Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 148 of 208
Found at i:48162301 original size:20 final size:21
Alignment explanation
Indices: 48162268--48162309 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
48162258 TAGCTTGTTG
48162268 AGCTCAATTGAGCTCATTTCC
1 AGCTCAATTGAGCTCATTTCC
*
48162289 AGCTCAA-TGAGCTCGTTTCC
1 AGCTCAATTGAGCTCATTTCC
48162309 A
1 A
48162310 TCTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (21 bp):
AGCTCAATTGAGCTCATTTCC
Found at i:48177066 original size:13 final size:13
Alignment explanation
Indices: 48177048--48177072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48177038 AAAATTTGAT
48177048 TTGATTATGTAAA
1 TTGATTATGTAAA
48177061 TTGATTATGTAA
1 TTGATTATGTAA
48177073 TCTTATAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:48181547 original size:28 final size:28
Alignment explanation
Indices: 48181507--48181564 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
48181497 AATCATACAT
48181507 CAACAACATCAAAAGAGAGGAAAAACAC
1 CAACAACATCAAAAGAGAGGAAAAACAC
48181535 CAACAACATCAAAAGAGAGGAAAAACAC
1 CAACAACATCAAAAGAGAGGAAAAACAC
48181563 CA
1 CA
48181565 GCTGGAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.60, C:0.22, G:0.14, T:0.03
Consensus pattern (28 bp):
CAACAACATCAAAAGAGAGGAAAAACAC
Found at i:48183154 original size:6 final size:6
Alignment explanation
Indices: 48183113--48183152 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
48183103 CAGTATTCTT
*
48183113 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTCC TTTT
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTT
48183153 CCCCCTCTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.17, G:0.12, T:0.70
Consensus pattern (6 bp):
TTTTGC
Found at i:48183860 original size:28 final size:29
Alignment explanation
Indices: 48183819--48183874 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
48183809 AGCAAAGAAA
48183819 TAAAAGATTATT-AAATCT-TAAAAAAAAC
1 TAAAAGATTATTAAAAT-TATAAAAAAAAC
48183847 TAAAACGATT-TTAAAATTATAAAAAAAA
1 TAAAA-GATTATTAAAATTATAAAAAAAA
48183875 ACAAGTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (29 bp):
TAAAAGATTATTAAAATTATAAAAAAAAC
Found at i:48184407 original size:6 final size:6
Alignment explanation
Indices: 48184396--48184422 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
48184386 TTTGTTCTTA
48184396 TTAATT TTAATT TTAATT TTAATT TTA
1 TTAATT TTAATT TTAATT TTAATT TTA
48184423 TAAAAATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTAATT
Found at i:48184890 original size:30 final size:30
Alignment explanation
Indices: 48184850--48184929 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 30
48184840 TTTAAATTAA
*
48184850 ATAAAAAATTTATTTAATTACATATTAT-TT
1 ATAAATAATTTATTTAATTA-ATATTATGTT
* *
48184880 ATAAATAATTTTTTTAAGTTAATTTTATGTT
1 ATAAATAATTTATTTAA-TTAATATTATGTT
*
48184911 -TAAAATAA-ATATTTAATTA
1 AT-AAATAATTTATTTAATTA
48184930 GATAAATATG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
29 3 0.07
30 28 0.67
31 11 0.26
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (30 bp):
ATAAATAATTTATTTAATTAATATTATGTT
Found at i:48185383 original size:23 final size:23
Alignment explanation
Indices: 48185357--48185400 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
48185347 ATTTTAACCT
48185357 ATTATAAAAATATGAATATTTTA
1 ATTATAAAAATATGAATATTTTA
* *
48185380 ATTATATAAATATGAGTATTT
1 ATTATAAAAATATGAATATTT
48185401 GTTTAAATAA
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:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (23 bp):
ATTATAAAAATATGAATATTTTA
Found at i:48187561 original size:39 final size:39
Alignment explanation
Indices: 48187518--48187595 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
48187508 TGAAGAAGAC
48187518 AATCGAGGTACGGCTAAAAGACTAAACAAAGCAACCAAT
1 AATCGAGGTACGGCTAAAAGACTAAACAAAGCAACCAAT
*
48187557 AATCGAGGTGCGGCTAAAAGACTAAACAAAGCAACCAAT
1 AATCGAGGTACGGCTAAAAGACTAAACAAAGCAACCAAT
48187596 CCTAACTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (39 bp):
AATCGAGGTACGGCTAAAAGACTAAACAAAGCAACCAAT
Found at i:48192170 original size:35 final size:34
Alignment explanation
Indices: 48192131--48192255 Score: 160
Period size: 35 Copynumber: 3.6 Consensus size: 34
48192121 CACATGGTTA
* *
48192131 ACCATCCAACACACCAGATACTCATAAGAGTCAGT
1 ACCATCCAGCACACCAGTTACTCATAAGAG-CAGT
*
48192166 ACCATCCAGCACACCAGTTACTCATAAAAGCTAGT
1 ACCATCCAGCACACCAGTTACTCATAAGAGC-AGT
** * *
48192201 ACCATTTAGCACACCAGTTGCTCATACGAGCCAGT
1 ACCATCCAGCACACCAGTTACTCATAAGAG-CAGT
48192236 ACCATCCAGCACACCAGTTA
1 ACCATCCAGCACACCAGTTA
48192256 ACACTGTAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
34 1 0.01
35 75 0.97
36 1 0.01
ACGTcount: A:0.35, C:0.33, G:0.13, T:0.19
Consensus pattern (34 bp):
ACCATCCAGCACACCAGTTACTCATAAGAGCAGT
Found at i:48194575 original size:25 final size:24
Alignment explanation
Indices: 48194547--48194593 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
48194537 ATAAAAATTG
48194547 TAATACAAAATTAATTAAAAAAACT
1 TAATACAAAATTAA-TAAAAAAACT
**
48194572 TAATACAATTTTAATAAAAAAA
1 TAATACAAAATTAATAAAAAAA
48194594 TGAGAGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
TAATACAAAATTAATAAAAAAACT
Found at i:48194622 original size:11 final size:11
Alignment explanation
Indices: 48194606--48194661 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
48194596 AGAGTGAACT
48194606 GAGAGAATTGA
1 GAGAGAATTGA
* *
48194617 GTGAGAATTAA
1 GAGAGAATTGA
*
48194628 GAGAGGATTGA
1 GAGAGAATTGA
48194639 GA-ATGAATTGA
1 GAGA-GAATTGA
* *
48194650 GAAAGAGTTGA
1 GAGAGAATTGA
48194661 G
1 G
48194662 TGAATTGAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
10 1 0.03
11 34 0.94
12 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.36, T:0.21
Consensus pattern (11 bp):
GAGAGAATTGA
Found at i:48199380 original size:115 final size:115
Alignment explanation
Indices: 48199173--48199414 Score: 387
Period size: 115 Copynumber: 2.1 Consensus size: 115
48199163 TAAGTTTGTG
* *
48199173 AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATAATTAA
** *
48199238 TTGTTGTACCAGTCAAAACATTTTTCCAAATCTAAAATTATGTGAATGTA
66 TTGTTGTACCAGGAAAAACATTTTTCCAAATCTAAAATTATGTGAAAGTA
*
48199288 AAATCATTAATTGATAAATTGTATTAATGATTAGT-AAAATTATCAAATTATATAAAATAATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATAATTAA
* * *
48199352 TTGTTAGTACTAGGAAAAATATTTTTCCAAATCTAACATTATGTGAAAGTA
66 TTGTT-GTACCAGGAAAAACATTTTTCCAAATCTAAAATTATGTGAAAGTA
48199403 AAATTATTAATT
1 AAATTATTAATT
48199415 TAGTTTAGGG
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
114 33 0.28
115 83 0.72
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (115 bp):
AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATAATTAA
TTGTTGTACCAGGAAAAACATTTTTCCAAATCTAAAATTATGTGAAAGTA
Found at i:48199536 original size:23 final size:23
Alignment explanation
Indices: 48199419--48200668 Score: 938
Period size: 23 Copynumber: 55.8 Consensus size: 23
48199409 TTAATTTAGT
* *
48199419 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
* * *
48199442 CTAAGGTTTTTAAGTT-AA-GGG
1 TTAGGGTTTTTAAGTTAAATAGG
** *
48199463 TTAGGGTTTTTAAGTTAAGGA-T
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48199485 TTAGTGTTTTTAAGTT-AA-GGG
1 TTAGGGTTTTTAAGTTAAATAGG
* **
48199506 TTAAGGTTTTTAAGTTAAAGGGG
1 TTAGGGTTTTTAAGTTAAATAGG
*
48199529 TTAGGGTTTTTAAGTT-AA-GGG
1 TTAGGGTTTTTAAGTTAAATAGG
*
48199550 TTAGGGTTTATAAGTT---TAGGG
1 TTAGGGTTTTTAAGTTAAATA-GG
* *
48199571 TTTATGGTTTTTAA-TTAAATTAGA
1 -TTAGGGTTTTTAAGTTAAA-TAGG
*
48199595 TTAGGG-TTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48199617 TTAGGGTTTTTAACTT-AAGAGG
1 TTAGGGTTTTTAAGTTAAATAGG
*
48199639 TTAGGGTTTTTAAGTT-AA-GGG
1 TTAGGGTTTTTAAGTTAAATAGG
* **
48199660 TTAAGGTTTTTAAG-T-AACGGG
1 TTAGGGTTTTTAAGTTAAATAGG
48199681 TTAGGGTTTTTAAGTT---TAGGG
1 TTAGGGTTTTTAAGTTAAATA-GG
***
48199702 CTTAAAATTTTTAA-TTAAATTAGG
1 -TTAGGGTTTTTAAGTTAAA-TAGG
*
48199726 TTAGGGTTTTTAAGTT-AA-GGG
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48199747 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48199770 TTAAGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
***
48199793 TTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAAATAGG
* * *
48199816 TTAGTGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
*
48199839 TTGGGGTTTTTAAGTT-AA-AGG
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48199860 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
*
48199883 TTAGGGTTTTTAAGTT-AA-GGG
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48199904 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48199927 TTAGGGTTTTTAAGCTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
*
48199950 TTAGGGTTTTTAAGTT-AA-GGG
1 TTAGGGTTTTTAAGTTAAATAGG
* * *
48199971 TTAGAGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48199994 TTAGGGTTTTTAAGCTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48200017 TTAGGATTTTTAAGTT-AA-GGG
1 TTAGGGTTTTTAAGTTAAATAGG
* * *
48200038 TTAGAGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
*
48200061 TTAGGGTTTTTTAGTT---TAGGG
1 TTAGGGTTTTTAAGTTAAATA-GG
* *
48200082 TTTAAGATTTTTAA-TTAAATTAGG
1 -TTAGGGTTTTTAAGTTAAA-TAGG
*
48200106 TTAGGGTTTTTAAGTT-AAGA-G
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48200127 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
*
48200150 TTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
***
48200173 TTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAAATAGG
* * *
48200196 TTAGGATTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
*
48200219 TTAGGGTTTTTAAGTT-AA-GGG
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48200240 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
* * *
48200263 TTAGAGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
* * *
48200286 TTAGGGTTTTTAATTTAATTAGA
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48200309 TTATGGTTTTTAAGTT-AA-GGG
1 TTAGGGTTTTTAAGTTAAATAGG
*
48200330 TTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
*
48200353 TTAGGGTTTTTAAGTTAAGGGATTTA-A
1 TTAGGGTTTTTAAGTTAA---A--TAGG
* *
48200380 TTAGGTTAGGGTTTTTAATTTAATTAGG
1 TT-----AGGGTTTTTAAGTTAAATAGG
* *
48200408 TTAGAGTTTTTAAGTT-AAGA-G
1 TTAGGGTTTTTAAGTTAAATAGG
* * *
48200429 TTAGAGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48200452 TTAGGGTTTTTAAGAT-AA-GGG
1 TTAGGGTTTTTAAGTTAAATAGG
*
48200473 TTAGGGTTTTTAAGTT-AA-GGG
1 TTAGGGTTTTTAAGTTAAATAGG
* * *
48200494 TTAGAGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48200517 GTAGGGTTTTTAAGTT-AA-GGG
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48200538 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATAGG
*
48200561 TTAGGGTTTTTAAGTT-AA-GGG
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48200582 TTTAAGGTTTCTAA-TTAAATTAGG
1 -TTAGGGTTTTTAAGTTAAA-TAGG
*
48200606 TTAGGGTTTTTAAGTT-AA-GGG
1 TTAGGGTTTTTAAGTTAAATAGG
* *
48200627 TTTAAGGTTTCTAA-TTAAATTAGG
1 -TTAGGGTTTTTAAGTTAAA-TAGG
*
48200651 TTAGGGTTTTTAACTTAA
1 TTAGGGTTTTTAAGTTAA
48200669 GGGTATTAAT
Statistics
Matches: 981, Mismatches: 173, Indels: 145
0.76 0.13 0.11
Matches are distributed among these distances:
20 5 0.01
21 299 0.30
22 140 0.14
23 489 0.50
24 19 0.02
25 6 0.01
27 4 0.00
28 4 0.00
32 15 0.02
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.47
Consensus pattern (23 bp):
TTAGGGTTTTTAAGTTAAATAGG
Found at i:48199551 original size:44 final size:45
Alignment explanation
Indices: 48199419--48200668 Score: 989
Period size: 44 Copynumber: 27.9 Consensus size: 45
48199409 TTAATTTAGT
* * * * * *
48199419 TTAGGGTTTTTAATTTAATTAGGCTAAGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAATAGG
* * *
48199463 TTAGGGTTTTTAAGTT-AA-GGATTTAGTGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAAATGG-GTTAGGGTTTTTAAGTTAATAGG
* * *
48199506 TTAAGGTTTTTAAGTTAAAGGGGTTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAATAGG
* * * *
48199550 TTAGGGTTTATAAGTT-TA-GGGTTTATGGTTTTTAA-TTAAATTAGA
1 TTAGGGTTTTTAAGTTAAATGGG-TTAGGGTTTTTAAGTT-AA-TAGG
* * * *
48199595 TTAGGG-TTTTAAGTTAATTAGGTTAGGGTTTTTAACTTAAGAGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAATAGG
* **
48199639 TTAGGGTTTTTAAGTT-AA-GGGTTAAGGTTTTTAAG-TAACGGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAATAGG
* ***
48199681 TTAGGGTTTTTAAGTT-TA-GGGCTTAAAATTTTTAA-TTAAATTAGG
1 TTAGGGTTTTTAAGTTAAATGGG-TTAGGGTTTTTAAGTT-AA-TAGG
*
48199726 TTAGGGTTTTTAAGTT-AA-GGGTTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAA-TAGG
* * * **
48199770 TTAAGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAA-TAGG
* * * * *
48199816 TTAGTGTTTTTAATTTAATTAGGTTGGGGTTTTTAAGTTAA-AGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAATAGG
* * * *
48199860 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAATAGG
* * * *
48199904 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGCTAATTAGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAA-TAGG
* *
48199950 TTAGGGTTTTTAAGTT-AA-GGGTTAGAGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAA-TAGG
* * * * *
48199994 TTAGGGTTTTTAAGCTAATTAGGTTAGGATTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAATAGG
* * * * *
48200038 TTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTTAGTT--TAGGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAATA-GG
* * * *
48200082 TTTAAGATTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTAAGA-G
1 -TTAGGGTTTTTAAGTTAAA-TGGGTTAGGGTTTTTAAGTTAATAGG
* * *
48200127 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAA-TAGG
** * *
48200173 TTAGGGTTTTTAAGTTAAGGGGGTTAGGATTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAA-TAGG
*
48200219 TTAGGGTTTTTAAGTT-AA-GGGTTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAA-TAGG
* * * * * *
48200263 TTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGA
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAA-TAGG
*
48200309 TTATGGTTTTTAAGTT-AA-GGGTTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAA-TAGG
* *
48200353 TTAGGGTTTTTAAGTTAAGGGATTTAATTAGGTTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTT-----A---AA-TGGGTTAGGGTTTTTAAGTTAA-TAGG
* * * *
48200408 TTAGAGTTTTTAAGTT-AA-GAGTTAGAGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAA-TAGG
* *
48200452 TTAGGGTTTTTAAGAT-AA-GGGTTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAATAGG
* * * *
48200494 TTAGAGTTTTTAATTTAATTAGGG-TAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAAAT-GGGTTAGGGTTTTTAAGTTAATAGG
* * * *
48200538 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAATAGG
* * * *
48200582 TTTAAGGTTTCTAA-TTAAATTAGGTTAGGGTTTTTAAGTTAA-GGG
1 -TTAGGGTTTTTAAGTTAAA-TGGGTTAGGGTTTTTAAGTTAATAGG
* * * *
48200627 TTTAAGGTTTCTAA-TTAAATTAGGTTAGGGTTTTTAACTTAA
1 -TTAGGGTTTTTAAGTTAAA-TGGGTTAGGGTTTTTAAGTTAA
48200669 GGGTATTAAT
Statistics
Matches: 1029, Mismatches: 127, Indels: 99
0.82 0.10 0.08
Matches are distributed among these distances:
42 46 0.04
43 78 0.08
44 494 0.48
45 177 0.17
46 192 0.19
47 1 0.00
53 2 0.00
55 39 0.04
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.47
Consensus pattern (45 bp):
TTAGGGTTTTTAAGTTAAATGGGTTAGGGTTTTTAAGTTAATAGG
Found at i:48199650 original size:67 final size:67
Alignment explanation
Indices: 48199409--48200668 Score: 1137
Period size: 67 Copynumber: 19.1 Consensus size: 67
48199399 AGTAAAATTA
* * * * * *
48199409 TTAATTTAGTTTAGGGTTTTTAATTTAATTAGGCTAAGGTTTTTAAGTTAA--GGGTTAGGGTTT
1 TTAA-TTAGGTTAGGGTTTTTAAGTTAA-GAGGTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTT
48199472 TTAAG
63 TTAAG
** * * * ***
48199477 TTAAGGA-TTTAGTGTTTTTAAGTTAAG-GGTTAAGGTTTTTAAGTTAAAGGGGTTAGGGTTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAGAGGTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTT
48199540 AAG
65 AAG
* * * * *
48199543 TTAA--GGGTTAGGGTTTATAAGTTTAG-GGTTTATGGTTTTTAATTAAATTAGATTAGGG-TTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAGAGG-TTAGGGTTTTTAATT-AATTAGGTTAGGGTTTT
48199604 TAAG
64 TAAG
* * *
48199608 TTAATTAGGTTAGGGTTTTTAACTTAAGAGGTTAGGGTTTTTAAGTTAA--GGGTTAAGGTTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAGAGGTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTT
48199671 AAG
65 AAG
** * ***
48199674 -TAA-CGGGTTAGGGTTTTTAAGTTTAG-GGCTTAAAATTTTTAATTAAATTAGGTTAGGGTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAGAGG-TTAGGGTTTTTAATT-AATTAGGTTAGGGTTTT
48199736 TAAG
64 TAAG
* * * *
48199740 TTAA--GGGTTAGGGTTTTTAATTTAATTAGGTTAAGGTTTTTAAGTTAATTAGGTTAGGGTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAA-GAGGTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTT
48199803 TAAG
64 TAAG
*** * * * *
48199807 TTAAGGGGGTTAGTGTTTTTAATTTAATTAGGTTGGGGTTTTTAAGTTAA--AGGTTAGGGTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAA-GAGGTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTT
*
48199870 TAAT
64 TAAG
48199874 TTAATTAGGTTAGGGTTTTTAAGTTAAG-GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAGAGGTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTT
48199938 AAG
65 AAG
* *
48199941 CTAATTAGGTTAGGGTTTTTAAGTTAAG-GGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAGAGGTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTT
48200005 AAG
65 AAG
* * *
48200008 CTAATTAGGTTAGGATTTTTAAGTTAAG-GGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAGAGGTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTT
*
48200072 TAG
65 AAG
* * * *
48200075 -T--TTAGGGTTTAAGATTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTAA-GA-GTTAGGGT
1 TTAATTA-GG-TTAGGGTTTTTAAGTT-AA-GAGGTTAGGGTTTTTAA-TTAATTAGGTTAGGGT
*
48200134 TTTTAAT
61 TTTTAAG
* *** *
48200141 TTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAGGATTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAA-GAGGTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTT
*
48200206 TAAT
64 TAAG
*
48200210 TTAATTAGGTTAGGGTTTTTAAGTTAAG-GGTTAGGGTTTTTAATTTAATTAGGTTAGAGTTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAGAGGTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTT
*
48200274 AAT
65 AAG
* * * * *
48200277 TTAATTAGGTTAGGGTTTTTAATTTAATTAGATTATGGTTTTTAAGTTAA--GGGTTAGGGTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAA-GAGGTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTT
48200340 TAAG
64 TAAG
48200344 TTAATTAGGTTAGGGTTTTTAAGTTAAG-GG--A-------T--TTAATTAGGTTAGGGTTTTTA
1 TTAATTAGGTTAGGGTTTTTAAGTTAAGAGGTTAGGGTTTTTAATTAATTAGGTTAGGGTTTTTA
*
48200397 AT
66 AG
* *
48200399 TTAATTAGGTTAGAGTTTTTAAGTTAAGA-GTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAGAGGTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTT
48200463 AAG
65 AAG
* * * *
48200466 ATAA--GGGTTAGGGTTTTTAAGTTAAG-GGTTAGAGTTTTTAATTTAATTAGGGTAGGGTTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAGAGGTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTT
48200528 AAG
65 AAG
* * * * *
48200531 TTAA--GGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA--GGGTTTAAGGTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAA-GAGGTTAGGGTTTTTAA-TTAATTAGG-TTAGGGTTT
*
48200592 CTAA-
63 TTAAG
* *
48200596 TTAAATTAGGTTAGGGTTTTTAAGTTAAG-GGTTTAAGGTTTCTAATTAAATTAGGTTAGGGTTT
1 TT-AATTAGGTTAGGGTTTTTAAGTTAAGAGG-TTAGGGTTTTTAATT-AATTAGGTTAGGGTTT
*
48200660 TTAAC
63 TTAAG
48200665 TTAA
1 TTAA
48200669 GGGTATTAAT
Statistics
Matches: 1021, Mismatches: 109, Indels: 124
0.81 0.09 0.10
Matches are distributed among these distances:
53 4 0.00
55 43 0.04
56 1 0.00
57 1 0.00
63 5 0.00
64 54 0.05
65 147 0.14
66 144 0.14
67 449 0.44
68 67 0.07
69 106 0.10
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.47
Consensus pattern (67 bp):
TTAATTAGGTTAGGGTTTTTAAGTTAAGAGGTTAGGGTTTTTAATTAATTAGGTTAGGGTTTTTA
AG
Found at i:48200735 original size:9 final size:9
Alignment explanation
Indices: 48200699--48200734 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
48200689 ATTCTCAAAT
48200699 AATA-TCAA
1 AATATTCAA
48200707 AATATTCAA
1 AATATTCAA
48200716 AATATTCAA
1 AATATTCAA
48200725 AATATT-AA
1 AATATTCAA
48200733 AA
1 AA
48200735 AATTTCGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (9 bp):
AATATTCAA
Found at i:48200774 original size:25 final size:25
Alignment explanation
Indices: 48200742--48200855 Score: 114
Period size: 25 Copynumber: 4.8 Consensus size: 25
48200732 AAAAATTTCG
*
48200742 ATTTTATTATATCAAATAAACTTCT
1 ATTTTATTACATCAAATAAACTTCT
48200767 ATTTTATTACATCAAAT-AA-TATC-
1 ATTTTATTACATCAAATAAACT-TCT
** * * * *
48200790 A--AAATAAC-TAAAAAAAATTTCT
1 ATTTTATTACATCAAATAAACTTCT
48200812 ATTTTATTACATCAAATAAACTTCT
1 ATTTTATTACATCAAATAAACTTCT
48200837 ATTTTATTACATCAAATAA
1 ATTTTATTACATCAAATAA
48200856 TATCAAAATA
Statistics
Matches: 70, Mismatches: 12, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
20 4 0.06
21 8 0.11
22 2 0.03
23 2 0.03
24 8 0.11
25 46 0.66
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (25 bp):
ATTTTATTACATCAAATAAACTTCT
Found at i:48200816 original size:70 final size:70
Alignment explanation
Indices: 48200731--48200865 Score: 252
Period size: 70 Copynumber: 1.9 Consensus size: 70
48200721 TCAAAATATT
*
48200731 AAAAAATTTCGATTTTATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATA
1 AAAAAATTTCGATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATA
48200796 ACTAA
66 ACTAA
*
48200801 AAAAAATTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATA
1 AAAAAATTTCGATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATA
48200866 TTCAAAATAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (70 bp):
AAAAAATTTCGATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATA
ACTAA
Found at i:48201369 original size:23 final size:23
Alignment explanation
Indices: 48201343--48201391 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
48201333 GGACAGCTCT
48201343 TATACATCA-AAAATT-GAGCAGCA
1 TATACAT-ATAAAATTGGA-CAGCA
*
48201366 TATATATATAAAATTGGACAGCA
1 TATACATATAAAATTGGACAGCA
48201389 TAT
1 TAT
48201392 TTTTTCACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 1 0.04
23 20 0.87
24 2 0.09
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (23 bp):
TATACATATAAAATTGGACAGCA
Found at i:48201480 original size:71 final size:72
Alignment explanation
Indices: 48201361--48201524 Score: 233
Period size: 71 Copynumber: 2.3 Consensus size: 72
48201351 AAAAATTGAG
* **
48201361 CAGCATATATATATAAAATTGGACAGCATATTTTTTCACCAAAAATTAGGCAGCATACATATACC
1 CAGCATATATATACAAAATTGGACAGCA-ATTGATTCACCAAAAATTAGGCAGCATACATATACC
48201426 AATTTGGA
65 AATTTGGA
* * *
48201434 CAGCATGTGTATACAAAATTGGACAGC-ATTGATTCACCAAAAATTAGGCAGCATACATCTACCA
1 CAGCATATATATACAAAATTGGACAGCAATTGATTCACCAAAAATTAGGCAGCATACATATACCA
48201498 ATTTGGA
66 ATTTGGA
*
48201505 CAGCACT-TATACACAAAATT
1 CAGCA-TATATATACAAAATT
48201525 TAACAGCATG
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 57 0.70
72 1 0.01
73 24 0.29
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.27
Consensus pattern (72 bp):
CAGCATATATATACAAAATTGGACAGCAATTGATTCACCAAAAATTAGGCAGCATACATATACCA
ATTTGGA
Found at i:48201531 original size:71 final size:71
Alignment explanation
Indices: 48201395--48201813 Score: 223
Period size: 71 Copynumber: 6.0 Consensus size: 71
48201385 AGCATATTTT
* * *
48201395 TTCACCAAAAATTAGGCAGCATACATATACCAATTTGGACAGCATGTGTATACAAAATTGGACAG
1 TTCACCAAAAATTAGGCAGCATACATATACCAATTTGGACAGCATGTATACACAAAATTGAACAG
48201460 CATTGA
66 CATTGA
* *
48201466 TTCACCAAAAATTAGGCAGCATACATCTACCAATTTGGACAGCACT-TATACACAAAATTTAACA
1 TTCACCAAAAATTAGGCAGCATACATATACCAATTTGGACAGCA-TGTATACACAAAATTGAACA
48201530 GCA-TGTA
65 GCATTG-A
* * ** * ** * *
48201537 TAT-A-C-AAAATT-GGACAACTTTGAT-TCACCAAAAATTAGG-CAGCATACATACACCAATTT
1 T-TCACCAAAAATTAGG-CAGCATACATAT-ACC---AATTTGGACAGCATGTATACACAAAATT
*
48201596 GGACAGCACTT-A
60 GAACAGCA-TTGA
* * ** * * *
48201608 TACA-C-AAAATTCA-ACAGCATGTATATACAAAATTGGACAGCAT-TGATTCACCAAAATT-AG
1 TTCACCAAAAATT-AGGCAGCATACATATACCAATTTGGACAGCATGT-ATACA-CAAAATTGA-
* **
48201668 GCAGCATACA
62 ACAGCATTGA
* * * * * * *
48201678 TACACC---AATTTGGACAGCACT-TATATACAAAATTT-AACAGCATGTATATACAAAATTGGA
1 TTCACCAAAAATTAGG-CAGCA-TACATATAC-CAATTTGGACAGCATGTATACACAAAATTGAA
48201738 CAGCATTGA
63 CAGCATTGA
* * *
48201747 TTCACC-AAAATTAGGCAGCATACATACACCAATTTGGACAGCACT-TATACAAAAAATTTAACA
1 TTCACCAAAAATTAGGCAGCATACATATACCAATTTGGACAGCA-TGTATACACAAAATTGAACA
48201810 GCAT
65 GCAT
48201814 GTATATACAA
Statistics
Matches: 265, Mismatches: 51, Indels: 65
0.70 0.13 0.17
Matches are distributed among these distances:
68 8 0.03
69 55 0.21
70 75 0.28
71 117 0.44
72 9 0.03
73 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (71 bp):
TTCACCAAAAATTAGGCAGCATACATATACCAATTTGGACAGCATGTATACACAAAATTGAACAG
CATTGA
Found at i:48201717 original size:93 final size:94
Alignment explanation
Indices: 48201433--48201863 Score: 726
Period size: 93 Copynumber: 4.6 Consensus size: 94
48201423 ACCAATTTGG
*
48201433 ACAGCATGTGTATACAAAATTGGACAGCATTGATTCACCAAAAATTAGGCAGCATACAT-CTACC
1 ACAGCATGTATATACAAAATTGGACAGCATTGATTCACCAAAAATTAGGCAGCATACATAC-ACC
48201497 AATTTGGACAGCACTTATACACAAAATTTA
65 AATTTGGACAGCACTTATACACAAAATTTA
* *
48201527 ACAGCATGTATATACAAAATTGGACAACTTTGATTCACCAAAAATTAGGCAGCATACATACACCA
1 ACAGCATGTATATACAAAATTGGACAGCATTGATTCACCAAAAATTAGGCAGCATACATACACCA
*
48201592 ATTTGGACAGCACTTATACACAAAATTCA
66 ATTTGGACAGCACTTATACACAAAATTTA
48201621 ACAGCATGTATATACAAAATTGGACAGCATTGATTCACC-AAAATTAGGCAGCATACATACACCA
1 ACAGCATGTATATACAAAATTGGACAGCATTGATTCACCAAAAATTAGGCAGCATACATACACCA
*
48201685 ATTTGGACAGCACTTATATACAAAATTTA
66 ATTTGGACAGCACTTATACACAAAATTTA
48201714 ACAGCATGTATATACAAAATTGGACAGCATTGATTCACC-AAAATTAGGCAGCATACATACACCA
1 ACAGCATGTATATACAAAATTGGACAGCATTGATTCACCAAAAATTAGGCAGCATACATACACCA
*
48201778 ATTTGGACAGCACTTATACAAAAAATTTA
66 ATTTGGACAGCACTTATACACAAAATTTA
* * *
48201807 ACAGCATGTATATACAAAATTGGACAGCATT-TTTACATCAAAAATTTGGACAGCATA
1 ACAGCATGTATATACAAAATTGGACAGCATTGATT-CACCAAAAATTAGG-CAGCATA
48201864 TATATGACAA
Statistics
Matches: 320, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
92 2 0.01
93 177 0.55
94 133 0.42
95 8 0.03
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (94 bp):
ACAGCATGTATATACAAAATTGGACAGCATTGATTCACCAAAAATTAGGCAGCATACATACACCA
ATTTGGACAGCACTTATACACAAAATTTA
Found at i:48201796 original size:23 final size:22
Alignment explanation
Indices: 48201423--48201908 Score: 119
Period size: 23 Copynumber: 20.8 Consensus size: 22
48201413 GCATACATAT
* *
48201423 ACCAATTTGGACAGCATGTGTAT
1 ACCAATTTGGACAGCAT-TATAC
* * *
48201446 ACAAAATTGGACAGCATTGATTC
1 ACCAATTTGGACAGCATT-ATAC
* *
48201469 ACCAAAAATTAGG-CAGCA-TACATC
1 ACC---AATTTGGACAGCATTATA-C
48201493 TACCAATTTGGACAGCACTTATAC
1 -ACCAATTTGGACAGCA-TTATAC
* * *
48201517 ACAAAATTT-AACAGCATGTATAT
1 AC-CAATTTGGACAGCAT-TATAC
* * * * *
48201540 ACAAAATTGGACAACTTTGATTC
1 ACCAATTTGGACAGCATT-ATAC
* *
48201563 ACCAAAAATTAGG-CAGCATACATAC
1 ACC---AATTTGGACAGCAT-TATAC
48201588 ACCAATTTGGACAGCACTTATAC
1 ACCAATTTGGACAGCA-TTATAC
* * ** *
48201611 ACAAAATTCAACAGCATGTATAT
1 ACCAATTTGGACAGCAT-TATAC
* * *
48201634 ACAAAATTGGACAGCATTGATTC
1 ACCAATTTGGACAGCATT-ATAC
* *
48201657 ACCAAAATTAGG-CAGCATACATAC
1 ACC--AATTTGGACAGCAT-TATAC
*
48201681 ACCAATTTGGACAGCACTTATAT
1 ACCAATTTGGACAGCA-TTATAC
* * *
48201704 ACAAAATTT-AACAGCATGTATAT
1 AC-CAATTTGGACAGCAT-TATAC
* * *
48201727 ACAAAATTGGACAGCATTGATTC
1 ACCAATTTGGACAGCATT-ATAC
* *
48201750 ACCAAAATTAGG-CAGCATACATAC
1 ACC--AATTTGGACAGCAT-TATAC
48201774 ACCAATTTGGACAGCACTTATAC
1 ACCAATTTGGACAGCA-TTATAC
** * *
48201797 AAAAAATTT-AACAGCATGTATAT
1 -ACCAATTTGGACAGCAT-TATAC
* * *
48201820 ACAAAATTGGACAGCATTTTTAC
1 ACCAATTTGGACAGCA-TTATAC
* *
48201843 ATCAAAAATTTGGACAGCATATATATG
1 A-C--CAATTTGGACAGCAT-TATA-C
* *
48201870 A-CAATTTGGGCAGCATAAATAC
1 ACCAATTTGGACAGCAT-TATAC
* *
48201892 ATCAA-TTGGGCAGCATT
1 ACCAATTTGGACAGCATT
48201909 TAAGCATAAA
Statistics
Matches: 341, Mismatches: 77, Indels: 92
0.67 0.15 0.18
Matches are distributed among these distances:
22 60 0.18
23 174 0.51
24 48 0.14
25 32 0.09
26 26 0.08
27 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (22 bp):
ACCAATTTGGACAGCATTATAC
Found at i:48201884 original size:49 final size:45
Alignment explanation
Indices: 48201433--48201885 Score: 250
Period size: 46 Copynumber: 9.6 Consensus size: 45
48201423 ACCAATTTGG
* * * * *
48201433 ACAGCATGTGTATACAAAATTGGACAGCATTGATTCACCAAAAA-TTA
1 ACAGCATATATATAC-AATTTGGACAGCATTTA-T-ACAAAAAATTTA
* * * * *
48201480 GGCAGCATACATCTACCAATTTGGACAGCACTTATACACAAAATTTA
1 -ACAGCATATATATA-CAATTTGGACAGCATTTATACAAAAAATTTA
* * * *
48201527 ACAGCATGTATATACAAAATTGGACAAC-TTTGATTCACCAAAAA-TTA
1 ACAGCATATATATAC-AATTTGGACAGCATTT-A-T-ACAAAAAATTTA
* * * * * *
48201574 GGCAGCATACATACACCAATTTGGACAGCACTTATACACAAAATTCA
1 -ACAGCATATATATA-CAATTTGGACAGCATTTATACAAAAAATTTA
* * * * *
48201621 ACAGCATGTATATACAAAATTGGACAGCATTGATTCACCAAAA-TTA
1 ACAGCATATATATAC-AATTTGGACAGCATTTATACA-AAAAATTTA
* * * * * *
48201667 GGCAGCATACATACACCAATTTGGACAGCACTTATATACAAAATTTA
1 -ACAGCATATATATA-CAATTTGGACAGCATTTATACAAAAAATTTA
* * * * *
48201714 ACAGCATGTATATACAAAATTGGACAGCATTGATTCACCAAAA-TTA
1 ACAGCATATATATAC-AATTTGGACAGCATTTATACA-AAAAATTTA
* * * *
48201760 GGCAGCATACATACACCAATTTGGACAGCACTTATACAAAAAATTTA
1 -ACAGCATATATATA-CAATTTGGACAGCATTTATACAAAAAATTTA
* * * *
48201807 ACAGCATGTATATACAAAATTGGACAGCATTTTTACATCAAAAATTTGG
1 ACAGCATATATATAC-AATTTGGACAGCATTTATACA--AAAAATTT-A
*
48201856 ACAGCATATATATGACAATTTGGGCAGCAT
1 ACAGCATATATAT-ACAATTTGGACAGCAT
48201886 AAATACATCA
Statistics
Matches: 304, Mismatches: 76, Indels: 49
0.71 0.18 0.11
Matches are distributed among these distances:
45 6 0.02
46 128 0.42
47 80 0.26
48 60 0.20
49 28 0.09
50 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (45 bp):
ACAGCATATATATACAATTTGGACAGCATTTATACAAAAAATTTA
Found at i:48202726 original size:29 final size:29
Alignment explanation
Indices: 48202638--48202733 Score: 135
Period size: 28 Copynumber: 3.4 Consensus size: 29
48202628 AATAAATTCA
* *
48202638 CACACTTAGTGC-TCA-ATAATCAAACTCG
1 CACACTTAGTGCTTTACA-AATTAAACTCG
*
48202666 CACACTTAGTGCTTTAC-CATTAAACTCG
1 CACACTTAGTGCTTTACAAATTAAACTCG
48202694 CACACTTAGTGCTTTACAAATTAAACTCG
1 CACACTTAGTGCTTTACAAATTAAACTCG
48202723 CACACTTAGTG
1 CACACTTAGTG
48202734 TCGAAAGTCA
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
28 38 0.62
29 23 0.38
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.29
Consensus pattern (29 bp):
CACACTTAGTGCTTTACAAATTAAACTCG
Found at i:48209146 original size:23 final size:22
Alignment explanation
Indices: 48209120--48209548 Score: 184
Period size: 23 Copynumber: 18.4 Consensus size: 22
48209110 ACCAATTTGG
48209120 ACAGCACTTATACACAAAATTTA
1 ACAGCA-TTATACACAAAATTTA
* * **
48209143 ACAGCATGTGTATACAAAATTGG
1 ACAGCAT-TATACACAAAATTTA
* *
48209166 ACAGCATTGATTCACCAAAAATTA
1 ACAGCATT-ATACA-CAAAATTTA
* * * * *
48209190 GGCAGCATACATATAC-CAATTTGG
1 -ACAGCAT-TATACACAAAATTT-A
48209214 ACAGCACTTATACACAAAATTTA
1 ACAGCA-TTATACACAAAATTTA
* **
48209237 ACAGCATGTATATACAAAATTGG
1 ACAGCAT-TATACACAAAATTTA
*
48209260 ACAGCATTGATTCACCAAAA-TTA
1 ACAGCATT-ATACA-CAAAATTTA
* * * *
48209283 GGCAGCATACATACAC-CAATTTGG
1 -ACAGCAT-TATACACAAAATTT-A
*
48209307 ACAGCACTTATACACAAAATTCA
1 ACAGCA-TTATACACAAAATTTA
* **
48209330 ACAGCATGTATATACAAAATTGG
1 ACAGCAT-TATACACAAAATTTA
* *
48209353 ACAGCATTGATTCACCAAAAATTA
1 ACAGCATT-ATACA-CAAAATTTA
* * * *
48209377 GGCAGCATACATACAC-CAATTTGG
1 -ACAGCAT-TATACACAAAATTT-A
*
48209401 ACAGCACTTATACATAAAATTTA
1 ACAGCA-TTATACACAAAATTTA
* **
48209424 ACAGCATGTATATACAAAATTGG
1 ACAGCAT-TATACACAAAATTTA
* *
48209447 ACAGCATTGATTCACCAAAAATTA
1 ACAGCATT-ATACA-CAAAATTTA
* * *
48209471 GACAGCATACATACAC-CAATTTGG
1 -ACAGCAT-TATACACAAAATTT-A
48209495 ACAGCACTTATACACAAAATTTA
1 ACAGCA-TTATACACAAAATTTA
* **
48209518 ACAGCATGTATATACAAAATTGG
1 ACAGCAT-TATACACAAAATTTA
48209541 ACAGCATT
1 ACAGCATT
48209549 TTTACATCAA
Statistics
Matches: 294, Mismatches: 78, Indels: 69
0.67 0.18 0.16
Matches are distributed among these distances:
22 12 0.04
23 193 0.66
24 59 0.20
25 30 0.10
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.25
Consensus pattern (22 bp):
ACAGCATTATACACAAAATTTA
Found at i:48209337 original size:187 final size:188
Alignment explanation
Indices: 48209016--48209548 Score: 897
Period size: 187 Copynumber: 2.8 Consensus size: 188
48209006 ATCTACCCTG
* * * * * *
48209016 TTTGGACAGCTCTTATACATCAAAAATTGAGCAGCATATATATATAAAATTGGACAGCATTTTTT
1 TTTGGACAGCACTTATACA-C-AAAATTTAACAGCATGTATATACAAAATTGGACAGCA---TTG
* *
48209081 TTTCACCAAAAATTAGGCAGCATACATATACCAATTTGGACAGCACTTATACACAAAATTTAACA
61 ATTCACCAAAAATTAGGCAGCATACATACACCAATTTGGACAGCACTTATACACAAAATTTAACA
* *
48209146 GCATGTGTATACAAAATTGGACAGCATTGATTCACCAAAAATTAGGCAGCATACATATACCAA
126 GCATGTATATACAAAATTGGACAGCATTGATTCACCAAAAATTAGGCAGCATACATACACCAA
48209209 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
1 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
*
48209274 CC-AAAATTAGGCAGCATACATACACCAATTTGGACAGCACTTATACACAAAATTCAACAGCATG
66 CCAAAAATTAGGCAGCATACATACACCAATTTGGACAGCACTTATACACAAAATTTAACAGCATG
48209338 TATATACAAAATTGGACAGCATTGATTCACCAAAAATTAGGCAGCATACATACACCAA
131 TATATACAAAATTGGACAGCATTGATTCACCAAAAATTAGGCAGCATACATACACCAA
*
48209396 TTTGGACAGCACTTATACATAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
1 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
*
48209461 CCAAAAATTAGACAGCATACATACACCAATTTGGACAGCACTTATACACAAAATTTAACAGCATG
66 CCAAAAATTAGGCAGCATACATACACCAATTTGGACAGCACTTATACACAAAATTTAACAGCATG
48209526 TATATACAAAATTGGACAGCATT
131 TATATACAAAATTGGACAGCATT
48209549 TTTACATCAA
Statistics
Matches: 325, Mismatches: 14, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
187 182 0.56
188 91 0.28
191 33 0.10
192 1 0.00
193 18 0.06
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (188 bp):
TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
CCAAAAATTAGGCAGCATACATACACCAATTTGGACAGCACTTATACACAAAATTTAACAGCATG
TATATACAAAATTGGACAGCATTGATTCACCAAAAATTAGGCAGCATACATACACCAA
Found at i:48209596 original size:49 final size:45
Alignment explanation
Indices: 48209016--48209596 Score: 401
Period size: 46 Copynumber: 12.3 Consensus size: 45
48209006 ATCTACCCTG
* * *
48209016 TTTGGACAGC-TCTTATACATCAAAAATTGAGCAGCATATATATATAAA
1 TTTGGACAGCAT-TTATACA-C-AAAATTTAACAGCATATATATA-CAA
* * * * * *
48209064 ATTGGACAGCATTTTTTTTTCACCAAAAATTAGGCAGCATACATATACCAA
1 TTTGGACAGCA---TTTATACA-CAAAATTTA-ACAGCATATATATA-CAA
* * *
48209115 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTGTATACAAA
1 TTTGGACAGCATTTATACACAAAATTTAACAGCATATATATAC-AA
* * * * * *
48209161 ATTGGACAGCATTGATTCACCAAAAATTAGGCAGCATACATATACCAA
1 TTTGGACAGCATTTATACA-CAAAATTTA-ACAGCATATATATA-CAA
* *
48209209 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAA
1 TTTGGACAGCATTTATACACAAAATTTAACAGCATATATATAC-AA
* * * * * *
48209255 ATTGGACAGCATTGATTCACCAAAA-TTAGGCAGCATACATACACCAA
1 TTTGGACAGCATTTATACA-CAAAATTTA-ACAGCATATATATA-CAA
* * *
48209302 TTTGGACAGCACTTATACACAAAATTCAACAGCATGTATATACAAA
1 TTTGGACAGCATTTATACACAAAATTTAACAGCATATATATAC-AA
* * * * * * *
48209348 ATTGGACAGCATTGATTCACCAAAAATTAGGCAGCATACATACACCAA
1 TTTGGACAGCATTTATACA-CAAAATTTA-ACAGCATATATATA-CAA
* * *
48209396 TTTGGACAGCACTTATACATAAAATTTAACAGCATGTATATACAAA
1 TTTGGACAGCATTTATACACAAAATTTAACAGCATATATATAC-AA
* * * * * *
48209442 ATTGGACAGCATTGATTCACCAAAAATTAGACAGCATACATACACCAA
1 TTTGGACAGCATTTATACA-CAAAATTTA-ACAGCATATATATA-CAA
* *
48209490 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAA
1 TTTGGACAGCATTTATACACAAAATTTAACAGCATATATATAC-AA
* * * *
48209536 ATTGGACAGCATTTTTACATCAAAAATTTGGACTGCATATATATGACAA
1 TTTGGACAGCATTTATACA-C-AAAATTT-AACAGCATATATAT-ACAA
*
48209585 TTTGGGCAGCAT
1 TTTGGACAGCAT
48209597 AAATACATTA
Statistics
Matches: 409, Mismatches: 97, Indels: 53
0.73 0.17 0.09
Matches are distributed among these distances:
45 5 0.01
46 146 0.36
47 88 0.22
48 104 0.25
49 26 0.06
50 8 0.02
51 31 0.08
52 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (45 bp):
TTTGGACAGCATTTATACACAAAATTTAACAGCATATATATACAA
Found at i:48209618 original size:94 final size:94
Alignment explanation
Indices: 48209016--48209548 Score: 897
Period size: 94 Copynumber: 5.6 Consensus size: 94
48209006 ATCTACCCTG
* * * * * *
48209016 TTTGGACAGCTCTTATACATCAAAAATTGAGCAGCATATATATATAAAATTGGACAGCATTTTTT
1 TTTGGACAGCACTTATACA-C-AAAATTTAACAGCATGTATATACAAAATTGGACAGCA---TTG
* *
48209081 TTTCACCAAAAATTAGGCAGCATACATATACCAA
61 ATTCACCAAAAATTAGGCAGCATACATACACCAA
*
48209115 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTGTATACAAAATTGGACAGCATTGATTCA
1 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
*
48209180 CCAAAAATTAGGCAGCATACATATACCAA
66 CCAAAAATTAGGCAGCATACATACACCAA
48209209 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
1 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
48209274 CC-AAAATTAGGCAGCATACATACACCAA
66 CCAAAAATTAGGCAGCATACATACACCAA
*
48209302 TTTGGACAGCACTTATACACAAAATTCAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
1 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
48209367 CCAAAAATTAGGCAGCATACATACACCAA
66 CCAAAAATTAGGCAGCATACATACACCAA
*
48209396 TTTGGACAGCACTTATACATAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
1 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
*
48209461 CCAAAAATTAGACAGCATACATACACCAA
66 CCAAAAATTAGGCAGCATACATACACCAA
48209490 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATT
1 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATT
48209549 TTTACATCAA
Statistics
Matches: 418, Mismatches: 15, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
93 91 0.22
94 276 0.66
97 32 0.08
98 1 0.00
99 18 0.04
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (94 bp):
TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
CCAAAAATTAGGCAGCATACATACACCAA
Found at i:48210439 original size:29 final size:29
Alignment explanation
Indices: 48210343--48210446 Score: 133
Period size: 28 Copynumber: 3.7 Consensus size: 29
48210333 AAATATTTAA
* *
48210343 TAAATTCGCACACTTAGTGC-TCA-ATAAT
1 TAAACTCGCACACTTAGTGCTTTACA-AAT
* * *
48210371 CAAACTCGCACACTTAGTACTTTAC-CAT
1 TAAACTCGCACACTTAGTGCTTTACAAAT
48210399 TAAACTCGCACACTTAGTGCTTTACAAAT
1 TAAACTCGCACACTTAGTGCTTTACAAAT
48210428 TAAACTCGCACACTTAGTG
1 TAAACTCGCACACTTAGTG
48210447 TCGAAAGTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
28 42 0.65
29 23 0.35
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.30
Consensus pattern (29 bp):
TAAACTCGCACACTTAGTGCTTTACAAAT
Found at i:48212576 original size:7 final size:7
Alignment explanation
Indices: 48212566--48212590 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48212556 TTATATACAT
48212566 AATACTA
1 AATACTA
48212573 AATACTA
1 AATACTA
48212580 AATACTA
1 AATACTA
48212587 AATA
1 AATA
48212591 TCAATTGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:48212798 original size:20 final size:20
Alignment explanation
Indices: 48212761--48212798 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48212751 TTTATTTTTA
*
48212761 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
48212781 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
48212799 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:48213715 original size:12 final size:12
Alignment explanation
Indices: 48213694--48213734 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
48213684 TTACGGTTTT
48213694 AAAAAA-ATTTA
1 AAAAAATATTTA
*
48213705 AAAAAATATTTT
1 AAAAAATATTTA
*
48213717 AAAAATTATTTA
1 AAAAAATATTTA
48213729 AAAAAA
1 AAAAAA
48213735 GGAGTTAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
11 6 0.24
12 19 0.76
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAAATATTTA
Found at i:48213843 original size:12 final size:11
Alignment explanation
Indices: 48213809--48213835 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
48213799 TTTTTGAAGG
48213809 AAATTGAGAGA
1 AAATTGAGAGA
48213820 AAATTGAGAGA
1 AAATTGAGAGA
48213831 AAATT
1 AAATT
48213836 TGAAAGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (11 bp):
AAATTGAGAGA
Found at i:48215810 original size:9 final size:9
Alignment explanation
Indices: 48215798--48215837 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
48215788 AAAATAATAA
48215798 AAAATTATT
1 AAAATTATT
48215807 AAAATTATT
1 AAAATTATT
48215816 AAAATT-TAT
1 AAAATTAT-T
48215825 AAAATTATT
1 AAAATTATT
48215834 AAAA
1 AAAA
48215838 ATTAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.03
9 27 0.93
10 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAATTATT
Found at i:48215810 original size:10 final size:10
Alignment explanation
Indices: 48215787--48215846 Score: 63
Period size: 10 Copynumber: 6.2 Consensus size: 10
48215777 AAATAACATA
* *
48215787 AAAAATAATA
1 AAAAATTATT
48215797 AAAAATTATT
1 AAAAATTATT
48215807 -AAAATTATT
1 AAAAATTATT
*
48215816 AAAATTTA-T
1 AAAAATTATT
48215825 -AAAATTATT
1 AAAAATTATT
48215834 AAAAATTAATT
1 AAAAATT-ATT
48215845 AA
1 AA
48215847 TAACCATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
8 6 0.14
9 11 0.26
10 20 0.48
11 5 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAAATTATT
Found at i:48215810 original size:19 final size:19
Alignment explanation
Indices: 48215797--48215846 Score: 75
Period size: 18 Copynumber: 2.6 Consensus size: 19
48215787 AAAAATAATA
48215797 AAAAATTATTAAAATTATT
1 AAAAATTATTAAAATTATT
*
48215816 AAAATTTA-TAAAATTATT
1 AAAAATTATTAAAATTATT
48215834 AAAAATTAATTAA
1 AAAAATT-ATTAA
48215847 TAACCATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 16 0.59
19 8 0.30
20 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTATTAAAATTATT
Found at i:48216142 original size:23 final size:21
Alignment explanation
Indices: 48216104--48216145 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
48216094 TATAAATTTT
48216104 ATAAATTTTAATTAATTTCTA
1 ATAAATTTTAATTAATTTCTA
48216125 ATAATATTTATAATTAATTTC
1 ATAA-ATTT-TAATTAATTTC
48216146 ATGACTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 4 0.21
23 11 0.58
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
ATAAATTTTAATTAATTTCTA
Found at i:48216606 original size:61 final size:61
Alignment explanation
Indices: 48216489--48216612 Score: 187
Period size: 61 Copynumber: 2.0 Consensus size: 61
48216479 GCTTATTGGA
* * * *
48216489 AAAATAATCCTTAACTTTTAAGTTAAAAGATTTGCAATTATCTAATTTTATTTTTAGGCTT
1 AAAATAAGCCTTAAATTTTAAGTTAAAAGATTAGCAATTATCTAATTTTATGTTTAGGCTT
*
48216550 AAAATAAGCCTTAAATTTTAAGTTAAAAAGATTAGCCATTATCTAATTTT-TGTTTAGGCTT
1 AAAATAAGCCTTAAATTTTAAGTT-AAAAGATTAGCAATTATCTAATTTTATGTTTAGGCTT
48216611 AA
1 AA
48216613 TATGCACTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 34 0.60
62 23 0.40
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (61 bp):
AAAATAAGCCTTAAATTTTAAGTTAAAAGATTAGCAATTATCTAATTTTATGTTTAGGCTT
Found at i:48216849 original size:8 final size:8
Alignment explanation
Indices: 48216828--48216889 Score: 58
Period size: 8 Copynumber: 7.8 Consensus size: 8
48216818 AAAAATTCTT
48216828 TAAAAATA
1 TAAAAATA
48216836 -AAAAATA
1 TAAAAATA
*
48216843 TAAAAATGT
1 TAAAAAT-A
48216852 TAAAAATTA
1 TAAAAA-TA
*
48216861 TTAAAATTA
1 -TAAAAATA
48216870 TAAAAAT-
1 TAAAAATA
48216877 T-AAAATA
1 TAAAAATA
48216884 TAAAAA
1 TAAAAA
48216890 AATTTACTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
6 5 0.11
7 9 0.20
8 16 0.36
9 8 0.18
10 6 0.14
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (8 bp):
TAAAAATA
Found at i:48216873 original size:18 final size:18
Alignment explanation
Indices: 48216812--48216878 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
48216802 ATTAGAAAAG
*
48216812 AAATTA-AAAAATTCTTTA
1 AAATTATAAAAATT-ATTA
* *
48216830 AAA--ATAAAAAATATAA
1 AAATTATAAAAATTATTA
48216846 AAATGT-TAAAAATTATTA
1 AAAT-TATAAAAATTATTA
48216864 AAATTATAAAAATTA
1 AAATTATAAAAATTA
48216879 AAATATAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
16 6 0.15
17 7 0.18
18 26 0.67
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (18 bp):
AAATTATAAAAATTATTA
Found at i:48216881 original size:43 final size:41
Alignment explanation
Indices: 48216828--48216909 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 41
48216818 AAAAATTCTT
*
48216828 TAAAAATAAAAAATATAAAAATGTTA-AAAATTATTAAAATTA
1 TAAAAATAAAAAATAAAAAAAT-TTACAAAATT-TTAAAATTA
*
48216870 TAAAAATTAAAATATAAAAAAATTTACTAAAATTTTAAAA
1 TAAAAA-TAAAAAATAAAAAAATTTAC-AAAATTTTAAAA
48216910 AGATTAGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
42 9 0.26
43 20 0.57
44 6 0.17
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (41 bp):
TAAAAATAAAAAATAAAAAAATTTACAAAATTTTAAAATTA
Found at i:48216887 original size:14 final size:15
Alignment explanation
Indices: 48216860--48216889 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
48216850 GTTAAAAATT
48216860 ATTAAAATTATAAAA
1 ATTAAAATTATAAAA
48216875 ATTAAAA-TATAAAA
1 ATTAAAATTATAAAA
48216889 A
1 A
48216890 AATTTACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAAAATTATAAAA
Found at i:48222166 original size:12 final size:12
Alignment explanation
Indices: 48222149--48222175 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48222139 TGGATGGGAA
48222149 GCAATATGAAGT
1 GCAATATGAAGT
48222161 GCAATATGAAGT
1 GCAATATGAAGT
48222173 GCA
1 GCA
48222176 GCTTGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.11, G:0.26, T:0.22
Consensus pattern (12 bp):
GCAATATGAAGT
Found at i:48223949 original size:59 final size:59
Alignment explanation
Indices: 48223857--48223978 Score: 226
Period size: 59 Copynumber: 2.1 Consensus size: 59
48223847 ACCAAGACTT
*
48223857 GGACAATAACTACGATACCCTTTTTGTACATGGGAATATCTCCAAAACATACATTATAA
1 GGACAATAACTACGATACCCTTTTTGTACATGGGAATATCCCCAAAACATACATTATAA
*
48223916 GGACAATAACTACGATACCTTTTTTGTACATGGGAATATCCCCAAAACATACATTATAA
1 GGACAATAACTACGATACCCTTTTTGTACATGGGAATATCCCCAAAACATACATTATAA
48223975 GGAC
1 GGAC
48223979 TTAGGATCAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (59 bp):
GGACAATAACTACGATACCCTTTTTGTACATGGGAATATCCCCAAAACATACATTATAA
Found at i:48232013 original size:15 final size:16
Alignment explanation
Indices: 48231993--48232026 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
48231983 ACTAAAGTTC
*
48231993 AACTTCAGATTTAT-A
1 AACTTCAAATTTATCA
48232008 AACTTCAAATTTATCA
1 AACTTCAAATTTATCA
48232024 AAC
1 AAC
48232027 GTTTCATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.35
Consensus pattern (16 bp):
AACTTCAAATTTATCA
Found at i:48234069 original size:28 final size:28
Alignment explanation
Indices: 48234038--48234094 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
48234028 AATACTGAGT
48234038 TCACGTAAGAGTTGTTGAAACATTTTTG
1 TCACGTAAGAGTTGTTGAAACATTTTTG
48234066 TCACGTAAGAGTTGTTGAAACATTTTTG
1 TCACGTAAGAGTTGTTGAAACATTTTTG
48234094 T
1 T
48234095 TGAACTTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (28 bp):
TCACGTAAGAGTTGTTGAAACATTTTTG
Found at i:48240085 original size:26 final size:26
Alignment explanation
Indices: 48240018--48240072 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
48240008 GATCAAATGA
*
48240018 TCTATGTCTGTGCTTTGGTATTAAAG
1 TCTATGTATGTGCTTTGGTATTAAAG
48240044 TCTATGTATGTGCTTTGGTATTAAAG
1 TCTATGTATGTGCTTTGGTATTAAAG
48240070 TCT
1 TCT
48240073 TAGTTGTTTC
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:0.20, C:0.11, G:0.22, T:0.47
Consensus pattern (26 bp):
TCTATGTATGTGCTTTGGTATTAAAG
Found at i:48248543 original size:32 final size:32
Alignment explanation
Indices: 48248483--48248545 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
48248473 ATATTCGTCC
*
48248483 ATAAAAGTCACCTAGGCTCAGATAATTTGGTG
1 ATAAAAGTCACCTAGCCTCAGATAATTTGGTG
* * * *
48248515 ATAAAAGTCACTTTGCCTCTGATCATTTGGT
1 ATAAAAGTCACCTAGCCTCAGATAATTTGGT
48248546 TGGACTACGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (32 bp):
ATAAAAGTCACCTAGCCTCAGATAATTTGGTG
Found at i:48252326 original size:15 final size:15
Alignment explanation
Indices: 48252308--48252350 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
48252298 ATATCAATAA
48252308 AACACATAGCTAATT
1 AACACATAGCTAATT
**
48252323 AACACATAATTAA--
1 AACACATAGCTAATT
48252336 AACACATAGCTAATT
1 AACACATAGCTAATT
48252351 TAAACAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
13 11 0.50
15 11 0.50
ACGTcount: A:0.51, C:0.19, G:0.05, T:0.26
Consensus pattern (15 bp):
AACACATAGCTAATT
Found at i:48252868 original size:27 final size:30
Alignment explanation
Indices: 48252832--48252896 Score: 91
Period size: 32 Copynumber: 2.2 Consensus size: 30
48252822 TTAGTTAGTT
48252832 AAATAAAACCACA-T-A-AATAAGTATGTA
1 AAATAAAACCACATTGACAATAAGTATGTA
48252859 AAATAAAACCACATTTGGACAATAAGTATGTA
1 AAATAAAACCACA-TT-GACAATAAGTATGTA
48252891 AAATAA
1 AAATAA
48252897 GACAAAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
27 13 0.39
29 1 0.03
31 1 0.03
32 18 0.55
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23
Consensus pattern (30 bp):
AAATAAAACCACATTGACAATAAGTATGTA
Found at i:48253115 original size:23 final size:24
Alignment explanation
Indices: 48253087--48253168 Score: 62
Period size: 23 Copynumber: 3.5 Consensus size: 24
48253077 TGTACAAAAA
48253087 TGGACAGCATTTAAGCACT-AATT
1 TGGACAGCATTTAAGCACTAAATT
* ** **
48253110 TGGACAACA-TTAATATACTAAAAAA
1 TGGACAGCATTTAA-GCACT-AAATT
* *
48253135 TGGACAGCAATTAAGCA-TCAATT
1 TGGACAGCATTTAAGCACTAAATT
48253158 TGGACAGCATT
1 TGGACAGCATT
48253169 AATATGCTCA
Statistics
Matches: 43, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
22 4 0.09
23 23 0.53
24 1 0.02
25 11 0.26
26 4 0.09
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (24 bp):
TGGACAGCATTTAAGCACTAAATT
Found at i:48253197 original size:99 final size:99
Alignment explanation
Indices: 48253082--48253266 Score: 316
Period size: 99 Copynumber: 1.9 Consensus size: 99
48253072 TGATTTGTAC
*
48253082 AAAAATGGACAGCATTTAAGCACTAATTTGGACAACATTAATATACTAAAAAATGGACAGCAATT
1 AAAAATGGACAGCATTTAAGCACTAATTTGGACAACATTAATATACTAAAAAATGGACAACAATT
*
48253147 AAGCATCAATTTGGACAGCATTAATATGCTCAAA
66 AAGCACCAATTTGGACAGCATTAATATGCTCAAA
* * * *
48253181 AAAAATGGACATCATTTAAGCACTAATTTGGATAGCATTAATATGCTAAAAAATGGACAACAATT
1 AAAAATGGACAGCATTTAAGCACTAATTTGGACAACATTAATATACTAAAAAATGGACAACAATT
48253246 AAGCACCAATTTGGACAGCAT
66 AAGCACCAATTTGGACAGCAT
48253267 CTTATCATCA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 80 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (99 bp):
AAAAATGGACAGCATTTAAGCACTAATTTGGACAACATTAATATACTAAAAAATGGACAACAATT
AAGCACCAATTTGGACAGCATTAATATGCTCAAA
Found at i:48253209 original size:51 final size:48
Alignment explanation
Indices: 48253082--48253266 Score: 255
Period size: 48 Copynumber: 3.8 Consensus size: 48
48253072 TGATTTGTAC
* * *
48253082 AAAAATGGACAGCATTTAAGCACTAATTTGGACAACATTAATATACTA
1 AAAAATGGACAGCAATTAAGCACTAATTTGGACAGCATTAATATGCTA
48253130 AAAAATGGACAGCAATTAAGCA-TCAATTTGGACAGCATTAATATGCTCAAA
1 AAAAATGGACAGCAATTAAGCACT-AATTTGGACAGCATTAATATGCT---A
* * *
48253181 AAAAATGGACATCATTTAAGCACTAATTTGGATAGCATTAATATGCTA
1 AAAAATGGACAGCAATTAAGCACTAATTTGGACAGCATTAATATGCTA
* *
48253229 AAAAATGGACAACAATTAAGCACCAATTTGGACAGCAT
1 AAAAATGGACAGCAATTAAGCACTAATTTGGACAGCAT
48253267 CTTATCATCA
Statistics
Matches: 122, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
47 1 0.01
48 77 0.63
51 43 0.35
52 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (48 bp):
AAAAATGGACAGCAATTAAGCACTAATTTGGACAGCATTAATATGCTA
Found at i:48253894 original size:42 final size:43
Alignment explanation
Indices: 48253842--48253927 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 43
48253832 ACATGTTATA
* * *
48253842 ATATATCGATGCCATTGTCTCAAACAAGGTCTTACACGAAATC
1 ATATATCGATGCCAATGTCCCAAACAAGGTCTTACACAAAATC
* * *
48253885 ATATA-CGATGCCAATGTCCCAGACATGTTCTTACACAAAATC
1 ATATATCGATGCCAATGTCCCAAACAAGGTCTTACACAAAATC
48253927 A
1 A
48253928 CACCTCAGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 32 0.86
43 5 0.14
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (43 bp):
ATATATCGATGCCAATGTCCCAAACAAGGTCTTACACAAAATC
Found at i:48261004 original size:48 final size:47
Alignment explanation
Indices: 48260951--48261193 Score: 247
Period size: 48 Copynumber: 5.0 Consensus size: 47
48260941 ACATTCGAAT
* * * *
48260951 AACATTGATTTGTACAAAAATGGACAGCATTTAAGCACTACTTTGGAC
1 AACATTAATTTGTA-AAAAATGGACAACAATTAAGCACTAATTTGGAC
**
48260999 AACATTAATATACTAAAAAATGGACAACAATTAAGCA-TCAATTTGGAC
1 AACATTAAT-TTGTAAAAAATGGACAACAATTAAGCACT-AATTTGGAC
* ** *
48261047 ATCATTAATATACTAAAAAATGAACAACAATTAAGC-CTCAATTTGGAC
1 AACATTAAT-TTGTAAAAAATGGACAACAATTAAGCACT-AATTTGGAC
* * *
48261095 AACATTAATATGCTAAAAAAAATGGACATCATTTAAGCACTAATTTGGAC
1 AACATTAATTTG-T--AAAAAATGGACAACAATTAAGCACTAATTTGGAC
* * *
48261145 AACATTAATATGCTAAAAAATGGACAGCAATTAAGCACCAATTTGGAC
1 AACATTAATTTG-TAAAAAATGGACAACAATTAAGCACTAATTTGGAC
48261193 A
1 A
48261194 GCATCTTATC
Statistics
Matches: 170, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.01
48 122 0.72
49 3 0.02
50 42 0.25
51 2 0.01
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (47 bp):
AACATTAATTTGTAAAAAATGGACAACAATTAAGCACTAATTTGGAC
Found at i:48261120 original size:27 final size:27
Alignment explanation
Indices: 48261090--48261164 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 27
48261080 AGCCTCAATT
48261090 TGGACAACATTAATATGCTAAAAAAAA
1 TGGACAACATTAATATGCTAAAAAAAA
* * ** **
48261117 TGGACATCATT--TAAGC--ACTAATT
1 TGGACAACATTAATATGCTAAAAAAAA
48261140 TGGACAACATTAATATGCTAAAAAA
1 TGGACAACATTAATATGCTAAAAAA
48261165 TGGACAGCAA
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
23 13 0.38
25 8 0.24
27 13 0.38
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (27 bp):
TGGACAACATTAATATGCTAAAAAAAA
Found at i:48261161 original size:98 final size:97
Alignment explanation
Indices: 48260966--48261193 Score: 320
Period size: 98 Copynumber: 2.4 Consensus size: 97
48260956 TGATTTGTAC
* *
48260966 AAAAATGGACAGCATTTAAGCACT-ACTTTGGACAACATTAATATACTAAAAAATGGACAACAAT
1 AAAAATGGACAGCAATTAAGCACTCAATTTGGACAACATTAATATACTAAAAAATGGACAACAAT
*
48261030 TAAGCATCAATTTGGACATCATTAATATACTA
66 TAAGCATCAATTTGGACAACATTAATATACTA
* * * *
48261062 AAAAATGAACAACAATTAAGC-CTCAATTTGGACAACATTAATATGCTAAAAAAAATGGACATCA
1 AAAAATGGACAGCAATTAAGCACTCAATTTGGACAACATTAATATACT--AAAAAATGGACAACA
* *
48261126 TTTAAGCA-CTAATTTGGACAACATTAATATGCTA
64 ATTAAGCATC-AATTTGGACAACATTAATATACTA
48261160 AAAAATGGACAGCAATTAAGCAC-CAATTTGGACA
1 AAAAATGGACAGCAATTAAGCACTCAATTTGGACA
48261194 GCATCTTATC
Statistics
Matches: 116, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
95 2 0.02
96 39 0.34
97 1 0.01
98 73 0.63
99 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.25
Consensus pattern (97 bp):
AAAAATGGACAGCAATTAAGCACTCAATTTGGACAACATTAATATACTAAAAAATGGACAACAAT
TAAGCATCAATTTGGACAACATTAATATACTA
Found at i:48261786 original size:42 final size:41
Alignment explanation
Indices: 48261739--48261856 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 41
48261729 AGTTTGTACA
* * * **
48261739 ATGCCATATCCCAGATATGGTCTTACATGTTATAATATATCG
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATAATATA-CG
* * *
48261781 ATGCCACTGTCTCAGACAAGGTCTTACACGAAATCATATACG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGAAATAATATACG
* *
48261823 ATGCCAATGTCCCAGACATGTTCTTACACAAAAT
1 ATGCC-ATGTCCCAGACATGGTCTTACACGAAAT
48261857 CACACCTCAG
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
42 36 0.58
43 26 0.42
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (41 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATAATATACG
Found at i:48261857 original size:42 final size:43
Alignment explanation
Indices: 48261773--48261858 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 43
48261763 ACATGTTATA
* * *
48261773 ATATATCGATGCCACTGTCTCAGACAAGGTCTTACACGAAATC
1 ATATATCGATGCCAATGTCCCAGACAAGGTCTTACACAAAATC
* *
48261816 ATATA-CGATGCCAATGTCCCAGACATGTTCTTACACAAAATC
1 ATATATCGATGCCAATGTCCCAGACAAGGTCTTACACAAAATC
48261858 A
1 A
48261859 CACCTCAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
42 33 0.87
43 5 0.13
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (43 bp):
ATATATCGATGCCAATGTCCCAGACAAGGTCTTACACAAAATC
Found at i:48273274 original size:17 final size:17
Alignment explanation
Indices: 48273252--48273288 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
48273242 TGGCCAGAGG
48273252 GGTATACTGCTCATTTT
1 GGTATACTGCTCATTTT
48273269 GGTATACTGCTCATTTT
1 GGTATACTGCTCATTTT
48273286 GGT
1 GGT
48273289 TTTGTGTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.46
Consensus pattern (17 bp):
GGTATACTGCTCATTTT
Found at i:48275783 original size:40 final size:40
Alignment explanation
Indices: 48275732--48276113 Score: 511
Period size: 40 Copynumber: 9.6 Consensus size: 40
48275722 TTGAATGCTG
* * * * *
48275732 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAA
* *
48275772 TCCGGATTAAGTTCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
48275812 TCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
48275852 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* * **
48275892 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* *
48275931 TCCGGATTAAGTTCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
48275971 TCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
48276011 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* * **
48276051 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* *
48276090 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48276114 TGAACGAGGA
Statistics
Matches: 307, Mismatches: 32, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
39 68 0.22
40 231 0.75
41 8 0.03
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:48276060 original size:159 final size:159
Alignment explanation
Indices: 48275732--48276113 Score: 656
Period size: 159 Copynumber: 2.4 Consensus size: 159
48275722 TTGAATGCTG
* * * * * * *
48275732 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGTTCCGAAGGCATTC
1 TCCGGGTTATGTCCCGAAGGCATTGTG-TGAGTTACTAAATCCGGATTAAGTTCCGAAGGCATTC
48275797 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAATCCGGGTTAA
65 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAATCCGGGTTAA
48275862 GTCCCGAAGGCATTTGTGCGAGTTGTTAAA
130 GTCCCGAAGGCATTTGTGCGAGTTGTTAAA
48275892 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGATTAAGTTCCGAAGGCATTCG
1 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGATTAAGTTCCGAAGGCATTCG
48275957 TGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAATCCGGGTTAAG
66 TGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAATCCGGGTTAAG
48276022 TCCCGAAGGCATTTGTGCGAGTTGTTAAA
131 TCCCGAAGGCATTTGTGCGAGTTGTTAAA
** * *
48276051 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGATTAAGTTCCGAAGGCATT
48276114 TGAACGAGGA
Statistics
Matches: 211, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
159 187 0.89
160 24 0.11
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (159 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGATTAAGTTCCGAAGGCATTCG
TGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAATCCGGGTTAAG
TCCCGAAGGCATTTGTGCGAGTTGTTAAA
Found at i:48276134 original size:119 final size:119
Alignment explanation
Indices: 48275732--48276115 Score: 513
Period size: 119 Copynumber: 3.2 Consensus size: 119
48275722 TTGAATGCTG
* * * * * *
48275732 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGTTCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTG-TTAAATCCGGGTTAAGTCCCGAAGGCAT
* *
48275795 TCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAA
64 TTGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCAT-TGTGCGAGTTGTTAAA
*
48275852 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCA-TT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTT
* ** * *
48275916 GTGTGAGTTACTAAATCCGGATTAAGTTCCGAAGGCATTCGTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGTTAAA
**
48275971 TCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTT
* * **
48276036 GTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
66 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGTTAAA
* *
48276090 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
48276116 AACGAGGAGC
Statistics
Matches: 230, Mismatches: 30, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
119 142 0.62
120 79 0.34
121 9 0.04
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTT
GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGTTAAA
Found at i:48283829 original size:40 final size:40
Alignment explanation
Indices: 48283778--48284159 Score: 511
Period size: 40 Copynumber: 9.6 Consensus size: 40
48283768 TTGAATGCTG
* * * * *
48283778 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAA
* *
48283818 TCCGGATTAAGTTCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
48283858 TCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
48283898 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* * **
48283938 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* *
48283977 TCCGGATTAAGTTCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
48284017 TCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
48284057 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* * **
48284097 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* *
48284136 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48284160 TGAACGAGGA
Statistics
Matches: 307, Mismatches: 32, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
39 68 0.22
40 231 0.75
41 8 0.03
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:48284106 original size:159 final size:159
Alignment explanation
Indices: 48283778--48284159 Score: 656
Period size: 159 Copynumber: 2.4 Consensus size: 159
48283768 TTGAATGCTG
* * * * * * *
48283778 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGTTCCGAAGGCATTC
1 TCCGGGTTATGTCCCGAAGGCATTGTG-TGAGTTACTAAATCCGGATTAAGTTCCGAAGGCATTC
48283843 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAATCCGGGTTAA
65 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAATCCGGGTTAA
48283908 GTCCCGAAGGCATTTGTGCGAGTTGTTAAA
130 GTCCCGAAGGCATTTGTGCGAGTTGTTAAA
48283938 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGATTAAGTTCCGAAGGCATTCG
1 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGATTAAGTTCCGAAGGCATTCG
48284003 TGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAATCCGGGTTAAG
66 TGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAATCCGGGTTAAG
48284068 TCCCGAAGGCATTTGTGCGAGTTGTTAAA
131 TCCCGAAGGCATTTGTGCGAGTTGTTAAA
** * *
48284097 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGATTAAGTTCCGAAGGCATT
48284160 TGAACGAGGA
Statistics
Matches: 211, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
159 187 0.89
160 24 0.11
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (159 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGATTAAGTTCCGAAGGCATTCG
TGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAATCCGGGTTAAG
TCCCGAAGGCATTTGTGCGAGTTGTTAAA
Found at i:48284180 original size:119 final size:119
Alignment explanation
Indices: 48283778--48284161 Score: 513
Period size: 119 Copynumber: 3.2 Consensus size: 119
48283768 TTGAATGCTG
* * * * * *
48283778 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGTTCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTG-TTAAATCCGGGTTAAGTCCCGAAGGCAT
* *
48283841 TCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAA
64 TTGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCAT-TGTGCGAGTTGTTAAA
*
48283898 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCA-TT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTT
* ** * *
48283962 GTGTGAGTTACTAAATCCGGATTAAGTTCCGAAGGCATTCGTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGTTAAA
**
48284017 TCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTT
* * **
48284082 GTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
66 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGTTAAA
* *
48284136 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
48284162 AACGAGGAGC
Statistics
Matches: 230, Mismatches: 30, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
119 142 0.62
120 79 0.34
121 9 0.04
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTT
GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGTTAAA
Found at i:48285842 original size:27 final size:26
Alignment explanation
Indices: 48285807--48285958 Score: 110
Period size: 27 Copynumber: 5.7 Consensus size: 26
48285797 GACCCCAAAA
* * *
48285807 TAGGTTAAAATAACTGAAATACCCTTG
1 TAGGGTAAAATGACTGAAATACCC-CG
*
48285834 TAGGGTAAAATGACCGAAATATCCCCG
1 TAGGGTAAAATGACTGAAATA-CCCCG
*
48285861 TAGGGTAAAATGA-TCGAAATACCCCCA
1 TAGGGTAAAATGACT-GAAATA-CCCCG
* ** *
48285888 CAGGGTAAAATGACCAAAATAGCCCCA
1 TAGGGTAAAATGACTGAAATA-CCCCG
* **
48285915 TAGGATAAAATGACTGTTATACCCC-
1 TAGGGTAAAATGACTGAAATACCCCG
*
48285940 TAGGAGATGAAATGACTGA
1 TAGG-G-TAAAATGACTGA
48285959 TATGGCCTTA
Statistics
Matches: 100, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
25 4 0.04
26 4 0.04
27 89 0.89
28 3 0.03
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (26 bp):
TAGGGTAAAATGACTGAAATACCCCG
Found at i:48286101 original size:26 final size:26
Alignment explanation
Indices: 48286072--48286152 Score: 126
Period size: 26 Copynumber: 3.1 Consensus size: 26
48286062 TGGAGGAAAT
* *
48286072 ATACTGTTACTGGCAGCTTTGCTGTG
1 ATACTATTACTGGCAGCTTTGCTGCG
* *
48286098 ATACTATTATTGGCAACTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
48286124 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
48286150 ATA
1 ATA
48286153 TTAGTGTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:48300065 original size:29 final size:29
Alignment explanation
Indices: 48300030--48300145 Score: 126
Period size: 29 Copynumber: 4.0 Consensus size: 29
48300020 CGATGTATTG
* *
48300030 ACGACCATC-ACATATGAAAATGGATGTTA
1 ACGACCATCGA-ATATGAAAAGGGATGGTA
*
48300059 ACGACCATCGAATATGAAAAGGGATGGTG
1 ACGACCATCGAATATGAAAAGGGATGGTA
* *
48300088 ACAACCATCGAATATGAAAAGGGATGGTT
1 ACGACCATCGAATATGAAAAGGGATGGTA
* ** *
48300117 TCGACCATCGTTTAAAGAAAAGGGATGGT
1 ACGACCATCGAAT-ATGAAAAGGGATGGT
48300146 TTCAACAAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
29 60 0.80
30 15 0.20
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (29 bp):
ACGACCATCGAATATGAAAAGGGATGGTA
Found at i:48300123 original size:58 final size:59
Alignment explanation
Indices: 48300028--48300145 Score: 143
Period size: 58 Copynumber: 2.0 Consensus size: 59
48300018 AACGATGTAT
* * *
48300028 TGACGACCATCACATATGAAAATGGATGTTAACGACCATCGAAT-ATGAAAAGGGATGG
1 TGACAACCATCACATATGAAAAGGGATGTTAACGACCATCGAATAAAGAAAAGGGATGG
* **
48300086 TGACAACCATCGA-ATATGAAAAGGGATGGTT-TCGACCATCGTTTAAAGAAAAGGGATGG
1 TGACAACCATC-ACATATGAAAAGGGAT-GTTAACGACCATCGAATAAAGAAAAGGGATGG
48300145 T
1 T
48300146 TTCAACAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
58 33 0.65
59 18 0.35
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (59 bp):
TGACAACCATCACATATGAAAAGGGATGTTAACGACCATCGAATAAAGAAAAGGGATGG
Found at i:48306194 original size:29 final size:30
Alignment explanation
Indices: 48306142--48306229 Score: 115
Period size: 29 Copynumber: 3.0 Consensus size: 30
48306132 CGACGTATCA
*
48306142 ACGAGCATCGATTAATGAAAAGGGATGGTG
1 ACGACCATCGATTAATGAAAAGGGATGGTG
* * *
48306172 ACGACCATCGAAT-ATGAAGAGGGATGGTT
1 ACGACCATCGATTAATGAAAAGGGATGGTG
* *
48306201 TCGACCATCGATTAAAGAAAAGGGATGGT
1 ACGACCATCGATTAATGAAAAGGGATGGT
48306230 TTTGACCATC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 25 0.51
30 24 0.49
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.20
Consensus pattern (30 bp):
ACGACCATCGATTAATGAAAAGGGATGGTG
Found at i:48306227 original size:30 final size:30
Alignment explanation
Indices: 48306147--48306239 Score: 125
Period size: 30 Copynumber: 3.1 Consensus size: 30
48306137 TATCAACGAG
**
48306147 CATCGATTAATGAAAAGGGATGGTGACGAC
1 CATCGATTAATGAAAAGGGATGGTTTCGAC
* *
48306177 CATCGAAT-ATGAAGAGGGATGGTTTCGAC
1 CATCGATTAATGAAAAGGGATGGTTTCGAC
* *
48306206 CATCGATTAAAGAAAAGGGATGGTTTTGAC
1 CATCGATTAATGAAAAGGGATGGTTTCGAC
48306236 CATC
1 CATC
48306240 ATTTAGCACA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
29 25 0.46
30 29 0.54
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (30 bp):
CATCGATTAATGAAAAGGGATGGTTTCGAC
Found at i:48309902 original size:22 final size:22
Alignment explanation
Indices: 48309877--48309923 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
48309867 CTAAGAACCG
* * *
48309877 TAAACAGGATAGCTATAAGCTA
1 TAAACAGAATAGCTACAAGCCA
*
48309899 TAAACAGAATGGCTACAAGCCA
1 TAAACAGAATAGCTACAAGCCA
48309921 TAA
1 TAA
48309924 GTACAGTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (22 bp):
TAAACAGAATAGCTACAAGCCA
Found at i:48309966 original size:32 final size:32
Alignment explanation
Indices: 48309915--48310111 Score: 181
Period size: 32 Copynumber: 6.3 Consensus size: 32
48309905 GAATGGCTAC
* * *
48309915 AAGCCATAAGTA-CAGTAATATGATTGGCACA
1 AAGCCATCAGTAGTAGTAATATGATCGGCACA
* *
48309946 AA-ACACTCAGTAGTAGTAATATGGTCGGCACA
1 AAGCCA-TCAGTAGTAGTAATATGATCGGCACA
* *
48309978 CAGCCATCAGTAGTAG---TATGATCGACACA
1 AAGCCATCAGTAGTAGTAATATGATCGGCACA
* *
48310007 AAGCCATCAGTAGTAGTAATATGATCAGCATA
1 AAGCCATCAGTAGTAGTAATATGATCGGCACA
* * * *
48310039 AAGCCATCAGTAATGGTAATATGATTGACACA
1 AAGCCATCAGTAGTAGTAATATGATCGGCACA
* * * *
48310071 CAA-CCATCAGTAATGGAAATATGACCGGCACA
1 -AAGCCATCAGTAGTAGTAATATGATCGGCACA
48310103 AAGCCATCA
1 AAGCCATCA
48310112 ATAGCATCGC
Statistics
Matches: 135, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
29 26 0.19
30 2 0.01
31 9 0.07
32 94 0.70
33 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAGTAGTAATATGATCGGCACA
Found at i:48309989 original size:26 final size:28
Alignment explanation
Indices: 48309965--48310050 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 28
48309955 GTAGTAGTAA
* * *
48309965 TATGGTCGGCACACAGCCATCAGTAGTAG
1 TATGATCGACACAAAGCCATCAGTAG-AG
48309994 TATGATCGACACAAAGCCATCAGTAGTAG
1 TATGATCGACACAAAGCCATCAGTAG-AG
*
48310023 TAATATGATC-AGCATAAAGCCATCAGTA
1 ---TATGATCGA-CACAAAGCCATCAGTA
48310051 ATGGTAATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 26 0.53
31 1 0.02
32 22 0.45
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (28 bp):
TATGATCGACACAAAGCCATCAGTAGAG
Found at i:48310078 original size:64 final size:60
Alignment explanation
Indices: 48309928--48310111 Score: 206
Period size: 61 Copynumber: 3.0 Consensus size: 60
48309918 CCATAAGTAC
* * * *
48309928 AGTAATATGATTGGCACAAAACACTCAGTAGTAGTAATATGGTCGGCACACAGCCATCAGT
1 AGTAATATGATTGACACAAACCA-TCAGTAGTAGTAATATGATCGGCACAAAGCCATCAGT
* * * *
48309989 AGTAGTATGATCGACACAAAGCCATCAGTAGTAGTAATATGATCAGCATAAAGCCATCAGT
1 AGTAATATGATTGACACAAA-CCATCAGTAGTAGTAATATGATCGGCACAAAGCCATCAGT
* * * *
48310050 AATGGTAATATGATTGACACACAACCATCAGTAATGGAAATATGACCGGCACAAAGCCATCA
1 -A--GTAATATGATTGACACA-AACCATCAGTAGTAGTAATATGATCGGCACAAAGCCATCA
48310112 ATAGCATCGC
Statistics
Matches: 102, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
61 50 0.49
62 3 0.03
64 47 0.46
65 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (60 bp):
AGTAATATGATTGACACAAACCATCAGTAGTAGTAATATGATCGGCACAAAGCCATCAGT
Found at i:48310166 original size:26 final size:26
Alignment explanation
Indices: 48310117--48310170 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
48310107 CATCAATAGC
* *
48310117 ATCGCAGCAAAGCTGTCAGCAACAGT
1 ATCGCAGCAAAGCTGCCAACAACAGT
* *
48310143 ATCGCAGTAAAGCTGCCAATAACAGT
1 ATCGCAGCAAAGCTGCCAACAACAGT
48310169 AT
1 AT
48310171 ATGTGGCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAACAACAGT
Found at i:48310202 original size:27 final size:27
Alignment explanation
Indices: 48310162--48310217 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
48310152 AAGCTGCCAA
*
48310162 TAACAGTATATGTGGCCA-AGTCACCAG
1 TAACAGTATATGTGG-CAGAGCCACCAG
48310189 TAACAGTGAT-TGTGGCAGAGCCACCAG
1 TAACAGT-ATATGTGGCAGAGCCACCAG
48310216 TA
1 TA
48310218 TAGTACTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 2 0.08
27 22 0.85
28 2 0.08
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
TAACAGTATATGTGGCAGAGCCACCAG
Found at i:48310317 original size:24 final size:24
Alignment explanation
Indices: 48310285--48310343 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
48310275 GCCATGCATG
*
48310285 AAATTAGTCATACAAATCACAAAC
1 AAATCAGTCATACAAATCACAAAC
** *
48310309 AAATCAGTCATTTAAATCACAGAC
1 AAATCAGTCATACAAATCACAAAC
48310333 AAATCAGTCAT
1 AAATCAGTCAT
48310344 TTACATCTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (24 bp):
AAATCAGTCATACAAATCACAAAC
Found at i:48310362 original size:24 final size:24
Alignment explanation
Indices: 48310298--48310346 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
48310288 TTAGTCATAC
*
48310298 AAATCACAAACAAATCAGTCATTT
1 AAATCACAGACAAATCAGTCATTT
48310322 AAATCACAGACAAATCAGTCATTT
1 AAATCACAGACAAATCAGTCATTT
48310346 A
1 A
48310347 CATCTCGGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.20, G:0.06, T:0.24
Consensus pattern (24 bp):
AAATCACAGACAAATCAGTCATTT
Found at i:48310576 original size:27 final size:27
Alignment explanation
Indices: 48310389--48310570 Score: 249
Period size: 27 Copynumber: 6.7 Consensus size: 27
48310379 GGGCAAAATA
* *
48310389 GTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
48310416 ATCATTTTACCCTACAGGGGAATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
48310443 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
48310470 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
48310497 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * * **
48310524 ATCATTTTACCATTCGGGGGTATTTTG
1 GTCATTTTACCCTACAGGGGCATTACG
48310551 GTCATTTTACCTCT-CAGGGG
1 GTCATTTTACC-CTACAGGGG
48310571 TATTTTATAA
Statistics
Matches: 139, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
27 138 0.99
28 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:48319085 original size:50 final size:50
Alignment explanation
Indices: 48318972--48319169 Score: 189
Period size: 50 Copynumber: 3.8 Consensus size: 50
48318962 ATTTGGGTAA
* * * *
48318972 AGAGATCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---A-G--ATG
* * *
48319028 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* ** * * *
48319078 ACAGGTCCCCCGTAAAACCATGTCTGGGACATGGCATGGGCACCAATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** * *
48319128 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
48319170 GTACAAGAAA
Statistics
Matches: 117, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
50 77 0.66
52 1 0.01
53 1 0.01
56 38 0.32
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:48337944 original size:42 final size:44
Alignment explanation
Indices: 48337854--48337945 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 44
48337844 ATTATGTGTC
* * * *
48337854 TTATCCAATGGTAAACCAACCACTTGGAACAAATATTTTGTCAA
1 TTATCCAACGGTAAAACAACCACTTGGAACAAATAGTTTGTAAA
48337898 --ATCCAACGGTAAAACAACCGA-TTGGAACAAAT-GTTT-TAAA
1 TTATCCAACGGTAAAACAACC-ACTTGGAACAAATAGTTTGTAAA
48337938 TTATCCAA
1 TTATCCAA
48337946 TTTTAAATCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
40 3 0.07
41 3 0.07
42 34 0.83
43 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (44 bp):
TTATCCAACGGTAAAACAACCACTTGGAACAAATAGTTTGTAAA
Found at i:48343185 original size:42 final size:43
Alignment explanation
Indices: 48343095--48343208 Score: 112
Period size: 42 Copynumber: 2.7 Consensus size: 43
48343085 ATTATAAGTC
* * *
48343095 TTATCCAATGGTAAACCAACCACTTGGAACAAATGTTTTGTCAA
1 TTATCCAACGATAAACCAACCA-TTGGAACAAATGTTTTGTAAA
*
48343139 --ATCCAACGATAAAACAACCGATTGGAACAAATG-TTT-TAAA
1 TTATCCAACGATAAACCAACC-ATTGGAACAAATGTTTTGTAAA
*
48343179 TTATCCAATGGA-AAACCAACCAATTGGAAC
1 TTATCCAA-CGATAAACCAACC-ATTGGAAC
48343209 TTTTTCAAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
40 3 0.05
41 3 0.05
42 50 0.85
43 3 0.05
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (43 bp):
TTATCCAACGATAAACCAACCATTGGAACAAATGTTTTGTAAA
Found at i:48348473 original size:27 final size:27
Alignment explanation
Indices: 48348418--48348473 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
48348408 GCTTAAATTA
***
48348418 ATGGCCGCTTCCATCACTGCTTGTGTC
1 ATGGCCGCTTCCATCACTGCTTACATC
* *
48348445 ATGGCTGCTTTCATCACTGCTTACATC
1 ATGGCCGCTTCCATCACTGCTTACATC
48348472 AT
1 AT
48348474 CATTGTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (27 bp):
ATGGCCGCTTCCATCACTGCTTACATC
Found at i:48349936 original size:42 final size:41
Alignment explanation
Indices: 48349889--48349996 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 41
48349879 TGAAAAAGAA
*
48349889 GTTCCAATTGGTTGGTTTACCATTATATAATTT-AAAACATTT
1 GTTCCAATTGGTTGGTTTACCATT-T-GAATTTAAAAACATTT
* * * *
48349931 GTTCCAGTCGGTTGTTTTACC-TTTGGATTTGACAAAACATTT
1 GTTCCAATTGGTTGGTTTACCATTTGAATTT-A-AAAACATTT
*
48349973 GTTCCAACTGGTTGGTTTACCATT
1 GTTCCAATTGGTTGGTTTACCATT
48349997 GGATAAGACA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 4 0.08
40 1 0.02
41 2 0.04
42 44 0.83
43 2 0.04
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.44
Consensus pattern (41 bp):
GTTCCAATTGGTTGGTTTACCATTTGAATTTAAAAACATTT
Found at i:48352315 original size:30 final size:30
Alignment explanation
Indices: 48352281--48352341 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
48352271 TATTTCCTAA
48352281 TTTCCATTTGACTGGCTTATAATATTTTTT
1 TTTCCATTTGACTGGCTTATAATATTTTTT
*
48352311 TTTCCATTTGACTGGCTTATAGTATTTTTT
1 TTTCCATTTGACTGGCTTATAATATTTTTT
48352341 T
1 T
48352342 CTTTCTATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.57
Consensus pattern (30 bp):
TTTCCATTTGACTGGCTTATAATATTTTTT
Found at i:48359100 original size:46 final size:46
Alignment explanation
Indices: 48359082--48359321 Score: 225
Period size: 46 Copynumber: 5.3 Consensus size: 46
48359072 TGACAAGTGG
* * *
48359082 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
48359128 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
48359174 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* *
48359226 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
*
48359272 AAAGTGATAA--G-T-G-----GCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
48359309 AAAGTGATAAGTG
1 AAAGTGATAAGTG
48359322 GCTACACTTA
Statistics
Matches: 179, Mismatches: 6, Indels: 25
0.85 0.03 0.12
Matches are distributed among these distances:
37 34 0.19
39 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 96 0.54
47 1 0.01
52 44 0.25
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:48359101 original size:52 final size:48
Alignment explanation
Indices: 48359082--48359284 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
48359072 TGACAAGTGG
* *
48359082 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
48359128 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
48359180 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
48359226 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
48359272 AAAGTGATAAGTG
1 AAAGTGATAAGTG
48359285 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:48359136 original size:98 final size:98
Alignment explanation
Indices: 48359016--48359284 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
48359006 TTTGAGTACT
*
48359016 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
48359081 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
48359114 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
48359179 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
48359212 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
48359277 GATAAGTG
65 GAAAAGTG
48359285 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:48359292 original size:37 final size:37
Alignment explanation
Indices: 48359248--48359393 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
48359238 GATAGCTTTA
48359248 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
48359285 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
48359322 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
48359359 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
48359394 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:48362679 original size:23 final size:22
Alignment explanation
Indices: 48362636--48362679 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
48362626 TTCTAAGTCG
48362636 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
48362659 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
48362680 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:48362917 original size:51 final size:49
Alignment explanation
Indices: 48362823--48363008 Score: 174
Period size: 51 Copynumber: 3.7 Consensus size: 49
48362813 TCGGTTCACA
* ** * *
48362823 TAGTAGCCTGCACATAGTACTATACATATGACCATTACCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA--AACATCTGGTACACG
* * * * *
48362874 TAGTAGTCTACACATAGTACTACACACGTGATCGAAACTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCAAAC-ATCTGGTACACG
** * * * * *
48362925 TAGTAGCCTGTGCATAGTACTACACATGCGACCTATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAAACA-TCTGGTACACG
48362975 TAGTAGCCTGCACATAGTACTACACACGTGACCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA
48363009 TCACTTTCAC
Statistics
Matches: 105, Mismatches: 27, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
49 1 0.01
50 42 0.40
51 60 0.57
52 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCAAACATCTGGTACACG
Found at i:48364976 original size:11 final size:11
Alignment explanation
Indices: 48364960--48364986 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
48364950 CCAATCGCAA
48364960 AAAAAAAAAAG
1 AAAAAAAAAAG
48364971 AAAAAAAAAAG
1 AAAAAAAAAAG
48364982 AAAAA
1 AAAAA
48364987 CCAATCAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:48367326 original size:17 final size:17
Alignment explanation
Indices: 48367304--48367336 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
48367294 TATGAATCAC
48367304 TAAGCTAAACCTTCAAT
1 TAAGCTAAACCTTCAAT
*
48367321 TAAGCTAAATCTTCAA
1 TAAGCTAAACCTTCAA
48367337 AGGGTACTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.30
Consensus pattern (17 bp):
TAAGCTAAACCTTCAAT
Found at i:48369145 original size:33 final size:33
Alignment explanation
Indices: 48369100--48369174 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
48369090 ATTTTTTTAA
48369100 AATAT-AAAATTTTAAAAAAATCCTAAAA-AAT
1 AATATAAAAATTTTAAAAAAATCCTAAAATAAT
* *
48369131 ATATATAAAAATTTTAAAAATATTCTAAAATAAT
1 A-ATATAAAAATTTTAAAAAAATCCTAAAATAAT
*
48369165 AATTTAAAAA
1 AATATAAAAA
48369175 CTAAATAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 1 0.03
32 4 0.11
33 29 0.76
34 4 0.11
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (33 bp):
AATATAAAAATTTTAAAAAAATCCTAAAATAAT
Found at i:48372289 original size:35 final size:35
Alignment explanation
Indices: 48372190--48372289 Score: 137
Period size: 35 Copynumber: 2.9 Consensus size: 35
48372180 GAGTGACACT
* * * *
48372190 GTGTAAACGATATATAGGTCATTTGGGGCAACAAC
1 GTGTAAACGGTACATAGGTCCTTTGGGGCGACAAC
* *
48372225 ATGTAAATGGTACATAGGTCCTTTGGGGCGACAAC
1 GTGTAAACGGTACATAGGTCCTTTGGGGCGACAAC
*
48372260 GTGTAAACGGTACATAGGTCCTTCGGGGCG
1 GTGTAAACGGTACATAGGTCCTTTGGGGCG
48372290 GCACCTCGAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (35 bp):
GTGTAAACGGTACATAGGTCCTTTGGGGCGACAAC
Found at i:48374517 original size:9 final size:9
Alignment explanation
Indices: 48374503--48374532 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
48374493 ATAAAATATA
48374503 TTATTATTG
1 TTATTATTG
48374512 TTATTATTG
1 TTATTATTG
48374521 TTATTA-TG
1 TTATTATTG
48374529 TTAT
1 TTAT
48374533 AAATTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.29
9 15 0.71
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (9 bp):
TTATTATTG
Found at i:48375036 original size:10 final size:10
Alignment explanation
Indices: 48375021--48375065 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
48375011 ATGAAAGCAT
48375021 AAAAAGAAAC
1 AAAAAGAAAC
*
48375031 AAAAAGAAAT
1 AAAAAGAAAC
*
48375041 AGAAAGAAAC
1 AAAAAGAAAC
*
48375051 AGAATAGAAAC
1 A-AAAAGAAAC
48375062 AAAA
1 AAAA
48375066 CAGGGAGAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
10 20 0.71
11 8 0.29
ACGTcount: A:0.76, C:0.07, G:0.13, T:0.04
Consensus pattern (10 bp):
AAAAAGAAAC
Found at i:48375054 original size:16 final size:15
Alignment explanation
Indices: 48375025--48375065 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
48375015 AAGCATAAAA
48375025 AGAAACAAAAAGAAAT
1 AGAAACAAAAAG-AAT
* *
48375041 AGAAAGAAACAGAAT
1 AGAAACAAAAAGAAT
48375056 AGAAACAAAA
1 AGAAACAAAA
48375066 CAGGGAGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.73, C:0.07, G:0.15, T:0.05
Consensus pattern (15 bp):
AGAAACAAAAAGAAT
Found at i:48375066 original size:16 final size:17
Alignment explanation
Indices: 48375025--48375068 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
48375015 AAGCATAAAA
48375025 AGAAACAAAA-AGAAAT
1 AGAAACAAAACAGAAAT
*
48375041 AGAAA-GAAACAG-AAT
1 AGAAACAAAACAGAAAT
48375056 AGAAACAAAACAG
1 AGAAACAAAACAG
48375069 GGAGAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.70, C:0.09, G:0.16, T:0.05
Consensus pattern (17 bp):
AGAAACAAAACAGAAAT
Found at i:48376065 original size:37 final size:39
Alignment explanation
Indices: 48375974--48376065 Score: 98
Period size: 41 Copynumber: 2.4 Consensus size: 39
48375964 GACCTCGGGT
* * **
48375974 CGATGAGACACTGAGTGTCACTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTATCAC--TTTTACTTCGGATAGAGC
* *
48376015 CGATGAGATACTGGGTATCAC-TTTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTATCACTTTTACTTCGGATAGAGC
48376052 CGATGAGACACTGG
1 CGATGAGACACTGG
48376066 ATGTCAACTT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 13 0.30
38 13 0.30
41 18 0.41
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTATCACTTTTACTTCGGATAGAGC
Found at i:48376076 original size:38 final size:39
Alignment explanation
Indices: 48375974--48376082 Score: 98
Period size: 38 Copynumber: 2.8 Consensus size: 39
48375964 GACCTCGGGT
* **
48375974 CGATGAGACACT-GAGTGTCACTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGA-TGTCA--ACTTTACTTCGGATAGAGC
* * * *
48376015 CGATGAGATACTGGGTATC-ACTTTACTTCGGCTAG-GC
1 CGATGAGACACTGGATGTCAACTTTACTTCGGATAGAGC
*
48376052 CGATGAGACACTGGATGTCAACTTTGCTTCG
1 CGATGAGACACTGGATGTCAACTTTACTTCG
48376083 AACTATCTGA
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
37 16 0.29
38 24 0.44
41 14 0.25
42 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (39 bp):
CGATGAGACACTGGATGTCAACTTTACTTCGGATAGAGC
Found at i:48382002 original size:334 final size:334
Alignment explanation
Indices: 48381393--48382064 Score: 1335
Period size: 334 Copynumber: 2.0 Consensus size: 334
48381383 CCCCCTTTTC
48381393 TTCTAATAATTAAAGACAAACAGCCTTCTTCAATTTACTAGACATAACCTTTACCCAGATTTGTT
1 TTCTAATAATTAAAGACAAACAGCCTTCTTCAATTTACTAGACATAACCTTTACCCAGATTTGTT
48381458 CCTCAAGTCTATTTAACCCATATTTTGAATTTGCCACATGCTCTGGCGCATTCCAGTTTCTCCAT
66 CCTCAAGTCTATTTAACCCATATTTTGAATTTGCCACATGCTCTGGCGCATTCCAGTTTCTCCAT
*
48381523 TCTTATCTTAAGATCATATAGGATCCGCCTGAACAACTCATTTAGAGCTCTTCACAAAGAAAGAT
131 TCTTATCTTAAGATCATATAGGATCCGCCCGAACAACTCATTTAGAGCTCTTCACAAAGAAAGAT
48381588 CATTCAATTATCTTATTGAAAGTGTAACATGATAAGCCACAAGGGATTTTCCTTCAAGGTTCGTC
196 CATTCAATTATCTTATTGAAAGTGTAACATGATAAGCCACAAGGGATTTTCCTTCAAGGTTCGTC
48381653 ATGCCTCCATTCCTTCAGAGTTTGCCATACATACTAGCCCTTCTATGCTTACCACACATACTATC
261 ATGCCTCCATTCCTTCAGAGTTTGCCATACATACTAGCCCTTCTATGCTTACCACACATACTATC
48381718 CCTTTAGAG
326 CCTTTAGAG
48381727 TTCTAATAATTAAAGACAAACAGCCTTCTTCAATTTACTAGACATAACCTTTACCCAGATTTGTT
1 TTCTAATAATTAAAGACAAACAGCCTTCTTCAATTTACTAGACATAACCTTTACCCAGATTTGTT
48381792 CCTCAAGTCTATTTAACCCATATTTTGAATTTGCCACATGCTCTGGCGCATTCCAGTTTCTCCAT
66 CCTCAAGTCTATTTAACCCATATTTTGAATTTGCCACATGCTCTGGCGCATTCCAGTTTCTCCAT
48381857 TCTTATCTTAAGATCATATAGGATCCGCCCGAACAACTCATTTAGAGCTCTTCACAAAGAAAGAT
131 TCTTATCTTAAGATCATATAGGATCCGCCCGAACAACTCATTTAGAGCTCTTCACAAAGAAAGAT
48381922 CATTCAATTATCTTATTGAAAGTGTAACATGATAAGCCACAAGGGATTTTCCTTCAAGGTTCGTC
196 CATTCAATTATCTTATTGAAAGTGTAACATGATAAGCCACAAGGGATTTTCCTTCAAGGTTCGTC
48381987 ATGCCTCCATTCCTTCAGAGTTTGCCATACATACTAGCCCTTCTATGCTTACCACACATACTATC
261 ATGCCTCCATTCCTTCAGAGTTTGCCATACATACTAGCCCTTCTATGCTTACCACACATACTATC
48382052 CCTTTAGAG
326 CCTTTAGAG
48382061 TTCT
1 TTCT
48382065 TTGAGAACAC
Statistics
Matches: 337, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
334 337 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (334 bp):
TTCTAATAATTAAAGACAAACAGCCTTCTTCAATTTACTAGACATAACCTTTACCCAGATTTGTT
CCTCAAGTCTATTTAACCCATATTTTGAATTTGCCACATGCTCTGGCGCATTCCAGTTTCTCCAT
TCTTATCTTAAGATCATATAGGATCCGCCCGAACAACTCATTTAGAGCTCTTCACAAAGAAAGAT
CATTCAATTATCTTATTGAAAGTGTAACATGATAAGCCACAAGGGATTTTCCTTCAAGGTTCGTC
ATGCCTCCATTCCTTCAGAGTTTGCCATACATACTAGCCCTTCTATGCTTACCACACATACTATC
CCTTTAGAG
Found at i:48382294 original size:27 final size:27
Alignment explanation
Indices: 48382235--48382307 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
48382225 ATAAAGCGTC
* *
48382235 ACAAAGGCTTCAATTTCATAAACAGCC
1 ACAAAGGCTTCAATTTCATAAACAACA
* * *
48382262 ACAAAGGCTTCCATTTCATAGATAACA
1 ACAAAGGCTTCAATTTCATAAACAACA
* * *
48382289 ATAAAGGTTTCTATTTCAT
1 ACAAAGGCTTCAATTTCAT
48382308 GGCATGTTCA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
ACAAAGGCTTCAATTTCATAAACAACA
Found at i:48386702 original size:43 final size:43
Alignment explanation
Indices: 48386641--48386787 Score: 165
Period size: 43 Copynumber: 3.5 Consensus size: 43
48386631 CAGTAATTTT
48386641 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTAC
* *
48386684 GTGTAAGACCATGTCTGGGACATTGGCA-CCATAT-ATAATT-C
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGA-GATTAC
* * ** * *
48386725 GTGTAAGACCCTGTCTGAGACAGAGGCATCGATATGTGATAAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTAC
* * *
48386768 ATGTAAAACCATATCTGGGA
1 GTGTAAGACCATGTCTGGGA
48386788 TATGACATTG
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 26 0.31
42 15 0.18
43 44 0.52
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTAC
Found at i:48394918 original size:3 final size:3
Alignment explanation
Indices: 48394910--48394935 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
48394900 TTCTTTGTCT
48394910 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
48394936 TTTAAGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:48401546 original size:27 final size:27
Alignment explanation
Indices: 48401508--48401840 Score: 407
Period size: 27 Copynumber: 12.4 Consensus size: 27
48401498 GGACCTTTCA
*
48401508 TAGGGTAAAATGATCAAATTACCCTCG
1 TAGGGTAAAATGATCGAATTACCCTCG
*
48401535 TAGGGTAAAATGA-CTAAATTACCCTCG
1 TAGGGTAAAATGATC-GAATTACCCTCG
*
48401562 TAAGGTAAAATGATCGAATTAGCCC-CG
1 TAGGGTAAAATGATCGAATTA-CCCTCG
* * *
48401589 TAGGGTAAAATGACCAAATTACCC-AG
1 TAGGGTAAAATGATCGAATTACCCTCG
48401615 TAGGGTAAAATGATCGAATTACCCT-G
1 TAGGGTAAAATGATCGAATTACCCTCG
**
48401641 ATAGGGTAAAATGATCGAATTACCCTTA
1 -TAGGGTAAAATGATCGAATTACCCTCG
* *
48401669 TAGGGTAAAATTACCGAATTACCCTCG
1 TAGGGTAAAATGATCGAATTACCCTCG
48401696 TAGGGTAAAATGA-CTGAATTACCCTCG
1 TAGGGTAAAATGATC-GAATTACCCTCG
48401723 TAGGGTAAAATGATCGAATTACCC-CTG
1 TAGGGTAAAATGATCGAATTACCCTC-G
*
48401750 TAGGGTAAAATGA-CTGAATTACCCCCG
1 TAGGGTAAAATGATC-GAATTACCCTCG
* *
48401777 TAGGGTAAAATGACCGAATTACCCT-T
1 TAGGGTAAAATGATCGAATTACCCTCG
48401803 TAGGGTAAAATGA-CTGAATTACCC-CG
1 TAGGGTAAAATGATC-GAATTACCCTCG
48401829 ATAGGGTAAAAT
1 -TAGGGTAAAAT
48401841 AATGACTGTT
Statistics
Matches: 274, Mismatches: 17, Indels: 30
0.85 0.05 0.09
Matches are distributed among these distances:
25 1 0.00
26 53 0.19
27 213 0.78
28 7 0.03
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
TAGGGTAAAATGATCGAATTACCCTCG
Found at i:48401575 original size:54 final size:54
Alignment explanation
Indices: 48401508--48401840 Score: 455
Period size: 54 Copynumber: 6.2 Consensus size: 54
48401498 GGACCTTTCA
* *
48401508 TAGGGTAAAATGATCAAATTACCCTCGTAGGGTAAAATGACTAAATTACCCTCG
1 TAGGGTAAAATGATCGAATTACCCTCGTAGGGTAAAATGACTGAATTACCCTCG
* ** *
48401562 TAAGGTAAAATGATCGAATTAGCCC-CGTAGGGTAAAATGACCAAATTACCC-AG
1 TAGGGTAAAATGATCGAATTA-CCCTCGTAGGGTAAAATGACTGAATTACCCTCG
**
48401615 TAGGGTAAAATGATCGAATTACCCT-GATAGGGTAAAATGA-TCGAATTACCCTTA
1 TAGGGTAAAATGATCGAATTACCCTCG-TAGGGTAAAATGACT-GAATTACCCTCG
* *
48401669 TAGGGTAAAATTACCGAATTACCCTCGTAGGGTAAAATGACTGAATTACCCTCG
1 TAGGGTAAAATGATCGAATTACCCTCGTAGGGTAAAATGACTGAATTACCCTCG
*
48401723 TAGGGTAAAATGATCGAATTACCC-CTGTAGGGTAAAATGACTGAATTACCCCCG
1 TAGGGTAAAATGATCGAATTACCCTC-GTAGGGTAAAATGACTGAATTACCCTCG
* *
48401777 TAGGGTAAAATGACCGAATTACCCT-TTAGGGTAAAATGACTGAATTACCC-CG
1 TAGGGTAAAATGATCGAATTACCCTCGTAGGGTAAAATGACTGAATTACCCTCG
48401829 ATAGGGTAAAAT
1 -TAGGGTAAAAT
48401841 AATGACTGTT
Statistics
Matches: 251, Mismatches: 18, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
52 6 0.02
53 78 0.31
54 162 0.65
55 5 0.02
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (54 bp):
TAGGGTAAAATGATCGAATTACCCTCGTAGGGTAAAATGACTGAATTACCCTCG
Found at i:48401772 original size:161 final size:161
Alignment explanation
Indices: 48401507--48401840 Score: 512
Period size: 161 Copynumber: 2.1 Consensus size: 161
48401497 CGGACCTTTC
*
48401507 ATAGGGTAAAATGATCAAATTACCCTCGTAGGGTAAAATGACTAAATTACCCTCGTAAGGTAAAA
1 ATAGGGTAAAATGACCAAATTACCCTCGTAGGGTAAAATGACTAAATTACCCTCGTAAGGTAAAA
*
48401572 TGATCGAATTAGCCCCGTAGGGTAAAATGACCAAATTA-CCCAGTAGGGTAAAATGATCGAATTA
66 TGATCGAATTAGCCCCGTAGGGTAAAATGACCAAATTACCCCAGTAGGGTAAAATGACCGAATTA
**
48401636 CCCTGATAGGGTAAAATGA-TCGAATTACCCTT
131 CCCT-ATAGGGTAAAATGACT-GAATTACCCCG
* * * *
48401668 ATAGGGTAAAATTACCGAATTACCCTCGTAGGGTAAAATGACTGAATTACCCTCGTAGGGTAAAA
1 ATAGGGTAAAATGACCAAATTACCCTCGTAGGGTAAAATGACTAAATTACCCTCGTAAGGTAAAA
** *
48401733 TGATCGAATTA-CCCCTGTAGGGTAAAATGACTGAATTACCCCCGTAGGGTAAAATGACCGAATT
66 TGATCGAATTAGCCCC-GTAGGGTAAAATGACCAAATTACCCCAGTAGGGTAAAATGACCGAATT
*
48401797 ACCCTTTAGGGTAAAATGACTGAATTACCCCG
130 ACCCTATAGGGTAAAATGACTGAATTACCCCG
48401829 ATAGGGTAAAAT
1 ATAGGGTAAAAT
48401841 AATGACTGTT
Statistics
Matches: 158, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
160 4 0.03
161 125 0.79
162 29 0.18
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (161 bp):
ATAGGGTAAAATGACCAAATTACCCTCGTAGGGTAAAATGACTAAATTACCCTCGTAAGGTAAAA
TGATCGAATTAGCCCCGTAGGGTAAAATGACCAAATTACCCCAGTAGGGTAAAATGACCGAATTA
CCCTATAGGGTAAAATGACTGAATTACCCCG
Found at i:48402028 original size:26 final size:26
Alignment explanation
Indices: 48401998--48402050 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
48401988 GGAAGTATAC
*
48401998 TGTTACTGGTAGCTTTGCTGCGATAT
1 TGTTACTGGCAGCTTTGCTGCGATAT
48402024 TGTTACTGGCAGCTTTGCTGCGATAT
1 TGTTACTGGCAGCTTTGCTGCGATAT
48402050 T
1 T
48402051 ATTGTGTCGG
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:0.15, C:0.17, G:0.26, T:0.42
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGCTGCGATAT
Found at i:48403990 original size:45 final size:45
Alignment explanation
Indices: 48403926--48404113 Score: 227
Period size: 45 Copynumber: 4.2 Consensus size: 45
48403916 TACTACGTGT
* * *
48403926 ACCGGGTACCATTGATTATAAAGGTGGTTGTTGTGTGTTAATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGTTGATTCC
* *
48403971 ACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTAC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGTTGATTCC
* * * *
48404016 ACCGGGTACCATTGATTATGAAGGTGGTTGCTATGTGATGATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGTTGATTCC
** * * *
48404061 ACCTAGTATCATTAACTATAAAGGTGG-TACTGTGTGTTGA-TCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGTTGATTCC
*
48404104 ACCGTGTATC
1 ACCGGGTATC
48404114 TGTTATTATT
Statistics
Matches: 122, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
43 11 0.09
44 10 0.08
45 101 0.83
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.35
Consensus pattern (45 bp):
ACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGTTGATTCC
Found at i:48408125 original size:20 final size:20
Alignment explanation
Indices: 48408100--48408137 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48408090 TTCCACGAGC
*
48408100 TTAGGCCGTAATGGGCCACA
1 TTAGGCCGAAATGGGCCACA
*
48408120 TTAGGCTGAAATGGGCCA
1 TTAGGCCGAAATGGGCCA
48408138 TGTGGGCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (20 bp):
TTAGGCCGAAATGGGCCACA
Found at i:48408657 original size:27 final size:27
Alignment explanation
Indices: 48408387--48408655 Score: 292
Period size: 27 Copynumber: 10.0 Consensus size: 27
48408377 AAGACCCTAA
**
48408387 CATA-GGTAAAATGACCAAAATACCCC
1 CATAGGGTAAAATGACTGAAATACCCC
* *
48408413 CATAAGGTAAAATGACTGAAATACCCT
1 CATAGGGTAAAATGACTGAAATACCCC
*
48408440 CATAAGGTAAAATGACTGAAATACCCC
1 CATAGGGTAAAATGACTGAAATACCCC
* * *
48408467 CATAGAGTATAATAACTGAAATACCCC
1 CATAGGGTAAAATGACTGAAATACCCC
* *
48408494 TATAGGGTAGAATGACCT-AAATACCCC
1 CATAGGGTAAAATGA-CTGAAATACCCC
**
48408521 CATAGGGTAAAATGACCAAAATACCCC
1 CATAGGGTAAAATGACTGAAATACCCC
* * * *
48408548 CATAAGGTAGAATGACCGAAATACCTC
1 CATAGGGTAAAATGACTGAAATACCCC
* *
48408575 CATAGGGTAGAATGATTGAAATACCCC
1 CATAGGGTAAAATGACTGAAATACCCC
* *
48408602 CACAGGGTAGAATGA-TCGAAATACCCC
1 CATAGGGTAAAATGACT-GAAATACCCC
* **
48408629 TATAGGGTAAAATGACTGTTATACCCC
1 CATAGGGTAAAATGACTGAAATACCCC
48408656 TAGGAGATGA
Statistics
Matches: 209, Mismatches: 29, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.03
27 200 0.96
28 3 0.01
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (27 bp):
CATAGGGTAAAATGACTGAAATACCCC
Found at i:48418772 original size:26 final size:26
Alignment explanation
Indices: 48418736--48418790 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
48418726 ATGTTTTAGG
48418736 TATGTTTCGTTGGTTATATATATAGT
1 TATGTTTCGTTGGTTATATATATAGT
48418762 TATGTTTCGTTGGTTATATATATAGT
1 TATGTTTCGTTGGTTATATATATAGT
48418788 TAT
1 TAT
48418791 AAGTGACATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.24, C:0.04, G:0.18, T:0.55
Consensus pattern (26 bp):
TATGTTTCGTTGGTTATATATATAGT
Found at i:48421093 original size:42 final size:41
Alignment explanation
Indices: 48421039--48421329 Score: 343
Period size: 42 Copynumber: 6.9 Consensus size: 41
48421029 GCGTTTACAG
*
48421039 AAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTA
* *
48421080 TAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
1 -AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTA
* * * * *
48421122 ACAAAAAACGCTGCTAAAGAACATGTTCTTTAGCGACACTTAA
1 A-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGC-GTTTA
* *
48421165 AAAAAAGACACCGCTAAAGATCATGTTCTTTAGCGGCGGTTA
1 AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTA
* * *
48421207 CAAAAAATA-GCCGCTAAAGATAATGTTCTTTAGCTGCGCTTA
1 -AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTA
*
48421249 AAGAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTGGT-
1 AA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-TT--TA
*
48421293 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGGCG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
48421330 CTTTCATCGC
Statistics
Matches: 214, Mismatches: 26, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
41 4 0.02
42 137 0.64
43 70 0.33
44 2 0.01
45 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (41 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTA
Found at i:48421185 original size:127 final size:127
Alignment explanation
Indices: 48421039--48421329 Score: 392
Period size: 127 Copynumber: 2.3 Consensus size: 127
48421029 GCGTTTACAG
** * * * *
48421039 AAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTATAAAAAGA-CGCCGCTAAAGATCA
1 AAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGGTTACAAAAA-ATAGCCGCTAAAGATAA
*
48421103 TGTTCTTTAGCGGCGCTTAACA-AAAAACGCTGCTAAAGA-ACATGTTCTTTAGCGACACTT-AA
65 TGTTCTTTAGCGGCGCTTAA-AGAAAAACGCCGCTAAAGATA-ATGTTCTTTAGCGACACTTGAA
48421165 AAAAAAGACACCGCTAAAGATCATGTTCTTTAGCGGCGGTTACAAAAAATAGCCGCTAAAGATAA
1 AAAAAA-ACACCGCTAAAGATCATGTTCTTTAGCGGCGGTTACAAAAAATAGCCGCTAAAGATAA
* * * **
48421230 TGTTCTTTAGCTGCGCTTAAAGAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTGGT
65 TGTTCTTTAGCGGCGCTTAAAGAAAAACGCCGCTAAAGATAATGTTCTTTAGCGACACTTGAA
* *
48421293 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGGCG
1 AAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCG
48421330 CTTTCATCGC
Statistics
Matches: 146, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
126 8 0.05
127 131 0.90
128 7 0.05
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (127 bp):
AAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGGTTACAAAAAATAGCCGCTAAAGATAAT
GTTCTTTAGCGGCGCTTAAAGAAAAACGCCGCTAAAGATAATGTTCTTTAGCGACACTTGAA
Found at i:48421331 original size:85 final size:82
Alignment explanation
Indices: 48421039--48421332 Score: 374
Period size: 85 Copynumber: 3.5 Consensus size: 82
48421029 GCGTTTACAG
* * *
48421039 AAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTATAAAAAGACGCCGCTAAAGATCAT
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-AAAAAAACGCCGCTAAAGATCAT
48421104 GTTCTTTAGCGGCGCTTA
65 GTTCTTTAGCGGCGCTTA
* * * * *
48421122 ACAAAAAACGCTGCTAAAGAACATGTTCTTTAGCGACACTTAAAAAAAAGACACCGCTAAAGATC
1 A-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AAAAAAA-ACGCCGCTAAAGATC
*
48421187 ATGTTCTTTAGCGGCGGTTA
63 ATGTTCTTTAGCGGCGCTTA
* * *
48421207 CAAAAAATA-GCCGCTAAAGATAATGTTCTTTAGCTGCGCTTAAAGAAAAACGCCGCTAAAGATA
1 -AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAA-AAAAACGCCGCTAAAGATC
*
48421271 ATGTTCTTTAGCGGCGCTTGGT
63 ATGTTCTTTAGCGGCGCTT--A
*
48421293 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGGCGCTT
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
48421333 TCATCGCGAA
Statistics
Matches: 180, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
83 1 0.01
84 73 0.41
85 104 0.58
86 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (82 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAACGCCGCTAAAGATCATG
TTCTTTAGCGGCGCTTA
Done.