Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 76 of 168
Found at i:22335473 original size:2 final size:2
Alignment explanation
Indices: 22335466--22335499 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22335456 TTACGCAAAC
22335466 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22335500 TTAAAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22335718 original size:17 final size:17
Alignment explanation
Indices: 22335674--22335735 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 17
22335664 AATAAAAGTT
22335674 ATAAAAATTATTAA-AAA
1 ATAAAAA-TATTAAGAAA
*
22335691 ATTACAAAATATTAAGAAT
1 A-TA-AAAATATTAAGAAA
*
22335710 ATAAAAATA--CAGAAA
1 ATAAAAATATTAAGAAA
22335725 ATAAAAATATT
1 ATAAAAATATT
22335736 TTTTAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
15 13 0.35
17 7 0.19
18 10 0.27
19 7 0.19
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (17 bp):
ATAAAAATATTAAGAAA
Found at i:22335854 original size:16 final size:17
Alignment explanation
Indices: 22335829--22335867 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
22335819 AAATTTATAA
*
22335829 AAAATCGTAAAA-ATAT
1 AAAATTGTAAAAGATAT
22335845 AAAATTGTAAAAGATAT
1 AAAATTGTAAAAGATAT
22335862 AAAATT
1 AAAATT
22335868 TTATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (17 bp):
AAAATTGTAAAAGATAT
Found at i:22340152 original size:38 final size:38
Alignment explanation
Indices: 22340110--22340185 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
22340100 ACTCTTGTAT
*
22340110 TGGGATCCATTTTGGTAAAGTAGTTGCTCTTTTTTCCC
1 TGGGATCCATTTTGGTAAAGTAATTGCTCTTTTTTCCC
*
22340148 TGGGATCCATTTTGGTAAAGTAATTGCTTTTTTTTCCC
1 TGGGATCCATTTTGGTAAAGTAATTGCTCTTTTTTCCC
22340186 CTTTCCTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (38 bp):
TGGGATCCATTTTGGTAAAGTAATTGCTCTTTTTTCCC
Found at i:22341591 original size:24 final size:26
Alignment explanation
Indices: 22341564--22341620 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
22341554 TATATATTTT
*
22341564 TTATTAAATTAT-ATTTAA-TAATAA
1 TTATTAAAATATGATTTAATTAATAA
*
22341588 TTATGTTAAAATATGATTTAATTATTAA
1 TTA--TTAAAATATGATTTAATTAATAA
22341616 TTATT
1 TTATT
22341621 TATATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
24 3 0.11
26 10 0.37
27 6 0.22
28 8 0.30
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (26 bp):
TTATTAAAATATGATTTAATTAATAA
Found at i:22341818 original size:44 final size:44
Alignment explanation
Indices: 22341736--22341827 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
22341726 ATTACAACAT
22341736 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
* * *
22341780 CATTCCTTTCAACCAAACA-ATTGAGTTACTATTA-AGTTCTATTC
1 CATTCCATTCAACCAAACACA-AGA-ATACTATTACAGTTCTATTC
22341824 CATT
1 CATT
22341828 ATAGCTCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 34 0.79
45 8 0.19
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:22341838 original size:16 final size:16
Alignment explanation
Indices: 22341817--22341864 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
22341807 ACTATTAAGT
*
22341817 TCTATTCCATTATAGC
1 TCTATTCCATTACAGC
22341833 TCTATT-CAGTTACAGC
1 TCTATTCCA-TTACAGC
22341849 TCTATTCCATTACAGC
1 TCTATTCCATTACAGC
22341865 GAACCAAACG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 2 0.07
16 25 0.86
17 2 0.07
ACGTcount: A:0.25, C:0.27, G:0.08, T:0.40
Consensus pattern (16 bp):
TCTATTCCATTACAGC
Found at i:22344129 original size:32 final size:33
Alignment explanation
Indices: 22344088--22344155 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 33
22344078 TGGCATCCAT
*
22344088 AGAAATAGTCAATTGGGACAGT-AACATAGAAC
1 AGAAATAGTCAATTAGGACAGTAAACATAGAAC
*
22344120 AGAAATAGTCTATTAGGACAGTAAACATAGAAC
1 AGAAATAGTCAATTAGGACAGTAAACATAGAAC
22344153 AGA
1 AGA
22344156 GATAAAGTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 20 0.61
33 13 0.39
ACGTcount: A:0.49, C:0.12, G:0.21, T:0.19
Consensus pattern (33 bp):
AGAAATAGTCAATTAGGACAGTAAACATAGAAC
Found at i:22344181 original size:35 final size:33
Alignment explanation
Indices: 22344101--22344181 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 33
22344091 AATAGTCAAT
* * *
22344101 TGGGACAGT-AACATAGAACAGAAATAGTCTAT
1 TGGGACAGTAAACATAGAACAGAAAAAGTCCAC
*
22344133 TAGGACAGTAAACATAGAACAGAGATAAAGTCCAC
1 TGGGACAGTAAACATAGAACAGA-A-AAAGTCCAC
*
22344168 TGGGACAATAAACA
1 TGGGACAGTAAACA
22344182 CGGGGTAAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
32 8 0.20
33 13 0.32
34 1 0.03
35 18 0.45
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (33 bp):
TGGGACAGTAAACATAGAACAGAAAAAGTCCAC
Found at i:22355576 original size:6 final size:6
Alignment explanation
Indices: 22355562--22355594 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
22355552 ACATTAAAAA
*
22355562 AAACAC AAACTC AAACTC AAACTC AAACTC AAA
1 AAACTC AAACTC AAACTC AAACTC AAACTC AAA
22355595 TTCTAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.58, C:0.30, G:0.00, T:0.12
Consensus pattern (6 bp):
AAACTC
Found at i:22356467 original size:16 final size:15
Alignment explanation
Indices: 22356446--22356477 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22356436 TTTAAGATAA
22356446 TAAAAATATATTTTTT
1 TAAAAATA-ATTTTTT
22356462 TAAAAATAATTTTTT
1 TAAAAATAATTTTTT
22356477 T
1 T
22356478 CGTATGTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAAAAATAATTTTTT
Found at i:22357293 original size:5 final size:5
Alignment explanation
Indices: 22357283--22357317 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
22357273 ATAACTATTT
*
22357283 TTATA TTATA TTATA TTATA TTATA TTATT TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA
22357318 GATTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:22357769 original size:15 final size:16
Alignment explanation
Indices: 22357750--22357786 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
22357740 AATTATGTTC
22357750 AATAATTTTA-TAATT
1 AATAATTTTATTAATT
*
22357765 TATAATTTTATTAATT
1 AATAATTTTATTAATT
22357781 AATAAT
1 AATAAT
22357787 ATATTATGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATAATTTTATTAATT
Found at i:22361668 original size:15 final size:16
Alignment explanation
Indices: 22361648--22361677 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22361638 CAATCAAACA
22361648 TCTCTG-TTCCAGTCC
1 TCTCTGATTCCAGTCC
22361663 TCTCTGATTCCAGTC
1 TCTCTGATTCCAGTC
22361678 TACTAACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.10, C:0.37, G:0.13, T:0.40
Consensus pattern (16 bp):
TCTCTGATTCCAGTCC
Found at i:22374426 original size:22 final size:21
Alignment explanation
Indices: 22374401--22374444 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
22374391 TGATAAACTT
22374401 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
22374423 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
22374444 T
1 T
22374445 CAACTTCGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:22381024 original size:20 final size:20
Alignment explanation
Indices: 22380995--22381038 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
22380985 ATTAGAATAT
*
22380995 AAAA-ATTAAATTAAAAACA
1 AAAATATTAAAATAAAAACA
*
22381014 AAAATATTAAAATAAAAATA
1 AAAATATTAAAATAAAAACA
22381034 AAAAT
1 AAAAT
22381039 GGCTAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAATATTAAAATAAAAACA
Found at i:22391648 original size:20 final size:20
Alignment explanation
Indices: 22391623--22391661 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
22391613 TACTTTCTTC
22391623 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
22391643 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
22391662 AAGTAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:22393698 original size:20 final size:20
Alignment explanation
Indices: 22393673--22393711 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
22393663 TACTTTCTTC
22393673 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
22393693 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
22393712 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:22394032 original size:50 final size:50
Alignment explanation
Indices: 22393913--22394149 Score: 165
Period size: 50 Copynumber: 4.6 Consensus size: 50
22393903 TGATAATAAC
* * ** * * * *
22393913 ATGCCATGTCCAAGACATGATCTTACATGGGATGTTTCCTGTAC--TGCAA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGGTGCCA
* * * ** * *
22393962 ATGTCATATCCCAGATATGGTCTTACATGGGAGTTCGCATATCGGTGCCC
1 ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCA
** * *
22394012 ATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCA
* * * **
22394062 ACGCTATGTCGCAGACATGGTCTTA-AGTGGGACCTCTCATAACCTCAATAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCAT-A--TC---GGTGCCA
22394118 ATGCCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGA
22394150 TCTCATCCCC
Statistics
Matches: 142, Mismatches: 36, Indels: 13
0.74 0.19 0.07
Matches are distributed among these distances:
48 1 0.01
49 31 0.22
50 76 0.54
53 2 0.01
56 31 0.22
57 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.27
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCA
Found at i:22400933 original size:10 final size:9
Alignment explanation
Indices: 22400917--22400949 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
22400907 AAACTAAATA
22400917 TTTTCTTTC
1 TTTTCTTTC
22400926 TATTTCTTTC
1 T-TTTCTTTC
22400936 TTTT-TTTC
1 TTTTCTTTC
22400944 TTTTCT
1 TTTTCT
22400950 ACTCACTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.36
9 5 0.23
10 9 0.41
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:22402767 original size:17 final size:17
Alignment explanation
Indices: 22402745--22402779 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
22402735 CTCATCACTT
*
22402745 TATTACTTGATTTAACG
1 TATTACTTGATTCAACG
22402762 TATTACTTGATTCAACG
1 TATTACTTGATTCAACG
22402779 T
1 T
22402780 GTATACTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (17 bp):
TATTACTTGATTCAACG
Found at i:22427239 original size:37 final size:37
Alignment explanation
Indices: 22427135--22427232 Score: 106
Period size: 37 Copynumber: 2.6 Consensus size: 37
22427125 CTGATTTCAT
* * * *
22427135 TAAATGCATGAAAAACATGCCACAGATACTATTATAC
1 TAAATGTATGCAAAGCATGCCACAGATACTGTTATAC
* * *
22427172 TGAATGTATGCAAAGCATACCACTGATACTGTTATAC
1 TAAATGTATGCAAAGCATGCCACAGATACTGTTATAC
**
22427209 TAAATGTATGTTTAAGCATGCCAC
1 TAAATGTATG-CAAAGCATGCCAC
22427233 CGTACTGAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
37 39 0.80
38 10 0.20
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (37 bp):
TAAATGTATGCAAAGCATGCCACAGATACTGTTATAC
Found at i:22434921 original size:32 final size:32
Alignment explanation
Indices: 22434881--22434947 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
22434871 TGTCTAAATT
22434881 TTTTTTTTCTGATCAATATATACAAAATCTGA
1 TTTTTTTTCTGATCAATATATACAAAATCTGA
22434913 TTTTTTTTCTGATCAATATATACAAAATCTGA
1 TTTTTTTTCTGATCAATATATACAAAATCTGA
22434945 TTT
1 TTT
22434948 AAAAAGGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (32 bp):
TTTTTTTTCTGATCAATATATACAAAATCTGA
Found at i:22435414 original size:27 final size:27
Alignment explanation
Indices: 22435384--22435450 Score: 64
Period size: 30 Copynumber: 2.3 Consensus size: 27
22435374 TAGTTTATCG
*
22435384 TATTTGATATTTTAAATACA-AATTATT
1 TATTT-ATATTTTAAATAAATAATTATT
*
22435411 TATTTTATTTTATTTTATATAAATAATTATT
1 TA-TTTA---TATTTTAAATAAATAATTATT
22435442 TATTTATAT
1 TATTTATAT
22435451 ATATATTCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
27 6 0.18
28 3 0.09
30 15 0.45
31 9 0.27
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (27 bp):
TATTTATATTTTAAATAAATAATTATT
Found at i:22437116 original size:34 final size:37
Alignment explanation
Indices: 22437040--22437116 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 37
22437030 TTATAAAGGA
22437040 ATAATTAA-CTATAAAAATAACTTAAAAATAATTATC
1 ATAATTAATCTATAAAAATAACTTAAAAATAATTATC
* * *
22437076 AT--TTAATCTA-ATAAATAACTT-AAATTGATTA-C
1 ATAATTAATCTATAAAAATAACTTAAAAATAATTATC
22437108 ATAATTAAT
1 ATAATTAAT
22437117 TAAAATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
32 3 0.09
33 8 0.23
34 19 0.54
35 3 0.09
36 2 0.06
ACGTcount: A:0.53, C:0.08, G:0.01, T:0.38
Consensus pattern (37 bp):
ATAATTAATCTATAAAAATAACTTAAAAATAATTATC
Found at i:22440291 original size:19 final size:19
Alignment explanation
Indices: 22440269--22440312 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
22440259 TAACTCTTCT
* *
22440269 AAATTTTTTTAAAATTTTA
1 AAATTTTCTTAAAATTATA
**
22440288 AAATAGTCTTAAAATTATA
1 AAATTTTCTTAAAATTATA
22440307 AAATTT
1 AAATTT
22440313 AATTCAATAC
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
AAATTTTCTTAAAATTATA
Found at i:22443061 original size:2 final size:2
Alignment explanation
Indices: 22443054--22443078 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22443044 AATAACTTAC
22443054 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22443079 TCTAGAGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22444540 original size:13 final size:13
Alignment explanation
Indices: 22444522--22444548 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22444512 CTGAATTAGT
22444522 TTTACTAACCACC
1 TTTACTAACCACC
22444535 TTTACTAACCACC
1 TTTACTAACCACC
22444548 T
1 T
22444549 GATCATGACT
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:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTACTAACCACC
Found at i:22445110 original size:63 final size:63
Alignment explanation
Indices: 22445001--22445124 Score: 212
Period size: 63 Copynumber: 2.0 Consensus size: 63
22444991 ATTATGTGAG
*
22445001 AATACTACTAATGAGAACTTGTTAGAGAATTTGTTTTAACTTTTCATGCTTCAAATGTGCTCT
1 AATACTACTAATGAGAACTTGTTAGAGAATTTGTTCTAACTTTTCATGCTTCAAATGTGCTCT
* * *
22445064 AATATTACTGATGAGAACTTGTTAGAGAATTTGTTCTAACTTTTCATGTTTCAAATGTGCT
1 AATACTACTAATGAGAACTTGTTAGAGAATTTGTTCTAACTTTTCATGCTTCAAATGTGCT
22445125 ATTGCAGTAG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (63 bp):
AATACTACTAATGAGAACTTGTTAGAGAATTTGTTCTAACTTTTCATGCTTCAAATGTGCTCT
Found at i:22446241 original size:42 final size:44
Alignment explanation
Indices: 22446156--22446243 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
22446146 GTATTATGCA
* * * *
22446156 TATATTAGTATGGTTAAATCATATGAGATGATAAACTAGAAGTT
1 TATATTAGTATGGTCAAATAACATGAGATAATAAACTAGAAGTT
*
22446200 TATATTAGTATTGTCAAATAACATGA-ATAAT-AACTAGAAGTT
1 TATATTAGTATGGTCAAATAACATGAGATAATAAACTAGAAGTT
22446242 TA
1 TA
22446244 CTAGCTCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 13 0.33
43 4 0.10
44 22 0.56
ACGTcount: A:0.43, C:0.06, G:0.15, T:0.36
Consensus pattern (44 bp):
TATATTAGTATGGTCAAATAACATGAGATAATAAACTAGAAGTT
Found at i:22449150 original size:16 final size:16
Alignment explanation
Indices: 22449119--22449152 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22449109 AAAGGAAAAT
**
22449119 TTATAAAAATGTTAAA
1 TTATAAAAATAATAAA
22449135 TTATAAAAATAATAAA
1 TTATAAAAATAATAAA
22449151 TT
1 TT
22449153 TTTCTTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
TTATAAAAATAATAAA
Found at i:22453533 original size:31 final size:31
Alignment explanation
Indices: 22453495--22453563 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
22453485 AATAAAGACC
*
22453495 TAGTGACTTAAATAAAAACTTTCAAATTGTT
1 TAGTGACTTAAATAAAAACTTTCAAATAGTT
* *
22453526 TAGTGACTTAAATGAAAACTTTCGAATAGTT
1 TAGTGACTTAAATAAAAACTTTCAAATAGTT
22453557 TAGTGAC
1 TAGTGAC
22453564 CATTTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.36
Consensus pattern (31 bp):
TAGTGACTTAAATAAAAACTTTCAAATAGTT
Found at i:22464053 original size:38 final size:38
Alignment explanation
Indices: 22463996--22464145 Score: 210
Period size: 38 Copynumber: 3.9 Consensus size: 38
22463986 TTGATTCACT
*
22463996 GGCACAAAGCCTGCTAGGCACAGAGCCCGAATAACACC
1 GGCACAAAGCCTGCTAGGCACAGAGCCCAAATAACACC
* * * *
22464034 AGCACGAAGCCTGCTAGGCACAGTGCCCAAATAACATC
1 GGCACAAAGCCTGCTAGGCACAGAGCCCAAATAACACC
*
22464072 GGCACAAAGCCTGCTAGGCATAGAGCCCAAATAACACC
1 GGCACAAAGCCTGCTAGGCACAGAGCCCAAATAACACC
* * * *
22464110 GGCATAAAGCCTGCTAAGCATAGAGCCCGAATAACA
1 GGCACAAAGCCTGCTAGGCACAGAGCCCAAATAACA
22464146 TTACGCTTCT
Statistics
Matches: 99, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 99 1.00
ACGTcount: A:0.36, C:0.31, G:0.22, T:0.11
Consensus pattern (38 bp):
GGCACAAAGCCTGCTAGGCACAGAGCCCAAATAACACC
Found at i:22466227 original size:14 final size:14
Alignment explanation
Indices: 22466208--22466237 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22466198 TCTCATCCCA
*
22466208 ATTCACATAATCAC
1 ATTCACATAAGCAC
22466222 ATTCACATAAGCAC
1 ATTCACATAAGCAC
22466236 AT
1 AT
22466238 AATTCACAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (14 bp):
ATTCACATAAGCAC
Found at i:22471438 original size:16 final size:18
Alignment explanation
Indices: 22471399--22471438 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
22471389 AGTGTGCACT
22471399 CTGA-CTTGAACTTCCAA
1 CTGACCTTGAACTTCCAA
22471416 CTGACCTTG-ACTTCCAA
1 CTGACCTTGAACTTCCAA
22471433 -TGACCT
1 CTGACCT
22471439 ACAAAGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.27
17 12 0.55
18 4 0.18
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.30
Consensus pattern (18 bp):
CTGACCTTGAACTTCCAA
Found at i:22471844 original size:25 final size:25
Alignment explanation
Indices: 22471807--22471921 Score: 105
Period size: 25 Copynumber: 4.7 Consensus size: 25
22471797 TGCAGGAAAG
*
22471807 TGCTCACACGAGCTGTGACAGTAAA
1 TGCTCACATGAGCTGTGACAGTAAA
* * *
22471832 TGCTCACATGAGCTATAACTGTAAA
1 TGCTCACATGAGCTGTGACAGTAAA
*
22471857 TGCTCAC-T-AGACATGTAGA-A--AAG
1 TGCTCACATGAG-C-TGT-GACAGTAAA
22471880 TGCTCACATGAGCTGTGACAGTAAA
1 TGCTCACATGAGCTGTGACAGTAAA
* *
22471905 TGCTGACATGAACTGTG
1 TGCTCACATGAGCTGTG
22471922 GGTTGGGATG
Statistics
Matches: 71, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
22 2 0.03
23 15 0.21
24 4 0.06
25 49 0.69
26 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (25 bp):
TGCTCACATGAGCTGTGACAGTAAA
Found at i:22473094 original size:7 final size:7
Alignment explanation
Indices: 22473072--22473117 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
22473062 TACAATCTTG
22473072 TAATAATA
1 TAATAA-A
*
22473080 TTATAAA
1 TAATAAA
22473087 TAATAAA
1 TAATAAA
22473094 TAATAAA
1 TAATAAA
*
22473101 TAATTAAT
1 TAA-TAAA
22473109 TAATAAA
1 TAATAAA
22473116 TA
1 TA
22473118 CTAACTTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
7 22 0.67
8 11 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
TAATAAA
Found at i:22479744 original size:13 final size:13
Alignment explanation
Indices: 22479718--22479757 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
22479708 TCAAATTAGA
22479718 TTATGTTT-ATGT
1 TTATGTTTCATGT
22479730 TTATGTTTCATGT
1 TTATGTTTCATGT
* *
22479743 TTTTGTGTCATGT
1 TTATGTTTCATGT
22479756 TT
1 TT
22479758 TTAATAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.12, C:0.05, G:0.17, T:0.65
Consensus pattern (13 bp):
TTATGTTTCATGT
Found at i:22481625 original size:54 final size:54
Alignment explanation
Indices: 22481540--22481642 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
22481530 TGGTTGTGTG
*
22481540 GCCAAACCGTGTAACAACCTAAGTCTTTGTATCTTAGGGTCACAAGGTCCTATA
1 GCCAAACCGTGTAACAACCTAAGTCTGTGTATCTTAGGGTCACAAGGTCCTATA
* * * *
22481594 GCCAAACCGTGTAACAGCTTGAGTCTGTGTATCTTAGGGTCACACGGTC
1 GCCAAACCGTGTAACAACCTAAGTCTGTGTATCTTAGGGTCACAAGGTC
22481643 GTGTCGCCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (54 bp):
GCCAAACCGTGTAACAACCTAAGTCTGTGTATCTTAGGGTCACAAGGTCCTATA
Found at i:22481652 original size:54 final size:54
Alignment explanation
Indices: 22481535--22481667 Score: 158
Period size: 54 Copynumber: 2.5 Consensus size: 54
22481525 AGGCATGGTT
* *
22481535 GTGTGGCCAAACCGTGTAACAACCTAAGTCTTTGTATCTTAGGGTCACAAGGTC
1 GTGTAGCCAAACCGTGTAACAACCTAAGTCTGTGTATCTTAGGGTCACAAGGTC
* * * * * *
22481589 CTATAGCCAAACCGTGTAACAGCTTGAGTCTGTGTATCTTAGGGTCACACGGTC
1 GTGTAGCCAAACCGTGTAACAACCTAAGTCTGTGTATCTTAGGGTCACAAGGTC
* ** *
22481643 GTGTCGCCAAGTCATGTAACAACCT
1 GTGTAGCCAAACCGTGTAACAACCT
22481668 GATGCAGTGT
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (54 bp):
GTGTAGCCAAACCGTGTAACAACCTAAGTCTGTGTATCTTAGGGTCACAAGGTC
Found at i:22483828 original size:45 final size:45
Alignment explanation
Indices: 22483771--22483969 Score: 183
Period size: 45 Copynumber: 4.4 Consensus size: 45
22483761 TGCCATAGTG
* * *
22483771 TCTTTCAACTATGGACTTATCCGTCT-GATTCATGATGCCA-AAGCA
1 TCTTTCAGCTATGGTCTTATCCGT-TAGAATCATGATGCCATAA-CA
*
22483816 TCTTTCAGCTATGGTCTTA-CTCGTTAGAATCGTGATGCCATAACA
1 TCTTTCAGCTATGGTCTTATC-CGTTAGAATCATGATGCCATAACA
* * * *
22483861 TCTTTCAGCTCTGGTCTTATTCATTAGAATCATGATGCCATAACG
1 TCTTTCAGCTATGGTCTTATCCGTTAGAATCATGATGCCATAACA
* ** * **
22483906 TCTTTCAGCTATTGTCTTACTCATTTTTG-AT-ATGATGCCATAATT
1 TCTTTCAGCTATGGTCTTA-TC-CGTTAGAATCATGATGCCATAACA
*
22483951 TCTTTCAACTATGGTCTTA
1 TCTTTCAGCTATGGTCTTA
22483970 CGTAATTTTG
Statistics
Matches: 129, Mismatches: 19, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
44 2 0.02
45 119 0.92
46 5 0.04
47 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTATCCGTTAGAATCATGATGCCATAACA
Found at i:22483942 original size:90 final size:90
Alignment explanation
Indices: 22483771--22483969 Score: 217
Period size: 90 Copynumber: 2.2 Consensus size: 90
22483761 TGCCATAGTG
* * * *
22483771 TCTTTCAACTATGGACTTATCCGTCT-GATTCATGATGCCAAAGCATCTTTCAGCTATGGTCTTA
1 TCTTTCAACTATGGTCTTATTCAT-TAGAATCATGATGCCAAAGCATCTTTCAGCTATGGTCTTA
*
22483835 CTCGTTAGAATCGTGATGCCATAACA
65 CTCGTTAGAATCATGATGCCATAACA
* * * *
22483861 TCTTTCAGCTCTGGTCTTATTCATTAGAATCATGATGCCATAA-CGTCTTTCAGCTATTGTCTTA
1 TCTTTCAACTATGGTCTTATTCATTAGAATCATGATGCCA-AAGCATCTTTCAGCTATGGTCTTA
* * **
22483925 CTCATTTTTG-AT-ATGATGCCATAATT
65 CTC--GTTAGAATCATGATGCCATAACA
22483951 TCTTTCAACTATGGTCTTA
1 TCTTTCAACTATGGTCTTA
22483970 CGTAATTTTG
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
89 1 0.01
90 82 0.91
91 4 0.04
92 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (90 bp):
TCTTTCAACTATGGTCTTATTCATTAGAATCATGATGCCAAAGCATCTTTCAGCTATGGTCTTAC
TCGTTAGAATCATGATGCCATAACA
Found at i:22483970 original size:45 final size:45
Alignment explanation
Indices: 22483848--22484020 Score: 147
Period size: 45 Copynumber: 3.8 Consensus size: 45
22483838 GTTAGAATCG
* * * * *
22483848 TGATGCCATAACATCTTTCAGCTCTGGTCTTATTCA--TTAGAATCA
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCATTTTTG-AT-A
* *
22483893 TGATGCCATAACGTCTTTCAGCTATTGTCTTACTCATTTTTGATA
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCATTTTTGATA
** * *
22483938 TGATGCCATAATTTCTTTCAACTATGGTCTTACGT-AATTTTGGTA
1 TGATGCCATAACGTCTTTCAACTATGGTCTTAC-TCATTTTTGATA
* ** *
22483983 T-AGTGCCACAGTGTCTTTCAACTATGGTCTTAATCATT
1 TGA-TGCCATAACGTCTTTCAACTATGGTCTTACTCATT
22484021 CCCTTCAAAC
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
44 2 0.02
45 99 0.93
46 3 0.03
47 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAACTATGGTCTTACTCATTTTTGATA
Found at i:22489400 original size:45 final size:45
Alignment explanation
Indices: 22489336--22489462 Score: 164
Period size: 45 Copynumber: 2.8 Consensus size: 45
22489326 ATGGTTGAAG
* *
22489336 GATGCCATGGTATTTTTCAACCATGGTCTTATTCATTCCCGACTA
1 GATGCCATGGTATCTTTCAACCATGGTCTTATTCATTCCCAACTA
* * * *
22489381 GATGCCATGGTGTCTTTCAACCATGATCTTATTCATTCCCAATTT
1 GATGCCATGGTATCTTTCAACCATGGTCTTATTCATTCCCAACTA
* * * *
22489426 GATGCTATAGTATCTCTCTACCATGGTCTTATTCATT
1 GATGCCATGGTATCTTTCAACCATGGTCTTATTCATT
22489463 TTACGTCGTG
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (45 bp):
GATGCCATGGTATCTTTCAACCATGGTCTTATTCATTCCCAACTA
Found at i:22490302 original size:8 final size:8
Alignment explanation
Indices: 22490289--22490324 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
22490279 AATTTATAAC
22490289 ATTTTACA
1 ATTTTACA
22490297 ATTTTACA
1 ATTTTACA
22490305 ATTTTACA
1 ATTTTACA
22490313 ATTTTACA
1 ATTTTACA
22490321 ATTT
1 ATTT
22490325 GACCCTTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (8 bp):
ATTTTACA
Found at i:22503532 original size:56 final size:50
Alignment explanation
Indices: 22503436--22503573 Score: 152
Period size: 56 Copynumber: 2.6 Consensus size: 50
22503426 ATTTGGGTAA
* * ** *
22503436 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATAACATTGGCA-C-CT-AG---ATG
*
22503492 AGAGGTCCCATGTAAGACCATGTTTGGGACATAACGTTGGCACCTAGATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATAACATTGGCACCTAGATG
22503542 AGAGGTCCC-TCGTAAGACCATGTTTGGGACAT
1 AGAGGTCCCAT-GTAAGACCATGTTTGGGACAT
22503574 GGTATGGGCA
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
49 1 0.01
50 33 0.44
53 2 0.03
54 1 0.01
55 1 0.01
56 37 0.49
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTTTGGGACATAACATTGGCACCTAGATG
Found at i:22503593 original size:50 final size:49
Alignment explanation
Indices: 22503436--22503612 Score: 160
Period size: 50 Copynumber: 3.4 Consensus size: 49
22503426 ATTTGGGTAA
* * *
22503436 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGTA-TGGCATC-----GA-TATG
* * * *
22503492 AGAGGTCCCATGTAAGACCATGTTTGGGACATAACGT-TGGCACCTAGATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACAT--GGTATGGCATCGATATG
22503542 AGAGGTCCC-TCGTAAGACCATGTTTGGGACATGGTATGGGCATCGATATG
1 AGAGGTCCCAT-GTAAGACCATGTTTGGGACATGGTAT-GGCATCGATATG
**
22503592 AGAACTCCCATGTAAGACCAT
1 AGAGGTCCCATGTAAGACCAT
22503613 ATCTGGGATA
Statistics
Matches: 102, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
48 2 0.02
49 2 0.02
50 59 0.58
51 2 0.02
56 36 0.35
58 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (49 bp):
AGAGGTCCCATGTAAGACCATGTTTGGGACATGGTATGGCATCGATATG
Found at i:22503883 original size:36 final size:36
Alignment explanation
Indices: 22503842--22503913 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
22503832 TGAGAAAGAA
22503842 ATTTCAGCAAGGGAGGAGTAAGTTATAATCATGAGT
1 ATTTCAGCAAGGGAGGAGTAAGTTATAATCATGAGT
22503878 ATTTCAGCAAGGGAGGAGTAAGTTATAATCATGAGT
1 ATTTCAGCAAGGGAGGAGTAAGTTATAATCATGAGT
22503914 TATCTAAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (36 bp):
ATTTCAGCAAGGGAGGAGTAAGTTATAATCATGAGT
Found at i:22510209 original size:50 final size:52
Alignment explanation
Indices: 22510097--22510294 Score: 170
Period size: 50 Copynumber: 3.8 Consensus size: 52
22510087 ATTTGGGTAA
*
22510097 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC--TGAG--TATG
* * *
22510153 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCATC-GAG-GTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGTATG
*** * * * * * * *
22510203 AGAGGTCCCCCATAAGACTATGTCTCGGATATGGTATGGGCA-C-CAATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGTATG
** * *
22510253 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
22510295 GTACAGAAAA
Statistics
Matches: 114, Mismatches: 27, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
49 2 0.02
50 68 0.60
53 3 0.03
56 41 0.36
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (52 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGTATG
Found at i:22515306 original size:25 final size:25
Alignment explanation
Indices: 22515275--22515352 Score: 97
Period size: 25 Copynumber: 3.1 Consensus size: 25
22515265 TCATTTTTTT
*
22515275 ATATTTTTGAATTATT-TTTTATATA
1 ATATTTTT-AATTTTTATTTTATATA
*
22515300 ATGTTTTATAATTTTTATTTTATATA
1 ATATTTT-TAATTTTTATTTTATATA
22515326 A-ATTTTTATATTTTTATTTTATATA
1 ATATTTTTA-ATTTTTATTTTATATA
22515351 AT
1 AT
22515353 TGGCATGTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
24 2 0.04
25 33 0.72
26 11 0.24
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (25 bp):
ATATTTTTAATTTTTATTTTATATA
Found at i:22515320 original size:14 final size:13
Alignment explanation
Indices: 22515303--22515349 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
22515293 TTATATAATG
22515303 TTTTATAATTTTTA
1 TTTTAT-ATTTTTA
***
22515317 TTTTATATAAAT-
1 TTTTATATTTTTA
22515329 TTTTATATTTTTA
1 TTTTATATTTTTA
22515342 TTTTATAT
1 TTTTATAT
22515350 AATTGGCATG
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
12 9 0.35
13 11 0.42
14 6 0.23
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTATATTTTTA
Found at i:22515324 original size:26 final size:24
Alignment explanation
Indices: 22515291--22515353 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 24
22515281 TTGAATTATT
22515291 TTTTATATAATGTTTTATAATTTTTA
1 TTTTATATAAT-TTTTAT-ATTTTTA
22515317 TTTTATATAAATTTTTATATTTTTA
1 TTTTATAT-AATTTTTATATTTTTA
22515342 TTTTATATAATT
1 TTTTATATAATT
22515354 GGCATGTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
24 4 0.11
25 15 0.42
26 14 0.39
27 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTATATAATTTTTATATTTTTA
Found at i:22515413 original size:9 final size:9
Alignment explanation
Indices: 22515384--22515464 Score: 50
Period size: 8 Copynumber: 9.6 Consensus size: 9
22515374 TGTATACTTT
22515384 TTTTATA-A
1 TTTTATATA
*
22515392 TTTTTTA-A
1 TTTTATATA
*
22515400 ATTTATATA
1 TTTTATATA
22515409 TTTTA-AT-
1 TTTTATATA
*
22515416 TTTTAGAT-
1 TTTTATATA
22515424 TTTATATATTA
1 TTT-TATA-TA
*
22515435 TTTT-CATA
1 TTTTATATA
*
22515443 CTTT-TATA
1 TTTTATATA
22515451 TTTTATATA
1 TTTTATATA
22515460 TTTTA
1 TTTTA
22515465 AAATAATATT
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
7 5 0.09
8 30 0.52
9 18 0.31
10 2 0.03
11 3 0.05
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTATATA
Found at i:22515429 original size:21 final size:21
Alignment explanation
Indices: 22515393--22515466 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
22515383 TTTTTATAAT
22515393 TTTTTAAATTTATATATTTTAA
1 TTTTTAAATTT-TATATTTTAA
* *
22515415 TTTTTAGATTTTATATATT-A
1 TTTTTAAATTTTATATTTTAA
* *
22515435 TTTTCATACTTTTATATTTTATA
1 TTTTTA-AATTTTATATTTTA-A
22515458 TATTTTAAA
1 T-TTTTAAA
22515467 ATAATATTGA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
20 6 0.15
21 17 0.43
22 10 0.25
23 3 0.08
24 4 0.10
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (21 bp):
TTTTTAAATTTTATATTTTAA
Found at i:22518130 original size:15 final size:15
Alignment explanation
Indices: 22518110--22518141 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22518100 CATTTCACTA
*
22518110 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
22518125 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
22518140 TT
1 TT
22518142 TGTATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:22522040 original size:44 final size:44
Alignment explanation
Indices: 22521984--22522295 Score: 223
Period size: 44 Copynumber: 6.8 Consensus size: 44
22521974 AGAAAGTTTT
*
22521984 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTG
1 GCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTG
* * * ** *
22522028 GCTTTAACCTGCTCTACTACAACTTCAAAGAGATAAGGATTGTAG
1 GCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT-G
* *
22522073 CCAGTCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT-AGGATTTGTT
1 ---G-CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGG-TTTGTG
* * * * *
22522121 TCTTTTTAACCTGTTCCACTGCAACTTCAGGGAGATAAGGCTTGTA
1 GC--TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTG
* * * *
22522167 ACTTCAACCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGCTA
1 GCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TG
* ** * * * * * **
22522212 TCTTTGATCTACTTCC-CTGCAACTTTAGGAAGATAAGATCCATAATG
1 GCTTCAACCTGC-TCCACTGCAACTTCAGGGAGATAAGGT---TTGTG
* *
22522259 GCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAG
1 GCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
22522296 ATTCACCATA
Statistics
Matches: 206, Mismatches: 47, Indels: 27
0.74 0.17 0.10
Matches are distributed among these distances:
44 72 0.35
45 29 0.14
46 39 0.19
47 30 0.15
48 5 0.02
49 31 0.15
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
GCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTG
Found at i:22522092 original size:93 final size:89
Alignment explanation
Indices: 22521985--22522208 Score: 272
Period size: 93 Copynumber: 2.5 Consensus size: 89
22521975 GAAAGTTTTG
*
22521985 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGC-TTTAACCTGCTCTACTACA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTTAACCTGCTCCACTACA
22522049 ACTTCAAAGAGATAAGGATTGTAGCCA
66 ACTTCAAAGAGATAAGGATTGTA---A
** *
22522076 GTCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT-AGGATTTGTTTCTTTTTAACCTGTTCCAC
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGG-TTTGTGGC-TTTTAACCTGCTCCAC
* ** *
22522140 TGCAACTTCAGGGAGATAAGGCTTGTAA
62 TACAACTTCAAAGAGATAAGGATTGTAA
* * *
22522168 CTTCAACCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG
22522209 CTATCTTTGA
Statistics
Matches: 116, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
90 34 0.29
91 3 0.03
92 4 0.03
93 39 0.34
95 36 0.31
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (89 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTTAACCTGCTCCACTACA
ACTTCAAAGAGATAAGGATTGTAA
Found at i:22522478 original size:85 final size:85
Alignment explanation
Indices: 22522365--22522661 Score: 249
Period size: 85 Copynumber: 3.4 Consensus size: 85
22522355 TTGCCTTCAG
* * * * *
22522365 TCTGCTCTACAGCAACTTCAGGGAGATAAGACTAGTAACTTTAACCTGCTTCGTTGCAACTTCAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGACTAGTAACTTCAAACTGCTTCGCTGCAACTTCAG
*
22522430 GGAGATAAGGTTTGATATGA
66 GGAGATAAGATTTGATATGA
* * * * * *
22522450 TCTGCTCTACTGTAACTTTAGAGAGATAAGATCTATAATATATAGCTTCAATCTG-TTCCACTGT
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGA-C--T-A-GTA-A-CTTCAAACTGCTT-CGCTGC
* * *
22522514 AACTTCAGGGAAATAAGATTCACT-ATCTTCAA
58 AACTTCAGGGAGATAAGATT---TGAT-AT-GA
* * * * * *
22522546 TCTCCTCCACTGTAACTTCAAAAAGATAAGACTAGTAACTTCAAACTGC-TCTGCTGCAACTTTA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGACTAGTAACTTCAAACTGCTTC-GCTGCAACTTCA
22522610 GGGAGATAAGATTTGATATGA
65 GGGAGATAAGATTTGATATGA
*
22522631 TCTGCTCAACTGCAACTTCAGAGAGATAAGA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGA
22522662 TCTATAATTT
Statistics
Matches: 164, Mismatches: 32, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
85 54 0.33
86 3 0.02
87 2 0.01
88 2 0.01
89 32 0.20
90 3 0.02
91 5 0.03
92 30 0.18
93 1 0.01
94 2 0.01
95 3 0.02
96 27 0.16
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (85 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGACTAGTAACTTCAAACTGCTTCGCTGCAACTTCAG
GGAGATAAGATTTGATATGA
Found at i:22522559 original size:45 final size:45
Alignment explanation
Indices: 22522495--22522802 Score: 207
Period size: 45 Copynumber: 6.8 Consensus size: 45
22522485 TAATATATAG
* *
22522495 CTTCAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTCACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTAT
* * ** * * *
22522540 CTTCAATCTCCTCCACTGTAACTTCA-AAAAGATAAGACT-AGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTCACTAT
* ** * *
22522584 CTTCAAACTGCTCTGCTGCAACTTTAGGGAGATAAGATT---TGAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACT-AT
* * * * * * *
22522627 -AT-GATCTGCTCAACTGCAACTTCAGAGAGATAAGATCTATAATTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGA--T-TCA-CTAT
* * *
22522674 AGCTTCAATATGTTCCACTGTAACTTCAGGGAAATAAGATTCACTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTAT
* * * *
22522721 CTTCAGTCTGCTCCACTACAACTTTAGGGAAATAAGATTCGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTAT
* * * *
22522766 CTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGA
22522803 CTAGCAATTT
Statistics
Matches: 204, Mismatches: 45, Indels: 28
0.74 0.16 0.10
Matches are distributed among these distances:
41 27 0.13
42 2 0.01
43 2 0.01
44 33 0.16
45 104 0.51
47 5 0.02
48 3 0.01
49 1 0.00
50 1 0.00
51 26 0.13
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTAT
Found at i:22522565 original size:181 final size:181
Alignment explanation
Indices: 22522265--22522802 Score: 605
Period size: 181 Copynumber: 3.0 Consensus size: 181
22522255 AATGGCTTCA
* * * * * * *
22522265 ATCTGCTCCACTACAACTTCAGGGAGATAAGATTCACCATAACT-TGTAGCTTTAATTTGTTCCA
1 ATCTGCTCAACTGCAACTTCAGAGAGATAAGA-T--CTATAA-TATATAGCTTCAATATGTTCCA
* * ** ** * *
22522329 CTGCAA-TGCCAGGGAAATAAGATTCGTTGCCTTCAGTCTGCTCTACAGCAACTTCAGGGAGATA
62 CTGTAACT-TCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * * *
22522393 AGACTAGTAACTTTAACCTGCT-TCGTTGCAACTTCAGGGAGATAAGGTTTGATATG
126 AGACTAGTAACTTCAAACTGCTCT-GCTGCAACTTCAGGGAGATAAGATTTGATATG
* * * *
22522449 ATCTGCTCTACTGTAACTTTAGAGAGATAAGATCTATAATATATAGCTTCAATCTGTTCCACTGT
1 ATCTGCTCAACTGCAACTTCAGAGAGATAAGATCTATAATATATAGCTTCAATATGTTCCACTGT
* * * ***
22522514 AACTTCAGGGAAATAAGATTCACTATCTTCAATCTCCTCCACTGTAACTTCAAAAAGATAAGACT
66 AACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
*
22522579 AGTAACTTCAAACTGCTCTGCTGCAACTTTAGGGAGATAAGATTTGATATG
131 AGTAACTTCAAACTGCTCTGCTGCAACTTCAGGGAGATAAGATTTGATATG
*
22522630 ATCTGCTCAACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATATGTTCCACTGT
1 ATCTGCTCAACTGCAACTTCAGAGAGATAAGATCTATAATATATAGCTTCAATATGTTCCACTGT
* * * *
22522695 AACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTACAACTTTAGGGAAATAAGATT
66 AACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
* * ** ** * *
22522760 CGCTATCTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGA
131 AG-TAACTTCAAACTGCTCTGCTGCAACTTCAGGGAGATAAGA
22522803 CTAGCAATTT
Statistics
Matches: 298, Mismatches: 52, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
180 1 0.00
181 235 0.79
182 34 0.11
183 1 0.00
184 27 0.09
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (181 bp):
ATCTGCTCAACTGCAACTTCAGAGAGATAAGATCTATAATATATAGCTTCAATATGTTCCACTGT
AACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
AGTAACTTCAAACTGCTCTGCTGCAACTTCAGGGAGATAAGATTTGATATG
Found at i:22549845 original size:29 final size:29
Alignment explanation
Indices: 22549799--22549871 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
22549789 AGTCGAAACT
* *
22549799 ATCCCTTTTCATATTTGATGTTCATCACC
1 ATCCCTTTTCATAGTTGATGGTCATCACC
22549828 ATCCCTTTTCATAGTTGATGGTCATCACC
1 ATCCCTTTTCATAGTTGATGGTCATCACC
22549857 ATCCCTTTTCATAGT
1 ATCCCTTTTCATAGT
22549872 CGACAATCGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.21, C:0.27, G:0.10, T:0.42
Consensus pattern (29 bp):
ATCCCTTTTCATAGTTGATGGTCATCACC
Found at i:22550982 original size:26 final size:26
Alignment explanation
Indices: 22550953--22551009 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
22550943 ATAAAAATAT
* *
22550953 TTCTGTCTCAGTTCATAGAAATGAGG
1 TTCTGGCTCAGTTCATAGAAACGAGG
*
22550979 TTCTGGCTCAGTTTATAGAAACGAGG
1 TTCTGGCTCAGTTCATAGAAACGAGG
22551005 TTCTG
1 TTCTG
22551010 ATACCTCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (26 bp):
TTCTGGCTCAGTTCATAGAAACGAGG
Found at i:22552189 original size:22 final size:22
Alignment explanation
Indices: 22552142--22552185 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22552132 AACCAAAGTC
*
22552142 ATTTAGTTTAGTTTTATATTTT
1 ATTTAGTTTAATTTTATATTTT
*
22552164 ATTTATTTTAATTTTA-ATTTT
1 ATTTAGTTTAATTTTATATTTT
22552185 A
1 A
22552186 ATTTTCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (22 bp):
ATTTAGTTTAATTTTATATTTT
Found at i:22552197 original size:7 final size:6
Alignment explanation
Indices: 22552148--22552203 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
22552138 AGTCATTTAG
*
22552148 TTTAGT TTTATAT TTT-A- TTT-AT TTTAAT TTTAAT TTTAAT TTTCAAT
1 TTTAAT TTTA-AT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTT-AAT
*
22552195 TTTACT TTT
1 TTTAAT TTT
22552204 GTTTGTTACT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 26 0.59
7 10 0.23
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (6 bp):
TTTAAT
Found at i:22552197 original size:13 final size:12
Alignment explanation
Indices: 22552148--22552203 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 12
22552138 AGTCATTTAG
*
22552148 TTTAGTTTTATAT
1 TTTAATTTTA-AT
22552161 TTT-A-TTT-AT
1 TTTAATTTTAAT
22552170 TTTAATTTTAAT
1 TTTAATTTTAAT
22552182 TTTAATTTTCAAT
1 TTTAATTTT-AAT
*
22552195 TTTACTTTT
1 TTTAATTTT
22552204 GTTTGTTACT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 5 0.14
10 1 0.03
11 6 0.16
12 11 0.30
13 14 0.38
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTAATTTTAAT
Found at i:22552212 original size:13 final size:12
Alignment explanation
Indices: 22552194--22552235 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
22552184 TAATTTTCAA
22552194 TTTTACTTTTGT
1 TTTTACTTTTGT
22552206 TTGTTACTTTTGT
1 TT-TTACTTTTGT
*
22552219 CTTTTATTTTTGT
1 -TTTTACTTTTGT
22552232 TTTT
1 TTTT
22552236 GTTTTCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 6 0.22
13 19 0.70
14 2 0.07
ACGTcount: A:0.07, C:0.07, G:0.10, T:0.76
Consensus pattern (12 bp):
TTTTACTTTTGT
Found at i:22552234 original size:6 final size:6
Alignment explanation
Indices: 22552213--22552299 Score: 83
Period size: 6 Copynumber: 14.5 Consensus size: 6
22552203 TGTTTGTTAC
*
22552213 TTTTGT CTTTTAT TTTTGT TTTTGT TTTCAT-T TTTTGT TTTT-T GTTTT-T
1 TTTTGT -TTTTGT TTTTGT TTTTGT TTT--TGT TTTTGT TTTTGT -TTTTGT
* *
22552262 TTTGGA TTTTGT TTTTGT TTTTGT TTTTG- TTTTGT TTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTT
22552300 ATTATGCACT
Statistics
Matches: 68, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
5 10 0.15
6 48 0.71
7 9 0.13
8 1 0.01
ACGTcount: A:0.03, C:0.02, G:0.14, T:0.80
Consensus pattern (6 bp):
TTTTGT
Found at i:22554006 original size:10 final size:11
Alignment explanation
Indices: 22553970--22554005 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
22553960 ATTTAGGAGT
*
22553970 AAAATGAGCGA
1 AAAATGAGTGA
22553981 AAAATGAGTGA
1 AAAATGAGTGA
22553992 AAAATGAGTGA
1 AAAATGAGTGA
22554003 AAA
1 AAA
22554006 TCAGAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.58, C:0.03, G:0.25, T:0.14
Consensus pattern (11 bp):
AAAATGAGTGA
Found at i:22555451 original size:46 final size:46
Alignment explanation
Indices: 22555388--22555481 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
22555378 AATAATTTCG
22555388 TGATAGTTACCTTCATAGGATATCCTTAATCTCTATGGGATGAATT
1 TGATAGTTACCTTCATAGGATATCCTTAATCTCTATGGGATGAATT
22555434 TGATAGTTACCTTCATAGGATATCCTTAATCTCTATGGGATGAATT
1 TGATAGTTACCTTCATAGGATATCCTTAATCTCTATGGGATGAATT
22555480 TG
1 TG
22555482 TTCTCCCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (46 bp):
TGATAGTTACCTTCATAGGATATCCTTAATCTCTATGGGATGAATT
Found at i:22557498 original size:59 final size:59
Alignment explanation
Indices: 22557417--22557568 Score: 164
Period size: 59 Copynumber: 2.6 Consensus size: 59
22557407 TGTTAACCTT
* ** *
22557417 AAAATCCTACATTGGACAGTTTAAGCAAAATTTAGTGA-AAAAAAAAGCT-CATTAAGCTA
1 AAAATCCTTCATTGGATGGTTTAAGCAAAAGTTAGTGAGAAAAAAAA-CTCCA-TAAGCTA
** * * * * *
22557476 AAAATCCTTCATTTTATGGTTTAAGAAAAAGTTAGTGAGAGAAAATACTCCATAAGTTG
1 AAAATCCTTCATTGGATGGTTTAAGCAAAAGTTAGTGAGAAAAAAAACTCCATAAGCTA
*
22557535 AAAATCCTTCATTGGATGGCTTAAGCAAAAGTTA
1 AAAATCCTTCATTGGATGGTTTAAGCAAAAGTTA
22557569 AAGCCGAAAG
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
59 68 0.89
60 8 0.11
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (59 bp):
AAAATCCTTCATTGGATGGTTTAAGCAAAAGTTAGTGAGAAAAAAAACTCCATAAGCTA
Found at i:22557585 original size:59 final size:57
Alignment explanation
Indices: 22557522--22557674 Score: 176
Period size: 51 Copynumber: 2.7 Consensus size: 57
22557512 GAGAGAAAAT
22557522 ACTCCA-TAAGTTGAAAATCCTTCATTGGATGGCTTAAGCAAAAGTTAAAGCCGAAAGAA
1 ACTCCATTAAGTT-AAAAT-CTTCATTGG-TGGCTTAAGCAAAAGTTAAAGCCGAAAGAA
*
22557581 ACTCCATTAAGTT-AAA--TT-ATT--TGGCTTAAGCAAAAGTTAAAGTCGAAAGAA
1 ACTCCATTAAGTTAAAATCTTCATTGGTGGCTTAAGCAAAAGTTAAAGCCGAAAGAA
* * *
22557632 ACTCCATTAAGTTAAAGTCTTTCTTTGGGTGACTTAAGCAAAA
1 ACTCCATTAAGTTAAAATC-TTCATT-GGTGGCTTAAGCAAAA
22557675 ATTTAGGGCG
Statistics
Matches: 81, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
51 42 0.52
52 2 0.02
54 3 0.04
55 4 0.05
56 2 0.02
58 3 0.04
59 19 0.23
60 6 0.07
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (57 bp):
ACTCCATTAAGTTAAAATCTTCATTGGTGGCTTAAGCAAAAGTTAAAGCCGAAAGAA
Found at i:22557628 original size:51 final size:51
Alignment explanation
Indices: 22557551--22557647 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
22557541 CTTCATTGGA
22557551 TGGCTTAAGCAAAAGTTAAAGCCGAAAGAAACTCCATTAAGTTAAATTATT
1 TGGCTTAAGCAAAAGTTAAAGCCGAAAGAAACTCCATTAAGTTAAATTATT
*
22557602 TGGCTTAAGCAAAAGTTAAAGTCGAAAGAAACTCCATTAAGTTAAA
1 TGGCTTAAGCAAAAGTTAAAGCCGAAAGAAACTCCATTAAGTTAAA
22557648 GTCTTTCTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.26
Consensus pattern (51 bp):
TGGCTTAAGCAAAAGTTAAAGCCGAAAGAAACTCCATTAAGTTAAATTATT
Found at i:22558967 original size:67 final size:67
Alignment explanation
Indices: 22558896--22559028 Score: 151
Period size: 67 Copynumber: 2.0 Consensus size: 67
22558886 GTCAAAGTTG
** * * * *
22558896 CAAAGTTCAAAACT-AGTTTTCTCTCTATGTTGAAGTTACAAAGGTTCTTCTCACCATCTTGATG
1 CAAAGTTCAAAA-TGAGTCCTCTCGCCATGTTGAAGTTACAAAAGTTCTTCACACCATCTTGATG
22558960 TTA
65 TTA
* * * * *
22558963 CAAAGTTCGAAATGGGTCCTCTCGCCATGTTGAAGTTGCAAAAGTTTTTCACACCATGTTGATGT
1 CAAAGTTCAAAATGAGTCCTCTCGCCATGTTGAAGTTACAAAAGTTCTTCACACCATCTTGATGT
22559028 T
66 T
22559029 GGAAAAAGTT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
66 1 0.02
67 53 0.98
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (67 bp):
CAAAGTTCAAAATGAGTCCTCTCGCCATGTTGAAGTTACAAAAGTTCTTCACACCATCTTGATGT
TA
Found at i:22564822 original size:19 final size:19
Alignment explanation
Indices: 22564798--22564835 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
22564788 AATAAATAAC
22564798 CAAGAAATTACCTCAGTCT
1 CAAGAAATTACCTCAGTCT
22564817 CAAGAAATTACCTCAGTCT
1 CAAGAAATTACCTCAGTCT
22564836 AGTGGTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (19 bp):
CAAGAAATTACCTCAGTCT
Found at i:22566076 original size:28 final size:28
Alignment explanation
Indices: 22566044--22566103 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
22566034 ATTATTACTA
* *
22566044 TTTATGCATGGTATGCAGTTGAAACTTG
1 TTTATACATGGTATGCAATTGAAACTTG
22566072 TTTATACATGGTATGCAATTGAAACTTG
1 TTTATACATGGTATGCAATTGAAACTTG
22566100 TTTA
1 TTTA
22566104 CTATCATCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (28 bp):
TTTATACATGGTATGCAATTGAAACTTG
Found at i:22566504 original size:45 final size:46
Alignment explanation
Indices: 22566400--22566506 Score: 114
Period size: 45 Copynumber: 2.3 Consensus size: 46
22566390 TGCAAGCCGA
*
22566400 TTGTGTATGCACAAC-TATTGGCAGCGTATTAACCTACAAGCACTCG
1 TTGTGTATCCACAACTTATTGGCAGCGTATTAACCTACAA-CACTCG
* * *
22566446 TGGTTTATCCACAACTTATATCGGCAGC-TATT-ATCTACAA-ACTCG
1 TTGTGTATCCACAACTTAT-T-GGCAGCGTATTAACCTACAACACTCG
*
22566491 TTGTGTATTCACAACT
1 TTGTGTATCCACAACT
22566507 ACTGGCAACA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
45 18 0.35
46 12 0.24
47 10 0.20
48 5 0.10
49 6 0.12
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (46 bp):
TTGTGTATCCACAACTTATTGGCAGCGTATTAACCTACAACACTCG
Found at i:22571017 original size:84 final size:82
Alignment explanation
Indices: 22570871--22571075 Score: 259
Period size: 84 Copynumber: 2.5 Consensus size: 82
22570861 AGACGAGAAG
* * * * *
22570871 GAAAGTCAAATATGAGAAAAGAAAGAGAATAACAACTATGTAAAATAGTGATCTAAAAGGGAATT
1 GAAAATCAAATATGGGAAAGGAAAGAGAATAAC-A-TATGGAAAATAGTGATATAAAAGGGAATT
*
22570936 GAATATTTTATGGAAAATA
64 GAATATTTTAGGGAAAATA
*
22570955 GAAAATCAAACATGGGAAAGGAAAGAGAATAACATATGGGGAAAATAGAT-ATATAAAAGGGAAT
1 GAAAATCAAATATGGGAAAGGAAAGAGAATAACATAT--GGAAAATAG-TGATATAAAAGGGAAT
*
22571019 TTAATATTTTAGGGAAAATA
63 TGAATATTTTAGGGAAAATA
* * *
22571039 GAAAACCAAATATGGTAAAGGAAAAAGAATAACATAT
1 GAAAATCAAATATGGGAAAGGAAAGAGAATAACATAT
22571076 ATGGAAGATC
Statistics
Matches: 106, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
82 3 0.03
83 1 0.01
84 101 0.95
85 1 0.01
ACGTcount: A:0.54, C:0.05, G:0.20, T:0.21
Consensus pattern (82 bp):
GAAAATCAAATATGGGAAAGGAAAGAGAATAACATATGGAAAATAGTGATATAAAAGGGAATTGA
ATATTTTAGGGAAAATA
Found at i:22571581 original size:9 final size:9
Alignment explanation
Indices: 22571569--22571615 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
22571559 AATATTCGGT
*
22571569 TTATTCAAA
1 TTATTCGAA
*
22571578 TTATTCGAG
1 TTATTCGAA
22571587 TTATTCGAA
1 TTATTCGAA
*
22571596 TTATTCGAG
1 TTATTCGAA
*
22571605 TTATTCAAA
1 TTATTCGAA
22571614 TT
1 TT
22571616 TGAAAACCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (9 bp):
TTATTCGAA
Found at i:22571584 original size:18 final size:18
Alignment explanation
Indices: 22571569--22571615 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
22571559 AATATTCGGT
22571569 TTATTCAAATTATTCGAG
1 TTATTCAAATTATTCGAG
*
22571587 TTATTCGAATTATTCGAG
1 TTATTCAAATTATTCGAG
22571605 TTATTCAAATT
1 TTATTCAAATT
22571616 TGAAAACCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (18 bp):
TTATTCAAATTATTCGAG
Found at i:22573515 original size:2 final size:2
Alignment explanation
Indices: 22573508--22573545 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
22573498 TTATTATTAT
22573508 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22573546 AAGAAAAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22581724 original size:44 final size:44
Alignment explanation
Indices: 22581672--22582238 Score: 315
Period size: 44 Copynumber: 12.5 Consensus size: 44
22581662 TCGTGGCAAT
* * *
22581672 TCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAGCCACAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCTACAAA
* * * * *
22581716 -CATTATCTCTCTGAAGTTGCAAT-GAAGCAGATTGAAGATAGCAAA
1 TC-TTATCTCCCTGAAGTTGCAGTAG-AGCAAATTAAAGCTA-CAAA
* *
22581761 TCTTATCTCTCTGAAGTTGCAGTAGAACAAATTAAAGCTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCTACAAA
* * * *
22581805 ACTTATCTCCCTGAAGTTGTAGTAGAGGAAATTAAAGTTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCTACAAA
* * * * * * **
22581849 TCTTATCTTCTTGAAGTTGCAGTAGAACAGATTGAAGATAGTGAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCTA-CAAA
* * * * * *
22581894 TCTAATATCCCAGAAGTTGCAGTGGAACAGATTAAAGTTGCAAGTCACAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTAAA---GC---T-ACAAA
* * * *
22581945 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTCAAGCGACAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCTACAAA
* * * ** * * *
22581989 TAC-TATAC-CTCTGAAGTTGCAAT-GGGTCGGATTAAATCTACCGTGCGAG
1 T-CTTAT-CTCCCTGAAGTTGCAGTAGAG-CAAATTAAAGCTA-----CAAA
* ** * * **
22582038 TCTTATTTCTTTGAAG-T-CAGAAGAGATTAAAGCCACAAGCTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAG--CAAA-TTA-AAGCTACAAA
* *
22582084 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA--TGACAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAAATT-AAAGCT-ACAAA
* * * * *
22582128 TCTTATTTCCCTGAAGTTGTAATAGAGCAGATTGAAGCTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCTACAAA
* * * *
22582172 TCTTATCTCCCTGAAGTTACAGTGGAGCAAATTGAAGCTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCTACAAA
*
22582216 TCTTATCTCCCTGAAGTTACAGT
1 TCTTATCTCCCTGAAGTTGCAGT
22582239 CGAGTAGATT
Statistics
Matches: 398, Mismatches: 92, Indels: 66
0.72 0.17 0.12
Matches are distributed among these distances:
43 7 0.02
44 230 0.58
45 71 0.18
46 20 0.05
47 3 0.01
48 13 0.03
49 15 0.04
50 1 0.00
51 37 0.09
52 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCTACAAA
Found at i:22581792 original size:89 final size:89
Alignment explanation
Indices: 22581667--22581877 Score: 250
Period size: 89 Copynumber: 2.4 Consensus size: 89
22581657 AGTCATCGTG
* * * * * *
22581667 GCAATTCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAGCCAC-AAACATTATCTCTCTGAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAAATTAAAGCCACAAAAC-TTATCTCCCTGAA
* *
22581731 GTTGCAAT-GAAGCAGATTGAAGATA
65 GTTGCAATAG-AGCAAATTAAAGATA
*
22581756 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAAATTAAAGCTACAAAACTTATCTCCCTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAAATTAAAGCCACAAAACTTATCTCCCTGAAG
* * * *
22581821 TTGTAGTAGAGGAAATTAAAGTTA
66 TTGCAATAGAGCAAATTAAAGATA
22581845 -CAAATCTTATCT-TCTTGAAGTTGCAGTAGAACA
1 GCAAATCTTATCTCTC-TGAAGTTGCAGTAGAACA
22581878 GATTGAAGAT
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
87 2 0.02
88 30 0.28
89 69 0.65
90 5 0.05
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (89 bp):
GCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAAATTAAAGCCACAAAACTTATCTCCCTGAAG
TTGCAATAGAGCAAATTAAAGATA
Found at i:22581911 original size:133 final size:133
Alignment explanation
Indices: 22581673--22582012 Score: 364
Period size: 133 Copynumber: 2.5 Consensus size: 133
22581663 CGTGGCAATT
*
22581673 CTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAGCCACAAACATTATCTCTCTGAAGTTGCAA
1 CTTATCTCCCTGAAGTTGTAGTAGAGCAAATTAAAGCCACAAACATTATCTCTCTGAAGTTGCAA
* * * *
22581738 TGAAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAAATTAAAGCTACA
66 TGAAGCAGATTGAAGATAGCAAATCTAATATCCCAGAAGTTGCAGTAGAACAAATTAAAGCTACA
22581803 AAA
131 AAA
* **
22581806 CTTATCTCCCTGAAGTTGTAGTAGAGGAAATTAAAGTTACAAATC-TTATCT-TCTTGAAGTTGC
1 CTTATCTCCCTGAAGTTGTAGTAGAGCAAATTAAAGCCACAAA-CATTATCTCTC-TGAAGTTGC
* ** * *
22581869 AGTAGAA-CAGATTGAAGATAGTGAATCTAATATCCCAGAAGTTGCAGTGGAACAGATTAAAGTT
64 AAT-GAAGCAGATTGAAGATAGCAAATCTAATATCCCAGAAGTTGCAGTAGAACAAATTAAA---
*
22581933 GCAAGTCACAAAT
125 GC---T-ACAAAA
* * * * * * *
22581946 CTTATCTCCCTGAAGTTGCAGTGGAGTAAATTCAAGCGACAAATACTATAC-CTCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGTAGTAGAGCAAATTAAAGCCACAAACATTAT-CTCTCTGAAGTTGCA
22582010 ATG
65 ATG
22582013 GGTCGGATTA
Statistics
Matches: 171, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
132 2 0.01
133 102 0.60
134 4 0.02
136 2 0.01
139 2 0.01
140 56 0.33
141 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (133 bp):
CTTATCTCCCTGAAGTTGTAGTAGAGCAAATTAAAGCCACAAACATTATCTCTCTGAAGTTGCAA
TGAAGCAGATTGAAGATAGCAAATCTAATATCCCAGAAGTTGCAGTAGAACAAATTAAAGCTACA
AAA
Found at i:22582215 original size:139 final size:138
Alignment explanation
Indices: 22581672--22582215 Score: 406
Period size: 139 Copynumber: 3.9 Consensus size: 138
22581662 TCGTGGCAAT
* * *
22581672 TCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAA-GCCACAAA-CATTATCTCTCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAATG--ACAAATC-TTATTTCCCTGAAGTTG
* *
22581735 CAATGAAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAAATTAAAGCT
63 CAATG-AGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAGCT
22581800 ---A-C-A-AAA
127 ACAAGCTACAAA
* * * * *
22581806 -CTTATCTCCCTGAAGTTGTAGTAGAGGAAATTAAAGTTACAAATCTTATCTT-CTTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAA-TGACAAATCTTAT-TTCCCTGAAGTTGC
* * ** * * * * * *
22581869 AGTAGAACAGATTGAAGATAGTGAATCTAATATCCCAGAAGTTGCAGTGGAACAGATTAAAGTTG
64 AAT-GAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTA
22581934 CAAG-TCACAAA
128 CAAGCT-ACAAA
* ** *
22581945 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTCAAGCGACAAATAC-TA-TACCTCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATT-AAATGACAAAT-CTTATTTCC-CTGAAGTTG
* * * ** * * * ** * *
22582008 CAATGGGTCGGATTAAATCTACCGTGCGAGTCTTATTTCTTTGAAG-T-CA---GAAGAGATTAA
63 CAATGAG-CAGATTGAAGATA----GCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAA
*
22582068 AGCCACAAGCTACAAA
123 AGCTACAAGCTACAAA
* *
22582084 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATGACAAATCTTATTTCCCTGAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATT-AAATGACAAATCTTATTTCCCTGAAGTTGCA
* * * *
22582149 ATAGAGCAGATTGAAGCTA-CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTGAAGCTAC
65 AT-GAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTAC
22582213 AAG
129 AAG
22582216 TCTTATCTCC
Statistics
Matches: 315, Mismatches: 64, Indels: 57
0.72 0.15 0.13
Matches are distributed among these distances:
133 102 0.32
134 18 0.06
135 1 0.00
136 3 0.01
138 3 0.01
139 105 0.33
140 63 0.20
141 3 0.01
142 2 0.01
143 1 0.00
144 14 0.04
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (138 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAATGACAAATCTTATTTCCCTGAAGTTGCAA
TGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAA
GCTACAAA
Found at i:22582250 original size:44 final size:44
Alignment explanation
Indices: 22582074--22582257 Score: 244
Period size: 44 Copynumber: 4.2 Consensus size: 44
22582064 TTAAAGCCAC
*
22582074 AAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG
1 AAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTG
* * ** * *
22582118 AA-ATGACAAATCTTATTTCCCTGAAGTTGTAATAGAGCAGATTG
1 AAGCT-ACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTG
*
22582162 AAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTG
1 AAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTG
* * *
22582206 AAGCTACAAGTCTTATCTCCCTGAAGTTACAGTCGAGTAGATTG
1 AAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTG
*
22582250 AAACTACA
1 AAGCTACA
22582258 CCTCCTGTAC
Statistics
Matches: 121, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
43 1 0.01
44 119 0.98
45 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (44 bp):
AAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTG
Found at i:22582900 original size:2 final size:2
Alignment explanation
Indices: 22582895--22582926 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
22582885 TTTAATCCAT
*
22582895 TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22582927 ACTCACCTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22583898 original size:4 final size:3
Alignment explanation
Indices: 22583861--22583910 Score: 64
Period size: 3 Copynumber: 16.0 Consensus size: 3
22583851 TATTTTTCGA
* *
22583861 ATT ATT CTT ATT ATT ATT ATC ATT ATT ATT ATTT ATTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT
22583908 ATT
1 ATT
22583911 TAATTAGTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 35 0.83
4 7 0.17
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:22583904 original size:17 final size:17
Alignment explanation
Indices: 22583862--22583922 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
22583852 ATTTTTCGAA
*
22583862 TTATTCTTATTA-TTAT
1 TTATTATTATTATTTAT
22583878 TATCATTATTATTATTTAT
1 T-T-ATTATTATTATTTAT
*
22583897 TTATTATTATTATTTAA
1 TTATTATTATTATTTAT
*
22583914 TTAGTATTA
1 TTATTATTA
22583923 GAATTAGTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
16 1 0.03
17 23 0.59
18 10 0.26
19 5 0.13
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (17 bp):
TTATTATTATTATTTAT
Found at i:22584833 original size:9 final size:9
Alignment explanation
Indices: 22584819--22584855 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22584809 TATAGTTTGA
22584819 TATTCGAAT
1 TATTCGAAT
22584828 TATTCGAAT
1 TATTCGAAT
*
22584837 TATTCGAGT
1 TATTCGAAT
22584846 TATTCGAAT
1 TATTCGAAT
22584855 T
1 T
22584856 CGAAAACTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:22588096 original size:22 final size:22
Alignment explanation
Indices: 22588066--22588108 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
22588056 ACACCAAAAC
*
22588066 AGGCTTTTAGCGGCGTTTTTTT
1 AGGCCTTTAGCGGCGTTTTTTT
22588088 AGGCCTTTAGCGGCGTTTTTT
1 AGGCCTTTAGCGGCGTTTTTT
22588109 AGCGCTACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.16, G:0.28, T:0.47
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGTTTTTTT
Found at i:22588209 original size:43 final size:43
Alignment explanation
Indices: 22588161--22588380 Score: 334
Period size: 43 Copynumber: 5.1 Consensus size: 43
22588151 AATGACAGCA
22588161 CCGCTAAAGACCAAGACCTTTAGCGGCGCTATTCCCACAAACG
1 CCGCTAAAGACCAAGACCTTTAGCGGCGCTATTCCCACAAACG
* *
22588204 CCGCTAAAGACCAAGACCTTTAGCGGCGCTATTCCCACGAACA
1 CCGCTAAAGACCAAGACCTTTAGCGGCGCTATTCCCACAAACG
* *
22588247 CCGCTAAAGACCAAGATCTTTAGCAGCGCT-TTCCCACAAACG
1 CCGCTAAAGACCAAGACCTTTAGCGGCGCTATTCCCACAAACG
* * *
22588289 CCGCTAAAGACCAAAATCTTTAGCGGCGCTATTCCCACAAATG
1 CCGCTAAAGACCAAGACCTTTAGCGGCGCTATTCCCACAAACG
* * * *
22588332 CCACTAAAGACCATGACCTTTAGCGGCGCTTTTCACACAAACG
1 CCGCTAAAGACCAAGACCTTTAGCGGCGCTATTCCCACAAACG
22588375 CCGCTA
1 CCGCTA
22588381 TAGAATAGAT
Statistics
Matches: 159, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 38 0.24
43 121 0.76
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (43 bp):
CCGCTAAAGACCAAGACCTTTAGCGGCGCTATTCCCACAAACG
Found at i:22588310 original size:85 final size:85
Alignment explanation
Indices: 22588159--22588380 Score: 336
Period size: 85 Copynumber: 2.6 Consensus size: 85
22588149 CTAATGACAG
*
22588159 CACCGCTAAAGACCAAGACCTTTAGCGGCGCTATTCCCACAAACGCCGCTAAAGACCAAGACCTT
1 CACCGCTAAAGACCAAGACCTTTAGCGGCGCT-TTCCCACAAACGCCGCTAAAGACCAAAACCTT
*
22588224 TAGCGGCGCTATTCCCACGAA
65 TAGCGGCGCTATTCCCACAAA
* * *
22588245 CACCGCTAAAGACCAAGATCTTTAGCAGCGCTTTCCCACAAACGCCGCTAAAGACCAAAATCTTT
1 CACCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGACCAAAACCTTT
22588310 AGCGGCGCTATTCCCACAAA
66 AGCGGCGCTATTCCCACAAA
** * * *
22588330 TGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTA
1 CACCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTCCCACAAACGCCGCTA
22588381 TAGAATAGAT
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
85 75 0.61
86 48 0.39
ACGTcount: A:0.31, C:0.34, G:0.17, T:0.18
Consensus pattern (85 bp):
CACCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGACCAAAACCTTT
AGCGGCGCTATTCCCACAAA
Found at i:22588321 original size:128 final size:127
Alignment explanation
Indices: 22588161--22588397 Score: 359
Period size: 128 Copynumber: 1.9 Consensus size: 127
22588151 AATGACAGCA
* *
22588161 CCGCTAAAGACCAAGACCTTTAGCGGCGCTATTCCCACAAACGCCGCTAAAGACCAAGACCTTTA
1 CCGCTAAAGACCAAAACCTTTAGCGGCGCTATTCCCACAAACGCCACTAAAGACCAAGACCTTTA
* *
22588226 GCGGCGCTATTCCCACGAACACCGCTAAAGACCA-AGATCTTTAGCAGCGCTTTCCCACAAACG
66 GCGGCGCTATTCACACAAACACCGCTAAAGA--ATAGATCTTTAGCAGCGCTTTCCCACAAACG
* * *
22588289 CCGCTAAAGACCAAAATCTTTAGCGGCGCTATTCCCACAAATGCCACTAAAGACCATGACCTTTA
1 CCGCTAAAGACCAAAACCTTTAGCGGCGCTATTCCCACAAACGCCACTAAAGACCAAGACCTTTA
* * *
22588354 GCGGCGCTTTTCACACAAACGCCGCTATAGAATAGATCTTTAGC
66 GCGGCGCTATTCACACAAACACCGCTAAAGAATAGATCTTTAGC
22588398 GGTGCTTTTT
Statistics
Matches: 98, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
126 1 0.01
127 11 0.11
128 86 0.88
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (127 bp):
CCGCTAAAGACCAAAACCTTTAGCGGCGCTATTCCCACAAACGCCACTAAAGACCAAGACCTTTA
GCGGCGCTATTCACACAAACACCGCTAAAGAATAGATCTTTAGCAGCGCTTTCCCACAAACG
Found at i:22589615 original size:5 final size:5
Alignment explanation
Indices: 22589605--22589632 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
22589595 TCTCTCTATC
22589605 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
22589633 TAATTCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:22590282 original size:10 final size:10
Alignment explanation
Indices: 22590267--22590297 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
22590257 CTAATAATGT
22590267 AAGTTAAGCA
1 AAGTTAAGCA
22590277 AAGTTAAGCA
1 AAGTTAAGCA
*
22590287 AAGTCAAGCA
1 AAGTTAAGCA
22590297 A
1 A
22590298 GTCCACCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (10 bp):
AAGTTAAGCA
Found at i:22592892 original size:77 final size:78
Alignment explanation
Indices: 22592828--22592976 Score: 216
Period size: 75 Copynumber: 1.9 Consensus size: 78
22592818 TTTTTTTTGC
* *
22592828 GGCG-TTTTTATGAAAACGTCGCTAAATGTTTTGCTATATAAAAT-GC-CTA-TTTTTAAAGTAA
1 GGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCGCTATTTTTTAAAGTAA
22592889 AATTATTTTTTAT
66 AATTATTTTTTAT
* * *
22592902 GGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGTTATATGAAATGGCGTTATTTTTTTAAAGTA
1 GGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCGCTA-TTTTTTAAAGTA
22592967 AAATTATTTT
65 AAATTATTTT
22592977 ACTATCAAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
74 4 0.06
75 36 0.55
76 2 0.03
77 2 0.03
79 21 0.32
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.45
Consensus pattern (78 bp):
GGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCGCTATTTTTTAAAGTAA
AATTATTTTTTAT
Found at i:22593792 original size:14 final size:14
Alignment explanation
Indices: 22593775--22593865 Score: 103
Period size: 14 Copynumber: 6.5 Consensus size: 14
22593765 ACTAATTAAT
*
22593775 CTAACCCTTAATCC
1 CTAACCCTTAACCC
*
22593789 CTAACCCCTAACCC
1 CTAACCCTTAACCC
*
22593803 CTAA-CCTTAAATCC
1 CTAACCCTT-AACCC
* * *
22593817 CTAACTCTTAATCT
1 CTAACCCTTAACCC
22593831 CTAACCCTTAACCC
1 CTAACCCTTAACCC
*
22593845 CTAACCCCTAACCC
1 CTAACCCTTAACCC
22593859 CTAACCC
1 CTAACCC
22593866 ATAAACCTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
13 3 0.05
14 59 0.91
15 3 0.05
ACGTcount: A:0.30, C:0.46, G:0.00, T:0.24
Consensus pattern (14 bp):
CTAACCCTTAACCC
Found at i:22593795 original size:82 final size:81
Alignment explanation
Indices: 22593633--22593795 Score: 227
Period size: 82 Copynumber: 2.0 Consensus size: 81
22593623 ACTAGCTCTT
*
22593633 AACCCCAAACCCCAAACCACTAACCTTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAA
1 AACCCCAAACCCCAAACCACTAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAA
*
22593698 TCATAAACCCTAACCC
66 CCATAAACCCTAACCC
* * * * *
22593714 AACCCCAAATCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTAATCTAA
1 AACCCCAAACCCCAAACCACT-AACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAA
* * *
22593779 CCCTTAATCCCTAACCC
65 ACCATAAACCCTAACCC
22593796 CTAACCCCTA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
81 18 0.25
82 53 0.75
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (81 bp):
AACCCCAAACCCCAAACCACTAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAA
CCATAAACCCTAACCC
Found at i:22593799 original size:7 final size:7
Alignment explanation
Indices: 22593775--22593865 Score: 85
Period size: 7 Copynumber: 13.0 Consensus size: 7
22593765 ACTAATTAAT
22593775 CTAACCC
1 CTAACCC
* *
22593782 TTAATCC
1 CTAACCC
22593789 CTAACCC
1 CTAACCC
22593796 CTAACCC
1 CTAACCC
22593803 CTAA-CC
1 CTAACCC
* *
22593809 TTAAATCC
1 CT-AACCC
*
22593817 CTAACTC
1 CTAACCC
* * *
22593824 TTAATCT
1 CTAACCC
22593831 CTAACCC
1 CTAACCC
*
22593838 TTAACCC
1 CTAACCC
22593845 CTAACCC
1 CTAACCC
22593852 CTAACCC
1 CTAACCC
22593859 CTAACCC
1 CTAACCC
22593866 ATAAACCTTA
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
6 3 0.05
7 59 0.91
8 3 0.05
ACGTcount: A:0.30, C:0.46, G:0.00, T:0.24
Consensus pattern (7 bp):
CTAACCC
Found at i:22593807 original size:28 final size:28
Alignment explanation
Indices: 22593775--22593865 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
22593765 ACTAATTAAT
22593775 CTAACCCTTAATCCCTAACCCCTAACCC
1 CTAACCCTTAATCCCTAACCCCTAACCC
* * * *
22593803 CTAA-CCTTAAATCCCTAACTCTTAATCT
1 CTAACCCTT-AATCCCTAACCCCTAACCC
*
22593831 CTAACCCTTAACCCCTAACCCCTAACCC
1 CTAACCCTTAATCCCTAACCCCTAACCC
22593859 CTAACCC
1 CTAACCC
22593866 ATAAACCTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
27 4 0.08
28 44 0.85
29 4 0.08
ACGTcount: A:0.30, C:0.46, G:0.00, T:0.24
Consensus pattern (28 bp):
CTAACCCTTAATCCCTAACCCCTAACCC
Found at i:22593861 original size:42 final size:42
Alignment explanation
Indices: 22593775--22593865 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
22593765 ACTAATTAAT
* *
22593775 CTAACCCTTAATCCCTAACCCCTAACCCCTAACCTTAAATCC
1 CTAACCCTTAATCCCTAACCCCTAACCCCTAACCCTAAACCC
* * *
22593817 CTAACTCTTAATCTCTAACCCTTAACCCCTAACCCCT-AACCC
1 CTAACCCTTAATCCCTAACCCCTAACCCCTAA-CCCTAAACCC
22593859 CTAACCC
1 CTAACCC
22593866 ATAAACCTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.30, C:0.46, G:0.00, T:0.24
Consensus pattern (42 bp):
CTAACCCTTAATCCCTAACCCCTAACCCCTAACCCTAAACCC
Found at i:22594364 original size:41 final size:41
Alignment explanation
Indices: 22594306--22594391 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
22594296 AAATGTTTTT
*
22594306 GCGGCGCTTTTTAAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGACCTGAGCATTA
* *
22594347 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGACCTGAGCATTA
22594388 GCGG
1 GCGG
22594392 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTTAAAAAACGCCGCTAAAGACCTGAGCATTA
Found at i:22598656 original size:17 final size:17
Alignment explanation
Indices: 22598636--22598674 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
22598626 TAACACAAAT
*
22598636 ATATAATTAAA-AATAAC
1 ATATAA-TAAATAATAAA
22598653 ATATAATAAATAATAAA
1 ATATAATAAATAATAAA
22598670 ATATA
1 ATATA
22598675 TTGTTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
ATATAATAAATAATAAA
Found at i:22598665 original size:24 final size:22
Alignment explanation
Indices: 22598625--22598670 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
22598615 TTATATATTT
*
22598625 ATAACACAAATATATAATTAAAA
1 ATAACACAAATAAATAA-TAAAA
*
22598648 ATAACATATAATAAATAATAAAA
1 ATAACACA-AATAAATAATAAAA
22598671 TATATTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAACACAAATAAATAATAAAA
Found at i:22599342 original size:2 final size:2
Alignment explanation
Indices: 22599335--22599385 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
22599325 ATCAGTTTTA
*
22599335 AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22599377 AT AT AT AT A
1 AT AT AT AT A
22599386 ACTTGACAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:22606065 original size:36 final size:34
Alignment explanation
Indices: 22605998--22606065 Score: 109
Period size: 36 Copynumber: 1.9 Consensus size: 34
22605988 GTCTCCTGCT
*
22605998 GGTTAGGGTTTTGGGTTTTTAGTTTAGGGTTTAG
1 GGTTAGAGTTTTGGGTTTTTAGTTTAGGGTTTAG
22606032 GGTTAGAGTTTTGGGGTTTTTAAGTTTAGGGTTT
1 GGTTAGAGTTTT-GGGTTTTT-AGTTTAGGGTTT
22606066 TAAAGAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 11 0.35
35 8 0.26
36 12 0.39
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (34 bp):
GGTTAGAGTTTTGGGTTTTTAGTTTAGGGTTTAG
Found at i:22606642 original size:125 final size:126
Alignment explanation
Indices: 22606270--22606683 Score: 677
Period size: 126 Copynumber: 3.3 Consensus size: 126
22606260 TTTAAAAAAA
*
22606270 CTCCCACGTGGACGCTCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTTCTG
1 CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTTCTG
22606335 AGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
66 AGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
* * * *
22606396 TTCCCACGTGGACGCTCTTTTGCTACAGTAGCACCTGAAAAAATAATTTCGAGAAGAAGTTTCTG
1 CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTTCTG
*
22606461 AGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTATTGAAAGAAG
66 AGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
* * * *
22606522 CTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCTTG-AAAAATAATTTCGAGTAGACGTTTCTA
1 CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTTCTG
* * * *
22606586 AGCAAATAGTTTCAAAAACACCTTAAGCAAGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
66 AGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
* *
22606647 CTCCCACGTGGATGGGCTTTTGCTACAGTAGCTCCTG
1 CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG
22606684 TTTGGCCTGA
Statistics
Matches: 267, Mismatches: 21, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
125 113 0.42
126 154 0.58
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (126 bp):
CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTTCTG
AGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
Found at i:22609744 original size:13 final size:13
Alignment explanation
Indices: 22609726--22609751 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22609716 AATATTCAAA
22609726 AGATAATCTATTT
1 AGATAATCTATTT
22609739 AGATAATCTATTT
1 AGATAATCTATTT
22609752 TATTAAAAAT
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:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
AGATAATCTATTT
Found at i:22611048 original size:7 final size:7
Alignment explanation
Indices: 22611038--22611070 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
22611028 TATAATACAT
22611038 AATACTA
1 AATACTA
22611045 AATACTA
1 AATACTA
*
22611052 AACACTA
1 AATACTA
22611059 AATACTA
1 AATACTA
22611066 AATAC
1 AATAC
22611071 CAATCGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (7 bp):
AATACTA
Found at i:22612301 original size:22 final size:23
Alignment explanation
Indices: 22612276--22612323 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
22612266 GCTTTTTTTA
22612276 AGAGGAAT-TT-GAGAAGAATTTG
1 AGAGGAATATTGGAGAA-AATTTG
22612298 AGA-GAATATTGGAGAAAATTTG
1 AGAGGAATATTGGAGAAAATTTG
22612320 AGAG
1 AGAG
22612324 AAAGGATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 4 0.17
22 14 0.61
23 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (23 bp):
AGAGGAATATTGGAGAAAATTTG
Found at i:22612312 original size:10 final size:10
Alignment explanation
Indices: 22612280--22612325 Score: 56
Period size: 11 Copynumber: 4.3 Consensus size: 10
22612270 TTTTTAAGAG
22612280 GAATTTGAGAA
1 GAATTTGAG-A
22612291 GAATTTGAGA
1 GAATTTGAGA
22612301 GAATATTGGAGA
1 GAAT-TT-GAGA
*
22612313 AAATTTGAGA
1 GAATTTGAGA
22612323 GAA
1 GAA
22612326 AGGATTTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 11 0.35
11 13 0.42
12 7 0.23
ACGTcount: A:0.46, C:0.00, G:0.28, T:0.26
Consensus pattern (10 bp):
GAATTTGAGA
Found at i:22618375 original size:25 final size:24
Alignment explanation
Indices: 22618347--22618395 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
22618337 AAATAAAACT
22618347 TTTATTTTTATATATAATT-TATTTA
1 TTTA-TTTTA-ATATAATTGTATTTA
*
22618372 TTTATTTTAATTTAATTGTATTTA
1 TTTATTTTAATATAATTGTATTTA
22618396 AAAAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 11 0.50
25 4 0.18
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTATTTTAATATAATTGTATTTA
Found at i:22619595 original size:32 final size:31
Alignment explanation
Indices: 22619525--22619596 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
22619515 TGGCGAGGAT
*
22619525 GGCTTAATTGATTTTTTTATTATTTCACAAT
1 GGCTTAATTGATTTTTTTATTATTTCACAAG
** * *
22619556 GATTTAATTGATTTTTTTAGTTATTTTACGAG
1 GGCTTAATTGATTTTTTTA-TTATTTCACAAG
22619588 GGCTTAATT
1 GGCTTAATT
22619597 TATTATTTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 17 0.52
32 16 0.48
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.54
Consensus pattern (31 bp):
GGCTTAATTGATTTTTTTATTATTTCACAAG
Found at i:22621981 original size:56 final size:57
Alignment explanation
Indices: 22621890--22621998 Score: 132
Period size: 56 Copynumber: 1.9 Consensus size: 57
22621880 CGTGTGTCCT
** * *
22621890 CTATTTTTCAGATTATATAGTTTTGCCCAT-GTTTTTCATATTTTACAATTTTACCC
1 CTATTTTTCAGATTATATAAATTTGCCCATATTTTTTCAAATTTTACAATTTTACCC
* * *
22621946 CTATTTTTTAGATTTTATAAATTTGTCCC-TATTTTTTCAAATTTTATAATTTT
1 CTATTTTTCAGATTATATAAATTTG-CCCATATTTTTTCAAATTTTACAATTTT
22621999 TCCCTGCTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
56 22 0.50
57 22 0.50
ACGTcount: A:0.25, C:0.14, G:0.06, T:0.56
Consensus pattern (57 bp):
CTATTTTTCAGATTATATAAATTTGCCCATATTTTTTCAAATTTTACAATTTTACCC
Found at i:22622002 original size:28 final size:28
Alignment explanation
Indices: 22621893--22622003 Score: 109
Period size: 28 Copynumber: 3.9 Consensus size: 28
22621883 GTGTCCTCTA
* * *
22621893 TTTTTCAGATTATATAGTTTTGCCC-AT
1 TTTTTCAGATTTTATAATTTTTCCCTAT
* * *
22621920 GTTTTTCATATTTTACAATTTTACCCCTAT
1 -TTTTTCAGATTTTATAATTTT-TCCCTAT
*
22621950 TTTTT-AGATTTTATAAATTTGTCCCTAT
1 TTTTTCAGATTTTAT-AATTTTTCCCTAT
*
22621978 TTTTTCAAATTTTATAATTTTTCCCT
1 TTTTTCAGATTTTATAATTTTTCCCT
22622004 GCTTTATAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
28 45 0.66
29 21 0.31
30 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.56
Consensus pattern (28 bp):
TTTTTCAGATTTTATAATTTTTCCCTAT
Found at i:22622319 original size:34 final size:34
Alignment explanation
Indices: 22622281--22622354 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
22622271 AACATGACTT
22622281 TTGCTACT-AAGTTGAACTGTTATAAGCATATTAA
1 TTGCTACTGAA-TTGAACTGTTATAAGCATATTAA
* * * *
22622315 TTGCTATTGTATTGAATTGTTATAAGCATATTGA
1 TTGCTACTGAATTGAACTGTTATAAGCATATTAA
22622349 TTGCTA
1 TTGCTA
22622355 TCGTATTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (34 bp):
TTGCTACTGAATTGAACTGTTATAAGCATATTAA
Found at i:22622355 original size:34 final size:34
Alignment explanation
Indices: 22622292--22622362 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
22622282 TGCTACTAAG
*
22622292 TTGAACTGTTATAAGCATATTAATTGCTATTGTA
1 TTGAACTGTTATAAGCATATTAATTGCTATCGTA
* *
22622326 TTGAATTGTTATAAGCATATTGATTGCTATCGTA
1 TTGAACTGTTATAAGCATATTAATTGCTATCGTA
22622360 TTG
1 TTG
22622363 TTATAGTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (34 bp):
TTGAACTGTTATAAGCATATTAATTGCTATCGTA
Found at i:22628799 original size:26 final size:26
Alignment explanation
Indices: 22628770--22628824 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
22628760 CATTAGGGCA
22628770 TAGTAGGCTTTGTGCCGGTGTATATT
1 TAGTAGGCTTTGTGCCGGTGTATATT
*
22628796 TAGTAGGCTTTGTGTCGGTGTATATT
1 TAGTAGGCTTTGTGCCGGTGTATATT
22628822 TAG
1 TAG
22628825 CAAGTTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.16, C:0.09, G:0.31, T:0.44
Consensus pattern (26 bp):
TAGTAGGCTTTGTGCCGGTGTATATT
Found at i:22629291 original size:38 final size:38
Alignment explanation
Indices: 22629249--22629321 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
22629239 GTCTAAGCTA
22629249 TTTTGTTTTACAAACTTACTAAGCTTTATGTAAGCCTT
1 TTTTGTTTTACAAACTTACTAAGCTTTATGTAAGCCTT
22629287 TTTTGTTTTACAAACTTACTAAGCTTTATGTAAGC
1 TTTTGTTTTACAAACTTACTAAGCTTTATGTAAGC
22629322 TTACTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (38 bp):
TTTTGTTTTACAAACTTACTAAGCTTTATGTAAGCCTT
Found at i:22636266 original size:18 final size:18
Alignment explanation
Indices: 22636239--22636273 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22636229 CCCAAGTCAA
22636239 AATAAGCAGTTAAAAAAT
1 AATAAGCAGTTAAAAAAT
*
22636257 AATAATCAGTTAAAAAA
1 AATAAGCAGTTAAAAAA
22636274 AATCTAAGTA
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:0.63, C:0.06, G:0.09, T:0.23
Consensus pattern (18 bp):
AATAAGCAGTTAAAAAAT
Done.