Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, whole genome shotgun sequence
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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 58 of 84
Found at i:13093220 original size:16 final size:18
Alignment explanation
Indices: 13093189--13093229 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
13093179 TGTATGAATT
13093189 TTTTCTTTTTGTTTTTGA-
1 TTTT-TTTTTGTTTTTGAC
13093207 TTTTTTTTTG-TTTTGAC
1 TTTTTTTTTGTTTTTGAC
13093224 TTTTTT
1 TTTTTT
13093230 GTTAAAAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.27
17 12 0.55
18 4 0.18
ACGTcount: A:0.05, C:0.05, G:0.10, T:0.80
Consensus pattern (18 bp):
TTTTTTTTTGTTTTTGAC
Found at i:13095544 original size:8 final size:8
Alignment explanation
Indices: 13095497--13095562 Score: 57
Period size: 8 Copynumber: 8.4 Consensus size: 8
13095487 TCGTATAAGG
13095497 AAAGAAGAA
1 AAAGAA-AA
*
13095506 AAAG-GAA
1 AAAGAAAA
*
13095513 AAAGAAAG
1 AAAGAAAA
*
13095521 AAAGAAAG
1 AAAGAAAA
13095529 AAAG--AA
1 AAAGAAAA
13095535 AAAGAAAA
1 AAAGAAAA
*
13095543 AAATAAAAA
1 AAA-GAAAA
13095552 AAAGAAAA
1 AAAGAAAA
13095560 AAA
1 AAA
13095563 TAGTAATAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
6 5 0.11
7 6 0.13
8 25 0.53
9 11 0.23
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (8 bp):
AAAGAAAA
Found at i:13095551 original size:9 final size:9
Alignment explanation
Indices: 13095497--13095562 Score: 64
Period size: 9 Copynumber: 7.2 Consensus size: 9
13095487 TCGTATAAGG
13095497 AAAGAAGAAA
1 AAAGAA-AAA
*
13095507 AAGGAAAAA
1 AAAGAAAAA
*
13095516 GAAAG-AAAG
1 -AAAGAAAAA
13095525 AAAGAAAGAA
1 AAAGAAA-AA
13095535 AAAG-AAAA
1 AAAGAAAAA
*
13095543 AAATAAAAA
1 AAAGAAAAA
13095552 AAAGAAAAA
1 AAAGAAAAA
13095561 AA
1 AA
13095563 TAGTAATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 9 0.20
9 24 0.52
10 13 0.28
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:13095564 original size:17 final size:17
Alignment explanation
Indices: 13095497--13095562 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 17
13095487 TCGTATAAGG
13095497 AAAGAAGAAAAAGGAAAAA
1 AAAGAA-AAAAA-GAAAAA
*
13095516 GAAAGAAAGAAAGAAAGAA
1 -AAAGAAAAAAAGAAA-AA
*
13095535 AAAGAAAAAAATAAAAA
1 AAAGAAAAAAAGAAAAA
13095552 AAAGAAAAAAA
1 AAAGAAAAAAA
13095563 TAGTAATAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
17 13 0.31
18 17 0.40
19 6 0.14
20 6 0.14
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (17 bp):
AAAGAAAAAAAGAAAAA
Found at i:13095572 original size:3 final size:3
Alignment explanation
Indices: 13095561--13095607 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
13095551 AAAAGAAAAA
* *
13095561 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13095608 AAAAAAATGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13097379 original size:78 final size:76
Alignment explanation
Indices: 13097297--13097479 Score: 235
Period size: 78 Copynumber: 2.4 Consensus size: 76
13097287 TTTTTGCTTG
*
13097297 TTTATTTTCTCTTTTCTTTTTGTTGTATGATACACAAGTAAGTTTAAACGGTGAAAGATATT-GC
1 TTTATTTTCTCTTTTATTTTTGTTGTATGATACACAAGTAAGTTTAAACGGTGAAAGATATTAGC
13097361 ATGTTCTTTCTCTA
66 AT-TT-TTTC-CTA
* * * *
13097375 TTTATTTAT-TCTTTTATTTTTGTTATATGATATACAAGTAGGTTTGAACGGTGAAAGATATTAA
1 TTTATTT-TCTCTTTTATTTTTGTTGTATGATACACAAGTAAGTTTAAACGGTGAAAGATATT-A
*
13097439 GTATTTTTTCCTA
64 GCATTTTTTCCTA
* *
13097452 TTTATTTCCTTTTTTATTTTTGTTGTAT
1 TTTATTTTCTCTTTTATTTTTGTTGTAT
13097480 TGCAATTTTT
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
77 27 0.29
78 59 0.64
79 3 0.03
80 3 0.03
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.54
Consensus pattern (76 bp):
TTTATTTTCTCTTTTATTTTTGTTGTATGATACACAAGTAAGTTTAAACGGTGAAAGATATTAGC
ATTTTTTCCTA
Found at i:13098256 original size:35 final size:35
Alignment explanation
Indices: 13098200--13098268 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
13098190 AAGAATAGCA
*
13098200 CTAATAATTGCAAGGCTATAAAAAATAATAATGCG
1 CTAAAAATTGCAAGGCTATAAAAAATAATAATGCG
* **
13098235 CTAAAAATTTCAAGGCTATAAACTATAATAATGC
1 CTAAAAATTGCAAGGCTATAAAAAATAATAATGC
13098269 TTGTGATGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.28
Consensus pattern (35 bp):
CTAAAAATTGCAAGGCTATAAAAAATAATAATGCG
Found at i:13107160 original size:8 final size:8
Alignment explanation
Indices: 13107145--13107187 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
13107135 AGCTCCATTT
13107145 AAATAAAA
1 AAATAAAA
*
13107153 ACATAAAA
1 AAATAAAA
13107161 TAAATAAAA
1 -AAATAAAA
*
13107170 AAA-ATAA
1 AAATAAAA
13107177 AAATAAAA
1 AAATAAAA
13107185 AAA
1 AAA
13107188 CTCAAGAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 6 0.21
8 16 0.55
9 7 0.24
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATAAAA
Found at i:13107536 original size:17 final size:17
Alignment explanation
Indices: 13107516--13107562 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
13107506 AAAATTTAAG
13107516 AAAACAAAAAAATAATA-
1 AAAACAAAAAAATAA-AC
13107533 AAAA-AAGAAAAATAAAC
1 AAAACAA-AAAAATAAAC
*
13107550 TAAACAAAAAAAT
1 AAAACAAAAAAAT
13107563 TGGTTCCACA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 3 0.12
17 21 0.81
18 2 0.08
ACGTcount: A:0.81, C:0.06, G:0.02, T:0.11
Consensus pattern (17 bp):
AAAACAAAAAAATAAAC
Found at i:13108308 original size:14 final size:15
Alignment explanation
Indices: 13108291--13108341 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 15
13108281 AATATATCTA
13108291 ATAAAAATAAAAA-T
1 ATAAAAATAAAAATT
13108305 AT-AAAATAAAAATT
1 ATAAAAATAAAAATT
*
13108319 ACAAAAAGTAAAAAATT
1 ATAAAAA-T-AAAAATT
13108336 A-AAAAA
1 ATAAAAA
13108342 AGTTAATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 10 0.31
14 4 0.12
15 4 0.12
16 6 0.19
17 8 0.25
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (15 bp):
ATAAAAATAAAAATT
Found at i:13108334 original size:17 final size:17
Alignment explanation
Indices: 13108312--13108344 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13108302 AATATAAAAT
*
13108312 AAAAATTACAAAAAGTA
1 AAAAATTAAAAAAAGTA
13108329 AAAAATTAAAAAAAGT
1 AAAAATTAAAAAAAGT
13108345 TAATTAAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAATTAAAAAAAGTA
Found at i:13109450 original size:18 final size:19
Alignment explanation
Indices: 13109407--13109457 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
13109397 AAAATTATCT
13109407 AATAAAAAACAAACGAAAA
1 AATAAAAAACAAACGAAAA
* *
13109426 AA-AAAAAA-AAAAGTAACA
1 AATAAAAAACAAACG-AAAA
13109444 AATAAAACAACAAA
1 AATAAAA-AACAAA
13109458 AAAATCAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 4 0.15
18 11 0.42
19 6 0.23
20 2 0.08
21 3 0.12
ACGTcount: A:0.80, C:0.10, G:0.04, T:0.06
Consensus pattern (19 bp):
AATAAAAAACAAACGAAAA
Found at i:13110110 original size:41 final size:41
Alignment explanation
Indices: 13110039--13110127 Score: 117
Period size: 41 Copynumber: 2.1 Consensus size: 41
13110029 TAAGATATTA
* *
13110039 AATAATATTTTTATTAATATAATAATATAAAATTAAATGAAT
1 AATAA-ATTTATATTAATATAATAATATAAAAATAAATGAAT
* *
13110081 AATAAATTTATATTTATAT-ATAAATATAAAAATAAATTAAT
1 AATAAATTTATATTAATATAAT-AATATAAAAATAAATGAAT
13110122 AATAAA
1 AATAAA
13110128 ACATATATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
40 2 0.05
41 35 0.83
42 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (41 bp):
AATAAATTTATATTAATATAATAATATAAAAATAAATGAAT
Found at i:13112918 original size:4 final size:4
Alignment explanation
Indices: 13112909--13112939 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
13112899 TACTTTTAGA
*
13112909 AAAT AAAT AAAT AAAT AAAT AAAT GAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
13112940 GAATAACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:13113924 original size:15 final size:15
Alignment explanation
Indices: 13113884--13113941 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
13113874 GTAAGGTAAT
*
13113884 AATAAAACAATAACAA
1 AATAAAATAATAA-AA
* *
13113900 AATAAGATAATAAAT
1 AATAAAATAATAAAA
13113915 AATAAAATAATAAAA
1 AATAAAATAATAAAA
*
13113930 AATAAGATAATA
1 AATAAAATAATA
13113942 TAGAGATAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
15 25 0.69
16 11 0.31
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.21
Consensus pattern (15 bp):
AATAAAATAATAAAA
Found at i:13113934 original size:30 final size:30
Alignment explanation
Indices: 13113857--13113941 Score: 104
Period size: 30 Copynumber: 2.8 Consensus size: 30
13113847 AACTAACAAC
13113857 AAAATAATAAATAAAT-AG-TAAGGT-AATAAT
1 AAAATAATAAA-AAATAAGATAA--TAAATAAT
*
13113887 AAAACAATAACAAAATAAGATAATAAATAAT
1 AAAATAATAA-AAAATAAGATAATAAATAAT
13113918 AAAATAATAAAAAATAAGATAATA
1 AAAATAATAAAAAATAAGATAATA
13113942 TAGAGATAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
30 28 0.57
31 18 0.37
32 3 0.06
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.22
Consensus pattern (30 bp):
AAAATAATAAAAAATAAGATAATAAATAAT
Found at i:13113941 original size:8 final size:7
Alignment explanation
Indices: 13113881--13114011 Score: 52
Period size: 8 Copynumber: 17.3 Consensus size: 7
13113871 ATAGTAAGGT
13113881 AATAATAA
1 AATAAT-A
*
13113889 AACAATA
1 AATAATA
*
13113896 ACAAAATA
1 A-ATAATA
13113904 AGATAATA
1 A-ATAATA
13113912 AATAATAA
1 AATAAT-A
13113920 AATAATA
1 AATAATA
*
13113927 AAAAATA
1 AATAATA
13113934 AGATAATA
1 A-ATAATA
* *
13113942 TAGAGATA
1 AATA-ATA
* *
13113950 ATTACTTA
1 AATA-ATA
13113958 AA-AATA
1 AATAATA
13113964 AATAAATA
1 AAT-AATA
13113972 TCAATAATA
1 --AATAATA
*
13113981 ATAGAAT-
1 A-ATAATA
13113988 AATAATA
1 AATAATA
13113995 GGAATAAT-
1 --AATAATA
13114003 AATAATA
1 AATAATA
13114010 AA
1 AA
13114012 ACTAATGATA
Statistics
Matches: 93, Mismatches: 17, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
6 14 0.15
7 22 0.24
8 44 0.47
9 10 0.11
10 3 0.03
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.25
Consensus pattern (7 bp):
AATAATA
Found at i:13114426 original size:88 final size:88
Alignment explanation
Indices: 13114263--13114459 Score: 268
Period size: 88 Copynumber: 2.2 Consensus size: 88
13114253 CTTTGAAATG
* * * *
13114263 TAAATAAGGCTCCTCTAAATAGAGGCCTAATAACTTTTGATAAACAAGTAAGGCTCCTCTCAACA
1 TAAATAAGGCTCCTCTAAACAGAGGCCTAATAACTTTTGAAAAACAAGTAAAGCTCCTCTAAACA
* * * *
13114328 TAGACTCAACGATTTTTTAAAAA
66 GAGACCCAACGACTTTTAAAAAA
* * * *
13114351 TAAATAAGACTCCTCTAAACAGAGGCTTAATAACTTTTGAAAAATAAGTAAAGTTCCTCTAAACA
1 TAAATAAGGCTCCTCTAAACAGAGGCCTAATAACTTTTGAAAAACAAGTAAAGCTCCTCTAAACA
*
13114416 GAGGCCCAACGACTTTTAAAAAA
66 GAGACCCAACGACTTTTAAAAAA
*
13114439 TAAATAAGGCTCATCTAAACA
1 TAAATAAGGCTCCTCTAAACA
13114460 AAAGCTCAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 94 1.00
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (88 bp):
TAAATAAGGCTCCTCTAAACAGAGGCCTAATAACTTTTGAAAAACAAGTAAAGCTCCTCTAAACA
GAGACCCAACGACTTTTAAAAAA
Found at i:13114474 original size:44 final size:44
Alignment explanation
Indices: 13114263--13114485 Score: 189
Period size: 44 Copynumber: 5.1 Consensus size: 44
13114253 CTTTGAAATG
* ** * *
13114263 TAAATAAGGCTCCTCTAAATAGAGGC-CTAATAACTTTTGATAAA
1 TAAATAAGGCTCCTCTAAACAGAGGCTC-AACGACTTTTAAAAAA
* * * * * * *
13114307 CAAGTAAGGCTCCTCTCAACATAGACTCAACGATTTTTTAAAAA
1 TAAATAAGGCTCCTCTAAACAGAGGCTCAACGACTTTTAAAAAA
* * ** *
13114351 TAAATAAGACTCCTCTAAACAGAGGCTTAATAACTTTTGAAAAA
1 TAAATAAGGCTCCTCTAAACAGAGGCTCAACGACTTTTAAAAAA
* * * *
13114395 TAAGTAAAGTTCCTCTAAACAGAGGCCCAACGACTTTTAAAAAA
1 TAAATAAGGCTCCTCTAAACAGAGGCTCAACGACTTTTAAAAAA
* * * * *
13114439 TAAATAAGGCTCATCTAAACAAAAGCTCAATGAC-TTTAGAAAA
1 TAAATAAGGCTCCTCTAAACAGAGGCTCAACGACTTTTAAAAAA
13114482 TAAA
1 TAAA
13114486 AGGTAGCACC
Statistics
Matches: 138, Mismatches: 40, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
43 12 0.09
44 125 0.91
45 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (44 bp):
TAAATAAGGCTCCTCTAAACAGAGGCTCAACGACTTTTAAAAAA
Found at i:13114475 original size:88 final size:88
Alignment explanation
Indices: 13114263--13114481 Score: 260
Period size: 88 Copynumber: 2.5 Consensus size: 88
13114253 CTTTGAAATG
* * * *
13114263 TAAATAAGGCTCCTCTAAATAGAGGC-CTAATAACTTTTGATAAACAAGTAAGGCTCCTCTCAAC
1 TAAATAAGGCTCCTCTAAACAGAGGCTC-AATAACTTTTGAAAAACAAGTAAAGCTCCTCTAAAC
* * * *
13114327 ATAGACTCAACGATTTTTTAAAAA
65 AGAGACCCAACGACTTTTAAAAAA
* * * *
13114351 TAAATAAGACTCCTCTAAACAGAGGCTTAATAACTTTTGAAAAATAAGTAAAGTTCCTCTAAACA
1 TAAATAAGGCTCCTCTAAACAGAGGCTCAATAACTTTTGAAAAACAAGTAAAGCTCCTCTAAACA
*
13114416 GAGGCCCAACGACTTTTAAAAAA
66 GAGACCCAACGACTTTTAAAAAA
* * * * *
13114439 TAAATAAGGCTCATCTAAACAAAAGCTCAATGACTTTAGAAAA
1 TAAATAAGGCTCCTCTAAACAGAGGCTCAATAACTTTTGAAAA
13114482 TAAAAGGTAG
Statistics
Matches: 110, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
88 110 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.26
Consensus pattern (88 bp):
TAAATAAGGCTCCTCTAAACAGAGGCTCAATAACTTTTGAAAAACAAGTAAAGCTCCTCTAAACA
GAGACCCAACGACTTTTAAAAAA
Found at i:13115131 original size:18 final size:17
Alignment explanation
Indices: 13115089--13115131 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
13115079 TGTAGAAATC
*
13115089 TTTCATATTATTATTTAT
1 TTTCA-ATTATTATTTAA
13115107 TTATCAATTATTATTTCAA
1 TT-TCAATTATTATTT-AA
13115126 TTTCAA
1 TTTCAA
13115132 AATGTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTCAATTATTATTTAA
Found at i:13123026 original size:22 final size:21
Alignment explanation
Indices: 13122970--13123027 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 21
13122960 ACCAAAGCCA
*
13122970 AAACAATATTCTAA-AATCCT
1 AAACATTATTCTAATAATCCT
* * * *
13122990 AAACATCAATGTAATATTTCCT
1 AAACATTATTCTAATA-ATCCT
13123012 AAACATTATTCTAATA
1 AAACATTATTCTAATA
13123028 CCTCGTTATG
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 10 0.36
21 1 0.04
22 17 0.61
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.34
Consensus pattern (21 bp):
AAACATTATTCTAATAATCCT
Found at i:13126222 original size:12 final size:13
Alignment explanation
Indices: 13126197--13126225 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13126187 ATAATTGGAA
13126197 TTTATTTTTCATT
1 TTTATTTTTCATT
13126210 TTTATTTTT-ATT
1 TTTATTTTTCATT
13126222 TTTA
1 TTTA
13126226 AATTTTTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTTTCATT
Found at i:13127892 original size:3 final size:3
Alignment explanation
Indices: 13127880--13128069 Score: 80
Period size: 3 Copynumber: 64.3 Consensus size: 3
13127870 CCTTTTTTTT
* * * *
13127880 TAA TAGA TAA TAA TAA -AA TAA CAA CAA -GA TAA TAAA TAAA TAG TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA T-AA TAA TAA
* * *
13127926 -GA TAA TAA TAA TAA TAA TAAA CAA TAA TAA -AA TAA -GA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
13127969 -AA TAA TAG TAA -AA TAA TAA -AA AAA TAA -GA TAA CAC TAA -GA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
13128012 TTACT TAA -AA AAA TAAA TAA -ATA TCAA TAA TAA TAA TAA TAA TAA
1 -TA-A TAA TAA TAA T-AA TAA TA-A T-AA TAA TAA TAA TAA TAA TAA
13128057 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
13128070 TGGGTCCAAA
Statistics
Matches: 142, Mismatches: 25, Indels: 40
0.69 0.12 0.19
Matches are distributed among these distances:
2 18 0.13
3 102 0.72
4 21 0.15
5 1 0.01
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:13127913 original size:19 final size:18
Alignment explanation
Indices: 13127889--13128000 Score: 92
Period size: 19 Copynumber: 6.2 Consensus size: 18
13127879 TTAATAGATA
*
13127889 ATAATAAAATAACAACAAG
1 ATAATAAAATAA-AATAAG
13127908 ATAAT-AAATAAATAGTAAG
1 ATAATAAAATAAA-A-TAAG
13127927 ATAATAATAATAATAATAA-
1 ATAATAA-AATAA-AATAAG
*
13127946 ACAAT--AATAAAATAAG
1 ATAATAAAATAAAATAAG
* *
13127962 ATAATAAAATAATAGTAAA
1 ATAATAAAATAA-AATAAG
13127981 ATAAT-AAA-AAAATAAG
1 ATAATAAAATAAAATAAG
13127997 ATAA
1 ATAA
13128001 CACTAAGATA
Statistics
Matches: 77, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
15 5 0.06
16 17 0.22
17 3 0.04
18 15 0.19
19 26 0.34
20 4 0.05
21 6 0.08
22 1 0.01
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (18 bp):
ATAATAAAATAAAATAAG
Found at i:13127953 original size:16 final size:17
Alignment explanation
Indices: 13127932--13127975 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
13127922 GTAAGATAAT
13127932 AATAATAATAATAA-AC
1 AATAATAATAATAAGAC
*
13127948 AATAATAA-AATAAGAT
1 AATAATAATAATAAGAC
13127964 AATAA-AATAATA
1 AATAATAATAATA
13127976 GTAAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (17 bp):
AATAATAATAATAAGAC
Found at i:13127964 original size:54 final size:52
Alignment explanation
Indices: 13127880--13128065 Score: 146
Period size: 54 Copynumber: 3.4 Consensus size: 52
13127870 CCTTTTTTTT
* *
13127880 TAATAGATAATAATAA-AATAACAACAAGATAATAAATAAATAGTAAGATAATAA
1 TAATA-ATAATAACAATAATAA-AATAAGATAATAAATAAATAGTAA-ATAATAA
13127934 TAATAATAATAAACAATAATAAAATAAGATAATAAA-ATAATAGTAAAATAATAA
1 TAATAATAAT-AACAATAATAAAATAAGATAATAAATA-AATAGT-AAATAATAA
* * * * * *
13127988 -AAAAATAAGATAACACTAAGATAATTACTTAAAAAAATAAATAAATA-TCAATAATAA
1 TAATAAT-A-ATAACAAT-A-ATAA--A-ATAAGATAATAAATAAATAGTAAATAATAA
*
13128045 TAATAATAATAATAATAATAA
1 TAATAATAATAACAATAATAA
13128066 TAATTGGGTC
Statistics
Matches: 108, Mismatches: 11, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
53 11 0.10
54 45 0.42
55 11 0.10
56 10 0.09
57 9 0.08
58 7 0.06
59 14 0.13
60 1 0.01
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (52 bp):
TAATAATAATAACAATAATAAAATAAGATAATAAATAAATAGTAAATAATAA
Found at i:13127992 original size:11 final size:11
Alignment explanation
Indices: 13127886--13127995 Score: 58
Period size: 11 Copynumber: 9.4 Consensus size: 11
13127876 TTTTTAATAG
*
13127886 ATAATAATAAA
1 ATAATAAAAAA
* * *
13127897 ATAACAACAAG
1 ATAATAAAAAA
*
13127908 ATAATAAATAA
1 ATAATAAAAAA
*
13127919 ATAGTAAGATAATA
1 ATAATAA-A-AA-A
13127933 ATAATAATAATAA
1 ATAATAA-AA-AA
* *
13127946 ACAATAATAAA
1 ATAATAAAAAA
*
13127957 ATAAGATAATAAA
1 AT-A-ATAAAAAA
**
13127970 ATAATAGTAAA
1 ATAATAAAAAA
13127981 ATAATAAAAAA
1 ATAATAAAAAA
13127992 ATAA
1 ATAA
13127996 GATAACACTA
Statistics
Matches: 76, Mismatches: 17, Indels: 12
0.72 0.16 0.11
Matches are distributed among these distances:
11 44 0.58
12 4 0.05
13 19 0.25
14 9 0.12
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.24
Consensus pattern (11 bp):
ATAATAAAAAA
Found at i:13136388 original size:17 final size:19
Alignment explanation
Indices: 13136354--13136389 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
13136344 TTAATGCAGT
13136354 TTAAAAAGTATATATTTTA
1 TTAAAAAGTATATATTTTA
13136373 TTAAAAA-TAT-TATTTTA
1 TTAAAAAGTATATATTTTA
13136390 CTCATAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TTAAAAAGTATATATTTTA
Found at i:13136739 original size:19 final size:19
Alignment explanation
Indices: 13136703--13136738 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13136693 AATTTTAATA
*
13136703 AACTTATTTTCAAATTTTC
1 AACTTAATTTCAAATTTTC
13136722 AACTTAATTT-AAATTTT
1 AACTTAATTTCAAATTTT
13136739 TTTAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (19 bp):
AACTTAATTTCAAATTTTC
Found at i:13138574 original size:32 final size:31
Alignment explanation
Indices: 13138486--13138582 Score: 106
Period size: 32 Copynumber: 3.1 Consensus size: 31
13138476 CTGTTTATGA
* * **
13138486 AAATGATTTAAAAATTTTTACATAAAATTTT
1 AAATGATATAAAAATTTTTACTTAATTTTTT
* * *
13138517 AACATGATAT-AGAGTTTTTATTTAATTTTTT
1 AA-ATGATATAAAAATTTTTACTTAATTTTTT
13138548 AAATTGATATAAAAATTTTTACTTAATTTTTT
1 AAA-TGATATAAAAATTTTTACTTAATTTTTT
13138580 AAA
1 AAA
13138583 ATGGTATGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
30 1 0.02
31 25 0.47
32 27 0.51
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (31 bp):
AAATGATATAAAAATTTTTACTTAATTTTTT
Found at i:13145470 original size:21 final size:21
Alignment explanation
Indices: 13145446--13145497 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
13145436 AAAAGTAATA
*
13145446 ATAATAATAATATTAGTTACT
1 ATAATAATAAGATTAGTTACT
* *
13145467 ATAATAATAAGATTATTTATT
1 ATAATAATAAGATTAGTTACT
13145488 ATAATAATAA
1 ATAATAATAA
13145498 AGTTAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (21 bp):
ATAATAATAAGATTAGTTACT
Found at i:13145494 original size:24 final size:25
Alignment explanation
Indices: 13145441--13145497 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
13145431 AGATTAAAAG
*
13145441 TAATAATAATAATAATATTAGTTAC
1 TAATAATAATAAGAATATTAGTTAC
*
13145466 T-ATAATAATAAGATTATTTA-TTA-
1 TAATAATAATAAGAATA-TTAGTTAC
13145489 TAATAATAA
1 TAATAATAA
13145498 AGTTAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 1 0.04
24 23 0.82
25 4 0.14
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (25 bp):
TAATAATAATAAGAATATTAGTTAC
Found at i:13146213 original size:35 final size:35
Alignment explanation
Indices: 13146167--13146236 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
13146157 AATTTTCTAA
13146167 CATAAACTTCTAT-AGATACTAATAAAAGATCTTCT
1 CATAAACTTCTATGA-ATACTAATAAAAGATCTTCT
* *
13146202 CATAAACTTCTATGAATACTAATGAGAGATCTTCT
1 CATAAACTTCTATGAATACTAATAAAAGATCTTCT
13146237 ACAATATCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 31 0.97
36 1 0.03
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (35 bp):
CATAAACTTCTATGAATACTAATAAAAGATCTTCT
Found at i:13147603 original size:26 final size:26
Alignment explanation
Indices: 13147574--13147626 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
13147564 ATTAATTAAC
*
13147574 ATATTTATAATTTAAAATAAAAATAT
1 ATATTAATAATTTAAAATAAAAATAT
*
13147600 ATATTAATAATTTATAATAAAAATAT
1 ATATTAATAATTTAAAATAAAAATAT
13147626 A
1 A
13147627 AAAAGAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATATTAATAATTTAAAATAAAAATAT
Found at i:13157349 original size:72 final size:72
Alignment explanation
Indices: 13157266--13157675 Score: 272
Period size: 72 Copynumber: 5.6 Consensus size: 72
13157256 TTTAAAAGAT
* * * *
13157266 AAATTATATTTTTAAAATTCTAAAATTTTAATAAAAATCATGTTTTTAAGTTAAGAAATATAGTG
1 AAATTTTATTTTTAAAATTTTAAAATTTTAATAAAAATCATGTTTTTAAGTTAAAAAATATAATG
*
13157331 GATATTA
66 GATGTTA
* * * * * * *
13157338 AAATTTTATTTTCAAAATTTTAGAATTTTAAGAAAAATGGA-G-TTTTAAGATAAAAAAATGTAG
1 AAATTTTATTTTTAAAATTTTAAAATTTTAATAAAAAT-CATGTTTTTAAG-TTAAAAAATATAA
*
13157401 TTGATGTTA
64 TGGATGTTA
** ** * * **
13157410 GGATTTTATTTTCGAAATTTTAAAATTTTAACAAAAAT-ATAATTTTTAAAATAAAAAATATAAT
1 AAATTTTATTTTTAAAATTTTAAAATTTTAATAAAAATCAT-GTTTTTAAGTTAAAAAATATAAT
** *
13157474 ACATGCTA
65 GGATGTTA
* * * * ** * *
13157482 AAATTTT-TTTTAAAAAAATTTAAAATTTTAACAAAGATTGTGTTTTTAAGATAAGCAAAAAATA
1 AAATTTTATTTT-TAAAATTTTAAAATTTTAATAAAAATCATGTTTTTAAGTTAA--AAAATATA
*
13157546 ATGGACGTTGA
63 ATGGATGTT-A
* * * * ** * *
13157557 AATTTTTTTTTTTTTACAATTTTAAAATTCTAATAAGGATCATGTTTTTAAAATAAAAAAAAATA
1 AA--ATTTTATTTTTAAAATTTTAAAATTTTAATAAAAATCATGTTTTT-AAGT--TAAAAAATA
*
13157622 TAATGAATGTTA
61 TAATGGATGTTA
*
13157634 AAACTTTA-TTTTATAAATTTTAAAATTTTTAATAAAAATCAT
1 AAATTTTATTTTTA-AAATTTTAAAA-TTTTAATAAAAATCAT
13157676 ACTTTAAGAT
Statistics
Matches: 259, Mismatches: 61, Indels: 32
0.74 0.17 0.09
Matches are distributed among these distances:
70 1 0.00
71 11 0.04
72 137 0.53
73 8 0.03
74 17 0.07
75 16 0.06
76 13 0.05
77 34 0.13
78 20 0.08
80 2 0.01
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (72 bp):
AAATTTTATTTTTAAAATTTTAAAATTTTAATAAAAATCATGTTTTTAAGTTAAAAAATATAATG
GATGTTA
Found at i:13158082 original size:44 final size:45
Alignment explanation
Indices: 13158015--13158099 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 45
13158005 AAAAACCTTA
*
13158015 TATATTTTCTACATCAATAAAACT-AAAAAATTATACATTTATTT
1 TATATTCTCTACATCAATAAAACTAAAAAAATTATACATTTATTT
* *
13158059 TATATTCTGTACATCAATGAAACTAAAAAAATTATACATTT
1 TATATTCTCTACATCAATAAAACTAAAAAAATTATACATTT
13158100 TTCTTTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 21 0.57
45 16 0.43
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (45 bp):
TATATTCTCTACATCAATAAAACTAAAAAAATTATACATTTATTT
Found at i:13158539 original size:18 final size:18
Alignment explanation
Indices: 13158503--13158547 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
13158493 AAATTAATTT
*
13158503 TAATAAGATTATAAATAA
1 TAATAAAATTATAAATAA
13158521 TAATAAAATTA-AAATTAA
1 TAATAAAATTATAAA-TAA
*
13158539 TTATAAAAT
1 TAATAAAAT
13158548 ATATTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
TAATAAAATTATAAATAA
Found at i:13158671 original size:27 final size:28
Alignment explanation
Indices: 13158639--13158698 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
13158629 TAATATATAA
* *
13158639 TAAAAAAAATTAAATTATTTAATATTTA-
1 TAAAATAAA-TAAATTATTTAAAATTTAG
*
13158667 TAAAATTAATAAATTATTTAAAATTTAG
1 TAAAATAAATAAATTATTTAAAATTTAG
13158695 TAAA
1 TAAA
13158699 TTAATTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 17 0.61
28 11 0.39
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (28 bp):
TAAAATAAATAAATTATTTAAAATTTAG
Found at i:13158699 original size:27 final size:27
Alignment explanation
Indices: 13158649--13158703 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
13158639 TAAAAAAAAT
*
13158649 TAAATTATTTAATATTTATAAAATTAA
1 TAAATTATTTAAAATTTATAAAATTAA
13158676 TAAATTATTTAAAATTTAGT-AAATTAA
1 TAAATTATTTAAAATTTA-TAAAATTAA
13158703 T
1 T
13158704 TTTAAATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
TAAATTATTTAAAATTTATAAAATTAA
Found at i:13158700 original size:19 final size:20
Alignment explanation
Indices: 13158661--13158701 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
13158651 AATTATTTAA
13158661 TATTTATAAAATTAATAAAT
1 TATTTATAAAATTAATAAAT
* *
13158681 TATTTA-AAATTTAGTAAAT
1 TATTTATAAAATTAATAAAT
13158700 TA
1 TA
13158702 ATTTTAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
TATTTATAAAATTAATAAAT
Found at i:13158743 original size:24 final size:25
Alignment explanation
Indices: 13158706--13158762 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
13158696 AAATTAATTT
13158706 TAAATCAAATATTAGTT-TTAT-TAA
1 TAAAT-AAATATTAGTTATTATATAA
*
13158730 TAAATAAATAATTATTTATTATATAA
1 TAAATAAAT-ATTAGTTATTATATAA
13158756 -AAATAAA
1 TAAATAAA
13158763 ATTTATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.14
24 11 0.38
25 11 0.38
26 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
TAAATAAATATTAGTTATTATATAA
Found at i:13158802 original size:17 final size:17
Alignment explanation
Indices: 13158757--13158814 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
13158747 ATTATATAAA
*
13158757 AATAAAATTTATTA-ATT
1 AATAAATTTTATTATA-T
*
13158774 AATTAA-TTTATTATAT
1 AATAAATTTTATTATAT
*
13158790 AATAAATTTTATTTTAT
1 AATAAATTTTATTATAT
13158807 AATAAATT
1 AATAAATT
13158815 AACAAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 13 0.36
17 23 0.64
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATAAATTTTATTATAT
Found at i:13160300 original size:22 final size:23
Alignment explanation
Indices: 13160257--13160300 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
13160247 AACATATTTT
* *
13160257 ATAATAAATAAATGAAGGAAAAG
1 ATAATAAATAAATCAAGAAAAAG
*
13160280 ATAA-AAATAATTCAAGAAAAA
1 ATAATAAATAAATCAAGAAAAA
13160301 ATTGATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.68, C:0.02, G:0.11, T:0.18
Consensus pattern (23 bp):
ATAATAAATAAATCAAGAAAAAG
Found at i:13160683 original size:16 final size:15
Alignment explanation
Indices: 13160665--13160707 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
13160655 TTTATTTTAT
*
13160665 TTTTTATAAAATGTA
1 TTTTTATAAAATATA
13160680 -TTTTATAAAATATA
1 TTTTTATAAAATATA
*
13160694 TATTTTAAAAAATA
1 T-TTTTATAAAATA
13160708 AAAGATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 13 0.54
16 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TTTTTATAAAATATA
Found at i:13163425 original size:21 final size:21
Alignment explanation
Indices: 13163387--13163431 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
13163377 TTTGCAATAA
*
13163387 TTATTGTCACTAATAAATTAG
1 TTATTGTCACTAAAAAATTAG
*
13163408 TTATTGTCAC-AACAAAATTTG
1 TTATTGTCACTAA-AAAATTAG
13163429 TTA
1 TTA
13163432 ATTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (21 bp):
TTATTGTCACTAAAAAATTAG
Found at i:13165677 original size:21 final size:21
Alignment explanation
Indices: 13165652--13165731 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
13165642 AAAAAACAAA
13165652 CTTCTTCACAGATGACAGTCT
1 CTTCTTCACAGATGACAGTCT
13165673 CTTCTTCACAGATGACAGT-T
1 CTTCTTCACAGATGACAGTCT
* * * *
13165693 -TTC--CA-AAATCACTCGCCT
1 CTTCTTCACAGATGAC-AGTCT
13165711 CTTCTTCACAGATGACAGTCT
1 CTTCTTCACAGATGACAGTCT
13165732 GTTGTTCATC
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
16 5 0.11
17 3 0.07
18 1 0.02
19 6 0.13
20 1 0.02
21 24 0.53
22 5 0.11
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (21 bp):
CTTCTTCACAGATGACAGTCT
Found at i:13174804 original size:71 final size:71
Alignment explanation
Indices: 13174719--13175094 Score: 319
Period size: 71 Copynumber: 5.3 Consensus size: 71
13174709 ACAAATATTG
* * * * * *
13174719 TATTTTTAAGATAAAAAAAGTAATGAATGTTGAAACTAAAATTTCAAAATTTTAAAA-TTTAATA
1 TATTTTTAAAATAAAAAAA-TAATGAATGTTAAAATTATATTTTCAAAATTTTAAAATTTTAACA
13174783 AAGATCA
65 AAGATCA
* * * * * * *
13174790 TGTTTTTAAAATAAAAAAAGTAGTGGATGCTAAAGTTTTATTTTCAAAATTTTGAAATTTTAACA
1 TATTTTTAAAATAAAAAAA-TAATGAATGTTAAAATTATATTTTCAAAATTTTAAAATTTTAACA
* *
13174855 AATATTA
65 AAGATCA
* * * * *
13174862 CA-TTTTAAAA-ACAAAAAATAAAGTGGATGTTAAAATTATATTTTTAAAATTCTAAAATTTTAG
1 TATTTTTAAAATA-AAAAAAT-AA-TGAATGTTAAAATTATATTTTCAAAATTTTAAAATTTTAA
*
13174925 CAAA-AACA
63 CAAAGATCA
* ** * ** *
13174933 GTATTTTTAATATAAAAGCATAATGAATGTTGAAATTATATTTTTTAAATTCTAAAATTTTAACA
1 -TATTTTTAAAATAAAAAAATAATGAATGTTAAAATTATATTTTCAAAATTTTAAAATTTTAACA
*
13174998 AAGAACA
65 AAGATCA
* * * * * *
13175005 TGTTTTTAAGATTAAAAACATAGTGAATGTAAAAATTATATTTTCAAAATTTTAAAATTTTAATA
1 TATTTTTAA-AATAAAAAAATAATGAATGTTAAAATTATATTTTCAAAATTTTAAAATTTTAACA
*
13175070 AAAATCA
65 AAGATCA
* *
13175077 TACTTTTAAGATAAAAAA
1 TATTTTTAAAATAAAAAA
13175095 CACAATAGAT
Statistics
Matches: 243, Mismatches: 53, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
70 2 0.01
71 116 0.48
72 112 0.46
73 12 0.05
74 1 0.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (71 bp):
TATTTTTAAAATAAAAAAATAATGAATGTTAAAATTATATTTTCAAAATTTTAAAATTTTAACAA
AGATCA
Found at i:13174975 original size:143 final size:142
Alignment explanation
Indices: 13174828--13175092 Score: 309
Period size: 143 Copynumber: 1.9 Consensus size: 142
13174818 GCTAAAGTTT
* * * * *
13174828 TATTTTCAAAATTTTGAAATTTTAACAAATATTACA-TTTTAAAAACAAAAAATAAAGTGGATGT
1 TATTTTCAAAATTCTAAAATTTTAACAAAGA--ACAGTTTTAAAAACAAAAAACAAAGTGAATGT
* * * * *
13174892 TAAAATTATATTTTTAAAATTCTAAAATTTTAGCAAAAA-CAGTATTTTTAATATAAAAGCATAA
64 AAAAATTATATTTTCAAAATTCTAAAATTTTAACAAAAATCA-TACTTTTAAGATAAAAGCATAA
13174956 TGAATGTTGAAATTA
128 TGAATGTTGAAATTA
** * * ** *
13174971 TATTTTTTAAATTCTAAAATTTTAACAAAGAACATGTTTTTAAGATTAAAAACATAGTGAATGTA
1 TATTTTCAAAATTCTAAAATTTTAACAAAGAACA-GTTTTAAAAACAAAAAACAAAGTGAATGTA
* *
13175036 AAAATTATATTTTCAAAATTTTAAAATTTTAATAAAAATCATACTTTTAAGATAAAA
65 AAAATTATATTTTCAAAATTCTAAAATTTTAACAAAAATCATACTTTTAAGATAAAA
13175093 AACACAATAG
Statistics
Matches: 100, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
141 3 0.03
143 95 0.95
144 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (142 bp):
TATTTTCAAAATTCTAAAATTTTAACAAAGAACAGTTTTAAAAACAAAAAACAAAGTGAATGTAA
AAATTATATTTTCAAAATTCTAAAATTTTAACAAAAATCATACTTTTAAGATAAAAGCATAATGA
ATGTTGAAATTA
Found at i:13175095 original size:72 final size:72
Alignment explanation
Indices: 13174719--13175096 Score: 336
Period size: 72 Copynumber: 5.3 Consensus size: 72
13174709 ACAAATATTG
* * * * * *
13174719 TATTTTTAAGATAAAAAA-AGTAATGAATGTTGAAACTAAAATTTCAAAATTTTAAAA-TTTAAT
1 TATTTTTAAGATAAAAAACA-TAGTGAATGTTAAAATTATATTTTCAAAATTTTAAAATTTTAAC
*
13174782 AAAGATCA
65 AAAAATCA
* * * * * * *
13174790 TGTTTTTAAAATAAAAAA-AGTAGTGGATGCTAAAGTTTTATTTTCAAAATTTTGAAATTTTAAC
1 TATTTTTAAGATAAAAAACA-TAGTGAATGTTAAAATTATATTTTCAAAATTTTAAAATTTTAAC
* *
13174854 AAATATTA
65 AAAAATCA
* * * * * * * * * *
13174862 CATTTTAAAAACAAAAAATAAAGTGGATGTTAAAATTATATTTTTAAAATTCTAAAATTTTAGCA
1 TATTTTTAAGATAAAAAACATAGTGAATGTTAAAATTATATTTTCAAAATTTTAAAATTTTAACA
13174927 AAAA-CA
66 AAAATCA
* * * * ** *
13174933 GTATTTTTAATAT-AAAAGCATAATGAATGTTGAAATTATATTTTTTAAATTCTAAAATTTTAAC
1 -TATTTTTAAGATAAAAAACATAGTGAATGTTAAAATTATATTTTCAAAATTTTAAAATTTTAAC
13174997 AAAGAA-CA
65 AAA-AATCA
* * * *
13175005 TGTTTTTAAGATTAAAAACATAGTGAATGTAAAAATTATATTTTCAAAATTTTAAAATTTTAATA
1 TATTTTTAAGATAAAAAACATAGTGAATGTTAAAATTATATTTTCAAAATTTTAAAATTTTAACA
13175070 AAAATCA
66 AAAATCA
*
13175077 TACTTTTAAGATAAAAAACA
1 TATTTTTAAGATAAAAAACA
13175097 CAATAGATGC
Statistics
Matches: 247, Mismatches: 54, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
71 104 0.42
72 142 0.57
73 1 0.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (72 bp):
TATTTTTAAGATAAAAAACATAGTGAATGTTAAAATTATATTTTCAAAATTTTAAAATTTTAACA
AAAATCA
Found at i:13176479 original size:20 final size:20
Alignment explanation
Indices: 13176456--13176493 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13176446 AAAGATGACA
13176456 TTTTT-TAGATAAAAACATAG
1 TTTTTGTAGA-AAAAACATAG
*
13176476 TTTTTGTTGAAAAAACAT
1 TTTTTGTAGAAAAAACAT
13176494 CAATTTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (20 bp):
TTTTTGTAGAAAAAACATAG
Found at i:13176480 original size:72 final size:74
Alignment explanation
Indices: 13176330--13176489 Score: 184
Period size: 73 Copynumber: 2.2 Consensus size: 74
13176320 AAAAATACGA
* * * *
13176330 TTTTTATTG-AAAAGATGAAAAAAATGATTTTTCATAATTTAACAAAGATGATGATTTTAAAATA
1 TTTTTGTTGAAAAACAT-AAAAAAATGATTTTTCAGAATTTAACAAAGATGATCATTTTAAAATA
*
13176394 AAAAACATTG
65 AAAAACATAG
* * * * *
13176404 TTTTTGTT-AAAAACATAAAAAAATTATTTTTTAGAATTTAATAAAGATGA-CATTTTTTAGAT-
1 TTTTTGTTGAAAAACATAAAAAAATGATTTTTCAGAATTTAACAAAGATGATCA-TTTTAAAATA
13176466 AAAAACATAG
65 AAAAACATAG
13176476 TTTTTGTTGAAAAA
1 TTTTTGTTGAAAAA
13176490 ACATCAATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
72 18 0.25
73 42 0.58
74 13 0.18
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (74 bp):
TTTTTGTTGAAAAACATAAAAAAATGATTTTTCAGAATTTAACAAAGATGATCATTTTAAAATAA
AAAACATAG
Found at i:13176822 original size:73 final size:73
Alignment explanation
Indices: 13176596--13176850 Score: 287
Period size: 73 Copynumber: 3.5 Consensus size: 73
13176586 AAAGATGATA
* * * * * *
13176596 TTTCTAAGATAAAAACATAATTTTTGTTGAAAATATGAAAGAATATATATTTCAAAATTTAATAA
1 TTTCTAAGATAAAAATATAATGTTTGTTGAAAATATGAAAAAAAATATTTTTTAAAATTTAATAA
*
13176661 AAATAATG
66 AAACAATG
* * * * *
13176669 TTTCTAAGATAACAAATACT-GTTTTTGTTGAAAACATAAAAAAAAATATAGTTTTTAGAATTTA
1 TTTCTAAGATAA-AAATA-TAATGTTTGTTGAAAATATGAAAAAAAATAT--TTTTTAAAATTTA
*
13176733 ATAAAAACAATA
62 ATAAAAACAATG
* *
13176745 TTTCTAAGATAAAAATGTAATGTTTGTTGAAAATATGAAAAAAAATATTTTTTAAAATTCAATAA
1 TTTCTAAGATAAAAATATAATGTTTGTTGAAAATATGAAAAAAAATATTTTTTAAAATTTAATAA
* *
13176810 AAACGACG
66 AAACAATG
* * *
13176818 TTTCTAAGATCAAAATATAATCTTTATTGAAAA
1 TTTCTAAGATAAAAATATAATGTTTGTTGAAAA
13176851 GATAACATTT
Statistics
Matches: 152, Mismatches: 25, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
73 61 0.40
74 29 0.19
75 30 0.20
76 32 0.21
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (73 bp):
TTTCTAAGATAAAAATATAATGTTTGTTGAAAATATGAAAAAAAATATTTTTTAAAATTTAATAA
AAACAATG
Found at i:13176973 original size:111 final size:113
Alignment explanation
Indices: 13176735--13176980 Score: 270
Period size: 112 Copynumber: 2.2 Consensus size: 113
13176725 AGAATTTAAT
* ** * *
13176735 AAAA-ACAATATTTCTAAGATAAAAATGTAATGTTTGTTGAAAATATGAAAAAAAATATTTTTTA
1 AAAAGACAACATTTCTAAGATAAAAACATAATCTTTGTTGAAAACATGAAAAAAAATATTTTTTA
* *
13176799 AAATTCAATAAAAACGACGTTTCTAAGATCAAAATATAATCTTTATTG
66 AAATTCAATAAAAACAACATTTCTAAGATCAAAATATAATCTTTATTG
* * *
13176847 AAAAGATAACATTTCTAAAATAAAAACATAATCTTTGTT-AAAAGCATG-AAAAATATATTTTTT
1 AAAAGACAACATTTCTAAGATAAAAACATAATCTTTGTTGAAAA-CATGAAAAAAAATATTTTTT
* * * *
13176910 AAAATTTAATAAAGACAATATTT-TAAGA-CAAAAATGTAA-CTTTTATTG
65 AAAATTCAATAAAAACAACATTTCTAAGATC-AAAATATAATC-TTTATTG
* * *
13176958 AAAATACGACTTTTCTAAGATAA
1 AAAAGACAACATTTCTAAGATAA
13176981 TAATGTTAGT
Statistics
Matches: 111, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
110 2 0.02
111 38 0.34
112 40 0.36
113 31 0.28
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (113 bp):
AAAAGACAACATTTCTAAGATAAAAACATAATCTTTGTTGAAAACATGAAAAAAAATATTTTTTA
AAATTCAATAAAAACAACATTTCTAAGATCAAAATATAATCTTTATTG
Found at i:13183537 original size:13 final size:13
Alignment explanation
Indices: 13183519--13183548 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13183509 GCAGAAATTG
*
13183519 ATTTTTAGAAAAT
1 ATTTTTAAAAAAT
13183532 ATTTTTAAAAAAT
1 ATTTTTAAAAAAT
13183545 ATTT
1 ATTT
13183549 ATATTGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
ATTTTTAAAAAAT
Found at i:13183628 original size:32 final size:32
Alignment explanation
Indices: 13183567--13183639 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 32
13183557 TAAGAAAGAT
13183567 TTTTTTATTATTTGGATGTATCAATAAAAAT-A
1 TTTTTTATTATTTGGATGTATC-ATAAAAATAA
* *
13183599 TTTTTTGTTATTTGGTTGTATTC-TGAAAAATCAA
1 TTTTTTATTATTTGGATGTA-TCAT-AAAAAT-AA
13183633 TTTTTTA
1 TTTTTTA
13183640 AAAATAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
31 1 0.03
32 24 0.71
33 2 0.06
34 7 0.21
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.55
Consensus pattern (32 bp):
TTTTTTATTATTTGGATGTATCATAAAAATAA
Found at i:13183691 original size:25 final size:26
Alignment explanation
Indices: 13183663--13183718 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
13183653 CATAATTATG
*
13183663 AAAATAT-TAAAAATTATTTATCATT
1 AAAATATATAAAAATGATTTATCATT
* *
13183688 AAAATATATGAAAATGATTTATTATT
1 AAAATATATAAAAATGATTTATCATT
13183714 AAAAT
1 AAAAT
13183719 TATTTATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (26 bp):
AAAATATATAAAAATGATTTATCATT
Found at i:13183730 original size:15 final size:15
Alignment explanation
Indices: 13183692--13183732 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
13183682 ATCATTAAAA
*
13183692 TATATGAAAATGATT
1 TATATTAAAATGATT
*
13183707 TATTATTAAAATTATT
1 TA-TATTAAAATGATT
13183723 TATATTAAAA
1 TATATTAAAA
13183733 AAATATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (15 bp):
TATATTAAAATGATT
Found at i:13186630 original size:26 final size:26
Alignment explanation
Indices: 13186600--13186685 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
13186590 ATCCGAGCCT
13186600 AATTAGGCCCATTGATGTTTGGGCCC
1 AATTAGGCCCATTGATGTTTGGGCCC
* ** * * *
13186626 GATTAAACCTATTAACGTTTGGGCCC
1 AATTAGGCCCATTGATGTTTGGGCCC
* *
13186652 AATTAGGCCCATTTG-TGTTTGGGTCA
1 AATTAGGCCCA-TTGATGTTTGGGCCC
13186678 AATTAGGC
1 AATTAGGC
13186686 ACTTTTATGC
Statistics
Matches: 45, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
26 43 0.96
27 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (26 bp):
AATTAGGCCCATTGATGTTTGGGCCC
Found at i:13186837 original size:59 final size:60
Alignment explanation
Indices: 13186725--13186838 Score: 135
Period size: 59 Copynumber: 1.9 Consensus size: 60
13186715 TATTTACAAA
** * *
13186725 TTATTATTATTATTATTATTACTTTCCTTTTTATCTTTCTTTTTATGTGTTTCTTGTATT
1 TTATTATTATTATTATTATTACTTTAATTTTTATCGTTCTTTTTATGTCTTTCTTGTATT
* *
13186785 TTATTA-TATTATTATTATTATTTTTAATTTTT-T-GTTCTTTTTTTGTTCTTTCTT
1 TTATTATTATTATTATTATTA-CTTTAATTTTTATCGTTCTTTTTATG-TCTTTCTT
13186839 CTTTGCTACT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
58 10 0.22
59 22 0.48
60 14 0.30
ACGTcount: A:0.17, C:0.08, G:0.04, T:0.71
Consensus pattern (60 bp):
TTATTATTATTATTATTATTACTTTAATTTTTATCGTTCTTTTTATGTCTTTCTTGTATT
Found at i:13187402 original size:19 final size:18
Alignment explanation
Indices: 13187370--13187411 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
13187360 TTTGGCAAGA
*
13187370 TTTTTAGAATCTGATGGG
1 TTTTTAGAAACTGATGGG
13187388 TTTTCTAGAAACTGATGGG
1 TTTT-TAGAAACTGATGGG
13187407 TTTTT
1 TTTTT
13187412 CAGTTTTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.21, C:0.07, G:0.24, T:0.48
Consensus pattern (18 bp):
TTTTTAGAAACTGATGGG
Found at i:13187705 original size:10 final size:9
Alignment explanation
Indices: 13187685--13187744 Score: 57
Period size: 9 Copynumber: 6.3 Consensus size: 9
13187675 TGATTATAGG
*
13187685 TTTTCTTTT
1 TTTTATTTT
*
13187694 TTTCATTTT
1 TTTTATTTT
13187703 TTTTATTTT
1 TTTTATTTT
13187712 ATTTTATTTT
1 -TTTTATTTT
*
13187722 TTACCTATTTT
1 TT--TTATTTT
*
13187733 TATTATTTT
1 TTTTATTTT
13187742 TTT
1 TTT
13187745 AAAAAGAGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
9 25 0.61
10 9 0.22
11 7 0.17
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTATTTT
Found at i:13187847 original size:27 final size:26
Alignment explanation
Indices: 13187785--13187865 Score: 67
Period size: 27 Copynumber: 3.1 Consensus size: 26
13187775 CAAAAGAGAG
* *
13187785 AAAATAAAAAGTAAAAAAATGAAAAA
1 AAAATGAAAAGAAAAAAAATGAAAAA
*
13187811 AAAAGAGAAAAGAAAAAATAAT-AAGAAA
1 AAAA-TGAAAAGAAAAAA-AATGAA-AAA
** *
13187839 AAAATGAAAA-AATGAAAATTAAAAA
1 AAAATGAAAAGAAAAAAAATGAAAAA
13187864 AA
1 AA
13187866 TAAAAAAATC
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
25 8 0.18
26 10 0.22
27 17 0.38
28 10 0.22
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.11
Consensus pattern (26 bp):
AAAATGAAAAGAAAAAAAATGAAAAA
Found at i:13198084 original size:46 final size:45
Alignment explanation
Indices: 13198023--13198138 Score: 126
Period size: 46 Copynumber: 2.6 Consensus size: 45
13198013 AGAAAAAAAT
* **
13198023 AAAA-AAAAGAGTTCAAATTGAAAACCCGAAAGGATGACTTAGATCC
1 AAAAGAAAAG-GTTCAAGTTGAAAACCCGAAAGGACCACTT-GATCC
* * * *
13198069 AAAAGAAAAGGTTCAAGTTAAAAACCTGAAAGGGCCACTTTATCC
1 AAAAGAAAAGGTTCAAGTTGAAAACCCGAAAGGACCACTTGATCC
* *
13198114 AAAAGAAAAGATTCAAGTCGAAAAC
1 AAAAGAAAAGGTTCAAGTTGAAAAC
13198139 TTTTAAAGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
45 26 0.44
46 28 0.47
47 5 0.08
ACGTcount: A:0.50, C:0.16, G:0.17, T:0.17
Consensus pattern (45 bp):
AAAAGAAAAGGTTCAAGTTGAAAACCCGAAAGGACCACTTGATCC
Found at i:13198742 original size:41 final size:41
Alignment explanation
Indices: 13198651--13198796 Score: 129
Period size: 41 Copynumber: 3.6 Consensus size: 41
13198641 ATAAATATTC
* *
13198651 AAGCTGATGCAAGAT-GATTTCTTTGCCAAAAAT-TGCC-TT
1 AAGCTGATGAAAGATAG-TTTTTTTGCCAAAAATGTGCCTTT
* *
13198690 CAGGTGGATGAAAGATAGTTTTTTTGCCAAAAATGTGCCTTT
1 AAGCT-GATGAAAGATAGTTTTTTTGCCAAAAATGTGCCTTT
* * * * *
13198732 AAGCTAATGAAAGATGGTTTCTTTT-CCAAAGATGCGCCTCT
1 AAGCTGATGAAAGATAGTTT-TTTTGCCAAAAATGTGCCTTT
* * *
13198773 AGGTTGATGAAAAATAGTTTTTTT
1 AAGCTGATGAAAGATAGTTTTTTT
13198797 ACAAGATATG
Statistics
Matches: 86, Mismatches: 16, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
39 3 0.03
40 28 0.33
41 46 0.53
42 9 0.10
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (41 bp):
AAGCTGATGAAAGATAGTTTTTTTGCCAAAAATGTGCCTTT
Found at i:13199205 original size:117 final size:117
Alignment explanation
Indices: 13199061--13199368 Score: 325
Period size: 116 Copynumber: 2.6 Consensus size: 117
13199051 GACTTAGTTC
* * * *
13199061 TGATCGCTTTATTTTGACTGGTGACATCATCCTAGTCATTTGATCTTGACTCAGGTCAAATCATC
1 TGATCGCTTTATTTTGACTCGTAACATCATCCTAGTCATTTGATCTTGACTCAGGTCAGATCATT
* * *
13199126 TTCAGACTCGTAACATTAGT-CAGGTCATTTATTTTCAACCTCGACTCGATTT
66 TTCAGACTCGTAACATCAGTCCA-GTCATTTATTTTCAACCTCAACTCGATCT
* * * * *
13199178 TGATCGCTTCATTTTGACTCGCAACATCAT-CTCAGTCATGTGATCTTGACTTAGATCAGA-CAT
1 TGATCGCTTTATTTTGACTCGTAACATCATCCT-AGTCATTTGATCTTGACTCAGGTCAGATCAT
* * * * ** *
13199241 TTTCAAACTCATGATATCAGTCCAGTCATTTATTTTTGACCTCAACTTGATCT
65 TTTCAGACTCGTAACATCAGTCCAGTCATTTATTTTCAACCTCAACTCGATCT
* * * ** * ** *
13199294 TGGTCACTTTATTTTGACTCATAACATTGTCTTAGTCATTTGATCTCAACTCAGGTTAGATCATT
1 TGATCGCTTTATTTTGACTCGTAACATCATCCTAGTCATTTGATCTTGACTCAGGTCAGATCATT
13199359 TTCAGACTCG
66 TTCAGACTCG
13199369 CGATATCAGT
Statistics
Matches: 152, Mismatches: 35, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
116 88 0.58
117 64 0.42
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (117 bp):
TGATCGCTTTATTTTGACTCGTAACATCATCCTAGTCATTTGATCTTGACTCAGGTCAGATCATT
TTCAGACTCGTAACATCAGTCCAGTCATTTATTTTCAACCTCAACTCGATCT
Found at i:13199320 original size:116 final size:116
Alignment explanation
Indices: 13199061--13199656 Score: 344
Period size: 117 Copynumber: 5.1 Consensus size: 116
13199051 GACTTAGTTC
* * * *
13199061 TGATCGCTTTATTTTGACTGGTGACATCATC-CTAGTCATTTGATCTTGACTCAGGTCAAATCAT
1 TGATCACTTTATTTTGACTCGTAACATCATCTC-AGTCATTTGATCTTGACTCAGGTCAGATCAT
* * * * ** * *
13199125 CTTCAGACTCGTAACATTAGTCAGGTCATTTATTTTCAACCTCGACTCGATTT
65 TTTCAGACTCGTGATATCAGTCA-GTCATTTATTTTTGACCTCAACTCGATCT
* * * * * *
13199178 TGATCGCTTCATTTTGACTCGCAACATCATCTCAGTCATGTGATCTTGACTTAGATCAGA-CATT
1 TGATCACTTTATTTTGACTCGTAACATCATCTCAGTCATTTGATCTTGACTCAGGTCAGATCATT
* * *
13199242 TTCAAACTCATGATATCAGTCCAGTCATTTATTTTTGACCTCAACTTGATCT
66 TTCAGACTCGTGATATCAGT-CAGTCATTTATTTTTGACCTCAACTCGATCT
* * ** * ** *
13199294 TGGTCACTTTATTTTGACTCATAACATTGTCTTAGTCATTTGATCTCAACTCAGGTTAGATCATT
1 TGATCACTTTATTTTGACTCGTAACATCATCTCAGTCATTTGATCTTGACTCAGGTCAGATCATT
* ** * ** * *
13199359 TTCAGACTCGCGATATCAGTTTGATCATTTATTTTTGACTTTGACTTGGTCT
66 TTCAGACTCGTGATATCAGTCAG-TCATTTATTTTTGACCTCAACTCGATCT
* * * * * * * ** *
13199411 TGATCGCCTTCATTGTTGACCTTTGCAAACTTCCATC-CAATCATATGTGAGGCACGACTCAAGT
1 TGATC-ACTTTATT-TTGA-C-TCG-TAACAT-CATCTCAGTCAT-T-TGA-TCTTGACTCAGGT
** * * * ** *
13199475 CAGATCATCTTT-AGACTCACGACATCGGTCTAGTCATTTATTTATGATTTCGACTCGATCT
57 CAGATCAT-TTTCAGACTCGTGATATCAGTC-AGTCATTTATTTTTGACCTCAACTCGATCT
* * * * * * * *
13199536 TGGTCAC---CTTTTGACTTGTAGCATCATCTTAATCATTTGATCTTGACTC-GAGTTAGACCAT
1 TGATCACTTTATTTTGACTCGTAACATCATCTCAGTCATTTGATCTTGACTCAG-GTCAGATCAT
* * * * ** *
13199597 CTTCAGACTCGTAACATCAGTCCAGTCATTTATTTATGATATCGACTCGATCT
65 TTTCAGACTCGTGATATCAGT-CAGTCATTTATTTTTGACCTCAACTCGATCT
*
13199650 TGGTCAC
1 TGATCAC
13199657 CTTCAGACTC
Statistics
Matches: 373, Mismatches: 87, Indels: 41
0.74 0.17 0.08
Matches are distributed among these distances:
113 2 0.01
114 63 0.17
115 4 0.01
116 94 0.25
117 110 0.29
118 10 0.03
119 5 0.01
120 5 0.01
121 3 0.01
122 9 0.02
123 3 0.01
124 4 0.01
125 57 0.15
126 4 0.01
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.38
Consensus pattern (116 bp):
TGATCACTTTATTTTGACTCGTAACATCATCTCAGTCATTTGATCTTGACTCAGGTCAGATCATT
TTCAGACTCGTGATATCAGTCAGTCATTTATTTTTGACCTCAACTCGATCT
Found at i:13200038 original size:26 final size:26
Alignment explanation
Indices: 13200009--13200079 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
13199999 GTTGATGTTC
13200009 GGGCCTAATTAGGCCCATTGACAATT
1 GGGCCTAATTAGGCCCATTGACAATT
* * * * *
13200035 GGGCTTGATTAAGCCCGTTGACATTT
1 GGGCCTAATTAGGCCCATTGACAATT
* * *
13200061 AGGCCCAATTAGGTCCATT
1 GGGCCTAATTAGGCCCATT
13200080 TGTGTTTGGG
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (26 bp):
GGGCCTAATTAGGCCCATTGACAATT
Found at i:13205394 original size:16 final size:16
Alignment explanation
Indices: 13205369--13205402 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13205359 CATTTGCATA
*
13205369 GCATGTATTGAATTTC
1 GCATGCATTGAATTTC
*
13205385 GCATGCATTGCATTTC
1 GCATGCATTGAATTTC
13205401 GC
1 GC
13205403 GTAGTATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (16 bp):
GCATGCATTGAATTTC
Found at i:13205947 original size:45 final size:43
Alignment explanation
Indices: 13205721--13205957 Score: 210
Period size: 44 Copynumber: 5.5 Consensus size: 43
13205711 GTTTTGTTGT
* * * * *
13205721 CTCTGTTTAAAGGAGCTTTATTTATTTT-AAAAGTTGTTGAGC
1 CTCTGCTTAGAGGAGCTTTGTTTATTTTCTAAAGTCGTTGAGC
* * * * *
13205763 CTCTACTTAGAGGAGTTTTGTTTATTTTTTCAAAATCGTTGAAC
1 CTCTGCTTAGAGGAGCTTTGTTTATTTTCT-AAAGTCGTTGAGC
* * * ** * *
13205807 GTCTGTTTATAGGAG--TAATTTACTTTTCAAAAGTCATTGAGC
1 CTCTGCTTAGAGGAGCTTTGTTTA-TTTTCTAAAGTCGTTGAGC
* *
13205849 CTTTGTTTAGAGGAGCTTTGTTTATTTTTCTAAAGTCGTTGAGC
1 CTCTGCTTAGAGGAGCTTTGTTTA-TTTTCTAAAGTCGTTGAGC
13205893 CTCTGCTTAGAGGAGCTTTGTTTATTTTACTCAAAGTCGTTGAGC
1 CTCTGCTTAGAGGAGCTTTGTTTATTTT-CT-AAAGTCGTTGAGC
* * *
13205938 CTCTACTTAGAAGACCTTTG
1 CTCTGCTTAGAGGAGCTTTG
13205958 ATCAAAATTT
Statistics
Matches: 155, Mismatches: 33, Indels: 11
0.78 0.17 0.06
Matches are distributed among these distances:
42 50 0.32
43 8 0.05
44 67 0.43
45 30 0.19
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (43 bp):
CTCTGCTTAGAGGAGCTTTGTTTATTTTCTAAAGTCGTTGAGC
Found at i:13205988 original size:12 final size:12
Alignment explanation
Indices: 13205973--13206004 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
13205963 AATTTTAACC
*
13205973 AAAAAAACAACA
1 AAAAAAAAAACA
13205985 AAAAAAAAAACA
1 AAAAAAAAAACA
13205997 AAAAAAAA
1 AAAAAAAA
13206005 GTGTCGAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:13205991 original size:15 final size:14
Alignment explanation
Indices: 13205973--13206004 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
13205963 AATTTTAACC
13205973 AAAAAAACAACAAAA
1 AAAAAAACAA-AAAA
13205988 AAAAAAACAAAAAA
1 AAAAAAACAAAAAA
13206002 AAA
1 AAA
13206005 GTGTCGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAACAAAAAA
Found at i:13206161 original size:10 final size:9
Alignment explanation
Indices: 13206142--13206298 Score: 70
Period size: 10 Copynumber: 16.4 Consensus size: 9
13206132 TAATTTTTAA
13206142 TTTTATTAT
1 TTTTATTAT
13206151 TTTTCATTAT
1 TTTT-ATTAT
* *
13206161 TATTATGAT
1 TTTTATTAT
* *
13206170 TATGATTAT
1 TTTTATTAT
*
13206179 TATTATTAT
1 TTTTATTAT
13206188 TTATATATTAAT
1 TT-T-TATT-AT
13206200 ATTTTATT-T
1 -TTTTATTAT
*
13206209 ATTTATTTAT
1 TTTTA-TTAT
*
13206219 CTATTATTAT
1 -TTTTATTAT
*
13206229 TATTATTATT
1 TTTTATTA-T
13206239 TTTTAGTTAT
1 TTTTA-TTAT
* *
13206249 CTATTAATAT
1 -TTTTATTAT
13206259 ATTTTATTA-
1 -TTTTATTAT
13206268 -TTTATCTAT
1 TTTTAT-TAT
*
13206277 TATTATTTAT
1 TTTTA-TTAT
13206287 TTTTATT-T
1 TTTTATTAT
13206295 TTTT
1 TTTT
13206299 CTTGATCAAT
Statistics
Matches: 116, Mismatches: 17, Indels: 31
0.71 0.10 0.19
Matches are distributed among these distances:
7 5 0.04
8 11 0.09
9 37 0.32
10 39 0.34
11 19 0.16
12 3 0.03
13 2 0.02
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTATTAT
Found at i:13206162 original size:3 final size:3
Alignment explanation
Indices: 13206144--13206293 Score: 103
Period size: 3 Copynumber: 47.7 Consensus size: 3
13206134 ATTTTTAATT
* * *
13206144 TTA TTA TTT TTCA TTA TTA TTA TGA TTA TGA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
13206191 TATA TTA ATA TT- TTA TTTA TTTA TTTA TCTA TTA TTA TTA TTA TTA
1 T-TA TTA TTA TTA TTA -TTA -TTA -TTA T-TA TTA TTA TTA TTA TTA
*
13206237 TT- TT- TTA GTTA TCTA TTA ATA -TA TT- TTA TTA TTTA TCTA TTA TTA
1 TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA
*
13206282 TTTA TTT TTA TT
1 -TTA TTA TTA TT
13206294 TTTTTCTTGA
Statistics
Matches: 122, Mismatches: 11, Indels: 28
0.76 0.07 0.17
Matches are distributed among these distances:
2 10 0.08
3 75 0.61
4 37 0.30
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:13206205 original size:15 final size:13
Alignment explanation
Indices: 13206175--13206287 Score: 54
Period size: 14 Copynumber: 8.4 Consensus size: 13
13206165 ATGATTATGA
*
13206175 TTATTATTATTAT
1 TTATTATTAATAT
13206188 TTATATATTAATATT
1 TTAT-TATTAATA-T
13206203 TTATTTATT--TAT
1 TTA-TTATTAATAT
*
13206215 TTATCTATTATTA-
1 TTAT-TATTAATAT
* *
13206228 TTATTATTATTTT
1 TTATTATTAATAT
*
13206241 TTAGTTATCTATTAAT
1 TTA-TTAT-TAAT-AT
* *
13206257 ATATT-TTATTAT
1 TTATTATTAATAT
*
13206269 TTATCTATTATTAT
1 TTAT-TATTAATAT
13206283 TTATT
1 TTATT
13206288 TTTATTTTTT
Statistics
Matches: 83, Mismatches: 5, Indels: 24
0.74 0.04 0.21
Matches are distributed among these distances:
11 1 0.01
12 20 0.24
13 19 0.23
14 25 0.30
15 14 0.17
16 4 0.05
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (13 bp):
TTATTATTAATAT
Found at i:13206209 original size:4 final size:4
Alignment explanation
Indices: 13206184--13206288 Score: 50
Period size: 4 Copynumber: 28.5 Consensus size: 4
13206174 ATTATTATTA
* * * *
13206184 TTAT TTAT ATAT TAAT AT-T TTAT TTAT TTAT TTAT CTA- TTA- TTA-
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* * * *
13206228 TTA- TTA- TTAT TT-T TTAG TTAT CTAT TAAT ATAT TT-T ATTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT
*
13206273 CTA- TTA- TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TT
13206289 TTATTTTTTT
Statistics
Matches: 77, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
3 25 0.32
4 51 0.66
5 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.67
Consensus pattern (4 bp):
TTAT
Found at i:13206243 original size:38 final size:37
Alignment explanation
Indices: 13206175--13206288 Score: 106
Period size: 38 Copynumber: 2.9 Consensus size: 37
13206165 ATGATTATGA
*
13206175 TTATTATTATTATTTATATATTAATATTTTATTTATTTAT
1 TTATTATTATTA-TTAT-TATT-ATTTTTTATTTATTTAT
* *
13206215 TTATCTATTATTATTATTATTATTTTTTAGTTATCTAT
1 TTAT-TATTATTATTATTATTATTTTTTATTTATTTAT
* *
13206253 TAATATATT-TTATTATTTATCTA-TTATTATTTATTT
1 TTAT-TATTATTATTA-TTAT-TATTTTTTATTTATTT
13206289 TTATTTTTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
37 6 0.10
38 35 0.56
39 6 0.10
40 8 0.13
41 8 0.13
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.67
Consensus pattern (37 bp):
TTATTATTATTATTATTATTATTTTTTATTTATTTAT
Found at i:13207122 original size:3 final size:3
Alignment explanation
Indices: 13207116--13207154 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
13207106 TCTTTCTCAT
13207116 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT
13207155 TATTGAATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13207305 original size:65 final size:65
Alignment explanation
Indices: 13207232--13207366 Score: 159
Period size: 65 Copynumber: 2.1 Consensus size: 65
13207222 ATGATTTTTC
13207232 TAAA-ATAAAA-TTCCAAAAATAAAAAAAATATTTTTG-AGGAAAAGTTGAAAATATCAATTTTC
1 TAAACATAAAATTTCCAAAAATAAAAAAAATA-TTTTGAAGG-AAAGTTGAAAATATCAATTTTC
13207294 CT
64 CT
** * * *** *
13207296 TAAACATAAAATTTTTAAAGATAAAAAAATTATTTTGAAGGAAAGTTGATTGTATCAATTTTCTT
1 TAAACATAAAATTTCCAAAAATAAAAAAAATATTTTGAAGGAAAGTTGAAAATATCAATTTTCCT
13207361 TAAACA
1 TAAACA
13207367 CAAATTTTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
64 4 0.07
65 37 0.62
66 19 0.32
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.35
Consensus pattern (65 bp):
TAAACATAAAATTTCCAAAAATAAAAAAAATATTTTGAAGGAAAGTTGAAAATATCAATTTTCCT
Found at i:13207376 original size:65 final size:66
Alignment explanation
Indices: 13207250--13207376 Score: 168
Period size: 65 Copynumber: 1.9 Consensus size: 66
13207240 AATTCCAAAA
*
13207250 ATAAAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAACATAAAATTTTTAAA
1 ATAAAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAACACAAAATTTTTAAA
13207315 G
66 G
* *** * *
13207316 ATAAAAAAATTA-TTTTGAAGG-AAAGTTGATTGTATCAATTTTCTTTAAACACAAATTTTTT
1 ATAAAAAAAATATTTTTG-AGGAAAAGTTGAAAATATCAATTTTCCTTAAACACAAAATTTTT
13207377 TTAAAGGAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
65 39 0.74
66 14 0.26
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (66 bp):
ATAAAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAACACAAAATTTTTAAA
G
Found at i:13207448 original size:59 final size:58
Alignment explanation
Indices: 13207374--13207603 Score: 187
Period size: 59 Copynumber: 3.8 Consensus size: 58
13207364 ACACAAATTT
* * * *
13207374 TTTTTAAAGGAAAGTTGAAAGTATCAATTTCTCTAAAAAATAAAAGGTTTAAAAAAATA
1 TTTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTAAAAAATAAAA-ATTTAAAAAAATA
13207433 TTTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAACTTTCAAAAATTTTAAAAAAA
1 TTTTTAGAGAAAAGTTGAAAGTATCAATTTTTC-T-AAA--AAA---T-AAAAA-TTTAAAAAAA
13207498 TA
57 TA
* * * * * * *
13207500 TTTTTGGGGAAAAGTTGGAAGTACCAATTTTTCTTAGAAATAAAAATTATCAAGAAAAACA
1 TTTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTAAAAAATAAAAATT-T-AA-AAAAATA
* * * *
13207561 -ATTGAG-GAAAAGTTGAAAGTATCAATTTTCCT-TAAAATAAAAA
1 TTTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTAAAAAATAAAAA
13207604 ACTTCTAAAT
Statistics
Matches: 140, Mismatches: 19, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
58 11 0.08
59 59 0.42
60 7 0.05
61 9 0.06
63 6 0.04
65 1 0.01
66 2 0.01
67 45 0.32
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (58 bp):
TTTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTAAAAAATAAAAATTTAAAAAAATA
Found at i:13207604 original size:59 final size:55
Alignment explanation
Indices: 13207507--13207645 Score: 145
Period size: 59 Copynumber: 2.4 Consensus size: 55
13207497 ATATTTTTGG
* * * *
13207507 GGAAAAGTTGGAAGTACCAATTTTTCTTAGAAATAAAAATTATCAAGAAAAACAATTGA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAAACT-TC--GAAAAAC-ATTGA
* ** *
13207566 GGAAAAGTTGAAAGTATCAATTTTCCTTA-AAATAAAAAACTTCTAAATGCTTTGA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAAAACTTCGAAAAACATTGA
13207621 GGAAAAAGTTGAAAGTATCAATTTT
1 GG-AAAAGTTGAAAGTATCAATTTT
13207646 TCTTGTATAA
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
55 6 0.09
56 26 0.37
58 6 0.09
59 32 0.46
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.30
Consensus pattern (55 bp):
GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAAACTTCGAAAAACATTGA
Found at i:13211111 original size:26 final size:26
Alignment explanation
Indices: 13211077--13211127 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
13211067 AGAATGCCCC
13211077 AAAGCACCTTTTTGATAATTATAGCA
1 AAAGCACCTTTTTGATAATTATAGCA
*
13211103 AAAGTACCTTTTTGATAATTATAGC
1 AAAGCACCTTTTTGATAATTATAGC
13211128 TTTTAATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (26 bp):
AAAGCACCTTTTTGATAATTATAGCA
Found at i:13216841 original size:9 final size:9
Alignment explanation
Indices: 13216827--13216869 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
13216817 CAAAAAAGAA
13216827 AAGAAAAAG
1 AAGAAAAAG
13216836 AAG-AAAA-
1 AAGAAAAAG
13216843 AAGAAAAATG
1 AAGAAAAA-G
*
13216853 AAGAAAAAA
1 AAGAAAAAG
13216862 AAGAAAAA
1 AAGAAAAA
13216870 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
7 3 0.10
8 8 0.27
9 11 0.37
10 8 0.27
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:13216846 original size:16 final size:17
Alignment explanation
Indices: 13216825--13216861 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
13216815 ATCAAAAAAG
13216825 AAAAGAAAAA-GAAGAA
1 AAAAGAAAAATGAAGAA
13216841 AAAAGAAAAATGAAGAA
1 AAAAGAAAAATGAAGAA
13216858 AAAA
1 AAAA
13216862 AAGAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAATGAAGAA
Found at i:13216879 original size:10 final size:10
Alignment explanation
Indices: 13216818--13216873 Score: 69
Period size: 10 Copynumber: 5.6 Consensus size: 10
13216808 AAACTGAATC
13216818 AAAAAAGAAA
1 AAAAAAGAAA
*
13216828 AGAAAAAGAAG
1 A-AAAAAGAAA
13216839 AAAAAAGAAA
1 AAAAAAGAAA
**
13216849 AATGAAG-AA
1 AAAAAAGAAA
13216858 AAAAAAGAAA
1 AAAAAAGAAA
13216868 AAAAAA
1 AAAAAA
13216874 ATAAAATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
9 7 0.18
10 22 0.58
11 9 0.24
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:13217498 original size:24 final size:23
Alignment explanation
Indices: 13217445--13217491 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
13217435 AAAAAAAAGC
13217445 AAAAATCATAACAAAAAAATCAT
1 AAAAATCATAACAAAAAAATCAT
*
13217468 AATAAATCAT-GCAAAAATAATCAT
1 AA-AAATCATAACAAAAA-AATCAT
13217492 GTAAAATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.64, C:0.13, G:0.02, T:0.21
Consensus pattern (23 bp):
AAAAATCATAACAAAAAAATCAT
Found at i:13217528 original size:20 final size:21
Alignment explanation
Indices: 13217493--13217537 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
13217483 AATAATCATG
* *
13217493 TAAAATATCTTGCAAATATAT
1 TAAAATATCATGCAAATAAAT
13217514 TAAAA-ATCATGCAAATAAAT
1 TAAAATATCATGCAAATAAAT
13217534 TAAA
1 TAAA
13217538 TTCATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (21 bp):
TAAAATATCATGCAAATAAAT
Found at i:13217580 original size:31 final size:29
Alignment explanation
Indices: 13217515--13217616 Score: 79
Period size: 30 Copynumber: 3.5 Consensus size: 29
13217505 CAAATATATT
13217515 AAAAATCATGCAAATAAATTAAATTCATAA
1 AAAAATCATGCAAATAAATT-AATTCATAA
**
13217545 AAAAATCATGCAATATATATATT-ATTCATGC
1 AAAAATCATGCAA-ATA-A-ATTAATTCATAA
* * *
13217576 AAAAAT-AT-CACA-AAATAAAATCATAA
1 AAAAATCATGCAAATAAATTAATTCATAA
13217602 ATAAAA-CATGCAAAT
1 A-AAAATCATGCAAAT
13217617 TATAAATATC
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
25 2 0.04
26 7 0.12
27 7 0.12
28 4 0.07
29 2 0.04
30 15 0.27
31 15 0.27
32 1 0.02
33 3 0.05
ACGTcount: A:0.58, C:0.12, G:0.04, T:0.26
Consensus pattern (29 bp):
AAAAATCATGCAAATAAATTAATTCATAA
Found at i:13219105 original size:13 final size:13
Alignment explanation
Indices: 13219064--13219117 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
13219054 AGCAACTTTT
13219064 AACTAAAAAAA-A
1 AACTAAAAAAATA
* *
13219076 AACAAAAATAAAAA
1 AACTAAAA-AAATA
*
13219090 AACTAAAAAATTA
1 AACTAAAAAAATA
13219103 AACTAAAAAAATA
1 AACTAAAAAAATA
13219116 AA
1 AA
13219118 AATAAGATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
12 7 0.20
13 20 0.57
14 8 0.23
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (13 bp):
AACTAAAAAAATA
Found at i:13220288 original size:39 final size:39
Alignment explanation
Indices: 13220245--13220320 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
13220235 AATGTATCGG
*
13220245 GTCATTTTTAGCA-CTAATAATAGATGATCCACCTACGAA
1 GTCATCTTTAGCATC-AATAATAGATGATCCACCTACGAA
* *
13220284 GTCATCTTTAGCATCAATGATAGATGATCCACTTACG
1 GTCATCTTTAGCATCAATAATAGATGATCCACCTACG
13220321 GATCATTAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 32 0.97
40 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (39 bp):
GTCATCTTTAGCATCAATAATAGATGATCCACCTACGAA
Found at i:13224573 original size:14 final size:14
Alignment explanation
Indices: 13224554--13224581 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13224544 CTATATCCTA
13224554 ATTCTATTCTAGTT
1 ATTCTATTCTAGTT
13224568 ATTCTATTCTAGTT
1 ATTCTATTCTAGTT
13224582 TATAAAATAG
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:0.14, G:0.07, T:0.57
Consensus pattern (14 bp):
ATTCTATTCTAGTT
Found at i:13225936 original size:2 final size:2
Alignment explanation
Indices: 13225912--13225960 Score: 53
Period size: 2 Copynumber: 24.0 Consensus size: 2
13225902 CATGTTATCC
* * *
13225912 AT AT AT CT AT AT CT AT AT CAT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
*
13225955 GT AT AT
1 AT AT AT
13225961 CAGTTCCGGC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13226324 original size:19 final size:19
Alignment explanation
Indices: 13226288--13226326 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13226278 ATCGTTGGGT
*
13226288 TTTTCAAATGTCTATTGAA
1 TTTTCAAATGGCTATTGAA
13226307 TTTTCAAATTGGCT-TTGAA
1 TTTTCAAA-TGGCTATTGAA
13226326 T
1 T
13226327 AATTAAGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (19 bp):
TTTTCAAATGGCTATTGAA
Found at i:13228727 original size:3 final size:3
Alignment explanation
Indices: 13228713--13228745 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
13228703 AATTTTGTCC
*
13228713 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13228746 ATTTTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13231977 original size:71 final size:69
Alignment explanation
Indices: 13231795--13231984 Score: 170
Period size: 69 Copynumber: 2.7 Consensus size: 69
13231785 CCGCAAGTCG
* * * * * *
13231795 AAGAATAAATATGATTGAGATTGAACCGCGAGTCAAAGAATAAATATGATCAGGATTAAACTACA
1 AAGAATAAAAATGAATGCGATTAAACCACAAGTCAAAGAATAAATATGATCAGGATTAAACTACA
*
13231860 GTCA
66 ATCA
* * * * *
13231864 AAGAATAATAATGACTGCGATTAAACCACAAGTC-GAGAAATAAAAATGATC-GCGATTAAACTG
1 AAGAATAAAAATGAATGCGATTAAACCACAAGTCAAAG-AATAAATATGATCAG-GATTAAACTA
**
13231927 CTAATTG
64 C-AATCA
* *
13231934 AAGAATAAAAAATGAATAG-GATTGAATCACAAGTCAAAGAATAAATATGAT
1 AAGAAT-AAAAATGAAT-GCGATTAAACCACAAGTCAAAGAATAAATATGAT
13231985 TGAGATTGAG
Statistics
Matches: 96, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
68 3 0.03
69 49 0.51
70 8 0.08
71 33 0.34
72 3 0.03
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (69 bp):
AAGAATAAAAATGAATGCGATTAAACCACAAGTCAAAGAATAAATATGATCAGGATTAAACTACA
ATCA
Found at i:13232061 original size:33 final size:35
Alignment explanation
Indices: 13231619--13232331 Score: 212
Period size: 35 Copynumber: 20.4 Consensus size: 35
13231609 CTACAAATTG
* * *
13231619 AAGAATAAATATGATTAGGATTAAACCACAAGTCAA
1 AAGAATAAATATGACTAGGATTGAACCATAAGTC-A
* * *
13231655 AAAAATGAAA-ATGA-TCAGGATTGAA-TAGTGAGTCA
1 AAGAAT-AAATATGACT-AGGATTGAACCA-TAAGTCA
* * ** *
13231690 AAAAATGAAA-ATGACTAGAATTGAACCACGAGTTGA
1 AAGAAT-AAATATGACTAGGATTGAACCATAAG-TCA
* ***
13231726 AA-AATAAAAATGACT-GAGATTGAAATGTAAGTC-
1 AAGAATAAATATGACTAG-GATTGAACCATAAGTCA
* * * ** *
13231759 AAGAAATAAAAAT-ATTCAAGATTGAACCGCAAGTCG
1 AAG-AATAAATATGACT-AGGATTGAACCATAAGTCA
* ***
13231795 AAGAATAAATATGA-TTGAGATTGAACCGCGAGTCA
1 AAGAATAAATATGACTAG-GATTGAACCATAAGTCA
*
13231830 AAGAATAAATATGA-TCAGGATT-AAAC-TACAGTCA
1 AAGAATAAATATGACT-AGGATTGAACCATA-AGTCA
* *
13231864 AAGAAT-AATAATGACT-GCGATTAAACCACAAGTC-
1 AAGAATAAAT-ATGACTAG-GATTGAACCATAAGTCA
* * * * **
13231898 GAGAAATAAAAATGA-TCGCGATTAAACTGC-TAA-TTG
1 AAG-AATAAATATGACTAG-GATTGAAC--CATAAGTCA
* * * *
13231934 AAGAATAAAAAATGAATAGGATTGAATCACAAGTCA
1 AAGAAT-AAATATGACTAGGATTGAACCATAAGTCA
* * ** *
13231970 AAGAATAAATATGA-TTGAGATTGAGCCACGAGTTA
1 AAGAATAAATATGACTAG-GATTGAACCATAAGTCA
* * *
13232005 AGGAATGAAA-ATGA-TCGGATTGAACCATGAGTCA
1 AAGAAT-AAATATGACTAGGATTGAACCATAAGTCA
* **
13232039 AAGAAT-GA-ATGACTAGGATTGAACTGTAAGTCA
1 AAGAATAAATATGACTAGGATTGAACCATAAGTCA
*
13232072 AAGAATAAATATGACTAGGATTGAATC-TCAAGTCA
1 AAGAATAAATATGACTAGGATTGAACCAT-AAGTCA
* * * * * *
13232107 AAAAATGAAA-ATAACCAGGACTAAATTGC-T-AGTCA
1 AAGAAT-AAATATGACTAGGATTGAA--CCATAAGTCA
* * * * **
13232142 AACAATGAAA-ATGACTATGATTAAATCATGGGTCA
1 AAGAAT-AAATATGACTAGGATTGAACCATAAGTCA
** * **
13232177 AAGAATGAAA-ATGA-TCAGGATTGAACTGTGAGTTG
1 AAGAAT-AAATATGACT-AGGATTGAACCATAAGTCA
* * * * *
13232212 AAGAATAAATATGACGATGATTGAA-CTTCGAGTCG
1 AAGAATAAATATGACTAGGATTGAACCAT-AAGTCA
* * * *
13232247 AAGAATAAATATGATTGGGATTGAATCATAAGTCT
1 AAGAATAAATATGACTAGGATTGAACCATAAGTCA
* * * *
13232282 AAGAATGAAA-ATGATTAGGATTAAACCATGAGTCG
1 AAGAAT-AAATATGACTAGGATTGAACCATAAGTCA
13232317 AAGAATAAATATGAC
1 AAGAATAAATATGAC
13232332 CGTGACTAAA
Statistics
Matches: 524, Mismatches: 103, Indels: 101
0.72 0.14 0.14
Matches are distributed among these distances:
32 5 0.01
33 29 0.06
34 65 0.12
35 346 0.66
36 71 0.14
37 8 0.02
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (35 bp):
AAGAATAAATATGACTAGGATTGAACCATAAGTCA
Found at i:13232226 original size:70 final size:68
Alignment explanation
Indices: 13232030--13232365 Score: 195
Period size: 70 Copynumber: 4.8 Consensus size: 68
13232020 CGGATTGAAC
*
13232030 CATGAGTCAAAGAATG--AATGACTAGGATTGAACTGTAAGTCAAAGAATAAATATGACTAGGAT
1 CATGAGTCAAAGAATGAAAATGAC-AGGATTGAACTGT-AGTCAAAGAATAAATATGACTATGAT
*
13232093 TGAAT
64 TAAAT
* * * * * * *
13232098 C-TCAAGTCAAAAAATGAAAATAACCAGGACTAAATTGCTAGTCAAACAATGAAA-ATGACTATG
1 CAT-GAGTCAAAGAATGAAAATGA-CAGGATTGAACTG-TAGTCAAAGAAT-AAATATGACTATG
13232161 ATTAAAT
62 ATTAAAT
* ** *
13232168 CATGGGTCAAAGAATGAAAATGATCAGGATTGAACTGTGAGTTGAAGAATAAATATGACGATGAT
1 CATGAGTCAAAGAATGAAAATGA-CAGGATTGAACTGT-AGTCAAAGAATAAATATGACTATGAT
*
13232233 TGAA-
64 TAAAT
* * ** * * *
13232237 CTTCGAGTCGAAGAAT-AAATATGATTGGGATTGAATCAT-AAGTCTAAGAATGAAA-ATGATTA
1 CAT-GAGTCAAAGAATGAAA-ATGA-CAGGATTGAA-C-TGTAGTCAAAGAAT-AAATATGACTA
* *
13232299 GGATTAAAC
60 TGATTAAAT
* * * * * *
13232308 CATGAGTCGAAGAAT-AAATATGACCGTGACTAAACTGTAAGTCAAAAAATAAAAATGA
1 CATGAGTCAAAGAATGAAA-ATGACAG-GATTGAACTGT-AGTCAAAGAATAAATATGA
13232366 ATGAGACTAA
Statistics
Matches: 207, Mismatches: 42, Indels: 36
0.73 0.15 0.13
Matches are distributed among these distances:
67 1 0.00
68 13 0.06
69 14 0.07
70 166 0.80
71 12 0.06
72 1 0.00
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.24
Consensus pattern (68 bp):
CATGAGTCAAAGAATGAAAATGACAGGATTGAACTGTAGTCAAAGAATAAATATGACTATGATTA
AAT
Found at i:13232342 original size:35 final size:35
Alignment explanation
Indices: 13232303--13232438 Score: 101
Period size: 35 Copynumber: 3.9 Consensus size: 35
13232293 TGATTAGGAT
* * * *
13232303 TAAACCATGAGTCGAAGAATAAATATGACCGTGAC
1 TAAACTATAAGTCAAAGAATAAATATGACCGAGAC
* * * **
13232338 TAAACTGTAAGTCAAAAAATAAAAATGAATGAGAC
1 TAAACTATAAGTCAAAGAATAAATATGACCGAGAC
* * * * *
13232373 TAAATTTGTGAGTCAAAGAATAAATATGACTGGGAC
1 TAAA-CTATAAGTCAAAGAATAAATATGACCGAGAC
* * **
13232409 TAAGCTACAAGTCGGAGAATAAATATGACC
1 TAAACTATAAGTCAAAGAATAAATATGACC
13232439 TGAACTGAGC
Statistics
Matches: 77, Mismatches: 23, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
35 49 0.64
36 28 0.36
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.22
Consensus pattern (35 bp):
TAAACTATAAGTCAAAGAATAAATATGACCGAGAC
Found at i:13232359 original size:105 final size:105
Alignment explanation
Indices: 13232177--13232365 Score: 247
Period size: 105 Copynumber: 1.8 Consensus size: 105
13232167 TCATGGGTCA
* ** * * * *
13232177 AAGAATGAAAATGATCAGGATTGAACTGTGAGTTGAAGAATAAATATGACGATGATTGAACTTCG
1 AAGAATGAAAATGATCAGGATTAAACCATGAGTCGAAGAATAAATATGACGATGACTAAACTTCA
* * *
13232242 AGTCGAAGAATAAATATGATTGGGATTGAATCATAAGTCT
66 AGTCAAAAAATAAAAATGATTGGGATTGAATCATAAGTCT
*
13232282 AAGAATGAAAATGATTAGGATTAAACCATGAGTCGAAGAATAAATATGACCG-TGACTAAACTGT
1 AAGAATGAAAATGATCAGGATTAAACCATGAGTCGAAGAATAAATATGA-CGATGACTAAACT-T
13232346 -AAGTCAAAAAATAAAAATGA
64 CAAGTCAAAAAATAAAAATGA
13232366 ATGAGACTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
105 68 0.96
106 3 0.04
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (105 bp):
AAGAATGAAAATGATCAGGATTAAACCATGAGTCGAAGAATAAATATGACGATGACTAAACTTCA
AGTCAAAAAATAAAAATGATTGGGATTGAATCATAAGTCT
Found at i:13232395 original size:36 final size:35
Alignment explanation
Indices: 13232310--13232411 Score: 114
Period size: 36 Copynumber: 2.9 Consensus size: 35
13232300 GATTAAACCA
* * *
13232310 TGAGTCGAAGAATAAATATGACCGTGACTAAACTG
1 TGAGTCAAAGAATAAATATGACTGAGACTAAACTG
* * * * *
13232345 TAAGTCAAAAAATAAAAATGAATGAGACTAAATTTG
1 TGAGTCAAAGAATAAATATGACTGAGACTAAA-CTG
*
13232381 TGAGTCAAAGAATAAATATGACTGGGACTAA
1 TGAGTCAAAGAATAAATATGACTGAGACTAA
13232412 GCTACAAGTC
Statistics
Matches: 53, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
35 25 0.47
36 28 0.53
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.24
Consensus pattern (35 bp):
TGAGTCAAAGAATAAATATGACTGAGACTAAACTG
Found at i:13232456 original size:35 final size:34
Alignment explanation
Indices: 13232389--13232467 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 34
13232379 TGTGAGTCAA
* *
13232389 AGAATAAATATGACTGGGACTAAGCTACAAGTCGG
1 AGAATAAATATGACTGGAACTAAGCCACAAGTC-G
* *
13232424 AGAATAAATATGACCT-GAACTGAGCCATAAGTCG
1 AGAATAAATATGA-CTGGAACTAAGCCACAAGTCG
13232458 AGAAATAAAT
1 AG-AATAAAT
13232468 GATGGTCAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 3 0.08
35 33 0.87
36 2 0.05
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (34 bp):
AGAATAAATATGACTGGAACTAAGCCACAAGTCG
Found at i:13233989 original size:17 final size:15
Alignment explanation
Indices: 13233967--13234027 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
13233957 TTTTTCCTTC
13233967 TTTTATTCTTCATTTCT
1 TTTTATT-TTCATTT-T
*
13233984 TTTTATTTTCCTTTT
1 TTTTATTTTCATTTT
13233999 TTTTACTTTT--TTTT
1 TTTTA-TTTTCATTTT
13234013 TTTGTATTTTTCATT
1 TTT-TA-TTTTCATT
13234028 GAGTGGATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 7 0.18
15 12 0.32
16 10 0.26
17 9 0.24
ACGTcount: A:0.10, C:0.11, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTTATTTTCATTTT
Found at i:13235149 original size:317 final size:315
Alignment explanation
Indices: 13234700--13235329 Score: 717
Period size: 317 Copynumber: 2.0 Consensus size: 315
13234690 GATAGAGTAA
* * * *
13234700 AAAAAAAAGACAAGAAGAAGAAGAAGATTATTTTACCATATGGTTATGTCTTTAACTTGCCTAAA
1 AAAAAAAAGACAAGAAGAAGAAGAAGATTAGTTTACCATATGGCTATGGCTCTAACTTGCCTAAA
* *
13234765 GAAATTTATTACTCCTTAATCAAAATAATTTGAAAACCTATCAGACATATAAAATAACATGGTTC
66 GAAATTTATTACTCCTTAAACAAAATAATTTGAAAACCTATCAAACATATAAAATAACATGGTTC
*
13234830 TTTCAAGA-TAACAAACTTTTTGTCATAAGTTT-GGCATATTG-CACATCTCCTATTGGTAA-AA
131 TTTCAAGATTAACAAACTTTTTGTCAGAAGTTTGGGCATA-TGACACATCTCCTATT-G-AAGAA
* * * * * * *
13234891 -GTTGAAAATTCACTTATT-GAGACAATTATTGCAATATTGGGACCCCTCGCTATTATTATTTCA
193 GGTGGAAAATTCACTTATTAAAG-CAA-TAGTGCAATATTGGAACCCCTC-ATATCATTATTCCA
* * *
13234954 TCTTCAATGAAGTTGATTTTTGATTTCAACCATAGAGA-AGTATTCGATTCTGGTAGGTATGTT
255 TCTTCAATGAAGTTGA--TTTGATTTCAACCATAGA-ATAATATTCAATTCTAGTAGGTATGTT
* * *
13235017 AAAAAAAAG-CAATG-AGAAGAAGGAGATT-GTTTACCTTATGGCTATGGCTCTACCTTGCCTAA
1 AAAAAAAAGACAA-GAAGAAGAAGAAGATTAGTTTACCATATGGCTATGGCTCTAACTTGCCTAA
* * * * ***
13235079 A-AAATGTTTGATTGCTCTTTAAACAAAATTATTTGAAAAACCTGTCAAACATATGGGATAACAT
65 AGAAA--TTT-ATTACTCCTTAAACAAAATAATTTG-AAAACCTATCAAACATATAAAATAACAT
* * *
13235143 -GTTCTTTCAAGATTAACAAACTTTTTGTTAGAAGTTTGGGCATATGACACATCTCTTGTTGAAG
126 GGTTCTTTCAAGATTAACAAACTTTTTGTCAGAAGTTTGGGCATATGACACATCTCCTATTGAAG
* * * * *
13235207 AAGGTGGAAAATTCACTTATTAAAGCAATGGTGCTATTTTGGAACCCCTCATATCGTTGTTCCAT
191 AAGGTGGAAAATTCACTTATTAAAGCAATAGTGCAATATTGGAACCCCTCATATCATTATTCCAT
* *
13235272 TTTCAATGAAGTTGATTTGATTTCAAGCATAGAATAATATTCAATTCTAGTAGGTATG
256 CTTCAATGAAGTTGATTTGATTTCAACCATAGAATAATATTCAATTCTAGTAGGTATG
13235330 CATGTCTAGT
Statistics
Matches: 264, Mismatches: 37, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
314 4 0.02
315 66 0.25
316 19 0.07
317 69 0.26
318 67 0.25
319 37 0.14
320 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (315 bp):
AAAAAAAAGACAAGAAGAAGAAGAAGATTAGTTTACCATATGGCTATGGCTCTAACTTGCCTAAA
GAAATTTATTACTCCTTAAACAAAATAATTTGAAAACCTATCAAACATATAAAATAACATGGTTC
TTTCAAGATTAACAAACTTTTTGTCAGAAGTTTGGGCATATGACACATCTCCTATTGAAGAAGGT
GGAAAATTCACTTATTAAAGCAATAGTGCAATATTGGAACCCCTCATATCATTATTCCATCTTCA
ATGAAGTTGATTTGATTTCAACCATAGAATAATATTCAATTCTAGTAGGTATGTT
Found at i:13247623 original size:21 final size:20
Alignment explanation
Indices: 13247599--13247648 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
13247589 TTACATACAT
* *
13247599 AAATACTAATAATAAAATTTA
1 AAATAATAAAAATAAAA-TTA
*
13247620 AAATAATAAAAATAATATTA
1 AAATAATAAAAATAAAATTA
*
13247640 AAAGAATAA
1 AAATAATAA
13247649 TTTAGAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (20 bp):
AAATAATAAAAATAAAATTA
Found at i:13247640 original size:20 final size:18
Alignment explanation
Indices: 13247605--13247648 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
13247595 ACATAAATAC
*
13247605 TAATAATAAAATTTAAAA
1 TAATAAAAAAATTTAAAA
13247623 TAATAAAAATAATATTAAAA
1 TAATAAAAA-AAT-TTAAAA
*
13247643 GAATAA
1 TAATAA
13247649 TTTAGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 11 0.50
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
TAATAAAAAAATTTAAAA
Found at i:13248006 original size:18 final size:20
Alignment explanation
Indices: 13247983--13248026 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
13247973 CAACTGGTCA
13247983 TCGTCACTACCA-TCACC-G
1 TCGTCACTACCAGTCACCAG
*
13248001 TCGTCACTACTAGTCACCAG
1 TCGTCACTACCAGTCACCAG
13248021 TCGTCA
1 TCGTCA
13248027 TTGTCGGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 5 0.22
20 7 0.30
ACGTcount: A:0.23, C:0.39, G:0.14, T:0.25
Consensus pattern (20 bp):
TCGTCACTACCAGTCACCAG
Found at i:13248586 original size:10 final size:9
Alignment explanation
Indices: 13248566--13248613 Score: 51
Period size: 10 Copynumber: 4.9 Consensus size: 9
13248556 ACTGAACTGA
13248566 AAAAGAAAAG
1 AAAA-AAAAG
*
13248576 AAAAACGAAG
1 AAAAA-AAAG
13248586 AAAAAAAAG
1 AAAAAAAAG
13248595 AAAAAAAAAG
1 -AAAAAAAAG
13248605 AAGAAAAAA
1 AA-AAAAAA
13248614 TAATAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 6 0.18
10 27 0.82
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:13248595 original size:19 final size:19
Alignment explanation
Indices: 13248566--13248613 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
13248556 ACTGAACTGA
**
13248566 AAAAGAAAAGAAAAACGAAG
1 AAAA-AAAAGAAAAAAAAAG
13248586 AAAAAAAAGAAAAAAAAAG
1 AAAAAAAAGAAAAAAAAAG
13248605 AAGAAAAAA
1 AA-AAAAAA
13248614 TAATAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAAAAAGAAAAAAAAAG
Found at i:13248601 original size:22 final size:24
Alignment explanation
Indices: 13248565--13248613 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
13248555 AACTGAACTG
*
13248565 AAAAAGAAAAGAAAAACGAAGAAA
1 AAAAAGAAAAGAAAAAAGAAGAAA
13248589 AAAAAG-AAA-AAAAAAGAAGAAA
1 AAAAAGAAAAGAAAAAAGAAGAAA
13248611 AAA
1 AAA
13248614 TAATAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 15 0.62
23 3 0.12
24 6 0.25
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (24 bp):
AAAAAGAAAAGAAAAAAGAAGAAA
Found at i:13249241 original size:21 final size:20
Alignment explanation
Indices: 13249217--13249257 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13249207 ATGCAAAAAT
*
13249217 AATCATGTAAAATATATTAAA
1 AATCATG-AAAATAAATTAAA
*
13249238 AATCATGCAAATAAATTAAA
1 AATCATGAAAATAAATTAAA
13249258 TTCATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (20 bp):
AATCATGAAAATAAATTAAA
Found at i:13249321 original size:26 final size:26
Alignment explanation
Indices: 13249292--13249351 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
13249282 CATATATTAT
*
13249292 TCATGCAAA-AATATCACAAAATAAAA
1 TCATGCAAATAAAATCA-AAAATAAAA
*
13249318 TCATGCAAATAAAATCATAAATAAAA
1 TCATGCAAATAAAATCAAAAATAAAA
13249344 --ATGCAAAT
1 TCATGCAAAT
13249352 TATAAATATC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 8 0.26
26 17 0.55
27 6 0.19
ACGTcount: A:0.60, C:0.13, G:0.05, T:0.22
Consensus pattern (26 bp):
TCATGCAAATAAAATCAAAAATAAAA
Found at i:13249329 original size:14 final size:14
Alignment explanation
Indices: 13249310--13249351 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 14
13249300 AAATATCACA
13249310 AAATAAAATCATGC
1 AAATAAAATCATGC
13249324 AAATAAAATCAT--
1 AAATAAAATCATGC
13249336 AAATAAAA--ATGC
1 AAATAAAATCATGC
13249348 AAAT
1 AAAT
13249352 TATAAATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.08
12 12 0.46
14 12 0.46
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (14 bp):
AAATAAAATCATGC
Found at i:13249341 original size:12 final size:13
Alignment explanation
Indices: 13249310--13249343 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
13249300 AAATATCACA
13249310 AAATAAAATCATGC
1 AAATAAAATCAT-C
13249324 AAATAAAATCAT-
1 AAATAAAATCATC
13249336 AAATAAAA
1 AAATAAAA
13249344 ATGCAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
14 12 0.60
ACGTcount: A:0.68, C:0.09, G:0.03, T:0.21
Consensus pattern (13 bp):
AAATAAAATCATC
Found at i:13249457 original size:25 final size:24
Alignment explanation
Indices: 13249429--13249498 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 24
13249419 AAAATAATAA
13249429 AAAATAGAAAATAGAAAAGAAAAAT
1 AAAATAGAAAATAGAAAA-AAAAAT
* * * *
13249454 AAAACTAAAAAATATAAAATACAAT
1 AAAA-TAGAAAATAGAAAAAAAAAT
*
13249479 AAAA-AGAAAAAAGAAAAAAA
1 AAAATAGAAAATAGAAAAAAA
13249499 GGAAACTTGT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
23 11 0.31
25 12 0.34
26 12 0.34
ACGTcount: A:0.79, C:0.03, G:0.07, T:0.11
Consensus pattern (24 bp):
AAAATAGAAAATAGAAAAAAAAAT
Found at i:13250730 original size:12 final size:13
Alignment explanation
Indices: 13250707--13250740 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
13250697 CTTTAATTTT
13250707 CAGAATCTAAAAC
1 CAGAATCTAAAAC
13250720 CAGAA-CTAAAAC
1 CAGAATCTAAAAC
13250732 CA-AATCTAA
1 CAGAATCTAA
13250741 GATTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.10
12 13 0.65
13 5 0.25
ACGTcount: A:0.56, C:0.24, G:0.06, T:0.15
Consensus pattern (13 bp):
CAGAATCTAAAAC
Found at i:13252028 original size:39 final size:39
Alignment explanation
Indices: 13251984--13252059 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
13251974 ACACATATCG
* *
13251984 AGTCATTTTTAGCA-CTGATAATAGATGATCCACCTACCA
1 AGTCATCTTTAGCATC-AATAATAGATGATCCACCTACCA
*
13252023 AGTCATCTTTAGCATCAATGATAGATGATCCACCTAC
1 AGTCATCTTTAGCATCAATAATAGATGATCCACCTAC
13252060 GGATCATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 32 0.97
40 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (39 bp):
AGTCATCTTTAGCATCAATAATAGATGATCCACCTACCA
Found at i:13253590 original size:167 final size:158
Alignment explanation
Indices: 13253170--13253627 Score: 467
Period size: 167 Copynumber: 2.8 Consensus size: 158
13253160 GTATTAAGGG
* * * *
13253170 GCAATGACTTTGTGAAAGGTGAAAATTATTGCATATTTTGCTTTGTAATTGTTGATGTGTATTGT
1 GCAATGACTTTGTGAAAGGTGAAAATTATTGCGTATTTTGCTTTATAATTCTTGATGTGTATTAT
* * *
13253235 GCTTGTTGATGAACTAATTTTATAGTAATTCAAAGCATGAAATTTGTAAAAAATTCTTTATTA-A
66 GCTTGTTGATGAACTAATTTTATAGTAATTCAAAGCCTAAAATTTGTAAGAAATTCTTTA-TAGA
13253299 ACTAGATTTTGTATTGTGCTTATTACATC
130 ACTAGATTTTGTATTGTGCTTATTACATC
* * * * * * * * * *
13253328 GTAATGACTCTATGACATGTGAAAATTGTTGCG-ATTTTTC-TTATTATTTCTT-ACTATGTGTT
1 GCAATGACTTTGTGAAAGGTGAAAATTATTGCGTATTTTGCTTTA-TAATTCTTGA-TGTGTATT
* * *
13253390 ATGGTTGTTGATGAACTACTTTTATTGTAATTCAAAGCCTAAAATTTGTAAGAAATTCTTTATAG
64 ATGCTTGTTGATGAACTAATTTTATAGTAATTCAAAGCCTAAAATTTGTAAGAAATTCTTTATAG
* * *
13253455 AACTAGATAGTGCATTGTGTGTATTGCATGTATTTAGAT-
129 AACTAGAT--T---TTGTAT-T-GTGC-T-TA-TTACATC
* * * * *
13253494 GCAATGACTTTGTGAAAGGTAAAAATTATTGTGTATTTTGCTTTATGATTCTTGTTGTTTATTAT
1 GCAATGACTTTGTGAAAGGTGAAAATTATTGCGTATTTTGCTTTATAATTCTTGATGTGTATTAT
* * * * *
13253559 ACTTATTGATGAACTAATTTTATAGTAATTCAAAGCCTAAATTTTGTAGGAAATTCTTTATTGAA
66 GCTTGTTGATGAACTAATTTTATAGTAATTCAAAGCCTAAAATTTGTAAGAAATTCTTTATAGAA
13253624 CTAG
131 CTAG
13253628 GAAATGTTTT
Statistics
Matches: 238, Mismatches: 46, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
156 5 0.02
157 81 0.34
158 26 0.11
159 1 0.00
162 5 0.02
163 1 0.00
164 3 0.01
165 1 0.00
166 27 0.11
167 85 0.36
168 3 0.01
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (158 bp):
GCAATGACTTTGTGAAAGGTGAAAATTATTGCGTATTTTGCTTTATAATTCTTGATGTGTATTAT
GCTTGTTGATGAACTAATTTTATAGTAATTCAAAGCCTAAAATTTGTAAGAAATTCTTTATAGAA
CTAGATTTTGTATTGTGCTTATTACATC
Found at i:13254535 original size:21 final size:20
Alignment explanation
Indices: 13254509--13254560 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
13254499 GAAATTTAGA
*
13254509 TTTTACTGATGAAATTCTCAT
1 TTTTACTGATGAAAATCT-AT
*
13254530 TTTTACCT-ATAAAAATCTAT
1 TTTTA-CTGATGAAAATCTAT
*
13254550 CTTTACTGATG
1 TTTTACTGATG
13254561 GATCACTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 2 0.08
20 8 0.32
21 13 0.52
22 2 0.08
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (20 bp):
TTTTACTGATGAAAATCTAT
Found at i:13255428 original size:2 final size:2
Alignment explanation
Indices: 13255421--13255451 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13255411 TCAATTCTGG
13255421 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13255452 GGACCGTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.