTA-CTG-AAAACGCCGC
** *
32949650 TGTTGTTCT-GTTTTTAC
64 TAATGCTCTGGTTTTTAC
** * *
32949667 CGGCGTTTT-TTTAAAACGCCGCTATTGCTCTGAATTTTA
1 CGGCGTTTTACCTAAAGCGCCGCTAATGCTCTG-ATTTTA
32949706 AAATTTTGGC
Statistics
Matches: 176, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
80 17 0.10
81 67 0.38
82 91 0.52
83 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.35
Consensus pattern (81 bp):
CGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGATTTTAGCGGCGTTTTACTGAAAACGCCGCTA
ATGCTCTGGTTTTTAC
Found at i:32958131 original size:40 final size:40
Alignment explanation
Indices: 32958046--32958196 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
32958036 AATTGAATGA
* * *
32958046 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
32958086 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
32958127 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
32958166 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
32958197 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:32958210 original size:40 final size:40
Alignment explanation
Indices: 32958083--32958212 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
32958073 ATGCTGGAAA
* * * *
32958083 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
32958123 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
32958163 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
32958203 TTATATCCGG
1 TTATATCCGG
32958213 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:32962339 original size:40 final size:40
Alignment explanation
Indices: 32962280--32962448 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
32962270 CGGGACTTTA
* * *
32962280 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
32962320 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
32962360 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
32962400 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
32962440 CCCGGATAT
1 CCCGGATAT
32962449 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:32965258 original size:7 final size:7
Alignment explanation
Indices: 32965242--32965279 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
32965232 ACATTTCGTC
32965242 ACCCTAA
1 ACCCTAA
*
32965249 ACCTTAA
1 ACCCTAA
32965256 ACCCTAA
1 ACCCTAA
32965263 ACCCTAA
1 ACCCTAA
32965270 ACCCTAA
1 ACCCTAA
32965277 ACC
1 ACC
32965280 ACAAAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (7 bp):
ACCCTAA
Found at i:32967787 original size:28 final size:29
Alignment explanation
Indices: 32967720--32967820 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
32967710 ATAGTGAATC
*
32967720 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
32967749 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
32967777 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
32967807 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32967821 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:32975635 original size:28 final size:29
Alignment explanation
Indices: 32975568--32975668 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
32975558 ATAGTGAATC
*
32975568 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
32975597 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
32975625 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
32975655 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32975669 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:32980511 original size:40 final size:40
Alignment explanation
Indices: 32980446--32980539 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
32980436 GACTATGTTC
*
32980446 GGCACTAAGTGTGCGGTTCGAAATAGCTTTGGCTACA-AA
1 GGCACTAAGTGTGCGGTTCGAAATAGCTTTAGCTACATAA
* * *
32980485 TGGCACTAAGTGTGCGAGTT-GGAATAGCTTTAGCTATATGA
1 -GGCACTAAGTGTGCG-GTTCGAAATAGCTTTAGCTACATAA
32980526 GGCACTAAGTGTGC
1 GGCACTAAGTGTGC
32980540 AATACCGAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 44 0.92
41 4 0.08
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCGGTTCGAAATAGCTTTAGCTACATAA
Found at i:32986156 original size:28 final size:28
Alignment explanation
Indices: 32986125--32986189 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
32986115 ATTTACTAGA
* *
32986125 ATACCTCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
32986153 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
32986181 ATACCCCTA
1 ATACCCCTA
32986190 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Done.