Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 125 of 185
Found at i:38496580 original size:19 final size:19
Alignment explanation
Indices: 38496556--38496671 Score: 69
Period size: 19 Copynumber: 5.8 Consensus size: 19
38496546 AGAGGCGCCA
38496556 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
*
38496575 ATGAATATTGTAATTATTTT
1 ATGAATATTGTAATT-TTGT
38496595 AT-AATTAAATTTGT-ATTTATAGTT
1 ATGAA-T--A-TTGTAATTT-T-G-T
* * **
38496619 TTGGAT-TAAT-ATTTTGT
1 ATGAATATTGTAATTTTGT
38496636 ATGAATATTGTAATTTTTTGT
1 ATGAATATTGTAA--TTTTGT
38496657 ATGAATATTGTAATT
1 ATGAATATTGTAATT
38496672 ATTTTATAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
17 5 0.07
18 3 0.04
19 21 0.28
20 12 0.16
21 20 0.27
22 5 0.07
23 4 0.05
24 3 0.04
25 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (19 bp):
ATGAATATTGTAATTTTGT
Found at i:38496654 original size:21 final size:21
Alignment explanation
Indices: 38496625--38496676 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
38496615 AGTTTTGGAT
*
38496625 TAATATTTTGTATGAATATTG
1 TAATTTTTTGTATGAATATTG
38496646 TAATTTTTTGTATGAATATTG
1 TAATTTTTTGTATGAATATTG
38496667 TAATTATTTT
1 TAATT-TTTT
38496677 ATAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.58
Consensus pattern (21 bp):
TAATTTTTTGTATGAATATTG
Found at i:38496730 original size:60 final size:60
Alignment explanation
Indices: 38496664--38496785 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
38496654 TGTATGAATA
* * * * *
38496664 TTGTAATTATTTTATAA-TTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
38496724 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
38496784 TT
1 TT
38496786 AGTTTAATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 6 0.11
60 49 0.89
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:38496863 original size:38 final size:38
Alignment explanation
Indices: 38496818--38496899 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
38496808 CATATAAAGT
38496818 TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
*
38496856 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
38496894 TTATAA
1 TTATAA
38496900 CTGACTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
Found at i:38496977 original size:15 final size:15
Alignment explanation
Indices: 38496936--38496977 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
38496926 GTTAACTAAT
*
38496936 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
38496951 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
38496967 TTAAATTTTAT
1 TTAAATTTTAT
38496978 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:38497138 original size:21 final size:21
Alignment explanation
Indices: 38497107--38497291 Score: 119
Period size: 21 Copynumber: 8.2 Consensus size: 21
38497097 AATTAATTAT
38497107 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
38497129 AAAAAATTACAATATTACAATATATC
1 AAAAAATTACAATATT-C---ATA-C
*** *
38497155 CCGACATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
38497176 ---AAATTACAATATTACAATATTC
1 AAAAAATTACAATATT-C-ATA--C
*
38497198 ATACAAAATTATAATATTACAATATTC
1 A-A-AAAATTACAATATT-C-ATA--C
38497225 ATAAAAAATTACAATATTCAT--
1 --AAAAAATTACAATATTCATAC
*
38497246 ATAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
38497267 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
38497288 AAAA
1 AAAA
38497292 TACTAATCTA
Statistics
Matches: 136, Mismatches: 9, Indels: 37
0.75 0.05 0.20
Matches are distributed among these distances:
18 12 0.09
19 19 0.14
20 3 0.02
21 37 0.27
22 9 0.07
25 6 0.04
26 14 0.10
27 34 0.25
28 1 0.01
29 1 0.01
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.32
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:38497147 original size:8 final size:8
Alignment explanation
Indices: 38497134--38497223 Score: 56
Period size: 8 Copynumber: 10.4 Consensus size: 8
38497124 CATACAAAAA
38497134 ATTACAAT
1 ATTACAAT
38497142 ATTACAAT
1 ATTACAAT
* * *
38497150 ATATCCCGAC
1 AT-T-ACAAT
38497160 ATTACAAT
1 ATTACAAT
38497168 ATTCATACAA-
1 A-T--TACAAT
38497178 ATTACAAT
1 ATTACAAT
38497186 ATTACAAT
1 ATTACAAT
*
38497194 ATTCATACAAA
1 A-T--TACAAT
*
38497205 ATTATAAT
1 ATTACAAT
38497213 ATTACAAT
1 ATTACAAT
38497221 ATT
1 ATT
38497224 CATAAAAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
7 5 0.08
8 36 0.57
9 5 0.08
10 6 0.10
11 11 0.17
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.36
Consensus pattern (8 bp):
ATTACAAT
Found at i:38497181 original size:65 final size:66
Alignment explanation
Indices: 38497112--38497282 Score: 202
Period size: 71 Copynumber: 2.5 Consensus size: 66
38497102 ATTATAAAAT
*** *
38497112 AATTACAATATTCATACAAAAAATTACAATATTACAATATATC-CCGACATTACAATATTCATA-
1 AATTACAATATTCATACAAAAAATTACAATATTACAATAT-TCAAAAAAATTACAATATTCATAT
*
38497175 CA
65 AA
*
38497177 AATTACAATATTACAATATTCATACAAAATTATAATATTACAATATTCATAAAAAATTACAATAT
1 AATTACAATATT-C-ATA--CA-A-AAAATTACAATATTACAATATTCA-AAAAAATTACAATAT
38497242 TCATATAA
59 TCATATAA
38497250 AATTACAATATTCATACAAAAAATTACAATATT
1 AATTACAATATTCATACAAAAAATTACAATATT
38497283 CATACAAAAT
Statistics
Matches: 90, Mismatches: 7, Indels: 16
0.80 0.06 0.14
Matches are distributed among these distances:
65 12 0.13
66 1 0.01
67 16 0.18
68 1 0.01
69 4 0.04
70 3 0.03
71 23 0.26
72 17 0.19
73 13 0.14
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.33
Consensus pattern (66 bp):
AATTACAATATTCATACAAAAAATTACAATATTACAATATTCAAAAAAATTACAATATTCATATA
A
Found at i:38497208 original size:19 final size:19
Alignment explanation
Indices: 38497160--38497365 Score: 128
Period size: 19 Copynumber: 10.7 Consensus size: 19
38497150 ATATCCCGAC
38497160 ATTACAATATTCATAC-AA
1 ATTACAATATTCATACAAA
38497178 ATTACAATA-T--TACAATA
1 ATTACAATATTCATACAA-A
* * *
38497195 TTCATACAAAATT-AT--AAT
1 AT--TACAATATTCATACAAA
*
38497213 ATTACAATATTCATAAAAA
1 ATTACAATATTCATACAAA
*
38497232 ATTACAATATTCATATAAA
1 ATTACAATATTCATACAAA
38497251 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
38497272 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
* * *
38497291 A-TACTAAT-CTAAAACTATAA
1 ATTAC-AATATTCATAC-A-AA
*
38497311 A-TACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
38497333 ATTACAATATTAATACAAA
1 ATTACAATATTCATACAAA
38497352 ATTACAATATTCAT
1 ATTACAATATTCAT
38497366 TGGCGCCTCT
Statistics
Matches: 150, Mismatches: 17, Indels: 41
0.72 0.08 0.20
Matches are distributed among these distances:
15 3 0.02
16 9 0.06
17 5 0.03
18 17 0.11
19 68 0.45
20 15 0.10
21 21 0.14
22 6 0.04
23 5 0.03
24 1 0.01
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:38497214 original size:27 final size:27
Alignment explanation
Indices: 38497160--38497242 Score: 141
Period size: 27 Copynumber: 3.1 Consensus size: 27
38497150 ATATCCCGAC
38497160 ATTACAATATTCATAC-AAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
*
38497186 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
*
38497213 ATTACAATATTCATAAAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
38497240 ATT
1 ATT
38497243 CATATAAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 16 0.30
27 37 0.70
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:38497282 original size:40 final size:38
Alignment explanation
Indices: 38497207--38497292 Score: 136
Period size: 40 Copynumber: 2.2 Consensus size: 38
38497197 CATACAAAAT
*
38497207 TATAATATTACAATATTCATAAAAAATTACAATATTCA
1 TATAAAATTACAATATTCATAAAAAATTACAATATTCA
38497245 TATAAAATTACAATATTCATACAAAAAATTACAATATTCA
1 TATAAAATTACAATATTCAT--AAAAAATTACAATATTCA
*
38497285 TACAAAAT
1 TATAAAAT
38497293 ACTAATCTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
38 19 0.43
40 25 0.57
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.34
Consensus pattern (38 bp):
TATAAAATTACAATATTCATAAAAAATTACAATATTCA
Found at i:38498117 original size:20 final size:20
Alignment explanation
Indices: 38498092--38498137 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
38498082 GTTGTTGCTA
*
38498092 TGTTTTGCTATTGTTTCCAC
1 TGTTTTGCTACTGTTTCCAC
* *
38498112 TGTTTTGTTACTGTTTCTAC
1 TGTTTTGCTACTGTTTCCAC
38498132 TGTTTT
1 TGTTTT
38498138 ATTGTTATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.09, C:0.15, G:0.15, T:0.61
Consensus pattern (20 bp):
TGTTTTGCTACTGTTTCCAC
Found at i:38498395 original size:21 final size:21
Alignment explanation
Indices: 38498350--38498446 Score: 96
Period size: 19 Copynumber: 4.7 Consensus size: 21
38498340 ATATTCAAGG
38498350 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
*
38498369 ATATGCAACCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
38498390 ATATGCAATCTTGGATATG--
1 ATATGCAATCTTAGATATGAT
38498409 ATATGCAATCTTGGAAGATATGAT
1 ATATGCAATCTT---AGATATGAT
* *
38498433 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
38498447 GATTTAATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
19 30 0.46
20 3 0.05
21 17 0.26
22 6 0.09
23 9 0.14
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:38498423 original size:19 final size:19
Alignment explanation
Indices: 38498349--38498420 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
38498339 AATATTCAAG
38498349 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
38498368 GATATGCAACCTTAGATAT
1 GATATGCAATCTTAGATAT
*
38498387 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
38498408 GATATGCAATCTT
1 GATATGCAATCTT
38498421 GGAAGATATG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 31 0.65
21 17 0.35
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:38499895 original size:24 final size:24
Alignment explanation
Indices: 38499868--38499914 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
38499858 GACGCATTGG
* *
38499868 GTGTGTTATTTTTCTTTTTAAAAA
1 GTGTGATATGTTTCTTTTTAAAAA
38499892 GTGTGATATGTTTCTTTTTAAAA
1 GTGTGATATGTTTCTTTTTAAAA
38499915 TGAGAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.55
Consensus pattern (24 bp):
GTGTGATATGTTTCTTTTTAAAAA
Found at i:38503261 original size:43 final size:43
Alignment explanation
Indices: 38503200--38503400 Score: 289
Period size: 43 Copynumber: 4.7 Consensus size: 43
38503190 TTTCTGATAA
38503200 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT
1 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT
38503243 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT
1 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT
*
38503286 GTGTTTTCGTGTAAGACCACGTCTGAGACGTTGGCATCGACTT
1 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT
** * *
38503329 GTGTTTTCGTGTAAGACCTTGTCTAGGACAG-TGGCATTGA-TCT
1 GTGTTTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCGACT-T
* * * *
38503372 GTGATTACATGTAAGACCACGTCTAGGAC
1 GTGTTTTCGTGTAAGACCACGTCTGGGAC
38503401 ATTGATATTG
Statistics
Matches: 145, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
42 1 0.01
43 143 0.99
44 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.32
Consensus pattern (43 bp):
GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT
Found at i:38504485 original size:22 final size:24
Alignment explanation
Indices: 38504459--38504502 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
38504449 AAAAAATATT
38504459 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
38504481 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
38504503 AAGTTTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:38504613 original size:9 final size:9
Alignment explanation
Indices: 38504599--38504626 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
38504589 TTTTGTTACA
38504599 ACAATTAAT
1 ACAATTAAT
38504608 ACAATTAAT
1 ACAATTAAT
38504617 ACAATTAAT
1 ACAATTAAT
38504626 A
1 A
38504627 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:38504648 original size:68 final size:68
Alignment explanation
Indices: 38504569--38504769 Score: 298
Period size: 59 Copynumber: 3.1 Consensus size: 68
38504559 TCAAGTTTGT
*
38504569 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
38504634 AAA
66 AAA
38504637 TTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
38504693 AAA
66 AAA
*
38504696 TTTACTAATCAAATGTTAGATTGTATTACAACAATTAATACAATTAAT--AATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
38504759 AAT
66 AAA
38504762 TTTACTAA
1 TTTACTAA
38504770 CAATTAATTT
Statistics
Matches: 121, Mismatches: 3, Indels: 20
0.84 0.02 0.14
Matches are distributed among these distances:
59 55 0.45
60 1 0.01
62 2 0.02
65 2 0.02
66 25 0.21
67 1 0.01
68 35 0.29
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.41
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:38504779 original size:16 final size:16
Alignment explanation
Indices: 38504758--38504799 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
38504748 AATAATTTGA
*
38504758 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
38504774 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
38504790 TAGTTTTAAT
1 TAATTTTAAT
38504800 TTTATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:38504830 original size:22 final size:23
Alignment explanation
Indices: 38504773--38504830 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
38504763 TTACTAACAA
* *
38504773 TTAATTTTAA-TAACAATTAGTT
1 TTAATTTTAATTAACAAATAATT
*
38504795 TTAATTTTATTTAA-AAATAATT
1 TTAATTTTAATTAACAAATAATT
38504817 TTAATTTTAATTAA
1 TTAATTTTAATTAA
38504831 GAACGGGCCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 28 0.90
23 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TTAATTTTAATTAACAAATAATT
Found at i:38506416 original size:63 final size:63
Alignment explanation
Indices: 38506281--38506401 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
38506271 GAGGGAAGCA
* ** * **
38506281 TGCTTGAAAACGCATTTCAGAATATGCATTTTCATCGAATAACAATAATGAAAGCTTCAGAGG
1 TGCTTGAAAACGCATTTCAGAAGACACATTTTCATCAAATAACAATAATGAAAGAGTCAGAGG
* * *
38506344 TGCTTGAAAATGCATTTCAGCAGACACATTTTCATCAAATAATAATAATGAAAGAGTC
1 TGCTTGAAAACGCATTTCAGAAGACACATTTTCATCAAATAACAATAATGAAAGAGTC
38506402 TTTTGTGCTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 49 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (63 bp):
TGCTTGAAAACGCATTTCAGAAGACACATTTTCATCAAATAACAATAATGAAAGAGTCAGAGG
Found at i:38516728 original size:21 final size:20
Alignment explanation
Indices: 38516686--38516728 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
38516676 TGAAATCATT
*
38516686 AAAAACTTTGGTAAAGTGAC
1 AAAAACTTTGGTAAAGTAAC
*
38516706 AAAAATTTTGGTAAAGGTAAC
1 AAAAACTTTGGTAAA-GTAAC
38516727 AA
1 AA
38516729 TTTTAGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.26
Consensus pattern (20 bp):
AAAAACTTTGGTAAAGTAAC
Found at i:38516802 original size:20 final size:20
Alignment explanation
Indices: 38516749--38516806 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
38516739 TGTTAAGATA
** *
38516749 TGGTAAAGGGTTAGAAATTT
1 TGGTAAAGTCTTATAAATTT
38516769 TGGTAATA-TCTTATAAATTT
1 TGGTAA-AGTCTTATAAATTT
*
38516789 TGGTAAAGTTTTATAAAT
1 TGGTAAAGTCTTATAAAT
38516807 ATTGATAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (20 bp):
TGGTAAAGTCTTATAAATTT
Found at i:38516942 original size:40 final size:39
Alignment explanation
Indices: 38516759--38517414 Score: 207
Period size: 40 Copynumber: 16.3 Consensus size: 39
38516749 TGGTAAAGGG
* * * *
38516759 TTAGAAATTTTGGTAATATC-TTATAAATTTTGGTAAAGTT
1 TTAGAAATTTTGATAA-ATCGTTAGATATTTTGGTAAA-TC
* * ** *
38516799 TTATAAATATTGAT-AATCAATAGAAATTTTGGTAAATC
1 TTAGAAATTTTGATAAATCGTTAGATATTTTGGTAAATC
* ** **
38516837 TTTAAAAAAATTG-TAAAT-GTTAGATATAATGGTAAATC
1 -TTAGAAATTTTGATAAATCGTTAGATATTTTGGTAAATC
* * * *
38516875 TTTGGAAATATTGA-ATAACCGTAAGATATTTTGGTAAATTC
1 -TTAGAAATTTTGATA-AATCGTTAGATATTTTGGTAAA-TC
* * **
38516916 TTAAAAATTTTGATAAATCGTTAGATATATTAATAAATC
1 TTAGAAATTTTGATAAATCGTTAGATATTTTGGTAAATC
* * * *
38516955 GTTA-AATATATT-AGTAAGTCCTTAGATATTTTGGTAAAGTG
1 -TTAGAA-ATTTTGA-TAAATCGTTAGATATTTTGGTAAA-TC
* * ** * *
38516996 ATAGAAATTTTGGT-AATTTTTAAGACTTGGTATAAGGTTTAGAAAAT-
1 TTAGAAATTTTGATAAATCGTT-AGA-----TAT----TTTGGTAAATC
* * *
38517043 TTAGAAATATTTG-TAAAAAC-TTGGAAATTTTGGTAAAGTC
1 TTAGAAAT-TTTGAT-AAATCGTTAGATATTTTGGTAAA-TC
* * * * * * * * *
38517083 TCATAAATATTGGTAAATTGATAGAAATTTTAGTAAAAC
1 TTAGAAATTTTGATAAATCGTTAGATATTTTGGTAAATC
* * *
38517122 ATTAGAAATTTTGATAAATTGTTAGATATCTTGATAAATTC
1 -TTAGAAATTTTGATAAATCGTTAGATATTTTGGTAAA-TC
* * *
38517163 TTAGAAATTTTGATAAATTGTTAGATATATTGGTAAATTG
1 TTAGAAATTTTGATAAATCGTTAGATATTTTGGTAAA-TC
* * * ** *
38517203 TTAGATA-TTTGATAAATTCTTTA-AAATACTGGTAAACC
1 TTAGAAATTTTGATAAA-TCGTTAGATATTTTGGTAAATC
* * * *
38517241 ATTATATATATT-ATTAAATCGTTAGATATTTTGGTAAACC
1 -TTAGAAATTTTGA-TAAATCGTTAGATATTTTGGTAAATC
* * *
38517281 GATAG--ATTTCCTCGA-AAATCGATAGATATTTTTGATAAATCC
1 -TTAGAAATTT--T-GATAAATCGTTAGATA-TTTTGGTAAAT-C
* * * *
38517323 TTAGAAATATT-AGCAAGTCGTTAGATATATTGGTAAATCC
1 TTAGAAATTTTGA-TAAATCGTTAGATATTTTGGTAAAT-C
*
38517363 TTA-AATTTTTTGATAAATCGTTAGATATTTTGGTAAAGTC
1 TTAGAA-ATTTTGATAAATCGTTAGATATTTTGGTAAA-TC
*
38517403 ATAGAAATTTTG
1 TTAGAAATTTTG
38517415 GTAATTGTTA
Statistics
Matches: 459, Mismatches: 105, Indels: 104
0.69 0.16 0.16
Matches are distributed among these distances:
38 41 0.09
39 83 0.18
40 264 0.58
41 35 0.08
42 4 0.01
43 3 0.01
45 3 0.01
47 10 0.02
48 7 0.02
49 9 0.02
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (39 bp):
TTAGAAATTTTGATAAATCGTTAGATATTTTGGTAAATC
Found at i:38516951 original size:20 final size:20
Alignment explanation
Indices: 38516928--38516983 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
38516918 AAAAATTTTG
38516928 ATAAATCGTTAGATATATTA
1 ATAAATCGTTAGATATATTA
*
38516948 ATAAATCGTTAAATATATTA
1 ATAAATCGTTAGATATATTA
* * *
38516968 GTAAGTCCTTAGATAT
1 ATAAATCGTTAGATAT
38516984 TTTGGTAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (20 bp):
ATAAATCGTTAGATATATTA
Found at i:38516991 original size:20 final size:20
Alignment explanation
Indices: 38516898--38516992 Score: 73
Period size: 20 Copynumber: 4.8 Consensus size: 20
38516888 AATAACCGTA
*
38516898 AGATATTTTGGTAAATTCTT
1 AGATATTTTGGTAAATCCTT
* * * *
38516918 AAAAATTTTGATAAATCGTT
1 AGATATTTTGGTAAATCCTT
* ** *
38516938 AGATATATTAATAAATCGTT
1 AGATATTTTGGTAAATCCTT
* * * *
38516958 AAATATATTAGTAAGTCCTT
1 AGATATTTTGGTAAATCCTT
38516978 AGATATTTTGGTAAA
1 AGATATTTTGGTAAA
38516993 GTGATAGAAA
Statistics
Matches: 58, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.42
Consensus pattern (20 bp):
AGATATTTTGGTAAATCCTT
Found at i:38517250 original size:59 final size:59
Alignment explanation
Indices: 38517136--38517271 Score: 157
Period size: 59 Copynumber: 2.3 Consensus size: 59
38517126 GAAATTTTGA
** *** *
38517136 TAAATTGTTAGATATCTTGATAAATTCTTAGAAATTTTGATAAATTGTTAGATATATTGG
1 TAAATTGTTAGATAT-TTGATAAATTCTTAGAAATACTGATAAACCATTAGATATATTAG
* * *
38517196 TAAATTGTTAGATATTTGATAAATTCTTTA-AAATACTGGTAAACCATTATATATATTAT
1 TAAATTGTTAGATATTTGATAAATTC-TTAGAAATACTGATAAACCATTAGATATATTAG
*
38517255 TAAATCGTTAGATATTT
1 TAAATTGTTAGATATTT
38517272 TGGTAAACCG
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
59 47 0.72
60 18 0.28
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (59 bp):
TAAATTGTTAGATATTTGATAAATTCTTAGAAATACTGATAAACCATTAGATATATTAG
Found at i:38517278 original size:20 final size:20
Alignment explanation
Indices: 38517092--38517418 Score: 151
Period size: 20 Copynumber: 16.4 Consensus size: 20
38517082 CTCATAAATA
* * *
38517092 TTGGTAAATTGATAGAAATT
1 TTGGTAAATCGTTAGATATT
* * * *
38517112 TTAGTAAAACATTAGAAATT
1 TTGGTAAATCGTTAGATATT
* * *
38517132 TTGATAAATTGTTAGATATC
1 TTGGTAAATCGTTAGATATT
* *
38517152 TTGATAAATTC-TTAGAAATT
1 TTGGTAAA-TCGTTAGATATT
* * *
38517172 TTGATAAATTGTTAGATATA
1 TTGGTAAATCGTTAGATATT
*
38517192 TTGGTAAATTGTTAGATA-T
1 TTGGTAAATCGTTAGATATT
* * * *
38517211 TTGATAAATTCTTTA-AAATA
1 TTGGTAAA-TCGTTAGATATT
* * * * *
38517231 CTGGTAAACCATTATATATA
1 TTGGTAAATCGTTAGATATT
**
38517251 TTATTAAATCGTTAGATATT
1 TTGGTAAATCGTTAGATATT
* *
38517271 TTGGTAAACCGATAGAT-TT
1 TTGGTAAATCGTTAGATATT
* * * *
38517290 CCTCGAAAATCGATAGATATTT
1 -TTGGTAAATCGTTAGATA-TT
* * * *
38517312 TTGATAAATCCTTAGAAATA
1 TTGGTAAATCGTTAGATATT
* * * *
38517332 TTAGCAAGTCGTTAGATATA
1 TTGGTAAATCGTTAGATATT
* * *
38517352 TTGGTAAATCCTTAAATTTT
1 TTGGTAAATCGTTAGATATT
*
38517372 TTGATAAATCGTTAGATATT
1 TTGGTAAATCGTTAGATATT
* *
38517392 TTGGTAAAGTC-ATAGAAATT
1 TTGGTAAA-TCGTTAGATATT
38517412 TTGGTAA
1 TTGGTAA
38517419 TTGTTAAAAC
Statistics
Matches: 225, Mismatches: 73, Indels: 18
0.71 0.23 0.06
Matches are distributed among these distances:
19 16 0.07
20 193 0.86
21 14 0.06
22 2 0.01
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (20 bp):
TTGGTAAATCGTTAGATATT
Found at i:38517416 original size:60 final size:61
Alignment explanation
Indices: 38517092--38517418 Score: 174
Period size: 60 Copynumber: 5.5 Consensus size: 61
38517082 CTCATAAATA
* * * * *
38517092 TTGGTAAATT-GATAGAAATTTTAGTAAAACATTAGAA-ATTTTGATAAATTGTTAGATATC
1 TTGGTAAATTCGATAGAAATTTTGGTAAATCCTTA-AATATTTTGATAAATCGTTAGATATT
* * * ** * * * *
38517152 TTGATAAATTC-TTAGAAATTTTGATAAATTGTTAGATATATTGGTAAATTGTTAGATA-T
1 TTGGTAAATTCGATAGAAATTTTGGTAAATCCTTAAATATTTTGATAAATCGTTAGATATT
* ** ** * *
38517211 TTGATAAATTCTTTA-AAATACTGGTAAA-CCATTATATATATT-ATTAAATCGTTAGATATT
1 TTGGTAAATTCGATAGAAATTTTGGTAAATCC-TTAAATATTTTGA-TAAATCGTTAGATATT
* * * ** * * * *
38517271 TTGGTAAA-CCGATAG--ATTTCCTCGAAAATCGATAGATATTTTTGATAAATCCTTAGAAATA
1 TTGGTAAATTCGATAGAAATTT--TGGTAAATCCTTAAATA-TTTTGATAAATCGTTAGATATT
* * * * * * *
38517332 TTAG-CAAGTCGTTAGATATATTGGTAAATCCTTAAATTTTTTGATAAATCGTTAGATATT
1 TTGGTAAATTCGATAGAAATTTTGGTAAATCCTTAAATATTTTGATAAATCGTTAGATATT
*
38517392 TTGGTAAAGTC-ATAGAAATTTTGGTAA
1 TTGGTAAATTCGATAGAAATTTTGGTAA
38517419 TTGTTAAAAC
Statistics
Matches: 198, Mismatches: 53, Indels: 32
0.70 0.19 0.11
Matches are distributed among these distances:
58 2 0.01
59 48 0.24
60 103 0.52
61 41 0.21
62 1 0.01
63 3 0.02
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (61 bp):
TTGGTAAATTCGATAGAAATTTTGGTAAATCCTTAAATATTTTGATAAATCGTTAGATATT
Found at i:38517505 original size:20 final size:20
Alignment explanation
Indices: 38517482--38517583 Score: 82
Period size: 20 Copynumber: 5.1 Consensus size: 20
38517472 CTAAATATTA
*
38517482 GTAAAACGATAGAAATTTTG
1 GTAAATCGATAGAAATTTTG
* *
38517502 GTAACTC-ATTAGACATTTTG
1 GTAAATCGA-TAGAAATTTTG
**
38517522 GTAAATCTTTAGAAATTTTG
1 GTAAATCGATAGAAATTTTG
* * * *
38517542 GTAAATTGTTAGATATATTG
1 GTAAATCGATAGAAATTTTG
*
38517562 GTAAGAT-GATAAAAATTTTG
1 GTAA-ATCGATAGAAATTTTG
38517582 GT
1 GT
38517584 GTTTGTCAAG
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 62 0.95
21 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (20 bp):
GTAAATCGATAGAAATTTTG
Found at i:38517526 original size:40 final size:40
Alignment explanation
Indices: 38517476--38517583 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 40
38517466 AATCTCCTAA
* *
38517476 ATATTAGTAAAACGATAGAAATTTTGGTAACTCATTAGAC
1 ATATTGGTAAAACGATAGAAATTTTGGTAAATCATTAGAC
* * ** ** *
38517516 ATTTTGGTAAATCTTTAGAAATTTTGGTAAATTGTTAGAT
1 ATATTGGTAAAACGATAGAAATTTTGGTAAATCATTAGAC
* * *
38517556 ATATTGGTAAGATGATAAAAATTTTGGT
1 ATATTGGTAAAACGATAGAAATTTTGGT
38517584 GTTTGTCAAG
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.40
Consensus pattern (40 bp):
ATATTGGTAAAACGATAGAAATTTTGGTAAATCATTAGAC
Found at i:38517650 original size:20 final size:19
Alignment explanation
Indices: 38517617--38517793 Score: 97
Period size: 20 Copynumber: 8.9 Consensus size: 19
38517607 TTTAGAAAAT
*
38517617 TAGAAATATCGGTAAAATCA
1 TAGAAATATTGGT-AAATCA
*
38517637 TAGAAATTTTGGTAAAGTTTCA
1 TAGAAATATTGGTAAA---TCA
*
38517659 T--AAATATTGGTAAATAGA
1 TAGAAATATTGGTAAAT-CA
* * *
38517677 TAGAAATTTTGGTAACTTA
1 TAGAAATATTGGTAAATCA
* * *
38517696 TTAGATATTTTGGTAAATCGT
1 -TAGAAATATTGGTAAATC-A
*
38517717 TAGAAATATTGGTAAATCGT
1 TAGAAATATTGGTAAATC-A
* *
38517737 TAGATATATTGGTAAATGCT
1 TAGAAATATTGGTAAAT-CA
* * * *
38517757 TATAAATTTTGATAAAGTCT
1 TAGAAATATTGGTAAA-TCA
*
38517777 TATAAATATTGGTAAAT
1 TAGAAATATTGGTAAAT
38517794 TGATATATTT
Statistics
Matches: 127, Mismatches: 20, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.01
18 2 0.02
19 5 0.04
20 113 0.89
21 2 0.02
22 4 0.03
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.39
Consensus pattern (19 bp):
TAGAAATATTGGTAAATCA
Found at i:38517680 original size:40 final size:39
Alignment explanation
Indices: 38517616--38517798 Score: 154
Period size: 40 Copynumber: 4.6 Consensus size: 39
38517606 GTTTAGAAAA
* *
38517616 TTAGAAATATCGGTAAAATCATAGAAATTTTGGTAAAGT-
1 TTAGAAATATTGGT-AAATGATAGAAATTTTGGTAAAGTC
* ** *
38517655 TTCATAAATATTGGTAAATAGATAGAAATTTTGGTAACTTA
1 TT-AGAAATATTGGTAAAT-GATAGAAATTTTGGTAAAGTC
* * * *
38517696 TTAGATATTTTGGTAAATCGTTAGAAATATTGGTAAA-TC
1 TTAGAAATATTGGTAAAT-GATAGAAATTTTGGTAAAGTC
* * * *
38517735 GTTAGATATATTGGTAAATGCTTATAAATTTTGATAAAGTC
1 -TTAGAAATATTGGTAAATG-ATAGAAATTTTGGTAAAGTC
*
38517776 TTATAAATATTGGTAAATTGATA
1 TTAGAAATATTGGTAAA-TGATA
38517799 TATTTGTTAA
Statistics
Matches: 117, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
39 8 0.07
40 103 0.88
41 6 0.05
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.39
Consensus pattern (39 bp):
TTAGAAATATTGGTAAATGATAGAAATTTTGGTAAAGTC
Found at i:38517710 original size:60 final size:60
Alignment explanation
Indices: 38517617--38517798 Score: 190
Period size: 60 Copynumber: 3.0 Consensus size: 60
38517607 TTTAGAAAAT
* *
38517617 TAGAAATATCGGTAAAATCA-TAGAAATTTTGGTAAAGT-TTCATAAATATTGGTAAATAGA
1 TAGAAATATTGGT-AAATGATTAGAAATTTTGGTAAAGTCTT-ATAAATATTGGTAAATAGA
* * * * * * *
38517677 TAGAAATTTTGGTAACTTATTAGATATTTTGGTAAA-TCGTTAGAAATATTGGTAAATCGT
1 TAGAAATATTGGTAAATGATTAGAAATTTTGGTAAAGTC-TTATAAATATTGGTAAATAGA
* * * * *
38517737 TAGATATATTGGTAAATGCTTATAAATTTTGATAAAGTCTTATAAATATTGGTAAATTGA
1 TAGAAATATTGGTAAATGATTAGAAATTTTGGTAAAGTCTTATAAATATTGGTAAATAGA
38517797 TA
1 TA
38517799 TATTTGTTAA
Statistics
Matches: 99, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
59 5 0.05
60 90 0.91
61 4 0.04
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.39
Consensus pattern (60 bp):
TAGAAATATTGGTAAATGATTAGAAATTTTGGTAAAGTCTTATAAATATTGGTAAATAGA
Found at i:38517800 original size:20 final size:20
Alignment explanation
Indices: 38517640--38517800 Score: 101
Period size: 20 Copynumber: 8.1 Consensus size: 20
38517630 AAAATCATAG
* *
38517640 AAATTTTGGTAAAGTT-TCAT
1 AAATATTGGTAAA-TTGTTAT
* * *
38517660 AAATATTGGTAAATAGATAG
1 AAATATTGGTAAATTGTTAT
* * * *
38517680 AAATTTTGGTAACTTATTAG
1 AAATATTGGTAAATTGTTAT
* * * *
38517700 ATATTTTGGTAAATCGTTAG
1 AAATATTGGTAAATTGTTAT
* *
38517720 AAATATTGGTAAATCGTTAG
1 AAATATTGGTAAATTGTTAT
*
38517740 ATATATTGGTAAA-TGCTTAT
1 AAATATTGGTAAATTG-TTAT
* * * *
38517760 AAATTTTGATAAAGTCTTAT
1 AAATATTGGTAAATTGTTAT
*
38517780 AAATATTGGTAAATTGATAT
1 AAATATTGGTAAATTGTTAT
38517800 A
1 A
38517801 TTTGTTAAAT
Statistics
Matches: 110, Mismatches: 28, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
19 2 0.02
20 107 0.97
21 1 0.01
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (20 bp):
AAATATTGGTAAATTGTTAT
Found at i:38524131 original size:19 final size:19
Alignment explanation
Indices: 38524107--38524145 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
38524097 TTTCGTAAAT
38524107 TATATAATGTA-TGATGAAA
1 TATAT-ATGTATTGATGAAA
*
38524126 TATATATTTATTGATGAAA
1 TATATATGTATTGATGAAA
38524145 T
1 T
38524146 GAGAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (19 bp):
TATATATGTATTGATGAAA
Found at i:38524342 original size:45 final size:45
Alignment explanation
Indices: 38524226--38524516 Score: 471
Period size: 45 Copynumber: 6.5 Consensus size: 45
38524216 TGATCAGTGA
* *
38524226 CAAGTGACAAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGAT
* *
38524272 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAAT
1 CAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGAT
38524318 CAAGT-ACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAT
* *
38524362 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACTCTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGAT
38524408 CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAT
38524453 CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAT
*
38524498 C-AGGGAC-AAGTGATAAGTG
1 CAAGTGACAAAGTGATAAGTG
38524517 ATCATACGTA
Statistics
Matches: 234, Mismatches: 9, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
43 12 0.05
44 27 0.12
45 103 0.44
46 92 0.39
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (45 bp):
CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAT
Found at i:38524470 original size:136 final size:136
Alignment explanation
Indices: 38524226--38524516 Score: 507
Period size: 136 Copynumber: 2.2 Consensus size: 136
38524216 TGATCAGTGA
*
38524226 CAAGTGACAAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
*
38524291 TGGTAGCTTTAGCTACACTTATCTAATCAAGTACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
66 TGGTAGCTCTAGCTACACTTATCTAATCAAGTACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
38524356 TCTGAT
131 TCTGAT
*
38524362 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAG
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
*
38524427 TGGTAGC-CTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTT
66 TGGTAGCTCTAGCTACACTTATCTAATCAAGT-ACAAAGTGATAAGTGGTAGCCTAGCTACACTT
38524491 ATCTGAT
130 ATCTGAT
*
38524498 C-AGGGAC-AAGTGATAAGTG
1 CAAGTGACAAAGTGATAAGTG
38524517 ATCATACGTA
Statistics
Matches: 149, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
134 12 0.08
135 27 0.18
136 110 0.74
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (136 bp):
CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
TGGTAGCTCTAGCTACACTTATCTAATCAAGTACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
TCTGAT
Found at i:38527252 original size:91 final size:92
Alignment explanation
Indices: 38527097--38527311 Score: 252
Period size: 91 Copynumber: 2.3 Consensus size: 92
38527087 TGAACACTTC
* *** *
38527097 AGTTTATGGATGAACCACCAGTGTTTGTTGGTTAATACGCTGCTAGTAGGTTATGAATGCACAAC
1 AGTTTGTGGATGAACCACCAGTGTTTGCAAGTTAATACGCTGCCAGTAGGTTATGAATGCACAAC
* *
38527162 -CTCTTTGCACATAAAAGTTGTCAGTA
66 ACTATTTGCACATAAAAGCTGTCAGTA
* * * * *
38527188 AGTTTGTGGATGAACCACTAGCGTTTGCAAGTTAATATGTTGCCAGTAGGTTGTGAATGCACAAC
1 AGTTTGTGGATGAACCACCAGTGTTTGCAAGTTAATACGCTGCCAGTAGGTTATGAATGCACAAC
* * *
38527253 ATATGTATTTGCAGATAAAAGCTGTGAGTA
66 --A-CTATTTGCACATAAAAGCTGTCAGTA
*
38527283 AGTTTGTGGATAAACCACCAGTGTTTGCA
1 AGTTTGTGGATGAACCACCAGTGTTTGCA
38527312 GATTGTTAAA
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
91 55 0.54
95 47 0.46
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (92 bp):
AGTTTGTGGATGAACCACCAGTGTTTGCAAGTTAATACGCTGCCAGTAGGTTATGAATGCACAAC
ACTATTTGCACATAAAAGCTGTCAGTA
Found at i:38527481 original size:38 final size:39
Alignment explanation
Indices: 38527401--38527488 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 39
38527391 TACATAAAAC
* * *
38527401 AGTAGACATGCTTTAATATGTATTATGTTCAACAATAGT
1 AGTAGACATGCTTTAACATGTATTAGGTTCAACAATAAT
* * **
38527440 AGTAGACATGC-TTAACATGTATTCGGTTCTACGGTAAT
1 AGTAGACATGCTTTAACATGTATTAGGTTCAACAATAAT
*
38527478 AGTAGGCATGC
1 AGTAGACATGC
38527489 AATCGATAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
38 30 0.73
39 11 0.27
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (39 bp):
AGTAGACATGCTTTAACATGTATTAGGTTCAACAATAAT
Found at i:38535695 original size:31 final size:30
Alignment explanation
Indices: 38535656--38535719 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
38535646 TTTTCATAAA
*
38535656 TTTAGAATTTAGT-CTTTGTACTTTTTTATT
1 TTTAGAATTTAGTCCTTT-TACTTTTTTAGT
*
38535686 TTTAGGAATTTTGTCCTTTTACTTTTTTAGT
1 TTTA-GAATTTAGTCCTTTTACTTTTTTAGT
38535717 TTT
1 TTT
38535720 CAAAATTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 4 0.13
31 22 0.73
32 4 0.13
ACGTcount: A:0.17, C:0.08, G:0.11, T:0.64
Consensus pattern (30 bp):
TTTAGAATTTAGTCCTTTTACTTTTTTAGT
Found at i:38543930 original size:17 final size:18
Alignment explanation
Indices: 38543908--38543945 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
38543898 TTTTTGAATA
38543908 TTTGTA-TTTTGGAAC-TT
1 TTTGTACTTTT-GAACATT
38543925 TTTGTACTTTTGAACATT
1 TTTGTACTTTTGAACATT
38543943 TTT
1 TTT
38543946 CTGAATAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.18, C:0.08, G:0.13, T:0.61
Consensus pattern (18 bp):
TTTGTACTTTTGAACATT
Found at i:38547483 original size:29 final size:30
Alignment explanation
Indices: 38547427--38547485 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
38547417 CAAGAATTTG
*
38547427 ATAAAATAAAAATTTTATATATAAAATTAC
1 ATAAAATAAAAATTTTATATACAAAATTAC
*
38547457 ATAAAATAAAAA-TTTATATACACAATTAC
1 ATAAAATAAAAATTTTATATACAAAATTAC
38547486 GCGTTAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (30 bp):
ATAAAATAAAAATTTTATATACAAAATTAC
Found at i:38550221 original size:24 final size:24
Alignment explanation
Indices: 38550174--38550222 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
38550164 GATCTTGAAA
* *
38550174 ACTTAGGTTTAAGGGTAAGTTTGG
1 ACTTAGGTTTAAGAGTAAGCTTGG
*
38550198 ACTTAGGTTTAAGAGTAGGCTTGG
1 ACTTAGGTTTAAGAGTAAGCTTGG
38550222 A
1 A
38550223 TGGATGACGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.06, G:0.33, T:0.35
Consensus pattern (24 bp):
ACTTAGGTTTAAGAGTAAGCTTGG
Found at i:38552614 original size:25 final size:26
Alignment explanation
Indices: 38552561--38552614 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
38552551 CTTAATACTT
*
38552561 TTTTTAATTTTTATATATTATTTACA
1 TTTTTAATTTTTATATATTATTTAAA
*
38552587 TTTTT-ATTTTTA-ATATTTTTATAAA
1 TTTTTAATTTTTATATATTATT-TAAA
38552612 TTT
1 TTT
38552615 AAATTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.28
25 13 0.52
26 5 0.20
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTTTAATTTTTATATATTATTTAAA
Found at i:38555327 original size:124 final size:125
Alignment explanation
Indices: 38555184--38555464 Score: 363
Period size: 124 Copynumber: 2.3 Consensus size: 125
38555174 TTTTTTTGAG
* ** ** * *
38555184 TTGACGTTTCTG-GTTAAATAGTGGGAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGT
* * *
38555248 GAAATAGTGGCCTCGTGGACGCGATTTCGCTACAGT-GGTCATGT-GAGAAATAA-TTTTTT
65 GAAATAGCGCCCTCGTGGACGCAATTTCGCTACAGTCGGTCATGTAG-GAAATAATTTTTTT
* * *
38555307 TTGACGTTTTCTGAGGAAATAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGT
1 TTGACG-TTTCTGAGCAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGT
*
38555372 GAAATCGCGCCCTCGTGGACGCAATTTCGCTACAGTCGGTCATGTAGGAAATAATTTTTTT
65 GAAATAGCGCCCTCGTGGACGCAATTTCGCTACAGTCGGTCATGTAGGAAATAATTTTTTT
* *
38555433 TTGACGTTTCTGAGCAAACAGTGTTAAATCGC
1 TTGACGTTTCTGAGCAAATAGTGTAAAATCGC
38555465 GCCCTCGTGG
Statistics
Matches: 136, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
123 6 0.04
124 79 0.58
125 38 0.28
126 13 0.10
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTG
AAATAGCGCCCTCGTGGACGCAATTTCGCTACAGTCGGTCATGTAGGAAATAATTTTTTT
Found at i:38556271 original size:17 final size:17
Alignment explanation
Indices: 38556249--38556288 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
38556239 TTGGTGAACT
*
38556249 TGATGTACACGGCTCCG
1 TGATGTACACGGCCCCG
38556266 TGATGTACACGGCCCCG
1 TGATGTACACGGCCCCG
38556283 TGATGT
1 TGATGT
38556289 GTCGGCCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.28, G:0.30, T:0.25
Consensus pattern (17 bp):
TGATGTACACGGCCCCG
Found at i:38562340 original size:13 final size:13
Alignment explanation
Indices: 38562304--38562340 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
38562294 CTCTTTCTAT
38562304 TTTTTATTTTTTA
1 TTTTTATTTTTTA
* *
38562317 TTTATAATTTTTA
1 TTTTTATTTTTTA
38562330 TTTTTATTTTT
1 TTTTTATTTTT
38562341 GGAAAGTTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:38571213 original size:26 final size:26
Alignment explanation
Indices: 38571166--38571215 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
38571156 AGGGGGAGCC
* *
38571166 TCGCGCCGCAACCAGGATCTTCACGT
1 TCGCGCCGCAACCACGACCTTCACGT
* *
38571192 TCGCGCCGCAGCCCCGACCTTCAC
1 TCGCGCCGCAACCACGACCTTCAC
38571216 CTGCAGCAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.16, C:0.46, G:0.22, T:0.16
Consensus pattern (26 bp):
TCGCGCCGCAACCACGACCTTCACGT
Found at i:38571969 original size:14 final size:15
Alignment explanation
Indices: 38571952--38571984 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
38571942 GTTTATTGAC
*
38571952 TTATGTTTT-TTCAT
1 TTATATTTTGTTCAT
38571966 TTATATTTTGTTCAT
1 TTATATTTTGTTCAT
38571981 TTAT
1 TTAT
38571985 TTGATATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (15 bp):
TTATATTTTGTTCAT
Found at i:38572106 original size:19 final size:20
Alignment explanation
Indices: 38572065--38572106 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
38572055 ATTTCTATGC
* *
38572065 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
38572085 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
38572104 CAT
1 CAT
38572107 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:38572686 original size:14 final size:13
Alignment explanation
Indices: 38572669--38572741 Score: 51
Period size: 14 Copynumber: 5.5 Consensus size: 13
38572659 ATTTTAAAAA
38572669 TTAAAACAAAAATT
1 TTAAAA-AAAAATT
**
38572683 TTAAAAAAGTATT
1 TTAAAAAAAAATT
*
38572696 TT--AAAAATATT
1 TTAAAAAAAAATT
*
38572707 TTAAAATTAAAAAAT
1 TTAAAA--AAAAATT
*
38572722 TTAAAAAAAGTATT
1 TTAAAAAAA-AATT
38572736 TTAAAA
1 TTAAAA
38572742 GTATTTTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
11 10 0.21
13 12 0.26
14 14 0.30
15 11 0.23
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (13 bp):
TTAAAAAAAAATT
Found at i:38572730 original size:40 final size:40
Alignment explanation
Indices: 38572676--38572770 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
38572666 AAATTAAAAC
38572676 AAAAATTTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
* *
38572716 AAAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAATTA
1 AAAAATTTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
38572756 AACAAATTTTAAAAA
1 AA-AAATTTTAAAAA
38572771 TAAAAATATT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 40 0.78
41 11 0.22
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (40 bp):
AAAAATTTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:38572741 original size:11 final size:11
Alignment explanation
Indices: 38572727--38572752 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
38572717 AAAATTTAAA
38572727 AAAAGTATTTT
1 AAAAGTATTTT
38572738 AAAAGTATTTT
1 AAAAGTATTTT
38572749 AAAA
1 AAAA
38572753 TTAAACAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:38580397 original size:41 final size:41
Alignment explanation
Indices: 38580340--38580448 Score: 175
Period size: 41 Copynumber: 2.7 Consensus size: 41
38580330 TTTAACATAT
*
38580340 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCA-A
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT-CAGA
*
38580381 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
38580422 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
38580449 AAGTCCGAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 2 0.03
41 61 0.97
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:38580467 original size:41 final size:40
Alignment explanation
Indices: 38580340--38580485 Score: 165
Period size: 41 Copynumber: 3.6 Consensus size: 40
38580330 TTTAACATAT
*
38580340 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCAA
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT-CAA
*
38580381 TCACCGGCACTTAGCCTGCTAGGTTTATAA-CCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGATTCA-A
* *
38580422 TCACCGGCACTTAGCCTGCTAGACTTAAAGTCC-GAATT-ATT
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAG-CCTG-ATTCA-A
38580463 TCACCGGC-CTTAAGCCTGCTAGG
1 TCACCGGCACTT-AGCCTGCTAGG
38580486 TTTTAAACCT
Statistics
Matches: 92, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
40 7 0.08
41 79 0.86
42 6 0.07
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (40 bp):
TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAA
Found at i:38580479 original size:82 final size:81
Alignment explanation
Indices: 38580340--38580497 Score: 207
Period size: 82 Copynumber: 1.9 Consensus size: 81
38580330 TTTAACATAT
* *
38580340 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCAATCACCGGCACTTAGCCTGCTAGG-
1 TCACCGGCACTTAGCCTGCTAGACTTAAAGCCTGATT-CAATCACCGGCACTTAGCCTGCTAGGT
38580404 TTTATAACCTGATTCAGA
65 TTTA-AACCTGATTCAGA
*
38580422 TCACCGGCACTTAGCCTGCTAGACTTAAAGTCC-GAATT-ATTTCACCGGC-CTTAAGCCTGCTA
1 TCACCGGCACTTAGCCTGCTAGACTTAAAG-CCTG-ATTCA-ATCACCGGCACTT-AGCCTGCTA
38580484 GGTTTTAAACCTGA
62 GGTTTTAAACCTGA
38580498 AAATTTCAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
81 4 0.06
82 55 0.81
83 9 0.13
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (81 bp):
TCACCGGCACTTAGCCTGCTAGACTTAAAGCCTGATTCAATCACCGGCACTTAGCCTGCTAGGTT
TTAAACCTGATTCAGA
Found at i:38580748 original size:34 final size:34
Alignment explanation
Indices: 38580692--38580770 Score: 81
Period size: 34 Copynumber: 2.3 Consensus size: 34
38580682 ACAAGAATTT
*
38580692 TACATATATATATTCACCTATTCGAA-ACTAACTA
1 TACATATATATATTCACCTATTC-AATACTAACCA
* * *
38580726 TACATATATAT-TTGTACGTATTCAATACTACCCA
1 TACATATATATATT-CACCTATTCAATACTAACCA
*
38580760 TATATATATAT
1 TACATATATAT
38580771 GTAAACTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
33 4 0.11
34 34 0.89
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (34 bp):
TACATATATATATTCACCTATTCAATACTAACCA
Found at i:38585120 original size:31 final size:31
Alignment explanation
Indices: 38585085--38585177 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 31
38585075 TTTTAGAGTT
*
38585085 AGGACTAAATTGATAGATTTTGTAAATATTG
1 AGGACTAAATTGATAAATTTTGTAAATATTG
* * * * *
38585116 AGGACCAAATTTATTACATTTTTTAGA-ATT-
1 AGGACTAAATTGA-TAAATTTTGTAAATATTG
* * *
38585146 AGAACTAAAATGACAAATTTTGTAAATATTG
1 AGGACTAAATTGATAAATTTTGTAAATATTG
38585177 A
1 A
38585178 AGGCTAATTT
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 9 0.20
30 12 0.26
31 15 0.33
32 10 0.22
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (31 bp):
AGGACTAAATTGATAAATTTTGTAAATATTG
Found at i:38585190 original size:61 final size:61
Alignment explanation
Indices: 38585074--38585201 Score: 161
Period size: 61 Copynumber: 2.1 Consensus size: 61
38585064 TATTTTTTAA
* * * * *
38585074 TTTTTAGAGTTAGGACTAAATTGATAGATTTTGTAAATATTGAGGACCAAATTTATT-ACAT
1 TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAATATTGAGGACCAAATTTATTGA-AT
* *
38585135 TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAATATTGAAGG-CTAATTTTATTGAAT
1 TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAATATTG-AGGACCAAATTTATTGAAT
38585196 TTTTTA
1 TTTTTA
38585202 TATTTTATGA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 54 0.93
62 4 0.07
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (61 bp):
TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAATATTGAGGACCAAATTTATTGAAT
Found at i:38587262 original size:16 final size:17
Alignment explanation
Indices: 38587235--38587267 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
38587225 GGTTATCTTC
38587235 TTCTTCTTTTCTTTTTT
1 TTCTTCTTTTCTTTTTT
38587252 TTCTT-TTTTCTTTTTT
1 TTCTTCTTTTCTTTTTT
38587268 ATGATGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTCTTCTTTTCTTTTTT
Found at i:38593107 original size:32 final size:32
Alignment explanation
Indices: 38593066--38593129 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
38593056 TCAATACTAG
*
38593066 TCAGAACGATAAAGTGAAGTTGATAGATGCTA
1 TCAGAACGATAAAGTGAAGTTGACAGATGCTA
*
38593098 TCAGAACGATAAAGTGAAGTTGGCAGATGCTA
1 TCAGAACGATAAAGTGAAGTTGACAGATGCTA
38593130 ACTCTGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.11, G:0.27, T:0.23
Consensus pattern (32 bp):
TCAGAACGATAAAGTGAAGTTGACAGATGCTA
Found at i:38596589 original size:29 final size:29
Alignment explanation
Indices: 38596549--38596606 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
38596539 TTATAATATC
38596549 ATCTTTGTCAAAGCTCATCACGGGCCTAT
1 ATCTTTGTCAAAGCTCATCACGGGCCTAT
38596578 ATCTTTGTCAAAGCTCATCACGGGCCTAT
1 ATCTTTGTCAAAGCTCATCACGGGCCTAT
38596607 CTTGAACTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (29 bp):
ATCTTTGTCAAAGCTCATCACGGGCCTAT
Found at i:38599527 original size:6 final size:7
Alignment explanation
Indices: 38599510--38599537 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
38599500 TAAGTATGTC
38599510 TTTTTAA
1 TTTTTAA
38599517 TTTTTAA
1 TTTTTAA
38599524 TTTTTAA
1 TTTTTAA
38599531 TTTTTAA
1 TTTTTAA
38599538 AATTCATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:38608586 original size:9 final size:9
Alignment explanation
Indices: 38608568--38608663 Score: 106
Period size: 9 Copynumber: 10.4 Consensus size: 9
38608558 TTTGGTTAAA
38608568 AATTACCCG
1 AATTACCCG
*
38608577 AATTATCCG
1 AATTACCCG
38608586 AATTACCC-
1 AATTACCCG
38608594 AACTTACCCG
1 AA-TTACCCG
*
38608604 AATTACTC-
1 AATTACCCG
38608612 AACTTACCCG
1 AA-TTACCCG
*
38608622 ACTTACCCG
1 AATTACCCG
*
38608631 AATTAACCG
1 AATTACCCG
38608640 AAAATTACCCG
1 --AATTACCCG
38608651 AATTACCCG
1 AATTACCCG
38608660 AATT
1 AATT
38608664 GACACTTTGA
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
8 4 0.05
9 58 0.79
10 3 0.04
11 8 0.11
ACGTcount: A:0.35, C:0.31, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:38608649 original size:20 final size:20
Alignment explanation
Indices: 38608624--38608661 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
38608614 CTTACCCGAC
38608624 TTACCCGAATTAACCGAAAA
1 TTACCCGAATTAACCGAAAA
*
38608644 TTACCCGAATTACCCGAA
1 TTACCCGAATTAACCGAA
38608662 TTGACACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (20 bp):
TTACCCGAATTAACCGAAAA
Found at i:38609444 original size:16 final size:16
Alignment explanation
Indices: 38609423--38609462 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
38609413 GCCTAAGAGA
38609423 AAATTGGGCTGGATTT
1 AAATTGGGCTGGATTT
*
38609439 AAATTGGGCTGGGTTT
1 AAATTGGGCTGGATTT
38609455 AAATTGGG
1 AAATTGGG
38609463 AGGGAGTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.25, C:0.05, G:0.35, T:0.35
Consensus pattern (16 bp):
AAATTGGGCTGGATTT
Found at i:38617065 original size:20 final size:20
Alignment explanation
Indices: 38617027--38617065 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38617017 TTGTTTGTAA
* * *
38617027 CTTTTATGTTTTATTTTTTT
1 CTTTTATATTATATATTTTT
38617047 CTTTTATATTATATATTTT
1 CTTTTATATTATATATTTT
38617066 GTAAATGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
CTTTTATATTATATATTTTT
Found at i:38619352 original size:31 final size:29
Alignment explanation
Indices: 38619292--38619359 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
38619282 GTGATAGTTT
*
38619292 AAGTACCACATTAGACATTTTCAAAGTAC
1 AAGTACCACATTAGACATTATCAAAGTAC
*
38619321 AAGTACCACATTAGACATGTAATGAAAGTAC
1 AAGTACCACATTAGACAT-T-ATCAAAGTAC
*
38619352 AGGTACCA
1 AAGTACCA
38619360 AATAATACAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 18 0.53
30 1 0.03
31 15 0.44
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (29 bp):
AAGTACCACATTAGACATTATCAAAGTAC
Found at i:38619447 original size:91 final size:91
Alignment explanation
Indices: 38619192--38619453 Score: 260
Period size: 91 Copynumber: 2.9 Consensus size: 91
38619182 ATATCCAGAT
* * * * ** * * * *
38619192 TGATAGTTCAAGTACCACATTAAATATTTTCAAAGTATAAGTATCATGTTGGGCATTTCATGAAA
1 TGATAGTTCAAGTACCACATTAGACATTTTCAAAGTACAAGTACCACATTAGACATGTAATGAAA
* *
38619257 GTTCA--AACCTTAAATAATACACAAAG
66 GTACAGGTACC--AAATAATACACAAAG
*
38619283 TGATAGTTTAAGTACCACATTAGACATTTTCAAAGTACAAGTACCACATTAGACATGTAATGAAA
1 TGATAGTTCAAGTACCACATTAGACATTTTCAAAGTACAAGTACCACATTAGACATGTAATGAAA
*
38619348 GTACAGGTACCAAATAATACACAAAT
66 GTACAGGTACCAAATAATACACAAAG
* ** * * * * * *
38619374 TGATGGTTCAAGTACGGCATTAGACATTTTTAAGGTACATA-TACCACATTGGATATTTTATGAA
1 TGATAGTTCAAGTACCACATTAGACATTTTCAAAGTACA-AGTACCACATTAGACATGTAATGAA
*
38619438 AGTATAGGTACCAAAT
65 AGTACAGGTACCAAAT
38619454 GTGACATTAT
Statistics
Matches: 143, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
91 139 0.97
92 1 0.01
93 3 0.02
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (91 bp):
TGATAGTTCAAGTACCACATTAGACATTTTCAAAGTACAAGTACCACATTAGACATGTAATGAAA
GTACAGGTACCAAATAATACACAAAG
Found at i:38623742 original size:171 final size:170
Alignment explanation
Indices: 38623443--38623957 Score: 958
Period size: 170 Copynumber: 3.0 Consensus size: 170
38623433 TGTATTTTAA
38623443 CATTGATACTCTTATCTCTTTTGACAAATATTTAGATGACCTTGTAAGAGTATTTGATATTGTTG
1 CATTGATACTCTTATCTCTTTTGACAAATATTTAGATGACCTTGTAAGAGTATTTGATATTGTTG
*
38623508 ATTGGCTAACCGAGAGATCTAATGTTTGTTGAACCCACTGTTGCAAATCTTGTTGACTTGAAGAG
66 ATTGGCTAACCGAGAGATCAAATGTTTGTTGAACCCACTGTTGCAAATCTTGTTGACTTGAAGAG
38623573 GGATGCTCATTTTTGTACTCACATATTGCTTTTCTCATCT
131 GGATGCTCATTTTTGTACTCACATATTGCTTTTCTCATCT
38623613 CATTGATACTCTTATTCTCTTTTGACAAATATTTAGATGACCTTGTAAGAGTATTTGATATTGTT
1 CATTGATACTCTTA-TCTCTTTTGACAAATATTTAGATGACCTTGTAAGAGTATTTGATATTGTT
*
38623678 GATTGGCTAACCGAGAGATCAAATGTTTGTTGAACCCACTCTTGCAAATCTTGTTGACTTGAAGA
65 GATTGGCTAACCGAGAGATCAAATGTTTGTTGAACCCACTGTTGCAAATCTTGTTGACTTGAAGA
*
38623743 GGGATGTTCATTTTTGTACTCACATATTGCTTTTCTCATCT
130 GGGATGCTCATTTTTGTACTCACATATTGCTTTTCTCATCT
* *
38623784 CATTGATACTCTCATCTCTTTTGACAAATATTTAGATGACCTTGTAAGAGTTTTTGATATTGTTG
1 CATTGATACTCTTATCTCTTTTGACAAATATTTAGATGACCTTGTAAGAGTATTTGATATTGTTG
*
38623849 ATTGGCTAACCGAGAGATTAAATGTTTGTTGAACCCACTGTTGCAAATCTTGTTGACTTGAAGAG
66 ATTGGCTAACCGAGAGATCAAATGTTTGTTGAACCCACTGTTGCAAATCTTGTTGACTTGAAGAG
*
38623914 GGATGCTCATTTTTGTACTCACATTTTGCTTTTCTCATCT
131 GGATGCTCATTTTTGTACTCACATATTGCTTTTCTCATCT
38623954 CATT
1 CATT
38623958 TGTCAATATA
Statistics
Matches: 335, Mismatches: 9, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
170 169 0.50
171 166 0.50
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (170 bp):
CATTGATACTCTTATCTCTTTTGACAAATATTTAGATGACCTTGTAAGAGTATTTGATATTGTTG
ATTGGCTAACCGAGAGATCAAATGTTTGTTGAACCCACTGTTGCAAATCTTGTTGACTTGAAGAG
GGATGCTCATTTTTGTACTCACATATTGCTTTTCTCATCT
Found at i:38624263 original size:20 final size:21
Alignment explanation
Indices: 38624240--38624283 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
38624230 TGCATAAAGT
*
38624240 ATAAAATAT-TCACTAAATTA
1 ATAAAATATATCAATAAATTA
*
38624260 AT-AAATTTATCAATAAATTA
1 ATAAAATATATCAATAAATTA
38624280 ATAA
1 ATAA
38624284 CCTCGATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 5 0.25
20 14 0.70
21 1 0.05
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAAAATATATCAATAAATTA
Found at i:38624971 original size:18 final size:19
Alignment explanation
Indices: 38624935--38624992 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
38624925 AGGGAGAAGT
*
38624935 AGAAAAAATGAAAAAT-AA
1 AGAAAAAAAGAAAAATAAA
**
38624953 AGAAAAAAAGAAAGTTAAA
1 AGAAAAAAAGAAAAATAAA
38624972 AGAACATAAAAGAAAAA-AAA
1 AGAA-A-AAAAGAAAAATAAA
38624992 A
1 A
38624993 TTAAATAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 13 0.41
19 6 0.19
20 5 0.16
21 8 0.25
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.09
Consensus pattern (19 bp):
AGAAAAAAAGAAAAATAAA
Found at i:38625436 original size:27 final size:28
Alignment explanation
Indices: 38625397--38625453 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
38625387 ATCAAAATGT
*
38625397 TATAACTTTTTTTATTTACCAAAAAATA
1 TATAACTTCTTTTATTTACCAAAAAATA
*
38625425 TATAA-TTCTTTTATTTACCAAAATATA
1 TATAACTTCTTTTATTTACCAAAAAATA
38625452 TA
1 TA
38625454 AAAAAACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (28 bp):
TATAACTTCTTTTATTTACCAAAAAATA
Found at i:38625471 original size:25 final size:26
Alignment explanation
Indices: 38625443--38625493 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
38625433 TTTTATTTAC
* *
38625443 CAAAATATATAAAAAA-ACAAAAAAA
1 CAAAAAATAGAAAAAATACAAAAAAA
*
38625468 CAAAAAATAGAAAAAATAGAAAAAAA
1 CAAAAAATAGAAAAAATACAAAAAAA
38625494 ACCTGAACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (26 bp):
CAAAAAATAGAAAAAATACAAAAAAA
Found at i:38625644 original size:18 final size:17
Alignment explanation
Indices: 38625621--38625799 Score: 82
Period size: 18 Copynumber: 10.0 Consensus size: 17
38625611 GAAGGAGAGG
38625621 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
38625639 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
38625656 GG-A-AAAGGAAAGGAGA
1 GGAAGAAAGAAAAAGA-A
38625672 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
** *
38625690 GGAAAGAAAAGGAAAGGGGA
1 GG-AAG-AAA-GAAAAAGAA
*
38625710 GGAAAGAAAGAAAAATAA
1 GG-AAGAAAGAAAAAGAA
*
38625728 GGAAAGAAAAGGAAAGGAGAA
1 GG-AAG-AAA-GAAA-AAGAA
*
38625749 -GAGAGAAAAAAAAAGAA
1 GGA-AGAAAGAAAAAGAA
* **
38625766 AGAAG-AAGAAGAGGGAA
1 GGAAGAAAGAA-AAAGAA
38625783 GGAAGGAAA-AAAAAGAA
1 GGAA-GAAAGAAAAAGAA
38625800 AATAAGGTAA
Statistics
Matches: 125, Mismatches: 21, Indels: 31
0.71 0.12 0.18
Matches are distributed among these distances:
15 9 0.07
16 8 0.06
17 21 0.17
18 36 0.29
19 29 0.23
20 19 0.15
21 3 0.02
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.01
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:38625654 original size:22 final size:23
Alignment explanation
Indices: 38625623--38625800 Score: 73
Period size: 24 Copynumber: 7.5 Consensus size: 23
38625613 AGGAGAGGGG
*
38625623 AAGAAGAAGAAAG-AAAGGAAGA
1 AAGAAAAAGAAAGAAAAGGAAGA
*
38625645 AAGAAAAAGAAGGAAAAGGAA-A
1 AAGAAAAAGAAAGAAAAGGAAGA
* * *
38625667 GGAGAGGAAAGAAAGAAAAAGAAGGA
1 -AAGA-AAAAGAAAGAAAAGGAA-GA
* ***
38625693 AAGAAAAGGAAAGGGGAGGAAAGA
1 AAGAAAAAGAAAGAAAAGG-AAGA
38625717 AAGAAAAATAAGGAAAGAAAAGGAA-A
1 AAG--AAA-AA-GAAAGAAAAGGAAGA
* *
38625743 GGAGAAGAGAGAAA-AAAA--AAGA
1 -AAGAA-AAAGAAAGAAAAGGAAGA
* **
38625765 AAGAAGAAGAAGAGGGAAGGAAGGA
1 AAGAAAAAGAA-AGAAAAGGAA-GA
38625790 AA-AAAAAGAAA
1 AAGAAAAAGAAA
38625801 ATAAGGTAAT
Statistics
Matches: 113, Mismatches: 25, Indels: 35
0.65 0.14 0.20
Matches are distributed among these distances:
20 4 0.04
21 7 0.06
22 15 0.13
23 15 0.13
24 41 0.36
25 12 0.11
26 6 0.05
27 5 0.04
28 8 0.07
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.01
Consensus pattern (23 bp):
AAGAAAAAGAAAGAAAAGGAAGA
Found at i:38625660 original size:14 final size:13
Alignment explanation
Indices: 38625626--38625699 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 13
38625616 AGAGGGGAAG
38625626 AAGAAGAAAG-AA
1 AAGAAGAAAGAAA
*
38625638 AGGAAGAAAGAAA
1 AAGAAGAAAGAAA
38625651 AAGAAGGAAAAGGAAA
1 AAGAA-G-AAA-GAAA
38625667 GGAGAGGAAAGAAAGAAA
1 --A-A-G-AAGAAAGAAA
38625685 AAGAAGGAAAGAAA
1 AAGAA-GAAAGAAA
38625699 A
1 A
38625700 GGAAAGGGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
12 9 0.18
13 8 0.16
14 11 0.22
15 4 0.08
16 5 0.10
18 5 0.10
19 4 0.08
20 2 0.04
21 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAA
Found at i:38625681 original size:28 final size:28
Alignment explanation
Indices: 38625626--38625705 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
38625616 AGAGGGGAAG
38625626 AAGAA-GAAAG-AAAGG-AAGAAAGAAA
1 AAGAAGGAAAGAAAAGGAAAGAAAGAAA
38625651 AAGAAGGAAAAGGAAAGGAGAGGAAAGAAAGAAA
1 AAGAAGG-AAA-G-AA--A-AGGAAAGAAAGAAA
38625685 AAGAAGGAAAGAAAAGGAAAG
1 AAGAAGGAAAGAAAAGGAAAG
38625706 GGGAGGAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
27 3 0.07
28 8 0.17
29 1 0.02
30 1 0.02
31 2 0.04
32 2 0.04
33 6 0.13
34 17 0.37
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (28 bp):
AAGAAGGAAAGAAAAGGAAAGAAAGAAA
Found at i:38625699 original size:38 final size:38
Alignment explanation
Indices: 38625641--38625801 Score: 179
Period size: 38 Copynumber: 4.3 Consensus size: 38
38625631 GAAAGAAAGG
38625641 AAGAAAGAAAAAGAA-G---GAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
38625675 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
* *
38625713 AAGAAAGAAAAATAAGGAAAGAAAAGGAAAGGAGAAGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
* * * * *
38625751 GAGAAAAAAAAAGAAAGAAGAAGAAGAGGGAAGGA-AGGAA
1 AAGAAAGAAAAAG-AAGGA-AAGAAAAGGAAAGGAGAGG-A
*
38625791 AAAAAAGAAAA
1 AAGAAAGAAAA
38625802 TAAGGTAATT
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
34 15 0.14
35 1 0.01
38 62 0.58
39 6 0.06
40 22 0.21
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (38 bp):
AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
Found at i:38625701 original size:10 final size:10
Alignment explanation
Indices: 38625643--38625743 Score: 79
Period size: 10 Copynumber: 10.5 Consensus size: 10
38625633 AAGAAAGGAA
*
38625643 GAAAGAAAAA
1 GAAAGAAAAG
*
38625653 GAAGGAAAAG
1 GAAAGAAAAG
* *
38625663 GAAAGGAGAG
1 GAAAGAAAAG
38625673 GAAAG-AAA-
1 GAAAGAAAAG
38625681 GAAA-AAGAAG
1 GAAAGAA-AAG
38625691 GAAAGAAAAG
1 GAAAGAAAAG
***
38625701 GAAAGGGGAG
1 GAAAGAAAAG
38625711 GAAAG-AAA-
1 GAAAGAAAAG
38625719 GAAA-AATAAG
1 GAAAGAA-AAG
38625729 GAAAGAAAAG
1 GAAAGAAAAG
38625739 GAAAG
1 GAAAG
38625744 GAGAAGAGAG
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
8 10 0.14
9 7 0.10
10 51 0.71
11 4 0.06
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:38625767 original size:34 final size:34
Alignment explanation
Indices: 38625641--38625800 Score: 144
Period size: 34 Copynumber: 4.5 Consensus size: 34
38625631 GAAAGAAAGG
* * *
38625641 AAGAAAGAAAAAGAAGGAAAAGGAAAGGAGAGGA
1 AAGAAAAAAAAAGAAAGAAAAGGAAAGGAGAAGA
38625675 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGGAGGAAAGA
1 AAG-AA-AAAAA-AA-GAAAGAAAAGGAAA--GGA-G-AAGA
* *
38625717 AAGAAAAATAAGGAAAGAAAAGGAAAGGAGAAGA
1 AAGAAAAAAAAAGAAAGAAAAGGAAAGGAGAAGA
* *
38625751 GAGAAAAAAAAAGAAAGAAGAA-GAAGAGG-GAAGG
1 AAGAAAAAAAAAGAAAGAA-AAGGAA-AGGAGAAGA
*
38625785 AAGGAAAAAAAAGAAA
1 AAGAAAAAAAAAGAAA
38625801 ATAAGGTAAT
Statistics
Matches: 105, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
34 44 0.42
35 8 0.08
36 7 0.07
37 2 0.02
38 27 0.26
39 1 0.01
40 7 0.07
41 3 0.03
42 6 0.06
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.01
Consensus pattern (34 bp):
AAGAAAAAAAAAGAAAGAAAAGGAAAGGAGAAGA
Found at i:38625774 original size:10 final size:10
Alignment explanation
Indices: 38625623--38625777 Score: 60
Period size: 10 Copynumber: 15.7 Consensus size: 10
38625613 AGGAGAGGGG
38625623 AAGAAGAAGA
1 AAGAAGAAGA
38625633 AAGAAAGGAAGA
1 AAG-AA-GAAGA
*
38625645 AAGAAAAAGA
1 AAGAAGAAGA
*
38625655 AGGAA-AAGGA
1 AAGAAGAA-GA
* *
38625665 AAGGAGAGGA
1 AAGAAGAAGA
38625675 AAG-A-AAGA
1 AAGAAGAAGA
38625683 AA-AAGAAGGA
1 AAGAAGAA-GA
38625693 AAGAA-AAGGA
1 AAGAAGAA-GA
** *
38625703 AAGGGGAGGA
1 AAGAAGAAGA
38625713 AAG-A-AAGA
1 AAGAAGAAGA
*
38625721 AA-AATAAGGA
1 AAGAAGAA-GA
38625731 AAGAA-AAGGA
1 AAGAAGAA-GA
*
38625741 AAGGAGAAGA
1 AAGAAGAAGA
* * *
38625751 GAGAAAAAAA
1 AAGAAGAAGA
38625761 AAGAAAGAAG-
1 AAG-AAGAAGA
38625771 AAGAAGA
1 AAGAAGA
38625778 GGGAAGGAAG
Statistics
Matches: 111, Mismatches: 19, Indels: 31
0.69 0.12 0.19
Matches are distributed among these distances:
8 12 0.11
9 11 0.10
10 64 0.58
11 16 0.14
12 8 0.07
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (10 bp):
AAGAAGAAGA
Found at i:38626527 original size:27 final size:27
Alignment explanation
Indices: 38626474--38626528 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
38626464 GTAAATAAAA
* *
38626474 AATATTATAATATTTTGGTATTTTTTT
1 AATATTATAATATTTTGGTAATGTTTT
* * *
38626501 AATATTTTATTATTTTTGTAATGTTTT
1 AATATTATAATATTTTGGTAATGTTTT
38626528 A
1 A
38626529 TTATGGGTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (27 bp):
AATATTATAATATTTTGGTAATGTTTT
Found at i:38626529 original size:19 final size:19
Alignment explanation
Indices: 38626481--38626532 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
38626471 AAAAATATTA
** *
38626481 TAATATTTTGGTATTTTTT
1 TAATATTTTATTATTTTTG
38626500 TAATATTTTATTATTTTTG
1 TAATATTTTATTATTTTTG
*
38626519 TAATGTTTTATTAT
1 TAATATTTTATTAT
38626533 GGGTTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TAATATTTTATTATTTTTG
Found at i:38626615 original size:26 final size:27
Alignment explanation
Indices: 38626568--38626633 Score: 109
Period size: 26 Copynumber: 2.5 Consensus size: 27
38626558 AAATAAAAAA
38626568 TTACCAAAATAT-TATAACTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTAT
*
38626594 TTACCAAAAAATATATAA-TTTTTTAT
1 TTACCAAAATATATATAACTTTTTTAT
38626620 TTACCAAAATATAT
1 TTACCAAAATATAT
38626634 CAAAAAAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 32 0.86
27 5 0.14
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.45
Consensus pattern (27 bp):
TTACCAAAATATATATAACTTTTTTAT
Found at i:38626656 original size:17 final size:17
Alignment explanation
Indices: 38626634--38626667 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38626624 CAAAATATAT
*
38626634 CAAAAAAAGTAAAAAAA
1 CAAAAAAAATAAAAAAA
38626651 CAAAAAAAATAAAAAAA
1 CAAAAAAAATAAAAAAA
38626668 AAACAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.06, G:0.03, T:0.06
Consensus pattern (17 bp):
CAAAAAAAATAAAAAAA
Found at i:38627885 original size:24 final size:24
Alignment explanation
Indices: 38627853--38627899 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
38627843 TATTTTTTTG
38627853 ATATATTTTGGTAAATAAAAAAAT
1 ATATATTTTGGTAAATAAAAAAAT
*
38627877 ATATTTTTTGGTAAATAAAAAAA
1 ATATATTTTGGTAAATAAAAAAA
38627900 ATTATAACAT
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:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (24 bp):
ATATATTTTGGTAAATAAAAAAAT
Found at i:38629223 original size:13 final size:13
Alignment explanation
Indices: 38629207--38629246 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
38629197 TTTAAACCAA
38629207 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* * *
38629220 ACTTTTCCACAGT
1 ACTTTTCAAAAGC
38629233 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
38629246 A
1 A
38629247 ATGAAGAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:38629594 original size:17 final size:17
Alignment explanation
Indices: 38629515--38629594 Score: 51
Period size: 17 Copynumber: 4.5 Consensus size: 17
38629505 TCAATTTTTA
38629515 ATTATAATTATAATTATATT
1 ATTATAATT-TAA--ATATT
* *
38629535 ATTAT-TTATTAAATGCTT
1 ATTATAAT-TTAAAT-ATT
38629553 ATTA-AATTTGAAATA-T
1 ATTATAATTT-AAATATT
38629569 A-TATAAATTTAAATATT
1 ATTAT-AATTTAAATATT
38629586 ATTATAATT
1 ATTATAATT
38629595 ATTTTTATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 19
0.68 0.06 0.27
Matches are distributed among these distances:
15 2 0.04
16 7 0.15
17 15 0.31
18 14 0.29
19 4 0.08
20 6 0.12
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (17 bp):
ATTATAATTTAAATATT
Found at i:38640822 original size:18 final size:19
Alignment explanation
Indices: 38640801--38640839 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
38640791 TTTTAAAAAA
*
38640801 TTTTAAAATTTTAT-ATTT
1 TTTTAAAATTTAATAATTT
*
38640819 TTTTATAATTTAATAATTT
1 TTTTAAAATTTAATAATTT
38640838 TT
1 TT
38640840 AATTTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTAAAATTTAATAATTT
Found at i:38646033 original size:14 final size:14
Alignment explanation
Indices: 38646014--38646043 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38646004 CCCTCGTAGG
*
38646014 GTTATCGTATACTT
1 GTTATCATATACTT
38646028 GTTATCATATACTT
1 GTTATCATATACTT
38646042 GT
1 GT
38646044 GCACATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.50
Consensus pattern (14 bp):
GTTATCATATACTT
Found at i:38647193 original size:40 final size:40
Alignment explanation
Indices: 38647138--38647218 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
38647128 ATATATAAGT
38647138 ATATTTTACCAATTCATGCAACCCTTAACATATTTATGTA
1 ATATTTTACCAATTCATGCAACCCTTAACATATTTATGTA
38647178 ATATTTTACCAATTCATGCAACCCTTAACATATTTATGTA
1 ATATTTTACCAATTCATGCAACCCTTAACATATTTATGTA
38647218 A
1 A
38647219 CATCCACGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.40
Consensus pattern (40 bp):
ATATTTTACCAATTCATGCAACCCTTAACATATTTATGTA
Found at i:38647954 original size:24 final size:24
Alignment explanation
Indices: 38647927--38647999 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
38647917 GATATATAAC
38647927 AGAAGCTCATAAGAGCCATAATCG
1 AGAAGCTCATAAGAGCCATAATCG
**
38647951 AGAAGCTCATGCGAGCCAATAA-CG
1 AGAAGCTCATAAGAGCC-ATAATCG
* *
38647975 GGTAGCTC-TGAAGAGCCATTAATCG
1 AGAAGCTCAT-AAGAGCCA-TAATCG
38648000 GAGAGTGGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
23 2 0.05
24 31 0.79
25 6 0.15
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.18
Consensus pattern (24 bp):
AGAAGCTCATAAGAGCCATAATCG
Found at i:38648194 original size:20 final size:19
Alignment explanation
Indices: 38648155--38648195 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
38648145 AATTTGTTTG
* *
38648155 TTTAGTTAATTAACCTTAA
1 TTTAGTTAAATAAACTTAA
38648174 TTTAGTTAAATAATACTTAA
1 TTTAGTTAAATAA-ACTTAA
38648194 TT
1 TT
38648196 AATTAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTAGTTAAATAAACTTAA
Found at i:38654090 original size:16 final size:18
Alignment explanation
Indices: 38654069--38654106 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
38654059 GCAGCAAACC
38654069 ATTTTGCT-AAAATC-AT
1 ATTTTGCTAAAAATCAAT
38654085 ATTTTGCTAAAAATCAAT
1 ATTTTGCTAAAAATCAAT
38654103 ATTT
1 ATTT
38654107 CATGTACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 6 0.30
18 6 0.30
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (18 bp):
ATTTTGCTAAAAATCAAT
Found at i:38655320 original size:76 final size:76
Alignment explanation
Indices: 38655191--38655343 Score: 288
Period size: 76 Copynumber: 2.0 Consensus size: 76
38655181 TCCATTTTGA
* *
38655191 CGGATTTAGTCTCTCGTTTTAGAATATTTAAAGTATTCACATAAATCATAAATCAAATAATAATA
1 CGGATTTAGTCTCTCGTTTTAGAATACTTAAAGTATTCACATAAATCACAAATCAAATAATAATA
38655256 TTTTGTTTAGG
66 TTTTGTTTAGG
38655267 CGGATTTAGTCTCTCGTTTTAGAATACTTAAAGTATTCACATAAATCACAAATCAAATAATAATA
1 CGGATTTAGTCTCTCGTTTTAGAATACTTAAAGTATTCACATAAATCACAAATCAAATAATAATA
38655332 TTTTGTTTAGG
66 TTTTGTTTAGG
38655343 C
1 C
38655344 ATTATTAACG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (76 bp):
CGGATTTAGTCTCTCGTTTTAGAATACTTAAAGTATTCACATAAATCACAAATCAAATAATAATA
TTTTGTTTAGG
Found at i:38660517 original size:132 final size:132
Alignment explanation
Indices: 38660280--38660544 Score: 503
Period size: 132 Copynumber: 2.0 Consensus size: 132
38660270 ACTCATTTCA
*
38660280 TGTTTCGAATCTTTGCCCTAAATTGATTTTATTGGTATCAAGCTGTTACCATTTGTGTTCCTTTT
1 TGTTTCGAATCTTTGCCCTAAATTGATTTGATTGGTATCAAGCTGTTACCATTTGTGTTCCTTTT
* *
38660345 TTAATATATATTCTTTGGGTATTTTTGCGTTGTGCACTAATGGATGTTTTCTGTCAGCATGGAAC
66 TTAATATATATTCTTTGGGTATTTTTGCGTTGTGCACTAATGGATGGTTTCTATCAGCATGGAAC
38660410 TT
131 TT
38660412 TGTTTCGAATCTTTGCCCTAAATTGATTTGATTGGTATCAAGCTGTTACCATTTGTGTTCCTTTT
1 TGTTTCGAATCTTTGCCCTAAATTGATTTGATTGGTATCAAGCTGTTACCATTTGTGTTCCTTTT
38660477 TTAATATATATTCTTTGGGTATTTTTGCGTTGTGCACTAATGGATGGTTTCTATCAGCATGGAAC
66 TTAATATATATTCTTTGGGTATTTTTGCGTTGTGCACTAATGGATGGTTTCTATCAGCATGGAAC
38660542 TT
131 TT
38660544 T
1 T
38660545 CTTTGTATAG
Statistics
Matches: 130, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 130 1.00
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.47
Consensus pattern (132 bp):
TGTTTCGAATCTTTGCCCTAAATTGATTTGATTGGTATCAAGCTGTTACCATTTGTGTTCCTTTT
TTAATATATATTCTTTGGGTATTTTTGCGTTGTGCACTAATGGATGGTTTCTATCAGCATGGAAC
TT
Found at i:38661912 original size:21 final size:21
Alignment explanation
Indices: 38661886--38661948 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
38661876 CTTCGGGGGA
38661886 ATGGGCGGCATGGGCGACATG
1 ATGGGCGGCATGGGCGACATG
*
38661907 ATGGGCGGCATGGGTGACATG
1 ATGGGCGGCATGGGCGACATG
* *
38661928 ATGGGTGGCATGGGCGGCATG
1 ATGGGCGGCATGGGCGACATG
38661949 GGTGGCATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.17, C:0.16, G:0.49, T:0.17
Consensus pattern (21 bp):
ATGGGCGGCATGGGCGACATG
Found at i:38662779 original size:33 final size:33
Alignment explanation
Indices: 38662737--38662799 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
38662727 TTATAGTATT
38662737 ATTAGAGAAGGCAGAGTTGTAGTAAATGCAGTC
1 ATTAGAGAAGGCAGAGTTGTAGTAAATGCAGTC
38662770 ATTAGAGAAGGCAGAGTTGTAGTAAATGCA
1 ATTAGAGAAGGCAGAGTTGTAGTAAATGCA
38662800 AGGCTGACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.08, G:0.30, T:0.24
Consensus pattern (33 bp):
ATTAGAGAAGGCAGAGTTGTAGTAAATGCAGTC
Found at i:38662967 original size:93 final size:93
Alignment explanation
Indices: 38662808--38662994 Score: 365
Period size: 93 Copynumber: 2.0 Consensus size: 93
38662798 CAAGGCTGAC
38662808 TGTTTTACTTTTCAATGCTACTTTATGCAAGTATTTGCAGCTCCTCTGAGGGTTTTAACTCCACT
1 TGTTTTACTTTTCAATGCTACTTTATGCAAGTATTTGCAGCTCCTCTGAGGGTTTTAACTCCACT
38662873 CCTTGTAGCTGATGCTAATGGGGTATGT
66 CCTTGTAGCTGATGCTAATGGGGTATGT
*
38662901 TGTTTTACTTTTCAATGCTACTTTATGCAAGTATTTGCAGCTCCTCTTAGGGTTTTAACTCCACT
1 TGTTTTACTTTTCAATGCTACTTTATGCAAGTATTTGCAGCTCCTCTGAGGGTTTTAACTCCACT
38662966 CCTTGTAGCTGATGCTAATGGGGTATGT
66 CCTTGTAGCTGATGCTAATGGGGTATGT
38662994 T
1 T
38662995 TGATGATTTA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (93 bp):
TGTTTTACTTTTCAATGCTACTTTATGCAAGTATTTGCAGCTCCTCTGAGGGTTTTAACTCCACT
CCTTGTAGCTGATGCTAATGGGGTATGT
Found at i:38663162 original size:14 final size:16
Alignment explanation
Indices: 38663143--38663174 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38663133 AGTTAAATTA
38663143 TAAATT-AAA-CATGT
1 TAAATTGAAATCATGT
38663157 TAAATTGAAATCATGT
1 TAAATTGAAATCATGT
38663173 TA
1 TA
38663175 TAGATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (16 bp):
TAAATTGAAATCATGT
Found at i:38663329 original size:20 final size:20
Alignment explanation
Indices: 38663296--38663348 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
38663286 TTTTATACAC
38663296 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
38663315 ATTTTGAATTTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
38663335 ATTTTGTAATTTTT
1 ATTTTG-AATTTTT
38663349 GTTGAGAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 8 0.25
20 17 0.53
21 7 0.22
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:38663493 original size:23 final size:23
Alignment explanation
Indices: 38663463--38663507 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
38663453 CAACTCGAAC
38663463 TTATTCAAGTTGGCTT-GAATTAT
1 TTATTCAAGTTGG-TTCGAATTAT
38663486 TTATTCAAGTTGGTTCGAATTA
1 TTATTCAAGTTGGTTCGAATTA
38663508 CTCGATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.47
Consensus pattern (23 bp):
TTATTCAAGTTGGTTCGAATTAT
Found at i:38673116 original size:46 final size:46
Alignment explanation
Indices: 38673013--38673311 Score: 552
Period size: 46 Copynumber: 6.6 Consensus size: 46
38673003 TACGTATGAT
* *
38673013 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
38673056 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
38673102 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
38673148 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
38673194 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
38673240 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
38673286 CACTTATCACTTTGTCAC-TGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
38673312 AGTACTCAAA
Statistics
Matches: 251, Mismatches: 2, Indels: 4
0.98 0.01 0.02
Matches are distributed among these distances:
43 10 0.04
44 5 0.02
45 28 0.11
46 208 0.83
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:38681710 original size:19 final size:19
Alignment explanation
Indices: 38681674--38681715 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
38681664 TGCATAGATG
* *
38681674 ATATATATTATAGATATAT
1 ATATATATTAAAGATATAA
38681693 ATATATATTAAA-AGTATAA
1 ATATATATTAAAGA-TATAA
38681712 ATAT
1 ATAT
38681716 GTTACCAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (19 bp):
ATATATATTAAAGATATAA
Found at i:38689382 original size:27 final size:27
Alignment explanation
Indices: 38689330--38689382 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
38689320 GAGTAGTTGC
*
38689330 GCCTATCTCAAAGGCGCCAATGGTGGA
1 GCCTATCTCAAAGGCGCCAATAGTGGA
* * *
38689357 GCCTATCTGACAGGCGCCACTAGTGG
1 GCCTATCTCAAAGGCGCCAATAGTGG
38689383 TGCCATGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.28, G:0.30, T:0.19
Consensus pattern (27 bp):
GCCTATCTCAAAGGCGCCAATAGTGGA
Found at i:38691624 original size:60 final size:60
Alignment explanation
Indices: 38691531--38691663 Score: 221
Period size: 60 Copynumber: 2.2 Consensus size: 60
38691521 AATACTAAAC
* * *
38691531 TAAACACAATAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
1 TAAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
38691591 TAAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 TAAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
*
38691651 TAAAAAGCAAAAA
1 TAAACA-CAAAAA
38691664 AATTACAATA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
60 62 0.91
61 6 0.09
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.33
Consensus pattern (60 bp):
TAAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
Found at i:38691772 original size:14 final size:13
Alignment explanation
Indices: 38691747--38691802 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
38691737 TTACCTTTTT
38691747 TTTTTCTTTCTTC
1 TTTTTCTTTCTTC
38691760 TTTTTCTTCTCTTC
1 TTTTTCTT-TCTTC
* *
38691774 TTCTCCTTTC-TC
1 TTTTTCTTTCTTC
38691786 TCTTTTCTTTCTCTC
1 T-TTTTCTTTCT-TC
38691801 TT
1 TT
38691803 CCGTTCATGC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
12 3 0.09
13 17 0.49
14 12 0.34
15 3 0.09
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTCTTTCTTC
Found at i:38691791 original size:27 final size:27
Alignment explanation
Indices: 38691752--38691803 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
38691742 TTTTTTTTTT
38691752 CTTTCTTCTTTTTC-TTCTCTTCTTCTC
1 CTTTCTTCTTTTTCTTTCTC-TCTTCTC
38691779 CTTTC-TCTCTTTTCTTTCTCTCTTC
1 CTTTCTTCT-TTTTCTTTCTCTCTTC
38691804 CGTTCATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 3 0.13
27 15 0.65
28 5 0.22
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (27 bp):
CTTTCTTCTTTTTCTTTCTCTCTTCTC
Found at i:38711877 original size:34 final size:35
Alignment explanation
Indices: 38711833--38711899 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
38711823 CAGTAAAATA
*
38711833 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
38711867 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
38711900 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:38712913 original size:13 final size:13
Alignment explanation
Indices: 38712895--38712921 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38712885 AGTTAACTAA
38712895 TCTCACCAGGGAT
1 TCTCACCAGGGAT
38712908 TCTCACCAGGGAT
1 TCTCACCAGGGAT
38712921 T
1 T
38712922 TGAAAGAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (13 bp):
TCTCACCAGGGAT
Found at i:38716040 original size:6 final size:7
Alignment explanation
Indices: 38716020--38716047 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
38716010 ATTCAAACAA
38716020 TTATTTT
1 TTATTTT
38716027 TTATTTT
1 TTATTTT
38716034 TTATTTT
1 TTATTTT
38716041 TTATTTT
1 TTATTTT
38716048 ATAAATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTATTTT
Found at i:38716639 original size:9 final size:9
Alignment explanation
Indices: 38716599--38716638 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
38716589 ATCGAATTGA
38716599 TAATTAAAT
1 TAATTAAAT
38716608 TAATTAAAT
1 TAATTAAAT
38716617 T--TTAAAT
1 TAATTAAAT
*
38716624 T-ATTAATT
1 TAATTAAAT
38716632 TAATTAA
1 TAATTAA
38716639 TCTAATCAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 7 0.25
8 6 0.21
9 15 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TAATTAAAT
Found at i:38722578 original size:42 final size:44
Alignment explanation
Indices: 38722458--38722580 Score: 153
Period size: 44 Copynumber: 2.8 Consensus size: 44
38722448 ATGGCAGTAC
* * *
38722458 ATGATTTCGTATAAGGCCACGTCTGGGACGTTGGCATCGATTTG
1 ATGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATG
* *
38722502 A-GATTTACGTGTAAGACCATGTCTGGGACATTGGCATC-ATAT-
1 ATGATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATG
* *
38722544 ATGATTTTGTGTAAGACCACGTCTAGGACGTTGGCAT
1 ATGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
38722581 TGTACGAGCT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 27 0.40
43 13 0.19
44 28 0.41
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (44 bp):
ATGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATG
Found at i:38725274 original size:13 final size:14
Alignment explanation
Indices: 38725251--38725280 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
38725241 TTTAGGTTAA
38725251 TTAATTTAATAAGT
1 TTAATTTAATAAGT
38725265 TTAA-TTAATAAGT
1 TTAATTTAATAAGT
38725278 TTA
1 TTA
38725281 TTTGGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TTAATTTAATAAGT
Found at i:38734163 original size:26 final size:26
Alignment explanation
Indices: 38733995--38734153 Score: 102
Period size: 26 Copynumber: 6.4 Consensus size: 26
38733985 TGGTTATCCG
* *
38733995 GAGC-TCCTGATTAAAGGCTCTTCGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* * ** *
38734020 GGGCTTCTTGATTAAAAGTTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
** *
38734046 GAATTTCCTGATT-ATGGCTC-TTAT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* * *
38734070 AAGCTTCCTG-TTATATAGCTC--GGAT
1 GAGCTTCCTGATTA-ATGGCTCTTTG-T
* *
38734095 AAGCTTCCTGA-T--GGGCTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
38734118 GAGCTTCCTGATTAATGGCTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
38734144 GAGCTTCCTG
1 GAGCTTCCTG
38734154 CTATATGGCT
Statistics
Matches: 100, Mismatches: 24, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
22 4 0.04
23 13 0.13
24 12 0.12
25 25 0.25
26 46 0.46
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (26 bp):
GAGCTTCCTGATTAATGGCTCTTTGT
Found at i:38739024 original size:76 final size:76
Alignment explanation
Indices: 38738894--38739042 Score: 187
Period size: 76 Copynumber: 2.0 Consensus size: 76
38738884 TCGAATATAA
* * * *
38738894 ATATGTATGCATATAATCAAGTTATTGAGTTGGGAATTAATGTATGAATTTTATAATT-ATAGGG
1 ATATGTATGCATATAATCAAATTATTGAGTTGGAAATTAAAGTATGAATTTTAT-ATTCATAGAG
38738958 AGATTCGAACAT
65 AGATTCGAACAT
**
38738970 ATATGTATGCAT-TAAATCAAATTATTGAGTTGGAAATTAAAGTAT-CTTTCTTATATTCATAGA
1 ATATGTATGCATAT-AATCAAATTATTGAGTTGGAAATTAAAGTATGAATT-TTATATTCATAGA
*
38739033 GAGGTTCGAA
64 GAGATTCGAA
38739043 TATAGGTTAC
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
75 6 0.10
76 57 0.90
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (76 bp):
ATATGTATGCATATAATCAAATTATTGAGTTGGAAATTAAAGTATGAATTTTATATTCATAGAGA
GATTCGAACAT
Found at i:38739296 original size:41 final size:41
Alignment explanation
Indices: 38739220--38739298 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
38739210 TATCTGAGAT
* *
38739220 TTTCAGGCTTAATGCCTAGCAGACTTGATGTCGGTGAATAA
1 TTTCAGACTTAATGCCTAGCAGACTTGATGCCGGTGAATAA
* * *
38739261 TTTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAA
1 TTTCAGACTTAATGCCTAGCAGAC-TTGATGCCGGTGAA
38739299 ATGTATCGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 29 0.91
42 3 0.09
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (41 bp):
TTTCAGACTTAATGCCTAGCAGACTTGATGCCGGTGAATAA
Done.