Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 174 of 433
Found at i:54248254 original size:42 final size:40
Alignment explanation
Indices: 54248095--54248256 Score: 155
Period size: 42 Copynumber: 3.9 Consensus size: 40
54248085 ATGAGTTCAT
* * **
54248095 GTGTAAGACCAAATCTGGAATATGGCATCATTATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGGTATGAGA--TC
* * * *
54248137 GTGTAGGACCATGTCTGGGACATGGCATCGATATGAGAATC
1 GTGTAAGACCATATCTGGGATATGGCATCGGTATGAG-ATC
*
54248178 GTGTAAGACCATAGT-TGGGCTATTGGCATCGGTATGAGATCCC
1 GTGTAAGACCATA-TCTGGGATA-TGGCATCGGTATGAGAT--C
* *
54248221 ATGTAAGACCATATCTGGGATATGGCATTGGTATGA
1 GTGTAAGACCATATCTGGGATATGGCATCGGTATGA
54248257 TTCTATGTGT
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
41 20 0.20
42 59 0.60
43 20 0.20
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (40 bp):
GTGTAAGACCATATCTGGGATATGGCATCGGTATGAGATC
Found at i:54251940 original size:43 final size:41
Alignment explanation
Indices: 54251885--54252041 Score: 120
Period size: 41 Copynumber: 3.7 Consensus size: 41
54251875 ATATCGAACA
* * *
54251885 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCTCA-TATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATG-AATC-AATTA-CG
* *
54251928 ATGCCATTGTCCCAGATAG-GGTCTTACATGAATCAATTACG
1 ATGCCAATGTCCCAGA-CGTGGTCTTACATGAATCAATTACG
* *
54251969 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATG-AATCA-AT-TA-CG
* *** *
54252014 ATACCAGCATCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
54252042 CGAAAACACA
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
41 28 0.30
42 10 0.11
43 27 0.29
44 3 0.03
45 26 0.28
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGAATCAATTACG
Found at i:54257323 original size:17 final size:19
Alignment explanation
Indices: 54257296--54257334 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
54257286 AAACTGATTT
54257296 GGGCTGTGTGGG-CCACAC
1 GGGCTGTGTGGGTCCACAC
54257314 GGGC-GTGTGGGTCCACAC
1 GGGCTGTGTGGGTCCACAC
54257332 GGG
1 GGG
54257335 TAAACCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.10, C:0.26, G:0.49, T:0.15
Consensus pattern (19 bp):
GGGCTGTGTGGGTCCACAC
Found at i:54270773 original size:24 final size:24
Alignment explanation
Indices: 54270746--54270828 Score: 67
Period size: 24 Copynumber: 3.5 Consensus size: 24
54270736 TATCGTTGTA
54270746 GTCAAGCCACTAAATAATGTTTTG
1 GTCAAGCCACTAAATAATGTTTTG
* * * * *
54270770 GTCAAGCTACTATATATTGTTGTA
1 GTCAAGCCACTAAATAATGTTTTG
* * * **
54270794 GTCAAGTCATTGAATAACATTTTG
1 GTCAAGCCACTAAATAATGTTTTG
*
54270818 GTCGAGCCACT
1 GTCAAGCCACT
54270829 TTCTATTGTA
Statistics
Matches: 41, Mismatches: 18, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (24 bp):
GTCAAGCCACTAAATAATGTTTTG
Found at i:54270810 original size:48 final size:48
Alignment explanation
Indices: 54270714--54270828 Score: 131
Period size: 48 Copynumber: 2.4 Consensus size: 48
54270704 ATAACACACC
* * *
54270714 ATGTTGTGGACAAGCCACTGTATATCGTTGTAGTCAAGCCACTAAATA
1 ATGTTTTGGTCAAGCCACTATATATCGTTGTAGTCAAGCCACTAAATA
* * * * *
54270762 ATGTTTTGGTCAAGCTACTATATATTGTTGTAGTCAAGTCATTGAATA
1 ATGTTTTGGTCAAGCCACTATATATCGTTGTAGTCAAGCCACTAAATA
** *
54270810 ACATTTTGGTCGAGCCACT
1 ATGTTTTGGTCAAGCCACT
54270829 TTCTATTGTA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (48 bp):
ATGTTTTGGTCAAGCCACTATATATCGTTGTAGTCAAGCCACTAAATA
Found at i:54286347 original size:28 final size:28
Alignment explanation
Indices: 54286329--54286405 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 28
54286319 TGGCCCATTT
*
54286329 GGCCCAATCTCATTTATATAGCCCATCA
1 GGCCCAATCACATTTATATAGCCCATCA
*
54286357 GGCCCAATTCACATTCATATAGCCCATCA
1 GGCCCAA-TCACATTTATATAGCCCATCA
*
54286386 GGCCCAAATCACCTTTATAT
1 GGCCC-AATCACATTTATAT
54286406 GGCTCGTTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 7 0.16
29 34 0.79
30 2 0.05
ACGTcount: A:0.30, C:0.32, G:0.10, T:0.27
Consensus pattern (28 bp):
GGCCCAATCACATTTATATAGCCCATCA
Found at i:54286381 original size:29 final size:28
Alignment explanation
Indices: 54286310--54286397 Score: 104
Period size: 29 Copynumber: 3.1 Consensus size: 28
54286300 ACCCCTACAT
* * **
54286310 ACATGCATATGGCCCATTTGGCCCAATC
1 ACATTCATATAGCCCATCAGGCCCAATC
* *
54286338 TCATTTATATAGCCCATCAGGCCCAATTC
1 ACATTCATATAGCCCATCAGGCCCAA-TC
54286367 ACATTCATATAGCCCATCAGGCCCAAATC
1 ACATTCATATAGCCCATCAGGCCC-AATC
54286396 AC
1 AC
54286398 CTTTATATGG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
28 20 0.40
29 28 0.56
30 2 0.04
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.25
Consensus pattern (28 bp):
ACATTCATATAGCCCATCAGGCCCAATC
Found at i:54286405 original size:29 final size:29
Alignment explanation
Indices: 54286341--54286433 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
54286331 CCCAATCTCA
* *
54286341 TTTATATAGCCCATCAGGCCCAATTCACA
1 TTTATATAGCCCATCAGGCCCAAATCACC
*
54286370 TTCATATAGCCCATCAGGCCCAAATCACC
1 TTTATATAGCCCATCAGGCCCAAATCACC
* * * * *
54286399 TTTATATGGCTCGTTAGGCCCAAATAACC
1 TTTATATAGCCCATCAGGCCCAAATCACC
54286428 -TTATAT
1 TTTATAT
54286434 TCATGCTCAC
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
28 6 0.11
29 49 0.89
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (29 bp):
TTTATATAGCCCATCAGGCCCAAATCACC
Found at i:54288594 original size:5 final size:5
Alignment explanation
Indices: 54288586--54288619 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
54288576 AGGTTAGGGT
54288586 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
54288620 TCAACTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:54288909 original size:24 final size:24
Alignment explanation
Indices: 54288877--54288924 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
54288867 TCATAGTTGG
*
54288877 TTGACTGGTTTTTTTTTAGTTTAA
1 TTGACTGGTTGTTTTTTAGTTTAA
*
54288901 TTGATTGGTTGTTTTTTAGTTTAA
1 TTGACTGGTTGTTTTTTAGTTTAA
54288925 GTTAATGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.02, G:0.19, T:0.62
Consensus pattern (24 bp):
TTGACTGGTTGTTTTTTAGTTTAA
Found at i:54292615 original size:53 final size:53
Alignment explanation
Indices: 54292552--54292657 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
54292542 TAGCTGTTGA
54292552 CTATGTCTCTAAATGAGTGGAAGCATTTGGATTACCAATGAAAGATATAAAGT
1 CTATGTCTCTAAATGAGTGGAAGCATTTGGATTACCAATGAAAGATATAAAGT
* * *
54292605 CTATGTCTCTAAATGGGTTGAAGCATTTGGATTACCAATGAAAGATATGAAGT
1 CTATGTCTCTAAATGAGTGGAAGCATTTGGATTACCAATGAAAGATATAAAGT
54292658 TTGTGGTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (53 bp):
CTATGTCTCTAAATGAGTGGAAGCATTTGGATTACCAATGAAAGATATAAAGT
Found at i:54294131 original size:21 final size:21
Alignment explanation
Indices: 54294107--54294167 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
54294097 AAATTATACG
54294107 TAATTAATGAATAATAATATA
1 TAATTAATGAATAATAATATA
*
54294128 TAATTTAT-AATAA-AATATA
1 TAATTAATGAATAATAATATA
54294147 -AA-TAATGTAAGTAATAATATA
1 TAATTAATG-AA-TAATAATATA
54294168 GATAGTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
17 3 0.09
18 2 0.06
19 8 0.24
20 8 0.24
21 13 0.38
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
TAATTAATGAATAATAATATA
Found at i:54294151 original size:28 final size:27
Alignment explanation
Indices: 54294119--54294268 Score: 103
Period size: 28 Copynumber: 5.4 Consensus size: 27
54294109 ATTAATGAAT
*
54294119 AATAATATATAATTTATAATAAAATATA
1 AATAATATATAA-TAATAATAAAATATA
* * *
54294147 AATAATGTA-AGTAATAATATAGATAGT-
1 AATAATATATAATAATAATA-AAATA-TA
* *
54294174 AA-AATGTATAACATATAATAAAATTTATA
1 AATAATATATAATA-ATAATAAAA--TATA
*
54294203 AAAAATATAT-ATAATAATATAAATAATA
1 AATAATATATAATAATAATA-AAAT-ATA
* *
54294231 TATAATATA-AATAATATATAAAATACA
1 AATAATATATAATAATA-ATAAAATATA
54294258 AATAATATATA
1 AATAATATATA
54294269 TACTATTTTT
Statistics
Matches: 96, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
26 13 0.14
27 22 0.23
28 43 0.45
29 12 0.12
30 6 0.06
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (27 bp):
AATAATATATAATAATAATAAAATATA
Found at i:54294211 original size:9 final size:9
Alignment explanation
Indices: 54294205--54294266 Score: 69
Period size: 9 Copynumber: 7.1 Consensus size: 9
54294195 AATTTATAAA
54294205 AAAT-ATAT
1 AAATAATAT
54294213 ATAATAATAT
1 A-AATAATAT
54294223 AAATAATAT
1 AAATAATAT
54294232 --ATAATAT
1 AAATAATAT
54294239 AAATAATAT
1 AAATAATAT
*
54294248 ATAA-AATAC
1 A-AATAATAT
54294257 AAATAATAT
1 AAATAATAT
54294266 A
1 A
54294267 TATACTATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
7 7 0.15
8 3 0.07
9 29 0.63
10 7 0.15
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AAATAATAT
Found at i:54294255 original size:18 final size:18
Alignment explanation
Indices: 54294205--54294268 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
54294195 AATTTATAAA
54294205 AAAT-ATATATAATAATAT
1 AAATAATATATAA-AATAT
54294223 AAATAATATAT--AATAT
1 AAATAATATATAAAATAT
*
54294239 AAATAATATATAAAATAC
1 AAATAATATATAAAATAT
54294257 AAATAATATATA
1 AAATAATATATA
54294269 TACTATTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
16 16 0.38
18 20 0.48
19 6 0.14
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATAATATATAAAATAT
Found at i:54294357 original size:25 final size:25
Alignment explanation
Indices: 54294329--54294376 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
54294319 TATTTAAAAT
54294329 AAATTAAATAT-ATATAAAAAAATTA
1 AAATTAAATATAAT-TAAAAAAATTA
* *
54294354 AAATTTAATTTAATTAAAAAAAT
1 AAATTAAATATAATTAAAAAAAT
54294377 CTAGGGTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AAATTAAATATAATTAAAAAAATTA
Found at i:54295830 original size:44 final size:44
Alignment explanation
Indices: 54295750--54296234 Score: 611
Period size: 44 Copynumber: 11.0 Consensus size: 44
54295740 ATTTTCCATT
* * *
54295750 TTCGATCTGTTC-CTCGTCTAATACAGAGACGACAAATCTGTTATC
1 TTCGATCTGCTCTCT-GTC-AATACAGAGACGCCAAATCTGCTATC
*
54295795 TTCGATCTGCTCTCTGTCAATACAGAGACGTCAAATCTGCTATC
1 TTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATC
* * *
54295839 TTCTATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATC
* * *
54295883 TTTGATCTGCTCTCTGTCAATACAGAAATGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATC
*
54295927 TTCGATCTGCTCTCTGAT-AATACAGAGACGCCAAATCTACTATC
1 TTCGATCTGCTCTCTG-TCAATACAGAGACGCCAAATCTGCTATC
* * * *
54295971 TTCGATCTGCTCTCTGCCAATACAGAAATGCCAAATCTGTTATC
1 TTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATC
* * * * * *
54296015 TTTGATCTGCTCTCTGACCATACAGAGATGCCAAATCTGTTATA
1 TTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATC
* * *
54296059 TTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCGGCTATC
1 TTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATC
*
54296103 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTG-TCATC
1 TTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCT-ATC
* * *
54296147 TTCAATATGCTCTCTGTCAATACAGGGACGCCAAATCTGTCGT-T-
1 TTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG-C-TATC
* *
54296191 TTCAATCTGCTCTCTGTCAATATAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATC
54296235 GGTGATCTAT
Statistics
Matches: 392, Mismatches: 39, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 369 0.94
45 16 0.04
46 2 0.01
47 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (44 bp):
TTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATC
Found at i:54307711 original size:19 final size:19
Alignment explanation
Indices: 54307689--54307725 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
54307679 AATGAGGTGT
*
54307689 ATATAGTAAAATGTATAAC
1 ATATAATAAAATGTATAAC
*
54307708 ATATAATAAAATTTATAA
1 ATATAATAAAATGTATAA
54307726 AAAATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (19 bp):
ATATAATAAAATGTATAAC
Found at i:54307732 original size:21 final size:19
Alignment explanation
Indices: 54307689--54307771 Score: 55
Period size: 21 Copynumber: 4.3 Consensus size: 19
54307679 AATGAGGTGT
* * * *
54307689 ATATAGTAAAATGTATAAC
1 ATATAATAAAATATAAAAA
54307708 ATATAATAAAATTTATAAAAA
1 ATATAATAAAA--TATAAAAA
*
54307729 ATATATATAATAATATAAATA
1 ATATA-ATAA-AATATAAAAA
54307750 ATAT-AT-AAATA-AAAATA
1 ATATAATAAAATATAAAA-A
54307767 ATATA
1 ATATA
54307772 TATACTATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
16 3 0.06
17 9 0.17
18 1 0.02
19 12 0.23
21 21 0.40
22 4 0.08
23 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (19 bp):
ATATAATAAAATATAAAAA
Found at i:54307741 original size:25 final size:23
Alignment explanation
Indices: 54307708--54307767 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 23
54307698 AATGTATAAC
54307708 ATATAATAAAATTTATAAAAAATAT
1 ATATAATAAAA--TATAAAAAATAT
*
54307733 ATATAAT--AATATAAATAATAT
1 ATATAATAAAATATAAAAAATAT
54307754 ATA-AATAAAA-ATAA
1 ATATAATAAAATATAA
54307768 TATATATACT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 2 0.06
23 2 0.06
25 7 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
ATATAATAAAATATAAAAAATAT
Found at i:54307760 original size:17 final size:18
Alignment explanation
Indices: 54307725--54307775 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 18
54307715 AAAATTTATA
54307725 AAAAAT-ATATATAATAAT
1 AAAAATAATATAT-ATAAT
*
54307743 ATAAATAATATATA-AAT
1 AAAAATAATATATATAAT
54307760 AAAAATAATATATATA
1 AAAAATAATATATATA
54307776 CTATTTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 16 0.55
18 7 0.24
19 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATAATATATATAAT
Found at i:54307774 original size:21 final size:18
Alignment explanation
Indices: 54307727--54307775 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
54307717 AATTTATAAA
*
54307727 AAATATATATAATAATAT
1 AAATATATATAATAAAAT
54307745 AAATAATATATAAATAAAA-
1 AAAT-ATATAT-AATAAAAT
54307764 ATAATATATATA
1 A-AATATATATA
54307776 CTATTTTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.19
19 13 0.48
20 9 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATATATATAATAAAAT
Found at i:54307854 original size:47 final size:49
Alignment explanation
Indices: 54307744--54307855 Score: 117
Period size: 47 Copynumber: 2.4 Consensus size: 49
54307734 TATAATAATA
* * * *
54307744 TAAATAATATATAAATAA-AAATAATATATATACTATTTTTACATATAAC
1 TAAAT-ATATATAAAAAATAAATAATACATATACTATTTTAAAATATAAC
* * *
54307793 T-AATATTTAT-AAAAATAAATAATACATATAGTA-TTTAAAATA-AAT
1 TAAATATATATAAAAAATAAATAATACATATACTATTTTAAAATATAAC
54307838 TAAATATATATAAAAAAT
1 TAAATATATATAAAAAAT
54307856 TTAAAATTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
45 3 0.06
46 19 0.37
47 26 0.50
48 3 0.06
49 1 0.02
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.38
Consensus pattern (49 bp):
TAAATATATATAAAAAATAAATAATACATATACTATTTTAAAATATAAC
Found at i:54309375 original size:26 final size:26
Alignment explanation
Indices: 54309346--54309399 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
54309336 CCGTACAAGA
54309346 TTAATCGATTTCTTGCAAATGGCGCT
1 TTAATCGATTTCTTGCAAATGGCGCT
*
54309372 TTAATCGATTTCTTGCAAATGGCTCT
1 TTAATCGATTTCTTGCAAATGGCGCT
54309398 TT
1 TT
54309400 TGAATTGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.43
Consensus pattern (26 bp):
TTAATCGATTTCTTGCAAATGGCGCT
Found at i:54313563 original size:61 final size:58
Alignment explanation
Indices: 54313458--54313573 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 58
54313448 ATTATTTTAA
* *
54313458 TATTAAATTAATATAATACTTATCAAGATAAATATTAGACTAAATTTAATATTAAATC
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAACTAAATTTAATATTAAATC
* * *
54313516 TATTAAATTAATAGAATATTTATGTATAAGATAAATATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATACTTA--T-CAAGATAAATATTAAACTAAATTTAATATTAA
54313574 GATAACCATT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 20 0.40
60 1 0.02
61 29 0.58
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.41
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAACTAAATTTAATATTAAATC
Found at i:54322356 original size:40 final size:40
Alignment explanation
Indices: 54322311--54322518 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
54322301 CGGAATACAA
*
54322311 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
54322351 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
54322391 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
54322431 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
54322471 CCGGATATAATTGCTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
54322511 CCGGATAT
1 CCGGATAT
54322519 CATTCAATTG
Statistics
Matches: 142, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.01
40 138 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:54326632 original size:21 final size:21
Alignment explanation
Indices: 54326606--54326646 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
54326596 AATCATTAAA
*
54326606 TTGATGT-TATCATATGTGTAT
1 TTGATGTGTAT-AAATGTGTAT
54326627 TTGATGTGTATAAATGTGTA
1 TTGATGTGTATAAATGTGTA
54326647 AGCGTTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (21 bp):
TTGATGTGTATAAATGTGTAT
Found at i:54331710 original size:3 final size:3
Alignment explanation
Indices: 54331702--54331734 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
54331692 CATGCTTAAA
54331702 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
54331735 GAGATGAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:54332169 original size:17 final size:17
Alignment explanation
Indices: 54332149--54332182 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
54332139 GAAACTTAGT
54332149 ATAAAACTCTAAAAATG
1 ATAAAACTCTAAAAATG
54332166 ATAAAACTCTAAAAATG
1 ATAAAACTCTAAAAATG
54332183 CTTGCAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.24
Consensus pattern (17 bp):
ATAAAACTCTAAAAATG
Found at i:54334544 original size:47 final size:47
Alignment explanation
Indices: 54334476--54334789 Score: 249
Period size: 47 Copynumber: 6.7 Consensus size: 47
54334466 TTTGTGTGCT
54334476 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *
54334522 AGTGTAAGACTATGTCTGGGACATGGCATCGG---CATTGAGACGAGAGCT
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGGCCACATT---ATGAGAGCC
** * *
54334570 AGTGTAAGACATGTCTTAGACAT-GCATCGGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-ATTATG-AGAGCC
* * * * *
54334616 AGTGTAAGGCATGTCTGGGACAT-GCATCGGCTACATAAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * *
54334660 AGTGTAAGACCATGTCTGGGACGTGGCATCGG-CACGGATAAGTGAGAGTC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCAC--ATTA-TGAGAGCC
* * * *
54334710 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTA-A-TGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC-CACATTATGAGAGCC
*
54334757 AGTGTAAAACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC
54334790 ATTATACCCT
Statistics
Matches: 219, Mismatches: 28, Indels: 41
0.76 0.10 0.14
Matches are distributed among these distances:
44 10 0.05
45 20 0.09
46 60 0.27
47 66 0.30
48 25 0.11
49 2 0.01
50 35 0.16
52 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:54334620 original size:46 final size:46
Alignment explanation
Indices: 54334476--54334789 Score: 239
Period size: 46 Copynumber: 6.7 Consensus size: 46
54334466 TTTGTGTGCT
* *
54334476 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* * * *
54334522 AGTGTAAGACTATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
**
54334570 AGTGTAAGACATGTCTTAGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* * * * *
54334616 AGTGTAAGGCATGTCTGGGACATGCATCGG-CT--ACATAATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA-GAGCC
* * * *
54334660 AGTGTAAGACCATGTCTGGGACGTGGCATCGGCAC-GGATAAGTGAGAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGA-GA-TGAGAGCC
* ** *
54334710 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTAATG-TGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA-GATGAGAGCC
*
54334757 AGTGTAAAACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
54334790 ATTATACCCT
Statistics
Matches: 219, Mismatches: 33, Indels: 30
0.78 0.12 0.11
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 10 0.05
45 15 0.07
46 61 0.28
47 60 0.27
48 28 0.13
49 5 0.02
50 34 0.16
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:54336139 original size:2 final size:2
Alignment explanation
Indices: 54336110--54336162 Score: 65
Period size: 2 Copynumber: 27.5 Consensus size: 2
54336100 ATTTTTCTTT
* * *
54336110 TA TA T- TA TA T- TA AA TA TA CA TG TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
54336150 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
54336163 CAATTACACA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:54336831 original size:27 final size:28
Alignment explanation
Indices: 54336796--54336848 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
54336786 TTTAATATTG
54336796 ATTTAAAAATCATAAAAATTATAAAAAA
1 ATTTAAAAATCATAAAAATTATAAAAAA
** *
54336824 ATTT-AAAATTTTTAAAATTATAAAA
1 ATTTAAAAATCATAAAAATTATAAAA
54336849 CTTTTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (28 bp):
ATTTAAAAATCATAAAAATTATAAAAAA
Found at i:54336840 original size:17 final size:20
Alignment explanation
Indices: 54336799--54336860 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
54336789 AATATTGATT
* * *
54336799 TAAAAATCATAAAAATTATA
1 TAAAAATTATAAAACTTTTA
*
54336819 AAAAAATT-TAAAA-TTTT-
1 TAAAAATTATAAAACTTTTA
54336836 T-AAAATTATAAAACTTTTA
1 TAAAAATTATAAAACTTTTA
54336855 TAAAAA
1 TAAAAA
54336861 ATAAAAATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 6 0.18
17 5 0.15
18 7 0.21
19 6 0.18
20 10 0.29
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAAATTATAAAACTTTTA
Found at i:54338888 original size:45 final size:44
Alignment explanation
Indices: 54338800--54338889 Score: 101
Period size: 44 Copynumber: 2.0 Consensus size: 44
54338790 AAATTAAATA
* * *
54338800 ATTTTTAAAATTCAAAATATTTATAAAATTTTCAAAATTTATAT
1 ATTTTTAAAATTCAAAAAATTTATAAAAATTTCAAAATATATAT
* * *
54338844 ATTTTTTAAATTATAAAAAATTT-TAAAAATTTCTAAATAATATAT
1 ATTTTTAAAATT-CAAAAAATTTATAAAAATTTCAAAAT-ATATAT
54338889 A
1 A
54338890 AAGAAAGTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
44 24 0.63
45 14 0.37
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (44 bp):
ATTTTTAAAATTCAAAAAATTTATAAAAATTTCAAAATATATAT
Found at i:54339865 original size:19 final size:19
Alignment explanation
Indices: 54339825--54339866 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
54339815 GAAAATTAAT
**
54339825 ATTTTATCTATTTTATTAC
1 ATTTTATCTATTAGATTAC
*
54339844 ATTTTATCTATTAGATTCC
1 ATTTTATCTATTAGATTAC
54339863 ATTT
1 ATTT
54339867 GAAATATAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.12, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTATCTATTAGATTAC
Found at i:54340384 original size:2 final size:2
Alignment explanation
Indices: 54340377--54340409 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
54340367 TTATTCAGTT
54340377 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
54340410 TAATTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:54340524 original size:21 final size:21
Alignment explanation
Indices: 54340500--54340546 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
54340490 TTTATAGTAT
54340500 AAATTA-TATAATATATAAATA
1 AAATTATTATAATATAT-AATA
* *
54340521 AAA-TATTATATTATATTATA
1 AAATTATTATAATATATAATA
54340541 AAATTA
1 AAATTA
54340547 AAAAGTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATTATTATAATATATAATA
Found at i:54341312 original size:2 final size:2
Alignment explanation
Indices: 54341305--54341346 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
54341295 ATGGAGGAAG
*
54341305 AT AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54341347 TTGCCGAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:54342376 original size:17 final size:17
Alignment explanation
Indices: 54342356--54342406 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
54342346 TATAAAATTT
54342356 AAATATAATATAATATA
1 AAATATAATATAATATA
*
54342373 AAATAT-ATAATAAAATA
1 AAATATAAT-ATAATATA
* *
54342390 ATATATTAATTTAATAT
1 AAATA-TAATATAATAT
54342407 TACAATAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 2 0.07
17 17 0.63
18 6 0.22
19 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATAATATAATATA
Found at i:54348329 original size:42 final size:42
Alignment explanation
Indices: 54348270--54348433 Score: 148
Period size: 42 Copynumber: 3.8 Consensus size: 42
54348260 GGGTTATGTG
* *
54348270 TGATTTCGTGTAAGACCATATCTGGGATATGGCATTGATATT
1 TGATTTCATGTAAGACCATATCTGGGATATGGCATCGATATT
* * * * **
54348312 TGATTTCATTTAAGACCATGTCTGGGACATGGCATCGAAACG
1 TGATTTCATGTAAGACCATATCTGGGATATGGCATCGATATT
* * * * * *
54348354 AGATATCGTGTAAGACCATAGCTGGGCTATCGACATCGATATAT
1 TGATTTCATGTAAGACCATATCTGGGATAT-GGCATCGATAT-T
** *
54348398 GTGATCCCATGTAAAACCATATCTGGGATATGGCAT
1 -TGATTTCATGTAAGACCATATCTGGGATATGGCAT
54348434 TGGCATCTTA
Statistics
Matches: 91, Mismatches: 28, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
42 56 0.62
43 8 0.09
44 4 0.04
45 23 0.25
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATATCTGGGATATGGCATCGATATT
Found at i:54349309 original size:43 final size:43
Alignment explanation
Indices: 54349246--54349338 Score: 150
Period size: 43 Copynumber: 2.2 Consensus size: 43
54349236 GGTGGAAGTG
*
54349246 CCGCTAAAAGTCATGGCTTTTAGCAGCGCTTTTGTTACAAACA
1 CCGCTAAAAGTCACGGCTTTTAGCAGCGCTTTTGTTACAAACA
* * *
54349289 CCGCTAAAAGTCACGTCTTTTAGCGGCGCTTTTGTTACAAACG
1 CCGCTAAAAGTCACGGCTTTTAGCAGCGCTTTTGTTACAAACA
54349332 CCGCTAA
1 CCGCTAA
54349339 TTTTGGCAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (43 bp):
CCGCTAAAAGTCACGGCTTTTAGCAGCGCTTTTGTTACAAACA
Found at i:54351078 original size:29 final size:29
Alignment explanation
Indices: 54351044--54351119 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
54351034 TACTCGATTT
* * *
54351044 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
54351073 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
54351102 CGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
54351120 TATTTCCAGC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:54352676 original size:24 final size:24
Alignment explanation
Indices: 54352499--54352661 Score: 281
Period size: 24 Copynumber: 6.8 Consensus size: 24
54352489 GAATGTGACT
* *
54352499 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
54352523 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
54352547 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
54352571 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
54352595 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
54352619 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
54352643 ATAGTAAATCGCACACATA
1 ATAGTAAATCGCACACATA
54352662 TCCAAAGCTT
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 135 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.20
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:54359913 original size:24 final size:24
Alignment explanation
Indices: 54359736--54359898 Score: 281
Period size: 24 Copynumber: 6.8 Consensus size: 24
54359726 GAATGTGACT
* *
54359736 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
54359760 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
54359784 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
54359808 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
54359832 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
54359856 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
54359880 ATAGTAAATCGCACACATA
1 ATAGTAAATCGCACACATA
54359899 TCCAAAGCTT
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 135 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.20
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:54360855 original size:29 final size:29
Alignment explanation
Indices: 54360813--54360892 Score: 151
Period size: 29 Copynumber: 2.8 Consensus size: 29
54360803 GGCTGTCACA
*
54360813 ATATTTTTCCAGCATGCACACTTAGTGCC
1 ATATATTTCCAGCATGCACACTTAGTGCC
54360842 ATATATTTCCAGCATGCACACTTAGTGCC
1 ATATATTTCCAGCATGCACACTTAGTGCC
54360871 ATATATTTCCAGCATGCACACT
1 ATATATTTCCAGCATGCACACT
54360893 AAGTTCCAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (29 bp):
ATATATTTCCAGCATGCACACTTAGTGCC
Found at i:54365637 original size:29 final size:29
Alignment explanation
Indices: 54365609--54365710 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
54365599 CCTCCGAGCT
** * * *
54365609 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
54365638 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
54365667 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
54365696 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
54365711 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:54373482 original size:29 final size:29
Alignment explanation
Indices: 54373444--54373550 Score: 151
Period size: 29 Copynumber: 3.7 Consensus size: 29
54373434 CATACCCTCG
** * *
54373444 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
54373473 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
54373502 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
54373531 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
54373551 ATCTCGTCAC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:54379466 original size:29 final size:29
Alignment explanation
Indices: 54379432--54379621 Score: 89
Period size: 29 Copynumber: 6.6 Consensus size: 29
54379422 TACTCGATTT
* * *
54379432 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
54379461 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
54379490 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * *** * *
54379519 TGCACACTCAGTGCCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
54379548 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
54379577 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
54379606 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
54379622 ATCTCGTCAC
Statistics
Matches: 139, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
28 1 0.01
29 137 0.99
30 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:54379524 original size:58 final size:58
Alignment explanation
Indices: 54379491--54379621 Score: 244
Period size: 58 Copynumber: 2.3 Consensus size: 58
54379481 CTTCGAGCTC
*
54379491 GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCAT
*
54379549 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCAT
54379607 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
54379622 ATCTCGTCAC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 71 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.30
Consensus pattern (58 bp):
GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCAT
Found at i:54379553 original size:87 final size:87
Alignment explanation
Indices: 54379462--54379621 Score: 241
Period size: 87 Copynumber: 1.8 Consensus size: 87
54379452 ATTTAAGCCC
* *
54379462 GCACACACAGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACAC
1 GCACACACAGTGCCATACACTTCCAGCAT-GCACACTTAGTGCCATATATTTCCAGCATGCACAC
54379526 TCAGTGCCATATTTTTCCAGCAT
65 TCAGTGCCATATTTTTCCAGCAT
** * *
54379549 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCATGCACACT
1 GCACACACAGTGCCATACACTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCATGCACACT
*
54379614 TAGTGCCA
66 CAGTGCCA
54379622 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
87 64 0.98
88 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (87 bp):
GCACACACAGTGCCATACACTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCATGCACACT
CAGTGCCATATTTTTCCAGCAT
Found at i:54382542 original size:40 final size:40
Alignment explanation
Indices: 54382497--54382620 Score: 149
Period size: 40 Copynumber: 3.1 Consensus size: 40
54382487 CGGAATTTAT
* * * *
54382497 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
54382537 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
54382577 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
54382617 CCGG
1 CCGG
54382621 GTATCATTCA
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54389820 original size:9 final size:9
Alignment explanation
Indices: 54389806--54389949 Score: 66
Period size: 9 Copynumber: 16.0 Consensus size: 9
54389796 TAAGTATAAT
54389806 TAAGTTATG
1 TAAGTTATG
54389815 TAAGTTATG
1 TAAGTTATG
* * *
54389824 ATATGATATA
1 -TAAGTTATG
*
54389834 T-ATTTATG
1 TAAGTTATG
54389842 T-A-TTATG
1 TAAGTTATG
*
54389849 TAAGTTACG
1 TAAGTTATG
*
54389858 TAAATTATG
1 TAAGTTATG
* *
54389867 TAAGTTGTT
1 TAAGTTATG
**
54389876 TATCTTATG
1 TAAGTTATG
54389885 TACA-TTATG
1 TA-AGTTATG
*
54389894 TAAGATATGATA
1 TAAG-T-T-ATG
*
54389906 TATATTTATG
1 TA-AGTTATG
54389916 T-A-TTATG
1 TAAGTTATG
54389923 TAAGTTATG
1 TAAGTTATG
*
54389932 TAAATTATG
1 TAAGTTATG
*
54389941 TAAGATATG
1 TAAGTTATG
54389950 ATATATATTT
Statistics
Matches: 100, Mismatches: 24, Indels: 22
0.68 0.16 0.15
Matches are distributed among these distances:
7 12 0.12
8 9 0.09
9 61 0.61
10 10 0.10
11 2 0.02
12 5 0.05
13 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:54389940 original size:18 final size:18
Alignment explanation
Indices: 54389843--54389949 Score: 76
Period size: 18 Copynumber: 5.8 Consensus size: 18
54389833 ATATTTATGT
*
54389843 ATTATGTAAGTTACGTAA
1 ATTATGTAAGTTATGTAA
* * *
54389861 ATTATGTAAGTTGTTTAT
1 ATTATGTAAGTTATGTAA
*
54389879 CTTATGTACA-TTATGTAA
1 ATTATGTA-AGTTATGTAA
* *
54389897 GATATGATATATATTTATGT--
1 -AT-T-ATGTA-AGTTATGTAA
54389917 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
*
54389935 ATTATGTAAGATATG
1 ATTATGTAAGTTATG
54389950 ATATATATTT
Statistics
Matches: 68, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
16 7 0.10
17 4 0.06
18 41 0.60
19 4 0.06
20 1 0.01
21 5 0.07
22 6 0.09
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.46
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:54392768 original size:29 final size:29
Alignment explanation
Indices: 54392692--54392768 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 29
54392682 CCTTAGACCT
* *
54392692 TAAACCCCAACCCTTAAACCATTAAAATA
1 TAAACCACAAACCTTAAACCATTAAAATA
* **
54392721 TAAACCACAATCCACAAACC-TTAAAATA
1 TAAACCACAAACCTTAAACCATTAAAATA
* *
54392749 GTAACCCATAAACCTTAAAC
1 -TAAACCACAAACCTTAAAC
54392769 TCTAAACCTG
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
28 8 0.21
29 30 0.79
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.19
Consensus pattern (29 bp):
TAAACCACAAACCTTAAACCATTAAAATA
Found at i:54394863 original size:28 final size:29
Alignment explanation
Indices: 54394823--54394920 Score: 103
Period size: 28 Copynumber: 3.4 Consensus size: 29
54394813 GTAATAAGCC
*
54394823 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
54394851 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
54394879 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
54394908 CGCACACTTAGTG
1 CGCACACTTAGTG
54394921 GCAATTTGTG
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.62
29 17 0.29
30 3 0.05
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:54396475 original size:40 final size:39
Alignment explanation
Indices: 54396388--54396499 Score: 102
Period size: 40 Copynumber: 2.8 Consensus size: 39
54396378 TTCGAGAAAG
* * **
54396388 CGCCGCTAATGCTCAATCTATAGCGGCATTTTTCATGAA
1 CGCCGCTAATTCTCAATCTATAGCGGCATTTTGCAAAAA
*
54396427 -GCAACGCTAATTCTCTATCTATAGCGGCATTTTGCTAAAAA
1 CGC--CGCTAATTCTCAATCTATAGCGGCATTTTGC-AAAAA
* * *
54396468 CGCCGCTAATGTC-CGATCTATATCGGCGTTTT
1 CGCCGCTAAT-TCTCAATCTATAGCGGCATTTT
54396500 TTGTCCAAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
38 2 0.03
40 51 0.85
41 5 0.08
42 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (39 bp):
CGCCGCTAATTCTCAATCTATAGCGGCATTTTGCAAAAA
Found at i:54402044 original size:50 final size:50
Alignment explanation
Indices: 54401863--54402047 Score: 273
Period size: 50 Copynumber: 3.7 Consensus size: 50
54401853 GTAAGATACC
* * * * *
54401863 AATGCCATATCCCAGATATGGTCTTACAT-GGATTCACACGTATCGATACC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGA-TCACACATATCGATGCA
* **
54401913 AATGCCATGTCCCAGACATGGTCTTACATGGAATCGTACATATCGATGCA
1 AATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCGATGCA
54401963 AATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCGATGCA
1 AATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCGATGCA
*
54402013 AATGCCATGTCCCAGACGTGGTCTTACATGGGATC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGATC
54402048 TCATATTGAA
Statistics
Matches: 122, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 120 0.98
51 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCGATGCA
Found at i:54407403 original size:48 final size:48
Alignment explanation
Indices: 54407332--54407594 Score: 382
Period size: 48 Copynumber: 5.5 Consensus size: 48
54407322 ACGATGCCTC
* * * *
54407332 ATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAGCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* *
54407380 ATGCCGATGCCATGTCCTAGACATGGTTTTACACTGGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* * * *
54407428 ATGCCAATGTCATGTCCCAAACATAGTCTTACACTGGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* * *
54407476 ATGCCGATGCCATGTCCCAAACATGGTCTTACAGTGGCTCACGTGACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* *
54407524 ATGCCAATGCCATGTCCCAGACATGGTCTCACACTGGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
*
54407572 ATGTCGATGCCATGTCCCAGACA
1 ATGCCGATGCCATGTCCCAGACA
54407595 GGGTTACACA
Statistics
Matches: 191, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 191 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
Found at i:54417002 original size:44 final size:44
Alignment explanation
Indices: 54416953--54417040 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
54416943 GGATAAATCT
*
54416953 AACAACCCAAGATTGTCATT-TCCTCTTTTTAAATTCTTTTTTTC
1 AACAACCCAAGATTATC-TTCTCCTCTTTTTAAATTCTTTTTTTC
*
54416997 AACAACCCAAGGTTATCTTCTCCTCTTTTTAAATTCTTTTTTTC
1 AACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTTTC
54417041 TAGGATAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.48
Consensus pattern (44 bp):
AACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTTTC
Found at i:54422556 original size:40 final size:40
Alignment explanation
Indices: 54422511--54422677 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
54422501 CGGAATATAA
*
54422511 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
54422551 CCGGATAGAGTAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
54422591 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
54422631 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
54422670 CCGGATAT
1 CCGGATAT
54422678 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54429006 original size:15 final size:16
Alignment explanation
Indices: 54428979--54429008 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
54428969 TAAAATAAGT
54428979 TAAATGCGTACAAATA
1 TAAATGCGTACAAATA
54428995 TAAATG-GTACAAAT
1 TAAATGCGTACAAAT
54429009 GTATTATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (16 bp):
TAAATGCGTACAAATA
Found at i:54429183 original size:12 final size:12
Alignment explanation
Indices: 54429168--54429201 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
54429158 AAGAAAGAAG
54429168 AAAAGAGAAAGA
1 AAAAGAGAAAGA
*
54429180 AAAAGAAAAAGA
1 AAAAGAGAAAGA
*
54429192 AAAAGGGAAA
1 AAAAGAGAAA
54429202 ACTAGGGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAGAGAAAGA
Found at i:54429184 original size:6 final size:6
Alignment explanation
Indices: 54429157--54429196 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
54429147 GTTAGCAGGG
*
54429157 AAAGAA AGAAG-A AAAGAG AAAGAA AAAGAA AAAGAA AAAG
1 AAAGAA A-AAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG
54429197 GGAAAACTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 3 0.10
6 24 0.80
7 3 0.10
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:54429818 original size:3 final size:3
Alignment explanation
Indices: 54429810--54429851 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
54429800 GAATGGTAAG
54429810 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
54429852 GATATTGAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:54431696 original size:40 final size:40
Alignment explanation
Indices: 54431639--54431901 Score: 395
Period size: 40 Copynumber: 6.6 Consensus size: 40
54431629 GATGATAACG
*
54431639 GGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
54431679 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
*
54431719 GGGCTAAGTTCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
* *
54431759 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
* *
54431799 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCC
* * * * *
54431839 GGGCTAAATCCTGAAGGCATTTGTGCGAACT-ACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACTAATTCC
54431879 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
54431902 AGCGAGTAGC
Statistics
Matches: 207, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
39 2 0.01
40 202 0.98
41 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
Found at i:54431907 original size:80 final size:79
Alignment explanation
Indices: 54431639--54431934 Score: 384
Period size: 80 Copynumber: 3.7 Consensus size: 79
54431629 GATGATAACG
* * *
54431639 GGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAATCCCGAAGGCATTTGTG
* *
54431704 CTAGTGACTAATTCC
66 CAACT-ACTAATTCC
* * *
54431719 GGGCTAAGTTCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAATCCCGAAGGCATTTGTG
*
54431784 CAAGTTACTAATTCC
66 CAA-CTACTAATTCC
* *
54431799 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAATCCTGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAATCCCGAAGGCATTTGT
*
54431863 GCGAACTACTAAATCC
65 GC-AACTACTAATTCC
* *
54431879 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCT-ATATCC-GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTAAT-TCCGGGCTAAATCCCGAAGG
54431935 TACTTGGTTT
Statistics
Matches: 198, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
79 17 0.09
80 178 0.90
81 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAATCCCGAAGGCATTTGTG
CAACTACTAATTCC
Found at i:54431919 original size:40 final size:40
Alignment explanation
Indices: 54431639--54431934 Score: 340
Period size: 40 Copynumber: 7.4 Consensus size: 40
54431629 GATGATAACG
* *
54431639 GGGCTAAGTCCCAAAGGCATTTGTGCTAGT-GACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTAATTCC
*
54431679 GGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTAATTCC
* *
54431719 GGGCTAAGTTCCGAAGGCATTTGTGCTAGT-GACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTAATTCC
*
54431759 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTAATTCC
54431799 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTAAT-TCC
* * * *
54431839 GGGCTAAATCCTGAAGGCATTTGTGCGAACTA-CTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTAGCTAATTCC
*
54431879 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTAAT-TCC
* *
54431919 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
54431935 TACTTGGTTT
Statistics
Matches: 233, Mismatches: 16, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
39 20 0.09
40 210 0.90
41 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTAATTCC
Found at i:54431920 original size:120 final size:120
Alignment explanation
Indices: 54431639--54431934 Score: 381
Period size: 120 Copynumber: 2.5 Consensus size: 120
54431629 GATGATAACG
* *
54431639 GGGCTAAGTCCCAAAGGCATTTGTGCTAGT-GACTAATTCCGGGCTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTAATTCCGGGCTAAGTCCCGAAGGCATTTGT
* * * * *
54431703 GCTAGTGACTAATTCCGGGCTAAGTTCCGAAGGCATTTGTGCTAGTGACTAATTCC
65 GCGAGTGACTAATTCCGGGCTAAGATCCGAAGGCATTTGTGCAACTGACTAAATCC
54431759 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTAATTCCGGGCTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTAATTCCGGGCTAAGTCCCGAAGGCATTTGT
*
54431823 GCGAGTTACT-ATATCCGGGCTAA-ATCCTGAAGGCATTTGTGCGAACT-ACTAAATCC
65 GCGAGTGACTAAT-TCCGGGCTAAGATCC-GAAGGCATTTGTGC-AACTGACTAAATCC
* * * *
54431879 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCT-ATATCC-GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTAAT-TCCGGGCTAAGTCCCGAAGG
54431935 TACTTGGTTT
Statistics
Matches: 157, Mismatches: 12, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
119 23 0.15
120 131 0.83
121 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (120 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTGACTAATTCCGGGCTAAGATCCGAAGGCATTTGTGCAACTGACTAAATCC
Found at i:54433524 original size:6 final size:6
Alignment explanation
Indices: 54433513--54433563 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
54433503 TGTGTACCGC
* * *
54433513 TACTGT TACTGT TACTAT TACTAT TACTAT TACTAT TACTAT TACTGT
1 TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT
54433561 TAC
1 TAC
54433564 CCTTACAGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.49
Consensus pattern (6 bp):
TACTAT
Found at i:54433569 original size:18 final size:18
Alignment explanation
Indices: 54433513--54433563 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
54433503 TGTGTACCGC
*
54433513 TACTGTTACTGTTACTAT
1 TACTATTACTGTTACTAT
*
54433531 TACTATTACTATTACTAT
1 TACTATTACTGTTACTAT
54433549 TACTATTACTGTTAC
1 TACTATTACTGTTAC
54433564 CCTTACAGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.49
Consensus pattern (18 bp):
TACTATTACTGTTACTAT
Found at i:54433867 original size:16 final size:16
Alignment explanation
Indices: 54433846--54433877 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
54433836 GAAATGAGAT
54433846 AGTACAGAATATTGAA
1 AGTACAGAATATTGAA
54433862 AGTACAGAATATTGAA
1 AGTACAGAATATTGAA
54433878 TGAAAGGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (16 bp):
AGTACAGAATATTGAA
Found at i:54436738 original size:26 final size:26
Alignment explanation
Indices: 54436709--54436813 Score: 201
Period size: 26 Copynumber: 4.0 Consensus size: 26
54436699 TGATACAAAT
54436709 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
54436735 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
54436761 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
54436787 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
54436813 T
1 T
54436814 TATGGGAATT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:54438455 original size:27 final size:27
Alignment explanation
Indices: 54438415--54438553 Score: 172
Period size: 27 Copynumber: 5.1 Consensus size: 27
54438405 AGGAAGCGTC
*
54438415 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
54438442 CTGGTGGCTCTGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
54438469 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
54438496 CTGGTGGCTCTACCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
54438524 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
54438550 CTGG
1 CTGG
54438554 CAGCCATGCT
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
26 5 0.05
27 80 0.81
28 14 0.14
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:54438499 original size:54 final size:55
Alignment explanation
Indices: 54438415--54438553 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 55
54438405 AGGAAGCGTC
* * * *
54438415 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-AT
1 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTACCACAAATATCTGTAT
* *
54438469 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTACCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTACCACAAATATCTGTAT
* *
54438524 CTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 CTGGTGGCTCTGCCACATATATCTGTTCTGG
54438554 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
54 58 0.76
55 18 0.24
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (55 bp):
CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTACCACAAATATCTGTAT
Found at i:54443870 original size:26 final size:26
Alignment explanation
Indices: 54443840--54443948 Score: 141
Period size: 26 Copynumber: 4.6 Consensus size: 26
54443830 TAATGATATA
54443840 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
54443866 GTAAATGTTCCATGATAATGGG-TAG
1 GTAAATGTTCCATGATAATGGGTTAG
54443891 GTAAATGTT-CATGATAA----TTAG
1 GTAAATGTTCCATGATAATGGGTTAG
54443912 GTAAATGTTCCATG---ATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
54443935 GTAAAT-TT-CATGAT
1 GTAAATGTTCCATGAT
54443949 TTCATGTCTT
Statistics
Matches: 75, Mismatches: 0, Indels: 19
0.80 0.00 0.20
Matches are distributed among these distances:
19 1 0.01
21 16 0.21
22 6 0.08
23 10 0.13
24 8 0.11
25 12 0.16
26 22 0.29
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
GTAAATGTTCCATGATAATGGGTTAG
Found at i:54443914 original size:21 final size:22
Alignment explanation
Indices: 54443840--54443948 Score: 107
Period size: 21 Copynumber: 4.7 Consensus size: 22
54443830 TAATGATATA
54443840 GTAAATGTTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAA----TTAG
54443866 GTAAATGTTCCATGATAATGGGTAG
1 GTAAATGTTCCATGATAAT---TAG
54443891 GTAAATGTT-CATGATAATTAG
1 GTAAATGTTCCATGATAATTAG
**
54443912 GTAAATGTTCCATGATGGGTTAG
1 GTAAATGTTCCATGAT-AATTAG
54443935 GTAAAT-TT-CATGAT
1 GTAAATGTTCCATGAT
54443949 TTCATGTCTT
Statistics
Matches: 76, Mismatches: 2, Indels: 15
0.82 0.02 0.16
Matches are distributed among these distances:
21 18 0.24
22 9 0.12
23 10 0.13
24 9 0.12
25 12 0.16
26 18 0.24
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (22 bp):
GTAAATGTTCCATGATAATTAG
Found at i:54443916 original size:46 final size:43
Alignment explanation
Indices: 54443862--54443948 Score: 131
Period size: 46 Copynumber: 2.0 Consensus size: 43
54443852 TGATAATGGG
54443862 TTAGGTAAATGTTCCATGATAATGGG-TAGGTAAATGTTCATGATAA
1 TTAGGTAAATGTTCCATG---ATGGGTTAGGTAAAT-TTCATGATAA
54443908 TTAGGTAAATGTTCCATGATGGGTTAGGTAAATTTCATGAT
1 TTAGGTAAATGTTCCATGATGGGTTAGGTAAATTTCATGAT
54443949 TTCATGTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
43 13 0.32
44 9 0.22
46 18 0.45
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (43 bp):
TTAGGTAAATGTTCCATGATGGGTTAGGTAAATTTCATGATAA
Found at i:54445121 original size:8 final size:8
Alignment explanation
Indices: 54445108--54445137 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
54445098 AGATCGGCAC
54445108 AAGCCGAA
1 AAGCCGAA
54445116 AAGCCGAA
1 AAGCCGAA
*
54445124 ATGCCGAA
1 AAGCCGAA
54445132 AAGCCG
1 AAGCCG
54445138 GTAGTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:54445623 original size:28 final size:26
Alignment explanation
Indices: 54445531--54445638 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 26
54445521 AGGAAGCGTC
* * * *
54445531 CTGGTGGCTATGCCACAAATATCTGCT
1 CTGGTGGCTCTGTCAC-ATTATCTGTT
*
54445558 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGTCACAT-TATCTGTT
54445585 CTGGTGGCTCTGTCACGATTATCTGTAT
1 CTGGTGGCTCTGTCAC-ATTATCTGT-T
*
54445613 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGTCACATTATCTGTT
54445639 TTGGCAGCCA
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
26 2 0.03
27 53 0.73
28 18 0.25
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGTCACATTATCTGTT
Found at i:54445728 original size:19 final size:22
Alignment explanation
Indices: 54445704--54445743 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
54445694 CTCCCCAGAC
54445704 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
54445723 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
54445744 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:54453111 original size:43 final size:43
Alignment explanation
Indices: 54453045--54453189 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 43
54453035 AGCTCATACA
*
54453045 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGTAATCAAATATCG
* *
54453088 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGTAATCAAATATCG
* * * * *
54453130 ATGCCGATGTCTCAGACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGT-AATC-AAATATCG
54453174 ATG-CAACGTCCCAGAC
1 ATGCCAACGTCCCAGAC
54453190 GTGGTCCCTA
Statistics
Matches: 84, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
42 29 0.35
43 48 0.57
44 7 0.08
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGTAATCAAATATCG
Found at i:54456089 original size:11 final size:12
Alignment explanation
Indices: 54456050--54456101 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
54456040 AATCGAAATG
* *
54456050 GAAACGAAAGCA
1 GAAAAGAAAGAA
*
54456062 GAAAACAAAGAA
1 GAAAAGAAAGAA
*
54456074 CAAAAG-AAGAA
1 GAAAAGAAAGAA
54456085 GAAAAGAAAGAA
1 GAAAAGAAAGAA
54456097 GAAAA
1 GAAAA
54456102 AAACAAATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 10 0.30
12 23 0.70
ACGTcount: A:0.71, C:0.08, G:0.21, T:0.00
Consensus pattern (12 bp):
GAAAAGAAAGAA
Found at i:54460679 original size:43 final size:43
Alignment explanation
Indices: 54460510--54460682 Score: 126
Period size: 43 Copynumber: 4.0 Consensus size: 43
54460500 TAGGATTTTC
*
54460510 GATATTTGATTTCGA-GTAAGACCACGTCTGAGACGTTGGCATT
1 GATATTTGATTAC-ATGTAAGACCACGTCTGAGACGTTGGCATT
* ** * * *
54460553 GAT-TTGAGATTTATGTGTAAGACCATGTCT-AGGACATTGACATCT
1 GATATT-TGA-TTACATGTAAGACCACGTCTGA-GACGTTGGCAT-T
*** * *
54460598 --TATTTGATTTTGTGTAAGACC-CTGTTTGGGACAG-TGGCATT
1 GATATTTGATTACATGTAAGACCAC-GTCTGAGAC-GTTGGCATT
54460639 GATATTTGATTACATGTAAGACCACGTCTGAGACGTTGGCATT
1 GATATTTGATTACATGTAAGACCACGTCTGAGACGTTGGCATT
54460682 G
1 G
54460683 TACGAGCTTT
Statistics
Matches: 98, Mismatches: 19, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 42 0.43
44 27 0.28
45 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.35
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCACGTCTGAGACGTTGGCATT
Found at i:54466675 original size:23 final size:23
Alignment explanation
Indices: 54466649--54466697 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
54466639 TACAGACATC
*
54466649 GATGCATAGCAGATACAGAAACA
1 GATGCATAACAGATACAGAAACA
* * *
54466672 GATGCGTAATAGATACAGATACA
1 GATGCATAACAGATACAGAAACA
54466695 GAT
1 GAT
54466698 CCTACCCCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.18
Consensus pattern (23 bp):
GATGCATAACAGATACAGAAACA
Found at i:54468971 original size:7 final size:7
Alignment explanation
Indices: 54468959--54468989 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
54468949 TAGTTAATAC
54468959 TATAAGA
1 TATAAGA
54468966 TATAAGA
1 TATAAGA
54468973 TATAAGA
1 TATAAGA
54468980 TATAAGA
1 TATAAGA
54468987 TAT
1 TAT
54468990 GGGGTTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (7 bp):
TATAAGA
Found at i:54470660 original size:28 final size:28
Alignment explanation
Indices: 54470592--54470688 Score: 106
Period size: 27 Copynumber: 3.4 Consensus size: 28
54470582 ATAGTGAATC
* *
54470592 CGCACACTTAGTGCTATATATTC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
*
54470619 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
54470647 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
54470677 CGCACACTTAGT
1 CGCACACTTAGT
54470689 ACCAATCTTG
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
27 21 0.36
28 21 0.36
30 17 0.29
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:54478029 original size:28 final size:29
Alignment explanation
Indices: 54477962--54478062 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
54477952 ATAGTGAATC
*
54477962 CGCACACTTAGTGCTATATATATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
54477991 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
54478019 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
54478049 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54478063 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:54490436 original size:130 final size:130
Alignment explanation
Indices: 54490202--54490466 Score: 521
Period size: 130 Copynumber: 2.0 Consensus size: 130
54490192 TTTTGAATCT
54490202 GATCTTGATTTCCTTATTTCCAAAAGGAAAGGAGTGAGGAGTTGTGTTAAATATCCTTCGTCTAA
1 GATCTTGATTTCCTTATTTCCAAAAGGAAAGGAGTGAGGAGTTGTGTTAAATATCCTTCGTCTAA
54490267 TTTTGTTTCTTACAAAAATTTGTCACCTGTTTTTCTGCTTTTATCTCACAATTAACTATTGTTGA
66 TTTTGTTTCTTACAAAAATTTGTCACCTGTTTTTCTGCTTTTATCTCACAATTAACTATTGTTGA
54490332 GATCTTGATTTCCTTATTTCCAAAAGGAAAGGAGTGAGGAGTTGTGTTAAATATCCTTCGTCTAA
1 GATCTTGATTTCCTTATTTCCAAAAGGAAAGGAGTGAGGAGTTGTGTTAAATATCCTTCGTCTAA
*
54490397 TTTTGTTTCTTACAAAAATTTGTCACCTGTTTTTTTGCTTTTATCTCACAATTAACTATTGTTGA
66 TTTTGTTTCTTACAAAAATTTGTCACCTGTTTTTCTGCTTTTATCTCACAATTAACTATTGTTGA
54490462 GATCT
1 GATCT
54490467 CTAAGGATAT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 134 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (130 bp):
GATCTTGATTTCCTTATTTCCAAAAGGAAAGGAGTGAGGAGTTGTGTTAAATATCCTTCGTCTAA
TTTTGTTTCTTACAAAAATTTGTCACCTGTTTTTCTGCTTTTATCTCACAATTAACTATTGTTGA
Found at i:54495613 original size:48 final size:44
Alignment explanation
Indices: 54495493--54495616 Score: 158
Period size: 44 Copynumber: 2.7 Consensus size: 44
54495483 TGGCTGTGCA
* *
54495493 GAATTTGCAAGTAGTTGCAGATTCTCCTTGATATTAGGAAGTTT
1 GAATTTGCAAGTAGTTGCAGATTCCCCTTGATATGAGGAAGTTT
* *
54495537 GAATCTGCAAGTAGTTGCAGATTTCCCTTGATATGAGGAAGTTAT
1 GAATTTGCAAGTAGTTGCAGATTCCCCTTGATATGAGGAAGTT-T
* *
54495582 GTAGACTTTGCAAGTTGTTGAAGATTCCCCTTGAT
1 G-A-A-TTTGCAAGTAGTTGCAGATTCCCCTTGAT
54495617 TTTTGTGAGA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
44 39 0.57
45 2 0.03
46 1 0.01
47 1 0.01
48 25 0.37
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (44 bp):
GAATTTGCAAGTAGTTGCAGATTCCCCTTGATATGAGGAAGTTT
Found at i:54498885 original size:33 final size:33
Alignment explanation
Indices: 54498843--54498971 Score: 213
Period size: 33 Copynumber: 3.9 Consensus size: 33
54498833 TCTTCTTGTC
*
54498843 ATTCCAGCTCCTGTCCAGCAACCACACACTTCA
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTTCA
*
54498876 ATTCCAGCTCCTGTCCAGCAACCACACACTTCA
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTTCA
* *
54498909 ATTCCAGCTCCTGTCCAGCAACCAAACACTCCT
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTTCA
*
54498942 ATTCCAGCTCCTGTCCAGCAATCAAACACT
1 ATTCCAGCTCCTGTCCAGCAACCAAACACT
54498972 CTCACTCAGA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 92 1.00
ACGTcount: A:0.28, C:0.41, G:0.09, T:0.22
Consensus pattern (33 bp):
ATTCCAGCTCCTGTCCAGCAACCAAACACTTCA
Found at i:54501743 original size:17 final size:18
Alignment explanation
Indices: 54501708--54501744 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
54501698 TTCAGTTTTC
54501708 AATAAATTAAATACATTT
1 AATAAATTAAATACATTT
54501726 AATAAA-TAAA-ACACTTT
1 AATAAATTAAATACA-TTT
54501743 AA
1 AA
54501745 ATTTTTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.17
17 9 0.50
18 6 0.33
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATTAAATACATTT
Found at i:54504458 original size:12 final size:12
Alignment explanation
Indices: 54504441--54504465 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54504431 TAGATGTCTA
54504441 TTATGTTAAAGG
1 TTATGTTAAAGG
54504453 TTATGTTAAAGG
1 TTATGTTAAAGG
54504465 T
1 T
54504466 GATCTGCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (12 bp):
TTATGTTAAAGG
Found at i:54504500 original size:12 final size:12
Alignment explanation
Indices: 54504483--54504508 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
54504473 CCAAATTTTA
54504483 GAAAATTCTGTT
1 GAAAATTCTGTT
54504495 GAAAATTCTGTT
1 GAAAATTCTGTT
54504507 GA
1 GA
54504509 TATATCTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (12 bp):
GAAAATTCTGTT
Found at i:54504572 original size:32 final size:31
Alignment explanation
Indices: 54504527--54504600 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 31
54504517 TTCTAAAACT
54504527 AAAATCAGAAATAGAAGGAATTTATGCAAATG
1 AAAAT-AGAAATAGAAGGAATTTATGCAAATG
* *
54504559 AAAATAGAGAATAGAAGGAATTTTTGTAAATG
1 AAAATAGA-AATAGAAGGAATTTATGCAAATG
*
54504591 AGAATAGAAA
1 AAAATAGAAA
54504601 GAAATTCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 5 0.13
32 33 0.87
ACGTcount: A:0.54, C:0.03, G:0.20, T:0.23
Consensus pattern (31 bp):
AAAATAGAAATAGAAGGAATTTATGCAAATG
Found at i:54505317 original size:162 final size:162
Alignment explanation
Indices: 54505050--54505374 Score: 623
Period size: 162 Copynumber: 2.0 Consensus size: 162
54505040 GATCCGATAT
*
54505050 CATGAACTTTAAGTTCTTCCATTAACCTTTTTAACCAAATCAGCTCACTAGTTCCTTATGCAAGG
1 CATGAACTTTAAGTTCTTCCATTAACCTTTTTAACCAAATCAGCTCACTAGTTCATTATGCAAGG
*
54505115 GCTGTAAATTCAGCTCTGTGCTACTGCAAGCTACAACTGGTTGCTTCTTGCTTCTCTAACAGAAC
66 GCTGTAAATTCAGCTCTGTGCTACTGCAAGCTACAACTGGTTGCTTCTTGCTTCGCTAACAGAAC
54505180 GTTTGGTTCACTGGAATGGAATAGGGCTGTAA
131 GTTTGGTTCACTGGAATGGAATAGGGCTGTAA
54505212 CATGAACTTTAAGTTCTTCCATTAACCTTTTTAACCAAATCAGCTCACTAGTTCATTATGCAAGG
1 CATGAACTTTAAGTTCTTCCATTAACCTTTTTAACCAAATCAGCTCACTAGTTCATTATGCAAGG
*
54505277 GCTGTAAATTCAGCTCTGTGCTACTGCAAGCTACAACTGGTTGCTTCTTGCTTCGCTAACAGAAT
66 GCTGTAAATTCAGCTCTGTGCTACTGCAAGCTACAACTGGTTGCTTCTTGCTTCGCTAACAGAAC
54505342 GTTTGGTTCACTGGAATGGAATAGGGCTGTAA
131 GTTTGGTTCACTGGAATGGAATAGGGCTGTAA
54505374 C
1 C
54505375 GGAATTGAAT
Statistics
Matches: 160, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
162 160 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (162 bp):
CATGAACTTTAAGTTCTTCCATTAACCTTTTTAACCAAATCAGCTCACTAGTTCATTATGCAAGG
GCTGTAAATTCAGCTCTGTGCTACTGCAAGCTACAACTGGTTGCTTCTTGCTTCGCTAACAGAAC
GTTTGGTTCACTGGAATGGAATAGGGCTGTAA
Found at i:54521628 original size:33 final size:33
Alignment explanation
Indices: 54521544--54521617 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
54521534 TACTCTCTGT
*
54521544 TTGGTGTGTTGGTTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
* * *
54521577 CTAGTGTGTTGGTTGGATTAGCTCTTCTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
54521610 TTGGTGTG
1 TTGGTGTG
54521618 CTGGAGGGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.14, C:0.12, G:0.34, T:0.41
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
Found at i:54523590 original size:30 final size:30
Alignment explanation
Indices: 54523554--54523614 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
54523544 TTCTGTTCTC
54523554 TCTTTGCGTTTGGTAAGTGCAATTAGCGTT
1 TCTTTGCGTTTGGTAAGTGCAATTAGCGTT
54523584 TCTTTGCGTTTGGTAAGTGCAATTAGCGTT
1 TCTTTGCGTTTGGTAAGTGCAATTAGCGTT
54523614 T
1 T
54523615 TATTGCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.13, G:0.26, T:0.44
Consensus pattern (30 bp):
TCTTTGCGTTTGGTAAGTGCAATTAGCGTT
Found at i:54524107 original size:17 final size:19
Alignment explanation
Indices: 54524079--54524117 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
54524069 TTGAACTTTA
54524079 GGGCTGTGTGGG-CCACAC
1 GGGCTGTGTGGGTCCACAC
54524097 GGGCT-TGTGGGTCCACAC
1 GGGCTGTGTGGGTCCACAC
54524115 GGG
1 GGG
54524118 TGGACCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.10, C:0.26, G:0.46, T:0.18
Consensus pattern (19 bp):
GGGCTGTGTGGGTCCACAC
Found at i:54528434 original size:39 final size:39
Alignment explanation
Indices: 54528367--54528545 Score: 234
Period size: 39 Copynumber: 4.5 Consensus size: 39
54528357 ACAAAGCATG
* * * *
54528367 CGGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
54528407 CGGGACTTTAGCCCGGAGAGAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
54528447 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
54528486 CGGGACTTAGCCCAGATATAACACTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
54528525 CGAGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
54528546 TTCTCCATTA
Statistics
Matches: 124, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 104 0.84
40 20 0.16
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:54535773 original size:39 final size:39
Alignment explanation
Indices: 54535728--54535848 Score: 224
Period size: 39 Copynumber: 3.1 Consensus size: 39
54535718 ATGCAAGACA
54535728 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
54535767 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
54535806 CTGGAAATGTGTCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
54535845 CTGG
1 CTGG
54535849 TGCTGGTAAT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.20, C:0.26, G:0.32, T:0.22
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:54540958 original size:39 final size:39
Alignment explanation
Indices: 54540913--54541033 Score: 197
Period size: 39 Copynumber: 3.1 Consensus size: 39
54540903 ATGCAAGACA
*
54540913 CTGGAAATGTATCCGGGCTAAAGTCCCGCAAGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
54540952 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
54540991 TTGGAAATGTGTCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
54541030 CTGG
1 CTGG
54541034 TGCTGGTAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:54553565 original size:40 final size:40
Alignment explanation
Indices: 54553521--54553705 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
54553511 GCTACTCGTT
* * *
54553521 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
54553561 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
54553601 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
54553641 CAAATGCCTTC--GATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
54553681 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54553706 CATCATTCGA
Statistics
Matches: 130, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
39 30 0.23
40 96 0.74
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:54558262 original size:40 final size:39
Alignment explanation
Indices: 54558218--54558343 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
54558208 GGGACTCAAC
*
54558218 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
54558258 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
54558298 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
54558338 CCGGAT
1 CCGGAT
54558344 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:54558302 original size:80 final size:80
Alignment explanation
Indices: 54558157--54558343 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
54558147 GCTACACATT
* * *
54558157 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
54558221 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
54558237 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
54558300 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
54558318 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
54558344 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:54566653 original size:40 final size:39
Alignment explanation
Indices: 54566488--54566671 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
54566478 AAATTGAATG
* * *
54566488 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
54566528 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
54566568 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
54566608 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
54566647 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
54566672 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:54566654 original size:80 final size:80
Alignment explanation
Indices: 54566532--54566680 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
54566522 GAAATTATAA
* * * *
54566532 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
54566597 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
54566612 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
54566676 GTGCG
65 GTGCG
54566681 GGTTACCAAC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:54574703 original size:40 final size:39
Alignment explanation
Indices: 54574538--54574721 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
54574528 AAATTGAATG
* * *
54574538 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
54574578 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
54574618 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
54574658 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
54574697 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
54574722 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:54574746 original size:80 final size:81
Alignment explanation
Indices: 54574578--54574766 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
54574568 GCTGGAAATT
* * * *
54574578 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
54574643 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
54574659 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
54574722 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
54574738 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
54574767 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:54597356 original size:40 final size:40
Alignment explanation
Indices: 54597292--54597491 Score: 208
Period size: 39 Copynumber: 5.1 Consensus size: 40
54597282 GCTACTCGTT
* * * ***
54597292 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
54597332 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
54597372 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
54597411 CCATTGCCTTCGGG-CTTAGCCCGAATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* **
54597450 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
54597489 CAA
1 CAA
54597492 TCATACACAT
Statistics
Matches: 141, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 96 0.68
40 45 0.32
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:54597409 original size:39 final size:39
Alignment explanation
Indices: 54597328--54597492 Score: 258
Period size: 39 Copynumber: 4.2 Consensus size: 39
54597318 TATGGTAACC
* *
54597328 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
54597368 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
54597407 CGCACCATTGCCTTCGGGCTTAGCCCGAATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
54597446 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
54597485 CGCACAAT
1 CGCACAAT
54597493 CATACACATC
Statistics
Matches: 114, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:54605837 original size:39 final size:39
Alignment explanation
Indices: 54605762--54605922 Score: 286
Period size: 39 Copynumber: 4.1 Consensus size: 39
54605752 TTATAACCCA
* *
54605762 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCG
1 CACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCG
54605802 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
54605841 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
*
54605880 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCG
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
54605919 CACA
1 CACA
54605923 TTCATACACA
Statistics
Matches: 118, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
39 103 0.87
40 15 0.13
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.22
Consensus pattern (39 bp):
CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
Found at i:54610591 original size:40 final size:40
Alignment explanation
Indices: 54610547--54610659 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
54610537 TGCTGGAAAT
* * *
54610547 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* * *
54610587 TATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* *
54610627 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGC
54610660 ACGTGATTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.05
40 57 0.92
41 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:54614433 original size:39 final size:39
Alignment explanation
Indices: 54614358--54614549 Score: 285
Period size: 39 Copynumber: 4.9 Consensus size: 39
54614348 CGTTCAAACA
* * * * * * *
54614358 CCTTCGGGACATAGCCCGGTTATGATAACCCACACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
* *
54614398 CCTTCGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
54614437 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
54614476 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
*
54614515 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
54614550 TTCATACACA
Statistics
Matches: 140, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 133 0.95
40 7 0.05
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:54617492 original size:120 final size:120
Alignment explanation
Indices: 54617276--54617495 Score: 345
Period size: 120 Copynumber: 1.8 Consensus size: 120
54617266 TTCGAATGAT
* *
54617276 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGTTAATTCCCGAAGGCATT
1 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATT
* * * *
54617341 TGTGTGAGTTACCAAATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
66 TGCGCGAATTACCAAATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
54617396 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATT
*
54617461 TGCGCGAATTACTATAA-CCGGGCT-ATGTCCCGAAG
66 TGCGCGAATTACCA-AATCCGGGCTAAT-TCCCGAAG
54617496 ACAATCAAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
119 2 0.02
120 87 0.96
121 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (120 bp):
ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATT
TGCGCGAATTACCAAATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
Found at i:54617495 original size:40 final size:40
Alignment explanation
Indices: 54617276--54617472 Score: 349
Period size: 40 Copynumber: 4.9 Consensus size: 40
54617266 TTCGAATGAT
54617276 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
*
54617316 ATCCGGGTTAATTCCCGAAGGCATTTGTGTGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
54617356 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
*
54617396 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
* * *
54617436 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTAC
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTAC
54617473 TATAACCGGG
Statistics
Matches: 150, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 150 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
Found at i:54617520 original size:80 final size:80
Alignment explanation
Indices: 54617276--54617535 Score: 258
Period size: 80 Copynumber: 3.3 Consensus size: 80
54617266 TTCGAATGAT
* * * * * *
54617276 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGTTAATTCCCGAAGGCATT
1 ATCCGGGTTAAATCCCGAAGGCATTTGCGCGAATTACCAAATCCGGGCTAATTCCCGAAGACAAT
*** *
54617341 TGTGTGAGTTACCAA
66 CAAGCGAGTTACCAA
* * * * *
54617356 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGTTAATTCCCGAAGGCAAT
1 ATCCGGGTTAAATCCCGAAGGCATTTGCGCGAATTACCAAATCCGGGCTAATTCCCGAAGACAAT
***
54617421 TGTGCGAGTTACCAA
66 CAAGCGAGTTACCAA
* *
54617436 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATAA-CCGGGCT-ATGTCCCGAAGACA
1 ATCCGGGTTAAATCCCGAAGGCATTTGCGCGAATTACCA-AATCCGGGCTAAT-TCCCGAAGACA
* *
54617499 ATCAAGCGAG-TAGCTAT
64 ATCAAGCGAGTTA-CCAA
*
54617516 ATCC-GGTTAAATTCCGAAGG
1 ATCCGGGTTAAATCCCGAAGG
54617536 TACGTGATTC
Statistics
Matches: 162, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
79 18 0.11
80 142 0.88
81 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAATCCCGAAGGCATTTGCGCGAATTACCAAATCCGGGCTAATTCCCGAAGACAAT
CAAGCGAGTTACCAA
Found at i:54617520 original size:120 final size:120
Alignment explanation
Indices: 54617274--54617535 Score: 327
Period size: 120 Copynumber: 2.2 Consensus size: 120
54617264 TATTCGAATG
* *
54617274 ATATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGTTAATTCCCGAAGGCA
1 ATATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCA
* * * * * * ***
54617339 TTTGTGTGAGTTACCAAATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACC
66 TTTGCGCGAATTACCAAATCCGGGCTAATTCCCGAAGACAATCAAGCGAGTTACC
*
54617394 AAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCA
1 ATATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCA
* *
54617459 TTTGCGCGAATTACTATAA-CCGGGCT-ATGTCCCGAAGACAATCAAGCGAG-TAGCT
66 TTTGCGCGAATTACCA-AATCCGGGCTAAT-TCCCGAAGACAATCAAGCGAGTTA-CC
54617514 ATATCC-GGTTAAATT-CCGAAGG
1 ATATCCGGGTT-AATTCCCGAAGG
54617536 TACGTGATTC
Statistics
Matches: 123, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
119 15 0.12
120 106 0.86
121 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (120 bp):
ATATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCA
TTTGCGCGAATTACCAAATCCGGGCTAATTCCCGAAGACAATCAAGCGAGTTACC
Found at i:54624059 original size:45 final size:45
Alignment explanation
Indices: 54623995--54624085 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
54623985 CCAAAACATG
* * *
54623995 TGTCACATACATCATGAACTCAGGCCATAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTAAATGAGTTCAGA
*
54624040 TGTCACATATATCATGAACTCAGACCACAACTAAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTAAATGAGTTCAGA
54624085 T
1 T
54624086 CACATAGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.25
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTAAATGAGTTCAGA
Found at i:54631980 original size:45 final size:45
Alignment explanation
Indices: 54631930--54632020 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
54631920 CCAAAACATG
*
54631930 TGTCACATACATCATGAACTCAGACCATAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
* * *
54631975 TGTCACATATATCATGATCTCAGGCCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
54632020 T
1 T
54632021 CACATAGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.26
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
Done.