Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold160
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: 5021213
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 92036 characters in sequence are not A, C, G, or T
File 15 of 30
Found at i:2353520 original size:28 final size:29
Alignment explanation
Indices: 2353228--2353509 Score: 242
Period size: 28 Copynumber: 9.7 Consensus size: 29
2353218 CACCAACTTG
* *
2353228 TGTGGGCTTTTAAAAGGGTTGTCA-TTGACT
1 TGTGGGC-TTTAAAAGGG-TGCCACTAGACT
* *
2353258 TATGTGGCTTTAAAAAGGGTTGCCA-TCGACT
1 TGTG-GGCTTT-AAAAGGG-TGCCACTAGACT
2353289 TGTGGGCTTTAAAAGGGGATGCCACTA-ACT
1 TGTGGGCTTTAAAA-GGG-TGCCACTAGACT
* *
2353319 TGTGGGCTTTGACAAGGGTGCCATTA-ACT
1 TGTGGGCTTT-AAAAGGGTGCCACTAGACT
*
2353348 TATGGGCTTTAAAAGGGTTGCCACT-GACT
1 TGTGGGCTTTAAAAGGG-TGCCACTAGACT
** * *
2353377 TGTGGGCTTGGAAAGGGTGCCAAT-TACT
1 TGTGGGCTTTAAAAGGGTGCCACTAGACT
* * *
2353405 TGTGGGCTTTGACAA-GATGCCA-TTGACT
1 TGTGGGCTTT-AAAAGGGTGCCACTAGACT
* *
2353433 TGTGGGCTTTAAGGAGGATGCCACTA-ACT
1 TGTGGGCTTTAA-AAGGGTGCCACTAGACT
*
2353462 TGTGGGCTTTGAAAGGGTGCCACT-GACT
1 TGTGGGCTTTAAAAGGGTGCCACTAGACT
2353490 TGTGGGCTTTAAAAGGGTGC
1 TGTGGGCTTTAAAAGGGTGC
2353510 TATAGAGTTG
Statistics
Matches: 211, Mismatches: 28, Indels: 28
0.79 0.10 0.10
Matches are distributed among these distances:
27 2 0.01
28 76 0.36
29 69 0.33
30 37 0.18
31 27 0.13
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (29 bp):
TGTGGGCTTTAAAAGGGTGCCACTAGACT
Found at i:2353600 original size:31 final size:29
Alignment explanation
Indices: 2353559--2353921 Score: 259
Period size: 31 Copynumber: 12.1 Consensus size: 29
2353549 TGTAGACTTT
*
2353559 AAAAGGGTGCCATGGAGTTATGGACTTAAA
1 AAAAGGGTGCCACGGAGTTATGGACTT-AA
* *
2353589 AAAAGGGGTGCCACGGGGTTGTGGACTTAAA
1 AAAA-GGGTGCCACGGAGTTATGGACTT-AA
* * *
2353620 AAAGAGGGTGCCACAGAGTTTTGGACTT-T
1 AAA-AGGGTGCCACGGAGTTATGGACTTAA
* * *
2353649 AAAAGGTTGCCATGGAGTTATGGAATTAAAAA
1 AAAAGGGTGCCACGGAGTTATGGACTT---AA
* ** * *
2353681 AAAAAGGTATCACGAAGTTGTGGACTTTAA
1 AAAAGGGTGCCACGGAGTTATGGAC-TTAA
* * *
2353711 AAGTGAGGGTGCCACGAAGTTATGGAACTT-T
1 AA--AAGGGTGCCACGGAGTTATGG-ACTTAA
2353742 AAAAGGGTGCCACGGAGTTATGGACTTAAAA
1 AAAAGGGTGCCACGGAGTTATGGACTT--AA
* * *
2353773 AAATAGGGTGCCATGAAGTTATGGACTT-T
1 AAA-AGGGTGCCACGGAGTTATGGACTTAA
** *
2353802 AAAAGGGTGCCGTGGAGTTGTGGACTT-A
1 AAAAGGGTGCCACGGAGTTATGGACTTAA
* *
2353830 AAATGAGGTGCCACGGAGTTGTGGACTTAAA
1 AAAAG-GGTGCCACGGAGTTATGGACTT-AA
* * *
2353861 AAAGAGGGTGTCACAGAGTTATGGACTT-T
1 AAA-AGGGTGCCACGGAGTTATGGACTTAA
* * *
2353890 AAAAGGGTGCCACAGAGTTGTGGACTTTA
1 AAAAGGGTGCCACGGAGTTATGGACTTAA
2353919 AAA
1 AAA
2353922 GAAAAGGTGC
Statistics
Matches: 266, Mismatches: 48, Indels: 39
0.75 0.14 0.11
Matches are distributed among these distances:
28 70 0.26
29 51 0.19
30 8 0.03
31 74 0.28
32 59 0.22
33 4 0.02
ACGTcount: A:0.34, C:0.11, G:0.31, T:0.25
Consensus pattern (29 bp):
AAAAGGGTGCCACGGAGTTATGGACTTAA
Found at i:2353610 original size:90 final size:89
Alignment explanation
Indices: 2353515--2353893 Score: 336
Period size: 90 Copynumber: 4.2 Consensus size: 89
2353505 GGTGCTATAG
* * *
2353515 AGTTGTAGACTTAAAAAAGAGGGCGTCGTGAAGTTGTAGACTTTAAAAGGGTGCCATGGAGTTAT
1 AGTTGTGGACTTAAAAAAGAGGGCG-CGTGAAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTAT
* *
2353580 GGACTTAAAAAAAGGGGTGCCACGG
65 GGACTTAAAAAAAAGGGTGCCACGA
* * *** * * *
2353605 GGTTGTGGACTTAAAAAAGAGGGTGCCACAGAGTTTTGGACTTTAAAAGGTTGCCATGGAGTTAT
1 AGTTGTGGACTTAAAAAAGAGGGCGCGTGA-AGTTGTGGACTTTAAAAGGGTGCCACGGAGTTAT
* * **
2353670 GGAATTAAAAAAAAAAGGTATCACGA
65 GGACTT-AAAAAAAAGGGTGCCACGA
** * ** *
2353696 AGTTGTGGACTTTAAAAGTGAGGGTGCCACGAAGTTATGGAACTTTAAAAGGGTGCCACGGAGTT
1 AGTTGTGGAC-TTAAAAAAGAGGGCG-CGTGAAGTTGTGG-ACTTTAAAAGGGTGCCACGGAGTT
*
2353761 ATGGACTTAAAAAAATAGGGTGCCATGA
63 ATGGACTTAAAAAAA-AGGGTGCCACGA
* * *
2353789 AGTTATGGACTT-TAAAAG-GGTGC-CGTGGAGTTGTGGAC-TTAAAATGAGGTGCCACGGAGTT
1 AGTTGTGGACTTAAAAAAGAGG-GCGCGTGAAGTTGTGGACTTTAAAA-G-GGTGCCACGGAGTT
* * *
2353850 GTGGACTTAAAAAAGAGGGTGTCAC-A
63 ATGGACTTAAAAAAAAGGGTGCCACGA
* *
2353876 GAGTTATGGACTTTAAAA
1 -AGTTGTGGACTTAAAAA
2353894 GGGTGCCACA
Statistics
Matches: 235, Mismatches: 43, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
87 7 0.03
88 23 0.10
89 41 0.17
90 60 0.26
91 27 0.11
92 29 0.12
93 48 0.20
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (89 bp):
AGTTGTGGACTTAAAAAAGAGGGCGCGTGAAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTATG
GACTTAAAAAAAAGGGTGCCACGA
Found at i:2353651 original size:32 final size:31
Alignment explanation
Indices: 2353559--2354309 Score: 348
Period size: 32 Copynumber: 24.4 Consensus size: 31
2353549 TGTAGACTTT
** *
2353559 AAAAGGGTGCCATGGAGTTATGGAC-TTAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTTAAA
* *
2353589 AAAAGGGGTGCCACGGGGTTGTGGAC-TTAAA
1 AAAA-GGGTGCCACAGAGTTGTGGACTTTAAA
*
2353620 AAAGAGGGTGCCACAGAGTTTTGGACTTT---
1 AAA-AGGGTGCCACAGAGTTGTGGACTTTAAA
* ** * * *
2353649 AAAAGGTTGCCATGGAGTTATGGAATTAAAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTT-TAAA
* **
2353681 AAAAAGGTATCAC-GAAGTTGTGGACTTTAAA
1 AAAAGGGTGCCACAG-AGTTGTGGACTTTAAA
** *
2353712 AGTGAGGGTGCCAC-GAAGTTATGGAACTTT---
1 A-AAAGGGTGCCACAG-AGTTGTGG-ACTTTAAA
* * *
2353742 AAAAGGGTGCCACGGAGTTATGGACTTAAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTTAAA
* *
2353773 AAATAGGGTGCCA-TGAAGTTATGGACTTT---
1 AAA-AGGGTGCCACAG-AGTTGTGGACTTTAAA
***
2353802 AAAAGGGTGCCGTGGAGTTGTGGAC-TTAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTTAAA
** *
2353832 ATGA-GGTGCCACGGAGTTGTGGAC-TTAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTTAAA
* *
2353861 AAAGAGGGTGTCACAGAGTTATGGACTTT---
1 AAA-AGGGTGCCACAGAGTTGTGGACTTTAAA
2353890 AAAAGGGTGCCACAGAGTTGTGGACTTTAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTTAAA
* * *
2353921 AGAAAAGGTGCCA-TGAACTTGTGGACTTTAAGA
1 A-AAAGGGTGCCACAG-AGTTGTGGACTTTAA-A
* *
2353954 AAAAAGGTG-CA-AGGAGTTGTAGACTTT---
1 AAAAGGGTGCCACA-GAGTTGTGGACTTTAAA
*
2353981 AAAAGGGTTACCAC-GAAGTTGTGGACTTTAAGAA
1 AAAAGGG-TGCCACAG-AGTTGTGGACTTT-A-AA
* * *
2354015 AAAAAGGTGCCAC-GAAATTATGGACTTTAAGA
1 AAAAGGGTGCCACAG-AGTTGTGGACTTTAA-A
** * *
2354047 AAAAATGTGTCACAGAGTTGTGTACTTTAAGA
1 AAAAGGGTGCCACAGAGTTGTGGACTTTAA-A
* *
2354079 AAAAAGGTGCCATAGAGTTGTGGACTTTGATAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTT-A-AA
* ** * *
2354112 AAAAGGCTGCCATGGAGTTGTGCACTTT-AG
1 AAAAGGGTGCCACAGAGTTGTGGACTTTAAA
* * * *
2354142 AAAGGGAGTGCCATAGAGTTGTAGACTTTGAAG
1 AAAAGG-GTGCCACAGAGTTGTGGACTTT-AAA
* * *
2354175 AAAAGGGTGCCACTA-AGTCGTGGACTTTGAG
1 AAAAGGGTGCCAC-AGAGTTGTGGACTTTAAA
* * * * * *
2354206 AAGA-GATGCTACTGTGTCGTGGACTTT-AA
1 AAAAGGGTGCCACAGAGTTGTGGACTTTAAA
* * * **
2354235 AGAAGAGATGCCACTA-AGTCGTGGA-TTTTTA
1 AAAAG-GGTGCCAC-AGAGTTGTGGACTTTAAA
* * *
2354266 GAAAGGATGCCACTGAGTTGTGGACTTT-AA
1 AAAAGGGTGCCACAGAGTTGTGGACTTTAAA
2354296 AAAAGGGATGCCAC
1 AAAAGGG-TGCCAC
2354310 TTAGTCATGG
Statistics
Matches: 565, Mismatches: 101, Indels: 109
0.73 0.13 0.14
Matches are distributed among these distances:
27 8 0.01
28 65 0.12
29 69 0.12
30 58 0.10
31 137 0.24
32 161 0.28
33 60 0.11
34 7 0.01
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (31 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTTAAA
Found at i:2353666 original size:28 final size:28
Alignment explanation
Indices: 2353553--2353922 Score: 256
Period size: 28 Copynumber: 12.4 Consensus size: 28
2353543 TGAAGTTGTA
*
2353553 GACTTTAAAAGGGTGCCATGGAGTTATG
1 GACTTTAAAAGGGTGCCACGGAGTTATG
* * *
2353581 GACTTAAAAAAAGGGGTGCCACGGGGTTGTG
1 GACTT--TAAAA-GGGTGCCACGGAGTTATG
* * *
2353612 GACTTAAAAAAGAGGGTGCCACAGAGTTTTG
1 GACTT--TAAA-AGGGTGCCACGGAGTTATG
* *
2353643 GACTTTAAAAGGTTGCCATGGAGTTATG
1 GACTTTAAAAGGGTGCCACGGAGTTATG
* * * ** * *
2353671 GAATTAAAAAAAAAAGGTATCACGAAGTTGTG
1 GACTT----TAAAAGGGTGCCACGGAGTTATG
*
2353703 GACTTTAAAAGTGAGGGTGCCACGAAGTTATG
1 GACTTT-AAA---AGGGTGCCACGGAGTTATG
2353735 GAACTTTAAAAGGGTGCCACGGAGTTATG
1 G-ACTTTAAAAGGGTGCCACGGAGTTATG
* * *
2353764 GACTTAAAAAAATAGGGTGCCATGAAGTTATG
1 GACTT---TAAA-AGGGTGCCACGGAGTTATG
** *
2353796 GACTTTAAAAGGGTGCCGTGGAGTTGTG
1 GACTTTAAAAGGGTGCCACGGAGTTATG
*
2353824 GAC-TTAAAATGAGGTGCCACGGAGTTGTG
1 GACTTTAAAA-G-GGTGCCACGGAGTTATG
* * *
2353853 GACTTAAAAAAGAGGGTGTCACAGAGTTATG
1 GACTT--TAAA-AGGGTGCCACGGAGTTATG
* *
2353884 GACTTTAAAAGGGTGCCACAGAGTTGTG
1 GACTTTAAAAGGGTGCCACGGAGTTATG
2353912 GACTTTAAAAG
1 GACTTTAAAAG
2353923 AAAAGGTGCC
Statistics
Matches: 275, Mismatches: 44, Indels: 46
0.75 0.12 0.13
Matches are distributed among these distances:
27 6 0.02
28 76 0.28
29 49 0.18
30 5 0.02
31 68 0.25
32 65 0.24
33 6 0.02
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (28 bp):
GACTTTAAAAGGGTGCCACGGAGTTATG
Found at i:2353869 original size:60 final size:59
Alignment explanation
Indices: 2353559--2353933 Score: 264
Period size: 60 Copynumber: 6.2 Consensus size: 59
2353549 TGTAGACTTT
* * * * *
2353559 AAAAGGGTGCCATGGAGTTATGGACTTAAAAAAAGGGGTGCCACGGGGTTGTGGACTTAAA
1 AAAAGGGTGCCACGGAGTTATGGACTT--AAAATGAGGTGCCACGGAGTTATGGACTTAAA
* * * * *
2353620 AAAGAGGGTGCCACAGAGTTTTGGACTTTAAAA-G-GTTGCCATGGAGTTATGGAATTAAAAA
1 AAA-AGGGTGCCACGGAGTTATGGAC-TTAAAATGAGGTGCCACGGAGTTATGGACTT--AAA
* ** * * * *
2353681 AAAAAGGTATCACGAAGTTGTGGACTTTAAAAGTGAGGGTGCCACGAAGTTATGGAACTT--T
1 AAAAGGGTGCCACGGAGTTATGGAC-TTAAAA-TGA-GGTGCCACGGAGTTATGG-ACTTAAA
* * *
2353742 AAAAGGGTGCCACGGAGTTATGGACTTAAAAAAAT-AGGGTGCCATGAAGTTATGGACTT--T
1 AAAAGGGTGCCACGGAGTTATGGACTT---AAAATGA-GGTGCCACGGAGTTATGGACTTAAA
** * *
2353802 AAAAGGGTGCCGTGGAGTTGTGGACTTAAAATGAGGTGCCACGGAGTTGTGGACTTAAA
1 AAAAGGGTGCCACGGAGTTATGGACTTAAAATGAGGTGCCACGGAGTTATGGACTTAAA
* * * *
2353861 AAAGAGGGTGTCACAGAGTTATGGACTTTAAAA-G-GGTGCCACAGAGTTGTGGACTTTAAA
1 AAA-AGGGTGCCACGGAGTTATGGAC-TTAAAATGAGGTGCCACGGAGTTATGGAC-TTAAA
*
2353921 AGAAAAGGTGCCA
1 A-AAAGGGTGCCA
2353934 TGAACTTGTG
Statistics
Matches: 255, Mismatches: 40, Indels: 39
0.76 0.12 0.12
Matches are distributed among these distances:
57 24 0.09
58 1 0.00
59 39 0.15
60 86 0.34
61 60 0.24
62 21 0.08
63 6 0.02
64 15 0.06
65 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.31, T:0.24
Consensus pattern (59 bp):
AAAAGGGTGCCACGGAGTTATGGACTTAAAATGAGGTGCCACGGAGTTATGGACTTAAA
Found at i:2353929 original size:241 final size:239
Alignment explanation
Indices: 2353496--2354044 Score: 643
Period size: 241 Copynumber: 2.3 Consensus size: 239
2353486 GACTTGTGGG
* ** * * * * * * *
2353496 CTTTAAAAGGGTGCTATAGAGTTGTAGACTTAAAAAAGAGGGCGTCGTGAAGTTGTAGACTTTAA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAAAAGGGTGCCATGAAGTTATGGACTTTAA
* *
2353561 AAGGGTGCCATGGAGTTATGGACTTAAAAAAAGGGGTGCCACGGGGTTGTGGACTTAAAAAAGAG
66 AAGGGTGCCATGGAGTTATGGACTT-AAAAAAGAGGTGCCACGGAGTTGTGGACTTAAAAAAGAG
* * ** *
2353626 GGTGCCACAGAGTTTTGGACTTTAAAAGGTTGCCATGGAGTTATGGAATTAAAAAAAAAAGGTAT
130 GGTGCCACAGAGTTATGGACTTTAAAAGGGTGCCACAGAGTTATGGAATTAAAAAAAAAAGGTAC
* ** * * *
2353691 CACGAAGTTGTGGACTTTAA-AAGTGAGGGTGCCACGAAGTTATGGAA
195 CACGAACTTGTGGACTTTAAGAA-AAAAGGTG-CAAGAAGTTATAG-A
*
2353738 CTTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAAAATAGGGTGCCATGAAGTTATGGACTTTA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAAA-AGGGTGCCATGAAGTTATGGACTTTA
* * *
2353803 AAAGGGTGCCGTGGAGTTGTGGACTT-AAAATGAGGTGCCACGGAGTTGTGGACTTAAAAAAGAG
65 AAAGGGTGCCATGGAGTTATGGACTTAAAAAAGAGGTGCCACGGAGTTGTGGACTTAAAAAAGAG
* * * * * *
2353867 GGTGTCACAGAGTTATGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGAAAAGGTGC
130 GGTGCCACAGAGTTATGGACTTTAAAAGGGTGCCACAGAGTTATGGAATTAAAAAAAAAAGGTAC
* * *
2353932 CATGAACTTGTGGACTTTAAGAAAAAAGGTGCAAGGAGTTGTAGA
195 CACGAACTTGTGGACTTTAAGAAAAAAGGTGCAAGAAGTTATAGA
* * * * *
2353977 CTTTAAAAGGGTTACCACGAAGTTGTGGACTTTAAGAAAAAAAGGTGCCACGAAATTATGGACTT
1 CTTTAAAAGGG-TGCCACGGAGTTGTGGAC-TTAA-AAAAAAGGGTGCCATGAAGTTATGGACTT
2354042 TAA
63 TAA
2354045 GAAAAAATGT
Statistics
Matches: 260, Mismatches: 42, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
239 12 0.05
240 24 0.09
241 140 0.54
242 39 0.15
243 45 0.17
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.25
Consensus pattern (239 bp):
CTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAAAAGGGTGCCATGAAGTTATGGACTTTAA
AAGGGTGCCATGGAGTTATGGACTTAAAAAAGAGGTGCCACGGAGTTGTGGACTTAAAAAAGAGG
GTGCCACAGAGTTATGGACTTTAAAAGGGTGCCACAGAGTTATGGAATTAAAAAAAAAAGGTACC
ACGAACTTGTGGACTTTAAGAAAAAAGGTGCAAGAAGTTATAGA
Found at i:2354007 original size:29 final size:28
Alignment explanation
Indices: 2353260--2354011 Score: 243
Period size: 28 Copynumber: 25.4 Consensus size: 28
2353250 CATTGACTTA
*
2353260 TGTGG-CTTTAAAAAGGGTTGCCATCG-ACT
1 TGTGGACTTT-AAAAGGG-TGCCA-CGAAGT
* * *
2353289 TGTGGGCTTTAAAAGGGGATGCCACTAACT
1 TGTGGACTTTAAAA-GGG-TGCCACGAAGT
* * ** *
2353319 TGTGGGCTTTGACAAGGGTGCCATTAACT
1 TGTGGACTTT-AAAAGGGTGCCACGAAGT
* * *
2353348 TATGGGCTTTAAAAGGGTTGCCACTG-ACT
1 TGTGGACTTTAAAAGGG-TGCCAC-GAAGT
* ** *** *
2353377 TGTGGGCTTGGAAAGGGTGCCAATTACT
1 TGTGGACTTTAAAAGGGTGCCACGAAGT
* * * * *
2353405 TGTGGGCTTTGACAA-GATGCCATTG-ACT
1 TGTGGACTTT-AAAAGGGTGCCA-CGAAGT
* * * * *
2353433 TGTGGGCTTTAAGGAGGATGCCACTAACT
1 TGTGGACTTTAA-AAGGGTGCCACGAAGT
* * *
2353462 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
1 TGTGGACTTTAAAAGGGTGCCAC-GAAGT
* * *
2353490 TGTGGGCTTTAAAAGGGTGCTA-TAGAGT
1 TGTGGACTTTAAAAGGGTGCCACGA-AGT
* * **
2353518 TGTAGACTTAAAAAAGAGG-GCGTCGTGAAGT
1 TGTGGACTT-TAAAAG-GGTGC--CACGAAGT
* * *
2353549 TGTAGACTTTAAAAGGGTGCCATGGAGT
1 TGTGGACTTTAAAAGGGTGCCACGAAGT
* * **
2353577 TATGGACTTAAAAAAAGGGGTGCCACGGGGT
1 TGTGGACTT--TAAAA-GGGTGCCACGAAGT
*
2353608 TGTGGACTTAAAAAAGAGGGTGCCAC-AGAGT
1 TGTGGACTT--TAAA-AGGGTGCCACGA-AGT
* * * *
2353639 TTTGGACTTTAAAAGGTTGCCATGGAGT
1 TGTGGACTTTAAAAGGGTGCCACGAAGT
* * * * **
2353667 TATGGAATTAAAAAAAAAAGGTATCACGAAGT
1 TGTGGACTT----TAAAAGGGTGCCACGAAGT
2353699 TGTGGACTTTAAAAGTGAGGGTGCCACGAAGT
1 TGTGGACTTT-AAA---AGGGTGCCACGAAGT
* *
2353731 TATGGAACTTTAAAAGGGTGCCACGGAGT
1 TGTGG-ACTTTAAAAGGGTGCCACGAAGT
* * *
2353760 TATGGACTTAAAAAAATAGGGTGCCATGAAGT
1 TGTGGACTT---TAAA-AGGGTGCCACGAAGT
* ** *
2353792 TATGGACTTTAAAAGGGTGCCGTGGAGT
1 TGTGGACTTTAAAAGGGTGCCACGAAGT
*
2353820 TGTGGAC-TTAAAATGAGGTGCCACGGAGT
1 TGTGGACTTTAAAA-G-GGTGCCACGAAGT
* *
2353849 TGTGGACTTAAAAAAGAGGGTGTCAC-AGAGT
1 TGTGGACTT--TAAA-AGGGTGCCACGA-AGT
*
2353880 TATGGACTTTAAAAGGGTGCCAC-AGAGT
1 TGTGGACTTTAAAAGGGTGCCACGA-AGT
* *
2353908 TGTGGACTTTAAAAGAAAAGGTGCCATGAACT
1 TGTGGACTTTAAAAG----GGTGCCACGAAGT
* * *
2353940 TGTGGACTTTAAGAAAAAAGGTG-CAAGGAGT
1 TGTGGACTTT----AAAAGGGTGCCACGAAGT
* *
2353971 TGTAGACTTTAAAAGGGTTACCACGAAGT
1 TGTGGACTTTAAAAGGG-TGCCACGAAGT
2354000 TGTGGACTTTAA
1 TGTGGACTTTAA
2354012 GAAAAAAAGG
Statistics
Matches: 567, Mismatches: 98, Indels: 116
0.73 0.13 0.15
Matches are distributed among these distances:
27 13 0.02
28 168 0.30
29 149 0.26
30 42 0.07
31 95 0.17
32 89 0.16
33 7 0.01
36 4 0.01
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (28 bp):
TGTGGACTTTAAAAGGGTGCCACGAAGT
Found at i:2354042 original size:93 final size:91
Alignment explanation
Indices: 2353796--2354123 Score: 285
Period size: 91 Copynumber: 3.5 Consensus size: 91
2353786 TGAAGTTATG
* *** ** * * *
2353796 GACTTTAAAAGGGTGCCGTGGAGTTGTGGAC-TT--AAAATGAGGTGCCACGGAGTTGTGGAC-T
1 GACTTTAAAAGGGTACCACAGAGTTGTGGACTTTAAAAAAAAAGGTGCCACGAAATTATGGACTT
* *
2353857 TAA-AAAAGAGGGTGTCACAGAGTTAT
66 TAAGAAAA-AAGGTGTCACAGAGTTGT
* * * * *
2353883 GGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGAAAAGGTGCCATGAACTTGTGGACT
1 -GACTTTAAAAGGGTACCACAGAGTTGTGGACTTTAAAAAAAAAGGTGCCACGAAATTATGGACT
2353948 TTAAGAAAAAAGGTG-CA-AGGAGTTGT
65 TTAAGAAAAAAGGTGTCACA-GAGTTGT
2353974 AGACTTTAAAAGGGTTACCAC-GAAGTTGTGGACTTTAAGAAAAAAAGGTGCCACGAAATTATGG
1 -GACTTTAAAAGGG-TACCACAG-AGTTGTGGACTTTAA-AAAAAAAGGTGCCACGAAATTATGG
*
2354038 ACTTTAAGAAAAAATGTGTCACAGAGTTGT
62 ACTTTAAGAAAAAAGGTGTCACAGAGTTGT
* * * * *
2354068 GTACTTTAAGAAAAAAGGTGCCATAGAGTTGTGGACTTTGATAAAAAAGGCTGCCA
1 G-ACTTT----AAAAGGGTACCACAGAGTTGTGGACTTTAAAAAAAAAGG-TGCCA
2354124 TGGAGTTGTG
Statistics
Matches: 199, Mismatches: 23, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
88 28 0.14
89 2 0.01
90 1 0.01
91 43 0.22
92 29 0.15
93 43 0.22
94 14 0.07
95 1 0.01
96 8 0.04
97 23 0.12
98 7 0.04
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (91 bp):
GACTTTAAAAGGGTACCACAGAGTTGTGGACTTTAAAAAAAAAGGTGCCACGAAATTATGGACTT
TAAGAAAAAAGGTGTCACAGAGTTGT
Found at i:2354106 original size:64 final size:62
Alignment explanation
Indices: 2353606--2354207 Score: 253
Period size: 60 Copynumber: 9.8 Consensus size: 62
2353596 GTGCCACGGG
* * *
2353606 GTTGTGGAC-TTAAAAAAGAGGGTGCCACAGAGTTTTGGACTTT-----AAAAGGTTGCCATGGA
1 GTTGTGGACTTTAAAAAA-AAGGTGCCACAGAGTTGTGGACTTTAAGAAAAAAGG-TGCCA-AGA
* * * ** ** * *
2353665 GTTATGGAATTAAAAAAAAAAGGTATCAC-GAAGTTGTGGACTTTAA-AAGTGAGGGTGCCACGA
1 GTTGTGGACTT-TAAAAAAAAGGTGCCACAG-AGTTGTGGACTTTAAGAA-AAAAGGTGCCAAG-
2353728 A
62 A
* * * * *
2353729 GTTATGGAACTTT---AAAAGGGTGCCACGGAGTTATGGAC-TTAA-AAAAATAGGGTGCCATGA
1 GTTGTGG-ACTTTAAAAAAAAGGTGCCACAGAGTTGTGGACTTTAAGAAAAA-A-GGTGCCAAG-
2353789 A
62 A
* * *** ** *
2353790 GTTATGGACTTT---AAAAGGGTGCCGTGGAGTTGTGGAC-TT-A-AAATGAGGTGCCACGGA
1 GTTGTGGACTTTAAAAAAAAGGTGCCACAGAGTTGTGGACTTTAAGAAAAAAGGTGCCA-AGA
* * * *
2353847 GTTGTGGAC-TTAAAAAAGAGGGTGTCACAGAGTTATGGACTTT----AAAAGGGTGCCACAGA
1 GTTGTGGACTTTAAAAAA-AAGGTGCCACAGAGTTGTGGACTTTAAGAAAAAAGGTGCCA-AGA
* *
2353906 GTTGTGGACTTTAAAAGAAAAGGTGCCA-TGAACTTGTGGACTTTAAGAAAAAAGGTG-CAAGGA
1 GTTGTGGACTTTAAAA-AAAAGGTGCCACAG-AGTTGTGGACTTTAAGAAAAAAGGTGCCAA-GA
* * * *
2353969 GTTGTAGACTTT---AAAAGGGTTACCAC-GAAGTTGTGGACTTTAAGAAAAAAAGGTGCCACGA
1 GTTGTGGACTTTAAAAAAAAGG-TGCCACAG-AGTTGTGGACTTTAAG-AAAAAAGGTGCCAAG-
2354030 A
62 A
* * * * *
2354031 ATTATGGACTTTAAGAAAAAATGTGTCACAGAGTTGTGTACTTTAAGAAAAAAGGTGCCATAGA
1 GTTGTGGACTTTAA-AAAAAAGGTGCCACAGAGTTGTGGACTTTAAGAAAAAAGGTGCCA-AGA
* ** * **
2354095 GTTGTGGACTTTGATAAAAAAGGCTGCCATGGAGTTGTGCACTTT-AG-AAAGGGAGTGCCATAG
1 GTTGTGGACTTT-AAAAAAAAGG-TGCCACAGAGTTGTGGACTTTAAGAAAAAAG-GTGCCA-AG
2354158 A
62 A
* * * * *
2354159 GTTGTAGACTTTGAAGAAAAGGGTGCCACTA-AGTCGTGGACTTTGAGAA
1 GTTGTGGACTTT-AAAAAAAAGGTGCCAC-AGAGTTGTGGACTTTAAGAA
2354208 GAGATGCTAC
Statistics
Matches: 424, Mismatches: 75, Indels: 82
0.73 0.13 0.14
Matches are distributed among these distances:
56 2 0.00
57 16 0.04
58 2 0.00
59 43 0.10
60 118 0.28
61 57 0.13
62 14 0.03
63 36 0.08
64 85 0.20
65 45 0.11
66 6 0.01
ACGTcount: A:0.35, C:0.11, G:0.29, T:0.25
Consensus pattern (62 bp):
GTTGTGGACTTTAAAAAAAAGGTGCCACAGAGTTGTGGACTTTAAGAAAAAAGGTGCCAAGA
Found at i:2354227 original size:30 final size:30
Alignment explanation
Indices: 2354182--2354460 Score: 283
Period size: 30 Copynumber: 9.2 Consensus size: 30
2354172 AAGAAAAGGG
* *
2354182 TGCCACTAAGTCGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTTAGAAGAGA
* * *
2354212 TGCTACTGTGTCGTGGACTTTAAAGAAGAGA
1 TGCCACTGAGTCGTGGACTTT-TAGAAGAGA
* *
2354243 TGCCACTAAGTCGTGGATTTTTAGAA-AGGA
1 TGCCACTGAGTCGTGGACTTTTAGAAGA-GA
* * * *
2354273 TGCCACTGAGTTGTGGACTTTAAAAAAGGGA
1 TGCCACTGAGTCGTGGACTTT-TAGAAGAGA
* * *
2354304 TGCCACTTAGTCATGGACTTTTAGAAGGGA
1 TGCCACTGAGTCGTGGACTTTTAGAAGAGA
* * *
2354334 TGCCACTTAGTCATGGACTTTTAGAAGGGA
1 TGCCACTGAGTCGTGGACTTTTAGAAGAGA
*
2354364 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTTAGAAGAGA
** * *
2354394 TGCCACAAAGTCATAGACTTTTAGAAG-GAA
1 TGCCACTGAGTCGTGGACTTTTAGAAGAG-A
* * *
2354424 TGCCACTGTGTCATGGACTTTTAGAAGGGA
1 TGCCACTGAGTCGTGGACTTTTAGAAGAGA
2354454 TGCCACT
1 TGCCACT
2354461 AAGATGTCAA
Statistics
Matches: 210, Mismatches: 33, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
29 2 0.01
30 159 0.76
31 49 0.23
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTTAGAAGAGA
Found at i:2354289 original size:91 final size:90
Alignment explanation
Indices: 2354176--2354460 Score: 331
Period size: 91 Copynumber: 3.1 Consensus size: 90
2354166 ACTTTGAAGA
* * * *
2354176 AAAGGGTGCCACTAAGTCGTGGACTTTGAGAAGAGATGCTACTGT-GTCGTGGACTTTAAAGAAG
1 AAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACT-TAGTCATGGACTTT-AAGAAG
* *
2354240 AGATGCCACTAAGTCGTGGATTTTTAG
64 AGATGCCACTAAGTCATGGACTTTTAG
* * * * * *
2354267 AAAGGATGCCACTGAGTTGTGGACTTTAAAAAAGGGATGCCACTTAGTCATGGACTTTTAGAAGG
1 AAAGGATGCCACTGAGTCGTGGACTTT-GAGAAGAGATGCCACTTAGTCATGGACTTTAAGAAGA
*
2354332 GATGCCACTTAGTCATGGACTTTTAG
65 GATGCCACTAAGTCATGGACTTTTAG
* ** * *
2354358 AAGGGATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACAAAGTCATAGACTTTTAGAAG-G
1 AAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTTAGTCATGGACTTTAAGAAGAG
**
2354422 AATGCCACTGTGTCATGGACTTTTAG
66 -ATGCCACTAAGTCATGGACTTTTAG
*
2354448 AAGGGATGCCACT
1 AAAGGATGCCACT
2354461 AAGATGTCAA
Statistics
Matches: 168, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
89 1 0.01
90 66 0.39
91 78 0.46
92 23 0.14
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (90 bp):
AAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTTAGTCATGGACTTTAAGAAGAG
ATGCCACTAAGTCATGGACTTTTAG
Found at i:2355791 original size:10 final size:10
Alignment explanation
Indices: 2355776--2355818 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
2355766 TTTGCCTTTG
2355776 CTTTTTTTTT
1 CTTTTTTTTT
2355786 CTTTTTTTCTTT
1 C-TTTTTT-TTT
*
2355798 CTTTTTTCTT
1 CTTTTTTTTT
*
2355808 CATTTTTTTT
1 CTTTTTTTTT
2355818 C
1 C
2355819 GCTTTGTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 12 0.43
11 12 0.43
12 4 0.14
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:2355792 original size:12 final size:12
Alignment explanation
Indices: 2355777--2355816 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
2355767 TTGCCTTTGC
2355777 TTTTTT-TTTCT
1 TTTTTTCTTTCT
2355788 TTTTTTCTTTC-
1 TTTTTTCTTTCT
2355799 TTTTTTC-TTCAT
1 TTTTTTCTTTC-T
2355811 TTTTTT
1 TTTTTT
2355817 TCGCTTTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 3 0.12
11 13 0.50
12 10 0.38
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTCTTTCT
Found at i:2355815 original size:23 final size:23
Alignment explanation
Indices: 2355771--2355816 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
2355761 TTGATTTTGC
*
2355771 CTTTGCTTTTTTTTTCTTTTTTT
1 CTTTGCTTTTTTCTTCTTTTTTT
2355794 CTTT-CTTTTTTCTTCATTTTTTT
1 CTTTGCTTTTTTCTTC-TTTTTTT
2355817 TCGCTTTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (23 bp):
CTTTGCTTTTTTCTTCTTTTTTT
Found at i:2355823 original size:22 final size:22
Alignment explanation
Indices: 2355775--2355823 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
2355765 TTTTGCCTTT
* *
2355775 GCTTTTTTTTTCTTTTTTTCTT
1 GCTTTTTTCTTCTTTTTTTCTC
*
2355797 TCTTTTTTCTTCATTTTTTT-TC
1 GCTTTTTTCTTC-TTTTTTTCTC
2355819 GCTTT
1 GCTTT
2355824 GTGTTTCTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (22 bp):
GCTTTTTTCTTCTTTTTTTCTC
Found at i:2360852 original size:97 final size:96
Alignment explanation
Indices: 2360639--2360855 Score: 220
Period size: 97 Copynumber: 2.2 Consensus size: 96
2360629 ATTTTTAGTT
* * * * *
2360639 AAAAAACAGGGTTAGAATGTCCCTAACGATGATAATTTAGGCAAAAATAAGATTTAAATCATGAC
1 AAAAAATA-GGTTAGAGTATCCCTAACGATGACAATTTAAGCAAAAATAAGATTTAAATCATGAC
* *
2360704 AAGTTTAAAAATAGGGTTGAAGTATCCCCTCG
65 AAGTATAAAAACAGGGTTGAAGTATCCCCTCG
* * * * * * *
2360736 AAAAAATGGGATTAAAGTATCCCTGATGATGACAATTTAAGCAAAAATAATATTTATATCTTGAC
1 AAAAAATAGG-TTAGAGTATCCCTAACGATGACAATTTAAGCAAAAATAAGATTTAAATCATGAC
* * *
2360801 AAGTATAAAAACGGGGTT-AGAGTGTCCCCTTG
65 AAGTATAAAAACAGGGTTGA-AGTATCCCCTCG
* *
2360833 GAAGAATAAGGTTAGAGTATCCC
1 AAAAAAT-AGGTTAGAGTATCCC
2360856 CAATGAATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
96 3 0.03
97 91 0.95
98 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (96 bp):
AAAAAATAGGTTAGAGTATCCCTAACGATGACAATTTAAGCAAAAATAAGATTTAAATCATGACA
AGTATAAAAACAGGGTTGAAGTATCCCCTCG
Found at i:2363266 original size:52 final size:51
Alignment explanation
Indices: 2363203--2363341 Score: 192
Period size: 52 Copynumber: 2.7 Consensus size: 51
2363193 ATTTGCCTGC
2363203 ATGTATTGATACACTAAAGAATGTATCGATACATTTGGGTCAAAAAC-CTAGA
1 ATGTATTGATACACTAAAGAATGTATCGATACATTTGGGTC-AAAACTC-AGA
* * * *
2363255 ATGTATCGATACAATGAAGAATGTATTGATACATTTGGGTCAAAACTCAGA
1 ATGTATTGATACACTAAAGAATGTATCGATACATTTGGGTCAAAACTCAGA
*
2363306 ATGTATTGATACAAC-AAAAAATGTATCGATACATTT
1 ATGTATTGATAC-ACTAAAGAATGTATCGATACATTT
2363342 TCATTCTTAG
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
51 37 0.49
52 39 0.51
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (51 bp):
ATGTATTGATACACTAAAGAATGTATCGATACATTTGGGTCAAAACTCAGA
Found at i:2363329 original size:51 final size:52
Alignment explanation
Indices: 2363203--2363341 Score: 194
Period size: 51 Copynumber: 2.7 Consensus size: 52
2363193 ATTTGCCTGC
2363203 ATGTATTGATAC-ACTAAAGAATGTATCGATACATTTGGGTCAAAAACCTAGA
1 ATGTATTGATACAAC-AAAGAATGTATCGATACATTTGGGTCAAAAACCTAGA
* ** *
2363255 ATGTATCGATACAATGAAGAATGTATTGATACATTTGGGTC-AAAA-CTCAGA
1 ATGTATTGATACAACAAAGAATGTATCGATACATTTGGGTCAAAAACCT-AGA
*
2363306 ATGTATTGATACAACAAAAAATGTATCGATACATTT
1 ATGTATTGATACAACAAAGAATGTATCGATACATTT
2363342 TCATTCTTAG
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
50 2 0.03
51 38 0.50
52 35 0.46
53 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (52 bp):
ATGTATTGATACAACAAAGAATGTATCGATACATTTGGGTCAAAAACCTAGA
Found at i:2363402 original size:21 final size:21
Alignment explanation
Indices: 2363378--2363431 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
2363368 AACATGGTCC
2363378 TGTATCGATACATTTCAAACA
1 TGTATCGATACATTTCAAACA
***
2363399 TGTATCGATACA-TTCATTTA
1 TGTATCGATACATTTCAAACA
2363419 TGTATCGATACAT
1 TGTATCGATACAT
2363432 CACCCTATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTTCAAACA
Found at i:2363840 original size:16 final size:16
Alignment explanation
Indices: 2363821--2363855 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2363811 GGAATGTACA
2363821 TGAATGCAAATGCTTG
1 TGAATGCAAATGCTTG
**
2363837 TGAATGGTAATGCTTG
1 TGAATGCAAATGCTTG
2363853 TGA
1 TGA
2363856 GTATGAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.34
Consensus pattern (16 bp):
TGAATGCAAATGCTTG
Found at i:2367848 original size:16 final size:16
Alignment explanation
Indices: 2367808--2367881 Score: 51
Period size: 16 Copynumber: 4.6 Consensus size: 16
2367798 GGTGTCTATA
2367808 AATGCAAATAG-ACATG
1 AATGCAAAT-GCACATG
* *
2367824 AGTGGAAATGCACATG
1 AATGCAAATGCACATG
* ** *
2367840 AATGCAAATTCTTATA
1 AATGCAAATGCACATG
* *
2367856 AATGAAAATGCATATG
1 AATGCAAATGCACATG
*
2367872 AGTGCAAATG
1 AATGCAAATG
2367882 TAGGTGAGTA
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
15 1 0.02
16 42 0.98
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.24
Consensus pattern (16 bp):
AATGCAAATGCACATG
Found at i:2372159 original size:52 final size:51
Alignment explanation
Indices: 2372074--2372197 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
2372064 ATATGAAAAG
* *
2372074 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
2372125 TTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
2372177 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2372198 AAGATCAATG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:2372208 original size:51 final size:52
Alignment explanation
Indices: 2372074--2372217 Score: 195
Period size: 52 Copynumber: 2.8 Consensus size: 52
2372064 ATATGAAAAG
* * *
2372074 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGCAAAT
***
2372126 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
2372177 TTGCCTGCATGTATCGATACA-AAGATCAATGTATCGATACA
1 TTGCCTGCATGTATCGATACATAAGAT-AATGTATCGATACA
2372218 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 2 0.02
51 37 0.44
52 45 0.54
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
Found at i:2372221 original size:13 final size:13
Alignment explanation
Indices: 2372203--2372230 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2372193 ATACAAAGAT
2372203 CAATGTATCGATA
1 CAATGTATCGATA
2372216 CAATGTATCGATA
1 CAATGTATCGATA
2372229 CA
1 CA
2372231 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2372308 original size:33 final size:33
Alignment explanation
Indices: 2372271--2372337 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2372261 AGTAGCTTAA
2372271 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2372304 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2372337 A
1 A
2372338 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2372311 original size:13 final size:13
Alignment explanation
Indices: 2372293--2372317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2372283 CAAAAAAATA
2372293 TGTATCGATACAT
1 TGTATCGATACAT
2372306 TGTATCGATACA
1 TGTATCGATACA
2372318 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2374180 original size:20 final size:20
Alignment explanation
Indices: 2374129--2374200 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
2374119 CTATAATTTA
* *
2374129 TATCGATATAATAAGTGAATG
1 TATCGATA-CATAAGTAAATG
* *
2374150 TATCAAAACATAAGTAAATG
1 TATCGATACATAAGTAAATG
***
2374170 TATCGATACATGTCTGAAATG
1 TATCGATACATAAGT-AAATG
2374191 TATCGATACA
1 TATCGATACA
2374201 GGACCATGTC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 20 0.49
21 21 0.51
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (20 bp):
TATCGATACATAAGTAAATG
Found at i:2374265 original size:20 final size:20
Alignment explanation
Indices: 2374240--2374293 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2374230 AAAAAGAAAA
*
2374240 TGTATTGGTACATTTTTCAT
1 TGTATTGATACATTTTTCAT
2374260 TGTATTGATACATTTTTCAT
1 TGTATTGATACATTTTTCAT
*
2374280 TGTATCGATACATT
1 TGTATTGATACATT
2374294 CTGAGTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.52
Consensus pattern (20 bp):
TGTATTGATACATTTTTCAT
Found at i:2374382 original size:40 final size:40
Alignment explanation
Indices: 2374322--2374399 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
2374312 GTATCGATAC
2374322 ATTTTTCATTATATCATTTGCCATAACACATCCAATGCAT
1 ATTTTTCATTATATCATTTGCCATAACACATCCAATGCAT
* *
2374362 ATTTTTCATTGTATCGTTTGCCATAACACATCCAATGC
1 ATTTTTCATTATATCATTTGCCATAACACATCCAATGC
2374400 CAGTTTAAAG
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:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (40 bp):
ATTTTTCATTATATCATTTGCCATAACACATCCAATGCAT
Found at i:2377043 original size:134 final size:132
Alignment explanation
Indices: 2376816--2377087 Score: 359
Period size: 134 Copynumber: 2.0 Consensus size: 132
2376806 AGAATACCCT
* *
2376816 AACCCCGTTTTTACTTCAAAAACATCAAAATTTTCTTTTCTAGGGATACTCTAACCCCACCATCT
1 AACCCCGTTTTCACTTCAAAAACATCAAAATTTTCTTTTCTAGGGATACTCCAACCCCACCATCT
* ** * * *
2376881 TCGAGGGGATAGTCCAACCCTGGCTTTACTTCTAAAACATTGAATTTTTCATCTTT-AGGGATAT
66 TCGAGGGGATACTCCAACCCCAGCTTTACTTCCAAAACATTGAATTCTTCATCTTTGA-GGATAC
2376945 TCC
130 TCC
* ** * *
2376948 AACCCCGTTTTCACTTCTAAAATGTCAAAATTTTCTTATCTCTAGGGATACTCCAACCTCACTAT
1 AACCCCGTTTTCACTTCAAAAACATCAAAATTTTCTT-T-TCTAGGGATACTCCAACCCCACCAT
**
2377013 -TTCCGAGGGGATACTCCAACCCCATTTTTACTTCCAAAACATTGAATTCTTCATCTTTGAGGAT
64 CTT-CGAGGGGATACTCCAACCCCAGCTTTACTTCCAAAACATTGAATTCTTCATCTTTGAGGAT
2377077 ACTCC
128 ACTCC
2377082 AACCCC
1 AACCCC
2377088 ACTATCTCCG
Statistics
Matches: 121, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
132 33 0.27
133 3 0.02
134 84 0.69
135 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (132 bp):
AACCCCGTTTTCACTTCAAAAACATCAAAATTTTCTTTTCTAGGGATACTCCAACCCCACCATCT
TCGAGGGGATACTCCAACCCCAGCTTTACTTCCAAAACATTGAATTCTTCATCTTTGAGGATACT
CC
Found at i:2378652 original size:21 final size:20
Alignment explanation
Indices: 2378604--2378662 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
2378594 CCGTTAGGCC
* *
2378604 AAATGTATCAATACAATACA
1 AAATGTATCGATACAATCCA
*
2378624 TAATGTATCGATACAATCCA
1 AAATGTATCGATACAATCCA
*
2378644 AACATGTATTGATACAATC
1 AA-ATGTATCGATACAATC
2378663 ACATGGTCGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (20 bp):
AAATGTATCGATACAATCCA
Found at i:2378745 original size:13 final size:13
Alignment explanation
Indices: 2378727--2378751 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2378717 ATAATTCCAT
2378727 AATGTATCGATAA
1 AATGTATCGATAA
2378740 AATGTATCGATA
1 AATGTATCGATA
2378752 CTTAGCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAA
Found at i:2381561 original size:12 final size:12
Alignment explanation
Indices: 2381544--2381572 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
2381534 CAAACACAGG
2381544 ATCAACATCAAA
1 ATCAACATCAAA
2381556 ATCAACATCAAA
1 ATCAACATCAAA
2381568 ATCAA
1 ATCAA
2381573 TTTTCAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.17
Consensus pattern (12 bp):
ATCAACATCAAA
Found at i:2384358 original size:11 final size:11
Alignment explanation
Indices: 2384342--2384367 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2384332 GCCGTTATTG
2384342 GCTTGTTTGGA
1 GCTTGTTTGGA
2384353 GCTTGTTTGGA
1 GCTTGTTTGGA
2384364 GCTT
1 GCTT
2384368 ATTTATAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.12, G:0.35, T:0.46
Consensus pattern (11 bp):
GCTTGTTTGGA
Found at i:2384692 original size:370 final size:370
Alignment explanation
Indices: 2384011--2384726 Score: 1414
Period size: 370 Copynumber: 1.9 Consensus size: 370
2384001 ACTATACCAC
2384011 AAGTTCCAAAGAGATTCTCTCTCAAGGTTTACCACAACCTTATGACAACAAGGATTTTTCTACAA
1 AAGTTCCAAAGAGATTCTCTCTCAAGGTTTACCACAACCTTATGACAACAAGGATTTTTCTACAA
2384076 ACAAAGTTTGCCTCTAACTAGGCTTGTGTTTGTGAGAATTTAAGCTCGAAATCAAATACAAAGAG
66 ACAAAGTTTGCCTCTAACTAGGCTTGTGTTTGTGAGAATTTAAGCTCGAAATCAAATACAAAGAG
*
2384141 CTTAGAAAAATAATAACAATATGAACAAAAGCTCTTGAAAAATATAAAACACTTTAATTTAAGAA
131 CTTAGAAAAATAATAACAATATGAACAAAAGCTCTTGAAAAATATAAAACACTTTAATCTAAGAA
2384206 AACTTTGAATGCTAGATGTTTCTTGCTTGGTTCTACTTCTCTCTTCCTGTGTTTTGCTGCTGGAA
196 AACTTTGAATGCTAGATGTTTCTTGCTTGGTTCTACTTCTCTCTTCCTGTGTTTTGCTGCTGGAA
2384271 GCTCTTATTTATAAGCTTCAATGTTGTTGTAGCCATTGGAGTTTGATTAGTAGAGTTTCTAGCCG
261 GCTCTTATTTATAAGCTTCAATGTTGTTGTAGCCATTGGAGTTTGATTAGTAGAGTTTCTAGCCG
2384336 TTATTGGCTTGTTTGGAGCTTGTTTGGAGCTTATTTATAAGCTGG
326 TTATTGGCTTGTTTGGAGCTTGTTTGGAGCTTATTTATAAGCTGG
2384381 AAGTTCCAAAGAGATTCTCTCTCAAGGTTTACCACAACCTTATGACAACAAGGATTTTTCTACAA
1 AAGTTCCAAAGAGATTCTCTCTCAAGGTTTACCACAACCTTATGACAACAAGGATTTTTCTACAA
2384446 ACAAAGTTTGCCTCTAACTAGGCTTGTGTTTGTGAGAATTTAAGCTCGAAATCAAATACAAAGAG
66 ACAAAGTTTGCCTCTAACTAGGCTTGTGTTTGTGAGAATTTAAGCTCGAAATCAAATACAAAGAG
2384511 CTTAGAAAAATAATAACAATATGAACAAAAGCTCTTGAAAAATATAAAACACTTTAATCTAAGAA
131 CTTAGAAAAATAATAACAATATGAACAAAAGCTCTTGAAAAATATAAAACACTTTAATCTAAGAA
2384576 AACTTTGAATGCTAGATGTTTCTTGCTTGGTTCTACTTCTCTCTTCCTGTGTTTTGCTGCTGGAA
196 AACTTTGAATGCTAGATGTTTCTTGCTTGGTTCTACTTCTCTCTTCCTGTGTTTTGCTGCTGGAA
*
2384641 GCTCTTATTTATAAGCTTCAATGTTGTTGTAGCCGTTGGAGTTTGATTAGTAGAGTTTCTAGCCG
261 GCTCTTATTTATAAGCTTCAATGTTGTTGTAGCCATTGGAGTTTGATTAGTAGAGTTTCTAGCCG
2384706 TTATTGGCTTGTTTGGAGCTT
326 TTATTGGCTTGTTTGGAGCTT
2384727 ATTTTAATGA
Statistics
Matches: 344, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
370 344 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (370 bp):
AAGTTCCAAAGAGATTCTCTCTCAAGGTTTACCACAACCTTATGACAACAAGGATTTTTCTACAA
ACAAAGTTTGCCTCTAACTAGGCTTGTGTTTGTGAGAATTTAAGCTCGAAATCAAATACAAAGAG
CTTAGAAAAATAATAACAATATGAACAAAAGCTCTTGAAAAATATAAAACACTTTAATCTAAGAA
AACTTTGAATGCTAGATGTTTCTTGCTTGGTTCTACTTCTCTCTTCCTGTGTTTTGCTGCTGGAA
GCTCTTATTTATAAGCTTCAATGTTGTTGTAGCCATTGGAGTTTGATTAGTAGAGTTTCTAGCCG
TTATTGGCTTGTTTGGAGCTTGTTTGGAGCTTATTTATAAGCTGG
Found at i:2384863 original size:33 final size:33
Alignment explanation
Indices: 2384821--2384885 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2384811 TACAAGCCAA
*
2384821 TGTATCGATACAAT-TTTTTGTGTATTGATACAT
1 TGTATCGATAC-ATGTTTTTGTGTATCGATACAT
2384854 TGTATCGATACATGTTTTTGTGTATCGATACA
1 TGTATCGATACATGTTTTTGTGTATCGATACA
2384886 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 2 0.07
33 28 0.93
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (33 bp):
TGTATCGATACATGTTTTTGTGTATCGATACAT
Found at i:2384990 original size:20 final size:20
Alignment explanation
Indices: 2384937--2384992 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2384927 ACATCTTTTT
*
2384937 CATGTATCGATACATTGAAA
1 CATGTATCGATACTTTGAAA
*
2384957 CATGTATCGATACTTTGAAT
1 CATGTATCGATACTTTGAAA
**
2384977 TGTGTATCGATACTTT
1 CATGTATCGATACTTT
2384993 TAAGGGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACTTTGAAA
Found at i:2386834 original size:21 final size:21
Alignment explanation
Indices: 2386808--2386857 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
2386798 ATGCAAGTTT
* *
2386808 TTGTTTTTCTTTGTTAATTCA
1 TTGTTTTTATTGGTTAATTCA
*
2386829 TTGTTTTTATTGGTTAATTCT
1 TTGTTTTTATTGGTTAATTCA
*
2386850 TTATTTTT
1 TTGTTTTT
2386858 TTCTTGCAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.14, C:0.06, G:0.10, T:0.70
Consensus pattern (21 bp):
TTGTTTTTATTGGTTAATTCA
Found at i:2387823 original size:13 final size:13
Alignment explanation
Indices: 2387805--2387835 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2387795 ACATTTCAGC
2387805 ATGTATCGATACA
1 ATGTATCGATACA
2387818 ATGTATCGATACA
1 ATGTATCGATACA
*
2387831 TTGTA
1 ATGTA
2387836 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2387823 original size:33 final size:33
Alignment explanation
Indices: 2387785--2387851 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
2387775 GTTACAAGCT
*
2387785 ATGTATCGATACATT-TCAGCATGTATCGATACA
1 ATGTATCGATACATTGT-ACCATGTATCGATACA
2387818 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
2387851 A
1 A
2387852 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:2387924 original size:19 final size:19
Alignment explanation
Indices: 2387880--2387952 Score: 92
Period size: 20 Copynumber: 3.7 Consensus size: 19
2387870 CTGCCAATCT
**
2387880 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
2387900 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
2387919 CATGTATCGATACAATGCAA
1 CATGTATCGATACAATG-AA
* *
2387939 GATGTATTGATACA
1 CATGTATCGATACA
2387953 TCTGGGTGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 19 0.40
20 29 0.60
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2388202 original size:19 final size:20
Alignment explanation
Indices: 2388165--2388203 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2388155 TTTGAGTGAA
2388165 TAAAACTTGTTTACGATTTT
1 TAAAACTTGTTTACGATTTT
2388185 TAAAACATT-TTT-CGATTTT
1 TAAAAC-TTGTTTACGATTTT
2388204 ATTCAATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 9 0.50
21 2 0.11
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (20 bp):
TAAAACTTGTTTACGATTTT
Found at i:2397125 original size:31 final size:32
Alignment explanation
Indices: 2397066--2397127 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
2397056 AGCCCAGAAG
* *
2397066 TATCGATACATATTGCTTTGTATTGATACATT
1 TATCGATACATATTGCATTGTATCGATACATT
*
2397098 TATCGATACATGTT-CATTGTATCGATACAT
1 TATCGATACATATTGCATTGTATCGATACAT
2397128 GAAACTGGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.44
Consensus pattern (32 bp):
TATCGATACATATTGCATTGTATCGATACATT
Found at i:2397196 original size:13 final size:13
Alignment explanation
Indices: 2397178--2397202 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2397168 CATAGGACAT
2397178 TGTATCGATACAA
1 TGTATCGATACAA
2397191 TGTATCGATACA
1 TGTATCGATACA
2397203 TTATGCCCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2400171 original size:15 final size:15
Alignment explanation
Indices: 2400151--2400194 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
2400141 GAGAACGTTT
2400151 ATGTTGTACATTTAG
1 ATGTTGTACATTTAG
**
2400166 ATGTTGTATGTTT--
1 ATGTTGTACATTTAG
2400179 ATGTTGTACATTTAG
1 ATGTTGTACATTTAG
2400194 A
1 A
2400195 AACGTATGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (15 bp):
ATGTTGTACATTTAG
Found at i:2400182 original size:13 final size:13
Alignment explanation
Indices: 2400145--2400192 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
2400135 AGAGAAGAGA
2400145 ACGTTTATGTTGT
1 ACGTTTATGTTGT
*
2400158 ACATTTAGATGTTGT
1 ACGTTT--ATGTTGT
*
2400173 ATGTTTATGTTGT
1 ACGTTTATGTTGT
*
2400186 ACATTTA
1 ACGTTTA
2400193 GAAACGTATG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 17 0.61
15 11 0.39
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (13 bp):
ACGTTTATGTTGT
Found at i:2409421 original size:20 final size:21
Alignment explanation
Indices: 2409390--2409428 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2409380 AGGCCAAAAC
2409390 CCTAGAAAGTATCGATACAAG
1 CCTAGAAAGTATCGATACAAG
2409411 CCTAG-AAGTATCGATACA
1 CCTAGAAAGTATCGATACA
2409429 TATTGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (21 bp):
CCTAGAAAGTATCGATACAAG
Found at i:2416690 original size:69 final size:69
Alignment explanation
Indices: 2416599--2417130 Score: 289
Period size: 73 Copynumber: 7.7 Consensus size: 69
2416589 AGCATGACAC
* ** *
2416599 TTTTCTTTTTTTAAAGCCCACACAAGCTAGTAGTA-CTTTTTACCTTTTTAATCCTTAAAGAGTA
1 TTTT-TTTTTTTAAAGCCCACACAAGCTAGTAGCACCCCTTTACCTTTTTAATCCTTAAAAAGT-
2416663 AGG-CG
64 AGGACG
* * *
2416668 TCTTTTTTTTTTCAAGCCCACACAAGCTAGTGGCACCCCTTTACCTTTTTAGTCCTTAAAAAGTA
1 T-TTTTTTTTTTAAAGCCCACACAAGCTAGTAGCACCCCTTTACCTTTTTAATCCTTAAAAAGTA
2416733 GGACG
65 GGACG
* * * * *
2416738 TTTTTTCTTTTAAAGCCCACACAAGTTGGT-G-------GTACC-TTTTAGTCCTTAAAAAGTAG
1 TTTTTTTTTTTAAAGCCCACACAAGCTAGTAGCACCCCTTTACCTTTTTAATCCTTAAAAAGTAG
*
2416794 GATG
66 GACG
* * * * *
2416798 TCTTTTTCTTTTTAAAGCCAACACAAGCTAGTGGCACCCTTTTACCTTTTTAGTCCTCAAAAAGT
1 T-TTTTT-TTTTTAAAGCCCACACAAGCTAGTAGCACCCCTTTACCTTTTTAATCCTTAAAAAGT
*
2416863 AGAACG
64 AGGACG
* * * * * *
2416869 CTTTTCTTTTTTCTTTCAAGGCCCATACAAGCTAGT-G-A---C---A-CATTTTAGTCATCAAA
1 ---TT-TTTTTT-TTT-AAAGCCCACACAAGCTAGTAGCACCCCTTTACCTTTTTAATCCTTAAA
*
2416925 AAGTAGGACTCT
60 AAGTAGGA--CG
* * * * * *
2416937 TTTTTTCTTTTTAAAGCCCATACAAGCT-GATGGCACCCCTTTCATCCCTTTTAGTCCTCAAAGA
1 TTTTTT-TTTTTAAAGCCCACACAAGCTAG-TAGCACCCCTTT-A-CCTTTTTAATCCTTAAAAA
*
2417001 GTAGGACAT
62 GTAGGAC-G
* * * * * * * *
2417010 TTTTTTCTTTTTAATGCCCACAAAAGCTGGTGGCACCTCTTTTATCCCTTTTAGTCCTGAAAAAG
1 TTTTTT-TTTTTAAAGCCCACACAAGCTAGTAGCACC-CCTTTA-CCTTTTTAATCCTTAAAAAG
* *
2417075 TAAGACC
63 TAGGACG
* * ** *
2417082 CTTTTTTTTTCAAAGCTTACACAAGCTAGTGGCA-CCCTTTACCTTTTTA
1 TTTTTTTTTTTAAAGCCCACACAAGCTAGTAGCACCCCTTTACCTTTTTA
2417131 GTCCGCAAAG
Statistics
Matches: 375, Mismatches: 50, Indels: 77
0.75 0.10 0.15
Matches are distributed among these distances:
60 24 0.06
61 9 0.02
62 21 0.06
63 17 0.05
64 8 0.02
65 5 0.01
66 21 0.06
67 1 0.00
68 10 0.03
69 61 0.16
70 35 0.09
71 43 0.11
72 7 0.02
73 62 0.17
74 35 0.09
75 16 0.04
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.38
Consensus pattern (69 bp):
TTTTTTTTTTTAAAGCCCACACAAGCTAGTAGCACCCCTTTACCTTTTTAATCCTTAAAAAGTAG
GACG
Found at i:2416755 original size:138 final size:135
Alignment explanation
Indices: 2416574--2417462 Score: 476
Period size: 140 Copynumber: 6.4 Consensus size: 135
2416564 AAAGCCTTTA
* * * * *
2416574 TTTTAGTCCTCAAAGAGCATGACACTTTTCTTTTTTTAAAGCCCACACAAGCTAGTAGTACTTTT
1 TTTTAGTCCTCAAAAAGTAGGAC-GTTTT-TTCTTTTAAAGCCCACACAAGCTAGT-G-ACTTTT
* * *
2416639 TACCTTTTTAATCCTTAAAGAGTAAGG-CGTCTTTTT-TTTTTCAAGCCCACACAAGCTAGTGGC
62 TACC-TTTTAGTCCTTAAAAAGT-AGGAC-TCTTTTTCTTTTTAAAGCCCACACAAGCTAGTGGC
2416702 ACCCCTTTACCT
124 ACCCCTTTACCT
* * **
2416714 TTTTAGTCCTTAAAAAGTAGGACGTTTTTTCTTTTAAAGCCCACACAAG-T--TG--GTGGTACC
1 TTTTAGTCCTCAAAAAGTAGGACGTTTTTTCTTTTAAAGCCCACACAAGCTAGTGACTTTTTACC
* * *
2416774 TTTTAGTCCTTAAAAAGTAGGATGTCTTTTTCTTTTTAAAGCCAACACAAGCTAGTGGCACCCTT
66 TTTTAGTCCTTAAAAAGTAGGA-CTCTTTTTCTTTTTAAAGCCCACACAAGCTAGTGGCACCCCT
2416839 TTACCT
130 TTACCT
* * * *
2416845 TTTTAGTCCTCAAAAAGTAGAACGCTTTTCTTTTTTCTTTCAAGGCCCATACAAGCTAGTGAC--
1 TTTTAGTCCTCAAAAAGTAGGACG------TTTTTTCTTTTAAAGCCCACACAAGCTAGTGACTT
* * * *
2416908 ---ACATTTTAGTCATCAAAAAGTAGGACTCTTTTTTTCTTTTTAAAGCCCATACAAGCT-GATG
60 TTTACCTTTTAGTCCTTAAAAAGTAGGACTC--TTTTTCTTTTTAAAGCCCACACAAGCTAG-TG
*
2416969 GCACCCCTTTCATCCC
122 GCACCCCTTT-A-CCT
* * * * *
2416985 TTTTAGTCCTCAAAGAGTAGGACATTTTTTTCTTTTTAATGCCCACAAAAGCTGGTGGCACCTCT
1 TTTTAGTCCTCAAAAAGTAGGAC-GTTTTTTC-TTTTAAAGCCCACACAAGCTAGT-G-A-CT-T
* * * * **
2417050 TTTATCCCTTTTAGTCCTGAAAAAGTAAGACCCTTTTT-TTTTCAAAGCTTACACAAGCTAGTGG
60 TTTA--CCTTTTAGTCCTTAAAAAGTAGGACTCTTTTTCTTTTTAAAGCCCACACAAGCTAGTGG
2417114 CA-CCCTTTACCT
123 CACCCCTTTACCT
* * * * * * * * *
2417126 TTTTAGTCCGCAAAGAGCAAGATGTTTTTCCTTTTTCTTTTAAAGCTCACAAAAGGTGGTGGCAC
1 TTTTAGTCCTCAAAAAGTAGGACG----T--TTTTTCTTTTAAAGCCCACACAAGCTAGT-G-A-
* * * * **
2417191 CCTTTTTTTTCCTTTTTA-TCCTCAAAGAGTAGGA-TGC-CTTT-TTTTTAAAGCGTACACAAGC
57 -C--TTTTTACC-TTTTAGTCCTTAAAAAGTAGGACT-CTTTTTCTTTTTAAAGCCCACACAAGC
* * ** *
2417252 TGGTGACATCCTTTTTATCAT
117 TAGTGGCA-CCCCTTTA-CCT
* * * * *
2417273 TTTTAGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTAAAGCCCACATAAGCTAGTGGTACCTTTT
1 TTTTAGTCCTCAAAAAGTAGGACG-TTTTTTCTTTTAAAGCCCACACAAGCTAGT-G-ACTTTTT
* * * * *
2417338 ATCTTTTTCAGT-CTTCAAAGAA-CATGACATATTTTTCTTTCTAAAGCCCACACAAGCTAGTGG
63 A-CCTTTT-AGTCCTT-AAA-AAGTAGGAC-TCTTTTTCTTTTTAAAGCCCACACAAGCTAGTGG
* *
2417401 CA-CCTTTTATCCC
123 CACCCCTTTA-CCT
* * * *
2417414 TTTTA-TCCTCAAAGAGCAAGAC-TCATTTTCTTTCTTAAAGCCCACACAA
1 TTTTAGTCCTCAAAAAGTAGGACGT-TTTTTC-TT-TTAAAGCCCACACAA
2417463 ATGGGTGGCA
Statistics
Matches: 590, Mismatches: 100, Indels: 117
0.73 0.12 0.14
Matches are distributed among these distances:
129 3 0.01
130 23 0.04
131 63 0.11
134 1 0.00
135 8 0.01
136 20 0.03
137 47 0.08
138 66 0.11
139 15 0.03
140 68 0.12
141 49 0.08
142 33 0.06
143 29 0.05
144 50 0.08
145 47 0.08
146 18 0.03
147 49 0.08
148 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (135 bp):
TTTTAGTCCTCAAAAAGTAGGACGTTTTTTCTTTTAAAGCCCACACAAGCTAGTGACTTTTTACC
TTTTAGTCCTTAAAAAGTAGGACTCTTTTTCTTTTTAAAGCCCACACAAGCTAGTGGCACCCCTT
TACCT
Found at i:2416781 original size:60 final size:63
Alignment explanation
Indices: 2416709--2416824 Score: 193
Period size: 60 Copynumber: 1.9 Consensus size: 63
2416699 GGCACCCCTT
*
2416709 TACCTTTTTAGTCCTTAAAAAGTAGGACGT-TTTTTC-TTTTAAAGCCCACACAAGTTGGTGG
1 TACCTTTTTAGTCCTTAAAAAGTAGGACGTCTTTTTCTTTTTAAAGCCAACACAAGTTGGTGG
*
2416770 TACC-TTTTAGTCCTTAAAAAGTAGGATGTCTTTTTCTTTTTAAAGCCAACACAAG
1 TACCTTTTTAGTCCTTAAAAAGTAGGACGTCTTTTTCTTTTTAAAGCCAACACAAG
2416825 CTAGTGGCAC
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
60 24 0.47
61 10 0.20
62 17 0.33
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (63 bp):
TACCTTTTTAGTCCTTAAAAAGTAGGACGTCTTTTTCTTTTTAAAGCCAACACAAGTTGGTGG
Found at i:2416848 original size:131 final size:130
Alignment explanation
Indices: 2416668--2417139 Score: 419
Period size: 131 Copynumber: 3.5 Consensus size: 130
2416658 GAGTAAGGCG
* * *
2416668 TCTTTTTTTTTTCAAGCCCACACAAGCTAGTGGCACCCCTTTACCTTTTTAGTCCTTAAAAAGTA
1 TCTTTTTTTTTTAAAGCCCACACAAGCTAGTGGCACCCTTTTACCTTTTTAGTCCTCAAAAAGTA
* *
2416733 GGACGTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGTACCTTTTAGTCCTTAAAAAGTAGGATG
66 GGACGTTTTTTCTTTTAAAGCCCACACAAGCTGGTGGTACCTTTTAGTCCTTAAAAAGTAGGATC
*
2416798 TCTTTTTCTTTTTAAAGCCAACACAAGCTAGTGGCACCCTTTTACCTTTTTAGTCCTCAAAAAGT
1 TCTTTTT-TTTTTAAAGCCCACACAAGCTAGTGGCACCCTTTTACCTTTTTAGTCCTCAAAAAGT
* * * * * ** * * *
2416863 AGAACGCTTTTCTTTTTTCTTTCAAGGCCCATACAAGCTAGTGACACATTTTAGTCATCAAAAAG
65 AGGACG------TTTTTTCTTTTAAAGCCCACACAAGCTGGTGGTACCTTTTAGTCCTTAAAAAG
2416928 TAGGACTC
124 TAGGA-TC
* * * * *
2416936 TTTTTTTCTTTTTAAAGCCCATACAAGCT-GATGGCACCCCTTTCATCCCTTTTAGTCCTCAAAG
1 TCTTTTT-TTTTTAAAGCCCACACAAGCTAG-TGGCA-CCCTTTTA-CCTTTTTAGTCCTCAAAA
* * *
2417000 AGTAGGACATTTTTTTCTTTTTAATGCCCACAAAAGCTGGTGGCACCTCTTTTATCCCTTTTAGT
62 AGTAGGAC-GTTTTTTC-TTTTAAAGCCCACACAAGCTGGTGG---------TA--CCTTTTAGT
* *
2417065 CCTGAAAAAGTAAGA-C
114 CCTTAAAAAGTAGGATC
* * ** *
2417081 CCTTTTTTTTTCAAAGCTTACACAAGCTAGTGGCACCC-TTTACCTTTTTAGTCCGCAAA
1 TCTTTTTTTTTTAAAGCCCACACAAGCTAGTGGCACCCTTTTACCTTTTTAGTCCTCAAA
2417140 GAGCAAGATG
Statistics
Matches: 273, Mismatches: 44, Indels: 39
0.77 0.12 0.11
Matches are distributed among these distances:
130 7 0.03
131 58 0.21
135 7 0.03
136 19 0.07
137 49 0.18
138 32 0.12
139 7 0.03
140 23 0.08
141 15 0.05
142 3 0.01
143 3 0.01
144 22 0.08
145 8 0.03
147 20 0.07
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.37
Consensus pattern (130 bp):
TCTTTTTTTTTTAAAGCCCACACAAGCTAGTGGCACCCTTTTACCTTTTTAGTCCTCAAAAAGTA
GGACGTTTTTTCTTTTAAAGCCCACACAAGCTGGTGGTACCTTTTAGTCCTTAAAAAGTAGGATC
Found at i:2416852 original size:71 final size:71
Alignment explanation
Indices: 2416770--2417462 Score: 410
Period size: 70 Copynumber: 9.8 Consensus size: 71
2416760 AAGTTGGTGG
* *
2416770 TACC-TTTTAGTCCTTAAAAAGTAGGATGTCTTTTTCTTTTTAAAGCCAACACAAGCTAGTGGCA
1 TACCTTTTTAGTCCTCAAAAAGTAGGATGTCTTTTTCTTTTTAAAGCCCACACAAGCTAGTGGCA
2416834 CCCTTT
66 CCCTTT
* * * * * *
2416840 TACCTTTTTAGTCCTCAAAAAGTAGAACGCTTTTCTTTTTTCTTTCAAGGCCCATACAAGCTAGT
1 TACCTTTTTAGTCCTCAAAAAGTAGGATG-TCTT-TTTCTT-TTT-AAAGCCCACACAAGCTAGT
2416905 -G-A--C---
62 GGCACCCTTT
* * * * *
2416908 -A-CATTTTAGTCATCAAAAAGTAGGACTCTTTTTTTCTTTTTAAAGCCCATACAAGCT-GATGG
1 TACCTTTTTAGTCCTCAAAAAGTAGGA-TGTCTTTTTCTTTTTAAAGCCCACACAAGCTAG-TGG
2416970 CACCCCTTT
64 CA-CCCTTT
* * * ** * * * *
2416979 CATCCCTTTTAGTCCTCAAAGAGTAGGACATTTTTTTCTTTTTAATGCCCACAAAAGCTGGTGGC
1 TA-CCTTTTTAGTCCTCAAAAAGTAGGATGTCTTTTTCTTTTTAAAGCCCACACAAGCTAGTGGC
2417044 ACCTCTTT
65 ACC-CTTT
* * * ** * **
2417052 TATCCCTTTTAGTCCTGAAAAAGTAAGA-CCCTTTTT-TTTTCAAAGCTTACACAAGCTAGTGGC
1 TA-CCTTTTTAGTCCTCAAAAAGTAGGATGTCTTTTTCTTTTTAAAGCCCACACAAGCTAGTGGC
2417115 ACCC-TT
65 ACCCTTT
* * * * * * * *
2417121 TACCTTTTTAGTCCGCAAAGAGCAAGATGTTTTTCCTTTTTC-TTTTAAAGCTCACAAAAGGTGG
1 TACCTTTTTAGTCCTCAAAAAGTAGGATG----T-CTTTTTCTTTTTAAAGCCCACACAAGCTAG
2417185 TGGCACCCTTTTTT
61 TGGCACCC---TTT
* * * ** * *
2417199 TTCCTTTTTA-TCCTCAAAGAGTAGGATG-C-CTTT-TTTTTAAAGCGTACACAAGCTGGTGACA
1 TACCTTTTTAGTCCTCAAAAAGTAGGATGTCTTTTTCTTTTTAAAGCCCACACAAGCTAGTGGCA
*
2417260 TCCTTTT
66 -CCCTTT
* * * * *
2417267 TATCATTTTTAGTCCTCAAAAAGCAGGATGCCTTTTTC-TTTTAAAGCCCACATAAGCTAGTGGT
1 TA-CCTTTTTAGTCCTCAAAAAGTAGGATGTCTTTTTCTTTTTAAAGCCCACACAAGCTAGTGGC
2417331 A-CCTTT
65 ACCCTTT
* * * * ** * *
2417337 TATCTTTTTCAGTCTTCAAAGAA-CATGACATATTTTTCTTTCTAAAGCCCACACAAGCTAGTGG
1 TACCTTTTT-AGTCCTCAAA-AAGTAGGATGTCTTTTTCTTTTTAAAGCCCACACAAGCTAGTGG
2417401 CA-CCTTT
64 CACCCTTT
* * * * * *
2417408 TATCCCTTTTA-TCCTCAAAGAGCAAGA-CTCATTTTCTTTCTTAAAGCCCACACAA
1 TA-CCTTTTTAGTCCTCAAAAAGTAGGATGTCTTTTTCTTT-TTAAAGCCCACACAA
2417463 ATGGGTGGCA
Statistics
Matches: 488, Mismatches: 91, Indels: 88
0.73 0.14 0.13
Matches are distributed among these distances:
62 1 0.00
63 16 0.03
64 4 0.01
65 6 0.01
66 25 0.05
67 1 0.00
68 25 0.05
69 26 0.05
70 96 0.20
71 84 0.17
72 40 0.08
73 65 0.13
74 57 0.12
75 16 0.03
77 15 0.03
78 11 0.02
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (71 bp):
TACCTTTTTAGTCCTCAAAAAGTAGGATGTCTTTTTCTTTTTAAAGCCCACACAAGCTAGTGGCA
CCCTTT
Found at i:2418000 original size:20 final size:20
Alignment explanation
Indices: 2417960--2418013 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2417950 TTTTGAAATT
* *
2417960 TATATCAATACAATAAGTGAA
1 TATATCGATAC-ATAAATGAA
2417981 TATATCGATACATAAATGAA
1 TATATCGATACATAAATGAA
*
2418001 TGTATCGATACAT
1 TATATCGATACAT
2418014 GTCTAAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (20 bp):
TATATCGATACATAAATGAA
Found at i:2420669 original size:80 final size:79
Alignment explanation
Indices: 2420507--2420813 Score: 307
Period size: 79 Copynumber: 3.8 Consensus size: 79
2420497 AAATATCAAA
* * * * *
2420507 AGGGG-TACTCCAACCCTGTTTTTAC-TTCTAAAATGTCAATTTTTTTTCTTTGGGGATACTCCA
1 AGGGGATACTCCAACCCTATTTTTACTTTC-AAAATATCAATTTTTCTTCTCTGGAGATACTCCA
* *
2420570 ACTCCACTATCTCTG
65 ACCCCACAATCTCTG
* *
2420585 AGGGGACACTCCAACCCTATTTTTACTTTCAAAACATCGAATTTTTCTTCTCTGGAGATACTCCA
1 AGGGGATACTCCAACCCTATTTTTACTTTCAAAATATC-AATTTTTCTTCTCTGGAGATACTCCA
* *
2420650 ACCCCACCATCTATG
65 ACCCCACAATCTCTG
* * * * * * *
2420665 AGGGGATACTCCAACCCAATTTTTACTTCCAAAAGATCAAATTTT-TTATCTGTAGGCTACTCCA
1 AGGGGATACTCCAACCCTATTTTTACTTTCAAAATATCAATTTTTCTTCTCTGGA-GATACTCCA
* *
2420729 AACCCACAATCTCCG
65 ACCCCACAATCTCTG
* * * *
2420744 AGGGGATACTCCAACTCTGTTTTTACTTTTAAAATATTAAATTTTTCTTATCTCTAGG-GATACT
1 AGGGGATACTCCAACCCTATTTTTACTTTCAAAATA-TCAATTTTTC-T-TCTCT-GGAGATACT
2420808 CCAACC
62 CCAACC
2420814 TTGTTTTTCG
Statistics
Matches: 186, Mismatches: 34, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
78 12 0.06
79 79 0.42
80 79 0.42
82 11 0.06
83 4 0.02
84 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (79 bp):
AGGGGATACTCCAACCCTATTTTTACTTTCAAAATATCAATTTTTCTTCTCTGGAGATACTCCAA
CCCCACAATCTCTG
Found at i:2420741 original size:159 final size:160
Alignment explanation
Indices: 2420507--2420813 Score: 383
Period size: 159 Copynumber: 1.9 Consensus size: 160
2420497 AAATATCAAA
** * * * *
2420507 AGGGGTACTCCAACCCTGTTTTTACTTCTAAAATGTCAATTTTTTTTCTTTGGGGATACTCCAAC
1 AGGGGTACTCCAACCCAATTTTTACTTCCAAAATGTCAATTTTTTATCTGTGAGGATACTCCAAC
* * *
2420572 TCCACTATCTCTGAGGGGACACTCCAACCCTATTTTTACTTTCAAAACATCGAATTTTTC-T-TC
66 TCCACAATCTCCGAGGGGACACTCCAACCCTATTTTTACTTTCAAAACATCAAATTTTTCTTATC
2420635 TCT-GGAGATACTCCAACCCCACCATCTATG
131 TCTAGG-GATACTCCAACCCCACCATCTATG
*
2420665 AGGGGATACTCCAACCCAATTTTTACTTCCAAAA-GATCAAATTTTTTATCTGT-AGGCTACTCC
1 AGGGG-TACTCCAACCCAATTTTTACTTCCAAAATG-TC-AATTTTTTATCTGTGAGGATACTCC
* * * * * *
2420728 AAAC-CCACAATCTCCGAGGGGATACTCCAACTCTGTTTTTACTTTTAAAATATTAAATTTTTCT
63 -AACTCCACAATCTCCGAGGGGACACTCCAACCCTATTTTTACTTTCAAAACATCAAATTTTTCT
2420792 TATCTCTAGGGATACTCCAACC
127 TATCTCTAGGGATACTCCAACC
2420814 TTGTTTTTCG
Statistics
Matches: 126, Mismatches: 16, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
158 6 0.05
159 85 0.67
160 16 0.13
161 17 0.13
162 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (160 bp):
AGGGGTACTCCAACCCAATTTTTACTTCCAAAATGTCAATTTTTTATCTGTGAGGATACTCCAAC
TCCACAATCTCCGAGGGGACACTCCAACCCTATTTTTACTTTCAAAACATCAAATTTTTCTTATC
TCTAGGGATACTCCAACCCCACCATCTATG
Found at i:2421672 original size:13 final size:13
Alignment explanation
Indices: 2421654--2421710 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
2421644 ACCTAAGTTT
2421654 TGTATCGATACAA
1 TGTATCGATACAA
2421667 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
2421682 GTGTTGTATCGTTACAA
1 ----TGTATCGATACAA
2421699 TGTATCGATACA
1 TGTATCGATACA
2421711 TAAGTGTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2421674 original size:32 final size:32
Alignment explanation
Indices: 2421633--2421723 Score: 155
Period size: 32 Copynumber: 2.8 Consensus size: 32
2421623 ACAAACAGTA
* *
2421633 AATGTATCGATACCTAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
2421665 AATGTATCGATACATAAGTGTTGTATCGTTAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
2421697 AATGTATCGATACATAAGTGTTGTATC
1 AATGTATCGATACATAAGTGTTGTATC
2421724 TGTCGCGACG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:2421691 original size:19 final size:17
Alignment explanation
Indices: 2421635--2421723 Score: 59
Period size: 19 Copynumber: 5.4 Consensus size: 17
2421625 AAACAGTAAA
2421635 TGTATCGATACCTAAGTTT
1 TGTATCGATA-CTAAG-TT
2421654 TGTATCGATAC-AA---
1 TGTATCGATACTAAGTT
2421667 TGTATCGATACATAAGTGT
1 TGTATCGATAC-TAAGT-T
*
2421686 TGTATCGTTAC-AA---
1 TGTATCGATACTAAGTT
2421699 TGTATCGATACATAAGTGT
1 TGTATCGATAC-TAAGT-T
2421718 TGTATC
1 TGTATC
2421724 TGTCGCGACG
Statistics
Matches: 56, Mismatches: 2, Indels: 24
0.68 0.02 0.29
Matches are distributed among these distances:
13 21 0.38
15 4 0.07
17 4 0.07
18 1 0.02
19 26 0.46
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (17 bp):
TGTATCGATACTAAGTT
Found at i:2422710 original size:28 final size:28
Alignment explanation
Indices: 2422675--2422756 Score: 112
Period size: 28 Copynumber: 2.9 Consensus size: 28
2422665 TTTTAGAGAT
*
2422675 AATAACGGGGTTGGAGTATCCCC-TTAGA
1 AATAACGGGGTTGGAGTATCCCCGAT-GA
*
2422703 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* *
2422731 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
2422757 TGTGAAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 47 0.98
29 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:2422808 original size:51 final size:51
Alignment explanation
Indices: 2422740--2422971 Score: 286
Period size: 51 Copynumber: 4.5 Consensus size: 51
2422730 AAATAACGAG
* * * *
2422740 GTTGGAGTATCCTCGATTGTGAAAAATTACTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGA
* * * * * *
2422791 GTTGGAATGTCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGA
* * * * *
2422842 GTTCGAGTATCCCCGATTGTGGAAAATTGGTG-TTTCGAAAGTAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAA-TAAAACCGGA
* *
2422893 GTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGA
*
2422944 GTTGGAGTATCCCCGATTATGAAAAATT
1 GTTGGAGTATCCCCGATTGTGAAAAATT
2422972 GAGAAACTTA
Statistics
Matches: 153, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
50 7 0.05
51 139 0.91
52 7 0.05
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGA
Found at i:2422972 original size:102 final size:102
Alignment explanation
Indices: 2422739--2422972 Score: 335
Period size: 102 Copynumber: 2.3 Consensus size: 102
2422729 GAAATAACGA
* * * *
2422739 GGTTGGAGTATCCTCGATTGTGAAAAATTACTGTTTTGGAAATAAAATCGGAGTTGGAATGTCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGCTGTTTTCGAAATAAAATCGGAGTTGGAATATCCC
* * *
2422804 CGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGG
66 CGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGG
* * * *
2422841 GGTTCGAGTATCCCCGATTGTGGAAAATTGGTG-TTTCGAAAGTAAAATCGGAGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGCTGTTTTCGAAA-TAAAATCGGAGTTGGAATATCC
*
2422905 TCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGG
65 CCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGG
*
2422943 GGTTGGAGTATCCCCGATTATGAAAAATTG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTG
2422973 AGAAACTTAA
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 7 0.06
102 109 0.94
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (102 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGCTGTTTTCGAAATAAAATCGGAGTTGGAATATCCC
CGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGG
Found at i:2425414 original size:19 final size:21
Alignment explanation
Indices: 2425390--2425441 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
2425380 AGCGATACAC
*
2425390 TGTATCGATACA-TAACT-TA
1 TGTATCGATACATTAACTGAA
*
2425409 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTAACTGAA
2425430 TGTATCGATACA
1 TGTATCGATACA
2425442 GATTATTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (21 bp):
TGTATCGATACATTAACTGAA
Found at i:2426270 original size:119 final size:117
Alignment explanation
Indices: 2426068--2426288 Score: 272
Period size: 119 Copynumber: 1.9 Consensus size: 117
2426058 GGAAGGGGTG
* * * *
2426068 TCCCACTTTTTGAGGACAAAGGAAAAGAGAATGAAATAGGTCTTGCTCCTTGAGGACAAAGGAAG
1 TCCCACTTTTTGAGGACAAAGGAAAAGAGAACGAAATACGTCCTGCTCCTTGAGGACAAAAGAAG
2426133 AGAAGAAAAGGAAAGCGTCCTGCTTCTTAAGGACAAAGTGGAAAAGAGTACA
66 AGAAGAAAAGGAAAGCGTCCTGCTTCTTAAGGACAAAGTGGAAAAGAGTACA
*
2426185 TCCCA-TTTTTCGAGGACAAAGGAAAAAGGGAAACGAAATACGTCCTGCT-CTCTGAGGACAAAA
1 TCCCACTTTTT-GAGGACAAAGG-AAAAGAG-AACGAAATACGTCCTGCTCCT-TGAGGACAAAA
* * *
2426248 GAA-A-AAGGAAAA-TAAAGTGCGTCCTGCTTTTTGAGGACAAA
62 GAAGAGAA-GAAAAGGAAA--GCGTCCTGCTTCTTAAGGACAAA
2426289 AGAGAAAAGA
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
116 5 0.06
117 21 0.24
118 14 0.16
119 49 0.55
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (117 bp):
TCCCACTTTTTGAGGACAAAGGAAAAGAGAACGAAATACGTCCTGCTCCTTGAGGACAAAAGAAG
AGAAGAAAAGGAAAGCGTCCTGCTTCTTAAGGACAAAGTGGAAAAGAGTACA
Found at i:2426326 original size:45 final size:42
Alignment explanation
Indices: 2426196--2426330 Score: 139
Period size: 42 Copynumber: 3.1 Consensus size: 42
2426186 CCCATTTTTC
* * * *
2426196 GAGGACAAAGGAAAAAGGGAAACGAAA-TACGTCCTGCTCTCT
1 GAGGACAAAAGAAAAA-GGAAAAGAAAGTGCGTCCTGCTCTTT
* *
2426238 GAGGACAAAAGAAAAAGGAAAATAAAGTGCGTCCTGCTTTTT
1 GAGGACAAAAGAAAAAGGAAAAGAAAGTGCGTCCTGCTCTTT
* *
2426280 GAGGACAAAAGAGAAAA-GAAGGGAAGAAAGTGTGTCCTACTCTTT
1 GAGGACAAAAGA-AAAAGGAA---AAGAAAGTGCGTCCTGCTCTTT
2426325 GAGGAC
1 GAGGAC
2426331 TGAAAAGTGC
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
41 8 0.10
42 42 0.54
43 4 0.05
45 24 0.31
ACGTcount: A:0.41, C:0.14, G:0.27, T:0.17
Consensus pattern (42 bp):
GAGGACAAAAGAAAAAGGAAAAGAAAGTGCGTCCTGCTCTTT
Found at i:2426548 original size:60 final size:61
Alignment explanation
Indices: 2426313--2426547 Score: 298
Period size: 61 Copynumber: 3.9 Consensus size: 61
2426303 AAGAAAGTGT
* * * *
2426313 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGT
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGC
* * * *
2426374 GTCCTGCCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAAGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAGAAGGC
* * *
2426435 ATCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGG-TTTTAAAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAGAAGGC
* **
2426496 GTCCTGCTCTTTGAGGATTG-AAAGTGCCACCGGCTTGTGTGGGCTTT-AAAAG
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
2426548 GCATCCTGCT
Statistics
Matches: 150, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
59 5 0.03
60 28 0.19
61 113 0.75
62 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGC
Found at i:2426639 original size:154 final size:158
Alignment explanation
Indices: 2426432--2426727 Score: 440
Period size: 154 Copynumber: 1.9 Consensus size: 158
2426422 GCAAAAAGAA
*
2426432 AGCATCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGTTTTAAAAGGAGAAGGCG
1 AGCATCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
* * * **
2426497 TCCTGCTCTTTGAGGA-TTGAAAGTGCCACCGGCTTGTGTGGGC-TT-T-AAAAGGCATCCTGCT
66 TCATGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTATAAAAAGGCATCCTGCT
2426558 CTTTGAGGACAAAAAGGCAAAAGGAGAG
131 CTTTGAGGACAAAAAGGCAAAAGGAGAG
* *
2426586 AGCATCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGC
1 AGCATCCTGCTCTTTGAAGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGC
* *
2426650 GTCATGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGATAGAAAAGGCGTCCT
65 GTCATGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-ATA-AAAAGGCATCCT
2426715 GCTCTTTGAGGAC
128 GCTCTTTGAGGAC
2426728 TGGAAAATGC
Statistics
Matches: 125, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
153 1 0.01
154 75 0.60
155 22 0.18
156 2 0.02
158 1 0.01
160 24 0.19
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (158 bp):
AGCATCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
TCATGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTATAAAAAGGCATCCTGCT
CTTTGAGGACAAAAAGGCAAAAGGAGAG
Found at i:2427451 original size:55 final size:55
Alignment explanation
Indices: 2426590--2427450 Score: 1081
Period size: 55 Copynumber: 15.3 Consensus size: 55
2426580 GGAGAGAGCA
*
2426590 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
* *
2426651 TCATGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGATAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TT--T-G-AAAGGCG
*
2426711 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
2426766 TCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
2426821 TCCTGCTTTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
2426876 TCCTGCTCTTTAAGGACTGCAAAATGCCACTAACTTGTGTGGGCTTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * *
2426931 TCCTACTTTTTGAGGACTGGAAAATACCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
2426986 TCCTGCTCTTTGAGGACT-GAAAGGTGCCGCCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
2427041 TCGTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* *
2427096 TCCTGCTTTTTGAGGACTGGAAAATACCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
2427151 TCCTGCTCTTTGAGGACT-GAAAGGTGCCGCCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
2427206 TCGTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTT-AAGAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * * * *
2427261 TCCTGCTCTTTAAGGATTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* * * * * *
2427322 TCCTGCTCTTTGAGGATTAGAAAATGCCACCAACTCGTGTAGGCTTTAAAAGGAG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
2427377 TCCTGCTTTTTGAAGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
2427432 TCCTGCTCTTTGAGAACTG
1 TCCTGCTCTTTGAGGACTG
2427451 ATGGGTGAAA
Statistics
Matches: 702, Mismatches: 73, Indels: 55
0.85 0.09 0.07
Matches are distributed among these distances:
54 22 0.03
55 523 0.75
56 15 0.02
57 1 0.00
59 2 0.00
60 51 0.07
61 83 0.12
62 4 0.01
64 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:2428545 original size:1 final size:1
Alignment explanation
Indices: 2428541--2428588 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
2428531 CTTTGTCTTG
* ** * *
2428541 TTTTTTTTTTTGTTTTTTTTTTTTTGCTTTTGTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2428589 AGAAGAGAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:2428583 original size:26 final size:28
Alignment explanation
Indices: 2428524--2428588 Score: 89
Period size: 26 Copynumber: 2.4 Consensus size: 28
2428514 TCTTTTCTCT
* *
2428524 TTTTTTTCTTTGTCTTGTTTTTTTTTTTG
1 TTTTTTT-TTTGTCTTGCTTTTGTTTTTG
2428553 TTTTTTTTTT-T-TTGCTTTTGTTTTTG
1 TTTTTTTTTTGTCTTGCTTTTGTTTTTG
2428579 TTTTTTTTTT
1 TTTTTTTTTT
2428589 AGAAGAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 23 0.68
27 1 0.03
28 3 0.09
29 7 0.21
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (28 bp):
TTTTTTTTTTGTCTTGCTTTTGTTTTTG
Found at i:2439695 original size:52 final size:52
Alignment explanation
Indices: 2439615--2439734 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
2439605 AAAAGTTACT
* *
2439615 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
*
2439667 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
2439719 TGCATGTATCGATACA
1 TGCATGTATCGATACA
2439735 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Found at i:2439747 original size:52 final size:51
Alignment explanation
Indices: 2439615--2439754 Score: 201
Period size: 52 Copynumber: 2.7 Consensus size: 51
2439605 AAAAGTTACT
*
2439615 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGCC
* *
2439667 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGCC
*
2439719 TGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2439755 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGCC
Found at i:2439761 original size:13 final size:13
Alignment explanation
Indices: 2439743--2439767 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2439733 CAAAGATCAG
2439743 TGTATCGATACAA
1 TGTATCGATACAA
2439756 TGTATCGATACA
1 TGTATCGATACA
2439768 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2439845 original size:33 final size:33
Alignment explanation
Indices: 2439808--2439874 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2439798 AGTAGCTTAA
2439808 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2439841 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2439874 A
1 A
2439875 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2439848 original size:13 final size:13
Alignment explanation
Indices: 2439830--2439854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2439820 CAAAAAAATA
2439830 TGTATCGATACAT
1 TGTATCGATACAT
2439843 TGTATCGATACA
1 TGTATCGATACA
2439855 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2444678 original size:28 final size:28
Alignment explanation
Indices: 2444617--2444698 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
2444607 TGTTGGAGAT
* ***
2444617 AATAATGGGGTTGGAGTATCCCCTCGGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
*
2444645 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* * *
2444673 AATAACGAGGTTGGACTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
2444699 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:2444821 original size:51 final size:51
Alignment explanation
Indices: 2444756--2444918 Score: 204
Period size: 51 Copynumber: 3.2 Consensus size: 51
2444746 TCCTCAATTG
* * *
2444756 TGGAGAATTGGTGTTTTAGAAATAAAACTGGGGTTCGAGTATCCCCGATTT
1 TGGAAAATTGGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCGATTA
* * *
2444807 TGGAAAATTGGTG-TTTCGAAAGTAAAA-TCGGAGTTGGAGTATCCCCGATTG
1 TGGAAAATTGGTGTTTTAGAAA-TAAAACT-GGGGTTGGAGTATCCCCGATTA
* * *
2444858 TGGAAAATTAGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCGATTA
1 TGGAAAATTGGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCGATTA
*
2444909 TGAAAAATTG
1 TGGAAAATTG
2444919 AGAAACTTAA
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
50 8 0.08
51 80 0.84
52 7 0.07
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
TGGAAAATTGGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCGATTA
Found at i:2447301 original size:13 final size:12
Alignment explanation
Indices: 2447282--2447339 Score: 52
Period size: 13 Copynumber: 4.9 Consensus size: 12
2447272 ACAAAGATCG
2447282 ATGTATCGATAC
1 ATGTATCGATAC
2447294 AGTGTATCGATAC
1 A-TGTATCGATAC
*
2447307 AT-TCTAC-A-A-
1 ATGTAT-CGATAC
2447316 ATGTATCGATAC
1 ATGTATCGATAC
2447328 AATGTATCGATA
1 -ATGTATCGATA
2447340 TATTCTACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
9 3 0.08
10 4 0.11
11 4 0.11
12 3 0.08
13 23 0.62
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:2447325 original size:34 final size:34
Alignment explanation
Indices: 2447282--2447362 Score: 144
Period size: 34 Copynumber: 2.4 Consensus size: 34
2447272 ACAAAGATCG
*
2447282 ATGTATCGATACAGTGTATCGATACATTCTACAA
1 ATGTATCGATACAATGTATCGATACATTCTACAA
*
2447316 ATGTATCGATACAATGTATCGATATATTCTACAA
1 ATGTATCGATACAATGTATCGATACATTCTACAA
2447350 ATGTATCGATACA
1 ATGTATCGATACA
2447363 TTTCTTTGGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (34 bp):
ATGTATCGATACAATGTATCGATACATTCTACAA
Found at i:2447418 original size:19 final size:21
Alignment explanation
Indices: 2447394--2447445 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
2447384 AGCGATACAC
*
2447394 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
2447413 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
2447434 TGTATCGATACA
1 TGTATCGATACA
2447446 AATTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 5 0.17
21 13 0.43
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:2447757 original size:19 final size:19
Alignment explanation
Indices: 2447733--2447795 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
2447723 AGATGTCTAC
2447733 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
2447752 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
2447765 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
2447784 TGTATCGATACA
1 TGTATCGATACA
2447796 ATGTATCACT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:2447770 original size:13 final size:13
Alignment explanation
Indices: 2447752--2447776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2447742 ACATAAGTGT
2447752 TGTATCGATACAA
1 TGTATCGATACAA
2447765 TGTATCGATACA
1 TGTATCGATACA
2447777 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2447774 original size:32 final size:32
Alignment explanation
Indices: 2447733--2447802 Score: 140
Period size: 32 Copynumber: 2.2 Consensus size: 32
2447723 AGATGTCTAC
2447733 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2447765 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2447797 TGTATC
1 TGTATC
2447803 ACTACAAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2447865 original size:13 final size:13
Alignment explanation
Indices: 2447847--2447874 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2447837 CATTATTTAA
2447847 TGTATCGATACAT
1 TGTATCGATACAT
2447860 TGTATCGATACAT
1 TGTATCGATACAT
2447873 TG
1 TG
2447875 ATCTTTGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2447891 original size:33 final size:32
Alignment explanation
Indices: 2447827--2447892 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 32
2447817 GCCAAGGAAA
*
2447827 TGTATCGATACATTATTTAATGTATCGATACAT
1 TGTATCGATACATTATTT-ATGTATCAATACAT
*
2447860 TGTATCGATACATTGATCTT-TGTCTCAATACAT
1 TGTATCGATACATT-AT-TTATGTATCAATACAT
2447893 CTGGGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 25 0.86
34 2 0.07
35 2 0.07
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATTATTTATGTATCAATACAT
Found at i:2460646 original size:13 final size:13
Alignment explanation
Indices: 2460628--2460653 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2460618 ACACCAAAGT
2460628 ATGTATCGATACA
1 ATGTATCGATACA
2460641 ATGTATCGATACA
1 ATGTATCGATACA
2460654 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2460651 original size:33 final size:33
Alignment explanation
Indices: 2460609--2460673 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2460599 TAGCCAAACT
* *
2460609 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
2460642 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2460674 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2466844 original size:13 final size:13
Alignment explanation
Indices: 2466826--2466864 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2466816 ACATTTTTCT
2466826 TTGTATCGATACA
1 TTGTATCGATACA
2466839 TTGTATCGATACA
1 TTGTATCGATACA
*
2466852 CTGTATCGATACA
1 TTGTATCGATACA
2466865 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2467019 original size:20 final size:20
Alignment explanation
Indices: 2466976--2467021 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2466966 AAATCTTTTG
2466976 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2466997 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2467017 CAAAA
1 CAAAA
2467022 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2469452 original size:13 final size:13
Alignment explanation
Indices: 2469434--2469459 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2469424 ACACCAAAGT
2469434 ATGTATCGATACA
1 ATGTATCGATACA
2469447 ATGTATCGATACA
1 ATGTATCGATACA
2469460 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2469457 original size:33 final size:33
Alignment explanation
Indices: 2469415--2469479 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2469405 TAGCCAAACT
* *
2469415 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
2469448 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2469480 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2471828 original size:10 final size:10
Alignment explanation
Indices: 2471810--2471882 Score: 51
Period size: 10 Copynumber: 6.9 Consensus size: 10
2471800 CGTCCTCCAC
2471810 AAAAAAAAAG
1 AAAAAAAAAG
*
2471820 AAAAGAAAAG
1 AAAAAAAAAG
2471830 AAAGAAGAAAA-
1 AAA-AA-AAAAG
2471841 AAAACAAAAA-
1 AAAA-AAAAAG
*
2471851 AACAAAAAAAT
1 AA-AAAAAAAG
*
2471862 AACAAAATAAAC
1 AA-AAAA-AAAG
2471874 AAAAAAAAA
1 AAAAAAAAA
2471883 CAACAACAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
10 27 0.50
11 18 0.33
12 9 0.17
ACGTcount: A:0.85, C:0.05, G:0.07, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:2471842 original size:14 final size:12
Alignment explanation
Indices: 2471810--2471881 Score: 56
Period size: 12 Copynumber: 5.8 Consensus size: 12
2471800 CGTCCTCCAC
2471810 AAAAAAAAAGAA
1 AAAAAAAAAGAA
2471822 AAGAAAAGAAAGAA
1 AA-AAAA-AAAGAA
* *
2471836 GAAAAAAAACAA
1 AAAAAAAAAGAA
2471848 AAAAACAAAA-AA
1 AAAAA-AAAAGAA
* * *
2471860 ATAACAAAATAA
1 AAAAAAAAAGAA
2471872 ACAAAAAAAA
1 A-AAAAAAAA
2471882 ACAACAACAA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
11 4 0.08
12 19 0.40
13 18 0.38
14 7 0.15
ACGTcount: A:0.85, C:0.06, G:0.07, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:2471849 original size:9 final size:9
Alignment explanation
Indices: 2471837--2471881 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
2471827 AAGAAAGAAG
2471837 AAAAAAAAC
1 AAAAAAAAC
2471846 -AAAAAAAC
1 AAAAAAAAC
2471854 AAAAAAATAAC
1 -AAAAAA-AAC
*
2471865 AAAATAAAC
1 AAAAAAAAC
2471874 AAAAAAAA
1 AAAAAAAA
2471882 ACAACAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
8 8 0.26
9 10 0.32
10 10 0.32
11 3 0.10
ACGTcount: A:0.87, C:0.09, G:0.00, T:0.04
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:2471851 original size:8 final size:8
Alignment explanation
Indices: 2471838--2471894 Score: 53
Period size: 8 Copynumber: 6.9 Consensus size: 8
2471828 AGAAAGAAGA
2471838 AAAAAAAC
1 AAAAAAAC
2471846 AAAAAAAC
1 AAAAAAAC
*
2471854 AAAAAAAT
1 AAAAAAAC
* *
2471862 AACAAAAT
1 AAAAAAAC
2471870 AAACAAAA-
1 AAA-AAAAC
2471878 AAAAACAAC
1 AAAAA-AAC
2471887 AACAAAAA
1 AA-AAAAA
2471895 GGGTCCGGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
7 2 0.05
8 29 0.69
9 8 0.19
10 3 0.07
ACGTcount: A:0.84, C:0.12, G:0.00, T:0.04
Consensus pattern (8 bp):
AAAAAAAC
Found at i:2471851 original size:28 final size:28
Alignment explanation
Indices: 2471810--2471880 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
2471800 CGTCCTCCAC
* * *
2471810 AAAAAAA-AAGAAAAGAAAAGAAAGAAGA
1 AAAAAAACAAAAAAACAAAA-AAAGAACA
*
2471838 AAAAAAACAAAAAAACAAAAAAATAACA
1 AAAAAAACAAAAAAACAAAAAAAGAACA
*
2471866 AAATAAACAAAAAAA
1 AAAAAAACAAAAAAA
2471881 AACAACAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 27 0.73
29 10 0.27
ACGTcount: A:0.85, C:0.06, G:0.07, T:0.03
Consensus pattern (28 bp):
AAAAAAACAAAAAAACAAAAAAAGAACA
Found at i:2471877 original size:25 final size:24
Alignment explanation
Indices: 2471841--2471893 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
2471831 AAGAAGAAAA
*
2471841 AAAACAAAAAAACAAAAA-AATAAC
1 AAAACAAAAAAA-AAAAACAACAAC
*
2471865 AAAATAAACAAAAAAAAACAACAAC
1 AAAACAAA-AAAAAAAAACAACAAC
2471890 AAAA
1 AAAA
2471894 AGGGTCCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.83, C:0.13, G:0.00, T:0.04
Consensus pattern (24 bp):
AAAACAAAAAAAAAAAACAACAAC
Found at i:2471884 original size:19 final size:18
Alignment explanation
Indices: 2471837--2471885 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 18
2471827 AAGAAAGAAG
2471837 AAAAAAAACAAAAAAACA
1 AAAAAAAACAAAAAAACA
2471855 AAAAAATAACAAAATAAACA
1 AAAAAA-AACAAAA-AAACA
2471875 AAAAAAAACAA
1 AAAAAAAACAA
2471886 CAACAAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.21
19 12 0.41
20 11 0.38
ACGTcount: A:0.86, C:0.10, G:0.00, T:0.04
Consensus pattern (18 bp):
AAAAAAAACAAAAAAACA
Found at i:2473340 original size:28 final size:28
Alignment explanation
Indices: 2473302--2473455 Score: 166
Period size: 28 Copynumber: 5.4 Consensus size: 28
2473292 CATCTTTTCC
2473302 AAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * **
2473330 AAAGCCCACAAGTTAGTGGCACCCTTTTTT
1 AAAGCCCACAAGTCAGTGGCAACC--TTCA
* * *
2473360 AAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
2473389 AAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* **
2473417 AAAGCACACAAGTTGGT-GCAACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCAA-CC-TTCA
2473446 AAAGCCCACA
1 AAAGCCCACA
2473456 CAAGTTGGTG
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
27 4 0.04
28 42 0.40
29 36 0.35
30 22 0.21
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:2473409 original size:59 final size:58
Alignment explanation
Indices: 2473302--2473414 Score: 172
Period size: 59 Copynumber: 1.9 Consensus size: 58
2473292 CATCTTTTCC
* *
2473302 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTTT
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTTTTT
* * *
2473360 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTT
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCAACCTT
2473415 CAAAAGCACA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 21 0.43
59 28 0.57
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (58 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTTTTT
Found at i:2473535 original size:49 final size:49
Alignment explanation
Indices: 2473482--2473842 Score: 338
Period size: 49 Copynumber: 7.6 Consensus size: 49
2473472 TCTTCTAAAA
* *
2473482 CCAATGTCGCTGGCCTTGAATTAGCACATCGGCATCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * * *
2473531 CCAATATCGTTGGCCTTGAATCAGCATATTGGCA----C--CTTTAA-A
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
2473573 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* *
2473622 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * * * *
2473665 CCAATGTCACCGGCCTTGAATCAGCACATTGGTATCTTTATCTTTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * * * * * * *
2473714 CCGATATCGTTGGCCTTGAATTAGCATATTGGCATCTTTAACATTCCTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC-TT--TAAGT
** * *
2473766 CCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * *
2473813 CTAATGTCGCTAGCCATGAATCAGCACATT
1 CCAATGTCGCTGGCCTTGAATCAGCACATT
2473843 ATCATTCTTC
Statistics
Matches: 251, Mismatches: 45, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
42 31 0.12
43 43 0.17
45 2 0.01
46 1 0.00
47 28 0.11
48 6 0.02
49 103 0.41
50 5 0.02
52 32 0.13
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
Found at i:2473636 original size:91 final size:91
Alignment explanation
Indices: 2473479--2473754 Score: 435
Period size: 91 Copynumber: 3.0 Consensus size: 91
2473469 TATTCTTCTA
* *
2473479 AAACCAATGTCGCTGGCCTTGAATTAGCACATCGGCATCTTCATCTTTAAGTCCAATATCGTTGG
1 AAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGTTGG
2473544 CCTTGAATCAGCATATTGGCACCTTT
66 CCTTGAATCAGCATATTGGCACCTTT
*
2473570 AAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCTGG
1 AAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGTTGG
2473635 CCTTGAATCAGCATATTGGCACCTTT
66 CCTTGAATCAGCATATTGGCACCTTT
* * * * * * *
2473661 AAGTCCAATGTCACCGGCCTTGAATCAGCACATTGGTATCTTTATCTTTAAGCCCGATATCGTTG
1 AA-ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGTTG
* *
2473726 GCCTTGAATTAGCATATTGGCATCTTT
65 GCCTTGAATCAGCATATTGGCACCTTT
2473753 AA
1 AA
2473755 CATTCCTAAG
Statistics
Matches: 171, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 90 0.53
92 81 0.47
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (91 bp):
AAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGTTGG
CCTTGAATCAGCATATTGGCACCTTT
Found at i:2473680 original size:43 final size:43
Alignment explanation
Indices: 2473523--2473696 Score: 179
Period size: 43 Copynumber: 3.9 Consensus size: 43
2473513 GCATCTTCAT
*** *
2473523 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATCACCGGCCTTGAATCAGCACATTGGCAC
* * * *
2473566 CTTTAA-ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTC
1 CTTTAAGTCCAATATCACCGGCCTTGAATCAGCACATTGGCA----C
* * *
2473612 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 --CTTTAAGTCCAATATCACCGGCCTTGAATCAGCACATTGGCAC
*
2473657 CTTTAAGTCCAATGTCACCGGCCTTGAATCAGCACATTGG
1 CTTTAAGTCCAATATCACCGGCCTTGAATCAGCACATTGG
2473697 TATCTTTATC
Statistics
Matches: 113, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
42 31 0.27
43 42 0.37
45 1 0.01
46 1 0.01
48 6 0.05
49 32 0.28
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATATCACCGGCCTTGAATCAGCACATTGGCAC
Found at i:2474519 original size:21 final size:20
Alignment explanation
Indices: 2474491--2474529 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
2474481 CACAGTTTTG
2474491 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
2474511 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
2474530 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:2474612 original size:19 final size:19
Alignment explanation
Indices: 2474588--2474650 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
2474578 AAATAGTAAA
*
2474588 TGTATCAATACATAAGTGT
1 TGTATCGATACATAAGTGT
2474607 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
2474620 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
2474639 TGTATCGATACA
1 TGTATCGATACA
2474651 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:2474625 original size:13 final size:13
Alignment explanation
Indices: 2474607--2474664 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
2474597 ACATAAGTGT
2474607 TGTATCGATACAA
1 TGTATCGATACAA
2474620 TGTATCGATACATAA
1 TGTATCGATAC--AA
2474635 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
2474652 TGTATCGCTACAA
1 TGTATCGATACAA
2474665 AGCTACTACC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2474631 original size:32 final size:32
Alignment explanation
Indices: 2474586--2474663 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
2474576 ACAAATAGTA
*
2474586 AATGTATCAATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
2474618 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
2474650 AATGTATCGCTACA
1 AATGTATCGATACA
2474664 AAGCTACTAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:2474705 original size:20 final size:20
Alignment explanation
Indices: 2474680--2474754 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
2474670 CTACCGAGGA
2474680 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
2474700 AATGTATCGATACATTGA-TC
1 AATGTATCGATACATT-ATTC
** *
2474720 TTTGTATCGATACATCATTC
1 AATGTATCGATACATTATTC
2474740 AATGTATCGATACAT
1 AATGTATCGATACAT
2474755 GCAGGCAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:2481056 original size:10 final size:10
Alignment explanation
Indices: 2481041--2481089 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
2481031 TTCTAACTAG
2481041 TTTTTCTATT
1 TTTTTCTATT
2481051 TTTTTCT-TT
1 TTTTTCTATT
*
2481060 TTTCTTCTCTT
1 TTT-TTCTATT
*
2481071 TTTTTCTCTCT
1 TTTTTCTAT-T
2481082 TTTTTCTA
1 TTTTTCTA
2481090 ACTTGCCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
9 5 0.14
10 17 0.49
11 13 0.37
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTCTATT
Found at i:2481072 original size:12 final size:13
Alignment explanation
Indices: 2481055--2481088 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
2481045 TCTATTTTTT
2481055 TCTTTTTTCT-TC
1 TCTTTTTTCTCTC
2481067 TCTTTTTT-TCTC
1 TCTTTTTTCTCTC
2481079 TCTTTTTTCT
1 TCTTTTTTCT
2481089 AACTTGCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.05
12 18 0.90
13 1 0.05
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TCTTTTTTCTCTC
Found at i:2484331 original size:40 final size:40
Alignment explanation
Indices: 2484265--2484545 Score: 224
Period size: 40 Copynumber: 7.0 Consensus size: 40
2484255 GTTTTATCCT
* * *
2484265 AGTCAACTCTTT-TCATTTGTTAACTTATTGGTTTCATCCC
1 AGTCAACT-TTTCTCATTTATTGACTTATTGGTTTCATCTC
* * * *
2484305 AGTTAATTTTTCTCATTTATTGACTTATAGGTTTTATCTC
1 AGTCAACTTTTCTCATTTATTGACTTATTGGTTTCATCTC
* * * *
2484345 AGTCAACTTTTCTCAGTTTTTTGACTTTTTGGTTTCGTCTT
1 AGTCAACTTTTCTCA-TTTATTGACTTATTGGTTTCATCTC
* * * * * *
2484386 GGTCAGCTTTTCTCATTTGTTAACTTGTTGGTTTCGTCTC
1 AGTCAACTTTTCTCATTTATTGACTTATTGGTTTCATCTC
* ** * ** * *
2484426 GGTCAACCCTTCTCATTCATTGACTTATAAGTTTTATCCC
1 AGTCAACTTTTCTCATTTATTGACTTATTGGTTTCATCTC
* * * *
2484466 AATCAATTTTTCTC-TTTCATTGACTTGTTGGTTTCATCCC
1 AGTCAACTTTTCTCATTT-ATTGACTTATTGGTTTCATCTC
* * * *
2484506 AATCAACTCTTCTCATTTTTTGACTTCTTGGTTTCATCTC
1 AGTCAACTTTTCTCATTTATTGACTTATTGGTTTCATCTC
2484546 GATTAATTTT
Statistics
Matches: 189, Mismatches: 48, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
39 5 0.03
40 149 0.79
41 35 0.19
ACGTcount: A:0.17, C:0.21, G:0.12, T:0.50
Consensus pattern (40 bp):
AGTCAACTTTTCTCATTTATTGACTTATTGGTTTCATCTC
Found at i:2484460 original size:121 final size:120
Alignment explanation
Indices: 2484277--2484500 Score: 288
Period size: 121 Copynumber: 1.9 Consensus size: 120
2484267 TCAACTCTTT
* *** * *
2484277 TCATTTGTTAACTTATTGGTTTCATCCCAGTTAATTTTTCTCATTTATTGACTTATAGGTTTTAT
1 TCATTTGTTAACTTATTGGTTTCATCCCAGTCAACCCTTCTCATTCATTGACTTATAAGTTTTAT
* * * *
2484342 CTCAGTCAACTTTTCTCAGTTT-TTTGACTTTTTGGTTTCGTCTTGGTCAGCTTTTC
66 CCCAATCAACTTTTCTC--TTTCATTGACTTGTTGGTTTCGTCTTGGTCAGCTTTTC
* * * *
2484398 TCATTTGTTAACTTGTTGGTTTCGTCTCGGTCAACCCTTCTCATTCATTGACTTATAAGTTTTAT
1 TCATTTGTTAACTTATTGGTTTCATCCCAGTCAACCCTTCTCATTCATTGACTTATAAGTTTTAT
*
2484463 CCCAATCAATTTTTCTCTTTCATTGACTTGTTGGTTTC
66 CCCAATCAACTTTTCTCTTTCATTGACTTGTTGGTTTC
2484501 ATCCCAATCA
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
119 3 0.03
120 15 0.17
121 69 0.79
ACGTcount: A:0.17, C:0.19, G:0.13, T:0.51
Consensus pattern (120 bp):
TCATTTGTTAACTTATTGGTTTCATCCCAGTCAACCCTTCTCATTCATTGACTTATAAGTTTTAT
CCCAATCAACTTTTCTCTTTCATTGACTTGTTGGTTTCGTCTTGGTCAGCTTTTC
Found at i:2484546 original size:120 final size:120
Alignment explanation
Indices: 2484241--2484701 Score: 372
Period size: 120 Copynumber: 3.8 Consensus size: 120
2484231 CGTTTTTACA
** * * * * * *
2484241 TCATTGACTTGTCAGTTTTATCCTAGTCAACTCTTTTCATTTGTTAACTTATTGGTTTCATCCCA
1 TCATTGACTTGTTGGTTTCATCCCAGTCAACTCTTCTCATTTGTTAACTTGTTGGTTTCATCTCG
* * * * * *
2484306 GTTAATTTTTCTCATTTATTGACTTATAGGTTTTATCTCAGTCAACTTTTCTCAGTT
66 GTCAACTCTTCTCATTCATTGACTTATAAGTTTTATCTCAATCAACTTTTCTC--TT
* * * *** * * *
2484363 T-TTTGACTTTTTGGTTTCGTCTTGGTCAGCTTTTCTCATTTGTTAACTTGTTGGTTTCGTCTCG
1 TCATTGACTTGTTGGTTTCATCCCAGTCAACTCTTCTCATTTGTTAACTTGTTGGTTTCATCTCG
* * *
2484427 GTCAACCCTTCTCATTCATTGACTTATAAGTTTTATCCCAATCAATTTTTCTCTT
66 GTCAACTCTTCTCATTCATTGACTTATAAGTTTTATCTCAATCAACTTTTCTCTT
* * * *
2484482 TCATTGACTTGTTGGTTTCATCCCAATCAACTCTTCTCATTTTTTGACTTCTTGGTTTCATCTCG
1 TCATTGACTTGTTGGTTTCATCCCAGTCAACTCTTCTCATTTGTTAACTTGTTGGTTTCATCTCG
* * * * * * * * *
2484547 ATTAATTTTTTTCATTCGTTGACTTATCAA-TTATATCTCGATCAACTATTCT-TAT
66 GTCAACTCTTCTCATTCATTGACTTAT-AAGTTTTATCTCAATCAACTTTTCTCT-T
* * * * * * ** * **
2484602 TCGTTAACTTGTTGGTTTCATCTCGGTCAACTCTTTTTATTCATTGACTTGTCAGTTTCATC-CT
1 TCATTGACTTGTTGGTTTCATCCCAGTCAACTCTTCTCATTTGTTAACTTGTTGGTTTCATCTC-
* * *
2484666 GGTCATCTCTTCTCATTCATTGACTTGTATGTTTTA
65 GGTCAACTCTTCTCATTCATTGACTTATAAGTTTTA
2484702 ACTTGGAGGT
Statistics
Matches: 263, Mismatches: 71, Indels: 12
0.76 0.21 0.03
Matches are distributed among these distances:
119 6 0.02
120 162 0.62
121 94 0.36
122 1 0.00
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.50
Consensus pattern (120 bp):
TCATTGACTTGTTGGTTTCATCCCAGTCAACTCTTCTCATTTGTTAACTTGTTGGTTTCATCTCG
GTCAACTCTTCTCATTCATTGACTTATAAGTTTTATCTCAATCAACTTTTCTCTT
Found at i:2484554 original size:80 final size:81
Alignment explanation
Indices: 2484241--2484571 Score: 267
Period size: 80 Copynumber: 4.1 Consensus size: 81
2484231 CGTTTTTACA
** * * * * * *
2484241 TCATTGACTTGTCAGTTTTATCCTAGTCAACTCTTTTCATTTGTTAACTTATTGGTTTCATC-CC
1 TCATTGACTTGTTGGTTTCATCCCAGTCAACTCTTCTCATTTTTTGACTTATTGGTTTCATCTCG
*
2484305 AGTTAATTTTTCTCATT
66 A-TCAATTTTTCTCATT
* * * * * * * *
2484322 T-ATTGACTTATAGGTTTTATCTCAGTCAACTTTTCTCAGTTTTTTGACTTTTTGGTTTCGTCTT
1 TCATTGACTTGTTGGTTTCATCCCAGTCAACTCTTCTCA-TTTTTTGACTTATTGGTTTCATCTC
* **
2484386 GGTCAGCTTTTCTCATT
65 GATCAATTTTTCTCATT
* * * * * * ** ** * * *
2484403 T-GTTAACTTGTTGGTTTCGTCTCGGTCAACCCTTCTCATTCATTGACTTATAAGTTTTATCCCA
1 TCATTGACTTGTTGGTTTCATCCCAGTCAACTCTTCTCATTTTTTGACTTATTGGTTTCATCTCG
2484467 ATCAATTTTTCTC-TT
66 ATCAATTTTTCTCATT
* *
2484482 TCATTGACTTGTTGGTTTCATCCCAATCAACTCTTCTCATTTTTTGACTTCTTGGTTTCATCTCG
1 TCATTGACTTGTTGGTTTCATCCCAGTCAACTCTTCTCATTTTTTGACTTATTGGTTTCATCTCG
* *
2484547 ATTAATTTTTTTCA-T
66 ATCAATTTTTCTCATT
*
2484562 TCGTTGACTT
1 TCATTGACTT
2484572 ATCAATTATA
Statistics
Matches: 189, Mismatches: 57, Indels: 9
0.74 0.22 0.04
Matches are distributed among these distances:
79 3 0.02
80 125 0.66
81 61 0.32
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.50
Consensus pattern (81 bp):
TCATTGACTTGTTGGTTTCATCCCAGTCAACTCTTCTCATTTTTTGACTTATTGGTTTCATCTCG
ATCAATTTTTCTCATT
Found at i:2484692 original size:40 final size:40
Alignment explanation
Indices: 2484241--2484693 Score: 185
Period size: 40 Copynumber: 11.3 Consensus size: 40
2484231 CGTTTTTACA
* * *
2484241 TCATTGACTTGTCAGTTTTATC-CTAGTCAACTCTTTTCAT
1 TCATTGACTTGTCAGTTTCATCTC-GGTCAACTCTTCTCAT
** * * ** * * * * *
2484281 TTGTTAACTTATTGGTTTCATCCCAGTTAATTTTTCTCAT
1 TCATTGACTTGTCAGTTTCATCTCGGTCAACTCTTCTCAT
* * * * *
2484321 TTATTGACTTAT-AGGTTTTATCTCAGTCAACTTTTCTCAGT
1 TCATTGACTTGTCA-GTTTCATCTCGGTCAACTCTTCTCA-T
** * ** * * * *
2484362 TTTTTGACTTTTTGGTTTCGTCTTGGTCAGCTTTTCTCAT
1 TCATTGACTTGTCAGTTTCATCTCGGTCAACTCTTCTCAT
** * ** * *
2484402 TTGTTAACTTGTTGGTTTCGTCTCGGTCAACCCTTCTCAT
1 TCATTGACTTGTCAGTTTCATCTCGGTCAACTCTTCTCAT
* * * * ** * * *
2484442 TCATTGACTTATAAGTTTTATCCCAATCAATTTTTCTCTT
1 TCATTGACTTGTCAGTTTCATCTCGGTCAACTCTTCTCAT
** * **
2484482 TCATTGACTTGTTGGTTTCATCCCAATCAACTCTTCTCAT
1 TCATTGACTTGTCAGTTTCATCTCGGTCAACTCTTCTCAT
** * ** * * * * *
2484522 TTTTTGACTTCTTGGTTTCATCTCGATTAATTTTTTTCAT
1 TCATTGACTTGTCAGTTTCATCTCGGTCAACTCTTCTCAT
* * * * * *
2484562 TCGTTGACTTATCAATTAT-ATCTCGATCAACTATTCTTAT
1 TCATTGACTTGTCAGTT-TCATCTCGGTCAACTCTTCTCAT
* * ** * *
2484602 TCGTTAACTTGTTGGTTTCATCTCGGTCAACTCTTTTTAT
1 TCATTGACTTGTCAGTTTCATCTCGGTCAACTCTTCTCAT
*
2484642 TCATTGACTTGTCAGTTTCATC-CTGGTCATCTCTTCTCAT
1 TCATTGACTTGTCAGTTTCATCTC-GGTCAACTCTTCTCAT
2484682 TCATTGACTTGT
1 TCATTGACTTGT
2484694 ATGTTTTAAC
Statistics
Matches: 316, Mismatches: 90, Indels: 14
0.75 0.21 0.03
Matches are distributed among these distances:
39 2 0.01
40 281 0.89
41 33 0.10
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.49
Consensus pattern (40 bp):
TCATTGACTTGTCAGTTTCATCTCGGTCAACTCTTCTCAT
Found at i:2484692 original size:80 final size:80
Alignment explanation
Indices: 2484233--2484693 Score: 235
Period size: 80 Copynumber: 5.8 Consensus size: 80
2484223 ATATCAAACG
* * ** * *
2484233 TTTTTACA-TCATTGACTTGTCAGTTTTATCCT-AGTCAACTCTTTTCATTTGTTAACTTATTGG
1 TTTTT-CATTCATTGACTTGTCAGTTTCATCCTGA-TCAACTCTTCTCATTCATTGACTTGTTGG
* *
2484296 TTTCATC-CCAGTTAAT-
64 TTTCATCTCGA-TCAATC
* * * * * ** *
2484312 TTTTCTCATTTATTGACTTAT-AGGTTTTAT-CTCAGTCAACTTTTCTCAGTTTTTTGACTTTTT
1 TTTT-TCATTCATTGACTTGTCA-GTTTCATCCTGA-TCAACTCTTCTCA-TTCATTGACTTGTT
* * * *
2484375 GGTTTCGTCTTGGTC-AGC
62 GGTTTCATCTCGATCAATC
** * ** * * * * **
2484393 TTTTCTCATTTGTTAACTTGTTGGTTTCGT-CTCGGTCAACCCTTCTCATTCATTGACTTATAAG
1 TTTT-TCATTCATTGACTTGTCAGTTTCATCCT-GATCAACTCTTCTCATTCATTGACTTGTTGG
* * *
2484457 TTTTATCCCAATCAAT-
64 TTTCATCTCGATCAATC
* ** ** ** *
2484473 TTTTCTCTTTCATTGACTTGTTGGTTTCATCCCAATCAACTCTTCTCATTTTTTGACTTCTTGGT
1 TTTT-TCATTCATTGACTTGTCAGTTTCATCCTGATCAACTCTTCTCATTCATTGACTTGTTGGT
* *
2484538 TTCATCTCGATTAATT
65 TTCATCTCGATCAATC
* * * * * * *
2484554 TTTTTCATTCGTTGACTTATCAATTAT-AT-CTCGATCAACTATTCTTATTCGTTAACTTGTTGG
1 TTTTTCATTCATTGACTTGTCAGTT-TCATCCT-GATCAACTCTTCTCATTCATTGACTTGTTGG
*
2484617 TTTCATCTCGGTCAACTC
64 TTTCATCTCGATCAA-TC
* *
2484635 TTTTT-ATTCATTGACTTGTCAGTTTCATCCTGGTCATCTCTTCTCATTCATTGACTTGT
1 TTTTTCATTCATTGACTTGTCAGTTTCATCCTGATCAACTCTTCTCATTCATTGACTTGT
2484694 ATGTTTTAAC
Statistics
Matches: 286, Mismatches: 79, Indels: 33
0.72 0.20 0.08
Matches are distributed among these distances:
79 11 0.04
80 204 0.71
81 71 0.25
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (80 bp):
TTTTTCATTCATTGACTTGTCAGTTTCATCCTGATCAACTCTTCTCATTCATTGACTTGTTGGTT
TCATCTCGATCAATC
Found at i:2484862 original size:40 final size:40
Alignment explanation
Indices: 2484782--2484867 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
2484772 TCATTCATTA
* * * * *
2484782 ACTTATTGGTTTTATCCCGGTCAACCTTTCTTATTTGTTG
1 ACTTATTGGTTTCATCCCAGCCAACCTTTCTCATTGGTTG
*
2484822 ACTTATTGGTTTCATCCTAGCCAA-CTCTTCTCATTGGTTG
1 ACTTATTGGTTTCATCCCAGCCAACCT-TTCTCATTGGTTG
2484862 ACTTAT
1 ACTTAT
2484868 ATGTTTTGAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 37 0.95
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.47
Consensus pattern (40 bp):
ACTTATTGGTTTCATCCCAGCCAACCTTTCTCATTGGTTG
Found at i:2484873 original size:174 final size:174
Alignment explanation
Indices: 2484564--2485013 Score: 553
Period size: 174 Copynumber: 2.6 Consensus size: 174
2484554 TTTTTCATTC
* * * * * * *
2484564 GTTGACTTATCAATTATATCTCGATCAACTATTCTT-ATTCGTTAACTTGTTGGTTTCATCTCGG
1 GTTGAATTGTCAATTTTATCTCGATCAACT-TTTTTCATTCATTAACTTGTTGGTTTTATCCCGG
** * * * *
2484628 TCAACTCTTT-TTATTCATTGACTTGTCAGTTTCATCCTGGTCATCTCTTCTCATTCATTGACTT
65 TCAAC-CTTTCTTATTTGTTGACTTGTCGGTTTCATCCTAGCCAACTCTTCTCATTCATTGACTT
* *
2484692 GTATGTTTTAACTTGGAGGTTTTGTCCCAATCAACTTTTCTCACTT
129 ATATGTTTTAACTTAGAGGTTTTGTCCCAATCAACTTTTCTCACTT
* *
2484738 GTTGAATTGTCAATTTTGTCTCGATCAACTTTTTTCATTCATTAACTTATTGGTTTTATCCCGGT
1 GTTGAATTGTCAATTTTATCTCGATCAACTTTTTTCATTCATTAACTTGTTGGTTTTATCCCGGT
* * **
2484803 CAACCTTTCTTATTTGTTGACTTATTGGTTTCATCCTAGCCAACTCTTCTCATTGGTTGACTTAT
66 CAACCTTTCTTATTTGTTGACTTGTCGGTTTCATCCTAGCCAACTCTTCTCATTCATTGACTTAT
* * *
2484868 ATGTTTTGACTTATAGGTTTTGTCCCAGTCAACTTTTCTCACTT
131 ATGTTTTAACTTAGAGGTTTTGTCCCAATCAACTTTTCTCACTT
* * * * * * * * *
2484912 GTTAAATTGTCAGTTTTCTCCCGATTAACTTTTTTCATTCATTATCTTGTTTGTTTTATCCTGAT
1 GTTGAATTGTCAATTTTATCTCGATCAACTTTTTTCATTCATTAACTTGTTGGTTTTATCCCGGT
* *
2484977 CAACTTTTCTTGTTTGTTGACTTGTCGGTTTCATCCT
66 CAACCTTTCTTATTTGTTGACTTGTCGGTTTCATCCT
2485014 GGTCAACTTT
Statistics
Matches: 236, Mismatches: 38, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
173 8 0.03
174 228 0.97
ACGTcount: A:0.18, C:0.20, G:0.13, T:0.48
Consensus pattern (174 bp):
GTTGAATTGTCAATTTTATCTCGATCAACTTTTTTCATTCATTAACTTGTTGGTTTTATCCCGGT
CAACCTTTCTTATTTGTTGACTTGTCGGTTTCATCCTAGCCAACTCTTCTCATTCATTGACTTAT
ATGTTTTAACTTAGAGGTTTTGTCCCAATCAACTTTTCTCACTT
Found at i:2484878 original size:14 final size:14
Alignment explanation
Indices: 2484859--2484889 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2484849 TTCTCATTGG
*
2484859 TTGACTTATATGTT
1 TTGACTTATAGGTT
2484873 TTGACTTATAGGTT
1 TTGACTTATAGGTT
2484887 TTG
1 TTG
2484890 TCCCAGTCAA
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:0.19, C:0.06, G:0.19, T:0.55
Consensus pattern (14 bp):
TTGACTTATAGGTT
Found at i:2485033 original size:40 final size:40
Alignment explanation
Indices: 2484938--2485202 Score: 125
Period size: 40 Copynumber: 6.6 Consensus size: 40
2484928 TCTCCCGATT
* ** *
2484938 AACTTTTTTCATTCATT-ATCTTGTTTGTTTTATCCTGATC
1 AACTTTTTTCATTCGTTGA-CTTGTCGGTTTCATCCTGATC
* * *
2484978 AACTTTTCTT-GTTTGTTGACTTGTCGGTTTCATCCTGGTC
1 AACTTTT-TTCATTCGTTGACTTGTCGGTTTCATCCTGATC
* * * * *
2485018 AACTTTTTTCATTTGTT-AATT-TACAGGTTTTAT-CTCGGTT
1 AACTTTTTTCATTCGTTGACTTGT-C-GGTTTCATCCT-GATC
* * * * * *
2485058 AACCTTTTTCATTCATTGACTTGTCAGTTTCGTCTTTATC
1 AACTTTTTTCATTCGTTGACTTGTCGGTTTCATCCTGATC
* * * * *
2485098 AACCTTTCTCATAT-GTTGACCTATCGGTTTCATCAC-GGTC
1 AACTTTTTTCAT-TCGTTGACTTGTCGGTTTCATC-CTGATC
* * * *
2485138 AA-TTCTTTTCATTCATTAACTTGTAGATTTCAT-CTCGATC
1 AACTT-TTTTCATTCGTTGACTTGTCGGTTTCATCCT-GATC
* *
2485178 AACTTTTCTCATTCGTTAACTTGTC
1 AACTTTTTTCATTCGTTGACTTGTC
2485203 AATTTTGTTT
Statistics
Matches: 166, Mismatches: 43, Indels: 32
0.69 0.18 0.13
Matches are distributed among these distances:
38 2 0.01
39 10 0.06
40 142 0.86
41 11 0.07
42 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.49
Consensus pattern (40 bp):
AACTTTTTTCATTCGTTGACTTGTCGGTTTCATCCTGATC
Done.