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 95 of 185
Found at i:30274885 original size:29 final size:29
Alignment explanation
Indices: 30274822--30274889 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
30274812 TAATCAACCG
*
30274822 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
30274851 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
30274880 CGCACACTTA
1 CGCACACTTA
30274890 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:30275001 original size:174 final size:174
Alignment explanation
Indices: 30274711--30275038 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
30274701 AACTCAAGGT
* *
30274711 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
30274776 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
30274841 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
30274885 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
30274950 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
30275015 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
30275039 TGTACAATTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:30275030 original size:29 final size:30
Alignment explanation
Indices: 30274991--30275069 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
30274981 CTTAATAATC
30274991 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
30275021 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
30275050 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30275070 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:30281348 original size:22 final size:23
Alignment explanation
Indices: 30281332--30281376 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
30281322 AATTCATGCC
30281332 ACAAAATATACCAATTCATCATCA
1 ACAAAATATACCAATTCATCA-CA
*
30281356 ACAAAATGTACCAATTCATCA
1 ACAAAATATACCAATTCATCA
30281377 ACCTTATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (23 bp):
ACAAAATATACCAATTCATCACA
Found at i:30281376 original size:21 final size:21
Alignment explanation
Indices: 30281322--30281378 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
30281312 ATTATCATAT
*
30281322 AATTCATGCCACAAAATATACC
1 AATTCAT-CAACAAAATATACC
*
30281344 AATTCATCATCAACAAAATGTACC
1 AA-T--TCATCAACAAAATATACC
30281368 AATTCATCAAC
1 AATTCATCAAC
30281379 CTTATACCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 8 0.27
22 2 0.07
23 2 0.07
24 14 0.47
25 4 0.13
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.25
Consensus pattern (21 bp):
AATTCATCAACAAAATATACC
Found at i:30282319 original size:42 final size:42
Alignment explanation
Indices: 30282287--30282390 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
30282277 TAGCTTAGCT
30282287 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
* * *
30282329 ATGGTCTTACACGAATCTCATATCGATGCAAATGTCCCAGTC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
*
30282371 ATGGTCTTACATGAATCTCA
1 ATGGTCTTACACGAATCTCA
30282391 CATCCCGATA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
Found at i:30285075 original size:28 final size:28
Alignment explanation
Indices: 30285012--30285277 Score: 453
Period size: 28 Copynumber: 9.5 Consensus size: 28
30285002 ATATTAAGTC
*
30285012 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
30285039 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
30285067 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
30285095 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
30285123 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
30285151 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
30285179 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
30285207 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
30285235 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
30285264 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30285278 CAATCTCATG
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.10
28 187 0.82
29 19 0.08
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30285745 original size:14 final size:14
Alignment explanation
Indices: 30285726--30285755 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30285716 TGGGCATACT
*
30285726 TATGTATATGTATA
1 TATGTATATATATA
30285740 TATGTATATATATA
1 TATGTATATATATA
30285754 TA
1 TA
30285756 CTTCGGAATG
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:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:30287656 original size:17 final size:17
Alignment explanation
Indices: 30287634--30287666 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30287624 ACATATATGG
*
30287634 ATTGAATCCCAAAATTT
1 ATTGAAACCCAAAATTT
30287651 ATTGAAACCCAAAATT
1 ATTGAAACCCAAAATT
30287667 AACAAATCCA
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:0.45, C:0.18, G:0.06, T:0.30
Consensus pattern (17 bp):
ATTGAAACCCAAAATTT
Found at i:30289171 original size:24 final size:24
Alignment explanation
Indices: 30289142--30289196 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
30289132 GGATAGGAAA
* *
30289142 GAAAAAAATAAGTTAGGGATTTAGG
1 GAAAAAACTAAGCTAGGGATTT-GG
30289167 GAAAAAACTAAGCTAGGGATTTGG
1 GAAAAAACTAAGCTAGGGATTTGG
*
30289191 GTAAAA
1 GAAAAA
30289197 TGATTTGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.47, C:0.04, G:0.27, T:0.22
Consensus pattern (24 bp):
GAAAAAACTAAGCTAGGGATTTGG
Found at i:30291143 original size:24 final size:25
Alignment explanation
Indices: 30291103--30291149 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
30291093 AAATTTTGGA
*
30291103 AAGAATTTTTCAGAAAC-ACTTTTG
1 AAGAATTCTTCAGAAACAACTTTTG
30291127 AAGAATTCCTTCA-AAACAACTTT
1 AAGAATT-CTTCAGAAACAACTTT
30291150 CTTCTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (25 bp):
AAGAATTCTTCAGAAACAACTTTTG
Found at i:30298120 original size:78 final size:78
Alignment explanation
Indices: 30298021--30298175 Score: 233
Period size: 78 Copynumber: 2.0 Consensus size: 78
30298011 ATTACAAAGT
30298021 CAGCAGGGAAAATAAACTTATCTACACGTACCAATACACCCTCCATTTTT-CTTTCTGGATATGC
1 CAGCAGGGAAAATAAACTTATCTACACGTACCAATACACCCTCCATTTTTCCTTT-TGGATATGC
30298085 TAAGGATCGATCTA
65 TAAGGATCGATCTA
** ** *
30298099 CAGCA-GGAAAGATAAACTTATCTACACGTACCAATACGTCCTTGATTTTTCCTTTTGGATGTGC
1 CAGCAGGGAAA-ATAAACTTATCTACACGTACCAATACACCCTCCATTTTTCCTTTTGGATATGC
30298163 TAAGGATCGATCT
65 TAAGGATCGATCT
30298176 GCTAGTTAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
77 5 0.07
78 61 0.87
79 4 0.06
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (78 bp):
CAGCAGGGAAAATAAACTTATCTACACGTACCAATACACCCTCCATTTTTCCTTTTGGATATGCT
AAGGATCGATCTA
Found at i:30302158 original size:19 final size:19
Alignment explanation
Indices: 30302134--30302176 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
30302124 CACGTTCAAA
* *
30302134 ATTTTAATACAATTTAATT
1 ATTTTAATAAAAATTAATT
30302153 ATTTT-ATAAAAATTAATT
1 ATTTTAATAAAAATTAATT
30302171 ATTTTA
1 ATTTTA
30302177 TGACAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTAATAAAAATTAATT
Found at i:30302411 original size:41 final size:43
Alignment explanation
Indices: 30302303--30302411 Score: 111
Period size: 41 Copynumber: 2.6 Consensus size: 43
30302293 AAATATTCGT
* *
30302303 GGCGTTTATGGGGAAAACGCTGCTATTGTTGTTATACCTTTATC
1 GGCGTTTATGGGAAAAACGC-GCTATTGTTATTATACCTTTATC
* *
30302347 GGAGTTTA-GGGAAAAATGACGCTA-T-TTATT-TACCTTTCA-C
1 GGCGTTTATGGGAAAAACG-CGCTATTGTTATTATACCTTT-ATC
30302387 GGCGTTTATGGGAAAAACGTCGCTA
1 GGCGTTTATGGGAAAAACG-CGCTA
30302412 ACACTGCTCC
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
40 15 0.27
41 19 0.35
42 1 0.02
43 12 0.22
44 8 0.15
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (43 bp):
GGCGTTTATGGGAAAAACGCGCTATTGTTATTATACCTTTATC
Found at i:30310438 original size:70 final size:70
Alignment explanation
Indices: 30310358--30310499 Score: 250
Period size: 70 Copynumber: 2.0 Consensus size: 70
30310348 CAAAATAATT
*
30310358 GTTAGTGCAAGAAAATC-TGGGTTCAAATATGCTAAGATTGTGAAGAAATTATAGAACAATTCAA
1 GTTAGAGCAAGAAAA-CGTGGGTTCAAATATGCTAAGATTGTGAAGAAATTATAGAACAATTCAA
30310422 ATTTCA
65 ATTTCA
*
30310428 GTTAGAGCAAGAAAACGTGGGTTCAAATATGCTAAGATTGTGAAGAAATTATATAACAATTCAAA
1 GTTAGAGCAAGAAAACGTGGGTTCAAATATGCTAAGATTGTGAAGAAATTATAGAACAATTCAAA
30310493 TTTCA
66 TTTCA
30310498 GT
1 GT
30310500 CAGCTTGAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
69 1 0.01
70 68 0.99
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.30
Consensus pattern (70 bp):
GTTAGAGCAAGAAAACGTGGGTTCAAATATGCTAAGATTGTGAAGAAATTATAGAACAATTCAAA
TTTCA
Found at i:30310897 original size:32 final size:32
Alignment explanation
Indices: 30310854--30310930 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
30310844 CAAAATAAAT
** *
30310854 TATGAAAAGTTACGAATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
30310886 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
30310918 GATGAAAAGTTAC
1 TATGAAAAGTTAC
30310931 ACACATGCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:30313555 original size:30 final size:30
Alignment explanation
Indices: 30313514--30313579 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
30313504 TTCTGTTTGA
*
30313514 TGAAAATTCCATGTTTGAAGAAATGGAAGT
1 TGAAAAATCCATGTTTGAAGAAATGGAAGT
*
30313544 TGAAAAATCCATGTTTGAAGATATGGAAGT
1 TGAAAAATCCATGTTTGAAGAAATGGAAGT
30313574 TGAAAA
1 TGAAAA
30313580 GGAAAATTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (30 bp):
TGAAAAATCCATGTTTGAAGAAATGGAAGT
Found at i:30315427 original size:23 final size:23
Alignment explanation
Indices: 30315401--30315490 Score: 98
Period size: 23 Copynumber: 4.1 Consensus size: 23
30315391 GAAAAGTTAA
30315401 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
*
30315424 AAGAGTGAAGAGACTTGAAGATG
1 AAGAGTGAAGAGACTTGAATATG
* * * * *
30315447 AAAAGT-TACACAC---ATTATG
1 AAGAGTGAAGAGACTTGAATATG
30315466 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
30315489 AA
1 AA
30315491 AAGTTATACA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.46, C:0.07, G:0.27, T:0.21
Consensus pattern (23 bp):
AAGAGTGAAGAGACTTGAATATG
Found at i:30315479 original size:42 final size:42
Alignment explanation
Indices: 30315420--30315503 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
30315410 GAGACTTGAA
30315420 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* *
30315462 TATGAAGAGTGAAGAGACTTGAATATGAAAAGTTATACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
30315504 GCATGGATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.24
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:30318628 original size:30 final size:30
Alignment explanation
Indices: 30318594--30318656 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
30318584 ACTTAACAAG
30318594 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
30318624 CAAATGCCTTTAAAATAATATCAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
30318654 CAA
1 CAA
30318657 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:30318711 original size:22 final size:22
Alignment explanation
Indices: 30318686--30318728 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
30318676 TATCCAAACA
30318686 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
30318708 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
30318729 AATAGGAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:30318732 original size:11 final size:11
Alignment explanation
Indices: 30318693--30318733 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
30318683 ACAATAACAA
30318693 CAAAATAGTAG
1 CAAAATAGTAG
* *
30318704 CAACATAATAG
1 CAAAATAGTAG
*
30318715 TAAAATAGTAG
1 CAAAATAGTAG
30318726 CAAAATAG
1 CAAAATAG
30318734 GAAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:30324361 original size:37 final size:36
Alignment explanation
Indices: 30324320--30324503 Score: 141
Period size: 37 Copynumber: 5.2 Consensus size: 36
30324310 GCTTAGCTTG
30324320 GCTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCA
1 GCTAACTCAAATAACTGGA-GTTGCGAGCTTAACTCA
30324357 GCTAACTCAAATAACTGGATGTTGCGAGCTTAACTCA
1 GCTAACTCAAATAACTGGA-GTTGCGAGCTTAACTCA
* ** * * * * * *
30324394 ACTAACCTTTAATCA-T-CAGTTGGGAACGT-ACGTCC
1 GCTAA-CTCAAATAACTGGAGTTGCGAGCTTAAC-TCA
**
30324429 GC-AAGCT---ATTTC-GGAGTTGCGAGCTTAACTCA
1 GCTAA-CTCAAATAACTGGAGTTGCGAGCTTAACTCA
*
30324461 ACTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCA
1 GCTAACTCAAATAACTGGA-GTTGCGAGCTTAACTCA
*
30324498 TCTAAC
1 GCTAAC
30324504 CTTTAATCAT
Statistics
Matches: 113, Mismatches: 23, Indels: 22
0.72 0.15 0.14
Matches are distributed among these distances:
31 2 0.02
32 14 0.12
33 4 0.04
34 6 0.05
35 14 0.12
36 4 0.04
37 63 0.56
38 6 0.05
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (36 bp):
GCTAACTCAAATAACTGGAGTTGCGAGCTTAACTCA
Found at i:30324520 original size:104 final size:104
Alignment explanation
Indices: 30324340--30324527 Score: 340
Period size: 104 Copynumber: 1.8 Consensus size: 104
30324330 ATAACTGGAG
* *
30324340 GTTGCGAGCTTAACTCAGCTAACTCAAATAACTGGATGTTGCGAGCTTAACTCAACTAACCTTTA
1 GTTGCGAGCTTAACTCAACTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCAACTAACCTTTA
30324405 ATCATCAGTTGGGAACGTACGTCCGCAAGCTATTTCGGA
66 ATCATCAGTTGGGAACGTACGTCCGCAAGCTATTTCGGA
*
30324444 GTTGCGAGCTTAACTCAACTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCATCTAACCTTTA
1 GTTGCGAGCTTAACTCAACTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCAACTAACCTTTA
*
30324509 ATCATTAGTTGGGAACGTA
66 ATCATCAGTTGGGAACGTA
30324528 AGTGTAACAC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 80 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (104 bp):
GTTGCGAGCTTAACTCAACTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCAACTAACCTTTA
ATCATCAGTTGGGAACGTACGTCCGCAAGCTATTTCGGA
Found at i:30325224 original size:6 final size:6
Alignment explanation
Indices: 30325204--30325244 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
30325194 TATGCAAATT
*
30325204 AAAAAG -AAAAG --AAAG AAAAAG AAAAAG AAAAAG AGAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA
30325245 GAGAGGAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 4 0.13
5 5 0.16
6 22 0.71
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:30325731 original size:9 final size:9
Alignment explanation
Indices: 30325711--30325753 Score: 77
Period size: 9 Copynumber: 4.7 Consensus size: 9
30325701 TTGTGTTGTA
30325711 TTAATGTATT
1 TTAAT-TATT
30325721 TTAATTATT
1 TTAATTATT
30325730 TTAATTATT
1 TTAATTATT
30325739 TTAATTATT
1 TTAATTATT
30325748 TTAATT
1 TTAATT
30325754 TCGTAGCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 28 0.85
10 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TTAATTATT
Found at i:30327909 original size:6 final size:6
Alignment explanation
Indices: 30327900--30327931 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
30327890 TGCTGATGCA
30327900 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TT
30327932 ATAGTTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTGTT
Found at i:30330095 original size:26 final size:25
Alignment explanation
Indices: 30330059--30330133 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
30330049 GTAGCTTCGG
30330059 AGAGCCGTTAATCGAGAAGCTCACAA
1 AGAGCC-TTAATCGAGAAGCTCACAA
* *
30330085 AGAGCCTTTAATCGAAAAGCTCACGA
1 AGAGCC-TTAATCGAGAAGCTCACAA
* *
30330111 AGAGCCATATATCGAGACGCTCA
1 AGAGCCTTA-ATCGAGAAGCTCA
30330134 TAAGAGCTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 2 0.05
26 40 0.95
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.17
Consensus pattern (25 bp):
AGAGCCTTAATCGAGAAGCTCACAA
Found at i:30331789 original size:20 final size:20
Alignment explanation
Indices: 30331764--30331802 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
30331754 TGAGTTATTT
30331764 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
30331784 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
30331803 AAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:30331870 original size:66 final size:66
Alignment explanation
Indices: 30331798--30331931 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
30331788 AAGAGAGTAA
30331798 GTAAAAAAGAAAGTAAAGATCATGATACTTGATGATAATTTATGAGTATAATTATTTATGATAAA
1 GTAAAAAAGAAAGTAAAGATCATGATACTTGATGATAATTTATGAGTATAATTATTTATGATAAA
30331863 T
66 T
30331864 GTAAAAAAGAAAGTAAAGATCATGATACTTGATGATAATTTATGAGTATAATTATTTATGATAAA
1 GTAAAAAAGAAAGTAAAGATCATGATACTTGATGATAATTTATGAGTATAATTATTTATGATAAA
30331929 T
66 T
30331930 GT
1 GT
30331932 TGTTATTTAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.46, C:0.03, G:0.16, T:0.35
Consensus pattern (66 bp):
GTAAAAAAGAAAGTAAAGATCATGATACTTGATGATAATTTATGAGTATAATTATTTATGATAAA
T
Found at i:30333520 original size:21 final size:21
Alignment explanation
Indices: 30333496--30333535 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30333486 GTAAATTTAG
*
30333496 ATCAATTTAATACAATTCATA
1 ATCAATTCAATACAATTCATA
*
30333517 ATCAATTCAATTCAATTCA
1 ATCAATTCAATACAATTCA
30333536 CATCTTAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (21 bp):
ATCAATTCAATACAATTCATA
Found at i:30340002 original size:16 final size:17
Alignment explanation
Indices: 30339971--30340004 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30339961 TTTAAATTCA
30339971 GAATAAATTGTGTCTTT
1 GAATAAATTGTGTCTTT
*
30339988 GAATCAATT-TGTCTTT
1 GAATAAATTGTGTCTTT
30340004 G
1 G
30340005 GCTTCATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (17 bp):
GAATAAATTGTGTCTTT
Found at i:30342395 original size:26 final size:26
Alignment explanation
Indices: 30342349--30342398 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
30342339 TGCATTGTCC
*
30342349 CTAATGCAAAAGAAAATTAAAAACTA
1 CTAATGCAAAAGAAAAATAAAAACTA
*
30342375 CTAATG-AAAATAAACAATAAAAAC
1 CTAATGCAAAAGAAA-AATAAAAAC
30342399 GTAAAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.64, C:0.12, G:0.06, T:0.18
Consensus pattern (26 bp):
CTAATGCAAAAGAAAAATAAAAACTA
Found at i:30358136 original size:18 final size:18
Alignment explanation
Indices: 30358103--30358141 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
30358093 TTAATTAAAC
30358103 AAAAGAAAGAAATGAAAAT
1 AAAAGAAAGAAATG-AAAT
*
30358122 AAAAGAAA-CAATGAAAT
1 AAAAGAAAGAAATGAAAT
30358139 AAA
1 AAA
30358142 GATAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (18 bp):
AAAAGAAAGAAATGAAAT
Found at i:30359222 original size:16 final size:15
Alignment explanation
Indices: 30359148--30359222 Score: 54
Period size: 16 Copynumber: 5.2 Consensus size: 15
30359138 AACGTATTGT
*
30359148 ATTGAATTGAATTGTG
1 ATTGAATTGAA-AGTG
* *
30359164 ATTAAATTGGAA-TG
1 ATTGAATTGAAAGTG
30359178 ATTTGAATTGAAAGT-
1 A-TTGAATTGAAAGTG
30359193 A-TG-A--GAAAGTG
1 ATTGAATTGAAAGTG
30359204 ATTGAATTGAAATGTG
1 ATTGAATTGAAA-GTG
30359220 ATT
1 ATT
30359223 CGGAAACCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
10 6 0.13
11 1 0.02
12 3 0.07
13 3 0.07
14 3 0.07
15 14 0.30
16 16 0.35
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (15 bp):
ATTGAATTGAAAGTG
Found at i:30368438 original size:13 final size:14
Alignment explanation
Indices: 30368418--30368449 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
30368408 AATATTAAAA
30368418 AATA-TAATATTTT
1 AATATTAATATTTT
30368431 -ATATTAATATTTT
1 AATATTAATATTTT
30368444 AATATT
1 AATATT
30368450 TTAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:30370807 original size:72 final size:71
Alignment explanation
Indices: 30370487--30371058 Score: 378
Period size: 72 Copynumber: 8.1 Consensus size: 71
30370477 TAGCAAGTTC
* * * * *
30370487 AATACCGCAGCCTCCAAACAGTTAGTGAGAGTTTAAAGCTCTCAACTGT-AATATTAAGGCTCGC
1 AATACCGCAGCCCCCAAATAGTTAGTGAGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCAC
*
30370551 A--TATA
66 AGGT-TT
* * * * *
30370556 AAGTACCACAGCCCCCAAA-AGGTTAGCGAGAGTTCAAAGCTC-C--CAGTTATTAGATTAAGGC
1 AA-TACCGCAGCCCCCAAATA-GTTAGTGAGAGTTAAAAGCTCTCAACTGTCATT--ATTAAGGC
* * * *
30370617 TTATAAG-TA
62 TCACAGGTTT
*** ** * ** * * *
30370626 AAGTACTATAGCCCTCCAACCATTTAGAAAGAGTTAAAAGCTCCCAACTGTCATTATCAAGACTC
1 AA-TACCGCAGCCC-CCAAATAGTTAGTGAGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTC
** * *
30370691 GTAAGTTC
64 ACAGGTTT
* * * *
30370699 AATACCGCAACCCTCCAAATAGTCAGTGAAAGTTAAAAGCTCTCAGCTGTCATTATTAAGGCTCA
1 AATACCGCAGCCC-CCAAATAGTTAGTGAGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCA
30370764 CAGGTTT
65 CAGGTTT
** * * * ** * *
30370771 AATATTGCAGCCCCCAAACAGTTAGTGAAAGTTTAAAGCTCTCAGTTGT-AATGTTAAGGCTCAC
1 AATACCGCAGCCCCCAAATAGTTAGTGAGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCAC
*
30370835 AGG-TA
66 AGGTTT
* * * ** * * * * * *
30370840 AATATCGTAGCCTCCAAAATAGTTAACGAGAGCT-AAAGCTCCCAAATGT-AATCTTAAGGCTCG
1 AATACCGCAGCC-CCCAAATAGTTAGTGAGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCA
* *
30370903 TAGATTT
65 CAGGTTT
* *
30370910 AATACCACAGCCCTCAAAATAGTTA-TCGAGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTC
1 AATACCGCAGCCC-CCAAATAGTTAGT-GAGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTC
* *
30370974 GCAGGTGT
64 ACAGGTTT
* *
30370982 AATACCGCAGCCCCCCAAACAGTTAGTGAGAGTTAAAAGCTCTCAGCTGTCATTATTAAGGCTCA
1 AATACCGCAG-CCCCCAAATAGTTAGTGAGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCA
30371047 CAGGTTT
65 CAGGTTT
30371054 AATAC
1 AATAC
30371059 TGTAACACCC
Statistics
Matches: 396, Mismatches: 86, Indels: 39
0.76 0.17 0.07
Matches are distributed among these distances:
67 3 0.01
68 2 0.01
69 42 0.11
70 115 0.29
71 66 0.17
72 155 0.39
73 7 0.02
74 6 0.02
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (71 bp):
AATACCGCAGCCCCCAAATAGTTAGTGAGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCAC
AGGTTT
Found at i:30374214 original size:70 final size:70
Alignment explanation
Indices: 30373988--30374640 Score: 435
Period size: 70 Copynumber: 9.3 Consensus size: 70
30373978 CACAAATACT
* * ** * *
30373988 GTAGCCCCCAAAGAGTTAGCGAGAGTTCAAAGCTCCCAATTGTAATGTTAAGGCTCGCAAGTAAA
1 GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGCTCACAAGTAAA
* *
30374053 ATACT
66 GTACC
* * * * * * * ** * * * *
30374058 GCAGCCTCCAAAATAGTTAGCGAGGGTTGAAA-CTCCTAGCTATAA-CCTCAGGCTCGCAGGTTC
1 GTAGCC-CCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGCTCACAAG-TA
30374121 AA-TACC
64 AAGTACC
* * * * ** * * *
30374127 GTAGCCCCCAAACAGTTAGCGAGATTTTAAAGCTTTCATCTGTAATATTAACGTTCACAAGTAAA
1 GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGCTCACAAGTAAA
*
30374192 TTACC
66 GTACC
* * * *
30374197 TTAGCCCCCAAATAGTTAGCAAGAGTTCAAAACTTCCAGCTGTAATATTAAGGCTCAC-GGATAA
1 GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGCTCACAAG-TAA
*
30374261 AGTATC
65 AGTACC
* * * * *
30374267 ATAG-CCCCAAACAGTT-GCGAGAGTTCAAAGCTCTCAACTGTAATATTAAGGCTCACAAGTAAA
1 GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGCTCACAAGTAAA
30374330 GTACC
66 GTACC
* * * *
30374335 GTAGACCCCAAATAGTTACCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGATCACAGGTAAA
1 GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGCTCACAAGTAAA
30374400 GTACC
66 GTACC
* *** * ** * * *
30374405 GCAGCCCCCAAATAGTTAATGAGAGTTAAAAGCTCCCAATTGTCATTATTAAGGCTCACAGGTTT
1 GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGT-AATATTAAGGCTCACAAG-TA
* *
30374470 AAG-GCT
64 AAGTACC
* * * * * * ** *
30374476 GCAGCCCCCCAAATAGTTAGCGATAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGTAGATT
1 GTAG-CCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGT-AATATTAAGGCTCACA-AGT
* *
30374541 CAATACTACA
63 -AA-AGTACC
* ** * * * *
30374551 GT--CCGCCAAATAGTTAGGTAGAGTTAAAAGCTCCCAGCTGTCATTATTAAGGCTCACAGATTC
1 GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGT-AATATTAAGGCTCACA-AGTA
30374614 AA-TACC
64 AAGTACC
*
30374620 GCAGCCCCTCAAATAGTTAGC
1 GTAGCCCC-CAAATAGTTAGC
30374641 GAAAGTTAAA
Statistics
Matches: 462, Mismatches: 102, Indels: 36
0.77 0.17 0.06
Matches are distributed among these distances:
68 66 0.14
69 58 0.13
70 169 0.37
71 46 0.10
72 119 0.26
73 1 0.00
74 1 0.00
75 2 0.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (70 bp):
GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGCTCACAAGTAAA
GTACC
Found at i:30374311 original size:138 final size:139
Alignment explanation
Indices: 30373993--30374464 Score: 416
Period size: 138 Copynumber: 3.4 Consensus size: 139
30373983 ATACTGTAGC
* * * * * * * *
30373993 CCCCAAAGAGTTAGCGAGAGTTCAAAGCTCCCAATTGTAATGTTAAGGCTCGCAAGTAAAATACT
1 CCCCAAACAGTTAGCGAGAGTTCAAAGCTCTCAACTGTAATATTAACGCTCACAAGTAAAGTACC
* * * * * * * ** * * *
30374058 GCAG-CCTCCAAAATAGTTAGCGAGGGTT-GAAACTCCTAGCTATAA-CCTCAGGCTCGCAGGTT
66 GTAGACC-CC-AAATAGTTACCAAGAGTTCAAAACTCCCAGCTGTAATATTAAGGATCACAGG-T
* * *
30374120 CAA-TACCGTAG
128 AAAGTATCATAG
* * * * * *
30374131 CCCCCAAACAGTTAGCGAGATTTTAAAGCTTTCATCTGTAATATTAACGTTCACAAGTAAATTAC
1 -CCCCAAACAGTTAGCGAGAGTTCAAAGCTCTCAACTGTAATATTAACGCTCACAAGTAAAGTAC
* * * * *
30374196 CTTAGCCCCCAAATAGTTAGCAAGAGTTCAAAACTTCCAGCTGTAATATTAAGGCTCAC-GGATA
65 CGTAGACCCCAAATAGTTACCAAGAGTTCAAAACTCCCAGCTGTAATATTAAGGATCACAGG-TA
30374260 AAGTATCATAG
129 AAGTATCATAG
*
30374271 CCCCAAACAGTT-GCGAGAGTTCAAAGCTCTCAACTGTAATATTAAGGCTCACAAGTAAAGTACC
1 CCCCAAACAGTTAGCGAGAGTTCAAAGCTCTCAACTGTAATATTAACGCTCACAAGTAAAGTACC
*
30374335 GTAGACCCCAAATAGTTACCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGATCACAGGTAAA
66 GTAGACCCCAAATAGTTACCAAGAGTTCAAAACTCCCAGCTGTAATATTAAGGATCACAGGTAAA
* **
30374400 GTACCGCAG
131 GTATCATAG
* ** * * * * *
30374409 CCCCCAAATAGTTAATGAGAGTTAAAAGCTCCCAATTGTCATTATTAAGGCTCACA
1 -CCCCAAACAGTTAGCGAGAGTTCAAAGCTCTCAACTGT-AATATTAACGCTCACA
30374465 GGTTTAAGGC
Statistics
Matches: 273, Mismatches: 52, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
138 123 0.45
139 99 0.36
140 36 0.13
141 15 0.05
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (139 bp):
CCCCAAACAGTTAGCGAGAGTTCAAAGCTCTCAACTGTAATATTAACGCTCACAAGTAAAGTACC
GTAGACCCCAAATAGTTACCAAGAGTTCAAAACTCCCAGCTGTAATATTAAGGATCACAGGTAAA
GTATCATAG
Found at i:30374510 original size:72 final size:72
Alignment explanation
Indices: 30374201--30374651 Score: 370
Period size: 72 Copynumber: 6.4 Consensus size: 72
30374191 ATTACCTTAG
* * * * * *
30374201 CCCCCAAATAGTTAGCAAGAGTTCAAAA-CTTCCAGCTGT-AATATTAAGGCTCACGGA-TAAAG
1 CCCCCAAATAGTTAGCGAGAGTT-AAAAGCTCCCAACTGTCATTATTAAGGCTCACAGATTCAAG
* **
30374263 TATCATAG-
65 -ACCGCAGC
* * * * * *
30374271 -CCCCAAACAGTT-GCGAGAGTTCAAAGCTCTCAACTGT-AATATTAAGGCTCACA-AGTAAAGT
1 CCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCACAGATTCAAG-
*
30374332 ACCGTAG-
65 ACCGCAGC
* * * * * * * * *
30374339 ACCCCAAATAGTTACCAAGAGTTCAAAGCTCCCAGCTGT-AATATTAAGGATCACAG-GTAAAGT
1 CCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCACAGATTCAAG-
30374402 ACCGCAG-
65 ACCGCAGC
** * * * *
30374409 CCCCCAAATAGTTAATGAGAGTTAAAAGCTCCCAATTGTCATTATTAAGGCTCACAGGTTTAAGG
1 CCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCACAGATTCAAGA
*
30374474 CTGCAGC
66 CCGCAGC
* ** *
30374481 CCCCCAAATAGTTAGCGATAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGTAGATTCAATA
1 CCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCACAGATTCAAGA
** *
30374546 CTACAGT
66 CCGCAGC
* * *
30374553 CCGCCAAATAGTTAG-GTAGAGTTAAAAGCTCCCAGCTGTCATTATTAAGGCTCACAGATTCAAT
1 CCCCCAAATAGTTAGCG-AGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCACAGATTCAAG
30374617 ACCGCAGC
65 ACCGCAGC
* *
30374625 CCCTCAAATAGTTAGCGAAAGTTAAAA
1 CCCCCAAATAGTTAGCGAGAGTTAAAA
30374652 TATCTCAGTT
Statistics
Matches: 319, Mismatches: 52, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
67 4 0.01
68 42 0.13
69 22 0.07
70 81 0.25
71 21 0.07
72 148 0.46
73 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (72 bp):
CCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCACAGATTCAAGA
CCGCAGC
Found at i:30375196 original size:27 final size:27
Alignment explanation
Indices: 30375155--30375212 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
30375145 TTAGCCCGCG
*
30375155 TTGTCATTCTTAGCAAAAGGGACCACA
1 TTGTCATTCTCAGCAAAAGGGACCACA
** *
30375182 TTGTCATTCTCAGCAGGAGGGTCCACA
1 TTGTCATTCTCAGCAAAAGGGACCACA
30375209 TTGT
1 TTGT
30375213 TGTTCACAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (27 bp):
TTGTCATTCTCAGCAAAAGGGACCACA
Found at i:30375225 original size:27 final size:27
Alignment explanation
Indices: 30375172--30375226 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
30375162 TCTTAGCAAA
* *
30375172 AGGGACCACATTGTCATTCTCAGCAGG
1 AGGGACCACATTGTCATTCACAACAGG
* **
30375199 AGGGTCCACATTGTTGTTCACAACAGG
1 AGGGACCACATTGTCATTCACAACAGG
30375226 A
1 A
30375227 TGAGTCATGT
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:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (27 bp):
AGGGACCACATTGTCATTCACAACAGG
Found at i:30375301 original size:27 final size:27
Alignment explanation
Indices: 30375268--30375323 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
30375258 CATCTAAGTA
* *
30375268 TCATTCTTAGCAGGAGGGACCACATTG
1 TCATTCTCAGCAGGAAGGACCACATTG
* *
30375295 TCATTCTCAGTAGGAAGGTCCACATTG
1 TCATTCTCAGCAGGAAGGACCACATTG
30375322 TC
1 TC
30375324 GTTCATGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (27 bp):
TCATTCTCAGCAGGAAGGACCACATTG
Found at i:30375351 original size:110 final size:110
Alignment explanation
Indices: 30375158--30375487 Score: 534
Period size: 110 Copynumber: 3.0 Consensus size: 110
30375148 GCCCGCGTTG
* * * *
30375158 TCATTCTTAGCAAAAGGGACCACATTGTCATTCTCAGCAGGAGGGTCCACATTGTTGTTCACAAC
1 TCATTCTTAGCAAGAGGGACCACATTGTCATTCTCAGAAGGAGGGTCCACATTGTCGTTCACGAC
30375223 AGGATGAGTCATGTTGTCATTCTCAACTGGGTCCTCATCTAAGTA
66 AGGATGAGTCATGTTGTCATTCTCAACTGGGTCCTCATCTAAGTA
* * * *
30375268 TCATTCTTAGCAGGAGGGACCACATTGTCATTCTCAGTAGGAAGGTCCACATTGTCGTTCATGAC
1 TCATTCTTAGCAAGAGGGACCACATTGTCATTCTCAGAAGGAGGGTCCACATTGTCGTTCACGAC
*
30375333 AGGATGAGTCATGTTGTCATTCTCAACTAGGTCCTCATCTAAGTA
66 AGGATGAGTCATGTTGTCATTCTCAACTGGGTCCTCATCTAAGTA
* * * * *
30375378 TCATTTTTAGCAAGAGGGATCATATTGTCATTCTCAGAAGGAGGGTTCACATTGTCATTCACGAC
1 TCATTCTTAGCAAGAGGGACCACATTGTCATTCTCAGAAGGAGGGTCCACATTGTCGTTCACGAC
30375443 AGGATGAGTCATGTTGTCATTCTCAACTGGGTCCTCATCTAAGTA
66 AGGATGAGTCATGTTGTCATTCTCAACTGGGTCCTCATCTAAGTA
30375488 GGAATCCTGT
Statistics
Matches: 202, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 202 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (110 bp):
TCATTCTTAGCAAGAGGGACCACATTGTCATTCTCAGAAGGAGGGTCCACATTGTCGTTCACGAC
AGGATGAGTCATGTTGTCATTCTCAACTGGGTCCTCATCTAAGTA
Found at i:30375412 original size:56 final size:56
Alignment explanation
Indices: 30375231--30375413 Score: 155
Period size: 56 Copynumber: 3.3 Consensus size: 56
30375221 ACAGGATGAG
* *
30375231 TCATGTTGTCATTCTCAACTGGGTCCTCATCTAAGTATCATTCTTAGCAGGAGGGA
1 TCATATTGTCATTCTCAACTAGGTCCTCATCTAAGTATCATTCTTAGCAGGAGGGA
* * ** * * * *
30375287 CCACATTGTCATTCTCAGTAGGAAGGTCCACAT-T--G--TCGTTCAT-GACAGGA-TGA
1 TCATATTGTCATTCTCA--A-CTAGGTCCTCATCTAAGTATCATTCTTAG-CAGGAGGGA
* * *
30375340 GTCATGTTGTCATTCTCAACTAGGTCCTCATCTAAGTATCATTTTTAGCAAGAGGGA
1 -TCATATTGTCATTCTCAACTAGGTCCTCATCTAAGTATCATTCTTAGCAGGAGGGA
30375397 TCATATTGTCATTCTCA
1 TCATATTGTCATTCTCA
30375414 GAAGGAGGGT
Statistics
Matches: 93, Mismatches: 22, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
51 9 0.10
52 2 0.02
53 3 0.03
54 26 0.28
56 40 0.43
57 3 0.03
58 2 0.02
59 8 0.09
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (56 bp):
TCATATTGTCATTCTCAACTAGGTCCTCATCTAAGTATCATTCTTAGCAGGAGGGA
Found at i:30378312 original size:88 final size:88
Alignment explanation
Indices: 30378151--30378313 Score: 209
Period size: 88 Copynumber: 1.9 Consensus size: 88
30378141 GGGGACTGCA
* * **
30378151 TGCTCCACAGGCAACCCAGAGTGAAACACATGTCCAGCAGGCCTGAAGCCCGCACCGAATGTTAG
1 TGCTCCACAAGCAACCCAGAGTGAAACACATGTCCAGCAGGCCTGAAGCCAGCACCGAATGCCAG
30378216 TACTAGGAACAGAAAGGACCATG
66 TACTAGGAACAGAAAGGACCATG
* * * * * * * *
30378239 TGCTCCACAAGCGACCTAGAGTGAAACACGTGTCGAGCGGGTCTGGAGCCAGCACGGAATGCCAG
1 TGCTCCACAAGCAACCCAGAGTGAAACACATGTCCAGCAGGCCTGAAGCCAGCACCGAATGCCAG
*
30378304 TGCTAGGAAC
66 TACTAGGAAC
30378314 GGCGAAGTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
88 62 1.00
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.14
Consensus pattern (88 bp):
TGCTCCACAAGCAACCCAGAGTGAAACACATGTCCAGCAGGCCTGAAGCCAGCACCGAATGCCAG
TACTAGGAACAGAAAGGACCATG
Found at i:30384016 original size:45 final size:45
Alignment explanation
Indices: 30383936--30384030 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 45
30383926 GAGCAGGTTA
* * **
30383936 ATCATGATTCAAACAAATAAGACCATAGTTGAAAGATGCTATGAC
1 ATCATAATTCAAACAAATAAGACCATACTTGAAAGACACTATGAC
* * *
30383981 ATCATAATTCAAACGAGTAAGACCATAACTT-AAAGACACTATGGC
1 ATCATAATTCAAACAAATAAGACCAT-ACTTGAAAGACACTATGAC
30384026 ATCAT
1 ATCAT
30384031 GACGGAAGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 39 0.93
46 3 0.07
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (45 bp):
ATCATAATTCAAACAAATAAGACCATACTTGAAAGACACTATGAC
Found at i:30384073 original size:45 final size:44
Alignment explanation
Indices: 30383995--30384108 Score: 122
Period size: 45 Copynumber: 2.5 Consensus size: 44
30383985 TAATTCAAAC
* * * *
30383995 GAGTAAGACCATAACTTAAAGACACTATGGCATCATGACGGAAGT-
1 GAGTAAGACCATAGCTAAAAGACACTATAGCATCAT-A-GGAAATA
** *
30384040 GAGTAAGACCATAGCTAAAAGACGTTATAGCATCATAGTAAATA
1 GAGTAAGACCATAGCTAAAAGACACTATAGCATCATAGGAAATA
*
30384084 GGACTAAGACCATAGCTAAAAGACA
1 -GAGTAAGACCATAGCTAAAAGACA
30384109 ATATGACATC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
43 4 0.07
44 1 0.02
45 53 0.91
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (44 bp):
GAGTAAGACCATAGCTAAAAGACACTATAGCATCATAGGAAATA
Found at i:30389908 original size:170 final size:171
Alignment explanation
Indices: 30389594--30389940 Score: 507
Period size: 170 Copynumber: 2.0 Consensus size: 171
30389584 TCTATCCACT
* * * *
30389594 GAATATACTGGAGTCCAACATTTTTTGTGGACTATCATGTTATATTTACAATGATTTTTGCGTGT
1 GAATATACTGGAGTCCAACATTTTTTGTAGACTATCATGTCATATTTACAATGATTTTGGCATGT
* * * *
30389659 TATCGGGGGCAGATGTAAAGCCTATGGGCTTGGCTCTTGATACTCAAGTGTCTTCTTGGTTGGTT
66 TATCGAGGGCAAATGTAAAGCCTACGGGCTTGGCACTTGATACTCAAGTGTCTTCTTGGTTGGTT
* * *
30389724 TGGCTCGTTTGAGTTTTTTGGAATGTTTTGGGTGGATAACC
131 TGGCTCGTTTGAGTTTTCTAGAATATTTTGGGTGGATAACC
* * * *
30389765 GAATATACTGGAGTCCAATATTTTTTGTAGACTATCGTGTCATATTTATAGTGATTTTGGCATGT
1 GAATATACTGGAGTCCAACATTTTTTGTAGACTATCATGTCATATTTACAATGATTTTGGCATGT
* * *
30389830 TATC-AGGGCAAATGTAAAGCCTACGGGCTTGGCACTTGATGCTTAAGTGTCTTCTTGGTTTGTT
66 TATCGAGGGCAAATGTAAAGCCTACGGGCTTGGCACTTGATACTCAAGTGTCTTCTTGGTTGGTT
*
30389894 TGGCTCGTTTGAGTTTTCTAGCATATTTTGGGTGGATAACC
131 TGGCTCGTTTGAGTTTTCTAGAATATTTTGGGTGGATAACC
*
30389935 GCATAT
1 GAATAT
30389941 CCGTATCTGT
Statistics
Matches: 156, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
170 95 0.61
171 61 0.39
ACGTcount: A:0.21, C:0.14, G:0.25, T:0.40
Consensus pattern (171 bp):
GAATATACTGGAGTCCAACATTTTTTGTAGACTATCATGTCATATTTACAATGATTTTGGCATGT
TATCGAGGGCAAATGTAAAGCCTACGGGCTTGGCACTTGATACTCAAGTGTCTTCTTGGTTGGTT
TGGCTCGTTTGAGTTTTCTAGAATATTTTGGGTGGATAACC
Found at i:30393343 original size:129 final size:130
Alignment explanation
Indices: 30393180--30393456 Score: 398
Period size: 130 Copynumber: 2.2 Consensus size: 130
30393170 GATTTAGATA
* * *
30393180 TTCTTAGTTCTTT--AAACTACGGTCTTTGCTTTTGTGTTTTTTCAGTTC-AATTAAAATGGGTT
1 TTCTTAGCTCTTTGCAAACTACAGTCTTTACTTTTGTGTTTTTTCAGTTCAAATTAAAATGGGTT
* **
30393242 TGTTTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGCCCCTTTTGTTGATTTTTTTG
66 TGTCTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGCCCCTTTTGTTGATTTTACTG
* * * *
30393307 TTCTTAGCTCTTTGCAAATTACAGTCTTTACTTTTGTGTTTTTTCGGTTCAAATTTAAATTGGTT
1 TTCTTAGCTCTTTGCAAACTACAGTCTTTACTTTTGTGTTTTTTCAGTTCAAATTAAAATGGGTT
* * *
30393372 TGTCTGTTTTTACTTTTTTTGTACTGTTTGATTCTTATTGATTGCTCCTTTTGTTGATTTTACTG
66 TGTCTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGCCCCTTTTGTTGATTTTACTG
* *
30393437 TTCTTAGCTATTGGCAAACT
1 TTCTTAGCTCTTTGCAAACT
30393457 GCACAACATT
Statistics
Matches: 131, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
127 12 0.09
129 31 0.24
130 88 0.67
ACGTcount: A:0.16, C:0.13, G:0.15, T:0.56
Consensus pattern (130 bp):
TTCTTAGCTCTTTGCAAACTACAGTCTTTACTTTTGTGTTTTTTCAGTTCAAATTAAAATGGGTT
TGTCTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGCCCCTTTTGTTGATTTTACTG
Found at i:30393839 original size:32 final size:30
Alignment explanation
Indices: 30393753--30393849 Score: 140
Period size: 30 Copynumber: 3.2 Consensus size: 30
30393743 GGATTGAAGT
30393753 TTTATATGAGCATGCTGGGAAGGGTATAGG
1 TTTATATGAGCATGCTGGGAAGGGTATAGG
* * *
30393783 TTTATATGAGCCTGCTGGGAAGGGTGTAAG
1 TTTATATGAGCATGCTGGGAAGGGTATAGG
*
30393813 TTTATATGAGCATATGTTGGGAAGGGTATAGG
1 TTTATATGAGC--ATGCTGGGAAGGGTATAGG
30393845 TTTAT
1 TTTAT
30393850 GTATTTAAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
30 38 0.66
32 20 0.34
ACGTcount: A:0.26, C:0.06, G:0.34, T:0.34
Consensus pattern (30 bp):
TTTATATGAGCATGCTGGGAAGGGTATAGG
Found at i:30395449 original size:26 final size:26
Alignment explanation
Indices: 30395418--30395520 Score: 143
Period size: 26 Copynumber: 4.0 Consensus size: 26
30395408 ACACCAATAC
*
30395418 CGCAGCAAAGCTGCCAGTAATAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* *
30395444 CACAGCAAAGCTGCTAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* * *
30395470 TGCAGCAGAGCTGCCAGTATCAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
*
30395496 CGCAGCAAAGCTACCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
30395521 TTTGTGGCAA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 65 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:30395546 original size:52 final size:52
Alignment explanation
Indices: 30395419--30395546 Score: 125
Period size: 52 Copynumber: 2.5 Consensus size: 52
30395409 CACCAATACC
** * *
30395419 GCAGCAAAGCTGCCAGTAAT-AGTAACACAGCAAAGCTGCTAGTAACAGTAAT
1 GCAGCAAAGCCACCAGT-ATCAGTAACACAGCAAAGCTACCAGTAACAGTAAT
* ** * *
30395471 GCAGCAGAGCTGCCAGTATCAGTAACGCAGCAAAGCTACCAGTAACAGTATTT
1 GCAGCAAAGCCACCAGTATCAGTAACACAGCAAAGCTACCAGTAACAGTA-AT
**
30395524 GTGGCAAAGCCACCAGTA-CAGTA
1 GCAGCAAAGCCACCAGTATCAGTA
30395547 TACTTCCCCT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
51 2 0.03
52 48 0.75
53 14 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (52 bp):
GCAGCAAAGCCACCAGTATCAGTAACACAGCAAAGCTACCAGTAACAGTAAT
Found at i:30395745 original size:27 final size:27
Alignment explanation
Indices: 30395715--30395885 Score: 238
Period size: 27 Copynumber: 6.3 Consensus size: 27
30395705 TATAATGGTC
*
30395715 ATTTTACCCTAT-AAGGGTATTTC-AGTA
1 ATTTTACCC-ATCGAGGGTATTTCGA-TA
*
30395742 ATTTTACCCATCGAGGGTATTTCGATC
1 ATTTTACCCATCGAGGGTATTTCGATA
*
30395769 ATTTTACCCATCGGGGGTATTTCGATA
1 ATTTTACCCATCGAGGGTATTTCGATA
* *
30395796 ATTTTACCCATCAAGGGTATTTCAATA
1 ATTTTACCCATCGAGGGTATTTCGATA
*
30395823 ATTTTATCCATCGAGGGTATTTCGATA
1 ATTTTACCCATCGAGGGTATTTCGATA
*
30395850 ATTTTACCCATCGAGGGTATTTCGGTA
1 ATTTTACCCATCGAGGGTATTTCGATA
*
30395877 GTTTTACCC
1 ATTTTACCC
30395886 CATTTCGGCC
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.02
27 126 0.98
28 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.39
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTCGATA
Found at i:30395801 original size:81 final size:81
Alignment explanation
Indices: 30395715--30395885 Score: 272
Period size: 81 Copynumber: 2.1 Consensus size: 81
30395705 TATAATGGTC
* *
30395715 ATTTTACCCTAT-AAGGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCGATCATTTTACCCA
1 ATTTTACCC-ATCAAGGGTATTTCAATAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCA
*
30395779 TCGGGGGTATTTCGATA
65 TCGAGGGTATTTCGATA
*
30395796 ATTTTACCCATCAAGGGTATTTCAATAATTTTATCCATCGAGGGTATTTCGATAATTTTACCCAT
1 ATTTTACCCATCAAGGGTATTTCAATAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCAT
*
30395861 CGAGGGTATTTCGGTA
66 CGAGGGTATTTCGATA
*
30395877 GTTTTACCC
1 ATTTTACCC
30395886 CATTTCGGCC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 2 0.02
81 81 0.98
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.39
Consensus pattern (81 bp):
ATTTTACCCATCAAGGGTATTTCAATAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCAT
CGAGGGTATTTCGATA
Found at i:30399472 original size:36 final size:37
Alignment explanation
Indices: 30399396--30399476 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 37
30399386 GTAGTAAAGC
* * *
30399396 AAAGCAGTAATCCAGAATTTTCCCTGAAAATTCTAATCG
1 AAAGCAATAAGCCAGAAATTTCCCTG--AATTCTAATCG
30399435 AAAGCAATAAGCCAGAAATTTCCCTG-ATTCTAATCG
1 AAAGCAATAAGCCAGAAATTTCCCTGAATTCTAATCG
30399471 AAAGCA
1 AAAGCA
30399477 GTAAAGCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
36 16 0.41
39 23 0.59
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.25
Consensus pattern (37 bp):
AAAGCAATAAGCCAGAAATTTCCCTGAATTCTAATCG
Found at i:30399502 original size:22 final size:22
Alignment explanation
Indices: 30399474--30399516 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
30399464 CTAATCGAAA
30399474 GCAGTAAAGCAAAAGAAGTAAT
1 GCAGTAAAGCAAAAGAAGTAAT
* * *
30399496 GCAGTAAGGCACAAGCAGTAA
1 GCAGTAAAGCAAAAGAAGTAA
30399517 AGCAAAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.26, T:0.12
Consensus pattern (22 bp):
GCAGTAAAGCAAAAGAAGTAAT
Found at i:30399552 original size:13 final size:13
Alignment explanation
Indices: 30399471--30399546 Score: 52
Period size: 13 Copynumber: 5.8 Consensus size: 13
30399461 ATTCTAATCG
30399471 AAAGCAGTAAAGC
1 AAAGCAGTAAAGC
*
30399484 AAA--AG--AAGT
1 AAAGCAGTAAAGC
* *
30399493 AATGCAGTAAGGC
1 AAAGCAGTAAAGC
30399506 ACAAGCAGTAAAGC
1 A-AAGCAGTAAAGC
30399520 AAAAGAAGCAGTAAAGC
1 ---A-AAGCAGTAAAGC
30399537 AAAGCAGTAA
1 AAAGCAGTAA
30399547 GCCAAAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 16
0.68 0.10 0.23
Matches are distributed among these distances:
9 5 0.10
11 4 0.08
13 15 0.31
14 11 0.23
17 13 0.27
ACGTcount: A:0.54, C:0.13, G:0.24, T:0.09
Consensus pattern (13 bp):
AAAGCAGTAAAGC
Found at i:30399553 original size:30 final size:31
Alignment explanation
Indices: 30399472--30399546 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 31
30399462 TTCTAATCGA
*
30399472 AAGCAGTAAAGCAAAAGAAGTAATGCAGTAAGGCAC
1 AAGCAGTAAAGC--AA-AAG-AA-GCAGTAAAGCAC
30399508 AAGCAGTAAAGCAAAAGAAGCAGTAAAGCA-
1 AAGCAGTAAAGCAAAAGAAGCAGTAAAGCAC
30399538 AAGCAGTAA
1 AAGCAGTAA
30399547 GCCAAAATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
30 9 0.24
31 10 0.26
32 2 0.05
33 3 0.08
34 2 0.05
36 12 0.32
ACGTcount: A:0.53, C:0.13, G:0.24, T:0.09
Consensus pattern (31 bp):
AAGCAGTAAAGCAAAAGAAGCAGTAAAGCAC
Found at i:30400198 original size:22 final size:21
Alignment explanation
Indices: 30400172--30400238 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
30400162 TATTTATTAT
30400172 TTATATTTATTCATATAATAAA
1 TTATATTTATT-ATATAATAAA
*
30400194 TTATATTAATTATATTAATATAA
1 TTATATTTATTATA-TAATA-AA
*
30400217 TT-TA-TTATT-TTTAATAAA
1 TTATATTTATTATATAATAAA
30400235 TTAT
1 TTAT
30400239 TTAATATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 4 0.10
19 6 0.15
20 1 0.03
21 7 0.18
22 17 0.44
23 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATATTTATTATATAATAAA
Found at i:30400209 original size:27 final size:26
Alignment explanation
Indices: 30400167--30400226 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
30400157 ATACATATTT
*
30400167 ATTATTTATATTTATTCATATAATAA
1 ATTATTTATATTTATTAATATAATAA
**
30400193 ATTATATTA-ATTATATTAATATAATTT
1 ATTAT-TTATATT-TATTAATATAATAA
30400220 ATTATTT
1 ATTATTT
30400227 TTAATAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTATTTATATTTATTAATATAATAA
Found at i:30400986 original size:16 final size:16
Alignment explanation
Indices: 30400965--30401020 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
30400955 TAAATTATTA
30400965 ATTACAGTTCTATTTC
1 ATTACAGTTCTATTTC
** *
30400981 ATTACAACTCTATTAC
1 ATTACAGTTCTATTTC
*
30400997 ATTACAGTTTTA-TTC
1 ATTACAGTTCTATTTC
30401012 TATTACAGT
1 -ATTACAGT
30401021 CCCATTCTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
15 2 0.06
16 30 0.94
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.46
Consensus pattern (16 bp):
ATTACAGTTCTATTTC
Found at i:30404141 original size:16 final size:17
Alignment explanation
Indices: 30404117--30404163 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
30404107 TGCCAAGTTC
30404117 ATGCATATCATAACAAA
1 ATGCATATCATAACAAA
* **
30404134 AT-CATATC-TAAGATT
1 ATGCATATCATAACAAA
30404149 ATGCATATCATAACA
1 ATGCATATCATAACA
30404164 CATGCATTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
15 6 0.25
16 12 0.50
17 6 0.25
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.30
Consensus pattern (17 bp):
ATGCATATCATAACAAA
Found at i:30404168 original size:16 final size:16
Alignment explanation
Indices: 30404116--30404170 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
30404106 TTGCCAAGTT
30404116 CATGCATATCATAACAA
1 CATGCATATCATAAC-A
* *
30404133 AAT-CATATC-TAAGA
1 CATGCATATCATAACA
*
30404147 TTATGCATATCATAACA
1 -CATGCATATCATAACA
30404164 CATGCAT
1 CATGCAT
30404171 TGATTAGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
14 1 0.03
15 5 0.17
16 18 0.60
17 6 0.20
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (16 bp):
CATGCATATCATAACA
Found at i:30410067 original size:16 final size:15
Alignment explanation
Indices: 30410046--30410076 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30410036 GGATCTCCTC
*
30410046 TTTTTTTCCCCCTTT
1 TTTTTTTTCCCCTTT
30410061 TTTTTTTTCCCCTTT
1 TTTTTTTTCCCCTTT
30410076 T
1 T
30410077 AACTACAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTTTCCCCTTT
Found at i:30410868 original size:4 final size:4
Alignment explanation
Indices: 30410861--30410931 Score: 108
Period size: 4 Copynumber: 18.0 Consensus size: 4
30410851 ACTTGCTTGA
* **
30410861 TATG TATG TATG TATG TATG TATG TATG TAAG TACA T-TG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
30410908 TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG
30410932 ATGATGCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 1 0.02
4 60 0.98
ACGTcount: A:0.27, C:0.01, G:0.24, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:30420029 original size:2 final size:2
Alignment explanation
Indices: 30420024--30420070 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
30420014 ATATATATAT
30420024 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
30420066 GA GA G
1 GA GA G
30420071 GGGTTAGTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:30428168 original size:74 final size:74
Alignment explanation
Indices: 30428047--30428195 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
30428037 GTGTCTAGTA
30428047 ATCGCCAGATGTGTGTTAACTATTATTATTTTTAGTATGAGTGTATTGTTATGCTTCTAAAAACT
1 ATCGCCAGATGTGTGTTAACTATTATTATTTTTAGTATGAGTGTATTGTTATGCTTCTAAAAACT
30428112 TAAGTTTTT
66 TAAGTTTTT
* *
30428121 ATCGCCAGATGTGTGTTAACTATTATTTTTTTTAGTATGATTGTATTGTTATGCTTCTAAAAACT
1 ATCGCCAGATGTGTGTTAACTATTATTATTTTTAGTATGAGTGTATTGTTATGCTTCTAAAAACT
30428186 TAAGTTTTT
66 TAAGTTTTT
30428195 A
1 A
30428196 AACTAAGTTC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.48
Consensus pattern (74 bp):
ATCGCCAGATGTGTGTTAACTATTATTATTTTTAGTATGAGTGTATTGTTATGCTTCTAAAAACT
TAAGTTTTT
Found at i:30432455 original size:27 final size:27
Alignment explanation
Indices: 30432425--30432602 Score: 164
Period size: 27 Copynumber: 6.6 Consensus size: 27
30432415 ATATTGAGCC
* *
30432425 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
30432452 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
30432479 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
30432507 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
30432534 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
30432561 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
30432588 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30432603 GTACAATTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 2 0.02
27 101 0.80
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30432564 original size:82 final size:81
Alignment explanation
Indices: 30432446--30432601 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 81
30432436 TGCTATATAA
* * *
30432446 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCA-AACTCGC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACAAAGT-AGAA-TCGC
30432510 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
30432528 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACAAAGTAGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACAAAGTAGAATCGCA
30432592 CACTTAGTGC
65 CACTTAGTGC
30432602 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACAAAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30446523 original size:20 final size:20
Alignment explanation
Indices: 30446498--30446535 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
30446488 GTAAATACTC
30446498 TAACATTGGTGACTTGTCTG
1 TAACATTGGTGACTTGTCTG
30446518 TAACATTGGTGACTTGTC
1 TAACATTGGTGACTTGTC
30446536 CACATATACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (20 bp):
TAACATTGGTGACTTGTCTG
Found at i:30446675 original size:20 final size:20
Alignment explanation
Indices: 30446615--30446675 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
30446605 TTGCAGAAAA
30446615 GTGGCTTGTCTACAATACTG
1 GTGGCTTGTCTACAATACTG
*** * *
30446635 ACAGCTTGTTTGCAATACTG
1 GTGGCTTGTCTACAATACTG
*
30446655 GTGGCTTGTCCACAATACTG
1 GTGGCTTGTCTACAATACTG
30446675 G
1 G
30446676 CAGTGTATCC
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (20 bp):
GTGGCTTGTCTACAATACTG
Found at i:30446690 original size:40 final size:40
Alignment explanation
Indices: 30446615--30446710 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
30446605 TTGCAGAAAA
* *
30446615 GTGGCTTGTCTACAATACTGACAGCTTGTTTGCAA-TACTG
1 GTGGCTTGTCCACAATACTGACAGC-TGTTCGCAATTACTG
*
30446655 GTGGCTTGTCCACAATACTGGCAG-TGTATCCGCAATTACTG
1 GTGGCTTGTCCACAATACTGACAGCTGT-T-CGCAATTACTG
* *
30446696 GTGGTTTGACCACAA
1 GTGGCTTGTCCACAA
30446711 ACTAGTGTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
38 3 0.06
39 1 0.02
40 26 0.54
41 18 0.38
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (40 bp):
GTGGCTTGTCCACAATACTGACAGCTGTTCGCAATTACTG
Found at i:30463573 original size:24 final size:24
Alignment explanation
Indices: 30463546--30463596 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
30463536 TAATAGCAAC
30463546 AAAACAAAACAAAAGAAAAAAGAA
1 AAAACAAAACAAAAGAAAAAAGAA
** ** *
30463570 AAAATGAAACTCAAGAAGAAAGAA
1 AAAACAAAACAAAAGAAAAAAGAA
30463594 AAA
1 AAA
30463597 GAAAATAAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.76, C:0.08, G:0.12, T:0.04
Consensus pattern (24 bp):
AAAACAAAACAAAAGAAAAAAGAA
Found at i:30468968 original size:30 final size:30
Alignment explanation
Indices: 30468923--30468982 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
30468913 GACGACGATG
* * *
30468923 CAGGTCCATCAACAGCGCCCATACAATCAC
1 CAGGCCCAGCAACAGCACCCATACAATCAC
30468953 CAGGCCCAGCAACAGCACCCATACAATCAC
1 CAGGCCCAGCAACAGCACCCATACAATCAC
30468983 TGGGCCGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.42, G:0.13, T:0.10
Consensus pattern (30 bp):
CAGGCCCAGCAACAGCACCCATACAATCAC
Found at i:30469067 original size:18 final size:18
Alignment explanation
Indices: 30469044--30469086 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
30469034 TGCCAGGTGC
* *
30469044 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
30469062 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
30469080 GTTTCCT
1 GTATCCT
30469087 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:30472410 original size:26 final size:26
Alignment explanation
Indices: 30472372--30472422 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
30472362 TTATCTAACT
*
30472372 CAAGGCTCTTCGTGCACACCAATGGA
1 CAAGGCTCATCGTGCACACCAATGGA
* *
30472398 CAAGGCTCATCGTGCATATCAATGG
1 CAAGGCTCATCGTGCACACCAATGG
30472423 TCACAACACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (26 bp):
CAAGGCTCATCGTGCACACCAATGGA
Found at i:30475262 original size:17 final size:18
Alignment explanation
Indices: 30475234--30475277 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
30475224 GAAAATAAGT
*
30475234 AAGAAAAGAAAAATGAAA
1 AAGAAAAGAAAAAAGAAA
*
30475252 ATGAAAA-AAAAAAGAAA
1 AAGAAAAGAAAAAAGAAA
30475269 AAGAAAAGA
1 AAGAAAAGA
30475278 GCTTAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (18 bp):
AAGAAAAGAAAAAAGAAA
Found at i:30475264 original size:6 final size:6
Alignment explanation
Indices: 30475237--30475275 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
30475227 AATAAGTAAG
*
30475237 AAAAGA AAAATGA AAATGA AAAA-A AAAAGA AAAAGA AAA
1 AAAAGA AAAA-GA AAAAGA AAAAGA AAAAGA AAAAGA AAA
30475276 GAGCTTAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 5 0.17
6 19 0.66
7 5 0.17
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (6 bp):
AAAAGA
Found at i:30478393 original size:16 final size:15
Alignment explanation
Indices: 30478359--30478396 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
30478349 TTCTTAGACA
*
30478359 TTTTAA-TTACTTAG
1 TTTTAATTTAATTAG
30478373 TTTTAATTTAATTATG
1 TTTTAATTTAATTA-G
30478389 TTTTAATT
1 TTTTAATT
30478397 CCTACGACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 9 0.43
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (15 bp):
TTTTAATTTAATTAG
Found at i:30488671 original size:14 final size:14
Alignment explanation
Indices: 30488652--30488691 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
30488642 TCGATTGCGA
30488652 GTAAAATGTTTTCT
1 GTAAAATGTTTTCT
*
30488666 GTAAAATGATTTCT
1 GTAAAATGTTTTCT
30488680 GTAAAATGTTTT
1 GTAAAATGTTTT
30488692 ACTTTTCTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (14 bp):
GTAAAATGTTTTCT
Found at i:30488700 original size:20 final size:20
Alignment explanation
Indices: 30488675--30488714 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
30488665 TGTAAAATGA
*
30488675 TTTCTGTAAAATGTTTTACT
1 TTTCTGTAAAATGATTTACT
30488695 TTTCTGTAAAATGATTTACT
1 TTTCTGTAAAATGATTTACT
30488715 GGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.53
Consensus pattern (20 bp):
TTTCTGTAAAATGATTTACT
Found at i:30488703 original size:34 final size:35
Alignment explanation
Indices: 30488660--30488726 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
30488650 GAGTAAAATG
* *
30488660 TTTTCTGTAAAATGATTT-CTGTAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
30488694 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
30488727 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.49
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:30488730 original size:14 final size:15
Alignment explanation
Indices: 30488654--30488730 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
30488644 GATTGCGAGT
*
30488654 AAAATG-TTTTCTGT
1 AAAATGATTTTCTGG
*
30488668 AAAATGA-TTTCTGT
1 AAAATGATTTTCTGG
*
30488682 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
30488702 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
30488717 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
30488731 TGTTTGATTG
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
14 27 0.51
15 11 0.21
16 1 0.02
18 1 0.02
20 13 0.25
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.45
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:30499420 original size:38 final size:38
Alignment explanation
Indices: 30499363--30499439 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
30499353 CATCATACAA
30499363 CGCTGGAATATTGTCGGGGCATTACATAACCCAAATGG
1 CGCTGGAATATTGTCGGGGCATTACATAACCCAAATGG
* *
30499401 CGCTGGAATGTTG-CTGGGGCATTACATAACCCGAATGG
1 CGCTGGAATATTGTC-GGGGCATTACATAACCCAAATGG
30499439 C
1 C
30499440 ATTCTTCTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 1 0.03
38 35 0.97
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (38 bp):
CGCTGGAATATTGTCGGGGCATTACATAACCCAAATGG
Found at i:30509594 original size:48 final size:48
Alignment explanation
Indices: 30509522--30509616 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
30509512 CCTACACCTG
*
30509522 TATTCACACAAAACCACACCTTTCCTCCTAAAGTGATAAAAGTAACAT
1 TATTCACACAAAACCACACCTTTCCTCCCAAAGTGATAAAAGTAACAT
* *
30509570 TATTCACACAAAACCACACGTTTCCTCCCCAAGTGATAAAAGTAACA
1 TATTCACACAAAACCACACCTTTCCTCCCAAAGTGATAAAAGTAACA
30509617 AGTAACGACC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.23
Consensus pattern (48 bp):
TATTCACACAAAACCACACCTTTCCTCCCAAAGTGATAAAAGTAACAT
Found at i:30513802 original size:19 final size:19
Alignment explanation
Indices: 30513778--30513839 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
30513768 ATATATGTAT
30513778 ATAAAAGTTAGGAAGTAAA
1 ATAAAAGTTAGGAAGTAAA
* ** * *
30513797 ATAAAA-ATAAAAACCT-AT
1 ATAAAAGTTAGGAA-GTAAA
30513815 ATAAAAGTTAGGAAGTAAA
1 ATAAAAGTTAGGAAGTAAA
30513834 ATAAAA
1 ATAAAA
30513840 ATAAAAACCT
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
18 12 0.40
19 18 0.60
ACGTcount: A:0.63, C:0.03, G:0.13, T:0.21
Consensus pattern (19 bp):
ATAAAAGTTAGGAAGTAAA
Found at i:30513817 original size:37 final size:37
Alignment explanation
Indices: 30513775--30513851 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
30513765 TATATATATG
30513775 TATATAAAAGTTAGGAAGTAAAATAAAAATAAAAACC
1 TATATAAAAGTTAGGAAGTAAAATAAAAATAAAAACC
30513812 TATATAAAAGTTAGGAAGTAAAATAAAAATAAAAACC
1 TATATAAAAGTTAGGAAGTAAAATAAAAATAAAAACC
30513849 TAT
1 TAT
30513852 GTACAAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.61, C:0.05, G:0.10, T:0.23
Consensus pattern (37 bp):
TATATAAAAGTTAGGAAGTAAAATAAAAATAAAAACC
Found at i:30513953 original size:10 final size:10
Alignment explanation
Indices: 30513927--30513959 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
30513917 CATGCGCATG
30513927 AATAAA-AAT
1 AATAAATAAT
30513936 AA-AAATAAT
1 AATAAATAAT
30513945 AATAAATAAT
1 AATAAATAAT
30513955 AATAA
1 AATAA
30513960 TGATACAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.14
9 7 0.32
10 12 0.55
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AATAAATAAT
Found at i:30514465 original size:19 final size:19
Alignment explanation
Indices: 30514441--30514513 Score: 137
Period size: 19 Copynumber: 3.8 Consensus size: 19
30514431 AATCATATCT
30514441 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
30514460 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
30514479 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
30514498 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
30514514 CTTGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:30514490 original size:38 final size:39
Alignment explanation
Indices: 30514418--30514513 Score: 140
Period size: 38 Copynumber: 2.4 Consensus size: 39
30514408 AAATTAAATC
*
30514418 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA--TTCTAAGATTGCATATCATA
30514460 TCTAAGATTACATATCATA-TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATTCTAAGATTGCATATCATA
*
30514498 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
30514514 CTTGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
38 34 0.65
41 7 0.13
42 11 0.21
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (39 bp):
TCTAAGATTACATATCATATTCTAAGATTGCATATCATA
Found at i:30515111 original size:44 final size:44
Alignment explanation
Indices: 30515025--30516228 Score: 502
Period size: 44 Copynumber: 27.6 Consensus size: 44
30515015 TTCTAATCCA
* * ** * *
30515025 CTCCACTACAACTTTAGGGAGATGGGATTTG-TTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTT-CTTAGTCTG
* *
30515069 CCCCACTGCAATTTCAGGG-GATAAGACTTGATTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTT-AGTCTG
** * * * *
30515113 CTCCACTATAACTTCAGAGAGATAAGAC-TCACTTTCTTGGGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGA-TTTCTT-AGTCTG
* * * **
30515158 CTCCACTGTAACTTCAGAGAGATAAGATCTATGA-TT-TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
* * * *
30515202 CTCCACTGCAACCTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
* ***
30515246 CTCCACTGCAACTTCAGGGAGATAATA-TTCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GATTTCTT-AGTCTG
* * * * *
30515291 C-CTCACTACAACTACA-GGAGGATAAGGCTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTTCTTAGTCTG
* * * *
30515335 CTCCACTGCAACTTTAGAGAGATAAGATCTGTGA-TT-TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
* * * *
30515379 CTCCACTGCGACTTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
* *
30515423 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTT-AGTCTG
* ** * *
30515468 CTCCACTACAACTTCAGGGAGATAAGACCCGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
* * * * **
30515509 CT-CTCTGTAACTTCAGAGAGATAAGATCTATGA-TT-TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
* * * * *
30515552 CTCCACTGCAACTTTAGAGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
** * * *
30515596 CTCCACTAAAACTTCAGGGAGATAATA-TTCGCCATCT-TTAGTCAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-G--ATTTCTTAGTCTG
* * * * *
30515641 C-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTTGGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTTCTTAGTCTG
* * * *
30515685 CTCCACTACAACTTTAGGGAGATAAGACTAGA--TGTTA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
* ** * *
30515726 CT-CTCTGCAACTTCAAAGAGATAAGATCTGTGA-TT-TTACTCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
** * * *
30515769 CTCCACTGGGACTTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
* * * * *
30515813 CTCTACTACAACTTTAGGGAGATAAGACTCGCTTTCTTAGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTA-GTCTG
* *
30515858 CTCCACTGCAACTTCAGGGAGATAAGACTTGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
* * * **
30515899 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
* * * * *
30515942 CTCTACTGCAACTTTAGGG-GATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
* * * ***
30515985 CTCTACTACAACTTCAGAGAGATAAGA-TTCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GATTTCTT-AGTCTG
* * * *
30516030 C-CTCAGTACAACTTCA-GGAGGATAA-AGCTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-CTTGATTTCTTAGTCTG
* * * *
30516074 CTCCACTGCAACTTCAAGGAGATAAGACTAGA--TGTGA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
** * * *
30516115 CT-CTGTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
* ** * * *
30516158 CACCACTGGGACTTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
*
30516202 CTCCACTGCAACTTCAAGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
30516229 TTCACCATTT
Statistics
Matches: 867, Mismatches: 205, Indels: 176
0.69 0.16 0.14
Matches are distributed among these distances:
39 1 0.00
40 88 0.10
41 42 0.05
42 27 0.03
43 59 0.07
44 420 0.48
45 211 0.24
46 15 0.02
48 4 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
Found at i:30515339 original size:177 final size:177
Alignment explanation
Indices: 30515013--30515884 Score: 791
Period size: 177 Copynumber: 5.0 Consensus size: 177
30515003 ATTTCAGAGA
* * * * *** * *
30515013 GATTCTAATCCACTCCACTACAACTTTAGGGAGATGGGATT-TGTTTATTTAGTCTGCCCCACTG
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTAT-TGGCTTTAATCTGCTCCACTG
* * *** * *
30515077 CAATTTCAGGG-GATAAGACTT-GATTTCTTGAGTCTG-CTCCACTATAACTTCA-GAGAGATAA
65 CAACTTCAGGGAGATAATA-TTCGCCATCTTCAGTCTGCCT-CACTACAACTTCAGGAG-GATAA
* ** * * * *
30515138 GACTCACTTTCTTGGGTTTGCTCCACTGTAACTTCAGAGAGATAAGATCTAT
127 GGCTTGCTTACTT-AGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAT
*
30515190 GATTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
*
30515255 AACTTCAGGGAGATAATATTCGCCATCTTCAGTCTGCCTCACTACAACTACAGGAGGATAAGGCT
66 AACTTCAGGGAGATAATATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCT
* *
30515320 TGCTTACTTAGTCTGCTCCACTGCAACTTTAGAGAGATAAGATCTGT
131 TGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAT
* *
30515367 GATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
* ** **
30515432 AACTTCAGGGAGATAAGACTT-GCTTTCTTGGGTCTG-CTCCACTACAACTTCAGG-GAGATAAG
66 AACTTCAGGGAGATAATA-TTCGCCATCTTCAGTCTGCCT-CACTACAACTTCAGGAG-GATAAG
* ** * * * * *
30515494 ACCCG-ATGC-GA-TCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTAT
128 GCTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAT
* * **
30515540 GATTTTAATCCACTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTAA
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
* *
30515605 AACTTCAGGGAGATAATATTCGCCATCTTTAGTCAGCCTCACTACAACTTCAGGAGGATAAGGCT
66 AACTTCAGGGAGATAATATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCT
* * * *
30515670 TGCTTACTTGGTCTGCTCCACTACAACTTTAGGGAGATAAGA-CTA-
131 TGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAT
* ** * ** * * ** * *
30515715 GATGTT-ATCTGCT-CTCTGCAACTTCAAAGAGATAAGATCT-GTGATTTTACTCCGCTCCACTG
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGAT-TATTGGCTTTAATCTGCTCCACTG
** * * *
30515777 GGACTTCAGGGAGATAGGATTATT-GGC-T-TT-AATCTG-CTCTACTACAACTTTAGG-GAGAT
65 CAACTTCAGGGAGATA--A-TATTCGCCATCTTCAGTCTGCCTC-ACTACAACTTCAGGAG-GAT
* * * *
30515836 AAGACTCGCTTTCTTAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
125 AAGGCTTGCTTACTTA-GTCTGCTCCACTGCAACTTCAGAGAGATAAGA
30515885 CTTGATGCGA
Statistics
Matches: 578, Mismatches: 95, Indels: 48
0.80 0.13 0.07
Matches are distributed among these distances:
171 4 0.01
172 34 0.06
173 217 0.38
174 18 0.03
175 9 0.02
176 18 0.03
177 228 0.39
178 45 0.08
179 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (177 bp):
GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
AACTTCAGGGAGATAATATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCT
TGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAT
Found at i:30515341 original size:133 final size:132
Alignment explanation
Indices: 30515202--30516228 Score: 410
Period size: 133 Copynumber: 7.9 Consensus size: 132
30515192 TTTTAATCCA
* * * * *
30515202 CTCCACTGCAACCTCAGGGAGATAGGAT-TATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-GTGACTTTAATCCGCTCCACTGCAACTTCAGGGA
* *
30515266 GATA-A-TATTCGCCATCTTCAGTCTGC-CTCACTACAACTACA-GGAGGATAAGGCTTGCTTAC
65 GATAGATTATT-GCC-T-TT-AATCTGCTC-CACTACAACTACAGGGA-GATAAGACTTGCTTAC
30515327 TT-AGTCTG
124 TTGAGTCTG
* * * *
30515335 CTCCACTGCAACTTTAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCGACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGACTTTAATCCGCTCCACTGCAACTTCAGGGAG
* * * * *
30515400 ATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGGGT
66 ATA-GATTATTGCCTTTAATCTGCTCCACTACAACTACAGGGAGATAAGACTTGCTTACTTGAGT
30515465 CTG
130 CTG
* * * * * * * *
30515468 CTCCACTACAACTTCAGGGAGATAAGACCCGATG-C---GATCTGCT-CTCTGTAACTTCAGAGA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTG-TGACTTTAATCCGCTCCACTGCAACTTCAGGGA
** ** * ** * * * * *
30515528 GATAAGATCTA-TGATTTTAATCCACTCCACTGCAACTTTAGAGAGATAGGA-TT-ATTGGCTTT
65 GAT-AGAT-TATTGCCTTTAATCTGCTCCACTACAACTACAGGGAGATAAGACTTGCTT-ACTTG
*
30515590 AATCTG
127 AGTCTG
** * ** * * *
30515596 CTCCACTAAAACTTCAGGGAGATAATAT-TCGCCATCTTTAGTCAGC-CTCACTACAACTTCA-G
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-GTGA-CTTTAATCCGCTC-CACTGCAACTTCAGG
*** * ** ** * * *
30515658 GAGGATA-AGGCTTGCTTACTTGGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAG-AT-GT
63 GA-GATAGATTATTGCCT--TTAATCTGCTCCACTACAACTACAGGGAGATAAGACTTGCTTACT
30515720 T-A-TCTG
125 TGAGTCTG
* ** * * **
30515726 CT-CTCTGCAACTTCAAAGAGATAAGATCTGTGATTTTACTCCGCTCCACTGGGACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGACTTTAATCCGCTCCACTGCAACTTCAGGGAG
* * ** * *
30515790 ATAGGATTATTGGCTTTAATCTGCTCTACTACAACTTTAGGGAGATAAGACTCGCTTTCTT-AGG
66 ATA-GATTATTGCCTTTAATCTGCTCCACTACAACTACAGGGAGATAAGACTTGCTTACTTGA-G
30515854 TCTG
129 TCTG
*** * * *
30515858 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGA-TGCGATCTGCT-CTCTGCAACTTCAGAGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGACTTTAATCCGCTCCACTGCAACTTCAGGGAG
* ** ** * * ** * * * *
30515919 ATAAGATCT-GTGATTTTAATCCACTCTACTGCAACTTTAGGG-GATAGGA-TT-ATTGGCTTTA
66 AT-AGAT-TATTGCCTTTAATCTGCTCCACTACAACTACAGGGAGATAAGACTTGCTT-ACTTGA
*
30515980 ATCTG
128 GTCTG
* * * ** * * * * *
30515985 CTCTACTACAACTTCAGAGAGATAAGAT-TCGCCATCTTCAGTCTGC-CTCAGTACAACTTCA-G
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-GTGA-CTTTAATCCGCTC-CACTGCAACTTCAGG
*** * * * * * *
30516047 GAGGATA-AAGCTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAG---A-T
63 GA-GATAGATTATTGCCT--TTAATCTGCTCCACTACAACTACAGGGAGATAAGACTTGCTTACT
30516107 GTGA-TCTG
125 -TGAGTCTG
** * * * **
30516115 CT-CTGTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCACCACTGGGACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGACTTTAATCCGCTCCACTGCAACTTCAGGGAG
* * * *
30516179 ATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
66 ATA-GATTATTGCCTTTAATCTGCTCCACTACAACTACAGGGAGATAAGA
30516229 TTCACCATTT
Statistics
Matches: 674, Mismatches: 161, Indels: 123
0.70 0.17 0.13
Matches are distributed among these distances:
126 2 0.00
127 35 0.05
128 153 0.23
129 153 0.23
130 50 0.07
131 21 0.03
132 84 0.12
133 162 0.24
134 7 0.01
135 3 0.00
136 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (132 bp):
CTCCACTGCAACTTCAGGGAGATAAGATCTGTGACTTTAATCCGCTCCACTGCAACTTCAGGGAG
ATAGATTATTGCCTTTAATCTGCTCCACTACAACTACAGGGAGATAAGACTTGCTTACTTGAGTC
TG
Found at i:30515612 original size:217 final size:215
Alignment explanation
Indices: 30515335--30515888 Score: 654
Period size: 217 Copynumber: 2.5 Consensus size: 215
30515325 ACTTAGTCTG
* * ** * * *
30515335 CTCCACTGCAACTTTAGAGAGATAAGATCT-GTGATTTTAATCCGCTCCACTGCGACTTCAGGGA
1 CTCCACTGCAACTTTAGAGAGATAGGAT-TATTGGCTTTAATCTGCTCCACTACAACTTCAGGGA
* * *
30515399 GATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGGG
65 GATA-GATTATTGTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTT-GG
* * *
30515464 TCTGCTCCACTACAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTGTAACTTCAGAGAG
128 TCTGCTCCACTACAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAAAGAG
30515529 ATAAGATCTATGATTTTAATCCA
193 ATAAGATCTATGATTTTAATCCA
*
30515552 CTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTAAAACTTCAGGGAG
1 CTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAG
* * *
30515617 ATA-A-TATTCGCCATCTTTAGTCAGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACT
66 ATAGATTATT-G---TCTTTAGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACT
* * **
30515678 TGGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGATGTTATCTGCTCTCTGCAACTTCAAA
125 TGGTCTGCTCCACTACAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAAA
* * *
30515743 GAGATAAGATCTGTGATTTTACTCCG
190 GAGATAAGATCTATGATTTTAATCCA
** * * * *
30515769 CTCCACTGGGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCTACTACAACTTTAGGGAG
1 CTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAG
**
30515834 ATAAGACTCGCTT-TC-TTAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
66 AT-AGA-T-TATTGTCTTTA-GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
30515889 ATGCGATCTG
Statistics
Matches: 286, Mismatches: 36, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
214 4 0.01
215 2 0.01
216 4 0.01
217 231 0.81
218 42 0.15
219 1 0.00
222 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (215 bp):
CTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAG
ATAGATTATTGTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTGGTCT
GCTCCACTACAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATA
AGATCTATGATTTTAATCCA
Found at i:30515736 original size:173 final size:174
Alignment explanation
Indices: 30515060--30516016 Score: 788
Period size: 173 Copynumber: 5.5 Consensus size: 174
30515050 GATTTGTTTA
* * * * *** * *
30515060 TTTAGTCTGCCCCACTGCAATTTCAGGG-GATAAGACTTGATTTCTTGAGTCTGCTCCACTATAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAATA-TTGCCATCTTTAGTCTGCT-CACTACAA
* * * * *
30515124 CTTCAGAGAGATAAGACTCACTTTCTTGGGTTTGCTCCACTGTAACTTCAGAGAGATAAGATCTA
64 CTTCAGGGAGATAAGACTCGCTTACTT-GGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTA
* * * *
30515189 TGATTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGATTATTGGC
128 -GATGTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGC
*
30515237 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAATATTCGCCATCTTCAGTCTGCCTCACTACAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAATATT-GCCATCTTTAGTCTG-CTCACTACAA
* * * * *
30515302 CTACA-GGAGGATAAGGCTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGAGAGATAAGATCTG
64 CTTCAGGGA-GATAAGACTCGCTTACTTGGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-
* * * *
30515366 TGATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGC
127 AGATGTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGC
* ** **
30515414 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGGGTCTGCTCCACTACAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAATA-TTGCCATCTTTAGTCTGCT-CACTACAA
* * * * * *
30515479 CTTCAGGGAGATAAGACCCG-ATGC--GATCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTAT
64 CTTCAGGGAGATAAGACTCGCTTACTTGGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTA-
* * *
30515540 GATTTTAATCCACTCCACTGCAACTTTAGAGAGATAGGATTATTGGC
128 GATGTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGC
** *
30515587 TTTAATCTGCTCCACTAAAACTTCAGGGAGATAATATTCGCCATCTTTAGTCAGCCTCACTACAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAATATT-GCCATCTTTAGTCTG-CTCACTACAA
* * * * *
30515652 CTTCA-GGAGGATAAGGCTTGCTTACTTGGTCTGCTCCACTACAACTTTAGGGAGATAAGA-CTA
64 CTTCAGGGA-GATAAGACTCGCTTACTTGGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTA
* * * * * **
30515715 GATGTT-ATCTGCT-CTCTGCAACTTCAAAGAGATAAGATCT-GTGAT
128 GATGTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGAT-TATTGGC
* * ** * *
30515760 TTTACTCCGCTCCACTGGGACTTCAGGGAGATAGGATTATTG---GCTTTAATCTGCTCTACTAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATA--A-TATTGCCATCTTTAGTCTGCTC-ACTAC
* * *
30515822 AACTTTAGGGAGATAAGACTCGCTTTCTTAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C
62 AACTTCAGGGAGATAAGACTCGCTTACTT-GGTCTGCTCCACTGCAACTTCAGAGAGATAAGATC
* ** * * * * **
30515886 TTGATG-CGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCT-GTGAT
126 TAGATGTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGAT-TATTGGC
** * * * *
30515933 TTTAATCCACTCTACTGCAACTTTAGGG-GATAGGATTATTG---GCTTTAATCTGCTCTACTAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATA--A-TATTGCCATCTTTAGTCTGCTC-ACTAC
* *
30515994 AACTTCAGAGAGATAAGATTCGC
62 AACTTCAGGGAGATAAGACTCGC
30516017 CATCTTCAGT
Statistics
Matches: 657, Mismatches: 99, Indels: 53
0.81 0.12 0.07
Matches are distributed among these distances:
171 3 0.00
172 92 0.14
173 282 0.43
174 16 0.02
175 7 0.01
176 18 0.03
177 190 0.29
178 47 0.07
179 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (174 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAATATTGCCATCTTTAGTCTGCTCACTACAACT
TCAGGGAGATAAGACTCGCTTACTTGGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAGAT
GTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGC
Found at i:30515873 original size:350 final size:354
Alignment explanation
Indices: 30515071--30515884 Score: 1076
Period size: 350 Copynumber: 2.3 Consensus size: 354
30515061 TTAGTCTGCC
* * * * *
30515071 CCACTGCAATTTCAGGG-GATAAGACTTGATTTCTTGAGTCTGCTCCACTATAACTTCAGAGAGA
1 CCACTGCAACTTCAGGGAGATAAGACTTGATTGCTTGAATCTGCTCCACTACAACTTCAGGGAGA
* *
30515135 TAAGACTCACTTTCTTGGGTTTGCTCCACTGTAACTTCAGAGAGATAAGATCTATGATTTTAATC
66 TAAGACTCGCTTTCTT-GGTCTGCTCCACTGTAACTTCAGAGAGATAAGATCTATGATTTTAATC
* **
30515200 CACTCCACTGCAACCTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGG
130 CACTCCACTGCAACCTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTAAAACTTCAGGG
*
30515265 AGATAATATTCGCCATCTTCAGTCTGCCTCACTACAACTACAGGAGGATAAGGCTTGCTTACTTA
195 AGATAATATTCGCCATCTTCAGTCAGCCTCACTACAACTACAGGAGGATAAGGCTTGCTTACTTA
* * * *
30515330 GTCTGCTCCACTGCAACTTTAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCGACTTCA
260 GTCTGCTCCACTACAACTTTAGAGAGATAAGATCTGAGATGTTAATCCGCTCCACTGCAACTTCA
** * * * *
30515395 GGGAGATAGGATTATTGGCTTTAATCTGCT
325 AAGAGATAAGATTAGTGACTTTAATCCGCT
* * **
30515425 CCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGGGTCTGCTCCACTACAACTTCAGGGAGA
1 CCACTGCAACTTCAGGGAGATAAGACTTGATTGCTTGAATCTGCTCCACTACAACTTCAGGGAGA
* * * * *
30515490 TAAGACCCG-ATGC--GATCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTATGATTTTAATCC
66 TAAGACTCGCTTTCTTGGTCTGCTCCACTGTAACTTCAGAGAGATAAGATCTATGATTTTAATCC
* *
30515551 ACTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTAAAACTTCAGGGA
131 ACTCCACTGCAACCTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTAAAACTTCAGGGA
* * *
30515616 GATAATATTCGCCATCTTTAGTCAGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTGG
196 GATAATATTCGCCATCTTCAGTCAGCCTCACTACAACTACAGGAGGATAAGGCTTGCTTACTTAG
* * *
30515681 TCTGCTCCACTACAACTTTAGGGAGATAAGA-CT-AGATGTT-ATCTGCT-CTCTGCAACTTCAA
261 TCTGCTCCACTACAACTTTAGAGAGATAAGATCTGAGATGTTAATCCGCTCCACTGCAACTTCAA
* *
30515742 AGAGATAAGATCT-GTGATTTTACTCCGCT
326 AGAGATAAGAT-TAGTGACTTTAATCCGCT
** * * * *
30515771 CCACTGGGACTTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTGCTCTACTACAACTTTAGGGAG
1 CCACTGCAACTTCAGGGAGATAAGACTTGATT-GCTTGAATCTGCTCCACTACAACTTCAGGGAG
* *
30515834 ATAAGACTCGCTTTCTTAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
65 ATAAGACTCGCTTTCTT-GGTCTGCTCCACTGTAACTTCAGAGAGATAAGA
30515885 CTTGATGCGA
Statistics
Matches: 399, Mismatches: 53, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
344 2 0.01
345 37 0.09
346 55 0.14
347 7 0.02
348 5 0.01
349 9 0.02
350 210 0.53
351 6 0.02
354 18 0.05
355 50 0.13
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (354 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGATTGCTTGAATCTGCTCCACTACAACTTCAGGGAGA
TAAGACTCGCTTTCTTGGTCTGCTCCACTGTAACTTCAGAGAGATAAGATCTATGATTTTAATCC
ACTCCACTGCAACCTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTAAAACTTCAGGGA
GATAATATTCGCCATCTTCAGTCAGCCTCACTACAACTACAGGAGGATAAGGCTTGCTTACTTAG
TCTGCTCCACTACAACTTTAGAGAGATAAGATCTGAGATGTTAATCCGCTCCACTGCAACTTCAA
AGAGATAAGATTAGTGACTTTAATCCGCT
Found at i:30515953 original size:217 final size:213
Alignment explanation
Indices: 30515509--30516230 Score: 615
Period size: 217 Copynumber: 3.3 Consensus size: 213
30515499 ATGCGATCTG
* * * *
30515509 CTCTCTGTAACTTCAGAGAGATAAGATCTATGATTTTAATCCACTCCACTGCAACTTTAGAGAGA
1 CTCTCTGCAACTTCAAAGAGATAAGATCTATGATTTTAATCCGCTCCACTGCAACTTCAGAGAGA
* * * **
30515574 TAGGATTATTGGCTTTAATCTGCTCCACTAAAACTTCAGGGAGATAATATTCGCCATCTTTAGTC
66 TAGGATTATTGGCTTTAATCTGCTCTACTACAACTTCAGGGAGATAA-ACTCGCTTTC-TTAGTC
* * * * * * * * * *
30515639 AGC-CTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTGGTCTGCTCCACTACAACTTTAGG
129 TGCTC-CACTGCAACTTCAGGA-GATAAGACTTG-ATGC--GATCTGCT-CTCTGCAACTTCAGA
* * **
30515703 GAGATAAGA-CT-AGATGTT-ATCTG
188 GAGATAAGATCTGTGATTTTAATCCA
* * ** *
30515726 CTCTCTGCAACTTCAAAGAGATAAGATCTGTGATTTTACTCCGCTCCACTGGGACTTCAGGGAGA
1 CTCTCTGCAACTTCAAAGAGATAAGATCTATGATTTTAATCCGCTCCACTGCAACTTCAGAGAGA
*
30515791 TAGGATTATTGGCTTTAATCTGCTCTACTACAACTTTAGGGAGATAAGACTCGCTTTCTTAGGTC
66 TAGGATTATTGGCTTTAATCTGCTCTACTACAACTTCAGGGAGATAA-ACTCGCTTTCTTA-GTC
30515856 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
129 TGCTCCACTGCAACTTCA-GGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
30515921 AAGATCTGTGATTTTAATCCA
193 AAGATCTGTGATTTTAATCCA
* * * * ** * * *
30515942 CTCTACTGCAACTT-TAGGGGATAGGAT-TATTGGCTTTAATCTGCTCTACTACAACTTCAGAGA
1 CTCT-CTGCAACTTCAAAGAGATAAGATCTA-TGATTTTAATCCGCTCCACTGCAACTTCAGAGA
* * * * * * *
30516005 GATAAGA-T-TCGCCATCTTCAGTCTGC-CTCAGTACAACTTCA-GGAGGATAAAGCTTGCTTAC
64 GATAGGATTATTGGC-T-TT-AATCTGCTCT-ACTACAACTTCAGGGA-GATAAA-CTCGCTTTC
* * *
30516066 TTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTCTGTGCAACTTCAG
123 TTAGTCTGCTCCACTGCAACTTC-AGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAG
30516131 AGAGATAAGATCTGTGATTTTAATCCGCA
187 AGAGATAAGATCTGTGATTTTAAT-C-CA
* ** ** * ** *
30516160 C-CACTGGGACTTCAGGGAGATAGGAT-TATTGGCTTTAATCTGCTCCACTGCAACTTCA-AGGA
1 CTCTCTGCAACTTCAAAGAGATAAGATCTA-TGATTTTAATCCGCTCCACTGCAACTTCAGA-GA
*
30516222 GATAAGATT
64 GATAGGATT
30516231 CACCATTTTC
Statistics
Matches: 422, Mismatches: 63, Indels: 39
0.81 0.12 0.07
Matches are distributed among these distances:
213 20 0.05
214 12 0.03
215 8 0.02
216 148 0.35
217 226 0.54
218 8 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (213 bp):
CTCTCTGCAACTTCAAAGAGATAAGATCTATGATTTTAATCCGCTCCACTGCAACTTCAGAGAGA
TAGGATTATTGGCTTTAATCTGCTCTACTACAACTTCAGGGAGATAAACTCGCTTTCTTAGTCTG
CTCCACTGCAACTTCAGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
ATCTGTGATTTTAATCCA
Found at i:30516088 original size:216 final size:218
Alignment explanation
Indices: 30515843--30516245 Score: 641
Period size: 216 Copynumber: 1.9 Consensus size: 218
30515833 GATAAGACTC
* * *
30515843 GCTTTCTTAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTCTGCA
1 GCTTACTTAGGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCA
* * *
30515908 ACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCTACTGCAACTTTAGGG-GATAGGATTAT
66 ACTTCAGAGAGATAAGATCTGTGATTTTAATCCACACCACTGCAACTTCAGGGAGATAGGATTAT
* *
30515972 TGGCTTTAATCTGCTCTACTACAACTTC-AGAGAGATAAGATTCGCCATCTTCAGTCTGCCTCAG
131 TGGCTTTAATCTGCTCCACTACAACTTCAAG-GAGATAAGATTCACCATCTTCAGTCTGCCTCAG
30516036 TACAACTTCAGGAGGATAAAGCTT
195 TACAACTTCAGGAGGATAAAGCTT
* *
30516060 GCTTACTTA-GTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTCTGTGCA
1 GCTTACTTAGGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCA
* **
30516124 ACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCACCACTGGGACTTCAGGGAGATAGGATTAT
66 ACTTCAGAGAGATAAGATCTGTGATTTTAATCCACACCACTGCAACTTCAGGGAGATAGGATTAT
* *
30516189 TGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCACCATTTTCAGTCT
131 TGGCTTTAATCTGCTCCACTACAACTTCAAGGAGATAAGATTCACCATCTTCAGTCT
30516246 TTTAAATTAC
Statistics
Matches: 169, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
216 98 0.58
217 69 0.41
218 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (218 bp):
GCTTACTTAGGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCA
ACTTCAGAGAGATAAGATCTGTGATTTTAATCCACACCACTGCAACTTCAGGGAGATAGGATTAT
TGGCTTTAATCTGCTCCACTACAACTTCAAGGAGATAAGATTCACCATCTTCAGTCTGCCTCAGT
ACAACTTCAGGAGGATAAAGCTT
Found at i:30516126 original size:172 final size:173
Alignment explanation
Indices: 30515645--30516137 Score: 472
Period size: 172 Copynumber: 2.9 Consensus size: 173
30515635 AGTCAGCCTC
* * * *
30515645 ACTACAACTTCAG-GAGGATAAGGCTTG-CTTACTT-GGTCTGCTCCACTACAACTTTAGGGAGA
1 ACTACAACTTCAGAGA-GATAAGACTCGCCAT-CTTAGGTCTGCTCCACTACAACTTCAGGGAGA
* *** * * * * * *
30515707 TAAGACTAGATGTTATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTGATTTTACTCCGCTC
64 TAAGACTTGATACGATCTGCTCACTGCAACTTCAGAGAGATAAGATCTGAGATTGTAATCCACTC
* **
30515772 CACTGGGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCT
129 TACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCT
* * ** *
30515817 ACTACAACTTTAGGGAGATAAGACTCGCTTTCTTAGGTCTGCTCCACTGCAACTTCAGGGAGATA
1 ACTACAACTTCAGAGAGATAAGACTCGCCATCTTAGGTCTGCTCCACTACAACTTCAGGGAGATA
* * * *
30515882 AGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCTA
66 AGACTTGATACGATCTGCTCACTGCAACTTCAGAGAGATAAGATCTGAGATTGTAATCCACTCTA
*
30515947 CTGCAACTTTAGGG-GATAGGATTATTGGCTTTAATCTGCTCT
131 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCT
* *
30515989 ACTACAACTTCAGAGAGATAAGATTCGCCATCTTCA-GTCTGC-CTCAGTACAACTTCA-GGAGG
1 ACTACAACTTCAGAGAGATAAGACTCGCCATCTT-AGGTCTGCTC-CACTACAACTTCAGGGA-G
* * *
30516051 ATAA-AGCTTGCTTACTTAGTCTGCTCCACTGCAACTTCA-AGGAGATAAGA-CT-AGA-TGTGA
63 ATAAGA-CTTG-ATAC-GA-TCTGCT-CACTGCAACTTCAGA-GAGATAAGATCTGAGATTGTAA
** * *
30516111 TCTGCTCT-GTGCAACTTCAGAGAGATA
122 TCCACTCTACTGCAACTTCAGGGAGATA
30516138 AGATCTGTGA
Statistics
Matches: 273, Mismatches: 35, Indels: 25
0.82 0.11 0.08
Matches are distributed among these distances:
171 5 0.02
172 118 0.43
173 117 0.43
174 3 0.01
175 9 0.03
176 21 0.08
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (173 bp):
ACTACAACTTCAGAGAGATAAGACTCGCCATCTTAGGTCTGCTCCACTACAACTTCAGGGAGATA
AGACTTGATACGATCTGCTCACTGCAACTTCAGAGAGATAAGATCTGAGATTGTAATCCACTCTA
CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCT
Found at i:30516166 original size:389 final size:390
Alignment explanation
Indices: 30515331--30516228 Score: 1483
Period size: 389 Copynumber: 2.3 Consensus size: 390
30515321 GCTTACTTAG
* * *
30515331 TCTGCTCCACTGCAACTTTAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCGACTTCAG
1 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGGGACTTCAG
*
30515396 GGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTT
65 GGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTT
* *
30515461 GGGTCTGCTCCACTACAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTGTAACTTCAGA
130 AGGTCTGCTCCACTACAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTGCAACTTCAGA
30515526 GAGATAAGATCTATGATTTTAATCCACTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTA
195 GAGATAAGATCTATGATTTTAATCCACTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTA
* * *
30515591 ATCTGCTCCACTAAAACTTCAGGGAGATAATATTCGCCATCTTTAGTCAGCCTCACTACAACTTC
260 ATCTGCTCCACTAAAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCAGCCTCACTACAACTTC
* * * * *
30515656 AGGAGGATAAGGCTTGCTTACTTGGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGATGTT
325 AGGAGGATAAAGCTTGCTTACTTAGTCTGCTCCACTACAACTTCAAGGAGATAAGACTAGATGTG
30515721 A
390 A
* *
30515722 TCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTGATTTTACTCCGCTCCACTGGGACTTCAGG
1 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGGGACTTCAGG
* * *
30515787 GAGATAGGATTATTGGCTTTAATCTGCTCTACTACAACTTTAGGGAGATAAGACTCGCTTTCTTA
66 GAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTA
* **
30515852 GGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAG
131 GGTCTGCTCCACTACAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTGCAACTTCAGAG
* * *
30515917 AGATAAGATCTGTGATTTTAATCCACTCTACTGCAACTTTAG-GGGATAGGATTATTGGCTTTAA
196 AGATAAGATCTATGATTTTAATCCACTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAA
* * * *
30515981 TCTGCTCTACTACAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCTGCCTCAGTACAACTTCA
261 TCTGCTCCACTAAAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCAGCCTCACTACAACTTCA
*
30516046 GGAGGATAAAGCTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGA
326 GGAGGATAAAGCTTGCTTACTTAGTCTGCTCCACTACAACTTCAAGGAGATAAGACTAGATGTGA
* *
30516111 TCTGCTCTGTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCACCACTGGGACTTCAGG
1 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGGGACTTCAGG
*
30516176 GAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
66 GAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
30516229 TTCACCATTT
Statistics
Matches: 469, Mismatches: 38, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
389 248 0.53
390 215 0.46
391 6 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (390 bp):
TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGGGACTTCAGG
GAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTA
GGTCTGCTCCACTACAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTGCAACTTCAGAG
AGATAAGATCTATGATTTTAATCCACTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAA
TCTGCTCCACTAAAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCAGCCTCACTACAACTTCA
GGAGGATAAAGCTTGCTTACTTAGTCTGCTCCACTACAACTTCAAGGAGATAAGACTAGATGTGA
Found at i:30516668 original size:44 final size:44
Alignment explanation
Indices: 30516618--30516716 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
30516608 ATTGTTGCTT
* *
30516618 AGGGAGATAGGA-TTCATAATCTTCAACCTATTCCACTGCTGACC
1 AGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTACTGACC
* * * *
30516662 ATGGAGATAGAACTTACAATCTTCAACCTATTCCACTATTGTCC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTGACC
30516706 AGGGAGATAGG
1 AGGGAGATAGG
30516717 GCTGGGGTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 44 0.96
45 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (44 bp):
AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTGACC
Found at i:30516979 original size:88 final size:88
Alignment explanation
Indices: 30516716--30517288 Score: 677
Period size: 88 Copynumber: 6.5 Consensus size: 88
30516706 AGGGAGATAG
* * *
30516716 GGCTGGGGTCATCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACATGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
30516781 TTCACTGCAACCTAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * * * *
30516804 GGTTAGTGTCTTCGATTTGCTTCCCTGTCGGTGCAGGAAGGCAA-AACTTGCT-TTTTTAACCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATC-TGCTATTTTTAACCTG
** **
30516867 CTCTGCTATAACCCAGGGAGGCAA
65 CTCCACTGCAACCCAGGGAGGCAA
* * * * **
30516891 GGCTGGTGTCTTCGATTTGCTTCACTGCCGGTGCACGAAAACAAGATCTG-TAATTTTTAACCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT-ATTTTTAACCTG
*
30516955 CTCCACTGCAACCTAGGGAGGCAA
65 CTCCACTGCAACCCAGGGAGGCAA
* *
30516979 GGCTGGTGTCTTCGATCTGCTTCGCTGCCGGTGGAGGAAGGCAAGATCTG-TAATTTTTAACCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT-ATTTTTAACCTG
**
30517043 CTCCGTTGCAACCCAGGGAGGCAA
65 CTCCACTGCAACCCAGGGAGGCAA
* * * * *
30517067 GGCTGGTGTCTTCGTTTTGCTTCGCTGTTGGTGCAAGAAGGCAAGATCTGATATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
** *
30517132 TCTGCTGCAACCCTGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * * ** * *
30517155 GGCTAGTGTCTTCGATCTGCTTCACAGTTAGTGCAGGAAGGCAAGATCTGCTATTTTGAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
30517220 TCAACTACAACCCAGGGAGGGAA
66 TCCACTGCAACCCAGGGAGGCAA
* * *
30517243 AGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGA
30517289 CCTGTTATCT
Statistics
Matches: 412, Mismatches: 68, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
86 1 0.00
87 69 0.17
88 341 0.83
89 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCACTGCAACCCAGGGAGGCAA
Found at i:30520004 original size:40 final size:40
Alignment explanation
Indices: 30519956--30520183 Score: 393
Period size: 40 Copynumber: 5.7 Consensus size: 40
30519946 GCAAACACAT
* * *
30519956 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
30519996 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
30520036 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
30520076 TTGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
30520116 TTGCCTTCGGGTCTTAGCTCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
30520156 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
30520184 TCCAATGCTC
Statistics
Matches: 177, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:30528888 original size:31 final size:31
Alignment explanation
Indices: 30528853--30528918 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
30528843 CTATTTATGT
* * * *
30528853 AGGTTGGCCGAATGTGGGGGTTCATTTAGCA
1 AGGTTAGCCGAATGTGGAGATCCATTTAGCA
30528884 AGGTTAGCCGAATGTGGAGATCCATTTAGCA
1 AGGTTAGCCGAATGTGGAGATCCATTTAGCA
30528915 AGGT
1 AGGT
30528919 GCATGCATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.27
Consensus pattern (31 bp):
AGGTTAGCCGAATGTGGAGATCCATTTAGCA
Found at i:30530176 original size:21 final size:20
Alignment explanation
Indices: 30530116--30530176 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
30530106 ATATATATGA
*
30530116 AATTAAAAAAAAGTGAATTG-A
1 AATTAAAAAAAAGTG--TTGTG
*
30530137 AATTAAAAAAAA-T-TCGTG
1 AATTAAAAAAAAGTGTTGTG
30530155 AATTAAAAAAAAGGTGTTGTG
1 AATTAAAAAAAA-GTGTTGTG
30530176 A
1 A
30530177 TTCAAGTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
17 2 0.06
18 12 0.36
20 2 0.06
21 17 0.52
ACGTcount: A:0.56, C:0.02, G:0.16, T:0.26
Consensus pattern (20 bp):
AATTAAAAAAAAGTGTTGTG
Found at i:30532279 original size:20 final size:20
Alignment explanation
Indices: 30532256--30532300 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
30532246 GTGAAAATAC
*
30532256 AAAAGAAAAGAACAA-TGAAA
1 AAAAGAAAAGAA-AACTCAAA
30532276 AAAAG-AAAGAAAACTCAAA
1 AAAAGAAAAGAAAACTCAAA
30532295 AAAAGA
1 AAAAGA
30532301 GAGTGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 2 0.09
19 15 0.68
20 5 0.23
ACGTcount: A:0.76, C:0.07, G:0.13, T:0.04
Consensus pattern (20 bp):
AAAAGAAAAGAAAACTCAAA
Found at i:30532314 original size:15 final size:14
Alignment explanation
Indices: 30532292--30532341 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
30532282 AAGAAAACTC
30532292 AAAA-AAAGAGAGTG
1 AAAAGAAAGAGA-TG
*
30532306 AAAAGAAAGCGA-G
1 AAAAGAAAGAGATG
*
30532319 AAAAGAAAAAGATG
1 AAAAGAAAGAGATG
30532333 AAAAAGAAA
1 -AAAAGAAA
30532342 AAGTGAGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 11 0.37
14 5 0.17
15 14 0.47
ACGTcount: A:0.70, C:0.02, G:0.24, T:0.04
Consensus pattern (14 bp):
AAAAGAAAGAGATG
Found at i:30537874 original size:20 final size:20
Alignment explanation
Indices: 30537851--30537902 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
30537841 AATCAAGTGC
*
30537851 AAATAATTTTAACCAAGTCA
1 AAATAATTTTAACAAAGTCA
* * * *
30537871 AAATGATTTCAATAAAGTTA
1 AAATAATTTTAACAAAGTCA
*
30537891 AAATCATTTTAA
1 AAATAATTTTAA
30537903 AATGATTTTC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.35
Consensus pattern (20 bp):
AAATAATTTTAACAAAGTCA
Found at i:30540619 original size:20 final size:20
Alignment explanation
Indices: 30540594--30540644 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
30540584 GGTAATTTGG
**
30540594 TATCGATACCAGTTTAAAAA
1 TATCGATACCAGTGGAAAAA
*
30540614 TATCGACACTC-GTGGAAAAA
1 TATCGATAC-CAGTGGAAAAA
30540634 TATCGATACCA
1 TATCGATACCA
30540645 CTGAGGTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (20 bp):
TATCGATACCAGTGGAAAAA
Found at i:30542125 original size:15 final size:16
Alignment explanation
Indices: 30542105--30542134 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30542095 CTTACCCTTT
30542105 ATTTTCAT-ACATTTC
1 ATTTTCATAACATTTC
30542120 ATTTTCATAACATTT
1 ATTTTCATAACATTT
30542135 ACACCTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTCATAACATTTC
Found at i:30551628 original size:20 final size:20
Alignment explanation
Indices: 30551562--30551631 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
30551552 GCCAATAACA
30551562 CACCAGT-TTGTGGACAAGC
1 CACCAGTATTGTGGACAAGC
* * *
30551581 CACCAGAATTGTAGACAAGT
1 CACCAGTATTGTGGACAAGC
** * *
30551601 TGCTAGTATTATGGACAAGC
1 CACCAGTATTGTGGACAAGC
30551621 CACCAGTATTG
1 CACCAGTATTG
30551632 CAGATATACT
Statistics
Matches: 36, Mismatches: 14, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
19 6 0.17
20 30 0.83
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (20 bp):
CACCAGTATTGTGGACAAGC
Found at i:30551645 original size:40 final size:40
Alignment explanation
Indices: 30551572--30551688 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 40
30551562 CACCAGTTTG
* *
30551572 TGGACAAGCCACCAGAATTGTAGACAAGTTGCTAGTATTA
1 TGGACAAGCCACCAGAATTGCAGACAAGCTGCTAGTATTA
* * *
30551612 TGGACAAGCCACCAGTATTGCAGATATA-CTGCTAGTATTG
1 TGGACAAGCCACCAGAATTGCAGACA-AGCTGCTAGTATTA
** * * *
30551652 CAGACAAGCCACCAGAATTGCAAACAAACTGCCAGTA
1 TGGACAAGCCACCAGAATTGCAGACAAGCTGCTAGTA
30551689 CTTCTGTTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.02
40 62 0.97
41 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (40 bp):
TGGACAAGCCACCAGAATTGCAGACAAGCTGCTAGTATTA
Found at i:30551832 original size:38 final size:38
Alignment explanation
Indices: 30551756--30551845 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 38
30551746 CAGAAACAAT
* * *
30551756 ATAGTATGCATGATTAAAAATACGCGATCAGTGGCAGAA
1 ATAGTAGGCATGATTAAAAATA-GAGATCAATGGCAGAA
30551795 ATAGTAGGCATGATTAAAACAT-GAGATCAATGGCAGAA
1 ATAGTAGGCATGATTAAAA-ATAGAGATCAATGGCAGAA
*
30551833 ATAGTAGACATGA
1 ATAGTAGGCATGA
30551846 ATTGTCATTC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
38 26 0.57
39 18 0.39
40 2 0.04
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.22
Consensus pattern (38 bp):
ATAGTAGGCATGATTAAAAATAGAGATCAATGGCAGAA
Found at i:30553439 original size:35 final size:35
Alignment explanation
Indices: 30553400--30553485 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 35
30553390 GTGACTATGA
30553400 TATATAGGTCCTTCGAGGCAAAACCATGTAAATAG-
1 TATATAGGTCCTTCGAGGCAAAACCATGTAAAT-GT
* * ** * *
30553435 TATATAGGTTCTTCGGGGTGACACCTTGTAAATGT
1 TATATAGGTCCTTCGAGGCAAAACCATGTAAATGT
*
30553470 TATATAGTTCCTTCGA
1 TATATAGGTCCTTCGA
30553486 AGTGACACCA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
34 1 0.02
35 40 0.98
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (35 bp):
TATATAGGTCCTTCGAGGCAAAACCATGTAAATGT
Found at i:30553491 original size:35 final size:35
Alignment explanation
Indices: 30553422--30553500 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
30553412 TCGAGGCAAA
**
30553422 ACCATGTAAATAGTATATAGGTTCTTCGGGGTGAC
1 ACCATGTAAATAGTATATAGGTTCTTCGAAGTGAC
*
30553457 ACCTTGTAAAT-GTTATATA-GTTCCTTCGAAGTGAC
1 ACCATGTAAATAG-TATATAGGTT-CTTCGAAGTGAC
30553492 ACCATGTAA
1 ACCATGTAA
30553501 GCGGTATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 4 0.11
35 34 0.89
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (35 bp):
ACCATGTAAATAGTATATAGGTTCTTCGAAGTGAC
Found at i:30553509 original size:35 final size:35
Alignment explanation
Indices: 30553422--30553510 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 35
30553412 TCGAGGCAAA
** **
30553422 ACCATGTAAATAGTATATAGGTTCTTCGGGGTGAC
1 ACCATGTAAACGGTATATAGGTTCTTCGAAGTGAC
* * *
30553457 ACCTTGTAAATGTTATATA-GTTCCTTCGAAGTGAC
1 ACCATGTAAACGGTATATAGGTT-CTTCGAAGTGAC
*
30553492 ACCATGTAAGCGGTATATA
1 ACCATGTAAACGGTATATA
30553511 AGTCCTACAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 3 0.07
35 41 0.93
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (35 bp):
ACCATGTAAACGGTATATAGGTTCTTCGAAGTGAC
Found at i:30555423 original size:26 final size:26
Alignment explanation
Indices: 30555394--30555455 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
30555384 ACATATTTTC
*
30555394 TCAAAATTTTACCAATGGCAAAATCA
1 TCAAAATTTTACCAAGGGCAAAATCA
* * * *
30555420 TCAAAATTTTACTAGGGGTAAATTCA
1 TCAAAATTTTACCAAGGGCAAAATCA
30555446 TCAAAATTTT
1 TCAAAATTTT
30555456 TCTGGAAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGCAAAATCA
Found at i:30555468 original size:26 final size:26
Alignment explanation
Indices: 30555413--30555468 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
30555403 TACCAATGGC
*
30555413 AAAA-TCATCAAAATTTTACTAGGGG
1 AAAATTCATCAAAATTTTACTAGGAG
* *
30555438 TAAATTCATCAAAATTTTTCT-GGAAG
1 AAAATTCATCAAAATTTTACTAGG-AG
30555464 AAAAT
1 AAAAT
30555469 AGGGATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (26 bp):
AAAATTCATCAAAATTTTACTAGGAG
Found at i:30555858 original size:36 final size:36
Alignment explanation
Indices: 30555811--30555883 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
30555801 GAGAGATTGT
30555811 TTTTTTATCGAAAAATAGAGAGAATTTATTCTCAAC
1 TTTTTTATCGAAAAATAGAGAGAATTTATTCTCAAC
30555847 TTTTTTATCGAAAAATAGAGAGAATTTATTCTCAAC
1 TTTTTTATCGAAAAATAGAGAGAATTTATTCTCAAC
30555883 T
1 T
30555884 ATTATATTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (36 bp):
TTTTTTATCGAAAAATAGAGAGAATTTATTCTCAAC
Done.