Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 105 of 216
Found at i:33161323 original size:13 final size:13
Alignment explanation
Indices: 33161301--33161361 Score: 77
Period size: 13 Copynumber: 4.7 Consensus size: 13
33161291 TTCTTCATTA
33161301 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
33161314 CTTTTAAAAAGTG
1 CTTTTGAAAAGTG
** *
33161327 CCGTGGAAAAGTG
1 CTTTTGAAAAGTG
*
33161340 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
33161353 CTTTTGAAA
1 CTTTTGAAA
33161362 TGTTTGGTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:33164430 original size:19 final size:19
Alignment explanation
Indices: 33164401--33164445 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
33164391 ATATCTGTCA
*
33164401 ATTTCATTATTTAAATTTT
1 ATTTTATTATTTAAATTTT
*
33164420 GTTTTATTATTTAAATTTT
1 ATTTTATTATTTAAATTTT
33164439 ATTTTAT
1 ATTTTAT
33164446 CCATATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTATTATTTAAATTTT
Found at i:33165122 original size:15 final size:15
Alignment explanation
Indices: 33165104--33165199 Score: 51
Period size: 15 Copynumber: 6.7 Consensus size: 15
33165094 TATACTAAAA
33165104 ATATTATTAAATTAT
1 ATATTATTAAATTAT
** *
33165119 ATATTATTTTATTAA
1 ATATTATTAAATTAT
* *
33165134 AT-TGTATTTAATAAT
1 ATAT-TATTAAATTAT
*
33165149 A-ATTATGTTAA--A-
1 ATATTAT-TAAATTAT
*
33165161 ATATGATTAAATTAT
1 ATATTATTAAATTAT
* *
33165176 TTATTATTAAGTTAT
1 ATATTATTAAATTAT
33165191 AT-TTATTAA
1 ATATTATTAA
33165200 TAATCTTATT
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
12 4 0.06
13 5 0.08
14 12 0.19
15 41 0.66
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (15 bp):
ATATTATTAAATTAT
Found at i:33167271 original size:13 final size:13
Alignment explanation
Indices: 33167253--33167299 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
33167243 TTAGCAATAT
33167253 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
33167266 TTTTGAAAAGTG-
1 TTTTGAAAAGTGC
* *
33167278 TTGTGGAAAAGTAC
1 TT-TTGAAAAGTGC
33167292 TTTTGAAA
1 TTTTGAAA
33167300 TGTTTGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 2 0.07
13 25 0.86
14 2 0.07
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:33173729 original size:15 final size:15
Alignment explanation
Indices: 33173711--33173759 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
33173701 AATCATTATT
33173711 AATAAAATTTATTCA
1 AATAAAATTTATTCA
33173726 AATAAAA--TATT-A
1 AATAAAATTTATTCA
* *
33173738 TATAAGATTTTATTCA
1 AATAA-AATTTATTCA
33173754 AATAAA
1 AATAAA
33173760 TATATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
12 5 0.19
13 5 0.19
15 12 0.44
16 5 0.19
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (15 bp):
AATAAAATTTATTCA
Found at i:33173777 original size:28 final size:28
Alignment explanation
Indices: 33173683--33173764 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 28
33173673 TTTTTATATT
*
33173683 CATTTTATTCTAAAACAAAATCATTATTAATAA
1 CATTTTATTC--AAATAAAAT-ATTA-T-ATAA
*
33173716 -AATTTATTCAAATAAAATATTATATAA
1 CATTTTATTCAAATAAAATATTATATAA
*
33173743 GATTTTATTCAAATAAATATAT
1 CATTTTATTCAAATAAA-ATAT
33173765 ATTTTTCATT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
27 4 0.09
28 16 0.36
29 8 0.18
30 8 0.18
32 8 0.18
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.41
Consensus pattern (28 bp):
CATTTTATTCAAATAAAATATTATATAA
Found at i:33174236 original size:285 final size:285
Alignment explanation
Indices: 33173726--33174294 Score: 1129
Period size: 285 Copynumber: 2.0 Consensus size: 285
33173716 AATTTATTCA
33173726 AATAAAATATTATATAAGATTTTATTCAAATAAATATATATTTTTCATTTTAATTAAAATCAATC
1 AATAAAATATTATATAAGATTTTATTCAAATAAATATATATTTTTCATTTTAATTAAAATCAATC
33173791 GAGAATTTTTCTACTAATGTAAATTATTTAGTTGATTATTTTTATTAAATTAACTACATATATAT
66 GAGAATTTTTCTACTAATGTAAATTATTTAGTTGATTATTTTTATTAAATTAACTACATATATAT
33173856 ATTTACATTAATGAATAAATAAATTGTAATGCAATGAACTAAAACAAATTTATAACTTTTTGAAT
131 ATTTACATTAATGAATAAATAAATTGTAATGCAATGAACTAAAACAAATTTATAACTTTTTGAAT
33173921 AATTTTTTTAACTTTAATTCACCATAATATCATTTATTTTTAAATTTAATATTTTAAAGAATTAT
196 AATTTTTTTAACTTTAATTCACCATAATATCATTTATTTTTAAATTTAATATTTTAAAGAATTAT
33173986 AATATCAACTGTTTACAATTATTTG
261 AATATCAACTGTTTACAATTATTTG
33174011 AATAAAATATTATATAAGATTTTATTCAAATAAATATATATTTTTCATTTTAATTAAAATCAATC
1 AATAAAATATTATATAAGATTTTATTCAAATAAATATATATTTTTCATTTTAATTAAAATCAATC
*
33174076 GAGAATTTTTCTACTAATGTAAATTATTTAGTTGATTATTTTTTTTAAATTAACTACATATATAT
66 GAGAATTTTTCTACTAATGTAAATTATTTAGTTGATTATTTTTATTAAATTAACTACATATATAT
33174141 ATTTACATTAATGAATAAATAAATTGTAATGCAATGAACTAAAACAAATTTATAACTTTTTGAAT
131 ATTTACATTAATGAATAAATAAATTGTAATGCAATGAACTAAAACAAATTTATAACTTTTTGAAT
33174206 AATTTTTTTAACTTTAATTCACCATAATATCATTTATTTTTAAATTTAATATTTTAAAGAATTAT
196 AATTTTTTTAACTTTAATTCACCATAATATCATTTATTTTTAAATTTAATATTTTAAAGAATTAT
33174271 AATATCAACTGTTTACAATTATTT
261 AATATCAACTGTTTACAATTATTT
33174295 TAAAATCGAA
Statistics
Matches: 283, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
285 283 1.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (285 bp):
AATAAAATATTATATAAGATTTTATTCAAATAAATATATATTTTTCATTTTAATTAAAATCAATC
GAGAATTTTTCTACTAATGTAAATTATTTAGTTGATTATTTTTATTAAATTAACTACATATATAT
ATTTACATTAATGAATAAATAAATTGTAATGCAATGAACTAAAACAAATTTATAACTTTTTGAAT
AATTTTTTTAACTTTAATTCACCATAATATCATTTATTTTTAAATTTAATATTTTAAAGAATTAT
AATATCAACTGTTTACAATTATTTG
Found at i:33176604 original size:24 final size:24
Alignment explanation
Indices: 33176577--33176623 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
33176567 AGTAACTCAT
33176577 TTCCTTAAAAAAACAAATTACGGG
1 TTCCTTAAAAAAACAAATTACGGG
*
33176601 TTCCTTCAAAAAACAAATTACGG
1 TTCCTTAAAAAAACAAATTACGG
33176624 ACTACCAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (24 bp):
TTCCTTAAAAAAACAAATTACGGG
Found at i:33177340 original size:8 final size:8
Alignment explanation
Indices: 33177327--33177354 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
33177317 ACAAATATTT
33177327 AATAATAA
1 AATAATAA
33177335 AATAATAA
1 AATAATAA
33177343 AATAATAA
1 AATAATAA
33177351 AATA
1 AATA
33177355 TTATATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AATAATAA
Found at i:33177559 original size:20 final size:19
Alignment explanation
Indices: 33177509--33177560 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
33177499 TAATCAACTC
33177509 TTATTATATTTGAAAAATA
1 TTATTATATTTGAAAAATA
* *
33177528 TAAATT-TAATTTGATAAATA
1 T-TATTAT-ATTTGAAAAATA
33177548 TTATTAATATTTG
1 TTATT-ATATTTG
33177561 TCATTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
19 5 0.19
20 20 0.77
21 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (19 bp):
TTATTATATTTGAAAAATA
Found at i:33184411 original size:126 final size:125
Alignment explanation
Indices: 33184184--33184629 Score: 530
Period size: 126 Copynumber: 3.5 Consensus size: 125
33184174 CCATTACACA
* ** * * * * *
33184184 GTGGAATCAACACTTAGCAACCACCTCATGTTCAAAGGATCCCGGTGGAATGAACACTTAGCAAC
1 GTGGAATCAACACTTAGCAACCACCTTATAATC-AATGAT-ACGG-GGAATCAGCACATAGCAAC
* * *
33184249 CACC-TT-ATAATCAATGATACGGGAAATCAGCACATAGTAACCCCTTTAACAATCAAGGATACG
63 C-CCTTTCACAATCAAGGATACGGGAAATCAGCACATAGCAACCCCTTT-ACAATCAAGGATACG
*
33184312 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
1 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
33184377 TTTCACAATCAAGGATACGGGAAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACG
66 TTTCACAATCAAGGATACGGGAAATCAGCACATAGCAACCCCTTT-ACAATCAAGGATACG
*
33184438 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATTAGCACATAGCAACCCC
1 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
* * * *
33184503 TTTCACAATCAAGGATACGATGG-AATCAACACTTAGCAACCACC-TTATAATCAATGATACG
66 TTTCACAATCAAGGATACG--GGAAATCAGCACATAGCAACC-CCTTTACAATCAAGGATACG
* * * * *
33184564 G-GGAATCAACACATAGCAACC-CCTTTTTGATCAATGACT-CGGGGAATCTA-CACTTAACAAC
1 GTGGAATCAACACTTAGCAACCACC-TTATAATCAATGA-TACGGGGAATC-AGCACATAGCAAC
33184625 CCCTT
63 CCCTT
33184630 ACATTCAAAG
Statistics
Matches: 285, Mismatches: 25, Indels: 19
0.87 0.08 0.06
Matches are distributed among these distances:
124 4 0.01
125 71 0.25
126 154 0.54
127 23 0.08
128 33 0.12
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.21
Consensus pattern (125 bp):
GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
TTTCACAATCAAGGATACGGGAAATCAGCACATAGCAACCCCTTTACAATCAAGGATACG
Found at i:33184625 original size:41 final size:41
Alignment explanation
Indices: 33184186--33184629 Score: 405
Period size: 42 Copynumber: 10.6 Consensus size: 41
33184176 ATTACACAGT
* ** * *
33184186 GGAATCAACACTTAGCAACCACC-TCATGTTCAAAGGATCCCGG
1 GGAATCAACACTTAGCAACC-CCTTTATAATC-AATGAT-ACGG
*
33184229 TGGAATGAACACTTAGCAACCACC-TTATAATCAATGATACGG
1 -GGAATCAACACTTAGCAACC-CCTTTATAATCAATGATACGG
* * * * * *
33184271 GAAATCAGCACATAGTAACCCCTTTAACAATCAAGGATACGG
1 GGAATCAACACTTAGCAACCCCTTT-ATAATCAATGATACGG
*
33184313 TGGAATCAGCACTTAGCAACCACC-TTATAATCAATGATACGG
1 -GGAATCAACACTTAGCAACC-CCTTTATAATCAATGATACGG
* * * *
33184355 GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAACACTTAGCAACCCCTTT-ATAATCAATGATACGG
* * * * *
33184397 GAAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAACACTTAGCAACCCCTTT-ATAATCAATGATACGG
33184439 TGGAATCAACACTTAGCAACCACC-TTATAATCAATGATACGG
1 -GGAATCAACACTTAGCAACC-CCTTTATAATCAATGATACGG
* * * * * *
33184481 GGAATTAGCACATAGCAACCCCTTTCACAATCAAGGATACGAT
1 GGAATCAACACTTAGCAACCCCTTT-ATAATCAATGATACG-G
33184524 GGAATCAACACTTAGCAACCACC-TTATAATCAATGATACGG
1 GGAATCAACACTTAGCAACC-CCTTTATAATCAATGATACGG
* * *
33184565 GGAATCAACACATAGCAACCCCTTTTTGATCAATGACT-CGG
1 GGAATCAACACTTAGCAACCCCTTTATAATCAATGA-TACGG
* *
33184606 GGAATCTACACTTAACAACCCCTT
1 GGAATCAACACTTAGCAACCCCTT
33184630 ACATTCAAAG
Statistics
Matches: 341, Mismatches: 45, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
40 8 0.02
41 111 0.33
42 127 0.37
43 62 0.18
44 33 0.10
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.21
Consensus pattern (41 bp):
GGAATCAACACTTAGCAACCCCTTTATAATCAATGATACGG
Found at i:33198663 original size:12 final size:12
Alignment explanation
Indices: 33198646--33198687 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
33198636 CTTCACATTA
33198646 AATAAATAATGG
1 AATAAATAATGG
**
33198658 AATAAA-ACATTA
1 AATAAATA-ATGG
33198670 AATAAATAATGG
1 AATAAATAATGG
33198682 AATAAA
1 AATAAA
33198688 ATATACCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (12 bp):
AATAAATAATGG
Found at i:33198667 original size:24 final size:24
Alignment explanation
Indices: 33198640--33198688 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
33198630 ACGGTTCTTC
33198640 ACATTAAATAAATAATGGAATAAA
1 ACATTAAATAAATAATGGAATAAA
33198664 ACATTAAATAAATAATGGAATAAA
1 ACATTAAATAAATAATGGAATAAA
33198688 A
1 A
33198689 TATACCTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.63, C:0.04, G:0.08, T:0.24
Consensus pattern (24 bp):
ACATTAAATAAATAATGGAATAAA
Found at i:33201981 original size:21 final size:21
Alignment explanation
Indices: 33201955--33201998 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
33201945 GTGCCAAAGA
33201955 ATGGATGAATCTGTAGAAGCC
1 ATGGATGAATCTGTAGAAGCC
33201976 ATGGATGAATCTGTAGAAGCC
1 ATGGATGAATCTGTAGAAGCC
33201997 AT
1 AT
33201999 TGTAACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (21 bp):
ATGGATGAATCTGTAGAAGCC
Found at i:33205131 original size:22 final size:23
Alignment explanation
Indices: 33205088--33205133 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
33205078 AAAAATGCTA
*
33205088 AAAATCATTTAAAATTATAAAAT
1 AAAATAATTTAAAATTATAAAAT
*
33205111 AAAATAATTTAAATTTA-AAAAT
1 AAAATAATTTAAAATTATAAAAT
33205133 A
1 A
33205134 TATATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATAATTTAAAATTATAAAAT
Found at i:33214866 original size:25 final size:25
Alignment explanation
Indices: 33214838--33214887 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
33214828 TGTATGTGTG
*
33214838 TATATGTTCCAATTGCTCTACCACA
1 TATATGTTCCAATTGCTCCACCACA
33214863 TATATGTTCCAATTGCTCCACCACA
1 TATATGTTCCAATTGCTCCACCACA
33214888 ATAAACGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (25 bp):
TATATGTTCCAATTGCTCCACCACA
Found at i:33217008 original size:32 final size:31
Alignment explanation
Indices: 33216967--33217032 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 31
33216957 AATATAATTT
*
33216967 AAAATAAAATATTTTAATATAATTCAATATA
1 AAAATAAAATATTTTAATATAATTCAAAATA
*
33216998 AAAATAAAAATATTTTAATATAATTTAAAATA
1 AAAAT-AAAATATTTTAATATAATTCAAAATA
33217030 AAA
1 AAA
33217033 TATTTTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 5 0.16
32 27 0.84
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (31 bp):
AAAATAAAATATTTTAATATAATTCAAAATA
Found at i:33217037 original size:25 final size:25
Alignment explanation
Indices: 33216957--33217047 Score: 119
Period size: 25 Copynumber: 3.4 Consensus size: 25
33216947 TTTATTTCAA
33216957 AATATAATTTAAAATAAAATATTTT
1 AATATAATTTAAAATAAAATATTTT
33216982 AATATAATTCAATATAAAAATAAAAATATTTT
1 AATATAA-T---T-T-AAAAT-AAAATATTTT
33217014 AATATAATTTAAAATAAAATATTTT
1 AATATAATTTAAAATAAAATATTTT
33217039 AATATAATT
1 AATATAATT
33217048 AATTATATTT
Statistics
Matches: 59, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
25 26 0.44
26 6 0.10
27 1 0.02
28 1 0.02
29 1 0.02
30 1 0.02
31 6 0.10
32 17 0.29
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (25 bp):
AATATAATTTAAAATAAAATATTTT
Found at i:33217274 original size:44 final size:46
Alignment explanation
Indices: 33217217--33217305 Score: 103
Period size: 46 Copynumber: 2.0 Consensus size: 46
33217207 ACATCTATTT
33217217 CATTCAAAGAAAC-ATAAGAA-TACT-ATTACAATTTTATTCCATTC
1 CATTCAAAGAAACAAT-AGAATTACTAATTACAATTTTATTCCATTC
** * **
33217261 CATTCAATTAAACAATTGAATTACTAATTACGGTTTTATTCCATT
1 CATTCAAAGAAACAATAGAATTACTAATTACAATTTTATTCCATT
33217306 ATAGCCCTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
44 14 0.38
45 6 0.16
46 17 0.46
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (46 bp):
CATTCAAAGAAACAATAGAATTACTAATTACAATTTTATTCCATTC
Found at i:33222043 original size:91 final size:91
Alignment explanation
Indices: 33221773--33222028 Score: 464
Period size: 91 Copynumber: 2.8 Consensus size: 91
33221763 TTAAATGTAT
33221773 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
33221838 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
33221864 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
33221929 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
* * *
33221955 AAA-T-TATAT-ATTATTAAATTATATTTAATAATAATTATTTTACATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
33222017 GAAAATTTATTA
66 GAAAATTTATTA
33222029 GGTATAATTA
Statistics
Matches: 162, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
88 62 0.38
89 5 0.03
90 1 0.01
91 94 0.58
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:33222210 original size:25 final size:26
Alignment explanation
Indices: 33222178--33222232 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
33222168 TTATTAAGTT
*
33222178 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
33222203 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
33222228 A-ATAT
1 ATATAT
33222233 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:33222399 original size:39 final size:40
Alignment explanation
Indices: 33222356--33222460 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
33222346 TTCCATTATG
33222356 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
33222395 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
33222440 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
33222461 ACACATCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:33222454 original size:45 final size:44
Alignment explanation
Indices: 33222354--33222463 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
33222344 TTTTCCATTA
33222354 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
33222393 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
33222438 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
33222464 CATCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:33222463 original size:16 final size:16
Alignment explanation
Indices: 33222442--33222495 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
33222432 TTGATTTGCT
33222442 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
33222458 ATTACACATCTATTCC
1 ATTACACCTCTATTCC
*
33222474 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
33222490 AATACA
1 ATTACA
33222496 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:33229360 original size:6 final size:6
Alignment explanation
Indices: 33229349--33229401 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
33229339 TAATTTAACC
* * * * *
33229349 ATTTTT ATTTTT ATTTTT ATTATA ATTTTT GTTTTT AGTTTA ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
33229397 ATTTT
1 ATTTT
33229402 CTAATATTTC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:33229376 original size:18 final size:18
Alignment explanation
Indices: 33229355--33229401 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
33229345 AACCATTTTT
33229355 ATTTTTATTTTTA-TTATA
1 ATTTTTATTTTTAGTT-TA
*
33229373 ATTTTTGTTTTTAGTTTA
1 ATTTTTATTTTTAGTTTA
33229391 ATTTTTATTTT
1 ATTTTTATTTT
33229402 CTAATATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (18 bp):
ATTTTTATTTTTAGTTTA
Found at i:33235186 original size:79 final size:78
Alignment explanation
Indices: 33235082--33235270 Score: 202
Period size: 79 Copynumber: 2.4 Consensus size: 78
33235072 TAAGTGACCA
* ** *
33235082 TATCCGGACTAAGATCCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGCTAAG-TCCGAAGAGC
1 TATCCGGGCTAAG-TCCGAAGAGCATTCATGCGAGTGA-TAAATCCGGGCTAAGTTCCGAAGAGC
33235145 ATTCATGCTAGCGAT
64 ATTCATGCTAGCGAT
* ** *
33235160 GTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCTGAAGAGCA
1 -TATCCGGGCTAAGTCCGAAGAGCATTCATGCGAGTGATAAATCCGGGCTAAGTTCCGAAGAGCA
* *
33235225 TTCGTGCTAGTGAT
65 TTCATGCTAGCGAT
* * * *
33235239 AATCCGTGCTAAATCCCGAAGAGCAATCATGC
1 TATCCGGGCTAAGT-CCGAAGAGCATTCATGC
33235271 TGGTGACGTG
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
78 31 0.33
79 62 0.67
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (78 bp):
TATCCGGGCTAAGTCCGAAGAGCATTCATGCGAGTGATAAATCCGGGCTAAGTTCCGAAGAGCAT
TCATGCTAGCGAT
Found at i:33235233 original size:40 final size:39
Alignment explanation
Indices: 33235123--33235276 Score: 211
Period size: 39 Copynumber: 3.9 Consensus size: 39
33235113 GAGTTACTAA
*
33235123 ATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGT
33235162 ATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGT
* * *
33235201 ATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGAT-A
1 ATCCGGGCTAAG-TCCGAAGAGCATTCATGCTAGTGATGT
* * * *
33235240 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGA
33235277 CGTGTATTCG
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
38 1 0.01
39 79 0.77
40 23 0.22
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGT
Found at i:33235250 original size:78 final size:79
Alignment explanation
Indices: 33235123--33235276 Score: 213
Period size: 79 Copynumber: 2.0 Consensus size: 79
33235113 GAGTTACTAA
* * *
33235123 ATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGCGATGTATCCGGGCTAAGT-CCGAAGAGCATT
1 ATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGCGATGAATCCGGGCTAAATCCCGAAGAGCAAT
33235187 CATGCTAGTGATGT
66 CATGCTAGTGATGT
* * * *
33235201 ATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGAT-AATCCGTGCTAAATCCCGAAGAGCAA
1 ATCCGGGCTAAG-TCCGAAGAGCATTCATGCTAGCGATGAATCCGGGCTAAATCCCGAAGAGCAA
*
33235265 TCATGCTGGTGA
65 TCATGCTAGTGA
33235277 CGTGTATTCG
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
78 23 0.35
79 43 0.65
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGCGATGAATCCGGGCTAAATCCCGAAGAGCAAT
CATGCTAGTGATGT
Found at i:33235695 original size:57 final size:57
Alignment explanation
Indices: 33235607--33235721 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
33235597 AGATAGTGTG
33235607 TAAGACCATGTCTGGGACATGGCATCGGCTCGATATGTGAGAATATGTAGGACCATA
1 TAAGACCATGTCTGGGACATGGCATCGGCTCGATATGTGAGAATATGTAGGACCATA
33235664 TAAGACCATGTCTGGGACATGGCATCGGCTCGATATGTGAGAATATGTAGGACCATA
1 TAAGACCATGTCTGGGACATGGCATCGGCTCGATATGTGAGAATATGTAGGACCATA
33235721 T
1 T
33235722 CTAGGATATG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (57 bp):
TAAGACCATGTCTGGGACATGGCATCGGCTCGATATGTGAGAATATGTAGGACCATA
Found at i:33238885 original size:93 final size:94
Alignment explanation
Indices: 33238726--33239240 Score: 835
Period size: 93 Copynumber: 5.5 Consensus size: 94
33238716 GAAATGATAG
* *
33238726 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGT-ATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
*
33238790 GTGATGAATGTGAAAGTGTATATGTGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
*
33238819 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
33238883 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
*
33238912 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA-GTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
33238976 GTGATGAATGTGAAAGTGTAT-TATGT-A
66 GTGATGAATGTGAAAGTGTATATATGTGA
*
33239003 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
*
33239068 GTGATGAATGTGAAAGTGTATATATGTAA
66 GTGATGAATGTGAAAGTGTATATATGTGA
*
33239097 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
33239162 GTG-TGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
33239190 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
33239241 TCCCGAAGGG
Statistics
Matches: 402, Mismatches: 15, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
91 43 0.11
92 81 0.20
93 182 0.45
94 96 0.24
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGA
Found at i:33238899 original size:47 final size:47
Alignment explanation
Indices: 33238726--33239240 Score: 826
Period size: 47 Copynumber: 11.1 Consensus size: 47
33238716 GAAATGATAG
* *
33238726 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGT-A
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
33238772 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
33238819 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
33238865 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
33238912 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA-GTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
33238958 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT-TATGT-A
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
33239003 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
33239050 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
33239097 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
33239144 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
33239190 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
33239237 TAAG
1 TAAG
33239241 TCCCGAAGGG
Statistics
Matches: 448, Mismatches: 15, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
45 42 0.09
46 181 0.40
47 225 0.50
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:33239132 original size:232 final size:232
Alignment explanation
Indices: 33238726--33239240 Score: 836
Period size: 232 Copynumber: 2.2 Consensus size: 232
33238716 GAAATGATAG
* *
33238726 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTATAAGGCCTAATGGCCGATG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTATAAGGCCTAATAGCCGATG
*
33238791 TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTA
66 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTA
* *
33238856 TATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
131 TATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
33238921 ATAGCCGATGTGATGAATGTGAAAGTGTATATA-GTGA
196 ATAGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
*
33238958 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT-TATGTATAAGGCCTAATAGCCGATG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTATAAGGCCTAATAGCCGATG
33239022 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
66 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGT
*
33239087 ATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
130 ATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
33239152 AATGGCCGATGTGTGAATGTGAAAGTGTATATATGTGA
195 AATAGCCGATGTGTGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
33239190 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT-ATAAG
33239241 TCCCGAAGGG
Statistics
Matches: 261, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
231 81 0.31
232 171 0.66
233 4 0.02
234 5 0.02
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (232 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTATAAGGCCTAATAGCCGATG
TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTA
TATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
ATAGCCGATGTGTGAATGTGAAAGTGTATATATGTGA
Found at i:33239414 original size:37 final size:37
Alignment explanation
Indices: 33239358--33239436 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
33239348 TCCGAGCCTA
* * *
33239358 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
33239395 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
33239432 AAGAC
1 AAGAC
33239437 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:33241797 original size:6 final size:6
Alignment explanation
Indices: 33241788--33241844 Score: 57
Period size: 6 Copynumber: 9.7 Consensus size: 6
33241778 TTTGTTTTCC
* *
33241788 TTTTAG TTTT-A TTTTAA TTTTAA TTTTAA TTTTTTA TTTT-A TGTTT-A
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA -TTTTAA TTTTAA T-TTTAA
33241835 TTTTAA TTTT
1 TTTTAA TTTT
33241845 TAGTTATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
5 9 0.20
6 31 0.69
7 5 0.11
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (6 bp):
TTTTAA
Found at i:33241834 original size:19 final size:18
Alignment explanation
Indices: 33241788--33241844 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
33241778 TTTGTTTTCC
*
33241788 TTTTAGTTTTA-TTTTAA
1 TTTTAATTTTATTTTTAA
*
33241805 TTTTAATTTTAATTTTTTA
1 TTTTAATTTT-ATTTTTAA
33241824 TTTT-ATGTTTA-TTTTAA
1 TTTTAAT-TTTATTTTTAA
33241841 TTTT
1 TTTT
33241845 TAGTTATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 18 0.53
18 4 0.12
19 12 0.35
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (18 bp):
TTTTAATTTTATTTTTAA
Found at i:33241837 original size:24 final size:25
Alignment explanation
Indices: 33241794--33241845 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 25
33241784 TTCCTTTTAG
33241794 TTTTATTTTAATTTTAATTTTAATT
1 TTTTATTTTAATTTTAATTTTAATT
33241819 TTTTATTTT-ATGTTT-ATTTTAATT
1 TTTTATTTTAAT-TTTAATTTTAATT
33241843 TTT
1 TTT
33241846 AGTTATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 14 0.54
25 12 0.46
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTTATTTTAATTTTAATTTTAATT
Found at i:33241851 original size:22 final size:23
Alignment explanation
Indices: 33241810--33241866 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
33241800 TTTAATTTTA
*
33241810 ATTTTAATTTTTTATTTTATGTTT
1 ATTTTAA-TTTTTATGTTATGTTT
*
33241834 ATTTTAATTTTTA-GTTATTTTT
1 ATTTTAATTTTTATGTTATGTTT
33241856 ATTGTT-ATTTT
1 ATT-TTAATTTT
33241867 CTTAGACTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 15 0.50
23 8 0.27
24 7 0.23
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (23 bp):
ATTTTAATTTTTATGTTATGTTT
Found at i:33241857 original size:6 final size:6
Alignment explanation
Indices: 33241788--33241866 Score: 56
Period size: 6 Copynumber: 13.5 Consensus size: 6
33241778 TTTGTTTTCC
* * * * *
33241788 TTTTAG TTTTAT TTTAAT TTTAAT TTTAAT TTTT-T ATTTTAT GTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT
* * *
33241836 TTTAAT TTTTA- -GTTAT TTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
33241867 CTTAGACTTA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
4 3 0.05
5 1 0.02
6 53 0.91
7 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (6 bp):
TTTTAT
Found at i:33241862 original size:12 final size:11
Alignment explanation
Indices: 33241788--33241866 Score: 70
Period size: 12 Copynumber: 6.8 Consensus size: 11
33241778 TTTGTTTTCC
*
33241788 TTTTAGTTTTA
1 TTTTATTTTTA
*
33241799 TTTTAATTTTAA
1 TTTT-ATTTTTA
33241811 TTTTAATTTTTTA
1 TTTT-A-TTTTTA
*
33241824 TTTTATGTTTA
1 TTTTATTTTTA
33241835 TTTTAATTTTTA
1 TTTT-ATTTTTA
*
33241847 -GTTATTTTTA
1 TTTTATTTTTA
33241857 TTGTTATTTT
1 TT-TTATTTT
33241867 CTTAGACTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
10 7 0.12
11 15 0.27
12 25 0.45
13 9 0.16
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:33246584 original size:22 final size:21
Alignment explanation
Indices: 33246553--33246597 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
33246543 TAACGTATAG
*
33246553 TTAATTAAGT-TAATTAGCAAA
1 TTAATTAAGTATAAATAG-AAA
33246574 TTAATCTAAGTATAAATAGAAA
1 TTAAT-TAAGTATAAATAGAAA
33246596 TT
1 TT
33246598 CAAGTGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 10 0.48
23 6 0.29
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (21 bp):
TTAATTAAGTATAAATAGAAA
Found at i:33250487 original size:13 final size:13
Alignment explanation
Indices: 33250471--33250503 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
33250461 ATCCATTTCA
*
33250471 CATTTCATATTTT
1 CATTTCACATTTT
33250484 CATTTCACATTTT
1 CATTTCACATTTT
33250497 CATTTCA
1 CATTTCA
33250504 AGTATCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (13 bp):
CATTTCACATTTT
Found at i:33250513 original size:13 final size:13
Alignment explanation
Indices: 33250497--33250553 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
33250487 TTCACATTTT
*
33250497 CATTTCAAGTATC
1 CATTTCAAATATC
*
33250510 CATTTCAAATATG
1 CATTTCAAATATC
* *
33250523 CATTTCATATAAC
1 CATTTCAAATATC
* *
33250536 CATTTTACAT-TC
1 CATTTCAAATATC
33250548 CATTTC
1 CATTTC
33250554 CACCAAATGA
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
12 6 0.17
13 29 0.83
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.42
Consensus pattern (13 bp):
CATTTCAAATATC
Found at i:33250636 original size:25 final size:25
Alignment explanation
Indices: 33250596--33250656 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
33250586 ACCTGGGAAC
33250596 AATGCTCACACAAGCTATGACGGTA
1 AATGCTCACACAAGCTATGACGGTA
* ** *
33250621 TATGCTCACATGAGCTATGACTGTA
1 AATGCTCACACAAGCTATGACGGTA
33250646 AATGCTCACAC
1 AATGCTCACAC
33250657 GAACTGTGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (25 bp):
AATGCTCACACAAGCTATGACGGTA
Found at i:33254590 original size:17 final size:17
Alignment explanation
Indices: 33254568--33254601 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
33254558 AAGAGAGTTG
33254568 TGAGAGAGGATGA-GAGA
1 TGAGAG-GGATGATGAGA
33254585 TGAGAGGGATGATGAGA
1 TGAGAGGGATGATGAGA
33254602 AATGAGCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.47, T:0.15
Consensus pattern (17 bp):
TGAGAGGGATGATGAGA
Found at i:33257655 original size:48 final size:48
Alignment explanation
Indices: 33257584--33257679 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
33257574 AGGCATAAAA
33257584 CTGTAGCGAACAAAATAAAACCATACATTTGCTACTGGTTTTAAATAT
1 CTGTAGCGAACAAAATAAAACCATACATTTGCTACTGGTTTTAAATAT
33257632 CTGTAGCGAACAAAATAAAACCATACATTTGCTACTGGTTTTAAATAT
1 CTGTAGCGAACAAAATAAAACCATACATTTGCTACTGGTTTTAAATAT
33257680 TCTCTTCGAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (48 bp):
CTGTAGCGAACAAAATAAAACCATACATTTGCTACTGGTTTTAAATAT
Found at i:33267901 original size:23 final size:22
Alignment explanation
Indices: 33267858--33267901 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
33267848 TTCTAAGTCA
33267858 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
33267881 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
33267902 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:33268105 original size:51 final size:51
Alignment explanation
Indices: 33268045--33268231 Score: 243
Period size: 51 Copynumber: 3.7 Consensus size: 51
33268035 TCAGTTCACA
* *
33268045 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGGTACACG
* ** * * *
33268096 TAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGGTACACG
* ** *
33268147 TAGTAGCCTGCACATAGTACTACACATGCAACC--TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCA-TCCGGTACACG
33268197 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
33268232 AACTTTCACT
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.35
51 72 0.64
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGGTACACG
Found at i:33268225 original size:101 final size:101
Alignment explanation
Indices: 33268043--33268227 Score: 309
Period size: 101 Copynumber: 1.8 Consensus size: 101
33268033 GTTCAGTTCA
**
33268043 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCA-TACCATCCGATACACGTAGTAGCCTGCA
33268108 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
* *
33268145 CATAGTAGCCTGCACATAGTACTACACATGCAACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCATACCA-TCCGATACACGTAGTAGCCTGCA
33268209 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
33268228 CCATAACTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 4 0.05
101 41 0.53
102 33 0.42
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCAACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCAAAACTATCCGGTACG
Found at i:33269273 original size:19 final size:20
Alignment explanation
Indices: 33269249--33269287 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
33269239 CATAAAAATA
33269249 TAATGAAAAT-AATTTTTTT
1 TAATGAAAATAAATTTTTTT
33269268 TAATGAAAATAAATTTTTTT
1 TAATGAAAATAAATTTTTTT
33269288 CTCGTCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
TAATGAAAATAAATTTTTTT
Found at i:33271257 original size:11 final size:11
Alignment explanation
Indices: 33271241--33271288 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
33271231 ATTACATCTT
33271241 TTAAATGTGTC
1 TTAAATGTGTC
*
33271252 TTAAATATGT-
1 TTAAATGTGTC
33271262 TT-AATGTGTC
1 TTAAATGTGTC
* *
33271272 TTAAAAGTGTT
1 TTAAATGTGTC
33271283 TTAAAT
1 TTAAAT
33271289 TTTGTTCAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
9 6 0.20
10 4 0.13
11 20 0.67
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (11 bp):
TTAAATGTGTC
Found at i:33279005 original size:24 final size:25
Alignment explanation
Indices: 33278978--33279026 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
33278968 GAGGTTGTTA
33278978 TGGAG-GATATCAAGGAG-GGATATT
1 TGGAGAGAT-TCAAGGAGAGGATATT
*
33279002 TGGAGAGATTTAAGGAGAGGATATT
1 TGGAGAGATTCAAGGAGAGGATATT
33279027 AGGATTTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.35, C:0.02, G:0.37, T:0.27
Consensus pattern (25 bp):
TGGAGAGATTCAAGGAGAGGATATT
Found at i:33279674 original size:8 final size:8
Alignment explanation
Indices: 33279661--33279688 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
33279651 TTTAAATGAC
33279661 ATTTTATT
1 ATTTTATT
33279669 ATTTTATT
1 ATTTTATT
33279677 ATTTTATT
1 ATTTTATT
33279685 ATTT
1 ATTT
33279689 AGTATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
ATTTTATT
Found at i:33282076 original size:27 final size:27
Alignment explanation
Indices: 33282046--33282315 Score: 169
Period size: 27 Copynumber: 10.0 Consensus size: 27
33282036 TATCTGGACT
*
33282046 GAAATACCCCCGAAGGGTAAAATGATC
1 GAAATACCCTCGAAGGGTAAAATGATC
* **
33282073 GAAATACCCTTGAAGAATAAAATGATC
1 GAAATACCCTCGAAGGGTAAAATGATC
* *
33282100 GAAATACCCTCGATGGGTAAAATG-CC
1 GAAATACCCTCGAAGGGTAAAATGATC
* *
33282126 TGAAATACCCTCGATGGGTAAAAAT-ACC
1 -GAAATACCCTCGAAGGGT-AAAATGATC
* * * * *
33282154 AAAATGCCC-CCATAGGGTGAAATAATC
1 GAAATACCCTCGA-AGGGTAAAATGATC
** * *
33282181 GAAATACCCTCTTAGGGTAGAAT-ATT
1 GAAATACCCTCGAAGGGTAAAATGATC
33282207 GAAATACCCTC-ATAGGGTAAAATGA-C
1 GAAATACCCTCGA-AGGGTAAAATGATC
* * * *
33282233 CATAATACCCTTGTAGGGTAAAAT-AAC
1 GA-AATACCCTCGAAGGGTAAAATGATC
* * *
33282260 TGTAATAACCCT-GTAGGGTAAAATGACC
1 -GAAAT-ACCCTCGAAGGGTAAAATGATC
* * * *
33282288 GTAATGCCCTTGTAGGGTAAAATGATC
1 GAAATACCCTCGAAGGGTAAAATGATC
33282315 G
1 G
33282316 TCATGTCCTT
Statistics
Matches: 195, Mismatches: 33, Indels: 30
0.76 0.13 0.12
Matches are distributed among these distances:
26 35 0.18
27 145 0.74
28 15 0.08
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (27 bp):
GAAATACCCTCGAAGGGTAAAATGATC
Found at i:33282325 original size:27 final size:27
Alignment explanation
Indices: 33282219--33282361 Score: 148
Period size: 27 Copynumber: 5.3 Consensus size: 27
33282209 AATACCCTCA
* * *
33282219 TAGGGTAAAATGACCATAATACCCTTG
1 TAGGGTAAAATGATCGTAATGCCCTTG
* *
33282246 TAGGGTAAAAT-AACTGTAATAACCC-TG
1 TAGGGTAAAATGATC-GTAAT-GCCCTTG
*
33282273 TAGGGTAAAATGACCGTAATGCCCTTG
1 TAGGGTAAAATGATCGTAATGCCCTTG
* * *
33282300 TAGGGTAAAATGATCGTCATGTCCTTA
1 TAGGGTAAAATGATCGTAATGCCCTTG
* *
33282327 TAGGGTTAAATGATCGTAATGCCCTGG
1 TAGGGTAAAATGATCGTAATGCCCTTG
33282354 T-GGGTAAA
1 TAGGGTAAA
33282362 TGACTATTTT
Statistics
Matches: 98, Mismatches: 14, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
26 11 0.11
27 81 0.83
28 6 0.06
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (27 bp):
TAGGGTAAAATGATCGTAATGCCCTTG
Found at i:33282331 original size:54 final size:54
Alignment explanation
Indices: 33282212--33282361 Score: 169
Period size: 54 Copynumber: 2.8 Consensus size: 54
33282202 ATATTGAAAT
* *
33282212 ACCCTCATAGGGTAAAATGACCATAATACCCTTGTAGGGTAAAATAACTGTAATA
1 ACCCT-ATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATAACTGTAATA
* * * *
33282267 ACCCTGTAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGA-TCGTCATG
1 ACCCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATAACT-GTAATA
* * * * *
33282321 TCCTTATAGGGTTAAATGATCGTAATGCCCTGGT-GGGTAAA
1 ACCCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAA
33282362 TGACTATTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
53 8 0.10
54 69 0.84
55 5 0.06
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (54 bp):
ACCCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATAACTGTAATA
Found at i:33282442 original size:24 final size:24
Alignment explanation
Indices: 33282408--33282466 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
33282398 TCTGTGGTTA
*
33282408 AATGGCTGATTTCTCTGTG-TTTGG
1 AATGACTGATTTCTCTGTGATTT-G
* * *
33282432 TATGACTGATTTGTTTGTGATTTG
1 AATGACTGATTTCTCTGTGATTTG
33282456 AATGACTGATT
1 AATGACTGATT
33282467 CTCAGCATGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 26 0.90
25 3 0.10
ACGTcount: A:0.19, C:0.08, G:0.25, T:0.47
Consensus pattern (24 bp):
AATGACTGATTTCTCTGTGATTTG
Found at i:33282784 original size:96 final size:96
Alignment explanation
Indices: 33282627--33282861 Score: 285
Period size: 96 Copynumber: 2.4 Consensus size: 96
33282617 CTAGCAGCTT
* * ** ** *
33282627 TGTGCCAATCATAGT-ACTGTTACTGATGGCTTTGTGCCGATCATAGTACCGTTACTGATGGCTT
1 TGTGCCGATCATA-TCACTATTACTGATGGCTTTGTGCCGATCATAACACCACTACTAATGGCTT
* *
33282691 TGTGCCGATCATATTACCG-TTACTAATGGTTG
65 TGTACCGATCATATTA-CGATTACTAATGGCTG
* * *
33282723 TGTGCCGATCATTTCACTATTACTGATGGCTGTGTGCCGATCATAACACTACTACTAATGGCTTT
1 TGTGCCGATCATATCACTATTACTGATGGCTTTGTGCCGATCATAACACCACTACTAATGGCTTT
* *
33282788 GTACCGATCATGTTACGATTACTGATGGCTG
66 GTACCGATCATATTACGATTACTAATGGCTG
* * *
33282819 TGTGCCGATCATATCACTACTACTGATGACTTTGTGCCAATCA
1 TGTGCCGATCATATCACTATTACTGATGGCTTTGTGCCGATCA
33282862 CATTACTTTA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
95 3 0.03
96 115 0.97
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (96 bp):
TGTGCCGATCATATCACTATTACTGATGGCTTTGTGCCGATCATAACACCACTACTAATGGCTTT
GTACCGATCATATTACGATTACTAATGGCTG
Found at i:33282843 original size:32 final size:32
Alignment explanation
Indices: 33282623--33282878 Score: 241
Period size: 32 Copynumber: 8.0 Consensus size: 32
33282613 GTTACTAGCA
* *
33282623 GCTTTGTGCCAATCATAGT-ACTGTTACTGATG
1 GCTTTGTGCCGATCATA-TCACTATTACTGATG
**
33282655 GCTTTGTGCCGATCATAGT-ACCGTTACTGATG
1 GCTTTGTGCCGATCATA-TCACTATTACTGATG
* ** *
33282687 GCTTTGTGCCGATCATATTACCGTTACTAATG
1 GCTTTGTGCCGATCATATCACTATTACTGATG
*
33282719 G-TTGTGTGCCGATCATTTCACTATTACTGATG
1 GCTT-TGTGCCGATCATATCACTATTACTGATG
* * * *
33282751 GCTGTGTGCCGATCATAACACTACTACTAATG
1 GCTTTGTGCCGATCATATCACTATTACTGATG
* * * *
33282783 GCTTTGTACCGATCATGTTACGATTACTGATG
1 GCTTTGTGCCGATCATATCACTATTACTGATG
* *
33282815 GCTGTGTGCCGATCATATCACTACTACTGATG
1 GCTTTGTGCCGATCATATCACTATTACTGATG
* * * * *
33282847 ACTTTGTGCCAATCACATTACT-TTACTTATG
1 GCTTTGTGCCGATCATATCACTATTACTGATG
33282878 G
1 G
33282879 ATTGTAGCCA
Statistics
Matches: 186, Mismatches: 35, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
31 10 0.05
32 175 0.94
33 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.36
Consensus pattern (32 bp):
GCTTTGTGCCGATCATATCACTATTACTGATG
Found at i:33282908 original size:22 final size:22
Alignment explanation
Indices: 33282883--33282937 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
33282873 TTATGGATTG
*
33282883 TAGCCATTCTGTTTATAGCT-T
1 TAGCCATTCTGTTTACAGCTCT
* * *
33282904 ATAGCTATCCTATTTACAGCTCT
1 -TAGCCATTCTGTTTACAGCTCT
33282927 TAGCCATTCTG
1 TAGCCATTCTG
33282938 ACTACTAGCA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.42
Consensus pattern (22 bp):
TAGCCATTCTGTTTACAGCTCT
Found at i:33287034 original size:42 final size:42
Alignment explanation
Indices: 33286966--33287090 Score: 135
Period size: 42 Copynumber: 3.0 Consensus size: 42
33286956 GCAGGCTGGT
* * * * *
33286966 TGCCAATGAAAT-CATTCAAACTTTACGTCTAGCAAGCTTCA
1 TGCCGATGAAATAAATTCAGACTTTACGTCTAGCAGGCTTAA
* *
33287007 TGCCGATGAAATAAATTCAGACTTTACGTCTAACGGGCTTAA
1 TGCCGATGAAATAAATTCAGACTTTACGTCTAGCAGGCTTAA
* * * * *
33287049 TGCTGGTGAAATAAATTCGGACTATAAGTCTAGCAGGCTTAA
1 TGCCGATGAAATAAATTCAGACTTTACGTCTAGCAGGCTTAA
33287091 AGCCAGTGTA
Statistics
Matches: 69, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
41 11 0.16
42 58 0.84
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (42 bp):
TGCCGATGAAATAAATTCAGACTTTACGTCTAGCAGGCTTAA
Found at i:33289243 original size:19 final size:19
Alignment explanation
Indices: 33289197--33289252 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 19
33289187 AATCTTCAAG
33289197 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33289216 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
33289237 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
33289253 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.46
21 19 0.54
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33289274 original size:23 final size:22
Alignment explanation
Indices: 33289197--33289275 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 22
33289187 AATCTTCAAG
*
33289197 GATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
33289219 -ATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
33289237 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
33289259 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
33289276 GATTTAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
18 2 0.04
19 15 0.31
21 12 0.24
22 8 0.16
23 12 0.24
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:33290138 original size:16 final size:16
Alignment explanation
Indices: 33290119--33290151 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33290109 CATCAACACA
33290119 TCATGAA-TAATAGATT
1 TCATGAACTAATA-ATT
33290135 TCATGAACTAATAATT
1 TCATGAACTAATAATT
33290151 T
1 T
33290152 TAGGAACACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (16 bp):
TCATGAACTAATAATT
Found at i:33295811 original size:16 final size:16
Alignment explanation
Indices: 33295766--33295824 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
33295756 TTTTCTATCA
*
33295766 TTTTCACAGTCTACAG
1 TTTTCACAGTCTATAG
* * *
33295782 TTTTCATAATCTATGG
1 TTTTCACAGTCTATAG
33295798 TTTTCACAGTCTATA-
1 TTTTCACAGTCTATAG
*
33295813 ATTTCACA-TCTA
1 TTTTCACAGTCTA
33295825 AAGATCACTT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
14 4 0.11
15 7 0.20
16 24 0.69
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.44
Consensus pattern (16 bp):
TTTTCACAGTCTATAG
Found at i:33299537 original size:8 final size:8
Alignment explanation
Indices: 33299524--33299555 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
33299514 TTATCAGCTC
33299524 TTATTATT
1 TTATTATT
33299532 TTATTATT
1 TTATTATT
33299540 TTATTATT
1 TTATTATT
33299548 TTATTATT
1 TTATTATT
33299556 CTAAAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTATT
Found at i:33309173 original size:18 final size:18
Alignment explanation
Indices: 33309152--33309197 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
33309142 TTTTTTGATC
33309152 TCTTTTTCTTTTGCAATT
1 TCTTTTTCTTTTGCAATT
* * *
33309170 TCTTTTCCTTTTTCACTT
1 TCTTTTTCTTTTGCAATT
*
33309188 TCGTTTTCTT
1 TCTTTTTCTT
33309198 GTTGTTTTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.07, C:0.22, G:0.04, T:0.67
Consensus pattern (18 bp):
TCTTTTTCTTTTGCAATT
Found at i:33309269 original size:22 final size:21
Alignment explanation
Indices: 33309228--33309269 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
33309218 TTTTCCACTC
*
33309228 TTTCTTTTTCTTCTCTTTCAA
1 TTTCTTTTCCTTCTCTTTCAA
*
33309249 TTTCTTGTTCCTTTTCTTTCA
1 TTTCTT-TTCCTTCTCTTTCA
33309270 TCTTTCTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.07, C:0.24, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTCTTTTCCTTCTCTTTCAA
Found at i:33310516 original size:24 final size:22
Alignment explanation
Indices: 33310464--33310518 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 22
33310454 TTCGGCTATT
*
33310464 GATGTGTTCACACAACAATTAAA
1 GATG-GTTCACACAAAAATTAAA
*
33310487 -AGGGTTCACACTAAAACATTAAA
1 GATGGTTCACAC-AAAA-ATTAAA
33310510 GATGGTTCA
1 GATGGTTCA
33310519 TGAATTCGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 8 0.31
22 5 0.19
23 6 0.23
24 7 0.27
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (22 bp):
GATGGTTCACACAAAAATTAAA
Found at i:33312113 original size:37 final size:37
Alignment explanation
Indices: 33312063--33312141 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
33312053 TTATTACGAA
* * *
33312063 GTCTTACCCGGACATAATCTCCACACGA-AGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACAC-ATAGTCATCGG
33312100 GTCTTACCCGGACAAAATCCCCACACATAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACATAGTCATCGG
33312137 GTCTT
1 GTCTT
33312142 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.03
37 37 0.97
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACATAGTCATCGG
Found at i:33312363 original size:46 final size:47
Alignment explanation
Indices: 33312260--33312403 Score: 193
Period size: 47 Copynumber: 3.1 Consensus size: 47
33312250 CCCTTCGGGA
* * * * *
33312260 CTTATCACATTTATGCACTTTCACA-TCAATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTC-ATCACATTGGCCATTAGGC
* * *
33312307 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
33312353 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
33312400 CTTA
1 CTTA
33312404 CTATCATTTC
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
46 40 0.48
47 42 0.50
48 2 0.02
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:33315187 original size:27 final size:27
Alignment explanation
Indices: 33315157--33315208 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
33315147 TTATTGAAGC
*
33315157 ATCTTCATTGCTGTCCATGCATGTATT
1 ATCTTCAATGCTGTCCATGCATGTATT
*
33315184 ATCTTCAATGTTGTCCATGCATGTA
1 ATCTTCAATGCTGTCCATGCATGTA
33315209 CCTACAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.42
Consensus pattern (27 bp):
ATCTTCAATGCTGTCCATGCATGTATT
Found at i:33317276 original size:18 final size:18
Alignment explanation
Indices: 33317255--33317289 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33317245 TTTTTATTTT
33317255 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
33317273 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
33317290 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:33318518 original size:17 final size:17
Alignment explanation
Indices: 33318496--33318529 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
33318486 AACCTCACAG
33318496 GAACAATAGTTCATTCA
1 GAACAATAGTTCATTCA
33318513 GAACAATAGTTCATTCA
1 GAACAATAGTTCATTCA
33318530 ATAAAATGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (17 bp):
GAACAATAGTTCATTCA
Found at i:33319189 original size:20 final size:21
Alignment explanation
Indices: 33319164--33319213 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
33319154 GCAAGCTGGC
*
33319164 CTAGCTCAAATTTAGCTCG-TT
1 CTAGCTCAAA-TAAGCTCGATT
*
33319185 C-AGCTTAAATAAGCTCGATT
1 CTAGCTCAAATAAGCTCGATT
33319205 CTAGCTCAA
1 CTAGCTCAA
33319214 TGAACTCGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.29
20 10 0.42
21 7 0.29
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (21 bp):
CTAGCTCAAATAAGCTCGATT
Found at i:33319606 original size:27 final size:27
Alignment explanation
Indices: 33319568--33319619 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
33319558 TGTTTGTAGG
* *
33319568 TACATGCATGGACAGCATTGAAGATAA
1 TACATGCATGGACAACAATGAAGATAA
33319595 TACATGCATGGACAACAATGAAGAT
1 TACATGCATGGACAACAATGAAGAT
33319620 GCTTTAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (27 bp):
TACATGCATGGACAACAATGAAGATAA
Found at i:33320314 original size:23 final size:22
Alignment explanation
Indices: 33320277--33320331 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 22
33320267 GCCGAATTCA
*
33320277 TGAACCATCTTTAATGTTTTAGTG
1 TGAACCATCTTTAAT-TGTT-GTG
*
33320301 TGAACCCT-TTTAATTGTTGTG
1 TGAACCATCTTTAATTGTTGTG
33320322 TGAACACATC
1 TGAAC-CATC
33320332 AGTAGCCGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 8 0.31
22 5 0.19
23 6 0.23
24 7 0.27
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (22 bp):
TGAACCATCTTTAATTGTTGTG
Found at i:33325029 original size:22 final size:23
Alignment explanation
Indices: 33325004--33325055 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
33324994 TCGACAAGCC
33325004 ACCACATAATTGTC-GATAAA-TG
1 ACCACATAATT-TCAGATAAACTG
*
33325026 ACCACCTAATTTCAGATAAACTG
1 ACCACATAATTTCAGATAAACTG
33325049 -CCACATA
1 ACCACATA
33325056 TCTTCCTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (23 bp):
ACCACATAATTTCAGATAAACTG
Found at i:33327146 original size:48 final size:48
Alignment explanation
Indices: 33327055--33327148 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
33327045 CAGCAATTAC
***
33327055 ACATAACATATAACACATATAGAGTCATATTTGTTTACCCTTTTCAAT
1 ACATAACATATAACACATATAGAGTCATATTAACTTACCCTTTTCAAT
* *
33327103 ACATAACATATAACATATACTA-AGTCATATTAACTTACTCTTTTCA
1 ACATAACATATAACACATA-TAGAGTCATATTAACTTACCCTTTTCA
33327149 TATCCTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 38 0.95
49 2 0.05
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.37
Consensus pattern (48 bp):
ACATAACATATAACACATATAGAGTCATATTAACTTACCCTTTTCAAT
Found at i:33327579 original size:54 final size:54
Alignment explanation
Indices: 33327515--33327653 Score: 260
Period size: 54 Copynumber: 2.6 Consensus size: 54
33327505 GCATGCCTTA
33327515 GGTCTAGCACATCTGCTATTCTGGTTTGCAACTCAACTAGCATGCCCTACCAGT
1 GGTCTAGCACATCTGCTATTCTGGTTTGCAACTCAACTAGCATGCCCTACCAGT
* *
33327569 GGTCTAGCACATATGCTATTCTGGTTTGCAACTCAACTAGCATGCCTTACCAGT
1 GGTCTAGCACATCTGCTATTCTGGTTTGCAACTCAACTAGCATGCCCTACCAGT
33327623 GGTCTAGCACATCTGCTATTCTGGTTTGCAA
1 GGTCTAGCACATCTGCTATTCTGGTTTGCAA
33327654 ACAACAAGCC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (54 bp):
GGTCTAGCACATCTGCTATTCTGGTTTGCAACTCAACTAGCATGCCCTACCAGT
Found at i:33329344 original size:71 final size:71
Alignment explanation
Indices: 33329269--33329481 Score: 169
Period size: 71 Copynumber: 3.1 Consensus size: 71
33329259 ACCAAAATTA
*
33329269 ATTAATATAATTGTTTATATTAATAAATTCGGTAATATATAATTAATATTTTGTATGAATCAAAT
1 ATTAATATAATTCTTTATATTAATAAATTCGGTAATATATAATTAATATTTTGTATGAATCAAAT
33329334 TCATAT
66 TCATAT
** * *** ** ** *
33329340 ATTAAT-TATATTCTTTCCA-AAATAATATTAATTTTTATATCTTTTATATTTTG-ACT--A--A
1 ATTAATATA-ATTCTTTATATTAATAA-ATTCGGTAATATATAATTAATATTTTGTA-TGAATCA
33329398 AA-T--TA-
63 AATTCATAT
*
33329403 ATTAATATAATTTTTTATATTAATAAATTCGGTAAAATATATACCATTAATATTTTGTATGAATC
1 ATTAATATAATTCTTTATATTAATAAATTCGGT--AATATATA--ATTAATATTTTGTATGAATC
33329468 AAATTCATAT
62 AAATTCATAT
33329478 ATTA
1 ATTA
33329482 GTTATATTCT
Statistics
Matches: 100, Mismatches: 24, Indels: 32
0.64 0.15 0.21
Matches are distributed among these distances:
63 17 0.17
64 9 0.09
65 5 0.05
66 1 0.01
67 14 0.14
68 1 0.01
69 2 0.02
70 8 0.08
71 36 0.36
72 1 0.01
74 2 0.02
75 4 0.04
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (71 bp):
ATTAATATAATTCTTTATATTAATAAATTCGGTAATATATAATTAATATTTTGTATGAATCAAAT
TCATAT
Found at i:33329507 original size:138 final size:138
Alignment explanation
Indices: 33329126--33329626 Score: 805
Period size: 138 Copynumber: 3.7 Consensus size: 138
33329116 TGTTAACCTT
* * * * *
33329126 AATTAATCAATATAACTGTTTCTATTAATAAATTTGGTAAAATATATACAATTAATATTTTGCAT
1 AATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTAT
* * *
33329191 GAATCAAATTCATATATTAATTATATTCTTTCCTAAATAATATTAATTTCCA-AGTATTTTATAT
66 GAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTTCATA-TCTTTTATAT
33329255 TTTGACCAA
130 TTTGACCAA
33329264 AATTAATTAATATAATTGTTTATATTAATAAATTCGGT--AATATAT--AATTAATATTTTGTAT
1 AATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTAT
*
33329325 GAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTTTATATCTTTTATATT
66 GAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTTCATATCTTTTATATT
*
33329390 TTGACTAA
131 TTGACCAA
* *
33329398 AATTAATTAATATAATTTTTTATATTAATAAATTCGGTAAAATATATACCATTAATATTTTGTAT
1 AATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTAT
* * *
33329463 GAATCAAATTCATATATTAGTTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATT
66 GAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTTCATATCTTTTATATT
33329528 TTGACCAA
131 TTGACCAA
*
33329536 AATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTTTAT
1 AATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTAT
*
33329601 GAATCGAATTCATATATTAATTATAT
66 GAATCAAATTCATATATTAATTATAT
33329627 CTATATTCTC
Statistics
Matches: 336, Mismatches: 22, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
134 118 0.35
135 1 0.00
136 14 0.04
138 203 0.60
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.47
Consensus pattern (138 bp):
AATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTAT
GAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTTCATATCTTTTATATT
TTGACCAA
Found at i:33329786 original size:12 final size:12
Alignment explanation
Indices: 33329769--33329793 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33329759 CTTCGTTTCA
33329769 ACTAAATACAAT
1 ACTAAATACAAT
33329781 ACTAAATACAAT
1 ACTAAATACAAT
33329793 A
1 A
33329794 TAAGACCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (12 bp):
ACTAAATACAAT
Found at i:33337538 original size:12 final size:12
Alignment explanation
Indices: 33337507--33337539 Score: 52
Period size: 10 Copynumber: 2.9 Consensus size: 12
33337497 CATTCATATG
33337507 TCCAAAACACAT
1 TCCAAAACACAT
33337519 T-C-AAACACAT
1 TCCAAAACACAT
33337529 TCCAAAACACA
1 TCCAAAACACA
33337540 CCAAATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.47
11 2 0.11
12 8 0.42
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (12 bp):
TCCAAAACACAT
Found at i:33338233 original size:15 final size:15
Alignment explanation
Indices: 33338199--33338243 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
33338189 TATTATTTTT
33338199 ATAACCTTTTCCATCA
1 ATAACCTTTT-CATCA
*
33338215 ATAACCTTTTCATCG
1 ATAACCTTTTCATCA
*
33338230 ATAACTTTTTCATC
1 ATAACCTTTTCATC
33338244 CTTTTCATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 17 0.63
16 10 0.37
ACGTcount: A:0.29, C:0.27, G:0.02, T:0.42
Consensus pattern (15 bp):
ATAACCTTTTCATCA
Found at i:33349827 original size:13 final size:12
Alignment explanation
Indices: 33349806--33349848 Score: 63
Period size: 13 Copynumber: 3.7 Consensus size: 12
33349796 CTTTCTCTTC
33349806 TTTTTTTTCGAA
1 TTTTTTTTCGAA
33349818 TTTCTTTTTCGAA
1 TTT-TTTTTCGAA
33349831 TTTTTTTT--AA
1 TTTTTTTTCGAA
33349841 TTTTTTTT
1 TTTTTTTT
33349849 TTAATTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.33
12 8 0.27
13 12 0.40
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.74
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:33349849 original size:12 final size:12
Alignment explanation
Indices: 33349831--33349855 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33349821 CTTTTTCGAA
33349831 TTTTTTTTAATT
1 TTTTTTTTAATT
33349843 TTTTTTTTAATT
1 TTTTTTTTAATT
33349855 T
1 T
33349856 ACAATTTACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTTAATT
Found at i:33353756 original size:15 final size:15
Alignment explanation
Indices: 33353716--33353787 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
33353706 TATTATTTGT
*
33353716 ATAACCTTTTCAATCA
1 ATAACCTTTTC-ATCG
33353732 ATAACCTTTTCATCG
1 ATAACCTTTTCATCG
*
33353747 ATAGCCTTTTCATCG
1 ATAACCTTTTCATCG
* *
33353762 GTAACCTTTTTCATCA
1 ATAACC-TTTTCATCG
*
33353778 ATAACATTTT
1 ATAACCTTTT
33353788 AATCCTTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
15 25 0.52
16 23 0.48
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.42
Consensus pattern (15 bp):
ATAACCTTTTCATCG
Found at i:33355949 original size:37 final size:37
Alignment explanation
Indices: 33355899--33355977 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
33355889 TTATTACGAA
* * *
33355899 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
33355936 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
33355973 GTCTT
1 GTCTT
33355978 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:33356246 original size:47 final size:47
Alignment explanation
Indices: 33356096--33356566 Score: 759
Period size: 47 Copynumber: 10.1 Consensus size: 47
33356086 CCCTTCGGGA
* * * * * * *
33356096 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33356143 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33356189 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33356236 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33356283 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33356330 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33356377 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33356424 CTTATCA-ACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33356470 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33356517 CTTAT-ACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33356563 CTTA
1 CTTA
33356567 CTATCATTTC
Statistics
Matches: 406, Mismatches: 16, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
46 130 0.32
47 276 0.68
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33356307 original size:94 final size:94
Alignment explanation
Indices: 33356096--33356566 Score: 768
Period size: 93 Copynumber: 5.0 Consensus size: 94
33356086 CCCTTCGGGA
* * * * * * * * *
33356096 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
33356161 TTTCACATTCA-CACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
*
33356189 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
33356254 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
*
33356283 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
33356348 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
* *
33356377 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA-ACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
33356441 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
* *
33356470 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-ACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
33356534 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
33356563 CTTA
1 CTTA
33356567 CTATCATTTC
Statistics
Matches: 359, Mismatches: 17, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
92 1 0.00
93 196 0.55
94 162 0.45
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGC
Found at i:33356523 original size:38 final size:40
Alignment explanation
Indices: 33356480--33356582 Score: 120
Period size: 46 Copynumber: 2.5 Consensus size: 40
33356470 CTTATCACAC
33356480 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCC-T-T
33356522 ACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ----ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
33356566 ACTAT-CA-TTTCATATTC
1 A-TATACACTTTCACATTC
33356583 GAATACTCAT
Statistics
Matches: 55, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
39 9 0.16
40 3 0.05
41 3 0.05
44 1 0.02
45 1 0.02
46 38 0.69
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (40 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:33359217 original size:5 final size:5
Alignment explanation
Indices: 33359207--33359253 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
33359197 AATTATAAAA
33359207 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
33359254 TATGTAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:33360669 original size:45 final size:45
Alignment explanation
Indices: 33360609--33360695 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
33360599 ATTGTTACTG
* *
33360609 TTACCGATTCGGCACTTTGTGTGCCGAATACTGTTACTGTTATTA
1 TTACAGATTCAGCACTTTGTGTGCCGAATACTGTTACTGTTATTA
**
33360654 TTACAGATTCAGCACTTTGTGTGTTGAATACTGTTACTGTTA
1 TTACAGATTCAGCACTTTGTGTGCCGAATACTGTTACTGTTA
33360696 CTGCTACCGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (45 bp):
TTACAGATTCAGCACTTTGTGTGCCGAATACTGTTACTGTTATTA
Found at i:33367889 original size:29 final size:29
Alignment explanation
Indices: 33367857--33367924 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
33367847 GAGAATTTGT
*
33367857 AATGAGAGAAGAAAAATATGTTGAGAGAA
1 AATGAGAGAAGAAAAAGATGTTGAGAGAA
* *
33367886 AATGGGAGAAGAAAAAGATGTTGGGAGAA
1 AATGAGAGAAGAAAAAGATGTTGAGAGAA
*
33367915 ATTGAGAGAA
1 AATGAGAGAA
33367925 TTTTGATAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.51, C:0.00, G:0.32, T:0.16
Consensus pattern (29 bp):
AATGAGAGAAGAAAAAGATGTTGAGAGAA
Found at i:33370852 original size:24 final size:25
Alignment explanation
Indices: 33370820--33370879 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
33370810 TGATTTTGAA
* *
33370820 TTCGGTTTTA-TTTAAAAT-ATTTAT
1 TTCGATTTTATTTTAAAATGATTT-C
*
33370844 TTCGATTTTAATTTTAAATTGATTTC
1 TTCGATTTT-ATTTTAAAATGATTTC
33370870 TTCGATTTTA
1 TTCGATTTTA
33370880 CCTTAGTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 8 0.27
25 2 0.07
26 16 0.53
27 4 0.13
ACGTcount: A:0.27, C:0.07, G:0.08, T:0.58
Consensus pattern (25 bp):
TTCGATTTTATTTTAAAATGATTTC
Found at i:33370859 original size:26 final size:26
Alignment explanation
Indices: 33370830--33370879 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
33370820 TTCGGTTTTA
*
33370830 TTTAAAAT-ATTTATTTCGATTTTAAT
1 TTTAAAATGATTT-CTTCGATTTTAAT
*
33370856 TTTAAATTGATTTCTTCGATTTTA
1 TTTAAAATGATTTCTTCGATTTTA
33370880 CCTTAGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTAAAATGATTTCTTCGATTTTAAT
Found at i:33372890 original size:2 final size:2
Alignment explanation
Indices: 33372883--33372918 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
33372873 GGGTTTTGAA
*
33372883 AG AG AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
33372919 GTTTTCTCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33382031 original size:36 final size:36
Alignment explanation
Indices: 33381984--33382058 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
33381974 GAATACAATA
33381984 ATAAAGTACATTCTGCTCTCAAAAAACACTCAGAAT
1 ATAAAGTACATTCTGCTCTCAAAAAACACTCAGAAT
33382020 ATAAAGTACATTCTGCTCTCAAAAAACACTCAGAAT
1 ATAAAGTACATTCTGCTCTCAAAAAACACTCAGAAT
33382056 ATA
1 ATA
33382059 TATATACTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.25
Consensus pattern (36 bp):
ATAAAGTACATTCTGCTCTCAAAAAACACTCAGAAT
Found at i:33383251 original size:41 final size:42
Alignment explanation
Indices: 33383200--33383281 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 42
33383190 TTTAATATTA
*
33383200 AATATTAAATATAAAATATTTTCCAAATTACTAG-AATCTTT
1 AATATTAAATATAAAATACTTTCCAAATTACTAGAAATCTTT
**
33383241 AATATTAAATATAAAATACTTTGTAAATTACTAGAAATCTT
1 AATATTAAATATAAAATACTTTCCAAATTACTAGAAATCTT
33383282 ATCGCACGCG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 31 0.84
42 6 0.16
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.40
Consensus pattern (42 bp):
AATATTAAATATAAAATACTTTCCAAATTACTAGAAATCTTT
Found at i:33384058 original size:6 final size:6
Alignment explanation
Indices: 33384035--33384068 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
33384025 CTCCTTGCAT
* *
33384035 AAAATA AAATTT AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
33384069 AGCTTAAACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:33406203 original size:40 final size:40
Alignment explanation
Indices: 33406119--33406302 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
33406109 TTGAATGCTG
* * * *
33406119 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
33406158 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
33406199 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
33406239 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
33406279 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33406303 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:33406256 original size:80 final size:81
Alignment explanation
Indices: 33406119--33406299 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
33406109 TTGAATGCTG
* * *
33406119 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
33406183 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
33406199 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
33406260 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
33406279 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
33406300 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:33406356 original size:39 final size:39
Alignment explanation
Indices: 33406119--33406361 Score: 122
Period size: 40 Copynumber: 6.1 Consensus size: 39
33406109 TTGAATGCTG
* ** *
33406119 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTGAAC-GAGTGACTATA
* * ** * *
33406159 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTA-A
1 TCCGGGCTAAG-TCCCGAAGGCA-TTGAACGAGTGACTATA
* * **
33406198 TTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGAT-ACTA-A
1 -TCCGGGCTAAGTCCCGAAGG-CATTGAACGAG-TGACTATA
* ** ** *
33406238 TTCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT-TTTAAAA
1 -TCCGGGCTAAGTCCCGAAGGCATT-GAACGAGTGACT-ATA
* * *
33406279 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATA
*
33406318 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG-GAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCA-TTGAACGAGTGA-CTATA
33406357 TCCGG
1 TCCGG
33406362 TTAAATTCCG
Statistics
Matches: 166, Mismatches: 24, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
38 20 0.12
39 27 0.16
40 110 0.66
41 9 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATA
Found at i:33414106 original size:40 final size:40
Alignment explanation
Indices: 33414022--33414205 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
33414012 TTGAATGCTG
* * * *
33414022 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
33414061 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
33414102 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
33414142 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
33414182 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33414206 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:33414159 original size:80 final size:81
Alignment explanation
Indices: 33414022--33414202 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
33414012 TTGAATGCTG
* * *
33414022 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
33414086 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
33414102 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
33414163 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
33414182 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
33414203 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:33414226 original size:39 final size:38
Alignment explanation
Indices: 33414103--33414252 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
33414093 GTTATTAATT
* ** * *
33414103 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
33414143 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
33414182 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
33414222 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
33414253 GAGCTATATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:33414260 original size:40 final size:39
Alignment explanation
Indices: 33414143--33414265 Score: 97
Period size: 40 Copynumber: 3.1 Consensus size: 39
33414133 GATACTAATT
* ** ** *
33414143 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT-TTTAAAA
1 CCGGGCTAAGTCCCGAAGGCATT-GAACGAGTGACTATAA
* * *
33414182 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
* *
33414222 CCGGGCTATGTCCCGAAGGCACTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGAACGAGTGA-CTATAA
33414262 CCGG
1 CCGG
33414266 TTAAATTCCG
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 25 0.36
40 44 0.64
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
Found at i:33416004 original size:28 final size:28
Alignment explanation
Indices: 33415941--33416120 Score: 258
Period size: 28 Copynumber: 6.5 Consensus size: 28
33415931 ATATTAAGTC
*
33415941 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
33415968 CACACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
33415996 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
33416024 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
33416052 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33416080 CG-ACACTTAGTGCTGACA-ATTTAAACC
1 CGCACACTTAGTGCT-ATATAATCAAACT
33416107 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33416121 CGAGATCAAC
Statistics
Matches: 139, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
27 40 0.29
28 99 0.71
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33424118 original size:28 final size:28
Alignment explanation
Indices: 33424055--33424208 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
33424045 ATATTAAGTC
*
33424055 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
33424082 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
33424110 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
33424138 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33424166 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
33424195 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33424209 CGAGATCAAC
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.18
28 76 0.66
29 19 0.16
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33425928 original size:18 final size:17
Alignment explanation
Indices: 33425883--33425988 Score: 90
Period size: 17 Copynumber: 6.2 Consensus size: 17
33425873 AAAGCTTCCA
*
33425883 TTTTAGAAAACTTCCAT
1 TTTTAGAAAACTTTCAT
**
33425900 TCCTA-AAAACTTTCTAT
1 TTTTAGAAAACTTTC-AT
* *
33425917 TTTTTGAAAACTTATTAT
1 TTTTAGAAAACTT-TCAT
* **
33425935 TTTTAGTAATTTTTCAT
1 TTTTAGAAAACTTTCAT
* *
33425952 TTTT-GGAAACTTTAAT
1 TTTTAGAAAACTTTCAT
33425968 TTTTAGAAAACTTTCAT
1 TTTTAGAAAACTTTCAT
33425985 TTTT
1 TTTT
33425989 CGTCATTTTC
Statistics
Matches: 67, Mismatches: 18, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
16 20 0.30
17 28 0.42
18 18 0.27
19 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.52
Consensus pattern (17 bp):
TTTTAGAAAACTTTCAT
Found at i:33430012 original size:15 final size:15
Alignment explanation
Indices: 33429992--33430022 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
33429982 AATAAAACTT
33429992 TGGTTTAATGATAAA
1 TGGTTTAATGATAAA
33430007 TGGTTTAATGATAAA
1 TGGTTTAATGATAAA
33430022 T
1 T
33430023 TTAATGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (15 bp):
TGGTTTAATGATAAA
Found at i:33506761 original size:18 final size:19
Alignment explanation
Indices: 33506740--33506785 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
33506730 TTCCACTTCA
33506740 TTCTCAACTTT-CTCTTTG
1 TTCTCAACTTTCCTCTTTG
33506758 TTCTCAA-TTTCCTCTTTG
1 TTCTCAACTTTCCTCTTTG
* *
33506776 CTATCAACTT
1 TTCTCAACTT
33506786 GAGTTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 19 0.79
19 2 0.08
ACGTcount: A:0.15, C:0.28, G:0.04, T:0.52
Consensus pattern (19 bp):
TTCTCAACTTTCCTCTTTG
Found at i:33509313 original size:9 final size:9
Alignment explanation
Indices: 33509299--33509325 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
33509289 CTATTTCATG
33509299 TTAATTAAT
1 TTAATTAAT
33509308 TTAATTAAT
1 TTAATTAAT
33509317 TTAATTAAT
1 TTAATTAAT
33509326 ATTTTAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTAATTAAT
Found at i:33510568 original size:28 final size:28
Alignment explanation
Indices: 33510528--33510582 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
33510518 ATAAGTGGGA
33510528 GATCCAACACTTAATGCATGTTATATTT
1 GATCCAACACTTAATGCATGTTATATTT
* **
33510556 GATCCAACGCTTAATGTGTGTTATATT
1 GATCCAACACTTAATGCATGTTATATT
33510583 GCAATAGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (28 bp):
GATCCAACACTTAATGCATGTTATATTT
Found at i:33511482 original size:21 final size:21
Alignment explanation
Indices: 33511444--33511483 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33511434 TAATAATGTC
*
33511444 TCAAAACATTAAGAACATACA
1 TCAAAACATCAAGAACATACA
* *
33511465 TCAAAACCTCAAGTACATA
1 TCAAAACATCAAGAACATA
33511484 ATTAATTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.23, G:0.05, T:0.20
Consensus pattern (21 bp):
TCAAAACATCAAGAACATACA
Found at i:33511562 original size:68 final size:68
Alignment explanation
Indices: 33511472--33511619 Score: 248
Period size: 68 Copynumber: 2.2 Consensus size: 68
33511462 ACATCAAAAC
* *
33511472 CTCAAG-T-ACATAATTAATTATTTGGAGCATATCGCAAATTTTGGTCTTGAGAGTAAACAAACA
1 CTCAAGATAACATGATTAATTATTTGGAGCATATCGCAAATTTTGGTCTTGAGACTAAACAAACA
33511535 AAT
66 AAT
*
33511538 CTCAAGATAACATGATTAATTATTTGGTGCATATCGCAAATTTTGGTCTTGAGACTAAACAAACA
1 CTCAAGATAACATGATTAATTATTTGGAGCATATCGCAAATTTTGGTCTTGAGACTAAACAAACA
33511603 AAT
66 AAT
33511606 CTC-AGATAACATGA
1 CTCAAGATAACATGA
33511620 CTCAAATCTC
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
66 6 0.08
67 12 0.16
68 59 0.77
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (68 bp):
CTCAAGATAACATGATTAATTATTTGGAGCATATCGCAAATTTTGGTCTTGAGACTAAACAAACA
AAT
Found at i:33511828 original size:35 final size:35
Alignment explanation
Indices: 33511782--33511849 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
33511772 CCTAATTGCA
33511782 TTAAATAATATCATTTGAGATTTGTTAAACATGCG
1 TTAAATAATATCATTTGAGATTTGTTAAACATGCG
33511817 TTAAATAATATCATTTGAGATTTGTTAAACATG
1 TTAAATAATATCATTTGAGATTTGTTAAACATG
33511850 TTTATGTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.41
Consensus pattern (35 bp):
TTAAATAATATCATTTGAGATTTGTTAAACATGCG
Found at i:33513003 original size:23 final size:23
Alignment explanation
Indices: 33512974--33513020 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
33512964 TACTTAAAAG
33512974 AAAATTAAACATATCTGTACCTA
1 AAAATTAAACATATCTGTACCTA
33512997 AAAATTAAACATATCTGTACCTA
1 AAAATTAAACATATCTGTACCTA
33513020 A
1 A
33513021 CTCTCTCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (23 bp):
AAAATTAAACATATCTGTACCTA
Done.