Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 52 of 316
Found at i:15105188 original size:28 final size:30
Alignment explanation
Indices: 15105138--15105197 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 30
15105128 ACTTATTTTC
15105138 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
15105168 TTGTTAA-TTT-TTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
15105196 TT
1 TT
15105198 ACTTGTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 18 0.64
29 3 0.11
30 7 0.25
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:15117831 original size:14 final size:14
Alignment explanation
Indices: 15117812--15117848 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
15117802 TTCACAGAAC
15117812 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
*
15117826 AAAAAAAGAAAAAG
1 AAAAAAAAAAAAAG
15117840 AAAAAAAAA
1 AAAAAAAAA
15117849 GAAGACTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:15117837 original size:16 final size:16
Alignment explanation
Indices: 15117812--15117851 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
15117802 TTCACAGAAC
15117812 AAAAAAAA-AAAAAG-
1 AAAAAAAAGAAAAAGA
15117826 -AAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
15117841 AAAAAAAAGAA
1 AAAAAAAAGAA
15117852 GACTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.30
14 6 0.26
16 10 0.43
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:15126714 original size:22 final size:22
Alignment explanation
Indices: 15126686--15126751 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
15126676 ATCAAGTTAG
*
15126686 AATTGGATATCGCAATATCCGA
1 AATTGGATATCGCAATATCCAA
15126708 AATTGGATATCGCAATATCCAA
1 AATTGGATATCGCAATATCCAA
*
15126730 AATTGGATATCGCAATACCCAA
1 AATTGGATATCGCAATATCCAA
15126752 GTTAGAATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (22 bp):
AATTGGATATCGCAATATCCAA
Found at i:15133988 original size:16 final size:17
Alignment explanation
Indices: 15133967--15134004 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
15133957 AATAAAAGAC
15133967 AGAGAAT-AAAGAACAA
1 AGAGAATGAAAGAACAA
* *
15133983 AGAGAATGAAATAGCAA
1 AGAGAATGAAAGAACAA
15134000 AGAGA
1 AGAGA
15134005 GAGTGTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.63, C:0.05, G:0.24, T:0.08
Consensus pattern (17 bp):
AGAGAATGAAAGAACAA
Found at i:15141578 original size:64 final size:64
Alignment explanation
Indices: 15141498--15141681 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
15141488 AGACATTATG
* * *
15141498 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGATAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
15141562 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
15141627 AA
63 AA
* * * *
15141629 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
15141682 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 8 0.08
66 16 0.16
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:15146337 original size:30 final size:30
Alignment explanation
Indices: 15146303--15146367 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
15146293 GAGGAACAAG
15146303 TCCAATATATGGGTAACAATAACTCTCAAT
1 TCCAATATATGGGTAACAATAACTCTCAAT
15146333 TCCAATATATGGGTAACAATAACTCTCAAT
1 TCCAATATATGGGTAACAATAACTCTCAAT
*
15146363 CCCAA
1 TCCAA
15146368 AATAACCCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (30 bp):
TCCAATATATGGGTAACAATAACTCTCAAT
Found at i:15150449 original size:13 final size:13
Alignment explanation
Indices: 15150431--15150456 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15150421 TTGGTTATTA
15150431 TTATTATTATTTT
1 TTATTATTATTTT
15150444 TTATTATTATTTT
1 TTATTATTATTTT
15150457 GTATGTCTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:15152339 original size:20 final size:20
Alignment explanation
Indices: 15152296--15152340 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
15152286 ACTGTTTTGT
15152296 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
15152316 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
15152335 TATGGG
1 TATGGG
15152341 TAAGGCCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:15154878 original size:23 final size:23
Alignment explanation
Indices: 15154846--15154892 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
15154836 AATATATGAT
15154846 TACCTATGGATTATTTTGAGATA
1 TACCTATGGATTATTTTGAGATA
*
15154869 TACCTGTGGATTATTTTGAGATA
1 TACCTATGGATTATTTTGAGATA
15154892 T
1 T
15154893 TATCGATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.45
Consensus pattern (23 bp):
TACCTATGGATTATTTTGAGATA
Found at i:15157388 original size:14 final size:14
Alignment explanation
Indices: 15157369--15157407 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
15157359 TCAAAACAAG
15157369 AATTAAGAACACAT
1 AATTAAGAACACAT
15157383 AATTAAGAACACAT
1 AATTAAGAACACAT
15157397 AATTAAGAACA
1 AATTAAGAACA
15157408 AGTTAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:15162290 original size:21 final size:20
Alignment explanation
Indices: 15162245--15162300 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
15162235 CACGTTAGTG
**
15162245 AATAAATATGGATATAAATA
1 AATAAATATTTATATAAATA
15162265 AATAAATATTTATATAAATAA
1 AATAAATATTTATATAAAT-A
15162286 AATAAATATTTATAT
1 AATAAATATTTATAT
15162301 TTAAAATATC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
AATAAATATTTATATAAATA
Found at i:15164780 original size:24 final size:24
Alignment explanation
Indices: 15164727--15164783 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
15164717 CATACATAAA
15164727 TTAATTTTTAATAATAAAACAAAT
1 TTAATTTTTAATAATAAAACAAAT
** *
15164751 GAAATTTTTAATAA-AAAGACTAAT
1 TTAATTTTTAATAATAAA-ACAAAT
15164775 TTAATTTTT
1 TTAATTTTT
15164784 GATCTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (24 bp):
TTAATTTTTAATAATAAAACAAAT
Found at i:15164818 original size:24 final size:25
Alignment explanation
Indices: 15164791--15164841 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
15164781 TTTGATCTAA
15164791 TATACATTTTAATACAAAA-AA-TTT
1 TATA-ATTTTAATACAAAACAACTTT
**
15164815 TATAATTTTTTTACAAAACAACTTT
1 TATAATTTTAATACAAAACAACTTT
15164840 TA
1 TA
15164842 CTTTTGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 12 0.52
24 6 0.26
25 5 0.22
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (25 bp):
TATAATTTTAATACAAAACAACTTT
Found at i:15167799 original size:20 final size:19
Alignment explanation
Indices: 15167774--15167817 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
15167764 TTATATTTTT
* *
15167774 AAAATTCATTATTTACTATA
1 AAAATTCATTA-GTACGATA
*
15167794 AAAATTTATTAGTACGATA
1 AAAATTCATTAGTACGATA
15167813 AAAAT
1 AAAAT
15167818 AATTTCTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.39
Consensus pattern (19 bp):
AAAATTCATTAGTACGATA
Found at i:15169712 original size:35 final size:36
Alignment explanation
Indices: 15169584--15169717 Score: 148
Period size: 35 Copynumber: 3.7 Consensus size: 36
15169574 TCCTCATTGA
* *
15169584 AATACCATACCTACATTTTACAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCGGTATGAGAT
* ** *
15169619 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCGGTAT-GA---GAT
15169659 AATACCATACCTACATTTCACAACTCGGTAT-AGAT
1 AATACCATACCTACATTTCACAACTCGGTATGAGAT
*
15169694 GATACCATACCTACATTTCA-AACT
1 AATACCATACCTACATTTCACAACT
15169718 TTTCCATGGA
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
34 4 0.05
35 48 0.58
36 1 0.01
38 1 0.01
39 2 0.02
40 27 0.33
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (36 bp):
AATACCATACCTACATTTCACAACTCGGTATGAGAT
Found at i:15169727 original size:75 final size:74
Alignment explanation
Indices: 15169580--15169717 Score: 199
Period size: 75 Copynumber: 1.9 Consensus size: 74
15169570 GTTTTCCTCA
* * * *
15169580 TTGAAATACCATACCTACATTTTACAACTCGGTATGGGAAATGCCATACCTACATTTCTTAACTC
1 TTGAAATACCATACCTACATTTCACAACTCGGTATGAGAAATACCATACCTACATTTCTAAACTC
15169645 AGTATGGAT
66 AGTATGGAT
*
15169654 TTGATAATACCATACCTACATTTCACAACTCGGTAT-AGATGATACCATACCTACATTTC-AAAC
1 TTGA-AATACCATACCTACATTTCACAACTCGGTATGAGA-AATACCATACCTACATTTCTAAAC
15169717 T
64 T
15169718 TTTCCATGGA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
74 10 0.18
75 47 0.82
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCACAACTCGGTATGAGAAATACCATACCTACATTTCTAAACTC
AGTATGGAT
Found at i:15171303 original size:22 final size:21
Alignment explanation
Indices: 15171248--15171303 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
15171238 CTTCTTGGCC
15171248 ATAATTT-TAAAA-ACTTTTT
1 ATAATTTATAAAATACTTTTT
15171267 A-AGATTTA-AATAATACTTTTT
1 ATA-ATTTATAA-AATACTTTTT
15171288 ATAACTTTATAAAATA
1 ATAA-TTTATAAAATA
15171304 AATAAATGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
18 1 0.03
19 7 0.23
20 2 0.07
21 9 0.30
22 9 0.30
23 2 0.07
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (21 bp):
ATAATTTATAAAATACTTTTT
Found at i:15172028 original size:7 final size:7
Alignment explanation
Indices: 15172016--15172048 Score: 52
Period size: 6 Copynumber: 5.0 Consensus size: 7
15172006 AATATATGAC
15172016 CCCCCCA
1 CCCCCCA
15172023 CCCCCCA
1 CCCCCCA
15172030 -CCCCCA
1 CCCCCCA
15172036 CCCCCC-
1 CCCCCCA
15172042 CCCCCCA
1 CCCCCCA
15172049 AAAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.12, C:0.88, G:0.00, T:0.00
Consensus pattern (7 bp):
CCCCCCA
Found at i:15172035 original size:13 final size:13
Alignment explanation
Indices: 15172017--15172048 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15172007 ATATATGACC
15172017 CCCCCACCCCCCA
1 CCCCCACCCCCCA
*
15172030 CCCCCACCCCCCC
1 CCCCCACCCCCCA
15172043 CCCCCA
1 CCCCCA
15172049 AAAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.12, C:0.88, G:0.00, T:0.00
Consensus pattern (13 bp):
CCCCCACCCCCCA
Found at i:15177413 original size:13 final size:13
Alignment explanation
Indices: 15177397--15177423 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15177387 CTCAATCAAC
15177397 CAAATCAAGAATT
1 CAAATCAAGAATT
15177410 CAAATCAAGAATT
1 CAAATCAAGAATT
15177423 C
1 C
15177424 TATACATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (13 bp):
CAAATCAAGAATT
Found at i:15178989 original size:42 final size:41
Alignment explanation
Indices: 15178933--15179015 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 41
15178923 GGCATTTAAC
*
15178933 GAGTTTTTTTTAAGCCGTTTTAGGTTATTTTATTAAATTTT
1 GAGTTTTTTCTAAGCCGTTTTAGGTTATTTTATTAAATTTT
*
15178974 GAGTTTGTTTCTAAGCCGTTTTAGTTTATTTTATTAAATTTT
1 GAGTTT-TTTCTAAGCCGTTTTAGGTTATTTTATTAAATTTT
15179016 CTGTTTCAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 6 0.15
42 33 0.85
ACGTcount: A:0.22, C:0.06, G:0.14, T:0.58
Consensus pattern (41 bp):
GAGTTTTTTCTAAGCCGTTTTAGGTTATTTTATTAAATTTT
Found at i:15180294 original size:40 final size:39
Alignment explanation
Indices: 15180236--15180372 Score: 136
Period size: 37 Copynumber: 3.5 Consensus size: 39
15180226 ACACACCAAT
*
15180236 TTGACACCCAGTGCCTCATAGGATAATTCGAAGTAGTAAA
1 TTGACACCCAGTGCCTCATAGGATAAATCGAA-TAGTAAA
* * *
15180276 TTGACACCCAGTGTCTCATTA-GTTAAACCG-A-AGTAAA
1 TTGACACCCAGTGCCTCA-TAGGATAAATCGAATAGTAAA
* * * *
15180313 TTGGCACCCAGTGCCTCATCGAATAAATCAGAAATAATAAA
1 TTGACACCCAGTGCCTCATAGGATAAATC-G-AATAGTAAA
*
15180354 TTGACACCCAGTGTCTCAT
1 TTGACACCCAGTGCCTCAT
15180373 CGACTCGAAG
Statistics
Matches: 78, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
36 1 0.01
37 27 0.35
38 1 0.01
39 1 0.01
40 24 0.31
41 24 0.31
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (39 bp):
TTGACACCCAGTGCCTCATAGGATAAATCGAATAGTAAA
Found at i:15184537 original size:40 final size:40
Alignment explanation
Indices: 15184492--15184569 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
15184482 ACATACCATG
* *
15184492 TGGGGATAAAATCGATCCA-CTCAACCCTACACACCAAGTA
1 TGGGGATAAAATCAACCCATC-CAACCCTACACACCAAGTA
*
15184532 TGGGGATATAATCAACCCATCCAACCCTACACACCAAG
1 TGGGGATAAAATCAACCCATCCAACCCTACACACCAAG
15184570 AGGTACCGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.37, C:0.32, G:0.14, T:0.17
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCATCCAACCCTACACACCAAGTA
Found at i:15190627 original size:21 final size:21
Alignment explanation
Indices: 15190597--15190636 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15190587 TTTGCCAAAG
* *
15190597 ATATGTATTGGATTGAATTGA
1 ATATGAATTGGATTAAATTGA
*
15190618 ATATGAATTGTATTAAATT
1 ATATGAATTGGATTAAATT
15190637 AAGCTAGATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (21 bp):
ATATGAATTGGATTAAATTGA
Found at i:15190989 original size:25 final size:25
Alignment explanation
Indices: 15190954--15191204 Score: 167
Period size: 25 Copynumber: 10.2 Consensus size: 25
15190944 ACACACCAAA
* *
15190954 GCTCTTATGAGCATCCCGATATTTG
1 GCTCTCATGAGCTTCCCGATATTTG
* * *
15190979 ACTCTCATGAGTTTCCCGTTATTTG
1 GCTCTCATGAGCTTCCCGATATTTG
* ** *
15191004 GCTATCCGGAGCTTCCCGATAATTG
1 GCTCTCATGAGCTTCCCGATATTTG
* *
15191029 GCTCTTATGAGCTTCCCGAT-TAATG
1 GCTCTCATGAGCTTCCCGATAT-TTG
*
15191054 GCTCTCCA-GAGCTTTCCGATA-TTG
1 GCTCT-CATGAGCTTCCCGATATTTG
* *
15191078 GCTCGCATGAGCTTCTCGA-ATTTG
1 GCTCTCATGAGCTTCCCGATATTTG
*
15191102 GCTCTCTTGAGCTTCCCG-T-TTATG
1 GCTCTCATGAGCTTCCCGATATT-TG
* *
15191126 GCTCGT-ATGAGATTCCCGATAATTG
1 GCTC-TCATGAGCTTCCCGATATTTG
* * ***
15191151 GCTCGT-AAGAGCTTCCCGTTATACA
1 GCTC-TCATGAGCTTCCCGATATTTG
* * * *
15191176 ACTCACATGAGCTTCCCGTTATATG
1 GCTCTCATGAGCTTCCCGATATTTG
15191201 GCTC
1 GCTC
15191205 GGAAGAGCTT
Statistics
Matches: 172, Mismatches: 43, Indels: 22
0.73 0.18 0.09
Matches are distributed among these distances:
23 5 0.03
24 49 0.28
25 116 0.67
26 2 0.01
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATATTTG
Found at i:15191151 original size:73 final size:73
Alignment explanation
Indices: 15190954--15191168 Score: 179
Period size: 73 Copynumber: 2.9 Consensus size: 73
15190944 ACACACCAAA
* * * * * ** **
15190954 GCTCTTATGAGCATCCCGA-TATTTGACTCTCATGAGTTTCCCGTTATTTGGCTATCCGGAGCTT
1 GCTCTTATGAGCTTCCCGATTA-ATGGCTCTCA-GAGATTCCCGATA-TTGGCTCGCAAGAGCTT
15191018 CCCGATAATTG
63 CCCGATAATTG
* * * *
15191029 GCTCTTATGAGCTTCCCGATTAATGGCTCTCCAGAGCTTTCCGATATTGGCTCGCATGAGCTTCT
1 GCTCTTATGAGCTTCCCGATTAATGGCTCT-CAGAGATTCCCGATATTGGCTCGCAAGAGCTTCC
*
15191094 CGA-ATTTG
65 CGATAATTG
* *
15191102 GCTCTCT-TGAGCTTCCCG-TTTATGGCTCGT-ATGAGATTCCCGATAATTGGCTCGTAAGAGCT
1 GCTCT-TATGAGCTTCCCGATTAATGGCTC-TCA-GAGATTCCCGAT-ATTGGCTCGCAAGAGCT
15191164 TCCCG
62 TCCCG
15191169 TTATACAACT
Statistics
Matches: 116, Mismatches: 18, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
71 1 0.01
72 19 0.16
73 40 0.34
74 18 0.16
75 34 0.29
76 4 0.03
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (73 bp):
GCTCTTATGAGCTTCCCGATTAATGGCTCTCAGAGATTCCCGATATTGGCTCGCAAGAGCTTCCC
GATAATTG
Found at i:15199875 original size:8 final size:8
Alignment explanation
Indices: 15199862--15199890 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
15199852 TTATGTTTAG
15199862 TATATTAT
1 TATATTAT
15199870 TATATTAT
1 TATATTAT
15199878 TATATTAT
1 TATATTAT
15199886 TATAT
1 TATAT
15199891 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:15199923 original size:5 final size:5
Alignment explanation
Indices: 15199913--15199948 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
15199903 TTATGTTTTA
*
15199913 ATTAT ATTAT ATTAA ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
15199949 AAACTAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
ATTAT
Found at i:15201230 original size:15 final size:15
Alignment explanation
Indices: 15201210--15201266 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
15201200 CGATGAATTT
*
15201210 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
15201225 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
15201240 ATTGAAATTATATTG
1 ATTGAAATTATATTG
15201255 ATTG-AATTATAT
1 ATTGAAATTATAT
15201267 AATATATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 8 0.21
15 31 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:15201687 original size:21 final size:21
Alignment explanation
Indices: 15201652--15201747 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
15201642 AGGCACTTTA
15201652 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
15201675 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
15201696 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
15201717 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
15201738 TGTGTCGTAT
1 TGTGTCGTAT
15201748 ATTGATCAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 58 0.87
23 9 0.13
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:15201722 original size:42 final size:42
Alignment explanation
Indices: 15201639--15201747 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
15201629 GGCTTTACTG
* *
15201639 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
*
15201683 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
* * * *
15201725 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
15201748 ATTGATCAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 38 0.67
44 19 0.33
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.36
Consensus pattern (42 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:15208099 original size:17 final size:18
Alignment explanation
Indices: 15208069--15208114 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
15208059 ATTTAAATTG
15208069 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
15208087 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
15208103 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
15208115 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:15211573 original size:28 final size:28
Alignment explanation
Indices: 15211541--15211597 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
15211531 ATTATACATT
15211541 ATTAGGAACAAGCAAAGCTATAAAGGGA
1 ATTAGGAACAAGCAAAGCTATAAAGGGA
15211569 ATTAGGAACAAGCAAAGCTATAAAGGGA
1 ATTAGGAACAAGCAAAGCTATAAAGGGA
15211597 A
1 A
15211598 GAGCTATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.11, G:0.25, T:0.14
Consensus pattern (28 bp):
ATTAGGAACAAGCAAAGCTATAAAGGGA
Found at i:15223769 original size:51 final size:51
Alignment explanation
Indices: 15223687--15223798 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 51
15223677 CTCAAACTTA
* *
15223687 CTTCATACTTCATCCGGAATTATTACCTTGTTGCTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
* * * * *
15223738 CTTCATATTTCATTCGGAATAATTGCTTTGTTGCTCTAGCTTTAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
15223789 CTTCATATTT
1 CTTCATATTT
15223799 TATCTGGATA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
Found at i:15228826 original size:13 final size:13
Alignment explanation
Indices: 15228808--15228832 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15228798 ATTTCATGAG
15228808 GTGAAAAGAAAAC
1 GTGAAAAGAAAAC
15228821 GTGAAAAGAAAA
1 GTGAAAAGAAAA
15228833 AGGAGGCAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.24, T:0.08
Consensus pattern (13 bp):
GTGAAAAGAAAAC
Found at i:15238211 original size:15 final size:15
Alignment explanation
Indices: 15238172--15238214 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
15238162 ACGAGAATGA
15238172 TAAAATTATATTTAAAT
1 TAAAATTATA--TAAAT
* *
15238189 TAATATTATATATAT
1 TAAAATTATATAAAT
15238204 TAAAATTATAT
1 TAAAATTATAT
15238215 TTATCTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 14 0.61
17 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TAAAATTATATAAAT
Found at i:15242286 original size:44 final size:45
Alignment explanation
Indices: 15242224--15242319 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 45
15242214 TCGTATATTC
* * *
15242224 TTTGA-TTCAGTATTTAAACATGTAATAACTGGTG-AAGCCAATG
1 TTTGAGTTCAGTATTTAAACAAGTAAGAACTGGTGAAAGCCAATA
* *
15242267 TTTGAGTTCTGTATTTAAACAAGTAAGAACTGGTGAAAGGCAATA
1 TTTGAGTTCAGTATTTAAACAAGTAAGAACTGGTGAAAGCCAATA
15242312 TTTGAGTT
1 TTTGAGTT
15242320 GAGAGAGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 5 0.11
44 26 0.57
45 15 0.33
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.35
Consensus pattern (45 bp):
TTTGAGTTCAGTATTTAAACAAGTAAGAACTGGTGAAAGCCAATA
Found at i:15246026 original size:23 final size:23
Alignment explanation
Indices: 15246000--15246045 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
15245990 ATCATGGTTG
15246000 AATTTGGATGATAATCATCTCTT
1 AATTTGGATGATAATCATCTCTT
15246023 AATTTGGATGATAATCATCTCTT
1 AATTTGGATGATAATCATCTCTT
15246046 CTAGATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (23 bp):
AATTTGGATGATAATCATCTCTT
Found at i:15246340 original size:18 final size:19
Alignment explanation
Indices: 15246317--15246359 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
15246307 CAGGCAAGCC
15246317 TTTTG-AAGTAGTATTGTA
1 TTTTGTAAGTAGTATTGTA
15246335 TTTTGATTAAGTAGTATTGTA
1 TTTTG--TAAGTAGTATTGTA
15246356 TTTT
1 TTTT
15246360 TGGATAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.23
21 17 0.77
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (19 bp):
TTTTGTAAGTAGTATTGTA
Found at i:15248695 original size:16 final size:16
Alignment explanation
Indices: 15248674--15248745 Score: 99
Period size: 16 Copynumber: 4.5 Consensus size: 16
15248664 TGAATTACTG
15248674 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
*
15248690 ATTACAGCTCTATTCC
1 ATTACAGTTCTATTCC
* *
15248706 ATTACAGCTCTATTCA
1 ATTACAGTTCTATTCC
* *
15248722 ATTACAGTCCTATTCT
1 ATTACAGTTCTATTCC
15248738 ATTACAGT
1 ATTACAGT
15248746 GAACCAAACG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:15248858 original size:16 final size:16
Alignment explanation
Indices: 15248834--15248901 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
15248824 TGGTTCACTA
15248834 TAATGGAATAG-GACTG
1 TAATGGAATAGAG-CTG
*
15248850 TAATTGAATAGAGCTG
1 TAATGGAATAGAGCTG
15248866 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
*
15248882 TAATGGAATAGAACTG
1 TAATGGAATAGAGCTG
15248898 TAAT
1 TAAT
15248902 CAGTAATTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 47 0.98
17 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.28
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:15248976 original size:44 final size:46
Alignment explanation
Indices: 15248883--15248976 Score: 149
Period size: 44 Copynumber: 2.1 Consensus size: 46
15248873 ATAGAGCTGT
15248883 AATGGAATAGAACTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
*
15248929 AATGGAATAGAACTGTAAT-AGT-ATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAAT-TGTTTGGTTGAATGG
15248973 AATG
1 AATG
15248977 ATGTTGTAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.50
45 3 0.07
46 19 0.41
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
Found at i:15249237 original size:58 final size:57
Alignment explanation
Indices: 15249126--15249240 Score: 144
Period size: 58 Copynumber: 2.0 Consensus size: 57
15249116 TGACCATATT
* * *
15249126 TTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTC
1 TTAACATAATTATTATT-AATATAAATTAAAAAAATAATATATAATCTAATAAAATTC
*
15249184 TTAATATAATTATTATT-ATATAAATTAAAAAATCATAATATATAATACT-ATAAAATT
1 TTAACATAATTATTATTAATATAAATTAAAAAA--ATAATATATAAT-CTAATAAAATT
15249241 AATATATAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
56 13 0.26
58 36 0.72
59 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (57 bp):
TTAACATAATTATTATTAATATAAATTAAAAAAATAATATATAATCTAATAAAATTC
Found at i:15251562 original size:23 final size:23
Alignment explanation
Indices: 15251533--15251578 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
15251523 TCATATCTAG
15251533 AAGAGATGATTATCATCCAAATT
1 AAGAGATGATTATCATCCAAATT
15251556 AAGAGATGATTATCATCCAAATT
1 AAGAGATGATTATCATCCAAATT
15251579 CAACCATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (23 bp):
AAGAGATGATTATCATCCAAATT
Found at i:15253769 original size:19 final size:20
Alignment explanation
Indices: 15253745--15253785 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
15253735 GTAGCAATAT
*
15253745 AATAGT-AAAACGACACCAA
1 AATAGTAAAAACGACAACAA
15253764 AATAGTAAAAACGACAACAA
1 AATAGTAAAAACGACAACAA
15253784 AA
1 AA
15253786 AACAATAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.63, C:0.17, G:0.10, T:0.10
Consensus pattern (20 bp):
AATAGTAAAAACGACAACAA
Found at i:15253854 original size:30 final size:29
Alignment explanation
Indices: 15253798--15253857 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
15253788 CAATAGGTTT
15253798 TTTGTTCAAATTGGTCGGGGAAAAAAAAC
1 TTTGTTCAAATTGGTCGGGGAAAAAAAAC
15253827 TTTGTTCAAATTGGTCGGGGAAAAAAAAC
1 TTTGTTCAAATTGGTCGGGGAAAAAAAAC
15253856 TT
1 TT
15253858 ACACAAGGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (29 bp):
TTTGTTCAAATTGGTCGGGGAAAAAAAAC
Found at i:15254100 original size:24 final size:23
Alignment explanation
Indices: 15254073--15254133 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 23
15254063 TAGCTCGAAA
*
15254073 GAGCGTCCCGTTGTTAGCTCTCAT
1 GAGCATCCCGTT-TTAGCTCTCAT
*
15254097 GAGCATCCCGATATTTGGCTCTCAT
1 GAGCATCCCG-T-TTTAGCTCTCAT
*
15254122 GAGCTTCCCGTT
1 GAGCATCCCGTT
15254134 ATATGGTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 1 0.03
24 10 0.31
25 20 0.62
26 1 0.03
ACGTcount: A:0.15, C:0.30, G:0.23, T:0.33
Consensus pattern (23 bp):
GAGCATCCCGTTTTAGCTCTCAT
Found at i:15261599 original size:21 final size:20
Alignment explanation
Indices: 15261556--15261602 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
15261546 TTTAGCACAC
*
15261556 TAAAAAAACCCTAAAACCCT
1 TAAAAAAACCCTAAAACCAT
* *
15261576 TAAAAAAACTCTAAATCCAAT
1 TAAAAAAACCCTAAAACC-AT
15261597 TAAAAA
1 TAAAAA
15261603 GTTTTCACCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.60, C:0.21, G:0.00, T:0.19
Consensus pattern (20 bp):
TAAAAAAACCCTAAAACCAT
Found at i:15266905 original size:3 final size:3
Alignment explanation
Indices: 15266897--15266921 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15266887 ATTACATCCA
15266897 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
15266922 TAACATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15271227 original size:73 final size:73
Alignment explanation
Indices: 15271140--15271325 Score: 345
Period size: 73 Copynumber: 2.5 Consensus size: 73
15271130 ACAACTTGAC
15271140 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
15271205 CACTAACA
66 CACTAACA
15271213 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
15271278 CACTAACA
66 CACTAACA
* * *
15271286 AACTTAGTTAGAATATAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
15271326 AATAATAATA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 110 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:15271334 original size:3 final size:3
Alignment explanation
Indices: 15271326--15271380 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
15271316 ATTACATCCA
* *
15271326 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT AAA AAT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15271373 AAT AAT AA
1 AAT AAT AA
15271381 AACATGTGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:15280182 original size:5 final size:6
Alignment explanation
Indices: 15280167--15280191 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15280157 TAAATTCTCA
15280167 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
15280192 TTTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:15285194 original size:12 final size:13
Alignment explanation
Indices: 15285173--15285201 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15285163 AATTTTAATT
15285173 TAAAATATAAAAA
1 TAAAATATAAAAA
15285186 TAAAA-ATAAAAA
1 TAAAATATAAAAA
15285198 TAAA
1 TAAA
15285202 TATTTATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
TAAAATATAAAAA
Found at i:15288659 original size:71 final size:71
Alignment explanation
Indices: 15288532--15288674 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
15288522 TTATCCTTTC
*
15288532 AAGAACTCCACATTTATTTTTGTTAGACTATTCCATAATTTATGGAATTTATGAACCACTTTTAT
1 AAGAACTCCACATTTATTTTTGTAAGACTATTCCATAATTTATGGAATTTATGAACCACTTTTAT
15288597 TTATTT
66 TTATTT
*
15288603 AAGAACTCCACATTTATTTTTGTAAGTCTATTCCATAATTTATGGAATTTATGAACCACTTTTAT
1 AAGAACTCCACATTTATTTTTGTAAGACTATTCCATAATTTATGGAATTTATGAACCACTTTTAT
15288668 TTATTT
66 TTATTT
15288674 A
1 A
15288675 TGATAATTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.46
Consensus pattern (71 bp):
AAGAACTCCACATTTATTTTTGTAAGACTATTCCATAATTTATGGAATTTATGAACCACTTTTAT
TTATTT
Found at i:15302970 original size:21 final size:22
Alignment explanation
Indices: 15302941--15302987 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
15302931 CAGAAGGAGT
*
15302941 GAGTAGTACTTCACAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
*
15302963 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
15302984 GAGT
1 GAGT
15302988 TTGAGCAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCACAGCAGGTG
Found at i:15305502 original size:22 final size:22
Alignment explanation
Indices: 15305465--15305517 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
15305455 AAAAAAACTA
*
15305465 TTGCT-TTTTTTTACTATTTTC
1 TTGCTCTTTTTTAACTATTTTC
*
15305486 TTGCTCTTTTTTAACTATTTTG
1 TTGCTCTTTTTTAACTATTTTC
15305508 TTGCTACTTT
1 TTGCT-CTTT
15305518 CTTGTTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 5 0.18
22 19 0.68
23 4 0.14
ACGTcount: A:0.11, C:0.15, G:0.08, T:0.66
Consensus pattern (22 bp):
TTGCTCTTTTTTAACTATTTTC
Found at i:15305529 original size:33 final size:34
Alignment explanation
Indices: 15305478--15305559 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 34
15305468 CTTTTTTTTA
* * * *
15305478 CTAT-TTTCTTGCTCTTTTTTAACTATTTTGTTG
1 CTATCTTTCTTGTTGTTTTTTAACTATTATATTG
*
15305511 CTA-CTTTCTTGTTGTTTTTTCACTATTATATTG
1 CTATCTTTCTTGTTGTTTTTTAACTATTATATTG
*
15305544 CTATCATT-TTGTTGTT
1 CTATCTTTCTTGTTGTT
15305560 ATTGTTTGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 38 0.93
34 3 0.07
ACGTcount: A:0.13, C:0.15, G:0.10, T:0.62
Consensus pattern (34 bp):
CTATCTTTCTTGTTGTTTTTTAACTATTATATTG
Found at i:15312412 original size:28 final size:28
Alignment explanation
Indices: 15312372--15312428 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
15312362 GCTATAAAAG
15312372 TTAGTATCTATTAGTTAAATGTGTTGAA
1 TTAGTATCTATTAGTTAAATGTGTTGAA
15312400 TTAGTATCTATTAGTTAAATGTGTTGAA
1 TTAGTATCTATTAGTTAAATGTGTTGAA
15312428 T
1 T
15312429 GGCTATGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.47
Consensus pattern (28 bp):
TTAGTATCTATTAGTTAAATGTGTTGAA
Found at i:15314005 original size:24 final size:24
Alignment explanation
Indices: 15313978--15314032 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 24
15313968 GACATTCTCC
15313978 TCTTCTTTT-TCTCTCTGTTT-CTTT
1 TCTT-TTTTGTCTCTCT-TTTACTTT
*
15314002 TCTTTTTTGTTTCTCTTTTACTTTT
1 TCTTTTTTGTCTCTCTTTTAC-TTT
15314027 TCTTTT
1 TCTTTT
15314033 AATTAACTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 7 0.26
24 11 0.41
25 9 0.33
ACGTcount: A:0.02, C:0.20, G:0.04, T:0.75
Consensus pattern (24 bp):
TCTTTTTTGTCTCTCTTTTACTTT
Found at i:15315802 original size:9 final size:9
Alignment explanation
Indices: 15315788--15315839 Score: 61
Period size: 9 Copynumber: 5.6 Consensus size: 9
15315778 GATCATAGAA
15315788 TTTTTTATT
1 TTTTTTATT
15315797 TTTTTTATT
1 TTTTTTATT
15315806 TTAATTTT-TT
1 TT--TTTTATT
*
15315816 TATTTTAATT
1 T-TTTTTATT
15315826 TTTTTTATT
1 TTTTTTATT
15315835 TTTTT
1 TTTTT
15315840 GCAAAATCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 26 0.70
10 6 0.16
11 5 0.14
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTATT
Found at i:15315812 original size:15 final size:15
Alignment explanation
Indices: 15315789--15315836 Score: 80
Period size: 15 Copynumber: 3.3 Consensus size: 15
15315779 ATCATAGAAT
*
15315789 TTTTTATTTTTTTTA
1 TTTTAATTTTTTTTA
15315804 TTTTAA-TTTTTTTA
1 TTTTAATTTTTTTTA
15315818 TTTTAATTTTTTTTA
1 TTTTAATTTTTTTTA
15315833 TTTT
1 TTTT
15315837 TTTGCAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 14 0.45
15 17 0.55
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTAATTTTTTTTA
Found at i:15315815 original size:13 final size:14
Alignment explanation
Indices: 15315790--15315836 Score: 76
Period size: 14 Copynumber: 3.3 Consensus size: 14
15315780 TCATAGAATT
*
15315790 TTTTATTTTTTTTA
1 TTTTAATTTTTTTA
15315804 TTTTAATTTTTTTA
1 TTTTAATTTTTTTA
15315818 TTTTAATTTTTTTTA
1 TTTTAA-TTTTTTTA
15315833 TTTT
1 TTTT
15315837 TTTGCAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTAATTTTTTTA
Found at i:15315818 original size:23 final size:22
Alignment explanation
Indices: 15315788--15315839 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
15315778 GATCATAGAA
15315788 TTTTTTATTTT-TTTTATTTTAAT
1 TTTTTTATTTTATTTT-TTTT-AT
15315811 TTTTTTATTTTAATTTTTTTTAT
1 TTTTTTATTTT-ATTTTTTTTAT
15315834 TTTTTT
1 TTTTTT
15315840 GCAAAATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 19 0.70
24 4 0.15
25 4 0.15
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (22 bp):
TTTTTTATTTTATTTTTTTTAT
Found at i:15316811 original size:46 final size:46
Alignment explanation
Indices: 15316450--15316813 Score: 473
Period size: 46 Copynumber: 8.0 Consensus size: 46
15316440 TTATCTTTGA
* * * * * *
15316450 CATGATGCCATAGTGTCATTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
**
15316496 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTTTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
15316542 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAGTCATTTTATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*** *
15316588 CACACTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * *
15316634 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC-CGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
15316679 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
** ** *
15316724 CACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* **
15316770 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
15316814 TTCAGAGAGC
Statistics
Matches: 285, Mismatches: 30, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
44 4 0.01
45 76 0.27
46 205 0.72
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:15325562 original size:14 final size:14
Alignment explanation
Indices: 15325545--15325575 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15325535 ATAATATAGT
15325545 ATAATGAATAAAGA
1 ATAATGAATAAAGA
*
15325559 ATAATGAGTAAAGA
1 ATAATGAATAAAGA
15325573 ATA
1 ATA
15325576 GAAAAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (14 bp):
ATAATGAATAAAGA
Found at i:15326487 original size:47 final size:47
Alignment explanation
Indices: 15326431--15326533 Score: 145
Period size: 47 Copynumber: 2.2 Consensus size: 47
15326421 GTTGATGAGA
*
15326431 CACTATGTGT-CGACTACTGTTAAAGTTCCGAATTTGTTCCGATGAAG
1 CACTATGTGTACGA-TAATGTTAAAGTTCCGAATTTGTTCCGATGAAG
* * * *
15326478 TACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTCCGATGAAG
1 CACTATGTGTACGATAATGTTAAAGTTCCGAATTTGTTCCGATGAAG
15326525 CACTATGTG
1 CACTATGTG
15326534 CTTATCCCGG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 46 0.96
48 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (47 bp):
CACTATGTGTACGATAATGTTAAAGTTCCGAATTTGTTCCGATGAAG
Found at i:15337494 original size:21 final size:21
Alignment explanation
Indices: 15337456--15337502 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
15337446 TCCTTTTCAT
*
15337456 AATTT-AAGCTTAATTTCTATC
1 AATTTCAAGCCTAATTTCT-TC
*
15337477 AATTTCAAGCCTAA-TTCTTT
1 AATTTCAAGCCTAATTTCTTC
15337497 AATTTC
1 AATTTC
15337503 TCAACAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 7 0.30
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.47
Consensus pattern (21 bp):
AATTTCAAGCCTAATTTCTTC
Found at i:15342254 original size:27 final size:27
Alignment explanation
Indices: 15342222--15342275 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
15342212 AGTCTTATGA
15342222 AATCTAAAACAACCAAGAGTATGAACT
1 AATCTAAAACAACCAAGAGTATGAACT
15342249 AATCTAAAACAACCAAGAGTATGAACT
1 AATCTAAAACAACCAAGAGTATGAACT
15342276 GACTGATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.19, G:0.11, T:0.19
Consensus pattern (27 bp):
AATCTAAAACAACCAAGAGTATGAACT
Found at i:15351696 original size:18 final size:20
Alignment explanation
Indices: 15351673--15351712 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
15351663 TGAAAATTTA
*
15351673 AATTTTAGAA-TTA-TTATT
1 AATTTTACAATTTATTTATT
15351691 AATTTTACAATTTATTTATT
1 AATTTTACAATTTATTTATT
15351711 AA
1 AA
15351713 AATATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 3 0.16
20 7 0.37
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
AATTTTACAATTTATTTATT
Found at i:15355312 original size:13 final size:13
Alignment explanation
Indices: 15355271--15355329 Score: 54
Period size: 12 Copynumber: 4.8 Consensus size: 13
15355261 ATTACTTTAA
15355271 TTATTAA-TTATT
1 TTATTAATTTATT
* *
15355283 ATATTTAATTT-TA
1 TTA-TTAATTTATT
15355296 TTATTAATTTATT
1 TTATTAATTTATT
*
15355309 TTA-TAAGTTATT
1 TTATTAATTTATT
15355321 TT-TTAATTT
1 TTATTAATTT
15355330 GTATAAATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
12 24 0.65
13 11 0.30
14 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (13 bp):
TTATTAATTTATT
Found at i:15361857 original size:3 final size:3
Alignment explanation
Indices: 15361849--15361873 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15361839 TAGCATAGAT
15361849 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
15361874 GATAGCGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:15361889 original size:6 final size:6
Alignment explanation
Indices: 15361880--15361907 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
15361870 TAATGATAGC
15361880 GGTAGT GGTAGT GGTAGT GGTAGT GGTA
1 GGTAGT GGTAGT GGTAGT GGTAGT GGTA
15361908 TGCTTATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (6 bp):
GGTAGT
Found at i:15365633 original size:6 final size:6
Alignment explanation
Indices: 15365622--15365656 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
15365612 CTCACTTTAT
*
15365622 TACTAA TACTAA TGCTAA TACTAA TACTAA TACTA
1 TACTAA TACTAA TACTAA TACTAA TACTAA TACTA
15365657 TATGTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (6 bp):
TACTAA
Found at i:15366800 original size:18 final size:18
Alignment explanation
Indices: 15366764--15366800 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15366754 TAAACTTTAC
* *
15366764 AATTTGAATAGCTCGAAT
1 AATTTGAATAACTCAAAT
15366782 AATTTGAATAACTCAAAT
1 AATTTGAATAACTCAAAT
15366800 A
1 A
15366801 GAAAATTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (18 bp):
AATTTGAATAACTCAAAT
Found at i:15367841 original size:43 final size:43
Alignment explanation
Indices: 15367794--15367889 Score: 104
Period size: 43 Copynumber: 2.3 Consensus size: 43
15367784 TATATTAATT
* *
15367794 TTAAAATTAAAAAAATATTTTCTTCAAATTAAAAATAAAACAA
1 TTAAAATTAAAAAAATATTTACTTCAAAATAAAAATAAAACAA
* ** *** *
15367837 TTAAAAATGTAATTTTATTTACTTTAAAATAAAAATAAAACAA
1 TTAAAATTAAAAAAATATTTACTTCAAAATAAAAATAAAACAA
15367880 TT-AAATTAAA
1 TTAAAATTAAA
15367890 TTTGTGTTGG
Statistics
Matches: 41, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.35
Consensus pattern (43 bp):
TTAAAATTAAAAAAATATTTACTTCAAAATAAAAATAAAACAA
Found at i:15368576 original size:19 final size:18
Alignment explanation
Indices: 15368552--15368597 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
15368542 TAAACAATAT
15368552 ATAATAATAACATGTATAA
1 ATAATAATAACAT-TATAA
* *
15368571 ATAATAATTACATTTTAA
1 ATAATAATAACATTATAA
15368589 A-AATAATAA
1 ATAATAATAA
15368598 TATGAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 7 0.29
18 5 0.21
19 12 0.50
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (18 bp):
ATAATAATAACATTATAA
Found at i:15368969 original size:27 final size:26
Alignment explanation
Indices: 15368923--15368979 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
15368913 ATACTTTTAA
* * *
15368923 TATATTTAATTTTAATATTAAGAAAT
1 TATATTTAAATTTAAGATTAAAAAAT
15368949 TATATTTCAAATTTAAGATTAAAAAAT
1 TATATTT-AAATTTAAGATTAAAAAAT
15368976 TATA
1 TATA
15368980 ATAAAACTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (26 bp):
TATATTTAAATTTAAGATTAAAAAAT
Found at i:15369040 original size:166 final size:166
Alignment explanation
Indices: 15368721--15369047 Score: 376
Period size: 166 Copynumber: 2.0 Consensus size: 166
15368711 AATTTTTCAA
* * *
15368721 ATCTAATCTCTTTATTTATCATTTAAATACTTTTATAATATTTAATTTTAATTTTTAAAAATTAT
1 ATCTAATCTCTTTAATTAACATTTAAATACTTTTATAATATTTAATTTTAATTATTAAAAATTAT
* * ** * * * * *
15368786 ATTACGAATTAAAAATTTAAAATTATCTTTAAGCTTAAAATATACCTAACCAATTTCACTTTCAT
66 ATTACAAATTAAAAATTAAAAATTATAATAAAACTTAAAAGATACCTAACCAATTTCACATTCAA
*
15368851 ATTCCAAAATTATATTTTTACTTATTCAAAATTAAT
131 ATTCCAAAATTATATTATTACTTATTCAAAATTAAT
* * *
15368887 ATCTCATCTCTTTAATTAACTTTTCAATACTTTTA-ATATATTTAATTTTAA-TATTAAGAAATT
1 ATCTAATCTCTTTAATTAACATTTAAATACTTTTATA-ATATTTAATTTTAATTATTAA-AAATT
* * *
15368950 ATATTTCAAATTTAAGATTAAAAAATTATAATAAAACTTAAAAAGATACCTAA-CAATTTCA-AT
64 ATATTACAAATTAAAAATT-AAAAATTATAATAAAACTT-AAAAGATACCTAACCAATTTCACAT
* * *
15369013 TCAAATTTC-AAATTTTCATTATTACTTATTTAAAA
127 TCAAATTCCAAAATTAT-ATTATTACTTATTCAAAA
15369048 ATAAAATATC
Statistics
Matches: 134, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
165 12 0.09
166 88 0.66
167 22 0.16
168 12 0.09
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (166 bp):
ATCTAATCTCTTTAATTAACATTTAAATACTTTTATAATATTTAATTTTAATTATTAAAAATTAT
ATTACAAATTAAAAATTAAAAATTATAATAAAACTTAAAAGATACCTAACCAATTTCACATTCAA
ATTCCAAAATTATATTATTACTTATTCAAAATTAAT
Found at i:15370058 original size:39 final size:39
Alignment explanation
Indices: 15370015--15370094 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
15370005 TTACATAAAA
15370015 AAATCACTTAAAAAACTGAAATTTTGGAATATTCACAAT
1 AAATCACTTAAAAAACTGAAATTTTGGAATATTCACAAT
*
15370054 AAATCACTTTAAAAACTGAAATTTTGGAATATTCACAAT
1 AAATCACTTAAAAAACTGAAATTTTGGAATATTCACAAT
15370093 AA
1 AA
15370095 TTGTTTTTCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.31
Consensus pattern (39 bp):
AAATCACTTAAAAAACTGAAATTTTGGAATATTCACAAT
Found at i:15372715 original size:29 final size:29
Alignment explanation
Indices: 15372683--15372748 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
15372673 ATTACTTTTT
* *
15372683 TATAAAAATAATATAAAAAATCAATTAAA
1 TATAAAAATAAGATAAAAAATAAATTAAA
* * *
15372712 TATAAAAATAGGATGAAAAATAAATTAAT
1 TATAAAAATAAGATAAAAAATAAATTAAA
*
15372741 TATGAAAA
1 TATAAAAA
15372749 CAGAATATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (29 bp):
TATAAAAATAAGATAAAAAATAAATTAAA
Found at i:15372975 original size:24 final size:23
Alignment explanation
Indices: 15372948--15372993 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15372938 AGTTTCAACA
* *
15372948 TCAGACAATTAATGCTTCACTTTT
1 TCAG-CAACTAATGCCTCACTTTT
*
15372972 TCAGTAACTAATGCCTCACTTT
1 TCAGCAACTAATGCCTCACTTT
15372994 CGGACTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (23 bp):
TCAGCAACTAATGCCTCACTTTT
Found at i:15374381 original size:28 final size:28
Alignment explanation
Indices: 15374350--15374403 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
15374340 AAAAATTTAA
*
15374350 AAGGATTAAATTA-ATATTTTATTATTTT
1 AAGGATTAAAGTATA-ATTTTATTATTTT
*
15374378 AAGGGTTAAAGTATAATTTTATTATT
1 AAGGATTAAAGTATAATTTTATTATT
15374404 GTATATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (28 bp):
AAGGATTAAAGTATAATTTTATTATTTT
Found at i:15384004 original size:112 final size:111
Alignment explanation
Indices: 15383818--15384041 Score: 236
Period size: 112 Copynumber: 2.0 Consensus size: 111
15383808 GGCATTAGAT
* * * *
15383818 ACTTTTTTTGTGTTCCAATGTAATTTTTTTTACTCAGTTACACTGATGGCCGTAACTAGTAAAAT
1 ACTTTTTTCGTGTCCCAATGTAATTTTTTTTACTCAGGTACACTGATGGCCGGAACTAGTAAAAT
*
15383883 T-AAAAAAAAAA-TGGGTGCAGACCATGTGATGGCCGACACCAGAC
66 TAAAAAAAAAAATTGGGTGCAGACCATGTAATGGCCGACACCAGAC
** * *
15383927 ACTTTTTTCGTGTCCCAATGTAAATTTTTTTTTTACTTTGGTACACTGATGGCTGGCACTAGTTA
1 ACTTTTTTCGTGTCCCAATGT-AA--TTTTTTTTACTCAGGTACACTGATGGCCGGAACTAG-TA
* ** ** * * *
15383992 AATTTTTTAAAAAAATTTTGGGTGCTGGCCATTTAATGGCCGACACCAGA
62 AA-ATTAAAAAAAAAAATTGGGTGCAGACCATGTAATGGCCGACACCAGA
15384042 GATGTAAAAA
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
109 19 0.21
110 2 0.02
112 30 0.33
113 4 0.04
114 2 0.02
115 7 0.08
116 28 0.30
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (111 bp):
ACTTTTTTCGTGTCCCAATGTAATTTTTTTTACTCAGGTACACTGATGGCCGGAACTAGTAAAAT
TAAAAAAAAAAATTGGGTGCAGACCATGTAATGGCCGACACCAGAC
Found at i:15387281 original size:21 final size:21
Alignment explanation
Indices: 15387257--15387329 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 21
15387247 AATGAGAGAA
15387257 AAATTAATATGAAAA-AAATG-T
1 AAATTAA-ATGAAAAGAAA-GAT
15387278 AAATTAAAATGAAAAGAAAGAT
1 AAATT-AAATGAAAAGAAAGAT
* *
15387300 AACTTAAATGAAAAGAGAA-AA
1 AAATTAAATGAAAAGA-AAGAT
15387321 AAATTAAAT
1 AAATTAAAT
15387330 TTAAATGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
21 33 0.73
22 12 0.27
ACGTcount: A:0.66, C:0.01, G:0.11, T:0.22
Consensus pattern (21 bp):
AAATTAAATGAAAAGAAAGAT
Found at i:15387296 original size:26 final size:25
Alignment explanation
Indices: 15387267--15387484 Score: 111
Period size: 27 Copynumber: 8.8 Consensus size: 25
15387257 AAATTAATAT
15387267 GAAAAAAATGTAAATTAAAATGAAA-A
1 GAAAAAAA--TAAATTAAAATGAAAGA
* *
15387293 G--AAAGATAACTT-AAATGAAAAGA
1 GAAAAAAATAAATTAAAATG-AAAGA
*
15387316 GAAAAAAATTAAATTTAAATGAAATGA
1 GAAAAAAA-TAAATTAAAATGAAA-GA
* *
15387343 GAAAGAAATAAATTAAAATGGAA-A
1 GAAAAAAATAAATTAAAATGAAAGA
** *
15387367 G--AAGGAT-AATTTAAATGAAATGA
1 GAAAAAAATAAATTAAAATGAAA-GA
* * *
15387390 GGAAGAAATTAAATTTAAATG---GCA
1 -GAAAAAAATAAATTAAAATGAAAG-A
* * *
15387414 -AAAAAGAT-AATTTAAATGAAATAA
1 GAAAAAAATAAATTAAAATGAAA-GA
*
15387438 GAAAAAAATAAAATTTAAATGAAATGA
1 GAAAAAAAT-AAATTAAAATGAAA-GA
15387465 GAAAAAAATAAATTAAAATG
1 GAAAAAAATAAATTAAAATG
15387485 GGAAGAAAGA
Statistics
Matches: 148, Mismatches: 23, Indels: 42
0.69 0.11 0.20
Matches are distributed among these distances:
21 26 0.18
22 16 0.11
23 4 0.03
24 9 0.06
25 11 0.07
26 34 0.23
27 48 0.32
ACGTcount: A:0.63, C:0.01, G:0.14, T:0.22
Consensus pattern (25 bp):
GAAAAAAATAAATTAAAATGAAAGA
Found at i:15387307 original size:27 final size:25
Alignment explanation
Indices: 15387267--15387504 Score: 92
Period size: 26 Copynumber: 9.6 Consensus size: 25
15387257 AAATTAATAT
*
15387267 GAAAAAAATGTAAATTAAAATGAAAA
1 GAAAGAAAT-TAAATTAAAATGAAAA
*
15387293 GAAAG--A-TAACTT-AAATGAAAAGA
1 GAAAGAAATTAAATTAAAATG-AAA-A
* *
15387316 GAAAAAAATTAAATTTAAATGAAATGA
1 GAAAGAAATTAAATTAAAATGAAA--A
*
15387343 GAAAGAAA-TAAATTAAAATGGAAA
1 GAAAGAAATTAAATTAAAATGAAAA
* *
15387367 G-AAG-GA-T-AATTTAAATGAAATGA
1 GAAAGAAATTAAATTAAAATGAAA--A
* * *
15387390 GGAAGAAATTAAATTTAAATGGCAAA
1 GAAAGAAATTAAATTAAAAT-GAAAA
*
15387416 -AAAG--A-T-AATTTAAATGAAATAA
1 GAAAGAAATTAAATTAAAATG-AA-AA
* * *
15387438 GAAAAAAATAAAATTTAAATGAAATGA
1 GAAAGAAATTAAATTAAAATGAAA--A
* **
15387465 GAAA-AAAATAAATTAAAATGGGAA
1 GAAAGAAATTAAATTAAAATGAAAA
15387489 GAAAGATAATTTAAAT
1 GAAAGA-AA-TTAAAT
15387505 GAAATGGGGA
Statistics
Matches: 164, Mismatches: 22, Indels: 51
0.69 0.09 0.22
Matches are distributed among these distances:
20 1 0.01
21 26 0.16
22 13 0.08
23 14 0.09
24 11 0.07
25 8 0.05
26 45 0.27
27 43 0.26
28 3 0.02
ACGTcount: A:0.62, C:0.01, G:0.15, T:0.22
Consensus pattern (25 bp):
GAAAGAAATTAAATTAAAATGAAAA
Found at i:15387378 original size:47 final size:47
Alignment explanation
Indices: 15387327--15387458 Score: 185
Period size: 48 Copynumber: 2.8 Consensus size: 47
15387317 AAAAAAATTA
* *
15387327 AATTTAAATGAAATGAGAAAGAAATAAATTAAAATGG-AAAGAAGGAT
1 AATTTAAATGAAATGAGAAAGAAATAAATTTAAATGGCAAA-AAAGAT
*
15387374 AATTTAAATGAAATGAGGAAGAAATTAAATTTAAATGGCAAAAAAGAT
1 AATTTAAATGAAATGAGAAAGAAA-TAAATTTAAATGGCAAAAAAGAT
* *
15387422 AATTTAAATGAAATAAGAAAAAAATAAAATTTAAATG
1 AATTTAAATGAAATGAGAAAGAAAT-AAATTTAAATG
15387459 AAATGAGAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
47 24 0.32
48 49 0.64
49 3 0.04
ACGTcount: A:0.60, C:0.01, G:0.15, T:0.24
Consensus pattern (47 bp):
AATTTAAATGAAATGAGAAAGAAATAAATTTAAATGGCAAAAAAGAT
Found at i:15387401 original size:21 final size:21
Alignment explanation
Indices: 15387330--15387403 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
15387320 AAAATTAAAT
*
15387330 TTAAATGAAATGAGAAAGAAA
1 TTAAATGAAATGAGGAAGAAA
* *
15387351 -TAAATTAAAATGGAAAGAAGGATAA
1 TTAAA-TGAAAT-G-AGGAA-GA-AA
15387376 TTTAAATGAAATGAGGAAGAAA
1 -TTAAATGAAATGAGGAAGAAA
15387398 TTAAAT
1 TTAAAT
15387404 TTAAATGGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
20 4 0.10
21 11 0.27
22 3 0.07
23 5 0.12
24 6 0.15
25 3 0.07
26 5 0.12
27 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (21 bp):
TTAAATGAAATGAGGAAGAAA
Found at i:15387423 original size:122 final size:121
Alignment explanation
Indices: 15387272--15387567 Score: 461
Period size: 122 Copynumber: 2.4 Consensus size: 121
15387262 AATATGAAAA
* * * *
15387272 AAATGTAAATTAAAATGAAAAGAAAGATAACTTAAATGAAA-AGAGAAAAAAATTAAATTTAAAT
1 AAAT-TAAATTTAAATGGAAA-AAAGATAATTTAAATGAAATA-AGAAAAAAATAAAATTTAAAT
* *
15387336 GAAATGAGAAAGAAATAAATTAAAATGGAAAGAAGGATAATTTAAATGAAATGAGGAAG
63 GAAATGAGAAAAAAATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGGAAG
15387395 AAATTAAATTTAAATGGCAAAAAAGATAATTTAAATGAAATAAGAAAAAAATAAAATTTAAATGA
1 AAATTAAATTTAAATGG-AAAAAAGATAATTTAAATGAAATAAGAAAAAAATAAAATTTAAATGA
* *
15387460 AATGAGAAAAAAATAAATTAAAATGGGAAGAAAGATAATTTAAATGAAATGGGGAAG
65 AATGAGAAAAAAATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGGAAG
15387517 AAATTAAATTTAAATGGAAAAAAGATAATTTAAATGAAATAA-AAAATAAAT
1 AAATTAAATTTAAATGGAAAAAAGATAATTTAAATGAAATAAGAAAA-AAAT
15387568 TTAAATGGAA
Statistics
Matches: 162, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
120 4 0.02
121 29 0.18
122 121 0.75
123 8 0.05
ACGTcount: A:0.61, C:0.01, G:0.15, T:0.23
Consensus pattern (121 bp):
AAATTAAATTTAAATGGAAAAAAGATAATTTAAATGAAATAAGAAAAAAATAAAATTTAAATGAA
ATGAGAAAAAAATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGGAAG
Found at i:15387478 original size:74 final size:75
Alignment explanation
Indices: 15387374--15387532 Score: 221
Period size: 74 Copynumber: 2.1 Consensus size: 75
15387364 AAAGAAGGAT
* * *
15387374 AATTTAAATGAAATGAGGAAGAAATTAAATTTAAATGGCAAAAAAGATAATTTAAATGAAATAAG
1 AATTTAAATGAAATGAGGAAAAAAATAAATTAAAATGGCAAAAAAGATAATTTAAATGAAATAAG
15387439 AAAAAAATAA
66 AAAAAAATAA
* * **
15387449 AATTTAAATGAAATGA-GAAAAAAATAAATTAAAATGGGAAGAAAGATAATTTAAATGAAATGGG
1 AATTTAAATGAAATGAGGAAAAAAATAAATTAAAATGGCAAAAAAGATAATTTAAATGAAATAAG
* * *
15387513 GAAGAAATTA
66 AAAAAAATAA
15387523 AATTTAAATG
1 AATTTAAATG
15387533 GAAAAAAGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
74 58 0.78
75 16 0.22
ACGTcount: A:0.59, C:0.01, G:0.16, T:0.25
Consensus pattern (75 bp):
AATTTAAATGAAATGAGGAAAAAAATAAATTAAAATGGCAAAAAAGATAATTTAAATGAAATAAG
AAAAAAATAA
Found at i:15387500 original size:47 final size:47
Alignment explanation
Indices: 15387440--15387601 Score: 190
Period size: 47 Copynumber: 3.5 Consensus size: 47
15387430 TGAAATAAGA
* * *
15387440 AAAAAATAAAATTTAAATGAAATGAGAAAAAAATAAATTAAAATGGG
1 AAAAAAGATAATTTAAATGAAATGAGAAAAAAATAAATTTAAATGGG
* * * *
15387487 AAGAAAGATAATTTAAATGAAATGGGGAAGAAATTAAATTTAAAT-GG
1 AAAAAAGATAATTTAAATGAAAT-GAGAAAAAAATAAATTTAAATGGG
*
15387534 AAAAAAGATAATTTAAATGAAAT----AAAAAATAAATTTAAATGGA
1 AAAAAAGATAATTTAAATGAAATGAGAAAAAAATAAATTTAAATGGG
* *
15387577 AAAAAATATAAATTAAATGAAATGA
1 AAAAAAGATAATTTAAATGAAATGA
15387602 AATGGAAATT
Statistics
Matches: 98, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
42 15 0.15
43 22 0.22
47 44 0.45
48 17 0.17
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (47 bp):
AAAAAAGATAATTTAAATGAAATGAGAAAAAAATAAATTTAAATGGG
Found at i:15387514 original size:27 final size:26
Alignment explanation
Indices: 15387303--15387532 Score: 120
Period size: 27 Copynumber: 9.3 Consensus size: 26
15387293 GAAAGATAAC
* * *
15387303 TTAAATGAAAAGAGAAAAAAATTAAAT
1 TTAAATGAAATGGGAAGAAAA-TAAAT
*
15387330 TTAAATGAAATGAGAA-AGAAATAAA-
1 TTAAATGAAATGGGAAGA-AAATAAAT
* *
15387355 TT--A--AAATGGAAAGAAGGAT-AAT
1 TTAAATGAAATGGGAAGAA-AATAAAT
*
15387377 TTAAATGAAATGAGGAAGAAATTAAA-
1 TTAAATGAAATG-GGAAGAAAATAAAT
* *
15387403 TT---T-AAATGGCAA-AAAAGATAAT
1 TTAAATGAAATGGGAAGAAAATA-AAT
** *
15387425 TTAAATGAAATAAGAAAAAAATAAAAT
1 TTAAATGAAATGGGAAGAAAAT-AAAT
* *
15387452 TTAAATGAAATGAGAAAAAAATAAA-
1 TTAAATGAAATGGGAAGAAAATAAAT
15387477 TT--A--AAATGGGAAGAAAGAT-AAT
1 TTAAATGAAATGGGAAGAAA-ATAAAT
*
15387499 TTAAATGAAATGGGGAAGAAATTAAAT
1 TTAAATGAAAT-GGGAAGAAAATAAAT
15387526 TTAAATG
1 TTAAATG
15387533 GAAAAAAGAT
Statistics
Matches: 159, Mismatches: 18, Indels: 52
0.69 0.08 0.23
Matches are distributed among these distances:
20 4 0.03
21 28 0.18
22 16 0.10
23 3 0.02
24 2 0.01
25 5 0.03
26 27 0.17
27 73 0.46
28 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.23
Consensus pattern (26 bp):
TTAAATGAAATGGGAAGAAAATAAAT
Found at i:15387618 original size:17 final size:16
Alignment explanation
Indices: 15387596--15387649 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
15387586 AAATTAAATG
*
15387596 AAATGAAATGGAAATTC
1 AAATGAAAT-GAAATTA
15387613 AAATGAAATTGAAATTA
1 AAATGAAA-TGAAATTA
*
15387630 AAATTGAAATGAAATGA
1 AAA-TGAAATGAAATTA
15387647 AAA
1 AAA
15387650 AAAAGAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 27 0.82
18 6 0.18
ACGTcount: A:0.59, C:0.02, G:0.15, T:0.24
Consensus pattern (16 bp):
AAATGAAATGAAATTA
Found at i:15387633 original size:6 final size:6
Alignment explanation
Indices: 15387586--15387648 Score: 57
Period size: 5 Copynumber: 11.5 Consensus size: 6
15387576 AAAAAAATAT
* * *
15387586 AAATT- AAA-TG AAA-TG AAATGG AAATTC AAA-TG AAATTG AAATTA
1 AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG
15387630 AAATTG AAA-TG AAA-TG AAA
1 AAATTG AAATTG AAATTG AAA
15387649 AAAAAGAAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
4 1 0.02
5 25 0.51
6 23 0.47
ACGTcount: A:0.59, C:0.02, G:0.14, T:0.25
Consensus pattern (6 bp):
AAATTG
Found at i:15387651 original size:90 final size:89
Alignment explanation
Indices: 15387442--15387652 Score: 223
Period size: 90 Copynumber: 2.3 Consensus size: 89
15387432 AAATAAGAAA
* * *
15387442 AAAATAAAATTTAAATGAAATGAGAAAAAAATAAATTAAAATGGGAAGAAAGATAATTTAAATGA
1 AAAATAAAATTTAAATGAAAT--GAAAAAAATAAATTAAAATGGAAAAAAAGATAAATTAAATGA
* *
15387507 AATGGGGAAGAAATTAAATTTAAATGG
64 AAT-GGAAAGAAATTAAATTGAAATGG
* * *
15387534 AAAAAAGATAATTTAAATGAAAT--AAAAAATAAATTTAAATGGAAAAAAATATAAATTAAATGA
1 AAAATA-A-AATTTAAATGAAATGAAAAAAATAAATTAAAATGGAAAAAAAGATAAATTAAATGA
*
15387597 AAT-GAAATGGAAATTCAAA-TGAAATTG
64 AATGGAAA--GAAATT-AAATTGAAATGG
* *
15387624 AAATTAAAATTGAAATGAAATGAAAAAAA
1 AAAATAAAATTTAAATGAAATGAAAAAAA
15387653 AGAAGAAGGT
Statistics
Matches: 100, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
88 16 0.16
89 1 0.01
90 60 0.60
91 3 0.03
92 5 0.05
93 1 0.01
94 14 0.14
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (89 bp):
AAAATAAAATTTAAATGAAATGAAAAAAATAAATTAAAATGGAAAAAAAGATAAATTAAATGAAA
TGGAAAGAAATTAAATTGAAATGG
Found at i:15388189 original size:18 final size:18
Alignment explanation
Indices: 15388166--15388200 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15388156 AATTATAAAT
15388166 TTAAATGAAAACAAAAAC
1 TTAAATGAAAACAAAAAC
*
15388184 TTAAATGAAAATAAAAA
1 TTAAATGAAAACAAAAA
15388201 TTTTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (18 bp):
TTAAATGAAAACAAAAAC
Found at i:15389540 original size:17 final size:18
Alignment explanation
Indices: 15389508--15389543 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
15389498 ATATTATTTT
15389508 TTAATTATTTAAAATATA
1 TTAATTATTTAAAATATA
*
15389526 TTAATT-TTTATAATATA
1 TTAATTATTTAAAATATA
15389543 T
1 T
15389544 AACAAGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATTTAAAATATA
Found at i:15395872 original size:32 final size:32
Alignment explanation
Indices: 15395836--15395900 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
15395826 TGTATGCATT
*
15395836 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATAGATGATGGGCA
15395868 TTAGCATTTTAATAGTTAATAGATGATGGGCA
1 TTAGCATTTTAATAGTTAATAGATGATGGGCA
15395900 T
1 T
15395901 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATAGATGATGGGCA
Found at i:15397416 original size:26 final size:26
Alignment explanation
Indices: 15397387--15397439 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
15397377 TTTACAGTTT
*
15397387 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
15397413 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
15397439 T
1 T
15397440 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:15398552 original size:30 final size:30
Alignment explanation
Indices: 15398518--15398577 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
15398508 ACTTAACAAG
* *
15398518 CAAATACCTGTAGAATAATAATAAAATTAA
1 CAAATACCTGTAAAATAATAACAAAATTAA
* *
15398548 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTGTAAAATAATAACAAAATTAA
15398578 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATACCTGTAAAATAATAACAAAATTAA
Found at i:15401122 original size:12 final size:12
Alignment explanation
Indices: 15401105--15401129 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15401095 TTAATAAAAT
15401105 AAAATAAATTAA
1 AAAATAAATTAA
15401117 AAAATAAATTAA
1 AAAATAAATTAA
15401129 A
1 A
15401130 CTTTTGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATAAATTAA
Found at i:15401122 original size:17 final size:18
Alignment explanation
Indices: 15401095--15401129 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15401085 CATTAAAATT
15401095 TTAATAAAATAAAATAAA
1 TTAATAAAATAAAATAAA
*
15401113 TTAA-AAAATAAATTAAA
1 TTAATAAAATAAAATAAA
15401130 CTTTTGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAATAAAATAAAATAAA
Found at i:15403266 original size:12 final size:11
Alignment explanation
Indices: 15403241--15403282 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
15403231 AAACAAAATT
15403241 AGAAAG-AAAA
1 AGAAAGAAAAA
15403251 AGAAAGAAAAA
1 AGAAAGAAAAA
15403262 GAGAAAGAAGAAA
1 -AGAAAGAA-AAA
15403275 AG-AAGAAA
1 AGAAAGAAA
15403283 TCACGCAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.24
11 9 0.31
12 10 0.34
13 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAAA
Found at i:15403281 original size:15 final size:16
Alignment explanation
Indices: 15403243--15403282 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
15403233 ACAAAATTAG
15403243 AAAGAA-AAAGAAAGA
1 AAAGAAGAAAGAAAGA
15403258 AAA-AGAGAAAG-AAGA
1 AAAGA-AGAAAGAAAGA
15403273 AAAGAAGAAA
1 AAAGAAGAAA
15403283 TCACGCAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.05
15 16 0.73
16 5 0.23
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAGAAGAAAGAAAGA
Found at i:15405900 original size:27 final size:28
Alignment explanation
Indices: 15405846--15405900 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
15405836 TGAATGGAAT
* *
15405846 TTGAATTGGTATGAATAAATGATTAATAC
1 TTGAATTGGTATG-AGAAATGATAAATAC
15405875 TTGAATTGGTATG-GAAATGATAAATA
1 TTGAATTGGTATGAGAAATGATAAATA
15405901 GAAATGAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 11 0.46
29 13 0.54
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.36
Consensus pattern (28 bp):
TTGAATTGGTATGAGAAATGATAAATAC
Found at i:15406184 original size:41 final size:41
Alignment explanation
Indices: 15406139--15406219 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
15406129 ACTAATGAAT
* *
15406139 CTCAAACTTTGATTAAATGTGTTGGAAAAATATATCCTATA
1 CTCAAACATTGATTAAATGTGCTGGAAAAATATATCCTATA
15406180 CTCAAACATTGATTAAATGTGCTGGAAAAATATATCCTAT
1 CTCAAACATTGATTAAATGTGCTGGAAAAATATATCCTAT
15406220 CTCTTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (41 bp):
CTCAAACATTGATTAAATGTGCTGGAAAAATATATCCTATA
Found at i:15413781 original size:19 final size:19
Alignment explanation
Indices: 15413757--15413795 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15413747 ATTCATTGAT
*
15413757 TTACCCTTAATATTAACCA
1 TTACCCTCAATATTAACCA
15413776 TTACCCTCAATATTAACCA
1 TTACCCTCAATATTAACCA
15413795 T
1 T
15413796 AACTCATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (19 bp):
TTACCCTCAATATTAACCA
Found at i:15418249 original size:21 final size:21
Alignment explanation
Indices: 15418210--15418249 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15418200 TTTTATTATT
*
15418210 GTATTATTATTAAAGATATAA
1 GTATTATTATTAAACATATAA
*
15418231 GTATTATTATTCAACATAT
1 GTATTATTATTAAACATAT
15418250 TTTTTTATAG
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:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
GTATTATTATTAAACATATAA
Found at i:15421258 original size:13 final size:13
Alignment explanation
Indices: 15421222--15421259 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
15421212 TATTTAAGAA
15421222 ATAATAATTATAAT
1 ATAATAA-TATAAT
*
15421236 -TAAAAATATAAT
1 ATAATAATATAAT
15421248 ATAATAATATAA
1 ATAATAATATAA
15421260 AGTAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:15422186 original size:6 final size:6
Alignment explanation
Indices: 15422175--15422209 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
15422165 TTTGTGTACC
*
15422175 GTTACT GTTACT GTTACT GTTATT GTTACT GTTAC
1 GTTACT GTTACT GTTACT GTTACT GTTACT GTTAC
15422210 GGTGTATTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.51
Consensus pattern (6 bp):
GTTACT
Found at i:15424342 original size:117 final size:117
Alignment explanation
Indices: 15424130--15424374 Score: 404
Period size: 117 Copynumber: 2.1 Consensus size: 117
15424120 GCCTATTTAT
*
15424130 TGTATTAATTACAACAAAATTAATTTTTTCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACA
1 TGTACTAATTACAACAAAATTAATTTTTTCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACA
*
15424195 AAATTGATTATAATAATAATTTAAGATGTTGAAAATGAAGATATTTGGAAAA
66 AAATTGATTATAATAATAATTTAAGATGTTGAAAATGAAGATATTTAGAAAA
* * *
15424247 TGTACTAATTATAACAAAATTAA-TTTTTCTCTTTTTTAAGATGTTGACTCTAATTTTTTGGACT
1 TGTACTAATTACAACAAAATTAATTTTTTCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACA
*
15424311 AAATTGATTA-AACCTATTAATTTAAGATGTTGAAAATGAAGATATTTAGAAAA
66 AAATTGATTATAA--TAATAATTTAAGATGTTGAAAATGAAGATATTTAGAAAA
15424364 TGTACTAATTA
1 TGTACTAATTA
15424375 ATTTTTTAGA
Statistics
Matches: 120, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
115 2 0.02
116 49 0.41
117 69 0.57
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.42
Consensus pattern (117 bp):
TGTACTAATTACAACAAAATTAATTTTTTCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACA
AAATTGATTATAATAATAATTTAAGATGTTGAAAATGAAGATATTTAGAAAA
Found at i:15425890 original size:22 final size:22
Alignment explanation
Indices: 15425837--15425904 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 22
15425827 TTATTACACA
15425837 TTATATTAAAAAATAAATTAATTAT
1 TTATATTAAAAAAT---TTAATTAT
* *
15425862 TTTTATTAAAAAATTTATTTAT
1 TTATATTAAAAAATTTAATTAT
15425884 TTATATTATTAAAAA-TTAATT
1 TTATATTA--AAAAATTTAATT
15425905 CATAAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
22 14 0.38
23 5 0.14
24 5 0.14
25 13 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATATTAAAAAATTTAATTAT
Found at i:15434185 original size:22 final size:23
Alignment explanation
Indices: 15434142--15434185 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15434132 TTAATCTTTT
15434142 TACTTTTATTTGAAGTAATTTAC
1 TACTTTTATTTGAAGTAATTTAC
15434165 TACTTTTACTTT-AA-TAATTTA
1 TACTTTTA-TTTGAAGTAATTTA
15434186 AAAATACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 10 0.50
24 3 0.15
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.55
Consensus pattern (23 bp):
TACTTTTATTTGAAGTAATTTAC
Found at i:15435957 original size:21 final size:19
Alignment explanation
Indices: 15435918--15435957 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
15435908 ATTTATCTCT
*
15435918 TAATATTTGAATTTTTATA
1 TAATATTTGAATATTTATA
15435937 TAATATTTAGAACTATTTATA
1 TAATATTT-GAA-TATTTATA
15435958 GTCCCTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 3 0.17
21 7 0.39
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (19 bp):
TAATATTTGAATATTTATA
Found at i:15437714 original size:30 final size:29
Alignment explanation
Indices: 15437665--15437721 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
15437655 AATTTTTTAT
15437665 TTTCCCCCAAACTTTTTACTCCATCCCAC
1 TTTCCCCCAAACTTTTTACTCCATCCCAC
*
15437694 TTTCCCCCTAAAAC-TTTTACTCCCTCCC
1 TTTCCCCC--AAACTTTTTACTCCATCCC
15437722 CATCCCACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 8 0.32
30 13 0.52
31 4 0.16
ACGTcount: A:0.19, C:0.46, G:0.00, T:0.35
Consensus pattern (29 bp):
TTTCCCCCAAACTTTTTACTCCATCCCAC
Found at i:15438892 original size:30 final size:30
Alignment explanation
Indices: 15438858--15438933 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 30
15438848 CAAATGAGTT
15438858 TAAAATTATTAAAATTATTTTTTATTTTTA
1 TAAAATTATTAAAATTATTTTTTATTTTTA
15438888 TAAAATTA--AAAA-TATTTTTTATTTTTA
1 TAAAATTATTAAAATTATTTTTTATTTTTA
* *
15438915 TAAGATTATTAAGATTATT
1 TAAAATTATTAAAATTATT
15438934 AAATGCATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 22 0.54
28 4 0.10
29 3 0.07
30 12 0.29
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (30 bp):
TAAAATTATTAAAATTATTTTTTATTTTTA
Found at i:15439044 original size:23 final size:23
Alignment explanation
Indices: 15439017--15439060 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
15439007 GCCGTCTCCA
15439017 ATCTTCATCCCCATTATTTCTCG
1 ATCTTCATCCCCATTATTTCTCG
*
15439040 ATCTTCATCCTCATTATTTCT
1 ATCTTCATCCCCATTATTTCT
15439061 TCTTTCCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.32, G:0.02, T:0.48
Consensus pattern (23 bp):
ATCTTCATCCCCATTATTTCTCG
Found at i:15439665 original size:22 final size:22
Alignment explanation
Indices: 15439596--15439669 Score: 78
Period size: 22 Copynumber: 3.2 Consensus size: 22
15439586 CAGACACTTG
15439596 AAAACCCAGAAATTTAAAAACAA
1 AAAACCCAGAAATTTAAAAAC-A
15439619 AAAATCCCCCAGAAA-TTAAATAACA
1 AAAA---CCCAGAAATTTAAA-AACA
* *
15439644 AAAACCCAAAAATTTTAAAACA
1 AAAACCCAGAAATTTAAAAACA
15439666 AAAA
1 AAAA
15439670 ACCCTTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
22 15 0.34
23 8 0.18
25 10 0.23
26 11 0.25
ACGTcount: A:0.64, C:0.19, G:0.03, T:0.15
Consensus pattern (22 bp):
AAAACCCAGAAATTTAAAAACA
Found at i:15439673 original size:23 final size:23
Alignment explanation
Indices: 15439596--15439673 Score: 88
Period size: 23 Copynumber: 3.3 Consensus size: 23
15439586 CAGACACTTG
15439596 AAAACCCAGAAATTTAAAAACAA
1 AAAACCCAGAAATTTAAAAACAA
15439619 AAAATCCCCCAGAAA-TTAAATAAC-A
1 AAAA---CCCAGAAATTTAAA-AACAA
* *
15439644 AAAACCCAAAAATTTTAAAACAA
1 AAAACCCAGAAATTTAAAAACAA
15439667 AAAACCC
1 AAAACCC
15439674 TTTTTTTGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
22 10 0.21
23 16 0.34
25 10 0.21
26 11 0.23
ACGTcount: A:0.62, C:0.22, G:0.03, T:0.14
Consensus pattern (23 bp):
AAAACCCAGAAATTTAAAAACAA
Done.