Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 192 of 211
Found at i:56801884 original size:68 final size:67
Alignment explanation
Indices: 56801801--56804482 Score: 1766
Period size: 68 Copynumber: 39.9 Consensus size: 67
56801791 AATTAAATTC
* * * ***
56801801 GGGTTTTTAAGTTAATTAGGTTAAGTTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTTAGGGT
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGG-
56801866 TTA
65 TTA
** * *
56801869 ATGTTTTTAATTTAATTATGTTAGGG-TTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGG-
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGT
56801932 -A
66 TA
* * *
56801933 --G---TTAATTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAAGGTTTTTAAGTTAATTA-
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAG-T--TTAG
56801992 GGTTA
63 GGTTA
* * *** *
56801997 GGGTATTTAAGTTAAGGGGGTTAGGGTTTTTAAG-T--TTAGGGTTTAAGGTTTTTAA-TTTAAT
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTTAAGTTT-A-
*
56802058 TGGCTTA
62 -GGGTTA
* *
56802065 GGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAG-T--TTAGGGTTTAGGGTTTTTAATTAAATT
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTTAAGT---TT
56802127 A-GGTTA
61 AGGGTTA
* *
56802133 GGATTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGG
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTA--GG
56802198 GTTA
64 GTTA
* * * * *
56802202 GGGTCTTTAAGTTT-A--GGGTTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATG
1 GGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTT--TA
56802264 GGGTTA
62 GGGTTA
* * * * *
56802270 GGGTTTTTAAGTTGA--GGGTTTAAGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAACTA
1 GGGTTTTTAATTTAATTAGG-TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTT---TA
56802333 -GGTTA
62 GGGTTA
* *
56802338 GAGG-TTTTAAGTTT-A--GGGTTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAATTCAA
1 G-GGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGT---
*
56802398 TTA-TGTTA
59 TTAGGGTTA
** **
56802406 GGGTTTTTAGGTTAATTAGGTTAGGGTTTTTAAGTTAA-GGGGTTAGGGTTTTTAAGTTTAGGGT
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGG-
56802470 TTA
65 TTA
* * *
56802473 GGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAAG-T--TTAGGGTTTAAGGTTTTTAATTAAATT
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTTAAGT---TT
*
56802535 A-GGTCA
61 AGGGTTA
* *
56802541 GGGTTTTTAAGTTT-A--GGGTTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAA-TTTAAT
1 GGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTT-A-
*
56802602 TAGGTTA
62 -GGGTTA
* * *
56802609 GGGTTTTTAAGTTT-A--GGGTTTAAGGTTTTTAA-TTAAATAAGGTTAGGGTTTTTAAGTTTAG
1 GGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTTAG
*
56802670 GATTTA
63 G-GTTA
* * * *
56802676 GGGTTTTTAATTAAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGGATTTTTAAGTTAATTA-
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAG-T--TTAG
56802740 GGTTA
63 GGTTA
* *** * * *
56802745 GGGTTTTTAACTTAAGGGGGTTATGGTTTTTAAG-T--TTAGGGTTTAAGATTTTTAAGTGAATT
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTTAAGT---TT
*
56802807 A-GGTTC
61 AGGGTTA
* * *
56802813 GTGTTTTTAAGTTT-A--AGGTTTAAGGTTTTTAA-TTAAATTATGTTAGGGTTTTTAAGTTTAG
1 GGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTTAG
56802874 GGTTTA
63 GG-TTA
* * * * * *
56802880 GGGTTTTTAGTTAAATTAGGTTATGGTTTTTAATTTAATTAGTTTATGGTTTTTAAGTTAATTA-
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAG-T--TTAG
56802944 GGTTA
63 GGTTA
* *
56802949 GGGTTTTTAAGTTT-A--GGGTTTAGGGTTTTTAA-TTAAATTAGGTTAGAGTTTTTAAGTTTAG
1 GGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTTAG
56803010 GGTTTA
63 GG-TTA
56803016 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGT
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGG-
56803081 TTA
65 TTA
* * *
56803084 GGGTTTTTAATTAAATCAGGTTAGGGTTTTTAATTTAATTAGGTTAGGG-TTTTAAGTTAATTA-
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAG-T--TTAG
56803147 GGTTA
63 GGTTA
* * *** *
56803152 GTGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTAA--GGGTTTAGGGTTTTTAA-TTTAATT
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGG-TTAGGGTTTTTAAGTTT-A--
56803214 GGGTTA
62 GGGTTA
* * * *
56803220 GGGTTTTTAATTTAATTAGGTTAAGATTTTTAAGTTAATTAGGTTAAGGTTTTTAAGTTAAGAGG
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTT--TAGG
56803285 GTTA
64 GTTA
*
56803289 GGGTTTTTAAGTTT-A--GGGTTTAGGGTTTTTAAG-T--TTAGGGTTTAAGGGTTTTAATCAA-
1 GGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTTAATTA-GG-TT-AGGGTTTT--T-AAG
*
56803347 ATTA-GGTTA
58 TTTAGGGTTA
* * *
56803356 GGGTTTTTAAGTTT-A--GGGTTTAAGGTTTTGAA-TTAAATTAGGTTAGGGTTTTTAAGTTTA-
1 GGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTTAG
56803416 GG---
63 GGTTA
* * * *
56803418 GGGTTTTTAATTAAATTAGGTTAGTGTTTTTAATTTAATTAGCTTAGGGTTTTTAAGTTAATTA-
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAG-T--TTAG
56803482 GGTTA
63 GGTTA
* * **
56803487 GGGTTTTTAAGTTAATTAGGTTAAGGTTTTTAAGTTAA-GGGGTTTAGGG-TTTTAAGTTTAGGG
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGG-TTAGGGTTTTTAAGTTTAGGG
56803550 TTTA
65 -TTA
** *
56803554 GGGTTTTAAGTTAATTTGGTTAGGGTTTAGGGTTTTTAA-TTAAATTAGGTTAGAGTTTTTAA-T
1 GGG-TTT---TTAATTTAATTA-GG-TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGT
*
56803617 TTAATTTGGTTA
59 TT-A--GGGTTA
* *
56803629 GGGTTTTTAAGTTAATGAGGTTAGGGTTTTTAAG-----T---TTAGGGTTTTTAAGTGAATTA-
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGT---TTAG
56803685 GGTTA
63 GGTTA
* * * *
56803690 GGGTTTTTAAGTTT-A-T-GGTTTAAGGTTTTTAA-TTAAATTATGTTAGAGTTTTTAATTTTAG
1 GGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTTAG
56803751 GGTTTA
63 GG-TTA
* * * *
56803757 GGGTTTTTAATTAAATTAGGTTAGGATTTTTAATTTAATTAGGTTATGGTTTTTAAGTTAATTA-
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAG-T--TTAG
56803821 GGTTA
63 GGTTA
* * *
56803826 GAGTTTTTAA-GT--TTAGGTTTTA-GGTTTTTAA-TTAAATTAAGTTAGGG-TTTTAAGTTTAG
1 GGGTTTTTAATTTAATTAGG--TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTTAG
56803885 GGTTTA
63 GG-TTA
* *
56803891 GGG--TTTAATTAAATTAGGTTAGGGTTTTT-ATTTAATTAGGTTAGGGTTTTTAAGTTAATTA-
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAG-T--TTAG
56803952 GGTTA
63 GGTTA
* * * * *
56803957 TGGTTTTTAAGTTAA-GAGGGTTAGGGTTTTTAAGTT--TAAGGTTTAGGGTTTTTAATTAAATT
1 GGGTTTTTAATTTAATTA-GGTTAGGGTTTTTAAGTTAATTAGG-TTAGGGTTTTTAAGT---TT
56804019 A-GGTTA
61 AGGGTTA
* *
56804025 GGGTTTTTAAGTTT-A--GGGTTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAAG
1 GGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTT-TA-
56804087 GGGTTA
62 GGGTTA
* * **
56804093 GAGTTTTTAACTTAATTAGGTTAGGGTTTTTAAGTTAA-GGGGTTAGGGTTTTTAAGTTTAGGGT
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGG-
56804157 TTA
65 TTA
* * * *
56804160 GGGTTTGTAATTAAATTAGGTTAGGGTTTTTAAGTT--TAAGGTTTAGGGTTTTTAATTAAATTA
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGG-TTAGGGTTTTTAAGT---TTA
*
56804223 -AGTTA
62 GGGTTA
* *** *
56804228 GGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTGGGGTTTTTAAGTTTAGGGT
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGG-
56804293 TTA
65 TTA
* * * * *
56804296 GGGTTTTTAAGTTAATTAGGTTAGGGTTTTTATGTT--TAAGGTTTATGGTTTTAATTAA-ATTA
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGG-TTA-GGGTTT--TTAAGTTTA
56804358 -GGTTA
62 GGGTTA
* * *
56804363 GGG---TT--TTT-A--AGTTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTCTAAGTTAAGGG
1 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTTA--G
56804419 GGTTA
63 GGTTA
*
56804424 GGGTTTTT-ATGT--TTAGGGTTTAAGGG-TTTTAA-TTAAATTAGGTTAGGGTTTTTAA-TTTA
1 GGGTTTTTAATTTAATTA-GG-TT-AGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTTA
56804483 AGAGTATTAA
Statistics
Matches: 2132, Mismatches: 247, Indels: 471
0.75 0.09 0.17
Matches are distributed among these distances:
57 3 0.00
58 4 0.00
59 39 0.02
60 43 0.02
61 44 0.02
62 19 0.01
63 40 0.02
64 39 0.02
65 55 0.03
66 85 0.04
67 359 0.17
68 974 0.46
69 293 0.14
70 53 0.02
71 34 0.02
72 6 0.00
73 22 0.01
74 12 0.01
75 6 0.00
76 2 0.00
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.48
Consensus pattern (67 bp):
GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGT
TA
Found at i:56801979 original size:60 final size:59
Alignment explanation
Indices: 56801875--56801988 Score: 183
Period size: 60 Copynumber: 1.9 Consensus size: 59
56801865 TTTAATGTTT
* *
56801875 TTAATTTAATTATGTTAGGGTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGAG
1 TTAATTTAATTAGGTTAGGGTTTTAAGTTAATTAGGTTAAGGTTTTTAAGTTAAGGGAG
* *
56801934 TTAATTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAAGGTTTTTAAGTTAA
1 TTAATTTAATTAGGTTAG-GGTTTTAAGTTAATTAGGTTAAGGTTTTTAAGTTAA
56801989 TTAGGTTAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
59 17 0.34
60 33 0.66
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (59 bp):
TTAATTTAATTAGGTTAGGGTTTTAAGTTAATTAGGTTAAGGTTTTTAAGTTAAGGGAG
Found at i:56802297 original size:45 final size:44
Alignment explanation
Indices: 56801934--56804483 Score: 1781
Period size: 45 Copynumber: 56.7 Consensus size: 44
56801924 GTTAAGGGAG
* * * *
56801934 TTAATTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAAGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
* *
56801980 TTAAGTTAATTAGGTTAGGGTATTTAAGTTAAGGGGGTTAGGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
* * *
56802026 TTAAG-T--TTAGGGTTTAAGGTTTTTAATTTAATTGGCTTAGGGTTT
1 TTAAGTTAATTA-GG-TTAGGGTTTTTAAGTTAA-AGG-TTAGGGTTT
* *
56802071 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAAGG-TTAGGGTTT
* *
56802116 TTAA-TTAAATTAGGTTAGGATTTTTAATTTAATTAGGTTAGGGTTT
1 TTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
* *
56802162 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAGGGTCT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
* *
56802208 TTAAG-T--TTAGGGTTTAGAGTTTTTAATTTAATTAGGTTAGGGTTT
1 TTAAGTTAATTA-GG-TTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
** * * *
56802253 TTAAGTTAATGGGGTTAGGGTTTTTAAGTTGAGGGTTTAAGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAAGG-TTAGGGTTT
*
56802298 TTAATTTAATTAGGTTAGGGTTTTTAAGTTAACTAGGTTAGAGG-TT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAG-GGTTT
56802344 TTAAG-T--TTAGGGTTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTT
1 TTAAGTTAATTA-GG-TTAGGGTTTTTAAGTT-AA--AGGTTAGGGTTT
* *
56802389 TTAA-TTCAATTATGTTAGGGTTTTTAGGTTAATTAGGTTAGGGTTT
1 TTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
** * *
56802435 TTAAGTTAA-GGGGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAAGG-TTAGGGTTT
* * * * *
56802479 TTAATTTAAGTAGGTTAGGGTTTTTAAGTTTAGGGTTTAAGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAAGG-TTAGGGTTT
* * *
56802524 TTAA-TTAAATTAGGTCAGGGTTTTTAAGTTTAGGGTTTAGGGTTT
1 TTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAAAGG-TTAGGGTTT
* *
56802569 TTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
*
56802615 TTAAG-T--TTAGGGTTTAAGGTTTTTAA-TTAAATAAGGTTAGGGTTT
1 TTAAGTTAATTA-GG-TTAGGGTTTTTAAGTT--A-AAGGTTAGGGTTT
*
56802660 TTAAG-T--TTAGGATTTAGGGTTTTTAA-TTAAATTAGGTTAGAGTTT
1 TTAAGTTAATTAGG--TTAGGGTTTTTAAGTT-AA--AGGTTAGGGTTT
* *
56802705 TTAATTTAATTAGGTTAGGATTTTTAAGTTAATTAGGTTAGGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
* *** * * * * *
56802751 TTAACTTAAGGGGGTTATGGTTTTTAAGTTTAGGGTTTAAGATTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAAGG-TTAGGGTTT
* * * * *
56802796 TTAAGTGAATTAGGTTCGTGTTTTTAAGTTTAAGGTTTAAGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAAGG-TTAGGGTTT
* * *
56802841 TTAA-TTAAATTATGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTT
1 TTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAAAGG-TTAGGGTTT
* * * *
56802886 TT-AGTTAAATTAGGTTATGGTTTTTAATTTAATTAGTTTATGGTTT
1 TTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
* *
56802932 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAAGG-TTAGGGTTT
* * *
56802977 TTAA-TTAAATTAGGTTAGAGTTTTTAAGTTTAGGGTTTAGGGTTT
1 TTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAAAGG-TTAGGGTTT
*
56803022 TTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
56803068 TTAAG-T--TTAGGGTTTAGGGTTTTTAA-TTAAATCAGGTTAGGGTTT
1 TTAAGTTAATTA-GG-TTAGGGTTTTTAAGTT-AA--AGGTTAGGGTTT
* *
56803113 TTAATTTAATTAGGTTAGGG-TTTTAAGTTAATTAGGTTAGTGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
*** *
56803158 TTAAGTTAAGGGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAAGG-TTAGGGTTT
* * * * *
56803203 TTAATTTAATTGGGTTAGGGTTTTTAATTTAATTAGGTTAAGATTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
*
56803249 TTAAGTTAATTAGGTTAAGGTTTTTAAGTTAAGAGGGTTAGGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA-A-GGTTAGGGTTT
* *
56803295 TTAAG-T--TTAGGGTTTAGGGTTTTTAAGTTTAGGGTTTAAGGG-TT
1 TTAAGTTAATTA-GG-TTAGGGTTTTTAAGTTAAAGG-TT-AGGGTTT
* * * *
56803339 TTAA-TCAAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAAGGTTT
1 TTAAGT-TAATTAGGTTAGGGTTTTTAAGTTAAAGG-TTAGGGTTT
* *
56803384 TGAA-TTAAATTAGGTTAGGGTTTTTAAGTT-TAGG---GGGTTT
1 TTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAAAGGTTAGGGTTT
* * *
56803424 TTAA-TTAAATTAGGTTAGTGTTTTTAATTTAATTAGCTTAGGGTTT
1 TTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
*
56803470 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAAGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
** * *
56803516 TTAAGTTAA-GGGGTTTAGGG-TTTTAAGTTTAGGGTTTAGGG-TT
1 TTAAGTTAATTAGG-TTAGGGTTTTTAAGTTAAAGG-TTAGGGTTT
*
56803559 TTAAGTTAATTTGGTTAGGGTTTAGGGTTTTTAA-TTAAATTAGGTTAGAGTTT
1 TTAAGTTAA-----TTA-GG-TTAGGGTTTTTAAGTT-AA--AGGTTAGGGTTT
* *
56803612 TTAATTTAATTTGGTTAGGGTTTTTAAGTTAATGAGGTTAGGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
*
56803658 TTAAG-----T---TTAGGGTTTTTAAGTGAATTAGGTTAGGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
* * * *
56803696 TTAAGTTTA-T-GGTTTAAGGTTTTTAA-TTAAATTATGTTAGAGTTT
1 TTAAGTTAATTAGG-TTAGGGTTTTTAAGTT-AA--AGGTTAGGGTTT
*
56803741 TTAA-TT--TTAGGGTTTAGGGTTTTTAA-TTAAATTAGGTTAGGATTT
1 TTAAGTTAATTA-GG-TTAGGGTTTTTAAGTT-AA--AGGTTAGGGTTT
* * *
56803786 TTAATTTAATTAGGTTATGGTTTTTAAGTTAATTAGGTTAGAGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
*
56803832 TTAAG-T--TTAGGTTTTA-GGTTTTTAA-TTAAATTAAGTTAGGG-TT
1 TTAAGTTAATTAGG--TTAGGGTTTTTAAGTT-AA--AGGTTAGGGTTT
*
56803875 TTAAG-T--TTAGGGTTTAGGGTTTAATTAAATT--AGGTTAGGGTTT
1 TTAAGTTAATTA-GG-TTAGGGTTT--TTAAGTTAAAGGTTAGGGTTT
* *
56803918 TT-ATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTATGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
* *
56803963 TTAAGTTAA-GAGGGTTAGGGTTTTTAAGTTTAAGGTTTAGGGTTT
1 TTAAGTTAATTA-GGTTAGGGTTTTTAAGTTAAAGG-TTAGGGTTT
* *
56804008 TTAA-TTAAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTT
1 TTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAAAGG-TTAGGGTTT
*
56804053 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAAGGGGTTAGAGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAA--GGTTAGGGTTT
* *
56804099 TTAACTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA-AGGTTAGGGTTT
*
56804144 TTAAG-T--TTAGGGTTTAGGGTTTGTAA-TTAAATTAGGTTAGGGTTT
1 TTAAGTTAATTA-GG-TTAGGGTTTTTAAGTT-AA--AGGTTAGGGTTT
* *
56804189 TTAAGTT--TAAGGTTTAGGGTTTTTAA-TTAAATTAAGTTAGGGTTT
1 TTAAGTTAATTAGG-TTAGGGTTTTTAAGTT-AA--AGGTTAGGGTTT
* *
56804234 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTGGGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
56804280 TTAAG-T--TTAGGGTTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTT
1 TTAAGTTAATTA-GG-TTAGGGTTTTTAAGTTAA--AGGTTAGGGTTT
* * *
56804325 TTATGTT--TAAGGTTTATGG-TTTTAA-TTAAATTAGGTTAGGGTTT
1 TTAAGTTAATTAGG-TTAGGGTTTTTAAGTT-AA--AGGTTAGGGTTT
56804369 TTAAG-----T---TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTT-AA--AGGTTAGGGTTT
* *** * * *
56804407 CTAAGTTAAGGGGGTTAGGGTTTTTATGTTTAGGGTTTAAGGG-TT
1 TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAAGG-TT-AGGGTTT
*
56804452 TTAA-TTAAATTAGGTTAGGGTTTTTAATTTAA
1 TTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAA
56804484 GAGTATTAAT
Statistics
Matches: 2093, Mismatches: 244, Indels: 335
0.78 0.09 0.13
Matches are distributed among these distances:
37 5 0.00
38 64 0.03
40 32 0.02
41 7 0.00
42 13 0.01
43 84 0.04
44 160 0.08
45 1014 0.48
46 601 0.29
47 58 0.03
48 20 0.01
50 11 0.01
51 7 0.00
52 5 0.00
53 12 0.01
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.48
Consensus pattern (44 bp):
TTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAAGGTTAGGGTTT
Found at i:56803576 original size:29 final size:30
Alignment explanation
Indices: 56803544--56803611 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
56803534 GGTTTTAAGT
*
56803544 TTAGGGTTTAGGG-TTTTAAGTT-AATTTGG
1 TTAGGGTTTAGGGTTTTTAA-TTAAATTAGG
56803573 TTAGGGTTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTAGGGTTTTTAATTAAATTAGG
*
56803603 TTAGAGTTT
1 TTAGGGTTT
56803612 TTAATTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 15 0.43
30 20 0.57
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.49
Consensus pattern (30 bp):
TTAGGGTTTAGGGTTTTTAATTAAATTAGG
Found at i:56803669 original size:15 final size:15
Alignment explanation
Indices: 56803649--56803678 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
56803639 GTTAATGAGG
56803649 TTAGGGTTTTTAAGT
1 TTAGGGTTTTTAAGT
56803664 TTAGGGTTTTTAAGT
1 TTAGGGTTTTTAAGT
56803679 GAATTAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (15 bp):
TTAGGGTTTTTAAGT
Found at i:56803677 original size:38 final size:38
Alignment explanation
Indices: 56803626--56803710 Score: 143
Period size: 38 Copynumber: 2.2 Consensus size: 38
56803616 TTTAATTTGG
*
56803626 TTAGGGTTTTTAAGTTAATGAGGTTAGGGTTTTTAAGT
1 TTAGGGTTTTTAAGTGAATGAGGTTAGGGTTTTTAAGT
*
56803664 TTAGGGTTTTTAAGTGAATTAGGTTAGGGTTTTTAAGT
1 TTAGGGTTTTTAAGTGAATGAGGTTAGGGTTTTTAAGT
*
56803702 TTATGGTTT
1 TTAGGGTTT
56803711 AAGGTTTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.49
Consensus pattern (38 bp):
TTAGGGTTTTTAAGTGAATGAGGTTAGGGTTTTTAAGT
Found at i:56804401 original size:23 final size:22
Alignment explanation
Indices: 56804375--56804480 Score: 85
Period size: 23 Copynumber: 4.7 Consensus size: 22
56804365 GTTTTTAAGT
56804375 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATT-AATTAGG
* ***
56804398 TTAGGGTTTCTAAGTTAAGGGGG
1 TTAGGGTTTTTAA-TTAATTAGG
56804421 TTAGGGTTTTT-ATGT--TTAGGG
1 TTAGGGTTTTTAAT-TAATTA-GG
56804442 TTTAAGGG-TTTTAATTAAATTAGG
1 -TT-AGGGTTTTTAATT-AATTAGG
56804466 TTAGGGTTTTTAATT
1 TTAGGGTTTTTAATT
56804481 TAAGAGTATT
Statistics
Matches: 65, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
21 3 0.05
22 13 0.20
23 42 0.65
24 4 0.06
25 3 0.05
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.47
Consensus pattern (22 bp):
TTAGGGTTTTTAATTAATTAGG
Found at i:56804412 original size:38 final size:38
Alignment explanation
Indices: 56804291--56804418 Score: 150
Period size: 38 Copynumber: 3.2 Consensus size: 38
56804281 TAAGTTTAGG
*
56804291 GTTTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAT
1 GTTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAA
*
56804329 GTTTAAGGTTTATGGTTTTAATTAAATTAGGTTAGGGTTTTTAA
1 GTTT-AGG-----GTTTTTAATTAAATTAGGTTAGGGTTTTTAA
*
56804373 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTCTAA
1 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
*
56804411 GTTAAGGG
1 GTTTAGGG
56804419 GGTTAGGGTT
Statistics
Matches: 78, Mismatches: 5, Indels: 14
0.80 0.05 0.14
Matches are distributed among these distances:
38 40 0.51
39 3 0.04
43 5 0.06
44 30 0.38
ACGTcount: A:0.25, C:0.01, G:0.26, T:0.48
Consensus pattern (38 bp):
GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
Found at i:56804493 original size:105 final size:105
Alignment explanation
Indices: 56803866--56804493 Score: 419
Period size: 113 Copynumber: 5.7 Consensus size: 105
56803856 ATTAAATTAA
* *
56803866 GTTAGGG-TTTTAAGTTTAGGGTTTAGGG-TTTAATTAAATTAGGTTAGGGTTTTTATTTAATTA
1 GTTAGGGTTTTTATGTTTAAGGTTTAGGGTTTTAATTAAATTAGGTTAGGG---TT-TTT-A--A
* * * * *
56803929 GGTTAGGGTTTTTAAGTT-AATTAGGTTATGGTTTTTAAGTTAA-GAGG
59 GTTTAGAGTTATTAA-TTAAATTAGGTTAGGGTTTCTAAGTTAAGGA-G
*
56803976 GTTAGGGTTTTTAAGTTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAG
1 GTTAGGGTTTTTATGTTTAAGGTTTAGGG-TTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTA-
* *
56804041 GGTTTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAAAGG-G
64 -G---A--GTTATTAA-TTAAATTAGGTTAGGGTTTCTAAGTT-AAGGAG
* ** * **
56804089 GTTAGAGTTTTTAACTTAATTAGG-TTAGGGTTTTTAAGTT-AA-GGGGTTAGGGTTTTTAAGTT
1 GTTAGGGTTTTTATGTT--TAAGGTTTAGGG-TTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTT
* *
56804151 TAGGGTTTAGGGTTTGTAATTAAATTAGGTTAGGGTTTTTAAGTTTAA-G-G
62 TAGAG-TTA-----T-TAATTAAATTAGGTTAGGGTTTCTAAG-TTAAGGAG
*
56804201 TTTAGGGTTTTTAAT-TAAATTAA-G-TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAG
1 GTTAGGGTTTTT-ATGT---TTAAGGTTTAGGG-TTTTAA-TTAAATTAGGTTAGGGTTTTTAAG
* * * * * * **
56804262 TTAAGGGGGTTGGGGTT-TTTAAGTTTAGGGTTTAGGGTTTTTAAGTTAATTAG
60 TTTA--GAGTT---ATTAATTAA-ATTA-GG-TTAGGGTTTCTAAGTTAAGGAG
* *
56804315 GTTAGGGTTTTTATGTTTAAGGTTTATGGTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAGG
1 GTTAGGGTTTTTATGTTTAAGGTTTAGGGTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAGA
* *
56804380 GTTTTTAATTAAATTAGGTTAGGGTTTCTAAGTTAAGGGG
66 GTTATTAATTAAATTAGGTTAGGGTTTCTAAGTTAAGGAG
*
56804420 GTTAGGGTTTTTATGTTTAGGGTTTAAGGGTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTTAA
1 GTTAGGGTTTTTATGTTTAAGGTTT-AGGGTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTT-A
56804484 GAG-TATTAAT
64 GAGTTATTAAT
56804494 GGTTAGTAGA
Statistics
Matches: 436, Mismatches: 36, Indels: 97
0.77 0.06 0.17
Matches are distributed among these distances:
105 51 0.12
106 43 0.10
107 7 0.02
108 6 0.01
109 3 0.01
110 18 0.04
111 31 0.07
112 73 0.17
113 159 0.36
114 34 0.08
115 11 0.03
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (105 bp):
GTTAGGGTTTTTATGTTTAAGGTTTAGGGTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAGA
GTTATTAATTAAATTAGGTTAGGGTTTCTAAGTTAAGGAG
Found at i:56804555 original size:25 final size:25
Alignment explanation
Indices: 56804526--56804573 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
56804516 TATAAAAAAT
56804526 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
56804551 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
56804574 TATCAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:56804575 original size:28 final size:26
Alignment explanation
Indices: 56804517--56804573 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
56804507 CTCAAATAAT
* *
56804517 ATAAAAAATTTCTATTTTATTACATC
1 ATAATAAACTTCTATTTTATTACATC
56804543 A-AATAAACTTCTATTTTATTACATC
1 ATAATAAACTTCTATTTTATTACATC
56804568 A-AATAA
1 ATAATAA
56804574 TATCAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (26 bp):
ATAATAAACTTCTATTTTATTACATC
Found at i:56806881 original size:11 final size:11
Alignment explanation
Indices: 56806865--56806895 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
56806855 AAAAAGGGAG
56806865 TTAAGAGAAAC
1 TTAAGAGAAAC
*
56806876 TTAAGAGGAAC
1 TTAAGAGAAAC
56806887 TTAAGAGAA
1 TTAAGAGAA
56806896 TTTTTGAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:56806919 original size:11 final size:11
Alignment explanation
Indices: 56806899--56806938 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
56806889 AAGAGAATTT
56806899 TTGA-AGGAAA
1 TTGAGAGGAAA
56806909 TTGAGAGGAAA
1 TTGAGAGGAAA
*
56806920 TTGAGAGAAAA
1 TTGAGAGGAAA
56806931 TTTGAGAG
1 -TTGAGAG
56806939 AGGATTAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 4 0.15
11 16 0.59
12 7 0.26
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:56807131 original size:50 final size:51
Alignment explanation
Indices: 56807055--56807153 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 51
56807045 GGTCAAGTCA
56807055 CGGCCACGTCAGCGCGAGTTGCTGACATGGCAGCAAATCGCGTCCTAGAAG
1 CGGCCACGTCAGCGCGAGTTGCTGACATGGCAGCAAATCGCGTCCTAGAAG
56807106 CGGCCA-GTCAGCGCGAGTTGCTGACATGGCAGCAAATCGCGTCCTAGA
1 CGGCCACGTCAGCGCGAGTTGCTGACATGGCAGCAAATCGCGTCCTAGA
56807154 GGGTGCAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 42 0.88
51 6 0.12
ACGTcount: A:0.23, C:0.29, G:0.31, T:0.16
Consensus pattern (51 bp):
CGGCCACGTCAGCGCGAGTTGCTGACATGGCAGCAAATCGCGTCCTAGAAG
Found at i:56808334 original size:18 final size:19
Alignment explanation
Indices: 56808303--56808346 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
56808293 AATTAACAAG
56808303 AAAATAATAAC-AAAACAGT
1 AAAA-AATAACAAAAACAGT
* *
56808322 AAAAAATAGCAAAAATAGT
1 AAAAAATAACAAAAACAGT
56808341 AAAAAA
1 AAAAAA
56808347 ACAACAACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.14
Consensus pattern (19 bp):
AAAAAATAACAAAAACAGT
Found at i:56808989 original size:3 final size:3
Alignment explanation
Indices: 56808981--56809078 Score: 187
Period size: 3 Copynumber: 32.7 Consensus size: 3
56808971 TTAGGGTTAG
56808981 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
56809029 AGA AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
56809077 AG
1 AG
56809079 TGTAATAACT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:56810986 original size:12 final size:12
Alignment explanation
Indices: 56810969--56810993 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56810959 GGCTTGTAAA
56810969 GCCGAAGAACTT
1 GCCGAAGAACTT
56810981 GCCGAAGAACTT
1 GCCGAAGAACTT
56810993 G
1 G
56810994 TAAAGCTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.28, T:0.16
Consensus pattern (12 bp):
GCCGAAGAACTT
Found at i:56815881 original size:3 final size:3
Alignment explanation
Indices: 56815873--56815966 Score: 179
Period size: 3 Copynumber: 31.3 Consensus size: 3
56815863 GGGGTGTTAC
56815873 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
56815921 AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
56815967 GAAAAAATGG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:56817144 original size:21 final size:20
Alignment explanation
Indices: 56817082--56817150 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 20
56817072 AGTAGGTAAT
56817082 TGAGTTGGGGTAGCCTG-T-
1 TGAGTTGGGGTAGCCTGTTC
*
56817100 TGAGTTGGGGTA-CTCTCTTAC
1 TGAGTTGGGGTAGC-CTGTT-C
*
56817121 TGATTTGGGGTAGCCTGTTGC
1 TGAGTTGGGGTAGCCTGTT-C
56817142 TGAGTTGGG
1 TGAGTTGGG
56817151 ACACCAACTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
17 1 0.02
18 14 0.34
19 1 0.02
21 24 0.59
22 1 0.02
ACGTcount: A:0.12, C:0.13, G:0.39, T:0.36
Consensus pattern (20 bp):
TGAGTTGGGGTAGCCTGTTC
Found at i:56817806 original size:9 final size:9
Alignment explanation
Indices: 56817792--56817843 Score: 86
Period size: 9 Copynumber: 5.6 Consensus size: 9
56817782 TTTGGTTAAA
56817792 AATTACCCG
1 AATTACCCG
56817801 AATTACCCG
1 AATTACCCG
56817810 AATTACCCG
1 AATTACCCG
56817819 AAAATTACCCG
1 --AATTACCCG
56817830 AATTACCCG
1 AATTACCCG
56817839 AATTA
1 AATTA
56817844 AATCACTACA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
9 32 0.78
11 9 0.22
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:56817826 original size:20 final size:20
Alignment explanation
Indices: 56817792--56817840 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
56817782 TTTGGTTAAA
56817792 AATTACCCG--AATTACCCG
1 AATTACCCGAAAATTACCCG
56817810 AATTACCCGAAAATTACCCG
1 AATTACCCGAAAATTACCCG
56817830 AATTACCCGAA
1 AATTACCCGAA
56817841 TTAAATCACT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.31
20 20 0.69
ACGTcount: A:0.39, C:0.31, G:0.10, T:0.20
Consensus pattern (20 bp):
AATTACCCGAAAATTACCCG
Found at i:56818057 original size:14 final size:14
Alignment explanation
Indices: 56818038--56818066 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56818028 AAAATAAGAT
56818038 TGCATACATATACA
1 TGCATACATATACA
56818052 TGCATACATATACA
1 TGCATACATATACA
56818066 T
1 T
56818067 ATATAATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (14 bp):
TGCATACATATACA
Found at i:56819841 original size:28 final size:28
Alignment explanation
Indices: 56819800--56819854 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
56819790 TACACACACA
*
56819800 TAAAAAATAGTCACTACATGCATATTAT
1 TAAAAAATACTCACTACATGCATATTAT
*
56819828 TAAAAAATACTCACTGCATGCATATTA
1 TAAAAAATACTCACTACATGCATATTA
56819855 AAAAATAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.31
Consensus pattern (28 bp):
TAAAAAATACTCACTACATGCATATTAT
Found at i:56819859 original size:25 final size:27
Alignment explanation
Indices: 56819800--56819861 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
56819790 TACACACACA
*
56819800 TAAAAAATAGTCACTACATGCATATTAT
1 TAAAAAATACTCACTACATGCA-ATTAT
*
56819828 TAAAAAATACTCACTGCATGC-A-TAT
1 TAAAAAATACTCACTACATGCAATTAT
56819853 TAAAAAATA
1 TAAAAAATA
56819862 GTCAACACAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 12 0.38
26 1 0.03
28 19 0.59
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (27 bp):
TAAAAAATACTCACTACATGCAATTAT
Found at i:56822132 original size:6 final size:6
Alignment explanation
Indices: 56822123--56822312 Score: 92
Period size: 6 Copynumber: 30.7 Consensus size: 6
56822113 AAATAACCCT
* * * * * *
56822123 AAATCA AAATCC AAATAA AAATCA AAATCC AAATAA AAATCT AAATCG
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* ** * * * * **
56822171 AGATCA AAATTG AAATCA AAATCT AAATCT AAATCA AGATCG AAATTG
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* * ** **
56822219 AAATCA AAATAA AAATCA GAATCA GTGAGTGTTTCA AAATTG AAATCA
1 AAATCA AAATCA AAATCA AAATCA ---A---AATCA AAATCA AAATCA
* ** **
56822267 AAATCA AAATCG AAATTG AAATCA AAATCA AAATGG AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
56822313 TGCAATCGAA
Statistics
Matches: 133, Mismatches: 45, Indels: 12
0.70 0.24 0.06
Matches are distributed among these distances:
6 129 0.97
9 1 0.01
12 3 0.02
ACGTcount: A:0.57, C:0.13, G:0.08, T:0.22
Consensus pattern (6 bp):
AAATCA
Found at i:56822242 original size:36 final size:36
Alignment explanation
Indices: 56822147--56822235 Score: 133
Period size: 36 Copynumber: 2.5 Consensus size: 36
56822137 ATAAAAATCA
* *
56822147 AAATCCAAATAAAAATCTAAATCGAGATCAAAATTG
1 AAATCAAAATAAAAATCTAAATCAAGATCAAAATTG
** *
56822183 AAATCAAAATCTAAATCTAAATCAAGATCGAAATTG
1 AAATCAAAATAAAAATCTAAATCAAGATCAAAATTG
56822219 AAATCAAAATAAAAATC
1 AAATCAAAATAAAAATC
56822236 AGAATCAGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.22
Consensus pattern (36 bp):
AAATCAAAATAAAAATCTAAATCAAGATCAAAATTG
Found at i:56822292 original size:36 final size:36
Alignment explanation
Indices: 56822147--56822312 Score: 109
Period size: 36 Copynumber: 4.4 Consensus size: 36
56822137 ATAAAAATCA
* * * * *
56822147 AAATCCAAATAAAAATCTAAATCGAGATCAAAATTG
1 AAATCAAAATCAAAATCGAAATTGAAATCAAAATTG
* * * *
56822183 AAATCAAAATCTAAATCTAAA-TCAAGATCGAAATTG
1 AAATCAAAATCAAAATCGAAATTGAA-ATCAAAATTG
* * **
56822219 AAATCAAAATAAAAATCAGAATCAGTGAGTGTTTCAAAATTG
1 AAATCAAAATCAAAATC-GAA--ATTGA---AATCAAAATTG
**
56822261 AAATCAAAATCAAAATCGAAATTGAAATCAAAATCA
1 AAATCAAAATCAAAATCGAAATTGAAATCAAAATTG
**
56822297 AAATGGAAATCAAAAT
1 AAATCAAAATCAAAAT
56822313 TGCAATCGAA
Statistics
Matches: 100, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
35 1 0.01
36 63 0.63
37 2 0.02
39 5 0.05
40 2 0.02
41 3 0.03
42 24 0.24
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.23
Consensus pattern (36 bp):
AAATCAAAATCAAAATCGAAATTGAAATCAAAATTG
Found at i:56830847 original size:9 final size:8
Alignment explanation
Indices: 56830832--56830856 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
56830822 GGCTTCATTC
56830832 ATTTTTTT
1 ATTTTTTT
56830840 ATTTTTTT
1 ATTTTTTT
56830848 ATTTTTTT
1 ATTTTTTT
56830856 A
1 A
56830857 AATTTCGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
ATTTTTTT
Found at i:56831174 original size:13 final size:13
Alignment explanation
Indices: 56831136--56831177 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
56831126 CTTTCTTTAC
56831136 AACAAAATTATAT
1 AACAAAATTATAT
*
56831149 AAC-ATATTAATAT
1 AACAAAATT-ATAT
56831162 AACAAAATTATAT
1 AACAAAATTATAT
56831175 AAC
1 AAC
56831178 TATTCAAGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 4 0.16
13 17 0.68
14 4 0.16
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (13 bp):
AACAAAATTATAT
Found at i:56831803 original size:21 final size:21
Alignment explanation
Indices: 56831745--56831831 Score: 86
Period size: 21 Copynumber: 4.1 Consensus size: 21
56831735 CCTGATCAGT
56831745 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* ** *
56831765 AAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
* *
56831786 ATACAACACATAAAGTGCCTA
1 ATACGACACATAAAGTGCCTG
*
56831807 ATGTATGACACATAAAGTGCCTG
1 A--TACGACACATAAAGTGCCTG
56831830 AT
1 AT
56831832 CGGCAAAGCC
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
20 9 0.17
21 25 0.48
23 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:56832125 original size:16 final size:17
Alignment explanation
Indices: 56832104--56832135 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
56832094 TAATAATAGT
56832104 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
56832120 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
56832136 GCTTATCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:56834968 original size:41 final size:40
Alignment explanation
Indices: 56834917--56834996 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 40
56834907 CATGTTAACG
* *
56834917 CATATCGATGCCACTATCCCAGACAGGGTCTTATACGAAT
1 CATATCGATGCCAATATCCCAGACAGGGTCTTACACGAAT
* *
56834957 CATATACGATGCCAATGTCCCAGACATGGTCTTACACGAA
1 CATAT-CGATGCCAATATCCCAGACAGGGTCTTACACGAA
56834997 ATCACACCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 5 0.14
41 30 0.86
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (40 bp):
CATATCGATGCCAATATCCCAGACAGGGTCTTACACGAAT
Found at i:56835159 original size:31 final size:31
Alignment explanation
Indices: 56835117--56835507 Score: 513
Period size: 31 Copynumber: 12.7 Consensus size: 31
56835107 ATCTAATACT
* * *
56835117 CAAATC-AATTCGGTAATATATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
56835147 CGAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
56835178 CAAATC-AATTCGGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * *
56835208 CAAATCAAATTCGACAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
56835239 TAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
56835270 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
56835301 CAAATAAAATTCAGCAATGTATAATC-ATATA
1 CAAATCAAATTCGGCAATGTAT-ATCTATATA
* * *
56835332 CGAATAAAATTCGGCAATGTGTATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
56835363 CAAATC-GATTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
56835393 CAAATCAAATTCGACAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * *
56835424 TAAATCAATTTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
56835455 CAAATCAAATTCGGCAATGTATATCTTTATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
56835486 CAAATC-AATTCGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
56835508 CAACATATAC
Statistics
Matches: 319, Mismatches: 37, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
30 79 0.25
31 238 0.75
32 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCTATATA
Found at i:56835281 original size:123 final size:122
Alignment explanation
Indices: 56835117--56835507 Score: 523
Period size: 123 Copynumber: 3.2 Consensus size: 122
56835107 ATCTAATACT
* * * *
56835117 CAAATCAATTCGGTAATATATATCCATATACGAATCAAATTCGGCAATGTATATCTATATACAAA
1 CAAATCAATTCGGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATATCTATATACAAA
* * * *
56835182 TCAATTCGGCAATGAATATCCATATACAAATCAAATTCGACAATGTATAACCATATA
66 TCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATA
* * *
56835239 TAAATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATAACCATATACAA
1 CAAATC-AATTCGGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATATCTATATACAA
* * * * *
56835304 ATAAAATTCAGCAATGTATAAT-CATATACGAATAAAATTCGGCAATGTGTATCTATATA
65 AT-CAATTCGGCAATGTAT-ATCCATATACAAATCAAATTCGGCAATGTATATCTATATA
* * * * *
56835363 CAAATCGATTCGGCAATGTATATCTATAAACAAATCAAATTCGACAATGTATATCTATAAATAAA
1 CAAATCAATTCGGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATATCTATATACAAA
* * *
56835428 TCAATTTCGGCAATGTATATCTATAAACAAATCAAATTCGGCAATGTATATCTTTATA
66 TCAA-TTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATA
56835486 CAAATCAATTCGGCAATGTATA
1 CAAATCAATTCGGCAATGTATA
56835508 CAACATATAC
Statistics
Matches: 231, Mismatches: 33, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
122 9 0.04
123 171 0.74
124 49 0.21
125 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (122 bp):
CAAATCAATTCGGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATATCTATATACAAA
TCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATA
Found at i:56835460 original size:185 final size:185
Alignment explanation
Indices: 56835141--56835517 Score: 585
Period size: 185 Copynumber: 2.0 Consensus size: 185
56835131 AATATATATC
*
56835141 CATATACGAATCAAATTCGGCAATGTATATCTATATACAAATCAATTCGGCAATGAATATCCATA
1 CATATACGAATAAAATTCGGCAATGTATATCTATATACAAATCAATTCGGCAATGAATATCCATA
* * *
56835206 TACAAATCAAATTCGACAATGTATAACCATATATAAATCAAATTCGGCAATGTATATCTATATAC
66 AACAAATCAAATTCGACAATGTATAACCATAAATAAATCAAATTCGGCAATGTATATCTATAAAC
*
56835271 AAATCAAATTCGGCAATGTATAACCATATACAAATAAAATTCAGCAATGTATA-AT
131 AAATCAAATTCGGCAATGTATAACCATATACAAAT-AAATTCAGCAATGTATACAA
* * * *
56835326 CATATACGAATAAAATTCGGCAATGTGTATCTATATACAAATCGATTCGGCAATGTATATCTATA
1 CATATACGAATAAAATTCGGCAATGTATATCTATATACAAATCAATTCGGCAATGAATATCCATA
* * *
56835391 AACAAATCAAATTCGACAATGTATATCTATAAATAAATCAATTTCGGCAATGTATATCTATAAAC
66 AACAAATCAAATTCGACAATGTATAACCATAAATAAATCAAATTCGGCAATGTATATCTATAAAC
* ** * *
56835456 AAATCAAATTCGGCAATGTATATCTTTATACAAATCAATTCGGCAATGTATACAA
131 AAATCAAATTCGGCAATGTATAACCATATACAAATAAATTCAGCAATGTATACAA
56835511 CATATAC
1 CATATAC
56835518 ATTTAAATTT
Statistics
Matches: 174, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
184 15 0.09
185 159 0.91
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (185 bp):
CATATACGAATAAAATTCGGCAATGTATATCTATATACAAATCAATTCGGCAATGAATATCCATA
AACAAATCAAATTCGACAATGTATAACCATAAATAAATCAAATTCGGCAATGTATATCTATAAAC
AAATCAAATTCGGCAATGTATAACCATATACAAATAAATTCAGCAATGTATACAA
Found at i:56845136 original size:14 final size:15
Alignment explanation
Indices: 56845114--56845190 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
56845104 CAATCAAACA
56845114 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
56845128 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
56845143 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
56845163 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
56845177 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
56845191 ACTGGAAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:56845155 original size:20 final size:20
Alignment explanation
Indices: 56845130--56845169 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
56845120 AATATTTTCC
*
56845130 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
56845150 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
56845170 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:56845175 original size:34 final size:35
Alignment explanation
Indices: 56845118--56845184 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
56845108 CAAACACCAG
*
56845118 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
56845153 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
56845185 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:56845191 original size:14 final size:16
Alignment explanation
Indices: 56845167--56845198 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
56845157 CATTTTCCAG
56845167 AAATCATTTTAC-GGA
1 AAATCATTTTACTGGA
56845182 AAAT-ATTTTACTGGA
1 AAATCATTTTACTGGA
56845197 AA
1 AA
56845199 TCAAACAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (16 bp):
AAATCATTTTACTGGA
Found at i:56845552 original size:31 final size:32
Alignment explanation
Indices: 56845512--56845572 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
56845502 TTTATTAAAA
* * *
56845512 ATTACAATTTGACTCTTTTTGAAAGGTTGATG
1 ATTACAATTTGACTATCTTTAAAAGGTTGATG
*
56845544 ATTA-AATTTGATTATCTTTAAAAGGTTGA
1 ATTACAATTTGACTATCTTTAAAAGGTTGA
56845573 AGAGCTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (32 bp):
ATTACAATTTGACTATCTTTAAAAGGTTGATG
Found at i:56846667 original size:31 final size:31
Alignment explanation
Indices: 56846632--56846691 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
56846622 ATAACACAAT
**
56846632 GACTTAAAT-AAAATCTTTTGAATAATTTAGC
1 GACTTAAATGAAAA-CTTTCAAATAATTTAGC
56846663 GACTTAAATGAAAACTTTCAAATAATTTA
1 GACTTAAATGAAAACTTTCAAATAATTTA
56846692 CCAAATTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (31 bp):
GACTTAAATGAAAACTTTCAAATAATTTAGC
Found at i:56850276 original size:2 final size:2
Alignment explanation
Indices: 56850269--56850294 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
56850259 TGATGATGTG
56850269 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
56850295 CTTACTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56856432 original size:114 final size:114
Alignment explanation
Indices: 56856108--56856424 Score: 435
Period size: 114 Copynumber: 2.8 Consensus size: 114
56856098 AAAATAAGCA
* * * * *
56856108 TTAGCGGC-ATTTTCCAGAAAGCGCCGC-AAAATACCTAAGTCCAACGACGCCGTTTTCCGAGCT
1 TTAGCGGCGATTTTGCA-AAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC-
* * *
56856171 TTTGGGGGATTTAGTGGCGTTTTTAAGGAAGCAG-CGCTAATGCTCAGGGCT
64 TTTCGGGGATTTAGCGGCGTTTTTGAGGAAGC-GCCGCTAATGCTCAGGGCT
* * *
56856222 TTAGTGGCGTTTTTGCGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGATTTTGCAAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
56856287 TCGGGGATTTAGCAGCTTTTTTGGGGAAGCGCCGCTAATGC-CTAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTC-AGGGCT
*
56856336 TTAGCGGCGATTTTGCAAAAGTGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGATTTTGCAAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
56856401 TCGGGGATTTAGCGGCGTTTTTGA
66 TCGGGGATTTAGCGGCGTTTTTGA
56856425 TAAAGCGCTA
Statistics
Matches: 178, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
113 2 0.01
114 139 0.78
115 37 0.21
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (114 bp):
TTAGCGGCGATTTTGCAAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGCT
Found at i:56856454 original size:73 final size:73
Alignment explanation
Indices: 56856330--56856495 Score: 226
Period size: 73 Copynumber: 2.3 Consensus size: 73
56856320 GCTAATGCCT
* * * **
56856330 AGGGCTTTAGCGGCGATTTTGCAAAAGTGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCT
1 AGGGATTTAGCGGCGTTTTTGCAAAAGCGCCACAAAAAAACCTAAGCCCAACGAAACCGTTTTCT
56856395 GAGCTTTC
66 GAGCTTTC
* * * *
56856403 GGGGATTTAGCGGCGTTTTTG-ATAAAGCGCTACAAAAAAACCTAATCCCAACGAAATCGTTTTC
1 AGGGATTTAGCGGCGTTTTTGCA-AAAGCGCCACAAAAAAACCTAAGCCCAACGAAACCGTTTTC
56856467 TGAGCTTTC
65 TGAGCTTTC
*
56856476 ATGGATTTAGCGGCGTTTTT
1 AGGGATTTAGCGGCGTTTTT
56856496 CGGGAAGCGA
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
72 1 0.01
73 80 0.99
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (73 bp):
AGGGATTTAGCGGCGTTTTTGCAAAAGCGCCACAAAAAAACCTAAGCCCAACGAAACCGTTTTCT
GAGCTTTC
Found at i:56856466 original size:187 final size:187
Alignment explanation
Indices: 56856221--56856620 Score: 611
Period size: 187 Copynumber: 2.1 Consensus size: 187
56856211 TGCTCAGGGC
* ** **
56856221 TTTAGTGGCGTTTTTGCGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAAACCGTTTTCTGAGCT
* * * * * *
56856286 TTCGGGGATTTAGCAGCTTTTTTGGGGAAGCGCCGCTAATGCCTAGGGCTTTAGCGGCGATTTTG
66 TTCAGGGATTTAGCAGCGTTTTTCGGGAAGCGACGCTAATACCCAGGGCTTTAGCGGCGATTTTG
* *
56856351 CAAAAGTGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGA
131 CAAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGA
* * *
56856408 TTTAGCGGCGTTTTTGATAAAGCGCTACAAAAAAACCTAATCCCAACGAAATCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAAACCGTTTTCTGAGCT
* * *
56856473 TTCATGGATTTAGCGGCGTTTTTCGGGAAGCGACGCTAATACCCAGGGCTTTAGCGGCGTTTTTG
66 TTCAGGGATTTAGCAGCGTTTTTCGGGAAGCGACGCTAATACCCAGGGCTTTAGCGGCGATTTTG
*
56856538 CTAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGA
131 CAAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGA
*
56856595 TTTAGCGGCGTTTTTAATAAAGCGCC
1 TTTAGCGGCGTTTTTGATAAAGCGCC
56856621 GCTAATGCTC
Statistics
Matches: 191, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
187 191 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (187 bp):
TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAAACCGTTTTCTGAGCT
TTCAGGGATTTAGCAGCGTTTTTCGGGAAGCGACGCTAATACCCAGGGCTTTAGCGGCGATTTTG
CAAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGA
Found at i:56856526 original size:114 final size:114
Alignment explanation
Indices: 56856408--56856995 Score: 761
Period size: 114 Copynumber: 5.1 Consensus size: 114
56856398 CTTTCGGGGA
* * **
56856408 TTTAGCGGCGTTTTTGATAAAGCGCTACAAAAAAACCTAATCCCAACGAAATCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAAGCCGTTTTCTGAGCT
** ** * * * *
56856473 TTCATGGATTTAGCGGCGTTTTTCGGGAAGCGACGCTAATACCCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * *
56856522 TTTAGCGGCGTTTTTGCTAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCT
1 TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAAGCCGTTTTCTGAGCT
*
56856587 TTCGGGGATTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTCAGGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA-GGGC
* * *
56856637 TTTAGCGGCGTTTTTGCTAAAGCACCAC-AAAAAACCTAAGCCCAAC-AATGTCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAA-GCCGTTTTCTGAGC
* * *
56856700 TTTCGGGGATTTAGCGGCATTTTTTAAGTAAGAGCCGCTAATGCTCAGGGC
65 TTTCGGGGATTTAGCGGC-GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
*
56856751 TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAAGCCGTTTTCTGAGCT
* * * *
56856816 TTCGGGGATTTAGCGACGTTTTTTAAGTAAGCGCTGCTAATACTCA-GGC
66 TTCGGGGATTTAGCGGCG-TTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
** * * * *
56856865 TTTTAGCGGCGTTTTTGGGAAGGCGCCGCAAAGAAACCTAAGCCCAAC-AAGCCGTTTTCTTAGC
1 -TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAAGCCGTTTTCTGAGC
* * * * *
56856929 TTTCGTGGATTTAGTGGCATTTTTAATAAAGCGCCGCTAATGCTCAGTGC
65 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
56856979 TTTAGCGGCGTTTTTGA
1 TTTAGCGGCGTTTTTGA
56856996 GGATGCGCCG
Statistics
Matches: 416, Mismatches: 50, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
113 40 0.10
114 206 0.50
115 169 0.41
116 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAAGCCGTTTTCTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:56856671 original size:301 final size:301
Alignment explanation
Indices: 56856177--56856723 Score: 848
Period size: 301 Copynumber: 1.8 Consensus size: 301
56856167 AGCTTTTGGG
* * * *
56856177 GGATTTAGTGGCGTTTTTAAGGAAGCAGCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTGCGAAA
1 GGATTTAGCGGCGTTTTTAAGGAAGCAGCGCTAATACCCAGGGCTTTAGCGGCGTTTTTGCGAAA
* *
56856242 GCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCAGCTTTT
66 GCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGCAGCGTTT
** * **
56856307 TTGGGGAAGCGCCGCTAATGCCTAGGGCTTTAGCGGCGATTTTGCAAAAGTGCCACAAAAAAACC
131 TTAAGAAAGCGCCGCTAATGCCTAGGGCTTTAGCGGCGATTTTGCAAAAGCACCACAAAAAAACC
* *
56856372 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTGATAAAGCGCTACA
196 TAAGCCCAACAACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTGATAAAGCGCTACA
56856437 AAAAAACCTAATCCCAACGAAATCGTTTTCTGAGCTTTCAT
261 AAAAAACCTAATCCCAACGAAATCGTTTTCTGAGCTTTCAT
** *
56856478 GGATTTAGCGGCGTTTTTCGGGAAGC-GACGCTAATACCCAGGGCTTTAGCGGCGTTTTTGCTAA
1 GGATTTAGCGGCGTTTTTAAGGAAGCAG-CGCTAATACCCAGGGCTTTAGCGGCGTTTTTGCGAA
*
56856542 AGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGCGGCGTT
65 AGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGCAGCGTT
* * *
56856607 TTTAATAAAGCGCCGCTAATG-CTCAGGGGCTTTAGCGGCGTTTTTGCTAAAGCACCAC-AAAAA
130 TTTAAGAAAGCGCCGCTAATGCCT-A-GGGCTTTAGCGGCGATTTTGCAAAAGCACCACAAAAAA
* *
56856670 ACCTAAGCCCAACAATGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTT
193 ACCTAAGCCCAACAACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTT
56856724 TAAGTAAGAG
Statistics
Matches: 221, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
300 3 0.01
301 190 0.86
302 28 0.13
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (301 bp):
GGATTTAGCGGCGTTTTTAAGGAAGCAGCGCTAATACCCAGGGCTTTAGCGGCGTTTTTGCGAAA
GCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGCAGCGTTT
TTAAGAAAGCGCCGCTAATGCCTAGGGCTTTAGCGGCGATTTTGCAAAAGCACCACAAAAAAACC
TAAGCCCAACAACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTGATAAAGCGCTACA
AAAAAACCTAATCCCAACGAAATCGTTTTCTGAGCTTTCAT
Found at i:56856760 original size:229 final size:228
Alignment explanation
Indices: 56856403--56856995 Score: 818
Period size: 229 Copynumber: 2.6 Consensus size: 228
56856393 CTGAGCTTTC
* * * *
56856403 GGGGATTTAGCGGCGTTTTTGATAAAGCGCTACAAAAAAACCTAATCCCAACGAAATCGTTTTCT
1 GGGGCTTTAGCGGCGTTTTTGATAAAGCGCCAC-AAAAAACCTAAGCCCAAC-AAGTCGTTTTCT
* * ** * * * *
56856468 GAGCTTTCATGGATTTAGCGGCGTTTTTCGGGAAGCGACGCTAATACCCAGGGCTTTAGCGGCGT
64 GAGCTTTCGTGGATTTAGCGGCATTTTTAAGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGT
*
56856533 TTTTGCTAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTT
129 TTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTT
* *
56856598 AGCGGCG-TTTTTAA-TAAAGCGCCGCTAATGCTCA
194 AGCGACGTTTTTTAAGT-AAGCGCCGCTAATACTCA
* *
56856632 GGGGCTTTAGCGGCGTTTTTGCTAAAGCACCACAAAAAACCTAAGCCCAACAATGTCGTTTTCTG
1 GGGGCTTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAACCTAAGCCCAACAA-GTCGTTTTCTG
* *
56856697 AGCTTTCGGGGATTTAGCGGCATTTTTTAAGTAAGAGCCGCTAATGCTCAGGGCTTTAGCGGCGT
65 AGCTTTCGTGGATTTAGCGGCA-TTTTTAAGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGT
*
56856762 TTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTT
129 TTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTT
*
56856827 AGCGACGTTTTTTAAGTAAGCGCTGCTAATACTCA
194 AGCGACGTTTTTTAAGTAAGCGCCGCTAATACTCA
** * * *
56856862 --GGCTTTTAGCGGCGTTTTTGGGAAGGCGCCGCAAAGAAACCTAAGCCCAACAAGCCGTTTTCT
1 GGGGC-TTTAGCGGCGTTTTTGATAAAGCGCCACAAA-AAACCTAAGCCCAACAAGTCGTTTTCT
* * *
56856925 TAGCTTTCGTGGATTTAGTGGCATTTTTAA-TAAAGCGCCGCTAATGCTCAGTGCTTTAGCGGCG
64 GAGCTTTCGTGGATTTAGCGGCATTTTTAAGT-AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCG
56856989 TTTTTGA
128 TTTTTGA
56856996 GGATGCGCCG
Statistics
Matches: 325, Mismatches: 32, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
227 3 0.01
228 93 0.29
229 188 0.58
230 40 0.12
231 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.28
Consensus pattern (228 bp):
GGGGCTTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAACCTAAGCCCAACAAGTCGTTTTCTGA
GCTTTCGTGGATTTAGCGGCATTTTTAAGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTT
TTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAG
CGACGTTTTTTAAGTAAGCGCCGCTAATACTCA
Found at i:56857637 original size:7 final size:7
Alignment explanation
Indices: 56857627--56857656 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
56857617 GATTTAAGGT
56857627 TTATGGG
1 TTATGGG
56857634 TTATGGG
1 TTATGGG
56857641 TTATGGG
1 TTATGGG
*
56857648 TTAGGGG
1 TTATGGG
56857655 TT
1 TT
56857657 GGGGGTTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
TTATGGG
Found at i:56857646 original size:14 final size:14
Alignment explanation
Indices: 56857627--56857666 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
56857617 GATTTAAGGT
*
56857627 TTATGGGTTATGGG
1 TTATGGGTTAGGGG
56857641 TTATGGGTTAGGGG
1 TTATGGGTTAGGGG
**
56857655 TTGGGGGTTAGG
1 TTATGGGTTAGG
56857667 TTAGGGTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.50, T:0.38
Consensus pattern (14 bp):
TTATGGGTTAGGGG
Found at i:56857701 original size:14 final size:14
Alignment explanation
Indices: 56857692--56857740 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
56857682 TAAGAGTTAG
56857692 GGGTTTAGAGTTTA
1 GGGTTTAGAGTTTA
* *
56857706 TGGATTTAGTG-TTA
1 -GGGTTTAGAGTTTA
56857720 -GG-TTAGAGTTTA
1 GGGTTTAGAGTTTA
56857732 GGGTTTAGA
1 GGGTTTAGA
56857741 TTAATTAGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
11 5 0.19
12 4 0.15
13 2 0.07
14 8 0.30
15 8 0.30
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (14 bp):
GGGTTTAGAGTTTA
Found at i:56858249 original size:24 final size:24
Alignment explanation
Indices: 56858222--56858302 Score: 99
Period size: 24 Copynumber: 3.2 Consensus size: 24
56858212 AATAAACAAA
56858222 TAAATAAATAGGTAATTAATTATT
1 TAAATAAATAGGTAATTAATTATT
* *
56858246 TAAATTAATTTTTAGGTAATTAATTGTT
1 TAAA-TAA---ATAGGTAATTAATTATT
*
56858274 TAAATAGATAGGTAATTAATTATT
1 TAAATAAATAGGTAATTAATTATT
56858298 TAAAT
1 TAAAT
56858303 GAATGATACA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
24 24 0.50
25 3 0.06
27 2 0.04
28 19 0.40
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (24 bp):
TAAATAAATAGGTAATTAATTATT
Found at i:56858250 original size:28 final size:28
Alignment explanation
Indices: 56858219--56858302 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 28
56858209 ATAAATAAAC
56858219 AAATAAATAAATAGGTAATTAATTATTT
1 AAATAAATAAATAGGTAATTAATTATTT
* *** *
56858247 AAATTAATTTTTAGGTAATTAATT-GTT
1 AAATAAATAAATAGGTAATTAATTATTT
*
56858274 ---TAAATAGATAGGTAATTAATTATTT
1 AAATAAATAAATAGGTAATTAATTATTT
56858299 AAAT
1 AAAT
56858303 GAATGATACA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
24 17 0.40
25 2 0.05
27 2 0.05
28 21 0.50
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (28 bp):
AAATAAATAAATAGGTAATTAATTATTT
Found at i:56859024 original size:365 final size:365
Alignment explanation
Indices: 56858350--56859065 Score: 1225
Period size: 365 Copynumber: 2.0 Consensus size: 365
56858340 AAGATTTAGA
56858350 GGCGTTTTGATAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGAGTCGTTTCAGCTTA
1 GGCGTTTTGATAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGAGTCGTTTCAGCTTA
*
56858415 GGAAATAAGTTTTAGTTGTGGCGTTTTTCCGAAAAGCGCCGTAAATAATATTTAAACTTTGCCAA
66 GGAAATAAATTTTAGTTGTGGCGTTTTTCCGAAAAGCGCCGTAAATAATATTTAAACTTTGCCAA
* *
56858480 AACGGCGCCGTTTCAGTTGAAGGATGGAATATTTTAGTGGCGTTTTATTATAAATGCCGCAAGGA
131 AACGGCGCCGTTTCAGTTAAAGGATGGAATATTTTAGTGGCGTTTTATTAAAAATGCCGCAAGGA
* * * *
56858545 TGTATAAAATTTTCTGAAAATGGCGCCGGTTCGATAATATATTAATTGTGGCGTTTTTGGGAAAA
196 TGTATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAA
* * * *
56858610 CGCCAGAATGTTTCCTTATATTTTTATAAAATGGCATCGTTTTTTTCTGTACTTGAAATTTTAGT
261 CGCCAGAATGTTTCCTTAAATTTTTATAAAACGGCACCGTTTCTTTCTGTACTTGAAATTTTAGT
*
56858675 GGCGTTTTTAATTAAAACGCCGCAAAAGGTAGACATTACC
326 GGCATTTTTAATTAAAACGCCGCAAAAGGTAGACATTACC
* * * *
56858715 GGCGTTTTGATAAAAAATGCCACAAATATTTATTGCATTTACCGATACGGCGTCGTTTCGGCTTA
1 GGCGTTTTGATAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGAGTCGTTTCAGCTTA
* * * *
56858780 GGGAATAAATTTTAGTTGTGGCGTTTTTCCTAAAAGCGCCGTAAATAATATTTGAACTTTGCGAA
66 GGAAATAAATTTTAGTTGTGGCGTTTTTCCGAAAAGCGCCGTAAATAATATTTAAACTTTGCCAA
* * *
56858845 AACGGCGCCGTTTTAGTTAAAGGATGGAATCTTTTAGTGGCGTTTTATTAAAAATGCCGTAAGGA
131 AACGGCGCCGTTTCAGTTAAAGGATGGAATATTTTAGTGGCGTTTTATTAAAAATGCCGCAAGGA
56858910 TGTATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAA
196 TGTATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAA
56858975 CGCCAGAATGTTTCCTTAAATTTTTATAAAACGGCACCGTTTCTTTCTGTACTTGAAATTTTAGT
261 CGCCAGAATGTTTCCTTAAATTTTTATAAAACGGCACCGTTTCTTTCTGTACTTGAAATTTTAGT
56859040 GGCATTTTTAATTAAAACGCCGCAAA
326 GGCATTTTTAATTAAAACGCCGCAAA
56859066 TGTCGATGCA
Statistics
Matches: 328, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
365 328 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Consensus pattern (365 bp):
GGCGTTTTGATAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGAGTCGTTTCAGCTTA
GGAAATAAATTTTAGTTGTGGCGTTTTTCCGAAAAGCGCCGTAAATAATATTTAAACTTTGCCAA
AACGGCGCCGTTTCAGTTAAAGGATGGAATATTTTAGTGGCGTTTTATTAAAAATGCCGCAAGGA
TGTATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAA
CGCCAGAATGTTTCCTTAAATTTTTATAAAACGGCACCGTTTCTTTCTGTACTTGAAATTTTAGT
GGCATTTTTAATTAAAACGCCGCAAAAGGTAGACATTACC
Found at i:56859750 original size:18 final size:18
Alignment explanation
Indices: 56859727--56859764 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
56859717 TGTTTGTTAG
56859727 TTACTTGCAGTGTTAATA
1 TTACTTGCAGTGTTAATA
56859745 TTACTTGCAGTGTTAATA
1 TTACTTGCAGTGTTAATA
56859763 TT
1 TT
56859765 TTTGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (18 bp):
TTACTTGCAGTGTTAATA
Found at i:56860587 original size:16 final size:17
Alignment explanation
Indices: 56860566--56860599 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
56860556 ATTTTACATG
56860566 ACATA-TTTTTACTAAA
1 ACATATTTTTTACTAAA
56860582 ACATATTTTTTACTAAA
1 ACATATTTTTTACTAAA
56860599 A
1 A
56860600 TTTACTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (17 bp):
ACATATTTTTTACTAAA
Found at i:56860617 original size:13 final size:13
Alignment explanation
Indices: 56860601--56860739 Score: 75
Period size: 13 Copynumber: 10.5 Consensus size: 13
56860591 TTACTAAAAT
* *
56860601 TTACTTTAATATA
1 TTACTTAAATAAA
56860614 TTACTTAAATAAA
1 TTACTTAAATAAA
*
56860627 TTACTTAAATACA
1 TTACTTAAATAAA
*
56860640 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
56860654 TTGGTTAAATTTA
1 TTACTTAAATAAA
**
56860667 TTACTTAAATATG
1 TTACTTAAATAAA
*
56860680 TTACTTAAATACA
1 TTACTTAAATAAA
*
56860693 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
56860707 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
56860720 TTACTTAAATACA
1 TTACTTAAATAAA
56860733 TTACTTA
1 TTACTTA
56860740 CTAAAATTTA
Statistics
Matches: 93, Mismatches: 27, Indels: 12
0.70 0.20 0.09
Matches are distributed among these distances:
12 4 0.04
13 73 0.78
14 12 0.13
15 4 0.04
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (13 bp):
TTACTTAAATAAA
Found at i:56860648 original size:53 final size:52
Alignment explanation
Indices: 56860591--56860739 Score: 217
Period size: 53 Copynumber: 2.8 Consensus size: 52
56860581 AACATATTTT
* *
56860591 TTACTAAAATTTACTTTAATATATTACTTAAATAAATTACTTAAATACATTAC
1 TTACTAAAATTT-GTTTAATTTATTACTTAAATAAATTACTTAAATACATTAC
* **
56860644 TTACTAAAATTTGGTTAAATTTATTACTTAAATATGTTACTTAAATACATTAC
1 TTACTAAAATTT-GTTTAATTTATTACTTAAATAAATTACTTAAATACATTAC
*
56860697 TTACTAAAATTTGTTTAAATTTATTACTTAAATACATTACTTA
1 TTACTAAAATTTGTTT-AATTTATTACTTAAATAAATTACTTA
56860740 CTAAAATTTA
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 3 0.03
53 83 0.97
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.46
Consensus pattern (52 bp):
TTACTAAAATTTGTTTAATTTATTACTTAAATAAATTACTTAAATACATTAC
Found at i:56860715 original size:40 final size:40
Alignment explanation
Indices: 56860671--56860748 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
56860661 AATTTATTAC
*
56860671 TTAAATATGTTACTTAAATACATTACTTACTAAAATTTGT
1 TTAAATATATTACTTAAATACATTACTTACTAAAATTTGT
*
56860711 TTAAATTTATTACTTAAATACATTACTTACTAAAATTT
1 TTAAATATATTACTTAAATACATTACTTACTAAAATTT
56860749 AAGTATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (40 bp):
TTAAATATATTACTTAAATACATTACTTACTAAAATTTGT
Found at i:56860971 original size:23 final size:23
Alignment explanation
Indices: 56860943--56860986 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
56860933 CTTATATGTA
*
56860943 AACTTACATAATACATTACTTTT
1 AACTTACATAATACATAACTTTT
56860966 AACTTACATAATACATAACTT
1 AACTTACATAATACATAACTT
56860987 ATAAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (23 bp):
AACTTACATAATACATAACTTTT
Found at i:56862722 original size:21 final size:21
Alignment explanation
Indices: 56862622--56862719 Score: 124
Period size: 21 Copynumber: 4.7 Consensus size: 21
56862612 CTACAACTTA
* *
56862622 AAGCAGAGACGGCAACGAGGG
1 AAGCAGAGGCTGCAACGAGGG
*
56862643 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCTGCAACGAGGG
*
56862664 AAGCAGAGGCTGCAACAAGGG
1 AAGCAGAGGCTGCAACGAGGG
* * *
56862685 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCTGCAACGAGGG
*
56862706 AAGAAGAGGCTGCA
1 AAGCAGAGGCTGCA
56862720 GCGCGAGAAG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 68 1.00
ACGTcount: A:0.38, C:0.18, G:0.41, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAACGAGGG
Found at i:56862727 original size:21 final size:21
Alignment explanation
Indices: 56862684--56862729 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
56862674 TGCAACAAGG
*
56862684 GAAGCAGAGGCTACAGCGAGA
1 GAAGAAGAGGCTACAGCGAGA
* *
56862705 GAAGAAGAGGCTGCAGCGCGA
1 GAAGAAGAGGCTACAGCGAGA
56862726 GAAG
1 GAAG
56862730 CAGCGAGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.41, T:0.04
Consensus pattern (21 bp):
GAAGAAGAGGCTACAGCGAGA
Found at i:56863212 original size:43 final size:43
Alignment explanation
Indices: 56863116--56863343 Score: 234
Period size: 42 Copynumber: 5.3 Consensus size: 43
56863106 AATCCCAAAA
* ** *
56863116 TTAGTGGCGTTTTTTACAAAAGCGCCGCTAAAGAACATTA-CT
1 TTAGCGGCGTTTTTTATGAAAGCGCCGCTAAAGAACATGATCT
* * *
56863158 TT-TCGTAGCGTTTGTGATGAAAGCGCCGCTAAAGAACATGATCT
1 TTAGCG--GCGTTTTTTATGAAAGCGCCGCTAAAGAACATGATCT
* ** *
56863202 ATAGCGGCGTTTTTTA-CCAAGCGCCGCTAAAGAATATGATCT
1 TTAGCGGCGTTTTTTATGAAAGCGCCGCTAAAGAACATGATCT
* *
56863244 TTAGCGGCGTTTTTCT-T-TAAGCGCTGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTT-TATGAAAGCGCCGCTAAAGAACATGATCT
* * *
56863286 TTAGCGGCGTTTTTTTTCG-AAGCGCCACTAAAGAACATGACCT
1 TTAGCGGCGTTTTTTAT-GAAAGCGCCGCTAAAGAACATGATCT
56863329 TTAGCGGCGTTTTTT
1 TTAGCGGCGTTTTTT
56863344 TCTGTAAACG
Statistics
Matches: 156, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
41 2 0.01
42 75 0.48
43 74 0.47
44 3 0.02
45 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTATGAAAGCGCCGCTAAAGAACATGATCT
Found at i:56863291 original size:84 final size:85
Alignment explanation
Indices: 56863178--56863342 Score: 260
Period size: 85 Copynumber: 2.0 Consensus size: 85
56863168 TTTGTGATGA
* * *
56863178 AAGCGCCGCTAAAGAACATGATCTATAGCGGCG-TTTTTTACCAAGCGCCGCTAAAGAATATGAT
1 AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTTACCAAGCGCCACTAAAGAACATGAC
56863242 CTTTAGCGGCGTTTTTCTTT
66 CTTTAGCGGCGTTTTTCTTT
* * * *
56863262 AAGCGCTGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCGAAGCGCCACTAAAGAACATGAC
1 AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTTACCAAGCGCCACTAAAGAACATGAC
56863327 CTTTAGCGGCGTTTTT
66 CTTTAGCGGCGTTTTT
56863343 TTCTGTAAAC
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
84 31 0.42
85 42 0.58
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTTACCAAGCGCCACTAAAGAACATGAC
CTTTAGCGGCGTTTTTCTTT
Found at i:56863344 original size:43 final size:42
Alignment explanation
Indices: 56863178--56863344 Score: 246
Period size: 42 Copynumber: 4.0 Consensus size: 42
56863168 TTTGTGATGA
* **
56863178 AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTACC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTC
*
56863220 AAGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTTTCTTT-
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TTTC
*
56863262 AAGCGCTGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTC
* *
56863304 GAAGCGCCACTAAAGAACATGACCTTTAGCGGCGTTTTTTT
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
56863345 CTGTAAACGC
Statistics
Matches: 113, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
41 3 0.03
42 72 0.64
43 38 0.34
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTC
Found at i:56865021 original size:17 final size:19
Alignment explanation
Indices: 56864980--56865021 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
56864970 AATCTTCAAG
*
56864980 GATATGCAATCTTAGGTAT
1 GATATGCAATCTTAGGTAA
56864999 GATATGCAATCTTA-G-AA
1 GATATGCAATCTTAGGTAA
56865016 GATATG
1 GATATG
56865022 ATTTTGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 1 0.05
19 14 0.64
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAGGTAA
Found at i:56867693 original size:19 final size:19
Alignment explanation
Indices: 56867669--56867713 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
56867659 TCTTTCTTTT
*
56867669 TGCATT-CATTCCATGCATC
1 TGCATTACATTCCAT-CATA
*
56867688 TGCATTACATTGCATCATA
1 TGCATTACATTCCATCATA
56867707 TGCATTA
1 TGCATTA
56867714 GATTTTCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (19 bp):
TGCATTACATTCCATCATA
Found at i:56870167 original size:41 final size:41
Alignment explanation
Indices: 56870122--56870212 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 41
56870112 GCTTAGCGCT
*
56870122 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
56870163 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
56870204 TAGCAGGCT
1 TAGCAGGCT
56870213 AAGTGCTGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:56875077 original size:44 final size:44
Alignment explanation
Indices: 56875005--56875414 Score: 339
Period size: 44 Copynumber: 9.2 Consensus size: 44
56874995 CAGTGAAACC
* * * *
56875005 ACAAATCTTATCTCCCTGAGGTTACAGTGGAGCGGATTAAAGTT
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * **
56875049 ACAAGTCTTATCTCCCTGAAGTTGCAGTGAAACAGACTGAAGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * *
56875093 AGCAAGTCTTAT-TCCCTTGAAGTTGCAGTGGGGCAGACTGAAAATGG
1 A-CAAGTCTTATCTCCC-TGAAGTTGCAGTGGAGCAGA-TTAAAGT-T
* * **
56875140 A-AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCC
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * *
56875183 A-ATAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTT
1 ACA-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * *
56875227 ACAAGTCTTATCTCCTTGAAATTGCAGTGGAGCAGACTGAAG--
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * * *
56875269 A-AAGTAACCTTATCCCCCTGAAATTGCAGTGGGGCAGACTGAAGATG
1 ACAAGT---CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TT
* *
56875316 GCGAA-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTT
1 AC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * *
56875360 ACAAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTT
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
56875404 ACAAGTCTTAT
1 ACAAGTCTTAT
56875415 TGAAGAAAGC
Statistics
Matches: 294, Mismatches: 56, Indels: 32
0.77 0.15 0.08
Matches are distributed among these distances:
41 4 0.01
42 1 0.00
43 4 0.01
44 191 0.65
45 84 0.29
46 6 0.02
47 1 0.00
48 1 0.00
49 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
Found at i:56875369 original size:177 final size:178
Alignment explanation
Indices: 56875003--56875414 Score: 639
Period size: 177 Copynumber: 2.3 Consensus size: 178
56874993 ATCAGTGAAA
* * * *
56875003 CCACAAATCTTATCTCCCTGAGGTTACAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGA
1 CCACAAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGA
* * * * *
56875068 AGTTGCAGTGAAACAGACTGAAGAAAGCAAGTCTTATTCCCTTGAAGTTGCAGTGGGGCAGACTG
66 AATTGCAGTGAAACAGACTGAAGAAAGCAAGCCTTATCCCCCTGAAATTGCAGTGGGGCAGACTG
56875133 AAAATGGAAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG
131 AAAATGGAAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG
*
56875181 CCA-ATAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCTTG
1 CCACA-AATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTG
* * *
56875245 AAATTGCAGTGGAGCAGACTGAAGAAAGTAA-CCTTATCCCCCTGAAATTGCAGTGGGGCAGACT
65 AAATTGCAGTGAAACAGACTGAAGAAAGCAAGCCTTATCCCCCTGAAATTGCAGTGGGGCAGACT
* **
56875309 GAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG
130 GAAAATGGAAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG
**
56875358 TTACAAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTAT
1 CCACAAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTAT
56875415 TGAAGAAAGC
Statistics
Matches: 214, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
177 129 0.60
178 85 0.40
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (178 bp):
CCACAAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGA
AATTGCAGTGAAACAGACTGAAGAAAGCAAGCCTTATCCCCCTGAAATTGCAGTGGGGCAGACTG
AAAATGGAAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG
Found at i:56875851 original size:44 final size:44
Alignment explanation
Indices: 56875791--56875944 Score: 161
Period size: 44 Copynumber: 3.5 Consensus size: 44
56875781 CACATCAAAC
*
56875791 CTTATCTCCCTGAAGTTGCAGTGGAGCAGG-TTGAAAATACCAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGC-GGATTGAAAATACCAAT
* ** *
56875835 CTTATCTCCCTAAAGTTGCAGTGAAGCGGATTGAAGCTACTAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAAATACCAAT
* * * **
56875879 CCTATCTCCTTGAAGTTGCAGTGGAGCGGATT-AAAATGATGAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAAAT-ACCAAT
*
56875923 CTTATAC-CTCTAAAGTTGCAGT
1 CTTAT-CTCCCTAAAGTTGCAGT
56875945 AGGTCAGATT
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
43 5 0.06
44 84 0.93
45 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAAATACCAAT
Found at i:56875870 original size:225 final size:223
Alignment explanation
Indices: 56875421--56875905 Score: 575
Period size: 225 Copynumber: 2.2 Consensus size: 223
56875411 TTATTGAAGA
* * * * * *
56875421 AAGC-AAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATAGCGAATCTCATTTTCCT
1 AAGCTAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCTCATTTCCCT
* * * *
56875485 GAAGCTGCAGTGGAACAAATTAAAGTTATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGA
66 GAAGCTGCAGTGGAACAAATCAAAGATATAAATCAAAGATCTTATCTCTCTGAAGTTGCAATAGA
* * * * *
56875550 GTAGATCATGACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCTAATAATCCTAT
131 GCAGATCATCACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGATAACAATCCTAT
* *
56875615 CTACTAGAAGTTGCAGTGGAGTGAATTG
196 CTACTAGAAGTTGCAGTGAAGCGAATTG
** *
56875643 AAG-TGAAGTCTTATCTCCTTGAAGTTATAGTGGAGCAAACTGAAGATAGCAAATCTCGTTTCCC
1 AAGCT-AAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCTCATTTCCC
* * * *
56875707 TGAAGATTGCAGTGGAATAGATCAAAGATATAAATCATAAGATCTTATCTTTCTGAAGTTGCAAT
65 TGAAG-CTGCAGTGGAACAAATCAAAGATATAAATCA-AAGATCTTATCTCTCTGAAGTTGCAAT
* * *
56875772 AGAGCAGATCA-CATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAA-ATACCAAT
128 AGAGCAGATCATCA-CAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAGATAACAAT
* * *
56875835 CTTATCTCCCTA-AAGTTGCAGTGAAGCGGATTG
191 CCTATCT-ACTAGAAGTTGCAGTGAAGCGAATTG
* *
56875868 AAGCTACTAATCCTATCTCCTTGAAGTTGCAGTGGAGC
1 AAGCTA--AGTCTTATCTCCTTGAAGTTGCAGTGGAGC
56875906 GGATTAAAAT
Statistics
Matches: 219, Mismatches: 34, Indels: 15
0.82 0.13 0.06
Matches are distributed among these distances:
222 3 0.01
223 55 0.25
224 27 0.12
225 101 0.46
226 7 0.03
227 26 0.12
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (223 bp):
AAGCTAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCTCATTTCCCT
GAAGCTGCAGTGGAACAAATCAAAGATATAAATCAAAGATCTTATCTCTCTGAAGTTGCAATAGA
GCAGATCATCACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGATAACAATCCTAT
CTACTAGAAGTTGCAGTGAAGCGAATTG
Found at i:56876083 original size:89 final size:88
Alignment explanation
Indices: 56875987--56876264 Score: 335
Period size: 89 Copynumber: 3.1 Consensus size: 88
56875977 CTCCTTAAAG
*
56875987 TTGCAGCGGAGCAGACTAACGATAGTAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAA
1 TTGCAGCGGAGCAGACTAA-GATAGTAGATCTTGTCTTCCTATATTGGCAGCGAAGCAGATCGAA
56876052 GACACCAGCCTTACCTCCTTGAGT
65 GACACCAGCCTTACCTCCTTGAGT
* *
56876076 TTGCAGCGGAGCAGACTGAAGATAGTAGATCTTGTCTTCCTATATTGGCAACGAAACAGATCGAA
1 TTGCAGCGGAGCAGACT-AAGATAGTAGATCTTGTCTTCCTATATTGGCAGCGAAGCAGATCGAA
*
56876141 GACACCAGTCTTACCTGCC-TGAGT
65 GACACCAGCCTTACCT-CCTTGAGT
* * * * ** * * * * *
56876165 TTGCAACGGAACAGACTAAAAACAACAAATCTTGTCTTCTTGTACTGGCAGTGAAGCAGATCGAA
1 TTGCAGCGGAGCAGACT-AAGATAGTAGATCTTGTCTTCCTATATTGGCAGCGAAGCAGATCGAA
* *
56876230 AACACCAGCCTTGCCT-CTCTGAGT
65 GACACCAGCCTTACCTCCT-TGAGT
*
56876254 TTGCAGTGGAG
1 TTGCAGCGGAG
56876265 TATGTAATAC
Statistics
Matches: 161, Mismatches: 24, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
87 1 0.01
89 156 0.97
90 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (88 bp):
TTGCAGCGGAGCAGACTAAGATAGTAGATCTTGTCTTCCTATATTGGCAGCGAAGCAGATCGAAG
ACACCAGCCTTACCTCCTTGAGT
Found at i:56876178 original size:44 final size:43
Alignment explanation
Indices: 56876044--56876179 Score: 107
Period size: 44 Copynumber: 3.1 Consensus size: 43
56876034 GCAGCGAAGT
* * *
56876044 AGATCGAAGACACCAGCCTTACCTCCTTGAGTTTGCAGCGGAGC
1 AGATCGAAGACACCAGTCTTACCTCC-TGAGTTTGCAACGGAAC
* ** * * *
56876088 AGA-CTGAAGATAGTAGATCTTGTCTTCCT-A-TATTGGCAACGAAAC
1 AGATC-GAAGACACCAG-TCTT-ACCTCCTGAGT-TT-GCAACGGAAC
56876133 AGATCGAAGACACCAGTCTTACCTGCCTGAGTTTGCAACGGAAC
1 AGATCGAAGACACCAGTCTTACCT-CCTGAGTTTGCAACGGAAC
56876177 AGA
1 AGA
56876180 CTAAAAACAA
Statistics
Matches: 68, Mismatches: 15, Indels: 18
0.67 0.15 0.18
Matches are distributed among these distances:
43 4 0.06
44 33 0.49
45 25 0.37
46 6 0.09
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (43 bp):
AGATCGAAGACACCAGTCTTACCTCCTGAGTTTGCAACGGAAC
Found at i:56878771 original size:131 final size:132
Alignment explanation
Indices: 56878480--56878848 Score: 578
Period size: 131 Copynumber: 2.8 Consensus size: 132
56878470 GGGTGTTACA
56878480 GAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAA
1 GAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAA
* * *
56878545 TCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCTCCTTGAGCAGCAA
66 TCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCAA
56878610 TG
131 TG
* * * * * *
56878612 GAGTAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAATGGAGTAGATCGAAGACGACAAA
1 GAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAA
* * * *
56878677 TCTTATCTTCCCGAGATAGTA-GGAAGCAGATTTAAGCCACCAGTTCTATCTCCCTGAGCAGTAG
66 TCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCAA
56878741 TG
131 TG
* * *
56878743 GAGTAGGTTGAAGATTGTATATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAG
1 GAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAA
*
56878808 TCTTATCTTCCCGAGGTAGTAGGGAAACAGATTTAAGCCAC
66 TCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCAC
56878849 TGGCCTTATC
Statistics
Matches: 212, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 116 0.55
132 96 0.45
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (132 bp):
GAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAA
TCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCAA
TG
Found at i:56879197 original size:15 final size:14
Alignment explanation
Indices: 56879170--56879200 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
56879160 GGGCTCACAA
56879170 AAAAATAATAAACC
1 AAAAATAATAAACC
*
56879184 AAAAATAATAAAAC
1 AAAAATAATAAACC
56879198 AAA
1 AAA
56879201 GTCCAACTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATAATAAACC
Found at i:56879335 original size:19 final size:19
Alignment explanation
Indices: 56879311--56879366 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
56879301 ATAATCTTCA
*
56879311 ATGATATGCAATCATAGGT
1 ATGATATGCAATCATAGAT
*
56879330 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCATAGAT
*
56879349 ATGATATGCAATCTTAGA
1 ATGATATGCAATCATAGA
56879367 AGATATGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (19 bp):
ATGATATGCAATCATAGAT
Found at i:56881102 original size:20 final size:19
Alignment explanation
Indices: 56881069--56881111 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 19
56881059 AAGACTTCCA
*
56881069 AACATCTTATAAAATGTTTTG
1 AACATCTTAGAAAA--TTTTG
56881090 AACA-CTTAGAAAATTTTG
1 AACATCTTAGAAAATTTTG
56881108 AACA
1 AACA
56881112 ATGTTCCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 9 0.43
20 8 0.38
21 4 0.19
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (19 bp):
AACATCTTAGAAAATTTTG
Found at i:56881165 original size:20 final size:20
Alignment explanation
Indices: 56881136--56881173 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
56881126 TTTTAAACTC
*
56881136 TTTAACTCGATTGAAACATT
1 TTTAAATCGATTGAAACATT
56881156 TTTAAATCGATTGAAACA
1 TTTAAATCGATTGAAACA
56881174 CTGCTCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (20 bp):
TTTAAATCGATTGAAACATT
Found at i:56882241 original size:23 final size:23
Alignment explanation
Indices: 56882198--56882241 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
56882188 TGACCATTAT
* *
56882198 ATAAAAGAGATCAAGTTAGGTAG
1 ATAAAAGAGATCAAATCAGGTAG
56882221 ATAAAAGAGATCAAATCAGGT
1 ATAAAAGAGATCAAATCAGGT
56882242 GAACAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (23 bp):
ATAAAAGAGATCAAATCAGGTAG
Found at i:56883353 original size:101 final size:101
Alignment explanation
Indices: 56883178--56883380 Score: 406
Period size: 101 Copynumber: 2.0 Consensus size: 101
56883168 TAAAACTTGG
56883178 TGGCCATGATGGATTGTAGAACAAAAGGACCATTTTTCAGTTCTTGAACTAAAAAAGATTATTAA
1 TGGCCATGATGGATTGTAGAACAAAAGGACCATTTTTCAGTTCTTGAACTAAAAAAGATTATTAA
56883243 CGGAGCCCATTTTTCATTACTGGACAGTTTGTATTA
66 CGGAGCCCATTTTTCATTACTGGACAGTTTGTATTA
56883279 TGGCCATGATGGATTGTAGAACAAAAGGACCATTTTTCAGTTCTTGAACTAAAAAAGATTATTAA
1 TGGCCATGATGGATTGTAGAACAAAAGGACCATTTTTCAGTTCTTGAACTAAAAAAGATTATTAA
56883344 CGGAGCCCATTTTTCATTACTGGACAGTTTGTATTA
66 CGGAGCCCATTTTTCATTACTGGACAGTTTGTATTA
56883380 T
1 T
56883381 ATTATAAGGG
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (101 bp):
TGGCCATGATGGATTGTAGAACAAAAGGACCATTTTTCAGTTCTTGAACTAAAAAAGATTATTAA
CGGAGCCCATTTTTCATTACTGGACAGTTTGTATTA
Found at i:56897448 original size:15 final size:15
Alignment explanation
Indices: 56897424--56897454 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56897414 GTTAATTGTG
*
56897424 ATTAAGGTTTAATTA
1 ATTAAAGTTTAATTA
56897439 ATTAAAGTTTAATTA
1 ATTAAAGTTTAATTA
56897454 A
1 A
56897455 GTGATTAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (15 bp):
ATTAAAGTTTAATTA
Found at i:56904526 original size:18 final size:18
Alignment explanation
Indices: 56904505--56904547 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
56904495 AATGAGATAA
56904505 AGATGAAAATGAAGATGG
1 AGATGAAAATGAAGATGG
* * *
56904523 AGATGGAGATGAAGGTGG
1 AGATGAAAATGAAGATGG
*
56904541 AGGTGAA
1 AGATGAA
56904548 TGTAATATCC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.42, T:0.16
Consensus pattern (18 bp):
AGATGAAAATGAAGATGG
Found at i:56904632 original size:27 final size:27
Alignment explanation
Indices: 56904602--56904689 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
56904592 TTGGTATTTT
* **
56904602 CCAGTAGGCTTGGCGAGCAGGGGTTCG
1 CCAGAAGGCTTGGTAAGCAGGGGTTCG
* *
56904629 CCAGAAGGCTTAGTAAGCAGAGGTTCG
1 CCAGAAGGCTTGGTAAGCAGGGGTTCG
* *
56904656 CTAGAAGGCTTGGTAAGTAGGGGGTTCG
1 CCAGAAGGCTTGGTAAGCA-GGGGTTCG
56904684 CCAGAA
1 CCAGAA
56904690 AGCCTAGCGA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 38 0.76
28 12 0.24
ACGTcount: A:0.24, C:0.18, G:0.39, T:0.19
Consensus pattern (27 bp):
CCAGAAGGCTTGGTAAGCAGGGGTTCG
Found at i:56908387 original size:19 final size:19
Alignment explanation
Indices: 56908336--56908387 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
56908326 TTATGGTACA
* *
56908336 GATACTCTTTTATAAGTATC
1 GATACTATTTT-TTAGTATC
**
56908356 GATACTAAATTTTAGTATC
1 GATACTATTTTTTAGTATC
56908375 GATACTATTTTTT
1 GATACTATTTTTT
56908388 GATTCTGTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.48
Consensus pattern (19 bp):
GATACTATTTTTTAGTATC
Found at i:56908451 original size:19 final size:21
Alignment explanation
Indices: 56908427--56908477 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
56908417 AAAGCCATGT
*
56908427 GTATCGATAC-CT-TTGTAAA
1 GTATCGATACTCTGATGTAAA
56908446 GTATCGATACTCTGATGTAAA
1 GTATCGATACTCTGATGTAAA
*
56908467 GTACCGATACT
1 GTATCGATACT
56908478 TTAGTCCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 10 0.36
20 2 0.07
21 16 0.57
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (21 bp):
GTATCGATACTCTGATGTAAA
Found at i:56910414 original size:51 final size:51
Alignment explanation
Indices: 56910355--56910697 Score: 367
Period size: 50 Copynumber: 6.8 Consensus size: 51
56910345 TATCGATGAA
* *
56910355 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
* * * * * * *
56910406 CACATGTGTAGTACTAAGTGAAGGCTA-TAATGTGTATTGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACT-ACGTGAATCGATAA-ATGTTGGT
* *
56910457 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
* * * * *
56910508 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTA-CCA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATG--TTGGT
* * ** *
56910558 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-CCATAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
* ** *
56910608 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAATCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
*
56910658 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
56910698 ATGATAAAAG
Statistics
Matches: 245, Mismatches: 37, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.00
49 3 0.01
50 128 0.52
51 111 0.45
52 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
Found at i:56910531 original size:102 final size:101
Alignment explanation
Indices: 56910355--56910697 Score: 485
Period size: 102 Copynumber: 3.4 Consensus size: 101
56910345 TATCGATGAA
*
56910355 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
56910420 TAAGTGAAGGCTA-TAATGTGTATTGAGAAGCTTTGGT
66 TAAGTGAAGGCTACT-ATGTGTATCGA-AAGCTTTGGT
*
56910457 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
56910522 TAAGTGAAGGCTACTATGTGTACCAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTATCGAAAGCTTTGGT
* * *** * *
56910558 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-CCATAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * * *
56910622 TATGTGAAGGCTACTATGTGAATCGTAAAAC-TTGAT
66 TAAGTGAAGGCTACTATGTGTATCG-AAAGCTTTGGT
*
56910658 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
56910698 ATGATAAAAG
Statistics
Matches: 218, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
100 81 0.37
101 50 0.23
102 86 0.39
103 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTATCGAAAGCTTTGGT
Found at i:56934410 original size:41 final size:41
Alignment explanation
Indices: 56934360--56934446 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
56934350 TTTTAAATCC
56934360 AGTTAAAATTTAAATTACATTTTAATCATTCAACTTTAAAA
1 AGTTAAAATTTAAATTACATTTTAATCATTCAACTTTAAAA
*
56934401 AGTTAAAATTTAAATTACATTTTAATCATTCAATTTTAAAA
1 AGTTAAAATTTAAATTACATTTTAATCATTCAACTTTAAAA
56934442 AGTTA
1 AGTTA
56934447 TGATATAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (41 bp):
AGTTAAAATTTAAATTACATTTTAATCATTCAACTTTAAAA
Found at i:56934970 original size:20 final size:18
Alignment explanation
Indices: 56934947--56934999 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 18
56934937 GATAAAATAA
56934947 AGTTAAAATTGTTTCAATTG
1 AGTTAAAA-TGTTTCAA-TG
56934967 AGTTAAACAT-TTTCAATG
1 AGTTAAA-ATGTTTCAATG
56934985 ATGTTAAAACTGTTT
1 A-GTTAAAA-TGTTT
56935000 TTAAACAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 4 0.14
19 13 0.45
20 11 0.38
21 1 0.03
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (18 bp):
AGTTAAAATGTTTCAATG
Found at i:56938481 original size:25 final size:25
Alignment explanation
Indices: 56938453--56938511 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
56938443 ACACGGGAAC
56938453 AATGCTCACACAAGCTGGGACAGTA
1 AATGCTCACACAAGCTGGGACAGTA
* * *
56938478 AATGCTCACACTAGCTGTGACTGTA
1 AATGCTCACACAAGCTGGGACAGTA
*
56938503 AATGTTCAC
1 AATGCTCAC
56938512 GAGATGTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (25 bp):
AATGCTCACACAAGCTGGGACAGTA
Found at i:56940837 original size:21 final size:22
Alignment explanation
Indices: 56940813--56940857 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
56940803 TGTATTAAAA
*
56940813 TTATCAAATTAATTTTT-AATT
1 TTATAAAATTAATTTTTAAATT
56940834 TTATAAAATTAATTTTTAAATT
1 TTATAAAATTAATTTTTAAATT
56940856 TT
1 TT
56940858 TATGTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATAAAATTAATTTTTAAATT
Found at i:56941957 original size:38 final size:36
Alignment explanation
Indices: 56941904--56941979 Score: 116
Period size: 38 Copynumber: 2.1 Consensus size: 36
56941894 ACCTTACAAC
*
56941904 CTCCCTTAAGATTTCTACCCCAAACCTTAAGATTGCAA
1 CTCCCTTAAGATTTCTA-CCAAAACCTTAAGATT-CAA
*
56941942 CTCCCTTAAGGTTTCTACCAAAACCTTAAGATTCAA
1 CTCCCTTAAGATTTCTACCAAAACCTTAAGATTCAA
56941978 CT
1 CT
56941980 TTCTCAAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 5 0.14
37 15 0.42
38 16 0.44
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (36 bp):
CTCCCTTAAGATTTCTACCAAAACCTTAAGATTCAA
Found at i:56943240 original size:9 final size:9
Alignment explanation
Indices: 56943226--56943261 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
56943216 CATACGAACC
56943226 AGAAAGAAA
1 AGAAAGAAA
56943235 AGAAAGAAAA
1 AGAAAG-AAA
*
56943245 AGAAAAAAA
1 AGAAAGAAA
56943254 AGAAAGAA
1 AGAAAGAA
56943262 GAAAGGAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AGAAAGAAA
Found at i:56943248 original size:15 final size:15
Alignment explanation
Indices: 56943228--56943265 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
56943218 TACGAACCAG
*
56943228 AAAGAAAAGAAAGAA
1 AAAGAAAAAAAAGAA
56943243 AAAGAAAAAAAAGAA
1 AAAGAAAAAAAAGAA
56943258 AGAAGAAA
1 A-AAGAAA
56943266 GGAGAAAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAAGAA
Found at i:56943254 original size:19 final size:20
Alignment explanation
Indices: 56943226--56943266 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
56943216 CATACGAACC
*
56943226 AGAAAGAAAAGAAAGAA-AA
1 AGAAAAAAAAGAAAGAAGAA
56943245 AGAAAAAAAAGAAAGAAGAA
1 AGAAAAAAAAGAAAGAAGAA
56943265 AG
1 AG
56943267 GAGAAAGACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (20 bp):
AGAAAAAAAAGAAAGAAGAA
Found at i:56943263 original size:7 final size:7
Alignment explanation
Indices: 56943234--56943274 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
56943224 CCAGAAAGAA
56943234 AAGAAAG
1 AAGAAAG
56943241 AA-AAAG
1 AAGAAAG
*
56943247 AA-AAAA
1 AAGAAAG
56943253 AAGAAAG
1 AAGAAAG
56943260 AAGAAAG
1 AAGAAAG
*
56943267 GAGAAAG
1 AAGAAAG
56943274 A
1 A
56943275 CGCAAGGCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 11 0.38
7 18 0.62
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (7 bp):
AAGAAAG
Found at i:56951997 original size:46 final size:46
Alignment explanation
Indices: 56951928--56952022 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
56951918 ACAAAGATAG
*
56951928 AAACCAAAATATTATCTCTTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
*
56951974 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTTATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
56952020 AAA
1 AAA
56952023 AGAAAAGAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:56956537 original size:22 final size:22
Alignment explanation
Indices: 56956512--56956588 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
56956502 CCAAAATATT
56956512 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
56956534 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
56956558 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
56956580 ATCTCCTAA
1 ATCTCCTAA
56956589 TAAAAGAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 19 0.46
24 10 0.24
25 4 0.10
26 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:56956551 original size:46 final size:46
Alignment explanation
Indices: 56956499--56956589 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
56956489 ACAAAGATAG
56956499 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
56956545 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAAT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAAT
56956590 AAAAGAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.40, C:0.24, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:56963656 original size:33 final size:33
Alignment explanation
Indices: 56963609--56963849 Score: 214
Period size: 33 Copynumber: 6.7 Consensus size: 33
56963599 TTATCCGTTA
*
56963609 TCGGTGGATTCAGCACTTAGCAACCACCAATGAG
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAG
* *
56963643 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAG
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A--TGAG
* *
56963682 ATACGGTGGGATCAGCACTTAGCAACCACCAATGAT
1 -T-CGG-GGAATCAGCACTTAGCAACCACCAATGAG
56963718 TCGGGGAATCAGCACTTAGCAACCACCAATGAG
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAG
* *
56963751 TCGGGGAATCAACACTTAGCAACC-CTTTTCACATTTAAG
1 TCGGGGAATCAGCACTTAGCAACCAC----CA-A--TGAG
*
56963790 ATACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 -T-CGG-GGAATCAGCACTTAGCAACCACCAATGAG
*
56963826 TCGGGGAATCAACACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
56963850 CCTTGGGGGA
Statistics
Matches: 172, Mismatches: 15, Indels: 41
0.75 0.07 0.18
Matches are distributed among these distances:
32 1 0.01
33 89 0.52
34 10 0.06
35 2 0.01
36 8 0.05
37 2 0.01
38 2 0.01
39 10 0.06
40 2 0.01
41 6 0.03
42 39 0.23
43 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAG
Found at i:56963752 original size:108 final size:108
Alignment explanation
Indices: 56963608--56963882 Score: 427
Period size: 108 Copynumber: 2.6 Consensus size: 108
56963598 GTTATCCGTT
* *
56963608 ATCGGTGGATTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTC
1 ATCGG-GGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTC
*
56963673 ACATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGA
65 ACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGA
* *
56963717 TTCGGGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCTTTTCA
1 ATCGGGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCA
56963782 CATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGA
66 CATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGA
* *
56963825 ATCGGGGAATCAACACTTAGCAACC-CC--T---TGGGGGAATCAACACTTAGCAAGCCCCTTT
1 ATCGGGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAA-CCCCTTT
56963883 ATATTCAATG
Statistics
Matches: 156, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
102 21 0.13
103 6 0.04
105 1 0.01
107 2 0.01
108 122 0.78
109 4 0.03
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (108 bp):
ATCGGGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCA
CATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGA
Found at i:56963865 original size:27 final size:28
Alignment explanation
Indices: 56963828--56963881 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
56963818 CCAATGAATC
56963828 GGGGAATCAACACTTAGCAA-CCCCTTG
1 GGGGAATCAACACTTAGCAAGCCCCTTG
56963855 GGGGAATCAACACTTAGCAAGCCCCTT
1 GGGGAATCAACACTTAGCAAGCCCCTT
56963882 TATATTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (28 bp):
GGGGAATCAACACTTAGCAAGCCCCTTG
Found at i:56970822 original size:102 final size:101
Alignment explanation
Indices: 56970697--56970900 Score: 347
Period size: 102 Copynumber: 2.0 Consensus size: 101
56970687 CACCAATGAG
* * *
56970697 TCGGGGGATCAGCACTTAGCAACCTCTTTCACATTTAAGATACGGTAGG-ATCAGCACTTAGCAA
1 TCGGGGGATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGAT-GGAATCAGCACTTAGCAA
*
56970761 CCACCAATGATTCGGGGAATCAACACTTAGCAACCCC
65 CCACCAATGAGTCGGGGAATCAACACTTAGCAACCCC
56970798 TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAA
1 TCGGGGG-ATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAA
56970863 CCACCAATGAGTCGGGGAATCAACACTTAGCAACCCC
65 CCACCAATGAGTCGGGGAATCAACACTTAGCAACCCC
56970900 T
1 T
56970901 TTCACATTTA
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
101 9 0.09
102 88 0.91
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (101 bp):
TCGGGGGATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAAC
CACCAATGAGTCGGGGAATCAACACTTAGCAACCCC
Found at i:56970862 original size:42 final size:41
Alignment explanation
Indices: 56970803--56970939 Score: 155
Period size: 42 Copynumber: 3.5 Consensus size: 41
56970793 ACCCCTCGGG
56970803 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGAT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACG-T
* * *
56970845 GGAATCAGCACTTAGCAA-CCAC--CA-A--TGAG-T-CGG
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGT
* *
56970878 GGAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATAC-GT
56970920 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
56970940 ACCAATGAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
33 17 0.22
34 4 0.05
35 1 0.01
36 5 0.06
37 1 0.01
38 1 0.01
39 5 0.06
40 1 0.01
41 4 0.05
42 38 0.49
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.21
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGT
Found at i:56970895 original size:75 final size:75
Alignment explanation
Indices: 56970801--56970971 Score: 306
Period size: 75 Copynumber: 2.3 Consensus size: 75
56970791 CAACCCCTCG
56970801 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAACCA
*
56970866 CCAATGAGTC
66 CCAATGAATC
* * *
56970876 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAACCA
56970941 CCAATGAATC
66 CCAATGAATC
56970951 GGGGAATCAGCACTTAGCAAC
1 GGGGAATCAGCACTTAGCAAC
56970972 TCCTTGGGGG
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 91 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAACCA
CCAATGAATC
Found at i:56970968 original size:177 final size:177
Alignment explanation
Indices: 56970667--56971001 Score: 573
Period size: 177 Copynumber: 1.9 Consensus size: 177
56970657 CCGTTATCGG
* * * *
56970667 TGGATTCAGCACTTAGCAACCACCAATGAGTCGGGGGATCAGCACTTAGCAACCTCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATT
*
56970732 TAAGATACGGTAGGATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCC
66 TAAGATACGGTAGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCC
*
56970797 CTCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGA
131 CTCGGGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGA
56970844 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATT
* *
56970909 TAAGATACGGT-GGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACT
66 TAAGATACGGTAGG-ATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACC
*
56970973 CCTTGGGGGAATCAACACTTAGCAACCCC
130 CCTCGGGGGAATCAACACTTAGCAACCCC
56971002 GTTTATATTC
Statistics
Matches: 148, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
176 2 0.01
177 146 0.99
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.21
Consensus pattern (177 bp):
TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATT
TAAGATACGGTAGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCC
CTCGGGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGA
Found at i:56971890 original size:79 final size:79
Alignment explanation
Indices: 56971787--56971948 Score: 243
Period size: 79 Copynumber: 2.1 Consensus size: 79
56971777 GATGGCCTTA
* * * *
56971787 AGATTGCTTGGAACTAAGGATATAGACAAGTTGCAACGGTAGTTGACTGCTTGTAGGCTATTAAT
1 AGATGGCTTGGAACAAAAGATATAGACAAGTTGCAACGGTAGTTGACTACTTGTAGGCTATTAAT
56971852 TTGATTACTACACT
66 TTGATTACTACACT
** *
56971866 AGATGGCTTGGAACAAAAGATATAGACAAGTTGCAGTGGTAGTTGACTACTTGTAGGCTATTTAT
1 AGATGGCTTGGAACAAAAGATATAGACAAGTTGCAACGGTAGTTGACTACTTGTAGGCTATTAAT
**
56971931 TTGATTGGTACACT
66 TTGATTACTACACT
56971945 AGAT
1 AGAT
56971949 ACGCATAGAA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (79 bp):
AGATGGCTTGGAACAAAAGATATAGACAAGTTGCAACGGTAGTTGACTACTTGTAGGCTATTAAT
TTGATTACTACACT
Found at i:56978005 original size:18 final size:18
Alignment explanation
Indices: 56977982--56978018 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
56977972 ACTTTTAGTC
56977982 CTACTCTTAAAAAATTAT
1 CTACTCTTAAAAAATTAT
56978000 CTACTCTTAAAAAATTAT
1 CTACTCTTAAAAAATTAT
56978018 C
1 C
56978019 CTAAATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (18 bp):
CTACTCTTAAAAAATTAT
Found at i:56978225 original size:14 final size:14
Alignment explanation
Indices: 56978181--56978231 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
56978171 GTGTCGGGCC
56978181 TAACATATCTGGCGT
1 TAACATATCTGGC-T
* * *
56978196 TTA-AT-TTTGGCC
1 TAACATATCTGGCT
56978208 TAACATATCTGGCT
1 TAACATATCTGGCT
56978222 TAACATATCT
1 TAACATATCT
56978232 TTGTGGGTGC
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
12 2 0.07
13 7 0.25
14 17 0.61
15 2 0.07
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (14 bp):
TAACATATCTGGCT
Found at i:56988417 original size:20 final size:20
Alignment explanation
Indices: 56988392--56988455 Score: 101
Period size: 20 Copynumber: 3.1 Consensus size: 20
56988382 ATGCGACTAC
*
56988392 AATAATACCAATTTTATAAT
1 AATAATATCAATTTTATAAT
56988412 AATAATATCAATTTTATAAT
1 AATAATATCAATTTTATAAT
*
56988432 AATAATATCGATTTTAATAAT
1 AATAATATCAATTTT-ATAAT
56988453 AAT
1 AAT
56988456 GGTATTAATC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 33 0.80
21 8 0.20
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (20 bp):
AATAATATCAATTTTATAAT
Found at i:56988653 original size:6 final size:6
Alignment explanation
Indices: 56988642--56988707 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
56988632 GAGTACTATA
* * *
56988642 ATAATG ATAATG -TAATT ATAATG ATAATG ATAATA ATAA-G ATTAATA
1 ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG A-TAATG
*
56988689 ATCACATC ATAATG ATAAT
1 AT-A-ATG ATAATG ATAAT
56988708 AAAATAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 5 0.10
6 36 0.75
7 3 0.06
8 4 0.08
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.35
Consensus pattern (6 bp):
ATAATG
Found at i:56988664 original size:17 final size:18
Alignment explanation
Indices: 56988639--56988707 Score: 70
Period size: 17 Copynumber: 3.8 Consensus size: 18
56988629 AAGGAGTACT
56988639 ATAATAATGATAATG-TA
1 ATAATAATGATAATGATA
*
56988656 ATTATAATGATAATGATA
1 ATAATAATGATAATGATA
*
56988674 ATAATAA-GATTAATAATCA
1 ATAATAATGA-TAATGAT-A
*
56988693 CATCATAATGATAAT
1 -ATAATAATGATAAT
56988708 AAAATAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
17 16 0.37
18 14 0.33
19 1 0.02
20 10 0.23
21 2 0.05
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (18 bp):
ATAATAATGATAATGATA
Found at i:56988811 original size:20 final size:20
Alignment explanation
Indices: 56988786--56988828 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
56988776 AAAGTGCTAA
56988786 AAAATAATAAA-AGCAATAAT
1 AAAATAATAAAGA-CAATAAT
*
56988806 AAAATAATAATGACAATAAT
1 AAAATAATAAAGACAATAAT
56988826 AAA
1 AAA
56988829 TGAACAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAATAATAAAGACAATAAT
Found at i:56991202 original size:41 final size:41
Alignment explanation
Indices: 56991157--56991241 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
56991147 TAATTTACGA
56991157 TATTATCTATGTTTATTGATTGTCGTAATATAATATTTAAC
1 TATTATCTATGTTTATTGATTGTCGTAATATAATATTTAAC
56991198 TATTATCTATGTTTATTGATTGTCGTAATATAATATTTAAC
1 TATTATCTATGTTTATTGATTGTCGTAATATAATATTTAAC
56991239 TAT
1 TAT
56991242 CACTATTTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.52
Consensus pattern (41 bp):
TATTATCTATGTTTATTGATTGTCGTAATATAATATTTAAC
Found at i:56996480 original size:13 final size:14
Alignment explanation
Indices: 56996422--56996481 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
56996412 ATACATAAAC
56996422 AAATAGTAATAATAA
1 AAATAGTAA-AATAA
*
56996437 TAGATA-TAATAATAA
1 -AAATAGTAA-AATAA
* *
56996452 ATATAGTAAAAGAA
1 AAATAGTAAAATAA
56996466 AAATAG-AAAATAA
1 AAATAGTAAAATAA
56996479 AAA
1 AAA
56996482 AACAAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
13 9 0.24
14 13 0.34
15 12 0.32
16 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.23
Consensus pattern (14 bp):
AAATAGTAAAATAA
Found at i:56996513 original size:18 final size:18
Alignment explanation
Indices: 56996492--56996526 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
56996482 AACAAAAAAA
56996492 TATAAATATAAATAAATG
1 TATAAATATAAATAAATG
56996510 TATAAATATAAATAAAT
1 TATAAATATAAATAAAT
56996527 AAATACAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
TATAAATATAAATAAATG
Found at i:56997952 original size:44 final size:44
Alignment explanation
Indices: 56997829--56997952 Score: 151
Period size: 44 Copynumber: 2.8 Consensus size: 44
56997819 GAATCAGTGC
* * **
56997829 TTCAATCTACTCTACTGCAACTTCAGAGAGATGAGATTTGTAAT
1 TTCAACCTACTCTACTGCAACTTCAGAGAGATAAGGCTTGTAAT
* *
56997873 TTCAACCTACT-TCACTGCAACTTCAGGGAGATAAGGCTTGTAGT
1 TTCAACCTACTCT-ACTGCAACTTCAGAGAGATAAGGCTTGTAAT
* * *
56997917 TTCAACTTGCTCTACTGCAACTTCAAAGAGATAAGG
1 TTCAACCTACTCTACTGCAACTTCAGAGAGATAAGG
56997953 TTTGATATGA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.01
44 66 0.97
45 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (44 bp):
TTCAACCTACTCTACTGCAACTTCAGAGAGATAAGGCTTGTAAT
Found at i:56997986 original size:129 final size:136
Alignment explanation
Indices: 56997838--56998089 Score: 313
Period size: 137 Copynumber: 1.9 Consensus size: 136
56997828 CTTCAATCTA
* * *
56997838 CTCTACTGCAACTTCAGAGAGATGAGATTTGTAATTTCA-A-C-CT-A-C-TT-CACTGCAACTT
1 CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTT-ATAGCTCTAATCGTTCCACTGCAACTT
* * * * *
56997896 CAGGGAGATAAGGCTT-GTAGTTTCAACTTGCTCTACTGCAACTTCAAAGAGATAAGGTTTGATA
65 CAGGGAAATAAGACTTGGTAATTTCAACCTGCTCCACTGCAACTTCAAAGAGATAAGGTTTGATA
56997960 TGATTTG
130 TGATTTG
* * *
56997967 CTCTACTACAACTTTAGAGAGATAAGATCTGTAATTTATAGCTTTAATCTGTTCCACTGCAGCTT
1 CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAGCTCTAATC-GTTCCACTGCAACTT
* *
56998032 CAGGGAAATAAGATTTGGTAATTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGG
65 CAGGGAAATAAGACTTGGTAATTTCAACCTGCTCCACTGCAACTTCAAAGAGATAAGG
56998090 ATTGTGGCTT
Statistics
Matches: 101, Mismatches: 13, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
128 1 0.01
129 34 0.34
130 1 0.01
131 1 0.01
132 1 0.01
133 1 0.01
135 2 0.02
136 23 0.23
137 37 0.37
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (136 bp):
CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAGCTCTAATCGTTCCACTGCAACTTC
AGGGAAATAAGACTTGGTAATTTCAACCTGCTCCACTGCAACTTCAAAGAGATAAGGTTTGATAT
GATTTG
Found at i:56998123 original size:44 final size:44
Alignment explanation
Indices: 56998013--56998149 Score: 114
Period size: 44 Copynumber: 3.1 Consensus size: 44
56998003 TATAGCTTTA
* * * * * ** *
56998013 ATCTGTTCCACTGCAGCTTCAGGGAAATAAGATTTGGTAATTTCA
1 ATCTGCTCCAATGCAACTTCAAGGAAAAAAGATTT-GTAGCTTCG
* * * * *
56998058 ACCTGCTCCACTGCAACTTCAAGGAGATAAGGA-TTGTGGCTTCG
1 ATCTGCTCCAATGCAACTTCAAGGA-AAAAAGATTTGTAGCTTCG
* *
56998102 ATCTGCTCCAATGTAATTTCAAGGAAAAAAGATTTGTAGCTTCG
1 ATCTGCTCCAATGCAACTTCAAGGAAAAAAGATTTGTAGCTTCG
56998146 ATCT
1 ATCT
56998150 ACTTTGCTGA
Statistics
Matches: 72, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
43 5 0.07
44 40 0.56
45 23 0.32
46 4 0.06
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCAATGCAACTTCAAGGAAAAAAGATTTGTAGCTTCG
Done.