Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 94 of 144
Found at i:28849603 original size:82 final size:81
Alignment explanation
Indices: 28849432--28849612 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
28849422 GATTAAATTG
* *
28849432 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCAAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAA
28849497 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
28849513 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGAT-GCACT
* **
28849577 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
28849595 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
28849613 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:28852447 original size:25 final size:25
Alignment explanation
Indices: 28852399--28852453 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
28852389 TCAGTATGGT
* *
28852399 CTATCTATAGTAGTCTCAGTATATA
1 CTATCTATAGAAGTCTCAGGATATA
* *
28852424 CTATCTATAGAAGTTTTAGGATATA
1 CTATCTATAGAAGTCTCAGGATATA
28852449 CTATC
1 CTATC
28852454 AAGGACAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (25 bp):
CTATCTATAGAAGTCTCAGGATATA
Found at i:28854851 original size:5 final size:5
Alignment explanation
Indices: 28854841--28854875 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
28854831 TTTTGGCAGT
* *
28854841 AAAGG AAAGG AAAGA AAAGA AAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
28854876 TAATCGAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:28861428 original size:51 final size:51
Alignment explanation
Indices: 28861347--28861562 Score: 312
Period size: 51 Copynumber: 4.3 Consensus size: 51
28861337 ACTTCTGATT
28861347 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGAAA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGAAA
*
28861398 AGT-AGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
1 AGTGA-CAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGAAA
* * * *
28861449 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGATAA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGA-AA
* * *
28861501 A-TGACAAGTGATAAGTGGTAGCTT-AGCTACACTTATCTGATCAGGGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGAAA
*
28861550 AGTGATAAGTGAT
1 AGTGACAAGTGAT
28861563 CATACGTATG
Statistics
Matches: 150, Mismatches: 11, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
49 2 0.01
50 32 0.21
51 113 0.75
52 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGAAA
Found at i:28863984 original size:51 final size:49
Alignment explanation
Indices: 28863859--28864036 Score: 221
Period size: 51 Copynumber: 3.5 Consensus size: 49
28863849 GATGGTTATG
* * *
28863859 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-TTGGTCACA
* * * *
28863909 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-TT-GGTCACA
* *
28863960 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT--TGGTCACA
*
28864011 TGTGTAGTACTATGTGTAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
28864037 TGTGAACCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
50 39 0.35
51 70 0.64
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTTGGTCACA
Found at i:28864132 original size:42 final size:42
Alignment explanation
Indices: 28864044--28864301 Score: 288
Period size: 42 Copynumber: 6.1 Consensus size: 42
28864034 CTATGTGAAC
28864044 CCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCA
1 CCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCA
* * * *
28864086 CCGTATCCTTGATTGTGAAAGG-GGTTGCTATGTGCTGATT-CT
1 CCGTATCATTGATTAT--AAGGTGGTTGCTAAGTGCTGATTCCA
*
28864128 CCGTATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCA
1 CCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCA
* * * * * *
28864170 CCGTATCCTTGATTGTGAAAGAGGTTGCTATGTGTTGATTCC-
1 CCGTATCATTGATTAT-AAGGTGGTTGCTAAGTGCTGATTCCA
* *
28864212 CCGTATCATTGATTATAAGGTGGTTACTAAGTGCTGATTTCA
1 CCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCA
* * ** *
28864254 CCGGGATCCTTTGAACATGAGGTGGTTGCTAAGTGCTGATTCCA
1 CC-GTAT-CATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCA
28864298 CCGT
1 CCGT
28864302 GTAACGGTTA
Statistics
Matches: 178, Mismatches: 30, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
40 4 0.02
41 35 0.20
42 60 0.34
43 43 0.24
44 36 0.20
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (42 bp):
CCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCA
Found at i:28864185 original size:84 final size:84
Alignment explanation
Indices: 28864043--28864256 Score: 374
Period size: 84 Copynumber: 2.5 Consensus size: 84
28864033 ACTATGTGAA
*
28864043 CCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGG
1 CCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGA
28864108 GGTTGCTATGTGCTGATTC
66 GGTTGCTATGTGCTGATTC
* *
28864127 TCCGTATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCCTTGATTGTGAAAGA
1 CCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGA
*
28864192 GGTTGCTATGTGTTGATTC
66 GGTTGCTATGTGCTGATTC
* *
28864211 CCCGTATCATTGATTATAAGGTGGTTACTAAGTGCTGATTTCACCG
1 CCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCG
28864257 GGATCCTTTG
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 122 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (84 bp):
CCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGA
GGTTGCTATGTGCTGATTC
Found at i:28866389 original size:49 final size:48
Alignment explanation
Indices: 28866285--28866459 Score: 253
Period size: 49 Copynumber: 3.6 Consensus size: 48
28866275 TGTGATTTTT
* * *
28866285 GTGTAAGACCATATCTGGGATATGGCATCAGT-GTGATATGTGATTCC
1 GTGTAAGACCATAGCTGGGCTATGGCATCGGTAGTGATATGTGATTCC
*
28866332 GTGTAAGACCATAGCTGGGGTATGGCATCGGTAAGTGATATGTGATTCC
1 GTGTAAGACCATAGCTGGGCTATGGCATCGGT-AGTGATATGTGATTCC
* *
28866381 GTGTAAGACCATAGCTGGGCTATGGCATCGGTATGTGATTTGTGATTAC
1 GTGTAAGACCATAGCTGGGCTATGGCATCGGTA-GTGATATGTGATTCC
* *
28866430 GTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGTAAGACCATAGCTGGGCTATGGCATCG
28866460 AGAAAATGAA
Statistics
Matches: 117, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
47 29 0.25
48 1 0.01
49 87 0.74
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (48 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGGTAGTGATATGTGATTCC
Found at i:28870393 original size:50 final size:51
Alignment explanation
Indices: 28870291--28870402 Score: 154
Period size: 50 Copynumber: 2.2 Consensus size: 51
28870281 ACTTCTGATT
* * * *
28870291 AGTGACAAGTGATAAGTGGTAGCTTCGGCTACACTTATCTGATCAATGACA
1 AGTGACAAGTGATAAATGGTAGCTTCAGCTACACTTATCTAATCAAGGACA
* *
28870342 AGTGGCAAGTGATAAATGGTAGCTT-AGCTACACTTATCTAATCAGGGACA
1 AGTGACAAGTGATAAATGGTAGCTTCAGCTACACTTATCTAATCAAGGACA
*
28870392 AGTGATAAGTG
1 AGTGACAAGTG
28870403 GTCATACGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 30 0.57
51 23 0.43
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (51 bp):
AGTGACAAGTGATAAATGGTAGCTTCAGCTACACTTATCTAATCAAGGACA
Found at i:28873962 original size:27 final size:28
Alignment explanation
Indices: 28873910--28873962 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
28873900 AAAATAATTA
*
28873910 AAATTAAATATGTTAATAATTTAAGTGC
1 AAATTAAATATGTTAATAATTAAAGTGC
* *
28873938 AAATTAATTAT-TTTATAATTAAAGT
1 AAATTAAATATGTTAATAATTAAAGT
28873963 ATGAATTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (28 bp):
AAATTAAATATGTTAATAATTAAAGTGC
Found at i:28875297 original size:42 final size:41
Alignment explanation
Indices: 28875250--28875332 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 41
28875240 GAAAATATAG
* * *
28875250 AAGTGAATAGATATTGTACACTAGGTAGGACCCTAGGGAAA
1 AAGTGAATAGATACTGTACACCAGGTAAGACCCTAGGGAAA
28875291 NAAGTGAATAGATACTGTACACCAGGTAAGACCCTAGGGAAA
1 -AAGTGAATAGATACTGTACACCAGGTAAGACCCTAGGGAAA
28875333 GAAGGTGAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.19
Consensus pattern (41 bp):
AAGTGAATAGATACTGTACACCAGGTAAGACCCTAGGGAAA
Found at i:28879709 original size:100 final size:100
Alignment explanation
Indices: 28879438--28880146 Score: 724
Period size: 100 Copynumber: 7.1 Consensus size: 100
28879428 ATGTCGAGGA
* * * * * * * * *
28879438 AGTAAGATTCACTATTGTAGCTTTGATCTTTTTAACTGCAATATCGGGAAAGGAAGATACGCCGC
1 AGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
* * ** *
28879503 CGTGGCTTTAATCTGCTCTACTGCATCG-CTAGGGA
66 TGTGGCTTTAATCTGTTCCGCTGCATCGCCT-GGGG
* * * * * * *
28879538 AGTAACACTCGCCATTGTGGCTTTAGTCTTTTTAACTGTAATGTCGGGGAAGCAAGATACGCCG-
1 AGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
** * * *
28879602 TCGTGGCTTTAATCTACTCCACTGCAGT-GCCAGGGA
66 T-GTGGCTTTAATCTGTTCCGCTGCA-TCGCCTGGGG
* * * * * *
28879638 AGTAACACTT-GCCACTGTGGCTTTAGTCTTTTTAACTGCAATGTCGAGAAAGCAAGATTCACCG
1 AGTAAGA-TTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * * * * * *
28879702 TTATGGCTTTCATCTGTTCTGCTGCATTGGCTGGCG
65 ATGTGGCTTTAATCTGTTCCGCTGCATCGCCTGGGG
* * * * *
28879738 ATTAAGATTCACCGTTATAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCAA
1 AGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
*
28879803 TGTGGCTTTAATCTGTTCCGCTACATCGCCTGGGG
66 TGTGGCTTTAATCTGTTCCGCTGCATCGCCTGGGG
*** * * *
28879838 AGTAAGATTCGTTGTTGTAGCTTTAATATTTTTAACTGCAATTTCGGGGAAGCAAGATTCACCAA
1 AGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
* * *
28879903 TGTGGCTTTAATATGTTTCGCTGCATCGTCTGGGG
66 TGTGGCTTTAATCTGTTCCGCTGCATCGCCTGGGG
* ** *
28879938 AGTAAGATTCACTGTTGTAGCTTTAATATTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
1 AGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
28880003 TGTGGCTTTAATCTGTTCCGCTGCATCGCCTGGGG
66 TGTGGCTTTAATCTGTTCCGCTGCATCGCCTGGGG
** * * * *
28880038 AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGTATGATTCACTGT
1 AGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
* * * * *
28880103 TGTGGCTTTAATCTATTCCACTGCACCGCTTGGGA
66 TGTGGCTTTAATCTGTTCCGCTGCATCGCCTGGGG
28880138 AGATAAGAT
1 AG-TAAGAT
28880147 ATGTAATTCT
Statistics
Matches: 521, Mismatches: 80, Indels: 15
0.85 0.13 0.02
Matches are distributed among these distances:
99 3 0.01
100 508 0.98
101 10 0.02
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (100 bp):
AGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
TGTGGCTTTAATCTGTTCCGCTGCATCGCCTGGGG
Found at i:28879811 original size:50 final size:50
Alignment explanation
Indices: 28879408--28880116 Score: 416
Period size: 50 Copynumber: 14.2 Consensus size: 50
28879398 TAACTCGTAA
* ** * ** *
28879408 CTTTAATCTGTTTAACTGTGATGTCGAGGAAGTAAGATTCACTATTGTAG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGG
* * * * * * **
28879458 CTTTGATCTTTTTAACTGCAATATCGGGAAAGGAAGATACGCCGCCGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGG
* * * * * * *
28879508 CTTTAATCTGCTCT-ACTGC-ATCG-CTAGGGAAGTAACACTCGCCATTGTGG
1 CTTTAATCT-TTTTAACTGCAAT-GTC-GGGGAAGTAAGATTCACCGTTGTGG
* * * * * *
28879558 CTTTAGTCTTTTTAACTGTAATGTCGGGGAAGCAAGATACGCCGTCGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGG
** ** * * * * * **
28879608 CTTTAATCTACTCCACTGCAGTGCCAGGGAAGTAACACTT-GCCACTGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGA-TTCACCGTTGTGG
* * * * *
28879658 CTTTAGTCTTTTTAACTGCAATGTCGAGAAAGCAAGATTCACCGTTATGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGG
* * * * * * * * *
28879708 CTTTCATCTGTTCT-GCTGCATTGGCTGGCG-ATTAAGATTCACCGTTATAG
1 CTTTAATCT-TTTTAACTGCAATGTC-GGGGAAGTAAGATTCACCGTTGTGG
* **
28879758 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCAATGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGG
* *** * * *** *
28879808 CTTTAATCTGTTCCGCTAC-ATCGCCTGGGG-AGTAAGATTCGTTGTTGTAG
1 CTTTAATCTTTTTAACTGCAAT-GTC-GGGGAAGTAAGATTCACCGTTGTGG
* * * **
28879858 CTTTAATATTTTTAACTGCAATTTCGGGGAAGCAAGATTCACCAATGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGG
* * ** * *
28879908 CTTTAATATGTTTCGCTGC-ATCGTCTGGGG-AGTAAGATTCACTGTTGTAG
1 CTTTAATCTTTTTAACTGCAAT-GTC-GGGGAAGTAAGATTCACCGTTGTGG
* * *
28879958 CTTTAATATTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGG
* *** * * * *
28880008 CTTTAATCTGTTCCGCTGC-ATCGCCTGGGG-AGTAAGATTCGCTGTTGTAG
1 CTTTAATCTTTTTAACTGCAAT-GTC-GGGGAAGTAAGATTCACCGTTGTGG
* *
28880058 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGTATGATTCACTGTTGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGG
28880108 CTTTAATCT
1 CTTTAATCT
28880117 ATTCCACTGC
Statistics
Matches: 478, Mismatches: 157, Indels: 48
0.70 0.23 0.07
Matches are distributed among these distances:
49 31 0.06
50 419 0.88
51 28 0.06
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (50 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGG
Found at i:28880303 original size:44 final size:44
Alignment explanation
Indices: 28880254--28880650 Score: 228
Period size: 44 Copynumber: 8.6 Consensus size: 44
28880244 AATCCACTCT
* *
28880254 ACTGTAATCTCAGGAAGATAGGATTACTGGCTTCAATCTTCTCC
1 ACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTTCTCC
* * *
28880298 GCTGTAATCTTAGGGAGATAAGATTCCTGGCTTCAATCTGATGCGATCTGCTC
1 ACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATC---T----TCT-C-C
* * *** * **
28880351 TACTGTAA-CTTCAGAGAGATAAGA-TCCTTTATTTTAATCCACTCC
1 -ACTGTAATC-TCAGGGAGATAAGATTAC-TGGCTTCAATCTTCTCC
* * *
28880396 ACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTTCTCC
* *
28880440 GCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCAATCTACTC
1 ACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATC---T----TCT-C-C
* * *** * *
28880493 TACTGTAA-CTTCAGAGAGATAAGA-TCCTTTATTTTAATCATCTCC
1 -ACTGTAATC-TCAGGGAGATAAGATTAC-TGGCTTCAATCTTCTCC
* * *
28880538 ACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTTCTCC
* * * * * *
28880582 GCTGTAATCTCAAGGAGATAAGATTTCTGACTTCAATCTGCTTC
1 ACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTTCTCC
28880626 ACTGTAA-CATCAGGGAGATAAGATT
1 ACTGTAATC-TCAGGGAGATAAGATT
28880651 CACCATTTCT
Statistics
Matches: 270, Mismatches: 54, Indels: 58
0.71 0.14 0.15
Matches are distributed among these distances:
43 1 0.00
44 185 0.69
45 8 0.03
46 2 0.01
47 7 0.03
51 5 0.02
52 2 0.01
53 9 0.03
54 51 0.19
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
ACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTTCTCC
Found at i:28880400 original size:142 final size:142
Alignment explanation
Indices: 28880196--28880621 Score: 719
Period size: 142 Copynumber: 3.0 Consensus size: 142
28880186 AAAAAACCTA
* * * *
28880196 ATGCGATCTACTCTACTGTAACTTTAGAGAGATATGATCATTTATTTTAATCCACTCTACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAA
* * * * *
28880261 TCTCAGGAAGATAGGATTACTGGCTTCAATCTTCTCCGCTGTAATCTTAGGGAGATAAGATTCCT
66 TCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCT
28880326 GGCTTCAATCTG
131 GGCTTCAATCTG
*
28880338 ATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAA
28880403 TCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCT
66 TCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCT
28880468 GGCTTCAATCTG
131 GGCTTCAATCTG
*
28880480 ATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT-CATCTCCACTGTA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA-CTCCACTGTA
*
28880544 ATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATTTC
65 ATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTC
*
28880609 TGACTTCAATCTG
130 TGGCTTCAATCTG
28880622 CTTCACTGTA
Statistics
Matches: 269, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 2 0.01
142 267 0.99
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (142 bp):
ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAA
TCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCT
GGCTTCAATCTG
Found at i:28882047 original size:8 final size:7
Alignment explanation
Indices: 28882027--28882076 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
28882017 TTAGCCTCTC
28882027 CATTTTT
1 CATTTTT
28882034 -ACTTTTT
1 CA-TTTTT
28882041 CATTTTTT
1 CA-TTTTT
28882049 CATTTTT
1 CATTTTT
28882056 CA-TTTT
1 CATTTTT
28882062 CATTTTT
1 CATTTTT
28882069 CATATTTT
1 CAT-TTTT
28882077 TTTTTGAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
6 7 0.18
7 19 0.50
8 12 0.32
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:28882054 original size:15 final size:15
Alignment explanation
Indices: 28882027--28882077 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 15
28882017 TTAGCCTCTC
*
28882027 CATTTTTAC-TTTTT
1 CATTTTTTCATTTTT
28882041 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
28882056 CA--TTTTCATTTTT
1 CATTTTTTCATTTTT
28882069 CATATTTTT
1 CAT-TTTTT
28882078 TTTTGAAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 13 0.41
14 8 0.25
15 7 0.22
16 4 0.12
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.71
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:28888746 original size:8 final size:8
Alignment explanation
Indices: 28888729--28888758 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
28888719 TGGTTTTCAT
*
28888729 TATTTATA
1 TATTTTTA
28888737 TATTTTTA
1 TATTTTTA
28888745 TATTTTTA
1 TATTTTTA
28888753 TATTTT
1 TATTTT
28888759 GTTTATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TATTTTTA
Found at i:28888748 original size:16 final size:17
Alignment explanation
Indices: 28888729--28888768 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
28888719 TGGTTTTCAT
28888729 TATTTATATATTTT-TA
1 TATTTATATATTTTGTA
* *
28888745 TATTTTTATATTTTGTT
1 TATTTATATATTTTGTA
28888762 TATTTAT
1 TATTTAT
28888769 TTGATTTGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
TATTTATATATTTTGTA
Found at i:28889064 original size:39 final size:38
Alignment explanation
Indices: 28889010--28889096 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 38
28889000 GGGAAGTAGT
* *
28889010 AGCAGCAGTGGGCAAGGCAGGATGCAGGGTTGGTGCGTG
1 AGCAGCAG-GGGCAAGGCAAGATACAGGGTTGGTGCGTG
*
28889049 AGCAGCAGGGAGCAAGGCAAGATACGGGGTTGGTGCGTG
1 AGCAGCAGGG-GCAAGGCAAGATACAGGGTTGGTGCGTG
*
28889088 TGCAGCAGG
1 AGCAGCAGG
28889097 ACGCTCAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 2 0.05
39 41 0.95
ACGTcount: A:0.23, C:0.16, G:0.47, T:0.14
Consensus pattern (38 bp):
AGCAGCAGGGGCAAGGCAAGATACAGGGTTGGTGCGTG
Found at i:28897461 original size:32 final size:32
Alignment explanation
Indices: 28897424--28897524 Score: 106
Period size: 32 Copynumber: 3.3 Consensus size: 32
28897414 GTAAAATTGT
28897424 CAAAAATAAACCAAATTTGTGAAAATTTATTA
1 CAAAAATAAACCAAATTTGTGAAAATTTATTA
* * *
28897456 CAAAAATAATA--AAA-AT-TCAATATGTTA--A
1 CAAAAATAA-ACCAAATTTGTGAAAAT-TTATTA
*
28897484 TAAAAATAAACCAAATTTGTGAAAATTTATTA
1 CAAAAATAAACCAAATTTGTGAAAATTTATTA
28897516 CAAAAATAA
1 CAAAAATAA
28897525 TAAAAATTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
27 1 0.02
28 9 0.17
29 8 0.15
30 8 0.15
31 8 0.15
32 18 0.34
33 1 0.02
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (32 bp):
CAAAAATAAACCAAATTTGTGAAAATTTATTA
Found at i:28897518 original size:60 final size:60
Alignment explanation
Indices: 28897425--28897546 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
28897415 TAAAATTGTC
28897425 AAAAATAAACCAAATTTGTGAAAATTTATTACAAAAATAATAAAAATTCAATATGTTAAT
1 AAAAATAAACCAAATTTGTGAAAATTTATTACAAAAATAATAAAAATTCAATATGTTAAT
28897485 AAAAATAAACCAAATTTGTGAAAATTTATTACAAAAATAATAAAAATTCAATATGTTAAT
1 AAAAATAAACCAAATTTGTGAAAATTTATTACAAAAATAATAAAAATTCAATATGTTAAT
28897545 AA
1 AA
28897547 TTCAAGTACA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.31
Consensus pattern (60 bp):
AAAAATAAACCAAATTTGTGAAAATTTATTACAAAAATAATAAAAATTCAATATGTTAAT
Found at i:28898478 original size:5 final size:5
Alignment explanation
Indices: 28898468--28898503 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
28898458 CACCCCTTTA
*
28898468 TTCTT TTCTT TTCTT TTCTT TTCCT TTCTT GTTCTT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT -TTCTT
28898504 CTTTCTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (5 bp):
TTCTT
Found at i:28907298 original size:3 final size:3
Alignment explanation
Indices: 28907290--28907345 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
28907280 ATATTACCTT
28907290 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
28907338 TTA TTA TT
1 TTA TTA TT
28907346 TTGATTTGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:28908288 original size:21 final size:21
Alignment explanation
Indices: 28908255--28908304 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
28908245 TATATGCTCT
*
28908255 GTATAATCTGAATT-TGAATAA
1 GTATAATCGGAATTATG-ATAA
*
28908276 GTATGATCGGAATTATGATAA
1 GTATAATCGGAATTATGATAA
28908297 GTATAATC
1 GTATAATC
28908305 TAATTCTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (21 bp):
GTATAATCGGAATTATGATAA
Found at i:28912338 original size:21 final size:19
Alignment explanation
Indices: 28912282--28912336 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
28912272 CTCAACAAAG
*
28912282 AATTCAAAATAATTT-TTAA
1 AATTCAAAAT-ATTTATAAA
28912301 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
28912320 AATTACAAAA-ATTTATA
1 AATT-CAAAATATTTATA
28912337 TATATTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 4 0.12
19 24 0.73
20 5 0.15
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:28915870 original size:2 final size:2
Alignment explanation
Indices: 28915863--28915895 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
28915853 CAGGTGTGAT
*
28915863 TC TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
28915896 ATGGCAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:28917764 original size:3 final size:3
Alignment explanation
Indices: 28917756--28917785 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
28917746 GCAATGGTCT
28917756 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
28917786 AATCCCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:28921802 original size:16 final size:16
Alignment explanation
Indices: 28921781--28921812 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
28921771 AAGTACTTGT
*
28921781 AAGAAGATCAAAATTC
1 AAGAAGACCAAAATTC
28921797 AAGAAGACCAAAATTC
1 AAGAAGACCAAAATTC
28921813 TGTCTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (16 bp):
AAGAAGACCAAAATTC
Found at i:28922714 original size:60 final size:60
Alignment explanation
Indices: 28922621--28922734 Score: 228
Period size: 60 Copynumber: 1.9 Consensus size: 60
28922611 TAACATACTT
28922621 TAAATCTAAATCTAAATCTATCTCACGGTTAATTTTAAGAACTAAAAAAGAAAAAGCAAC
1 TAAATCTAAATCTAAATCTATCTCACGGTTAATTTTAAGAACTAAAAAAGAAAAAGCAAC
28922681 TAAATCTAAATCTAAATCTATCTCACGGTTAATTTTAAGAACTAAAAAAGAAAA
1 TAAATCTAAATCTAAATCTATCTCACGGTTAATTTTAAGAACTAAAAAAGAAAA
28922735 TTATTTAGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (60 bp):
TAAATCTAAATCTAAATCTATCTCACGGTTAATTTTAAGAACTAAAAAAGAAAAAGCAAC
Found at i:28929702 original size:28 final size:30
Alignment explanation
Indices: 28929652--28929711 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
28929642 ATAAATAATA
28929652 TTTATATTTATGATAATTAAATATATATTT
1 TTTATATTTATGATAATTAAATATATATTT
* *
28929682 TTTATTTTTATGATAA-T-AATATTTATTT
1 TTTATATTTATGATAATTAAATATATATTT
28929710 TT
1 TT
28929712 ATGATAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 12 0.43
29 1 0.04
30 15 0.54
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTATATTTATGATAATTAAATATATATTT
Found at i:28930440 original size:52 final size:52
Alignment explanation
Indices: 28930344--28930459 Score: 153
Period size: 52 Copynumber: 2.2 Consensus size: 52
28930334 AAATTTTTTA
* * * **
28930344 AAAAAAAAATTTTTTTGGGTGCTGGCTTGTCAATGGCTAACACCAGTA-TAC
1 AAAAAAAAATTTTTTTGGGTGCTAGCCTGTCAATGGCCAACACCACCAGTAC
**
28930395 AAAAACAAAATTTTTTTGGGTGCTAGCCTGTCAATGGCCGGCACCACCAGTAC
1 AAAAA-AAAATTTTTTTGGGTGCTAGCCTGTCAATGGCCAACACCACCAGTAC
28930448 AAAAAAAAATTT
1 AAAAAAAAATTT
28930460 GGTACTGGCT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
51 5 0.09
52 43 0.77
53 8 0.14
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
AAAAAAAAATTTTTTTGGGTGCTAGCCTGTCAATGGCCAACACCACCAGTAC
Found at i:28930451 original size:47 final size:47
Alignment explanation
Indices: 28930401--28930513 Score: 120
Period size: 47 Copynumber: 2.4 Consensus size: 47
28930391 ATACAAAAAC
28930401 AAAATTTTTTTGGGTGCTAGCCTGTCAATGGCCGGCACCACCAGTACA
1 AAAATTTTTTTGGGTGCTAGCCTGTCAATGGCCGGC-CCACCAGTACA
**** * * * *
28930449 AAAAAAAATTT-GGTACTGGCTTGTCAATGGCCGGCCCACTAGTACGA
1 AAAATTTTTTTGGGTGCTAGCCTGTCAATGGCCGGCCCACCAGTAC-A
*
28930496 AAATTTTTTTTGGGTGCT
1 AAAATTTTTTTGGGTGCT
28930514 GGCTTCTTAA
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
46 9 0.18
47 28 0.57
48 12 0.24
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (47 bp):
AAAATTTTTTTGGGTGCTAGCCTGTCAATGGCCGGCCCACCAGTACA
Found at i:28934625 original size:50 final size:49
Alignment explanation
Indices: 28934494--28934730 Score: 237
Period size: 49 Copynumber: 4.8 Consensus size: 49
28934484 TAAATTTTGA
* * ** ** *
28934494 TGCCGGCCATTAGA-AGGCCAACACCTAAATTTTTTTTTTGTA-TACTGC
1 TGCCGGCCATT-GACAGGCCAGCACCAAAATTTTTTTTTCATACTGGTGG
* *
28934542 TGCCGACCATTGACAGGCCAGCACCCAAATTTTTTTTTCATACTGGTGG
1 TGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTCATACTGGTGG
* * **
28934591 TGCCGGCCATTGATAGGCTAGCACACAAAATTTTTTTTTCATA-TACTGG
1 TGCCGGCCATTGACAGGCCAGCAC-CAAAATTTTTTTTTCATACTGGTGG
* * * *
28934640 TGCCAGCCATTGATAGGCTAGCACCAAAATTTTTTTTTTCGTACTGGTGG
1 TGCCGGCCATTGACAGGCCAGCACCAAAA-TTTTTTTTTCATACTGGTGG
*
28934690 TGCCGGCCATTGACAAGCCAGCACCCAAAAATTTATTTTTT
1 TGCCGGCCATTGACAGGCCAGCA-CC-AAAATTT-TTTTTT
28934731 TAAAATTTTT
Statistics
Matches: 159, Mismatches: 22, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
47 2 0.01
48 39 0.25
49 63 0.40
50 40 0.25
51 5 0.03
52 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (49 bp):
TGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTCATACTGGTGG
Found at i:28934700 original size:99 final size:96
Alignment explanation
Indices: 28934494--28934730 Score: 287
Period size: 98 Copynumber: 2.4 Consensus size: 96
28934484 TAAATTTTGA
* * **
28934494 TGCCGGCCATTAGAAGGCCAACACCTAAATTTTTTTTTTGTATACTGCTGCCGACCATTGACAGG
1 TGCCGGCCATT-GAAGGCCAGCACCAAAATTTTTTTTTCATATACTGCTGCCGACCATTGACAGG
*
28934559 CCAGCACCCAAATTTTTTTTTCATACTGGTGG
65 CCAGCACCAAAATTTTTTTTTCATACTGGTGG
* * *
28934591 TGCCGGCCATTGATAGGCTAGCACACAAAATTTTTTTTTCATATACTGGTGCC-AGCCATTGATA
1 TGCCGGCCATTGA-AGGCCAGCAC-CAAAATTTTTTTTTCATATACTGCTGCCGA-CCATTGACA
* *
28934655 GGCTAGCACCAAAATTTTTTTTTTCGTACTGGTGG
63 GGCCAGCACCAAAA-TTTTTTTTTCATACTGGTGG
*
28934690 TGCCGGCCATTGACAAGCCAGCACCCAAAAATTTATTTTTT
1 TGCCGGCCATTGA-AGGCCAGCA-CC-AAAATTT-TTTTTT
28934731 TAAAATTTTT
Statistics
Matches: 120, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
96 2 0.02
97 20 0.17
98 44 0.37
99 40 0.33
100 8 0.07
101 6 0.05
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (96 bp):
TGCCGGCCATTGAAGGCCAGCACCAAAATTTTTTTTTCATATACTGCTGCCGACCATTGACAGGC
CAGCACCAAAATTTTTTTTTCATACTGGTGG
Found at i:28942412 original size:18 final size:18
Alignment explanation
Indices: 28942389--28942435 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
28942379 AATTCCCAAA
28942389 TAAAACTCTAAAGTATAC
1 TAAAACTCTAAAGTATAC
*
28942407 TAAAACTCTAAAGTGTAC
1 TAAAACTCTAAAGTATAC
28942425 TAAAACTCTAA
1 TAAAACTCTAA
28942436 TTAATCTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.28
Consensus pattern (18 bp):
TAAAACTCTAAAGTATAC
Found at i:28943161 original size:262 final size:262
Alignment explanation
Indices: 28942696--28943220 Score: 1041
Period size: 262 Copynumber: 2.0 Consensus size: 262
28942686 TAAACTCAAA
28942696 ATCGAGTGGTTCAAAGTGTGTTTCGAAGCTAAGAGATGGATCTTCAACCACCATGAAGATATCTT
1 ATCGAGTGGTTCAAAGTGTGTTTCGAAGCTAAGAGATGGATCTTCAACCACCATGAAGATATCTT
28942761 AACCAAGAAATTCCTGGATCCCATCCAAAAAGATGTCGCAATTCTAATGATTTCTTGAACTTGAA
66 AACCAAGAAATTCCTGGATCCCATCCAAAAAGATGTCGCAATTCTAATGATTTCTTGAACTTGAA
28942826 AATTGACAGCTTCGGTGAATGAAATTTAATAAATTTCATCCCATCTGTGAATGTATTAATGTTTC
131 AATTGACAGCTTCGGTGAATGAAATTTAATAAATTTCATCCCATCTGTGAATGTATTAATGTTTC
28942891 ATTTTGTAACACCCTAAACAATGTCCATCTATCACATTTCAACTAATTTATCCAATATTCCATTC
196 ATTTTGTAACACCCTAAACAATGTCCATCTATCACATTTCAACTAATTTATCCAATATTCCATTC
28942956 CC
261 CC
28942958 ATCGAGTGGTTCAAAGTGTGTTTCGAAGCTAAGAGATGGATCTTCAACCACCATGAAGATATCTT
1 ATCGAGTGGTTCAAAGTGTGTTTCGAAGCTAAGAGATGGATCTTCAACCACCATGAAGATATCTT
28943023 AACCAAGAAATTCCTGGATCCCATCCAAAAAGATGTCGCAATTCTAATGATTTCTTGAACTTGAA
66 AACCAAGAAATTCCTGGATCCCATCCAAAAAGATGTCGCAATTCTAATGATTTCTTGAACTTGAA
28943088 AATTGACAGCTTCGGTGAATGAAATTTAATAAATTTCATCCCATCTGTGAATGTATTAATGTTTC
131 AATTGACAGCTTCGGTGAATGAAATTTAATAAATTTCATCCCATCTGTGAATGTATTAATGTTTC
*
28943153 ATTTTGTAACACCCTAAACAATGTCCATCTATCACATTTCAACTAATTTATCCAATATTCTATTC
196 ATTTTGTAACACCCTAAACAATGTCCATCTATCACATTTCAACTAATTTATCCAATATTCCATTC
28943218 CC
261 CC
28943220 A
1 A
28943221 CAAGCTTATT
Statistics
Matches: 262, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
262 262 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (262 bp):
ATCGAGTGGTTCAAAGTGTGTTTCGAAGCTAAGAGATGGATCTTCAACCACCATGAAGATATCTT
AACCAAGAAATTCCTGGATCCCATCCAAAAAGATGTCGCAATTCTAATGATTTCTTGAACTTGAA
AATTGACAGCTTCGGTGAATGAAATTTAATAAATTTCATCCCATCTGTGAATGTATTAATGTTTC
ATTTTGTAACACCCTAAACAATGTCCATCTATCACATTTCAACTAATTTATCCAATATTCCATTC
CC
Found at i:28951265 original size:18 final size:18
Alignment explanation
Indices: 28951242--28951276 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
28951232 ACCTTGTCCT
* *
28951242 CTAAGGGGAAGTAGAAAG
1 CTAAGGGAAAGAAGAAAG
28951260 CTAAGGGAAAGAAGAAA
1 CTAAGGGAAAGAAGAAA
28951277 ACAACTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.34, T:0.09
Consensus pattern (18 bp):
CTAAGGGAAAGAAGAAAG
Found at i:28953283 original size:25 final size:24
Alignment explanation
Indices: 28953206--28953302 Score: 79
Period size: 25 Copynumber: 3.9 Consensus size: 24
28953196 CAGTTCGTAT
*
28953206 GAGCTTACCAATTTCAGCTCGTGA
1 GAGCTTACCGATTTCAGCTCGTGA
* * *
28953230 GAGCTTACCTATTCTCAACTCAT-A
1 GAGCTTACCGATT-TCAGCTCGTGA
*
28953254 TGAGCTTACCGGTTTACAGCTCGTGA
1 -GAGCTTACCGATTT-CAGCTCGTGA
* * *
28953280 GAGCATACTGATTCACAGCTCGT
1 GAGCTTACCGATT-TCAGCTCGT
28953303 TTGGGCATAC
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
24 14 0.25
25 42 0.74
26 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (24 bp):
GAGCTTACCGATTTCAGCTCGTGA
Found at i:28953500 original size:30 final size:30
Alignment explanation
Indices: 28953461--28953522 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
28953451 TACATGAAAT
28953461 ACATAGAAAT-GAT-ATTACATGATATATTGAA
1 ACATAGAAATGGATGA-TACATG-TATA-TGAA
28953492 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATAGAAATGGATGATACATGTATATGAA
28953521 AC
1 AC
28953523 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (30 bp):
ACATAGAAATGGATGATACATGTATATGAA
Found at i:28954513 original size:392 final size:392
Alignment explanation
Indices: 28953789--28954574 Score: 1572
Period size: 392 Copynumber: 2.0 Consensus size: 392
28953779 TATATCACAC
28953789 TATCCATCGGCTCTTTTGGTACTTTCGGTTGGCTTAATTTTGGTTATAATGGCATGTATAGGTTA
1 TATCCATCGGCTCTTTTGGTACTTTCGGTTGGCTTAATTTTGGTTATAATGGCATGTATAGGTTA
28953854 TTTTGGCTAATGTTGACCTATATGTTTTGTTGTGATTATAGCCATTTGATTTTGCTTGTGTTTTG
66 TTTTGGCTAATGTTGACCTATATGTTTTGTTGTGATTATAGCCATTTGATTTTGCTTGTGTTTTG
28953919 GTATATTTTGGTATGTATATATGTGGCCTTAATTTGGTTGATGTGTGGCTTGATTGGTGGTTGAA
131 GTATATTTTGGTATGTATATATGTGGCCTTAATTTGGTTGATGTGTGGCTTGATTGGTGGTTGAA
28953984 TAATGAAAGGTAAAATGATAGTTATATGTTCATTTTGTATAAGTGTTTTGTGAGTTAATGAAATA
196 TAATGAAAGGTAAAATGATAGTTATATGTTCATTTTGTATAAGTGTTTTGTGAGTTAATGAAATA
28954049 GTTGTGAATTGGTACCTTGTTGTGTAAGACATATATGTCTAATTATGTTTGAAATTGAAGGGCAT
261 GTTGTGAATTGGTACCTTGTTGTGTAAGACATATATGTCTAATTATGTTTGAAATTGAAGGGCAT
28954114 GTTTAATATCAATTGGTATGTTTTGGTAAAGCGATCTGCATGATATGTATTGATGCGATTATGCA
326 GTTTAATATCAATTGGTATGTTTTGGTAAAGCGATCTGCATGATATGTATTGATGCGATTATGCA
28954179 TA
391 TA
28954181 TATCCATCGGCTCTTTTGGTACTTTCGGTTGGCTTAATTTTGGTTATAATGGCATGTATAGGTTA
1 TATCCATCGGCTCTTTTGGTACTTTCGGTTGGCTTAATTTTGGTTATAATGGCATGTATAGGTTA
28954246 TTTTGGCTAATGTTGACCTATATGTTTTGTTGTGATTATAGCCATTTGATTTTGCTTGTGTTTTG
66 TTTTGGCTAATGTTGACCTATATGTTTTGTTGTGATTATAGCCATTTGATTTTGCTTGTGTTTTG
28954311 GTATATTTTGGTATGTATATATGTGGCCTTAATTTGGTTGATGTGTGGCTTGATTGGTGGTTGAA
131 GTATATTTTGGTATGTATATATGTGGCCTTAATTTGGTTGATGTGTGGCTTGATTGGTGGTTGAA
28954376 TAATGAAAGGTAAAATGATAGTTATATGTTCATTTTGTATAAGTGTTTTGTGAGTTAATGAAATA
196 TAATGAAAGGTAAAATGATAGTTATATGTTCATTTTGTATAAGTGTTTTGTGAGTTAATGAAATA
28954441 GTTGTGAATTGGTACCTTGTTGTGTAAGACATATATGTCTAATTATGTTTGAAATTGAAGGGCAT
261 GTTGTGAATTGGTACCTTGTTGTGTAAGACATATATGTCTAATTATGTTTGAAATTGAAGGGCAT
28954506 GTTTAATATCAATTGGTATGTTTTGGTAAAGCGATCTGCATGATATGTATTGATGCGATTATGCA
326 GTTTAATATCAATTGGTATGTTTTGGTAAAGCGATCTGCATGATATGTATTGATGCGATTATGCA
28954571 TA
391 TA
28954573 TA
1 TA
28954575 AGTTAGTTAA
Statistics
Matches: 394, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
392 394 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (392 bp):
TATCCATCGGCTCTTTTGGTACTTTCGGTTGGCTTAATTTTGGTTATAATGGCATGTATAGGTTA
TTTTGGCTAATGTTGACCTATATGTTTTGTTGTGATTATAGCCATTTGATTTTGCTTGTGTTTTG
GTATATTTTGGTATGTATATATGTGGCCTTAATTTGGTTGATGTGTGGCTTGATTGGTGGTTGAA
TAATGAAAGGTAAAATGATAGTTATATGTTCATTTTGTATAAGTGTTTTGTGAGTTAATGAAATA
GTTGTGAATTGGTACCTTGTTGTGTAAGACATATATGTCTAATTATGTTTGAAATTGAAGGGCAT
GTTTAATATCAATTGGTATGTTTTGGTAAAGCGATCTGCATGATATGTATTGATGCGATTATGCA
TA
Found at i:28959291 original size:17 final size:17
Alignment explanation
Indices: 28959269--28959316 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
28959259 TGATGCGTCA
*
28959269 TTTGGCGAACTCTTTGT
1 TTTGGCGAACTCTTTGG
*** *
28959286 TTTGGCGTGTTCTGTGG
1 TTTGGCGAACTCTTTGG
28959303 TTTGGCGAACTCTT
1 TTTGGCGAACTCTT
28959317 CTGTAAGTAT
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.08, C:0.17, G:0.29, T:0.46
Consensus pattern (17 bp):
TTTGGCGAACTCTTTGG
Found at i:28962604 original size:1 final size:1
Alignment explanation
Indices: 28962598--28962623 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
28962588 TACGCCCGTA
28962598 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
28962624 ACCACNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:28972148 original size:13 final size:13
Alignment explanation
Indices: 28972132--28972158 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
28972122 ACTAATTTAA
28972132 AACCCTAAAAAAT
1 AACCCTAAAAAAT
28972145 AACCCTAAAAAAT
1 AACCCTAAAAAAT
28972158 A
1 A
28972159 TCTTACATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.22, G:0.00, T:0.15
Consensus pattern (13 bp):
AACCCTAAAAAAT
Found at i:28972617 original size:10 final size:10
Alignment explanation
Indices: 28972557--28972621 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
28972547 GGAAATGTGT
28972557 AAAT-AATAA
1 AAATAAATAA
*
28972566 TAAATAAATAT
1 -AAATAAATAA
*
28972577 AAATAGACATGA
1 AAATA-A-ATAA
28972589 AAATAAATAA
1 AAATAAATAA
*
28972599 AAACGAAATAA
1 AAA-TAAATAA
*
28972610 GAATAAATAA
1 AAATAAATAA
28972620 AA
1 AA
28972622 TTATACTAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
10 22 0.51
11 14 0.33
12 7 0.16
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.20
Consensus pattern (10 bp):
AAATAAATAA
Found at i:28973262 original size:19 final size:20
Alignment explanation
Indices: 28973240--28973283 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
28973230 ATAGTTAAAA
*
28973240 AAAATCA-AAACTTTATTTT
1 AAAATCATAAACTTTACTTT
* *
28973259 AAAATTATAAACTTTCCTTT
1 AAAATCATAAACTTTACTTT
28973279 AAAAT
1 AAAAT
28973284 GACTTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAATCATAAACTTTACTTT
Found at i:28973448 original size:53 final size:54
Alignment explanation
Indices: 28973391--28973493 Score: 122
Period size: 53 Copynumber: 1.9 Consensus size: 54
28973381 GAAATAGCTG
*
28973391 AAAAAAAAATCAAAATTTT-GTTTT-AAAATTTTAAACTTTCT-TTTAAAATGACT
1 AAAAAAAAA-CAAAATTTTAGTTTTCAAAA-TCTAAACTTTCTCTTTAAAATGACT
* * *
28973444 AAAAAAATACATATTTTTAGTTTTCAAAATCTAAACTTTCTCCTTTAAAA
1 AAAAAAAAACAAAATTTTAGTTTTCAAAATCTAAACTTTCT-CTTTAAAA
28973494 AAAACACTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
52 7 0.17
53 24 0.57
54 4 0.10
55 7 0.17
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.41
Consensus pattern (54 bp):
AAAAAAAAACAAAATTTTAGTTTTCAAAATCTAAACTTTCTCTTTAAAATGACT
Found at i:28974013 original size:3 final size:3
Alignment explanation
Indices: 28974005--28974050 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
28973995 TGATATTTAA
28974005 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
28974051 GATGATAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:28974568 original size:42 final size:42
Alignment explanation
Indices: 28974506--28974850 Score: 465
Period size: 42 Copynumber: 8.2 Consensus size: 42
28974496 TCATATACAG
* *
28974506 TGCAATGAAAAGTAATTGGACCTCCACACCTGGGCCTTTAAA
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
** **
28974548 TATAATGAAAAGTAAATGGACCTCCACATTTGGGCCTCTAAA
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
* * * * *
28974590 TGCAATGAAAAGTGAATGGACCTCCACACCTAGGTCTTTATA
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
*
28974632 TGCAATGAAAAGTAAAAGGACCTCCACACCTGGGCCTCTAAA
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
* * *
28974674 TGCAATGAAAAGTAAATGAACCTCCACATCTAGGCCTCTAAA
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
* * * *
28974716 TGCAATGAAAAGTGAATAGACCTCCACACCTGGGTCTCTATA
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
* * *
28974758 TGCACTGAAAAGTGAATGGACCTCCACACCTGGACCTCTAAA
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
* * *
28974800 TGTAATGAAAAGCAAATGGACCTCCGCACCTGGGCCTCTAAA
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
28974842 TGCAATGAA
1 TGCAATGAA
28974851 TGTTTTCCTT
Statistics
Matches: 259, Mismatches: 44, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 259 1.00
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.22
Consensus pattern (42 bp):
TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
Found at i:28974731 original size:126 final size:126
Alignment explanation
Indices: 28974506--28974850 Score: 537
Period size: 126 Copynumber: 2.7 Consensus size: 126
28974496 TCATATACAG
* * *
28974506 TGCAATGAAAAGTAATTGGACCTCCACACCTGGGCCTTTAAATATAATGAAAAGTAAATGGACCT
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGGACCT
* * *
28974571 CCACATTTGGGCCTCTAAATGCAATGAAAAGTGAATGGACCTCCACACCTAGGTCTTTATA
66 CCACATCTGGGCCTCTAAATGCAATGAAAAGTGAATAGACCTCCACACCTAGGTCTCTATA
* * *
28974632 TGCAATGAAAAGTAAAAGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGAACCT
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGGACCT
* *
28974697 CCACATCTAGGCCTCTAAATGCAATGAAAAGTGAATAGACCTCCACACCTGGGTCTCTATA
66 CCACATCTGGGCCTCTAAATGCAATGAAAAGTGAATAGACCTCCACACCTAGGTCTCTATA
* * * *
28974758 TGCACTGAAAAGTGAATGGACCTCCACACCTGGACCTCTAAATGTAATGAAAAGCAAATGGACCT
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGGACCT
* *
28974823 CCGCACCTGGGCCTCTAAATGCAATGAA
66 CCACATCTGGGCCTCTAAATGCAATGAA
28974851 TGTTTTCCTT
Statistics
Matches: 198, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 198 1.00
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.22
Consensus pattern (126 bp):
TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGGACCT
CCACATCTGGGCCTCTAAATGCAATGAAAAGTGAATAGACCTCCACACCTAGGTCTCTATA
Found at i:28975885 original size:10 final size:10
Alignment explanation
Indices: 28975870--28975902 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
28975860 GCTTTCCCTA
28975870 TTTCTTTTTT
1 TTTCTTTTTT
28975880 TTTCTTTTTT
1 TTTCTTTTTT
*
28975890 TCT-TTTTTT
1 TTTCTTTTTT
28975899 TTTC
1 TTTC
28975903 GGAATGAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:28983595 original size:8 final size:8
Alignment explanation
Indices: 28983584--28983634 Score: 75
Period size: 8 Copynumber: 6.4 Consensus size: 8
28983574 ATGAGTGAAC
28983584 GAATGGAT
1 GAATGGAT
*
28983592 GAATGAAT
1 GAATGGAT
28983600 GAATGGAT
1 GAATGGAT
28983608 GAATGGAT
1 GAATGGAT
*
28983616 GGATGGAT
1 GAATGGAT
*
28983624 GAATGAAT
1 GAATGGAT
28983632 GAA
1 GAA
28983635 ATTGGGGCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 38 1.00
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (8 bp):
GAATGGAT
Found at i:28983599 original size:4 final size:4
Alignment explanation
Indices: 28983565--28983634 Score: 68
Period size: 4 Copynumber: 17.5 Consensus size: 4
28983555 TGAATAAACA
* * * * *
28983565 AATG AACG AATG AGTG AACG AATG GATG AATG AATG AATG GATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
* * *
28983613 GATG GATG GATG AATG AATG AA
1 AATG AATG AATG AATG AATG AA
28983635 ATTGGGGCAC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.43, C:0.03, G:0.33, T:0.21
Consensus pattern (4 bp):
AATG
Found at i:28991735 original size:6 final size:6
Alignment explanation
Indices: 28991724--28991768 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
28991714 CCAAACACAC
* * *
28991724 CAGTAA CAGTAA TCAATAA CGGTAA CAGTAA CAGTAA TAGTAA CA
1 CAGTAA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CA
28991769 TTATTCAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.20
Consensus pattern (6 bp):
CAGTAA
Found at i:28991819 original size:45 final size:45
Alignment explanation
Indices: 28991751--28991900 Score: 167
Period size: 45 Copynumber: 3.3 Consensus size: 45
28991741 AACGGTAACA
* * * *
28991751 GTAACAGTAATAGTAACATTATTCAACACACAAAGTG-CTGAACCT
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGTC-GAACCG
* **
28991796 GTAACAGTAACGGTAACAATATTCGACACACAAAGTGTCGAGTCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGTCGAACCG
* * * * *
28991841 GTAACAGTAACAGTAACAGTATTCGACACACAAATTGCCGAATCA
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGTCGAACCG
*
28991886 GTAACGGTAACAGTA
1 GTAACAGTAACAGTA
28991901 GTCGGCACAT
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 89 0.99
46 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGTCGAACCG
Found at i:28991845 original size:39 final size:39
Alignment explanation
Indices: 28991800--28991927 Score: 100
Period size: 45 Copynumber: 3.2 Consensus size: 39
28991790 GAACCTGTAA
28991800 CAGTAACGGTAACAATATTCGACACACAAAGTGTCGAGTCGGTAA-
1 CAGTAACGGTAACAATATTCGACACACAAAGTG-C----C-G-AAT
* * *
28991845 CAGTAACAGTAACAGTATTCGACACACAAATTGCCGAAT
1 CAGTAACGGTAACAATATTCGACACACAAAGTGCCGAAT
* * * *
28991884 CAGTAACGGTAACAGTAGTCGGCACA-TAAGTGCCTG-AT
1 CAGTAACGGTAACAATATTCGACACACAAAGTGCC-GAAT
28991922 CAGTAA
1 CAGTAA
28991928 GCCGGCAAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
38 16 0.22
39 25 0.34
40 1 0.01
44 1 0.01
45 30 0.41
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (39 bp):
CAGTAACGGTAACAATATTCGACACACAAAGTGCCGAAT
Found at i:28992970 original size:20 final size:20
Alignment explanation
Indices: 28992936--28992975 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
28992926 TGCTATTCTG
*
28992936 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
28992956 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
28992976 GTTTACTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:28998648 original size:6 final size:6
Alignment explanation
Indices: 28998637--28998681 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
28998627 CCAAACACAC
* * *
28998637 CAGTAA CAGTAA TCAATAA CGGTAA CAGTAA CAGTAA TAGTAA CA
1 CAGTAA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CA
28998682 TTATTCAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.20
Consensus pattern (6 bp):
CAGTAA
Found at i:28998724 original size:6 final size:6
Alignment explanation
Indices: 28998709--28998774 Score: 60
Period size: 6 Copynumber: 10.5 Consensus size: 6
28998699 TGCTGAACCT
* ** * *
28998709 GTAACA GTAACG GTAACA ACACACCA GTAACA GTAATCA ATAACG GTAACA
1 GTAACA GTAACA GTAACA GTA-A-CA GTAACA GTAA-CA GTAACA GTAACA
28998760 GTAACA GTAACA GTA
1 GTAACA GTAACA GTA
28998775 TTCAACACAC
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
6 37 0.79
7 7 0.15
8 3 0.06
ACGTcount: A:0.47, C:0.20, G:0.17, T:0.17
Consensus pattern (6 bp):
GTAACA
Found at i:28998793 original size:90 final size:91
Alignment explanation
Indices: 28998630--28998816 Score: 313
Period size: 90 Copynumber: 2.0 Consensus size: 91
28998620 ATTCCAACCA
*
28998630 AACACACCAGTAACAGTAATCAATAACGGTAACAGTAACAGTAATAGTAACATTATTCAACACAC
1 AACACACCAGTAACAGTAATCAATAACGGTAACAGTAAC----A-AGTAACAGTATTCAACACAC
28998695 AAAGTGCTGAACCTGTAACAGTAACGGTAAC
61 AAAGTGCTGAACCTGTAACAGTAACGGTAAC
28998726 AACACACCAGTAACAGTAATCAATAACGGTAACAGTAAC-AGTAACAGTATTCAACACACAAAGT
1 AACACACCAGTAACAGTAATCAATAACGGTAACAGTAACAAGTAACAGTATTCAACACACAAAGT
28998790 GCTGAACCTGTAACAGTAACGGTAAC
66 GCTGAACCTGTAACAGTAACGGTAAC
28998816 A
1 A
28998817 GTATTCGACA
Statistics
Matches: 90, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
90 51 0.57
96 39 0.43
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (91 bp):
AACACACCAGTAACAGTAATCAATAACGGTAACAGTAACAAGTAACAGTATTCAACACACAAAGT
GCTGAACCTGTAACAGTAACGGTAAC
Found at i:28998803 original size:39 final size:38
Alignment explanation
Indices: 28998756--28998930 Score: 127
Period size: 45 Copynumber: 4.2 Consensus size: 38
28998746 CAATAACGGT
*
28998756 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTG
1 AACAGTAACAGTAACAGTATTCGACACACAAA--G-TG---CTG
*
28998800 TAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAGTCGG
1 -AACAGTAACAGTAACAGTATTCGACACACAAAGTG-C---T--G
*
28998845 TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 -AACAGTAACAGTAACAGTATTCGACACACAAAGTGCTG
* * * *
28998884 AATCAGTAACGGTAACAGTAGTCGGCACA-TAAGTGCCTG
1 AA-CAGTAACAGTAACAGTATTCGACACACAAAGTG-CTG
*
28998923 ATCAGTAA
1 AACAGTAA
28998931 GCCGGCAAAT
Statistics
Matches: 112, Mismatches: 11, Indels: 21
0.78 0.08 0.15
Matches are distributed among these distances:
38 13 0.12
39 27 0.24
40 1 0.01
42 2 0.02
43 2 0.02
44 1 0.01
45 66 0.59
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (38 bp):
AACAGTAACAGTAACAGTATTCGACACACAAAGTGCTG
Found at i:28998803 original size:45 final size:45
Alignment explanation
Indices: 28998664--28998903 Score: 213
Period size: 45 Copynumber: 5.3 Consensus size: 45
28998654 AACGGTAACA
* * *
28998664 GTAACAGTAATAGTAACATTATTCAACACACAAAGTGCTGAACCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCG
* * ** * *
28998709 GTAACAGTAACGGTAACA--A--C-ACACCAGTAACAGTAATCAATAACG
1 GTAACAGTAACAGTAACAGTATTCAACA-CA-CAA-AGTGCT-GA-ACCG
*
28998754 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCG
* * **
28998799 GTAACAGTAACGGTAACAGTATTCGACACACAAAGTG-TCGAGTCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCT-GAACCG
* * * *
28998844 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCA
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCG
*
28998889 GTAACGGTAACAGTA
1 GTAACAGTAACAGTA
28998904 GTCGGCACAT
Statistics
Matches: 158, Mismatches: 25, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
40 3 0.02
41 3 0.02
42 2 0.01
43 5 0.03
44 2 0.01
45 129 0.82
46 1 0.01
47 5 0.03
48 2 0.01
49 3 0.02
50 3 0.02
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCG
Found at i:28998809 original size:96 final size:95
Alignment explanation
Indices: 28998630--28998903 Score: 268
Period size: 90 Copynumber: 2.9 Consensus size: 95
28998620 ATTCCAACCA
*
28998630 AACACACCAGTAACAGTAATCAATAACGGTAACAGTAACAGTAATAGTAACATTATTCAACACAC
1 AACACACCAGTAACAGTAATCAATAACGGTAACAGTAAC------AGTAACAGTATTCAACACAC
*
28998695 AAAGTGCTGAACC-T---GTAACAGTAACGGTA-AC
60 AAAGTGCTGAACCGTAACGTAACAGTAACAGTATAC
28998726 AACACACCAGTAACAGTAATCAATAACGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTG
1 AACACACCAGTAACAGTAATCAATAACGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTG
* *
28998791 CTGAACCTGTAACAGTAACGGTAACAGTATTC
66 CTGAACC-GTAAC-GTAACAGTAACAGTATAC
* * * *
28998823 GACACA-C---AA-AGT-GTCGAGT--CGGTAACAGTAACAGTAACAGTATTCGACACACAAAGT
1 AACACACCAGTAACAGTAATC-AATAACGGTAACAGTAACAGTAACAGTATTCAACACACAAAGT
* *
28998880 GCCGAATCAGTAACGGTAACAGTA
65 GCTGAA-CCGTAAC-GTAACAGTA
28998904 GTCGGCACAT
Statistics
Matches: 157, Mismatches: 12, Indels: 24
0.81 0.06 0.12
Matches are distributed among these distances:
90 87 0.55
91 3 0.02
92 6 0.04
93 2 0.01
96 53 0.34
97 6 0.04
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (95 bp):
AACACACCAGTAACAGTAATCAATAACGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTG
CTGAACCGTAACGTAACAGTAACAGTATAC
Found at i:28998846 original size:90 final size:89
Alignment explanation
Indices: 28998664--28998899 Score: 284
Period size: 90 Copynumber: 2.6 Consensus size: 89
28998654 AACGGTAACA
* *
28998664 GTAACAGTAATAGTAACATTATTCAACACACAAAGTGCTGAACCTGTAACAGTAACGGTAACAAC
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGTAACAGTAACGGTAACAAC
*
28998729 ACACCAGTAACAGTAATCAATAACG
66 ACACCAGCAACAGTAATCAAT-ACG
28998754 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGTAACAGTAACGGTAACAGT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGTAACAGTAACGGTAACA--
* *
28998819 ATTCGACA-CA-CAA-AGT-GTCGAGT-CG
64 A--C-ACACCAGCAACAGTAATC-AATACG
* * * * *
28998844 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACGGTAAC
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGTAACAGTAAC
28998900 AGTAGTCGGC
Statistics
Matches: 130, Mismatches: 10, Indels: 12
0.86 0.07 0.08
Matches are distributed among these distances:
90 114 0.88
91 2 0.02
92 6 0.05
93 2 0.02
94 3 0.02
95 3 0.02
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (89 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGTAACAGTAACGGTAACAAC
ACACCAGCAACAGTAATCAATACG
Found at i:29013180 original size:49 final size:51
Alignment explanation
Indices: 29013127--29013232 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 51
29013117 TTTTCTTTAG
* *
29013127 AAAAAATCATTACTTT-TCTTAAAAATCAAAACCTTATTTCAAAAT-AGTT
1 AAAAAATCATAACTTTATCTTAAAAATCAAAACCTTATTTCAAAATGACTT
* * ** * *
29013176 AAAAAATCATAACTTTATTTTAAAATTTTAAACCTTCTTTTAAAATGACTT
1 AAAAAATCATAACTTTATCTTAAAAATCAAAACCTTATTTCAAAATGACTT
29013227 AAAAAA
1 AAAAAA
29013233 ACAGATTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 15 0.32
50 23 0.49
51 9 0.19
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (51 bp):
AAAAAATCATAACTTTATCTTAAAAATCAAAACCTTATTTCAAAATGACTT
Found at i:29015720 original size:18 final size:17
Alignment explanation
Indices: 29015687--29015725 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
29015677 TTTTATAAAT
29015687 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
29015705 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
29015722 TGTG
1 TGTG
29015726 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:29015970 original size:23 final size:23
Alignment explanation
Indices: 29015943--29016064 Score: 174
Period size: 23 Copynumber: 5.3 Consensus size: 23
29015933 AATGTTATTA
*
29015943 ATCAGTGGTAGCTTTGGCTACA-
1 ATCAGTGGTAGCTTCGGCTACAT
*
29015965 ATTCAGTGGTAGCTACGGCTACAT
1 A-TCAGTGGTAGCTTCGGCTACAT
*
29015989 ATCAGTGGTATCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
29016012 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
29016035 ATCAGTGGTAGCTTCGGTTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
29016058 ATCAGTG
1 ATCAGTG
29016065 TGGCACTTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
22 1 0.01
23 86 0.98
24 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:29015996 original size:46 final size:46
Alignment explanation
Indices: 29015943--29016064 Score: 192
Period size: 46 Copynumber: 2.7 Consensus size: 46
29015933 AATGTTATTA
*
29015943 ATCAGTGGTAGCTTTGGCTACAATTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTACAT
* *
29015989 ATCAGTGGTATCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTACAT
*
29016035 ATCAGTGGTAGCTTCGGTTAC-ATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACAAT-TCAGTG
29016065 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 68 0.99
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTACAT
Found at i:29018314 original size:75 final size:75
Alignment explanation
Indices: 29018191--29018342 Score: 277
Period size: 75 Copynumber: 2.0 Consensus size: 75
29018181 GATGAATTTA
* * *
29018191 GAGAGATAAAGCTTCATAAAGGTTAGTAATGGTGTTTTCCAACTTCCTAACTTGAAATTTGTTAT
1 GAGAGAGAAAGCTTCATAAAGGTTAGTAATGGTGTGTTCCAACGTCCTAACTTGAAATTTGTTAT
29018256 AAGTTGCTAG
66 AAGTTGCTAG
29018266 GAGAGAGAAAGCTTCATAAAGGTTAGTAATGGTGTGTTCCAACGTCCTAACTTGAAATTTGTTAT
1 GAGAGAGAAAGCTTCATAAAGGTTAGTAATGGTGTGTTCCAACGTCCTAACTTGAAATTTGTTAT
29018331 AAGTTGCTAG
66 AAGTTGCTAG
29018341 GA
1 GA
29018343 AATAGCTTGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (75 bp):
GAGAGAGAAAGCTTCATAAAGGTTAGTAATGGTGTGTTCCAACGTCCTAACTTGAAATTTGTTAT
AAGTTGCTAG
Found at i:29020833 original size:22 final size:23
Alignment explanation
Indices: 29020808--29020856 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
29020798 GCTTCATAAA
29020808 ATTTGAGAATGGTTCTAAAT-AT
1 ATTTGAGAATGGTTCTAAATGAT
* * *
29020830 ATTTTATAATGTTTCTAAATGAT
1 ATTTGAGAATGGTTCTAAATGAT
29020853 ATTT
1 ATTT
29020857 TACCAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (23 bp):
ATTTGAGAATGGTTCTAAATGAT
Found at i:29020858 original size:23 final size:22
Alignment explanation
Indices: 29020815--29020858 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
29020805 AAAATTTGAG
29020815 AATGGTTCTAAATATATTTTAT
1 AATGGTTCTAAATATATTTTAT
*
29020837 AATGTTTCTAAATGATATTTTA
1 AATGGTTCTAAAT-ATATTTTA
29020859 CCAAAAGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (22 bp):
AATGGTTCTAAATATATTTTAT
Found at i:29021376 original size:25 final size:24
Alignment explanation
Indices: 29021347--29021398 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
29021337 TTTAATTAGT
*
29021347 AAATATATTTTTTAAAAAATTATAA
1 AAATATATTATTTAAAAAATT-TAA
*
29021372 AAATATATTATTTAATAAATTTAA
1 AAATATATTATTTAAAAAATTTAA
29021396 AAA
1 AAA
29021399 GTAAACATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATATATTATTTAAAAAATTTAA
Found at i:29025387 original size:12 final size:12
Alignment explanation
Indices: 29025362--29025400 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
29025352 ACTCGCTTCT
* *
29025362 TTACTTACTCAC
1 TTACTTGCTTAC
*
29025374 TTACTTGTTTAC
1 TTACTTGCTTAC
29025386 TTACTTGCTTAC
1 TTACTTGCTTAC
29025398 TTA
1 TTA
29025401 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:29025750 original size:50 final size:50
Alignment explanation
Indices: 29025663--29025790 Score: 139
Period size: 50 Copynumber: 2.6 Consensus size: 50
29025653 CAATGACATA
* ** ** * * * * *
29025663 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACCGGGGACCTCGCATCTCGGTGCCAACGCCAAG
* *
29025713 TCCTAGACATGGTCTTACGGGGGACCTCGCATCTCGGTGCCAACGCCAAG
1 TCCCAGACATGGTCTTACCGGGGACCTCGCATCTCGGTGCCAACGCCAAG
*
29025763 TCCCAGACATGGTCTTACCTGGGACCTC
1 TCCCAGACATGGTCTTACCGGGGACCTC
29025791 TCATAATATC
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.25
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACCGGGGACCTCGCATCTCGGTGCCAACGCCAAG
Found at i:29032244 original size:12 final size:12
Alignment explanation
Indices: 29032219--29032257 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
29032209 GCTCGCTTCT
* *
29032219 TTACTTACTCAC
1 TTACTTGCTTAC
*
29032231 TTACTTGTTTAC
1 TTACTTGCTTAC
29032243 TTACTTGCTTAC
1 TTACTTGCTTAC
29032255 TTA
1 TTA
29032258 AATAACTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:29034781 original size:25 final size:25
Alignment explanation
Indices: 29034747--29034802 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
29034737 AAACCAAACC
**
29034747 AAGCCTTTGTGGTGAATTCTCTATG
1 AAGCCTTTGTGGTGAAACCTCTATG
*
29034772 AAGCCTTTGTGGTGAAACCTCTGTG
1 AAGCCTTTGTGGTGAAACCTCTATG
29034797 AAGCCT
1 AAGCCT
29034803 ATTTGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (25 bp):
AAGCCTTTGTGGTGAAACCTCTATG
Found at i:29036056 original size:21 final size:22
Alignment explanation
Indices: 29036026--29036121 Score: 70
Period size: 22 Copynumber: 4.4 Consensus size: 22
29036016 TGTACTTTCT
* *
29036026 TGCC-ACTATTT-GTACTTCGG
1 TGCCTACTATTTAGCACTTCGA
29036046 TGCCTACTATTTAGCACTTCGA
1 TGCCTACTATTTAGCACTTCGA
* * * * * *
29036068 TACCTACTACTCAACACTTTGG
1 TGCCTACTATTTAGCACTTCGA
* * *
29036090 TGCCTACTGCTTAAGCACTTCGG
1 TGCCTACT-ATTTAGCACTTCGA
29036113 TGCCTACTA
1 TGCCTACTA
29036122 GTGTGGTGCA
Statistics
Matches: 58, Mismatches: 15, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
20 4 0.07
21 7 0.12
22 30 0.52
23 17 0.29
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (22 bp):
TGCCTACTATTTAGCACTTCGA
Found at i:29036095 original size:22 final size:23
Alignment explanation
Indices: 29036039--29036121 Score: 89
Period size: 22 Copynumber: 3.7 Consensus size: 23
29036029 CACTATTTGT
**
29036039 ACTTCGGTGCCTACTA-TTTAGC
1 ACTTCGGTGCCTACTACTCAAGC
* *
29036061 ACTTCGATACCTACTACTCAA-C
1 ACTTCGGTGCCTACTACTCAAGC
* * *
29036083 ACTTTGGTGCCTACTGCTTAAGC
1 ACTTCGGTGCCTACTACTCAAGC
29036106 ACTTCGGTGCCTACTA
1 ACTTCGGTGCCTACTA
29036122 GTGTGGTGCA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
22 31 0.65
23 17 0.35
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.33
Consensus pattern (23 bp):
ACTTCGGTGCCTACTACTCAAGC
Found at i:29039559 original size:15 final size:15
Alignment explanation
Indices: 29039539--29039571 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
29039529 TGATAATTCA
29039539 TTCCAATCTATTT-TT
1 TTCCAAT-TATTTATT
29039554 TTCCAATTATTTATT
1 TTCCAATTATTTATT
29039569 TTC
1 TTC
29039572 TCACCCTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.61
Consensus pattern (15 bp):
TTCCAATTATTTATT
Found at i:29057490 original size:48 final size:48
Alignment explanation
Indices: 29057419--29057520 Score: 159
Period size: 48 Copynumber: 2.1 Consensus size: 48
29057409 AGTGTGTCGT
*
29057419 GACATCGAAGATAGTTTCATACTTTCTCCATTTCGCTTTCTATATTGC
1 GACATCAAAGATAGTTTCATACTTTCTCCATTTCGCTTTCTATATTGC
** * *
29057467 GACATCAAAGATAGTTTTGTACTTTTTCTATTTCGCTTTCTATATTGC
1 GACATCAAAGATAGTTTCATACTTTCTCCATTTCGCTTTCTATATTGC
29057515 GACATC
1 GACATC
29057521 GAGCCTCTCG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.43
Consensus pattern (48 bp):
GACATCAAAGATAGTTTCATACTTTCTCCATTTCGCTTTCTATATTGC
Found at i:29060775 original size:20 final size:20
Alignment explanation
Indices: 29060752--29060794 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
29060742 GAGCTCCCAC
29060752 CTTTTGAATGTGATTGTCAG
1 CTTTTGAATGTGATTGTCAG
29060772 CTTTTGAATGTGATTGTCAG
1 CTTTTGAATGTGATTGTCAG
29060792 CTT
1 CTT
29060795 GGGTTACGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.12, G:0.23, T:0.47
Consensus pattern (20 bp):
CTTTTGAATGTGATTGTCAG
Found at i:29064272 original size:52 final size:51
Alignment explanation
Indices: 29064207--29064310 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 51
29064197 AAAGTAAATA
** *
29064207 AAATTCAGGAGATAGAAAAGTAAAGCAAATCAAATCTTGATTATGGGTGATT
1 AAATTCAAAAGATAGAAAAGTAAAGCAAATCAAATCTT-ATTATGGGTAATT
** * * * *
29064259 AAATTCAAAAGATAGAAGGGTAGAGTAAATCAAGTCTTTTTATGGGTAATT
1 AAATTCAAAAGATAGAAAAGTAAAGCAAATCAAATCTTATTATGGGTAATT
29064310 A
1 A
29064311 GATTGCTTCG
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
51 12 0.28
52 31 0.72
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (51 bp):
AAATTCAAAAGATAGAAAAGTAAAGCAAATCAAATCTTATTATGGGTAATT
Found at i:29065913 original size:13 final size:13
Alignment explanation
Indices: 29065895--29065960 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
29065885 AGTTTAGCAT
29065895 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
29065908 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
** *
29065921 TGCAGTAGAAAAG
1 TGCTTTTGAAAAG
*
29065934 TACTTTTGAGAAA-
1 TGCTTTTGA-AAAG
*
29065947 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
29065960 T
1 T
29065961 TTGATTTAAG
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 3 0.07
13 36 0.86
14 3 0.07
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:29066200 original size:14 final size:14
Alignment explanation
Indices: 29066181--29066210 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
29066171 TATTTCTAAG
29066181 TAATGAATATTAAT
1 TAATGAATATTAAT
29066195 TAATGAATATTAAT
1 TAATGAATATTAAT
29066209 TA
1 TA
29066211 TTTATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
TAATGAATATTAAT
Found at i:29068569 original size:18 final size:18
Alignment explanation
Indices: 29068542--29068593 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
29068532 TGTTTCCATC
*
29068542 AATGTGAACATCATTTGA
1 AATGTGAACATCATTTAA
*
29068560 AATGTTAACATCATTTAA
1 AATGTGAACATCATTTAA
*
29068578 AATATGAACATCATTT
1 AATGTGAACATCATTT
29068594 CTCACATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.37
Consensus pattern (18 bp):
AATGTGAACATCATTTAA
Found at i:29072673 original size:37 final size:37
Alignment explanation
Indices: 29072597--29072673 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
29072587 TATAATGCAT
* *
29072597 AATATAATAATAATGTTTTTTTTAAGAAAAATAATTA
1 AATAAAATAATAATGTTTTTTTTAAGAAAAATAACTA
* *
29072634 AATAAAATAATAGTTTTTTTCTTTAA-AAAAA-AGACTA
1 AATAAAATAATAATGTTTTT-TTTAAGAAAAATA-ACTA
29072671 AAT
1 AAT
29072674 TGAGCTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
36 1 0.03
37 28 0.82
38 5 0.15
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (37 bp):
AATAAAATAATAATGTTTTTTTTAAGAAAAATAACTA
Found at i:29073360 original size:44 final size:44
Alignment explanation
Indices: 29073276--29074327 Score: 802
Period size: 44 Copynumber: 23.1 Consensus size: 44
29073266 ATAAGACTTG
* *
29073276 TATCTTCGATCTACTTCACTG-CTGATACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-TGTC-AATACATGAAGACAAGATCTGC
***
29073321 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCAT
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* *** * ***
29073365 TATCTTCGATCTTCTTCACCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCTGC
***
29073410 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCAT
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* *** * ***
29073454 TATCTTCGATCTTCTTCACCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCTGC
29073499 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
29073543 TATC-TCTGATCTGCTATCTCTGATCTACT-TCATGTCAATACATGAAGACAAGATCTGC
1 TATCTTC-GA--T-CTA---CT--TC-A-TGTC-----AATACATGAAGACAAGATCTGC
* ***
29073601 TATC-TCTGATCTGCTATCTCTGATCTACT-TCATGTCAATACATAAAGACAAGATCCAT
1 TATCTTC-GA--T-CTA---CT--TC-A-TGTC-----AATACATGAAGACAAGATCTGC
*** ***
29073659 TATCTTCGATCTACTTCACCACTAATATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCATGTC-AATACATGAAGACAAGATCTGC
* * *
29073704 TATCTTCGATCTACTTCGTGTCAATACATGAAAACAACATCTGC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* * * * * *
29073748 CATTCTTCGATTTACTTCACGCCAATACATGAAGACACGATCTAC
1 TA-TCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* *
29073793 TATCTTCGATCTATTTCATGTCAATACATAAAGACAAGATCTGC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* * * * * * * *
29073837 TATATTTGATCTACTTCGCTGCCAGTAGAGGAAGACAAGATCTGT
1 TATCTTCGATCTACTTC-ATGTCAATACATGAAGACAAGATCTGC
* * * * * *
29073882 TTTCTTCGATCTACTTCACGCCAGTACATAAAGACAAGATTTGC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* * * * * * **
29073926 TTTCTTCGATCTACTTCACGCCAGTACATGAAGATAAGATTTAT
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* * *
29073970 TTTCTTCGATCTACTTCACG-CTAGTACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCATGTC-AATACATGAAGACAAGATCTGC
***
29074014 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCAT
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* * ** *
29074058 TACCTTCGATCTACTTCA--CCACCAGTATGGAAAGACAAGATCTGC
1 TATCTTCGATCTACTTCATGTCAATA-CAT-G-AAGACAAGATCTGC
*
29074103 TATCTTTGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
*
29074147 TATC-TCTGATCTACTCCATGTCAATACATGAAGACAAGATC--C
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* *
29074189 ATCATCTTCGATCTACTTCATGTCAATATATGAAGATAAGATCTGC
1 -T-ATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
*
29074235 TATC-TCTGATCTACTCCATGTCAATACATGAAGACAAGATCTGC
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCTGC
29074279 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCTGC
29074323 TATCT
1 TATCT
29074328 AAGATCTGCT
Statistics
Matches: 822, Mismatches: 143, Indels: 84
0.78 0.14 0.08
Matches are distributed among these distances:
42 4 0.00
43 11 0.01
44 475 0.58
45 220 0.27
46 4 0.00
47 6 0.01
49 2 0.00
50 4 0.00
52 4 0.00
53 3 0.00
54 1 0.00
55 3 0.00
56 1 0.00
58 82 0.10
59 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (44 bp):
TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
Found at i:29073427 original size:89 final size:88
Alignment explanation
Indices: 29073276--29074327 Score: 651
Period size: 89 Copynumber: 11.6 Consensus size: 88
29073266 ATAAGACTTG
** * *
29073276 TATCTTCGATCTACTTCACTGCTGATACAGGAAGACAAGATCTGCTATC-TCTGATCTACTTCAT
1 TATCTTCGATCTACTTCAC-GCCAATATATGAAGACAAGATCTGCTATCTTC-GATCTACTTCAT
29073340 GTCAATACATGAAGACAAGATCCAT
64 GTCAATACATGAAGACAAGATCCAT
* * * **
29073365 TATCTTCGATCTTCTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCATG
1 TATCTTCGATCTACTTCA-CGCCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCATG
29073430 TCAATACATGAAGACAAGATCCAT
65 TCAATACATGAAGACAAGATCCAT
* * * **
29073454 TATCTTCGATCTTCTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCATG
1 TATCTTCGATCTACTTCA-CGCCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCATG
***
29073519 TCAATACATGAAGACAAGATCTGC
65 TCAATACATGAAGACAAGATCCAT
* * * * * * * *
29073543 TATC-TCTGATCTGCTATCTCTGATCTACT-TCATGTCAATACATGAAGA-CAAGATCTGCTATC
1 TATCTTC-GATCTACT-TCAC-G--CCAATAT-ATG--AAGAC---AAGATC-TGCTAT-CT-TC
* * * *
29073605 TCTGATCTGCTATCTCTGATCTACTTCATGTCAATACATAAAGACAAGATCCAT
52 ---GATCTACT-TC-ATG-TC-AATACATG----------AAGACAAGATCCAT
** *
29073659 TATCTTCGATCTACTTCAC-CACTAATATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCGT
1 TATCTTCGATCTACTTCACGC-C-AATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAT
* *
29073723 GTCAATACATGAAAACAACATCTGCCA-
64 GTCAATACATGAAGACAAGA--T-CCAT
* * * * *
29073750 T-TCTTCGATTTACTTCACGCCAATACATGAAGACACGATCTACTATCTTCGATCTATTTCATGT
1 TATCTTCGATCTACTTCACGCCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCATGT
* ***
29073814 CAATACATAAAGACAAGATCTGC
66 CAATACATGAAGACAAGATCCAT
* * * * * * * * *
29073837 TATATTTGATCTACTTCGCTGCCAGTAGAGGAAGACAAGATCTGTTTTCTTCGATCTACTTCACG
1 TATCTTCGATCTACTTCAC-GCCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCATG
* * * *
29073902 CCAGTACATAAAGACAAGATTTGC-T
65 TCAATACATGAAGACAAGA--TCCAT
* * * * ** * *
29073927 T-TCTTCGATCTACTTCACGCCAGTACATGAAGATAAGATTTATTTTCTTCGATCTACTTCACG-
1 TATCTTCGATCTACTTCACGCCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCATGT
* ***
29073990 CTAGTACATGAAGACAAGATCTGC
66 C-AATACATGAAGACAAGATCCAT
* * * *** *
29074014 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTACCTTCGATCTACTTCA--
1 TATCTTC-GATCTACTTCACGCCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCATG
* ** * ***
29074076 CCACCAGTATGGAAAGACAAGATCTGC
65 TCAATA-CAT-G-AAGACAAGATCCAT
* * * * *
29074103 TATCTTTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATC-TCTGATCTACTCCATG
1 TATCTTCGATCTACTTCACGCCAATATATGAAGACAAGATCTGCTATCTTC-GATCTACTTCATG
29074167 TCAATACATGAAGACAAGATCCAT
65 TCAATACATGAAGACAAGATCCAT
* * * * *
29074191 CATCTTCGATCTACTTCATGTCAATATATGAAGATAAGATCTGCTATC-TCTGATCTACTCCATG
1 TATCTTCGATCTACTTCACGCCAATATATGAAGACAAGATCTGCTATCTTC-GATCTACTTCATG
***
29074255 TCAATACATGAAGACAAGATCTGC
65 TCAATACATGAAGACAAGATCCAT
* * *
29074279 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
1 TATCTTC-GATCTACTTCACGCCAATATATGAAGACAAGATCTGCTATCT
29074328 AAGATCTGCT
Statistics
Matches: 781, Mismatches: 121, Indels: 122
0.76 0.12 0.12
Matches are distributed among these distances:
86 4 0.01
87 11 0.01
88 257 0.33
89 366 0.47
90 26 0.03
91 8 0.01
92 7 0.01
94 4 0.01
96 1 0.00
97 7 0.01
98 2 0.00
99 8 0.01
100 2 0.00
101 2 0.00
102 9 0.01
103 9 0.01
104 2 0.00
105 2 0.00
106 8 0.01
107 2 0.00
108 7 0.01
109 1 0.00
111 5 0.01
113 3 0.00
114 1 0.00
115 3 0.00
116 22 0.03
117 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (88 bp):
TATCTTCGATCTACTTCACGCCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCATGT
CAATACATGAAGACAAGATCCAT
Found at i:29073542 original size:133 final size:132
Alignment explanation
Indices: 29073276--29075106 Score: 744
Period size: 133 Copynumber: 12.7 Consensus size: 132
29073266 ATAAGACTTG
* * ***
29073276 TATCTTCGATCTACTTCACTG-CTGATACAGGAAGACAAGATCTGCTATC-TCTGATCTACTTCA
1 TATCTTCGATCTACTTCA-TGTC-AATACATGAAGACAAGATCCATTATCTTC-GATCTACTTCA
* * * * * *** * ***
29073339 TGTCAATACATGAAGACAAGATCCATTATCTTCGATCTTCTTCACCACCAGTATGGGAAGACAAG
63 CGCCAATACATGAAGACAAGATCTACTATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAG
29073404 ATCTGC
127 ATCTGC
* *
29073410 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTTCTTCACCA
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCA-CG
* *** *
29073475 CCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATC
65 CCAATACATGAAGACAAGATCTACTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATC
29073540 TGCTATCTC
130 TG------C
29073549 TGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTCTGATCTG
1 T-A--T-C--T-TC-GATCTACTTCATGTCAATACATGAAGACAAGATC--C-A--T-T-A--T-
* * * * * **
29073614 CTATCTCTGATCTACTTCATGTCAATACATAAAGACAAGATCCATTATCTTCGATCTACTTCACC
48 C--T-TC-GATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTTCGATCTACTTCATG
* ***
29073679 ACTAATATGGGAAGACAAGATCTGC
109 TC-AATACATGAAGACAAGATCTGC
* * * *
29073704 TATCTTCGATCTACTTCGTGTCAATACATGAAAACAACATCTGCCA-T-TCTTCGATTTACTTCA
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGA--T-CCATTATCTTCGATCTACTTCA
* * *
29073767 CGCCAATACATGAAGACACGATCTACTATCTTCGATCTATTTCATGTCAATACATAAAGACAAGA
63 CGCCAATACATGAAGACAAGATCTACTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGA
29073832 TCTGC
128 TCTGC
* * * * * * * ** *
29073837 TATATTTGATCTACTTCGCTGCCAGTAGAGGAAGACAAGATCTGTTTTCTTCGATCTACTTCACG
1 TATCTTCGATCTACTTC-ATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACG
* * * * * * * * * *
29073902 CCAGTACATAAAGACAAGATTTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGATAAGATT
65 CCAATACATGAAGACAAGATCTACTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATC
**
29073967 TAT
130 TGC
* * * *** *
29073970 TTTCTTCGATCTACTTCACG-CTAGTACATGAAGACAAGATCTGCTATC-TCTGATCTACTTCAT
1 TATCTTCGATCTACTTCATGTC-AATACATGAAGACAAGATCCATTATCTTC-GATCTACTTCAC
* * * * * ** *
29074033 GTCAATACATGAAGACAAGATCCATTACCTTCGATCTACTTCA--CCACCAGTATGGAAAGACAA
64 GCCAATACATGAAGACAAGATCTACTATCTTCGATCTACTTCATGTCAATA-CAT-G-AAGACAA
29074096 GATCTGC
126 GATCTGC
* *** * *
29074103 TATCTTTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATC-TCTGATCTACTCCATG
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTC-GATCTACTTCACG
* * * *
29074167 TCAATACATGAAGACAAGATCCA-TCATCTTCGATCTACTTCATGTCAATATATGAAGATAAGAT
65 CCAATACATGAAGACAAGATCTACT-ATCTTCGATCTACTTCATGTCAATACATGAAGACAAGAT
29074231 CTGC
129 CTGC
* *** *
29074235 TATC-TCTGATCTACTCCATGTCAATACATGAAGACAAGATCTGCTATC-TCTGATCTACTTCAT
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTC-GATCTACTTCAC
*
29074298 GTCAATACATGAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATA
64 GCCAATACATGAAGACAAGA--T-CTA-CT---A--T-C--T-TC-GATCTACTTCATGTCAATA
29074363 CATGAAGACAAGATCTGCTATC
115 CATGAAGACAAGATCTG----C
29074385 TAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTAAGATC
1 T---A--T-C--T-TC-GATCTACTTCATGTCAATACATGAAGACAAGATC--C-AT-T---A--
* *
29074450 TGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTAAGATCTGCTATC
47 T-C--T-TC-GATCTACTTCACGCCAATACATGAAGACAAGA--T-CTA-CT---A--T-C--T-
29074515 TCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATC
94 TC-GATCTACTTCATGTCAATACATGAAGACAAGATCTG----C
29074559 TAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATC
1 T---A--T-C--T-TC-GATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATC
* * *
29074624 TACTTCAC-CATCATTATGAACAAGATCTGCTATCTAAGATCTGCTATC-TCTGATCTACTTCAT
56 TACTTCACGC--CA--AT--ACATGA--AG--A-C-AAGATCTACTATCTTC-GATCTACTTCAT
29074687 GTCAATACATGAAGACAAGATCTGCTATC
108 GTCAATACATGAAGACAAGATCTG----C
29074716 TAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTAAGATC
1 T---A--T-C--T-TC-GATCTACTTCATGTCAATACATGAAGACAAGATC--C-AT-T---A--
* *
29074781 TGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTAAGATCTGCTATC
47 T-C--T-TC-GATCTACTTCACGCCAATACATGAAGACAAGA--T-CTA-CT---A--T-C--T-
***
29074846 TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCAT
94 TC-GATCTACTTCATGTCAATACATGAAGACAAGATCTGC
*** * *** *** *
29074886 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACC
1 TATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCA-C
* * *** *
29074951 ACCAGTATGGGAAGACAAGATCTGCTATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGA
64 GCCAATACATGAAGACAAGATCTACTATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGA
***
29075015 TCCAT
128 TCTGC
* ** * *** *
29075020 TATCTTCGATCTACTTCA--CCACCAGTATGGAAAGACAAGATCTGCTATCTTTGATCTACTTCA
1 TATCTTCGATCTACTTCATGTCAATA-CAT-G-AAGACAAGATCCATTATCTTCGATCTACTTCA
29075083 CGCCAATACATGAAGACAAGATCT
63 CGCCAATACATGAAGACAAGATCT
29075107 GCTGCTTCTT
Statistics
Matches: 1386, Mismatches: 175, Indels: 273
0.76 0.10 0.15
Matches are distributed among these distances:
130 4 0.00
131 11 0.01
132 164 0.12
133 295 0.21
134 212 0.15
135 7 0.01
136 1 0.00
137 1 0.00
138 2 0.00
139 5 0.00
140 1 0.00
141 2 0.00
142 2 0.00
143 2 0.00
144 3 0.00
145 5 0.00
146 37 0.03
147 75 0.05
148 18 0.01
149 4 0.00
150 4 0.00
151 2 0.00
152 3 0.00
153 2 0.00
154 3 0.00
155 3 0.00
156 2 0.00
157 97 0.07
159 2 0.00
160 100 0.07
161 53 0.04
162 5 0.00
163 4 0.00
164 8 0.01
165 7 0.01
166 6 0.00
167 8 0.01
168 4 0.00
169 5 0.00
170 9 0.01
171 17 0.01
172 1 0.00
174 190 0.14
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (132 bp):
TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACGC
CAATACATGAAGACAAGATCTACTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCT
GC
Found at i:29073555 original size:14 final size:14
Alignment explanation
Indices: 29073536--29073568 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
29073526 ATGAAGACAA
29073536 GATCTGCTATCTCT
1 GATCTGCTATCTCT
29073550 GATCTGCTATCTCT
1 GATCTGCTATCTCT
29073564 GATCT
1 GATCT
29073569 ACTTCATGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.42
Consensus pattern (14 bp):
GATCTGCTATCTCT
Found at i:29073613 original size:14 final size:14
Alignment explanation
Indices: 29073594--29073626 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
29073584 ATGAAGACAA
29073594 GATCTGCTATCTCT
1 GATCTGCTATCTCT
29073608 GATCTGCTATCTCT
1 GATCTGCTATCTCT
29073622 GATCT
1 GATCT
29073627 ACTTCATGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.42
Consensus pattern (14 bp):
GATCTGCTATCTCT
Found at i:29073670 original size:58 final size:58
Alignment explanation
Indices: 29073492--29073655 Score: 303
Period size: 58 Copynumber: 2.8 Consensus size: 58
29073482 GGGAAGACAA
29073492 GATCTGCTATCT-TCGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTCT
1 GATCTGCTATCTCT-GATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTCT
29073550 GATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTCT
1 GATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTCT
*
29073608 GATCTGCTATCTCTGATCTACTTCATGTCAATACATAAAGACAAGATC
1 GATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATC
29073656 CATTATCTTC
Statistics
Matches: 104, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
58 103 0.99
59 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (58 bp):
GATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTCT
Found at i:29074051 original size:221 final size:220
Alignment explanation
Indices: 29073608--29074327 Score: 705
Period size: 221 Copynumber: 3.3 Consensus size: 220
29073598 TGCTATCTCT
* * * * * ** ***
29073608 GATCTGCTATCTCTGATCTACTTCATGTCAATACATAAAGACAAGATCCATTATCTTCGATCTAC
1 GATCTGCTATCTTTGATCTACTTCCTGCCAGTAGAGGAAGACAAGATCTGCTATCTTCGATCTAC
**** * ** *
29073673 TTCAC-CACTAATATGGGAAGACAAGATCTGCTATCT-TCGATCTACTTCGTGTCAATACATGAA
66 TTCACGC-C-AATACATAAAGACAAGATCTGCTATCTCT-GATCTACTCCACGCCAATACATGAA
* * *** * * * *
29073736 AACAACATCTGCCATTCTTCGATTTACTTCACGCCAATACATGAAGACACGATCTACTATCT-TC
128 GACAAGATCCATC-TTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTATCTCT-
* *
29073800 GATCTATTTCATGTCAATACATAAAGACAA
191 GATCTACTTCATGTCAATACATGAAGACAA
* * *
29073830 GATCTGCTATATTTGATCTACTTCGCTGCCAGTAGAGGAAGACAAGATCTGTTTTCTTCGATCTA
1 GATCTGCTATCTTTGATCTACTTC-CTGCCAGTAGAGGAAGACAAGATCTGCTATCTTCGATCTA
* * * * *
29073895 CTTCACGCCAGTACATAAAGACAAGATTTGCTTTCT-TCGATCTACTTCACGCCAGTACATGAAG
65 CTTCACGCCAATACATAAAGACAAGATCTGCTATCTCT-GATCTACTCCACGCCAATACATGAAG
* ** * *
29073959 ATAAGATTTATTTTCTTCGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTATCTCTGAT
129 ACAAGATCCATCTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTATCTCTGAT
29074024 CTACTTCATGTCAATACATGAAGACAA
194 CTACTTCATGTCAATACATGAAGACAA
*** * * ** * *
29074051 GATCCATTACCTTCGATCTACTTCACCACCAGTATG-GAAAGACAAGATCTGCTATCTTTGATCT
1 GATCTGCTATCTTTGATCTACTTC-CTGCCAGTA-GAGGAAGACAAGATCTGCTATCTTCGATCT
* * * * *
29074115 ACTTCATGTCAATACATGAAGACAAGATCTGCTATCTCTGATCTACTCCATGTCAATACATGAAG
64 ACTTCACGCCAATACATAAAGACAAGATCTGCTATCTCTGATCTACTCCACGCCAATACATGAAG
* * * *
29074180 ACAAGATCCATCATCTTCGATCTACTTCATG-TCAATATATGAAGATAAGATCTGCTATCTCTGA
129 ACAAGATCCATCTTCTTCGATCTACTTCACGCT-AATACATGAAGACAAGATCTGCTATCTCTGA
*
29074244 TCTACTCCATGTCAATACATGAAGACAA
193 TCTACTTCATGTCAATACATGAAGACAA
* * * * * *
29074272 GATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
1 GATCTGCTATCTTTGATCTACTTCCTGCCAGTAGAGGAAGACAAGATCTGCTATCT
29074328 AAGATCTGCT
Statistics
Matches: 408, Mismatches: 83, Indels: 16
0.80 0.16 0.03
Matches are distributed among these distances:
220 24 0.06
221 271 0.66
222 74 0.18
223 38 0.09
224 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (220 bp):
GATCTGCTATCTTTGATCTACTTCCTGCCAGTAGAGGAAGACAAGATCTGCTATCTTCGATCTAC
TTCACGCCAATACATAAAGACAAGATCTGCTATCTCTGATCTACTCCACGCCAATACATGAAGAC
AAGATCCATCTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTATCTCTGATCT
ACTTCATGTCAATACATGAAGACAA
Found at i:29074348 original size:14 final size:14
Alignment explanation
Indices: 29074314--29074341 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29074304 ACATGAAGAC
29074314 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074328 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074342 CTGATCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
AAGATCTGCTATCT
Found at i:29074406 original size:14 final size:14
Alignment explanation
Indices: 29074372--29074399 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29074362 ACATGAAGAC
29074372 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074386 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074400 CTGATCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
AAGATCTGCTATCT
Found at i:29074432 original size:116 final size:116
Alignment explanation
Indices: 29074270--29074882 Score: 965
Period size: 116 Copynumber: 5.4 Consensus size: 116
29074260 ACATGAAGAC
29074270 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTAAGATCT
1 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTAAGATCT
29074335 GCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
66 GCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
29074386 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTAAGATCT
1 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTAAGATCT
29074451 GCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
66 GCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
29074502 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTAAGATCT
1 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTAAGATCT
***
29074567 GCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCT
66 GCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
** * * * * * * ** *
29074618 TCGATCTACT-TCAC-CATC-A-TT-ATG---A-AC---AAGATC-TGCTAT-CTA-AGAT---C
1 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGA-CAAGATCTGCTATCTAAGATC
29074665 TGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
65 TGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
29074717 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTAAGATCT
1 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTAAGATCT
29074782 GCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
66 GCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
29074833 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATC
1 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATC
29074883 CATTATCTTC
Statistics
Matches: 450, Mismatches: 28, Indels: 38
0.87 0.05 0.07
Matches are distributed among these distances:
99 57 0.13
100 3 0.01
101 3 0.01
102 2 0.00
103 5 0.01
104 10 0.02
105 1 0.00
107 3 0.01
108 3 0.01
110 1 0.00
111 10 0.02
112 5 0.01
113 2 0.00
114 3 0.01
115 3 0.01
116 339 0.75
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (116 bp):
AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTAAGATCT
GCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
Found at i:29074464 original size:14 final size:14
Alignment explanation
Indices: 29074430--29074457 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29074420 ACATGAAGAC
29074430 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074444 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074458 CTGATCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
AAGATCTGCTATCT
Found at i:29074522 original size:14 final size:14
Alignment explanation
Indices: 29074488--29074515 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29074478 ACATGAAGAC
29074488 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074502 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074516 CTGATCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
AAGATCTGCTATCT
Found at i:29074580 original size:14 final size:14
Alignment explanation
Indices: 29074546--29074573 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29074536 ACATGAAGAC
29074546 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074560 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074574 CTGATCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
AAGATCTGCTATCT
Found at i:29074624 original size:58 final size:58
Alignment explanation
Indices: 29074270--29074609 Score: 680
Period size: 58 Copynumber: 5.9 Consensus size: 58
29074260 ACATGAAGAC
29074270 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
1 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
29074328 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
1 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
29074386 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
1 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
29074444 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
1 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
29074502 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
1 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
29074560 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATC
1 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATC
29074610 CATTATCTTC
Statistics
Matches: 282, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 282 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.32
Consensus pattern (58 bp):
AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCT
Found at i:29074679 original size:14 final size:14
Alignment explanation
Indices: 29074645--29074672 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29074635 CATTATGAAC
29074645 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074659 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074673 CTGATCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
AAGATCTGCTATCT
Found at i:29074700 original size:215 final size:215
Alignment explanation
Indices: 29074428--29074824 Score: 794
Period size: 215 Copynumber: 1.8 Consensus size: 215
29074418 ATACATGAAG
29074428 ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGAT
1 ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGAT
29074493 CTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTAT
66 CTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTAT
29074558 CTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGAT
131 CTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGAT
29074623 CTACTTCACCATCATTATGA
196 CTACTTCACCATCATTATGA
29074643 ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGAT
1 ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGAT
29074708 CTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTAT
66 CTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTAT
29074773 CTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATC
131 CTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATC
29074825 TGCTATCTAA
Statistics
Matches: 182, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
215 182 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.32
Consensus pattern (215 bp):
ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGAT
CTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTAT
CTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGAT
CTACTTCACCATCATTATGA
Found at i:29074711 original size:273 final size:276
Alignment explanation
Indices: 29074366--29074935 Score: 1092
Period size: 273 Copynumber: 2.1 Consensus size: 276
29074356 GTCAATACAT
29074366 GAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACA
1 GAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACA
29074431 AGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTG
66 AGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTG
29074496 CTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTA
131 CTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTA
29074561 AGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTA
196 AGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTA
* *
29074626 CTTCACCATCATTAT-
261 CTTCACCACCAGTATG
29074641 G-A-ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACA
1 GAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACA
29074704 AGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTG
66 AGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTG
29074769 CTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTA
131 CTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTA
29074834 AGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTA
196 AGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTA
29074899 CTTCACCACCAGTATGG
261 CTTCACCACCAGTAT-G
29074916 GAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTATCT
29074936 TTGATCTACT
Statistics
Matches: 289, Mismatches: 2, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
273 269 0.93
274 1 0.00
275 2 0.01
276 1 0.00
277 16 0.06
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (276 bp):
GAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACA
AGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTG
CTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTA
AGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTA
CTTCACCACCAGTATG
Found at i:29074737 original size:14 final size:14
Alignment explanation
Indices: 29074703--29074730 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29074693 ACATGAAGAC
29074703 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074717 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074731 CTGATCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
AAGATCTGCTATCT
Found at i:29074789 original size:331 final size:334
Alignment explanation
Indices: 29074225--29074882 Score: 1200
Period size: 331 Copynumber: 2.0 Consensus size: 334
29074215 TATATGAAGA
**
29074225 TAAGATCTGCTATCTCTGATCTACTCCATGTCAATACATGAAGACAAGATCTGCTATCTCTGATC
1 TAAGATCTGCTATCTCTGATCTACTCCATGTCAATACATGAAGACAAGATCCACTATCTCTGATC
**
29074290 TACTTCATGTCAATACATGAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCA
66 TACTTCACATCAATACATGAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCA
29074355 TGTCAATACATGAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAAT
131 TGTCAATACATGAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAAT
29074420 ACATGAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAA
196 ACATGAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAA
29074485 GACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGA
261 GACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGA
29074550 TCTGCTATC
326 TCTGCTATC
* *
29074559 TAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCT-TCGAT
1 TAAGATCTGCTATCTCTGATCTACTCCATGTCAATACATGAAGACAAGATCCACTATCTCT-GAT
*
29074623 CTACTTCACCATC-AT-TATG-A-ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTT
65 CTACTTCA-CATCAATACATGAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTT
29074684 CATGTCAATACATGAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCA
129 CATGTCAATACATGAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCA
29074749 ATACATGAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATG
194 ATACATGAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATG
29074814 AAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAA
259 AAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAA
29074879 GATC
324 GATC
29074883 CATTATCTTC
Statistics
Matches: 315, Mismatches: 7, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
331 240 0.76
332 1 0.00
333 4 0.01
334 68 0.22
335 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (334 bp):
TAAGATCTGCTATCTCTGATCTACTCCATGTCAATACATGAAGACAAGATCCACTATCTCTGATC
TACTTCACATCAATACATGAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCA
TGTCAATACATGAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAAT
ACATGAAGACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAA
GACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGA
TCTGCTATC
Found at i:29074795 original size:14 final size:14
Alignment explanation
Indices: 29074761--29074788 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29074751 ACATGAAGAC
29074761 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074775 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074789 CTGATCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
AAGATCTGCTATCT
Found at i:29074853 original size:14 final size:14
Alignment explanation
Indices: 29074819--29074846 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29074809 ACATGAAGAC
29074819 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074833 AAGATCTGCTATCT
1 AAGATCTGCTATCT
29074847 CTGATCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
AAGATCTGCTATCT
Found at i:29074897 original size:58 final size:58
Alignment explanation
Indices: 29074643--29074882 Score: 480
Period size: 58 Copynumber: 4.1 Consensus size: 58
29074633 ATCATTATGA
29074643 ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAG
1 ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAG
29074701 ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAG
1 ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAG
29074759 ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAG
1 ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAG
29074817 ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAG
1 ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAG
29074875 ACAAGATC
1 ACAAGATC
29074883 CATTATCTTC
Statistics
Matches: 182, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 182 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (58 bp):
ACAAGATCTGCTATCTAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAG
Found at i:29074935 original size:45 final size:45
Alignment explanation
Indices: 29074871--29075109 Score: 259
Period size: 45 Copynumber: 5.4 Consensus size: 45
29074861 GTCAATACAT
***
29074871 GAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAGTATGG
*
29074916 GAAGACAAGATCTGCTATCTTTGATCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAGTATGG
*** * ***
29074961 GAAGACAAGATCTGCTATC-TCTGATCTACTTCA-TGTCAATACAT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCACCACCAGTATGG
***
29075005 GAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAGTATGG
* * * * ***
29075050 AAAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAGTATGG
29075094 GAAGACAAGATCTGCT
1 GAAGACAAGATCTGCT
29075110 GCTTCTTAGC
Statistics
Matches: 158, Mismatches: 33, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
44 53 0.34
45 105 0.66
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (45 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAGTATGG
Found at i:29075009 original size:89 final size:89
Alignment explanation
Indices: 29074916--29075109 Score: 316
Period size: 89 Copynumber: 2.2 Consensus size: 89
29074906 ACCAGTATGG
* *
29074916 GAAGACAAGATCTGCTATCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAGTATGGAAAGACAAGATCTGCTATCT
* *
29074981 CTGATCTACTTCATGTCAATACAT
66 CTGATCTACTTCACGCCAATACAT
***
29075005 GAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGGAAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAGTATGGAAAGACAAGATCTGCTATCT
*
29075070 TTGATCTACTTCACGCCAATACAT
66 CTGATCTACTTCACGCCAATACAT
29075094 GAAGACAAGATCTGCT
1 GAAGACAAGATCTGCT
29075110 GCTTCTTAGC
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 94 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (89 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAGTATGGAAAGACAAGATCTGCTATCT
CTGATCTACTTCACGCCAATACAT
Found at i:29075073 original size:134 final size:133
Alignment explanation
Indices: 29074833--29075109 Score: 491
Period size: 134 Copynumber: 2.1 Consensus size: 133
29074823 TCTGCTATCT
29074833 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCT
1 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCT
* * **
29074898 ACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACCACCAGTATGGGA
66 ACTTCACCACCAGTATGGAAAGACAAGATCTGCTATCTTTGATCTACTTCA-CACCAATACAGGA
29074963 AGAC
130 AGAC
29074967 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCT
1 AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCT
* *
29075032 ACTTCACCACCAGTATGGAAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAA
66 ACTTCACCACCAGTATGGAAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAATACAGGAA
29075097 GAC
131 GAC
29075100 AAGATCTGCT
1 AAGATCTGCT
29075110 GCTTCTTAGC
Statistics
Matches: 137, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
133 22 0.16
134 115 0.84
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (133 bp):
AAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCT
ACTTCACCACCAGTATGGAAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAATACAGGAA
GAC
Found at i:29076407 original size:21 final size:21
Alignment explanation
Indices: 29076383--29076430 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
29076373 TTAGCCTCTC
*
29076383 CATTTTTACTTTTTCAT-TTTT
1 CATTTTT-CATTTTCATCTTTT
29076404 CATTTTTCATTTTCATCTTTT
1 CATTTTTCATTTTCATCTTTT
29076425 CATTTT
1 CATTTT
29076431 CTCACATCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (21 bp):
CATTTTTCATTTTCATCTTTT
Found at i:29076431 original size:6 final size:7
Alignment explanation
Indices: 29076383--29076430 Score: 64
Period size: 7 Copynumber: 6.9 Consensus size: 7
29076373 TTAGCCTCTC
29076383 CATTTTT
1 CATTTTT
29076390 -ACTTTTT
1 CA-TTTTT
29076397 CATTTTT
1 CATTTTT
29076404 CATTTTT
1 CATTTTT
29076411 CA-TTTT
1 CATTTTT
29076417 CATCTTTT
1 CAT-TTTT
29076425 CATTTT
1 CATTTT
29076431 CTCACATCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
6 7 0.19
7 22 0.59
8 8 0.22
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:29081427 original size:125 final size:125
Alignment explanation
Indices: 29081283--29081533 Score: 475
Period size: 125 Copynumber: 2.0 Consensus size: 125
29081273 TTTTTTACTC
29081283 ATGTATTTAAAATAAAAAATATTCTCGGTTATTTGAAATCAACAAAGAAAATCGGAACCCAATAC
1 ATGTATTTAAAATAAAAAATATTCTCGGTTATTTGAAATCAACAAAGAAAATCGGAACCCAATAC
*
29081348 GTTAGGACTCAATTTTCCTCGAAAATCCCAAAACCTTGAATACTGCTTTTATTCACAAAA
66 ATTAGGACTCAATTTTCCTCGAAAATCCCAAAACCTTGAATACTGCTTTTATTCACAAAA
*
29081408 ATGTATTTAAAATAAAAAATATTCTCGGTTATTTGAAATCAACAAAGAAAATCTGAACCCAATAC
1 ATGTATTTAAAATAAAAAATATTCTCGGTTATTTGAAATCAACAAAGAAAATCGGAACCCAATAC
*
29081473 ATTAGGGCTCAATTTTCCTCGAAAATCCCAAAACCTTGAATACTGCTTTTATTCACAAAA
66 ATTAGGACTCAATTTTCCTCGAAAATCCCAAAACCTTGAATACTGCTTTTATTCACAAAA
29081533 A
1 A
29081534 ACTTATGAAT
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 123 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (125 bp):
ATGTATTTAAAATAAAAAATATTCTCGGTTATTTGAAATCAACAAAGAAAATCGGAACCCAATAC
ATTAGGACTCAATTTTCCTCGAAAATCCCAAAACCTTGAATACTGCTTTTATTCACAAAA
Found at i:29081974 original size:37 final size:37
Alignment explanation
Indices: 29081898--29081974 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
29081888 TATAATGCAT
* *
29081898 AATATAATAATAATGTTTTTTTTAAGAAAAATAATTA
1 AATAAAATAATAATGTTTTTTTTAAGAAAAATAACTA
* *
29081935 AATAAAATAATAGTTTTTTTCTTTAA-AAAAA-AGACTA
1 AATAAAATAATAATGTTTTT-TTTAAGAAAAATA-ACTA
29081972 AAT
1 AAT
29081975 TGAGCTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
36 1 0.03
37 28 0.82
38 5 0.15
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (37 bp):
AATAAAATAATAATGTTTTTTTTAAGAAAAATAACTA
Found at i:29082536 original size:13 final size:14
Alignment explanation
Indices: 29082512--29082540 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
29082502 TTATTCGTTT
29082512 AAAAGAAATAAAAG
1 AAAAGAAATAAAAG
29082526 AAAAG-AATAAAAG
1 AAAAGAAATAAAAG
29082539 AA
1 AA
29082541 TATATATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAAGAAATAAAAG
Found at i:29083535 original size:44 final size:44
Alignment explanation
Indices: 29083451--29084103 Score: 472
Period size: 44 Copynumber: 14.4 Consensus size: 44
29083441 ATAAGACTTG
* *
29083451 TATCTTCGATCTACTTCACTG-CTGATACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-TGTC-AATACATGAAGACAAGATCTGC
***
29083496 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCAT
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* *** * ***
29083540 TATCTTCGATCTTCTTCACCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCTGC
29083585 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* ***
29083629 TATC-TCTGATCTGCTATCTCTGATCTACT-TCATGTCAATACATAAAGACAAGATCCAT
1 TATCTTC-GA--T-CTA---CT--TC-A-TGTC-----AATACATGAAGACAAGATCTGC
*** ***
29083687 TATCTTCGATCTACTTCACCACTAATATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCATGTC-AATACATGAAGACAAGATCTGC
* * *
29083732 TATCTTCGATCTACTTCGTGTCAATACATGAAAACAACATCTGC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* * * * * *
29083776 CATTCTTCGATTTACTTCACGCCAATACATGAAGACACGATCTAC
1 TA-TCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* *
29083821 TATCTTCGATCTATTTCATGTCAATACATAAAGACAAGATCTGC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* * * * * * * *
29083865 TATATTTGATCTACTTCGCTGCCAGTAGAGGAAGACAAGATCTGT
1 TATCTTCGATCTACTTC-ATGTCAATACATGAAGACAAGATCTGC
* * * * * *
29083910 TTTCTTCGATCTACTTCACGCCAGTACATAAAGACAAGATTTGC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* * * * * * **
29083954 TTTCTTCGATCTACTTCACGCCAGTACATGAAGATAAGATTTAT
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
* * *
29083998 TTTCTTCGATCTACTTCACG-CTAGTACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCATGTC-AATACATGAAGACAAGATCTGC
***
29084042 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCAT
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCTGC
*
29084086 TACCTTCGATCTACTTCA
1 TATCTTCGATCTACTTCA
29084104 CCACCAGTAT
Statistics
Matches: 481, Mismatches: 99, Indels: 57
0.76 0.16 0.09
Matches are distributed among these distances:
43 5 0.01
44 272 0.57
45 156 0.32
46 1 0.00
47 3 0.01
49 2 0.00
50 4 0.01
52 4 0.01
53 3 0.01
54 1 0.00
55 3 0.01
56 1 0.00
58 24 0.05
59 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (44 bp):
TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGC
Found at i:29083641 original size:14 final size:14
Alignment explanation
Indices: 29083622--29083654 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
29083612 ATGAAGACAA
29083622 GATCTGCTATCTCT
1 GATCTGCTATCTCT
29083636 GATCTGCTATCTCT
1 GATCTGCTATCTCT
29083650 GATCT
1 GATCT
29083655 ACTTCATGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.42
Consensus pattern (14 bp):
GATCTGCTATCTCT
Found at i:29083698 original size:58 final size:58
Alignment explanation
Indices: 29083578--29083691 Score: 176
Period size: 58 Copynumber: 2.0 Consensus size: 58
29083568 GGGAAGACAA
* **
29083578 GATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTCT
1 GATCTGCTATCTTCGATCTACTTCATGTCAATACATAAAGACAAGATCCACTATCTCT
*
29083636 GATCTGCTATC-TCTGATCTACTTCATGTCAATACATAAAGACAAGATCCATTATCT
1 GATCTGCTATCTTC-GATCTACTTCATGTCAATACATAAAGACAAGATCCACTATCT
29083692 TCGATCTACT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
57 2 0.04
58 49 0.96
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (58 bp):
GATCTGCTATCTTCGATCTACTTCATGTCAATACATAAAGACAAGATCCACTATCTCT
Found at i:29083756 original size:147 final size:147
Alignment explanation
Indices: 29083489--29083775 Score: 511
Period size: 147 Copynumber: 2.0 Consensus size: 147
29083479 AGGAAGACAA
* *
29083489 GATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTTC
1 GATCTGCTATCTCTGATCTACTTCATGTCAATACATAAAGACAAGATCCATTATCTTCGATCTAC
* *
29083554 TTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAGA
66 TTCACCACCAATATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAAA
*
29083619 CAAGATCTGCTATCTCT
131 CAACATCTGCTATCTCT
29083636 GATCTGCTATCTCTGATCTACTTCATGTCAATACATAAAGACAAGATCCATTATCTTCGATCTAC
1 GATCTGCTATCTCTGATCTACTTCATGTCAATACATAAAGACAAGATCCATTATCTTCGATCTAC
* *
29083701 TTCACCACTAATATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCGTGTCAATACATGAAAA
66 TTCACCACCAATATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAAA
29083766 CAACATCTGC
131 CAACATCTGC
29083776 CATTCTTCGA
Statistics
Matches: 133, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
147 133 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (147 bp):
GATCTGCTATCTCTGATCTACTTCATGTCAATACATAAAGACAAGATCCATTATCTTCGATCTAC
TTCACCACCAATATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAAA
CAACATCTGCTATCTCT
Done.