Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 75 of 228
Found at i:22277555 original size:16 final size:16
Alignment explanation
Indices: 22277533--22277569 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
22277523 AATTTTATTT
22277533 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
22277550 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
22277565 TAATA
1 TAATA
22277570 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:22278137 original size:14 final size:13
Alignment explanation
Indices: 22278118--22278156 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
22278108 CCAAAAAAGC
22278118 AAATCATTTTCTAG
1 AAATCATTTTCT-G
22278132 AAATCATTTTCTG
1 AAATCATTTTCTG
22278145 AAAGTCATTTTC
1 AAA-TCATTTTC
22278157 AGAGAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (13 bp):
AAATCATTTTCTG
Found at i:22281419 original size:17 final size:17
Alignment explanation
Indices: 22281397--22281434 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
22281387 ATTAAATTAA
22281397 TTTTAAAGTATTTT-ATT
1 TTTTAAA-TATTTTAATT
22281414 TTTTAAATATTTTAATT
1 TTTTAAATATTTTAATT
22281431 TTTT
1 TTTT
22281435 TTGTCGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTAAATATTTTAATT
Found at i:22284676 original size:14 final size:14
Alignment explanation
Indices: 22284657--22284693 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
22284647 TTAATCCGAG
22284657 ACCAATCCAACACA
1 ACCAATCCAACACA
*
22284671 ACCAATCCTACACA
1 ACCAATCCAACACA
22284685 ACCAATCCA
1 ACCAATCCA
22284694 TTTCAACATA
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:0.46, C:0.43, G:0.00, T:0.11
Consensus pattern (14 bp):
ACCAATCCAACACA
Found at i:22305432 original size:23 final size:23
Alignment explanation
Indices: 22305406--22305458 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
22305396 TCAGAAGTTT
*
22305406 CAGTCTCTAACTTTCACTCAGTA
1 CAGTCTCTAACTTTAACTCAGTA
*
22305429 CAGTCTCTAACTTTAACTTAGTA
1 CAGTCTCTAACTTTAACTCAGTA
22305452 CAGTCTC
1 CAGTCTC
22305459 ATAAAGTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.36
Consensus pattern (23 bp):
CAGTCTCTAACTTTAACTCAGTA
Found at i:22305594 original size:17 final size:16
Alignment explanation
Indices: 22305572--22305603 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
22305562 GTCCAAGTTA
22305572 TTTAAAAACCAATTTTT
1 TTTAAAAA-CAATTTTT
22305589 TTTAAAAACAATTTT
1 TTTAAAAACAATTTT
22305604 GGAACGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAAAAACAATTTTT
Found at i:22305867 original size:18 final size:20
Alignment explanation
Indices: 22305844--22305884 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22305834 ACAACGAAAG
22305844 TTTAGAAA-CCA-TTTATAT
1 TTTAGAAATCCAGTTTATAT
*
22305862 TTTAGAAATCCAGTTTGTAT
1 TTTAGAAATCCAGTTTATAT
22305882 TTT
1 TTT
22305885 TGGCAAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 3 0.15
20 9 0.45
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (20 bp):
TTTAGAAATCCAGTTTATAT
Found at i:22307632 original size:43 final size:43
Alignment explanation
Indices: 22307571--22307777 Score: 267
Period size: 43 Copynumber: 4.8 Consensus size: 43
22307561 TTTCTGATAA
22307571 GTATTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGATTT
1 GTATTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGATTT
*
22307614 GTATTTTCGTGTAAGACCACGTCAGGGACGATGGCATCGATTT
1 GTATTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGATTT
*
22307657 GTATTTTCGTGTAAGACCATGTCTGGGACGATGGCATCGATTT
1 GTATTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGATTT
* * * * *
22307700 GTATTTTTGAGTAAGACC-CTGTTTTGGAC-AGTGGCATCAATTT
1 GTATTTTCGTGTAAGACCAC-GTCTGGGACGA-TGGCATCGATTT
* * * *
22307743 GCGA-TTACATGTAAGACCACGTCTGGGACGTTGGC
1 G-TATTTTCGTGTAAGACCACGTCTGGGACGATGGC
22307778 GTTGTATGAA
Statistics
Matches: 142, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 139 0.98
44 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
GTATTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGATTT
Found at i:22309472 original size:4 final size:4
Alignment explanation
Indices: 22309463--22309493 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
22309453 AAAGTTTGCA
*
22309463 AAAT AAAT AAGT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
22309494 AATGTGTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:22320145 original size:29 final size:28
Alignment explanation
Indices: 22320108--22320174 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
22320098 TTGGCTCACA
* **
22320108 AATTATTTTCATTTTCTTGCTTTGGTACC
1 AATTATTTT-ATTATCTCACTTTGGTACC
*
22320137 AATTTTTTTATTATCTCACTTTGGTACTC
1 AATTATTTTATTATCTCACTTTGGTAC-C
22320166 AAATTATTT
1 -AATTATTT
22320175 GAAATAATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 15 0.48
29 9 0.29
30 7 0.23
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.55
Consensus pattern (28 bp):
AATTATTTTATTATCTCACTTTGGTACC
Found at i:22321850 original size:23 final size:22
Alignment explanation
Indices: 22321824--22321873 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
22321814 GGTTCTCCAA
** *
22321824 TTTTTCTTTTTTATTCTTCTGTC
1 TTTTTCTTTTCCAATCTTCT-TC
*
22321847 TTTTCCTTTTCCAATCTTCTTC
1 TTTTTCTTTTCCAATCTTCTTC
22321869 TTTTT
1 TTTTT
22321874 TTTCTTCTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.06, C:0.22, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTTCTTTTCCAATCTTCTTC
Found at i:22330219 original size:11 final size:11
Alignment explanation
Indices: 22330203--22330228 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22330193 TAGAAGAGAC
22330203 GAAACAGGGGA
1 GAAACAGGGGA
22330214 GAAACAGGGGA
1 GAAACAGGGGA
22330225 GAAA
1 GAAA
22330229 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:22330912 original size:18 final size:18
Alignment explanation
Indices: 22330889--22330937 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
22330879 ATGTGAGGTA
*
22330889 AGTATTAATATTAGTATT
1 AGTATTATTATTAGTATT
22330907 AGTATTATTATTAGTATT
1 AGTATTATTATTAGTATT
*
22330925 ATTATTATTATTA
1 AGTATTATTATTA
22330938 TGAGTGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
AGTATTATTATTAGTATT
Found at i:22330917 original size:3 final size:3
Alignment explanation
Indices: 22330891--22330938 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
22330881 GTGAGGTAAG
* * * *
22330891 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22330939 GAGTGGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:22330938 original size:12 final size:12
Alignment explanation
Indices: 22330891--22330938 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
22330881 GTGAGGTAAG
* *
22330891 TATTAATATTAG
1 TATTAGTATTAT
22330903 TATTAGTATTAT
1 TATTAGTATTAT
22330915 TATTAGTATTAT
1 TATTAGTATTAT
*
22330927 TATTATTATTAT
1 TATTAGTATTAT
22330939 GAGTGGGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:22331133 original size:24 final size:24
Alignment explanation
Indices: 22331079--22331150 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 24
22331069 TGTGTGAAGT
*
22331079 TGTGAAATAATTATTG-ATTG-AAA
1 TGTGAAA-AATGATTGAATTGAAAA
*
22331102 GGTGGAAAAATGATTGAATTGAAAA
1 TGT-GAAAAATGATTGAATTGAAAA
22331127 TGTGAAAAATTGTAATTGAATTGA
1 TGTGAAAAA-TG--ATTGAATTGA
22331151 GAATATATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 9 0.22
24 14 0.35
25 7 0.17
27 10 0.25
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (24 bp):
TGTGAAAAATGATTGAATTGAAAA
Found at i:22331353 original size:37 final size:39
Alignment explanation
Indices: 22331294--22331389 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
22331284 CGGATAGATT
* * * *
22331294 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
22331331 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
22331370 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
22331390 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:22333201 original size:17 final size:17
Alignment explanation
Indices: 22333176--22333213 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
22333166 TAAGGGAATA
*
22333176 AAAACAAATAAATAATG
1 AAAACAAATAAATAAAG
*
22333193 AAAAGAAATAAATAAAG
1 AAAACAAATAAATAAAG
22333210 AAAA
1 AAAA
22333214 ATAAGCAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAACAAATAAATAAAG
Found at i:22346649 original size:17 final size:18
Alignment explanation
Indices: 22346621--22346670 Score: 75
Period size: 17 Copynumber: 2.8 Consensus size: 18
22346611 TTAATAAATA
*
22346621 AATTATCCAACCCAACCC
1 AATTACCCAACCCAACCC
22346639 AATTA-CCAACCCAACCC
1 AATTACCCAACCCAACCC
*
22346656 AACTACCCAACCCAA
1 AATTACCCAACCCAA
22346671 TAAAACTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.42, C:0.46, G:0.00, T:0.12
Consensus pattern (18 bp):
AATTACCCAACCCAACCC
Found at i:22346758 original size:38 final size:38
Alignment explanation
Indices: 22346652--22346768 Score: 182
Period size: 39 Copynumber: 3.0 Consensus size: 38
22346642 TACCAACCCA
*
22346652 ACCCAACTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAA-TAAAACTAAAGTCT
*
22346691 ACCCAATTACCCAACCCAATAAGAGTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAA-AATAAAACTAAAGTCT
22346730 ACCCAATTA-CCAACCCAATCAAAATAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAAT-AAAATAAAACTAAAGTCT
22346768 A
1 A
22346769 ACTCTAAGTC
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
38 26 0.36
39 46 0.63
40 1 0.01
ACGTcount: A:0.49, C:0.30, G:0.04, T:0.17
Consensus pattern (38 bp):
ACCCAATTACCCAACCCAATAAAATAAAACTAAAGTCT
Found at i:22346967 original size:37 final size:37
Alignment explanation
Indices: 22346894--22346968 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
22346884 TGTTAATTTC
* * * *
22346894 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACATATGTAATGTTTTTAATTATCTACTAATTCA
22346931 AAGACATATGTAATGTTTTTAATTATCTACTAATTCA
1 AAGACATATGTAATGTTTTTAATTATCTACTAATTCA
22346968 A
1 A
22346969 TTCGGGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (37 bp):
AAGACATATGTAATGTTTTTAATTATCTACTAATTCA
Found at i:22354851 original size:50 final size:50
Alignment explanation
Indices: 22354776--22355006 Score: 367
Period size: 50 Copynumber: 4.6 Consensus size: 50
22354766 GGTAAAGAGA
22354776 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGATAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGATAGG
22354826 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGATAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGATAGG
* * * *
22354876 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGATAGG
* *
22354926 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGGATA--
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCG--A-GACGATAGG
22354977 TCCCATGTAAGACCATGTCTGGGACATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
22355007 TTTGGCATGT
Statistics
Matches: 168, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
50 133 0.79
51 29 0.17
52 1 0.01
53 5 0.03
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.20
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGATAGG
Found at i:22357098 original size:30 final size:30
Alignment explanation
Indices: 22357064--22357129 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
22357054 TCCATGACTG
22357064 AATATGAACGCGAA-TTTGTCAGACTTAGTA
1 AATATGAACG-GAAGTTTGTCAGACTTAGTA
**
22357094 AATATGCCCGGAAGTTTGTCAGACTTAGTA
1 AATATGAACGGAAGTTTGTCAGACTTAGTA
22357124 AATATG
1 AATATG
22357130 CAAGAGATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 3 0.09
30 30 0.91
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (30 bp):
AATATGAACGGAAGTTTGTCAGACTTAGTA
Found at i:22361857 original size:50 final size:50
Alignment explanation
Indices: 22361782--22362012 Score: 349
Period size: 50 Copynumber: 4.6 Consensus size: 50
22361772 GGTAAAGAGA
22361782 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGATAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGATAGG
22361832 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGATAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGATAGG
* * * *
22361882 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGATAGG
** * *
22361932 TCCCCCGTAAGACCATGTCCGGGACATGGCATGGGCACCGATATGAGGATA--
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCG--A-GACGATAGG
22361983 TCCCATGTAAGACCATGTCTGGGACATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
22362013 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
50 131 0.80
51 27 0.16
52 1 0.01
53 5 0.03
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGATAGG
Found at i:22364911 original size:26 final size:28
Alignment explanation
Indices: 22364882--22364937 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 28
22364872 CTTCTTTCTT
*
22364882 TTTTTTACAATAATTT-GTAAA-AATAA
1 TTTTTTACAATAATTTAGAAAATAATAA
22364908 --TTTTACAATAATTTAGAAAATAATAA
1 TTTTTTACAATAATTTAGAAAATAATAA
22364934 TTTT
1 TTTT
22364938 ACAATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
24 14 0.56
25 4 0.16
26 5 0.20
28 2 0.08
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (28 bp):
TTTTTTACAATAATTTAGAAAATAATAA
Found at i:22364916 original size:24 final size:26
Alignment explanation
Indices: 22364884--22364948 Score: 98
Period size: 26 Copynumber: 2.6 Consensus size: 26
22364874 TCTTTCTTTT
*
22364884 TTTTACAATAATTT-GTAAA-AATAA
1 TTTTACAATAATTTAGAAAATAATAA
22364908 TTTTACAATAATTTAGAAAATAATAA
1 TTTTACAATAATTTAGAAAATAATAA
*
22364934 TTTTACAATATTTTA
1 TTTTACAATAATTTA
22364949 AGTAGTATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 14 0.38
25 4 0.11
26 19 0.51
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (26 bp):
TTTTACAATAATTTAGAAAATAATAA
Found at i:22369243 original size:9 final size:9
Alignment explanation
Indices: 22369229--22369253 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22369219 TCTTGGGATT
22369229 TTGAGGTAG
1 TTGAGGTAG
22369238 TTGAGGTAG
1 TTGAGGTAG
22369247 TTGAGGT
1 TTGAGGT
22369254 TGAGTGGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.44, T:0.36
Consensus pattern (9 bp):
TTGAGGTAG
Found at i:22373232 original size:31 final size:31
Alignment explanation
Indices: 22373197--22373261 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
22373187 TATTTTGATC
22373197 TTAGTTATTTGGTTGTGGGTTATGACTAGTT
1 TTAGTTATTTGGTTGTGGGTTATGACTAGTT
22373228 TTAGTTATTTGGTTGTGGGTTATGACTAGTT
1 TTAGTTATTTGGTTGTGGGTTATGACTAGTT
22373259 TTA
1 TTA
22373262 AAAAGTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.17, C:0.03, G:0.28, T:0.52
Consensus pattern (31 bp):
TTAGTTATTTGGTTGTGGGTTATGACTAGTT
Found at i:22374033 original size:25 final size:25
Alignment explanation
Indices: 22373957--22374062 Score: 92
Period size: 25 Copynumber: 4.2 Consensus size: 25
22373947 TACATCAATA
22373957 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
*** * *
22373982 ATTGCTATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
22374005 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
22374030 ATTAAAAATCAAGAAATTTAATATTTT
1 ATT-AAAAT-AAGGACTTTAATATTTT
*
22374057 AATAAA
1 ATTAAA
22374063 GAAATTTAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
23 16 0.26
24 2 0.03
25 19 0.31
26 8 0.13
27 17 0.27
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.39
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:22374856 original size:92 final size:91
Alignment explanation
Indices: 22374699--22374907 Score: 269
Period size: 92 Copynumber: 2.3 Consensus size: 91
22374689 TTGATTTTAG
* * *
22374699 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* * *
22374764 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATAATTTTAAATTATA
*
22374791 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
22374855 TATGTAATAATTATAATTTTAAATTATA
64 TATGTAATAATTATAATTTTAAATTATA
* * * *
22374883 AAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
22374908 GTTATAATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 70 0.68
93 3 0.03
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATAATTTTAAATTATA
Found at i:22375036 original size:66 final size:64
Alignment explanation
Indices: 22374961--22375171 Score: 194
Period size: 66 Copynumber: 3.4 Consensus size: 64
22374951 AAATATATTT
22374961 AATATTAATTATTTCAAATTTTCATTTACAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTACAGTATCATATATTATTATTTGAGTAAATTCATATAA
22375026 G
64 G
* * * *
22375027 AATATTAATTATTAAGAATTTTA-TTA-A--ATTATATATT-TTAATT-A-T-AATAT-ATTTAA
1 AATATTAATTATTTA-AATTTTATTTACAGTATCATATATTATTATTTGAGTAAAT-TCATATAA
*
22375083 T
64 G
* * *
22375084 AATA--AATAAGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTTAAATTT-TA-TTTACAGTATCATATATTATTATTTGAGTAAATTCATATAA
22375146 G
64 G
*
22375147 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
22375172 AAATTATATA
Statistics
Matches: 112, Mismatches: 16, Indels: 35
0.69 0.10 0.21
Matches are distributed among these distances:
53 5 0.04
54 2 0.02
55 5 0.04
56 3 0.03
57 13 0.12
58 2 0.02
59 10 0.09
60 9 0.08
61 10 0.09
62 2 0.02
63 13 0.12
64 3 0.03
65 9 0.08
66 21 0.19
67 5 0.04
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.48
Consensus pattern (64 bp):
AATATTAATTATTTAAATTTTATTTACAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:22375065 original size:120 final size:119
Alignment explanation
Indices: 22374930--22375212 Score: 453
Period size: 120 Copynumber: 2.4 Consensus size: 119
22374920 TTAAATTATT
* *
22374930 TTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTT-TCA-TTTACAGT
1 TTAAATTATATATTTTAATTATAATATATTTAATATTAATTATTT--AATTTAT-ATTTTACAGT
*
22374993 ATCATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
63 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
* * *
22375050 TTAAATTATATATTTTAATTATAATATATTTAATAATAAATAAGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTATAATATATTTAAT-ATTAATTATTTAATTTATATTTTACAGTAT
22375115 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
65 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
*
22375170 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
1 TTAAATTATATATTTTAATTATAATATATTTAATATTAATTAT
22375213 GTTTAAATAT
Statistics
Matches: 150, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
119 11 0.07
120 131 0.87
121 8 0.05
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (119 bp):
TTAAATTATATATTTTAATTATAATATATTTAATATTAATTATTTAATTTATATTTTACAGTATC
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
Found at i:22375083 original size:15 final size:15
Alignment explanation
Indices: 22375048--22375088 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
22375038 TTAAGAATTT
*
22375048 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22375062 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22375076 TATTTAATAATAA
1 TATTTAATTATAA
22375089 ATAAGTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 8 0.35
14 5 0.22
15 10 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22375107 original size:59 final size:60
Alignment explanation
Indices: 22375022--22375209 Score: 188
Period size: 59 Copynumber: 3.1 Consensus size: 60
22375012 GTAAATTCAT
*
22375022 ATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTA
1 ATAATAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTA
* * * * * * * * * *
22375082 ATAATAA-A-TAAGTTAATTTA-TATTTTA-CAGTATCATATATTATGATT-TGAGTAAATTCA
1 ATAATAATATTAA-TT-ATTAAGAATTTTATTA-AATTATATATTTTAATTAT-AATATATTTA
*
22375141 TATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTA
1 -ATAATAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTA
22375202 ATAATAAT
1 ATAATAAT
22375210 TATGTTTAAA
Statistics
Matches: 95, Mismatches: 23, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
58 5 0.05
59 29 0.31
60 27 0.28
61 29 0.31
62 5 0.05
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (60 bp):
ATAATAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTA
Found at i:22375198 original size:16 final size:16
Alignment explanation
Indices: 22375177--22375218 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22375167 TTATTAAATT
*
22375177 ATATATTTTAATTATA
1 ATATATTTTAATAATA
22375193 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
22375208 AT-TATGTTTAA
1 ATATAT-TTTAA
22375219 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:22375203 original size:15 final size:15
Alignment explanation
Indices: 22375168--22375209 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22375158 TTAAGAATTT
*
22375168 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22375182 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22375196 TATTTAATAATAAT
1 TATTTAATTATAAT
22375210 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22375328 original size:156 final size:157
Alignment explanation
Indices: 22375152--22375467 Score: 571
Period size: 156 Copynumber: 2.0 Consensus size: 157
22375142 ATAAGAATAT
*
22375152 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
22375217 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
22375282 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
22375309 TAATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
22375373 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
22375438 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
22375465 TAA
1 TAA
22375468 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
156 147 0.96
157 6 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:22375348 original size:18 final size:17
Alignment explanation
Indices: 22375320--22375354 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22375310 AATTATAAGA
*
22375320 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
22375337 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22375355 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22375828 original size:18 final size:19
Alignment explanation
Indices: 22375805--22375840 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22375795 TCTCCTGATT
22375805 GTTTGG-TTTTTATTTTGG
1 GTTTGGATTTTTATTTTGG
*
22375823 GTTTGGATTTTTGTTTTG
1 GTTTGGATTTTTATTTTG
22375841 ACTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.06, C:0.00, G:0.28, T:0.67
Consensus pattern (19 bp):
GTTTGGATTTTTATTTTGG
Found at i:22377272 original size:24 final size:21
Alignment explanation
Indices: 22377241--22377288 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 21
22377231 AAACAGACTC
*
22377241 AAAAATTTTTCTTTCCATTTATT
1 AAAAATTTTTC--TACATTTATT
22377264 AAAAGATTTTTCTACATTTATT
1 AAAA-ATTTTTCTACATTTATT
22377286 AAA
1 AAA
22377289 TTTATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 4 0.17
24 7 0.30
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (21 bp):
AAAAATTTTTCTACATTTATT
Found at i:22385205 original size:45 final size:42
Alignment explanation
Indices: 22385112--22385212 Score: 121
Period size: 42 Copynumber: 2.3 Consensus size: 42
22385102 GTTATTGAAT
* * *
22385112 TTGTTGTTTTAAATCGATTCTTTTCTTCTTTGAATCAATTGT
1 TTGTTGTTTTAAATCGATTCTTTACTTCTTTGAAGCAATTGA
* * *
22385154 TTGTTGTTTTAAATTGATTCTTTACTTTTTTGAAGCGATTCATGA
1 TTGTTGTTTTAAATCGATTCTTTACTTCTTTGAAGC-AAT--TGA
22385199 TTGTTGTTTTAAAT
1 TTGTTGTTTTAAAT
22385213 AGATCCATGA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.64
43 2 0.04
45 16 0.32
ACGTcount: A:0.21, C:0.09, G:0.14, T:0.56
Consensus pattern (42 bp):
TTGTTGTTTTAAATCGATTCTTTACTTCTTTGAAGCAATTGA
Found at i:22385256 original size:21 final size:20
Alignment explanation
Indices: 22385230--22385315 Score: 75
Period size: 21 Copynumber: 4.2 Consensus size: 20
22385220 TGATTGTTGT
22385230 TTTAAATCGATTCTTTGCTTC
1 TTTAAATCGATTCTTTG-TTC
* * *
22385251 TTTAAATTGATTTTTTGTTGT
1 TTTAAATCGATTCTTTGTT-C
* *
22385272 TTTAAATCGATT-TATTATTG
1 TTTAAATCGATTCT-TTGTTC
* *
22385292 TTTGAATCGATTCTTTGTTG
1 TTTAAATCGATTCTTTGTTC
22385312 TTTA
1 TTTA
22385316 GCTTGATTCA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
20 22 0.42
21 31 0.58
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.58
Consensus pattern (20 bp):
TTTAAATCGATTCTTTGTTC
Found at i:22388601 original size:15 final size:16
Alignment explanation
Indices: 22388581--22388611 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
22388571 TTCTTGGATT
22388581 ACAGTAAAAAA-ATAG
1 ACAGTAAAAAAGATAG
22388596 ACAGTAAAAAAGATAG
1 ACAGTAAAAAAGATAG
22388612 TCCTATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.13
Consensus pattern (16 bp):
ACAGTAAAAAAGATAG
Found at i:22393884 original size:36 final size:36
Alignment explanation
Indices: 22393817--22393889 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
22393807 GGAGGAGCTT
*
22393817 ATCAGTCAGAATAGATCCGAAAGGCTGCTGAACTGA
1 ATCAGTCAGAATAGATCCGAAAGGCTACTGAACTGA
** * *
22393853 ATCAGTCAGAATAGATTTGAAAGGTTACTGAATTGA
1 ATCAGTCAGAATAGATCCGAAAGGCTACTGAACTGA
22393889 A
1 A
22393890 GAGAGTTTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (36 bp):
ATCAGTCAGAATAGATCCGAAAGGCTACTGAACTGA
Found at i:22449575 original size:43 final size:43
Alignment explanation
Indices: 22449458--22449577 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
22449448 TGGAAAAAAT
* * **
22449458 CCGCTATAGAATATGATCTTTAGCGGCACTTTTCCCACAAATG
1 CCGCTATAGAATATGATCTTTAGCGGCGCTTTTTCCACAAACA
* * *
22449501 CCACTATAGAATATGATCTTTAGTGGCGCTTTTTCCACTAACA
1 CCGCTATAGAATATGATCTTTAGCGGCGCTTTTTCCACAAACA
* * *
22449544 CCGCTATAGAACATGATCTATAGCGGTGCTTTTT
1 CCGCTATAGAATATGATCTTTAGCGGCGCTTTTT
22449578 TTTACAAACG
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (43 bp):
CCGCTATAGAATATGATCTTTAGCGGCGCTTTTTCCACAAACA
Found at i:22451474 original size:15 final size:15
Alignment explanation
Indices: 22451449--22451483 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
22451439 AACTCTATTT
*
22451449 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
22451463 TAATTAATATTAAGA
1 TAATTAATATTAAGA
22451478 TAATTA
1 TAATTA
22451484 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:22456345 original size:3 final size:3
Alignment explanation
Indices: 22456337--22456383 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
22456327 ATTTAAATTC
22456337 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
22456384 ATGAAATTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:22458727 original size:9 final size:9
Alignment explanation
Indices: 22458713--22458743 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
22458703 TTCTTTACTT
22458713 TTAGTTTAC
1 TTAGTTTAC
22458722 TTAGTTTAC
1 TTAGTTTAC
22458731 TTAGTTTAC
1 TTAGTTTAC
22458740 TTAG
1 TTAG
22458744 ATTAGTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.55
Consensus pattern (9 bp):
TTAGTTTAC
Found at i:22460318 original size:6 final size:6
Alignment explanation
Indices: 22460307--22460351 Score: 63
Period size: 6 Copynumber: 7.0 Consensus size: 6
22460297 GGTTTATTTC
22460307 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAGT TAATTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T T--TTTAT TTTTAT
22460352 GTTCTTAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 28 0.78
7 2 0.06
8 2 0.06
9 4 0.11
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:22463906 original size:33 final size:33
Alignment explanation
Indices: 22463862--22464091 Score: 157
Period size: 33 Copynumber: 6.6 Consensus size: 33
22463852 AAAATATGGT
* *
22463862 GGAATCGGCACTTAGCAACCACCAGTGATTCGG
1 GGAATCAGCACTTAGCAACCACCAATGATTCGG
* * *
22463895 GGAATCAGCACTTGGCAACCCCTTTCACATTTGAGATACGG
1 GGAATCAGCACTTAGCAACCAC---CA-A--T--GATTCGG
* *
22463936 TGGGATCAGCACTTAGCAACCACCAATGAGTCGG
1 -GGAATCAGCACTTAGCAACCACCAATGATTCGG
* * *
22463970 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGG
1 GGAATCAGCACTTAGCAA-CCAC--CA-A--T--GATTCGG
22464011 TGGAATCAGCACTTAGCAACCACCAATGATTCGG
1 -GGAATCAGCACTTAGCAACCACCAATGATTCGG
*
22464045 GGAATCAGCACTTAGCAACC-CC-----TTGGG
1 GGAATCAGCACTTAGCAACCACCAATGATTCGG
22464072 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
22464092 CCCTTTATAT
Statistics
Matches: 160, Mismatches: 19, Indels: 42
0.72 0.09 0.19
Matches are distributed among these distances:
27 24 0.15
32 2 0.01
33 56 0.35
34 13 0.08
36 6 0.04
37 1 0.01
38 2 0.01
39 6 0.04
41 13 0.08
42 37 0.23
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGATTCGG
Found at i:22463922 original size:75 final size:75
Alignment explanation
Indices: 22463818--22464066 Score: 417
Period size: 75 Copynumber: 3.3 Consensus size: 75
22463808 CAACCCCTTG
* *
22463818 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCGGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
22463883 CCAGTGATTC
66 CCAATGATTC
* * * * *
22463893 GGGGAATCAGCACTTGGCAACCCCTTTCACATTTGAGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
22463958 CCAATGAGTC
66 CCAATGATTC
22463968 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
22464033 CCAATGATTC
66 CCAATGATTC
22464043 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
22464067 TTGGGGGAAT
Statistics
Matches: 159, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 159 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGATTC
Found at i:22476094 original size:21 final size:21
Alignment explanation
Indices: 22476048--22476094 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
22476038 GGGAAGTGTG
* *
22476048 ATTTTGGCAGTATTACTGCAT
1 ATTTTGGCAGGATTACCGCAT
*
22476069 CTTTTGGC-GGATTACCGCAAT
1 ATTTTGGCAGGATTACCGC-AT
22476090 ATTTT
1 ATTTT
22476095 TGTTTGGCAG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (21 bp):
ATTTTGGCAGGATTACCGCAT
Found at i:22481455 original size:6 final size:6
Alignment explanation
Indices: 22481439--22481470 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
22481429 ACTTTTAATA
*
22481439 ATTTTT GTTTTT ATTTTT ATTTTT ATTTTT AT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT AT
22481471 ATATTTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:22481462 original size:18 final size:18
Alignment explanation
Indices: 22481431--22481483 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
22481421 ACTGATGGAC
22481431 TTTTA-ATA-ATTTTTGT
1 TTTTATATATATTTTTGT
* * *
22481447 TTTTATTTTTATTTTTAT
1 TTTTATATATATTTTTGT
22481465 TTTTATATAT-TTTTTGT
1 TTTTATATATATTTTTGT
22481482 TT
1 TT
22481484 ATTTATTTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 5 0.17
17 9 0.31
18 15 0.52
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (18 bp):
TTTTATATATATTTTTGT
Found at i:22482693 original size:24 final size:24
Alignment explanation
Indices: 22482666--22482717 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
22482656 TGAAATGAGA
*
22482666 TTGTCAGTTCTTTAATAAAATCTT
1 TTGTCAGTTCCTTAATAAAATCTT
22482690 TTGTCAGTTCCTTAATAAAATCTT
1 TTGTCAGTTCCTTAATAAAATCTT
22482714 TTGT
1 TTGT
22482718 TGTTTAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (24 bp):
TTGTCAGTTCCTTAATAAAATCTT
Found at i:22487677 original size:14 final size:15
Alignment explanation
Indices: 22487658--22487695 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
22487648 GGTTTAGGAG
22487658 GTTTAAGGG-CTATA
1 GTTTAAGGGTCTATA
*
22487672 GTTTAAGGGGTTTATA
1 GTTTAA-GGGTCTATA
22487688 GTTTAAGG
1 GTTTAAGG
22487696 TTTAATGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 5 0.24
16 10 0.48
ACGTcount: A:0.26, C:0.03, G:0.32, T:0.39
Consensus pattern (15 bp):
GTTTAAGGGTCTATA
Found at i:22488841 original size:146 final size:146
Alignment explanation
Indices: 22488633--22488990 Score: 360
Period size: 147 Copynumber: 2.4 Consensus size: 146
22488623 TATGTTGCTA
* * * * ** * * *
22488633 TTAGTGGTGCTTTACATAAAACGCCGGAAAATTGTATTTATGTTTATCGAAATGTTGTCGTTTTG
1 TTAGTGGCGCTTTACTTAAAACGCCGCAAAATTGT-TTAAAATTTATCGAAACGATGCCGTTTTG
* * * * *
22488698 TCAATGGTATTAGTGGCG-TTTTTTGGAAACGCCACAAGCTTGAGTTAAATGTTGGGGAAACAAC
65 TAAATGGTATTAGTGGCGATTTTTTGAAAACGCCACAAGCTTAAGGTAAATGTTGAGGAAACAAC
* *
22488762 TTCG-TTTGATCTTATAT
130 TGCGTTTTGAT-TTATAG
* * * * *
22488779 TTAGTGGCGCTTTACTTAAAACGCCGCAACATTGTTCTAACATTTATAGAAACGCTGCCGTTTTT
1 TTAGTGGCGCTTTACTTAAAACGCCGCAAAATTGTT-TAAAATTTATCGAAACGATGCCGTTTTG
* * ** * * * * *
22488844 TAAATGTTATTAGTGGCGATTTTTTTAAAACGCCACGGGTTTAAGGTAAGTGTTGATGAAGCGAC
65 TAAATGGTATTAGTGGCGATTTTTTGAAAACGCCACAAGCTTAAGGTAAATGTTGAGGAAACAAC
22488909 TGCGTTTTGATTTATAG
130 TGCGTTTTGATTTATAG
* * * *
22488926 TTAGTGGCGCTTTAATTAAAACGCCGCAAAAATGTTTTAAAATTTATCGATACGAGGCCGTTTTG
1 TTAGTGGCGCTTTACTTAAAACGCCGCAAAATTG-TTTAAAATTTATCGAAACGATGCCGTTTTG
22488991 CTGTATTATT
Statistics
Matches: 171, Mismatches: 37, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
145 1 0.01
146 67 0.39
147 95 0.56
148 8 0.05
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (146 bp):
TTAGTGGCGCTTTACTTAAAACGCCGCAAAATTGTTTAAAATTTATCGAAACGATGCCGTTTTGT
AAATGGTATTAGTGGCGATTTTTTGAAAACGCCACAAGCTTAAGGTAAATGTTGAGGAAACAACT
GCGTTTTGATTTATAG
Found at i:22488939 original size:147 final size:146
Alignment explanation
Indices: 22488766--22489101 Score: 354
Period size: 146 Copynumber: 2.3 Consensus size: 146
22488756 AACAACTTCG
* * * * *
22488766 TTTGATCTTATATTTAGTGGCGCTTTACTTAAAACGCCGCAACATTGTTCTAACATTTATAGAAA
1 TTTGAT-TTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAATGTTCTAAAATTTATAGAAA
** * * ** * * *
22488831 CGCTGCCGTTTT-TTAAATGTTATTAGTGGCGATTT-TTTTAAAACGCCACGGGTTTAAGGTAAG
65 CGAGGCCGTTTTGCT--ATATTATTAGTGGCG-TTTATTCAAAAACGCCACAGGTGTAAGCTAAG
*
22488894 TGTTGATGAAGCGACTGCGT
127 TGTTGATGAAACGACTGCGT
* * *
22488914 TTTGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAATGTTTTAAAATTTATCGATAC
1 TTTGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAATGTTCTAAAATTTATAGAAAC
* ** **
22488979 GAGGCCGTTTTGCTGTATTATTAGTGGCGTTTATTCAAAAACGCCACAGGTGTGCGCTATTTGTT
66 GAGGCCGTTTTGCTATATTATTAGTGGCGTTTATTCAAAAACGCCACAGGTGTAAGCTAAGTGTT
22489044 GATGAAACGACTGCGT
131 GATGAAACGACTGCGT
* * * * *
22489060 TTCGACTTATAGTTATTGGCGC-TTATTTATAAATGCCGCAAA
1 TTTGATTTATAGTTAGTGGCGCTTTAATTA-AAACGCCGCAAA
22489102 TGGTTAATTT
Statistics
Matches: 157, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
145 9 0.06
146 81 0.52
147 60 0.38
148 7 0.04
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (146 bp):
TTTGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAATGTTCTAAAATTTATAGAAAC
GAGGCCGTTTTGCTATATTATTAGTGGCGTTTATTCAAAAACGCCACAGGTGTAAGCTAAGTGTT
GATGAAACGACTGCGT
Found at i:22491644 original size:36 final size:36
Alignment explanation
Indices: 22491602--22491713 Score: 127
Period size: 36 Copynumber: 3.4 Consensus size: 36
22491592 TACTTATATG
22491602 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
1 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
* *
22491638 TAAAATTTAAGTA----AGTT---TAC-TTA--TATG
1 TAAAATTTAAGTATGTTACTTAAATACATTACTTA-C
22491665 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
1 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
22491701 TAAAATTTAAGTA
1 TAAAATTTAAGTA
22491714 AGTTTAAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
26 2 0.03
27 13 0.21
28 3 0.05
29 3 0.05
31 3 0.05
32 3 0.05
34 3 0.05
35 3 0.05
36 26 0.43
37 2 0.03
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (36 bp):
TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
Found at i:22491669 original size:63 final size:63
Alignment explanation
Indices: 22491547--22491731 Score: 300
Period size: 63 Copynumber: 2.9 Consensus size: 63
22491537 ATTTCTCAAA
*
22491547 TATGTTACTTAAATACATTACTTAC-ATAACTTACATAAGTAAGTTTACTTATATGTAAAATTTA
1 TATGTTACTTAAATACATTACTTACTA-AAATT---TAAGTAAGTTTACTTATATGTAAAATTTA
22491611 AG
62 AG
22491613 TATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAATTTAAG
1 TATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAATTTAAG
**
22491676 TATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTAAATATATGTAAA
1 TATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAA
22491732 CTTACATAAT
Statistics
Matches: 115, Mismatches: 3, Indels: 5
0.93 0.02 0.04
Matches are distributed among these distances:
63 85 0.74
66 29 0.25
67 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.42
Consensus pattern (63 bp):
TATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAATTTAAG
Found at i:22491760 original size:23 final size:23
Alignment explanation
Indices: 22491730--22491773 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
22491720 AATATATGTA
*
22491730 AACTTACATAATACATTACTTTT
1 AACTTACATAATACATAACTTTT
22491753 AACTTACATAATACATAACTT
1 AACTTACATAATACATAACTT
22491774 ATAAAAAATT
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:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (23 bp):
AACTTACATAATACATAACTTTT
Found at i:22491796 original size:38 final size:38
Alignment explanation
Indices: 22491753--22491848 Score: 147
Period size: 38 Copynumber: 2.5 Consensus size: 38
22491743 CATTACTTTT
22491753 AACTTACATAATACATAACTTATAAAAAATTTTATATA
1 AACTTACATAATACATAACTTATAAAAAATTTTATATA
***
22491791 AACTTACATAATACATAACTTATAAATTTTTTTATATA
1 AACTTACATAATACATAACTTATAAAAAATTTTATATA
22491829 AACTTACATAACTTACATAA
1 AACTTACATAA--TACATAA
22491849 ATTAAATAAC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
38 46 0.87
40 7 0.13
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (38 bp):
AACTTACATAATACATAACTTATAAAAAATTTTATATA
Found at i:22491843 original size:9 final size:9
Alignment explanation
Indices: 22491829--22492150 Score: 461
Period size: 9 Copynumber: 36.0 Consensus size: 9
22491819 TTTTTATATA
22491829 AACTTACAT
1 AACTTACAT
22491838 AACTTACAT
1 AACTTACAT
* *
22491847 AAATTAAAT
1 AACTTACAT
*
22491856 AACGTACAT
1 AACTTACAT
22491865 AACTTACAT
1 AACTTACAT
*
22491874 AACTTAAAT
1 AACTTACAT
22491883 AACTTACAT
1 AACTTACAT
22491892 AACTTACAT
1 AACTTACAT
* *
22491901 ATCGTACAT
1 AACTTACAT
22491910 AACTTACAT
1 AACTTACAT
* *
22491919 AAATTAAAT
1 AACTTACAT
22491928 AACTTACAT
1 AACTTACAT
22491937 AACTTACAT
1 AACTTACAT
22491946 AACTTACAT
1 AACTTACAT
*
22491955 AACTTAAAT
1 AACTTACAT
22491964 AACTTACAT
1 AACTTACAT
22491973 AACTTACAT
1 AACTTACAT
*
22491982 ATCTTACAT
1 AACTTACAT
22491991 AACTTACAT
1 AACTTACAT
* *
22492000 AAATTAAAT
1 AACTTACAT
22492009 AACTTACAT
1 AACTTACAT
22492018 AACTTACAT
1 AACTTACAT
22492027 AACTTACAT
1 AACTTACAT
22492036 AACTTACAT
1 AACTTACAT
*
22492045 AACTTAAAT
1 AACTTACAT
22492054 AACTTACAT
1 AACTTACAT
22492063 AACTTACAT
1 AACTTACAT
*
22492072 ATCTTACAT
1 AACTTACAT
22492081 AACTTACAT
1 AACTTACAT
* *
22492090 AAATTAAAT
1 AACTTACAT
22492099 AACTTACAT
1 AACTTACAT
22492108 AACTTACAT
1 AACTTACAT
22492117 AACTTACAT
1 AACTTACAT
22492126 AA--TACAT
1 AACTTACAT
*
22492133 AACCTT-CCT
1 AA-CTTACAT
22492142 AACTTACAT
1 AACTTACAT
22492151 TATTGTTTAA
Statistics
Matches: 275, Mismatches: 34, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
7 7 0.03
8 3 0.01
9 264 0.96
10 1 0.00
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:22492167 original size:33 final size:33
Alignment explanation
Indices: 22492125--22492201 Score: 154
Period size: 33 Copynumber: 2.3 Consensus size: 33
22492115 ATAACTTACA
22492125 TAATACATAACCTTCCTAACTTACATTATTGTT
1 TAATACATAACCTTCCTAACTTACATTATTGTT
22492158 TAATACATAACCTTCCTAACTTACATTATTGTT
1 TAATACATAACCTTCCTAACTTACATTATTGTT
22492191 TAATACATAAC
1 TAATACATAAC
22492202 TTAGTACATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (33 bp):
TAATACATAACCTTCCTAACTTACATTATTGTT
Found at i:22497721 original size:21 final size:21
Alignment explanation
Indices: 22497697--22497744 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
22497687 CAACAGCTTA
* *
22497697 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
22497718 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
22497739 AAGCAG
1 AAGCAG
22497745 CGATAGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.21, G:0.46, T:0.00
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:22498053 original size:12 final size:12
Alignment explanation
Indices: 22498036--22498060 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22498026 TTTTGGTTAG
22498036 TTTAGATTTGGT
1 TTTAGATTTGGT
22498048 TTTAGATTTGGT
1 TTTAGATTTGGT
22498060 T
1 T
22498061 GCTTTTGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (12 bp):
TTTAGATTTGGT
Found at i:22498254 original size:42 final size:43
Alignment explanation
Indices: 22498175--22498267 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 43
22498165 ATCAAACAGT
* * *
22498175 GGCGTTTGTGAAATAAGCGCCGCTAAAGAACACTACTTTTAGC
1 GGCGTTTTTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
* * *
22498218 GGCGTTTTTG-AACAAGCGCCGCTATAGGACATTACTTTTAGA
1 GGCGTTTTTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
22498260 GGCGTTTT
1 GGCGTTTT
22498268 CTTCCAAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 35 0.80
43 9 0.20
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
GGCGTTTTTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
Found at i:22498301 original size:43 final size:42
Alignment explanation
Indices: 22498192--22498355 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 42
22498182 GTGAAATAAG
*
22498192 CGCCGCTAAAGAACACT-A-CTTTTAGCGGCG-TTTTT-GAACAA
1 CGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTCCAA-AA
* * * *
22498233 GCGCCGCTATAGGACATTA-CTTTTAGAGGCGTTTTCTTCCAAAA
1 -CGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCCAAAA
* ** *
22498277 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTTCTTAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCCAAAA
22498320 CGCCGCTAAAGAACATGATCTTTAGCGGC-TTTTTTC
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
22498356 TGTAAGCGCT
Statistics
Matches: 103, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
41 4 0.04
42 28 0.27
43 63 0.61
44 6 0.06
45 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCAAAA
Found at i:22498742 original size:19 final size:20
Alignment explanation
Indices: 22498700--22498742 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
22498690 TCATGCTTTC
* *
22498700 TATTCACATTTTTATATTCA
1 TATTCACATTTTCAAATTCA
22498720 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
22498738 TATTC
1 TATTC
22498743 CTCTTAGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:22498892 original size:46 final size:44
Alignment explanation
Indices: 22498824--22498958 Score: 171
Period size: 45 Copynumber: 3.0 Consensus size: 44
22498814 ATAGATAGAT
* * * *
22498824 GGTGGATTCAGCACACAACAACCACCCTTTGTAATCAATGATACCC
1 GGTGGAATCAGCACATAGCAACCA-CCTTTATAAT-AATGATACCC
* * *
22498870 GGTGGAATCAGCACATAGCAACCATCTTTATAAATAACGATATCC
1 GGTGGAATCAGCACATAGCAACCACCTTTAT-AATAATGATACCC
22498915 GGTGGAATCAGCACATAGCAACCACCTTTATAATTAATGATACC
1 GGTGGAATCAGCACATAGCAACCACCTTTATAA-TAATGATACC
22498959 GGTTCACATA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
44 2 0.03
45 51 0.66
46 24 0.31
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.24
Consensus pattern (44 bp):
GGTGGAATCAGCACATAGCAACCACCTTTATAATAATGATACCC
Found at i:22499043 original size:51 final size:51
Alignment explanation
Indices: 22498957--22499160 Score: 209
Period size: 51 Copynumber: 4.0 Consensus size: 51
22498947 ATTAATGATA
* * * * * *
22498957 CCGGTTCACATAGTAGCCTGCATATAGTACAACACATGTGGCCATCACTTT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTT
* * *
22499008 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTTT
* * * *
22499059 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA--TT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTTT
* * *
22499109 CTGGTACACGTAGTAGCCTGCACATAGTACTACGCACGTGATCATCACTTT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTT
22499160 C
1 C
22499161 ACATTCACAT
Statistics
Matches: 123, Mismatches: 23, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
49 4 0.03
50 39 0.32
51 77 0.63
52 2 0.02
53 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTT
Found at i:22499147 original size:101 final size:101
Alignment explanation
Indices: 22498965--22499151 Score: 286
Period size: 101 Copynumber: 1.8 Consensus size: 101
22498955 TACCGGTTCA
* * *
22498965 CATAGTAGCCTGCATATAGTACAACACATGTGGCCATCACTTTCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACAACACATGCGACCATCAC-TTCCGATACACGTAGTAGCCTGCA
22499030 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * *
22499067 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-TTCTGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACAACACATGCGACC-ATCACTTCCGATACACGTAGTAGCCTGCA
*
22499131 CATAGTACTACGCACGTGATC
65 CATAGTACTACACACGTGATC
22499152 ATCACTTTCA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
101 42 0.55
102 31 0.40
103 4 0.05
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACAACACATGCGACCATCACTTCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:22499963 original size:22 final size:24
Alignment explanation
Indices: 22499938--22500013 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 24
22499928 TATTAAACAA
22499938 AGAGCACTAAAGTGCTAT-A-CAG
1 AGAGCACTAAAGTGCTATAATCAG
*
22499960 AGAGCA-TAAATGTGCTAATAATCGG
1 AGAGCACTAAA-GTGCT-ATAATCAG
*
22499985 AGAGCACTAACGTGCTATTAATCAG
1 AGAGCACTAAAGTGCTA-TAATCAG
22500010 AGAG
1 AGAG
22500014 TGCGCTAAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
21 4 0.09
22 11 0.24
23 2 0.04
24 2 0.04
25 23 0.51
26 3 0.07
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (24 bp):
AGAGCACTAAAGTGCTATAATCAG
Found at i:22512931 original size:23 final size:23
Alignment explanation
Indices: 22512905--22512948 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
22512895 AATCTAAATT
22512905 TTAAAATTTGAAAAATAAAAAAA
1 TTAAAATTTGAAAAATAAAAAAA
* *
22512928 TTAAATTTTTAAAAATAAAAA
1 TTAAAATTTGAAAAATAAAAA
22512949 TAAAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (23 bp):
TTAAAATTTGAAAAATAAAAAAA
Found at i:22512935 original size:30 final size:30
Alignment explanation
Indices: 22512894--22512953 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
22512884 TTTAATAATT
*
22512894 AAATCTAAA-TTTTAAAATTTGAAAAATAAAA
1 AAATCTAAATTTTTAAAA-AT-AAAAATAAAA
22512925 AAAT-TAAATTTTTAAAAATAAAAATAAAA
1 AAATCTAAATTTTTAAAAATAAAAATAAAA
22512954 TATTTAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 10 0.37
30 5 0.19
31 12 0.44
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (30 bp):
AAATCTAAATTTTTAAAAATAAAAATAAAA
Found at i:22513560 original size:20 final size:21
Alignment explanation
Indices: 22513522--22513560 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
22513512 CATTCTTATT
*
22513522 TTAATATTAAATAAAGAAATA
1 TTAATATTAAACAAAGAAATA
*
22513543 TTAATA-TAAACAATGAAA
1 TTAATATTAAACAAAGAAA
22513561 CTTATTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (21 bp):
TTAATATTAAACAAAGAAATA
Found at i:22521362 original size:7 final size:7
Alignment explanation
Indices: 22521350--22521382 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
22521340 TATTTGTCTA
22521350 TATATTT
1 TATATTT
22521357 TATATTT
1 TATATTT
22521364 TATATTT
1 TATATTT
22521371 TATATTT
1 TATATTT
22521378 TATAT
1 TATAT
22521383 AAACGCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TATATTT
Found at i:22524224 original size:18 final size:18
Alignment explanation
Indices: 22524201--22524236 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22524191 CTCGGTTACT
22524201 ATGTTTCATCAATTTTCA
1 ATGTTTCATCAATTTTCA
22524219 ATGTTTCATCAATTTTCA
1 ATGTTTCATCAATTTTCA
22524237 TACAATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGTTTCATCAATTTTCA
Found at i:22525916 original size:12 final size:12
Alignment explanation
Indices: 22525899--22525930 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22525889 ATTTTTACCC
*
22525899 AATTTCTTCAAT
1 AATTTCTTCAAG
22525911 AATTTCTTCAAG
1 AATTTCTTCAAG
22525923 AATTTCTT
1 AATTTCTT
22525931 TTTCTAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.16, G:0.03, T:0.50
Consensus pattern (12 bp):
AATTTCTTCAAG
Found at i:22531002 original size:98 final size:98
Alignment explanation
Indices: 22530831--22531027 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
22530821 GTGCAATAAA
* *
22530831 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATATGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
22530896 CCTCTAAAATCCTAAACTCGGAATATTTCATTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCATTT
22530929 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
22530994 CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCATTT
22531027 A
1 A
22531028 TTATTTTTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGAAATATTTCATTT
Found at i:22532479 original size:22 final size:21
Alignment explanation
Indices: 22532444--22532543 Score: 64
Period size: 21 Copynumber: 4.7 Consensus size: 21
22532434 AAAGGGCGTC
* * *
22532444 TACAAATTAAATCTCTAAGCT
1 TACAAATCATATCTCTAAGAT
22532465 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
22532488 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
22532507 TGCATATATCATA--TCTAAGAT
1 TACA-A-ATCATATCTCTAAGAT
*
22532528 TGCATATATCATATCT
1 TACA-A-ATCATATCT
22532544 AAGATTGTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
19 11 0.16
21 30 0.45
22 15 0.22
23 11 0.16
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:22532490 original size:23 final size:22
Alignment explanation
Indices: 22532444--22532501 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
22532434 AAAGGGCGTC
* * *
22532444 TACAAATTAAATC-TCTAAGCT
1 TACAAATCATATCTTCTAAGAT
22532465 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
22532488 TACATATCATATCT
1 TACAAATCATATCT
22532502 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:22532517 original size:21 final size:21
Alignment explanation
Indices: 22532491--22532555 Score: 121
Period size: 21 Copynumber: 3.1 Consensus size: 21
22532481 CTAAGATTAC
22532491 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
22532512 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
*
22532533 ATATCATATCTAAGATTGTAT
1 ATATCATATCTAAGATTGCAT
22532554 AT
1 AT
22532556 CCTCGAAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:22532556 original size:19 final size:20
Alignment explanation
Indices: 22532480--22532556 Score: 113
Period size: 21 Copynumber: 3.9 Consensus size: 20
22532470 AATCATATCT
*
22532480 TCTAAGATT-ACATATCATA
1 TCTAAGATTGATATATCATA
22532499 TCTAAGATTGCATATATCATA
1 TCTAAGATTG-ATATATCATA
22532520 TCTAAGATTGCATATATCATA
1 TCTAAGATTG-ATATATCATA
22532541 TCTAAGATTG-TATATC
1 TCTAAGATTGATATATC
22532557 CTCGAAAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
19 15 0.27
21 40 0.73
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (20 bp):
TCTAAGATTGATATATCATA
Found at i:22533439 original size:8 final size:8
Alignment explanation
Indices: 22533426--22533457 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
22533416 TAAAGGAAAG
22533426 TTTAAAAT
1 TTTAAAAT
22533434 TTTAAAAT
1 TTTAAAAT
22533442 TTTAAAAT
1 TTTAAAAT
22533450 TTTAAAAT
1 TTTAAAAT
22533458 AAAGTTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TTTAAAAT
Found at i:22534035 original size:10 final size:10
Alignment explanation
Indices: 22534020--22534083 Score: 58
Period size: 10 Copynumber: 6.1 Consensus size: 10
22534010 CCATTGTATA
22534020 ATTTTTATTT
1 ATTTTTATTT
22534030 ATTTTTATTT
1 ATTTTTATTT
* *
22534040 CGTCTTTATTT
1 -ATTTTTATTT
22534051 ATTTTTATGTCT
1 ATTTTTAT-T-T
*
22534063 ATTTATATTT
1 ATTTTTATTT
22534073 ATGTTTT-TTT
1 AT-TTTTATTT
22534083 A
1 A
22534084 CACATTCTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
10 23 0.52
11 13 0.30
12 8 0.18
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.72
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:22534083 original size:16 final size:16
Alignment explanation
Indices: 22534046--22534076 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22534036 ATTTCGTCTT
*
22534046 TATTTATTTTTATGTC
1 TATTTATATTTATGTC
22534062 TATTTATATTTATGT
1 TATTTATATTTATGT
22534077 TTTTTTACAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.68
Consensus pattern (16 bp):
TATTTATATTTATGTC
Found at i:22538709 original size:30 final size:31
Alignment explanation
Indices: 22538629--22538710 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 31
22538619 AGGGATTTAT
* *
22538629 TGAGAATTTTCAAAAATTTTGGTAGGCCTAA
1 TGAGAACTTTAAAAAATTTTGGTAGGCCTAA
* * *
22538660 TTAGAACTTTAACAAATTTTGG-AGGCTTAA
1 TGAGAACTTTAAAAAATTTTGGTAGGCCTAA
*
22538690 TGAG-AGTTCTAAAAAATTTTG
1 TGAGAACTT-TAAAAAATTTTG
22538711 AAATGCTTCA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 3 0.07
30 21 0.50
31 18 0.43
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.37
Consensus pattern (31 bp):
TGAGAACTTTAAAAAATTTTGGTAGGCCTAA
Found at i:22539111 original size:22 final size:21
Alignment explanation
Indices: 22539086--22539135 Score: 55
Period size: 23 Copynumber: 2.3 Consensus size: 21
22539076 TTTTTTTTTC
* *
22539086 ATTTTAATAGATTATATTTATAA
1 ATTTTAAAAGATTA-AATTA-AA
*
22539109 TTTTTAAAAGATTAAATTAAA
1 ATTTTAAAAGATTAAATTAAA
22539130 ATTTTA
1 ATTTTA
22539136 TATAAAAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 7 0.30
22 4 0.17
23 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (21 bp):
ATTTTAAAAGATTAAATTAAA
Found at i:22539637 original size:45 final size:44
Alignment explanation
Indices: 22539548--22539640 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
22539538 ATTACAACAT
*
22539548 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
*
22539592 CATTCCATTCAACCAAACA-ATTGAATTACTATTAC-GCCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAG-CTCTATTC
22539637 CATT
1 CATT
22539641 ACAACTCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 20 0.45
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:22539658 original size:21 final size:21
Alignment explanation
Indices: 22539633--22539677 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
22539623 TTACGCCTCT
22539633 ATTCCATTACAACTCTATTCC
1 ATTCCATTACAACTCTATTCC
*
22539654 ATTCCATTACACCTCTATTCC
1 ATTCCATTACAACTCTATTCC
22539675 ATT
1 ATT
22539678 ACAGCGAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTCCATTACAACTCTATTCC
Found at i:22539673 original size:16 final size:16
Alignment explanation
Indices: 22539622--22539680 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
22539612 TTGAATTACT
*
22539622 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
22539638 ATTACAACTCTATTCCATTCC
1 ATTAC-AC-C---TCTATTCC
22539659 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
22539675 ATTACA
1 ATTACA
22539681 GCGAATCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
16 18 0.51
17 1 0.03
18 1 0.03
19 1 0.03
20 2 0.06
21 12 0.34
ACGTcount: A:0.27, C:0.34, G:0.02, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:22547334 original size:51 final size:51
Alignment explanation
Indices: 22547214--22547546 Score: 318
Period size: 51 Copynumber: 6.6 Consensus size: 51
22547204 AGTTGCTAGG
* * *
22547214 TCACGTGTGTAGTACTATGTTCAGGCTACTACGTGTACCCGA-ATG-ATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-GAATAGA
** * *** * ** *
22547264 TTGCATGTGTAGTACTATGTGCAGGCTACTATACGTACCGAATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGAATAGA
* * * *
22547315 TCACGTGTGTAGTACTATGTACAGGCTACTACGTGTATCGGAT-GAAAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGAATA-GA
* * *
22547366 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATAG-
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-AGAATAGA
* * *
22547417 TCACTTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAAATG-ATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-GAATAGA
* * * * ** *
22547467 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGAATAGA
22547518 TCACGTGTGTAGTACTATGTGCAGGCTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTAC
22547547 CATGTGAACC
Statistics
Matches: 229, Mismatches: 45, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
49 5 0.02
50 73 0.32
51 147 0.64
52 1 0.00
53 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGAATAGA
Found at i:22547492 original size:152 final size:152
Alignment explanation
Indices: 22547212--22547546 Score: 383
Period size: 152 Copynumber: 2.2 Consensus size: 152
22547202 GAAGTTGCTA
* **
22547212 GGTCACGTGTGTAGTACTATGTTCAGGCTACTACGTGTACCCGAATGATAGGTTGCATGTGTAGT
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCCGAATGATAGGTCACATGTGTAGT
* * * *
22547277 ACTATGTGCAGGCTACTATACGTACCGAATAGCTTCGATCACGTGTGTAGTACTATGTACAGGCT
66 ACTATGTGCAGGCTACTACACGTACCGAATAGCATAGATCACATGTGTAGTACTATGTACAGGCT
* *
22547342 ACTACGTGTATCGGAT-GAAAAT
131 ACTACGCGTACCGGATAG-AAAT
* * * *
22547364 GGTCACGTATGTAGTACTATGTGCAGGCTACTACGTGTA-TCGGATGAAAATA-GTCACTTGTGT
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCCGAATG---ATAGGTCACATGTGT
** * * *
22547427 AGTACTATGTGCAGGCTACTACGTGTACCGAA-ATG-ATAGGTCGCATGTGTAGTACTATGTGCA
63 AGTACTATGTGCAGGCTACTACACGTACCGAATA-GCATAGATCACATGTGTAGTACTATGTACA
* ***
22547490 GGCTACTATGCGTACCGGATAGCTTT
127 GGCTACTACGCGTACCGGATAGAAAT
*
22547516 GATCACGTGTGTAGTACTATGTGCAGGCTAC
1 GGTCACGTGTGTAGTACTATGTGCAGGCTAC
22547547 CATGTGAACC
Statistics
Matches: 154, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
151 5 0.03
152 107 0.69
153 39 0.25
154 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (152 bp):
GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCCGAATGATAGGTCACATGTGTAGT
ACTATGTGCAGGCTACTACACGTACCGAATAGCATAGATCACATGTGTAGTACTATGTACAGGCT
ACTACGCGTACCGGATAGAAAT
Found at i:22559126 original size:26 final size:26
Alignment explanation
Indices: 22559097--22559149 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
22559087 AAAATTGAAT
22559097 AATGGATTGGAAAAGAGTGTACATTC
1 AATGGATTGGAAAAGAGTGTACATTC
*
22559123 AATGGATTGGAAAAGAGTGTACCTTC
1 AATGGATTGGAAAAGAGTGTACATTC
22559149 A
1 A
22559150 TTGATCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.26
Consensus pattern (26 bp):
AATGGATTGGAAAAGAGTGTACATTC
Found at i:22561426 original size:20 final size:18
Alignment explanation
Indices: 22561388--22561422 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22561378 TTAAAATACT
22561388 TTTTTAAAAAAAATTTTA
1 TTTTTAAAAAAAATTTTA
*
22561406 TTTTTAAAATAAATTTT
1 TTTTTAAAAAAAATTTT
22561423 TTATGTTTAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTAAAAAAAATTTTA
Found at i:22564553 original size:11 final size:11
Alignment explanation
Indices: 22564537--22564561 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22564527 AAAGAGGTAG
22564537 AGAATTACCAA
1 AGAATTACCAA
22564548 AGAATTACCAA
1 AGAATTACCAA
22564559 AGA
1 AGA
22564562 GGCGGAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (11 bp):
AGAATTACCAA
Found at i:22567775 original size:21 final size:21
Alignment explanation
Indices: 22567746--22567804 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
22567736 TTTGATTAAC
*
22567746 ATAATAAAT-TTATAATTAGTT
1 ATAAAAAATATTATAATTA-TT
*
22567767 ATAAAAAATATTTTAATTATT
1 ATAAAAAATATTATAATTATT
* *
22567788 ATTAAATATAATTATAA
1 ATAAAAAAT-ATTATAA
22567805 ATTACATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
ATAAAAAATATTATAATTATT
Found at i:22567896 original size:16 final size:17
Alignment explanation
Indices: 22567872--22567907 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
22567862 ACCTACAATT
*
22567872 ATAATTATAAATT-AGA
1 ATAAATATAAATTAAGA
22567888 ATAAATATAAATTAAGA
1 ATAAATATAAATTAAGA
22567905 ATA
1 ATA
22567908 GCAATAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
ATAAATATAAATTAAGA
Found at i:22568120 original size:31 final size:30
Alignment explanation
Indices: 22568085--22568148 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
22568075 TATAATTTGA
***
22568085 TCATTGAACTATTTGTAAGTTTTTATTTAAG
1 TCATTGAACTATTAAAAAGTTTTTA-TTAAG
*
22568116 TCATTGATCTATTAAAAAGTTTTTATTAAG
1 TCATTGAACTATTAAAAAGTTTTTATTAAG
22568146 TCA
1 TCA
22568149 CTAAGTTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (30 bp):
TCATTGAACTATTAAAAAGTTTTTATTAAG
Found at i:22577129 original size:51 final size:51
Alignment explanation
Indices: 22577074--22577190 Score: 216
Period size: 51 Copynumber: 2.3 Consensus size: 51
22577064 CAGATCACAT
22577074 TTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGCGAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGCGAAAGCTACCAC
* *
22577125 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGCGAAAGCTACCAC
22577176 TTATCACTTGTCACT
1 TTATCACTTGTCACT
22577191 GATCAAAAGT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGCGAAAGCTACCAC
Found at i:22585811 original size:21 final size:21
Alignment explanation
Indices: 22585781--22585842 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
22585771 GCTTCAGTTT
22585781 AACCCTTATGAGTTTTTGTTC
1 AACCCTTATGAGTTTTTGTTC
* * * *
22585802 AGCTCTTATGAGCTTTCGTTC
1 AACCCTTATGAGTTTTTGTTC
* *
22585823 AACCCTTATGGGTTTCTGTT
1 AACCCTTATGAGTTTTTGTT
22585843 TAGCACTTCA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (21 bp):
AACCCTTATGAGTTTTTGTTC
Found at i:22585827 original size:42 final size:42
Alignment explanation
Indices: 22585732--22585842 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
22585722 TAACTCATAT
* * *
22585732 TTCAGTTTAACCC-TATTGGGTTTCT-TTTAGCTCTTTCGAGC
1 TTCAGTTCAACCCTTA-TGAGTTTCTGTTCAGCTCTTTCGAGC
* *
22585773 TTCAGTTTAACCCTTATGAGTTTTTGTTCAGCTCTTAT-GAGC
1 TTCAGTTCAACCCTTATGAGTTTCTGTTCAGCTCTT-TCGAGC
*
22585815 TTTC-GTTCAACCCTTATGGGTTTCTGTT
1 -TTCAGTTCAACCCTTATGAGTTTCTGTT
22585843 TAGCACTTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
41 20 0.33
42 36 0.60
43 4 0.07
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (42 bp):
TTCAGTTCAACCCTTATGAGTTTCTGTTCAGCTCTTTCGAGC
Found at i:22596403 original size:18 final size:18
Alignment explanation
Indices: 22596380--22596418 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
22596370 CCACATCAAT
* *
22596380 AAATATTTAAAAATTAAA
1 AAATATTAAAAAAATAAA
22596398 AAATATTAAAAAAATAAA
1 AAATATTAAAAAAATAAA
22596416 AAA
1 AAA
22596419 AAAATCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATATTAAAAAAATAAA
Found at i:22599097 original size:36 final size:35
Alignment explanation
Indices: 22599050--22599171 Score: 147
Period size: 36 Copynumber: 3.4 Consensus size: 35
22599040 GAAAATCCCA
*
22599050 CCAAAACACACCAGATGCTCATAAGAGCTAGTCCAT
1 CCAAAACACACCA-ATGCTCATAAGAGCTAATCCAT
*
22599086 CCAAAGCACACCAAATGCTCATAAGAGCTAATCCAT
1 CCAAAACACACC-AATGCTCATAAGAGCTAATCCAT
* * *
22599122 TCAAAACACACCAATAGCTC-TGAAGAGCTAATCTAA
1 CCAAAACACACCAAT-GCTCAT-AAGAGCTAATCCAT
*
22599158 CCGAAACACACCAA
1 CCAAAACACACCAA
22599172 AACAAAGAGT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
35 4 0.05
36 70 0.93
37 1 0.01
ACGTcount: A:0.43, C:0.30, G:0.11, T:0.16
Consensus pattern (35 bp):
CCAAAACACACCAATGCTCATAAGAGCTAATCCAT
Found at i:22600421 original size:13 final size:13
Alignment explanation
Indices: 22600405--22600431 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22600395 ATATTTTAAA
22600405 AATAATATTTACG
1 AATAATATTTACG
22600418 AATAATATTTACG
1 AATAATATTTACG
22600431 A
1 A
22600432 GTTGACAAGA
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:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
AATAATATTTACG
Found at i:22603472 original size:20 final size:20
Alignment explanation
Indices: 22603444--22603484 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22603434 ACTCTGTTGC
*
22603444 TTGAGTTTGCCGCTGGAATT
1 TTGACTTTGCCGCTGGAATT
* *
22603464 TTGACTTTGCTGCTTGAATT
1 TTGACTTTGCCGCTGGAATT
22603484 T
1 T
22603485 ACTGCTTGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.46
Consensus pattern (20 bp):
TTGACTTTGCCGCTGGAATT
Found at i:22604432 original size:20 final size:20
Alignment explanation
Indices: 22604407--22604449 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
22604397 AAATAAAAGT
*
22604407 ATGGTGATTAAACAGGTGGC
1 ATGGTGATTAAACAGGCGGC
22604427 ATGGTGATTAAACAGGCGGC
1 ATGGTGATTAAACAGGCGGC
22604447 ATG
1 ATG
22604450 TATTAAGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.12, G:0.35, T:0.23
Consensus pattern (20 bp):
ATGGTGATTAAACAGGCGGC
Found at i:22609146 original size:236 final size:236
Alignment explanation
Indices: 22608728--22609202 Score: 833
Period size: 236 Copynumber: 2.0 Consensus size: 236
22608718 TTATTGGGGG
* * * *
22608728 AAAACATACGGACTGTTGGCTTTGAATTAAGTAGGAGCATTTCCTCTGAGAAAGTAATTTAAGAA
1 AAAACATACGGACTGTTGGCCTTGAATTAAGTAGAAGCATTGCCTCCGAGAAAGTAATTTAAGAA
* * *
22608793 AGTGCTTAAAAATTATATCCAACCTTATAAAAAGTATAATGATTAATTGAGGATGAGCGCTATCG
66 AGTGCTCAAAAATTATATCCAACCTTATAAAAAGTAGAAGGATTAATTGAGGATGAGCGCTATCG
* *
22608858 TGCATTAAGCAAAATTCCTGACTATCCAATGCAAATGCTTATTTTCTTCAGTCTACCTTCTTCAG
131 TGCATTAAGCAAAATTCCTGACCATCCAATGCAAATGCTTATTTTCTTCAGTCTACCTTCTTCAA
22608923 TGCGATTGGAATGGGTTAGAAGATTTCTTTCTGACCATTAA
196 TGCGATTGGAATGGGTTAGAAGATTTCTTTCTGACCATTAA
*
22608964 AAAATATACGGACTGTTGGCCTTGAATTAAGTAGAAGCATTGCCTCCGAGAAAGTAATTTAAGAA
1 AAAACATACGGACTGTTGGCCTTGAATTAAGTAGAAGCATTGCCTCCGAGAAAGTAATTTAAGAA
*
22609029 AGTGCTCAAAAATTATATCCGACCTTATAAAAAGTAGAAGGATTAATTGAGGATGAGCGCTATCG
66 AGTGCTCAAAAATTATATCCAACCTTATAAAAAGTAGAAGGATTAATTGAGGATGAGCGCTATCG
* *
22609094 TGCGTTGAGCAAAATTCCTGACCATCCAATGCAAATGCTTATTTTCTTCAGTCTACCTTCTTCAA
131 TGCATTAAGCAAAATTCCTGACCATCCAATGCAAATGCTTATTTTCTTCAGTCTACCTTCTTCAA
22609159 TGCGATTGGAATGGGTTAGAAGATTTCTTTCTGACCATTAA
196 TGCGATTGGAATGGGTTAGAAGATTTCTTTCTGACCATTAA
22609200 AAA
1 AAA
22609203 TCATGGTTGT
Statistics
Matches: 226, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
236 226 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (236 bp):
AAAACATACGGACTGTTGGCCTTGAATTAAGTAGAAGCATTGCCTCCGAGAAAGTAATTTAAGAA
AGTGCTCAAAAATTATATCCAACCTTATAAAAAGTAGAAGGATTAATTGAGGATGAGCGCTATCG
TGCATTAAGCAAAATTCCTGACCATCCAATGCAAATGCTTATTTTCTTCAGTCTACCTTCTTCAA
TGCGATTGGAATGGGTTAGAAGATTTCTTTCTGACCATTAA
Found at i:22609635 original size:61 final size:59
Alignment explanation
Indices: 22609487--22609640 Score: 170
Period size: 61 Copynumber: 2.6 Consensus size: 59
22609477 TATAATATTA
* * * *
22609487 TATATTATGATTTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGTTATTAAAT
1 TATA-TATTATTTTTATTAAATT-ATA-TTTAATAAAAATTATATTAAGAATATGATTAAAT
* *
22609548 TATATATTA-TTTTATTAAATTGTATTTAATAAAAATTATGTTAA-AATATGATTAAAT
1 TATATATTATTTTTATTAAATTATATTTAATAAAAATTATATTAAGAATATGATTAAAT
*
22609605 TATTTATTTTTATTTTTATTAAATTATATTTAATAA
1 TA--TA-TATTATTTTTATTAAATTATATTTAATAA
22609641 TAATCTTATT
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
57 13 0.16
58 18 0.22
59 11 0.14
60 12 0.15
61 26 0.32
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (59 bp):
TATATATTATTTTTATTAAATTATATTTAATAAAAATTATATTAAGAATATGATTAAAT
Found at i:22609847 original size:16 final size:16
Alignment explanation
Indices: 22609828--22609876 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
22609818 AATTACTAAA
*
22609828 TACAACTCTAATCCAT
1 TACAACTCTATTCCAT
*
22609844 TACATCTCTATTCCAT
1 TACAACTCTATTCCAT
*
22609860 TACAACCCTATTCCAT
1 TACAACTCTATTCCAT
22609876 T
1 T
22609877 CACCCTAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.37
Consensus pattern (16 bp):
TACAACTCTATTCCAT
Found at i:22612339 original size:6 final size:6
Alignment explanation
Indices: 22612328--22612361 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
22612318 TTTTGAGCCT
*
22612328 TATATC TATATC TATATC TATATC TATATA TATA
1 TATATC TATATC TATATC TATATC TATATC TATA
22612362 ATATTATTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (6 bp):
TATATC
Found at i:22618007 original size:49 final size:49
Alignment explanation
Indices: 22617935--22618316 Score: 392
Period size: 49 Copynumber: 7.8 Consensus size: 49
22617925 GAACTTGTAC
* * ** * *
22617935 ATTCTACCAT-CCTGGTTGGCCCGACAACGATTGCCTTCACTATCTGTAT
1 ATTCTACCATCCCAGG-TGGCCCGACAACGATAGTTTTCACTATTTGCAT
* *
22617984 ATTCTACCATCCCAGGTGACCCGACAACGATAGCTTTCACTATTTGCAT
1 ATTCTACCATCCCAGGTGGCCCGACAACGATAGTTTTCACTATTTGCAT
* *
22618033 ATTCTACCATCCC-GAGTGACCCGACAACGATGGTTTTCACTATTTGCAT
1 ATTCTACCATCCCAG-GTGGCCCGACAACGATAGTTTTCACTATTTGCAT
* ** ** *
22618082 ATTCTACCATCTCAGGTGGCTTGATTACGATAGTTTTCACTATTTACAT
1 ATTCTACCATCCCAGGTGGCCCGACAACGATAGTTTTCACTATTTGCAT
*** * *
22618131 ATTCTACCATCTTGGGTGGCCCGACAACGATGGTTTTCGCTATTTGCAT
1 ATTCTACCATCCCAGGTGGCCCGACAACGATAGTTTTCACTATTTGCAT
* * * * *
22618180 ATTCTACCATCCCAGGTGGCTCGATAACGATAGTTTTTAGTATTTACAT
1 ATTCTACCATCCCAGGTGGCCCGACAACGATAGTTTTCACTATTTGCAT
*** * * *
22618229 ATTCTACCATCTTGGGTGGCCCGACAACAATAGCTTTCACTATTTACAT
1 ATTCTACCATCCCAGGTGGCCCGACAACGATAGTTTTCACTATTTGCAT
* ** *
22618278 ATTCTACCAT-CCTGAGTGGCCTAACAACGATGGTTTTCA
1 ATTCTACCATCCCAG-GTGGCCCGACAACGATAGTTTTCA
22618317 ATCACTATAT
Statistics
Matches: 277, Mismatches: 52, Indels: 8
0.82 0.15 0.02
Matches are distributed among these distances:
48 2 0.01
49 270 0.97
50 5 0.02
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (49 bp):
ATTCTACCATCCCAGGTGGCCCGACAACGATAGTTTTCACTATTTGCAT
Found at i:22618209 original size:147 final size:147
Alignment explanation
Indices: 22617935--22618316 Score: 444
Period size: 147 Copynumber: 2.6 Consensus size: 147
22617925 GAACTTGTAC
* * * * * ** **
22617935 ATTCTACCATC-CTGGTTGGCCCGACAACGATTGCCTTCACTATCTGTATATTCTACCATCCCAG
1 ATTCTACCATCTCAGG-TGGCCCGACAACAATAGCTTTCACTATTTACATATTCTACCATCCTGG
* * *
22617999 GTGACCCGACAACGATAGCTTTCACTATTTGCATATTCTACCATCCCGAGTGACCCGACAACGAT
65 GTGGCCCGACAACGATGGTTTTCACTATTTGCATATTCTACCATCCCGAGTGACCCGACAACGAT
* *
22618064 GGTTTTCACTATTTGCAT
130 AGTTTTCACTATTTACAT
** ** * * *
22618082 ATTCTACCATCTCAGGTGGCTTGATTACGATAGTTTTCACTATTTACATATTCTACCATCTTGGG
1 ATTCTACCATCTCAGGTGGCCCGACAACAATAGCTTTCACTATTTACATATTCTACCATCCTGGG
* * * *
22618147 TGGCCCGACAACGATGGTTTTCGCTATTTGCATATTCTACCATCCC-AGGTGGCTCGATAACGAT
66 TGGCCCGACAACGATGGTTTTCACTATTTGCATATTCTACCATCCCGA-GTGACCCGACAACGAT
* *
22618211 AGTTTTTAGTATTTACAT
130 AGTTTTCACTATTTACAT
** *
22618229 ATTCTACCATCTTGGGTGGCCCGACAACAATAGCTTTCACTATTTACATATTCTACCATCCTGAG
1 ATTCTACCATCTCAGGTGGCCCGACAACAATAGCTTTCACTATTTACATATTCTACCATCCTGGG
**
22618294 TGGCCTAACAACGATGGTTTTCA
66 TGGCCCGACAACGATGGTTTTCA
22618317 ATCACTATAT
Statistics
Matches: 195, Mismatches: 38, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
146 1 0.01
147 191 0.98
148 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (147 bp):
ATTCTACCATCTCAGGTGGCCCGACAACAATAGCTTTCACTATTTACATATTCTACCATCCTGGG
TGGCCCGACAACGATGGTTTTCACTATTTGCATATTCTACCATCCCGAGTGACCCGACAACGATA
GTTTTCACTATTTACAT
Found at i:22618297 original size:98 final size:98
Alignment explanation
Indices: 22617935--22618289 Score: 476
Period size: 98 Copynumber: 3.6 Consensus size: 98
22617925 GAACTTGTAC
* * * * *
22617935 ATTCTACCATCCTGGTTGGCCCGACAACGATTGCCTTCACTATCTGTATATTCTACCATCCCAGG
1 ATTCTACCATCCTGGGTGGCCCGACAACGATGGCTTTCACTATTTGCATATTCTACCATCCCAGG
* * * * *
22618000 TGACCCGACAACGATAGCTTTCACTATTTGCAT
66 TGGCTCGATAACGATAGTTTTCACTATTTACAT
* * * * *
22618033 ATTCTACCATCCCGAGTGACCCGACAACGATGGTTTTCACTATTTGCATATTCTACCATCTCAGG
1 ATTCTACCATCCTGGGTGGCCCGACAACGATGGCTTTCACTATTTGCATATTCTACCATCCCAGG
* *
22618098 TGGCTTGATTACGATAGTTTTCACTATTTACAT
66 TGGCTCGATAACGATAGTTTTCACTATTTACAT
* * *
22618131 ATTCTACCATCTTGGGTGGCCCGACAACGATGGTTTTCGCTATTTGCATATTCTACCATCCCAGG
1 ATTCTACCATCCTGGGTGGCCCGACAACGATGGCTTTCACTATTTGCATATTCTACCATCCCAGG
* *
22618196 TGGCTCGATAACGATAGTTTTTAGTATTTACAT
66 TGGCTCGATAACGATAGTTTTCACTATTTACAT
* * * *
22618229 ATTCTACCATCTTGGGTGGCCCGACAACAATAGCTTTCACTATTTACATATTCTACCATCC
1 ATTCTACCATCCTGGGTGGCCCGACAACGATGGCTTTCACTATTTGCATATTCTACCATCC
22618290 TGAGTGGCCT
Statistics
Matches: 225, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
98 225 1.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (98 bp):
ATTCTACCATCCTGGGTGGCCCGACAACGATGGCTTTCACTATTTGCATATTCTACCATCCCAGG
TGGCTCGATAACGATAGTTTTCACTATTTACAT
Found at i:22620335 original size:21 final size:21
Alignment explanation
Indices: 22620309--22620351 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
22620299 GTGTGGAAAG
22620309 AACATCCCGAATCTAGAATTC
1 AACATCCCGAATCTAGAATTC
22620330 AACATCCCGAATCTAGAATTC
1 AACATCCCGAATCTAGAATTC
22620351 A
1 A
22620352 TTCAGATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (21 bp):
AACATCCCGAATCTAGAATTC
Found at i:22625275 original size:19 final size:20
Alignment explanation
Indices: 22625245--22625282 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
22625235 GACAATCTCT
22625245 CATAATTTTTAGTATTTTCC
1 CATAATTTTTAGTATTTTCC
22625265 CATAA-TTTTAGTATTTTC
1 CATAATTTTTAGTATTTTC
22625283 TCGTAAGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (20 bp):
CATAATTTTTAGTATTTTCC
Found at i:22625496 original size:20 final size:20
Alignment explanation
Indices: 22625473--22625547 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
22625463 CCTCTTATAA
22625473 TTTTTGGTACTCCATCATGT
1 TTTTTGGTACTCCATCATGT
*
22625493 TTTTTGGTACTCACATCATAT
1 TTTTTGGTACTC-CATCATGT
* *
22625514 TTTTTGGTATTTCC-TCGTGT
1 TTTTTGGTA-CTCCATCATGT
*
22625534 TTTTTAGTACTCCA
1 TTTTTGGTACTCCA
22625548 AAAATTATGA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 3 0.07
20 24 0.52
21 17 0.37
22 2 0.04
ACGTcount: A:0.16, C:0.19, G:0.13, T:0.52
Consensus pattern (20 bp):
TTTTTGGTACTCCATCATGT
Found at i:22625509 original size:21 final size:20
Alignment explanation
Indices: 22625473--22625522 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 20
22625463 CCTCTTATAA
*
22625473 TTTTTGGTACTCCATCATGT
1 TTTTTGGTACTCCATCATAT
22625493 TTTTTGGTACTCACATCATAT
1 TTTTTGGTACTC-CATCATAT
22625514 TTTTTGGTA
1 TTTTTGGTA
22625523 TTTCCTCGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (20 bp):
TTTTTGGTACTCCATCATAT
Found at i:22630270 original size:16 final size:17
Alignment explanation
Indices: 22630251--22630283 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22630241 CTTATAATTT
22630251 TTTTCAT-TTATTTAAA
1 TTTTCATATTATTTAAA
*
22630267 TTTTCATATTTTTTAAA
1 TTTTCATATTATTTAAA
22630284 AATTATCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTCATATTATTTAAA
Done.